Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 76 of 173
Found at i:23421770 original size:39 final size:40
Alignment explanation
Indices: 23421635--23421858 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
23421625 TTGAATGCTG
* * * * *
23421635 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** *
23421675 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
23421714 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAG-TACTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
23421754 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23421794 TCCGGGTTAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
23421833 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
23421859 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
39 67 0.43
40 82 0.52
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:23421775 original size:79 final size:78
Alignment explanation
Indices: 23421635--23421858 Score: 254
Period size: 79 Copynumber: 2.8 Consensus size: 78
23421625 TTGAATGCTG
* * * * *
23421635 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGC-GAGT-ACTAAATCCGGGCTAAG-TCCCGAAGGCATT
23421699 TGTGCGAGATA-CAAA
63 TGTGCGAGATATCAAA
* * *
23421714 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 -TCCGGGTTAAGTCCCGAAGG-CTTTGTGCGAGTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
* *
23421779 GTGCGAGTTATTAAA
64 GTGCGAGATATCAAA
* * * *
23421794 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAG-TACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
23421859 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
78 10 0.08
79 81 0.66
80 24 0.20
81 8 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGATATCAAA
Found at i:23421876 original size:79 final size:79
Alignment explanation
Indices: 23421715--23421891 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 79
23421705 AGATACAAAT
* * * *
23421715 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGTACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
** * *
23421780 TGCGAGTTATTAAA
66 AACGAGTGACTAAA
* * *
23421794 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAG-TACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
23421858 GAACGAG-GAGCTATA
65 GAACGAGTGA-CTAAA
*
23421873 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
23421892 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 25 0.30
79 58 0.70
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
AACGAGTGACTAAA
Found at i:23429357 original size:80 final size:79
Alignment explanation
Indices: 23429220--23429444 Score: 256
Period size: 80 Copynumber: 2.8 Consensus size: 79
23429210 TTGAATGCTG
* * * * * *
23429220 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGT-ACTAAATCCGGGCTAAG-TCCCGAAGGCATT
23429284 TGTGCGAGATA-CAAA
64 TGTGCGAGATATCAAA
* *
23429299 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGGTACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGG-CTTTGTGCGAGGTACTAAATCCGGGCTAAGTCCCGAAGGCATT
* * *
23429364 CGTGCGAGTTATTAAA
64 TGTGCGAGATATCAAA
* * * * *
23429380 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
23429445 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 19, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
79 39 0.32
80 70 0.57
81 14 0.11
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGGTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATATCAAA
Found at i:23429424 original size:39 final size:39
Alignment explanation
Indices: 23429220--23429442 Score: 225
Period size: 40 Copynumber: 5.6 Consensus size: 39
23429210 TTGAATGCTG
* * * * * *
23429220 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** *
23429260 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAAA
* * *
23429299 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGGTACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
23429340 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
23429380 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
23429419 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
23429443 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 21, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
39 39 0.25
40 105 0.68
41 11 0.07
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:23429462 original size:79 final size:80
Alignment explanation
Indices: 23429300--23429477 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
23429290 AGATACAAAT
* * * *
23429300 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGGTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGGTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
23429365 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
23429380 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGGTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
23429444 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
23429459 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
23429478 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGGTACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:23433522 original size:42 final size:42
Alignment explanation
Indices: 23433465--23433622 Score: 253
Period size: 42 Copynumber: 3.8 Consensus size: 42
23433455 GAAGCCATTC
*
23433465 AGACTTTACGTCTAGCAGGCTTAATGCCTGTGAAATAAATTT
1 AGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAAATTT
*
23433507 AGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAAATTC
1 AGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAAATTT
* *
23433549 AGACTTTATGTCTAGCAGGCTTAATACCGGTGAAATAAATTT
1 AGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAAATTT
* * *
23433591 AGACTATAAGTCTAGCAGGCTTAAAGCCGGTG
1 AGACTTTACGTCTAGCAGGCTTAATGCCGGTG
23433623 TACTGAATCA
Statistics
Matches: 107, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 107 1.00
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30
Consensus pattern (42 bp):
AGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAATAAATTT
Found at i:23434939 original size:28 final size:28
Alignment explanation
Indices: 23434899--23434955 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
23434889 TAAACTCGGA
23434899 TGCATTGACAATGTCCTCAACAGATTCT
1 TGCATTGACAATGTCCTCAACAGATTCT
*
23434927 TGCATTGACAATGTCCTCAATAGATTCT
1 TGCATTGACAATGTCCTCAACAGATTCT
23434955 T
1 T
23434956 TCTCAGTAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (28 bp):
TGCATTGACAATGTCCTCAACAGATTCT
Found at i:23435507 original size:15 final size:15
Alignment explanation
Indices: 23435487--23435518 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
23435477 TTCTGCTTTG
*
23435487 GTTTTGCCTTTCCTT
1 GTTTTGCCCTTCCTT
23435502 GTTTTGCCCTTCCTT
1 GTTTTGCCCTTCCTT
23435517 GT
1 GT
23435519 CTTGTTGGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.00, C:0.28, G:0.16, T:0.56
Consensus pattern (15 bp):
GTTTTGCCCTTCCTT
Found at i:23443918 original size:17 final size:16
Alignment explanation
Indices: 23443887--23443920 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
23443877 AAATATTATG
23443887 AAATAAAAACAAACAA
1 AAATAAAAACAAACAA
*
23443903 AAATAAACATCAAACAA
1 AAATAAA-AACAAACAA
23443920 A
1 A
23443921 TTTCATCCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.76, C:0.15, G:0.00, T:0.09
Consensus pattern (16 bp):
AAATAAAAACAAACAA
Found at i:23451947 original size:49 final size:48
Alignment explanation
Indices: 23451883--23451998 Score: 126
Period size: 49 Copynumber: 2.4 Consensus size: 48
23451873 AAAAGCTATG
* * *
23451883 TCCCAGAAATAGTCTTACATGGGATGTTTTCTGTAC-TACCAATGCCATA
1 TCCCAGAAATGGTCTTACATGGGA-GTTCTC-ATACGTACCAATGCCATA
* * * *
23451932 TCCCAGATATGGTCTTACATGGGAGTTCTCATACGGTGCCCATGCCATG
1 TCCCAGAAATGGTCTTACATGGGAGTTCTCATAC-GTACCAATGCCATA
*
23451981 TCCCAGACATGGTCTTAC
1 TCCCAGAAATGGTCTTAC
23451999 GGGGGACCTC
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
47 3 0.05
48 5 0.09
49 49 0.86
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (48 bp):
TCCCAGAAATGGTCTTACATGGGAGTTCTCATACGTACCAATGCCATA
Found at i:23452011 original size:49 final size:49
Alignment explanation
Indices: 23451921--23452113 Score: 170
Period size: 50 Copynumber: 3.7 Consensus size: 49
23451911 TTCTGTACTA
* * **
23451921 CCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATACGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATACGGTG
* ** *
23451970 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-ACGGTG
* * * * *
23452020 CCAACGTCATGTCTCAGACATGGTCTTACATGAGACCTCTCATAATCTCAATAATGATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A---C------GGTG
23452079 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA
23452114 TCTCATTCCC
Statistics
Matches: 112, Mismatches: 22, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
49 36 0.32
50 41 0.37
53 1 0.01
59 34 0.30
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.26
Consensus pattern (49 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATACGGTG
Found at i:23459231 original size:12 final size:12
Alignment explanation
Indices: 23459194--23459243 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
23459184 ATTAGAATCT
* *
23459194 TTACTCGCTTAT
1 TTACTTGCTTAC
* *
23459206 TTACTTACTCAC
1 TTACTTGCTTAC
*
23459218 TTACTTGTTTAC
1 TTACTTGCTTAC
23459230 TTACTTGCTTAC
1 TTACTTGCTTAC
23459242 TT
1 TT
23459244 TAATAACTCA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.18, C:0.24, G:0.06, T:0.52
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:23459569 original size:50 final size:50
Alignment explanation
Indices: 23459444--23459626 Score: 156
Period size: 50 Copynumber: 3.7 Consensus size: 50
23459434 TGATAATACA
* * * * * * *
23459444 TGCCAAAGCTATGTCCTAGAAATAGTCTTACATGGGATGTTTTC-TGT-GC
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGA-GTTATCATATCGG
* * * * *
23459493 TACCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGAGTTATCATATCGG
* ** ** *
23459543 TGCCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTATCATCTCGG
1 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGAGTTATCATATCGG
*
23459593 TGCCAACGCCATGT-CTCAGACATGGTCTTACATG
1 TGCCAATGCCATGTCCT-AGACATGGTCTTACATG
23459627 AGACCTCTCA
Statistics
Matches: 106, Mismatches: 25, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
48 5 0.05
49 34 0.32
50 67 0.63
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (50 bp):
TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGAGTTATCATATCGG
Found at i:23459632 original size:50 final size:49
Alignment explanation
Indices: 23459495--23459688 Score: 163
Period size: 50 Copynumber: 3.7 Consensus size: 49
23459485 TTCTGTGCTA
* * **
23459495 CCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAATGCCATGT-CCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
* ** * *
23459545 CCCATGCCATGTCCTAGACATGGTCTTACGGGGGACCTATCATCTCGGTG
1 CCAATGCCATGTCC-AGACATGGTCTTACATGGGACCTCTCATATCGGTG
* * *
23459595 CCAACGCCATGTCTCAGACATGGTCTTACATGAGACCTCTCATAATCTCAATAATGATG
1 CCAATGCCATGTC-CAGACATGGTCTTACATGGGACCTCTCAT-A--TC------GGTG
23459654 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA
1 CCAATGCCATGT-CCAGACATGGTCTTACATGGGA
23459689 TCTCATTTCC
Statistics
Matches: 113, Mismatches: 19, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
49 2 0.02
50 73 0.65
51 1 0.01
53 2 0.02
59 34 0.30
60 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (49 bp):
CCAATGCCATGTCCAGACATGGTCTTACATGGGACCTCTCATATCGGTG
Found at i:23478221 original size:14 final size:14
Alignment explanation
Indices: 23478202--23478230 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
23478192 ATACATTTTG
23478202 GCCATTCGGTTCTT
1 GCCATTCGGTTCTT
23478216 GCCATTCGGTTCTT
1 GCCATTCGGTTCTT
23478230 G
1 G
23478231 GTGTTAGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.28, G:0.24, T:0.41
Consensus pattern (14 bp):
GCCATTCGGTTCTT
Found at i:23485123 original size:49 final size:50
Alignment explanation
Indices: 23485006--23485146 Score: 203
Period size: 49 Copynumber: 2.8 Consensus size: 50
23484996 TGTTACACCA
* * *
23485006 TTTGTGGACAAGCCACCACTAATTTGCAAATAAACTACCACTAAGAACAC
1 TTTGTGGACAAGCCACCACTGATATGCAAATATACTACCACTAAGAACAC
* * * *
23485056 TTTATGAACAAACCACCACTGATATGCAAATATACTGCCACTAA-AACAC
1 TTTGTGGACAAGCCACCACTGATATGCAAATATACTACCACTAAGAACAC
*
23485105 TTTGTGGACAAGCCACCACTGATATGCAGATATACTACCACT
1 TTTGTGGACAAGCCACCACTGATATGCAAATATACTACCACT
23485147 TACTTCCTCC
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
49 42 0.53
50 37 0.47
ACGTcount: A:0.38, C:0.26, G:0.12, T:0.23
Consensus pattern (50 bp):
TTTGTGGACAAGCCACCACTGATATGCAAATATACTACCACTAAGAACAC
Found at i:23487516 original size:29 final size:29
Alignment explanation
Indices: 23487474--23487622 Score: 199
Period size: 29 Copynumber: 5.1 Consensus size: 29
23487464 ATCGATGCTT
* * *
23487474 ATCGACTATGAAAAGGGATGATTTCGACC
1 ATCGAATATGAAAAGGGATGGTTTCAACC
** *
23487503 ATCGAATATGAAAAGGGATGGTGACAACT
1 ATCGAATATGAAAAGGGATGGTTTCAACC
*
23487532 ATCGAATATGAAAAGGGATGGTTTCAACT
1 ATCGAATATGAAAAGGGATGGTTTCAACC
** *
23487561 ATCGAATATGAAAAGGGATGGTGACGACC
1 ATCGAATATGAAAAGGGATGGTTTCAACC
*
23487590 ATCGAATATGAAAGGGGATGGTTTCAACC
1 ATCGAATATGAAAAGGGATGGTTTCAACC
23487619 ATCG
1 ATCG
23487623 TTTAGCACAC
Statistics
Matches: 104, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 104 1.00
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (29 bp):
ATCGAATATGAAAAGGGATGGTTTCAACC
Found at i:23487544 original size:58 final size:58
Alignment explanation
Indices: 23487473--23487622 Score: 237
Period size: 58 Copynumber: 2.6 Consensus size: 58
23487463 TATCGATGCT
* * *
23487473 TATCGACTATGAAAAGGGATGATTTCGACCATCGAATATGAAAAGGGATGGTGACAAC
1 TATCGAATATGAAAAGGGATGGTTTCAACCATCGAATATGAAAAGGGATGGTGACAAC
* *
23487531 TATCGAATATGAAAAGGGATGGTTTCAACTATCGAATATGAAAAGGGATGGTGACGAC
1 TATCGAATATGAAAAGGGATGGTTTCAACCATCGAATATGAAAAGGGATGGTGACAAC
* *
23487589 CATCGAATATGAAAGGGGATGGTTTCAACCATCG
1 TATCGAATATGAAAAGGGATGGTTTCAACCATCG
23487623 TTTAGCACAC
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
58 84 1.00
ACGTcount: A:0.37, C:0.13, G:0.27, T:0.23
Consensus pattern (58 bp):
TATCGAATATGAAAAGGGATGGTTTCAACCATCGAATATGAAAAGGGATGGTGACAAC
Found at i:23488013 original size:53 final size:54
Alignment explanation
Indices: 23487918--23488025 Score: 191
Period size: 53 Copynumber: 2.0 Consensus size: 54
23487908 TTACTAAGCA
*
23487918 TTATATGCTTACTTTGTGTTTTTTTCTATGTTTTATAGTAAATTGGAAGCTCAT
1 TTATATGCTTACTTTGTGTTTTTTTCTATGTTTGATAGTAAATTGGAAGCTCAT
*
23487972 TTATATGCTTAGTTTGTG-TTTTTTCTATGTTTGATAGTAAATTGGAAGCTCAT
1 TTATATGCTTACTTTGTGTTTTTTTCTATGTTTGATAGTAAATTGGAAGCTCAT
23488025 T
1 T
23488026 CGGGTTGGAA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
53 35 0.67
54 17 0.33
ACGTcount: A:0.22, C:0.08, G:0.17, T:0.53
Consensus pattern (54 bp):
TTATATGCTTACTTTGTGTTTTTTTCTATGTTTGATAGTAAATTGGAAGCTCAT
Found at i:23493731 original size:35 final size:36
Alignment explanation
Indices: 23493670--23493739 Score: 92
Period size: 35 Copynumber: 2.0 Consensus size: 36
23493660 CTAAATCACT
23493670 TTTGATATTATTATATAATAATTAATTA-AATTAAA
1 TTTGATATTATTATATAATAATTAATTATAATTAAA
*
23493705 TTTGATATTATT-T-TAATTTATCTAATTATAATTAA
1 TTTGATATTATTATATAA-TAAT-TAATTATAATTAA
23493740 TAAATTAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
33 3 0.10
34 4 0.13
35 18 0.58
36 6 0.19
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (36 bp):
TTTGATATTATTATATAATAATTAATTATAATTAAA
Found at i:23500720 original size:57 final size:58
Alignment explanation
Indices: 23500600--23500720 Score: 140
Period size: 57 Copynumber: 2.1 Consensus size: 58
23500590 ATTAATTTAA
* * * *
23500600 TATTAAATTAATATAATACTTATCAAGATGAATATTAGATTAAATTTAATATTAAGAT
1 TATTAAATTAATAAAATACTTATCAAGATGAATAATAAATTAAATTAAATATTAAGAT
* * *
23500658 AATTAATTTAATAAAATAC-TATCAAGAT-AAGTAATAAATTAAATTAAATGTTAA-ATT
1 TATTAAATTAATAAAATACTTATCAAGATGAA-TAATAAATTAAATTAAATATTAAGA-T
23500715 TATTAA
1 TATTAA
23500721 GATAATATTA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
56 3 0.06
57 34 0.64
58 16 0.30
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (58 bp):
TATTAAATTAATAAAATACTTATCAAGATGAATAATAAATTAAATTAAATATTAAGAT
Found at i:23502046 original size:45 final size:45
Alignment explanation
Indices: 23501982--23502199 Score: 278
Period size: 45 Copynumber: 4.9 Consensus size: 45
23501972 TACTAAGTAT
*
23501982 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAC
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGATAC
* * **
23502027 CATTGATTAGAAAGGTGGTTGCTATGTGCTGATTCCATCGGGCAC
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGATAC
* * * *
23502072 CATTGATTATAAAGGTGGTTGCTATGTGCTGACTCCATCGGAAAT
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGATAC
* ** * *
23502117 TATTGAAAATAAAGGTGGTTGCTATGTGCTGATTCCACCGAATAT
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGATAC
* *
23502162 AATTGATTATAAGGGTGG-TGCTATGTGCTGA-TCCACCG
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCG
23502200 TGTAACGGTT
Statistics
Matches: 154, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
43 7 0.05
44 13 0.08
45 134 0.87
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (45 bp):
CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGATAC
Found at i:23506367 original size:28 final size:27
Alignment explanation
Indices: 23506285--23506368 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 27
23506275 CTTTTCGGTT
23506285 CACGTAGTAGCCTGCACATAGTACTACA
1 CACGTAGTAGCCTGCA-ATAGTACTACA
* * * *
23506313 CACGT-G-A-CCAT-TAATA-TTCGATA
1 CACGTAGTAGCC-TGCAATAGTACTACA
23506336 CACGTAGTAGCCTGCATATAGTACTACA
1 CACGTAGTAGCCTGCA-ATAGTACTACA
23506364 CACGT
1 CACGT
23506369 GATCGAAGCT
Statistics
Matches: 41, Mismatches: 8, Indels: 14
0.65 0.13 0.22
Matches are distributed among these distances:
23 9 0.22
24 4 0.10
25 5 0.12
26 5 0.12
27 4 0.10
28 14 0.34
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (27 bp):
CACGTAGTAGCCTGCAATAGTACTACA
Found at i:23506371 original size:101 final size:100
Alignment explanation
Indices: 23506225--23506469 Score: 323
Period size: 101 Copynumber: 2.4 Consensus size: 100
23506215 TTAACTATTA
* * * * * *
23506225 TCATTCGATACACGTAGTAGCCTTCACATAATACTACACACGTGATC-AAACTTTTCGGTTCACG
1 TCATTCGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATCCGGTACACA
*
23506289 TAGTAGCCTGCACATAGTACTACACACGTGACCATT
66 TAGTAGCCTGCACATAGTACTACACACGCGACC-TT
* * * *
23506325 AAT-ATTCGATACACGTAGTAGCCTGCATATAGTACTACACACGTGATCGAAGCTATCCGGTACG
1 --TCATTCGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATCCGGTACA
*
23506389 CATAGTAGCCTGCACATAGTACTACACATGCGACCTT
64 CATAGTAGCCTGCACATAGTACTACACACGCGACCTT
*
23506426 TCATTCTGGTACACGTAGTAGCCTACACATAGTACTACACACGT
1 TCATTC-GATACACGTAGTAGCCTACACATAGTACTACACACGT
23506470 AACCATCACT
Statistics
Matches: 126, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
99 1 0.01
100 4 0.03
101 78 0.62
102 43 0.34
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (100 bp):
TCATTCGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATCCGGTACACA
TAGTAGCCTGCACATAGTACTACACACGCGACCTT
Found at i:23506494 original size:101 final size:99
Alignment explanation
Indices: 23506221--23506495 Score: 286
Period size: 101 Copynumber: 2.7 Consensus size: 99
23506211 TCATTTAACT
* * * * *
23506221 ATTATCATTCGATACACGTAGTAGCCTTCACATAATACTACACACGTGATCAAACTTTTCGGTTC
1 ATTATCATTCGATACACGTAGTAGCCTACACATAGTACTACACACGT-AACCAAC-TTTCCGTTC
* *
23506286 ACGTAGTAGCCTGCACATAGTACTACACACGTGACC
64 ACATAGTAGCCTGCACATAGTACTACACACGCGACC
* * * * *
23506322 ATTAAT-ATTCGATACACGTAGTAGCCTGCATATAGTACTACACACGTGATCGAAGCTATCCGGT
1 ATT-ATCATTCGATACACGTAGTAGCCTACACATAGTACTACACACGT-AACCAA-CTTTCC-GT
* * *
23506386 ACGCATAGTAGCCTGCACATAGTACTACACATGCGACC
62 TCACATAGTAGCCTGCACATAGTACTACACACGCGACC
* *
23506424 -TT-TCATTCTGGTACACGTAGTAGCCTACACATAGTACTACACACGTAACCATCACTTTCACTT
1 ATTATCATTC-GATACACGTAGTAGCCTACACATAGTACTACACACGTAACCA--ACTTTC-CGT
23506487 TCACATAGT
62 TCACATAGT
23506496 GACCTACACA
Statistics
Matches: 146, Mismatches: 20, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
99 1 0.01
100 7 0.05
101 98 0.67
102 40 0.27
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.28
Consensus pattern (99 bp):
ATTATCATTCGATACACGTAGTAGCCTACACATAGTACTACACACGTAACCAACTTTCCGTTCAC
ATAGTAGCCTGCACATAGTACTACACACGCGACC
Found at i:23516051 original size:51 final size:50
Alignment explanation
Indices: 23515971--23516170 Score: 197
Period size: 51 Copynumber: 3.9 Consensus size: 50
23515961 TGCCTATAAA
* * *
23515971 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGATAGATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGA-AGATAATGGT
* * * **
23516022 CACATGTGTAGTACTATGTGGAGGCTACTATGTGTACCGGAAG-TCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACC-GAAGAT-AATGGT
* * * * * *
23516073 CACGTGTGTAGTACTATGTGTAGGCTACTACATGAACCGAAAAGT-TTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAAGA-TAATGGT
* *
23516123 CAGGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATAAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAA-GATAAT
23516171 AATTACACAG
Statistics
Matches: 122, Mismatches: 21, Indels: 12
0.79 0.14 0.08
Matches are distributed among these distances:
50 45 0.37
51 74 0.61
52 3 0.02
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGAAGATAATGGT
Found at i:23521757 original size:37 final size:37
Alignment explanation
Indices: 23521698--23521799 Score: 168
Period size: 37 Copynumber: 2.8 Consensus size: 37
23521688 AGCTCAGACG
* * *
23521698 AAATCTCCACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
23521735 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
23521772 TAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTT
23521800 TAGAGCTCGG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:23522005 original size:47 final size:47
Alignment explanation
Indices: 23521918--23522657 Score: 1237
Period size: 47 Copynumber: 15.6 Consensus size: 47
23521908 CCCTTCGGGA
* * * * * *
23521918 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23521965 CTTGTCGCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23522012 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23522059 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23522106 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23522153 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23522202 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23522249 CTTATCACATATATACAATTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23522296 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23522345 CTTATCACATATATACAATTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
23522392 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23522441 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23522488 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23522535 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
23522582 CTTATCACATATATACAATTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
23522629 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
23522658 TATTCAAATA
Statistics
Matches: 655, Mismatches: 30, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
47 503 0.77
49 152 0.23
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:23522231 original size:143 final size:141
Alignment explanation
Indices: 23521918--23522657 Score: 1237
Period size: 143 Copynumber: 5.2 Consensus size: 141
23521908 CCCTTCGGGA
* * * * * * * *
23521918 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCTTGTCGCATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
23521983 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
23522048 GGCCATTAGGC
131 GGCCATTAGGC
23522059 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
23522124 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
*
23522189 TCGGCTATTAGGC
129 TCGGCCATTAGGC
* *
23522202 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
23522267 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
* *
23522332 TTGGCCATTCGGC
129 TCGGCCATTAGGC
*
23522345 CTTATCACATATATACAATTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
23522410 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
23522475 TCGGCTATTAGGC
129 TCGGCCATTAGGC
23522488 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
23522553 TTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAATTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
23522618 GGCCATTAGGC
131 GGCCATTAGGC
23522629 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
23522658 TATTCAAATA
Statistics
Matches: 565, Mismatches: 28, Indels: 10
0.94 0.05 0.02
Matches are distributed among these distances:
141 183 0.32
143 338 0.60
145 44 0.08
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:23528215 original size:51 final size:50
Alignment explanation
Indices: 23528135--23528332 Score: 184
Period size: 51 Copynumber: 3.9 Consensus size: 50
23528125 TGGCTATGAA
* *
23528135 CACGTGTGTAGTACCAAGTGCAGGCTACTACGTGTATCGATA-GATAATGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGA-AGGAT-ATGGT
* * * * * *
23528186 CACATGTGTAGTACTATGTGCAGACTACTATGTGTACCGGAAGGCTTTGGT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATC-GAAGGATATGGT
* * * * * * *
23528237 CACGTGTGTTGTACTATGTACAGGCTACTACATGAATCGAA-AAGTTTGAT
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAAGGA-TATGGT
* * *
23528287 CAGGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATA
1 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAAGGATA
23528333 ATAATTGCAC
Statistics
Matches: 116, Mismatches: 27, Indels: 9
0.76 0.18 0.06
Matches are distributed among these distances:
50 44 0.38
51 68 0.59
52 4 0.03
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAAGGATATGGT
Found at i:23530125 original size:27 final size:28
Alignment explanation
Indices: 23530090--23530148 Score: 93
Period size: 27 Copynumber: 2.1 Consensus size: 28
23530080 ATTAAAAAAA
* *
23530090 GCCAGTTTGTTTGGTGAGTT-GGGGTTC
1 GCCAATTTGTTTGGTGACTTGGGGGTTC
23530117 GCCAATTTGTTTGGTGACTTGGGGGTTC
1 GCCAATTTGTTTGGTGACTTGGGGGTTC
23530145 GCCA
1 GCCA
23530149 GTTAAGTTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 18 0.62
28 11 0.38
ACGTcount: A:0.10, C:0.15, G:0.37, T:0.37
Consensus pattern (28 bp):
GCCAATTTGTTTGGTGACTTGGGGGTTC
Found at i:23532334 original size:50 final size:50
Alignment explanation
Indices: 23532158--23532336 Score: 207
Period size: 50 Copynumber: 3.6 Consensus size: 50
23532148 AATTGGGTAA
* * *
23532158 AGAGATCCCATGTAAGACCATGTCTAGGACATGGCGTTAGCACCGAGATG
1 AGAGCTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * *
23532208 AGAGGTCCCATGTAAGGCCATGTCTTGGACATGGCGTTGGCACCGAGATG
1 AGAGCTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * * * * * *
23532258 AGAGGTTCCC-CGTAAGACCATGTCTGGGACATAGCATGGGCACCGATATT
1 AGA-GCTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
23532308 AGAACTCCCATGTAAGACCATATCTGGGA
1 AGAGCTCCCATGTAAGACCATGTCTGGGA
23532337 TATGTCATTG
Statistics
Matches: 110, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 4 0.04
50 101 0.92
51 5 0.05
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.21
Consensus pattern (50 bp):
AGAGCTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:23534067 original size:24 final size:24
Alignment explanation
Indices: 23534013--23534067 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
23534003 ATATGTAACT
* *
23534013 GATAAGATAAGATAAGTGTGTTAA
1 GATAAGTTAAGATAAGTATGTTAA
**
23534037 GCCAAGTTAAGATAAGTATGTTAA
1 GATAAGTTAAGATAAGTATGTTAA
23534061 GATAAGT
1 GATAAGT
23534068 GCGAGAATGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.24, T:0.29
Consensus pattern (24 bp):
GATAAGTTAAGATAAGTATGTTAA
Found at i:23537096 original size:12 final size:12
Alignment explanation
Indices: 23537079--23537108 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23537069 AGCCACACGC
23537079 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
23537091 CCGTGTGCTAGG
1 CCGTGTGCCAGG
23537103 CCGTGT
1 CCGTGT
23537109 AACTACCCAC
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:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:23542715 original size:20 final size:20
Alignment explanation
Indices: 23542683--23542730 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
23542673 AAAGGGGCGC
23542683 CAAA-GTGCAATCA-GGAGCA
1 CAAATGTGCAATCAGGGA-CA
* *
23542702 CGAATGTGCGATCAGGGACA
1 CAAATGTGCAATCAGGGACA
23542722 CAAATGTGC
1 CAAATGTGC
23542731 TTTCCAGGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 3 0.12
20 18 0.75
21 3 0.12
ACGTcount: A:0.35, C:0.21, G:0.29, T:0.15
Consensus pattern (20 bp):
CAAATGTGCAATCAGGGACA
Found at i:23542769 original size:40 final size:39
Alignment explanation
Indices: 23542714--23542802 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 39
23542704 AATGTGCGAT
* *
23542714 CAGGGACACAAATGTGCTTTCCAGGGCG-CCGAAGTACAAA
1 CAGGGGCACAAATGTG-TATCCAGGG-GACCGAAGTACAAA
*
23542754 CAGGGGCACAGATGTGTATCCAGGGGTACCGAAGTACAAA
1 CAGGGGCACAAATGTGTATCCAGGGG-ACCGAAGTACAAA
23542794 CAGGGGCAC
1 CAGGGGCAC
23542803 TTCTTCATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 8 0.18
40 35 0.80
ACGTcount: A:0.31, C:0.24, G:0.31, T:0.13
Consensus pattern (39 bp):
CAGGGGCACAAATGTGTATCCAGGGGACCGAAGTACAAA
Found at i:23542797 original size:20 final size:20
Alignment explanation
Indices: 23542737--23542802 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 20
23542727 GTGCTTTCCA
*
23542737 GGGCGCCGAAGTACAAACAG
1 GGGCACCGAAGTACAAACAG
* * ** **
23542757 GGGCACAGATGTGTATCCAG
1 GGGCACCGAAGTACAAACAG
*
23542777 GGGTACCGAAGTACAAACAG
1 GGGCACCGAAGTACAAACAG
23542797 GGGCAC
1 GGGCAC
23542803 TTCTTCATTT
Statistics
Matches: 31, Mismatches: 15, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.32, C:0.23, G:0.35, T:0.11
Consensus pattern (20 bp):
GGGCACCGAAGTACAAACAG
Found at i:23562745 original size:60 final size:58
Alignment explanation
Indices: 23562667--23562830 Score: 159
Period size: 60 Copynumber: 2.8 Consensus size: 58
23562657 CTGAATATGA
* * *
23562667 GGATCAACATCCTAACCATTCAAATTATCATTTAGACCAGGTATCACCCTACAAACAGG
1 GGATTAACATCCTGACCATTCAAATTATCATTCAGACCAGG-ATCACCCTACAAACAGG
* * * * * * *
23562726 AGGA-TCACTGTCCTGACCATTCAAGTTATCATTCAGACTAGACATCACCCTACGAATAGG
1 -GGATTAAC-ATCCTGACCATTCAAATTATCATTCAGACCAG-GATCACCCTACAAACAGG
* * * *
23562786 GGATTAACATCTTGGCCATTCATATTATCATTGAGACCAGGATCA
1 GGATTAACATCCTGACCATTCAAATTATCATTCAGACCAGGATCA
23562831 TTCCCGTTAC
Statistics
Matches: 82, Mismatches: 19, Indels: 8
0.75 0.17 0.07
Matches are distributed among these distances:
58 4 0.05
59 30 0.37
60 48 0.59
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (58 bp):
GGATTAACATCCTGACCATTCAAATTATCATTCAGACCAGGATCACCCTACAAACAGG
Found at i:23566813 original size:40 final size:40
Alignment explanation
Indices: 23566739--23566920 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 40
23566729 GCTACTCGTT
*
23566739 CAAATGCCTTC-GGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
23566778 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
23566818 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
23566857 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
23566898 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
23566921 ACATCATTCA
Statistics
Matches: 124, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 44 0.35
40 65 0.52
41 13 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:23566838 original size:79 final size:80
Alignment explanation
Indices: 23566739--23566920 Score: 219
Period size: 79 Copynumber: 2.3 Consensus size: 80
23566729 GCTACTCGTT
* * *
23566739 CAAATGCCTTCGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGCTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
23566802 GATTTAGTAAC-TCGCA
64 GATATAGTAACTTAGCA
* **
23566818 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
23566883 TATGGTCACTTAGCA
66 TATAGTAACTTAGCA
23566898 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGG-CTTAGCCCG
23566921 ACATCATTCA
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 68 0.76
80 18 0.20
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCA
Found at i:23578886 original size:40 final size:40
Alignment explanation
Indices: 23578802--23579023 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
23578792 TTGAATGATG
* * * *
23578802 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
23578842 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
23578882 TCCGGGCTAAG--CCGAAGGCA-TTGTGCGAG-TACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23578918 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
23578958 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
23578999 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
23579024 AAGAGGAGCT
Statistics
Matches: 163, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
36 16 0.10
37 9 0.06
38 18 0.11
39 9 0.06
40 101 0.62
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:23579006 original size:116 final size:117
Alignment explanation
Indices: 23578802--23579021 Score: 286
Period size: 116 Copynumber: 1.9 Consensus size: 117
23578792 TTGAATGATG
*
23578802 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
23578867 GTGCGAGATACTAATTCCGGGCTAAG-CCGAAGGCATTGTGCGAGTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGTGCGAGTACTAAA
* * * * **
23578918 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
23578981 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
23579022 TGAAGAGGAG
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
115 3 0.03
116 68 0.76
117 7 0.08
118 11 0.12
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (117 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGTGCGAGTACTAAA
Found at i:23584818 original size:40 final size:40
Alignment explanation
Indices: 23584734--23584958 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
23584724 TTGAATGATG
* * *
23584734 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
* *
23584774 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
* *
23584814 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
23584853 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGATATACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
23584893 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTA-AA
*
23584934 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
23584959 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
39 34 0.21
40 115 0.71
41 12 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:23592703 original size:63 final size:63
Alignment explanation
Indices: 23592582--23592794 Score: 257
Period size: 63 Copynumber: 3.4 Consensus size: 63
23592572 AGACACCACA
* * * * *
23592582 TTGTGGCCAAGCCACTCAATATAGCAGACAAGCTGCACATTGTGGTCAAA-CTACTCAATAATG
1 TTGTGGCCAAGCCACTCAATATTGCAGAAAAGCTGCACATTATGG-AAAAGCAACTCAATAATG
* * * * * *
23592645 TTGGGGCTAAGCCACTCAATATTGTAGAAAAGCTGCACATTCTGGAAAAGCCATTCAATAATG
1 TTGTGGCCAAGCCACTCAATATTGCAGAAAAGCTGCACATTATGGAAAAGCAACTCAATAATG
* ** * * *
23592708 TTGTGGCCAAGCCACTCAATATTGCAGATAAGCTGCATGTTATGGACAAGTAACTGAATAATG
1 TTGTGGCCAAGCCACTCAATATTGCAGAAAAGCTGCACATTATGGAAAAGCAACTCAATAATG
23592771 TTGTGGCCAAGCCACTCAATATTG
1 TTGTGGCCAAGCCACTCAATATTG
23592795 TAGTAAAACT
Statistics
Matches: 128, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
62 3 0.02
63 125 0.98
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (63 bp):
TTGTGGCCAAGCCACTCAATATTGCAGAAAAGCTGCACATTATGGAAAAGCAACTCAATAATG
Found at i:23592902 original size:33 final size:33
Alignment explanation
Indices: 23592858--23592930 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 33
23592848 GGGCATGCTT
*
23592858 AACATGCGAATCAGATTTATAGTCAACACAGTC
1 AACATGCGAATCAAATTTATAGTCAACACAGTC
* *
23592891 AACATGTGAATCAAATTTATAGTCAACATAGTC
1 AACATGCGAATCAAATTTATAGTCAACACAGTC
23592924 AACATGC
1 AACATGC
23592931 TTAACATAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (33 bp):
AACATGCGAATCAAATTTATAGTCAACACAGTC
Found at i:23592938 original size:18 final size:18
Alignment explanation
Indices: 23592915--23592955 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
23592905 ATTTATAGTC
23592915 AACATAGTCAACATGCTT
1 AACATAGTCAACATGCTT
*
23592933 AACATAGTCAATATGCTT
1 AACATAGTCAACATGCTT
23592951 AACAT
1 AACAT
23592956 GCAAATCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (18 bp):
AACATAGTCAACATGCTT
Found at i:23597238 original size:18 final size:18
Alignment explanation
Indices: 23597226--23597292 Score: 80
Period size: 18 Copynumber: 3.6 Consensus size: 18
23597216 AAAAAGCAAT
* *
23597226 TGAAAATGAAAAACAAAG
1 TGAAAATGAAAAAGAGAG
*
23597244 TGAAAAAGAAAAAGAGAG
1 TGAAAATGAAAAAGAGAG
*
23597262 TGAGAGAATGAAAAAGAGAT
1 TGA-A-AATGAAAAAGAGAG
23597282 TGAAAATGAAA
1 TGAAAATGAAA
23597293 TAAAAAGTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
18 25 0.60
19 2 0.05
20 15 0.36
ACGTcount: A:0.63, C:0.01, G:0.24, T:0.12
Consensus pattern (18 bp):
TGAAAATGAAAAAGAGAG
Found at i:23597284 original size:56 final size:55
Alignment explanation
Indices: 23597215--23597324 Score: 145
Period size: 56 Copynumber: 2.0 Consensus size: 55
23597205 AGAAAATAAA
* *
23597215 GAAAAAGCAATTGAAAATGAAA-AACAAAGTGAA-AAAGAAAAAGAGAGTGAGAGAAT
1 GAAAAAGCAATTGAAAATGAAATAA-AAAGT-AAGAAAAAAAAAGA-AATGAGAGAAT
23597271 GAAAAAG-AGATTGAAAATGAAATAAAAAGTAAGAAAAAAAAAGAAATGAGAGAA
1 GAAAAAGCA-ATTGAAAATGAAATAAAAAGTAAGAAAAAAAAAGAAATGAGAGAA
23597325 AAAGAAAAAG
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
55 12 0.24
56 35 0.71
57 2 0.04
ACGTcount: A:0.65, C:0.02, G:0.22, T:0.11
Consensus pattern (55 bp):
GAAAAAGCAATTGAAAATGAAATAAAAAGTAAGAAAAAAAAAGAAATGAGAGAAT
Found at i:23599387 original size:23 final size:25
Alignment explanation
Indices: 23599361--23599422 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 25
23599351 AGTTACATAC
*
23599361 AAAGGGAGCATTATATATC-ATT-T
1 AAAGGGAGCATTATATATCAATTAA
23599384 AAA-GGAGC-TGT-TATATCAATTAA
1 AAAGGGAGCAT-TATATATCAATTAA
23599407 AAAGGAGAGCATTATA
1 AAAGG-GAGCATTATA
23599423 CCTCCTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
21 7 0.23
22 9 0.29
23 6 0.19
24 1 0.03
25 5 0.16
26 3 0.10
ACGTcount: A:0.44, C:0.08, G:0.19, T:0.29
Consensus pattern (25 bp):
AAAGGGAGCATTATATATCAATTAA
Found at i:23603049 original size:16 final size:16
Alignment explanation
Indices: 23603028--23603058 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
23603018 TAATATTCTG
23603028 CATTAAACAACAGCAA
1 CATTAAACAACAGCAA
23603044 CATTAAACAACAGCA
1 CATTAAACAACAGCA
23603059 GCAAGACACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.06, T:0.13
Consensus pattern (16 bp):
CATTAAACAACAGCAA
Found at i:23605049 original size:27 final size:29
Alignment explanation
Indices: 23604988--23605055 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 29
23604978 TTCAACATCT
23604988 TTTTCTTTTTCAATTTTTTTCTCAATCTCA
1 TTTTCTTTTTCAATTTTTTTCTC-ATCTCA
* *
23605018 ATTTCTTTTTCAGTTTTCTTT-TC-T-TCA
1 TTTTCTTTTTCAATTTT-TTTCTCATCTCA
23605045 TTTTCTTTTTC
1 TTTTCTTTTTC
23605056 TCTCAGTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
27 13 0.38
28 1 0.03
30 17 0.50
31 3 0.09
ACGTcount: A:0.12, C:0.19, G:0.01, T:0.68
Consensus pattern (29 bp):
TTTTCTTTTTCAATTTTTTTCTCATCTCA
Found at i:23605054 original size:15 final size:15
Alignment explanation
Indices: 23605026--23605065 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
23605016 CAATTTCTTT
23605026 TTCAGTTTTCTTTTC
1 TTCAGTTTTCTTTTC
23605041 TTCA-TTTTCTTTTTC
1 TTCAGTTTTC-TTTTC
23605056 TCTCAGTTTT
1 T-TCAGTTTT
23605066 TCAATTTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 5 0.23
15 10 0.45
16 3 0.14
17 4 0.18
ACGTcount: A:0.07, C:0.20, G:0.05, T:0.68
Consensus pattern (15 bp):
TTCAGTTTTCTTTTC
Found at i:23605083 original size:18 final size:18
Alignment explanation
Indices: 23605062--23605103 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
23605052 TTTCTCTCAG
23605062 TTTTTCAATTTCTTTTTC
1 TTTTTCAATTTCTTTTTC
*
23605080 TTTTGCAATTTCTTTTTC
1 TTTTTCAATTTCTTTTTC
*
23605098 ATTTTC
1 TTTTTC
23605104 TCGCTCGTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.12, C:0.17, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTTTCAATTTCTTTTTC
Found at i:23606027 original size:27 final size:26
Alignment explanation
Indices: 23605997--23606049 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
23605987 TACTTCGTAC
*
23605997 TCCTTTTTATCGATTTTTTTTCGAATT
1 TCCTTTTTATCGATTATTTTTC-AATT
*
23606024 TCCTTTTTTTCGATTATTTTTCAATT
1 TCCTTTTTATCGATTATTTTTCAATT
23606050 ACAATATGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.15, C:0.15, G:0.06, T:0.64
Consensus pattern (26 bp):
TCCTTTTTATCGATTATTTTTCAATT
Found at i:23612794 original size:30 final size:30
Alignment explanation
Indices: 23612758--23612818 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
23612748 ATCAGAAATT
*
23612758 ATACTTTCATATGAGCTAATTTATGAACAA
1 ATACTTTCATATGAGCTAATTTATCAACAA
*
23612788 ATACTTTCATCTGAGCTAATTTATCAACAA
1 ATACTTTCATATGAGCTAATTTATCAACAA
23612818 A
1 A
23612819 AATTTTCTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.36
Consensus pattern (30 bp):
ATACTTTCATATGAGCTAATTTATCAACAA
Found at i:23621817 original size:60 final size:60
Alignment explanation
Indices: 23621742--23621925 Score: 217
Period size: 60 Copynumber: 3.1 Consensus size: 60
23621732 CTCGGCCATC
* * * * * *
23621742 TATCACCCTATGAATAGGAGGATCAACATCCTGACCATTCAAATTATCCTTTAGACTAGG
1 TATCACCCTACGAATAGGAGGATCAACATCTTGACCATTCAAATTATCATTCACACCAGG
* * *
23621802 TATCACCCTACGAATAGGAGGATCAGCGTCTTGACCATTCAAGTTATCATTCACACCAGG
1 TATCACCCTACGAATAGGAGGATCAACATCTTGACCATTCAAATTATCATTCACACCAGG
* * * * * * *
23621862 TATCACCCTACGAACAGGGGGATTAACATCTTGGCCATTCATATTATCATTGAGACCAGG
1 TATCACCCTACGAATAGGAGGATCAACATCTTGACCATTCAAATTATCATTCACACCAGG
23621922 -ATCA
1 TATCA
23621926 TTCCCATTAC
Statistics
Matches: 105, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
59 4 0.04
60 101 0.96
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (60 bp):
TATCACCCTACGAATAGGAGGATCAACATCTTGACCATTCAAATTATCATTCACACCAGG
Found at i:23624115 original size:63 final size:63
Alignment explanation
Indices: 23623935--23624129 Score: 194
Period size: 63 Copynumber: 3.1 Consensus size: 63
23623925 CACATTATGA
* * * * * * * * *
23623935 CCAAGCCACTAAATA-TAGCAGACAAGCTGCACATTGTGGTCAAACTACTCAATAATGTTGGGG
1 CCAAGCCACTCAATATTA-TAGACAAGCTACACGTTCTGGACAAGCAACTCAATAATGTTGTGG
* * * * *
23623998 CTAAGCCACTCAATATTATAGACAAGCTGCACGTTCTGGATAAGCCATTCAATAATGTTGTGG
1 CCAAGCCACTCAATATTATAGACAAGCTACACGTTCTGGACAAGCAACTCAATAATGTTGTGG
* * * * * *
23624061 CCAAGCCACTCAATATTTTAGATAAGCTACATGTTGTGGACAAGCAACTGAATAACGTTGTGG
1 CCAAGCCACTCAATATTATAGACAAGCTACACGTTCTGGACAAGCAACTCAATAATGTTGTGG
23624124 CCAAGC
1 CCAAGC
23624130 TGAATATTGC
Statistics
Matches: 109, Mismatches: 22, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
63 107 0.98
64 2 0.02
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (63 bp):
CCAAGCCACTCAATATTATAGACAAGCTACACGTTCTGGACAAGCAACTCAATAATGTTGTGG
Found at i:23624286 original size:33 final size:33
Alignment explanation
Indices: 23624244--23624316 Score: 128
Period size: 33 Copynumber: 2.2 Consensus size: 33
23624234 GGGCATGCTT
* *
23624244 AACATGCGAATCAGATTTATAGTCAATACAGTC
1 AACATGCGAATCAAATTTATAGTCAACACAGTC
23624277 AACATGCGAATCAAATTTATAGTCAACACAGTC
1 AACATGCGAATCAAATTTATAGTCAACACAGTC
23624310 AACATGC
1 AACATGC
23624317 TCAACATAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.41, C:0.21, G:0.14, T:0.25
Consensus pattern (33 bp):
AACATGCGAATCAAATTTATAGTCAACACAGTC
Found at i:23624341 original size:18 final size:18
Alignment explanation
Indices: 23624299--23624341 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
23624289 AAATTTATAG
*
23624299 TCAACACAGTCAACATGC
1 TCAACATAGTCAACATGC
*
23624317 TCAACATAGTCAATATGC
1 TCAACATAGTCAACATGC
*
23624335 TTAACAT
1 TCAACAT
23624342 GCAAATCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.26, G:0.09, T:0.26
Consensus pattern (18 bp):
TCAACATAGTCAACATGC
Found at i:23625518 original size:20 final size:19
Alignment explanation
Indices: 23625483--23625522 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
23625473 GGTAAGGGAA
23625483 GGAAAAATGGCAAAAAGTG
1 GGAAAAATGGCAAAAAGTG
23625502 GGAAAAA-GGCATGAAAAGTG
1 GGAAAAATGGCA--AAAAGTG
23625522 G
1 G
23625523 ATCATGAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.21
19 7 0.37
20 8 0.42
ACGTcount: A:0.50, C:0.05, G:0.35, T:0.10
Consensus pattern (19 bp):
GGAAAAATGGCAAAAAGTG
Found at i:23643175 original size:77 final size:77
Alignment explanation
Indices: 23643059--23643201 Score: 259
Period size: 77 Copynumber: 1.9 Consensus size: 77
23643049 AAGTTTCCGA
* *
23643059 GTCATTACATAACACGAATGACATCCATCTGAATGCAAAAGTACCATATGGACATGTGAAAGTTG
1 GTCATTACATAACACAAATAACATCCATCTGAATGCAAAAGTACCATATGGACATGTGAAAGTTG
23643124 TAAAGTTGTCGG
66 TAAAGTTGTCGG
*
23643136 GTCATTACATAACACAAATAACATCTATCTGAATGCAAAAGTACCATATGGACATGTGAAAGTTG
1 GTCATTACATAACACAAATAACATCCATCTGAATGCAAAAGTACCATATGGACATGTGAAAGTTG
23643201 T
66 T
23643202 CTTATCTTGG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 63 1.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (77 bp):
GTCATTACATAACACAAATAACATCCATCTGAATGCAAAAGTACCATATGGACATGTGAAAGTTG
TAAAGTTGTCGG
Found at i:23643365 original size:40 final size:40
Alignment explanation
Indices: 23643310--23643389 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
23643300 TCAATGAATG
23643310 ATAGGGGAAAATGGTCCACCCTAGTTGCCTTGTTAATTTT
1 ATAGGGGAAAATGGTCCACCCTAGTTGCCTTGTTAATTTT
23643350 ATAGGGGAAAATGGTCCACCCTAGTTGCCTTGTTAATTTT
1 ATAGGGGAAAATGGTCCACCCTAGTTGCCTTGTTAATTTT
23643390 GCGGTAATCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (40 bp):
ATAGGGGAAAATGGTCCACCCTAGTTGCCTTGTTAATTTT
Found at i:23644545 original size:21 final size:21
Alignment explanation
Indices: 23644516--23644555 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
23644506 GAGACGCAGC
23644516 CTGACTCTAAATTACAACAGT
1 CTGACTCTAAATTACAACAGT
*
23644537 CTGATTCTAAATTACAACA
1 CTGACTCTAAATTACAACA
23644556 TCATTTTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (21 bp):
CTGACTCTAAATTACAACAGT
Found at i:23645753 original size:60 final size:60
Alignment explanation
Indices: 23645653--23645836 Score: 219
Period size: 60 Copynumber: 3.1 Consensus size: 60
23645643 CTCGGCCATC
* * * * *
23645653 TATCACCTTATGAATAGGAGGATCAACATCCTGACCATTCAAATTATCATTTAGACCAGG
1 TATCACCCTACGAATAGGAGGATCAACATCTTGACTATTCAAATTATCATTCAGACCAGG
* * * *
23645713 TATCACCCTACGAATAGGAGGATCAGCGTCTTGACTATTCAAGTTATCATTCACACCAGG
1 TATCACCCTACGAATAGGAGGATCAACATCTTGACTATTCAAATTATCATTCAGACCAGG
* * * * *
23645773 TATCACCCTACGAATAGGGGGATTAACATCTTG-GTCATTCATATTATCATTGAGACCAGG
1 TATCACCCTACGAATAGGAGGATCAACATCTTGACT-ATTCAAATTATCATTCAGACCAGG
23645833 -ATCA
1 TATCA
23645837 TTCCCATTAC
Statistics
Matches: 105, Mismatches: 18, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
59 5 0.05
60 100 0.95
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.28
Consensus pattern (60 bp):
TATCACCCTACGAATAGGAGGATCAACATCTTGACTATTCAAATTATCATTCAGACCAGG
Found at i:23655579 original size:27 final size:27
Alignment explanation
Indices: 23655535--23655785 Score: 213
Period size: 27 Copynumber: 9.3 Consensus size: 27
23655525 TATCTGGACT
*
23655535 GAAATACCCTCGAT-GGGTAAAATGACC
1 GAAATACCC-CTATAGGGTAAAATGACC
* * **
23655562 GAAATGCCCCCATAGGGTAAAACAACC
1 GAAATACCCCTATAGGGTAAAATGACC
* * * *
23655589 GAAATACCCTCGAT-GAGTAAAAGGACT
1 GAAATACCC-CTATAGGGTAAAATGACC
* * **
23655616 GCAATGCCCCTATAGGGTAAAATGATT
1 GAAATACCCCTATAGGGTAAAATGACC
*
23655643 GAAATACCCC-AGTAGGGTAGAAT-ACC
1 GAAATACCCCTA-TAGGGTAAAATGACC
* *
23655669 GAAATACCCCCATAGGGTAAAATGATC
1 GAAATACCCCTATAGGGTAAAATGACC
* * *
23655696 GTAATATCCCTGTAGGGTAAAATGACC
1 GAAATACCCCTATAGGGTAAAATGACC
* * * *
23655723 GTAATGCCCCTGTAGGGTAAAATGAAC
1 GAAATACCCCTATAGGGTAAAATGACC
* *
23655750 GTAATACCCCTGTAGGGTAAAATGACC
1 GAAATACCCCTATAGGGTAAAATGACC
*
23655777 GTAATACCC
1 GAAATACCC
23655786 TGGTGGGTAA
Statistics
Matches: 185, Mismatches: 33, Indels: 12
0.80 0.14 0.05
Matches are distributed among these distances:
26 28 0.15
27 154 0.83
28 3 0.02
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (27 bp):
GAAATACCCCTATAGGGTAAAATGACC
Found at i:23655682 original size:107 final size:108
Alignment explanation
Indices: 23655549--23655785 Score: 291
Period size: 107 Copynumber: 2.2 Consensus size: 108
23655539 TACCCTCGAT
*
23655549 GGGTAAAATGACCGAAATGCCCCCATAGGGTAAAACAACCGAAATA-CCCTCG-ATGAGTAAAAG
1 GGGTAAAATGACCGAAATACCCCCATAGGGTAAAACAACCGAAATATCCCT-GTA-GAGTAAAAG
* **
23655612 GACTGCAATGCCCCTATAGGGTAAAATGATTGAAATACCCCAGTA
64 GACCGCAATGCCCCTATAGGGTAAAATGAACGAAATACCCCAGTA
* ** * * * *
23655657 GGGTAGAAT-ACCGAAATACCCCCATAGGGTAAAATGATCGTAATATCCCTGTAGGGTAAAATGA
1 GGGTAAAATGACCGAAATACCCCCATAGGGTAAAACAACCGAAATATCCCTGTAGAGTAAAAGGA
* * * *
23655721 CCGTAATGCCCCTGTAGGGTAAAATGAACGTAATACCCCTGTA
66 CCGCAATGCCCCTATAGGGTAAAATGAACGAAATACCCCAGTA
*
23655764 GGGTAAAATGACCGTAATACCC
1 GGGTAAAATGACCGAAATACCC
23655786 TGGTGGGTAA
Statistics
Matches: 109, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
107 85 0.78
108 24 0.22
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (108 bp):
GGGTAAAATGACCGAAATACCCCCATAGGGTAAAACAACCGAAATATCCCTGTAGAGTAAAAGGA
CCGCAATGCCCCTATAGGGTAAAATGAACGAAATACCCCAGTA
Found at i:23655747 original size:54 final size:54
Alignment explanation
Indices: 23655549--23655777 Score: 248
Period size: 54 Copynumber: 4.3 Consensus size: 54
23655539 TACCCTCGAT
** *
23655549 GGGTAAAATGACCGAAATGCCCCCATAGGGTAAAACAACCGAAATA-CCCTCG-A
1 GGGTAAAATGACCGAAATGCCCCCATAGGGTAAAATGATCGAAATACCCCT-GTA
* * * * * * *
23655602 TGAGTAAAAGGACTGCAATGCCCCTATAGGGTAAAATGATTGAAATACCCCAGTA
1 -GGGTAAAATGACCGAAATGCCCCCATAGGGTAAAATGATCGAAATACCCCTGTA
* * * *
23655657 GGGTAGAAT-ACCGAAATACCCCCATAGGGTAAAATGATCGTAATATCCCTGTA
1 GGGTAAAATGACCGAAATGCCCCCATAGGGTAAAATGATCGAAATACCCCTGTA
* ** * *
23655710 GGGTAAAATGACCGTAATGCCCCTGTAGGGTAAAATGAACGTAATACCCCTGTA
1 GGGTAAAATGACCGAAATGCCCCCATAGGGTAAAATGATCGAAATACCCCTGTA
23655764 GGGTAAAATGACCG
1 GGGTAAAATGACCG
23655778 TAATACCCTG
Statistics
Matches: 144, Mismatches: 28, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
53 44 0.31
54 96 0.67
55 4 0.03
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.20
Consensus pattern (54 bp):
GGGTAAAATGACCGAAATGCCCCCATAGGGTAAAATGATCGAAATACCCCTGTA
Found at i:23655847 original size:24 final size:24
Alignment explanation
Indices: 23655795--23655853 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
23655785 CTGGTGGGTA
*
23655795 AATGACTGATTTGTCTATGTTTGG
1 AATGAATGATTTGTCTATGTTTGG
* * *
23655819 TATGATTGATTTGTCTGTGATTT-G
1 AATGAATGATTTGTCTATG-TTTGG
23655843 AATGAATGATT
1 AATGAATGATT
23655854 ATGAGCATGG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
24 26 0.90
25 3 0.10
ACGTcount: A:0.24, C:0.05, G:0.24, T:0.47
Consensus pattern (24 bp):
AATGAATGATTTGTCTATGTTTGG
Found at i:23655978 original size:27 final size:27
Alignment explanation
Indices: 23655922--23655979 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 27
23655912 GGAAGTATTG
* *
23655922 TACTGGTGGTTCTGCCACAATCACTGT
1 TACTGGTGGTTCGGCCACAATCACTAT
23655949 TACTGGTGGCTT-GGCCACATAT-ACTAT
1 TACTGGTGG-TTCGGCCACA-ATCACTAT
23655976 TACT
1 TACT
23655980 AGTAGCTTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.34
Consensus pattern (27 bp):
TACTGGTGGTTCGGCCACAATCACTAT
Found at i:23655987 original size:27 final size:27
Alignment explanation
Indices: 23655935--23655987 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
23655925 TGGTGGTTCT
* * *
23655935 GCCACAATCACTGTTACTGGTGGCTTG
1 GCCACAATCACTATTACTAGTAGCTTG
23655962 GCCACATAT-ACTATTACTAGTAGCTT
1 GCCACA-ATCACTATTACTAGTAGCTT
23655988 TGCTGTGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (27 bp):
GCCACAATCACTATTACTAGTAGCTTG
Found at i:23656130 original size:64 final size:64
Alignment explanation
Indices: 23656025--23656207 Score: 199
Period size: 64 Copynumber: 2.9 Consensus size: 64
23656015 GCTGCGATGC
* * *
23656025 TACTGATGGCTTTGTCCTGATCATA-GTACCGTTACTAATGGCTTTGTACCGATCATAGT-ACCG
1 TACTGATGGCTTTGTACTGATCATATG-ACCGTTACTGATGGCTTTGTACCAATCAT-GTCACCG
23656088 T
64 T
* * * *
23656089 TACTGATGGCTTTGTACTGATCATATGACCATTACTGATGGCTATGTACCAATCATTTCACTGT
1 TACTGATGGCTTTGTACTGATCATATGACCGTTACTGATGGCTTTGTACCAATCATGTCACCGT
* * ** * * * *
23656153 TACTGATGGCTGTGTGCCAATCATATCACTGCTACTGATGGCTTTGTGCCAATCA
1 TACTGATGGCTTTGTACTGATCATATGACCGTTACTGATGGCTTTGTACCAATCA
23656208 CATTACTTAA
Statistics
Matches: 100, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
63 1 0.01
64 98 0.98
65 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.36
Consensus pattern (64 bp):
TACTGATGGCTTTGTACTGATCATATGACCGTTACTGATGGCTTTGTACCAATCATGTCACCGT
Found at i:23656201 original size:32 final size:31
Alignment explanation
Indices: 23656025--23656207 Score: 179
Period size: 32 Copynumber: 5.7 Consensus size: 31
23656015 GCTGCGATGC
*
23656025 TACTGATGGCTTTGT-CCTGATCATAGTACCGT
1 TACTGATGGCTTTGTACC-AATCATA-TACCGT
* *
23656057 TACTAATGGCTTTGTACCGATCATAGTACCGT
1 TACTGATGGCTTTGTACCAATCATA-TACCGT
** *
23656089 TACTGATGGCTTTGTACTGATCATATGACCAT
1 TACTGATGGCTTTGTACCAATCATAT-ACCGT
* * *
23656121 TACTGATGGCTATGTACCAATCATTTCACTGT
1 TACTGATGGCTTTGTACCAATCATAT-ACCGT
* * * *
23656153 TACTGATGGCTGTGTGCCAATCATATCACTGC
1 TACTGATGGCTTTGTACCAATCATAT-ACCGT
*
23656185 TACTGATGGCTTTGTGCCAATCA
1 TACTGATGGCTTTGTACCAATCA
23656208 CATTACTTAA
Statistics
Matches: 133, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
31 1 0.01
32 130 0.98
33 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.36
Consensus pattern (31 bp):
TACTGATGGCTTTGTACCAATCATATACCGT
Found at i:23656226 original size:30 final size:31
Alignment explanation
Indices: 23656124--23656226 Score: 82
Period size: 32 Copynumber: 3.3 Consensus size: 31
23656114 TGACCATTAC
* * ** * *
23656124 TGATGGCTATGTACCAATCATTTCACTGTTAC
1 TGATGGCTTTGTGCCAATCACATCACT-CTAA
* * *
23656156 TGATGGCTGTGTGCCAATCATATCACTGCTAC
1 TGATGGCTTTGTGCCAATCACATCACT-CTAA
*
23656188 TGATGGCTTTGTGCCAATCACATTACT-TAA
1 TGATGGCTTTGTGCCAATCACATCACTCTAA
*
23656218 TTATGGCTT
1 TGATGGCTT
23656227 GTAGCCATTA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
30 10 0.16
32 52 0.84
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.37
Consensus pattern (31 bp):
TGATGGCTTTGTGCCAATCACATCACTCTAA
Found at i:23656506 original size:28 final size:28
Alignment explanation
Indices: 23656437--23656507 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
23656427 CTTGCACCAT
* *
23656437 ACTGATACTGTATCGGGCTTAGGCCCAC
1 ACTGATACTGTATTGGGCTAAGGCCCAC
* * *
23656465 CCTGTTTCTGTATTGGGCTAAGGCCCAC
1 ACTGATACTGTATTGGGCTAAGGCCCAC
23656493 ACT-ATACTGTTATTG
1 ACTGATACTG-TATTG
23656508 TTAAAGGGCT
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
27 4 0.12
28 30 0.88
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (28 bp):
ACTGATACTGTATTGGGCTAAGGCCCAC
Found at i:23658120 original size:62 final size:63
Alignment explanation
Indices: 23658001--23658141 Score: 180
Period size: 62 Copynumber: 2.3 Consensus size: 63
23657991 GACACCACAA
* *
23658001 TGTGGCCAAGCCACTCAGTATAGCAGACAAGCTGCAGATTGTGGTCAAACAACTCAATAACGT
1 TGTGGCCAAGCCACTCAATATAGCAGACAAGCTGCAGATTCTGGTCAAACAACTCAATAACGT
* * * * *
23658064 TG-GGCTAAGCCACTCAATATTGCAGACAAGCTGCACG-TTCTGGAT-AAGCCATTCAATAACGT
1 TGTGGCCAAGCCACTCAATATAGCAGACAAGCTGCA-GATTCTGG-TCAAACAACTCAATAACGT
23658126 TGTGGCCAAGCCACTC
1 TGTGGCCAAGCCACTC
23658142 TGATGCAATA
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
62 51 0.76
63 16 0.24
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (63 bp):
TGTGGCCAAGCCACTCAATATAGCAGACAAGCTGCAGATTCTGGTCAAACAACTCAATAACGT
Found at i:23658440 original size:17 final size:19
Alignment explanation
Indices: 23658406--23658440 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23658396 ACACGTTAGT
23658406 TTAAGTCTGTGTCATTAAA
1 TTAAGTCTGTGTCATTAAA
23658425 TTAAGTCT-TG-CATTAA
1 TTAAGTCTGTGTCATTAA
23658441 GTAACTCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 2 0.12
19 8 0.50
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.43
Consensus pattern (19 bp):
TTAAGTCTGTGTCATTAAA
Found at i:23659866 original size:33 final size:33
Alignment explanation
Indices: 23659824--23659929 Score: 203
Period size: 33 Copynumber: 3.2 Consensus size: 33
23659814 GGGCATGCTT
*
23659824 AACATGCGAATCAAATTTATAGTCAACATAGTC
1 AACATGCGAATCAAATTTATAGTCAACACAGTC
23659857 AACATGCGAATCAAATTTATAGTCAACACAGTC
1 AACATGCGAATCAAATTTATAGTCAACACAGTC
23659890 AACATGCGAATCAAATTTATAGTCAACACAGTC
1 AACATGCGAATCAAATTTATAGTCAACACAGTC
23659923 AACATGC
1 AACATGC
23659930 TCAACATAGT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
33 72 1.00
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.25
Consensus pattern (33 bp):
AACATGCGAATCAAATTTATAGTCAACACAGTC
Found at i:23659935 original size:18 final size:18
Alignment explanation
Indices: 23659912--23659948 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
23659902 AAATTTATAG
23659912 TCAACACAGTCAACATGC
1 TCAACACAGTCAACATGC
*
23659930 TCAACATAGTCAACATGC
1 TCAACACAGTCAACATGC
23659948 T
1 T
23659949 TAATGTAACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.30, G:0.11, T:0.22
Consensus pattern (18 bp):
TCAACACAGTCAACATGC
Found at i:23659945 original size:9 final size:9
Alignment explanation
Indices: 23659908--23659945 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
23659898 AATCAAATTT
23659908 ATAGTCAAC
1 ATAGTCAAC
*
23659917 ACAGTCAAC
1 ATAGTCAAC
23659926 AT-GCTCAAC
1 ATAG-TCAAC
23659935 ATAGTCAAC
1 ATAGTCAAC
23659944 AT
1 AT
23659946 GCTTAATGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
8 1 0.04
9 23 0.92
10 1 0.04
ACGTcount: A:0.42, C:0.26, G:0.11, T:0.21
Consensus pattern (9 bp):
ATAGTCAAC
Found at i:23661144 original size:54 final size:54
Alignment explanation
Indices: 23661074--23661434 Score: 393
Period size: 54 Copynumber: 6.7 Consensus size: 54
23661064 CCCCAAAATA
** * * *
23661074 GGTAAAATGATAGAAATACCCACATAGGATAAAATTACCAAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAG
* *
23661128 GGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCAAAATA-CCCCATAT
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAG
* * * * ** * *
23661181 AGTAAAATGACCGAAACACCCCTATATGGTAAAATGACTGAAATACCTCCATAA
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAG
* * * *
23661235 GGTAAAATGA-CTAAAGTACCCCTATAGGGTAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAA-TACCCCCATAGGGTAAAATGACCAAAATACCCCCATAG
* * *
23661289 GGTAAAATGATCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCTATAA
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAG
** * * *** *
23661343 GGTAAAACAACCGGAATTCCCCCATAGGGTAAAATGATTGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAG
* * * *
23661397 AGTAAAATGACCAAAATACTCTCATAGGGTAAAATGAC
1 GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGAC
23661435 TGCAACCCCT
Statistics
Matches: 258, Mismatches: 46, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
53 49 0.19
54 205 0.79
55 4 0.02
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.20
Consensus pattern (54 bp):
GGTAAAATGACCGAAATACCCCCATAGGGTAAAATGACCAAAATACCCCCATAG
Found at i:23661305 original size:81 final size:81
Alignment explanation
Indices: 23661073--23661434 Score: 432
Period size: 81 Copynumber: 4.5 Consensus size: 81
23661063 ACCCCAAAAT
* * * *
23661073 AGGTAAAATGA-TAGAAATACCCAC-ATAGGATAAAATTACCAAAATACCCCCATAGGGTAAAAT
1 AGGTAAAATGACCA-AAATACCC-CTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAAT
23661136 GATCGAAATACCCCCATA
64 GATCGAAATACCCCCATA
* * * *
23661154 GGGTAAAATGACCAAAATACCCCATATA--GTAAAATGACCGAAACACCCCTATATGGTAAAATG
1 AGGTAAAATGACCAAAATACCCC-TATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATG
*
23661217 A-CTGAAATACCTCCATA
65 ATC-GAAATACCCCCATA
* * *
23661234 AGGTAAAATGACTAAAGTACCCCTATAGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATGA
1 AGGTAAAATGACCAAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGA
23661299 TCGAAATACCCCCATA
66 TCGAAATACCCCCATA
* * ** * *
23661315 GGGTAAAATGACCAAAATACCCCTATAAGGTAAAACAACCGGAATTCCCCCATAGGGTAAAATGA
1 AGGTAAAATGACCAAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGA
* *
23661380 TTGAAATACCCCTAT-
66 TCGAAATACCCCCATA
*
23661395 AGAGTAAAATGACCAAAATA-CTCTCATAGGGTAAAATGAC
1 AG-GTAAAATGACCAAAATACCCCT-ATAGGGTAAAATGAC
23661435 TGCAACCCCT
Statistics
Matches: 239, Mismatches: 33, Indels: 18
0.82 0.11 0.06
Matches are distributed among these distances:
79 5 0.02
80 68 0.28
81 161 0.67
82 5 0.02
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.20
Consensus pattern (81 bp):
AGGTAAAATGACCAAAATACCCCTATAGGGTAAAATGACCGAAATACCCCCATAGGGTAAAATGA
TCGAAATACCCCCATA
Found at i:23661434 original size:27 final size:26
Alignment explanation
Indices: 23661074--23661434 Score: 355
Period size: 27 Copynumber: 13.4 Consensus size: 26
23661064 CCCCAAAATA
**
23661074 GGTAAAATGATAGAAATACCCACATAG
1 GGTAAAATGACCGAAATACCC-CATAG
* * *
23661101 GATAAAATTACCAAAATACCCCCATAG
1 GGTAAAATGACCGAAATA-CCCCATAG
*
23661128 GGTAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATA-CCCCATAG
* *
23661155 GGTAAAATGACCAAAATACCCCATAT
1 GGTAAAATGACCGAAATACCCCATAG
* * *
23661181 AGTAAAATGACCGAAACACCCCTATAT
1 GGTAAAATGACCGAAATACCCC-ATAG
* *
23661208 GGTAAAATGACTGAAATACCTCCATAA
1 GGTAAAATGACCGAAATACC-CCATAG
*
23661235 GGTAAAATGA-CTAAAGTACCCCTATAG
1 GGTAAAATGACCGAAA-TACCCC-ATAG
*
23661262 GGTAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATA-CCCCATAG
*
23661289 GGTAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATA-CCCCATAG
* *
23661316 GGTAAAATGACCAAAATACCCCTATAA
1 GGTAAAATGACCGAAATACCCC-ATAG
** * *
23661343 GGTAAAACAACCGGAATTCCCCCATAG
1 GGTAAAATGACC-GAAATACCCCATAG
**
23661370 GGTAAAATGATTGAAATACCCCTATAG
1 GGTAAAATGACCGAAATACCCC-ATAG
* * *
23661397 AGTAAAATGACCAAAATACTCTCATAG
1 GGTAAAATGACCGAAATAC-CCCATAG
23661424 GGTAAAATGAC
1 GGTAAAATGAC
23661435 TGCAACCCCT
Statistics
Matches: 279, Mismatches: 44, Indels: 22
0.81 0.13 0.06
Matches are distributed among these distances:
26 43 0.15
27 214 0.77
28 22 0.08
ACGTcount: A:0.44, C:0.21, G:0.16, T:0.20
Consensus pattern (26 bp):
GGTAAAATGACCGAAATACCCCATAG
Found at i:23661887 original size:28 final size:27
Alignment explanation
Indices: 23661847--23661990 Score: 191
Period size: 28 Copynumber: 5.2 Consensus size: 27
23661837 ACTGCATTAT
23661847 TACTGTATTGGGCTAAGGCCCACACTGA
1 TACTGTATTGGGCTAAGGCCCACACT-A
*
23661875 TACTGTATTGGGCTAAGGCCCAAACTAA
1 TACTGTATTGGGCTAAGGCCCACACT-A
* * *
23661903 TTCTGT-TTGGGCTAAAGCCTACACTA
1 TACTGTATTGGGCTAAGGCCCACACTA
23661929 TTACTGTATTGGGCTAAGGCCCACACTA
1 -TACTGTATTGGGCTAAGGCCCACACTA
* *
23661957 TTATTGTATTGGGCTAAGGCCCACACTG
1 -TACTGTATTGGGCTAAGGCCCACACTA
23661985 TACTGT
1 TACTGT
23661991 CACTGAATAG
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 26 0.25
28 75 0.74
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (27 bp):
TACTGTATTGGGCTAAGGCCCACACTA
Found at i:23661938 original size:55 final size:56
Alignment explanation
Indices: 23661844--23661990 Score: 212
Period size: 55 Copynumber: 2.7 Consensus size: 56
23661834 TGTACTGCAT
23661844 TATTACTGTATTGGGCTAAGGCCCACACTGATACTGTATTGGGCTAAGGCCCAAAC
1 TATTACTGTATTGGGCTAAGGCCCACACTGATACTGTATTGGGCTAAGGCCCAAAC
* * *
23661900 TAATT-CTGT-TTGGGCTAAAGCCTACACT-ATTACTGTATTGGGCTAAGGCCCACAC
1 T-ATTACTGTATTGGGCTAAGGCCCACACTGA-TACTGTATTGGGCTAAGGCCCAAAC
*
23661955 TATTATTGTATTGGGCTAAGGCCCACACTG-TACTGT
1 TATTACTGTATTGGGCTAAGGCCCACACTGATACTGT
23661991 CACTGAATAG
Statistics
Matches: 80, Mismatches: 6, Indels: 11
0.82 0.06 0.11
Matches are distributed among these distances:
54 4 0.05
55 51 0.64
56 22 0.28
57 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (56 bp):
TATTACTGTATTGGGCTAAGGCCCACACTGATACTGTATTGGGCTAAGGCCCAAAC
Found at i:23662997 original size:12 final size:12
Alignment explanation
Indices: 23662980--23663013 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
23662970 ACGAGGTACA
*
23662980 AGAGGCCATGGT
1 AGAGGCCATAGT
23662992 AGAGGCCATAGT
1 AGAGGCCATAGT
23663004 AGAGGCCATA
1 AGAGGCCATA
23663014 AAGGTGCTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.32, C:0.18, G:0.35, T:0.15
Consensus pattern (12 bp):
AGAGGCCATAGT
Found at i:23664077 original size:27 final size:27
Alignment explanation
Indices: 23664046--23664326 Score: 366
Period size: 27 Copynumber: 10.4 Consensus size: 27
23664036 CCCCAAAATA
23664046 GGTAAAATGACCAAAATACCCCCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
*
23664073 GGTAAAATGACCAAAATACCTCCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
*
23664100 GGTAAAATGACCGAAATACCCCCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
* *
23664127 GGTAAAATGA-TAGAAATACCCCCACAG
1 GGTAAAATGACCA-AAATACCCCCATAG
* *
23664154 AGTAAAATGACTAAAATACCCCCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
* *
23664181 GGTAAAATGACCAAAATACCCCTATAA
1 GGTAAAATGACCAAAATACCCCCATAG
* *
23664208 GGTAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
** *
23664235 GGTAAAATGGTCGAAATACCCCCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
* ** *
23664262 GGTAAAAGGACTGAAATACCCCTATAG
1 GGTAAAATGACCAAAATACCCCCATAG
* *
23664289 GGTAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCAAAATACCCCCATAG
*
23664316 GATAAAATGAC
1 GGTAAAATGAC
23664327 TGTTATACCC
Statistics
Matches: 224, Mismatches: 28, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
27 222 0.99
28 2 0.01
ACGTcount: A:0.43, C:0.22, G:0.17, T:0.17
Consensus pattern (27 bp):
GGTAAAATGACCAAAATACCCCCATAG
Found at i:23666223 original size:101 final size:102
Alignment explanation
Indices: 23666108--23666292 Score: 284
Period size: 102 Copynumber: 1.8 Consensus size: 102
23666098 AAAGTGATGG
*
23666108 TCACATGTGTAGTACTATGTGCAGACTACTACGTGTA-C-CAGAATGATAGGTCGCATGTGTAGT
1 TCACATGTGTAGTACTATGTGCAGACTACTACGTGTATCGCAGAAT-ATAGGTCACATGTGTAGT
*
23666171 ACTTTGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
* * * * *
23666209 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAATATTGGTCACATGTGTAGTA
1 TCACATGTGTAGTACTATGTGCAGACTACTACGTGTATCGCAGAATATAGGTCACATGTGTAGTA
23666274 CTATGTGCAGGCTACTATG
66 CTATGTGCAGGCTACTATG
23666293 TGAACCGAAC
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
101 35 0.47
102 36 0.48
103 4 0.05
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (102 bp):
TCACATGTGTAGTACTATGTGCAGACTACTACGTGTATCGCAGAATATAGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
Found at i:23666231 original size:51 final size:51
Alignment explanation
Indices: 23666108--23666292 Score: 205
Period size: 51 Copynumber: 3.6 Consensus size: 51
23666098 AAAGTGATGG
* * * * * *
23666108 TCACATGTGTAGTACTATGTGCAGACTACTACGTGTACC--AGAATGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAAT-ATTGA
* * *
23666158 TCGCATGTGTAGTACTTTGTGCAGGCTACTATGCGTACCGGATAGT-TTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAATATT-GA
* * * * *
23666209 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAATATTGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAATATTGA
23666260 TCACATGTGTAGTACTATGTGCAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
23666293 TGAACCGAAC
Statistics
Matches: 112, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
50 35 0.31
51 72 0.64
52 5 0.04
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (51 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAATATTGA
Found at i:23666352 original size:45 final size:45
Alignment explanation
Indices: 23666296--23666386 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
23666286 TACTATGTGA
* *
23666296 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
* *
23666341 ACCGGACATCATTGATTAATAAGGTGGTTGTTATGTGCTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
23666386 A
1 A
23666387 TCGAGTATCT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:23666460 original size:23 final size:22
Alignment explanation
Indices: 23666434--23666477 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
23666424 AATTGACTAA
23666434 GTGT-AATTGAATAATGAATATAG
1 GTGTGAATTGAAT--TGAATATAG
23666457 GTGTGGAATTGAATTGAATAT
1 GTGT-GAATTGAATTGAATAT
23666478 CGACTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (22 bp):
GTGTGAATTGAATTGAATATAG
Found at i:23679896 original size:28 final size:28
Alignment explanation
Indices: 23679850--23679940 Score: 103
Period size: 28 Copynumber: 3.2 Consensus size: 28
23679840 TTATTGTACT
* * * *
23679850 ACACTGTTACTATATTAGGCTAAGGTCC
1 ACACTATTACTGTACTAGGCTAAGGCCC
23679878 ACACTGATT-CTGTACTAGGCTAAGGCCC
1 ACACT-ATTACTGTACTAGGCTAAGGCCC
* * *
23679906 ACACTATTACTGTATTGGGCTAGGGCCC
1 ACACTATTACTGTACTAGGCTAAGGCCC
23679934 ACACTAT
1 ACACTAT
23679941 ACTATCACTG
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
27 3 0.06
28 49 0.91
29 2 0.04
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (28 bp):
ACACTATTACTGTACTAGGCTAAGGCCC
Found at i:23681497 original size:40 final size:40
Alignment explanation
Indices: 23681405--23681590 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
23681395 GCTACTCGTT
*
23681405 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTGCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACT-CGCA
*
23681446 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
23681486 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
23681525 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
23681566 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23681591 CATCATTCAA
Statistics
Matches: 127, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 48 0.38
41 42 0.33
42 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:23681574 original size:79 final size:82
Alignment explanation
Indices: 23681405--23681590 Score: 231
Period size: 79 Copynumber: 2.3 Consensus size: 82
23681395 GCTACTCGTT
* *
23681405 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTGCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTGCGCACAAATGCCTTCGGGACTTAACCC
* *
23681469 GGATTTAGTAACTCGCA
66 GGATATAGTAACTAGCA
* **
23681486 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCT-CGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTGCGCACAAATGCCTTCGGGA-CTTAACC
* *
23681547 CGGATATGGTCACTTAGCA
65 CGGATATAGTAAC-TAGCA
23681566 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23681591 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
78 3 0.03
79 39 0.42
80 35 0.38
81 15 0.16
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTGCGCACAAATGCCTTCGGGACTTAACCC
GGATATAGTAACTAGCA
Found at i:23689397 original size:79 final size:82
Alignment explanation
Indices: 23689286--23689470 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
23689276 GCTACTCGTT
* * *
23689286 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
23689349 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
23689366 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
23689429 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
23689446 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23689471 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:23689470 original size:40 final size:40
Alignment explanation
Indices: 23689267--23689470 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
23689257 CGGAATTTAA
** *
23689267 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
23689307 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
23689347 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
23689386 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
23689426 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
23689466 CCGGA
1 CCGGA
23689471 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:23695007 original size:50 final size:50
Alignment explanation
Indices: 23694926--23695064 Score: 152
Period size: 50 Copynumber: 2.8 Consensus size: 50
23694916 TTGAGGTTAT
* *
23694926 GGTCCCACGTAAGACCATGTCTAGGACATGGCATTGGCACCGAGATGAGA
1 GGTCCCACGTAAGACCATGTCTAGGAAATGGCATGGGCACCGAGATGAGA
* * * * *
23694976 GGTCCCCCGTAAGACTATGTTTGGGAAATGGCATGGGCACCGATATGAGA
1 GGTCCCACGTAAGACCATGTCTAGGAAATGGCATGGGCACCGAGATGAGA
** * * * * *
23695026 ACTCCCATGTAAGACCATATCTTGGATATGGCATTGGCA
1 GGTCCCACGTAAGACCATGTCTAGGAAATGGCATGGGCA
23695065 GTACAGGAAA
Statistics
Matches: 72, Mismatches: 17, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 72 1.00
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
GGTCCCACGTAAGACCATGTCTAGGAAATGGCATGGGCACCGAGATGAGA
Found at i:23695831 original size:20 final size:20
Alignment explanation
Indices: 23695806--23695844 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
23695796 TACTTTCTTC
23695806 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
23695826 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
23695845 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:23697210 original size:289 final size:288
Alignment explanation
Indices: 23696741--23697268 Score: 869
Period size: 289 Copynumber: 1.8 Consensus size: 288
23696731 TTACCGATTA
* *
23696741 TGTTTTCACTTAAAATTGCCTAGAAAAAGTTGTTTAACATAATTTCAAACTTCATATTCTACCAT
1 TGTTTTCACTTAAAATCGCCTAGAAAAAGTTCTTTAACATAATTTCAAACTTCATATTCTACCAT
* * *
23696806 AAAACATCAAAATAAACATATTTCACCTATGGGTATTTTTCCAAATATGAACCCTAACATGAATT
66 AAAACATCAAAATAAAAACATTTCACCTATGGGTATTTTTCCAAATATGAACCCTAACAGGAATT
* * * * **
23696871 AATGGTAGAATAAGCTAAACCGAGCTACTAGGATTCCAAAAATGTAAAAAAAAAATAAAAACGGG
131 AACGATAGAATAAGCTAAACAGAGCTACTAGGACTCCAAAAACAT-AAAAAAAAATAAAAACGGG
23696936 GCTTGGATGCACTTACTATGAGCTTGAGAAAGTGAAAAAACCCTAACATTTACTTATGAACATTA
195 GCTTGGATGCACTTACTATGAGCTTGAGAAAGTGAAAAAACCCTAACATTTACTTATGAACATTA
23697001 GGTATTTTTACTGATTATGTCATTTTGCT
260 GGTATTTTTACTGATTATGTCATTTTGCT
*
23697030 TGTTTTCACTTAAAATCGCCTAGCAAAAGTTCTTTAACATAATTTCAAACTTCATATTCTACCAT
1 TGTTTTCACTTAAAATCGCCTAGAAAAAGTTCTTTAACATAATTTCAAACTTCATATTCTACCAT
**
23697095 AAAACATCAAAATAAAAACATTTCACCTATGGGTATTTTTCCAAATATGAACTGTAACAGGAATT
66 AAAACATCAAAATAAAAACATTTCACCTATGGGTATTTTTCCAAATATGAACCCTAACAGGAATT
* * *
23697160 AACGATAGAATAAGCTAAATAGAGCTA-TGAGGACTCTAAAAACATAAAAAAAATTAAAAACGGG
131 AACGATAGAATAAGCTAAACAGAGCTACT-AGGACTCCAAAAACATAAAAAAAAATAAAAACGGG
*
23697224 GCTTGGATGCACTTACTATGAGCTTGAGAAAGTGAAGAAACCCTA
195 GCTTGGATGCACTTACTATGAGCTTGAGAAAGTGAAAAAACCCTA
23697269 GCTATGGAGT
Statistics
Matches: 220, Mismatches: 18, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
288 63 0.29
289 157 0.71
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (288 bp):
TGTTTTCACTTAAAATCGCCTAGAAAAAGTTCTTTAACATAATTTCAAACTTCATATTCTACCAT
AAAACATCAAAATAAAAACATTTCACCTATGGGTATTTTTCCAAATATGAACCCTAACAGGAATT
AACGATAGAATAAGCTAAACAGAGCTACTAGGACTCCAAAAACATAAAAAAAAATAAAAACGGGG
CTTGGATGCACTTACTATGAGCTTGAGAAAGTGAAAAAACCCTAACATTTACTTATGAACATTAG
GTATTTTTACTGATTATGTCATTTTGCT
Found at i:23703691 original size:20 final size:20
Alignment explanation
Indices: 23703666--23703704 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
23703656 TACTTTCTTC
23703666 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
23703686 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
23703705 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:23720683 original size:18 final size:17
Alignment explanation
Indices: 23720648--23720687 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
23720638 AACAAGTGAG
* *
23720648 AAAAAAGAAAATGTGAA
1 AAAAAAGAAAAAGAGAA
23720665 ACAAAAAGAAAAAGAGAA
1 A-AAAAAGAAAAAGAGAA
23720683 AAAAA
1 AAAAA
23720688 GAGATGATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.78, C:0.03, G:0.15, T:0.05
Consensus pattern (17 bp):
AAAAAAGAAAAAGAGAA
Found at i:23728863 original size:14 final size:15
Alignment explanation
Indices: 23728844--23728885 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
23728834 TTCATAGAAA
23728844 TTTTAATTACTTA-G
1 TTTTAATTACTTATG
23728858 TTTTAATTTACTTATG
1 TTTTAA-TTACTTATG
*
23728874 CTTTAATT-CTTA
1 TTTTAATTACTTA
23728886 CAGCTTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 10 0.40
15 9 0.36
16 6 0.24
ACGTcount: A:0.26, C:0.10, G:0.05, T:0.60
Consensus pattern (15 bp):
TTTTAATTACTTATG
Found at i:23728870 original size:15 final size:16
Alignment explanation
Indices: 23728844--23728881 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
23728834 TTCATAGAAA
23728844 TTTTAA-TTACTTA-G
1 TTTTAATTTACTTATG
23728858 TTTTAATTTACTTATG
1 TTTTAATTTACTTATG
*
23728874 CTTTAATT
1 TTTTAATT
23728882 CTTACAGCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.29
15 7 0.33
16 8 0.38
ACGTcount: A:0.26, C:0.08, G:0.05, T:0.61
Consensus pattern (16 bp):
TTTTAATTTACTTATG
Found at i:23731631 original size:29 final size:29
Alignment explanation
Indices: 23731596--23731651 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
23731586 TCTTATTGGT
23731596 TTGTAGTCCATCCCCTACCGAAATTGGGC
1 TTGTAGTCCATCCCCTACCGAAATTGGGC
23731625 TTGTAGTCCATCCCCTACCGAAATTGG
1 TTGTAGTCCATCCCCTACCGAAATTGG
23731652 CCCATTCATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.29
Consensus pattern (29 bp):
TTGTAGTCCATCCCCTACCGAAATTGGGC
Found at i:23736605 original size:22 final size:22
Alignment explanation
Indices: 23736574--23736667 Score: 116
Period size: 22 Copynumber: 4.3 Consensus size: 22
23736564 TAGTGTTATT
23736574 AATGGTAGTTTATCTGCAAATC
1 AATGGTAGTTTATCTGCAAATC
* *
23736596 AATGGCAGTTTATCTGCAATTC
1 AATGGTAGTTTATCTGCAAATC
* * *
23736618 AGTGGTAGTTTATCTACAATTC
1 AATGGTAGTTTATCTGCAAATC
* *
23736640 AGTGGTAGTTTATATGCAAATC
1 AATGGTAGTTTATCTGCAAATC
*
23736662 AGTGGT
1 AATGGT
23736668 GGCATGACCT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 64 1.00
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (22 bp):
AATGGTAGTTTATCTGCAAATC
Found at i:23736650 original size:44 final size:44
Alignment explanation
Indices: 23736576--23736667 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 44
23736566 GTGTTATTAA
* * *
23736576 TGGTAGTTTATCTGCAAATCAATGGCAGTTTATCTGCAATTCAG
1 TGGTAGTTTATCTACAAATCAATGGCAGTTTATATGCAAATCAG
* * *
23736620 TGGTAGTTTATCTACAATTCAGTGGTAGTTTATATGCAAATCAG
1 TGGTAGTTTATCTACAAATCAATGGCAGTTTATATGCAAATCAG
23736664 TGGT
1 TGGT
23736668 GGCATGACCT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (44 bp):
TGGTAGTTTATCTACAAATCAATGGCAGTTTATATGCAAATCAG
Found at i:23755699 original size:38 final size:38
Alignment explanation
Indices: 23755641--23755718 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
23755631 TCTTGTGTGT
*
23755641 TACGCATATGAAACTAGTGTGGAAAGTTAATGAAATAG
1 TACGCATATGAAAATAGTGTGGAAAGTTAATGAAATAG
*
23755679 TACGCATATGAAAATGGTGTGGAAAGTTAATGAAATAG
1 TACGCATATGAAAATAGTGTGGAAAGTTAATGAAATAG
23755717 TA
1 TA
23755719 AGTTCATACT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.42, C:0.06, G:0.24, T:0.27
Consensus pattern (38 bp):
TACGCATATGAAAATAGTGTGGAAAGTTAATGAAATAG
Found at i:23755820 original size:20 final size:19
Alignment explanation
Indices: 23755797--23755839 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
23755787 TAAAGAAAGT
23755797 AAATGC-AATGGAAAGTAATG
1 AAATGCAAAT-GAAAGTAA-G
23755817 AAATGCAAATGAAAGTAAG
1 AAATGCAAATGAAAGTAAG
23755836 AAAT
1 AAAT
23755840 TTGGAAAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 5 0.23
20 14 0.64
21 3 0.14
ACGTcount: A:0.56, C:0.05, G:0.21, T:0.19
Consensus pattern (19 bp):
AAATGCAAATGAAAGTAAG
Found at i:23756389 original size:35 final size:35
Alignment explanation
Indices: 23756350--23756416 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
23756340 GTATGTTTTG
23756350 AAATGACCAAAATTGGTAT-G-TGTTAATGTATCTTT
1 AAATGACCAAAA-TGGTATGGTTGTT-ATGTATCTTT
* *
23756385 AAATGGCTAAAATGGTATGGTTGTTATGTATC
1 AAATGACCAAAATGGTATGGTTGTTATGTATC
23756417 AATTATGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 6 0.21
35 18 0.64
36 4 0.14
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.39
Consensus pattern (35 bp):
AAATGACCAAAATGGTATGGTTGTTATGTATCTTT
Found at i:23768428 original size:17 final size:17
Alignment explanation
Indices: 23768405--23768477 Score: 65
Period size: 17 Copynumber: 4.0 Consensus size: 17
23768395 AAAAAAGTAT
23768405 TTTAAAAATATTTTAAAA
1 TTTAAAAA-ATTTTAAAA
* **
23768423 TTAAAAAAATTAAAAAAGTA
1 TTTAAAAAATT-TTAAA--A
*
23768443 TTTTAAAAAAATTTAAAA
1 -TTTAAAAAATTTTAAAA
23768461 TTTAAAAAATTTTAAAA
1 TTTAAAAAATTTTAAAA
23768478 AAAAAGTATT
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
17 19 0.44
18 11 0.26
20 4 0.09
21 9 0.21
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (17 bp):
TTTAAAAAATTTTAAAA
Found at i:23768457 original size:10 final size:10
Alignment explanation
Indices: 23768419--23768480 Score: 53
Period size: 10 Copynumber: 6.4 Consensus size: 10
23768409 AAAATATTTT
23768419 AAAA-TTAAA
1 AAAATTTAAA
23768428 AAAA-TTAAA
1 AAAATTTAAA
23768437 AAAGTATTTTAAA
1 AAA--A-TTTAAA
23768450 AAAATTT---
1 AAAATTTAAA
23768457 AAAATTTAAA
1 AAAATTTAAA
*
23768467 AAATTTTAAA
1 AAAATTTAAA
23768477 AAAA
1 AAAA
23768481 AAGTATTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
7 7 0.16
9 12 0.27
10 15 0.34
11 2 0.05
13 8 0.18
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:23768493 original size:11 final size:11
Alignment explanation
Indices: 23768479--23768504 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23768469 ATTTTAAAAA
23768479 AAAAGTATTTT
1 AAAAGTATTTT
23768490 AAAAGTATTTT
1 AAAAGTATTTT
23768501 AAAA
1 AAAA
23768505 TTAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:23768952 original size:10 final size:10
Alignment explanation
Indices: 23768939--23769003 Score: 53
Period size: 10 Copynumber: 6.5 Consensus size: 10
23768929 ACTTTTTAGT
23768939 ATTTTTAATA
1 ATTTTTAATA
*
23768949 ATTTTTTTATAA
1 A-TTTTTAAT-A
*
23768961 AATTTTAATA
1 ATTTTTAATA
23768971 ATTTTTAATA
1 ATTTTTAATA
* *
23768981 GTTTTT-GTA
1 ATTTTTAATA
*
23768990 A-TATTAATA
1 ATTTTTAATA
23768999 ATTTT
1 ATTTT
23769004 ATAACCTTTT
Statistics
Matches: 41, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
8 3 0.07
9 5 0.12
10 18 0.44
11 13 0.32
12 2 0.05
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:23768960 original size:11 final size:11
Alignment explanation
Indices: 23768940--23768992 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
23768930 CTTTTTAGTA
23768940 TTTTTAATAAT
1 TTTTTAATAAT
* *
23768951 TTTTTTATAAA
1 TTTTTAATAAT
*
23768962 ATTTTAATAA-
1 TTTTTAATAAT
*
23768972 TTTTTAATAGT
1 TTTTTAATAAT
23768983 TTTTGTAATA
1 TTTT-TAATA
23768993 TTAATAATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.24
11 21 0.62
12 5 0.15
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (11 bp):
TTTTTAATAAT
Found at i:23771255 original size:35 final size:34
Alignment explanation
Indices: 23771180--23771274 Score: 109
Period size: 35 Copynumber: 2.7 Consensus size: 34
23771170 TATTATAGTG
* *
23771180 GCATGTTTAACATGCGAATCAGAATCAGAATCAT
1 GCATGCTTAACATGCGAATCAGAATCAGAATAAT
* *
23771214 GACATGCTTAACATGTGAATCATAATCAGAATAAT
1 G-CATGCTTAACATGCGAATCAGAATCAGAATAAT
* * *
23771249 AGCATGCTCAATATGCAAATCAGAAT
1 -GCATGCTTAACATGCGAATCAGAAT
23771275 ATCAATAAAT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
34 1 0.02
35 48 0.96
36 1 0.02
ACGTcount: A:0.41, C:0.17, G:0.16, T:0.26
Consensus pattern (34 bp):
GCATGCTTAACATGCGAATCAGAATCAGAATAAT
Found at i:23772985 original size:28 final size:27
Alignment explanation
Indices: 23772952--23773050 Score: 119
Period size: 28 Copynumber: 3.6 Consensus size: 27
23772942 TAATGAGATT
*
23772952 AGCACTAAGTGTGCGAGTTTAATTGAA
1 AGCACTAAGTGTGCGAGTATAATTGAA
*
23772979 ATGCACTAAGTGTGCGAGTATAATGGTAA
1 A-GCACTAAGTGTGCGAGTATAATTG-AA
* *
23773008 AGCACTAAGTGTGCGAGTGTGATT-ATTA
1 AGCACTAAGTGTGCGAGTATAATTGA--A
23773036 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
23773051 TACTTATTAA
Statistics
Matches: 63, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.02
27 1 0.02
28 58 0.92
29 3 0.05
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTATAATTGAA
Found at i:23775407 original size:18 final size:18
Alignment explanation
Indices: 23775386--23775436 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 18
23775376 AGGGAGAGGA
23775386 GGAGACAAAGGCAATAAG
1 GGAGACAAAGGCAATAAG
*
23775404 GGAGGGAAAAAGGCAATAAG
1 GGA--GACAAAGGCAATAAG
*
23775424 GGGGACAAAGGCA
1 GGAGACAAAGGCA
23775437 CCAAAAATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 12 0.43
20 16 0.57
ACGTcount: A:0.47, C:0.10, G:0.39, T:0.04
Consensus pattern (18 bp):
GGAGACAAAGGCAATAAG
Found at i:23783663 original size:16 final size:17
Alignment explanation
Indices: 23783632--23783665 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
23783622 CAATTTAGTC
*
23783632 CAAAATTTATACTTTTG
1 CAAAATTTATAATTTTG
23783649 CAAAA-TTATAATTTTG
1 CAAAATTTATAATTTTG
23783665 C
1 C
23783666 CCCTATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (17 bp):
CAAAATTTATAATTTTG
Found at i:23793750 original size:19 final size:19
Alignment explanation
Indices: 23793726--23793763 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
23793716 ATCGATTTTA
23793726 AAACTCAATTATCGATACC
1 AAACTCAATTATCGATACC
*
23793745 AAACTCGATTATCGATACC
1 AAACTCAATTATCGATACC
23793764 TCTGCTCTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.39, C:0.26, G:0.08, T:0.26
Consensus pattern (19 bp):
AAACTCAATTATCGATACC
Found at i:23795297 original size:11 final size:11
Alignment explanation
Indices: 23795265--23795307 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
23795255 AGAAAAGAGA
*
23795265 GAATGATGAAT
1 GAATGAGGAAT
23795276 G-ATGA-GAAT
1 GAATGAGGAAT
23795285 GAATGAGGAAT
1 GAATGAGGAAT
*
23795296 GATTGAGGAAT
1 GAATGAGGAAT
23795307 G
1 G
23795308 CTTAAGAGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.17
10 8 0.28
11 16 0.55
ACGTcount: A:0.42, C:0.00, G:0.35, T:0.23
Consensus pattern (11 bp):
GAATGAGGAAT
Done.