Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 43 of 290
Found at i:14375646 original size:17 final size:17
Alignment explanation
Indices: 14375624--14375662 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
14375614 TAATGTTAAA
*
14375624 TAATATTAAATAATATT
1 TAATATTAAAAAATATT
14375641 TAATATTAAAAAATATT
1 TAATATTAAAAAATATT
*
14375658 AAATA
1 TAATA
14375663 ATGTTACAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAATATTAAAAAATATT
Found at i:14377923 original size:13 final size:14
Alignment explanation
Indices: 14377897--14377937 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
14377887 CAAAAATCAA
14377897 GTTAGTAGAATCGG
1 GTTAGTAGAATCGG
14377911 GTTAGTA-AATCGGGG
1 GTTAGTAGAATC--GG
14377926 GTTAGT-GAATCG
1 GTTAGTAGAATCG
14377938 AAAATTATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 5 0.21
14 7 0.29
15 12 0.50
ACGTcount: A:0.27, C:0.07, G:0.37, T:0.29
Consensus pattern (14 bp):
GTTAGTAGAATCGG
Found at i:14381967 original size:158 final size:158
Alignment explanation
Indices: 14381679--14381995 Score: 625
Period size: 158 Copynumber: 2.0 Consensus size: 158
14381669 GAGGTTTTGA
14381679 TCTATGATTTTAGAATGAAGTAATCTTATTTGCTACTATTTGTAATGCCTTTTTATTGTATATGA
1 TCTATGATTTTAGAATGAAGTAATCTTATTTGCTACTATTTGTAATGCCTTTTTATTGTATATGA
14381744 TGTGTATGTAAAGTACCAACTCATTTGGAAGCCTTTAAAAGCAAGGGCAAAGGCAAACAAAAAAC
66 TGTGTATGTAAAGTACCAACTCATTTGGAAGCCTTTAAAAGCAAGGGCAAAGGCAAACAAAAAAC
14381809 TTACTTAAGCTTTGTGCTGGAAGCTAGT
131 TTACTTAAGCTTTGTGCTGGAAGCTAGT
14381837 TCTATGATTTTAGAATGAAGTAATCTTATTTGCTACTATTTGTAATGCCTTTTTATTGTATATGA
1 TCTATGATTTTAGAATGAAGTAATCTTATTTGCTACTATTTGTAATGCCTTTTTATTGTATATGA
14381902 TGTGTATGTAAAGTACCAACTCATTTGGAAGCCTTTAAAAGCAAGGGCAAAGGCAAACAAAAAAC
66 TGTGTATGTAAAGTACCAACTCATTTGGAAGCCTTTAAAAGCAAGGGCAAAGGCAAACAAAAAAC
*
14381967 TTACTTGAGCTTTGTGCTGGAAGCTAGT
131 TTACTTAAGCTTTGTGCTGGAAGCTAGT
14381995 T
1 T
14381996 ACTAAGGTGA
Statistics
Matches: 158, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
158 158 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (158 bp):
TCTATGATTTTAGAATGAAGTAATCTTATTTGCTACTATTTGTAATGCCTTTTTATTGTATATGA
TGTGTATGTAAAGTACCAACTCATTTGGAAGCCTTTAAAAGCAAGGGCAAAGGCAAACAAAAAAC
TTACTTAAGCTTTGTGCTGGAAGCTAGT
Found at i:14382298 original size:18 final size:18
Alignment explanation
Indices: 14382275--14382310 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
14382265 GTAGTGAATT
14382275 ATATGAA-AGTGATAAGTG
1 ATATGAAGA-TGATAAGTG
14382293 ATATGAAGATGATAAGTG
1 ATATGAAGATGATAAGTG
14382311 TGAGTGTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 16 0.94
19 1 0.06
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (18 bp):
ATATGAAGATGATAAGTG
Found at i:14394817 original size:40 final size:40
Alignment explanation
Indices: 14394628--14394810 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 40
14394618 GAATGATGTT
* * * *
14394628 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATC
* * * *
14394668 CGGACTAAGAT-CCGAAGGCATTTGTGGGAGATACTAATTC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATC
* *
14394708 CGGGCTAAG-CCCGAAGGTATTGGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
* *
14394747 CGAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-C
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATC
*
14394787 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
14394811 AACGAGTAGC
Statistics
Matches: 117, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
39 31 0.26
40 77 0.66
41 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
Found at i:14394833 original size:79 final size:79
Alignment explanation
Indices: 14394679--14394833 Score: 181
Period size: 79 Copynumber: 2.0 Consensus size: 79
14394669 GGACTAAGAT
* * * **
14394679 CCGAAGGCATTTGTGGGAGATACTAATTCCGGGCTAAGCCCGAAGGTATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
14394744 ATCCGAGTTAAGTC
66 ATCCGAGTTAAGTC
* * *
14394758 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
14394821 TATATCCG-GTTAA
63 TAAATCCGAGTTAA
14394834 ATTTCGAAGG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
78 2 0.03
79 38 0.59
80 24 0.38
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGAGTTAAGTC
Found at i:14396535 original size:30 final size:30
Alignment explanation
Indices: 14396497--14396577 Score: 101
Period size: 30 Copynumber: 2.7 Consensus size: 30
14396487 CTTACAAGGA
*
14396497 CATTCAGGAACATGGGAAGACCCAATATCT
1 CATTCAGGAACTTGGGAAGACCCAATATCT
* * * *
14396527 CGTTCAGGATCTTAGGAAGACTCAATATCT
1 CATTCAGGAACTTGGGAAGACCCAATATCT
14396557 CATTCA-GAAGCTTGGGAAGAC
1 CATTCAGGAA-CTTGGGAAGAC
14396578 TTGATATCGG
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
29 2 0.05
30 40 0.95
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.23
Consensus pattern (30 bp):
CATTCAGGAACTTGGGAAGACCCAATATCT
Found at i:14401722 original size:87 final size:86
Alignment explanation
Indices: 14401619--14401782 Score: 231
Period size: 87 Copynumber: 1.9 Consensus size: 86
14401609 AAATTTAAAT
* *
14401619 TCGGTGAATTCATCAAGTCCGTCTCACTATGACCACCCAAA-CTCTAGGATATGAACTCATTAAG
1 TCGGTGAATTCATCAAGTCCGTCTCAATAAGACCACCCAAATC-CTAGGATATGAACTCATTAAG
14401683 AGTAATAAACTCAATGTCACATG
65 AGTAAT-AACTCAATGTCACATG
* * * **
14401706 TCGGTGAATTCGTCAAGTCCGTCTCAATAAGACCACCCAAATCCTATGATATGAATTTGTTAAGA
1 TCGGTGAATTCATCAAGTCCGTCTCAATAAGACCACCCAAATCCTAGGATATGAACTCATTAAGA
*
14401771 GTGATAACTCAA
66 GTAATAACTCAA
14401783 CATTATACAT
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
86 7 0.10
87 60 0.88
88 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (86 bp):
TCGGTGAATTCATCAAGTCCGTCTCAATAAGACCACCCAAATCCTAGGATATGAACTCATTAAGA
GTAATAACTCAATGTCACATG
Found at i:14403172 original size:26 final size:26
Alignment explanation
Indices: 14403143--14403205 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
14403133 TGGTTCTCCA
***
14403143 ACCAACTCAAACTCAAGGGCCCTTTG
1 ACCAACTCAAACTCAAGAAACCTTTG
*
14403169 ACCATCTCAAACTCAAGAAACCTTTG
1 ACCAACTCAAACTCAAGAAACCTTTG
14403195 ACCAACTCAAA
1 ACCAACTCAAA
14403206 TAGGAAGATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.38, C:0.33, G:0.10, T:0.19
Consensus pattern (26 bp):
ACCAACTCAAACTCAAGAAACCTTTG
Found at i:14410891 original size:45 final size:46
Alignment explanation
Indices: 14410828--14410926 Score: 150
Period size: 45 Copynumber: 2.2 Consensus size: 46
14410818 TATATTTTAG
**
14410828 GTAGAAAAAGGGTGAATTATCAAGTTATGGGCTTAA-GAACTAAGTT
1 GTAGAAAAAAAGTGAATTATCAAGTTATGGGCTTAACG-ACTAAGTT
14410874 -TAGAAAAAAAGTGAATTATCAAGTTATGGGCTTAACGACTAAGTT
1 GTAGAAAAAAAGTGAATTATCAAGTTATGGGCTTAACGACTAAGTT
14410919 GT-GAAAAA
1 GTAGAAAAA
14410927 GTTAAAATAG
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
45 47 0.96
46 2 0.04
ACGTcount: A:0.42, C:0.07, G:0.23, T:0.27
Consensus pattern (46 bp):
GTAGAAAAAAAGTGAATTATCAAGTTATGGGCTTAACGACTAAGTT
Found at i:14411440 original size:26 final size:27
Alignment explanation
Indices: 14411409--14411495 Score: 117
Period size: 26 Copynumber: 3.3 Consensus size: 27
14411399 GACCCACAGC
*
14411409 TCGTGTAAGTAGGCCCATTTCACAACT
1 TCGTGTGAGTAGGCCCATTTCACAACT
* *
14411436 T-GTGTGAGCAGGCCCATTTCAC-ATT
1 TCGTGTGAGTAGGCCCATTTCACAACT
*
14411461 TCGTGTGAGTAGGCCCATTTCACAGC-
1 TCGTGTGAGTAGGCCCATTTCACAACT
14411487 TCGTGTGAG
1 TCGTGTGAG
14411496 CACTATTGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
25 3 0.06
26 48 0.92
27 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.25, T:0.30
Consensus pattern (27 bp):
TCGTGTGAGTAGGCCCATTTCACAACT
Found at i:14413763 original size:33 final size:34
Alignment explanation
Indices: 14413691--14413763 Score: 105
Period size: 34 Copynumber: 2.2 Consensus size: 34
14413681 TTAGTGGCAA
*
14413691 TATCAGTGTGGGCCTTAGCCCATTACAGTAATAG
1 TATCAGTGTGGGCCTGAGCCCATTACAGTAATAG
*
14413725 TATCAGTGTGGGCCTGAGCCCAATT-TAGT-ATAG
1 TATCAGTGTGGGCCTGAGCCC-ATTACAGTAATAG
14413758 TATCAG
1 TATCAG
14413764 AGATATAAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
33 10 0.28
34 23 0.64
35 3 0.08
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (34 bp):
TATCAGTGTGGGCCTGAGCCCATTACAGTAATAG
Found at i:14421386 original size:34 final size:34
Alignment explanation
Indices: 14421369--14421444 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
14421359 ATATCAGTGG
14421369 CAATATCAGTGTGGGCCTTAGCCCATTACAGTAA
1 CAATATCAGTGTGGGCCTTAGCCCATTACAGTAA
*
14421403 CAGTATCAGTGTGGGCCTTAGCCCAATT-CAGT-A
1 CAATATCAGTGTGGGCCTTAGCCC-ATTACAGTAA
*
14421436 TAATATCAG
1 CAATATCAG
14421445 AGATGCAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
33 8 0.21
34 27 0.71
35 3 0.08
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (34 bp):
CAATATCAGTGTGGGCCTTAGCCCATTACAGTAA
Found at i:14424702 original size:44 final size:44
Alignment explanation
Indices: 14424613--14424726 Score: 144
Period size: 44 Copynumber: 2.6 Consensus size: 44
14424603 CACCAACGTT
* * * *
14424613 CCAGACGTGGTCTTACATGT-AATCACATATCGATGCCACTATC
1 CCAGACGTGGTCTTACACGTAAATCACAAATCAATGCCAATATC
*
14424656 CCAGACAG-GGTCTTACACGTAAATCACAAATCAATGCCAATGTC
1 CCAGAC-GTGGTCTTACACGTAAATCACAAATCAATGCCAATATC
*
14424700 CCAAACGTGGTCTTACACG-AAATCACA
1 CCAGACGTGGTCTTACACGTAAATCACA
14424727 TATCCGAACC
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
43 26 0.42
44 36 0.58
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (44 bp):
CCAGACGTGGTCTTACACGTAAATCACAAATCAATGCCAATATC
Found at i:14424743 original size:44 final size:43
Alignment explanation
Indices: 14424617--14424743 Score: 109
Period size: 44 Copynumber: 2.9 Consensus size: 43
14424607 AACGTTCCAG
* * * *
14424617 ACGTGGTCTTACATGTAATCACATATCGATGCCACTA--TCCCAG
1 ACGTGGTCTTACACGAAATCACATATCGA-ACC-CTATGTCCCAA
* * *
14424660 ACAG-GGTCTTACACGTAAATCACAAATC-AATGCCAATGTCCCAA
1 AC-GTGGTCTTACACG-AAATCACATATCGAA-CCCTATGTCCCAA
14424704 ACGTGGTCTTACACGAAATCACATATCCGAACCCTATGTC
1 ACGTGGTCTTACACGAAATCACATAT-CGAACCCTATGTC
14424744 ATGACATATG
Statistics
Matches: 66, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
42 2 0.03
43 25 0.38
44 37 0.56
45 2 0.03
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.24
Consensus pattern (43 bp):
ACGTGGTCTTACACGAAATCACATATCGAACCCTATGTCCCAA
Found at i:14425643 original size:17 final size:17
Alignment explanation
Indices: 14425621--14425655 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
14425611 ATATTAACTT
14425621 ATATTACTAATTTACAA
1 ATATTACTAATTTACAA
14425638 ATATTACTAATTTACAA
1 ATATTACTAATTTACAA
14425655 A
1 A
14425656 ACTAACCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATTACTAATTTACAA
Found at i:14431866 original size:19 final size:20
Alignment explanation
Indices: 14431827--14431869 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
14431817 TTTTGTAAAG
*
14431827 TTTGTAAAATAGATGGTAAT
1 TTTGTAAAATAGATGGAAAT
*
14431847 TTTGTGAAATA-ATGGAAAT
1 TTTGTAAAATAGATGGAAAT
14431866 TTTG
1 TTTG
14431870 GGTTTCTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (20 bp):
TTTGTAAAATAGATGGAAAT
Found at i:14432578 original size:49 final size:49
Alignment explanation
Indices: 14432475--14432605 Score: 140
Period size: 49 Copynumber: 2.7 Consensus size: 49
14432465 TATTGTGTGT
** *
14432475 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATAAGAGC
1 CAGTGTAAGACCTGTCTGGGACACAGCATCGACACTAATAGATAAGAGC
* * *
14432524 CAGTGTAAGACCTGTTTGGGACACAGCATCGGC-CTCAATATATGAA-AGC
1 CAGTGTAAGACCTGTCTGGGACACAGCATCGACACT-AATAGAT-AAGAGC
* * **
14432573 TAGTGTAAGACCTGTCTAGGACATGGCATCGAC
1 CAGTGTAAGACCTGTCTGGGACACAGCATCGAC
14432606 TTTGATGTGC
Statistics
Matches: 68, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
48 2 0.03
49 64 0.94
50 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACACAGCATCGACACTAATAGATAAGAGC
Found at i:14432583 original size:142 final size:144
Alignment explanation
Indices: 14432378--14432647 Score: 363
Period size: 142 Copynumber: 1.9 Consensus size: 144
14432368 TAGTGAGACG
* * * *
14432378 AGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCTGGTGTAAGACC
1 AGAGCCAGTGTAAGACATGTCTGGGACAAGCATCGGCCTCAAGATATACAAGCTAGTGTAAGACC
* * *
14432443 TGTCTGGGACATGGCGTC-AGC-TTATTGTG-T-GTCAGTGTAAGACC-TGTCTGGGACATGGCA
66 TGTCTAGGACATGGCATCGA-CTTTA-TGTGCTAGCCAGTGTAAGACCATGTCTGGGACATGGCA
14432503 TCGACACTGATAGATA
129 TCGACACTGATAGATA
* * *
14432519 AGAGCCAGTGTAAGACCTGTTTGGGACACAGCATCGGCCTCAATATATGA-AAGCTAGTGTAAGA
1 AGAGCCAGTGTAAGACATGTCTGGGACA-AGCATCGGCCTCAAGATAT-ACAAGCTAGTGTAAGA
14432583 CCTGTCTAGGACATGGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGACATGGC
64 CCTGTCTAGGACATGGCATCGACTTT-ATGTGCTAGCCAGTGTAAGACCATGTCTGGGACATGGC
14432648 GTCAGCATCT
Statistics
Matches: 111, Mismatches: 10, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
141 25 0.23
142 48 0.43
143 8 0.07
144 2 0.02
145 13 0.12
146 15 0.14
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (144 bp):
AGAGCCAGTGTAAGACATGTCTGGGACAAGCATCGGCCTCAAGATATACAAGCTAGTGTAAGACC
TGTCTAGGACATGGCATCGACTTTATGTGCTAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
GACACTGATAGATA
Found at i:14435969 original size:28 final size:28
Alignment explanation
Indices: 14435938--14436062 Score: 117
Period size: 28 Copynumber: 4.5 Consensus size: 28
14435928 ATATTTTCCT
14435938 TCGCACACTTAGTGCTCGATAATCAAAC
1 TCGCACACTTAGTGCTCGATAATCAAAC
* ** ****
14435966 TCGCACACATAGTGCTTAAT-ATTTTCC
1 TCGCACACTTAGTGCTCGATAATCAAAC
* *
14435993 TTTGCATACTTAGTGCTCGATAATCAAAC
1 -TCGCACACTTAGTGCTCGATAATCAAAC
* * *
14436022 TCGCACACTTAGTGCTCGTTAACCGAAC
1 TCGCACACTTAGTGCTCGATAATCAAAC
*
14436050 TCGCACGCTTAGT
1 TCGCACACTTAGT
14436063 AAAATTTTCA
Statistics
Matches: 73, Mismatches: 22, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
27 3 0.04
28 67 0.92
29 3 0.04
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.30
Consensus pattern (28 bp):
TCGCACACTTAGTGCTCGATAATCAAAC
Found at i:14436004 original size:56 final size:56
Alignment explanation
Indices: 14435913--14436037 Score: 214
Period size: 56 Copynumber: 2.2 Consensus size: 56
14435903 CATGAAATCA
*
14435913 CACACTTAGTTCTTAATATTTTCCTTCGCACACTTAGTGCTCGATAATCAAACTCG
1 CACACTTAGTGCTTAATATTTTCCTTCGCACACTTAGTGCTCGATAATCAAACTCG
* * *
14435969 CACACATAGTGCTTAATATTTTCCTTTGCATACTTAGTGCTCGATAATCAAACTCG
1 CACACTTAGTGCTTAATATTTTCCTTCGCACACTTAGTGCTCGATAATCAAACTCG
14436025 CACACTTAGTGCT
1 CACACTTAGTGCT
14436038 CGTTAACCGA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.27, C:0.26, G:0.12, T:0.35
Consensus pattern (56 bp):
CACACTTAGTGCTTAATATTTTCCTTCGCACACTTAGTGCTCGATAATCAAACTCG
Found at i:14440191 original size:10 final size:10
Alignment explanation
Indices: 14440176--14440201 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
14440166 TCTATTTACA
14440176 AAAAAAAAAG
1 AAAAAAAAAG
14440186 AAAAAAAAAG
1 AAAAAAAAAG
14440196 AAAAAA
1 AAAAAA
14440202 GATGGTAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:14449908 original size:24 final size:24
Alignment explanation
Indices: 14449877--14449926 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
14449867 GGATGATGTA
14449877 TATTGAAGGAAGTGTTCTGAAAGG
1 TATTGAAGGAAGTGTTCTGAAAGG
14449901 TATTGAAGGAAGTGTTCTGAAAGG
1 TATTGAAGGAAGTGTTCTGAAAGG
14449925 TA
1 TA
14449927 GAGTATGCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.34, C:0.04, G:0.32, T:0.30
Consensus pattern (24 bp):
TATTGAAGGAAGTGTTCTGAAAGG
Found at i:14474355 original size:50 final size:50
Alignment explanation
Indices: 14474280--14474379 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
14474270 CTTAAGTGAA
14474280 GATAACAAGTTGGACGACTTTTAACTTGCTAAGGTTTTTCTAAAAAGCAC
1 GATAACAAGTTGGACGACTTTTAACTTGCTAAGGTTTTTCTAAAAAGCAC
14474330 GATAACAAGTTGGACGACTTTTAACTTGCTAAGGTTTTTCTAAAAAGCAC
1 GATAACAAGTTGGACGACTTTTAACTTGCTAAGGTTTTTCTAAAAAGCAC
14474380 TCACATGTGA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (50 bp):
GATAACAAGTTGGACGACTTTTAACTTGCTAAGGTTTTTCTAAAAAGCAC
Found at i:14475458 original size:18 final size:18
Alignment explanation
Indices: 14475429--14475486 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
14475419 CATTCTATAT
* *
14475429 CATTTTTCATTTCAATGC
1 CATTTGTCATTTCAATAC
*
14475447 CATTTG-CTATTTCAATAT
1 CATTTGTC-ATTTCAATAC
*
14475465 CATTTGTCATTTCAATAT
1 CATTTGTCATTTCAATAC
14475483 CATT
1 CATT
14475487 ATCTAGATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.03
18 33 0.94
19 1 0.03
ACGTcount: A:0.26, C:0.19, G:0.05, T:0.50
Consensus pattern (18 bp):
CATTTGTCATTTCAATAC
Found at i:14478948 original size:43 final size:43
Alignment explanation
Indices: 14478735--14478949 Score: 283
Period size: 43 Copynumber: 5.0 Consensus size: 43
14478725 TGTGATTTCT
* * * *
14478735 ATATGTGATTACGTGTAAGACCTCGTCTAGGTCGTTGGGATCG
1 ATATGTGATTACGTGTAAGACCTCGTCTGGGACGTTGGCATTG
* *
14478778 ATATGTTACTACGTGTAAGACCTCGTCTGGGACGTTGGCATTG
1 ATATGTGATTACGTGTAAGACCTCGTCTGGGACGTTGGCATTG
*
14478821 ATATGTGATTACGTGTAAGACCTCGTCTGGGACGTTGGCATCG
1 ATATGTGATTACGTGTAAGACCTCGTCTGGGACGTTGGCATTG
*
14478864 ATATGTGATTACGTGTAAAACC-CTGTCTGGGACAG-TGGCATTG
1 ATATGTGATTACGTGTAAGACCTC-GTCTGGGAC-GTTGGCATTG
* * *
14478907 ATATGTGATTACATGTAAGACCAT-GTTTGGGACATTGGCATTG
1 ATATGTGATTACGTGTAAGACC-TCGTCTGGGACGTTGGCATTG
14478950 TACAATATGT
Statistics
Matches: 152, Mismatches: 15, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
42 1 0.01
43 150 0.99
44 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.32
Consensus pattern (43 bp):
ATATGTGATTACGTGTAAGACCTCGTCTGGGACGTTGGCATTG
Found at i:14480271 original size:13 final size:14
Alignment explanation
Indices: 14480243--14480275 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
14480233 CATTTCGACC
*
14480243 ATGTTTATATTTAT
1 ATGTTTATATTGAT
14480257 ATGTTT-TATTGAT
1 ATGTTTATATTGAT
14480270 ATGTTT
1 ATGTTT
14480276 GTTTTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (14 bp):
ATGTTTATATTGAT
Found at i:14491377 original size:49 final size:49
Alignment explanation
Indices: 14491251--14492219 Score: 1819
Period size: 49 Copynumber: 19.9 Consensus size: 49
14491241 CCCTTCGGGA
* * * *
14491251 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
14491298 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14491345 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14491394 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14491443 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14491492 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14491541 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14491590 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14491639 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14491688 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14491737 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14491786 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14491835 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14491884 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14491933 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14491982 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14492031 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14492080 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
14492127 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14492176 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
14492220 CGCCATACTA
Statistics
Matches: 906, Mismatches: 10, Indels: 12
0.98 0.01 0.01
Matches are distributed among these distances:
46 1 0.00
47 126 0.14
49 779 0.86
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:14504267 original size:13 final size:13
Alignment explanation
Indices: 14504249--14504273 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14504239 TGTTGGTACA
14504249 CACGACCGTGTCT
1 CACGACCGTGTCT
14504262 CACGACCGTGTC
1 CACGACCGTGTC
14504274 CTACTGCGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.40, G:0.24, T:0.20
Consensus pattern (13 bp):
CACGACCGTGTCT
Found at i:14516031 original size:34 final size:35
Alignment explanation
Indices: 14515960--14516031 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 35
14515950 CGTATCCTAG
* *
14515960 CTACAGTCTCAGTCTTCTAAAGTTTTCAGTTTTCC
1 CTACAGTCTCAATCTTCTAAAGTTTTCAGTTTACC
* *
14515995 CTACTGTCTCAAT-TTCTACAGTTTT-AGTATTACC
1 CTACAGTCTCAATCTTCTAAAGTTTTCAGT-TTACC
14516029 CTA
1 CTA
14516032 ACTACAGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 3 0.09
34 18 0.56
35 11 0.34
ACGTcount: A:0.22, C:0.25, G:0.10, T:0.43
Consensus pattern (35 bp):
CTACAGTCTCAATCTTCTAAAGTTTTCAGTTTACC
Found at i:14531932 original size:75 final size:75
Alignment explanation
Indices: 14531846--14531993 Score: 287
Period size: 75 Copynumber: 2.0 Consensus size: 75
14531836 TGAGAAAGTT
14531846 TTGAAATGTGATAGGTCAAAGCATAAGGACCTATTAGTGCATGTTGAAAAAGGGGGGACTTGCAT
1 TTGAAATGTGATAGGTCAAAGCATAAGGACCTATTAGTGCATGTTGAAAAAGGGGGGACTTGCAT
14531911 GTCAATTTCC
66 GTCAATTTCC
*
14531921 TTGAAATGTGATAGGTCAAAGCATAAGGACCTATTAGTGCATGTTGAAAAAGTGGGGACTTGCAT
1 TTGAAATGTGATAGGTCAAAGCATAAGGACCTATTAGTGCATGTTGAAAAAGGGGGGACTTGCAT
14531986 GTCAATTT
66 GTCAATTT
14531994 GCCCCCTCTA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 72 1.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.29
Consensus pattern (75 bp):
TTGAAATGTGATAGGTCAAAGCATAAGGACCTATTAGTGCATGTTGAAAAAGGGGGGACTTGCAT
GTCAATTTCC
Found at i:14533647 original size:40 final size:40
Alignment explanation
Indices: 14533495--14533640 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
14533485 TTGAATGATG
* * * *
14533495 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAA
* *
14533535 TCCGGACTAAGAT-TCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
14533575 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
14533616 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
14533641 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 79 0.87
41 11 0.12
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:14533647 original size:80 final size:80
Alignment explanation
Indices: 14533495--14533663 Score: 184
Period size: 80 Copynumber: 2.1 Consensus size: 80
14533485 TTGAATGATG
* * * *
14533495 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAGGTGACCATATCCGGACTAAGATTCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
14533560 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * *
14533575 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-GTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCGAGGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
*
14533638 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
14533655 TCC-GGTTAA
1 TCCGGGTTAA
14533664 ATTTCGAAGG
Statistics
Matches: 75, Mismatches: 11, Indels: 7
0.81 0.12 0.08
Matches are distributed among these distances:
79 9 0.12
80 58 0.77
81 8 0.11
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:14542939 original size:33 final size:33
Alignment explanation
Indices: 14542897--14542962 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
14542887 ATCATCGAAC
*
14542897 TTGAACGTCGTGTCCTTCTCCAATAATTTGCAT
1 TTGAACGTCGTGTACTTCTCCAATAATTTGCAT
14542930 TTGAACGTCGTGTACTTCTCCAATAATTTGCAT
1 TTGAACGTCGTGTACTTCTCCAATAATTTGCAT
14542963 AAGGGTTTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (33 bp):
TTGAACGTCGTGTACTTCTCCAATAATTTGCAT
Found at i:14563055 original size:46 final size:46
Alignment explanation
Indices: 14562998--14563115 Score: 209
Period size: 46 Copynumber: 2.6 Consensus size: 46
14562988 AAAAACATCT
* *
14562998 ACCCACTATCAAGAATGATAGGAACCTTGGTATATGATGAACCTCG
1 ACCCACTATCAAGGATGATAGGAACCTTGGTATATAATGAACCTCG
*
14563044 ACCCACTATCAAGGATGATAGGAACCTTGTTATATAATGAACCTCG
1 ACCCACTATCAAGGATGATAGGAACCTTGGTATATAATGAACCTCG
14563090 ACCCACTATCAAGGATGATAGGAACC
1 ACCCACTATCAAGGATGATAGGAACC
14563116 CCGGTATAAA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.23
Consensus pattern (46 bp):
ACCCACTATCAAGGATGATAGGAACCTTGGTATATAATGAACCTCG
Found at i:14566172 original size:12 final size:12
Alignment explanation
Indices: 14566157--14566190 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
14566147 ACACACTCTT
14566157 TTTCTTTTTCAA
1 TTTCTTTTTCAA
*
14566169 TTTCTTTTTTAA
1 TTTCTTTTTCAA
*
14566181 CTTCTTTTTC
1 TTTCTTTTTC
14566191 TCTTCTCTCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:14568121 original size:50 final size:49
Alignment explanation
Indices: 14568061--14568489 Score: 450
Period size: 50 Copynumber: 8.6 Consensus size: 49
14568051 TATCTGATAC
* *
14568061 GCATAGTAGCCTGCACTTAGTACTACACATGTGA-TCGA-AGTCATTGAGTA
1 GCATAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAGT-A-TG-GTA
* *
14568111 GCATAGTAGCCTACACTTAGTACTACACATGCGACTTAACAGTATGGTA
1 GCATAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAGTATGGTA
* *
14568160 -CACGTAGTAGCCTGCACTTAGTACTACACATGTGA-TCGA-AGTCATTGAGTA
1 GCA--TAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAGT-A-TG-GTA
* *
14568211 GCATAGTAGCCTACACTTAGTACTACACATGCGACTTAACAGTATGGTA
1 GCATAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAGTATGGTA
* *
14568260 -CACGTAGTAGCCTGCACTTAGTACTACACATGTGA-TCGA-AGTCATTGAGTA
1 GCA--TAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAGT-A-TG-GTA
* *
14568311 GCATAGTAGCCTACACTTAGTACTACACATGCGACTTAACAGTATGGTA
1 GCATAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAGTATGGTA
* *
14568360 -CACGTAGTAGCCTGCACTTAGTACTACACATGTGA-TCGA-AGTCATTGAGTA
1 GCA--TAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAGT-A-TG-GTA
* *
14568411 GCATAGTAGCCTACACTTAGTACTACACATGCGACTTAACAGTATGGTA
1 GCATAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAGTATGGTA
14568460 -CACGTAGTAGCCTGCACTTAGTACTACACA
1 GCA--TAGTAGCCTGCACTTAGTACTACACA
14568490 CTTGTACTCA
Statistics
Matches: 322, Mismatches: 29, Indels: 56
0.79 0.07 0.14
Matches are distributed among these distances:
48 17 0.05
49 21 0.07
50 245 0.76
51 21 0.07
52 18 0.06
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (49 bp):
GCATAGTAGCCTGCACTTAGTACTACACATGCGACTCAACAGTATGGTA
Found at i:14568237 original size:100 final size:100
Alignment explanation
Indices: 14568064--14568489 Score: 852
Period size: 100 Copynumber: 4.3 Consensus size: 100
14568054 CTGATACGCA
14568064 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTCATTGAGTAGCATAGTAGCCTACACTT
1 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTCATTGAGTAGCATAGTAGCCTACACTT
14568129 AGTACTACACATGCGACTTAACAGTATGGTACACG
66 AGTACTACACATGCGACTTAACAGTATGGTACACG
14568164 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTCATTGAGTAGCATAGTAGCCTACACTT
1 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTCATTGAGTAGCATAGTAGCCTACACTT
14568229 AGTACTACACATGCGACTTAACAGTATGGTACACG
66 AGTACTACACATGCGACTTAACAGTATGGTACACG
14568264 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTCATTGAGTAGCATAGTAGCCTACACTT
1 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTCATTGAGTAGCATAGTAGCCTACACTT
14568329 AGTACTACACATGCGACTTAACAGTATGGTACACG
66 AGTACTACACATGCGACTTAACAGTATGGTACACG
14568364 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTCATTGAGTAGCATAGTAGCCTACACTT
1 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTCATTGAGTAGCATAGTAGCCTACACTT
14568429 AGTACTACACATGCGACTTAACAGTATGGTACACG
66 AGTACTACACATGCGACTTAACAGTATGGTACACG
14568464 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
14568490 CTTGTACTCA
Statistics
Matches: 326, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 326 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (100 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTCATTGAGTAGCATAGTAGCCTACACTT
AGTACTACACATGCGACTTAACAGTATGGTACACG
Found at i:14569172 original size:61 final size:61
Alignment explanation
Indices: 14569077--14569197 Score: 233
Period size: 61 Copynumber: 2.0 Consensus size: 61
14569067 ACAAGTTGTA
14569077 TAACATAATTTAAAACCTCATATTCTAGCATAAAACACCAAAATACACAAATTTCACCTAC
1 TAACATAATTTAAAACCTCATATTCTAGCATAAAACACCAAAATACACAAATTTCACCTAC
*
14569138 TAACATAATTTAAAATCTCATATTCTAGCATAAAACACCAAAATACACAAATTTCACCTA
1 TAACATAATTTAAAACCTCATATTCTAGCATAAAACACCAAAATACACAAATTTCACCTA
14569198 TGGGTATTTT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.48, C:0.23, G:0.02, T:0.27
Consensus pattern (61 bp):
TAACATAATTTAAAACCTCATATTCTAGCATAAAACACCAAAATACACAAATTTCACCTAC
Found at i:14570299 original size:23 final size:23
Alignment explanation
Indices: 14570273--14570319 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
14570263 AGCTTTCAGA
*
14570273 CAATTACGAATCACTTTTACTTT
1 CAATCACGAATCACTTTTACTTT
14570296 CAATCACGAATCACTTTTACTTT
1 CAATCACGAATCACTTTTACTTT
14570319 C
1 C
14570320 TCTTCAGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.26, G:0.04, T:0.40
Consensus pattern (23 bp):
CAATCACGAATCACTTTTACTTT
Found at i:14575868 original size:50 final size:50
Alignment explanation
Indices: 14575690--14575869 Score: 281
Period size: 50 Copynumber: 3.6 Consensus size: 50
14575680 CTGATATGCA
* *
14575690 TAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAGTATGGTACACG
* * * * *
14575740 TAGTAGCCTGCACTTAGTACTACACACGGGACCTCACCA-TCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CTTAACAGTATGGTACACG
14575790 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAGTATGGTACACG
14575840 TAGTAGCCTGCACTTAGTACTACACACGTG
1 TAGTAGCCTGCACTTAGTACTACACACGTG
14575870 TACTCACAAT
Statistics
Matches: 117, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
49 5 0.04
50 107 0.91
51 5 0.04
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACAGTATGGTACACG
Found at i:14578762 original size:50 final size:51
Alignment explanation
Indices: 14578663--14578762 Score: 139
Period size: 50 Copynumber: 2.0 Consensus size: 51
14578653 ACTTAGTTTA
* **
14578663 ATGATGCAGACTTAAACTAACATGGTAGTTACATAATGCATGTCATTATTT
1 ATGATGCAGACTTAAACTAACATGGAAGTTACATAATGCATAACATTATTT
* * *
14578714 ATGATGCATACTT-AACTAGCATGGAAGTTACATAATGCATAACTTTATT
1 ATGATGCAGACTTAAACTAACATGGAAGTTACATAATGCATAACATTATT
14578763 AAATGCAGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 31 0.72
51 12 0.28
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (51 bp):
ATGATGCAGACTTAAACTAACATGGAAGTTACATAATGCATAACATTATTT
Found at i:14582587 original size:37 final size:37
Alignment explanation
Indices: 14582532--14582611 Score: 135
Period size: 37 Copynumber: 2.2 Consensus size: 37
14582522 TGATATTTAC
*
14582532 TTTTA-TCAAATAATATAATTACATTTAAAACTTAAT
1 TTTTACTCAAATAAAATAATTACATTTAAAACTTAAT
*
14582568 TTTTACTCAAATAAAATAATTACATTTAATACTTAAT
1 TTTTACTCAAATAAAATAATTACATTTAAAACTTAAT
14582605 TTTTACT
1 TTTTACT
14582612 AACTTACCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
36 5 0.12
37 36 0.88
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (37 bp):
TTTTACTCAAATAAAATAATTACATTTAAAACTTAAT
Found at i:14587049 original size:35 final size:35
Alignment explanation
Indices: 14586972--14587050 Score: 88
Period size: 35 Copynumber: 2.3 Consensus size: 35
14586962 GGTTAGGGTT
* * * **
14586972 TTGTCAAAATAAGTTAAGGTTTAGTGTTTAAGTTT
1 TTGTTAAAACAAGTTAAGGTTTAGAGTTTAAGTGA
*
14587007 TTGTTAAAACAAGTTAAGGTTTAGAGTTTTAGTAGA
1 TTGTTAAAACAAGTTAAGGTTTAGAGTTTAAGT-GA
14587043 TT-TTAAAA
1 TTGTTAAAA
14587051 ATAAACCAAG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
35 35 0.95
36 2 0.05
ACGTcount: A:0.35, C:0.03, G:0.19, T:0.43
Consensus pattern (35 bp):
TTGTTAAAACAAGTTAAGGTTTAGAGTTTAAGTGA
Found at i:14587126 original size:34 final size:35
Alignment explanation
Indices: 14587088--14587156 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
14587078 AAAAATTATT
14587088 TAAATTAG-G-GTTTAGGGTTGTTAAATAAATTAAG
1 TAAATTAGAGTGTTTAGGGTT-TTAAATAAATTAAG
*
14587122 TAAATTAGAGTTTTTAGGGTTTTAAATAAATTAAG
1 TAAATTAGAGTGTTTAGGGTTTTAAATAAATTAAG
14587157 GGCTTTAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
34 8 0.25
35 15 0.47
36 9 0.28
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (35 bp):
TAAATTAGAGTGTTTAGGGTTTTAAATAAATTAAG
Found at i:14587163 original size:18 final size:18
Alignment explanation
Indices: 14587137--14587172 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
14587127 TAGAGTTTTT
*
14587137 AGGGTTTTAAATAAATTA
1 AGGGCTTTAAATAAATTA
14587155 AGGGCTTTAAATAAATTA
1 AGGGCTTTAAATAAATTA
14587173 GGTTTAAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.17, T:0.36
Consensus pattern (18 bp):
AGGGCTTTAAATAAATTA
Found at i:14587259 original size:34 final size:36
Alignment explanation
Indices: 14587212--14587288 Score: 97
Period size: 35 Copynumber: 2.2 Consensus size: 36
14587202 ATTAGTGCTT
* * *
14587212 TAAA-TAAGTTAAATTAAGGTT-TATGGTTTTTAGA
1 TAAATTAAGTTAAATTAAGGTTCTAAGATTTTTAAA
*
14587246 TAAATTAAG-TAAATTAGGGTTCTAAGATTTTTAAA
1 TAAATTAAGTTAAATTAAGGTTCTAAGATTTTTAAA
14587281 TAAATTAA
1 TAAATTAA
14587289 ATTAGGGTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
34 15 0.41
35 22 0.59
ACGTcount: A:0.43, C:0.01, G:0.14, T:0.42
Consensus pattern (36 bp):
TAAATTAAGTTAAATTAAGGTTCTAAGATTTTTAAA
Found at i:14587676 original size:126 final size:126
Alignment explanation
Indices: 14587393--14587898 Score: 701
Period size: 126 Copynumber: 4.0 Consensus size: 126
14587383 TTTTGTACCC
* *
14587393 TGAAAAAATAATTTTGAGAATACGTTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
1 TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
* * * * * * * * *
14587458 ACTATTAGC-AAATTACAGAAAAAAGCTCCCACGTCGATGCTCTTTTTCTACGGTAGTTCT
66 ACTGTCAGCAAAATTACAAAAAAAAGCTACCACATGGACGCTCTTTTTCTACAGTAGTTCA
* * * *
14587518 TGAAGAAATAATTTTGAGAAAATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAAGATGC
1 TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
* * *
14587583 ACTGTCAGCAAAATGA-ATAAAAAAAGCTACCACGTGGACGCTCTTTTTATACAGTAGTTCA
66 ACTGTCAGCAAAATTACA-AAAAAAAGCTACCACATGGACGCTCTTTTTCTACAGTAGTTCA
* * *
14587644 TGAAAAAATAATTTTGAGAAGACATTTGTGAACAAATAGTGTCAAAAACGCTTCAAGCATGATGC
1 TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
* * * *
14587709 ACTGTCAGCAAAATTACAGAAAAAAGCTCCCACATGGATGCTCTTTTTCTACAGTAGTTCC
66 ACTGTCAGCAAAATTACAAAAAAAAGCTACCACATGGACGCTCTTTTTCTACAGTAGTTCA
* * *
14587770 TGAAAAAATAAGTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAATGCTTCAAGCAGGATGC
1 TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
* * * *
14587835 AATGTCAGCAAATTTACGAAAAAAAGCTACCATATGGACGCTCTTTTTCTACAGTAGTTCA
66 ACTGTCAGCAAAATTACAAAAAAAAGCTACCACATGGACGCTCTTTTTCTACAGTAGTTCA
14587896 TGA
1 TGA
14587899 TTGGCCTTAG
Statistics
Matches: 336, Mismatches: 42, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
125 68 0.20
126 267 0.79
127 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (126 bp):
TGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
ACTGTCAGCAAAATTACAAAAAAAAGCTACCACATGGACGCTCTTTTTCTACAGTAGTTCA
Found at i:14587843 original size:252 final size:251
Alignment explanation
Indices: 14587393--14587898 Score: 787
Period size: 252 Copynumber: 2.0 Consensus size: 251
14587383 TTTTGTACCC
* *
14587393 TGAAAAAATAATTTTGAGAATACGTTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
1 TGAAAAAATAATTTTGAGAAGACATTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
* * * * *
14587458 ACTATTAGCAAATTACAGAAAAAAGCTCCCACGTCGATGCTCTTTTTCTACGGTAGTTCTTGAAG
66 ACTATCAGCAAATTACAGAAAAAAGCTCCCACATCGATGCTCTTTTTCTACAGTAGTTCCTGAAA
* *
14587523 AAATAATTTTGAGAAAATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAAGATGCACTGT
131 AAATAAGTTTGAGAAAATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAAGATGCAATGT
* *
14587588 CAGCAAAATGAATAAAAAAAGCTACCACGTGGACGCTCTTTTTATACAGTAGTTCA
196 CAGCAAAATGAAGAAAAAAAGCTACCACATGGACGCTCTTTTTATACAGTAGTTCA
* * *
14587644 TGAAAAAATAATTTTGAGAAGACATTTGTGAACAAATAGTGTCAAAAACGCTTCAAGCATGATGC
1 TGAAAAAATAATTTTGAGAAGACATTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
* *
14587709 ACTGTCAGCAAAATTACAGAAAAAAGCTCCCACATGGATGCTCTTTTTCTACAGTAGTTCCTGAA
66 ACTATCAGC-AAATTACAGAAAAAAGCTCCCACATCGATGCTCTTTTTCTACAGTAGTTCCTGAA
* * *
14587774 AAAATAAGTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAATGCTTCAAGCAGGATGCAATG
130 AAAATAAGTTTGAGAAAATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAAGATGCAATG
* * * * *
14587839 TCAGCAAATTTACGAAAAAAAGCTACCATATGGACGCTCTTTTTCTACAGTAGTTCA
195 TCAGCAAAATGAAGAAAAAAAGCTACCACATGGACGCTCTTTTTATACAGTAGTTCA
14587896 TGA
1 TGA
14587899 TTGGCCTTAG
Statistics
Matches: 230, Mismatches: 24, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
251 67 0.29
252 163 0.71
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (251 bp):
TGAAAAAATAATTTTGAGAAGACATTTCTAAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGC
ACTATCAGCAAATTACAGAAAAAAGCTCCCACATCGATGCTCTTTTTCTACAGTAGTTCCTGAAA
AAATAAGTTTGAGAAAATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAAGATGCAATGT
CAGCAAAATGAAGAAAAAAAGCTACCACATGGACGCTCTTTTTATACAGTAGTTCA
Found at i:14590489 original size:39 final size:39
Alignment explanation
Indices: 14590422--14590600 Score: 297
Period size: 39 Copynumber: 4.5 Consensus size: 39
14590412 ACAAAGCATG
* * *
14590422 CGGGACTTTAAGCCCGGATATAATACCAGCAC-AAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
14590462 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACGAATGCCTT
14590502 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
14590541 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
14590580 CGGGACTTAGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
14590601 TTCTCCATTA
Statistics
Matches: 135, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
39 114 0.84
40 21 0.16
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.18
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:14593255 original size:2 final size:2
Alignment explanation
Indices: 14593248--14593315 Score: 118
Period size: 2 Copynumber: 34.0 Consensus size: 2
14593238 GTATTAGCAT
*
14593248 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA TA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
*
14593290 CA CA CA CA CA CA CG CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
14593316 TATATATATA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.49, C:0.49, G:0.01, T:0.01
Consensus pattern (2 bp):
CA
Found at i:14593498 original size:26 final size:26
Alignment explanation
Indices: 14593459--14593508 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
14593449 ACAAAAATTC
14593459 CTTCTGAAATTAAACCGT-CACATATA
1 CTTCTGAAATTAAA-CGTACACATATA
14593485 CTTCTGAAGA-TAAACGTACACATA
1 CTTCTGAA-ATTAAACGTACACATA
14593509 GAATGCCCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 3 0.14
26 18 0.82
27 1 0.05
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.28
Consensus pattern (26 bp):
CTTCTGAAATTAAACGTACACATATA
Found at i:14596559 original size:39 final size:38
Alignment explanation
Indices: 14596492--14596670 Score: 223
Period size: 39 Copynumber: 4.6 Consensus size: 38
14596482 ACAAAGCATG
* * *
14596492 CGGGACTTTAAGCCCGGATATAATACCAGCACAAAGCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACAATGCCTT
14596532 CGGGACTTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCAC-AATGCCTT
14596572 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCAC-AATGCCTT
* * * *
14596611 CAGGACTTGGCCTGGATATAACACCAGCATGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCA-CAATGCCTT
* *
14596650 TGGGACTTGGCCCGGATATAA
1 CGGGACTTAGCCCGGATATAA
14596671 TTCTCCATTA
Statistics
Matches: 127, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 106 0.83
40 21 0.17
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.20
Consensus pattern (38 bp):
CGGGACTTAGCCCGGATATAACACCAGCACAATGCCTT
Found at i:14597467 original size:18 final size:18
Alignment explanation
Indices: 14597440--14597475 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
14597430 AATAACTTTA
14597440 ATAACAGTTGCATTAACC
1 ATAACAGTTGCATTAACC
*
14597458 ATAACGGTTGCATTAACC
1 ATAACAGTTGCATTAACC
14597476 CGTTTAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (18 bp):
ATAACAGTTGCATTAACC
Found at i:14601173 original size:30 final size:30
Alignment explanation
Indices: 14601139--14601199 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
14601129 TCCTTAACTC
14601139 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
14601169 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
14601199 A
1 A
14601200 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:14624596 original size:42 final size:41
Alignment explanation
Indices: 14624495--14624651 Score: 127
Period size: 43 Copynumber: 3.7 Consensus size: 41
14624485 CAATGCCAAC
* * * * *
14624495 GTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACT
1 GTCCCAGACATGGTCTTACACGAAATCAGATAT-GATG-CAAT
* * *
14624538 GTCCCGGACAGGGTCTTACACGAAATCAGATATGATGTCGAT
1 GTCCCAGACATGGTCTTACACGAAATCAGATATGATG-CAAT
*
14624580 GTCCCAGACATGGTCTTACACGTAAAACAGA-AGTTGATGCCAAT
1 GTCCCAGACATGGTCTTACACG-AAATCAGATA--TGATG-CAAT
* ** *
14624624 GTCCCATATGTGGTCTTACACAAAATCA
1 GTCCCAGACATGGTCTTACACGAAATCA
14624652 CATAACGAAA
Statistics
Matches: 92, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
42 27 0.29
43 39 0.42
44 26 0.28
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (41 bp):
GTCCCAGACATGGTCTTACACGAAATCAGATATGATGCAAT
Found at i:14638313 original size:40 final size:40
Alignment explanation
Indices: 14638258--14638397 Score: 192
Period size: 40 Copynumber: 3.5 Consensus size: 40
14638248 ATTTGAATGA
* *
14638258 TATCCGGGCTGAGTCCCGAGGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
14638298 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
* * * * *
14638338 TATCCGGGCTAAGACCCGAAGGCATTTGTGCTTGTGGTTA
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
* *
14638378 TATCC-GGCTAAATTCCGAAG
1 TATCCGGGCTAAGTCCCGAAG
14638398 AAACTTGGGT
Statistics
Matches: 90, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 12 0.13
40 78 0.87
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
Found at i:14641525 original size:26 final size:24
Alignment explanation
Indices: 14641457--14641532 Score: 73
Period size: 26 Copynumber: 3.1 Consensus size: 24
14641447 GCTTACTTAG
14641457 GCTA-AATCAGGAAGCTCATAAGA
1 GCTATAATCAGGAAGCTCATAAGA
* * *
14641480 GCTATAAACAAGAAGTTCATAAAGA
1 GCTATAATCAGGAAGCTCAT-AAGA
* *
14641505 GCTTTTAATCGGGAAGCTCATGAAGA
1 GC-TATAATCAGGAAGCTCAT-AAGA
14641531 GC
1 GC
14641533 CTATTGGGAA
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
23 4 0.10
24 12 0.29
25 6 0.15
26 19 0.46
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.21
Consensus pattern (24 bp):
GCTATAATCAGGAAGCTCATAAGA
Found at i:14641955 original size:21 final size:22
Alignment explanation
Indices: 14641916--14641956 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
14641906 ACATTTATAA
14641916 AATTCACAAAAAATCAACATTC
1 AATTCACAAAAAATCAACATTC
* *
14641938 AATTCA-AACAAATTAACAT
1 AATTCACAAAAAATCAACAT
14641957 ATATAATCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (22 bp):
AATTCACAAAAAATCAACATTC
Found at i:14642224 original size:14 final size:14
Alignment explanation
Indices: 14642205--14642231 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14642195 AAATGAAATT
14642205 CATGCAATTTAATC
1 CATGCAATTTAATC
14642219 CATGCAATTTAAT
1 CATGCAATTTAAT
14642232 TCTTATTCGA
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:0.19, G:0.07, T:0.37
Consensus pattern (14 bp):
CATGCAATTTAATC
Found at i:14645687 original size:47 final size:49
Alignment explanation
Indices: 14645457--14645824 Score: 263
Period size: 48 Copynumber: 7.8 Consensus size: 49
14645447 GGGATAAGTT
* *
14645457 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTA-GCATTATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-ACTCATCATCGAG
* * * * *
14645506 GCCGATGCCATGTCCCAGACATGGTTTTATACTAGCTCTCGTAT-ATACG-T
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTC--ATCAT-CGAG
* * * * * *
14645556 GCTGATG-CATATCACAGACAT-GTCTTACACTAGCA--CAAC-TCTTA-
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCATC-GAG
* * * * *
14645600 GCCGAT-ACGTGTCCCAAACA-CGTCTTACATTGGCTA-TCATCATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-ACTCATCATCGAG
* *
14645647 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCACTCATC-TCTAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCATCGAG
* * * * * *
14645693 GTCGATGCCATGTCCCAGACATGGTTTTATATTGGCACTCATC-TCTAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCATCGAG
* * * *
14645741 GCGGATGCCATGTCCCAGACATGGTCTTATACTAGCACTCATAAT--ATG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCATCGA-G
14645789 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCAC
14645825 ACAAGAAATT
Statistics
Matches: 257, Mismatches: 42, Indels: 43
0.75 0.12 0.13
Matches are distributed among these distances:
43 1 0.00
44 27 0.11
45 1 0.00
46 28 0.11
47 65 0.25
48 76 0.30
49 47 0.18
50 8 0.03
51 4 0.02
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACTCATCATCGAG
Found at i:14652148 original size:55 final size:55
Alignment explanation
Indices: 14652046--14652152 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 55
14652036 CGTGTGCAAC
* * *
14652046 ACTGACTTCAACACACGGCCATGGCACACACTAGTGTGACCTGCCCGTGTACGAT
1 ACTGACTTCAACACACGACCATGGCACACACTACTGTGACCTACCCGTGTACGAT
* * ** * *
14652101 ACTGACTTTAATACACGACCATGGCACAGGCTCCTGTGGCCTACCCGTGTAC
1 ACTGACTTCAACACACGACCATGGCACACACTACTGTGACCTACCCGTGTAC
14652153 AACACTAACT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.21
Consensus pattern (55 bp):
ACTGACTTCAACACACGACCATGGCACACACTACTGTGACCTACCCGTGTACGAT
Found at i:14653182 original size:48 final size:46
Alignment explanation
Indices: 14653012--14653277 Score: 191
Period size: 48 Copynumber: 5.7 Consensus size: 46
14653002 TATACGTGCT
* * * *
14653012 GATGCATGTCCCAGACATGTCTTACACTAGCA--CAACTCTTA-GCC
1 GATGCATGTCCCAAACAGGTCTTACACTGGCACTCATCTC-TACGCC
* * * *** * * * *
14653056 GATGCGTGCCCCAGACACACCTTACATTGGCTAC-CATCATCGAGGCT
1 GATGCATGTCCCAAACAGGTCTTACACTGGC-ACTCATC-TCTACGCC
* * *
14653103 GATGCATGTCCCAGACATGTCTTACATTGGCACTCATCTCTACGCC
1 GATGCATGTCCCAAACAGGTCTTACACTGGCACTCATCTCTACGCC
* * *
14653149 GATGCCATGTCCCAAACAAGGTCTTATACTGGCACTTATCTCTACGTC
1 GATG-CATGTCCCAAAC-AGGTCTTACACTGGCACTCATCTCTACGCC
* * * * *
14653197 GATGCCATGTCCCAGACATGGTCTTATACTGGCACTCATAATGT-GGCC
1 GATG-CATGTCCCAAACA-GGTCTTACACTGGCACTCAT-CTCTACGCC
*
14653245 GATGCATGTCCCAAACATGTCTTACACTGGCAC
1 GATGCATGTCCCAAACAGGTCTTACACTGGCAC
14653278 ACAAGAAATC
Statistics
Matches: 180, Mismatches: 33, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
44 24 0.13
45 1 0.01
46 29 0.16
47 58 0.32
48 66 0.37
49 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (46 bp):
GATGCATGTCCCAAACAGGTCTTACACTGGCACTCATCTCTACGCC
Found at i:14657732 original size:20 final size:20
Alignment explanation
Indices: 14657707--14657748 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
14657697 CACATGTTAA
14657707 GAAGATGGACACCAAATTTT
1 GAAGATGGACACCAAATTTT
14657727 GAAGATGGACACCAAATTTT
1 GAAGATGGACACCAAATTTT
14657747 GA
1 GA
14657749 CTTATTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.24
Consensus pattern (20 bp):
GAAGATGGACACCAAATTTT
Found at i:14663516 original size:56 final size:56
Alignment explanation
Indices: 14663455--14663703 Score: 374
Period size: 56 Copynumber: 4.4 Consensus size: 56
14663445 GACCATGGCA
*
14663455 TCGATATATGTGTGCGAGTAAGACCACGTTTAATATGTTGGCATCAATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATT
* *
14663511 TCGATATATGTATGCGAGTAAGAACACGTTTAATACGTTGGCATCAATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATT
* * * *
14663567 CCGATATATGTGTGTGAGTAAGACCACGTTTAATATGTTGGCATCGATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATT
* * *
14663623 TCGATATATGTGTGCGAGTAAGACCATGTTTAATACATTGGCATCGATATGTGA-T
1 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATT
* *
14663678 TCTGATTTATGTGTGGGAGTAAGACC
1 TC-GATATATGTGTGCGAGTAAGACC
14663704 CTGTCTGGGA
Statistics
Matches: 176, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
55 3 0.02
56 173 0.98
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCAATATGTGATT
Found at i:14663968 original size:18 final size:19
Alignment explanation
Indices: 14663934--14663969 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
14663924 AATGCAATTT
14663934 ATATATGATGTAAATGAAA
1 ATATATGATGTAAATGAAA
*
14663953 ATATATG-TGTATATGAA
1 ATATATGATGTAAATGAA
14663970 TAGTACATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36
Consensus pattern (19 bp):
ATATATGATGTAAATGAAA
Found at i:14664178 original size:25 final size:25
Alignment explanation
Indices: 14664131--14664179 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
14664121 TTCGGTTAAA
* **
14664131 TAATGATATTATGGTTTTTGATATT
1 TAATGATATTATGGTATAGGATATT
*
14664156 TAATGATATTTTGGTATAGGATAT
1 TAATGATATTATGGTATAGGATAT
14664180 ATGTATATTC
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:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (25 bp):
TAATGATATTATGGTATAGGATATT
Found at i:14672070 original size:29 final size:29
Alignment explanation
Indices: 14672038--14672097 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
14672028 CGAATTTCAT
* *
14672038 AATTTCACCCCTCAATTTACACTTTT-CTC
1 AATTTAACCCCT-AATATACACTTTTACTC
* *
14672067 AATTTAATCCCTAATATACATTTTTACTC
1 AATTTAACCCCTAATATACACTTTTACTC
14672096 AA
1 AA
14672098 AATCACTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.42
Consensus pattern (29 bp):
AATTTAACCCCTAATATACACTTTTACTC
Found at i:14676646 original size:29 final size:29
Alignment explanation
Indices: 14676614--14676673 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
14676604 CGAATTTCAT
* *
14676614 AATTTCACCCCTCAATTTACACTTTT-CTC
1 AATTTAACCCCT-AATATACACTTTTACTC
* *
14676643 AATTTAATCCCTAATATACATTTTTACTC
1 AATTTAACCCCTAATATACACTTTTACTC
14676672 AA
1 AA
14676674 AATCACTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.32, C:0.27, G:0.00, T:0.42
Consensus pattern (29 bp):
AATTTAACCCCTAATATACACTTTTACTC
Found at i:14681155 original size:39 final size:40
Alignment explanation
Indices: 14681060--14681321 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
14681050 TTGAATGATG
*
14681060 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
14681098 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
14681139 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
14681178 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
14681217 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
14681256 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
14681295 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
14681322 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:14687195 original size:40 final size:40
Alignment explanation
Indices: 14687106--14687369 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
14687096 TTGAATGATG
* *
14687106 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
14687145 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
14687185 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
14687224 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
14687264 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
14687304 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
14687345 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
14687370 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:14687387 original size:120 final size:118
Alignment explanation
Indices: 14687106--14687402 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
14687096 TTGAATGATG
* *
14687106 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
14687166 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
14687224 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
14687289 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
14687345 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
14687403 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:14692126 original size:40 final size:40
Alignment explanation
Indices: 14692071--14692347 Score: 473
Period size: 40 Copynumber: 6.9 Consensus size: 40
14692061 GCATGAGCAT
14692071 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
14692111 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
14692151 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
14692191 TTGATATATCCGGGCTAAAACCCGAAGGCATTTGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * *
14692231 TTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
*
14692271 TTGATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
* * * *
14692311 TTGCTATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGC
14692348 TTGCGGTTAT
Statistics
Matches: 223, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 223 1.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (40 bp):
TTGATATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAG
Found at i:14700735 original size:24 final size:23
Alignment explanation
Indices: 14700708--14700781 Score: 59
Period size: 24 Copynumber: 3.3 Consensus size: 23
14700698 AATAAAATGG
14700708 TAAGTTTCAGCATAAACTTAGTTA
1 TAAGTTTC-GCATAAACTTAGTTA
* *
14700732 TAAG-TT-G-ATTGAACTT--TTGG
1 TAAGTTTCGCA-TAAACTTAGTT-A
14700752 TAAGTTTCGGCATAAACTTAGTTA
1 TAAGTTTC-GCATAAACTTAGTTA
14700776 TAAGTT
1 TAAGTT
14700782 GATTGAACTT
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
19 2 0.05
20 5 0.13
21 9 0.24
23 9 0.24
24 11 0.29
25 2 0.05
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (23 bp):
TAAGTTTCGCATAAACTTAGTTA
Found at i:14700755 original size:44 final size:44
Alignment explanation
Indices: 14700705--14700795 Score: 173
Period size: 44 Copynumber: 2.1 Consensus size: 44
14700695 GTAAATAAAA
14700705 TGGTAAGTTTCAGCATAAACTTAGTTATAAGTTGATTGAACTTT
1 TGGTAAGTTTCAGCATAAACTTAGTTATAAGTTGATTGAACTTT
*
14700749 TGGTAAGTTTCGGCATAAACTTAGTTATAAGTTGATTGAACTTT
1 TGGTAAGTTTCAGCATAAACTTAGTTATAAGTTGATTGAACTTT
14700793 TGG
1 TGG
14700796 CTAAACTATG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (44 bp):
TGGTAAGTTTCAGCATAAACTTAGTTATAAGTTGATTGAACTTT
Found at i:14700809 original size:44 final size:43
Alignment explanation
Indices: 14700717--14700809 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 43
14700707 GTAAGTTTCA
* *
14700717 GCATAAACTTAGTTATAAGTTGATTGAACTTTTGGTAAGTTTC
1 GCATAAACTTAGTTATAAGTTGATTGAACTTTTGGTAACTATC
14700760 GGCATAAACTTAGTTATAAGTTGATTGAACTTTTGGCTAAACTAT-
1 -GCATAAACTTAGTTATAAGTTGATTGAACTTTTGG-T-AACTATC
14700805 GCATA
1 GCATA
14700810 TGATTATACA
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
44 40 0.89
45 1 0.02
46 4 0.09
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (43 bp):
GCATAAACTTAGTTATAAGTTGATTGAACTTTTGGTAACTATC
Found at i:14701129 original size:12 final size:12
Alignment explanation
Indices: 14701112--14701141 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
14701102 TCAGTTAGTT
*
14701112 ACACGGTCTAAC
1 ACACGGACTAAC
14701124 ACACGGACTAAC
1 ACACGGACTAAC
14701136 ACACGG
1 ACACGG
14701142 CCTGGCACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.33, G:0.20, T:0.10
Consensus pattern (12 bp):
ACACGGACTAAC
Found at i:14703492 original size:161 final size:161
Alignment explanation
Indices: 14703284--14703612 Score: 559
Period size: 161 Copynumber: 2.0 Consensus size: 161
14703274 GGAGCATAAG
* * * * *
14703284 ATATGTAGGCTTGTTAAATATCTATATGGGCTTAAACAAAGACCAAAGCATTGACACCAAAAGTT
1 ATATGTAAGCTTATTAAATATCTATATAGGCTTAAACAAACACCAAAGAATTGACACCAAAAGTT
*
14703349 TGACAAGGTTGTTCTAGCTAATGGTTATAAAATAAATGAATTTGATAAGTGCATATATAAAAAAT
66 TGACAAGGTTGTTCTAGCTAATGGTTATAAAATAAATGAATCTGATAAGTGCATATATAAAAAAT
* *
14703414 TTGGAAATGGAAAAGGTGTCATAATTTTCTT
131 TTGAAAATGGAAAAGGTGTCATAATTTCCTT
* *
14703445 ATATGTAAGCTTATTAAATCTTTATATAGGCTTAAACAAACACCAAAGAATTGACACCAAAAGTT
1 ATATGTAAGCTTATTAAATATCTATATAGGCTTAAACAAACACCAAAGAATTGACACCAAAAGTT
*
14703510 TGACAAGGTTGTTCTAGCTAATGGTTATAAAATAAATGAATCTGATAAGTGCATATATAACAAAT
66 TGACAAGGTTGTTCTAGCTAATGGTTATAAAATAAATGAATCTGATAAGTGCATATATAAAAAAT
14703575 TTGAAAATGGAAAAGGTGTCATAATTTCCTT
131 TTGAAAATGGAAAAGGTGTCATAATTTCCTT
14703606 ATATGTA
1 ATATGTA
14703613 GATGACATGC
Statistics
Matches: 157, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
161 157 1.00
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (161 bp):
ATATGTAAGCTTATTAAATATCTATATAGGCTTAAACAAACACCAAAGAATTGACACCAAAAGTT
TGACAAGGTTGTTCTAGCTAATGGTTATAAAATAAATGAATCTGATAAGTGCATATATAAAAAAT
TTGAAAATGGAAAAGGTGTCATAATTTCCTT
Found at i:14706247 original size:40 final size:40
Alignment explanation
Indices: 14706180--14706332 Score: 204
Period size: 40 Copynumber: 3.9 Consensus size: 40
14706170 ACCCAAGTAT
*
14706180 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
14706219 CCTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
14706259 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* *
14706299 CTTCGGGACATAGCCCGGATATAGCAACTCGCAC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCAC
14706333 NNNNNNNNNN
Statistics
Matches: 99, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
38 1 0.01
39 12 0.12
40 84 0.85
41 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:14713646 original size:40 final size:40
Alignment explanation
Indices: 14713579--14713755 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
14713569 ACCCAAGTAT
*
14713579 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
14713618 CCTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
14713658 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* *
14713698 CTTCGGGACATAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
14713738 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
14713756 TTATCATCCG
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 12 0.10
40 104 0.87
41 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:14718076 original size:27 final size:27
Alignment explanation
Indices: 14718046--14718141 Score: 124
Period size: 27 Copynumber: 3.6 Consensus size: 27
14718036 ATGTACTCCC
*
14718046 GATTTACAGAATTACCGTTTTACCCTA
1 GATTTACAGAATTACAGTTTTACCCTA
*
14718073 GATTTATAGAATTACTA-TTTTACCCTTA
1 GATTTACAGAATTAC-AGTTTTACCC-TA
*
14718101 -ATTTACAGAATTACAGTTTTACCCTC
1 GATTTACAGAATTACAGTTTTACCCTA
*
14718127 GATTTACAAAATTAC
1 GATTTACAGAATTAC
14718142 TAAAATACCC
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
26 2 0.03
27 56 0.93
28 2 0.03
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (27 bp):
GATTTACAGAATTACAGTTTTACCCTA
Found at i:14718086 original size:54 final size:54
Alignment explanation
Indices: 14718026--14718141 Score: 135
Period size: 54 Copynumber: 2.1 Consensus size: 54
14718016 CTCGACTTGT
* * *
14718026 AAAATTACCAATGTACTCC-CGATTTACAGAATTACCGTTTTACCCTAGATTTAT
1 AAAATTACCAATGTAC-CCTCAATTTACAGAATTACAGTTTTACCCTAGATTTAC
* * * * * *
14718080 AGAATTACTATTTTACCCTTAATTTACAGAATTACAGTTTTACCCTCGATTTAC
1 AAAATTACCAATGTACCCTCAATTTACAGAATTACAGTTTTACCCTAGATTTAC
14718134 AAAATTAC
1 AAAATTAC
14718142 TAAAATACCC
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 2 0.04
54 49 0.96
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (54 bp):
AAAATTACCAATGTACCCTCAATTTACAGAATTACAGTTTTACCCTAGATTTAC
Found at i:14718150 original size:27 final size:27
Alignment explanation
Indices: 14718120--14718423 Score: 122
Period size: 27 Copynumber: 11.2 Consensus size: 27
14718110 ATTACAGTTT
*
14718120 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * * *
14718147 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * * *
14718174 TACCCTAG-TCTATAAATTTGCTAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
* * * *
14718200 TGCCC-CTGGTTTGTAAAATTACCAAAA
1 TACCCTC-GATTTATAAAATTACTAAAA
* * *
14718227 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACTAAAA
* * *
14718254 TACCC-CTAGTTTGTAAAATTA-TCGAAA
1 TACCCTCGA-TTTATAAAATTACT-AAAA
* * * *
14718281 TACCACT-GGTTTGTGAAATTACTGAAA
1 TACC-CTCGATTTATAAAATTACTAAAA
** * *
14718308 TACCCTAAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTAAAA
*
14718335 TACCC-CTGATTTACAAAATTAC-AGAAA
1 TACCCTC-GATTTATAAAATTACTA-AAA
* * *
14718362 TACCTTTGACTTTCTAAAAATTA-TAAAAA
1 TACCCTCGA-TTTAT-AAAATTACT-AAAA
* * * * * *
14718391 TACCATTGGTTTACAACATTACTGAAA
1 TACCCTCGATTTATAAAATTACTAAAA
14718418 TACCCT
1 TACCCT
14718424 TGGTTTGTAG
Statistics
Matches: 217, Mismatches: 44, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
26 21 0.10
27 169 0.78
28 9 0.04
29 17 0.08
30 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTAAAA
Found at i:14718151 original size:54 final size:54
Alignment explanation
Indices: 14718047--14718168 Score: 154
Period size: 54 Copynumber: 2.3 Consensus size: 54
14718037 TGTACTCCCG
* * * ***
14718047 ATTTACAGAATTACCGTTTTACCCTAGATTTATAGAATTACTATTTTACCCTTA
1 ATTTACAGAATTACAGTTTTACCCTAGATTTACAAAATTACTAAAATACCCTTA
* *
14718101 ATTTACAGAATTACAGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTG
1 ATTTACAGAATTACAGTTTTACCCTAGATTTACAAAATTACTAAAATACCCTTA
* *
14718155 GTTTACAAAATTAC
1 ATTTACAGAATTAC
14718169 CAAAATACCC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.35, C:0.19, G:0.07, T:0.39
Consensus pattern (54 bp):
ATTTACAGAATTACAGTTTTACCCTAGATTTACAAAATTACTAAAATACCCTTA
Found at i:14718178 original size:54 final size:54
Alignment explanation
Indices: 14718120--14718450 Score: 231
Period size: 54 Copynumber: 6.1 Consensus size: 54
14718110 ATTACAGTTT
**
14718120 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * * * * * *
14718174 TACCCTAG-TCTATAAATTTGCTAAAATGCCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
* ** * * * * *
14718227 TACCC-CTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCGAAA
1 TACCCTCGA-TTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
* *** * ***
14718281 TACCACT-GGTTTGTGAAATTACTGAAATACCCTAAATTTGTAAAATTACCAAAA
1 TACC-CTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
* * * **
14718335 TACCC-CTGATTTACAAAATTAC-AGAAATACCTTTGACTTTCTAAAAATTATAAAAA
1 TACCCTC-GATTTACAAAATTACTA-AAATACCCTTG-GTTTGT-AAAATTACCAAAA
* * * * * * *
14718391 TACCATTGGTTTACAACATTACTGAAATACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
*
14718445 CACCCT
1 TACCCT
14718451 TGTAGGGTGA
Statistics
Matches: 210, Mismatches: 56, Indels: 22
0.73 0.19 0.08
Matches are distributed among these distances:
53 43 0.20
54 120 0.57
55 9 0.04
56 38 0.18
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAA
Found at i:14718309 original size:81 final size:81
Alignment explanation
Indices: 14718134--14718341 Score: 244
Period size: 81 Copynumber: 2.6 Consensus size: 81
14718124 CTCGATTTAC
* * **
14718134 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTAGTCTATAAATTTGCTAA
1 AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTCTATAAATTTGCTAA
* *
14718198 AATGCCCCTGGTTTGT
66 AATACCACTGGTTTGT
* * *
14718214 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTAT-C-
1 AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTCTAT-AAATT-TGCT
*
14718277 GAAATACCACTGGTTTGT
64 AAAATACCACTGGTTTGT
* * *
14718295 GAAATTACTGAAATA-CCCTAAATTTGTAAAATTACCAAAATACCCCT
1 AAAATTACTAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCT
14718342 GATTTACAAA
Statistics
Matches: 110, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
80 41 0.37
81 62 0.56
82 6 0.05
83 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTCTATAAATTTGCTAA
AATACCACTGGTTTGT
Found at i:14718353 original size:81 final size:81
Alignment explanation
Indices: 14718134--14718365 Score: 231
Period size: 81 Copynumber: 2.9 Consensus size: 81
14718124 CTCGATTTAC
* * ** ** * * * *
14718134 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTAGTCTATAAATTTGCTA-
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTAC-AG
* *
14718197 AAATGCCCCTGGTTTGT
65 AAATACCACTGGTTTGT
* **
14718214 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATC-G
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTA-CAG
14718278 AAATACCACTGGTTTGT
65 AAATACCACTGGTTTGT
* **
14718295 GAAATTACTGAAATA-CCCTAAATTTGTAAAATTACCAAAATACCCCT-GATTTACAAAATTACA
1 AAAATTACCAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTAG-TTTACAAAATTACA
14718358 GAAATACC
64 GAAATACC
14718366 TTTGACTTTC
Statistics
Matches: 129, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
80 43 0.33
81 85 0.66
82 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACAGA
AATACCACTGGTTTGT
Found at i:14718525 original size:27 final size:27
Alignment explanation
Indices: 14718483--14718547 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
14718473 ACCCTTATTA
* *
14718483 GGTAAAAAGACTGTAA-AGCCCCTGTAG
1 GGTAAAATGACCGTAATA-CCCCTGTAG
* * *
14718510 GGTAAAGTGACCGTAATACCCTTGTAT
1 GGTAAAATGACCGTAATACCCCTGTAG
14718537 GGTAAAATGAC
1 GGTAAAATGAC
14718548 GAATATGCCC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTGTAG
Found at i:14720037 original size:31 final size:31
Alignment explanation
Indices: 14720001--14720064 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
14719991 CGTTTACAGT
14720001 AAAGGCTTCGGC-CTAGTAATATGAAATATGA
1 AAAGGCTTCGGCTC-AGTAATATGAAATATGA
**
14720032 AAAGGCTTCGGCTCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCTCAGTAATATGAAATATGA
14720063 AA
1 AA
14720065 TATTAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 29 0.97
32 1 0.03
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCTCAGTAATATGAAATATGA
Found at i:14721643 original size:97 final size:96
Alignment explanation
Indices: 14721477--14721669 Score: 314
Period size: 97 Copynumber: 2.0 Consensus size: 96
14721467 ATTTAAATAC
* * *
14721477 ATGTATAGCATGGTATTGTTTACATACGAACTTACCTCGATACCACAAAGGTGAAAAAGACATAC
1 ATGTATAGCATGGTATTATTTACATACGAACTTACCTCGATACCACAAAGGTAAAAAAGACATAA
**
14721542 TCGTCCATAAATCGATTTCTTTCCGTTCTAGG
66 TCGTCCATAAATCGATTT-TCCCCGTTCTAGG
*
14721574 ATGTATAGCATGGTATTATTTACATACGAACTTACCTCGATACCACAAAGGTAAAAAAGACGTAA
1 ATGTATAGCATGGTATTATTTACATACGAACTTACCTCGATACCACAAAGGTAAAAAAGACATAA
*
14721639 TCGTCCATAAATTGATTTTCCCCGTTCTAGG
66 TCGTCCATAAATCGATTTTCCCCGTTCTAGG
14721670 CCCAAATCGC
Statistics
Matches: 89, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
96 11 0.12
97 78 0.88
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (96 bp):
ATGTATAGCATGGTATTATTTACATACGAACTTACCTCGATACCACAAAGGTAAAAAAGACATAA
TCGTCCATAAATCGATTTTCCCCGTTCTAGG
Found at i:14725655 original size:190 final size:190
Alignment explanation
Indices: 14725441--14725825 Score: 761
Period size: 190 Copynumber: 2.0 Consensus size: 190
14725431 TAGTAAAAAA
14725441 AAACTATTTTGATAATTATATAATTTTACATATTTTAATGATATTTTATAATTTAAATTTAAATG
1 AAACTATTTTGATAATTATATAATTTTACATATTTTAATGATATTTTATAATTTAAATTTAAATG
14725506 GTTAAAAGGTAAATTTATTAATAATTTAATAGAACGTAGGGTGTAATTTAGCTTAGTTATCAATT
66 GTTAAAAGGTAAATTTATTAATAATTTAATAGAACGTAGGGTGTAATTTAGCTTAGTTATCAATT
*
14725571 GAAAACATTCCACCCACCTCAGAAAATGAGAAGAATTAGGCCCATAGGGCCCTTCAGTTG
131 GAAAACATCCCACCCACCTCAGAAAATGAGAAGAATTAGGCCCATAGGGCCCTTCAGTTG
14725631 AAACTATTTTGATAATTATATAATTTTACATATTTTAATGATATTTTATAATTTAAATTTAAATG
1 AAACTATTTTGATAATTATATAATTTTACATATTTTAATGATATTTTATAATTTAAATTTAAATG
14725696 GTTAAAAGGTAAATTTATTAATAATTTAATAGAACGTAGGGTGTAATTTAGCTTAGTTATCAATT
66 GTTAAAAGGTAAATTTATTAATAATTTAATAGAACGTAGGGTGTAATTTAGCTTAGTTATCAATT
14725761 GAAAACATCCCACCCACCTCAGAAAATGAGAAGAATTAGGCCCATAGGGCCCTTCAGTTG
131 GAAAACATCCCACCCACCTCAGAAAATGAGAAGAATTAGGCCCATAGGGCCCTTCAGTTG
14725821 AAACT
1 AAACT
14725826 TGAAGACGAT
Statistics
Matches: 194, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
190 194 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (190 bp):
AAACTATTTTGATAATTATATAATTTTACATATTTTAATGATATTTTATAATTTAAATTTAAATG
GTTAAAAGGTAAATTTATTAATAATTTAATAGAACGTAGGGTGTAATTTAGCTTAGTTATCAATT
GAAAACATCCCACCCACCTCAGAAAATGAGAAGAATTAGGCCCATAGGGCCCTTCAGTTG
Found at i:14726943 original size:23 final size:23
Alignment explanation
Indices: 14726892--14726943 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
14726882 TTTATAATAT
*
14726892 AAATTTAATATTTAATTTATTCA
1 AAATTTAATATTTAAATTATTCA
*
14726915 ACATTTAATATTTCAAATTATT-A
1 AAATTTAATATTT-AAATTATTCA
14726938 AAATTT
1 AAATTT
14726944 GACATCTCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (23 bp):
AAATTTAATATTTAAATTATTCA
Found at i:14731941 original size:4 final size:4
Alignment explanation
Indices: 14731934--14731980 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
14731924 TATATATTTA
14731934 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
14731981 ATAAAGCCAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:14736273 original size:10 final size:10
Alignment explanation
Indices: 14736258--14736282 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
14736248 AAATCAGTTG
14736258 AAAATAATAA
1 AAAATAATAA
14736268 AAAATAATAA
1 AAAATAATAA
14736278 AAAAT
1 AAAAT
14736283 TATTATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
AAAATAATAA
Found at i:14736297 original size:22 final size:22
Alignment explanation
Indices: 14736267--14736310 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
14736257 GAAAATAATA
14736267 AAAAATAATAAAAAATT-ATTAT
1 AAAAATAAT-AAAAATTAATTAT
* *
14736289 AAAATTAATTAAAATTAATTAT
1 AAAAATAATAAAAATTAATTAT
14736311 CTTTATAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAAATAATAAAAATTAATTAT
Found at i:14737279 original size:42 final size:42
Alignment explanation
Indices: 14737220--14737329 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
14737210 TTTTATCAAA
*
14737220 TCACCGGCA-TTCAGCCTGCTAGGTTTAAAAACCTGA-ATTCA-T
1 TCACCGGCATTTC-GCCTGCTAGG-CTAAAAACCTGATA-TCATT
** *
14737262 TCACCGGCATTTCGCCTGCTAGGCTCGAAGCCTGATATCATT
1 TCACCGGCATTTCGCCTGCTAGGCTAAAAACCTGATATCATT
*
14737304 TCACCGGCATTATAGCCTGCTAGGCT
1 TCACCGGCATT-TCGCCTGCTAGGCT
14737330 CGAAAGCCCG
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
41 11 0.19
42 32 0.54
43 16 0.27
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (42 bp):
TCACCGGCATTTCGCCTGCTAGGCTAAAAACCTGATATCATT
Found at i:14737366 original size:45 final size:45
Alignment explanation
Indices: 14737262--14737523 Score: 347
Period size: 45 Copynumber: 5.9 Consensus size: 45
14737252 CTGAATTCAT
* * * *
14737262 TCACCGGCATT-TCGCCTGCTAGGCTCGAA-GCCTG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATC
14737304 TCACCGGCATTATAGCCTGCTAGGCTCGAAA-GCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATC
** * *
14737349 TCACCGATATTATAGCCTGCAAGGCTCAAA-GCCCTAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCC-GAATAGTATC
* *
14737394 TCACCGGCATTATAGTCTGCTAGGCTCAAAGGCCCTAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
14737439 TCACTGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
14737484 TCACCGGTATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
14737524 ATACTGTGCG
Statistics
Matches: 196, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
42 11 0.06
43 14 0.07
44 13 0.07
45 153 0.78
46 5 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:14737669 original size:97 final size:97
Alignment explanation
Indices: 14737503--14737691 Score: 360
Period size: 97 Copynumber: 1.9 Consensus size: 97
14737493 TTATAGCCTG
14737503 CTAGGCTCAAAGGCCCGAATAATACTGTGCGATATTCAAATCAACAAGTTTCATATAACACAATC
1 CTAGGCTCAAAGGCCCGAATAATACTGTGCGATATTCAAATCAACAAGTTTCATATAACACAATC
14737568 ACACCAAATTGGGTACAAGCATTATTCGAAAA
66 ACACCAAATTGGGTACAAGCATTATTCGAAAA
* *
14737600 CTAGGCTCAAAGGCCTGAATAATGCTGTGCGATATTCAAATCAACAAGTTTCATATAACACAATC
1 CTAGGCTCAAAGGCCCGAATAATACTGTGCGATATTCAAATCAACAAGTTTCATATAACACAATC
14737665 ACACCAAATTGGGTACAAGCATTATTC
66 ACACCAAATTGGGTACAAGCATTATTC
14737692 AAATATATTA
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 90 1.00
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.25
Consensus pattern (97 bp):
CTAGGCTCAAAGGCCCGAATAATACTGTGCGATATTCAAATCAACAAGTTTCATATAACACAATC
ACACCAAATTGGGTACAAGCATTATTCGAAAA
Found at i:14738533 original size:47 final size:47
Alignment explanation
Indices: 14738429--14738572 Score: 225
Period size: 47 Copynumber: 3.0 Consensus size: 47
14738419 AAAATTTTCT
* * *
14738429 TTAACTAAGTAACTTATCCGGAAATAATAAGGGCAAAATTTAACAAGC
1 TTAACTAAGTAACTTGTCCGGAAATATTAAGAGC-AAATTTAACAAGC
* * *
14738477 TCAACTAAGTAACTTGTCAGGAAATATTAAAAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTGTCCGGAAATATTAAGAGCAAATTTAACAAGC
14738524 TTAACTAAGTAACTTGTCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTGTCCGGAAATATTAAGAGCAAATTTAACAAGC
14738571 TT
1 TT
14738573 TAAATTCAAC
Statistics
Matches: 87, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
47 59 0.68
48 28 0.32
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.27
Consensus pattern (47 bp):
TTAACTAAGTAACTTGTCCGGAAATATTAAGAGCAAATTTAACAAGC
Found at i:14745210 original size:45 final size:45
Alignment explanation
Indices: 14745115--14745317 Score: 261
Period size: 45 Copynumber: 4.6 Consensus size: 45
14745105 CCAACATTTC
* * *
14745115 GCCTGCTAGGCTC-AAAGCCCG-ATA-TCATTTCACCGTCATAATA
1 GCCTGCTAGGCTCAAAAGCCCGAATAGT-ATCTCACCGGCATTATA
*
14745158 GCCTGCTAGGCTCAAAAGCCCGAATAGTATCTCACCAGCATTATA
1 GCCTGCTAGGCTCAAAAGCCCGAATAGTATCTCACCGGCATTATA
* * * * *
14745203 GCTTGCTAGGCTCAAAGGCCCTAATAGTATCTCACTGGCATTGTA
1 GCCTGCTAGGCTCAAAAGCCCGAATAGTATCTCACCGGCATTATA
* *
14745248 GCCTGCTAGGCTCAAAGGCCCGAAAAGTATCTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAAGCCCGAATAGTATCTCACCGGCATTATA
*
14745293 GCCTGCTAGGCTC-AAAGGCCGAATA
1 GCCTGCTAGGCTCAAAAGCCCGAATA
14745318 ATGCTGTGCG
Statistics
Matches: 139, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
43 13 0.09
44 17 0.12
45 108 0.78
46 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (45 bp):
GCCTGCTAGGCTCAAAAGCCCGAATAGTATCTCACCGGCATTATA
Found at i:14746231 original size:47 final size:48
Alignment explanation
Indices: 14746127--14746238 Score: 172
Period size: 48 Copynumber: 2.4 Consensus size: 48
14746117 AAAATTTTCT
* * * *
14746127 TTAACTAAGTAACTTATCCGGAAATAATAAGGGCAAAATTTAACAAGC
1 TTAACTAAGTAACTTGTCAGGAAATAATAAGAGCAAAATTCAACAAGC
*
14746175 TTAACTAAGTAACTTGTCAGGAAATATTAAGAGC-AAATTCAACAAGC
1 TTAACTAAGTAACTTGTCAGGAAATAATAAGAGCAAAATTCAACAAGC
14746222 TTAACTAAGTAACTTGT
1 TTAACTAAGTAACTTGT
14746239 TTGGCAAATT
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
47 29 0.49
48 30 0.51
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (48 bp):
TTAACTAAGTAACTTGTCAGGAAATAATAAGAGCAAAATTCAACAAGC
Found at i:14746246 original size:35 final size:35
Alignment explanation
Indices: 14746207--14746274 Score: 127
Period size: 35 Copynumber: 1.9 Consensus size: 35
14746197 AATATTAAGA
14746207 GCAAATTCAACAAGCTTAACTAAGTAACTTGTTTG
1 GCAAATTCAACAAGCTTAACTAAGTAACTTGTTTG
*
14746242 GCAAATTTAACAAGCTTAACTAAGTAACTTGTT
1 GCAAATTCAACAAGCTTAACTAAGTAACTTGTT
14746275 CGGAAATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.32
Consensus pattern (35 bp):
GCAAATTCAACAAGCTTAACTAAGTAACTTGTTTG
Found at i:14749155 original size:50 final size:50
Alignment explanation
Indices: 14749061--14749157 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 50
14749051 ACCGAAGCTC
* * *
14749061 TCTGGTACGCATAGTATCCTGCACTTAGTACTACAAATGCGACCTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACAAACGCGACCTAACAA
* *
14749111 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACAAACGCGACCTAA
14749158 AACCGTCTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACAAACGCGACCTAACAA
Found at i:14758299 original size:83 final size:83
Alignment explanation
Indices: 14758174--14758339 Score: 323
Period size: 83 Copynumber: 2.0 Consensus size: 83
14758164 TCAATCAAGG
14758174 AATGAGTTTAGCTCGATTTTTGATAATTTCTACGTTTTTGGGATCGTTGCTTTGAATACTACAAA
1 AATGAGTTTAGCTCGATTTTTGATAATTTCTACGTTTTTGGGATCGTTGCTTTGAATACTACAAA
14758239 ACCCAAGCTTTAATTTTT
66 ACCCAAGCTTTAATTTTT
*
14758257 AATGAGTTTAGCTCGGTTTTTGATAATTTCTACGTTTTTGGGATCGTTGCTTTGAATACTACAAA
1 AATGAGTTTAGCTCGATTTTTGATAATTTCTACGTTTTTGGGATCGTTGCTTTGAATACTACAAA
14758322 ACCCAAGCTTTAATTTTT
66 ACCCAAGCTTTAATTTTT
14758340 GATTTTGATG
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.43
Consensus pattern (83 bp):
AATGAGTTTAGCTCGATTTTTGATAATTTCTACGTTTTTGGGATCGTTGCTTTGAATACTACAAA
ACCCAAGCTTTAATTTTT
Found at i:14771398 original size:13 final size:13
Alignment explanation
Indices: 14771380--14771413 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
14771370 GAATGAGCAT
14771380 GTGTGAAAGTCTC
1 GTGTGAAAGTCTC
14771393 GTGTGAAAGTCTC
1 GTGTGAAAGTCTC
*
14771406 GTATGAAA
1 GTGTGAAA
14771414 ATTTGAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.29
Consensus pattern (13 bp):
GTGTGAAAGTCTC
Found at i:14779166 original size:27 final size:27
Alignment explanation
Indices: 14779136--14779227 Score: 148
Period size: 27 Copynumber: 3.4 Consensus size: 27
14779126 ATTACCAAAG
*
14779136 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
14779163 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
14779190 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
14779217 TACCCTCGATT
1 TACCCTCGATT
14779228 GTGAAATTAC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 60 1.00
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:14779249 original size:27 final size:26
Alignment explanation
Indices: 14779219--14779409 Score: 147
Period size: 27 Copynumber: 7.1 Consensus size: 26
14779209 TACCGTTTTA
* **
14779219 CCCTCGATTGTGAAATTACTGAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
* *
14779246 CCCT-ATAGGGTAGAATTACCAAAATAC
1 CCCTGAT--TGTAAAATTACCAAAATAC
*
14779273 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
*
14779300 CCCTAGTTTGTAAAATTACCAAAATAC
1 CCCT-GATTGTAAAATTACCAAAATAC
* * * *
14779327 CACTGGTTTGTGAAATTACCGAAATA-
1 CCCT-GATTGTAAAATTACCAAAATAC
*
14779353 CCCTCAATTTGTAAAATTACCAAAATAC
1 CCCT-GA-TTGTAAAATTACCAAAATAC
14779381 CCCTGATT-TACAAAATTA-CAGAAATAC
1 CCCTGATTGT--AAAATTACCA-AAATAC
14779408 CC
1 CC
14779410 TTGACTTTCT
Statistics
Matches: 136, Mismatches: 19, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
25 3 0.02
26 7 0.05
27 121 0.89
28 4 0.03
29 1 0.01
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.28
Consensus pattern (26 bp):
CCCTGATTGTAAAATTACCAAAATAC
Found at i:14779300 original size:54 final size:52
Alignment explanation
Indices: 14779226--14779409 Score: 190
Period size: 54 Copynumber: 3.4 Consensus size: 52
14779216 TTACCCTCGA
* ** ** *
14779226 TTGTGAAATTACTGAAATACCCCTATAGGGTAGAATTACCAAAATACCCCTAGT
1 TTGTAAAATTACCAAAATACCCCTAT-TTGTAAAATTACCAAAATACCCCT-GT
*
14779280 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCACTGGT
1 TTGTAAAATTACCAAAATACCCCTA-TTTGTAAAATTACCAAAATACCCCT-GT
* * *
14779334 TTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTGAT
1 TTGTAAAATTACCAAAATACCC-CTATTTGTAAAATTACCAAAATACCCCTG-T
**
14779388 TTACAAAATTA-CAGAAATACCC
1 TTGTAAAATTACCA-AAATACCC
14779410 TTGACTTTCT
Statistics
Matches: 110, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
53 2 0.02
54 105 0.95
55 3 0.03
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.28
Consensus pattern (52 bp):
TTGTAAAATTACCAAAATACCCCTATTTGTAAAATTACCAAAATACCCCTGT
Found at i:14779396 original size:81 final size:81
Alignment explanation
Indices: 14779259--14779408 Score: 216
Period size: 81 Copynumber: 1.9 Consensus size: 81
14779249 TATAGGGTAG
* **
14779259 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCA-AA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTA-CAGAA
14779323 ATACCACTGGTTTGTGA
65 ATACCACTGGTTTGTGA
*
14779340 AATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTTACAAAATTACAGA
1 AATTACCAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTAG-TTTACAAAATTACAGA
14779403 AATACC
64 AATACC
14779409 CTTGACTTTC
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
80 7 0.11
81 55 0.89
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACAGAAA
TACCACTGGTTTGTGA
Found at i:14779410 original size:54 final size:54
Alignment explanation
Indices: 14779259--14779466 Score: 181
Period size: 54 Copynumber: 3.8 Consensus size: 54
14779249 TATAGGGTAG
* ** *
14779259 AATTACCAAAATACCCCT-AGTTTGTAAAATTACCA-AAATACCC-CTAGTTTGTAA
1 AATTACCAAAATACCACTGA-TTTACAAAATTA-CAGAAATACCCTC-AATTTGTAA
* *** *
14779313 AATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCACTGATTTACAAAATTACAGAAATACCCTCAATTTGTAA
* * * *
14779367 AATTACCAAAATACCCCTGATTTACAAAATTACAGAAATACCCTTGACTTTCTAAA
1 AATTACCAAAATACCACTGATTTACAAAATTACAGAAATACCC-TCAATTTGT-AA
* * * *
14779423 AATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCT
1 AATTACCA-AAATACCACTGATTTACAAAATTACAGAAATACCCT
14779467 TGGTTTGTAG
Statistics
Matches: 129, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
53 1 0.01
54 81 0.63
55 9 0.07
56 38 0.29
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
AATTACCAAAATACCACTGATTTACAAAATTACAGAAATACCCTCAATTTGTAA
Found at i:14779460 original size:27 final size:27
Alignment explanation
Indices: 14779365--14779472 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 27
14779355 CTCAATTTGT
** * *
14779365 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
* *
14779392 AAAATTACAGAAATACCCTTGACTTT-C
1 AAAATTACTGAAATACCCTTG-GTTTAC
*
14779419 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACT-GAAATACCCTTGGTTTAC
14779448 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
14779473 GTAGATTTAC
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
27 41 0.61
28 7 0.10
29 19 0.28
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:14780438 original size:25 final size:25
Alignment explanation
Indices: 14780400--14780464 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
14780390 AGGATGTGCT
* *
14780400 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
14780425 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
14780450 AAAAGGGCTTTGCCC
1 AAAAGGGCTTTGCCC
14780465 TGGTTATTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:14780675 original size:42 final size:42
Alignment explanation
Indices: 14780616--14780707 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
14780606 TAGTCTCCCC
* ** *
14780616 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
14780658 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
14780700 AAATGGGC
1 AAATGGGC
14780708 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:14780766 original size:31 final size:31
Alignment explanation
Indices: 14780731--14780814 Score: 161
Period size: 31 Copynumber: 2.7 Consensus size: 31
14780721 CGTTTACAGT
14780731 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
14780762 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
14780793 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
14780815 TCGAGACTGA
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 5 0.09
31 48 0.91
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:14782520 original size:42 final size:43
Alignment explanation
Indices: 14782443--14782534 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 43
14782433 TCCCAGACGT
* * **
14782443 GGTCTTACATGTAATTCAATATCGATGCCTCTGTCCTAGACAG
1 GGTCTTACAAGTAAATCAATATCGATGCCGATGTCCTAGACAG
*
14782486 GGTCTTACAAG-AAATCAGATAT-GATGCCGATGTCCTAGACAT
1 GGTCTTACAAGTAAATCA-ATATCGATGCCGATGTCCTAGACAG
14782528 GGTCTTA
1 GGTCTTA
14782535 TACATAAATC
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
42 29 0.67
43 14 0.33
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (43 bp):
GGTCTTACAAGTAAATCAATATCGATGCCGATGTCCTAGACAG
Found at i:14782897 original size:50 final size:50
Alignment explanation
Indices: 14782822--14782923 Score: 195
Period size: 50 Copynumber: 2.0 Consensus size: 50
14782812 CTGATCTATG
14782822 TCCGATTTTCTTTGTTCTTGATCTAATAAAATACAAATTCAACCATTCAA
1 TCCGATTTTCTTTGTTCTTGATCTAATAAAATACAAATTCAACCATTCAA
*
14782872 TCCGATTTTCTTTGTTCTTGATCTAATACAATACAAATTCAACCATTCAA
1 TCCGATTTTCTTTGTTCTTGATCTAATAAAATACAAATTCAACCATTCAA
14782922 TC
1 TC
14782924 ATTCATTTCA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.32, C:0.22, G:0.06, T:0.40
Consensus pattern (50 bp):
TCCGATTTTCTTTGTTCTTGATCTAATAAAATACAAATTCAACCATTCAA
Found at i:14796781 original size:19 final size:19
Alignment explanation
Indices: 14796744--14796781 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
14796734 ATCAGACAGG
*
14796744 TCATAAACGGTACAGATGC
1 TCATAAACAGTACAGATGC
14796763 TCATAAACAAGTACA-ATGC
1 TCATAAAC-AGTACAGATGC
14796782 CAACGTCCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.42, C:0.21, G:0.16, T:0.21
Consensus pattern (19 bp):
TCATAAACAGTACAGATGC
Found at i:14805815 original size:16 final size:16
Alignment explanation
Indices: 14805794--14805836 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
14805784 CATGCATGCA
*
14805794 AATGTGCTTATGCTTT
1 AATGTGGTTATGCTTT
14805810 AATGTGGTTATGCTTT
1 AATGTGGTTATGCTTT
14805826 AATGTGGTTAT
1 AATGTGGTTAT
14805837 AGTTGCTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.21, C:0.07, G:0.23, T:0.49
Consensus pattern (16 bp):
AATGTGGTTATGCTTT
Found at i:14818570 original size:21 final size:21
Alignment explanation
Indices: 14818530--14818572 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
14818520 AATTTTCCTA
* *
14818530 AATATGAATTGGATTGAATTG
1 AATATGAATTAGATTAAATTG
*
14818551 AATATGAATTATATTAAATTG
1 AATATGAATTAGATTAAATTG
14818572 A
1 A
14818573 TGTTAAATTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (21 bp):
AATATGAATTAGATTAAATTG
Found at i:14818735 original size:22 final size:21
Alignment explanation
Indices: 14818704--14818745 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
14818694 TAGAGAATAT
*
14818704 ATGTTAATTTGTTTGAATTGA
1 ATGTTAATTTGTGTGAATTGA
14818725 ATGTTGAATTTGTGTGAATTG
1 ATGTT-AATTTGTGTGAATTG
14818746 TATAAATCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (21 bp):
ATGTTAATTTGTGTGAATTGA
Done.