Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 29 of 75
Found at i:8657549 original size:44 final size:44
Alignment explanation
Indices: 8657442--8657540 Score: 135
Period size: 44 Copynumber: 2.2 Consensus size: 44
8657432 TACTATGTGA
* * * *
8657442 ACCGAGTACCATTGACTACAAAGGTGGTTGCTATGTGTTGATTCC
1 ACCGAGTATCATTGATTA-TAAGGTGGTTGCTATGTGTCGATTCC
*
8657487 ACTGAGTATCATTGATTATAAGGTGGTTGCTATGTGTCGATTCC
1 ACCGAGTATCATTGATTATAAGGTGGTTGCTATGTGTCGATTCC
*
8657531 ACCGTGTATC
1 ACCGAGTATC
8657541 TGTTATTATT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 32 0.68
45 15 0.32
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (44 bp):
ACCGAGTATCATTGATTATAAGGTGGTTGCTATGTGTCGATTCC
Found at i:8670279 original size:21 final size:23
Alignment explanation
Indices: 8670253--8670297 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
8670243 ATCACCAGAC
8670253 ACGGCGATG-C-CAGTGGTTACG
1 ACGGCGATGTCTCAGTGGTTACG
*
8670274 ACGGCGGTGTCTCAGTGGTTACG
1 ACGGCGATGTCTCAGTGGTTACG
8670297 A
1 A
8670298 AGGCAGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.38
22 1 0.05
23 12 0.57
ACGTcount: A:0.18, C:0.22, G:0.38, T:0.22
Consensus pattern (23 bp):
ACGGCGATGTCTCAGTGGTTACG
Found at i:8670291 original size:23 final size:23
Alignment explanation
Indices: 8670263--8670306 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
8670253 ACGGCGATGC
* *
8670263 CAGTGGTTACGACGGCGGTGTCT
1 CAGTGGTTACGAAGGCAGTGTCT
8670286 CAGTGGTTACGAAGGCAGTGT
1 CAGTGGTTACGAAGGCAGTGT
8670307 TCCGATGGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.18, C:0.18, G:0.39, T:0.25
Consensus pattern (23 bp):
CAGTGGTTACGAAGGCAGTGTCT
Found at i:8670590 original size:5 final size:6
Alignment explanation
Indices: 8670545--8670596 Score: 53
Period size: 5 Copynumber: 9.7 Consensus size: 6
8670535 CTTAATCACT
*
8670545 TTAATA TTAA-A TTAATA -TAATA TT--TA TAAATA TT-ATA TTAAT-
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA
8670587 TTAATA TTAA
1 TTAATA TTAA
8670597 AGTGATTAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
4 3 0.08
5 20 0.53
6 15 0.39
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TTAATA
Found at i:8672508 original size:20 final size:21
Alignment explanation
Indices: 8672485--8672524 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
8672475 AATTTTAAAA
8672485 TATTTTTAAAAT-ACTTTTTT
1 TATTTTTAAAATAACTTTTTT
8672505 TATTTTTAAAATAACTTTTT
1 TATTTTTAAAATAACTTTTT
8672525 GGTGTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTTTAAAATAACTTTTTT
Found at i:8672828 original size:46 final size:45
Alignment explanation
Indices: 8672748--8672886 Score: 208
Period size: 46 Copynumber: 3.0 Consensus size: 45
8672738 CATGGCAAAG
*
8672748 TGTG-GAATGTAGGTATGGTATTTTAGTAAAGAAAACCATACTGAGT
1 TGTGAGAA-GTAGGTATGGTATTTCAGT-AAGAAAACCATACTGAGT
*
8672794 TGTGAGAAGTAGGTATGATATTTCAGTAACGAAAACCATACTGAGT
1 TGTGAGAAGTAGGTATGGTATTTCAGTAA-GAAAACCATACTGAGT
*
8672840 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAGAAGTAGGTATGGTATTTCAGT-AAGAAAACCATACTGAGT
8672886 T
1 T
8672887 ATAGCATTGT
Statistics
Matches: 86, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
45 2 0.02
46 79 0.92
47 5 0.06
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.30
Consensus pattern (45 bp):
TGTGAGAAGTAGGTATGGTATTTCAGTAAGAAAACCATACTGAGT
Found at i:8678122 original size:36 final size:36
Alignment explanation
Indices: 8678077--8678164 Score: 108
Period size: 36 Copynumber: 2.4 Consensus size: 36
8678067 TATCCAACCC
* **
8678077 TTTTAAGGTTTTCTTAGA-TGGGTTTAT-TTCAATCTT
1 TTTTAAGGTTATCTTAGACAAGGTTTATCTT-AAT-TT
*
8678113 TTTTAAGGTTGTCTTAGACAAGGTTTATCTTAATTT
1 TTTTAAGGTTATCTTAGACAAGGTTTATCTTAATTT
8678149 TTTTAAGGTTATCTTA
1 TTTTAAGGTTATCTTA
8678165 AACGTGTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
36 34 0.74
37 10 0.22
38 2 0.04
ACGTcount: A:0.23, C:0.08, G:0.16, T:0.53
Consensus pattern (36 bp):
TTTTAAGGTTATCTTAGACAAGGTTTATCTTAATTT
Found at i:8678277 original size:36 final size:36
Alignment explanation
Indices: 8678186--8678278 Score: 98
Period size: 36 Copynumber: 2.6 Consensus size: 36
8678176 TTTAACTCTT
* * * *
8678186 TTTTTTAAGGTTGTCTTAAATAATGTCTAGTCTAAC
1 TTTTTTAAGATTGTCTTAGACAATATCTAGTCTAAC
* * *
8678222 CTTTTTAGGATTGTTTTAGACAATATCTA-TCTCAAC
1 TTTTTTAAGATTGTCTTAGACAATATCTAGTCT-AAC
*
8678258 TTTTTTAAGATTGCCTTAGAC
1 TTTTTTAAGATTGTCTTAGAC
8678279 GAGGTTATCT
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
35 3 0.07
36 42 0.93
ACGTcount: A:0.27, C:0.14, G:0.13, T:0.46
Consensus pattern (36 bp):
TTTTTTAAGATTGTCTTAGACAATATCTAGTCTAAC
Found at i:8684338 original size:12 final size:12
Alignment explanation
Indices: 8684321--8684345 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8684311 GTATCTATTG
8684321 TTGTGAAGAAAT
1 TTGTGAAGAAAT
8684333 TTGTGAAGAAAT
1 TTGTGAAGAAAT
8684345 T
1 T
8684346 ATGCAAAGAG
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:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (12 bp):
TTGTGAAGAAAT
Found at i:8685337 original size:5 final size:5
Alignment explanation
Indices: 8685295--8685335 Score: 64
Period size: 5 Copynumber: 8.2 Consensus size: 5
8685285 TAAGCGATTG
* *
8685295 GGTGC AGTGC GGTGC GGTGC GGTGC GGTGC GGTGC GTTGC G
1 GGTGC GGTGC GGTGC GGTGC GGTGC GGTGC GGTGC GGTGC G
8685336 TTTAACTTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.02, C:0.20, G:0.56, T:0.22
Consensus pattern (5 bp):
GGTGC
Found at i:8691059 original size:12 final size:13
Alignment explanation
Indices: 8691034--8691070 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
8691024 AAGATAATGG
8691034 AAAA-TAAAGAAA
1 AAAATTAAAGAAA
8691046 AAAATTAAAGAAA
1 AAAATTAAAGAAA
8691059 AAAATTAAAGAA
1 AAAATTAAAGAA
8691071 CATAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 4 0.17
13 20 0.83
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (13 bp):
AAAATTAAAGAAA
Found at i:8691246 original size:31 final size:29
Alignment explanation
Indices: 8691211--8691287 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
8691201 TTAATAGCTT
*
8691211 AGTGACTAAAATGTTACAACACGATAACATA
1 AGTGACTAAAATGTAACAACAC-A-AACATA
* * ***
8691242 AGTGACAAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACAACACAAACATA
8691271 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
8691288 CTAAAGTAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 21 0.55
30 1 0.03
31 16 0.42
ACGTcount: A:0.49, C:0.16, G:0.13, T:0.22
Consensus pattern (29 bp):
AGTGACTAAAATGTAACAACACAAACATA
Found at i:8696666 original size:27 final size:27
Alignment explanation
Indices: 8696635--8696690 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
8696625 TAGAGAGGAA
* *
8696635 AGAGAGGGTGGTGAATGAGAAGTAGAT
1 AGAGAGGATAGTGAATGAGAAGTAGAT
* *
8696662 AGAGAGGATAGTGGATGAGAAGTGGAT
1 AGAGAGGATAGTGAATGAGAAGTAGAT
8696689 AG
1 AG
8696691 GGAAAGATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.45, T:0.18
Consensus pattern (27 bp):
AGAGAGGATAGTGAATGAGAAGTAGAT
Found at i:8696911 original size:42 final size:42
Alignment explanation
Indices: 8696863--8696996 Score: 171
Period size: 42 Copynumber: 3.2 Consensus size: 42
8696853 TTGCTTCCAT
* * * *
8696863 GTTGCTTCTTTTTTTGTTTGAACCTGAATGTTGCTTTCTCAA
1 GTTGCTTCCTTTTTTGTTTGAACATGGATGTTGCTTTCCCAA
* * *
8696905 GTTGCTTCCTTTTTTGTATGAACTTGGTTGTTTGCTTTCCCAA
1 GTTGCTTCCTTTTTTGTTTGAACATGGATG-TTGCTTTCCCAA
*
8696948 GTTGCTTCCTTTTTTGTTT-ACACATGGATGTTGCTTTCCCAT
1 GTTGCTTCCTTTTTTGTTTGA-ACATGGATGTTGCTTTCCCAA
8696990 GTTGCTT
1 GTTGCTT
8696997 TACCATGTTG
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
42 44 0.55
43 36 0.45
ACGTcount: A:0.12, C:0.19, G:0.18, T:0.51
Consensus pattern (42 bp):
GTTGCTTCCTTTTTTGTTTGAACATGGATGTTGCTTTCCCAA
Found at i:8696993 original size:13 final size:13
Alignment explanation
Indices: 8696975--8697009 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
8696965 TTACACATGG
*
8696975 ATGTTGCTTTCCC
1 ATGTTGCTTTACC
8696988 ATGTTGCTTTACC
1 ATGTTGCTTTACC
8697001 ATGTTGCTT
1 ATGTTGCTT
8697010 CCTTTTTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.11, C:0.23, G:0.17, T:0.49
Consensus pattern (13 bp):
ATGTTGCTTTACC
Found at i:8703770 original size:3 final size:3
Alignment explanation
Indices: 8703764--8703801 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
8703754 GATTGGCTAT
*
8703764 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATA ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
8703802 TGTAACACCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.37, C:0.00, G:0.29, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:8706137 original size:41 final size:41
Alignment explanation
Indices: 8706078--8706165 Score: 149
Period size: 41 Copynumber: 2.1 Consensus size: 41
8706068 AGTAAAGTTA
*
8706078 GAAACCTTCTAATAATGTTAAAGAAAGTTGAAAAATACTTT
1 GAAACCTTCTAATAATGTTAAAAAAAGTTGAAAAATACTTT
* *
8706119 GAAACCTTTTAATCATGTTAAAAAAAGTTGAAAAATACTTT
1 GAAACCTTCTAATAATGTTAAAAAAAGTTGAAAAATACTTT
8706160 GAAACC
1 GAAACC
8706166 ATGTTTTAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (41 bp):
GAAACCTTCTAATAATGTTAAAAAAAGTTGAAAAATACTTT
Found at i:8710265 original size:67 final size:68
Alignment explanation
Indices: 8710123--8710316 Score: 194
Period size: 67 Copynumber: 2.9 Consensus size: 68
8710113 CATGAGAAAG
* * * * *
8710123 CATGGCATCATAATGTGTAAGACCATAGCTGGGTTATGAAAATATATGAAGTCCACCAATACAGT
1 CATGACATCATAATGTGTAAGACCATAGCTGGGCTATGACAACATATGAAGTCCACCAATACAAT
8710188 AAA
66 AAA
* * * ***
8710191 CATGACATCATAATATGTAAGACCATAGCTGGG-TATGACAACATATGAAGTTCGCTGGGT-CAA
1 CATGACATCATAATGTGTAAGACCATAGCTGGGCTATGACAACATATGAAGTCCAC-CAATACAA
8710254 TAAA
65 TAAA
** * * * * * *
8710258 CATGACATCATTTTGTGTAAGAGCATAACTGGGCTATGGCAGCATATTAACTCCACCAA
1 CATGACATCATAATGTGTAAGACCATAGCTGGGCTATGACAACATATGAAGTCCACCAA
8710317 GACAGTGAAC
Statistics
Matches: 100, Mismatches: 24, Indels: 5
0.78 0.19 0.04
Matches are distributed among these distances:
67 52 0.52
68 48 0.48
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.26
Consensus pattern (68 bp):
CATGACATCATAATGTGTAAGACCATAGCTGGGCTATGACAACATATGAAGTCCACCAATACAAT
AAA
Found at i:8721923 original size:32 final size:32
Alignment explanation
Indices: 8721882--8721945 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
8721872 ATAACCCGCA
* *
8721882 AGTTCTAGAAAATTGCGGATCTCAGATACGTT
1 AGTTCTAGAAAACTGCAGATCTCAGATACGTT
*
8721914 AGTTCTAGAAAGCTGCAGATCTCAGATACGTT
1 AGTTCTAGAAAACTGCAGATCTCAGATACGTT
8721946 CTTAGGCTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (32 bp):
AGTTCTAGAAAACTGCAGATCTCAGATACGTT
Found at i:8727334 original size:759 final size:760
Alignment explanation
Indices: 8726380--8727898 Score: 3031
Period size: 759 Copynumber: 2.0 Consensus size: 760
8726370 GTATCACTGC
8726380 GATTTTGGAAGAACAATTTTGGCAGAACAAAGAAAAAGAAAAGAAATTTTGGATGCAAAAAAATC
1 GATTTTGGAAGAACAATTTTGGCAGAACAAAGAAAAAGAAAAGAAATTTTGGATGCAAAAAAATC
8726445 ACATCGAAAAAGAACGTCAGAAACTGGAGGAGGGAAAAATTTTTGAGAAAATAGAATAAAATGAA
66 ACATCGAAAAAGAACGTCAGAAACTGGAGGAGGGAAAAATTTTTGAGAAAATAGAATAAAATGAA
8726510 ATAAAATAAAAAGATTAAGTCAAATCTCACCACATCCACATCCCTTAACCATCCAACTAACTCAG
131 ATAAAATAAAAAGATTAAGTCAAATCTCACCACATCCACATCCCTTAACCATCCAACTAACTCAG
8726575 AATCTCACTACCATCGAAAAATAACAGAATTTGTCAAAAGTAAGAATTGAACCTAAGACCTCACA
196 AATCTCACTACCATCGAAAAATAACAGAATTTGTCAAAAGTAAGAATTGAACCTAAGACCTCACA
8726640 CGCACACCCAAAACATTTAACCATTGAAGTAGATACTTGTTTGTGTTAAAATTTACAAAAATAGA
261 CGCACACCCAAAACATTTAACCATTGAAGTAGATACTTGTTTGTGTTAAAATTTACAAAAATAGA
8726705 AATAAATTATTCAGGGCGTTACAAAGATATTCATAACCATATATATATTTACACAAAATATAATT
326 AATAAATTATTCAGGGCGTTACAAAGATATTCATAACCATATATATATTTACACAAAATATAATT
8726770 CAAAAATTAAAAGATAATAACTAAGAAGTAAAATATTAATAAAAACCATTAGTCGATTCTAATAG
391 CAAAAATTAAAAGATAATAACTAAGAAGTAAAATATTAATAAAAACCATTAGTCGATTCTAATAG
8726835 TTGAAAATTTAACCATTCATAAAGTGAAAAAAAAATTACAGTTTGATATTTTTTTTCAATTTTAA
456 TTGAAAATTTAACCATTCATAAAGTGAAAAAAAAATTACAGTTTGATATTTTTTTTCAATTTTAA
8726900 ATTAAAACTTCAAGTTGAATCTCTAATATTTTAATTATTTATAAGGTGATTTTAAATAATATACT
521 ATTAAAACTTCAAGTTGAATCTCTAATATTTTAATTATTTATAAGGTGATTTTAAATAATATACT
8726965 AACTTTCCTATAATTTAAAATATTTAAATATCATAGTAAAACATATTAAAATAATATTATATATT
586 AACTTTCCTATAATTTAAAATATTTAAATATCATAGTAAAACATATTAAAATAATATTATATATT
8727030 ATTTAAAAATTTAATATATAATTATAAAATTATTTAAAGTAATTATTTTCTCCACCAACATCAAA
651 ATTTAAAAATTTAATATATAATTATAAAATTATTTAAAGTAATTATTTTCTCCACCAACATCAAA
8727095 ATAATATAACATTTTAAATATTATTAAAATCATT-ATCTTAATCA
716 ATAATATAACATTTTAAATATTATTAAAATCATTAATCTTAATCA
8727139 GATTTTGGAAGAACAATTTTGGCAGAACAAAGAAAAAGAAAAGAAATTTTGGATGCAAAAAAATC
1 GATTTTGGAAGAACAATTTTGGCAGAACAAAGAAAAAGAAAAGAAATTTTGGATGCAAAAAAATC
8727204 ACATCGAAAAAGAACGTCAGAAACTGGAGGAGGGAAAAATTTTTGAGAAAATAGAATAAAATGAA
66 ACATCGAAAAAGAACGTCAGAAACTGGAGGAGGGAAAAATTTTTGAGAAAATAGAATAAAATGAA
8727269 ATAAAATAAAAAGATTAAGTCAAATCTCACCACATCCACATCCCTTAACCATCCAACTAACTCAG
131 ATAAAATAAAAAGATTAAGTCAAATCTCACCACATCCACATCCCTTAACCATCCAACTAACTCAG
8727334 AATCTCACTACCATCGAAAAATAACAGAATTTGTCAAAAGTAAGAATTGAACCTAAGACCTCACA
196 AATCTCACTACCATCGAAAAATAACAGAATTTGTCAAAAGTAAGAATTGAACCTAAGACCTCACA
8727399 CGCACACCCAAAACATTTAACCATTGAAGTAGATACTTGTTTGTGTTAAAATTTACAAAAATAGA
261 CGCACACCCAAAACATTTAACCATTGAAGTAGATACTTGTTTGTGTTAAAATTTACAAAAATAGA
8727464 AATAAATTATTCAGGGCGTTACAAAGATATTCATAACCATATATATATTTACACAAAATATAATT
326 AATAAATTATTCAGGGCGTTACAAAGATATTCATAACCATATATATATTTACACAAAATATAATT
8727529 CAAAAATTAAAAGATAATAACTAAGAAGTAAAATATTAATAAAAACCATTAGTCGATTCTAATAG
391 CAAAAATTAAAAGATAATAACTAAGAAGTAAAATATTAATAAAAACCATTAGTCGATTCTAATAG
8727594 TTGAAAATTTAACCATTCATAAAGTGAAAAAAAAATTACAGTTTGATATTTTTTTTCAATTTTAA
456 TTGAAAATTTAACCATTCATAAAGTGAAAAAAAAATTACAGTTTGATATTTTTTTTCAATTTTAA
8727659 ATTAAAACTTCAAGTTGAATCTCTAATATTTTAATTATTTATAAGGTGATTTTAAATAATATACT
521 ATTAAAACTTCAAGTTGAATCTCTAATATTTTAATTATTTATAAGGTGATTTTAAATAATATACT
8727724 AACTTTCCTATAATTTAAAATATTTAAATATCATAGTAAAACATATTAAAATAATATTATATATT
586 AACTTTCCTATAATTTAAAATATTTAAATATCATAGTAAAACATATTAAAATAATATTATATATT
8727789 ATTTAAAAATTTAATATATAATTATAAAATTATTTAAAGTAATTATTTTCTCCACCAACATCAAA
651 ATTTAAAAATTTAATATATAATTATAAAATTATTTAAAGTAATTATTTTCTCCACCAACATCAAA
8727854 ATAATATAACATTTTAAATATTATTAAAATCATTAATCTTAATCA
716 ATAATATAACATTTTAAATATTATTAAAATCATTAATCTTAATCA
8727899 CGTGCATCAA
Statistics
Matches: 759, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
759 749 0.99
760 10 0.01
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.31
Consensus pattern (760 bp):
GATTTTGGAAGAACAATTTTGGCAGAACAAAGAAAAAGAAAAGAAATTTTGGATGCAAAAAAATC
ACATCGAAAAAGAACGTCAGAAACTGGAGGAGGGAAAAATTTTTGAGAAAATAGAATAAAATGAA
ATAAAATAAAAAGATTAAGTCAAATCTCACCACATCCACATCCCTTAACCATCCAACTAACTCAG
AATCTCACTACCATCGAAAAATAACAGAATTTGTCAAAAGTAAGAATTGAACCTAAGACCTCACA
CGCACACCCAAAACATTTAACCATTGAAGTAGATACTTGTTTGTGTTAAAATTTACAAAAATAGA
AATAAATTATTCAGGGCGTTACAAAGATATTCATAACCATATATATATTTACACAAAATATAATT
CAAAAATTAAAAGATAATAACTAAGAAGTAAAATATTAATAAAAACCATTAGTCGATTCTAATAG
TTGAAAATTTAACCATTCATAAAGTGAAAAAAAAATTACAGTTTGATATTTTTTTTCAATTTTAA
ATTAAAACTTCAAGTTGAATCTCTAATATTTTAATTATTTATAAGGTGATTTTAAATAATATACT
AACTTTCCTATAATTTAAAATATTTAAATATCATAGTAAAACATATTAAAATAATATTATATATT
ATTTAAAAATTTAATATATAATTATAAAATTATTTAAAGTAATTATTTTCTCCACCAACATCAAA
ATAATATAACATTTTAAATATTATTAAAATCATTAATCTTAATCA
Found at i:8730984 original size:14 final size:14
Alignment explanation
Indices: 8730961--8730991 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8730951 TTAAGTTTTG
*
8730961 AATTATTCGAATCA
1 AATTAATCGAATCA
8730975 AATTAATCGAATCA
1 AATTAATCGAATCA
8730989 AAT
1 AAT
8730992 CAAATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.32
Consensus pattern (14 bp):
AATTAATCGAATCA
Found at i:8733396 original size:12 final size:12
Alignment explanation
Indices: 8733379--8733403 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8733369 TTACATTGAC
8733379 CATCCTATTTTA
1 CATCCTATTTTA
8733391 CATCCTATTTTA
1 CATCCTATTTTA
8733403 C
1 C
8733404 GTGAAACAAA
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:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (12 bp):
CATCCTATTTTA
Found at i:8735406 original size:49 final size:46
Alignment explanation
Indices: 8735349--8735457 Score: 128
Period size: 49 Copynumber: 2.3 Consensus size: 46
8735339 TCCGAATAAG
* **
8735349 AAAAGGCAAAACTACGCCATTTTGATAAATGTTTACCTTTTCTAAAGTT
1 AAAAGGCAAAACTACACCATTTTGATAAATGTTTA-CTCAT-T-AAGTT
*** *
8735398 AAAAGGCAAAACTACATTGTTTTGATAACTGTTTACTCATTAAGTT
1 AAAAGGCAAAACTACACCATTTTGATAAATGTTTACTCATTAAGTT
8735444 AAAAGGCAAAACTA
1 AAAAGGCAAAACTA
8735458 TTATATTGTT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
46 19 0.36
47 1 0.02
48 3 0.06
49 30 0.57
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (46 bp):
AAAAGGCAAAACTACACCATTTTGATAAATGTTTACTCATTAAGTT
Found at i:8736168 original size:55 final size:55
Alignment explanation
Indices: 8736102--8736211 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
8736092 ATTGGCAAAG
8736102 ATAGTCTTCCACTGATCCTGTTTGATTCAACTTCGCTAATTCCCCCAAAGGATTC
1 ATAGTCTTCCACTGATCCTGTTTGATTCAACTTCGCTAATTCCCCCAAAGGATTC
8736157 ATAGTCTTCCACTGATCCTGTTTGATTCAACTTCGCTAATTCCCCCAAAGGATTC
1 ATAGTCTTCCACTGATCCTGTTTGATTCAACTTCGCTAATTCCCCCAAAGGATTC
8736212 TTGCACAACA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.35
Consensus pattern (55 bp):
ATAGTCTTCCACTGATCCTGTTTGATTCAACTTCGCTAATTCCCCCAAAGGATTC
Found at i:8749758 original size:23 final size:23
Alignment explanation
Indices: 8749714--8749759 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
8749704 GAATAAATAA
* *
8749714 TATTGAATTATACTTTTTATTTT
1 TATTAAATTATACTTTTAATTTT
8749737 TATTAAATTATA-TTTATAATTTT
1 TATTAAATTATACTTT-TAATTTT
8749760 AAATTAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (23 bp):
TATTAAATTATACTTTTAATTTT
Found at i:8752355 original size:15 final size:15
Alignment explanation
Indices: 8752335--8752371 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
8752325 AGAGCGATGT
8752335 TGCGACGAGGAGCCA
1 TGCGACGAGGAGCCA
8752350 TGCGACGAGGAGCCA
1 TGCGACGAGGAGCCA
8752365 TGCGACG
1 TGCGACG
8752372 TCACAAAGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.24, C:0.27, G:0.41, T:0.08
Consensus pattern (15 bp):
TGCGACGAGGAGCCA
Found at i:8760282 original size:18 final size:18
Alignment explanation
Indices: 8760259--8760294 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
8760249 AAACCCTAGA
8760259 ATTCTTT-TGAATCTGATT
1 ATTCTTTGTG-ATCTGATT
8760277 ATTCTTTGTGATCTGATT
1 ATTCTTTGTGATCTGATT
8760295 TTTTTAATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.19, C:0.11, G:0.14, T:0.56
Consensus pattern (18 bp):
ATTCTTTGTGATCTGATT
Found at i:8768206 original size:22 final size:22
Alignment explanation
Indices: 8768164--8768206 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
8768154 CATCATGTAT
*
8768164 TGATTTATTTGTTATATTATTG
1 TGATTTATTTGTTATACTATTG
8768186 TGATTTATTTGGTTAT-CTATT
1 TGATTTATTT-GTTATACTATT
8768207 TTGAATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.21, C:0.02, G:0.14, T:0.63
Consensus pattern (22 bp):
TGATTTATTTGTTATACTATTG
Found at i:8775257 original size:24 final size:24
Alignment explanation
Indices: 8775225--8775273 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
8775215 ATGCTGATTG
8775225 ATAAGACGTATCATCAAAAGAAAA
1 ATAAGACGTATCATCAAAAGAAAA
8775249 ATAAGACGTATCATCAAAAGAAAA
1 ATAAGACGTATCATCAAAAGAAAA
8775273 A
1 A
8775274 GTTTCTTCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.12, T:0.16
Consensus pattern (24 bp):
ATAAGACGTATCATCAAAAGAAAA
Found at i:8782112 original size:17 final size:17
Alignment explanation
Indices: 8782090--8782128 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
8782080 GTGTGACTTA
8782090 GCCGTGTGCGACACACG
1 GCCGTGTGCGACACACG
8782107 GCCGTGTGCGACACACG
1 GCCGTGTGCGACACACG
8782124 GCCGT
1 GCCGT
8782129 TTGTCATTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.15, C:0.36, G:0.36, T:0.13
Consensus pattern (17 bp):
GCCGTGTGCGACACACG
Found at i:8786209 original size:40 final size:40
Alignment explanation
Indices: 8786164--8786541 Score: 381
Period size: 40 Copynumber: 9.5 Consensus size: 40
8786154 TTATACTTTT
*
8786164 TATTTGGCGTGTTTCGGTTGGATCAACTCTTATGAGCTTC
1 TATTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTC
* * * *
8786204 TATTTGGCATGTTACAGTTGGATCAGCTCTTATGAGCTTT
1 TATTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTC
* * *
8786244 TGTTTGGTGTGTTTTGGTTGGATCAGCTCTTATGAGCTTC
1 TATTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTC
* * *
8786284 -AGTTTGGTGTGTTACGGTTGG-TCAGCTCTTATGATCTTC
1 TA-TTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTC
* * * ** *
8786323 TGTTTGGCGTGTTACGGTTGGATTAGCTCTTATGATTTTT
1 TATTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTC
* *
8786363 TGTTTGGCGTGTTAT-GGTTGGATTAGCTCTTATGAGCTTC
1 TATTTGGCGTGTT-TCGGTTGGATCAGCTCTTATGAGCTTC
* * *
8786403 TGTTTGGCATGTTAT-GGTTGGATCAGCTCTTATGAGCTTT
1 TATTTGGCGTGTT-TCGGTTGGATCAGCTCTTATGAGCTTC
* *
8786443 TATTTGGCGTGTTACAGTTGGATCAGCTCTTATGAGCTTC
1 TATTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTC
* ** * ** *
8786483 TGTCAGGTGTACTTCAGG-TGGATCAGCTCTTATGAGTTTC
1 TATTTGGCGTGTTTC-GGTTGGATCAGCTCTTATGAGCTTC
* *
8786523 TATCTGGTGTG-TTCGGTTG
1 TATTTGGCGTGTTTCGGTTG
8786542 ATTTGATGAT
Statistics
Matches: 286, Mismatches: 45, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
38 2 0.01
39 40 0.14
40 243 0.85
41 1 0.00
ACGTcount: A:0.14, C:0.14, G:0.28, T:0.44
Consensus pattern (40 bp):
TATTTGGCGTGTTTCGGTTGGATCAGCTCTTATGAGCTTC
Found at i:8786455 original size:159 final size:160
Alignment explanation
Indices: 8786166--8786485 Score: 446
Period size: 159 Copynumber: 2.0 Consensus size: 160
8786156 ATACTTTTTA
*
8786166 TTTGGCGTGTTTCGGTTGGATCAACTCTTATGAGCTTCTATTTGGCATGTTACAGTTGGATCAGC
1 TTTGGCGTGTTACGGTTGGATCAACTCTTATGAGCTTCTATTTGGCATGTTACAGTTGGATCAGC
* ** * *
8786231 TCTTATGAGCTTTTGTTTGGTGTGTTTTGGTTGGATCAGCTCTTATGAGCTTCAGTTTGGTGTGT
66 TCTTATGAGCTTCTGTTTGGCATGTTATGGTTGGATCAGCTCTTATGAGCTTCAGTTTGGCGTGT
* *
8786296 TACGGTTGG-TCAGCTCTTATGATCTTCTG
131 TACAGTTGGATCAGCTCTTATGAGCTTCTG
* * ** * * * ** *
8786325 TTTGGCGTGTTACGGTTGGATTAGCTCTTATGATTTTTTGTTTGGCGTGTTATGGTTGGATTAGC
1 TTTGGCGTGTTACGGTTGGATCAACTCTTATGAGCTTCTATTTGGCATGTTACAGTTGGATCAGC
*
8786390 TCTTATGAGCTTCTGTTTGGCATGTTATGGTTGGATCAGCTCTTATGAGCTTTTA-TTTGGCGTG
66 TCTTATGAGCTTCTGTTTGGCATGTTATGGTTGGATCAGCTCTTATGAGC-TTCAGTTTGGCGTG
8786454 TTACAGTTGGATCAGCTCTTATGAGCTTCTG
130 TTACAGTTGGATCAGCTCTTATGAGCTTCTG
8786485 T
1 T
8786486 CAGGTGTACT
Statistics
Matches: 140, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
159 117 0.84
160 23 0.16
ACGTcount: A:0.14, C:0.14, G:0.27, T:0.45
Consensus pattern (160 bp):
TTTGGCGTGTTACGGTTGGATCAACTCTTATGAGCTTCTATTTGGCATGTTACAGTTGGATCAGC
TCTTATGAGCTTCTGTTTGGCATGTTATGGTTGGATCAGCTCTTATGAGCTTCAGTTTGGCGTGT
TACAGTTGGATCAGCTCTTATGAGCTTCTG
Found at i:8787248 original size:20 final size:20
Alignment explanation
Indices: 8787199--8787254 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
8787189 AGTTTATGCT
* * *
8787199 AAGTAAATGAAATGGAAAGT
1 AAGTAAATGGAATGGTAAGA
*
8787219 AAGTAAATGGACTGGTAAGA
1 AAGTAAATGGAATGGTAAGA
*
8787239 AAGTAAATGGAGTGGT
1 AAGTAAATGGAATGGT
8787255 TCATAATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.46, C:0.02, G:0.30, T:0.21
Consensus pattern (20 bp):
AAGTAAATGGAATGGTAAGA
Found at i:8789835 original size:12 final size:12
Alignment explanation
Indices: 8789807--8789847 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
8789797 GGCACATGGT
8789807 CGTG-CCTCAGCC
1 CGTGTCCTCA-CC
8789819 CGTGTCCTCACC
1 CGTGTCCTCACC
*
8789831 TGTGTCCTCACC
1 CGTGTCCTCACC
8789843 CGTGT
1 CGTGT
8789848 AACTCACTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 21 0.81
13 5 0.19
ACGTcount: A:0.07, C:0.44, G:0.22, T:0.27
Consensus pattern (12 bp):
CGTGTCCTCACC
Found at i:8789901 original size:54 final size:54
Alignment explanation
Indices: 8789843--8789965 Score: 158
Period size: 54 Copynumber: 2.3 Consensus size: 54
8789833 TGTCCTCACC
* * * * * *
8789843 CGTGTAACTCACTGAGTTG-CCCTACACGCTCGTGTGCCAGGCTGTGTGTTAGGT
1 CGTGTAACTCACTGAGTTGTCAC-ACACGCCCATGTGCCAAGCCGTGTGCTAGGT
* *
8789897 CGTGTAACTCTCTGAGTTGTCACAGACGCCCATGTGCCAAGCCGTGTGCTAGGT
1 CGTGTAACTCACTGAGTTGTCACACACGCCCATGTGCCAAGCCGTGTGCTAGGT
8789951 CGTGTAACTCACTGA
1 CGTGTAACTCACTGA
8789966 TTTAAAACAC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 57 0.97
55 2 0.03
ACGTcount: A:0.18, C:0.27, G:0.28, T:0.28
Consensus pattern (54 bp):
CGTGTAACTCACTGAGTTGTCACACACGCCCATGTGCCAAGCCGTGTGCTAGGT
Found at i:8803486 original size:18 final size:20
Alignment explanation
Indices: 8803463--8803512 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 20
8803453 AAAGGAAGAT
8803463 AGAAAAAGA-AATCAAAAA-
1 AGAAAAAGAGAATCAAAAAG
*
8803481 AGAAAAAGAGAATGAAAAAG
1 AGAAAAAGAGAATCAAAAAG
8803501 AGCAAAAAGAGA
1 AG-AAAAAGAGA
8803513 TTGAGATTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 2 0.07
21 9 0.32
ACGTcount: A:0.72, C:0.04, G:0.20, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAGAATCAAAAAG
Found at i:8821325 original size:19 final size:19
Alignment explanation
Indices: 8821294--8821331 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
8821284 TTTCAATTGA
*
8821294 AAGAAAAGATAAAAGAGTG
1 AAGAAAAGATAAAACAGTG
8821313 AAGAAAA-ATTAAAACAGTG
1 AAGAAAAGA-TAAAACAGTG
8821332 GATGAAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.63, C:0.03, G:0.21, T:0.13
Consensus pattern (19 bp):
AAGAAAAGATAAAACAGTG
Found at i:8823274 original size:28 final size:27
Alignment explanation
Indices: 8823234--8823326 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
8823224 ACTTGGCTTT
* * *
8823234 GACTTGCGAACCCTCAATTTTCCAAACA
1 GACTGGCGAACCCT-AAGTTGCCAAACA
* *
8823262 GACTGGCGAACCCTAGGTTGCCAAATA
1 GACTGGCGAACCCTAAGTTGCCAAACA
* * *
8823289 GACTGGTGAACCCTAGGTCGCCAAACA
1 GACTGGCGAACCCTAAGTTGCCAAACA
*
8823316 GACTAGCGAAC
1 GACTGGCGAAC
8823327 ACAACTTTCA
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
27 42 0.76
28 13 0.24
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.18
Consensus pattern (27 bp):
GACTGGCGAACCCTAAGTTGCCAAACA
Found at i:8823293 original size:27 final size:27
Alignment explanation
Indices: 8823255--8823326 Score: 108
Period size: 27 Copynumber: 2.7 Consensus size: 27
8823245 CCTCAATTTT
*
8823255 CCAAACAGACTGGCGAACCCTAGGTTG
1 CCAAACAGACTGGCGAACCCTAGGTCG
* *
8823282 CCAAATAGACTGGTGAACCCTAGGTCG
1 CCAAACAGACTGGCGAACCCTAGGTCG
*
8823309 CCAAACAGACTAGCGAAC
1 CCAAACAGACTGGCGAAC
8823327 ACAACTTTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.33, C:0.29, G:0.24, T:0.14
Consensus pattern (27 bp):
CCAAACAGACTGGCGAACCCTAGGTCG
Found at i:8831556 original size:21 final size:20
Alignment explanation
Indices: 8831531--8831569 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
8831521 ACTACTCATA
8831531 TTTTAAAAAACTTATCAGATT
1 TTTTAAAAAACTTA-CAGATT
* *
8831552 TTTTAGAACACTTACAGA
1 TTTTAAAAAACTTACAGA
8831570 ATCGACACCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (20 bp):
TTTTAAAAAACTTACAGATT
Found at i:8836270 original size:60 final size:59
Alignment explanation
Indices: 8836200--8836424 Score: 281
Period size: 60 Copynumber: 3.8 Consensus size: 59
8836190 CTACGGCCAC
* * * *
8836200 AAAGG-TTTCCTTTCTAGAGAATTGCCACAAAGGCATCCTTTTCATCCAATACTCACCA
1 AAAGGCTTTCCTTTCCAGAGATTTGCCACAAAGGCATCCTTTTCATTCAGTACTCACCA
* * *
8836258 AAAGGGCTTTCCTTTCTAGAGATTTTCCACAAAGGCATCATTTTCATTCAGTACTCACCA
1 AAA-GGCTTTCCTTTCCAGAGATTTGCCACAAAGGCATCCTTTTCATTCAGTACTCACCA
* * * * **
8836318 CAAAGGCTTTCTTTTCCAAATATTTGCCACAAAGTCATCCTTTTCATTCAGTACTTGCCA
1 -AAAGGCTTTCCTTTCCAGAGATTTGCCACAAAGGCATCCTTTTCATTCAGTACTCACCA
* *
8836378 AACAGGCTTTCCTTTCCATAGATTTTCCACAAAGGCATCCTTTTCAT
1 AA-AGGCTTTCCTTTCCAGAGATTTGCCACAAAGGCATCCTTTTCAT
8836425 ACATTTTCTC
Statistics
Matches: 144, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
58 3 0.02
59 4 0.03
60 134 0.93
61 3 0.02
ACGTcount: A:0.28, C:0.27, G:0.12, T:0.34
Consensus pattern (59 bp):
AAAGGCTTTCCTTTCCAGAGATTTGCCACAAAGGCATCCTTTTCATTCAGTACTCACCA
Found at i:8836333 original size:31 final size:31
Alignment explanation
Indices: 8836224--8836333 Score: 75
Period size: 31 Copynumber: 3.6 Consensus size: 31
8836214 TAGAGAATTG
* * * *
8836224 CCACAAAGGCATCCTTTTCATCCAATACTCA
1 CCACAAAGGCTTTCTTTTCATACAGTACTCA
* * * **
8836255 CCA-AAAGGGCTTTCCTTTC-TAGAG-ATTTT
1 CCACAAA-GGCTTTCTTTTCATACAGTACTCA
* *
8836284 CCACAAAGGC-ATCATTTTCATTCAGTACTCA
1 CCACAAAGGCTTTC-TTTTCATACAGTACTCA
8836315 CCACAAAGGCTTTCTTTTC
1 CCACAAAGGCTTTCTTTTC
8836334 CAAATATTTG
Statistics
Matches: 56, Mismatches: 17, Indels: 12
0.66 0.20 0.14
Matches are distributed among these distances:
28 2 0.04
29 12 0.21
30 11 0.20
31 29 0.52
32 2 0.04
ACGTcount: A:0.28, C:0.29, G:0.11, T:0.32
Consensus pattern (31 bp):
CCACAAAGGCTTTCTTTTCATACAGTACTCA
Found at i:8836422 original size:29 final size:28
Alignment explanation
Indices: 8836277--8836432 Score: 89
Period size: 31 Copynumber: 5.3 Consensus size: 28
8836267 TCCTTTCTAG
*
8836277 AGATTTTCCACAAAGGCATCATTTTCATT
1 AGATTTTCCACAAAGGCATCCTTTTCA-T
* ** * * *
8836306 CAGTACTCACCACAAAGGCTTTCTTTTCCAA
1 -AG-ATTTTCCACAAAGGCATCCTTTT-CAT
* * *
8836337 ATATTTGCCACAAAGTCATCCTTTTCATT
1 AGATTTTCCACAAAGGCATCCTTTTCA-T
* * * *
8836366 CAGTACTTGCCA-AACAGGCTTTCCTTTCCAT
1 -AG-ATTTTCCACAA-AGGC-ATCCTTTTCAT
8836397 AGATTTTCCACAAAGGCATCCTTTTCAT
1 AGATTTTCCACAAAGGCATCCTTTTCAT
*
8836425 ACATTTTC
1 AGATTTTC
8836433 TCGATAGGGA
Statistics
Matches: 93, Mismatches: 25, Indels: 18
0.68 0.18 0.13
Matches are distributed among these distances:
28 18 0.19
29 27 0.29
30 10 0.11
31 28 0.30
32 10 0.11
ACGTcount: A:0.28, C:0.27, G:0.10, T:0.36
Consensus pattern (28 bp):
AGATTTTCCACAAAGGCATCCTTTTCAT
Found at i:8838806 original size:194 final size:195
Alignment explanation
Indices: 8838581--8838969 Score: 771
Period size: 194 Copynumber: 2.0 Consensus size: 195
8838571 TATTAAACGG
8838581 TACATTAGCCTTGCATAACTTGCAAGATTATTGTGATTAAATTGTTTCAATATAGGAATATGTTG
1 TACATTAGCCTTGCATAACTTGCAAGATTATTGTGATTAAATTGTTTCAATATAGGAATATGTTG
8838646 TTACTTCACTTAATCTTATACTTGCTTATGAAAATTGATTAATTGTTTGAATTGACATTGGAATA
66 TTACTTCACTTAATCTTATACTTGCTTATGAAAATTGATTAATTGTTTGAATTGACATTGGAATA
8838711 TGTTCAAGAGATTAATTAGTTTAGTAAGTATGTATGTGCATTAGTTAACAAAAT-CCAAGTTGCC
131 TGTTCAAGAGATTAATTAGTTTAGTAAGTATGTATGTGCATTAGTTAACAAAATACCAAGTTGCC
8838775 TACATTAGCCTTGCATAACTTGCAAGATTATTGTGATTAAATTGTTTCAATATAGGAATATGTTG
1 TACATTAGCCTTGCATAACTTGCAAGATTATTGTGATTAAATTGTTTCAATATAGGAATATGTTG
8838840 TTACTTCACTTAATCTTATACTTGCTTATGAAAATTGATTAATTGTTTGAATTGACATTGGAATA
66 TTACTTCACTTAATCTTATACTTGCTTATGAAAATTGATTAATTGTTTGAATTGACATTGGAATA
8838905 TGTTCAAGAGATTAATTAGTTTAGTAAGTATGTATGTGCATTAGTTAACAAAATACCAAGTTGCC
131 TGTTCAAGAGATTAATTAGTTTAGTAAGTATGTATGTGCATTAGTTAACAAAATACCAAGTTGCC
8838970 ATGAAATTAT
Statistics
Matches: 194, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
194 184 0.95
195 10 0.05
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (195 bp):
TACATTAGCCTTGCATAACTTGCAAGATTATTGTGATTAAATTGTTTCAATATAGGAATATGTTG
TTACTTCACTTAATCTTATACTTGCTTATGAAAATTGATTAATTGTTTGAATTGACATTGGAATA
TGTTCAAGAGATTAATTAGTTTAGTAAGTATGTATGTGCATTAGTTAACAAAATACCAAGTTGCC
Found at i:8845122 original size:25 final size:25
Alignment explanation
Indices: 8845094--8845151 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
8845084 TACCTCGTAT
8845094 GAGCTTATCGATACTCAGCTCGGAG
1 GAGCTTATCGATACTCAGCTCGGAG
* * * *
8845119 GAGCTTATTGTTATTTAGCTCGGAG
1 GAGCTTATCGATACTCAGCTCGGAG
8845144 GAGCTTAT
1 GAGCTTAT
8845152 TATTTACAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (25 bp):
GAGCTTATCGATACTCAGCTCGGAG
Found at i:8845154 original size:22 final size:23
Alignment explanation
Indices: 8845110--8845157 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 23
8845100 ATCGATACTC
8845110 AGCTCGGAGGAGCTTATTGTTATTT
1 AGCTCGGAGGAGCTTA-T-TTATTT
8845135 AGCTCGGAGGAGCTTA-TTATTT
1 AGCTCGGAGGAGCTTATTTATTT
8845157 A
1 A
8845158 CAGCTTGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.30
25 16 0.70
ACGTcount: A:0.23, C:0.12, G:0.27, T:0.38
Consensus pattern (23 bp):
AGCTCGGAGGAGCTTATTTATTT
Found at i:8845187 original size:25 final size:25
Alignment explanation
Indices: 8845153--8845200 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
8845143 GGAGCTTATT
*
8845153 ATTTACAGCTTGTAAGAGCATACCG
1 ATTTACAGCTCGTAAGAGCATACCG
* *
8845178 ATTTAGAGCTCGTATGAGCATAC
1 ATTTACAGCTCGTAAGAGCATAC
8845201 ATGTACAGGA
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:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (25 bp):
ATTTACAGCTCGTAAGAGCATACCG
Found at i:8865171 original size:24 final size:25
Alignment explanation
Indices: 8865127--8865174 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
8865117 CCACAGATCG
*
8865127 TGAGAGCATACCGATTTATAGCTCA
1 TGAGAGCATACCGATTCATAGCTCA
8865152 TGAGAGCATA-CGATTCATAGCTC
1 TGAGAGCATACCGATTCATAGCTC
8865175 GTATCGGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (25 bp):
TGAGAGCATACCGATTCATAGCTCA
Found at i:8868976 original size:9 final size:9
Alignment explanation
Indices: 8868962--8868995 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
8868952 TATCATGATA
8868962 TTTTACTAC
1 TTTTACTAC
*
8868971 TTTTACAAC
1 TTTTACTAC
8868980 TATTTACTAC
1 T-TTTACTAC
8868990 TTTTAC
1 TTTTAC
8868996 AACTAAGTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.53
Consensus pattern (9 bp):
TTTTACTAC
Found at i:8868987 original size:19 final size:19
Alignment explanation
Indices: 8868963--8869000 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
8868953 ATCATGATAT
8868963 TTTACTACTTTTACAACTA
1 TTTACTACTTTTACAACTA
8868982 TTTACTACTTTTACAACTA
1 TTTACTACTTTTACAACTA
8869001 AGTCCCTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.21, G:0.00, T:0.47
Consensus pattern (19 bp):
TTTACTACTTTTACAACTA
Found at i:8880380 original size:15 final size:15
Alignment explanation
Indices: 8880362--8880392 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
8880352 CAAATGAACC
8880362 TTGTAGAGGTGAATG
1 TTGTAGAGGTGAATG
8880377 TTGTAGAGGTGAATG
1 TTGTAGAGGTGAATG
8880392 T
1 T
8880393 ACCGTCAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.39, T:0.35
Consensus pattern (15 bp):
TTGTAGAGGTGAATG
Found at i:8881033 original size:20 final size:18
Alignment explanation
Indices: 8880978--8881029 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 18
8880968 ATAAACGCAA
8880978 ATGAGCTCAAAATGAGCTG
1 ATGAGCT-AAAATGAGCTG
**
8880997 ATTGAGCTAAGCGTGAGCTCG
1 A-TGAGCTAA-AATGAGCT-G
8881018 ATGAGCTAAAAT
1 ATGAGCTAAAAT
8881030 TGAGTTGAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
19 4 0.15
20 20 0.77
21 2 0.08
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (18 bp):
ATGAGCTAAAATGAGCTG
Found at i:8894420 original size:24 final size:22
Alignment explanation
Indices: 8894379--8894422 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
8894369 CATTATTCAA
*
8894379 ATTTCATATACATGTATCATAC
1 ATTTCATATACATATATCATAC
8894401 ATTTCATATATCAATATATCAT
1 ATTTCATATA-C-ATATATCAT
8894423 GTAACATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 1 0.05
24 8 0.42
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.43
Consensus pattern (22 bp):
ATTTCATATACATATATCATAC
Found at i:8900586 original size:18 final size:19
Alignment explanation
Indices: 8900547--8900587 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
8900537 TTTTGTTATT
*
8900547 TTTGA-TTAAATGATTGAA
1 TTTGATTTAAATGATTAAA
8900565 -TTGATTTAAATG-TTAAA
1 TTTGATTTAAATGATTAAA
8900582 TTTGAT
1 TTTGAT
8900588 AGAGAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.49
Consensus pattern (19 bp):
TTTGATTTAAATGATTAAA
Found at i:8901286 original size:19 final size:19
Alignment explanation
Indices: 8901262--8901316 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
8901252 TACGGGTTTG
8901262 CACTTCGGTGCCTTTGTTA
1 CACTTCGGTGCCTTTGTTA
*
8901281 CACTTCGGTGTCCTTAT-TTG
1 CACTTCGGTG-CCTT-TGTTA
*
8901301 CACTTTGGTGCCTTTG
1 CACTTCGGTGCCTTTG
8901317 ATTCCACAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
18 1 0.03
19 14 0.45
20 15 0.48
21 1 0.03
ACGTcount: A:0.09, C:0.25, G:0.22, T:0.44
Consensus pattern (19 bp):
CACTTCGGTGCCTTTGTTA
Found at i:8901304 original size:20 final size:18
Alignment explanation
Indices: 8901258--8901315 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
8901248 CTTGTACGGG
8901258 TTTGCACTTCGGTGCCTT
1 TTTGCACTTCGGTGCCTT
*
8901276 TGTTACACTTCGGTGTCCTT
1 T-TTGCACTTCGGTG-CCTT
*
8901296 ATTTGCACTTTGGTGCCTT
1 -TTTGCACTTCGGTGCCTT
8901315 T
1 T
8901316 GATTCCACAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 2 0.06
19 16 0.47
20 15 0.44
21 1 0.03
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (18 bp):
TTTGCACTTCGGTGCCTT
Found at i:8905136 original size:20 final size:20
Alignment explanation
Indices: 8905098--8905137 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
8905088 TCTTTGGTAG
**
8905098 TTTGGTTCATACACTCTCTA
1 TTTGGTTCATACAAACTCTA
*
8905118 TTTGGTTGATACAAACTCTA
1 TTTGGTTCATACAAACTCTA
8905138 CTAAAGAACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.42
Consensus pattern (20 bp):
TTTGGTTCATACAAACTCTA
Found at i:8914004 original size:27 final size:27
Alignment explanation
Indices: 8913965--8914016 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
8913955 CAGTATATAT
* *
8913965 CCACAACCCTCTAGGAATTGGGACTGC
1 CCACAACCCTCTAGAAATTGAGACTGC
* *
8913992 CCACGACCTTCTAGAAATTGAGACT
1 CCACAACCCTCTAGAAATTGAGACT
8914017 AAATAAAATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (27 bp):
CCACAACCCTCTAGAAATTGAGACTGC
Found at i:8916402 original size:107 final size:101
Alignment explanation
Indices: 8916211--8916419 Score: 310
Period size: 107 Copynumber: 2.0 Consensus size: 101
8916201 TTAATTTGGA
* * *
8916211 GTTCTGTAGCTCAAGATATAAATAATTTAGTGACTATGACTCAATGAGATAGCTTTGAATGAACT
1 GTTCCGTAGCTCAAGATATAAATAATTTAGTGACTATGACTCAATGAGACAACTTTGAATGAACT
*
8916276 ATAAATAATAATGGAATTATAGAGAATGTTACATAT
66 ATAAATAATAATGGAATTATAGAGAATGTGACATAT
* *
8916312 NNNNNNGTTCCGTAGCTCAAGATATAAATAATTTAGTGACTGTGACTCAGTGAGACAACTTTGAA
1 ------GTTCCGTAGCTCAAGATATAAATAATTTAGTGACTATGACTCAATGAGACAACTTTGAA
8916377 TGAACTATAAATAATAATGGAATTATAGAGAATGTGACATAT
60 TGAACTATAAATAATAATGGAATTATAGAGAATGTGACATAT
8916419 G
1 G
8916420 AACATGATAT
Statistics
Matches: 96, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
101 1 0.01
107 95 0.99
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.31
Consensus pattern (101 bp):
GTTCCGTAGCTCAAGATATAAATAATTTAGTGACTATGACTCAATGAGACAACTTTGAATGAACT
ATAAATAATAATGGAATTATAGAGAATGTGACATAT
Found at i:8917593 original size:22 final size:23
Alignment explanation
Indices: 8917560--8917603 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
8917550 GTGATGAGGT
8917560 TATCTTATAAATACGTT-AAATC
1 TATCTTATAAATACGTTGAAATC
*
8917582 TATCTTGA-AAATAGGTTGAAAT
1 TATCTT-ATAAATACGTTGAAAT
8917604 GGATTGGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (23 bp):
TATCTTATAAATACGTTGAAATC
Found at i:8922301 original size:249 final size:249
Alignment explanation
Indices: 8921863--8922362 Score: 973
Period size: 249 Copynumber: 2.0 Consensus size: 249
8921853 ATATTAGAGT
8921863 TTGAAGGTAACTGGGAGAAGTATCTACCTTTGATTGAATTTGCTTACAATAACAGTTATCAGTCC
1 TTGAAGGTAACTGGGAGAAGTATCTACCTTTGATTGAATTTGCTTACAATAACAGTTATCAGTCC
8921928 AGTATTAAAATTGCTTCGTATGAAGCTTTGTATGGTAGAAAATGTAGAACACCGTTATATTGGAC
66 AGTATTAAAATTGCTTCGTATGAAGCTTTGTATGGTAGAAAATGTAGAACACCGTTATATTGGAC
*
8921993 AGAGCTAAGTGAAAAGAAGATACATGGGGTTGATTTGATCTAGGAAATAGAAGAAAAAGTCAAGG
131 AGAGCTAAGTGAAAAGAAGATACATGGGGTTGATTTGATCTAGGAAACAGAAGAAAAAGTCAAGG
*
8922058 TGATTCGAGATAGTCTAAAAGCAGCTTCCGATCGTCAAAAGTCATATGCTGATC
196 TGATTCGAGATAGTCTAAAAGCAGCTTCCGATCATCAAAAGTCATATGCTGATC
8922112 TTGAAGGTAACTGGGAGAAGTATCTACCTTTGATTGAATTTGCTTACAATAACAGTTATCAGTCC
1 TTGAAGGTAACTGGGAGAAGTATCTACCTTTGATTGAATTTGCTTACAATAACAGTTATCAGTCC
8922177 AGTATTAAAATTGCTTCGTATGAAGCTTTGTATGGTAGAAAATGTAGAACACCGTTATATTGGAC
66 AGTATTAAAATTGCTTCGTATGAAGCTTTGTATGGTAGAAAATGTAGAACACCGTTATATTGGAC
*
8922242 AGAGCTAAGTGAAAAGAAGATACATGGGGTTGATTTGATCTGGGAAACAGAAGAAAAAGTCAAGG
131 AGAGCTAAGTGAAAAGAAGATACATGGGGTTGATTTGATCTAGGAAACAGAAGAAAAAGTCAAGG
8922307 TGATTCGAGATAGTCTAAAAGCAGCTTCCGATCATCAAAAGTCATATGCTGATC
196 TGATTCGAGATAGTCTAAAAGCAGCTTCCGATCATCAAAAGTCATATGCTGATC
8922361 TT
1 TT
8922363 AAACGAAAAT
Statistics
Matches: 248, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
249 248 1.00
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (249 bp):
TTGAAGGTAACTGGGAGAAGTATCTACCTTTGATTGAATTTGCTTACAATAACAGTTATCAGTCC
AGTATTAAAATTGCTTCGTATGAAGCTTTGTATGGTAGAAAATGTAGAACACCGTTATATTGGAC
AGAGCTAAGTGAAAAGAAGATACATGGGGTTGATTTGATCTAGGAAACAGAAGAAAAAGTCAAGG
TGATTCGAGATAGTCTAAAAGCAGCTTCCGATCATCAAAAGTCATATGCTGATC
Found at i:8931463 original size:104 final size:104
Alignment explanation
Indices: 8931320--8931556 Score: 447
Period size: 104 Copynumber: 2.3 Consensus size: 104
8931310 TCGTGAACTG
*
8931320 TCAGCTGAGAGCGTAGGTCCGCGAGCTGTTTCGGAGTAGCAAGCTTAACACAGCTTACTCAAATA
1 TCAGCTGGGAGCGTAGGTCCGCGAGCTGTTTCGGAGTAGCAAGCTTAACACAGCTTACTCAAATA
8931385 AATGAAGGTTGTGAGTATAACTCATCTAACCATTAAACA
66 AATGAAGGTTGTGAGTATAACTCATCTAACCATTAAACA
8931424 TCAGCTGGGAGCGTAGGTCCGCGAGCTGTTTCGGAGTAGCAAGCTTAACACAGCTTACTCAAATA
1 TCAGCTGGGAGCGTAGGTCCGCGAGCTGTTTCGGAGTAGCAAGCTTAACACAGCTTACTCAAATA
8931489 AATGAAGGTTGTGAGTATAACTCATCTAACCATTAAACA
66 AATGAAGGTTGTGAGTATAACTCATCTAACCATTAAACA
* *
8931528 TCAGCTGGGAGCGTAGGTCGGTGAGCTGT
1 TCAGCTGGGAGCGTAGGTCCGCGAGCTGT
8931557 GTTGAAGTTT
Statistics
Matches: 130, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
104 130 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (104 bp):
TCAGCTGGGAGCGTAGGTCCGCGAGCTGTTTCGGAGTAGCAAGCTTAACACAGCTTACTCAAATA
AATGAAGGTTGTGAGTATAACTCATCTAACCATTAAACA
Found at i:8936707 original size:31 final size:31
Alignment explanation
Indices: 8936670--8936810 Score: 122
Period size: 31 Copynumber: 4.5 Consensus size: 31
8936660 AACTACTTAT
8936670 AATCGAATGCATATACACAACAAATGTATAC
1 AATCGAATGCATATACACAACAAATGTATAC
* * *
8936701 ATTCGAATGCATATACACATCAAATGTATAG
1 AATCGAATGCATATACACAACAAATGTATAC
* * * * *
8936732 AACCGAATGCATATATACCTATCAAATACT-TAT
1 AATCGAATGCATATACA-C-AACAAAT-GTATAC
* * * * *
8936765 AACCAAATGCATATACACATCAAAGGTATAT
1 AATCGAATGCATATACACAACAAATGTATAC
*
8936796 AACCGAATGCATATA
1 AATCGAATGCATATA
8936811 TATATCTATC
Statistics
Matches: 93, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
30 1 0.01
31 65 0.70
32 2 0.02
33 24 0.26
34 1 0.01
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (31 bp):
AATCGAATGCATATACACAACAAATGTATAC
Found at i:8936779 original size:95 final size:97
Alignment explanation
Indices: 8936635--8936810 Score: 257
Period size: 95 Copynumber: 1.8 Consensus size: 97
8936625 AAATAATTAT
* * * *
8936635 AACCGAATGCATATATATACTAATCAACTACTTATAATCGAATGCATATACACAACAAATGTATA
1 AACCGAATGCATATATATACTAATCAAATACTTATAACCAAATGCATATACACAACAAAGGTATA
**
8936700 CATTCGAATGCATATACACATCAAATGTATAG
66 CAACCGAATGCATATACACATCAAATGTATAG
* *
8936732 AACCGAATGCATATATA-CCT-ATCAAATACTTATAACCAAATGCATATACACATCAAAGGTATA
1 AACCGAATGCATATATATACTAATCAAATACTTATAACCAAATGCATATACACAACAAAGGTATA
*
8936795 TAACCGAATGCATATA
66 CAACCGAATGCATATA
8936811 TATATCTATC
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
95 51 0.73
96 2 0.03
97 17 0.24
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.27
Consensus pattern (97 bp):
AACCGAATGCATATATATACTAATCAAATACTTATAACCAAATGCATATACACAACAAAGGTATA
CAACCGAATGCATATACACATCAAATGTATAG
Found at i:8936848 original size:66 final size:65
Alignment explanation
Indices: 8936703--8936891 Score: 267
Period size: 66 Copynumber: 2.9 Consensus size: 65
8936693 ATGTATACAT
* * * *
8936703 TCGAATGCATATACACATCAAATGTATAGAACCGAATGCATATATA-CCTATCAAATACTTATAA
1 TCGAAAGCATATACACATCAAAGGTATATAACCGAATGCATATATATACTATCAAATACTTATAA
*
8936767 -CCAAATGCATATACACATCAAAGGTATATAACCGAATGCATATATATATCTATCAAATACTTAT
1 TCGAAA-GCATATACACATCAAAGGTATATAACCGAATGCATATATATA-CTATCAAATACTTAT
8936831 AA
64 AA
*
8936833 TCGAAAGCATATACAC-TGCAAAGGTATATAACCGAATGCATATAAATACTTATCAAATA
1 TCGAAAGCATATACACAT-CAAAGGTATATAACCGAATGCATATATATAC-TATCAAATA
8936892 AGATATAATA
Statistics
Matches: 112, Mismatches: 7, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
63 3 0.03
64 38 0.34
65 2 0.02
66 65 0.58
67 4 0.04
ACGTcount: A:0.45, C:0.18, G:0.10, T:0.28
Consensus pattern (65 bp):
TCGAAAGCATATACACATCAAAGGTATATAACCGAATGCATATATATACTATCAAATACTTATAA
Found at i:8937400 original size:78 final size:76
Alignment explanation
Indices: 8937235--8937484 Score: 312
Period size: 78 Copynumber: 3.3 Consensus size: 76
8937225 AAGTATTTAC
* * * * * * *
8937235 AATTCATACTTTTAATTCAACTCAAGT-ACTTGTATATGTATATAC--ATCTATTCGAATCACAC
1 AATTCATACCTTTAATTCAATTCAA-TAACTTATACATGTATATACATATATATTCGAACCTCAC
* *
8937297 ACATACATATGTAA
65 A-AT-CATATATAT
*
8937311 AATTCATACCTTTAATTTAATTCAATAACTTATACATGTATATACATATATATTCGAACCTCACA
1 AATTCATACCTTTAATTCAATTCAATAACTTATACATGTATATACATATATATTCGAACCTCACA
8937376 TATGCATATATAT
66 -AT-CATATATAT
* *
8937389 AATTCATACCTTTAATTCAATTCAAGAACTTATACATGTATATACATATATATTCTAACCTCAC-
1 AATTCATACCTTTAATTCAATTCAATAACTTATACATGTATATACATATATATTCGAACCTCACA
8937453 AT-ATATATAT
66 ATCATATATAT
8937463 AATTCATACCTTTAATTCAATT
1 AATTCATACCTTTAATTCAATT
8937485 TATATACTTT
Statistics
Matches: 156, Mismatches: 15, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
74 30 0.19
75 1 0.01
76 40 0.26
78 85 0.54
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.39
Consensus pattern (76 bp):
AATTCATACCTTTAATTCAATTCAATAACTTATACATGTATATACATATATATTCGAACCTCACA
ATCATATATAT
Found at i:8940568 original size:11 final size:13
Alignment explanation
Indices: 8940544--8940575 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
8940534 TAGTTTATTA
8940544 ATATTTTAATATG
1 ATATTTTAATATG
8940557 AT-TTTTAA-ATG
1 ATATTTTAATATG
8940568 ATATTTTA
1 ATATTTTA
8940576 TTAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (13 bp):
ATATTTTAATATG
Found at i:8941011 original size:24 final size:24
Alignment explanation
Indices: 8940971--8941017 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
8940961 AAAGGGAAAT
*
8940971 AAGAGAAAGTGATGGAAAATGTTG
1 AAGAGAAAGTGAAGGAAAATGTTG
*
8940995 AAGAGAAAG-GAAAGGAAAGTGTT
1 AAGAGAAAGTG-AAGGAAAATGTT
8941018 ATAAATTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.49, C:0.00, G:0.34, T:0.17
Consensus pattern (24 bp):
AAGAGAAAGTGAAGGAAAATGTTG
Found at i:8943899 original size:94 final size:94
Alignment explanation
Indices: 8943738--8943915 Score: 250
Period size: 94 Copynumber: 1.9 Consensus size: 94
8943728 CAGTGAAACC
* * * * *
8943738 ACAAATCCTATACCCCTGAAGTTACAGTAGGTCAGATTGAATCTACCATAGCGAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTACAGTAGGTCAGATTGAAACTACAACAACAAATCTTATCTCC
8943803 TTGAAGTTGCAGA-GGAGCAGATTGAAGCT
66 TTGAAGTTGCA-ATGGAGCAGATTGAAGCT
** * * *
8943832 ACAAATCCTATACCCCTGAAGTTGTAGTGGGTCGGCTTGAAACTACAACAACAAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTACAGTAGGTCAGATTGAAACTACAACAACAAATCTTATCTCC
8943897 TTGAAGTTGCAATGGAGCA
66 TTGAAGTTGCAATGGAGCA
8943916 AGATGAAACT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
93 1 0.01
94 72 0.99
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (94 bp):
ACAAATCCTATACCCCTGAAGTTACAGTAGGTCAGATTGAAACTACAACAACAAATCTTATCTCC
TTGAAGTTGCAATGGAGCAGATTGAAGCT
Found at i:8945866 original size:19 final size:17
Alignment explanation
Indices: 8945824--8945869 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
8945814 TATTTTTATT
8945824 TCTTATTATTGTATTCA
1 TCTTATTATTGTATTCA
*
8945841 TCATATTATTGTCATTTCA
1 TCTTATTATTGT-A-TTCA
*
8945860 TTTTATTATT
1 TCTTATTATT
8945870 TATGTTGTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 11 0.46
18 1 0.04
19 12 0.50
ACGTcount: A:0.24, C:0.11, G:0.04, T:0.61
Consensus pattern (17 bp):
TCTTATTATTGTATTCA
Found at i:8957903 original size:2 final size:2
Alignment explanation
Indices: 8957896--8957922 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8957886 GTTTTGTTTG
8957896 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
8957923 ATATGTATAC
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:8967044 original size:48 final size:48
Alignment explanation
Indices: 8966985--8967082 Score: 178
Period size: 48 Copynumber: 2.0 Consensus size: 48
8966975 TAACTAATAC
*
8966985 TAAGCGGTATTATGTGGTCGGATCATAGTACTAAAATAAAACTTGTAT
1 TAAGCGATATTATGTGGTCGGATCATAGTACTAAAATAAAACTTGTAT
*
8967033 TAAGCGATATTATGTGGTCGGATCGTAGTACTAAAATAAAACTTGTAT
1 TAAGCGATATTATGTGGTCGGATCATAGTACTAAAATAAAACTTGTAT
8967081 TA
1 TA
8967083 GTAGATGAAC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (48 bp):
TAAGCGATATTATGTGGTCGGATCATAGTACTAAAATAAAACTTGTAT
Found at i:8968215 original size:25 final size:25
Alignment explanation
Indices: 8968187--8968258 Score: 63
Period size: 27 Copynumber: 2.8 Consensus size: 25
8968177 AATTTTCTCG
8968187 AAATTTTACCAGGGTAAAATAGTCA
1 AAATTTTACCAGGGTAAAATAGTCA
* * * * *
8968212 AAATATTATCGGCGTGTAAAATTGTTA
1 AAATTTTACCAG-G-GTAAAATAGTCA
* *
8968239 AAATTTTACTAGGATAAAAT
1 AAATTTTACCAGGGTAAAAT
8968259 TGGGGTAAGA
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
25 15 0.43
26 2 0.06
27 18 0.51
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.33
Consensus pattern (25 bp):
AAATTTTACCAGGGTAAAATAGTCA
Found at i:8978375 original size:23 final size:23
Alignment explanation
Indices: 8978345--8978390 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
8978335 GTATTTGAAT
8978345 ATTAAGGAATCTTAAGAACAAAG
1 ATTAAGGAATCTTAAGAACAAAG
8978368 ATTAAGGAATCTTAAGAACAAAG
1 ATTAAGGAATCTTAAGAACAAAG
8978391 TGATAGCACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.09, G:0.17, T:0.22
Consensus pattern (23 bp):
ATTAAGGAATCTTAAGAACAAAG
Found at i:8987840 original size:10 final size:10
Alignment explanation
Indices: 8987825--8987886 Score: 53
Period size: 10 Copynumber: 6.4 Consensus size: 10
8987815 GGTATTAATA
8987825 AAAAATTATT
1 AAAAATTATT
8987835 AAAAATTA-T
1 AAAAATTATT
8987844 -AAAA-TATT
1 AAAAATTATT
*
8987852 CATAATATTA-T
1 -A-AAAATTATT
8987863 AAAAATATATT
1 AAAAAT-TATT
8987874 -AAAATTATT
1 AAAAATTATT
8987883 AAAA
1 AAAA
8987887 TTTAATATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 16
0.70 0.03 0.27
Matches are distributed among these distances:
7 2 0.05
8 5 0.12
9 9 0.21
10 19 0.45
11 5 0.12
12 2 0.05
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (10 bp):
AAAAATTATT
Found at i:8987846 original size:9 final size:9
Alignment explanation
Indices: 8987825--8987888 Score: 58
Period size: 9 Copynumber: 6.8 Consensus size: 9
8987815 GGTATTAATA
8987825 AAAAATTATT
1 AAAAATTA-T
8987835 AAAAATTAT
1 AAAAATTAT
8987844 AAAATATTCAT
1 AAAA-ATT-AT
*
8987855 -AATATTAT
1 AAAAATTAT
8987863 AAAAATATAT
1 AAAAAT-TAT
*
8987873 TAAAATTAT
1 AAAAATTAT
*
8987882 TAAAATT
1 AAAAATT
8987889 TAATATATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
8 2 0.04
9 22 0.47
10 21 0.45
11 2 0.04
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (9 bp):
AAAAATTAT
Found at i:8987880 original size:19 final size:19
Alignment explanation
Indices: 8987825--8987887 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
8987815 GGTATTAATA
8987825 AAAAAT-TATTAAAAATTAT
1 AAAAATATATT-AAAATTAT
*
8987844 -AAAATAT-TCATAATATTAT
1 AAAAATATAT--TAAAATTAT
8987863 AAAAATATATTAAAATTAT
1 AAAAATATATTAAAATTAT
*
8987882 TAAAAT
1 AAAAAT
8987888 TTAATATATT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
18 6 0.17
19 21 0.58
20 8 0.22
21 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (19 bp):
AAAAATATATTAAAATTAT
Found at i:8988063 original size:27 final size:27
Alignment explanation
Indices: 8988008--8988063 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
8987998 AATGTTTACA
* **
8988008 TTTTTTTGTCAATTTGACTTTTAATCC
1 TTTTTTAGTCAATTTGACCATTAATCC
8988035 TTTTTTAGTCAAATTTGACCATTAA-CC
1 TTTTTTAGTC-AATTTGACCATTAATCC
8988062 TT
1 TT
8988064 ATATAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 13 0.52
28 12 0.48
ACGTcount: A:0.23, C:0.16, G:0.07, T:0.54
Consensus pattern (27 bp):
TTTTTTAGTCAATTTGACCATTAATCC
Found at i:8996155 original size:3 final size:3
Alignment explanation
Indices: 8996147--8996186 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
8996137 TGTCAAAAGA
8996147 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
8996187 TTTTAAATAG
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):
AAT
Found at i:9000584 original size:38 final size:38
Alignment explanation
Indices: 9000542--9000810 Score: 335
Period size: 38 Copynumber: 7.1 Consensus size: 38
9000532 AATGTAACAT
* * **
9000542 TATTCGAGCTCTGTTCCTAATAGGCTTTGTGCCAGTGA
1 TATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCAGTGA
*
9000580 TATTCGGGCTCTGTGCCTAGCAAGCTTTGTGCCAGTGA
1 TATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCAGTGA
* * *
9000618 TATTCGGGCTCTGTGCCAAGCAGGCTTTGTGTCGGTGA
1 TATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCAGTGA
*
9000656 TATTCGGGCTCTGTGCCTAGTAGGCTTCT-TGCCAGTGA
1 TATTCGGGCTCTGTGCCTAGCAGGCTT-TGTGCCAGTGA
* * * *
9000694 TATTAGGGCTCTGTGCCTAGCAAGCTTCGTGCTAGTGA
1 TATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCAGTGA
* * * * *
9000732 TCTTCGCGCTCTGTGCCTAGTAGGCTTTTTGCCATTGA
1 TATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCAGTGA
* *
9000770 TATTCGGGCTCTGTGCCTAGCAGGCTTCGTGCCGGTG-
1 TATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCAGTGA
9000807 TATT
1 TATT
9000811 ATATCAGGCT
Statistics
Matches: 195, Mismatches: 34, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
37 4 0.02
38 190 0.97
39 1 0.01
ACGTcount: A:0.14, C:0.23, G:0.29, T:0.34
Consensus pattern (38 bp):
TATTCGGGCTCTGTGCCTAGCAGGCTTTGTGCCAGTGA
Found at i:9000594 original size:22 final size:22
Alignment explanation
Indices: 9000564--9000635 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 22
9000554 GTTCCTAATA
*
9000564 GGCTTTGTGCCAGTGATATTCG
1 GGCTCTGTGCCAGTGATATTCG
*
9000586 GGCTCTGTGCCTAG-CA-A----
1 GGCTCTGTGCC-AGTGATATTCG
*
9000603 -GCTTTGTGCCAGTGATATTCG
1 GGCTCTGTGCCAGTGATATTCG
9000624 GGCTCTGTGCCA
1 GGCTCTGTGCCA
9000636 AGCAGGCTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 16
0.64 0.09 0.28
Matches are distributed among these distances:
15 2 0.05
16 10 0.27
17 1 0.03
21 1 0.03
22 21 0.57
23 2 0.05
ACGTcount: A:0.14, C:0.24, G:0.31, T:0.32
Consensus pattern (22 bp):
GGCTCTGTGCCAGTGATATTCG
Found at i:9000818 original size:25 final size:25
Alignment explanation
Indices: 9000790--9000848 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
9000780 CTGTGCCTAG
9000790 CAGGCTTCGTGCCGGTGTATTATAT
1 CAGGCTTCGTGCCGGTGTATTATAT
* * *
9000815 CAGGCTTGGTGCTGGTGTGTTATAT
1 CAGGCTTCGTGCCGGTGTATTATAT
9000840 CAGGCTTCG
1 CAGGCTTCG
9000849 AGCCTGGTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.14, C:0.19, G:0.32, T:0.36
Consensus pattern (25 bp):
CAGGCTTCGTGCCGGTGTATTATAT
Found at i:9002627 original size:30 final size:30
Alignment explanation
Indices: 9002587--9002657 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 30
9002577 GCATGTGTCT
*
9002587 CAGCCATGTGTGGCACATGGCCACACGACA
1 CAGCCATGTGTGACACATGGCCACACGACA
* **
9002617 CAGCCGTGTGTGACACATGGCCACGTGACA
1 CAGCCATGTGTGACACATGGCCACACGACA
*
9002647 CAGCCTTGTGT
1 CAGCCATGTGT
9002658 CCCTTGTAGG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.23, C:0.31, G:0.28, T:0.18
Consensus pattern (30 bp):
CAGCCATGTGTGACACATGGCCACACGACA
Found at i:9026408 original size:14 final size:14
Alignment explanation
Indices: 9026389--9026415 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9026379 GGATTCTTAT
9026389 ATGCGAACTCATAC
1 ATGCGAACTCATAC
9026403 ATGCGAACTCATA
1 ATGCGAACTCATA
9026416 GAAGATGATT
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:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (14 bp):
ATGCGAACTCATAC
Found at i:9028398 original size:23 final size:23
Alignment explanation
Indices: 9028363--9028427 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
9028353 GTATGATACA
9028363 TCTTCTTTCAATTCGCATACACTT
1 TCTT-TTTCAATTCGCATACACTT
9028387 TCTTTTTCAATTCGCATACACTT
1 TCTTTTTCAATTCGCATACACTT
* *
9028410 TCTTTTTTAAATCGCATA
1 TCTTTTTCAATTCGCATA
9028428 TGATTTCTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
23 35 0.90
24 4 0.10
ACGTcount: A:0.23, C:0.25, G:0.05, T:0.48
Consensus pattern (23 bp):
TCTTTTTCAATTCGCATACACTT
Found at i:9033278 original size:19 final size:18
Alignment explanation
Indices: 9033254--9033289 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
9033244 TAATTAAAAA
*
9033254 TTAATTAATCATTGTTTAT
1 TTAATTAAACA-TGTTTAT
9033273 TTAATTAAACATGTTTA
1 TTAATTAAACATGTTTA
9033290 ACAAATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.53
Consensus pattern (18 bp):
TTAATTAAACATGTTTAT
Found at i:9047541 original size:15 final size:15
Alignment explanation
Indices: 9047523--9047551 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9047513 TAAGGATTAA
9047523 AATAATAATAAAAGT
1 AATAATAATAAAAGT
9047538 AATAATAATAAAAG
1 AATAATAATAAAAG
9047552 AAAGAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.07, T:0.24
Consensus pattern (15 bp):
AATAATAATAAAAGT
Found at i:9047559 original size:15 final size:15
Alignment explanation
Indices: 9047526--9047560 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
9047516 GGATTAAAAT
* *
9047526 AATAATAAAAGTAAT
1 AATAATAAAAGAAAG
9047541 AATAATAAAAGAAAG
1 AATAATAAAAGAAAG
9047556 AATAA
1 AATAA
9047561 AGAGAAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (15 bp):
AATAATAAAAGAAAG
Found at i:9047559 original size:18 final size:18
Alignment explanation
Indices: 9047523--9047560 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
9047513 TAAGGATTAA
*
9047523 AATAATAATAAAAGTAAT
1 AATAATAAAAAAAGTAAT
9047541 AATAATAAAAGAAAG-AAT
1 AATAATAAAA-AAAGTAAT
9047559 AA
1 AA
9047561 AGAGAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (18 bp):
AATAATAAAAAAAGTAAT
Found at i:9059188 original size:17 final size:17
Alignment explanation
Indices: 9059155--9059188 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9059145 GATAAGTATA
*
9059155 CATTGTCATTGCATTTT
1 CATTGTCATTACATTTT
*
9059172 CATTGTCATTACCTTTT
1 CATTGTCATTACATTTT
9059189 AGTGTTAGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.21, G:0.09, T:0.53
Consensus pattern (17 bp):
CATTGTCATTACATTTT
Found at i:9060289 original size:65 final size:65
Alignment explanation
Indices: 9060185--9060356 Score: 227
Period size: 65 Copynumber: 2.6 Consensus size: 65
9060175 TATTGCATTA
* * * * * *
9060185 ATGTCGCTACATGAGTTAATTTCAGATTGCATCCAGAATTGTCACCGCACCTAACAGATGTCTGC
1 ATGTCGCTGCATGGGTTAATTCCAGATTGCATCCAGAATTGTCACCACACCTAACAAATGTCTAC
* * * *
9060250 ATGTCGCTGCACGGGTTAATTCCAGATTGCATCTAGAATTGTCGCCACACCTGACAAATGTCTAC
1 ATGTCGCTGCATGGGTTAATTCCAGATTGCATCCAGAATTGTCACCACACCTAACAAATGTCTAC
* * *
9060315 ATGTCACTGCATGGGTTAATTCCAGATTGCGTTCAGAATTGT
1 ATGTCGCTGCATGGGTTAATTCCAGATTGCATCCAGAATTGT
9060357 TATCGCAGCT
Statistics
Matches: 92, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
65 92 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (65 bp):
ATGTCGCTGCATGGGTTAATTCCAGATTGCATCCAGAATTGTCACCACACCTAACAAATGTCTAC
Found at i:9067113 original size:11 final size:11
Alignment explanation
Indices: 9067086--9067119 Score: 50
Period size: 11 Copynumber: 2.9 Consensus size: 11
9067076 TTATACACAT
9067086 TACACTTGAAGAA
1 TACA-TTGAA-AA
9067099 TACATTGAAAA
1 TACATTGAAAA
9067110 TACATTGAAA
1 TACATTGAAA
9067120 TCAGATTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 12 0.57
12 5 0.24
13 4 0.19
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (11 bp):
TACATTGAAAA
Found at i:9073829 original size:9 final size:9
Alignment explanation
Indices: 9073815--9073844 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
9073805 ATTAAACCCT
9073815 AAATAATAA
1 AAATAATAA
9073824 AAATAATAAA
1 AAATAAT-AA
9073834 AAATAATAA
1 AAATAATAA
9073843 AA
1 AA
9073845 GAATTTCGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAATAATAA
Found at i:9073837 original size:10 final size:10
Alignment explanation
Indices: 9073815--9073844 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
9073805 ATTAAACCCT
9073815 AAATAAT-AA
1 AAATAATAAA
9073824 AAATAATAAA
1 AAATAATAAA
9073834 AAATAATAAA
1 AAATAATAAA
9073844 A
1 A
9073845 GAATTTCGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.35
10 13 0.65
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
AAATAATAAA
Found at i:9089953 original size:12 final size:12
Alignment explanation
Indices: 9089936--9089978 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
9089926 TTCAAGAGTT
*
9089936 ACACGGCCCACC
1 ACACGGCCTACC
*
9089948 ACACGGCCTGCC
1 ACACGGCCTACC
*
9089960 ACACGGCTTACC
1 ACACGGCCTACC
9089972 ACACGGC
1 ACACGGC
9089979 GTGTGAGGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.23, C:0.49, G:0.21, T:0.07
Consensus pattern (12 bp):
ACACGGCCTACC
Found at i:9095473 original size:17 final size:17
Alignment explanation
Indices: 9095451--9095483 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9095441 CACTAACATT
*
9095451 AAAATGCAATGACAATA
1 AAAATGCAAAGACAATA
9095468 AAAATGCAAAGACAAT
1 AAAATGCAAAGACAAT
9095484 GTTCACTAAC
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:0.61, C:0.12, G:0.12, T:0.15
Consensus pattern (17 bp):
AAAATGCAAAGACAATA
Found at i:9111640 original size:54 final size:54
Alignment explanation
Indices: 9111554--9111685 Score: 203
Period size: 54 Copynumber: 2.4 Consensus size: 54
9111544 AGGCACCTGT
* *
9111554 ATCACTCCATTTTGAACCAGTCCATGAATTGTTCGCATCATTTGAGGCCTC-AG
1 ATCACTCCATTTTGAACCAGTCCATGAATTGTTCGCATCATTTGAAGCATCAAG
* *
9111607 CATCACTCCATTTTGAACCAGTCCATGAGTTGTTTGCATCATTTGAAGCATCAAG
1 -ATCACTCCATTTTGAACCAGTCCATGAATTGTTCGCATCATTTGAAGCATCAAG
*
9111662 ATCACTCCATTTTGGACCAGTCCA
1 ATCACTCCATTTTGAACCAGTCCA
9111686 GGGTATCTCA
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
54 70 0.97
55 2 0.03
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (54 bp):
ATCACTCCATTTTGAACCAGTCCATGAATTGTTCGCATCATTTGAAGCATCAAG
Found at i:9111703 original size:54 final size:54
Alignment explanation
Indices: 9111554--9111704 Score: 164
Period size: 54 Copynumber: 2.8 Consensus size: 54
9111544 AGGCACCTGT
* * * *
9111554 ATCACTCCATTTTGAACCAGTCCATGAATTGTTC-GCATCATTTGAGGCCTCAGC
1 ATCACTCCATTTTGAACCAGTCCATGAGTT-CTCAGCATCATTTGAAGCATCAGC
* **
9111608 ATCACTCCATTTTGAACCAGTCCATGAGTTGTTTGCATCATTTGAAGCATCAAG-
1 ATCACTCCATTTTGAACCAGTCCATGAGTTCTCAGCATCATTTGAAGCATC-AGC
* * *
9111662 ATCACTCCATTTTGGACCAGTCCA-GGGTATCTCAGCTTCATTT
1 ATCACTCCATTTTGAACCAGTCCATGAGT-TCTCAGCATCATTT
9111705 ATCACATTAG
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
53 4 0.05
54 77 0.93
55 2 0.02
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.33
Consensus pattern (54 bp):
ATCACTCCATTTTGAACCAGTCCATGAGTTCTCAGCATCATTTGAAGCATCAGC
Found at i:9119909 original size:41 final size:40
Alignment explanation
Indices: 9119850--9119962 Score: 127
Period size: 41 Copynumber: 2.8 Consensus size: 40
9119840 AAATGGTTTT
* *
9119850 ATAAGTTGTGTATTAGCGAAGCTCCCTTCGAGAACTGATGG
1 ATAAGTTGTGTATCAGCGAAGCTCCCTT-GAGAACTGACGG
* * * *
9119891 ATAAGGTGTGTATCAGCGAAGCTGCCCTTGTGAGCTTACGG
1 ATAAGTTGTGTATCAGCGAAGCT-CCCTTGAGAACTGACGG
* * *
9119932 GTAAGTTGCGTATCAGCGAAGCTCCCGTGAG
1 ATAAGTTGTGTATCAGCGAAGCTCCCTTGAG
9119963 CTTAGTGATA
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
40 6 0.10
41 49 0.82
42 5 0.08
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (40 bp):
ATAAGTTGTGTATCAGCGAAGCTCCCTTGAGAACTGACGG
Found at i:9119983 original size:38 final size:40
Alignment explanation
Indices: 9119850--9119991 Score: 114
Period size: 41 Copynumber: 3.5 Consensus size: 40
9119840 AAATGGTTTT
* * * *
9119850 ATAAGTTGTGTATTAGCGAAGCT-CCCT-TCGAGAACTGATGG
1 ATAAGCTGTGTATCAGCGAAGCTGCCCTGT-GAG--CTTACGG
*
9119891 ATAAGGTGTGTATCAGCGAAGCTGCCCTTGTGAGCTTACGG
1 ATAAGCTGTGTATCAGCGAAGCTGCCC-TGTGAGCTTACGG
* * *
9119932 GTAAGTTGCGTATCAGCGAAGCT-CCC-GTGAGCTTA-GTG
1 ATAAGCTGTGTATCAGCGAAGCTGCCCTGTGAGCTTACG-G
* *
9119970 ATAAGCTATGTATCAACGAAGC
1 ATAAGCTGTGTATCAGCGAAGC
9119992 ACGAGCCAGT
Statistics
Matches: 85, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
37 1 0.01
38 27 0.32
40 3 0.04
41 46 0.54
42 3 0.04
43 4 0.05
44 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (40 bp):
ATAAGCTGTGTATCAGCGAAGCTGCCCTGTGAGCTTACGG
Found at i:9124839 original size:17 final size:16
Alignment explanation
Indices: 9124814--9124859 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
9124804 GAAATAAAAG
9124814 ATTAAAAATTTAATAA
1 ATTAAAAATTTAATAA
*
9124830 ATTGAAAAA-TTAATCA
1 ATT-AAAAATTTAATAA
9124846 ATTAAAAATATTAA
1 ATTAAAAAT-TTAA
9124860 AATTCTGGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 5 0.19
16 12 0.46
17 9 0.35
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (16 bp):
ATTAAAAATTTAATAA
Found at i:9146927 original size:22 final size:22
Alignment explanation
Indices: 9146902--9146963 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
9146892 GACACCGTAG
9146902 ACAGAACGGCTAAAAGCCATAA
1 ACAGAACGGCTAAAAGCCATAA
* * * *
9146924 ACAGAAAGGC-AGTAAGCCTTGA
1 ACAGAACGGCTA-AAAGCCATAA
*
9146946 ACAGAACGGCTACAAGCC
1 ACAGAACGGCTAAAAGCC
9146964 CAACACCTCC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
21 1 0.03
22 30 0.94
23 1 0.03
ACGTcount: A:0.44, C:0.24, G:0.23, T:0.10
Consensus pattern (22 bp):
ACAGAACGGCTAAAAGCCATAA
Found at i:9152208 original size:22 final size:22
Alignment explanation
Indices: 9152180--9152227 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
9152170 AGGCTGCCAA
9152180 AGTTATGGAAATAGAAGGTAGG
1 AGTTATGGAAATAGAAGGTAGG
9152202 AGTTATGGAAATAGAAGGTAGG
1 AGTTATGGAAATAGAAGGTAGG
9152224 AGTT
1 AGTT
9152228 CAACCACGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.35, T:0.25
Consensus pattern (22 bp):
AGTTATGGAAATAGAAGGTAGG
Found at i:9156851 original size:43 final size:43
Alignment explanation
Indices: 9156803--9156960 Score: 217
Period size: 43 Copynumber: 3.7 Consensus size: 43
9156793 ATGTTTCAAT
* *
9156803 ATCGATTTGAGATTTCGTGTAAGACCATAGTTGGGCTATTAGC
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
* *
9156846 ATCGATTTGAGATTTTGTGTAAGACAATAGCTGGGCTATTGGC
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
* * *
9156889 ATCGATTTGAGATTTTGTATAAGACCATAACTGGGCTATTGGC
1 ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
* * *
9156932 ATTGATATGAGATTTCCATGTAAGACCAT
1 ATCGATTTGAGATTT-CGTGTAAGACCAT
9156961 GTCTGAGACA
Statistics
Matches: 102, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
43 92 0.90
44 10 0.10
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (43 bp):
ATCGATTTGAGATTTCGTGTAAGACCATAGCTGGGCTATTGGC
Found at i:9168022 original size:50 final size:50
Alignment explanation
Indices: 9167898--9168186 Score: 238
Period size: 50 Copynumber: 5.7 Consensus size: 50
9167888 GATAATAACA
* * * ** * * * *
9167898 TGCCAAAGCCATGTCCCAGACATGGTTTTACAGGGGATGTTTTATGT-AT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAG
* * * * **
9167947 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAG
* * * * ** * *
9167997 TGCCCATGCCATGTTCCAAACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAG
* * *
9168047 TGCCAACGCCATGTCCTAGAGATGGTCTTACATGGGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAG
* * *
9168097 TGCCAACGGCATGTCCCAGGCATGGTCTTACATGGGATCTCTCATGATCTCAAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC-A-G
* *
9168152 ATGCAAATGCCATGTCCCAGACATGGTCTTACATG
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATG
9168187 AGATCTCTTT
Statistics
Matches: 190, Mismatches: 43, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
49 36 0.19
50 120 0.63
53 2 0.01
54 1 0.01
55 1 0.01
56 30 0.16
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAG
Found at i:9168073 original size:100 final size:105
Alignment explanation
Indices: 9167947--9168186 Score: 274
Period size: 100 Copynumber: 2.3 Consensus size: 105
9167937 TTTTATGTAT
* * ** * * *
9167947 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATCAGTGCCCATGCCATGTT
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACGCCATGTC
*
9168012 CCAAACATGGTCTTACGGGGGA-C-CTC-TCATCTC-GG-
66 CCAAACATGGTCTTACAGGGGATCTCTCATCATCTCAGGA
* * * *
9168047 TGCCAACGCCATGTCCTAGAGATGGTCTTACATGGGACCTCTCATCTCAGTGCCAACGGCATGTC
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACGCCATGTC
** * *
9168112 CCAGGCATGGTCTTACATGGGATCTCTCATGATCTCAAGGA
66 CCAAACATGGTCTTACAGGGGATCTCTCATCATCTC-AGGA
* *
9168153 TGCAAATGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATG
9168187 AGATCTCTTT
Statistics
Matches: 115, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
100 73 0.63
101 1 0.01
102 3 0.03
103 6 0.05
105 2 0.02
106 30 0.26
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.27
Consensus pattern (105 bp):
TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACGCCATGTC
CCAAACATGGTCTTACAGGGGATCTCTCATCATCTCAGGA
Found at i:9186622 original size:25 final size:25
Alignment explanation
Indices: 9186584--9186690 Score: 91
Period size: 25 Copynumber: 4.3 Consensus size: 25
9186574 GTCATTAAGG
9186584 TTACCGAT-TCTCAGCTCA-AGAGAGC
1 TTACCGATAT-TCAGCTCAGA-AGAGC
*
9186609 TTACCGATATTCAGCTC-GCATGAGC
1 TTACCGATATTCAGCTCAG-AAGAGC
* *
9186634 TTACCGTTATTCAGCTTAGAAGAGC
1 TTACCGATATTCAGCTCAGAAGAGC
9186659 TTACCG-T-TTACAGCTC-GTAAGAGC
1 TTACCGATATT-CAGCTCAG-AAGAGC
*
9186683 ATACCGAT
1 TTACCGAT
9186691 TCAGAGCTCG
Statistics
Matches: 69, Mismatches: 6, Indels: 14
0.78 0.07 0.16
Matches are distributed among these distances:
23 3 0.04
24 17 0.25
25 46 0.67
26 3 0.04
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (25 bp):
TTACCGATATTCAGCTCAGAAGAGC
Found at i:9208395 original size:45 final size:46
Alignment explanation
Indices: 9208326--9208445 Score: 147
Period size: 46 Copynumber: 2.6 Consensus size: 46
9208316 CGAAGTGTGG
*
9208326 CATAGTGTCTTTCAACCATGGTCTTATTTA-TTCTCGTCT-TGAT-GT
1 CATAGTGTCTTTCAACCATGGTCTTATTTATTTCTCGT-TGTG-TCGC
* * * *
9208371 CATAATGTCTTTCAACCATGGTCTTATATATTTTTTGTTGTGTCGC
1 CATAGTGTCTTTCAACCATGGTCTTATTTATTTCTCGTTGTGTCGC
*
9208417 CATAGTGTCTTTCAACCATGGTTTTATTT
1 CATAGTGTCTTTCAACCATGGTCTTATTT
9208446 CTTTGATTCG
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
45 30 0.47
46 34 0.53
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.47
Consensus pattern (46 bp):
CATAGTGTCTTTCAACCATGGTCTTATTTATTTCTCGTTGTGTCGC
Found at i:9208505 original size:45 final size:45
Alignment explanation
Indices: 9208456--9208579 Score: 214
Period size: 45 Copynumber: 2.8 Consensus size: 45
9208446 CTTTGATTCG
*
9208456 TGATGCCATAGCGTCTTTCAG-CTATGGTCTTACTCGATAGAATCA
1 TGATGCCATAACGTCTTTCAGTC-ATGGTCTTACTCGATAGAATCA
*
9208501 TGATGCCATAACGTCTTTCAATCATGGTCTTACTCGATAGAATCA
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCA
9208546 TGATGCCATAACGTCTTTCAGTCATGGTCTTACT
1 TGATGCCATAACGTCTTTCAGTCATGGTCTTACT
9208580 TGTTTCTGGT
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
45 74 0.99
46 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.35
Consensus pattern (45 bp):
TGATGCCATAACGTCTTTCAGTCATGGTCTTACTCGATAGAATCA
Found at i:9208610 original size:45 final size:46
Alignment explanation
Indices: 9208569--9208668 Score: 157
Period size: 46 Copynumber: 2.2 Consensus size: 46
9208559 TCTTTCAGTC
* * *
9208569 ATGGTCTTACTTGTT-TCTGGTATGGTGTCATAGTGTATTTCAACT
1 ATGGTCTTACTTCTTCTCTGGTATGGTGCCATAATGTATTTCAACT
*
9208614 ATGGTCTTATTTCTTCTCTGGTATGGTGCCATAATGTATTTCAACT
1 ATGGTCTTACTTCTTCTCTGGTATGGTGCCATAATGTATTTCAACT
9208660 ATGGTCTTA
1 ATGGTCTTA
9208669 ATCATTTTCC
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 13 0.26
46 37 0.74
ACGTcount: A:0.19, C:0.15, G:0.20, T:0.46
Consensus pattern (46 bp):
ATGGTCTTACTTCTTCTCTGGTATGGTGCCATAATGTATTTCAACT
Found at i:9210306 original size:16 final size:16
Alignment explanation
Indices: 9210285--9210317 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
9210275 GAAAAAGGAC
9210285 TAAATTGACTAACCGA
1 TAAATTGACTAACCGA
9210301 TAAATTGACTAACCGA
1 TAAATTGACTAACCGA
9210317 T
1 T
9210318 TGAAGTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.27
Consensus pattern (16 bp):
TAAATTGACTAACCGA
Found at i:9211135 original size:80 final size:80
Alignment explanation
Indices: 9211002--9211162 Score: 322
Period size: 80 Copynumber: 2.0 Consensus size: 80
9210992 TACTGAAACT
9211002 AAAGTTGATTCAACGATGGTATTAGCAGTTGATTTATTTGATTTTTTTTATGTTTTGTTTGTTTG
1 AAAGTTGATTCAACGATGGTATTAGCAGTTGATTTATTTGATTTTTTTTATGTTTTGTTTGTTTG
9211067 GATTCATTATTCTTC
66 GATTCATTATTCTTC
9211082 AAAGTTGATTCAACGATGGTATTAGCAGTTGATTTATTTGATTTTTTTTATGTTTTGTTTGTTTG
1 AAAGTTGATTCAACGATGGTATTAGCAGTTGATTTATTTGATTTTTTTTATGTTTTGTTTGTTTG
9211147 GATTCATTATTCTTC
66 GATTCATTATTCTTC
9211162 A
1 A
9211163 TACTTCTTAA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.22, C:0.07, G:0.17, T:0.53
Consensus pattern (80 bp):
AAAGTTGATTCAACGATGGTATTAGCAGTTGATTTATTTGATTTTTTTTATGTTTTGTTTGTTTG
GATTCATTATTCTTC
Found at i:9212265 original size:35 final size:35
Alignment explanation
Indices: 9212191--9212312 Score: 102
Period size: 35 Copynumber: 3.5 Consensus size: 35
9212181 CCTTGGAAGT
* * * ** *
9212191 GTCTATCCCAACCTTTTTAAGGTTGCCTTAGTTGG
1 GTCTATCCCAACCTTTTAAAGGTTACATTAGACGA
*
9212226 GTCTATCCGAACCTTTTAAAGGTTACATTAGACGA
1 GTCTATCCCAACCTTTTAAAGGTTACATTAGACGA
* * * * *
9212261 GTCTATCCCAGCCTTTTTAAA-ATTTCCTTAGACGG
1 GTCTATCCCAACC-TTTTAAAGGTTACATTAGACGA
* *
9212296 GTCTACCCCAACATTTT
1 GTCTATCCCAACCTTTT
9212313 CTAAAAGTCG
Statistics
Matches: 70, Mismatches: 16, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
34 4 0.06
35 59 0.84
36 7 0.10
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.36
Consensus pattern (35 bp):
GTCTATCCCAACCTTTTAAAGGTTACATTAGACGA
Found at i:9214511 original size:17 final size:17
Alignment explanation
Indices: 9214491--9214523 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9214481 TTTATTTAAC
*
9214491 TAAATTAATTTCTCAAT
1 TAAATTAACTTCTCAAT
9214508 TAAATTAACTTCTCAA
1 TAAATTAACTTCTCAA
9214524 CCCAATTCTA
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:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATTAACTTCTCAAT
Found at i:9236793 original size:43 final size:43
Alignment explanation
Indices: 9236677--9236792 Score: 171
Period size: 43 Copynumber: 2.7 Consensus size: 43
9236667 CAACCCATGT
*
9236677 TTATC-TCTTCCTCGTTTTAAATTCTTTTTTCAACAACCAAAAA
1 TTATCTTC-TCCTCTTTTTAAATTCTTTTTTCAACAACCAAAAA
* * *
9236720 TTATCTTCTCCTCTTTTTAAGTTCTTTTTTCAACAACCTAAGA
1 TTATCTTCTCCTCTTTTTAAATTCTTTTTTCAACAACCAAAAA
9236763 TTATCTTCTCCTCTTTTTAAATTGCTTTTT
1 TTATCTTCTCCTCTTTTTAAATT-CTTTTT
9236793 CTAGGATAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
43 58 0.88
44 8 0.12
ACGTcount: A:0.23, C:0.22, G:0.03, T:0.51
Consensus pattern (43 bp):
TTATCTTCTCCTCTTTTTAAATTCTTTTTTCAACAACCAAAAA
Found at i:9241820 original size:18 final size:17
Alignment explanation
Indices: 9241797--9241846 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
9241787 AGTGAATGGA
* *
9241797 AAAGTGAATTTGATATTT
1 AAAGTGAATTTGA-AATG
9241815 AAAGTGAATTTTGAAATG
1 AAAGTGAA-TTTGAAATG
9241833 AAAGTGAATTTGAA
1 AAAGTGAATTTGAA
9241847 TTGTGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 6 0.21
18 18 0.62
19 5 0.17
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (17 bp):
AAAGTGAATTTGAAATG
Found at i:9244427 original size:42 final size:43
Alignment explanation
Indices: 9244344--9244457 Score: 185
Period size: 42 Copynumber: 2.7 Consensus size: 43
9244334 ACTCATGTTG
* *
9244344 ATCTTTTCCTCGTTTTAAATTCTTTTTTCAACAACCAAATATT
1 ATCTTCTCCTCTTTTTAAATTCTTTTTTCAACAACCAAATATT
*
9244387 ATCTTCTCCTCTTTTTAAATT-TTTTTTCAACAACCCAATATT
1 ATCTTCTCCTCTTTTTAAATTCTTTTTTCAACAACCAAATATT
*
9244429 ATCTTCTCCTCTTTTTAAATTCTCTTTTC
1 ATCTTCTCCTCTTTTTAAATTCTTTTTTC
9244458 TAGGATAAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
42 41 0.62
43 25 0.38
ACGTcount: A:0.24, C:0.24, G:0.01, T:0.52
Consensus pattern (43 bp):
ATCTTCTCCTCTTTTTAAATTCTTTTTTCAACAACCAAATATT
Found at i:9246353 original size:137 final size:139
Alignment explanation
Indices: 9246107--9246387 Score: 548
Period size: 137 Copynumber: 2.0 Consensus size: 139
9246097 ATAAAAGTAT
9246107 AATCATTAGAATCTTCGTATAGTTCTGGCCAAACAAAGAAAGAATCTTTATATAGTTTGTATCGT
1 AATCATTAGAATCTTCGTATAGTTCTGGCCAAACAAAGAAAGAATCTTTATATAGTTTGTATCGT
9246172 GATCAATATAAGTTAAGAATTAAGAATTTAATATTTAAAATAAATTTAGATTAATTACTGTT-AA
66 GATCAATATAAGTTAAGAATTAAGAATTTAATATTTAAAATAAATTTAGATTAATTACTGTTAAA
9246236 -ATATTCAA
131 TATATTCAA
9246244 AATCATTAGAATCTTCGTATAGTTCTGGCCAAACAAAGAAAGAATCTTTATATAGTTTGTATCGT
1 AATCATTAGAATCTTCGTATAGTTCTGGCCAAACAAAGAAAGAATCTTTATATAGTTTGTATCGT
9246309 GATCAATATAAGTTAAGAATTAAGAATTTAATATTTAAAATAAATTTAGATTAATTACTGTTAAA
66 GATCAATATAAGTTAAGAATTAAGAATTTAATATTTAAAATAAATTTAGATTAATTACTGTTAAA
9246374 TATATTCAA
131 TATATTCAA
9246383 AATCA
1 AATCA
9246388 AATAATAATT
Statistics
Matches: 142, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
137 127 0.89
138 2 0.01
139 13 0.09
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (139 bp):
AATCATTAGAATCTTCGTATAGTTCTGGCCAAACAAAGAAAGAATCTTTATATAGTTTGTATCGT
GATCAATATAAGTTAAGAATTAAGAATTTAATATTTAAAATAAATTTAGATTAATTACTGTTAAA
TATATTCAA
Found at i:9247485 original size:10 final size:10
Alignment explanation
Indices: 9247470--9247500 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
9247460 TCACAGAATG
9247470 AAAACTTTTA
1 AAAACTTTTA
9247480 AAAACTTTTA
1 AAAACTTTTA
9247490 AAAACTTTTA
1 AAAACTTTTA
9247500 A
1 A
9247501 TAGGAAAGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.39
Consensus pattern (10 bp):
AAAACTTTTA
Found at i:9248717 original size:17 final size:17
Alignment explanation
Indices: 9248695--9248727 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
9248685 GTGGAATCGT
9248695 GTATGCATGTAATATGG
1 GTATGCATGTAATATGG
9248712 GTATGCATGTAATATG
1 GTATGCATGTAATATG
9248728 ATTAGCGATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.36
Consensus pattern (17 bp):
GTATGCATGTAATATGG
Done.