Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 190 of 356
Found at i:61844997 original size:17 final size:17
Alignment explanation
Indices: 61844960--61844999 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
61844950 CCCCTAGGTG
*
61844960 TGGGCCACTGCATTTAC
1 TGGGCCACTGCATTGAC
* *
61844977 TGGGCCACTGTATTGAT
1 TGGGCCACTGCATTGAC
61844994 TGGGCC
1 TGGGCC
61845000 TCACTTGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.25, G:0.30, T:0.30
Consensus pattern (17 bp):
TGGGCCACTGCATTGAC
Found at i:61850194 original size:15 final size:15
Alignment explanation
Indices: 61850174--61850228 Score: 65
Period size: 15 Copynumber: 3.7 Consensus size: 15
61850164 GTATCGTATC
61850174 TTGGATTTCTCTATT
1 TTGGATTTCTCTATT
* *
61850189 TTGGATCTCTTTATT
1 TTGGATTTCTCTATT
* * *
61850204 CTAGATTTCTCTGTT
1 TTGGATTTCTCTATT
61850219 TTGGATTTCT
1 TTGGATTTCT
61850229 TTTTCTTGGT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.13, C:0.15, G:0.15, T:0.58
Consensus pattern (15 bp):
TTGGATTTCTCTATT
Found at i:61850237 original size:15 final size:15
Alignment explanation
Indices: 61850172--61850244 Score: 53
Period size: 15 Copynumber: 4.9 Consensus size: 15
61850162 CGGTATCGTA
*
61850172 TCTTGGATTTCTCTAT
1 TCTTGGATTTCT-TTT
*
61850188 T-TTGGATCTCTTTAT
1 TCTTGGATTTCTTT-T
* *
61850203 TC-TAGATTTCTCTGT
1 TCTTGGATTTCT-TTT
61850218 T-TTGGATTTCTTTT
1 TCTTGGATTTCTTTT
*
61850232 TCTTGGTTTTCTT
1 TCTTGGATTTCTT
61850245 ACCATCTCTA
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
14 4 0.09
15 38 0.86
16 2 0.05
ACGTcount: A:0.10, C:0.15, G:0.14, T:0.62
Consensus pattern (15 bp):
TCTTGGATTTCTTTT
Found at i:61850243 original size:30 final size:31
Alignment explanation
Indices: 61850172--61850243 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 31
61850162 CGGTATCGTA
61850172 TCTTGGATTTCTCTATTTTGGATCTCTTTAT
1 TCTTGGATTTCTCTATTTTGGATCTCTTTAT
* * *
61850203 TC-TAGATTTCTCTGTTTTGGATTTCTTT-T
1 TCTTGGATTTCTCTATTTTGGATCTCTTTAT
*
61850232 TCTTGGTTTTCT
1 TCTTGGATTTCT
61850244 TACCATCTCT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 3 0.09
30 30 0.86
31 2 0.06
ACGTcount: A:0.10, C:0.15, G:0.14, T:0.61
Consensus pattern (31 bp):
TCTTGGATTTCTCTATTTTGGATCTCTTTAT
Found at i:61852159 original size:20 final size:21
Alignment explanation
Indices: 61852120--61852159 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
61852110 AAGGGCTATT
*
61852120 TTGTAAAGTTTGTAAAATAAG
1 TTGTAAAGTCTGTAAAATAAG
*
61852141 TTGTAAA-TCTGTGAAATAA
1 TTGTAAAGTCTGTAAAATAA
61852160 TTGAAATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.42, C:0.03, G:0.17, T:0.38
Consensus pattern (21 bp):
TTGTAAAGTCTGTAAAATAAG
Found at i:61853054 original size:49 final size:47
Alignment explanation
Indices: 61852960--61853090 Score: 136
Period size: 49 Copynumber: 2.7 Consensus size: 47
61852950 TGAAATGTAT
* * *
61852960 CAGTGTAAGACCTGTCTGAGACATGGCATCAACACCGATAGGTGAGAGC
1 CAGTGTAAGACCTGTTTGGGACATGGCATCAACACAGATAGGT--GAGC
* * ** *
61853009 CAGTGTCAGACCTGTTTGGGACATGGCATCTACTTAGATATGTGAGC
1 CAGTGTAAGACCTGTTTGGGACATGGCATCAACACAGATAGGTGAGC
* * *
61853056 CAATGTAAGACCATATTTGGAACATGGCATCAACA
1 CAGTGTAAGACC-TGTTTGGGACATGGCATCAACA
61853091 TCTTTCCTAT
Statistics
Matches: 67, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
47 14 0.21
48 18 0.27
49 35 0.52
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (47 bp):
CAGTGTAAGACCTGTTTGGGACATGGCATCAACACAGATAGGTGAGC
Found at i:61860981 original size:23 final size:22
Alignment explanation
Indices: 61860939--61860982 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
61860929 AATAATAATT
*
61860939 TAATTCAATTAATTACTTCAAA
1 TAATTCAATTAATTAATTCAAA
61860961 TAATCTCAATT-ATTCAATTCAA
1 TAAT-TCAATTAATT-AATTCAA
61860983 GTCTATAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (22 bp):
TAATTCAATTAATTAATTCAAA
Found at i:61865791 original size:15 final size:16
Alignment explanation
Indices: 61865771--61865806 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
61865761 AATTGGAAAG
61865771 ATGAAAAGTT-ATTAA
1 ATGAAAAGTTAATTAA
*
61865786 ATGAAAATTTAATTAA
1 ATGAAAAGTTAATTAA
61865802 ATGAA
1 ATGAA
61865807 TCAAAAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (16 bp):
ATGAAAAGTTAATTAA
Found at i:61872077 original size:16 final size:17
Alignment explanation
Indices: 61872056--61872089 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
61872046 ATCCGTTTGA
61872056 AATACAAG-AAAATGAT
1 AATACAAGAAAAATGAT
61872072 AATACAAGAAAAATGAT
1 AATACAAGAAAAATGAT
61872089 A
1 A
61872090 TACGAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (17 bp):
AATACAAGAAAAATGAT
Found at i:61873945 original size:44 final size:46
Alignment explanation
Indices: 61873890--61874148 Score: 131
Period size: 47 Copynumber: 5.6 Consensus size: 46
61873880 TATGCGTGCT
*
61873890 GATGAATGTCCCAGACATGTCTTACACTAGCACAACTCT-T-A-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGC-CAACTCTATCAGGCC
* * * * * *
61873934 GATGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTATCGAGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCCAACTCTATC-AGGCC
* * **
61873981 GATGCATGTCCCAGACATGTCTTACTCT-GGC-ACTCATAAT-ATGGTT
1 GATGCATGTCCCAGACATGTCTTACACTAGCCAACTC-T-ATCA-GGCC
* * * ** ** * *
61874027 GAAGCATGTCCCAGATATGACTTACACTAGCCTTCATCT-GGATGTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCCAAC-TCTATCAGGCC
* * **
61874073 GATGCCATGTCCCAGACATGGTCTTACACT-GGC-TCTCATAATGTGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCCAACTC-T-ATCAGGCC
* *
61874121 AAAGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
61874149 GGCGCACAAA
Statistics
Matches: 166, Mismatches: 33, Indels: 30
0.72 0.14 0.13
Matches are distributed among these distances:
43 5 0.03
44 28 0.17
45 6 0.04
46 48 0.29
47 61 0.37
48 16 0.10
49 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCCAACTCTATCAGGCC
Found at i:61873994 original size:47 final size:44
Alignment explanation
Indices: 61873887--61874013 Score: 139
Period size: 44 Copynumber: 2.8 Consensus size: 44
61873877 ATATATGCGT
* *
61873887 GCTGATGAATGTCCCAGACATGTCTTACACTAGCACAACTCTTA
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGCACAACTCTTA
* * * * *
61873931 GCCGATGCGTGTCCCAGACACGTCTTACACTGGC-TATCTCTATCGA
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGCACAACTCT-T--A
*
61873977 GGCTGATGCATGTCCCAGACATGTCTTACTCTGGCAC
1 -GCTGATGCATGTCCCAGACATGTCTTACACTGGCAC
61874014 TCATAATATG
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
43 5 0.08
44 30 0.45
46 1 0.02
47 30 0.45
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (44 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTGGCACAACTCTTA
Found at i:61874129 original size:47 final size:45
Alignment explanation
Indices: 61873984--61874151 Score: 169
Period size: 46 Copynumber: 3.6 Consensus size: 45
61873974 CGAGGCTGAT
* * *
61873984 GCATGTCCCAGACATGTCTTACTCTGGCACTCATAATATGGTTGAA
1 GCATGTCCCAGACATGTCTTACACTGGC-CTCATAATGTGGTCGAA
* * * * *
61874030 GCATGTCCCAGATATGACTTACACTAGCCTTCAT-CTG-GATGTCGAT
1 GCATGTCCCAGACATGTCTTACACTGGCC-TCATAATGTG--GTCGAA
* *
61874076 GCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCAAA
1 G-CATGTCCCAGACAT-GTCTTACACTGGC-CTCATAATGTGGTCGAA
61874124 GCATGTCCCAGACATGTCTTACACTGGC
1 GCATGTCCCAGACATGTCTTACACTGGC
61874152 GCACAAATCA
Statistics
Matches: 99, Mismatches: 15, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
44 1 0.01
45 2 0.02
46 46 0.46
47 27 0.27
48 19 0.19
49 3 0.03
50 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (45 bp):
GCATGTCCCAGACATGTCTTACACTGGCCTCATAATGTGGTCGAA
Found at i:61875721 original size:13 final size:13
Alignment explanation
Indices: 61875703--61875733 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
61875693 GGTACATGGG
61875703 CGTGTAGTTAGGC
1 CGTGTAGTTAGGC
61875716 CGTGTAGTTAGGC
1 CGTGTAGTTAGGC
61875729 CGTGT
1 CGTGT
61875734 GTCCCCTGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.13, C:0.16, G:0.39, T:0.32
Consensus pattern (13 bp):
CGTGTAGTTAGGC
Found at i:61879317 original size:14 final size:14
Alignment explanation
Indices: 61879298--61879338 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
61879288 AAGTTTATAT
61879298 ATTTAAATAAAATA
1 ATTTAAATAAAATA
*
61879312 ATTTAAATATAATA
1 ATTTAAATAAAATA
*
61879326 ATTAAAATAAAAT
1 ATTTAAATAAAAT
61879339 TACATCAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
ATTTAAATAAAATA
Found at i:61881053 original size:11 final size:12
Alignment explanation
Indices: 61881032--61881056 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61881022 CTATTATGAA
61881032 TTTGTTTTTTTT
1 TTTGTTTTTTTT
61881044 TTTGTTTTTTTT
1 TTTGTTTTTTTT
61881056 T
1 T
61881057 CTTACATTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (12 bp):
TTTGTTTTTTTT
Found at i:61883495 original size:20 final size:20
Alignment explanation
Indices: 61883457--61883500 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
61883447 AATAGGGATA
*
61883457 ATTTGTATATATATATATGT
1 ATTTGTAAATATATATATGT
* *
61883477 ATTTGTAAATGTATGTATGT
1 ATTTGTAAATATATATATGT
61883497 -TTTG
1 ATTTG
61883501 GTGCTTGCAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (20 bp):
ATTTGTAAATATATATATGT
Found at i:61883558 original size:22 final size:19
Alignment explanation
Indices: 61883501--61883545 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
61883491 GTATGTTTTG
61883501 GTGCTTGCACAAATGATGT
1 GTGCTTGCACAAATGATGT
61883520 GTGCTTGCACAAATGATGT
1 GTGCTTGCACAAATGATGT
61883539 GTGCTTG
1 GTGCTTG
61883546 ATAGCTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (19 bp):
GTGCTTGCACAAATGATGT
Found at i:61885000 original size:4 final size:4
Alignment explanation
Indices: 61884991--61885045 Score: 110
Period size: 4 Copynumber: 13.8 Consensus size: 4
61884981 CCCTGACTTC
61884991 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
61885039 TGTA TGT
1 TGTA TGT
61885046 GCTCTCTGTG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.24, C:0.00, G:0.25, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:61885623 original size:25 final size:25
Alignment explanation
Indices: 61885594--61885653 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
61885584 AAACCAAACC
**
61885594 AAGCCTTTGTGGTGAA-TTGTTTGGG
1 AAGCCTTTGTGGT-AAGTCATTTGGG
61885619 AAGCCTTTGTGGTAAGTCATTTGGG
1 AAGCCTTTGTGGTAAGTCATTTGGG
61885644 AAGCCTTTGT
1 AAGCCTTTGT
61885654 TCTATAAAGC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 2 0.06
25 30 0.94
ACGTcount: A:0.18, C:0.12, G:0.32, T:0.38
Consensus pattern (25 bp):
AAGCCTTTGTGGTAAGTCATTTGGG
Found at i:61885695 original size:25 final size:24
Alignment explanation
Indices: 61885666--61885745 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 24
61885656 TATAAAGCCC
*
61885666 TTGTGGTGAATTGTTTGGGAAATCT
1 TTGTGGTGAATTGTTT-GGAAACCT
* ** * *
61885691 TTGTGGTGAGTCATTTGTAAAGCCC
1 TTGTGGTGAATTGTTTGGAAA-CCT
61885716 TTGTGGTGAATTGTTTAGGAAACCT
1 TTGTGGTGAATTGTTT-GGAAACCT
61885741 TTGTG
1 TTGTG
61885746 CGAGAAACCA
Statistics
Matches: 42, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
24 4 0.10
25 34 0.81
26 4 0.10
ACGTcount: A:0.20, C:0.09, G:0.30, T:0.41
Consensus pattern (24 bp):
TTGTGGTGAATTGTTTGGAAACCT
Found at i:61885714 original size:66 final size:66
Alignment explanation
Indices: 61885594--61885719 Score: 189
Period size: 66 Copynumber: 1.9 Consensus size: 66
61885584 AAACCAAACC
* * * *
61885594 AAGCCTTTGTGGTGAATTGTTTGGGAAGCCTTTGTGGTAAGTCATTTGGGAAGCCTTTGTTCTAT
1 AAGCCCTTGTGGTGAATTGTTTGGGAAACCTTTGTGGTAAGTCATTTGGAAAGCCCTTGTTCTAT
61885659 A
66 A
* * *
61885660 AAGCCCTTGTGGTGAATTGTTTGGGAAATCTTTGTGGTGAGTCATTTGTAAAGCCCTTGT
1 AAGCCCTTGTGGTGAATTGTTTGGGAAACCTTTGTGGTAAGTCATTTGGAAAGCCCTTGT
61885720 GGTGAATTGT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 53 1.00
ACGTcount: A:0.20, C:0.13, G:0.29, T:0.39
Consensus pattern (66 bp):
AAGCCCTTGTGGTGAATTGTTTGGGAAACCTTTGTGGTAAGTCATTTGGAAAGCCCTTGTTCTAT
A
Found at i:61887563 original size:39 final size:40
Alignment explanation
Indices: 61887431--61887566 Score: 143
Period size: 39 Copynumber: 3.5 Consensus size: 40
61887421 ATTCACTTTT
* * * **
61887431 AAGCATATATCACATTAC-ACATATAATCACATAACATTT
1 AAGCATATATCGCAATACTTCATATAATCACATAACATCC
* * *
61887470 AAGCATATATCACAATA-TTCATATAATTACATAACGTCC
1 AAGCATATATCGCAATACTTCATATAATCACATAACATCC
* * *
61887509 AATCACACATCGCAATACTT-ATATAATCACATAACATCC
1 AAGCATATATCGCAATACTTCATATAATCACATAACATCC
*
61887548 AAGCATATATTGCAATACT
1 AAGCATATATCGCAATACT
61887567 CAAAAACATG
Statistics
Matches: 79, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
39 77 0.97
40 2 0.03
ACGTcount: A:0.44, C:0.22, G:0.04, T:0.29
Consensus pattern (40 bp):
AAGCATATATCGCAATACTTCATATAATCACATAACATCC
Found at i:61889770 original size:14 final size:14
Alignment explanation
Indices: 61889751--61889779 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
61889741 AGAATTTCAT
61889751 TCAACTAAAATCAA
1 TCAACTAAAATCAA
61889765 TCAACTAAAATCAA
1 TCAACTAAAATCAA
61889779 T
1 T
61889780 TTGTCCCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (14 bp):
TCAACTAAAATCAA
Found at i:61893183 original size:27 final size:27
Alignment explanation
Indices: 61893152--61893329 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
61893142 TAAATTGTAC
61893152 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
61893179 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61893205 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
61893233 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
61893261 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61893288 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
61893315 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61893330 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:61893266 original size:82 final size:81
Alignment explanation
Indices: 61893153--61893308 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
61893143 AAATTGTACA
* *
61893153 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
61893217 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
61893234 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
61893299 TGCGAGTTGA
65 TGCGAATTGA
61893309 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:61893320 original size:82 final size:81
Alignment explanation
Indices: 61893149--61893329 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
61893139 GATTAAATTG
* *
61893149 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
61893214 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
61893230 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
61893294 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
61893312 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
61893330 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:61906071 original size:27 final size:26
Alignment explanation
Indices: 61906053--61906121 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 26
61906043 ATATTAAGTC
61906053 CGCACACTCAGTGCCATATAATCAACT
1 CGCACACTCAGTGCCATAT-ATCAACT
* *
61906080 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCCATAT-ATC-AACT
*
61906108 CGCACACTTAGTGC
1 CGCACACTCAGTGC
61906122 TGTACAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (26 bp):
CGCACACTCAGTGCCATATATCAACT
Found at i:61906116 original size:28 final size:28
Alignment explanation
Indices: 61906053--61906150 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
61906043 ATATTAAGTC
* *
61906053 CGCACACTCAGTGCCATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
61906080 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
61906108 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
61906137 CGCACACTTAGTGC
1 CGCACACTTAGTGC
61906151 CAATCTCATG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 21 0.33
28 23 0.37
29 19 0.30
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:61906616 original size:12 final size:12
Alignment explanation
Indices: 61906599--61906625 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
61906589 TGGGCATACT
61906599 TATGTATATATA
1 TATGTATATATA
61906611 TATGTATATATA
1 TATGTATATATA
61906623 TAT
1 TAT
61906626 ATACTTCGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:61914234 original size:28 final size:28
Alignment explanation
Indices: 61914171--61914348 Score: 234
Period size: 28 Copynumber: 6.4 Consensus size: 28
61914161 ATAATAAGTC
* *
61914171 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
61914198 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
61914226 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAACT
*
61914254 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
61914282 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
* * * *
61914309 CGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAA-TCAAACT
61914338 CGCACACTTAG
1 CGCACACTTAG
61914349 CGCCAATCTC
Statistics
Matches: 136, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
27 43 0.32
28 80 0.59
29 13 0.10
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:61924722 original size:17 final size:18
Alignment explanation
Indices: 61924702--61924735 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
61924692 TTGTTTGCTA
*
61924702 TTTGCTGCAATT-TGTTG
1 TTTGCTACAATTCTGTTG
61924719 TTTGCTACAATTCTGTT
1 TTTGCTACAATTCTGTT
61924736 AATAATCGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.15, C:0.15, G:0.18, T:0.53
Consensus pattern (18 bp):
TTTGCTACAATTCTGTTG
Found at i:61927103 original size:13 final size:13
Alignment explanation
Indices: 61927085--61927110 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61927075 AATTCAAATT
61927085 TATTATTAGGATA
1 TATTATTAGGATA
61927098 TATTATTAGGATA
1 TATTATTAGGATA
61927111 GGATAATCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (13 bp):
TATTATTAGGATA
Found at i:61928181 original size:46 final size:46
Alignment explanation
Indices: 61928114--61928206 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
61928104 CTTCAGTTTT
61928114 AGCTTTTGGGGCTCTTTGGATTAAAAAATTAAAAACTAGGAAGGAA
1 AGCTTTTGGGGCTCTTTGGATTAAAAAATTAAAAACTAGGAAGGAA
*
61928160 AGCTTTTGGGTCTCTTTGGATTAAAAAATTAAAAACTAGGAAGGAA
1 AGCTTTTGGGGCTCTTTGGATTAAAAAATTAAAAACTAGGAAGGAA
61928206 A
1 A
61928207 TTGCTTCTCA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.29
Consensus pattern (46 bp):
AGCTTTTGGGGCTCTTTGGATTAAAAAATTAAAAACTAGGAAGGAA
Found at i:61929571 original size:21 final size:21
Alignment explanation
Indices: 61929496--61929561 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 21
61929486 GTCTTGAATT
61929496 TGTTAGATATTGAATTTATTA
1 TGTTAGATATTGAATTTATTA
* *
61929517 TGTTTTAAGCTTGTTGAATTTATTA
1 TG--TT-AG-ATATTGAATTTATTA
61929542 TGTTAGATATTGAATTTATT
1 TGTTAGATATTGAATTTATT
61929562 TGGTTGGATA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 14 0.38
22 2 0.05
23 4 0.11
24 2 0.05
25 15 0.41
ACGTcount: A:0.29, C:0.02, G:0.15, T:0.55
Consensus pattern (21 bp):
TGTTAGATATTGAATTTATTA
Found at i:61930870 original size:28 final size:29
Alignment explanation
Indices: 61930823--61930892 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 29
61930813 AAATCATTGC
*
61930823 AATATATGT-AAAAACAATTTAAAGTATA
1 AATATATGTAAAAAACAATTTAAAATATA
*
61930851 AATTTAT-TAAAAAACAATTTAAAATATA
1 AATATATGTAAAAAACAATTTAAAATATA
61930879 AATATATGTAAAAA
1 AATATATGTAAAAA
61930893 TAGCTTTTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 1 0.03
28 30 0.81
29 6 0.16
ACGTcount: A:0.60, C:0.03, G:0.04, T:0.33
Consensus pattern (29 bp):
AATATATGTAAAAAACAATTTAAAATATA
Found at i:61931028 original size:19 final size:18
Alignment explanation
Indices: 61930971--61931020 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
61930961 AAACAGCAAA
61930971 AAAGTAAATCATTTCCAG
1 AAAGTAAATCATTTCCAG
61930989 AAAGTAAATCATTTCCAG
1 AAAGTAAATCATTTCCAG
61931007 AAAGTAAATCATTT
1 AAAGTAAATCATTT
61931021 TTCAGAAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.30
Consensus pattern (18 bp):
AAAGTAAATCATTTCCAG
Found at i:61931049 original size:14 final size:14
Alignment explanation
Indices: 61931012--61931042 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
61931002 TCCAGAAAGT
*
61931012 AAATCATTTTTCAG
1 AAATCATTTTCCAG
61931026 AAATCATTTTCCAG
1 AAATCATTTTCCAG
61931040 AAA
1 AAA
61931043 ATATTTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.35
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:61937086 original size:7 final size:7
Alignment explanation
Indices: 61937074--61937100 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
61937064 TATGTGAGGC
61937074 AAAAAAG
1 AAAAAAG
61937081 AAAAAAG
1 AAAAAAG
61937088 AAAAAAG
1 AAAAAAG
61937095 AAAAAA
1 AAAAAA
61937101 AAAGAGAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:61937251 original size:25 final size:26
Alignment explanation
Indices: 61937202--61937252 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
61937192 AATGGCTTAT
*
61937202 AATCCCCACTCCACATTACATGACAA
1 AATCCCAACTCCACATTACATGACAA
61937228 AATCCCAACTCCCACA-TACA-GACAA
1 AATCCCAACT-CCACATTACATGACAA
61937253 TCCCATGGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 5 0.22
26 13 0.57
27 5 0.22
ACGTcount: A:0.41, C:0.39, G:0.04, T:0.16
Consensus pattern (26 bp):
AATCCCAACTCCACATTACATGACAA
Found at i:61937888 original size:2 final size:2
Alignment explanation
Indices: 61937883--61937924 Score: 59
Period size: 2 Copynumber: 21.0 Consensus size: 2
61937873 TTTTTTGTAT
*
61937883 TC TC TC TC TC TC TC TC TC TC TC TC TC TC AC TC T- TGC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T-C TC TC TC
61937925 CATGATGCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 34 0.94
3 1 0.03
ACGTcount: A:0.02, C:0.48, G:0.02, T:0.48
Consensus pattern (2 bp):
TC
Found at i:61939640 original size:25 final size:26
Alignment explanation
Indices: 61939597--61939646 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
61939587 TTAATTTTTT
*
61939597 ATTTTATATTTTTTAATAGTGATTTG
1 ATTTTATATTTTTTAATAGTAATTTG
61939623 ATTTT-TAGTTTTTT-ATAGTAATTT
1 ATTTTATA-TTTTTTAATAGTAATTT
61939647 TGAATTTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (26 bp):
ATTTTATATTTTTTAATAGTAATTTG
Found at i:61939648 original size:26 final size:26
Alignment explanation
Indices: 61939592--61939663 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 26
61939582 GTTTGTTAAT
* *
61939592 TTTTTATTTTATA-TTTTTTAATAGTGA
1 TTTTGATTTT-TAGTTTTTT-ATAGTAA
61939619 -TTTGATTTTTAGTTTTTTATAGTAA
1 TTTTGATTTTTAGTTTTTTATAGTAA
* * *
61939644 TTTTGAATTTTGGGTTTTTA
1 TTTTGATTTTTAGTTTTTTA
61939664 GATTTATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
25 8 0.21
26 30 0.79
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.65
Consensus pattern (26 bp):
TTTTGATTTTTAGTTTTTTATAGTAA
Found at i:61959291 original size:27 final size:28
Alignment explanation
Indices: 61959207--61959304 Score: 117
Period size: 27 Copynumber: 3.5 Consensus size: 28
61959197 CATGAGATTG
* * * *
61959207 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
61959236 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
61959264 GCACTAAGTGTGTGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
61959291 GCATTGAGTGTGCG
1 GCACTAAGTGTGCG
61959305 GACTTAATAT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 22 0.36
28 21 0.34
29 18 0.30
ACGTcount: A:0.27, C:0.11, G:0.29, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:61959302 original size:25 final size:27
Alignment explanation
Indices: 61959235--61959293 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
61959225 TAAATTGTAC
* *
61959235 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGAGTGTGAG-TTGATTATAT
*
61959263 AGCACTAAGTGTGTGAGTTGATTATAT
1 AGCACTAAGAGTGTGAGTTGATTATAT
61959290 AGCA
1 AGCA
61959294 TTGAGTGTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 14 0.47
28 16 0.53
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGAGTGTGAGTTGATTATAT
Found at i:61967460 original size:27 final size:28
Alignment explanation
Indices: 61967377--61967473 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
61967367 CATGAGATTG
* * * *
61967377 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
61967406 -CACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
61967433 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
61967460 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
61967474 GACTTAATAT
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
27 30 0.48
28 32 0.52
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:61967487 original size:29 final size:27
Alignment explanation
Indices: 61967406--61967487 Score: 92
Period size: 27 Copynumber: 2.9 Consensus size: 27
61967396 AAATTGTACA
* *
61967406 CACTAAGTGTGCGAGTTTGATTATATAG
1 CACTAAGTGTGCGA-CTTAATTATATAG
* *
61967434 CACTAAGTGTGCGAGTTGATTATATAG
1 CACTAAGTGTGCGACTTAATTATATAG
*
61967461 CACTGAGTGTGCGGACTTAATATATAT
1 CACTAAGTGTGC-GACTTAAT-TATAT
61967488 TTTTGAATCA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
27 23 0.48
28 20 0.42
29 5 0.10
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.34
Consensus pattern (27 bp):
CACTAAGTGTGCGACTTAATTATATAG
Found at i:61974791 original size:49 final size:51
Alignment explanation
Indices: 61974727--61974869 Score: 155
Period size: 49 Copynumber: 2.8 Consensus size: 51
61974717 TATTGTGAGG
* ** **
61974727 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-TGTT-GG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAACTTCAA
* * * * *
61974776 TCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCTGATAACTTCAA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAACTTCAA
* * *
61974827 TCACGTGTGTAGTACTGAGTGCAGGCTACTACGTGTATCAGAT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
61974870 GGTTAGGTGC
Statistics
Matches: 74, Mismatches: 18, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
49 37 0.50
50 2 0.03
51 35 0.47
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (51 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAACTTCAA
Found at i:61979149 original size:31 final size:31
Alignment explanation
Indices: 61979101--61979184 Score: 93
Period size: 31 Copynumber: 2.7 Consensus size: 31
61979091 GATATTTTGA
61979101 TATTTTA-TAAT-TATTTAATTAGATAAATAT
1 TATTTTATTAATAT-TTTAATTAGATAAATAT
* **
61979131 TATTTTATTAATATTTTAATAAGATATTTAT
1 TATTTTATTAATATTTTAATTAGATAAATAT
*
61979162 TATTATTATTATTATTTT-ATTAG
1 TATT-TTATTAATATTTTAATTAG
61979185 TATATAAAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
30 7 0.15
31 26 0.57
32 13 0.28
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (31 bp):
TATTTTATTAATATTTTAATTAGATAAATAT
Found at i:61981297 original size:46 final size:46
Alignment explanation
Indices: 61981230--61981549 Score: 408
Period size: 46 Copynumber: 7.0 Consensus size: 46
61981220 ACTTTCTGAA
* * * *
61981230 ATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGAAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
61981276 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
61981322 ATGAAATGTGTAAGACCATGGTTGAAAGATAACATGGAAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
61981368 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
61981414 ATGAAAAGAATAAGACCATGGATGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
61981460 GGGAAATGAATAAGACCATGGTTGAAAGATACCACGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
61981506 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
61981550 TCGAAGATAA
Statistics
Matches: 248, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.00
46 247 1.00
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:61984465 original size:37 final size:37
Alignment explanation
Indices: 61984404--61984586 Score: 316
Period size: 37 Copynumber: 5.0 Consensus size: 37
61984394 TACGTATGAT
**
61984404 CACTTATCAC-TTGTCAC-TGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
61984439 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
61984476 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
61984513 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
61984550 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
61984587 TAAAGCTATC
Statistics
Matches: 141, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
35 9 0.06
36 5 0.04
37 127 0.90
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:61984603 original size:46 final size:46
Alignment explanation
Indices: 61984550--61984818 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
61984540 TAAGTGTAGC
* **
61984550 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
61984596 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
61984642 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
61984694 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
61984740 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
61984792 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
61984819 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:61984669 original size:52 final size:52
Alignment explanation
Indices: 61984593--61984812 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
61984583 TAGCTAAAGC
* *
61984593 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
61984646 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
61984698 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
61984744 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
61984796 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
61984813 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:61984715 original size:98 final size:98
Alignment explanation
Indices: 61984550--61984818 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
61984540 TAAGTGTAGC
* * *
61984550 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
61984615 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
61984649 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
61984714 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
61984747 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
61984812 GATCAGA
66 GATCAGA
61984819 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:61988001 original size:49 final size:49
Alignment explanation
Indices: 61987946--61988091 Score: 229
Period size: 49 Copynumber: 3.0 Consensus size: 49
61987936 TTCGTTTTCT
* *
61987946 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
61987995 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
61988044 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-AATCACAT
61988092 GTTCACATGT
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 82 0.93
50 6 0.07
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
Found at i:61989782 original size:40 final size:40
Alignment explanation
Indices: 61989699--61989961 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
61989689 TTGAATGCTG
* * * * * *
61989699 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
61989739 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
61989779 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
61989819 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
61989859 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
61989899 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
61989938 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
61989962 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:61989981 original size:79 final size:80
Alignment explanation
Indices: 61989738--61989996 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
61989728 AAGTGAATAT
* * * * * *
61989738 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
61989802 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
61989818 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
61989883 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
61989898 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
61989962 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
61989977 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
61989997 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:61997707 original size:40 final size:40
Alignment explanation
Indices: 61997624--61997886 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
61997614 TTGAATGCTG
* * * * * *
61997624 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
61997664 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
61997704 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
61997744 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
61997784 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
61997824 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
61997863 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
61997887 TGAACGAGGA
Statistics
Matches: 201, Mismatches: 19, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.17
40 158 0.79
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:61997906 original size:79 final size:80
Alignment explanation
Indices: 61997663--61997921 Score: 256
Period size: 80 Copynumber: 3.3 Consensus size: 80
61997653 AAGTGAATAT
* * * * * *
61997663 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** * *
61997727 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
61997743 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
** ** *
61997808 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * *
61997823 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
* *
61997887 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
61997902 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
61997922 TACGTGATTT
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
78 14 0.09
79 48 0.31
80 94 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATT
CGAACGAGGAGCTAA
Found at i:62005001 original size:39 final size:40
Alignment explanation
Indices: 62004904--62005001 Score: 137
Period size: 40 Copynumber: 2.5 Consensus size: 40
62004894 CGGATGATAA
* * *
62004904 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGTTACTATAT
62004944 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGTTA-CTATAT
*
62004984 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
62005002 TACTTGGTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
39 17 0.32
40 36 0.68
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGTTACTATAT
Found at i:62013968 original size:26 final size:27
Alignment explanation
Indices: 62013924--62013975 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
62013914 GCGAGGCTGC
62013924 CAGATATTGTGACGAAGT-CACCAGAA
1 CAGATATTGTGACGAAGTCCACCAGAA
*
62013950 CAGATATATGTGGCG-AGTCCACCAGA
1 CAGATAT-TGTGACGAAGTCCACCAGA
62013976 TTGCAGCGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGACGAAGTCCACCAGAA
Found at i:62023255 original size:46 final size:49
Alignment explanation
Indices: 62023166--62023271 Score: 137
Period size: 46 Copynumber: 2.2 Consensus size: 49
62023156 TACATGAATT
* **
62023166 ATTCCTGTCTCCAATGCCATATATATATCTAATATGGGCTTACATGGCTC
1 ATTCCTGTCTCCAAAGCCA-ATATATATCTAATATGCACTTACATGGCTC
*
62023216 ATTCCTGTCTCCAAAGCC-ATATAT-T-TGATATGCACTTACATGGCTC
1 ATTCCTGTCTCCAAAGCCAATATATATCTAATATGCACTTACATGGCTC
*
62023262 ATTTCTGTCT
1 ATTCCTGTCT
62023272 TGTCCTGTCC
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
46 27 0.53
47 1 0.02
48 6 0.12
50 17 0.33
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.38
Consensus pattern (49 bp):
ATTCCTGTCTCCAAAGCCAATATATATCTAATATGCACTTACATGGCTC
Found at i:62025660 original size:15 final size:15
Alignment explanation
Indices: 62025637--62025667 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
62025627 TCAAAAATTC
62025637 CAATACAAAACATAT
1 CAATACAAAACATAT
*
62025652 CAATCCAAAACATAT
1 CAATACAAAACATAT
62025667 C
1 C
62025668 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:62034137 original size:48 final size:47
Alignment explanation
Indices: 62034055--62034279 Score: 191
Period size: 48 Copynumber: 4.9 Consensus size: 47
62034045 TAGGGTTATG
* * * * *
62034055 TGTGATCCCATGTAAGACCATGTCTGTGACATGGCATTGGCACCGATA
1 TGTGATCCCATGTAAGACCATATTTGGGATAT-GCATTGGCATCGATA
* * *
62034103 TGTGATCCCATGTAAGACCATATATGGGATATGGCATTGGAATCTATA
1 TGTGATCCCATGTAAGACCATATTTGGGATAT-GCATTGGCATCGATA
** * *
62034151 TGTGATTTCTTGTAAGACCATGTTTGGG--A--CA-TGGCATCGATA
1 TGTGATCCCATGTAAGACCATATTTGGGATATGCATTGGCATCGATA
* * * * *
62034193 TGAGA-CATCGTGTAAGACCATAGTTGGGCTAT-C---GGCATCGATA
1 TGTGATC-CCATGTAAGACCATATTTGGGATATGCATTGGCATCGATA
62034236 TGTGATCCCATGTAAGACCATATTTGGGATATGACATTGGCATC
1 TGTGATCCCATGTAAGACCATATTTGGGATATG-CATTGGCATC
62034280 TTACTATGTG
Statistics
Matches: 143, Mismatches: 24, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
42 31 0.22
43 37 0.26
44 2 0.01
45 2 0.01
46 1 0.01
48 70 0.49
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (47 bp):
TGTGATCCCATGTAAGACCATATTTGGGATATGCATTGGCATCGATA
Found at i:62034250 original size:43 final size:43
Alignment explanation
Indices: 62034093--62034263 Score: 127
Period size: 43 Copynumber: 3.9 Consensus size: 43
62034083 ACATGGCATT
* *
62034093 GGCACCGATATGTGATCCCATGTAAGACCATA-TATGGGATATGGC
1 GGCATCGATATGTGATCCCATGTAAGACCATAGT-TGGGCTAT--C
* * ** *
62034138 ATTGGAATCTATATGTGATTTCTTGTAAGACCAT-GTTTGGGAC-AT-
1 ---GGCATCGATATGTGATCCCATGTAAGACCATAG-TTGGG-CTATC
* * *
62034183 GGCATCGATATGAGA-CATCGTGTAAGACCATAGTTGGGCTATC
1 GGCATCGATATGTGATC-CCATGTAAGACCATAGTTGGGCTATC
*
62034226 GGCATCGATATGTGATCCCATGTAAGACCATATTTGGG
1 GGCATCGATATGTGATCCCATGTAAGACCATAGTTGGG
62034264 ATATGACATT
Statistics
Matches: 99, Mismatches: 16, Indels: 21
0.73 0.12 0.15
Matches are distributed among these distances:
41 1 0.01
42 32 0.32
43 33 0.33
44 1 0.01
48 31 0.31
49 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (43 bp):
GGCATCGATATGTGATCCCATGTAAGACCATAGTTGGGCTATC
Found at i:62035336 original size:292 final size:291
Alignment explanation
Indices: 62034790--62035341 Score: 1032
Period size: 292 Copynumber: 1.9 Consensus size: 291
62034780 TTTATGTGTC
62034790 ATTAATTTAGCAAGCGTGTTGGCTTATAATGATTTGATGATTCATTTTGTATATGGCCATGAGAT
1 ATTAATTTAGCAAGCGTGTTGGCTTATAATGATTTGATGATTCATTTTGTATATGGCCATGAGAT
*
62034855 ATGGTTCATATTGATTATTAGGTTGTAAACCTAATTATTTATGCATGCATGTGTCAAAGTCTTGA
66 ATGGTTCATATTGACTATTAGGTTGTAAACCTAATTATTTATGCATGCATGTGTCAAAGTCTTGA
*
62034920 TGATGATGGATGGTGTTATATGGCATACAAGTATGATGAATGGATGATGACAAATTGGTATGGCT
131 TGATAATGGATGGTGTTATATGGCATACAAGTATGATGAATGGATGATGACAAATTGGTATGGCT
* *
62034985 ATGATCATGGTTTAAATGTGTGAATTGAGAGTAGATTAATAATGTTGATTGGCTATGAAATTGGT
196 ATGATCATAGTTTAAATGTGTGAATTGAGAGTAGATTAATAATGTTGATTGGATATGAAATTGGT
62035050 AAGTAAGCTTGTTAATTTGAGTATGTGTTAT
261 AAGTAAGCTTGTTAATTTGAGTATGTGTTAT
* *
62035081 ATTAATTTGGCCAAGTGTGTTGGCTTATAATGATTTGATGATTCATTTTGTATATGGCCATGAGA
1 ATTAATTTAG-CAAGCGTGTTGGCTTATAATGATTTGATGATTCATTTTGTATATGGCCATGAGA
*
62035146 TATGGTTCATATTGACTATTGGGTTGTAAACCTAATTATTTATGCATGCATGTGTCAAAGTCTTG
65 TATGGTTCATATTGACTATTAGGTTGTAAACCTAATTATTTATGCATGCATGTGTCAAAGTCTTG
62035211 ATGATAATGGATGGTGTTATATGGCATACAAGTATGATGAATGGATGATGACAAATTGGTATGGC
130 ATGATAATGGATGGTGTTATATGGCATACAAGTATGATGAATGGATGATGACAAATTGGTATGGC
62035276 TATGATCATAGTTTAAATGTGTGAATTGAGAGTAGATTAATAATGTTGATTGGATATGAAATTGG
195 TATGATCATAGTTTAAATGTGTGAATTGAGAGTAGATTAATAATGTTGATTGGATATGAAATTGG
62035341 T
260 T
62035342 GTGGAGTGCC
Statistics
Matches: 253, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
291 9 0.04
292 244 0.96
ACGTcount: A:0.30, C:0.07, G:0.24, T:0.39
Consensus pattern (291 bp):
ATTAATTTAGCAAGCGTGTTGGCTTATAATGATTTGATGATTCATTTTGTATATGGCCATGAGAT
ATGGTTCATATTGACTATTAGGTTGTAAACCTAATTATTTATGCATGCATGTGTCAAAGTCTTGA
TGATAATGGATGGTGTTATATGGCATACAAGTATGATGAATGGATGATGACAAATTGGTATGGCT
ATGATCATAGTTTAAATGTGTGAATTGAGAGTAGATTAATAATGTTGATTGGATATGAAATTGGT
AAGTAAGCTTGTTAATTTGAGTATGTGTTAT
Found at i:62035593 original size:29 final size:29
Alignment explanation
Indices: 62035559--62035622 Score: 119
Period size: 29 Copynumber: 2.2 Consensus size: 29
62035549 GTGTGTAGGC
*
62035559 CGTGTGTGACACATGGTCAGCCCCATGGG
1 CGTGTGTGACACACGGTCAGCCCCATGGG
62035588 CGTGTGTGACACACGGTCAGCCCCATGGG
1 CGTGTGTGACACACGGTCAGCCCCATGGG
62035617 CGTGTG
1 CGTGTG
62035623 ACCTGACCGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.16, C:0.28, G:0.36, T:0.20
Consensus pattern (29 bp):
CGTGTGTGACACACGGTCAGCCCCATGGG
Found at i:62036623 original size:30 final size:31
Alignment explanation
Indices: 62036569--62036629 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
62036559 TTAGTTATTC
*
62036569 TTTAAAAGAGTTTTAGATTAAATAATAATTA
1 TTTAAAAGAGTTTTAGAGTAAATAATAATTA
62036600 TTTAAAAGAGTTTTAG-GTAAATAATAATTA
1 TTTAAAAGAGTTTTAGAGTAAATAATAATTA
62036630 AAACAGAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 13 0.45
31 16 0.55
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (31 bp):
TTTAAAAGAGTTTTAGAGTAAATAATAATTA
Found at i:62057589 original size:26 final size:28
Alignment explanation
Indices: 62057514--62057589 Score: 77
Period size: 28 Copynumber: 2.8 Consensus size: 28
62057504 ATGATAAAAG
* *
62057514 AAATTA-CTAAAACACCCTCAATTTGTAA
1 AAATTACCT-AAATACCCTCGATTTGTAA
*
62057542 AAATTACCTAAATACCCCCGATTTGT-A
1 AAATTACCTAAATACCCTCGATTTGTAA
* *
62057569 AAATTATC-GAATACCCTCGAT
1 AAATTACCTAAATACCCTCGAT
62057590 GAATTCTAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 11 0.27
27 8 0.20
28 20 0.49
29 2 0.05
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.29
Consensus pattern (28 bp):
AAATTACCTAAATACCCTCGATTTGTAA
Found at i:62057790 original size:25 final size:25
Alignment explanation
Indices: 62057760--62057807 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
62057750 AATACCCATG
*
62057760 ATTTGTGAAATTATCGAAA-ACCTTA
1 ATTTGTAAAATTA-CGAAACACCTTA
62057785 ATTTGTAAAATTACGAAACACCT
1 ATTTGTAAAATTACGAAACACCT
62057808 CGATTTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (25 bp):
ATTTGTAAAATTACGAAACACCTTA
Found at i:62057813 original size:25 final size:25
Alignment explanation
Indices: 62057661--62057868 Score: 102
Period size: 24 Copynumber: 8.5 Consensus size: 25
62057651 AATACACCCT
*
62057661 GATTT-TAAAATTACGAAA-AACTCC
1 GATTTGTAAAATTACGAAATACCT-C
*
62057685 GA-TTGTAAAATTATGAAATA-CTC
1 GATTTGTAAAATTACGAAATACCTC
*
62057708 TAATTTGT-AAATT-C-AAATACCCTC
1 -GATTTGTAAAATTACGAAATA-CCTC
* *
62057732 GATTGGTAAAATTACCAAAATACC-C
1 GATTTGTAAAATTA-CGAAATACCTC
* *
62057757 ATGATTTGTGAAATTATCGAAA-ACCTT
1 --GATTTGTAAAATTA-CGAAATACCTC
* *
62057784 AATTTGTAAAATTACGAAACACCTC
1 GATTTGTAAAATTACGAAATACCTC
* *
62057809 GATTTAT-AAATTATC-AAATACCCC
1 GATTTGTAAAATTA-CGAAATACCTC
* *
62057833 AATTT-TAAAA-TATC-AAATATCCTT
1 GATTTGTAAAATTA-CGAAATA-CCTC
*
62057857 AATTTGTAAAAT
1 GATTTGTAAAAT
62057869 ATAAAATACC
Statistics
Matches: 145, Mismatches: 20, Indels: 36
0.72 0.10 0.18
Matches are distributed among these distances:
22 5 0.03
23 18 0.12
24 62 0.43
25 33 0.23
26 6 0.04
27 21 0.14
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.34
Consensus pattern (25 bp):
GATTTGTAAAATTACGAAATACCTC
Found at i:62057828 original size:75 final size:74
Alignment explanation
Indices: 62057654--62057868 Score: 186
Period size: 75 Copynumber: 2.9 Consensus size: 74
62057644 ACACTAAAAT
* * * *
62057654 ACACCCT-GATTTTAAAATTACGAAAA-ACTCCGA-TTGTAAAATTAT-GAAATA-CTCTAATTT
1 ACACCCTCGATTGTAAAATTACCAAAATACCCCAATTTGT-AAATTATCGAAATACCT-TAATTT
62057714 GT-AAATTCAA
64 GTAAAATTCAA
*
62057724 ATACCCTCGATTGGTAAAATTACCAAAATA-CCCATGATTTGTGAAATTATCGAAA-ACCTTAAT
1 ACACCCTCGATT-GTAAAATTACCAAAATACCCCA--ATTTGT-AAATTATCGAAATACCTTAAT
62057787 TTGTAAAATTACGAA
62 TTGTAAAATT-C-AA
* *
62057802 ACA-CCTCGATT-TATAAATTATC-AAATACCCCAATTT-TAAAATATC-AAATATCCTTAATTT
1 ACACCCTCGATTGTA-AAATTACCAAAATACCCCAATTTGTAAATTATCGAAATA-CCTTAATTT
62057862 GTAAAAT
64 GTAAAAT
62057869 ATAAAATACC
Statistics
Matches: 121, Mismatches: 9, Indels: 27
0.77 0.06 0.17
Matches are distributed among these distances:
70 6 0.05
71 7 0.06
72 23 0.19
73 18 0.15
74 5 0.04
75 27 0.22
76 22 0.18
77 9 0.07
78 4 0.03
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (74 bp):
ACACCCTCGATTGTAAAATTACCAAAATACCCCAATTTGTAAATTATCGAAATACCTTAATTTGT
AAAATTCAA
Found at i:62057846 original size:23 final size:24
Alignment explanation
Indices: 62057810--62057879 Score: 79
Period size: 23 Copynumber: 2.9 Consensus size: 24
62057800 AAACACCTCG
*
62057810 ATTTATAAATTATCAAATACCCCA
1 ATTTATAAAATATCAAATACCCCA
**
62057834 ATTT-TAAAATATCAAATATCCTTA
1 ATTTATAAAATATCAAATA-CCCCA
* *
62057858 ATTTGTAAAATATAAAATACCC
1 ATTTATAAAATATCAAATACCC
62057880 TTGTAGTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
23 13 0.33
24 13 0.33
25 13 0.33
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.36
Consensus pattern (24 bp):
ATTTATAAAATATCAAATACCCCA
Found at i:62057875 original size:25 final size:24
Alignment explanation
Indices: 62057810--62057881 Score: 74
Period size: 25 Copynumber: 3.0 Consensus size: 24
62057800 AAACACCTCG
* * *
62057810 ATTTATAAATTATCAAATACCC-CA
1 ATTT-TAAAATATAAAATACCCTTA
* *
62057834 ATTTTAAAATATCAAATATCCTTA
1 ATTTTAAAATATAAAATACCCTTA
62057858 ATTTGTAAAATATAAAATACCCTT
1 ATTT-TAAAATATAAAATACCCTT
62057882 GTAGTTAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
23 15 0.37
24 9 0.22
25 17 0.41
ACGTcount: A:0.46, C:0.15, G:0.01, T:0.38
Consensus pattern (24 bp):
ATTTTAAAATATAAAATACCCTTA
Found at i:62075788 original size:47 final size:47
Alignment explanation
Indices: 62075700--62075789 Score: 119
Period size: 47 Copynumber: 1.9 Consensus size: 47
62075690 GGTAAGTTGC
* *
62075700 CGATGCCATGTCCCAGACACAGTCTTACACTAGCTCACATCTCAAGT
1 CGATGCCATATCCCAGACACAGTCTTACACTAACTCACATCTCAAGT
* **
62075747 CGATGTCATATCCCAGACATGGTCTTACACTAACT-ATCATCTC
1 CGATGCCATATCCCAGACACAGTCTTACACTAACTCA-CATCTC
62075790 GTAGCCGATG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
46 1 0.03
47 36 0.97
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.27
Consensus pattern (47 bp):
CGATGCCATATCCCAGACACAGTCTTACACTAACTCACATCTCAAGT
Found at i:62080374 original size:46 final size:46
Alignment explanation
Indices: 62080307--62080482 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 46
62080297 TGTAACCCGC
62080307 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* * * *
62080353 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-TTCGCAT
* *** * * * *
62080399 ACATCTCTCGAACTCAGACTCAACTCAACGAGTTTGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
* *
62080446 CCATAAGAGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
62080483 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 23, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
46 72 0.69
47 32 0.31
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCAT
Found at i:62080425 original size:93 final size:93
Alignment explanation
Indices: 62080315--62080485 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
62080305 GCCCATAAGT
* * *
62080315 GAACTCGGACTCAACTCAACGAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGAGAACTCGGACTCAACTCAA
62080380 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
62080408 GAACTCAGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGAGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGAGAACTCGGACTCAACTCAA
*
62080473 CGAGTTCGGATGC
66 CGAGCTCGGATGC
62080486 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGAGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:62096678 original size:62 final size:62
Alignment explanation
Indices: 62096607--62096727 Score: 224
Period size: 62 Copynumber: 2.0 Consensus size: 62
62096597 TTGAGAGTAA
* *
62096607 GAGCAATTGATTCTAGTTGATTAATTGAAATTTCTTTCTAATTAAAACATCTATTATCACAT
1 GAGCAATTGATTCTAATTAATTAATTGAAATTTCTTTCTAATTAAAACATCTATTATCACAT
62096669 GAGCAATTGATTCTAATTAATTAATTGAAATTTCTTTCTAATTAAAACATCTATTATCA
1 GAGCAATTGATTCTAATTAATTAATTGAAATTTCTTTCTAATTAAAACATCTATTATCA
62096728 TATTAACTTG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.37, C:0.12, G:0.08, T:0.42
Consensus pattern (62 bp):
GAGCAATTGATTCTAATTAATTAATTGAAATTTCTTTCTAATTAAAACATCTATTATCACAT
Found at i:62100761 original size:3 final size:3
Alignment explanation
Indices: 62100753--62100788 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
62100743 AAGCTAAAAC
62100753 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
62100789 CAGTAAAAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:62100803 original size:30 final size:30
Alignment explanation
Indices: 62100769--62100826 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
62100759 TAATAATAAT
* *
62100769 AATAATAATAATA-ATAATAACAGTAAAAGA
1 AATAAGAATAA-ACATAATAACAGAAAAAGA
*
62100799 AATAAGACTAAACATAATAACAGAAAAA
1 AATAAGAATAAACATAATAACAGAAAAA
62100827 ACTAAAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.19
Consensus pattern (30 bp):
AATAAGAATAAACATAATAACAGAAAAAGA
Found at i:62100839 original size:22 final size:24
Alignment explanation
Indices: 62100796--62100840 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 24
62100786 TAACAGTAAA
*
62100796 AGAAATAAGACTAAACATAATAAC
1 AGAAATAAGACTAAACAAAATAAC
*
62100820 AGAAA-AA-ACTAAAGAAAATAA
1 AGAAATAAGACTAAACAAAATAA
62100841 ATAATAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 12 0.63
23 2 0.11
24 5 0.26
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.13
Consensus pattern (24 bp):
AGAAATAAGACTAAACAAAATAAC
Found at i:62100858 original size:15 final size:16
Alignment explanation
Indices: 62100834--62100878 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
62100824 AAAACTAAAG
62100834 AAAATAAATAATAA-TA
1 AAAATAAATAA-AATTA
62100850 AAAAT-AATAAAATTA
1 AAAATAAATAAAATTA
*
62100865 AAAATTAA-AAAATT
1 AAAATAAATAAAATT
62100879 GATTAAACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 2 0.07
15 18 0.67
16 7 0.26
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (16 bp):
AAAATAAATAAAATTA
Found at i:62100978 original size:16 final size:15
Alignment explanation
Indices: 62100971--62101006 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
62100961 TAGTAAAACA
62100971 AATAAATATAATAAC
1 AATAAATATAATAAC
*
62100986 AATAAATAATAATAAT
1 AATAAAT-ATAATAAC
62101002 AATAA
1 AATAA
62101007 TAAAAGGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
AATAAATATAATAAC
Found at i:62102124 original size:26 final size:24
Alignment explanation
Indices: 62102063--62102124 Score: 63
Period size: 26 Copynumber: 2.5 Consensus size: 24
62102053 TGATATTTTC
*
62102063 ATAATTGTAT-TTTTTTCATATTT
1 ATAATTGTATATATTTTCATATTT
*
62102086 TTAATTGTTTATATATTTTCATAATTGT
1 ATAATTG--TATATATTTTCAT-ATT-T
62102114 ATAATTGTATA
1 ATAATTGTATA
62102125 ATTGAAAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
23 6 0.19
25 3 0.10
26 12 0.39
27 3 0.10
28 7 0.23
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (24 bp):
ATAATTGTATATATTTTCATATTT
Found at i:62120510 original size:5 final size:5
Alignment explanation
Indices: 62120500--62120573 Score: 148
Period size: 5 Copynumber: 14.8 Consensus size: 5
62120490 GGTCTTCTAC
62120500 GATGG GATGG GATGG GATGG GATGG GATGG GATGG GATGG GATGG GATGG
1 GATGG GATGG GATGG GATGG GATGG GATGG GATGG GATGG GATGG GATGG
62120550 GATGG GATGG GATGG GATGG GATG
1 GATGG GATGG GATGG GATGG GATG
62120574 AGCCCCTGCT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 69 1.00
ACGTcount: A:0.20, C:0.00, G:0.59, T:0.20
Consensus pattern (5 bp):
GATGG
Found at i:62121113 original size:12 final size:12
Alignment explanation
Indices: 62121091--62121125 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
62121081 AATAACCCCA
62121091 CAGGCCCGTGTGC
1 CAGG-CCGTGTGC
62121104 CAGGCCGTGTGC
1 CAGGCCGTGTGC
*
62121116 TAGGCCGTGT
1 CAGGCCGTGT
62121126 AACAGCCTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.09, C:0.31, G:0.40, T:0.20
Consensus pattern (12 bp):
CAGGCCGTGTGC
Found at i:62134174 original size:19 final size:19
Alignment explanation
Indices: 62134150--62134187 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
62134140 ATTTCCTAAC
62134150 GAAATTTTAATACCACATT
1 GAAATTTTAATACCACATT
62134169 GAAATTTTAATACCACATT
1 GAAATTTTAATACCACATT
62134188 AATAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.37
Consensus pattern (19 bp):
GAAATTTTAATACCACATT
Found at i:62145869 original size:27 final size:27
Alignment explanation
Indices: 62145788--62145857 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
62145778 AAATAGGCCA
*
62145788 ATTGGTGCCACCTATGGGAAGGGCGCC
1 ATTGGTGCCACCTATGGGAAGGGCACC
* *
62145815 AGTGGTGCCGCCTATGGGAAGGGCACC
1 ATTGGTGCCACCTATGGGAAGGGCACC
62145842 ATTGGTGCCACCTATG
1 ATTGGTGCCACCTATG
62145858 TCATGGGCAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.19, C:0.26, G:0.36, T:0.20
Consensus pattern (27 bp):
ATTGGTGCCACCTATGGGAAGGGCACC
Found at i:62147913 original size:13 final size:13
Alignment explanation
Indices: 62147892--62147925 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
62147882 AAATTTTTCT
*
62147892 AAAGCACTTCTCA
1 AAAGTACTTCTCA
62147905 AAAGTACTTCTCA
1 AAAGTACTTCTCA
62147918 AAAGTACT
1 AAAGTACT
62147926 GGCCCTTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.41, C:0.24, G:0.09, T:0.26
Consensus pattern (13 bp):
AAAGTACTTCTCA
Found at i:62148977 original size:45 final size:47
Alignment explanation
Indices: 62148926--62149038 Score: 149
Period size: 45 Copynumber: 2.4 Consensus size: 47
62148916 TTTGTGTGTG
*
62148926 TATTTGAAATAATTATTTGAAATACTTCACATAT-AAA-AATAATGA
1 TATTTGAAATAATTATTTAAAATACTTCACATATAAAATAATAATGA
* * *
62148971 TATTTGAAATAGTTATTTAAAATATTTTACATATAAAAATAATAATGA
1 TATTTGAAATAATTATTTAAAATACTTCACATAT-AAAATAATAATGA
* *
62149019 TGTTTAAAATAATTATTTAA
1 TATTTGAAATAATTATTTAA
62149039 TTTTATAATA
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
45 30 0.52
47 3 0.05
48 25 0.43
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.42
Consensus pattern (47 bp):
TATTTGAAATAATTATTTAAAATACTTCACATATAAAATAATAATGA
Found at i:62149387 original size:22 final size:21
Alignment explanation
Indices: 62149338--62149388 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 21
62149328 TAAAAAGATA
62149338 AATTAAAAATAAAATATTTTT
1 AATTAAAAATAAAATATTTTT
62149359 -A--AAAAATAACAA-ATTTATT
1 AATTAAAAATAA-AATATTT-TT
62149378 AATTAAAAATA
1 AATTAAAAATA
62149389 CTAACTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
18 12 0.48
19 4 0.16
20 2 0.08
22 7 0.28
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
AATTAAAAATAAAATATTTTT
Found at i:62149439 original size:3 final size:3
Alignment explanation
Indices: 62149433--62149482 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
62149423 AACAACATGA
62149433 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
62149481 AA
1 AA
62149483 ACAAATTTGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:62149816 original size:36 final size:36
Alignment explanation
Indices: 62149725--62149816 Score: 130
Period size: 36 Copynumber: 2.6 Consensus size: 36
62149715 TTTAAAAGTT
* *
62149725 ATTTGACTTGTGTCTCTTTCATAAGCAGCCTTAAAA
1 ATTTGACTTGTGTCTCTTTTATAAGAAGCCTTAAAA
* * *
62149761 ATTTGACTTGTATCTCTTTTATAAGAAGCTTTGAAA
1 ATTTGACTTGTGTCTCTTTTATAAGAAGCCTTAAAA
*
62149797 ATTTGATTTGTGTCTCTTTT
1 ATTTGACTTGTGTCTCTTTT
62149817 TAAAAAAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 49 1.00
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.47
Consensus pattern (36 bp):
ATTTGACTTGTGTCTCTTTTATAAGAAGCCTTAAAA
Found at i:62154461 original size:43 final size:43
Alignment explanation
Indices: 62154391--62154602 Score: 241
Period size: 43 Copynumber: 5.0 Consensus size: 43
62154381 ATAGCTCATG
* * * * *
62154391 CAATGCC-ATATCCCAGATATGTTCTTACATGTTATCACATAT
1 CAATGCCAATGTCCTAGACATGGTCTTACATGTAATCACATAT
* * * * *
62154433 CGATGCCAATGTCCTAGACATGGTCTTACACGAAATCATATAA
1 CAATGCCAATGTCCTAGACATGGTCTTACATGTAATCACATAT
* * *
62154476 CGATGTCAATGTCCTAGACATGGTCTTACACGTAATCACAATAT
1 CAATGCCAATGTCCTAGACATGGTCTTACATGTAATCAC-ATAT
* *
62154520 -AATGTCAATGTCCCAGACATGGTCTTACATGTAATCACA-AT
1 CAATGCCAATGTCCTAGACATGGTCTTACATGTAATCACATAT
*
62154561 ACAATGCCAATTTCCTAGACATGGTCTTACATGTAATCACAT
1 -CAATGCCAATGTCCTAGACATGGTCTTACATGTAATCACAT
62154603 CTCGGTAATC
Statistics
Matches: 145, Mismatches: 20, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
41 2 0.01
42 7 0.05
43 133 0.92
44 3 0.02
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (43 bp):
CAATGCCAATGTCCTAGACATGGTCTTACATGTAATCACATAT
Found at i:62161184 original size:40 final size:40
Alignment explanation
Indices: 62161086--62161428 Score: 476
Period size: 40 Copynumber: 8.6 Consensus size: 40
62161076 TCCTCGTTCA
* * * * *
62161086 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
62161125 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
62161165 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
62161205 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
62161245 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
62161285 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
62161325 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
62161365 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
62161405 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
62161429 CAGCATTCAA
Statistics
Matches: 278, Mismatches: 22, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
39 37 0.13
40 233 0.84
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:62168618 original size:40 final size:40
Alignment explanation
Indices: 62168520--62168862 Score: 476
Period size: 40 Copynumber: 8.6 Consensus size: 40
62168510 TCCTCGTTCA
* * * * *
62168520 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
62168559 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
62168599 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
62168639 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
62168679 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
62168719 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
62168759 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
62168799 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
62168839 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
62168863 CAGCATTCAA
Statistics
Matches: 278, Mismatches: 22, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
39 37 0.13
40 233 0.84
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:62171011 original size:16 final size:16
Alignment explanation
Indices: 62170990--62171040 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
62170980 TGAATTACTG
62170990 ATTACAGTTCTATTCC
1 ATTACAGTTCTATTCC
*
62171006 ATTACA-TCTCTATTCT
1 ATTACAGT-TCTATTCC
*
62171022 ATTACAGTCCTATTCC
1 ATTACAGTTCTATTCC
62171038 ATT
1 ATT
62171041 CACCCCAACC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 1 0.03
16 28 0.93
17 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.04, T:0.45
Consensus pattern (16 bp):
ATTACAGTTCTATTCC
Found at i:62173020 original size:24 final size:25
Alignment explanation
Indices: 62172984--62173030 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 25
62172974 GTTTAATAAA
*
62172984 AAATAATCAAAA-TAATAAGATATT
1 AAATAATCAAAATTAAAAAGATATT
62173008 AAATAA-CACAAATTAAAAAGATA
1 AAATAATCA-AAATTAAAAAGATA
62173031 ATGATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 2 0.10
24 9 0.45
25 9 0.45
ACGTcount: A:0.66, C:0.06, G:0.04, T:0.23
Consensus pattern (25 bp):
AAATAATCAAAATTAAAAAGATATT
Found at i:62173057 original size:3 final size:3
Alignment explanation
Indices: 62173051--62173200 Score: 67
Period size: 3 Copynumber: 50.3 Consensus size: 3
62173041 CATGAACAAC
* * * * * *
62173051 AAT AAT AAT AGT AA- AAA AAGT AAA AAA AAT AAT AGT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT
* * * ** *
62173096 AAC AAT AAT AGT ACGA- AAT AAT AAT AGT AGG AA- AAA AAGT AAT AAT
1 AAT AAT AAT AAT A--AT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT
* * * * * *
62173142 AAT AAT GAT AA- AA- AAT AAT AAT AGT ACT AAT AGT GAT AAT AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
62173188 AAT AAT AAT AAT A
1 AAT AAT AAT AAT A
62173201 TATATAAAAA
Statistics
Matches: 113, Mismatches: 26, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
2 9 0.08
3 99 0.88
4 5 0.04
ACGTcount: A:0.62, C:0.02, G:0.10, T:0.26
Consensus pattern (3 bp):
AAT
Found at i:62173120 original size:16 final size:16
Alignment explanation
Indices: 62173099--62173129 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62173089 TAATAATAAC
62173099 AATAATAGTACGAAAT
1 AATAATAGTACGAAAT
*
62173115 AATAATAGTAGGAAA
1 AATAATAGTACGAAA
62173130 AAAAGTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.03, G:0.16, T:0.23
Consensus pattern (16 bp):
AATAATAGTACGAAAT
Found at i:62173207 original size:12 final size:14
Alignment explanation
Indices: 62173135--62173212 Score: 50
Period size: 15 Copynumber: 5.4 Consensus size: 14
62173125 GGAAAAAAAG
*
62173135 TAATAATAATAATGA
1 TAATAAT-ATAATAA
*
62173150 TAA-AAAATAATAA
1 TAATAATATAATAA
* * * *
62173163 TAGTACTAATAGTGA
1 TAATAAT-ATAATAA
62173178 TAATAATGATAATAA
1 TAATAAT-ATAATAA
62173193 TAATAATATATATAA
1 TAATAATATA-ATAA
*
62173208 AAATA
1 TAATA
62173213 GTAAAAATTA
Statistics
Matches: 47, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
13 8 0.17
14 6 0.13
15 33 0.70
ACGTcount: A:0.60, C:0.01, G:0.06, T:0.32
Consensus pattern (14 bp):
TAATAATATAATAA
Found at i:62175111 original size:143 final size:143
Alignment explanation
Indices: 62174882--62175367 Score: 618
Period size: 143 Copynumber: 3.4 Consensus size: 143
62174872 CTACAACTTC
* * * * ** * *
62174882 AAGGAAATAAGA-TCTGCTATCTTCAATCTTCTCCTTTGCGACTTCAGGGAGATAAGGCTGGTGG
1 AAGGAAATAAGATTC-GTTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGTTGGTGG
*
62174946 CTTCATTCTGCTCCACTG-CAACTTCAGGAAGATAAGATTCA-CTATAATTTGTAGCTTTAATCT
65 CTTCAATCTGCTCCAC-GACAACTTCAGGAAGATAAGATTCATC-ATAATTTGTAGCTTTAATCT
*
62175009 ATTCCACTGCAATGTT
128 GTTCCACTGCAATGTT
* * * *
62175025 AAGGAAATAAGATTTGTTGTTTTCAGTCTACTCCGCTGCAACTTCAGGGAGATAAGGTTAGTGGC
1 AAGGAAATAAGATTCGTTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGTTGGTGGC
* * * *
62175090 TTCAATCTGGTCCACGACAACTTCAAGAAGATAAGACTCGTCATAATTTGTAGCTTTAATCTGTT
66 TTCAATCTGCTCCACGACAACTTCAGGAAGATAAGATTCATCATAATTTGTAGCTTTAATCTGTT
*
62175155 CCACTGAAATGTT
131 CCACTGCAATGTT
* * *
62175168 AGGGAAATAAGATTCGTTGTCTTCAGTCTGCTCCGCTGTAACTTCAGGGAGATAAGGTTGGTGAC
1 AAGGAAATAAGATTCGTTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGTTGGTGGC
* * * * * * *
62175233 TTCAATCTACTCCACTACAACTTTAGGAAGATAAGATCCATCATAATATGTAGTTTTAATTTGTT
66 TTCAATCTGCTCCACGACAACTTCAGGAAGATAAGATTCATCATAATTTGTAGCTTTAATCTGTT
* *
62175298 CCACTGCAACGCT
131 CCACTGCAATGTT
* * *
62175311 AAGGAAATAAGATTCGTTGGCTTCAGTCTGCTCCGTTGCAACTTTAGGGAGATAAGG
1 AAGGAAATAAGATTCGTTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGG
62175368 CTTGTGATTT
Statistics
Matches: 296, Mismatches: 44, Indels: 6
0.86 0.13 0.02
Matches are distributed among these distances:
142 1 0.00
143 293 0.99
144 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.32
Consensus pattern (143 bp):
AAGGAAATAAGATTCGTTGTCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGTTGGTGGC
TTCAATCTGCTCCACGACAACTTCAGGAAGATAAGATTCATCATAATTTGTAGCTTTAATCTGTT
CCACTGCAATGTT
Found at i:62180617 original size:47 final size:46
Alignment explanation
Indices: 62180466--62180786 Score: 155
Period size: 47 Copynumber: 6.8 Consensus size: 46
62180456 TTGAGTTATG
* * * * * **
62180466 TGAGAGCCAGTGAAAGGCCATGTCTGGGACATGAATCAGCCACATTA
1 TGAGAGCCAGTGTAA-GACATGTCTGGGACATGCATCGGCCTCACGA
* * ** * *
62180513 TGATAGCCAGTGTAAGACCATGTCTAGGACATGGCATCAACAT-AGAGA
1 TGAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCA-CGA
* *
62180561 GGAGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACGA
1 TGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTC-ACGA
* ** * * * *
62180608 TGAAAGCCAGTGTAAGATGTGTCTAGGACATGCATAGG-CT-AAGC
1 TGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCACGA
** * * * * *
62180652 TTCGTGCTAGTGTAAGACATGTCTGGGACATGCATTAGAACGTACAC-A
1 TGAGAGCCAGTGTAAGACATGTCTGGGACATGCA-TCG-GCCT-CACGA
* * * * **
62180700 CGAGAGCTAGTGTGAGACCATGTCTGGGAGATGACATCGGCCTCGATAA
1 TGAGAGCCAGTGTAAGA-CATGTCTGGGACATG-CATCGGCCTC-ACGA
* * *
62180749 AGATAGCCAGTGTAAGACCATGTCTAGGACATGGCATC
1 TGAGAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
62180787 AGCAACTTAA
Statistics
Matches: 204, Mismatches: 55, Indels: 28
0.71 0.19 0.10
Matches are distributed among these distances:
44 28 0.14
45 3 0.01
46 10 0.05
47 75 0.37
48 37 0.18
49 48 0.24
50 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (46 bp):
TGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCACGA
Found at i:62188091 original size:94 final size:93
Alignment explanation
Indices: 62187930--62188106 Score: 241
Period size: 94 Copynumber: 1.9 Consensus size: 93
62187920 GTTATGTGAG
* * *
62187930 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAAATTGAGACGAGGGCTAGTGTAAGACATG
1 AGCCAATGTAAAACCATGTCTGGGACATGGCATC-AAATTGAGACGAGGGCCAGTGTAAGACATG
62187995 TCTAGGACATGCATCAGCCACATTCTGAT
65 TCTAGGACATGCATCAGCCACATTCTGAT
* * *
62188024 AGCCAATGTAAAATCATGTCTGGGACATGGCATC-AGTGTAGAGA-GAAGTGCCAGTGTAAGACA
1 AGCCAATGTAAAACCATGTCTGGGACATGGCATCAAAT-T-GAGACG-AGGGCCAGTGTAAGACA
*
62188087 TGTCTGGGACATGCATCAGC
63 TGTCTAGGACATGCATCAGC
62188107 TAAGCTTCTT
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
92 2 0.03
93 2 0.03
94 69 0.95
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (93 bp):
AGCCAATGTAAAACCATGTCTGGGACATGGCATCAAATTGAGACGAGGGCCAGTGTAAGACATGT
CTAGGACATGCATCAGCCACATTCTGAT
Found at i:62188187 original size:49 final size:49
Alignment explanation
Indices: 62187927--62188207 Score: 167
Period size: 47 Copynumber: 5.8 Consensus size: 49
62187917 TGAGTTATGT
* *
62187927 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-AAAT-TGAGAC
1 GAGAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCAGCAAGTAT-ACAC
* * * * * * *
62187975 GAGGGCTAGTGTAAGACATGTCTAGGACAT-GCATCAGCCA-CATTC-T
1 GAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCAAGTATACAC
* * * * * *
62188021 GATAGCCAATGTAAAATCATGTCTGGGACATGGCATCAG--TGTAGAGA-
1 GAGAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCAGCAAGTATACAC
* *
62188068 GAAGTGCCAGTGTAAGACATGTCTGGGACAT-GCATCAGCTAAGCT-T-CTTGC
1 G-AGAGCCAGTGTAAGACATGTCTGGGACATGGCATCAGC-AAG-TATAC--AC
* * ** * *
62188119 TAGTGTAAG-ATAAGACATGTCTGGGACAT-GCATCAGCACGTATACAC
1 GAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCAAGTATACAC
*
62188166 GAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCAA
1 GAGAGCCAGTGTAAGA-CATGTCTGGGACATGGCATCAGCAA
62188208 CTTAACCCAT
Statistics
Matches: 174, Mismatches: 39, Indels: 38
0.69 0.16 0.15
Matches are distributed among these distances:
46 23 0.13
47 50 0.29
48 42 0.24
49 43 0.25
50 16 0.09
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.22
Consensus pattern (49 bp):
GAGAGCCAGTGTAAGACATGTCTGGGACATGGCATCAGCAAGTATACAC
Found at i:62194902 original size:68 final size:64
Alignment explanation
Indices: 62194811--62195032 Score: 214
Period size: 67 Copynumber: 3.4 Consensus size: 64
62194801 TAATTCGGGA
* * * *
62194811 TGTATACCATGTGGACAAAAGAGCTACGAGACATTATGAGGTAGCTAGGTCGCATGGGTGATACT
1 TGTACACCATGTAGACAAGAGAGCTACGAG--A-TA-GAAGTAGCTAGGTCGCATGGGTGATACT
62194876 ATG
62 ATG
* * * * * * *
62194879 TTTACACCATGTAGACAAGAGAGCTACGAGATAGATGTAGCTAGGTTGCATGTGTGGTTCCAGGT
1 TGTACACCATGTAGACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGATACTA--T
62194944 G
64 G
* * * * *
62194945 AAGGACACCATGTAAACAAGAGAGCTACGAGATA-AAGTGGCTAGGTCACATGGGTGATACTATG
1 -TGTACACCATGTAGACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGATACTATG
62195009 TGTACACCATGT-GTACAAGAGAGC
1 TGTACACCATGTAG-ACAAGAGAGC
62195033 CAAAATTATG
Statistics
Matches: 125, Mismatches: 25, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
63 20 0.16
64 25 0.20
65 2 0.02
66 23 0.18
67 29 0.23
68 26 0.21
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.23
Consensus pattern (64 bp):
TGTACACCATGTAGACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGGGTGATACTATG
Found at i:62200622 original size:3 final size:3
Alignment explanation
Indices: 62200608--62200770 Score: 61
Period size: 3 Copynumber: 55.3 Consensus size: 3
62200598 GATTAAAAAG
* * * * * *
62200608 ATA ATG ATA ATA ATA ATA GTA A-A A-A ATA GTA A-A AAA ACA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * ** *
62200653 GTA ATA ATA ACA ATA ATA GTA CGA-A ATA ATA ATA GTA GGA A-A AAA
1 ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
62200698 AGTA ATA ATA ATA ATG ATA A-A A-A ATA ATA ATA GTA CTT ATA GTG
1 A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
62200742 ATA ATA ATG ATA ATA ATA ATA ATA TATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA A
62200771 AAAAATAAAA
Statistics
Matches: 120, Mismatches: 31, Indels: 18
0.71 0.18 0.11
Matches are distributed among these distances:
2 13 0.11
3 101 0.84
4 6 0.05
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:62200685 original size:16 final size:16
Alignment explanation
Indices: 62200664--62200694 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
62200654 TAATAATAAC
62200664 AATAATAGTACGAAAT
1 AATAATAGTACGAAAT
*
62200680 AATAATAGTAGGAAA
1 AATAATAGTACGAAA
62200695 AAAAGTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.03, G:0.16, T:0.23
Consensus pattern (16 bp):
AATAATAGTACGAAAT
Found at i:62202662 original size:18 final size:18
Alignment explanation
Indices: 62202625--62202662 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
62202615 GGAAGCTAAG
*
62202625 AATCCAATATTCCAATTC
1 AATCCAATATTCCAAATC
62202643 AATCCAATA-TCCATAATC
1 AATCCAATATTCCA-AATC
62202661 AA
1 AA
62202663 AGCAATTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (18 bp):
AATCCAATATTCCAAATC
Found at i:62207654 original size:16 final size:16
Alignment explanation
Indices: 62207633--62207700 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
62207623 TTTGGTTTGC
62207633 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
62207649 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
62207665 TGTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
*
62207681 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
62207697 TGTA
1 TGTA
62207701 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:62207961 original size:14 final size:15
Alignment explanation
Indices: 62207925--62207967 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
62207915 TTTAAACATA
*
62207925 ATTATTATTAAATAT
1 ATTATAATTAAATAT
62207940 ATTATAATTAAATAT
1 ATTATAATTAAATAT
*
62207955 A-TATAATTTAATA
1 ATTATAATTAAATA
62207968 AAATTCTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 11 0.42
15 15 0.58
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:62208085 original size:14 final size:15
Alignment explanation
Indices: 62208036--62208087 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
62208026 ATAAAATATA
62208036 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
62208051 TATTAAATATATTAT
1 AATTAAATATATTAT
62208066 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
62208079 AATTTAATA
1 AATTAAATA
62208088 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:62208133 original size:120 final size:121
Alignment explanation
Indices: 62207919--62208149 Score: 455
Period size: 120 Copynumber: 1.9 Consensus size: 121
62207909 ATCATATTTA
62207919 AACATAATTATTATTAAATATATTATAATTAAATATATATAATTTAATAAAATTCTTAATAATCA
1 AACATAATTATTATTAAATATATTATAATTAAATATATATAATTTAATAAAATTCTTAATAATCA
62207984 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
62208040 AACATAATTATTATTAAATATATTATAATTAAA-ATATATAATTTAATAAAATTCTTAATAATCA
1 AACATAATTATTATTAAATATATTATAATTAAATATATATAATTTAATAAAATTCTTAATAATCA
62208104 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAA
66 ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAA
62208150 TTTACTCAAA
Statistics
Matches: 110, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
120 77 0.70
121 33 0.30
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.42
Consensus pattern (121 bp):
AACATAATTATTATTAAATATATTATAATTAAATATATATAATTTAATAAAATTCTTAATAATCA
ATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
Found at i:62208138 original size:59 final size:59
Alignment explanation
Indices: 62207955--62208138 Score: 175
Period size: 59 Copynumber: 3.1 Consensus size: 59
62207945 AATTAAATAT
62207955 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
* * * * * * *
62208014 ATAT-ATGATACTATAAAA-TATAAATTAA-CATAATTATTATTAAAT-ATATTATAATTAAA--
1 ATATAAT-TTA--ATAAAATTCTTAA-TAATC--AA-TATTCTTATATGA-ATT-TACTCAAATC
62208073 AT-
57 ATA
62208075 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
62208134 ATATA
1 ATATA
62208139 TGATACTATA
Statistics
Matches: 95, Mismatches: 14, Indels: 32
0.67 0.10 0.23
Matches are distributed among these distances:
56 6 0.06
57 12 0.13
58 7 0.07
59 20 0.21
60 10 0.11
61 15 0.16
62 7 0.07
63 12 0.13
64 6 0.06
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.42
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATA
Found at i:62214563 original size:16 final size:16
Alignment explanation
Indices: 62214542--62214609 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
62214532 TTTGGTTCGC
62214542 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
62214558 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
62214574 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
62214590 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
62214606 TGTA
1 TGTA
62214610 ATAGCAAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:62214881 original size:17 final size:17
Alignment explanation
Indices: 62214837--62214978 Score: 61
Period size: 17 Copynumber: 8.6 Consensus size: 17
62214827 AACATAATTA
*
62214837 TTATT-AAATATAT-TT
1 TTATTAAAATATATAAT
* *
62214852 TTTTTATAATATATAAT
1 TTATTAAAATATATAAT
62214869 TTGA-TAAAATATATGAAT
1 TT-ATTAAAATATAT-AAT
62214887 TTATTAAAAT-TATAAT
1 TTATTAAAATATATAAT
* * *
62214903 ATA-TAATATTATAAAAT
1 TTATTAA-AATATATAAT
* *
62214920 ATAATTTAAAATA-ATTA-
1 -TTA-TTAAAATATATAAT
62214937 TTATT--AA-ATATAAT
1 TTATTAAAATATATAAT
**
62214951 TTAACAAAAATATATAAT
1 TT-ATTAAAATATATAAT
*
62214969 TTAATAAAAT
1 TTATTAAAAT
62214979 TCTTAGTATT
Statistics
Matches: 92, Mismatches: 19, Indels: 30
0.65 0.13 0.21
Matches are distributed among these distances:
12 1 0.01
13 5 0.05
14 2 0.02
15 10 0.11
16 16 0.17
17 29 0.32
18 23 0.25
19 3 0.03
20 3 0.03
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (17 bp):
TTATTAAAATATATAAT
Found at i:62214906 original size:24 final size:22
Alignment explanation
Indices: 62214876--62214924 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 22
62214866 AATTTGATAA
62214876 AATATATGAAT-TTATTAAAATTAT
1 AATATAT-AATATTA-TAAAA-TAT
62214900 AATATATAATATTATAAAATAT
1 AATATATAATATTATAAAATAT
62214922 AAT
1 AAT
62214925 TTAAAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.25
23 8 0.33
24 10 0.42
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATATATAATATTATAAAATAT
Found at i:62214915 original size:15 final size:15
Alignment explanation
Indices: 62214895--62214950 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
62214885 ATTTATTAAA
*
62214895 ATTATAATATATAAT
1 ATTATAAAATATAAT
62214910 ATTATAAAATAT-A-
1 ATTATAAAATATAAT
*
62214923 ATT-TAAAATA-ATT
1 ATTATAAAATATAAT
*
62214936 ATTATTAAATATAAT
1 ATTATAAAATATAAT
62214951 TTAACAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 7 0.21
13 6 0.18
14 7 0.21
15 13 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTATAAAATATAAT
Found at i:62214917 original size:41 final size:40
Alignment explanation
Indices: 62214855--62215093 Score: 142
Period size: 38 Copynumber: 6.2 Consensus size: 40
62214845 TATATTTTTT
62214855 TTATAATATATAAT-TTGATAAAATATATGAATTTATTAAAA
1 TTATAATATATAATATT-ATAAAATATAT-AATTTATTAAAA
*
62214896 TTATAATATATAATATTAT-AAA-ATATAATTTA-AAATAA
1 TTATAATATATAATATTATAAAATATATAATTTATTAA-AA
* * *
62214934 TTATTATTAAATATAAT-TTAACAAAAATATATAATTTAATAAAA
1 TTA-TA--ATATATAATATT-A-TAAAATATATAATTTATTAAAA
* * *
62214978 TTCTTAGTAT-TAAATATTCT----TATATGAATTTATTAAAA
1 TT-ATAATATAT-AATATTATAAAATATAT-AATTTATTAAAA
* *
62215016 TTATAATATATAATACTATAAAATA-AT-TTTTATT-AAA
1 TTATAATATATAATATTATAAAATATATAATTTATTAAAA
*
62215053 -TATAAT-T-T-A-A-TA-AAAATATATAATTTAATAAAA
1 TTATAATATATAATATTATAAAATATATAATTTATTAAAA
62215086 TTA-AATAT
1 TTATAATAT
62215094 TCTTATGATT
Statistics
Matches: 157, Mismatches: 17, Indels: 55
0.69 0.07 0.24
Matches are distributed among these distances:
30 6 0.04
31 4 0.03
32 6 0.04
33 7 0.04
34 4 0.03
35 1 0.01
36 6 0.04
37 21 0.13
38 31 0.20
39 6 0.04
40 7 0.04
41 28 0.18
42 7 0.04
43 5 0.03
44 16 0.10
45 2 0.01
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (40 bp):
TTATAATATATAATATTATAAAATATATAATTTATTAAAA
Found at i:62214945 original size:26 final size:25
Alignment explanation
Indices: 62214905--62214967 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 25
62214895 ATTATAATAT
62214905 ATAATATTATAAAATATAATTTAAA
1 ATAATATTATAAAATATAATTTAAA
*
62214930 ATAATTATTATTAAATATAATTTAACA
1 ATAA-TATTATAAAATATAATTTAA-A
*
62214957 AAAATA-TATAA
1 ATAATATTATAA
62214968 TTTAATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
25 8 0.24
26 21 0.64
27 4 0.12
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (25 bp):
ATAATATTATAAAATATAATTTAAA
Found at i:62215050 original size:61 final size:60
Alignment explanation
Indices: 62214878--62215055 Score: 165
Period size: 61 Copynumber: 3.0 Consensus size: 60
62214868 TTTGATAAAA
*
62214878 TATATGAATTTATTAAAATTATAATATATAATATTATAAAATATAATTTA--AAATAATTAT
1 TATATGAATTTATTAAAATTATAATATATAATATTATAAAATAT-TTTTATTAAAT-ATTAT
* * * *
62214938 TAT-TAAATATAATTTAACAA--A-AATATATAAT-TTAATAAAAT-TCTTAGTATTAAATATTC
1 TATATGAAT-TTA-TTAA-AATTATAATATATAATATT-ATAAAATAT-TT-TTATTAAATATTA
62214997 T
60 T
*
62214998 TATATGAATTTATTAAAATTATAATATATAATACTATAAAATAATTTTTATTAAATAT
1 TATATGAATTTATTAAAATTATAATATATAATATTATAAAAT-ATTTTTATTAAATAT
62215056 AATTTAATAA
Statistics
Matches: 94, Mismatches: 10, Indels: 27
0.72 0.08 0.21
Matches are distributed among these distances:
58 6 0.06
59 27 0.29
60 16 0.17
61 39 0.41
62 5 0.05
63 1 0.01
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (60 bp):
TATATGAATTTATTAAAATTATAATATATAATATTATAAAATATTTTTATTAAATATTAT
Done.