Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 263 of 325
Found at i:83895969 original size:30 final size:30
Alignment explanation
Indices: 83895925--83896013 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
83895915 CAAAGATAAC
*
83895925 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAGAACCAGAATAAAGAAATCCAAGATA
*
83895954 GAGA-AACCTAGAATAAAGAAATCC-AGAATA
1 AAGAGAACC-AGAATAAAGAAATCCAAG-ATA
* * *
83895984 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAGAACCAGAATAAAGAAATCCAAGATA
83896014 TGATACTATG
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
28 4 0.08
29 5 0.10
30 36 0.72
31 5 0.10
ACGTcount: A:0.57, C:0.15, G:0.17, T:0.11
Consensus pattern (30 bp):
AAGAGAACCAGAATAAAGAAATCCAAGATA
Found at i:83896013 original size:15 final size:15
Alignment explanation
Indices: 83895936--83896013 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
83895926 AGAAAACCGA
83895936 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
83895951 ATAGAGAAA-CCTAG
1 ATAAAGAAATCCAAG
83895965 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
83895980 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
83895996 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
83896011 ATA
1 ATA
83896014 TGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:83899017 original size:46 final size:46
Alignment explanation
Indices: 83898950--83899120 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 46
83898940 ACCCGCCCAT
*
83898950 AAGTGAACTCGGACTCAACTCAACGAGCTTGGGCGTTCGCATCCAC
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAC
* *
83898996 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACATCTCTC
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCATC-CAC
* * * * * *
83899047 -A---AACTTGGACTCAACTCAACGAGCACGGACATTCGTATCCAT
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAC
*
83899089 AAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 AAGTGAACTCGGACTCAACTCAACGAGCTCGG
83899121 ATGCCCAAAT
Statistics
Matches: 100, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 1 0.01
46 55 0.55
47 25 0.25
48 1 0.01
49 1 0.01
50 5 0.05
51 5 0.05
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
AAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAC
Found at i:83899087 original size:93 final size:93
Alignment explanation
Indices: 83898955--83899125 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
83898945 CCCATAAGTG
** * *
83898955 AACTCGGACTCAACTCAACGAGCTTGGGCGTTCGCATCCACAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCACGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCAAC
83899020 GAGCTCGGATGCCTAGTTACATCTCTCA
66 GAGCTCGGATGCCTAGTTACATCTCTCA
* * *
83899048 AACTTGGACTCAACTCAACGAGCACGGACATTCGTATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCACGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCAAC
*
83899113 GAGTTCGGATGCC
66 GAGCTCGGATGCC
83899126 CAAATTTCCT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCACGGACATTCGCATCCACAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTCA
Found at i:83912270 original size:20 final size:20
Alignment explanation
Indices: 83912247--83912296 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
83912237 TTAGCTCGAC
83912247 TCAGCTTGATG-GAGCTCAAT
1 TCAGCTTGATGAGAGCTC-AT
*
83912267 TCAGCTTGATGATAGCTCAT
1 TCAGCTTGATGAGAGCTCAT
*
83912287 TGAGCTTGAT
1 TCAGCTTGAT
83912297 TCTATTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 22 0.81
21 5 0.19
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TCAGCTTGATGAGAGCTCAT
Found at i:83913728 original size:17 final size:16
Alignment explanation
Indices: 83913706--83913744 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
83913696 GTATTTTGTT
* *
83913706 AAAAAAATTTTGTGACA
1 AAAAAAAATTCGTGA-A
83913723 AAAAAAAATTCGTGAA
1 AAAAAAAATTCGTGAA
83913739 AAAAAA
1 AAAAAA
83913745 GGAGAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.64, C:0.05, G:0.10, T:0.21
Consensus pattern (16 bp):
AAAAAAAATTCGTGAA
Found at i:83925054 original size:30 final size:30
Alignment explanation
Indices: 83925011--83925101 Score: 175
Period size: 30 Copynumber: 3.1 Consensus size: 30
83925001 CAAATAGTCG
83925011 AAGCTAG-TTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
83925040 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
83925070 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAGTTTAAATCGCACACTTAGTGCCA
83925100 AA
1 AA
83925102 ACTTTCGATT
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 7 0.11
30 54 0.89
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (30 bp):
AAGCTAGTTTAAATCGCACACTTAGTGCCA
Found at i:83935446 original size:16 final size:17
Alignment explanation
Indices: 83935422--83935463 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
83935412 CGCTCTGTCT
*
83935422 GGTGCTGAAT-GGCAAG
1 GGTGATGAATAGGCAAG
83935438 GGTGATGAAATAGGCAAG
1 GGTGATG-AATAGGCAAG
*
83935456 GTTGATGA
1 GGTGATGA
83935464 CGTGCCCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 4 0.18
18 12 0.55
ACGTcount: A:0.31, C:0.07, G:0.40, T:0.21
Consensus pattern (17 bp):
GGTGATGAATAGGCAAG
Found at i:83937177 original size:13 final size:13
Alignment explanation
Indices: 83937161--83937193 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
83937151 TTTAATTGAA
*
83937161 TTAGTTAATTAGT
1 TTAGATAATTAGT
83937174 TTAGATAATTAGT
1 TTAGATAATTAGT
83937187 TTA-ATAA
1 TTAGATAA
83937194 ACAAACTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:83953095 original size:29 final size:28
Alignment explanation
Indices: 83953047--83953161 Score: 117
Period size: 29 Copynumber: 4.0 Consensus size: 28
83953037 GTGAGCATGA
* *
83953047 ATATGAATGTGACTGGGCCTAACT-GGCC
1 ATATAAATGTGATTGGGCCTAA-TGGGCC
*
83953075 GTATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
*
83953104 ATAT-ATTGGTGATTGGGGCCTAATGGGCC
1 ATATAAAT-GTGATT-GGGCCTAATGGGCC
* * *
83953133 ATATAAATATGATTGGGCTTAGTGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
83953161 A
1 A
83953162 GATACAGGTA
Statistics
Matches: 73, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
28 28 0.38
29 43 0.59
30 2 0.03
ACGTcount: A:0.25, C:0.15, G:0.30, T:0.30
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:83966923 original size:49 final size:50
Alignment explanation
Indices: 83966862--83967120 Score: 153
Period size: 50 Copynumber: 5.1 Consensus size: 50
83966852 TGTACGCATT
* * * ** *
83966862 GTAGCCTGCACTTAATACTACACATGCGACC-AAAAATCTGGTGCACGTA
1 GTAGCCTACACTTAGTACTACACACGCGACCTAAAAATCTAATACACGTA
* **
83966911 GTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTAATACACGTA
1 GTAGCCTACACTTAGTACTACACACGCGACCTAAAAATCTAATACACGTA
* * * * *** *** * *
83966961 GTAGCCTCCACTTAGTACTACACACGAGATCGAAGTTGTCGGGTACGCATA
1 GTAGCCTACACTTAGTACTACACACGCGACCTAA-AAATCTAATACACGTA
* * * * ** ** *
83967012 GTATCTTACACTTAGTACTATACATGCGACCTAACTATCTGGTACATGTA
1 GTAGCCTACACTTAGTACTACACACGCGACCTAAAAATCTAATACACGTA
* * * * *
83967062 GTAGCCTGCACTTAGAACTATACACGTGACCTAAAACCATCTTAA-ACACATA
1 GTAGCCTACACTTAGTACTACACACGCGACCTAAAA--ATC-TAATACACGTA
83967114 GTAGCCT
1 GTAGCCT
83967121 GCGCATATTA
Statistics
Matches: 158, Mismatches: 47, Indels: 7
0.75 0.22 0.03
Matches are distributed among these distances:
49 27 0.17
50 81 0.51
51 34 0.22
52 15 0.09
53 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (50 bp):
GTAGCCTACACTTAGTACTACACACGCGACCTAAAAATCTAATACACGTA
Found at i:83966973 original size:50 final size:50
Alignment explanation
Indices: 83966905--83967120 Score: 164
Period size: 50 Copynumber: 4.3 Consensus size: 50
83966895 AAATCTGGTG
83966905 CACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTAATA
1 CACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTAATA
* * * * *** ***
83966955 CACGTAGTAGCCTCCACTTAGTACTACACACGAGATCGAAGTTGTCGGGTA
1 CACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAA-CCATCTAATA
* * * * * * * * **
83967006 CGCATAGTATCTTACACTTAGTACTATACATGCGACCTAACTATCTGGTA
1 CACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTAATA
* * * *
83967056 CATGTAGTAGCCTGCACTTAGAACTATACACGTGACCTAAAACCATCTTAA-A
1 CACGTAGTAGCCTACACTTAGTACTACACACGTGACCT--AACCATC-TAATA
*
83967108 CACATAGTAGCCT
1 CACGTAGTAGCCT
83967121 GCGCATATTA
Statistics
Matches: 125, Mismatches: 37, Indels: 6
0.74 0.22 0.04
Matches are distributed among these distances:
50 72 0.58
51 34 0.27
52 18 0.14
53 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (50 bp):
CACGTAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTAATA
Found at i:83973795 original size:30 final size:30
Alignment explanation
Indices: 83973761--83973821 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
83973751 TCCTTAACTC
83973761 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
83973791 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
83973821 A
1 A
83973822 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:83978107 original size:38 final size:39
Alignment explanation
Indices: 83978065--83978172 Score: 105
Period size: 38 Copynumber: 2.8 Consensus size: 39
83978055 AGTGACTATA
* * *
83978065 TCCGGACTAAG-CCGAAGGTATTTGTGCGAGTTATTAAT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
** *
83978103 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
83978143 TCCGG-GT-AGTCCCGAAGGCATTCGTGCGAG
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAG
83978173 TTTTAAAATC
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
38 30 0.51
39 1 0.02
40 28 0.47
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.27
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:83978121 original size:40 final size:40
Alignment explanation
Indices: 83978076--83978204 Score: 174
Period size: 40 Copynumber: 3.3 Consensus size: 40
83978066 CCGGACTAAG
*
83978076 CCGAAGGTATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* * *
83978116 CCGAAGGCCTTTGTGCGAGATACTAATTCCGGG-T-AGTC
1 CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
* *
83978154 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTC
83978194 CCGAAGGCATT
1 CCGAAGGCATT
83978205 GAATGAGTTA
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
37 1 0.01
38 30 0.39
39 2 0.03
40 44 0.57
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTC
Found at i:83978224 original size:38 final size:39
Alignment explanation
Indices: 83978091--83978250 Score: 121
Period size: 38 Copynumber: 4.1 Consensus size: 39
83978081 GGTATTTGTG
* * * * **
83978091 CGAGTTATTAATTCCGGGTTAAGTCCCGAAGGCCTTTGTG
1 CGAGTTATAAAATCCGGGCTAAGTCCCGAAGG-CATTGAA
* * **
83978131 CGAGATACT-AATTCCGGG-T-AGTCCCGAAGGCATTCGTG
1 CGAGTTA-TAAAATCCGGGCTAAGTCCCGAAGGCATT-GAA
* *
83978169 CGAGTTTTAAAATCCGGGTTAAGTCCCGAAGGCATTGAA
1 CGAGTTATAAAATCCGGGCTAAGTCCCGAAGGCATTGAA
* * *
83978208 TGAGTTATATAA-CCGGGCTATGTCCCGAAGGCACTTGAA
1 CGAGTTATAAAATCCGGGCTAAGTCCCGAAGGCA-TTGAA
83978247 CGAG
1 CGAG
83978251 GAGCTAAATT
Statistics
Matches: 101, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
37 4 0.04
38 46 0.46
39 20 0.20
40 30 0.30
41 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CGAGTTATAAAATCCGGGCTAAGTCCCGAAGGCATTGAA
Found at i:83978233 original size:78 final size:77
Alignment explanation
Indices: 83978076--83978240 Score: 185
Period size: 78 Copynumber: 2.1 Consensus size: 77
83978066 CCGGACTAAG
* * * * *
83978076 CCGAAGGTATTTGTGCGAGTTATTAATTCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTA
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCATTGTGAGAGATACTA
83978141 ATTCCGGGTAGTC
66 A-TCCGGGTAGTC
**
83978154 CCGAAGGCATTCGTGCGAGTT-TTAAAATCCGGGTTAAGTCCCGAAGG-CATTGAATGAGTTATA
1 CCGAAGGCATTCGTGCGAGTTATT-AAATCCGGGTTAAGTCCCGAAGGCCATTG--TGAGAGATA
83978217 -TAA-CCGGGCTATGTC
63 CTAATCCGGG-TA-GTC
83978232 CCGAAGGCA
1 CCGAAGGCA
83978241 CTTGAACGAG
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
76 5 0.07
77 8 0.11
78 56 0.75
79 6 0.08
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (77 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCATTGTGAGAGATACTA
ATCCGGGTAGTC
Found at i:83985958 original size:39 final size:40
Alignment explanation
Indices: 83985853--83986034 Score: 178
Period size: 40 Copynumber: 4.6 Consensus size: 40
83985843 TTGAATGCTG
* * * *
83985853 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
83985892 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
83985933 TCC-GGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
83985972 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
83986012 TCCGGGTTAAGT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
83986035 GAATGAGTTA
Statistics
Matches: 120, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
38 1 0.01
39 43 0.36
40 66 0.55
41 10 0.08
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:83985989 original size:79 final size:81
Alignment explanation
Indices: 83985853--83986031 Score: 203
Period size: 79 Copynumber: 2.3 Consensus size: 81
83985843 TTGAATGCTG
* * *
83985853 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
83985917 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
83985933 TCC-GGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
83985993 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
83986012 TCCGGGTTAAGT-CCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
83986032 ATTGAATGAG
Statistics
Matches: 86, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
78 4 0.05
79 62 0.72
80 20 0.23
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:83988832 original size:16 final size:15
Alignment explanation
Indices: 83988808--83988837 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
83988798 AACTGTTTTA
83988808 TTACAAATTTCACTC
1 TTACAAATTTCACTC
83988823 TTACATAATTTCACT
1 TTACA-AATTTCACT
83988838 TACTCCATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.33, C:0.23, G:0.00, T:0.43
Consensus pattern (15 bp):
TTACAAATTTCACTC
Found at i:83989162 original size:50 final size:50
Alignment explanation
Indices: 83989098--83989284 Score: 176
Period size: 50 Copynumber: 3.7 Consensus size: 50
83989088 CGGGTGCACG
* * * * *
83989098 TAGTACCCTACACTTAGTGCTACAGATGTGACCTAACCGTCTGGTACACG
1 TAGTAGCCTACACTTAGTACTACACATGTGACCTAACTGTCTGGTACACA
* * * * * * *
83989148 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTGTCGGGTACGCA
1 TAGTAGCCTACACTTAGTACTACACATGTGACCTAA-CTGTCTGGTACACA
* ** ** * *
83989199 TAATAGCCTGTACTTAGTACTATTCATGCGACCTAACTATCTGGTACACA
1 TAGTAGCCTACACTTAGTACTACACATGTGACCTAACTGTCTGGTACACA
* *
83989249 TAGTAGCCTACACTTAGTACTACATATGTAACCTAA
1 TAGTAGCCTACACTTAGTACTACACATGTGACCTAA
83989285 AACCATCTTA
Statistics
Matches: 104, Mismatches: 32, Indels: 2
0.75 0.23 0.01
Matches are distributed among these distances:
50 67 0.64
51 37 0.36
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (50 bp):
TAGTAGCCTACACTTAGTACTACACATGTGACCTAACTGTCTGGTACACA
Found at i:83994869 original size:40 final size:41
Alignment explanation
Indices: 83994678--83994876 Score: 198
Period size: 40 Copynumber: 5.0 Consensus size: 41
83994668 TCGAATGATG
*
83994678 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACTAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTG-CTATAA
* * * *
83994718 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTGCTATAA
* * *
83994758 TCCGAGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAA
*
83994797 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAA
* ** *
83994838 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATA
83994877 TCTGGTTAAA
Statistics
Matches: 133, Mismatches: 19, Indels: 14
0.80 0.11 0.08
Matches are distributed among these distances:
39 34 0.26
40 88 0.66
41 11 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAA
Found at i:83996356 original size:22 final size:23
Alignment explanation
Indices: 83996328--83996370 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
83996318 TATCCTCACA
*
83996328 TGGAGTGTAG-GGTTGGATGGAG
1 TGGAGTGTAGAGGATGGATGGAG
83996350 TGGAGTGTAGAGGATGGATGG
1 TGGAGTGTAGAGGATGGATGG
83996371 GTAGGATCAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.21, C:0.00, G:0.53, T:0.26
Consensus pattern (23 bp):
TGGAGTGTAGAGGATGGATGGAG
Found at i:83999854 original size:40 final size:40
Alignment explanation
Indices: 83999810--83999888 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 40
83999800 TTTTAGTGGT
* * *
83999810 GTTTTCGAAAAAACGA-CGCTAAAGGTTGACCTATAGCGGC
1 GTTTT-GAAAAAACCACCGATAAAGGTCGACCTATAGCGGC
* *
83999850 GTTTTTAAAAAACCACCGATAAAGGTCGACTTATAGCGG
1 GTTTTGAAAAAACCACCGATAAAGGTCGACCTATAGCGG
83999889 TATTTTTTCG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
39 8 0.24
40 25 0.76
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (40 bp):
GTTTTGAAAAAACCACCGATAAAGGTCGACCTATAGCGGC
Found at i:84000605 original size:16 final size:16
Alignment explanation
Indices: 84000571--84000614 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
84000561 ATGATTTTCT
*
84000571 CTAAACCC-TAACGCA
1 CTAAACCCTTAAAGCA
*
84000586 CTAAACCCTTAAATCA
1 CTAAACCCTTAAAGCA
*
84000602 CTAAACCTTTAAA
1 CTAAACCCTTAAA
84000615 CCCTTAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.43, C:0.32, G:0.02, T:0.23
Consensus pattern (16 bp):
CTAAACCCTTAAAGCA
Found at i:84000605 original size:24 final size:23
Alignment explanation
Indices: 84000573--84000641 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 23
84000563 GATTTTCTCT
*
84000573 AAACCCTAACGCACTAAACCCTTA
1 AAACACTAAC-CACTAAACCCTTA
* **
84000597 AATCACTAAACCTTTAAACCCTTA
1 AAACACT-AACCACTAAACCCTTA
* *
84000621 AAACTCTAAACACTAAACCCT
1 AAACACTAACCACTAAACCCT
84000642 AACCCATAAA
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
23 11 0.31
24 21 0.60
25 3 0.09
ACGTcount: A:0.43, C:0.33, G:0.01, T:0.22
Consensus pattern (23 bp):
AAACACTAACCACTAAACCCTTA
Found at i:84000651 original size:14 final size:14
Alignment explanation
Indices: 84000634--84000696 Score: 74
Period size: 14 Copynumber: 4.5 Consensus size: 14
84000624 CTCTAAACAC
84000634 TAAACCCTAACCCA
1 TAAACCCTAACCCA
*
84000648 TAAATCCTAACCCA
1 TAAACCCTAACCCA
*
84000662 TTAACCCTAACTCC-
1 TAAACCCTAAC-CCA
* *
84000676 TAACCCCTAACCCT
1 TAAACCCTAACCCA
84000690 TAAACCC
1 TAAACCC
84000697 ATAAACTATA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
13 2 0.05
14 37 0.90
15 2 0.05
ACGTcount: A:0.37, C:0.43, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCCTAACCCA
Found at i:84000757 original size:22 final size:22
Alignment explanation
Indices: 84000720--84000773 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
84000710 TTTAAATCTC
84000720 AAAC-CTTAAACTATAAACCCT
1 AAACTCTTAAACTATAAACCCT
84000741 AAACTCTTAAA-TCATAAACCCT
1 AAACTCTTAAACT-ATAAACCCT
*
84000763 AAAATCTTAAA
1 AAACTCTTAAA
84000774 AATAAATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 5 0.17
22 25 0.83
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (22 bp):
AAACTCTTAAACTATAAACCCT
Found at i:84001274 original size:42 final size:42
Alignment explanation
Indices: 84001228--84001356 Score: 125
Period size: 42 Copynumber: 3.1 Consensus size: 42
84001218 TCAAGGTTTA
* * *
84001228 GGGTATTGGGTTCA-AATTTTAGTTTATAAGGTTTTGAGTATT
1 GGGTATTAGGTTCAGAA-TTTAGTCTATAAGGTTTAGAGTATT
* * *
84001270 GGGTATTAGGTTTAGGATTTAGTCTATAAGGTTTAGGGTATT
1 GGGTATTAGGTTCAGAATTTAGTCTATAAGGTTTAGAGTATT
* * * ** * *
84001312 AGGTATTTGGTTTAGGGTTTAGTCTATAGGGTTTAGGGTATT
1 GGGTATTAGGTTCAGAATTTAGTCTATAAGGTTTAGAGTATT
84001354 GGG
1 GGG
84001357 GTTTACTCTA
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
42 74 0.99
43 1 0.01
ACGTcount: A:0.22, C:0.02, G:0.32, T:0.44
Consensus pattern (42 bp):
GGGTATTAGGTTCAGAATTTAGTCTATAAGGTTTAGAGTATT
Found at i:84001301 original size:21 final size:21
Alignment explanation
Indices: 84001277--84001350 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 21
84001267 ATTGGGTATT
*
84001277 AGGTTTAGGATTTAGTCTATA
1 AGGTTTAGGGTTTAGTCTATA
* *
84001298 AGGTTTAGGGTATTAG-GTATT
1 AGGTTTAGGGT-TTAGTCTATA
*
84001319 TGGTTTAGGGTTTAGTCTATA
1 AGGTTTAGGGTTTAGTCTATA
*
84001340 GGGTTTAGGGT
1 AGGTTTAGGGT
84001351 ATTGGGGTTT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 4 0.09
21 36 0.82
22 4 0.09
ACGTcount: A:0.22, C:0.03, G:0.32, T:0.43
Consensus pattern (21 bp):
AGGTTTAGGGTTTAGTCTATA
Found at i:84001315 original size:14 final size:15
Alignment explanation
Indices: 84001299--84001361 Score: 53
Period size: 14 Copynumber: 4.4 Consensus size: 15
84001289 TAGTCTATAA
84001299 GGTTTAGGGTATTA-
1 GGTTTAGGGTATTAG
*
84001313 GGTATT-TGGT-TTAG
1 GGT-TTAGGGTATTAG
**
84001327 GGTTTAGTCTA-TAG
1 GGTTTAGGGTATTAG
*
84001341 GGTTTAGGGTATTGG
1 GGTTTAGGGTATTAG
84001356 GGTTTA
1 GGTTTA
84001362 CTCTATTGGT
Statistics
Matches: 37, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
13 5 0.14
14 22 0.59
15 10 0.27
ACGTcount: A:0.17, C:0.02, G:0.37, T:0.44
Consensus pattern (15 bp):
GGTTTAGGGTATTAG
Found at i:84001373 original size:42 final size:42
Alignment explanation
Indices: 84001282--84001366 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 42
84001272 GTATTAGGTT
* * ** *
84001282 TAGGATTTAGTCTATAAGGTTTAGGGTATTAGGTATTTGGTT
1 TAGGGTTTAGTCTATAAGGTTTAGGGTATTAGGGATTTACTC
* *
84001324 TAGGGTTTAGTCTATAGGGTTTAGGGTATT-GGGGTTTACTC
1 TAGGGTTTAGTCTATAAGGTTTAGGGTATTAGGGATTTACTC
84001365 TA
1 TA
84001367 TTGGTTTTGG
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
41 8 0.22
42 28 0.78
ACGTcount: A:0.21, C:0.05, G:0.31, T:0.44
Consensus pattern (42 bp):
TAGGGTTTAGTCTATAAGGTTTAGGGTATTAGGGATTTACTC
Found at i:84001762 original size:83 final size:84
Alignment explanation
Indices: 84001611--84001852 Score: 222
Period size: 84 Copynumber: 2.9 Consensus size: 84
84001601 CTTGGAGGGA
* ** * * * * * *
84001611 TAGTGGAGTTAGTGGCGCTAGGTCATAAACACCGCTAAAAGTATGAGAAATTGTAA-GGAAAC-A
1 TAGTGGAATTAGTGGCGCTATCTTATAAACGCCACTAAAAATATGAGAAACTG-AATGAAAACTA
* *
84001674 TCGTCGTTTTGTTTCACG-GG
65 -CGTCGTTTTATGTCACGCGG
* *
84001694 TAGTGGATTTAGTGGCGGTATCTTATAAACGCCACTAAAAATATGAGAAACTGAATGAAAACTAC
1 TAGTGGAATTAGTGGCGCTATCTTATAAACGCCACTAAAAATATGAGAAACTGAATGAAAACTAC
***
84001759 GTCGTTTTATGTGGTGCGG
66 GTCGTTTTATGTCACGCGG
* * * * *
84001778 T-TTAGGAATTAGTGGTGCTATCTTATAAACGCCACTAAAAATTTGAGAAACCGAATAAAAACTA
1 TAGT-GGAATTAGTGGCGCTATCTTATAAACGCCACTAAAAATATGAGAAACTGAATGAAAACTA
* *
84001842 TGTCATTTTAT
65 CGTCGTTTTAT
84001853 TTTGTGCGGT
Statistics
Matches: 131, Mismatches: 24, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
82 2 0.02
83 62 0.47
84 67 0.51
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (84 bp):
TAGTGGAATTAGTGGCGCTATCTTATAAACGCCACTAAAAATATGAGAAACTGAATGAAAACTAC
GTCGTTTTATGTCACGCGG
Found at i:84001812 original size:84 final size:84
Alignment explanation
Indices: 84001702--84001886 Score: 273
Period size: 84 Copynumber: 2.2 Consensus size: 84
84001692 GGTAGTGGAT
* * * * *
84001702 TTAGTGGCGGTATCTTATAAACGCCACTAAAAATATGAGAAACTGAATGAAAACTACGTCGTTTT
1 TTAGTGGTGCTATCTTATAAACGCCACTAAAAATATGAGAAACCGAATAAAAACTACGTCATTTT
84001767 ATGTGGTGCGGTTTAGGAA
66 ATGTGGTGCGGTTTAGGAA
* *
84001786 TTAGTGGTGCTATCTTATAAACGCCACTAAAAATTTGAGAAACCGAATAAAAACTATGTCATTTT
1 TTAGTGGTGCTATCTTATAAACGCCACTAAAAATATGAGAAACCGAATAAAAACTACGTCATTTT
* *
84001851 ATTTTGTGCGGTTTAGGAA
66 ATGTGGTGCGGTTTAGGAA
84001870 TTAGTGGCT-CTATCTTA
1 TTAGTGG-TGCTATCTTA
84001887 GAAATACCGT
Statistics
Matches: 91, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
84 90 0.99
85 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.34
Consensus pattern (84 bp):
TTAGTGGTGCTATCTTATAAACGCCACTAAAAATATGAGAAACCGAATAAAAACTACGTCATTTT
ATGTGGTGCGGTTTAGGAA
Found at i:84004767 original size:3 final size:3
Alignment explanation
Indices: 84004761--84004794 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
84004751 TTTTAAGCTT
84004761 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
84004795 TATTGTTTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:84005241 original size:13 final size:13
Alignment explanation
Indices: 84005223--84005252 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
84005213 CAACATAATA
84005223 CATAAATATATAT
1 CATAAATATATAT
84005236 CATAAATATATAT
1 CATAAATATATAT
84005249 CATA
1 CATA
84005253 TCATAAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (13 bp):
CATAAATATATAT
Found at i:84005266 original size:9 final size:9
Alignment explanation
Indices: 84005254--84005335 Score: 76
Period size: 9 Copynumber: 9.1 Consensus size: 9
84005244 TATATCATAT
*
84005254 CATAAGTTA
1 CATAACTTA
84005263 CATAACTTA
1 CATAACTTA
*
84005272 CATACCTTA
1 CATAACTTA
*
84005281 CATAAATGTA
1 CATAACT-TA
* * *
84005291 TATCA-TAA
1 CATAACTTA
84005299 CATAACTTA
1 CATAACTTA
84005308 CATAACTTA
1 CATAACTTA
*
84005317 CAAAACTTA
1 CATAACTTA
*
84005326 CTTAACTTA
1 CATAACTTA
84005335 C
1 C
84005336 GTAATACATA
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
8 4 0.07
9 49 0.84
10 5 0.09
ACGTcount: A:0.44, C:0.21, G:0.02, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:84005326 original size:45 final size:45
Alignment explanation
Indices: 84005236--84005326 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
84005226 AAATATATAT
* * * *
84005236 CATAAATATATATCATATCATAAGTTACATAACTTACATACCTTA
1 CATAAATATATATCATAACATAACTTACATAACTTACAAAACTTA
*
84005281 CATAAATGTATATCATAACATAACTTACATAACTTACAAAACTTA
1 CATAAATATATATCATAACATAACTTACATAACTTACAAAACTTA
84005326 C
1 C
84005327 TTAACTTACG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.33
Consensus pattern (45 bp):
CATAAATATATATCATAACATAACTTACATAACTTACAAAACTTA
Found at i:84007138 original size:12 final size:12
Alignment explanation
Indices: 84007121--84007146 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
84007111 AAGATCGAGG
84007121 GATGAATCTGAT
1 GATGAATCTGAT
84007133 GATGAATCTGAT
1 GATGAATCTGAT
84007145 GA
1 GA
84007147 AGAGGATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (12 bp):
GATGAATCTGAT
Found at i:84010487 original size:13 final size:14
Alignment explanation
Indices: 84010471--84010499 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
84010461 TTATAAATAT
84010471 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
84010484 TTATAATGGTTTAA
1 TTATAATGGTTTAA
84010498 TT
1 TT
84010500 CGTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:84018861 original size:7 final size:6
Alignment explanation
Indices: 84018841--84018880 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
84018831 TAAACTCATA
*
84018841 TTATTT TTATTTT TTCATTT TTATTT TTATTT CTATTT TT
1 TTATTT TTA-TTT TT-ATTT TTATTT TTATTT TTATTT TT
84018881 TTTGAAGACT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 19 0.63
7 10 0.33
8 1 0.03
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:84026410 original size:40 final size:40
Alignment explanation
Indices: 84026234--84026456 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
84026224 TCCTCGTTCA
* * * * *
84026234 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
84026273 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
84026313 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
84026353 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
84026393 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
84026433 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
84026457 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 22, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 37 0.23
40 113 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:84049698 original size:47 final size:47
Alignment explanation
Indices: 84049513--84049902 Score: 628
Period size: 47 Copynumber: 8.4 Consensus size: 47
84049503 CAGCCAAGAC
84049513 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGAT-AATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
84049559 AGTGTATATATGTGATAAGGCCTAATGG-CGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
84049605 AGTG--TATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
84049649 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
84049696 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
84049743 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
84049790 AGTGTATATATGTGATATGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
84049837 AGTGTATATATGTGAGAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
84049884 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
84049903 TCCCGAAGGG
Statistics
Matches: 324, Mismatches: 15, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
43 1 0.00
44 42 0.13
45 9 0.03
46 60 0.19
47 212 0.65
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:84050076 original size:36 final size:37
Alignment explanation
Indices: 84050021--84050098 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
84050011 CCGAGCTCTA
* *
84050021 AAGACCCGATGACTACGTGTGGA-ATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
84050057 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
84050094 AAGAC
1 AAGAC
84050099 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 21 0.55
37 17 0.45
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:84052007 original size:43 final size:43
Alignment explanation
Indices: 84051959--84052061 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
84051949 TTGGTTTTCA
84051959 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
84052002 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
84052045 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
84052062 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:84052078 original size:29 final size:29
Alignment explanation
Indices: 84052043--84052116 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
84052033 GTTGTGAGAT
* *
84052043 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
84052072 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
84052101 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
84052117 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:84052653 original size:39 final size:39
Alignment explanation
Indices: 84052431--84052644 Score: 267
Period size: 39 Copynumber: 5.5 Consensus size: 39
84052421 ATGATGTCCG
* *
84052431 GGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCC
1 GGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATATCC
* *
84052470 GGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCC
1 GG-CTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCC
*
84052510 GGCTAAGT-CCGAAGAGCATTCGTGCTAGTGATGTATCC
1 GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCC
*
84052548 GGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCC
1 GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCC
* *
84052587 GTGCTAA-ACCCGAAGAGCATTCGTGCT-GTGTTATATCC
1 G-GCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCC
*
84052625 GAGCTAGGTCCCGAAGAGCA
1 G-GCTAAGTCCCGAAGAGCA
84052645 ATCATGCTGG
Statistics
Matches: 158, Mismatches: 11, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
38 53 0.34
39 67 0.42
40 24 0.15
41 7 0.04
42 7 0.04
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCC
Found at i:84056223 original size:22 final size:22
Alignment explanation
Indices: 84056195--84056268 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
84056185 CAGTGTATAT
84056195 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* * ***
84056217 ATGTGATGAATG--TGAAAGTGTAT
1 ATGTGAT-AAGGCCT-AATG-GCCG
84056240 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
84056262 ATGTGAT
1 ATGTGAT
84056269 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 10, Indels: 10
0.65 0.18 0.18
Matches are distributed among these distances:
21 1 0.03
22 21 0.57
23 14 0.38
24 1 0.03
ACGTcount: A:0.30, C:0.11, G:0.31, T:0.28
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:84056310 original size:47 final size:47
Alignment explanation
Indices: 84056186--84056530 Score: 570
Period size: 47 Copynumber: 7.4 Consensus size: 47
84056176 CAGCCAAGAC
84056186 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
84056233 AGTG--TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
84056278 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
84056325 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
84056372 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
84056419 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * *
84056466 AGTGTATATATGTGA-GAGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
84056512 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
84056531 TCCCGAAGGG
Statistics
Matches: 282, Mismatches: 13, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
45 45 0.16
46 38 0.13
47 199 0.71
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:84056705 original size:37 final size:37
Alignment explanation
Indices: 84056649--84056727 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
84056639 CCGAGCTCTA
* *
84056649 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
84056686 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
84056723 AAGAC
1 AAGAC
84056728 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:84064852 original size:108 final size:108
Alignment explanation
Indices: 84064627--84064910 Score: 365
Period size: 108 Copynumber: 2.6 Consensus size: 108
84064617 TCCCAGATAG
* * * *
84064627 GGTCTTACTCGTAAACACATATC-GAAATAACCTATCAATGCCAACGTATTAAACGTGGTCTTAC
1 GGTCTTACTCGTACACACATATCAG-AATCACATATCGATGCCAACGTATTAAACGTGGTCTTA-
*
84064691 TTGCACAAACATATTGGAATCACATATCGAGTCCAACGCATTAAACGT
64 ---CACAAACATATCGGAATCACATATCGAGTCCAACGCATTAAACGT
* * * * *
84064739 GGTCTTACTTGCACACACATATCAGAATCACATATCGATACCAACGTATTAAATGTTGTCTTACA
1 GGTCTTACTCGTACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACA
* * * *
84064804 CACACATATCGGAATCACATATTGA-TGCCAACGTATTAAGCGT
66 CAAACATATCGGAATCACATATCGAGT-CCAACGCATTAAACGT
*
84064847 GGTCTTACTCGTACACACATATCAGAATCACATATCGATGCCAACATATTAAACGTGGTCTTAC
1 GGTCTTACTCGTACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTAC
84064911 TCATAATCAC
Statistics
Matches: 150, Mismatches: 20, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
107 1 0.01
108 96 0.64
112 52 0.35
113 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.28
Consensus pattern (108 bp):
GGTCTTACTCGTACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGTGGTCTTACA
CAAACATATCGGAATCACATATCGAGTCCAACGCATTAAACGT
Found at i:84064912 original size:56 final size:56
Alignment explanation
Indices: 84064627--84064926 Score: 344
Period size: 56 Copynumber: 5.4 Consensus size: 56
84064617 TCCCAGATAG
* * * *
84064627 GGTCTTACTCGTAAACACATATC-GAAATAACCTATCAATGCCAACGTATTAAACGT
1 GGTCTTACTCGTACACACATATCAG-AATCACATATCGATGCCAACGTATTAAACGT
* * * ** *
84064683 GGTCTTACTTGCACAAACATATTGGAATCACATATCGA-GTCCAACGCATTAAACGT
1 GGTCTTACTCGTACACACATATCAGAATCACATATCGATG-CCAACGTATTAAACGT
* * * *
84064739 GGTCTTACTTGCACACACATATCAGAATCACATATCGATACCAACGTATTAAATGT
1 GGTCTTACTCGTACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGT
* * * *
84064795 TGTCTTA--C--ACACACATATCGGAATCACATATTGATGCCAACGTATTAAGCGT
1 GGTCTTACTCGTACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGT
*
84064847 GGTCTTACTCGTACACACATATCAGAATCACATATCGATGCCAACATATTAAACGT
1 GGTCTTACTCGTACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGT
*
84064903 GGTCTTACTCATA-ATCACATATCA
1 GGTCTTACTCGTACA-CACATATCA
84064927 ATGCCAATTT
Statistics
Matches: 208, Mismatches: 28, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
52 45 0.22
54 1 0.00
55 2 0.01
56 159 0.76
57 1 0.00
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGTACACACATATCAGAATCACATATCGATGCCAACGTATTAAACGT
Found at i:84064933 original size:43 final size:43
Alignment explanation
Indices: 84064872--84065097 Score: 209
Period size: 43 Copynumber: 5.3 Consensus size: 43
84064862 CACATATCAG
** * * *
84064872 AATCACATATCGATGCCAACATATTAAACGTGGTCTTACTCAT
1 AATCACATATCGATGCCAACATCCTAAACGTGATCTTACACGT
* ** *
84064915 AATCACATATCAATGCCAATTTCCTAGACGTGATCTTACACGT
1 AATCACATATCGATGCCAACATCCTAAACGTGATCTTACACGT
** * * *
84064958 AATCACATATCGATGTAAACATCCTAAACGTGCTCCTAAACGT
1 AATCACATATCGATGCCAACATCCTAAACGTGATCTTACACGT
* * * *
84065001 AATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGT
1 AATCACATATCGATGCCAACATCCTAAACGTGATCTTACACGT
** * * * * * * *
84065044 AATCATGTATCGATGCTAACGTCCCAGACATGGTTTTACACGT
1 AATCACATATCGATGCCAACATCCTAAACGTGATCTTACACGT
84065087 AATCACATATC
1 AATCACATATC
84065098 AAAAATCTAT
Statistics
Matches: 150, Mismatches: 33, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 150 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.28
Consensus pattern (43 bp):
AATCACATATCGATGCCAACATCCTAAACGTGATCTTACACGT
Found at i:84065017 original size:86 final size:86
Alignment explanation
Indices: 84064872--84065059 Score: 232
Period size: 86 Copynumber: 2.2 Consensus size: 86
84064862 CACATATCAG
* * * * ** **
84064872 AATCACATATCGATGCCAACATATTAAACGTGGTCTTACTCATAATCACATATCAATGCCAATTT
1 AATCACATATCGATGCAAACATACTAAACGTGCTCCTAAACATAATCACATATCAATGCCAACGT
*
84064937 CCTAGACGTGATCTTACACGT
66 CCCAGACGTGATCTTACACGT
* * * *
84064958 AATCACATATCGATGTAAACATCCTAAACGTGCTCCTAAACGTAATCACATATCGATGCCAACGT
1 AATCACATATCGATGCAAACATACTAAACGTGCTCCTAAACATAATCACATATCAATGCCAACGT
*
84065023 CCCAGACGTGGTCTTACACGT
66 CCCAGACGTGATCTTACACGT
**
84065044 AATCATGTATCGATGC
1 AATCACATATCGATGC
84065060 TAACGTCCCA
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
86 85 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.28
Consensus pattern (86 bp):
AATCACATATCGATGCAAACATACTAAACGTGCTCCTAAACATAATCACATATCAATGCCAACGT
CCCAGACGTGATCTTACACGT
Found at i:84070384 original size:43 final size:43
Alignment explanation
Indices: 84070323--84070477 Score: 156
Period size: 42 Copynumber: 3.7 Consensus size: 43
84070313 TGTGTTTCTG
* *
84070323 TGTAAGACCATGTTTGGGATGTTGGCATCGACT-TATGATTTCA
1 TGTAAGACCATGTCTGGGACGTTGGCATCGA-TATATGATTTCA
* ** *
84070366 TGTAAGACCATGTCTGGGACATCAGCATCG-TATATGATTTCG
1 TGTAAGACCATGTCTGGGACGTTGGCATCGATATATGATTTCA
* * * *
84070408 TGTAAGACCCTATCTGGGACAG-TGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGAC-GTTGGCATCGATATATGATTTCA
* *
84070451 TGTTAGAACA-GTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGACGTTGGCAT
84070478 TGTACGAGCT
Statistics
Matches: 90, Mismatches: 18, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
41 2 0.02
42 47 0.52
43 41 0.46
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGATATATGATTTCA
Found at i:84072045 original size:18 final size:20
Alignment explanation
Indices: 84072008--84072049 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
84071998 GGTAACTAAA
*
84072008 AAAAAGAAATAATGAGAAAT
1 AAAAAGAAATAATAAGAAAT
84072028 AAAAA-AAATAA-AAGAAAT
1 AAAAAGAAATAATAAGAAAT
84072046 AAAA
1 AAAA
84072050 TTGTACACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 6 0.29
20 5 0.24
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.12
Consensus pattern (20 bp):
AAAAAGAAATAATAAGAAAT
Found at i:84075866 original size:47 final size:47
Alignment explanation
Indices: 84075798--84076103 Score: 188
Period size: 46 Copynumber: 6.5 Consensus size: 47
84075788 CTTGTGTGCT
*
84075798 AGTGTAAGA-CATGTCTGGGACATGCATTGGCCACATTACGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTACGAGAGCC
* *
84075844 AGTGTAAGACCATGTCTGGGACATTGCATCGG---TATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACA-TGCATCGGCCACATT---ACGAGAGCC
* * * * *
84075892 AGTGTAA-AACATGTCTGGGACATGCATCAGCCTCGA-GATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCAC-ATTACG-AGAGCC
** * * * *
84075938 AGTGTAAGA-CATGTCTGCAACATGCATCGGCTACATGATG-TA-CC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTACGAGAGCC
* * * *
84075982 AGTGTAAGACCATGTCTGGGACATGGCATCAG-CACAAATACGTGAAAGTC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCCAC-ATTAC--GAGAGCC
** * * * *
84076032 AGTGTAAGACCATGTCTATGACATGGCATCGACTTA-A-AATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGC-CACATTACGAGAGCC
*
84076079 AGTGTAAGACCATGTCTTGGACATG
1 AGTGTAAGACCATGTCTGGGACATG
84076104 GCATTGGCAT
Statistics
Matches: 204, Mismatches: 34, Indels: 44
0.72 0.12 0.16
Matches are distributed among these distances:
44 11 0.05
45 19 0.09
46 61 0.30
47 56 0.27
48 23 0.11
49 2 0.01
50 31 0.15
52 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCCACATTACGAGAGCC
Found at i:84076104 original size:47 final size:48
Alignment explanation
Indices: 84075837--84076107 Score: 199
Period size: 47 Copynumber: 5.8 Consensus size: 48
84075827 GCCACATTAC
* * * * *
84075837 GAGAGCCAGTGTAAGACCATGTCTGGGACATTGCATCGGTA-TTGAGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-ACTTAAAAT
* * * ** *
84075885 GAGAGCTAGTGTAA-AACATGTCTGGGACAT-GCATCAGCCTCGAGAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGACTTAAAAT
** * *
84075931 GTA-AGCCAGTGTAAGA-CATGTCTGCAACAT-GCATC-GGC-T-ACAT
1 G-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGACTTAAAAT
84075974 GATGTA-CCAGTGTAAGACCATGTCTGGGACATGGCATCAGCAC--AAATACGT
1 GA-G-AGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-ACTTAAA-A--T
* * **
84076025 GAAAGTCAGTGTAAGACCATGTCTATGACATGGCATC-GACTTAAAAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGACTTAAAAT
*
84076072 GAGAGCCAGTGTAAGACCATGTCTTGGACATGGCAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
84076108 TGGCATTATA
Statistics
Matches: 182, Mismatches: 24, Indels: 35
0.76 0.10 0.15
Matches are distributed among these distances:
42 1 0.01
43 4 0.02
44 11 0.06
45 15 0.08
46 44 0.24
47 51 0.28
48 17 0.09
49 4 0.02
50 32 0.18
51 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.23
Consensus pattern (48 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGACTTAAAAT
Found at i:84082263 original size:16 final size:16
Alignment explanation
Indices: 84082244--84082274 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
84082234 CTTCTTCACT
84082244 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
84082260 TACTTACTTACTTAA
1 TACTCACTTACTTAA
84082275 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:84082280 original size:20 final size:20
Alignment explanation
Indices: 84082241--84082280 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
84082231 AAACTTCTTC
* *
84082241 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
84082261 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
84082281 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:84082657 original size:108 final size:110
Alignment explanation
Indices: 84082513--84082710 Score: 294
Period size: 108 Copynumber: 1.8 Consensus size: 110
84082503 ATCCTTTTGA
* * **
84082513 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTTTCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTACCTTA-GAAACCTCACCAA
84082576 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* ** *
84082621 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTACCTTAGAAACCTCACCAAT
84082686 TGCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
84082711 CGGTATCCTT
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 1 0.01
108 46 0.58
109 7 0.09
110 25 0.32
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTACCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:84082720 original size:55 final size:54
Alignment explanation
Indices: 84082466--84082721 Score: 235
Period size: 55 Copynumber: 4.8 Consensus size: 54
84082456 ACACGGGTAC
* * *
84082466 CTTACC-ATTGCCATGACTTGTCATGGTCTTACGTGGTATCCTT---TT-GAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTAGAAA
* * **
84082515 CTTACC-ATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTTTCTTATG-AA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTA-GAAA
* * * * *
84082568 CTCACCAA-TGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCC-TTACC-T-TAGAAA
* * * *
84082623 CTTATCAA-TGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTAGAAA
1 CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTAGAAA
* *
84082676 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTTA
1 -CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTA
84082722 AACCCTAATG
Statistics
Matches: 169, Mismatches: 25, Indels: 20
0.79 0.12 0.09
Matches are distributed among these distances:
49 39 0.23
52 4 0.02
53 42 0.25
54 12 0.07
55 70 0.41
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
CTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTACCTTAGAAA
Found at i:84084247 original size:16 final size:17
Alignment explanation
Indices: 84084226--84084276 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
84084216 CACATTAAAG
84084226 TGTTTT-TCGAAAACCA
1 TGTTTTCTCGAAAACCA
*
84084242 TGTTTTCCTTGAAAACCA
1 TGTTTT-CTCGAAAACCA
*
84084260 TGTTTTCCTTGAAAACC
1 TGTTTT-CTCGAAAACC
84084277 CTTCTTACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 6 0.19
18 26 0.81
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (17 bp):
TGTTTTCTCGAAAACCA
Found at i:84084257 original size:18 final size:18
Alignment explanation
Indices: 84084234--84084276 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
84084224 AGTGTTTTTC
84084234 GAAAACCATGTTTTCCTT
1 GAAAACCATGTTTTCCTT
84084252 GAAAACCATGTTTTCCTT
1 GAAAACCATGTTTTCCTT
84084270 GAAAACC
1 GAAAACC
84084277 CTTCTTACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (18 bp):
GAAAACCATGTTTTCCTT
Found at i:84084942 original size:27 final size:27
Alignment explanation
Indices: 84084911--84084963 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
84084901 CAGTAATAGT
*
84084911 TGGGCCT-AGCCCATTAGCAGAATTAGG
1 TGGGCCTAAGCCCAATA-CAGAATTAGG
84084938 TGGGCCTAAGCCCAATACAGAATTAG
1 TGGGCCTAAGCCCAATACAGAATTAG
84084964 TATCAGATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (27 bp):
TGGGCCTAAGCCCAATACAGAATTAGG
Found at i:84088438 original size:50 final size:50
Alignment explanation
Indices: 84088357--84088650 Score: 238
Period size: 50 Copynumber: 5.9 Consensus size: 50
84088347 TCCGTTATGA
*
84088357 GTCACGTGTGTAGTACTAAGTGCA-GCTTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGC-TACTACGTGTACCAGATTGATAG
* * ** * * *
84088407 GTCACATGTGTAGTACTAAGTGTAGGCTACTATGCATACCCG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGA--TAG
* * * * * *
84088458 ATCACATGTATAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* ** * *
84088508 GTCACGTGTGTAGTACTAAGTTTAAGCTACTACGTGTACCATATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * ** * *
84088558 GTCGCACGTGTAGTACTAAGTGCAGGCTACTATGCATACCCG-TT-A-AC
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
* * * *
84088605 TTCAATCACGTGTAGTACTAAGTGCAGGCTACTACGTATATCAGAT
1 GTC-A-CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
84088651 GGTTATGTGA
Statistics
Matches: 187, Mismatches: 50, Indels: 14
0.75 0.20 0.06
Matches are distributed among these distances:
47 3 0.02
48 1 0.01
49 39 0.21
50 105 0.56
51 38 0.20
52 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.30
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
Found at i:84090088 original size:46 final size:46
Alignment explanation
Indices: 84089936--84090102 Score: 162
Period size: 46 Copynumber: 3.6 Consensus size: 46
84089926 GTCATCCAAT
* * *
84089936 CTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAATGTCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTAAGGATGCGAATGCCTGAG
* * * * * *
84089982 CTCATTGAGTTGAGTCTGAGTT--CGTGA-GATG-TAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTAAGGATGCGAA-T--GC--CTGAG
*
84090029 CTCGTTGAGTTGAGTTCGAGTTCACTTAAGGATGCGAATGCCTGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTAAGGATGCGAATGCCTGAG
*
84090075 CTCGTTGAGTTGAGTCCGAGTTCGCTTA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTA
84090103 TGGGCGGGTT
Statistics
Matches: 94, Mismatches: 18, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
44 2 0.02
45 1 0.01
46 49 0.52
47 23 0.24
48 2 0.02
49 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTAAGGATGCGAATGCCTGAG
Found at i:84097834 original size:50 final size:50
Alignment explanation
Indices: 84097753--84097985 Score: 225
Period size: 50 Copynumber: 4.6 Consensus size: 50
84097743 TCCGTTGTGA
* *
84097753 GTCACTTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTAATAG
* * * ** * *
84097803 GTCGCATGTGTAGTACTAAATGCAGGCTACTATGCATACC-CATTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTAA--TAG
* * * * *** *
84097854 ATCACTTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTAATAG
** * * * *
84097904 GTCATGTGTGTAGGACTAAGTTCAGGCTATTACGTGCACCAGATTAATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTAATAG
*
84097954 GTCACATGTGTAGTACTAAGTGTAGGCTACTA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTA
84097986 TGCATACCAA
Statistics
Matches: 137, Mismatches: 43, Indels: 6
0.74 0.23 0.03
Matches are distributed among these distances:
49 4 0.03
50 98 0.72
51 33 0.24
52 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTAATAG
Found at i:84097930 original size:101 final size:99
Alignment explanation
Indices: 84097754--84097985 Score: 261
Period size: 101 Copynumber: 2.3 Consensus size: 99
84097744 CCGTTGTGAG
* * * * *
84097754 TCACTTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTAC
1 TCACTTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGGAC
*
84097819 TAAATGCAGGCTACTA-TGCATACC-CATTAACTTCGA
66 TAAATGCAGGCTACTACTGC--ACCACATTAA--TAGA
* * **
84097855 TCACTTGTGTAGTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAAGTCATGTGTGTAGGAC
1 TCACTTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGGAC
* * * * *
84097920 TAAGTTCAGGCTATTACGTGCACCAGATTAATAGG
66 TAAATGCAGGCTACTAC-TGCACCACATTAATAGA
*
84097955 TCACATGTGTAGTACTAAGTGTAGGCTACTA
1 TCACTTGTGTAGTACTAAGTGTAGGCTACTA
84097986 TGCATACCAA
Statistics
Matches: 112, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
100 32 0.29
101 72 0.64
102 5 0.04
103 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (99 bp):
TCACTTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATGGATAAGTCACATGTGTAGGAC
TAAATGCAGGCTACTACTGCACCACATTAATAGA
Found at i:84098217 original size:16 final size:16
Alignment explanation
Indices: 84098196--84098227 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
84098186 AGAATGGAGT
84098196 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
84098212 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
84098228 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:84101147 original size:40 final size:39
Alignment explanation
Indices: 84101110--84101285 Score: 196
Period size: 39 Copynumber: 4.5 Consensus size: 39
84101100 ATATCCGGAC
*
84101110 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAGTTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAA-ATCCGGGT
* *
84101150 TAAGCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* *
84101189 TAAGTCCCGAAGGCATTCGTGCGAG-TATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
84101228 TAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
84101267 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
84101286 AACGAGGAGC
Statistics
Matches: 119, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
38 7 0.06
39 86 0.72
40 26 0.22
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:84101199 original size:79 final size:78
Alignment explanation
Indices: 84101063--84101285 Score: 222
Period size: 78 Copynumber: 2.8 Consensus size: 78
84101053 TTGAATGCTG
* * * * * * *
84101063 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAAACCGGGCTAAG-TCCCGAAGGCAT
84101126 TTGTGCGAG-A-TACAA
63 TTGTGCGAGTATTA-AA
* * *
84101141 GTTCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 --TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCAT
*
84101205 TCGTGCGAGTATTAAA
63 TTGTGCGAGTATTAAA
* * *
84101221 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
84101286 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
78 50 0.41
79 47 0.38
80 23 0.19
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTATTAAA
Found at i:84101307 original size:78 final size:79
Alignment explanation
Indices: 84101143--84101318 Score: 205
Period size: 78 Copynumber: 2.3 Consensus size: 79
84101133 AGATACAAGT
* * *
84101143 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
84101207 GTGCGAGTATTAAA
66 GAACGAGGACTAAA
* * * *
84101221 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
84101285 GAACGAGGAGCTATA
66 GAACGAGGA-CTAAA
*
84101300 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
84101319 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
78 69 0.83
79 14 0.17
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGACTAAA
Found at i:84108789 original size:39 final size:39
Alignment explanation
Indices: 84108619--84108842 Score: 222
Period size: 40 Copynumber: 5.7 Consensus size: 39
84108609 TTGAATGCTG
* * *
84108619 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTAAA
* *
84108659 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTAA-A
* * *
84108699 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAA
* * *
84108739 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAAA
* *
84108778 TCCGGGTTAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAA
* *
84108817 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
84108843 AACGAGGAGC
Statistics
Matches: 156, Mismatches: 20, Indels: 16
0.81 0.10 0.08
Matches are distributed among these distances:
38 7 0.04
39 54 0.35
40 84 0.54
41 11 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAAA
Found at i:84108864 original size:78 final size:79
Alignment explanation
Indices: 84108699--84108875 Score: 205
Period size: 78 Copynumber: 2.3 Consensus size: 79
84108689 AGATACAAGT
* * * *
84108699 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
84108764 GTGCGAGTATTAAA
66 GAACGAGGACTAAA
* * * *
84108778 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
84108842 GAACGAGGAGCTATA
66 GAACGAGGA-CTAAA
*
84108857 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
84108876 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
78 58 0.70
79 25 0.30
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGACTAAA
Found at i:84110543 original size:98 final size:98
Alignment explanation
Indices: 84110374--84110573 Score: 400
Period size: 98 Copynumber: 2.0 Consensus size: 98
84110364 AGCATTTAAG
84110374 GGGAGGCATGGGTTCGAATCCCAAGGCAAGCAAAGAGCATTTATTTTGCTAACAAGGGGCGACAA
1 GGGAGGCATGGGTTCGAATCCCAAGGCAAGCAAAGAGCATTTATTTTGCTAACAAGGGGCGACAA
84110439 GAGTTGGTGTTGAATTTAAACTCTGATGATAGA
66 GAGTTGGTGTTGAATTTAAACTCTGATGATAGA
84110472 GGGAGGCATGGGTTCGAATCCCAAGGCAAGCAAAGAGCATTTATTTTGCTAACAAGGGGCGACAA
1 GGGAGGCATGGGTTCGAATCCCAAGGCAAGCAAAGAGCATTTATTTTGCTAACAAGGGGCGACAA
84110537 GAGTTGGTGTTGAATTTAAACTCTGATGATAGA
66 GAGTTGGTGTTGAATTTAAACTCTGATGATAGA
84110570 GGGA
1 GGGA
84110574 TTCCACATCG
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 102 1.00
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (98 bp):
GGGAGGCATGGGTTCGAATCCCAAGGCAAGCAAAGAGCATTTATTTTGCTAACAAGGGGCGACAA
GAGTTGGTGTTGAATTTAAACTCTGATGATAGA
Found at i:84111044 original size:27 final size:27
Alignment explanation
Indices: 84111014--84111300 Score: 340
Period size: 27 Copynumber: 10.6 Consensus size: 27
84111004 TCAGTTTACC
84111014 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** *
84111041 AAATTACTAAAATACCTTTGGTTTCTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
84111068 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
84111095 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
84111122 AAATTACCACAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * * *
84111149 AAATTACTAAAATACACTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
84111176 AATTTACCAAAATACTCCTGATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
84111203 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
84111230 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** * *
84111257 AAATTACCAAAATATACCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
84111284 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
84111301 TCGACCTGTA
Statistics
Matches: 213, Mismatches: 47, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 213 1.00
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:84111314 original size:27 final size:27
Alignment explanation
Indices: 84111284--84111342 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
84111274 CTGATTTGTG
84111284 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
* * *
84111311 AAATTATTGAGATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
84111338 AAATT
1 AAATT
84111343 GCCAAAGTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:84111337 original size:81 final size:81
Alignment explanation
Indices: 84111014--84111361 Score: 224
Period size: 81 Copynumber: 4.3 Consensus size: 81
84111004 TCAGTTTACC
* * * * * *** * * *
84111014 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCTTTGGTTTCTAAAATCACCAAA
1 AAATTACCAAAATACTCCTGATTTGTAAAATTACCAAAATACCCTCGACCTGTAAAATTATCAAA
*
84111079 ATACCCCTG-GTTTGTA
66 ATACCCC-GAGCTTGTA
* ** * ***
84111095 AAATTACCAAAATAC-CCTTGGTTTACAAAATTACCACAATACCC-CTGGTTTGTAAAATTA-CT
1 AAATTACCAAAATACTCC-TGATTTGTAAAATTACCAAAATACCCTC-GACCTGTAAAATTATC-
* *** * *
84111157 AAAATACACTTTGTTTATA
63 AAAATACCCCGAGCTTGTA
* * ***
84111176 AATTTACCAAAATACTCCTGATTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTATCAAA
1 AAATTACCAAAATACTCCTGATTTGTAAAATTACCAAAATACCCTCGACCTGTAAAATTATCAAA
* *
84111241 ATACCCCTAGTTTGTA
66 ATACCCCGAGCTTGTA
* ** **
84111257 AAATTACCAAAATA-TACCTGATTTGTGAAATTACTGAAATACCCTCGACCTGTAAAATTATTGA
1 AAATTACCAAAATACT-CCTGATTTGTAAAATTACCAAAATACCCTCGACCTGTAAAATTATCAA
*
84111321 GATACCCTCGA-CTTGTA
65 AATACCC-CGAGCTTGTA
* *
84111338 AAATTGCCAAAGTAC-CCTTGATTT
1 AAATTACCAAAATACTCC-TGATTT
84111362 ACAGAATTAC
Statistics
Matches: 219, Mismatches: 37, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
80 6 0.03
81 208 0.95
82 5 0.02
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (81 bp):
AAATTACCAAAATACTCCTGATTTGTAAAATTACCAAAATACCCTCGACCTGTAAAATTATCAAA
ATACCCCGAGCTTGTA
Found at i:84111369 original size:27 final size:27
Alignment explanation
Indices: 84111322--84111408 Score: 84
Period size: 27 Copynumber: 3.2 Consensus size: 27
84111312 AATTATTGAG
* ** *
84111322 ATACCCTCGACTTGTAAAATTGCCAAA
1 ATACCCTCGATTTACAAAATTACCAAA
* * * **
84111349 GTACCCTTGATTTACAGAATTACCATT
1 ATACCCTCGATTTACAAAATTACCAAA
*
84111376 TTACCCTCGATTTACAAAATTACCAAA
1 ATACCCTCGATTTACAAAATTACCAAA
84111403 ATACCC
1 ATACCC
84111409 CTGTCGTGTA
Statistics
Matches: 45, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.30
Consensus pattern (27 bp):
ATACCCTCGATTTACAAAATTACCAAA
Found at i:84111423 original size:27 final size:27
Alignment explanation
Indices: 84111393--84112316 Score: 1215
Period size: 27 Copynumber: 34.3 Consensus size: 27
84111383 CGATTTACAA
* * *
84111393 AATTACCAAAATACCCCTGTCGTGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84111420 AATTACCGGAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84111447 AATTACCGGAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84111474 AATTACCGGAATACCCCTGTAGTGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84111501 AATTATCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
84111528 AATTACTGGAATACCCCTGTACGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84111555 AATTACCGAAATACCCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84111582 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84111609 AATTACCGAAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84111636 AATTACCAAAATACCCCTG-AGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84111662 AATTACCGAAATACCCTTTTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
84111689 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84111716 AATTACTGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84111743 AATTACTGAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
84111770 AATTACCAAAAT-CTCCTTCTAGGTTAG
1 AATTACCGAAATAC-CCCTGTAGGGTAG
* * *
84111797 AATTTCCAAAATACCCCTGTATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
84111824 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84111851 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84111878 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
84111905 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
84111932 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84111959 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
84111986 AATTACTAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84112013 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84112040 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84112067 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84112094 AATTACTGAAATACCCATGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
84112121 AAGTACTGAAATACCCCTATATGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
84112148 AATTATCTATATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84112175 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84112202 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
84112229 AATTACCGAAATACCCTTATAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84112256 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
84112283 AATTACCGAGATACCCTTGT-GGGATAA
1 AATTACCGAAATACCCCTGTAGGG-TAG
84112310 AATTACC
1 AATTACC
84112317 ATTTTGCCCC
Statistics
Matches: 796, Mismatches: 97, Indels: 8
0.88 0.11 0.01
Matches are distributed among these distances:
26 26 0.03
27 769 0.97
28 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:84112697 original size:22 final size:22
Alignment explanation
Indices: 84112664--84112722 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
84112654 CACGTTATCG
84112664 ATGGC-TCTGTGCCAACCTAAAT
1 ATGGCTTC-GTGCCAACCTAAAT
* * * *
84112686 ATGGCTTCGTGCCATCTTGACT
1 ATGGCTTCGTGCCAACCTAAAT
84112708 ATGGCTTCGTGCCAA
1 ATGGCTTCGTGCCAA
84112723 ACGTATTTAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 29 0.94
23 2 0.06
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (22 bp):
ATGGCTTCGTGCCAACCTAAAT
Found at i:84112911 original size:27 final size:27
Alignment explanation
Indices: 84112881--84112945 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
84112871 CTTCTATTAA
*
84112881 GTGGCTTTGCCAC-ATTATCTGATTCTG
1 GTGGCTTTGCCACAAATATCTG-TTCTG
*
84112908 GTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTTTGCCACAAATATCTGTTCTG
*
84112935 GAGGCTTTGCC
1 GTGGCTTTGCC
84112946 TCAACTTACT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 26 0.79
28 7 0.21
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (27 bp):
GTGGCTTTGCCACAAATATCTGTTCTG
Found at i:84113119 original size:6 final size:6
Alignment explanation
Indices: 84113088--84113175 Score: 83
Period size: 6 Copynumber: 14.3 Consensus size: 6
84113078 TTGCATTCAC
* *
84113088 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
84113137 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
84113176 AATGTTTCTT
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
5 4 0.06
6 55 0.81
7 7 0.10
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:84113126 original size:31 final size:31
Alignment explanation
Indices: 84113088--84113166 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
84113078 TTGCATTCAC
*
84113088 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* *
84113119 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
84113150 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
84113167 AGTTCTGATA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:84115150 original size:27 final size:27
Alignment explanation
Indices: 84115120--84115298 Score: 223
Period size: 27 Copynumber: 6.6 Consensus size: 27
84115110 TTAGTTTACC
84115120 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
84115147 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
84115174 AAATGACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
84115201 AAATTACCAAAATGCCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
84115228 AAATTATCAAAATACCCCTAGTTTGGA
1 AAATTACCAAAATACCCCTGGTTTGTA
** * *
84115255 AAATTACCAAAATATTCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
84115282 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
84115299 TCGACCTGTA
Statistics
Matches: 126, Mismatches: 26, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 126 1.00
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:84115351 original size:27 final size:27
Alignment explanation
Indices: 84115120--84115406 Score: 174
Period size: 27 Copynumber: 10.6 Consensus size: 27
84115110 TTAGTTTACC
*
84115120 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * *
84115147 AAATTACTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC-TCGATTTGTA
* *
84115174 AAATGACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* *
84115201 AAATTACCAAAATGCCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * *
84115228 AAATTATCAAAATACCC-CTAGTTTGGA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
84115255 AAATTACCAAAATATTCCT-GATTTGTG
1 AAATTACCAAAATA-CCCTCGATTTGTA
** **
84115282 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
84115309 AAATTA-TAGACATACCCTCGACTTGTA
1 AAATTACCA-AAATACCCTCGATTTGTA
* * **
84115336 AAATTACCAAAGTACCCTTGATTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* **** **
84115363 GAATTACCGTTTTACCCTCGATTTAAA
1 AAATTACCAAAATACCCTCGATTTGTA
*
84115390 AAATTACCGAAATACCC
1 AAATTACCAAAATACCC
84115407 CTATAGGGTA
Statistics
Matches: 204, Mismatches: 46, Indels: 20
0.76 0.17 0.07
Matches are distributed among these distances:
26 5 0.02
27 194 0.95
28 5 0.02
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:84115421 original size:27 final size:27
Alignment explanation
Indices: 84115391--84116676 Score: 1428
Period size: 27 Copynumber: 47.3 Consensus size: 27
84115381 CGATTTAAAA
*
84115391 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
84115418 AATTACCGGAATACCCCTATGGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84115445 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84115472 AATTACCGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84115499 AATTGCCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84115526 AGTTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84115553 AATTACCAAAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84115580 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* **
84115607 AAATACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84115634 AAATACCGAAATACCCCTGTAGTGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
84115661 AATTACC-AGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
* * * *
84115688 AATTACTGGAATGCCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84115715 AATTACCGAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84115742 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84115769 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
84115796 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84115823 AATTACCGAAATACCCCTATA-GG--G
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84115847 ---TA--G-AATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
84115868 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
84115895 AATTACTGAAATACCCTTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
84115922 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* **
84115949 AAATACTAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84115976 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84116003 AATTACCGGAATGCCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
84116030 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84116057 AAATACCGAAATACCCCTGTAGAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
84116084 AACAGGGTAAAAATACCGAAATACCCCTATAGAGTAG
1 -A-A---T---TA-CCG-AAATACCCCTGTAGGGTAG
** *
84116121 AATTATTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84116148 AATTATCGGAAA-ACCCATGTAGGGTAG
1 AATTA-CCGAAATACCCCTGTAGGGTAG
* *
84116175 AATTACCAAAATACCCCTGCAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * **
84116202 AATTACTGAAATGCCCCTGTAGAATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84116229 AATGACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84116256 AATTACTGAAATA-CCCTGTAGAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
84116282 AACAGGGTAAAATTACCAAAATACCCCTATAGGGTAG
1 -A-A---T----TACCG-AAATACCCCTGTAGGGTAG
* *
84116319 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84116346 AATTA-CAAGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
*
84116373 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * **
84116400 AATTACTGAATTACCCCTGTAGAATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84116427 AATTACCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
84116454 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *** *
84116481 AGTTATTAAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
** * **
84116508 AATTACTAAAATACCCCTATATAGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*** * *
84116535 AATTATTTATATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84116562 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
84116589 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
84116616 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
84116643 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
84116670 AATTACC
1 AATTACC
84116677 ATTTTGCCCC
Statistics
Matches: 1065, Mismatches: 158, Indels: 72
0.82 0.12 0.06
Matches are distributed among these distances:
18 11 0.01
19 2 0.00
21 3 0.00
24 3 0.00
26 21 0.02
27 969 0.91
28 10 0.01
29 2 0.00
31 1 0.00
32 2 0.00
35 4 0.00
36 8 0.01
37 29 0.03
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:84115855 original size:18 final size:18
Alignment explanation
Indices: 84115832--84115870 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
84115822 GAATTACCGA
*
84115832 AATACCCCTATAGGGTAG
1 AATACCCCTATAGGATAG
*
84115850 AATACCCCTGTAGGATAG
1 AATACCCCTATAGGATAG
84115868 AAT
1 AAT
84115871 TACCGAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (18 bp):
AATACCCCTATAGGATAG
Found at i:84116100 original size:37 final size:37
Alignment explanation
Indices: 84116050--84116122 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
84116040 ATACCCCTGT
* *
84116050 AGGGTAGAAATACCGAAATACCCCTGTAGAGTAGAAC
1 AGGGTAAAAATACCGAAATACCCCTATAGAGTAGAAC
84116087 AGGGTAAAAATACCGAAATACCCCTATAGAGTAGAA
1 AGGGTAAAAATACCGAAATACCCCTATAGAGTAGAA
84116123 TTATTGAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (37 bp):
AGGGTAAAAATACCGAAATACCCCTATAGAGTAGAAC
Found at i:84116132 original size:64 final size:64
Alignment explanation
Indices: 84116023--84116149 Score: 173
Period size: 64 Copynumber: 2.0 Consensus size: 64
84116013 ATGCCCCTGT
* * * *
84116023 AGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGAGTAGAAC
1 AGGGTAAAAATACCGAAATACCCCTATAGAGTAGAAATACCGAAATACCCCTGTAGAGTAGAAC
* ** * *
84116087 AGGGTAAAAATACCGAAATACCCCTATAGAGTAGAATTATTGAAATACCCTTGTAGGGTAGAA
1 AGGGTAAAAATACCGAAATACCCCTATAGAGTAGAAATACCGAAATACCCCTGTAGAGTAGAA
84116150 TTATCGGAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 54 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.21
Consensus pattern (64 bp):
AGGGTAAAAATACCGAAATACCCCTATAGAGTAGAAATACCGAAATACCCCTGTAGAGTAGAAC
Found at i:84116169 original size:91 final size:91
Alignment explanation
Indices: 84115996--84116176 Score: 229
Period size: 91 Copynumber: 2.0 Consensus size: 91
84115986 ATACCCCTAT
* * * * * *
84115996 AGGGTAGAATTACCGGAATGCCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAAT
1 AGGGTAAAAATACCGAAATACCCCTATAGAGTAGAATTACCGAAATACCCCTGTAGGGTAGAAAT
*
84116061 ACCGAAATACCCCTGTAGAGTAGAAC
66 ACCGAAATACCCATGTAGAGTAGAAC
** * *
84116087 AGGGTAAAAATACCGAAATACCCCTATAGAGTAGAATTATTGAAATACCCTTGTAGGGTAGAATT
1 AGGGTAAAAATACCGAAATACCCCTATAGAGTAGAATTACCGAAATACCCCTGTAGGGTAGAAAT
* *
84116152 ATCGGAAA-ACCCATGTAGGGTAGAA
66 A-CCGAAATACCCATGTAGAGTAGAA
84116177 TTACCAAAAT
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
91 71 0.93
92 5 0.07
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.22
Consensus pattern (91 bp):
AGGGTAAAAATACCGAAATACCCCTATAGAGTAGAATTACCGAAATACCCCTGTAGGGTAGAAAT
ACCGAAATACCCATGTAGAGTAGAAC
Found at i:84116187 original size:118 final size:118
Alignment explanation
Indices: 84115969--84116283 Score: 339
Period size: 118 Copynumber: 2.8 Consensus size: 118
84115959 ATACCCCTGT
* * * * *
84115969 AGGGTAGAATTACCGAAATACCCCTATAGGGTAGAATTACCGGAATGCCCCTGTAGGGTAGAATT
1 AGGGTAAAAATACCGAAATACCCCTATAGAGTAGAATTACCGAAATACCCCTGTAGGGTAGAATT
* * *
84116034 ACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGAGTAGAAC
66 ACCGAAATACCCATGTAGGGTAGAAATACCAAAATACCCCTGCAGAGTAGAAC
** *
84116087 AGGGTAAAAATACCGAAATACCCCTATAGAGTAGAATTATTGAAATACCCTTGTAGGGTAGAATT
1 AGGGTAAAAATACCGAAATACCCCTATAGAGTAGAATTACCGAAATACCCCTGTAGGGTAGAATT
* * *
84116152 ATCGGAAA-ACCCATGTAGGGTAGAATTACCAAAATACCCCTGCAGGGTAG-A-
66 A-CCGAAATACCCATGTAGGGTAGAAATACCAAAATACCCCTGCAGAGTAGAAC
* * * * * *
84116203 A---T-----TACTGAAATGCCCCTGTAGAATAGAATGACCGAAATACCCTTGTAGGGTAGAATT
1 AGGGTAAAAATACCGAAATACCCCTATAGAGTAGAATTACCGAAATACCCCTGTAGGGTAGAATT
* *
84116260 ACTGAAATACCC-TGTAGAGTAGAA
66 ACCGAAATACCCATGTAGGGTAGAA
84116284 CAGGGTAAAA
Statistics
Matches: 172, Mismatches: 23, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
107 16 0.09
108 53 0.31
113 1 0.01
116 1 0.01
117 1 0.01
118 95 0.55
119 5 0.03
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (118 bp):
AGGGTAAAAATACCGAAATACCCCTATAGAGTAGAATTACCGAAATACCCCTGTAGGGTAGAATT
ACCGAAATACCCATGTAGGGTAGAAATACCAAAATACCCCTGCAGAGTAGAAC
Found at i:84116347 original size:90 final size:91
Alignment explanation
Indices: 84116194--84116374 Score: 240
Period size: 90 Copynumber: 2.0 Consensus size: 91
84116184 AATACCCCTG
* ** * *
84116194 CAGGGTAGAATTACTGAAATGCCCCTGTAGAATAGAATGACCGAAATACCCTTGTAGGGTAGAAT
1 CAGGGTAAAATTACCAAAATACCCCTATAGAATAGAATGACCGAAATACCCTTGTAGGGTAGAAT
*
84116259 TAC-TGAAATA-CCCTGTAGAGTAGAA
66 TACAAG-AATACCCCTGTAGAGTAGAA
** * *
84116284 CAGGGTAAAATTACCAAAATACCCCTATAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAT
1 CAGGGTAAAATTACCAAAATACCCCTATAGAATAGAATGACCGAAATACCCTTGTAGGGTAGAAT
*
84116349 TACAAGAATACCCCTGTAGGGTAGAA
66 TACAAGAATACCCCTGTAGAGTAGAA
84116375 TTATCGAAAT
Statistics
Matches: 78, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
90 63 0.81
91 15 0.19
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (91 bp):
CAGGGTAAAATTACCAAAATACCCCTATAGAATAGAATGACCGAAATACCCTTGTAGGGTAGAAT
TACAAGAATACCCCTGTAGAGTAGAA
Found at i:84117279 original size:27 final size:27
Alignment explanation
Indices: 84117249--84117306 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
84117239 TAAGTAGCTT
* *
84117249 TGCCAC-ATTATCTGATTCTGGTGGCTA
1 TGCCACAAATATCTG-TTCTGGAGGCTA
*
84117276 TGCCACAAATATCTGTTCTGGAGGCTT
1 TGCCACAAATATCTGTTCTGGAGGCTA
84117303 TGCC
1 TGCC
84117307 TCAACTTACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 20 0.74
28 7 0.26
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.34
Consensus pattern (27 bp):
TGCCACAAATATCTGTTCTGGAGGCTA
Found at i:84117504 original size:31 final size:31
Alignment explanation
Indices: 84117459--84117521 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
84117449 ATTTTGATTT
* *
84117459 TGATTCTGTTACCTGATAT-TGATTCTAATTC
1 TGATTCCGTCACCTGAT-TCTGATTCTAATTC
*
84117490 TGATTCCGTCACCTGATTCTGATTCTGATTC
1 TGATTCCGTCACCTGATTCTGATTCTAATTC
84117521 T
1 T
84117522 AGTTCTGATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 1 0.04
31 27 0.96
ACGTcount: A:0.19, C:0.21, G:0.14, T:0.46
Consensus pattern (31 bp):
TGATTCCGTCACCTGATTCTGATTCTAATTC
Found at i:84123531 original size:69 final size:69
Alignment explanation
Indices: 84123420--84123649 Score: 302
Period size: 69 Copynumber: 3.3 Consensus size: 69
84123410 GGAATCTATA
* * *
84123420 GGCTACATTTCAGTGGTAGCTTCGGCTACAATATAGTGGTAGCTTTGGCTACATCTCAGTGGTAG
1 GGCTACAATACAGTGGTAGCTTCGGCTACAATATAGTGGTAGCTTCGGCTACATCTCAGTGGTAG
84123485 CTTC
66 CTTC
*
84123489 GGCTACAATACAGTGGTAGCTTCGGCTACAATATAGTGGTAGCTTCGGCAACATCTCAGTGGTAG
1 GGCTACAATACAGTGGTAGCTTCGGCTACAATATAGTGGTAGCTTCGGCTACATCTCAGTGGTAG
84123554 CTTC
66 CTTC
* * * * * *
84123558 GGCTTCAATACAGTGGTAGCTTTGGATAC-ATCTTAGTGGTAGCCTCGGCTACAAT-ACAGTGGT
1 GGCTACAATACAGTGGTAGCTTCGGCTACAAT-ATAGTGGTAGCTTCGGCTAC-ATCTCAGTGGT
*
84123621 AGCTTT
64 AGCTTC
** *
84123627 GGCTACGTTACAGTGATAGCTTC
1 GGCTACAATACAGTGGTAGCTTC
84123650 AACTATGTTA
Statistics
Matches: 142, Mismatches: 17, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
68 2 0.01
69 138 0.97
70 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (69 bp):
GGCTACAATACAGTGGTAGCTTCGGCTACAATATAGTGGTAGCTTCGGCTACATCTCAGTGGTAG
CTTC
Found at i:84123638 original size:23 final size:23
Alignment explanation
Indices: 84123420--84123684 Score: 266
Period size: 23 Copynumber: 11.5 Consensus size: 23
84123410 GGAATCTATA
*
84123420 GGCTACATTTCAGTGGTAGCTTC
1 GGCTACATTACAGTGGTAGCTTC
* * *
84123443 GGCTACAATATAGTGGTAGCTTT
1 GGCTACATTACAGTGGTAGCTTC
84123466 GGCTACATCT-CAGTGGTAGCTTC
1 GGCTACAT-TACAGTGGTAGCTTC
*
84123489 GGCTACAATACAGTGGTAGCTTC
1 GGCTACATTACAGTGGTAGCTTC
* *
84123512 GGCTACAATATAGTGGTAGCTTC
1 GGCTACATTACAGTGGTAGCTTC
*
84123535 GGCAACATCT-CAGTGGTAGCTTC
1 GGCTACAT-TACAGTGGTAGCTTC
* * *
84123558 GGCTTCAATACAGTGGTAGCTTT
1 GGCTACATTACAGTGGTAGCTTC
* * *
84123581 GGATACATCT-TAGTGGTAGCCTC
1 GGCTACAT-TACAGTGGTAGCTTC
* *
84123604 GGCTACAATACAGTGGTAGCTTT
1 GGCTACATTACAGTGGTAGCTTC
* *
84123627 GGCTACGTTACAGTGATAGCTTC
1 GGCTACATTACAGTGGTAGCTTC
** ** *
84123650 AACTATGTTACAGTGATAGCTTC
1 GGCTACATTACAGTGGTAGCTTC
*
84123673 GGCTATATTACA
1 GGCTACATTACA
84123685 ACGTGGCACT
Statistics
Matches: 199, Mismatches: 37, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
22 3 0.02
23 193 0.97
24 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (23 bp):
GGCTACATTACAGTGGTAGCTTC
Found at i:84140859 original size:30 final size:30
Alignment explanation
Indices: 84140825--84140884 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
84140815 ATTTAATACG
84140825 AACTTTAGAAAAATTACACTTTTGCCCCTA
1 AACTTTAGAAAAATTACACTTTTGCCCCTA
* * *
84140855 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAGAAAAATTACACTTTTGCCCCTA
84140885 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTAGAAAAATTACACTTTTGCCCCTA
Found at i:84142034 original size:5 final size:6
Alignment explanation
Indices: 84142005--84142048 Score: 52
Period size: 6 Copynumber: 6.7 Consensus size: 6
84141995 GTTTAAAGAA
84142005 TTTTATT TTTTAT TTTTATGT TTTTAT TTTTAT TTTTAT CTTTT
1 TTTTA-T TTTTAT TTTTA--T TTTTAT TTTTAT TTTTAT -TTTT
84142049 TAAAACTACT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
6 19 0.56
7 9 0.26
8 6 0.18
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:84142034 original size:20 final size:21
Alignment explanation
Indices: 84142006--84142050 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
84141996 TTTAAAGAAT
*
84142006 TTTATTTTTTATTTTTATGTT
1 TTTATTTTTTATTTTTATCTT
84142027 TTTA-TTTTTATTTTTATCTT
1 TTTATTTTTTATTTTTATCTT
84142047 TTTA
1 TTTA
84142051 AAACTACTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 19 0.83
21 4 0.17
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (21 bp):
TTTATTTTTTATTTTTATCTT
Found at i:84142050 original size:14 final size:13
Alignment explanation
Indices: 84142005--84142041 Score: 65
Period size: 14 Copynumber: 2.8 Consensus size: 13
84141995 GTTTAAAGAA
84142005 TTTTATTTTTTAT
1 TTTTATTTTTTAT
84142018 TTTTATGTTTTTAT
1 TTTTAT-TTTTTAT
84142032 TTTTATTTTT
1 TTTTATTTTT
84142042 ATCTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.84
Consensus pattern (13 bp):
TTTTATTTTTTAT
Found at i:84144048 original size:51 final size:49
Alignment explanation
Indices: 84143862--84144106 Score: 249
Period size: 49 Copynumber: 4.9 Consensus size: 49
84143852 TAGCCAAGGC
* * * * *
84143862 TATCTGGTACACATGGTAGCCTTCACTTAGTACTACACATGCGACCAAT
1 TATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * **
84143911 TATCCA-GTATACTTAGTAGCCTGCACTTAGTACTACACACGTGACCTAGC
1 TAT-CAGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * * * * *
84143961 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACGCGTGATCGAAGT
1 TATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-T
* * * * *
84144012 TATCAGGTACGCATAGTAGCTTGTACTTAGTACTACACATGCGACCAAT
1 TATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* *
84144061 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 TATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
84144107 TCACAATAGA
Statistics
Matches: 155, Mismatches: 36, Indels: 10
0.77 0.18 0.05
Matches are distributed among these distances:
49 78 0.50
50 42 0.27
51 35 0.23
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (49 bp):
TATCAGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:84144383 original size:27 final size:27
Alignment explanation
Indices: 84144353--84144406 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
84144343 TCATACAACC
* *
84144353 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
84144380 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
84144407 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:84149787 original size:46 final size:47
Alignment explanation
Indices: 84149734--84149996 Score: 172
Period size: 45 Copynumber: 5.6 Consensus size: 47
84149724 TTTGTGTGCT
84149734 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCATATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCATA-TATGAGAGCC
* ** * * *
84149780 AGTGTAAGACCATGTCTGGGACATGGCAT-TGGAATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCA-T-ATATGAGAGCC
*
84149828 AGTGTAAGA-CATG-CTGGGACAT-GCATCAGCC-TCGAGATGTA-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCAT--ATATG-AGAGCC
* * * * * * **
84149873 AATGTAA-AACATGCCTGGGACAT-GCATC-GGC-TACATGATGTGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGCCATATATGA-GAGCC
** * *
84149917 AGTGTAAGACCATGTCTGGGACATGGCATTGGCACGGATATGTGAGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGC-C--ATATATGAGAGCC
*
84149967 AGTGTAATACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
84149997 GGCATTATAC
Statistics
Matches: 171, Mismatches: 28, Indels: 32
0.74 0.12 0.14
Matches are distributed among these distances:
42 1 0.01
43 4 0.02
44 9 0.05
45 39 0.23
46 38 0.22
47 21 0.12
48 22 0.13
49 1 0.01
50 31 0.18
51 5 0.03
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGCCATATATGAGAGCC
Found at i:84154878 original size:14 final size:14
Alignment explanation
Indices: 84154856--84154885 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
84154846 TTTGTCATGG
84154856 TAACCAAATACATA
1 TAACCAAATACATA
*
84154870 TAACTAAATACATA
1 TAACCAAATACATA
84154884 TA
1 TA
84154886 TTTCATACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.27
Consensus pattern (14 bp):
TAACCAAATACATA
Found at i:84161332 original size:71 final size:67
Alignment explanation
Indices: 84161255--84161396 Score: 185
Period size: 67 Copynumber: 2.1 Consensus size: 67
84161245 TCACCAGATA
* * * * *
84161255 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGTGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATACATGTGGCGAAGCCACCAGATTGCAGCGA
84161320 GGCTGC
62 GGCTGC
* *
84161326 CAGATATTGTGACGAAGTCACCAGAACAGATACATGTGGCGAGGCCACCAGATTGCAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATACATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
84161391 GC
66 GC
84161393 CAGA
1 CAGA
84161397 ACGCTTCCTC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
67 39 0.61
71 25 0.39
ACGTcount: A:0.30, C:0.23, G:0.29, T:0.18
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATACATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:84168657 original size:33 final size:32
Alignment explanation
Indices: 84168606--84168669 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
84168596 ACGAAGTCAC
* *
84168606 CAGATACAGATATTGTGGCTAGGCCACCAGAA
1 CAGATACAGATATTGTGGCGAAGCCACCAGAA
* *
84168638 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATACAGATAT-TGTGGCGAAGCCACCAGA
84168670 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (32 bp):
CAGATACAGATATTGTGGCGAAGCCACCAGAA
Found at i:84168733 original size:27 final size:26
Alignment explanation
Indices: 84168685--84168736 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
84168675 GCGAGGCTGC
*
84168685 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
84168711 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
84168737 TTGCAGCAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:84175739 original size:28 final size:28
Alignment explanation
Indices: 84175707--84175804 Score: 142
Period size: 28 Copynumber: 3.5 Consensus size: 28
84175697 ATAGTAAGTC
*
84175707 CGCACACTTAGTGTTATATAATAAAACT
1 CGCACACTTAGTGTTATATAATCAAACT
*
84175735 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTG-TTATATAATCAAACT
* *
84175764 CACACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGTTATATAATCAAACT
*
84175792 TGCACACTTAGTG
1 CGCACACTTAGTG
84175805 CTTTGCAATT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
28 37 0.60
29 25 0.40
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGTTATATAATCAAACT
Found at i:84175769 original size:29 final size:29
Alignment explanation
Indices: 84175707--84175834 Score: 154
Period size: 29 Copynumber: 4.5 Consensus size: 29
84175697 ATAGTAAGTC
*
84175707 CGCACACTTAGTG-TTATATAATAAAACT
1 CGCACACTTAGTGCTTATATAATCAAACT
*
84175735 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTATATAATCAAACT
*
84175764 CACACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTATATAATCAAACT
* ** * *
84175792 TGCACACTTAGTGCTT-TGCAATTTAAACC
1 CGCACACTTAGTGCTTATATAA-TCAAACT
84175821 CGCACACTTAGTGC
1 CGCACACTTAGTGC
84175835 CAATCTCATG
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
28 41 0.48
29 45 0.52
ACGTcount: A:0.34, C:0.25, G:0.12, T:0.30
Consensus pattern (29 bp):
CGCACACTTAGTGCTTATATAATCAAACT
Found at i:84175827 original size:57 final size:57
Alignment explanation
Indices: 84175706--84175834 Score: 170
Period size: 57 Copynumber: 2.3 Consensus size: 57
84175696 TATAGTAAGT
*
84175706 CCGCACACTTAGTGTTATATAATAAAACTCGCACACTTAGTGCTTACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATAAAACTCGCACACTTAGTGCTTACATAATCAAAC
* * * * * * *
84175763 TCACACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTTTGCA-ATTTAAAC
1 CCGCACACTTAGTGCTATATAATAAAACTCGCACACTTAGTGC-TTACATAATCAAAC
84175820 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
84175835 CAATCTCATG
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
57 57 0.93
58 4 0.07
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATAAAACTCGCACACTTAGTGCTTACATAATCAAAC
Found at i:84184307 original size:28 final size:28
Alignment explanation
Indices: 84184276--84184372 Score: 117
Period size: 28 Copynumber: 3.5 Consensus size: 28
84184266 GATGTCTCAT
*
84184276 ACACTAAGTACCATACTCAATATCTCTC
1 ACACTAAGTGCCATACTCAATATCTCTC
* * *
84184304 ACACTAAGTGTCATTCTCAATATTTCGT-
1 ACACTAAGTGCCATACTCAATATCTC-TC
*
84184332 ACACTAAGTGCCATACTCGAA-ATCTCAC
1 ACACTAAGTGCCATACTC-AATATCTCTC
84184360 ACACTAAGTGCCA
1 ACACTAAGTGCCA
84184373 CGAAACTATC
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
28 55 0.95
29 3 0.05
ACGTcount: A:0.34, C:0.29, G:0.09, T:0.28
Consensus pattern (28 bp):
ACACTAAGTGCCATACTCAATATCTCTC
Found at i:84186398 original size:40 final size:40
Alignment explanation
Indices: 84186354--84186614 Score: 322
Period size: 40 Copynumber: 6.7 Consensus size: 40
84186344 GCTCCTCGTT
*
84186354 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
84186394 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
84186434 CAAATGCCTTCGGGA-TTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
84186473 CAAATGCCTTCGGGAATTAACCCGGATTTAGTAA-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
84186512 CCAATGCCTTCGGG-CTTAGCCC--AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
84186549 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
84186590 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
84186615 CATCATTCAA
Statistics
Matches: 196, Mismatches: 16, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
36 9 0.05
37 15 0.08
38 13 0.07
39 57 0.29
40 89 0.45
41 13 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:84186465 original size:79 final size:80
Alignment explanation
Indices: 84186354--84186614 Score: 331
Period size: 79 Copynumber: 3.3 Consensus size: 80
84186344 GCTCCTCGTT
*
84186354 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
84186418 GATTTAGTAACTCGCA
65 GATTTAGTAACTCGCA
* *
84186434 CAAATGCCTTCGGGA-TTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGAATTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
84186498 ATTTAGTAA-TCGCA
66 ATTTAGTAACTCGCA
* * * **
84186512 CCAATGCCTTCGGG-CTTAGCCC--AATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* * * *
84186573 GATATGGTCACTTAGCA
65 GATTTAGTAAC-TCGCA
84186590 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
84186615 CATCATTCAA
Statistics
Matches: 158, Mismatches: 15, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
75 3 0.02
76 37 0.23
77 9 0.06
78 39 0.25
79 52 0.33
80 18 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATTTAGTAACTCGCA
Found at i:84194227 original size:40 final size:39
Alignment explanation
Indices: 84194183--84194444 Score: 289
Period size: 40 Copynumber: 6.6 Consensus size: 39
84194173 GCTCCTCGTT
*
84194183 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTT-TAGTAACTCGCA
*
84194223 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTTAGTAACTCGCA
* *
84194263 CAAATGCCTTCGGGAATTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTTAGTAACTCGCA
* * *
84194303 CAAATGCCTTCGGGAATTAACCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTTAGTAACTCGCA
* * *
84194342 CCAATGCCTTC-GG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTTAGTAACTCGCA
* * * * * *
84194380 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TTTAGTAAC-TCGCA
84194421 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
84194445 ACATCATTCA
Statistics
Matches: 197, Mismatches: 19, Indels: 12
0.86 0.08 0.05
Matches are distributed among these distances:
37 8 0.04
38 27 0.14
39 23 0.12
40 126 0.64
41 13 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTTAGTAACTCGCA
Found at i:84196990 original size:37 final size:37
Alignment explanation
Indices: 84196930--84197004 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
84196920 ACCAAAGGAC
* *
84196930 TTAGAACCTTACCGGCTCTTTGGATTCTCTACTTTTT
1 TTAGAACCTTACCAGCTCCTTGGATTCTCTACTTTTT
84196967 TTAGAACCTTACCAGCTCCTTGGATTCTCTACTTTTT
1 TTAGAACCTTACCAGCTCCTTGGATTCTCTACTTTTT
84197004 T
1 T
84197005 GACTAAATCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.17, C:0.25, G:0.12, T:0.45
Consensus pattern (37 bp):
TTAGAACCTTACCAGCTCCTTGGATTCTCTACTTTTT
Found at i:84197778 original size:14 final size:15
Alignment explanation
Indices: 84197759--84197788 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
84197749 TGACATAATG
84197759 AGTATGTAG-TTCTA
1 AGTATGTAGTTTCTA
84197773 AGTATGTAGTTTCTA
1 AGTATGTAGTTTCTA
84197788 A
1 A
84197789 TTCTTATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (15 bp):
AGTATGTAGTTTCTA
Found at i:84200094 original size:13 final size:13
Alignment explanation
Indices: 84200078--84200107 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
84200068 AAGGTTTTTA
*
84200078 TTTTTGTTTTTCT
1 TTTTTATTTTTCT
84200091 TTTTTATTTTTCT
1 TTTTTATTTTTCT
84200104 TTTT
1 TTTT
84200108 ATCTTGATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.03, C:0.07, G:0.03, T:0.87
Consensus pattern (13 bp):
TTTTTATTTTTCT
Found at i:84201182 original size:22 final size:22
Alignment explanation
Indices: 84201135--84201182 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
84201125 TATTTTACTT
* * **
84201135 ATTTAGCAAAATAATTTCACCT
1 ATTTAGCAAAATAAATCCACAA
84201157 ATTTAGCAAAATAAATCCACAA
1 ATTTAGCAAAATAAATCCACAA
84201179 ATTT
1 ATTT
84201183 TAAATTTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (22 bp):
ATTTAGCAAAATAAATCCACAA
Done.