Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 192 of 318
Found at i:60215747 original size:80 final size:80
Alignment explanation
Indices: 60215586--60215767 Score: 203
Period size: 80 Copynumber: 2.3 Consensus size: 80
60215576 ACATTCAAAT
* * *
60215586 GCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTT
1 GCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACGAATGCCGTCGGGACTTAACCCGGATTT
* *
60215650 AGTAGCTCGCTCGAAA
65 AGTAGCTAGCACGAAA
* * **
60215666 GCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACGTATGCCGTC-GGATCTTATTCCGGATT
1 GCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGA-CTTAACCCGGATT
60215729 TAGTCA-CTTAGCAC-AAA
64 TAGT-AGC-TAGCACGAAA
60215746 GCCTTCGGGACTTAGCCCGGAT
1 GCCTTCGGGACTTAGCCCGGAT
60215768 ATCATTCGAA
Statistics
Matches: 86, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
79 6 0.07
80 70 0.81
81 10 0.12
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACGAATGCCGTCGGGACTTAACCCGGATTTA
GTAGCTAGCACGAAA
Found at i:60218638 original size:19 final size:20
Alignment explanation
Indices: 60218597--60218639 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
60218587 TTTTGTAAAG
* *
60218597 TTTGTAAAATAGATGGTACT
1 TTTGTAAAATAGATGGAAAT
*
60218617 TTTGTGAAATA-ATGGAAAT
1 TTTGTAAAATAGATGGAAAT
60218636 TTTG
1 TTTG
60218640 GGTTTCTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (20 bp):
TTTGTAAAATAGATGGAAAT
Found at i:60219160 original size:47 final size:47
Alignment explanation
Indices: 60219091--60219264 Score: 188
Period size: 47 Copynumber: 3.7 Consensus size: 47
60219081 TGATATGTGT
*
60219091 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGAATACTA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGAATACAA
* * * * ** *
60219138 GCTAGTGTAAGACATGTCTGGGACATGTATTGGCATTAAGACGA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGAATACAA
** * *
60219184 GCTAGTGTAAGACATGTCCAGGACATGCATCGACCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGA-ATACAA
* * *
60219232 GCTAGTGTAAGACTTGGCTGGGACGTGGCATCG
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATCG
60219265 ACACCGATAG
Statistics
Matches: 101, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
46 34 0.34
47 39 0.39
48 22 0.22
49 6 0.06
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGAATACAA
Found at i:60219341 original size:49 final size:49
Alignment explanation
Indices: 60219230--60219360 Score: 138
Period size: 49 Copynumber: 2.7 Consensus size: 49
60219220 CGAGATATAC
* * * *
60219230 AAGCTAGTGTAAGACTTGGCTGGGACGTGGCATCGACACCGATAGATGA
1 AAGCCAGTGTAAGACCTGCCTGGGACATGGCATCGACACCGATAGATGA
* * * * *
60219279 GAGCCAGTATAAGACCTGCCTGGGACATGGCATCGGC-CTTGATATATGA
1 AAGCCAGTGTAAGACCTGCCTGGGACATGGCATCGACAC-CGATAGATGA
* **
60219328 AAGTCAGTGTAAGACCTATCTGGGACATGGCAT
1 AAGCCAGTGTAAGACCTGCCTGGGACATGGCAT
60219361 TGAAATTGAT
Statistics
Matches: 67, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
48 1 0.01
49 66 0.99
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (49 bp):
AAGCCAGTGTAAGACCTGCCTGGGACATGGCATCGACACCGATAGATGA
Found at i:60220591 original size:13 final size:13
Alignment explanation
Indices: 60220558--60220584 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
60220548 CCGTGGGAGT
60220558 GACACGGGCTATA
1 GACACGGGCTATA
60220571 GACACGGGCTATA
1 GACACGGGCTATA
60220584 G
1 G
60220585 TTACGGGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.22, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGGGCTATA
Found at i:60222034 original size:11 final size:11
Alignment explanation
Indices: 60222018--60222047 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
60222008 GTTAACATAA
*
60222018 TATATATAACT
1 TATATATAAAT
60222029 TATATATAAAT
1 TATATATAAAT
60222040 TATATATA
1 TATATATA
60222048 TCGTGACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (11 bp):
TATATATAAAT
Found at i:60226958 original size:39 final size:40
Alignment explanation
Indices: 60226915--60227078 Score: 165
Period size: 40 Copynumber: 4.2 Consensus size: 40
60226905 CGGAATATAA
60226915 CCGGATATAATCACGT-GCACAAATGCCTTC-GGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
60226954 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
60226994 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
60227034 CCGGATATAATTTCCAGCATAATTGTC-TCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
60227072 CCGGATA
1 CCGGATA
60227079 GATTCAATTT
Statistics
Matches: 104, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
38 13 0.12
39 30 0.29
40 61 0.59
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:60234775 original size:40 final size:39
Alignment explanation
Indices: 60234649--60234815 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 39
60234639 CGGAATATAA
60234649 CCGGATATAATC-ACGT-GCACAATGCCTTCGGGTCTTAGC
1 CCGGATATAA-CAAC-TAGCACAATGCCTTCGGGTCTTAGC
* * *
60234688 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTAGCAC-AATGCCTTCGGGTCTTAGC
* * *
60234728 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTAGCACAA-TGCCTTCGGGTCTTAGC
*** * * * *
60234768 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACAACTAGCACAA-TGCCTTCGGGTCTTAGC
60234808 CCGGATAT
1 CCGGATAT
60234816 CATTCAATTT
Statistics
Matches: 107, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 17 0.16
40 89 0.83
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACAACTAGCACAATGCCTTCGGGTCTTAGC
Found at i:60234798 original size:80 final size:79
Alignment explanation
Indices: 60234665--60234815 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
60234655 ATAATCACGT
* *
60234665 GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGCCC
1 GCACAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGGCTTAGCCC
60234730 GGATATAGCCACTA
66 GGATATAGCCACTA
* ** * *
60234744 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAA-TGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGGCTTAG
60234807 CCCGGATAT
63 CCCGGATAT
60234816 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 9 0.15
80 53 0.85
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGGCTTAGCCC
GGATATAGCCACTA
Found at i:60242702 original size:39 final size:40
Alignment explanation
Indices: 60242659--60242823 Score: 165
Period size: 40 Copynumber: 4.2 Consensus size: 40
60242649 CGGAATATAA
60242659 CCGGATATAATCACGT-GCACAAATGCCTTC-GGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
60242698 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
60242738 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
60242778 CCGGATATAATTTCCAGCATAATTGTC-TCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
60242817 CCGGATA
1 CCGGATA
60242824 GAATTCAATT
Statistics
Matches: 104, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
38 1 0.01
39 42 0.40
40 61 0.59
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:60248756 original size:17 final size:18
Alignment explanation
Indices: 60248716--60248757 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
60248706 ATAAAATTAG
*
60248716 TAAAATAACATATATTTT
1 TAAAATAACATATATTCT
*
60248734 TAAAAATAATATATA-TCT
1 T-AAAATAACATATATTCT
60248752 TAAAAT
1 TAAAAT
60248758 TAAAATACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 5 0.24
18 4 0.19
19 12 0.57
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (18 bp):
TAAAATAACATATATTCT
Found at i:60250477 original size:48 final size:48
Alignment explanation
Indices: 60250402--60250732 Score: 317
Period size: 48 Copynumber: 6.9 Consensus size: 48
60250392 GTAAATTACC
* * * *
60250402 GATGCCATGTCCTAGACATGGTTTTACACTGGCTCACATATCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCT
* * * * *
60250450 GATGCCATGTCCCAGACATGGTATTACACTAGCTCTCGTCTCAATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCT
** * * * **
60250498 GATGCCATGTCATAGACATGGTTTTACACTGGCTCTCATAAT-GTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCAAGGCT
* * * ** *
60250546 GATGTCATGTCTCAGACATGGTCTTACACTAGCACACATATCAACACC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCT
* *
60250594 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACCTATCAATG-T
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCT
* * * ** **
60250641 CGATGCCATGTCTCAAACATGGTCTTACACTGGCTCTTATAAT-GTGGCT
1 -GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCAAGGCT
* *
60250690 GATGCCATGTCCCATACATGGTCTTACACTAGCACACATATCA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCA
60250733 CCCAAATGTC
Statistics
Matches: 225, Mismatches: 52, Indels: 12
0.78 0.18 0.04
Matches are distributed among these distances:
47 4 0.02
48 217 0.96
49 4 0.02
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCAAGGCT
Found at i:60250669 original size:144 final size:143
Alignment explanation
Indices: 60250402--60250732 Score: 459
Period size: 144 Copynumber: 2.3 Consensus size: 143
60250392 GTAAATTACC
* * * * ** *
60250402 GATGCCATGTCCTAGACATGGTTTTACACTGGCTCACATATCGAGGCTGATGCCATGTCCCAGAC
1 GATGCCATGTCC-AGACATGGTCTTACACTAGCACACATATCAACACCGATGCCATGTCCCAGAC
* * * * *
60250467 ATGGTATTACACTAGCTCTCGTCTCAATGCTGATGCCATGTCATAGACATGGTTTTACACTGGCT
65 ATGGTATTACACTAGCTCACCTATCAATGCTGATGCCATGTCATAAACATGGTCTTACACTGGCT
60250532 CTCATAATGTGGCT
130 CTCATAATGTGGCT
*
60250546 GATGTCATGTCTCAGACATGGTCTTACACTAGCACACATATCAACACCGATGCCATGTCCCAGAC
1 GATGCCATGTC-CAGACATGGTCTTACACTAGCACACATATCAACACCGATGCCATGTCCCAGAC
*
60250611 ATGGTCTTACACTAGCTCACCTATCAATG-TCGATGCCATGTC-TCAAACATGGTCTTACACTGG
65 ATGGTATTACACTAGCTCACCTATCAATGCT-GATGCCATGTCAT-AAACATGGTCTTACACTGG
*
60250674 CTCTTATAATGTGGCT
128 CTCTCATAATGTGGCT
*
60250690 GATGCCATGTCCCATACATGGTCTTACACTAGCACACATATCA
1 GATGCCATGT-CCAGACATGGTCTTACACTAGCACACATATCA
60250733 CCCAAATGTC
Statistics
Matches: 166, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
143 2 0.01
144 162 0.98
145 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (143 bp):
GATGCCATGTCCAGACATGGTCTTACACTAGCACACATATCAACACCGATGCCATGTCCCAGACA
TGGTATTACACTAGCTCACCTATCAATGCTGATGCCATGTCATAAACATGGTCTTACACTGGCTC
TCATAATGTGGCT
Found at i:60251278 original size:40 final size:40
Alignment explanation
Indices: 60251223--60251314 Score: 184
Period size: 40 Copynumber: 2.3 Consensus size: 40
60251213 CTATTTTATA
60251223 AACTTCACAAAATGGTCCTCTTAGGTGTTTTCATGAAAAC
1 AACTTCACAAAATGGTCCTCTTAGGTGTTTTCATGAAAAC
60251263 AACTTCACAAAATGGTCCTCTTAGGTGTTTTCATGAAAAC
1 AACTTCACAAAATGGTCCTCTTAGGTGTTTTCATGAAAAC
60251303 AACTTCACAAAA
1 AACTTCACAAAA
60251315 GTTGTTCATT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (40 bp):
AACTTCACAAAATGGTCCTCTTAGGTGTTTTCATGAAAAC
Found at i:60257805 original size:15 final size:15
Alignment explanation
Indices: 60257768--60257805 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
60257758 CAATAGTCAT
60257768 ACAACA-AACATAAC
1 ACAACATAACATAAC
*
60257782 ATAACATAACATAAC
1 ACAACATAACATAAC
*
60257797 ACAATATAA
1 ACAACATAA
60257806 ACGTCATTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.63, C:0.21, G:0.00, T:0.16
Consensus pattern (15 bp):
ACAACATAACATAAC
Found at i:60258019 original size:13 final size:13
Alignment explanation
Indices: 60258001--60258028 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
60257991 TTCATATTTT
60258001 CAAGTGAACTAAA
1 CAAGTGAACTAAA
60258014 CAAGTGAACTAAA
1 CAAGTGAACTAAA
60258027 CA
1 CA
60258029 TCTCATCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.18, G:0.14, T:0.14
Consensus pattern (13 bp):
CAAGTGAACTAAA
Found at i:60261028 original size:19 final size:19
Alignment explanation
Indices: 60261004--60261081 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 19
60260994 TAAATAATAA
60261004 TTATTTAATATAATTAAAT
1 TTATTTAATATAATTAAAT
* *
60261023 TTA-TT--TATGATTAACTT
1 TTATTTAATATAATTAA-AT
*
60261040 GTTAATTAA-ATAA-T-AA-
1 -TTATTTAATATAATTAAAT
60261056 TTATTTAATATAATTAAAT
1 TTATTTAATATAATTAAAT
60261075 TTATTTA
1 TTATTTA
60261082 TGATTAACTT
Statistics
Matches: 45, Mismatches: 5, Indels: 18
0.66 0.07 0.26
Matches are distributed among these distances:
15 7 0.16
16 12 0.27
17 2 0.04
18 8 0.18
19 13 0.29
20 3 0.07
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.53
Consensus pattern (19 bp):
TTATTTAATATAATTAAAT
Found at i:60261050 original size:52 final size:52
Alignment explanation
Indices: 60260993--60261096 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
60260983 TATAAGATAG
60260993 TTAAATAATAATTATTTAATATAATTAAATTTATTTATGATTAACTTGTTAA
1 TTAAATAATAATTATTTAATATAATTAAATTTATTTATGATTAACTTGTTAA
60261045 TTAAATAATAATTATTTAATATAATTAAATTTATTTATGATTAACTTGTTAA
1 TTAAATAATAATTATTTAATATAATTAAATTTATTTATGATTAACTTGTTAA
60261097 ATTTCCGACC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (52 bp):
TTAAATAATAATTATTTAATATAATTAAATTTATTTATGATTAACTTGTTAA
Found at i:60261096 original size:24 final size:24
Alignment explanation
Indices: 60261017--60261100 Score: 64
Period size: 26 Copynumber: 3.3 Consensus size: 24
60261007 TTTAATATAA
60261017 TTAAATTTATTTATGATTAACTTG
1 TTAAATTTATTTATGATTAACTTG
* * * *
60261041 TT-AATTAAATAATAATTATTTAA-TATAA
1 TTAAATT---TATTTATGA-TTAACT-T-G
60261069 TTAAATTTATTTATGATTAACTTG
1 TTAAATTTATTTATGATTAACTTG
60261093 TTAAATTT
1 TTAAATTT
60261101 CCGACCTATA
Statistics
Matches: 44, Mismatches: 8, Indels: 16
0.65 0.12 0.24
Matches are distributed among these distances:
23 4 0.09
24 10 0.23
25 5 0.11
26 14 0.32
27 5 0.11
28 2 0.05
29 4 0.09
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.52
Consensus pattern (24 bp):
TTAAATTTATTTATGATTAACTTG
Found at i:60261507 original size:23 final size:22
Alignment explanation
Indices: 60261481--60261545 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 22
60261471 AATATATGTT
60261481 TGAAAATAATATATAATAAATAA
1 TGAAAATAATATATAA-AAATAA
* *
60261504 TGAAAAGT-ATAGTTTAAAATTAA
1 TGAAAA-TAATA-TATAAAAATAA
*
60261527 TTAATAATAATATATAAAA
1 TGAA-AATAATATATAAAA
60261546 CATGTAAGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
23 24 0.71
24 10 0.29
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (22 bp):
TGAAAATAATATATAAAAATAA
Found at i:60265205 original size:19 final size:21
Alignment explanation
Indices: 60265178--60265233 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 21
60265168 AAAACCAATT
*
60265178 GTATTGATACTCTT-G-TAAA
1 GTATCGATACTCTTAGATAAA
*
60265197 GTATCGATACTGTTAGTATAAA
1 GTATCGATACTCTTAG-ATAAA
60265219 GTATCGATACT-TTAG
1 GTATCGATACTCTTAG
60265234 TCTGATATCG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 12 0.38
20 1 0.03
21 4 0.12
22 15 0.47
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (21 bp):
GTATCGATACTCTTAGATAAA
Found at i:60265220 original size:22 final size:21
Alignment explanation
Indices: 60265193--60265234 Score: 75
Period size: 22 Copynumber: 2.0 Consensus size: 21
60265183 GATACTCTTG
60265193 TAAAGTATCGATACTGTTAGTA
1 TAAAGTATCGATACT-TTAGTA
60265215 TAAAGTATCGATACTTTAGT
1 TAAAGTATCGATACTTTAGT
60265235 CTGATATCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.38
Consensus pattern (21 bp):
TAAAGTATCGATACTTTAGTA
Found at i:60271427 original size:42 final size:42
Alignment explanation
Indices: 60271395--60271519 Score: 151
Period size: 42 Copynumber: 3.0 Consensus size: 42
60271385 ATATGGTGTT
*
60271395 GATATGAGATTTCATGTAAAACCACGTCTGGGACATGGCATC
1 GATATGAGATTTCATGTAAGACCACGTCTGGGACATGGCATC
* * * ** *
60271437 GAAATGAGATTTCGTATAAGACCATATCTGGGATATGGCATC
1 GATATGAGATTTCATGTAAGACCACGTCTGGGACATGGCATC
* ** *
60271479 GATGTGAGATCCCATGTAAGACCACGTTTGGGACATGGCAT
1 GATATGAGATTTCATGTAAGACCACGTCTGGGACATGGCAT
60271520 TGGCATCTTA
Statistics
Matches: 66, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (42 bp):
GATATGAGATTTCATGTAAGACCACGTCTGGGACATGGCATC
Found at i:60277315 original size:40 final size:40
Alignment explanation
Indices: 60277270--60277437 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
60277260 CGGAATACAA
60277270 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
60277310 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
60277350 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
60277390 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
60277430 CCGGATAT
1 CCGGATAT
60277438 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:60285294 original size:40 final size:40
Alignment explanation
Indices: 60285249--60285416 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
60285239 CGGAATACAA
60285249 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
60285289 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
60285329 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
60285369 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
60285409 CCGGATAT
1 CCGGATAT
60285417 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:60287958 original size:22 final size:23
Alignment explanation
Indices: 60287899--60287962 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 23
60287889 CGGTGTAGAT
*
60287899 GCCATGTCCCAGACAAGTCTTAC
1 GCCATGTCCCAGACAAGTCTGAC
* * *
60287922 -AC-TGACACAGAACAAG-CTGAC
1 GCCATGTCCCAG-ACAAGTCTGAC
60287943 GCCATGTCCCAGACAAGTCT
1 GCCATGTCCCAGACAAGTCT
60287963 TACACTAGCT
Statistics
Matches: 30, Mismatches: 7, Indels: 8
0.67 0.16 0.18
Matches are distributed among these distances:
21 10 0.33
22 12 0.40
23 8 0.27
ACGTcount: A:0.31, C:0.33, G:0.19, T:0.17
Consensus pattern (23 bp):
GCCATGTCCCAGACAAGTCTGAC
Found at i:60288053 original size:46 final size:46
Alignment explanation
Indices: 60287945--60288111 Score: 212
Period size: 46 Copynumber: 3.6 Consensus size: 46
60287935 AAGCTGACGC
* ** * **
60287945 CATGTCCCAGACAAGTCTTACACTAGCTTATATATCTC-GTGGCTAATG
1 CATGTCCCAGACATGTCTTACACTAGCTT-T-CGTCTCAAT-GCCGATG
60287993 CATGTCCCAGACATGTCTTACACTAGCTCTT-GTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCT-TTCGTCTCAATGCCGATG
* *
60288039 CATGTCCCAAACATGTCTTACACTAGCTTTCGTCTCAATGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTTCGTCTCAATGCCGATG
60288085 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
60288112 ACACATATCA
Statistics
Matches: 108, Mismatches: 8, Indels: 8
0.87 0.06 0.06
Matches are distributed among these distances:
45 2 0.02
46 76 0.70
47 1 0.01
48 28 0.26
49 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.31
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTTTCGTCTCAATGCCGATG
Found at i:60292671 original size:19 final size:20
Alignment explanation
Indices: 60292647--60292684 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
60292637 GGTACCACCA
60292647 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
60292666 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
60292685 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:60293023 original size:93 final size:93
Alignment explanation
Indices: 60292913--60293083 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
60292903 GCCCCTAAGT
* *
60292913 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
60292978 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
60293006 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
60293071 CGAGTTCGGATGC
66 CGAGTTCGGATGC
60293084 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:60293080 original size:46 final size:46
Alignment explanation
Indices: 60292908--60293080 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
60292898 AACCCGCCCC
* * * *
60292908 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
60292954 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
60293002 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
60293047 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
60293081 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:60301037 original size:40 final size:40
Alignment explanation
Indices: 60300971--60301121 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
60300961 AAATTGAATG
* * *
60300971 ATATCCGGGCTAA-TCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* * ****
60301010 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
60301050 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
60301090 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
60301122 ACATGGTTAT
Statistics
Matches: 89, Mismatches: 19, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
39 15 0.17
40 72 0.81
41 2 0.02
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:60301135 original size:40 final size:40
Alignment explanation
Indices: 60301008--60301137 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
60300998 ATGCTGGAAA
* * * *
60301008 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
60301048 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
60301088 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
60301128 TTATATCCGG
1 TTATATCCGG
60301138 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:60313842 original size:80 final size:80
Alignment explanation
Indices: 60313758--60313906 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
60313748 TATGGTAACC
* * * *
60313758 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
60313822 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
60313838 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
60313903 CCGG
66 CCGG
60313907 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:60313848 original size:40 final size:38
Alignment explanation
Indices: 60313799--60313906 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
60313789 ATCACGATTT
*
60313799 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
60313839 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
60313879 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
60313907 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:60317288 original size:48 final size:48
Alignment explanation
Indices: 60316989--60317273 Score: 453
Period size: 48 Copynumber: 5.9 Consensus size: 48
60316979 AAATGAGATT
* *
60316989 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCAATGATATGTGTGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGC
*
60317037 CAGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATGTGTGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGC
* * *
60317085 CAGTGTAAGACCATGTTTGGGACATGGCAACGGCGATGATATGTGCGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGC
*
60317133 CAGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATATGTGTGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGC
* * *
60317181 CAGTGTAAGACCATGTTTGGGACATGGCAACGGCGATGATATGTGCGC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGC
** *
60317229 CAGTGTAAGACCATGTCTAAGACATGGCATCGGTGATGATATGTG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTG
60317274 GATTTATGTA
Statistics
Matches: 217, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 217 1.00
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATGTGTGC
Found at i:60317303 original size:96 final size:96
Alignment explanation
Indices: 60316989--60317273 Score: 507
Period size: 96 Copynumber: 3.0 Consensus size: 96
60316979 AAATGAGATT
* * * * *
60316989 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCAATGATATGTGTGCCAGTGTAAGACCATGTC
1 CAGTGTAAGACCATGTTTGGGACATGGCAACGGCGATGATATGTGCGCCAGTGTAAGACCATGTC
60317054 TGGGACATGGCATCGGTGATGATATGTGTGC
66 TGGGACATGGCATCGGTGATGATATGTGTGC
60317085 CAGTGTAAGACCATGTTTGGGACATGGCAACGGCGATGATATGTGCGCCAGTGTAAGACCATGTC
1 CAGTGTAAGACCATGTTTGGGACATGGCAACGGCGATGATATGTGCGCCAGTGTAAGACCATGTC
60317150 TGGGACATGGCATCGGTGATGATATGTGTGC
66 TGGGACATGGCATCGGTGATGATATGTGTGC
60317181 CAGTGTAAGACCATGTTTGGGACATGGCAACGGCGATGATATGTGCGCCAGTGTAAGACCATGTC
1 CAGTGTAAGACCATGTTTGGGACATGGCAACGGCGATGATATGTGCGCCAGTGTAAGACCATGTC
**
60317246 TAAGACATGGCATCGGTGATGATATGTG
66 TGGGACATGGCATCGGTGATGATATGTG
60317274 GATTTATGTA
Statistics
Matches: 182, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 182 1.00
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (96 bp):
CAGTGTAAGACCATGTTTGGGACATGGCAACGGCGATGATATGTGCGCCAGTGTAAGACCATGTC
TGGGACATGGCATCGGTGATGATATGTGTGC
Found at i:60320905 original size:43 final size:44
Alignment explanation
Indices: 60320846--60320979 Score: 135
Period size: 51 Copynumber: 2.9 Consensus size: 44
60320836 ATCTATGTGG
* * *
60320846 CATCCAAGCTCATTGAGAGGTCTGAGTTCATTATGGATGTG-AT
1 CATCCGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATGTGTAA
* * *
60320889 CATCCGAGCTCGTTGAGTGGTCTAAGTTCATAATGGATGCGATTCATGTAA
1 CATCCGAGCTCGTTGAGAGGTCTGAGTTCAT--T--ATG-GA-T-GTGTAA
*
60320940 CATCCGAGCTCGTTGAGAGGTCCGAGTTCATTATGGATGT
1 CATCCGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATGT
60320980 ATAGATGTTA
Statistics
Matches: 73, Mismatches: 10, Indels: 15
0.74 0.10 0.15
Matches are distributed among these distances:
43 27 0.37
44 1 0.01
45 2 0.03
46 2 0.03
47 6 0.08
48 2 0.03
49 2 0.03
50 2 0.03
51 29 0.40
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (44 bp):
CATCCGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATGTGTAA
Found at i:60324291 original size:39 final size:39
Alignment explanation
Indices: 60324210--60324411 Score: 341
Period size: 39 Copynumber: 5.2 Consensus size: 39
60324200 TATGGTAACC
* *
60324210 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
60324250 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
60324289 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
60324328 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
60324367 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
60324406 CGCACA
1 CGCACA
60324412 TTCATACACA
Statistics
Matches: 153, Mismatches: 9, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 136 0.89
40 17 0.11
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:60328142 original size:46 final size:46
Alignment explanation
Indices: 60328087--60328267 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
60328077 TAGGATGGTT
60328087 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
60328133 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
60328179 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
60328226 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
60328268 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:60328248 original size:93 final size:93
Alignment explanation
Indices: 60328089--60328259 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
60328079 GGATGGTTGA
* *
60328089 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
60328154 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
60328182 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
60328247 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
60328260 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:60331231 original size:15 final size:15
Alignment explanation
Indices: 60331211--60331279 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
60331201 GTATCTTGGG
60331211 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
60331226 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
60331241 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
60331256 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
60331271 TTTCTTTAT
1 TTTCTTTAT
60331280 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:60331280 original size:30 final size:30
Alignment explanation
Indices: 60331202--60331289 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
60331192 CATAGTATCG
* * * *
60331202 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
60331232 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
60331262 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
60331290 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:60333693 original size:46 final size:46
Alignment explanation
Indices: 60333638--60333818 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
60333628 TAGGATGGTT
60333638 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
60333684 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
60333730 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
60333777 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
60333819 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:60333799 original size:93 final size:93
Alignment explanation
Indices: 60333640--60333810 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
60333630 GGATGGTTGA
* *
60333640 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
60333705 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
60333733 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
60333798 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
60333811 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:60339351 original size:40 final size:40
Alignment explanation
Indices: 60339292--60339433 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
60339282 AAATTGAATG
* * *
60339292 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
60339332 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
60339372 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
60339412 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
60339434 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:60339434 original size:40 final size:39
Alignment explanation
Indices: 60339331--60339459 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
60339321 TGCTGGAAAT
* * *
60339331 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
60339371 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
60339411 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
60339451 TATATCCGG
1 TATATCCGG
60339460 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:60347420 original size:38 final size:38
Alignment explanation
Indices: 60347289--60347453 Score: 165
Period size: 40 Copynumber: 4.2 Consensus size: 38
60347279 AAATTGAATG
* * *
60347289 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGATT
* *
60347328 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGAT---T
60347368 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGATT
* * *
60347406 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTG--CGAGATT
60347446 ATATCCGG
1 ATATCCGG
60347454 TTATATTCCG
Statistics
Matches: 106, Mismatches: 11, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
37 1 0.01
38 28 0.26
39 18 0.17
40 58 0.55
41 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (38 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGATT
Found at i:60347421 original size:78 final size:78
Alignment explanation
Indices: 60347289--60347437 Score: 203
Period size: 78 Copynumber: 1.9 Consensus size: 78
60347279 AAATTGAATG
*
60347289 ATATCCGGGCTAAGCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCAA
1 ATATCCGGGCTAAGCCCGAAGACAATTATGC-GGAAATTATATCCGGGCTAAGACCCGAAGGCAA
60347354 TTGTGCTAGTGGCT
65 TTGTGCTAGTGGCT
* * * *
60347368 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGATTCTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAG-CCCGAAGACAATT-ATGCGGAAATTATATCCGGGCTAAGACCCGAAGGCA
*
60347431 TTTGTGC
64 ATTGTGC
60347438 ACGTGATTAT
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
78 34 0.55
79 17 0.27
80 11 0.18
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.23
Consensus pattern (78 bp):
ATATCCGGGCTAAGCCCGAAGACAATTATGCGGAAATTATATCCGGGCTAAGACCCGAAGGCAAT
TGTGCTAGTGGCT
Found at i:60349781 original size:22 final size:22
Alignment explanation
Indices: 60349721--60349785 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 22
60349711 TTGCGATATT
* * * *
60349721 TACGGCCTTTAGCCATCCTATC
1 TACGGCGTTAAGCCGTCCTGTC
60349743 TACGGCGTTAAGCCGTCCTGTC
1 TACGGCGTTAAGCCGTCCTGTC
* * *
60349765 TACGGTGTTGAGTCGTCCTGT
1 TACGGCGTTAAGCCGTCCTGT
60349786 TGACTTAGTG
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.14, C:0.29, G:0.25, T:0.32
Consensus pattern (22 bp):
TACGGCGTTAAGCCGTCCTGTC
Found at i:60351698 original size:49 final size:48
Alignment explanation
Indices: 60351545--60351811 Score: 195
Period size: 49 Copynumber: 5.5 Consensus size: 48
60351535 AGATGCCGTC
**
60351545 CCATGTCCCAGACATGGTCTTACACTGGCTAGCA-CATCAAAGTCGATG
1 CCATGTCCCAGACA-GGTCTTACACTGGCTTTCATCATCAAAGTCGATG
* * * * * * * *
60351593 CCATGTCCCAGATAGGTCTTACATTGACTTTCATATATCGAGGCCAATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTTTCAT-CATCAAAGTCGATG
* * * *
60351642 TCGTGTCCCAAACAGGTCTTACACTGGCTTTCATCCATCAATGTCGATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTTTCAT-CATCAAAGTCGATG
* * * * *
60351691 CCATGTCCCAGACAGGTCTTACACTAGCTTGTATATC-TCGAGGCCGATG
1 CCATGTCCCAGACAGGTCTTACACTGGCTT-T-CATCATCAAAGTCGATG
* * * * *
60351740 -CATGTCCAAGACATGTCTTACACTGGCTGGTAT-ATC-TCGACGTCAATG
1 CCATGTCCCAGACAGGTCTTACACTGGCT--T-TCATCATCAAAGTCGATG
*
60351788 -CATGTCCCAGACATGTCTTACACT
1 CCATGTCCCAGACAGGTCTTACACT
60351812 AGCTCTCAAT
Statistics
Matches: 175, Mismatches: 38, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
47 15 0.09
48 73 0.42
49 81 0.46
50 4 0.02
51 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (48 bp):
CCATGTCCCAGACAGGTCTTACACTGGCTTTCATCATCAAAGTCGATG
Found at i:60351732 original size:98 final size:96
Alignment explanation
Indices: 60351546--60351857 Score: 293
Period size: 98 Copynumber: 3.2 Consensus size: 96
60351536 GATGCCGTCC
* ** *
60351546 CATGTCCCAGACATGGTCTTACACTGGCTAGCA-CATCAAAGTCGATGCCATGTCCCAGATAGGT
1 CATGTCCCAAACA-GGTCTTACACTGGCTTTCATCATCAAAGTCGATGCCATGTCCCAGACAGGT
*
60351610 CTTACA-TTGACTTTCATATATCGAGGCCAATG
65 CTTACACTAG-CTTTCATATATCGAGGCCAATG
* *
60351642 TCGTGTCCCAAACAGGTCTTACACTGGCTTTCATCCATCAATGTCGATGCCATGTCCCAGACAGG
1 -CATGTCCCAAACAGGTCTTACACTGGCTTTCAT-CATCAAAGTCGATGCCATGTCCCAGACAGG
* *
60351707 TCTTACACTAGCTTGT-ATATCTCGAGGCCGATG
64 TCTTACACTAGCTT-TCATATATCGAGGCCAATG
* * * *
60351740 CATGT-CCAAGACATGTCTTACACTGGCTGGTAT-ATC-TCGACGTCAATG-CATGTCCCAGACA
1 CATGTCCCAA-ACAGGTCTTACACTGGCT--T-TCATCATCAAAGTCGATGCCATGTCCCAGACA
* * * *
60351801 TGTCTTACACTAGCTCTCAATATGTC-A--CCGATG
62 GGTCTTACACTAGCTTTC-ATATATCGAGGCCAATG
* *
60351834 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAAACAGGTCTTACACT
60351858 AGCATACATA
Statistics
Matches: 186, Mismatches: 18, Indels: 25
0.81 0.08 0.11
Matches are distributed among these distances:
94 25 0.13
95 4 0.02
96 49 0.26
97 47 0.25
98 54 0.29
99 6 0.03
100 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (96 bp):
CATGTCCCAAACAGGTCTTACACTGGCTTTCATCATCAAAGTCGATGCCATGTCCCAGACAGGTC
TTACACTAGCTTTCATATATCGAGGCCAATG
Found at i:60351761 original size:48 final size:47
Alignment explanation
Indices: 60351686--60351860 Score: 219
Period size: 48 Copynumber: 3.7 Consensus size: 47
60351676 CCATCAATGT
*
60351686 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGC
1 CGATG-CATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGA-GC
* * * *
60351735 CGATGCATGTCCAAGACATGTCTTACACTGGCTGGTATATCTCGACGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGA-GC
* ** *
60351783 CAATGCATGTCCCAGACATGTCTTACACTAGCTCTCAATATGTC-A-C
1 CGATGCATGTCCCAGACATGTCTTACACTAGCT-TGTATATCTCGAGC
60351829 CGATGCATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGC
60351861 ATACATATCA
Statistics
Matches: 110, Mismatches: 15, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
46 31 0.28
48 68 0.62
49 11 0.10
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTGTATATCTCGAGC
Found at i:60351869 original size:94 final size:95
Alignment explanation
Indices: 60351692--60351869 Score: 236
Period size: 94 Copynumber: 1.9 Consensus size: 95
60351682 ATGTCGATGC
**
60351692 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAGGCCGATGCATGTCCAAGACATGTC
1 CATGTCCCAGACAGGTCTTACACTAGCTTCAATATCTCGA-GCCGATGCATGTCCAAGACATGTC
* **
60351757 TTACACTGGCTGGTATATCTCGACGTCAATG
65 TTACACTAGCTGACATATCTCGACGTCAATG
* * *
60351788 CATGTCCCAGACATGTCTTACACTAGCTCTCAATATGTC-A-CCGATGCATGTCCCAGACATGTC
1 CATGTCCCAGACAGGTCTTACACTAGCT-TCAATATCTCGAGCCGATGCATGTCCAAGACATGTC
60351851 TTACACTAGCAT-ACATATC
65 TTACACTAGC-TGACATATC
60351870 ACCTAATGTC
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
94 36 0.50
95 1 0.01
96 28 0.39
97 7 0.10
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (95 bp):
CATGTCCCAGACAGGTCTTACACTAGCTTCAATATCTCGAGCCGATGCATGTCCAAGACATGTCT
TACACTAGCTGACATATCTCGACGTCAATG
Found at i:60352538 original size:20 final size:20
Alignment explanation
Indices: 60352513--60352551 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
60352503 AAAATTTCAA
60352513 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
60352533 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
60352552 AATAACCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:60361958 original size:73 final size:73
Alignment explanation
Indices: 60361841--60361987 Score: 285
Period size: 73 Copynumber: 2.0 Consensus size: 73
60361831 ATTCATTCAT
60361841 ATATATATTACTAATAGGCCAACATTTTGAGAAATTTCATTAAGTACCAATTCCTAGTACAAGAA
1 ATATATATTACTAATAGGCCAACATTTTGAGAAATTTCATTAAGTACCAATTCCTAGTACAAGAA
60361906 TTCAAATC
66 TTCAAATC
*
60361914 ATATATATTACTAATAGGGCAACATTTTGAGAAATTTCATTAAGTACCAATTCCTAGTACAAGAA
1 ATATATATTACTAATAGGCCAACATTTTGAGAAATTTCATTAAGTACCAATTCCTAGTACAAGAA
60361979 TTCAAATC
66 TTCAAATC
60361987 A
1 A
60361988 ATAGACATTC
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (73 bp):
ATATATATTACTAATAGGCCAACATTTTGAGAAATTTCATTAAGTACCAATTCCTAGTACAAGAA
TTCAAATC
Found at i:60363918 original size:21 final size:21
Alignment explanation
Indices: 60363878--60363918 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
60363868 TTATATGTGT
* *
60363878 AATTAAACTTTACTTTATCAA
1 AATTAAACTTTAATTAATCAA
*
60363899 AATTAACCTTTAATTAATCA
1 AATTAAACTTTAATTAATCA
60363919 TTTCCTATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (21 bp):
AATTAAACTTTAATTAATCAA
Found at i:60364264 original size:2 final size:2
Alignment explanation
Indices: 60364257--60364286 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
60364247 AAGTCTTTAC
60364257 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
60364287 CAACTTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60364524 original size:2 final size:2
Alignment explanation
Indices: 60364517--60364542 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
60364507 TATGTGAACA
60364517 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
60364543 GTATGTATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60365514 original size:2 final size:2
Alignment explanation
Indices: 60365509--60365541 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
60365499 ATATCTTATC
60365509 AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
60365542 CAATCCATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:60366783 original size:56 final size:56
Alignment explanation
Indices: 60366723--60366853 Score: 235
Period size: 56 Copynumber: 2.3 Consensus size: 56
60366713 AGACAGGGTC
*
60366723 TTACTCGCACACATATATCAGAGTCACATATTGATGCCAACGTATAAAACGTGGTA
1 TTACTCGCACACATATATCAAAGTCACATATTGATGCCAACGTATAAAACGTGGTA
*
60366779 TTACTCGCACACATATATCAAAGTCACATATTGATGCCAACGTATAAAACGTGGTC
1 TTACTCGCACACATATATCAAAGTCACATATTGATGCCAACGTATAAAACGTGGTA
*
60366835 TTACGCGCACACATATATC
1 TTACTCGCACACATATATC
60366854 GATGCCATGG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 72 1.00
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.27
Consensus pattern (56 bp):
TTACTCGCACACATATATCAAAGTCACATATTGATGCCAACGTATAAAACGTGGTA
Found at i:60367494 original size:15 final size:15
Alignment explanation
Indices: 60367471--60367501 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
60367461 TCAAAAATTC
60367471 CAATACAAAACATAT
1 CAATACAAAACATAT
*
60367486 CAATCCAAAACATAT
1 CAATACAAAACATAT
60367501 C
1 C
60367502 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:60371130 original size:28 final size:28
Alignment explanation
Indices: 60371084--60371152 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
60371074 TTTAAAACCC
*
60371084 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
60371111 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
60371139 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
60371153 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:60374323 original size:16 final size:15
Alignment explanation
Indices: 60374290--60374318 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
60374280 ATTTTTTATT
60374290 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
60374305 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
60374319 AATTTCGTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:60375562 original size:56 final size:56
Alignment explanation
Indices: 60375476--60375610 Score: 209
Period size: 56 Copynumber: 2.4 Consensus size: 56
60375466 CCATGGAATC
* *
60375476 GATATATGTGTGCGAGTAAGACCACATTTTATATATTGGCATCGATATGTGACAT-T
1 GATATATGTGTGCGAGTAAGACCACATTTTATACATTGACATCGATATGTGAC-TCT
* *
60375532 GATATATGTGTGCCAGTAAGACCACATTTTATACGTTGACATCGATATGTGACTCT
1 GATATATGTGTGCGAGTAAGACCACATTTTATACATTGACATCGATATGTGACTCT
*
60375588 GGTATATGTGTGCGAGTAAGACC
1 GATATATGTGTGCGAGTAAGACC
60375611 CTGTCTGGGA
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
55 1 0.01
56 71 0.99
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (56 bp):
GATATATGTGTGCGAGTAAGACCACATTTTATACATTGACATCGATATGTGACTCT
Found at i:60378261 original size:47 final size:48
Alignment explanation
Indices: 60378189--60378311 Score: 139
Period size: 47 Copynumber: 2.6 Consensus size: 48
60378179 GGGTAAGGTG
* * * *
60378189 CCGATGCCATGTCCTAGACACGGTCTTATACCAG-CTCAT-ATCTCA-AG
1 CCGATGCCATGTCCCAGACATGGTCTTACA-CAGACT-ATCATCTCATAA
* *
60378236 TCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCATAA
1 CCGATGCCATGTCCCAGACATGGTCTTACACAGACTATCATCTCATAA
60378284 CCGATG-CATGTCCCAGACAT-GTCTTACA
1 CCGATGCCATGTCCCAGACATGGTCTTACA
60378312 TTGGCTTACA
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
46 12 0.18
47 48 0.73
48 6 0.09
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACAGACTATCATCTCATAA
Found at i:60378325 original size:46 final size:47
Alignment explanation
Indices: 60378237--60378461 Score: 194
Period size: 46 Copynumber: 4.8 Consensus size: 47
60378227 TATCTCAAGT
* *
60378237 CGATGCCATGTCCCAGACATGGTCTTACACTGAC-TATCATCTC-ATAAC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTA-CATCTCGATAGC
* *
60378285 CGATGCATGTCCCAGACATGTCTTACATTGGCTTACATCTCGA-GGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGATAGC
* * *** *
60378331 CGTTGCATGTCCCAGACATGTCTTACACTAGCCCCCGTCTCGAT-GC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGATAGC
** *
60378377 TAATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-G-TAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-CTCGATAGC
* * *
60378425 CGATTCATGTCCCAGACATGTCTTACATTAGCTTACA
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACA
60378462 CACGAATGAC
Statistics
Matches: 144, Mismatches: 24, Indels: 20
0.77 0.13 0.11
Matches are distributed among these distances:
45 1 0.01
46 72 0.50
47 46 0.32
48 24 0.17
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGATAGC
Found at i:60383381 original size:93 final size:93
Alignment explanation
Indices: 60383269--60383439 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
60383259 CCCATAAGTG
* *
60383269 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
60383334 GAGTTCGGATGCCTAGTTACATCTCACA
66 GAGTTCGGATGCCTAGTTACATCTCACA
*
60383362 AACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
60383427 GAGTTCGGATGCC
66 GAGTTCGGATGCC
60383440 CAAATATCCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCACA
Found at i:60383435 original size:46 final size:46
Alignment explanation
Indices: 60383260--60383435 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
60383250 TGTAACCCGC
* * *
60383260 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
60383306 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
*
60383356 CTCA-CA---AACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
60383399 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
60383436 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
46 67 0.60
47 31 0.28
50 5 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:60388547 original size:47 final size:44
Alignment explanation
Indices: 60388476--60388744 Score: 193
Period size: 47 Copynumber: 5.8 Consensus size: 44
60388466 GGTAAGGTGT
* * * *
60388476 CGATGCCATGTCCTAGACACGGTCTTATACTAGCTTATATCTCAAGT
1 CGATG-CATGTCCCAGACA-TGTCTTACACTAGCTTATATCT-AAGC
60388523 CGATGCCATGTCCCAGACATGGTCTTACACT-GAC-TATCATCTAGTAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CTTAT-ATCTA--AGC
* * * *
60388571 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTA--TATCTAAGC
* * ** * * *
60388617 CGTTGCATGTCCCACACATGTCTTACACTAGCCCTCGTCTTTATGC
1 CGATGCATGTCCCAGACATGTCTTACACTAG--CTTATATCTAAGC
* * *
60388663 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-GGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-T-AT-ATCTAAGC
60388711 CGATGCATGTCCCAGACATGTCTTACACTAGCTT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTT
60388745 GCACATGAAT
Statistics
Matches: 182, Mismatches: 24, Indels: 34
0.76 0.10 0.14
Matches are distributed among these distances:
45 1 0.01
46 71 0.39
47 76 0.42
48 31 0.17
49 3 0.02
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTATATCTAAGC
Found at i:60388624 original size:46 final size:44
Alignment explanation
Indices: 60388523--60388744 Score: 212
Period size: 46 Copynumber: 4.8 Consensus size: 44
60388513 TATCTCAAGT
*
60388523 CGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCT-AGTAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCATCTGAG--GC
*
60388571 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCT-GAGGC
* * * * * * *
60388617 CGTTGCATGTCCCACACATGTCTTACACTAGCCCTCGTCTTTATGC
1 CGATGCATGTCCCAGACATGTCTTACACT-GGCTTCATC-TGAGGC
* *
60388663 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-CTGAGGC
*
60388711 CGATGCATGTCCCAGACATGTCTTACACTAGCTT
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTT
60388745 GCACATGAAT
Statistics
Matches: 147, Mismatches: 18, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
45 2 0.01
46 70 0.48
47 47 0.32
48 28 0.19
ACGTcount: A:0.21, C:0.31, G:0.20, T:0.28
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTGAGGC
Found at i:60388723 original size:94 final size:92
Alignment explanation
Indices: 60388569--60388742 Score: 253
Period size: 94 Copynumber: 1.9 Consensus size: 92
60388559 TCATCTAGTA
* * *
60388569 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCGTTGCATGTCCCACAC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATGCATGTCCCACAC
60388634 ATGTCTTACACTAGCCCTCGTCTTTAT
66 ATGTCTTACACTAGCCCTCGTCTTTAT
*
60388661 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATGTCCC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TACAT-ATCGAGGCCGATGCATGTCCC
*
60388724 AGACATGTCTTACACTAGC
62 ACACATGTCTTACACTAGC
60388743 TTGCACATGA
Statistics
Matches: 73, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
92 7 0.10
93 14 0.19
94 50 0.68
95 2 0.03
ACGTcount: A:0.20, C:0.32, G:0.21, T:0.28
Consensus pattern (92 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACATATCGAGGCCGATGCATGTCCCACAC
ATGTCTTACACTAGCCCTCGTCTTTAT
Found at i:60390125 original size:13 final size:14
Alignment explanation
Indices: 60390101--60390131 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
60390091 AAGTGAACAA
60390101 TTGTTAAAACATAT
1 TTGTTAAAACATAT
60390115 TTGTT-AAACATAT
1 TTGTTAAAACATAT
60390128 TTGT
1 TTGT
60390132 CTTTGTGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (14 bp):
TTGTTAAAACATAT
Found at i:60392011 original size:40 final size:39
Alignment explanation
Indices: 60391884--60392013 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
60391874 ATGCTGGAAA
* *
60391884 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
60391924 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
60391964 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
60392004 TTATATCCGG
1 TTATATCCGG
60392014 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:60400081 original size:40 final size:39
Alignment explanation
Indices: 60399954--60400083 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
60399944 ATGCTGGAAA
* *
60399954 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
60399994 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
60400034 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
60400074 TTATATCCGG
1 TTATATCCGG
60400084 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:60417581 original size:7 final size:7
Alignment explanation
Indices: 60417569--60417596 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
60417559 GCCGAAGCCT
60417569 TTTCATA
1 TTTCATA
60417576 TTTCATA
1 TTTCATA
60417583 TTTCATA
1 TTTCATA
60417590 TTTCATA
1 TTTCATA
60417597 ACACTGGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTCATA
Found at i:60417881 original size:26 final size:26
Alignment explanation
Indices: 60417844--60417908 Score: 89
Period size: 26 Copynumber: 2.6 Consensus size: 26
60417834 TAATAACTAG
**
60417844 GGCA-AAGCCCTTTTCGGTAAACTGA
1 GGCATAAGCCCTTTTCAATAAACTGA
*
60417869 GGCATAAGCCCTTTTCAATAAACTGG
1 GGCATAAGCCCTTTTCAATAAACTGA
60417895 GGCAT-AGCCCTTTT
1 GGCATAAGCCCTTTT
60417909 GCACCTCCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
25 13 0.36
26 23 0.64
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.28
Consensus pattern (26 bp):
GGCATAAGCCCTTTTCAATAAACTGA
Found at i:60417980 original size:9 final size:9
Alignment explanation
Indices: 60417966--60417991 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
60417956 ACATCATGTG
60417966 CATATCATA
1 CATATCATA
60417975 CATATCATA
1 CATATCATA
60417984 CATATCAT
1 CATATCAT
60417992 GTGCATATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:60417987 original size:4 final size:5
Alignment explanation
Indices: 60417966--60418023 Score: 61
Period size: 5 Copynumber: 12.2 Consensus size: 5
60417956 ACATCATGTG
* *
60417966 CATAT CATA- CATAT CATA- CATAT CATGT GCATAT CATAT CAT-T CATGT
1 CATAT CATAT CATAT CATAT CATAT CATAT -CATAT CATAT CATAT CATAT
60418014 -ATAT CATAT C
1 CATAT CATAT C
60418024 CCACTATCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
4 15 0.33
5 26 0.58
6 4 0.09
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (5 bp):
CATAT
Found at i:60417995 original size:29 final size:29
Alignment explanation
Indices: 60417958--60418020 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
60417948 TTATGATTAC
60417958 ATCATGTGCATATCATA-CATATCATACAT
1 ATCATGTGCATATCATATCAT-TCATACAT
**
60417987 ATCATGTGCATATCATATCATTCATGTAT
1 ATCATGTGCATATCATATCATTCATACAT
60418016 ATCAT
1 ATCAT
60418021 ATCCCACTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 28 0.90
30 3 0.10
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (29 bp):
ATCATGTGCATATCATATCATTCATACAT
Found at i:60418019 original size:18 final size:20
Alignment explanation
Indices: 60417966--60418023 Score: 70
Period size: 18 Copynumber: 3.0 Consensus size: 20
60417956 ACATCATGTG
*
60417966 CATATCAT-ACATATCATA-
1 CATATCATGTCATATCATAT
60417984 CATATCATGTGCATATCATAT
1 CATATCATGT-CATATCATAT
60418005 CAT-TCATGT-ATATCATAT
1 CATATCATGTCATATCATAT
60418023 C
1 C
60418024 CCACTATCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
18 18 0.50
20 15 0.42
21 3 0.08
ACGTcount: A:0.36, C:0.21, G:0.05, T:0.38
Consensus pattern (20 bp):
CATATCATGTCATATCATAT
Found at i:60418399 original size:21 final size:20
Alignment explanation
Indices: 60418365--60418404 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
60418355 TGGGCCCGAA
60418365 AGCCCATTGGGCCCAACTTC
1 AGCCCATTGGGCCCAACTTC
*
60418385 AGCCCCTTGAGGCCCAACTT
1 AGCCCATTG-GGCCCAACTT
60418405 ACCGTAATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.20, C:0.40, G:0.20, T:0.20
Consensus pattern (20 bp):
AGCCCATTGGGCCCAACTTC
Found at i:60426119 original size:26 final size:26
Alignment explanation
Indices: 60426062--60426171 Score: 156
Period size: 26 Copynumber: 4.3 Consensus size: 26
60426052 CTGGAGGCCT
*
60426062 AGCCTCTTTT-AAT-AACTAGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
**
60426086 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
60426112 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
60426138 AGCCCTTTTCAATAAACTGGGGCAT-
1 AGCCCTTTTCAATAAACTGGGGCATA
60426163 AGCCCTTTT
1 AGCCCTTTT
60426172 GCACTTCCTC
Statistics
Matches: 78, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
23 5 0.06
24 5 0.06
25 18 0.23
26 50 0.64
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:60426246 original size:20 final size:21
Alignment explanation
Indices: 60426221--60426277 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
60426211 TTATGATTAC
*
60426221 ATCATGTGCATTTCATA-CAT
1 ATCATGTGCATATCATATCAT
60426241 ATCATGTGCATATCATATCAT
1 ATCATGTGCATATCATATCAT
60426262 -TCATGT--ATATCATATC
1 ATCATGTGCATATCATATC
60426278 CCACGTATCA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
18 10 0.29
20 22 0.63
21 3 0.09
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (21 bp):
ATCATGTGCATATCATATCAT
Found at i:60431994 original size:47 final size:47
Alignment explanation
Indices: 60431914--60432006 Score: 150
Period size: 47 Copynumber: 2.0 Consensus size: 47
60431904 TATAGAGTCA
* * * *
60431914 CATGTCTGTGTGAGACAGGGGACACGCCTGTGTGCTCTCTACACTCT
1 CATGCCTGTGTGAGACAAGGGACACACCCGTGTGCTCTCTACACTCT
60431961 CATGCCTGTGTGAGACAAGGGACACACCCGTGTGCTCTCTACACTC
1 CATGCCTGTGTGAGACAAGGGACACACCCGTGTGCTCTCTACACTC
60432007 CCGTGTCATT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.19, C:0.30, G:0.26, T:0.25
Consensus pattern (47 bp):
CATGCCTGTGTGAGACAAGGGACACACCCGTGTGCTCTCTACACTCT
Found at i:60439019 original size:31 final size:31
Alignment explanation
Indices: 60438976--60439039 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
60438966 CCTTTTCATA
60438976 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
60439007 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
60439038 TT
1 TT
60439040 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:60439312 original size:47 final size:47
Alignment explanation
Indices: 60439253--60439349 Score: 151
Period size: 47 Copynumber: 2.1 Consensus size: 47
60439243 CCTAGCCTCT
* *
60439253 TTTAGTAACTGGGGCA-AAGCCCTTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC-TTTTAATAACTAGGGCATAAGCCC
*
60439300 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTAGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCCC
60439347 TTT
1 TTT
60439350 TGCACTTCCT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 40 0.87
48 6 0.13
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCCC
Found at i:60439351 original size:24 final size:24
Alignment explanation
Indices: 60439232--60439350 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
60439222 GCTTTATCAT
*
60439232 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
60439257 GTAACTGGGGCA-AAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
60439281 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
60439304 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
60439328 ATAACTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
60439351 GCACTTCCTC
Statistics
Matches: 85, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
23 24 0.28
24 48 0.56
25 13 0.15
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:60439509 original size:25 final size:25
Alignment explanation
Indices: 60439463--60439510 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
60439453 ATATATAAAC
* * * *
60439463 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
60439488 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
60439511 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:60446127 original size:26 final size:27
Alignment explanation
Indices: 60446084--60446137 Score: 101
Period size: 26 Copynumber: 2.0 Consensus size: 27
60446074 TTGAAAACCC
60446084 CTTTATTTTGAACTTCTTGATTTAAAA
1 CTTTATTTTGAACTTCTTGATTTAAAA
60446111 CTTTATTTTGAAC-TCTTGATTTAAAA
1 CTTTATTTTGAACTTCTTGATTTAAAA
60446137 C
1 C
60446138 AGAAAAACTC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 14 0.52
27 13 0.48
ACGTcount: A:0.30, C:0.13, G:0.07, T:0.50
Consensus pattern (27 bp):
CTTTATTTTGAACTTCTTGATTTAAAA
Found at i:60453044 original size:31 final size:31
Alignment explanation
Indices: 60453001--60453064 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
60452991 CCTTTTCATA
60453001 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
60453032 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
60453063 TT
1 TT
60453065 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:60453330 original size:47 final size:47
Alignment explanation
Indices: 60453276--60453372 Score: 169
Period size: 47 Copynumber: 2.1 Consensus size: 47
60453266 CCTAGCCTCT
60453276 TTTAATAACTGGGGCA-AAGCCCTTTTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC-TTTTAATAACTGGGGCATAAGCCC
*
60453323 TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
60453370 TTT
1 TTT
60453373 TGCACTTCCT
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
47 42 0.88
48 6 0.12
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:60453374 original size:24 final size:24
Alignment explanation
Indices: 60453255--60453373 Score: 172
Period size: 24 Copynumber: 5.0 Consensus size: 24
60453245 TGCTTATCAT
*
60453255 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
60453280 ATAACTGGGGCA-AAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
60453304 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
60453327 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
60453351 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
60453374 GCACTTCCTC
Statistics
Matches: 88, Mismatches: 2, Indels: 9
0.89 0.02 0.09
Matches are distributed among these distances:
23 24 0.27
24 50 0.57
25 14 0.16
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:60453513 original size:25 final size:25
Alignment explanation
Indices: 60453485--60453532 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
60453475 ATATATAAAC
* * *
60453485 CCTAGAGGTATAATGGTCATTTTTA
1 CCTAGAGGCAAAACGGTCATTTTTA
*
60453510 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGAGGCAAAACGGTCATTTT
60453533 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (25 bp):
CCTAGAGGCAAAACGGTCATTTTTA
Found at i:60460236 original size:50 final size:47
Alignment explanation
Indices: 60460161--60460283 Score: 151
Period size: 47 Copynumber: 2.6 Consensus size: 47
60460151 ATGTCCTGTA
**
60460161 TAAGACCATGTCTATGACATGGCATCGGCACA-GATATGTGA-GAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATC-G-ACATG--ATG-GATGAGCTAGTG
*
60460211 TAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGAGCTAGTG
1 TAAGACCATGTCTGGGACATGGCATCGACATGATGGATGAGCTAGTG
*
60460258 TAAGACCATGTTTGGGACATGGCATC
1 TAAGACCATGTCTGGGACATGGCATC
60460284 TGTATTATAC
Statistics
Matches: 67, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
46 2 0.03
47 37 0.55
48 2 0.03
49 2 0.03
50 24 0.36
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (47 bp):
TAAGACCATGTCTGGGACATGGCATCGACATGATGGATGAGCTAGTG
Found at i:60465129 original size:40 final size:40
Alignment explanation
Indices: 60465070--60465301 Score: 195
Period size: 40 Copynumber: 5.8 Consensus size: 40
60465060 AAATTGAATG
* *
60465070 ATATCCGGGCTAA-ATCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGA-CCCGAAGGCAATTGTGCTGGAAATT
* * ****
60465110 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
60465150 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* * * ****
60465190 CTATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
* *
60465230 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GAAATT
* *
60465270 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
60465302 ACATGGTTAT
Statistics
Matches: 150, Mismatches: 34, Indels: 16
0.75 0.17 0.08
Matches are distributed among these distances:
39 6 0.04
40 138 0.92
41 6 0.04
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGAAATT
Found at i:60465317 original size:80 final size:80
Alignment explanation
Indices: 60465111--60465301 Score: 364
Period size: 80 Copynumber: 2.4 Consensus size: 80
60465101 CTGGAAATTA
60465111 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCAT
60465176 TCGTGCGAGACATTC
66 TCGTGCGAGACATTC
60465191 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCAT
1 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCAT
60465256 TCGTGCGAGACATTC
66 TCGTGCGAGACATTC
* *
60465271 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGTTAAGACCCGAAGGCAATTGTGC
60465302 ACATGGTTAT
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 109 1.00
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.21
Consensus pattern (80 bp):
TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCAT
TCGTGCGAGACATTC
Found at i:60467397 original size:2 final size:2
Alignment explanation
Indices: 60467390--60467421 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
60467380 GTTGTGTTAT
60467390 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
60467422 ATCTATAGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:60481612 original size:20 final size:21
Alignment explanation
Indices: 60481567--60481614 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
60481557 TACACACCAT
*
60481567 GCTTATATATATATTGATTTG
1 GCTTATATATATAATGATTTG
60481588 G-TTATATATA-AATG-TTTG
1 GCTTATATATATAATGATTTG
60481606 GTCTTATAT
1 G-CTTATAT
60481615 TGAGACTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 5 0.21
19 3 0.12
20 15 0.62
21 1 0.04
ACGTcount: A:0.29, C:0.04, G:0.15, T:0.52
Consensus pattern (21 bp):
GCTTATATATATAATGATTTG
Found at i:60492152 original size:41 final size:41
Alignment explanation
Indices: 60491993--60492162 Score: 150
Period size: 41 Copynumber: 4.2 Consensus size: 41
60491983 TCCTTTTCGG
** * * **
60491993 CCTTTTCA-TTGATATCCTTTTCTGA-TTCCATCATTTTCTT
1 CCTTTTCATTTGATATCCTTTTC-GAGTAACTTCTTTTTCAA
* * *
60492033 CCTTTTCATTTGATATCATTTTCGAATAACGTCTTTTTCAA
1 CCTTTTCATTTGATATCCTTTTCGAGTAACTTCTTTTTCAA
* *
60492074 CCTTTTCATTTGATATCCTTTTTG-G-ATATTTCTTTTTCAA
1 CCTTTTCATTTGATATCCTTTTCGAGTA-ACTTCTTTTTCAA
* * * *
60492114 CCTTTTCATATGTTATCCCTTTCGAGTAACTTCCTTTTCAA
1 CCTTTTCATTTGATATCCTTTTCGAGTAACTTCTTTTTCAA
*
60492155 CATTTTCA
1 CCTTTTCA
60492163 AGTATTCAAA
Statistics
Matches: 106, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
39 1 0.01
40 41 0.39
41 63 0.59
42 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.06, T:0.52
Consensus pattern (41 bp):
CCTTTTCATTTGATATCCTTTTCGAGTAACTTCTTTTTCAA
Found at i:60494709 original size:13 final size:15
Alignment explanation
Indices: 60494691--60494723 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
60494681 AAATTAGATT
60494691 TATTTAA-T-TAAAA
1 TATTTAATTATAAAA
60494704 TATTTAATTATAAAA
1 TATTTAATTATAAAA
60494719 TATTT
1 TATTT
60494724 TATTTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 1 0.06
15 10 0.56
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAAAA
Found at i:60501406 original size:21 final size:21
Alignment explanation
Indices: 60501364--60501404 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
60501354 TATGATGCAA
*
60501364 AGAAGAGGAAAGAAAAGAAAG
1 AGAAGAAGAAAGAAAAGAAAG
*
60501385 AGAAGAAGAAATAGAAAGAA
1 AGAAGAAGAAAGA-AAAGAA
60501405 GAAGGCATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.02
Consensus pattern (21 bp):
AGAAGAAGAAAGAAAAGAAAG
Found at i:60512410 original size:43 final size:43
Alignment explanation
Indices: 60512355--60512473 Score: 102
Period size: 43 Copynumber: 2.8 Consensus size: 43
60512345 GAGATTACGT
* ** *
60512355 GACCAT-GTCTGGGACATTGGCATTGTTATTTGATTTCGTGTAA
1 GACCATAG-CTGGGACATTGGCATTGTTATGTGATAACATGTAA
* * *
60512398 GACCATAGCTGGG-CTATCGGCATCGATATGTGATAACATGTAA
1 GACCATAGCTGGGAC-ATTGGCATTGTTATGTGATAACATGTAA
* * *
60512441 GACCATATCTGGGATA-TGGCATTG-TATGAGATA
1 GACCATAGCTGGGACATTGGCATTGTTATGTGATA
60512474 TATGTGATTT
Statistics
Matches: 61, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
41 8 0.13
42 7 0.11
43 45 0.74
44 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (43 bp):
GACCATAGCTGGGACATTGGCATTGTTATGTGATAACATGTAA
Found at i:60517385 original size:42 final size:41
Alignment explanation
Indices: 60517303--60517445 Score: 137
Period size: 42 Copynumber: 3.4 Consensus size: 41
60517293 GAGCTTGGTC
60517303 TCGAAGGGCTTTTGAGCCAATGCTAATAACCGAACTTAGTT
1 TCGAAGGGCTTTTGAGCCAATGCTAATAACCGAACTTAGTT
* * *
60517344 TCGAAGGGCTTTTTAGAGCCAGTG-TCATGACCGAACTTAGTT
1 TCGAAGGGC-TTTT-GAGCCAATGCTAATAACCGAACTTAGTT
* * * * * * * *
60517386 CCGAAGGGCCTTCGAGCCAGTAGTCTAA-ATCCGAGCTTGGTC
1 TCGAAGGGCTTTTGAGCCAAT-G-CTAATAACCGAACTTAGTT
60517428 TCGAAGGGCTTTTGAGCC
1 TCGAAGGGCTTTTGAGCC
60517446 GGTGCTAAGA
Statistics
Matches: 82, Mismatches: 15, Indels: 9
0.77 0.14 0.08
Matches are distributed among these distances:
40 8 0.10
41 12 0.15
42 52 0.63
43 10 0.12
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (41 bp):
TCGAAGGGCTTTTGAGCCAATGCTAATAACCGAACTTAGTT
Found at i:60525094 original size:80 final size:80
Alignment explanation
Indices: 60525010--60525158 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
60525000 TATGGTAACC
* * * *
60525010 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
60525074 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
60525090 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
60525155 CCGG
66 CCGG
60525159 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:60525100 original size:40 final size:38
Alignment explanation
Indices: 60525051--60525158 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
60525041 ATCACGATTT
*
60525051 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
60525091 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
60525131 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
60525159 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:60526970 original size:376 final size:371
Alignment explanation
Indices: 60526295--60527055 Score: 808
Period size: 376 Copynumber: 2.0 Consensus size: 371
60526285 GAAACTCCTA
* * ** *
60526295 ACACAACCTCATACATACCTTACTCTTGTTGCAAGTTTAGCCAAATTCCTTCTAGATCTCTTCTA
1 ACACAACCTCATACATACCTTAATCTTGATGCAAACTTAGCCAAATTCCTTCTAGATCTCTTCCA
*
60526360 AACAAGCATGAAGCAAAAATCCTCCTTCTTCCTTAGTTTTGGCCAAAGAAGAGAAAAATAGGTGA
66 AACAAGCATGAAGCAAAAATCCTCCTTCTTCCTTAGTTTTGGCCAAAGAAGAG------AGATGA
* * * ***
60526425 ACAAAATTTTTTTCTTTGCTTCTCTTTCACTCACGGCAAAAGGGGGGGAAGGATGAGCAAATTTT
125 ACAAAATTTTTTTCTTTCCTTCTCTTACACTCACGGCAAAAGGGGGGG-AGGATGACCAAATCAC
** * ** * * * **
60526490 TGATTTTTTTGTTTCTCTTCCTACATGCTTAATTTTTTTATCATTTATCACATCATGCATTAACA
189 ACAATTTTTTGTTTCTCTTCCTACACCCATAATTTGTTTATCATTTATCACATAATGCACCAACA
* * * **
60526555 AAACATGTCATAACATGTTTTCCTTGCCCATATTCCCTTGTCATGGCCGGCCACTATACC-ATCT
254 AAACATGTCATAACATG-TTT-CTAGCCCATACTCCCTTGTCATGGCCGGCCAC--CACCTATAA
** *
60526619 TTGGGGAAATTTGACATGCAAATCCCTTATTTTTGCATGCATGC-TCAACTAGTCATC
315 AAGGGGAAATTTGACATGCAAATCCATTA-TTTTGCATGCATGCTTCAACTAGTCATC
60526676 ACACAACCTCATACATACCTTAATCTTGATGCAAACTTAGCCAAATCTCCTTCTAGATCTCTTCC
1 ACACAACCTCATACATACCTTAATCTTGATGCAAACTTAGCCAAAT-TCCTTCTAGATCTCTTCC
60526741 AAACCAAGCATGAAGCAAAAATCCTCCTTCTTCCTTAGTTTTGGCTCAAAGAA-AG-GATGAACA
65 AAA-CAAGCATGAAGCAAAAATCCTCCTTCTTCCTTAGTTTTGGC-CAAAGAAGAGAGATGAACA
* * *
60526804 AAATTTTTTTCTTTCCTTCTC-TACAACTCACGGC-AATGGGGGGG-GGATTACCACACTCACAC
128 AAATTTTTTTCTTTCCTTCTCTTAC-ACTCACGGCAAAAGGGGGGGAGGATGACCA-AATCACAC
* ** * *
60526866 ACATTTTTT-TTTCATTTTTTTATCACCCATACACCTTTGTTTATTA-TT-TCACCCTAATGCAC
191 A-ATTTTTTGTTTC-TCTTCCTA-CACCCATA-A--TTTGTTTATCATTTATCA-CATAATGCAC
* *
60526928 CAACAAAACATGTTTCATGACATG-TT-TAGCCCATCCTCCCTTGTCATGGCCGGCCACCACCTA
249 CAACAAAACATG--TCATAACATGTTTCTAGCCCATACTCCCTTGTCATGGCCGGCCACCACCTA
* * * *
60526991 TAAAAGGGGGAATTTGACATGCAAGTCCATTATTTTGCATGCATGCTTTAATTAGTCATC
312 TAAAAGGGGAAATTTGACATGCAAATCCATTATTTTGCATGCATGCTTCAACTAGTCATC
60527051 ACACA
1 ACACA
60527056 TTTCCCTATC
Statistics
Matches: 320, Mismatches: 44, Indels: 38
0.80 0.11 0.09
Matches are distributed among these distances:
373 7 0.02
374 24 0.08
375 64 0.20
376 69 0.22
377 4 0.01
378 22 0.07
379 9 0.03
380 9 0.03
381 42 0.13
382 20 0.06
383 43 0.13
384 7 0.02
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (371 bp):
ACACAACCTCATACATACCTTAATCTTGATGCAAACTTAGCCAAATTCCTTCTAGATCTCTTCCA
AACAAGCATGAAGCAAAAATCCTCCTTCTTCCTTAGTTTTGGCCAAAGAAGAGAGATGAACAAAA
TTTTTTTCTTTCCTTCTCTTACACTCACGGCAAAAGGGGGGGAGGATGACCAAATCACACAATTT
TTTGTTTCTCTTCCTACACCCATAATTTGTTTATCATTTATCACATAATGCACCAACAAAACATG
TCATAACATGTTTCTAGCCCATACTCCCTTGTCATGGCCGGCCACCACCTATAAAAGGGGAAATT
TGACATGCAAATCCATTATTTTGCATGCATGCTTCAACTAGTCATC
Found at i:60533602 original size:79 final size:80
Alignment explanation
Indices: 60533519--60533666 Score: 174
Period size: 80 Copynumber: 1.9 Consensus size: 80
60533509 TATGGTAACC
* * * *
60533519 CGCACCAAGGCCTACGGGACTTAACCC-GATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
60533582 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
60533598 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
60533663 CCGG
66 CCGG
60533667 TTATAATTTC
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
79 23 0.41
80 33 0.59
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:60533619 original size:40 final size:38
Alignment explanation
Indices: 60533559--60533666 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
60533549 ATCACGATTT
*
60533559 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
60533599 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
60533639 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
60533667 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:60535616 original size:23 final size:23
Alignment explanation
Indices: 60535590--60535639 Score: 93
Period size: 22 Copynumber: 2.2 Consensus size: 23
60535580 TTTGAAAGTA
60535590 TAGCCCTGACTATTTACAGAATG
1 TAGCCCTGACTATTTACAGAATG
60535613 TAG-CCTGACTATTTACAGAATG
1 TAGCCCTGACTATTTACAGAATG
60535635 TAGCC
1 TAGCC
60535640 AATTTTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (23 bp):
TAGCCCTGACTATTTACAGAATG
Found at i:60536369 original size:42 final size:42
Alignment explanation
Indices: 60536323--60536407 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
60536313 AATTGTATGA
60536323 TAAATATTTAACTTGTTCTTAATTATGTGTTATTAATTCTTG
1 TAAATATTTAACTTGTTCTTAATTATGTGTTATTAATTCTTG
*
60536365 TAAATATTTAACTTGTTCTTAATTATGTGTTCTTAATTCTTG
1 TAAATATTTAACTTGTTCTTAATTATGTGTTATTAATTCTTG
60536407 T
1 T
60536408 TTTGATATCC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.27, C:0.08, G:0.09, T:0.55
Consensus pattern (42 bp):
TAAATATTTAACTTGTTCTTAATTATGTGTTATTAATTCTTG
Found at i:60536404 original size:21 final size:21
Alignment explanation
Indices: 60536338--60536405 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
60536328 ATTTAACTTG
*
60536338 TTCTTAATTATGTGTTATTAA
1 TTCTTAATTATGTGTTCTTAA
* * *
60536359 TTCTTGTAAATAT-T-TAACTT-G
1 TTC-T-TAATTATGTGT-TCTTAA
60536380 TTCTTAATTATGTGTTCTTAA
1 TTCTTAATTATGTGTTCTTAA
60536401 TTCTT
1 TTCTT
60536406 GTTTTGATAT
Statistics
Matches: 34, Mismatches: 7, Indels: 12
0.64 0.13 0.23
Matches are distributed among these distances:
19 6 0.18
20 5 0.15
21 13 0.38
22 4 0.12
23 6 0.18
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.57
Consensus pattern (21 bp):
TTCTTAATTATGTGTTCTTAA
Found at i:60549146 original size:27 final size:28
Alignment explanation
Indices: 60549090--60549159 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
60549080 AAACTTGTAC
60549090 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
60549118 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
60549145 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
60549160 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:60549170 original size:27 final size:27
Alignment explanation
Indices: 60549090--60549171 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
60549080 AAACTTGTAC
* *
60549090 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
60549118 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
60549145 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
60549172 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:60551190 original size:95 final size:92
Alignment explanation
Indices: 60550967--60551198 Score: 236
Period size: 95 Copynumber: 2.5 Consensus size: 92
60550957 GAATTGACTG
* * *
60550967 TTAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCGTGTAAGAC
1 TTAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGACAAGGATACCATGTAAGAC
*
60551032 CATGTCAAGACAAGGCATTGGCATTGA
66 CATGTCAAGACAAGGCATTGGCATAGA
** **
60551059 TTAAGGACT-CCATGTAAGACCACATCAAGATGTGGCATTGGCACTAAGACAAGGATACCATGTA
1 TTAAGGA-TACCATGTAAGACCATGTCAAGACATGGCATTGG---TAAGACAAGGATACCATGTA
*** * *
60551123 AGACCATGTTTGGAACATGGCATTTGGTA-AGA
62 AGACCATGTCAAG-ACAAGGCA-TTGGCATAGA
* * * *
60551155 -TAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAG
1 TTAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
60551199 TTCTATAAGG
Statistics
Matches: 112, Mismatches: 21, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
92 39 0.35
93 1 0.01
94 1 0.01
95 57 0.51
96 9 0.08
97 5 0.04
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (92 bp):
TTAAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGACAAGGATACCATGTAAGAC
CATGTCAAGACAAGGCATTGGCATAGA
Found at i:60551285 original size:55 final size:54
Alignment explanation
Indices: 60551156--60551352 Score: 245
Period size: 54 Copynumber: 3.6 Consensus size: 54
60551146 TTGGTAAGAT
* * *
60551156 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* * * * *
60551210 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTAATGAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGG-C
* * *
60551266 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
* *
60551318 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCA
60551353 ATGGTAAGTT
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 4 0.03
53 32 0.26
54 41 0.34
55 41 0.34
56 4 0.03
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGC
Found at i:60556323 original size:43 final size:43
Alignment explanation
Indices: 60556255--60556340 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
60556245 GTTACATGAA
* * * * *
60556255 TCGCATCCATTATGGACTTGGACCTCTCAACGAGCTCGGATGC
1 TCGCATCCATAATGAACTCGAACCTCTCAACGAGCTCAGATGC
*
60556298 TCGCATCCATAATGAACTCGAACCTCTCAATGAGCTCAGATGC
1 TCGCATCCATAATGAACTCGAACCTCTCAACGAGCTCAGATGC
60556341 CACATAACTC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (43 bp):
TCGCATCCATAATGAACTCGAACCTCTCAACGAGCTCAGATGC
Found at i:60561726 original size:31 final size:31
Alignment explanation
Indices: 60561685--60561751 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
60561675 CACTCCCGAG
60561685 CATA-TTTGCTGAATCTGACAAATTCTCTCT
1 CATATTTTGCTGAATCTGACAAATTCTCTCT
* **
60561715 CATATTTTGCTGAGTCTGATGAATTCTCTCT
1 CATATTTTGCTGAATCTGACAAATTCTCTCT
*
60561746 TATATT
1 CATATT
60561752 CACTAACTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 4 0.12
31 28 0.88
ACGTcount: A:0.24, C:0.19, G:0.12, T:0.45
Consensus pattern (31 bp):
CATATTTTGCTGAATCTGACAAATTCTCTCT
Found at i:60562728 original size:20 final size:20
Alignment explanation
Indices: 60562703--60562754 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
60562693 GAGGTAATGC
60562703 ACACGCCCGTGTGCATTGGG
1 ACACGCCCGTGTGCATTGGG
60562723 ACACGCCCGTGTGCATTGGG
1 ACACGCCCGTGTGCATTGGG
60562743 ACACGCCCGTGT
1 ACACGCCCGTGT
60562755 CCCTTACCCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.15, C:0.33, G:0.33, T:0.19
Consensus pattern (20 bp):
ACACGCCCGTGTGCATTGGG
Found at i:60562866 original size:28 final size:29
Alignment explanation
Indices: 60562812--60562866 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
60562802 ATAGGGGTTT
* *
60562812 TCACATGGCCAAGCACACGCCCGTGTCCC
1 TCACACGGCCAAGCACACGCCCATGTCCC
* *
60562841 TCACACGGCCTAG-ACACGCTCATGTC
1 TCACACGGCCAAGCACACGCCCATGTC
60562867 ATCGCCTATG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 11 0.50
29 11 0.50
ACGTcount: A:0.22, C:0.42, G:0.20, T:0.16
Consensus pattern (29 bp):
TCACACGGCCAAGCACACGCCCATGTCCC
Found at i:60564669 original size:37 final size:37
Alignment explanation
Indices: 60564619--60564692 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
60564609 ATAATGCCAA
60564619 ATTTAACTTATTTATTATTCACATTACTCAAACAGAT
1 ATTTAACTTATTTATTATTCACATTACTCAAACAGAT
* *
60564656 ATTTAACTTATTTATTATTCACATTGCTCAAATAGAT
1 ATTTAACTTATTTATTATTCACATTACTCAAACAGAT
60564693 CCATAATTCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.36, C:0.15, G:0.04, T:0.45
Consensus pattern (37 bp):
ATTTAACTTATTTATTATTCACATTACTCAAACAGAT
Done.