Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 191 of 325
Found at i:58714966 original size:47 final size:47
Alignment explanation
Indices: 58714915--58715153 Score: 329
Period size: 47 Copynumber: 5.1 Consensus size: 47
58714905 TTTAGGATTT
*
58714915 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
58714962 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGACC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
*
58715009 AATGTGATGAATGTGAACATCCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* **
58715056 AATGTGATGAATGAGAACATGCATATATGTGATAAGGCAAAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * * * * *
58715103 AATGTGACGAACGTGGAAGC--GTATATATGTGGTAAAGCCGAATGGCT
1 AATGTGATGAATGT-GAA-CATGCATATATGTGATAAGGCCGAATGGCC
58715150 AATG
1 AATG
58715154 CGAAATGTGT
Statistics
Matches: 173, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
47 169 0.98
48 3 0.02
49 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.28, T:0.25
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:58715244 original size:48 final size:48
Alignment explanation
Indices: 58715126--58715456 Score: 522
Period size: 48 Copynumber: 6.9 Consensus size: 48
58715116 TGGAAGCGTA
* * *
58715126 TATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAG--ATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
* * * *
58715172 GATATGAGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGTTATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
*
58715220 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
*
58715268 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
* *
58715316 TACATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
*
58715364 TACATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
* *
58715412 TATATGTGATAAAGCCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGAT
58715457 GTGTGTATAT
Statistics
Matches: 267, Mismatches: 16, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
46 39 0.15
48 228 0.85
ACGTcount: A:0.35, C:0.07, G:0.29, T:0.29
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATG
Found at i:58715336 original size:28 final size:28
Alignment explanation
Indices: 58715304--58715384 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 28
58715294 TGTGAAATAT
58715304 GAATGAGATATGTACATGTGGTAAAGCC
1 GAATGAGATATGTACATGTGGTAAAGCC
* ***
58715332 GAATG-GCTA-G----TGT-G-AAATAT
1 GAATGAGATATGTACATGTGGTAAAGCC
58715352 GAATGAGATATGTACATGTGGTAAAGCC
1 GAATGAGATATGTACATGTGGTAAAGCC
58715380 GAATG
1 GAATG
58715385 GCTAGTGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 16
0.61 0.13 0.26
Matches are distributed among these distances:
20 8 0.22
21 4 0.11
22 4 0.11
26 4 0.11
27 4 0.11
28 13 0.35
ACGTcount: A:0.36, C:0.09, G:0.30, T:0.26
Consensus pattern (28 bp):
GAATGAGATATGTACATGTGGTAAAGCC
Found at i:58715652 original size:37 final size:37
Alignment explanation
Indices: 58715597--58715699 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
58715587 GGAAATATAT
58715597 TCCGAGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGAGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
58715634 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGAGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
58715671 TCCGTGTAAGACCCGATAACTACGTGTGG
1 TCCGAGTAAGACCCGATGACTACGTGTGG
58715700 GGACTATTCG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (37 bp):
TCCGAGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:58723819 original size:22 final size:23
Alignment explanation
Indices: 58723794--58723836 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
58723784 TATCCCTACA
*
58723794 TGGAGTGTAG-GGCTGGACGGAG
1 TGGAGTGTAGAGGATGGACGGAG
58723816 TGGAGTGTAGAGGATGGACGG
1 TGGAGTGTAGAGGATGGACGG
58723837 GTAGGATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.21, C:0.07, G:0.53, T:0.19
Consensus pattern (23 bp):
TGGAGTGTAGAGGATGGACGGAG
Found at i:58723934 original size:34 final size:34
Alignment explanation
Indices: 58723857--58723934 Score: 97
Period size: 34 Copynumber: 2.3 Consensus size: 34
58723847 TGATTGCATT
* *
58723857 ACTGTTGCTGTTACTATAATGGGCTAAGGCCCAC
1 ACTGTTACTGATACTATAATGGGCTAAGGCCCAC
*
58723891 ACTGATACTGATACTATAATGGGC-AATGGCCCTA-
1 ACTGTTACTGATACTATAATGGGCTAA-GGCCC-AC
58723925 ACTGTTACTG
1 ACTGTTACTG
58723935 GACTGTCACT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
33 2 0.05
34 35 0.92
35 1 0.03
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (34 bp):
ACTGTTACTGATACTATAATGGGCTAAGGCCCAC
Found at i:58728126 original size:12 final size:13
Alignment explanation
Indices: 58728109--58728140 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
58728099 ATAGCACATT
58728109 TCAAAAC-ATGCA
1 TCAAAACTATGCA
58728121 TCAAAACTATGCA
1 TCAAAACTATGCA
58728134 -CAAAACT
1 TCAAAACT
58728141 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:58735184 original size:12 final size:13
Alignment explanation
Indices: 58735167--58735198 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
58735157 ATAGCACATT
58735167 TCAAAAC-ATGCA
1 TCAAAACTATGCA
58735179 TCAAAACTATGCA
1 TCAAAACTATGCA
58735192 -CAAAACT
1 TCAAAACT
58735199 TAACATTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 14 0.74
13 5 0.26
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (13 bp):
TCAAAACTATGCA
Found at i:58736539 original size:9 final size:9
Alignment explanation
Indices: 58736514--58736543 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
58736504 TGAATGCTTC
58736514 AAACACCCA
1 AAACACCCA
58736523 AAAC-CCCA
1 AAACACCCA
58736531 AAACACCCA
1 AAACACCCA
58736540 AAAC
1 AAAC
58736544 CTTTTACCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.57, C:0.43, G:0.00, T:0.00
Consensus pattern (9 bp):
AAACACCCA
Found at i:58739656 original size:67 final size:65
Alignment explanation
Indices: 58739462--58739668 Score: 183
Period size: 67 Copynumber: 3.2 Consensus size: 65
58739452 CATAATTTTG
* * * * * *
58739462 GCTCTCTTGTAC-ACATAGTG-AACACTTAGTACCACCCATATGACCTAGC--CAGTTTATCTCG
1 GCTCTCTTGT-CTACATGGTGCTACACATAGAACCACCCATACGACCTAGCTACA-TATATCTCG
58739523 TA
64 TA
* * * * *
58739525 GCTCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCTACATATATCTCG
1 GCTCTCTTGTCTACATGGTG--CTACACATAGAACCACCCATACGACCTAGCTACATATATCTCG
58739590 TA
64 TA
* *
58739592 GCTCTCTTGTCTACATGGTG-TACACATAGTATCACCCATACGACCTAG-TACATCATAATGTCT
1 GCTCTCTTGTCTACATGGTGCTACACATAGAACCACCCATACGACCTAGCTACAT-AT-A--TCT
58739655 CGTA
62 CGTA
58739659 GCTCTCTTGT
1 GCTCTCTTGT
58739669 ACACATGATG
Statistics
Matches: 117, Mismatches: 17, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
62 1 0.01
63 22 0.19
64 23 0.20
65 1 0.01
66 21 0.18
67 47 0.40
68 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.16, T:0.31
Consensus pattern (65 bp):
GCTCTCTTGTCTACATGGTGCTACACATAGAACCACCCATACGACCTAGCTACATATATCTCGTA
Found at i:58744691 original size:30 final size:30
Alignment explanation
Indices: 58744655--58744715 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
58744645 TCCTTAACTC
*
58744655 AAACTTTTTCAAAATTACAATTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
* * *
58744685 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACAATTTTGCCCCT
58744715 A
1 A
58744716 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTGCCCCT
Found at i:58749125 original size:38 final size:37
Alignment explanation
Indices: 58749029--58749165 Score: 148
Period size: 38 Copynumber: 3.6 Consensus size: 37
58749019 CGAGGTATAA
* * * * *
58749029 AACCCGAACATAACACCAGCACGAAGCCTACGGGACTTT
1 AACCCGGATATAATACCAGCAC-AGGCCTGCGGGA-TTT
* *
58749068 AAACTCAGATATAATACCAGCACTAGGCCTGCGGGATTT
1 -AACCCGGATATAATACCAGCAC-AGGCCTGCGGGATTT
*
58749107 AACCCGGATATAATACCAGCACGGAGCCTGCGGGATTT
1 AACCCGGATATAATACCAGCACAG-GCCTGCGGGATTT
*
58749145 AACCCGGATATAATTCCAGCA
1 AACCCGGATATAATACCAGCA
58749166 TAAAGCCTAC
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
37 1 0.01
38 53 0.63
39 3 0.04
40 27 0.32
ACGTcount: A:0.34, C:0.28, G:0.20, T:0.18
Consensus pattern (37 bp):
AACCCGGATATAATACCAGCACAGGCCTGCGGGATTT
Found at i:58754136 original size:33 final size:33
Alignment explanation
Indices: 58754099--58754171 Score: 128
Period size: 33 Copynumber: 2.2 Consensus size: 33
58754089 TGCATGTTGA
*
58754099 GCATGTTGACTGTGTTGACTATAAATTTGATTC
1 GCATGTTGACTGTGTTGACTATAAATCTGATTC
58754132 GCATGTTGACTGTGTTGACTATAAATCTGATTC
1 GCATGTTGACTGTGTTGACTATAAATCTGATTC
*
58754165 ACATGTT
1 GCATGTT
58754172 AAGCATGTCC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.41
Consensus pattern (33 bp):
GCATGTTGACTGTGTTGACTATAAATCTGATTC
Found at i:58755021 original size:25 final size:24
Alignment explanation
Indices: 58754986--58755061 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 24
58754976 TTTAATCACT
58754986 TTAATATTAAATTAATATAATATTTA
1 TTAATA-TAAATTAATATAA-ATTTA
58755012 TTAATATAAATATTAGAT-TAAATTTA
1 TTAATAT-AA-ATTA-ATATAAATTTA
*
58755038 TT-ATATAAATATTATATAAATTTA
1 TTAATATAAAT-TAATATAAATTTA
58755062 ATATTATATT
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
23 4 0.09
24 11 0.25
25 5 0.11
26 15 0.34
27 7 0.16
28 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (24 bp):
TTAATATAAATTAATATAAATTTA
Found at i:58755052 original size:11 final size:11
Alignment explanation
Indices: 58755010--58755058 Score: 53
Period size: 11 Copynumber: 4.1 Consensus size: 11
58755000 ATATAATATT
58755010 TATTAATATAAA
1 TATT-ATATAAA
*
58755022 TATTAGATTAAA
1 TATTATA-TAAA
58755034 TTTATTATATAAA
1 --TATTATATAAA
58755047 TATTATATAAA
1 TATTATATAAA
58755058 T
1 T
58755059 TTAATATTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
11 14 0.44
12 8 0.25
13 4 0.12
14 6 0.19
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (11 bp):
TATTATATAAA
Found at i:58755065 original size:11 final size:11
Alignment explanation
Indices: 58754985--58755065 Score: 51
Period size: 11 Copynumber: 6.7 Consensus size: 11
58754975 ATTTAATCAC
58754985 TTTAATATTAAA
1 TTTAATA-TAAA
58754997 -TTAATATAATA
1 TTTAATATAA-A
58755008 TTTATTAATATAAA
1 --T-TTAATATAAA
58755022 TATTAGAT-TAAA
1 T-TTA-ATATAAA
58755034 TTTATTATATAAA
1 TTTA--ATATAAA
58755047 TATT-ATATAAA
1 T-TTAATATAAA
58755058 TTTAATAT
1 TTTAATAT
58755066 TATATTATTA
Statistics
Matches: 58, Mismatches: 1, Indels: 21
0.73 0.01 0.26
Matches are distributed among these distances:
10 5 0.09
11 22 0.38
12 12 0.21
13 7 0.12
14 3 0.05
15 9 0.16
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (11 bp):
TTTAATATAAA
Found at i:58755069 original size:25 final size:24
Alignment explanation
Indices: 58754985--58755065 Score: 85
Period size: 25 Copynumber: 3.3 Consensus size: 24
58754975 ATTTAATCAC
*
58754985 TTTAATAT-TAAAT-TAATATAATA
1 TTTAATATATAAATATTATATAA-A
* *
58755008 TTTATTAATATAAATATTAGATTAAA
1 TTTAAT-ATATAAATATTATA-TAAA
*
58755034 TTTATTATATAAATATTATATAAA
1 TTTAATATATAAATATTATATAAA
58755058 TTTAATAT
1 TTTAATAT
58755066 TATATTATTA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
23 5 0.10
24 13 0.27
25 18 0.37
26 10 0.20
27 3 0.06
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (24 bp):
TTTAATATATAAATATTATATAAA
Found at i:58758292 original size:40 final size:40
Alignment explanation
Indices: 58758184--58758293 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
58758174 ATTGAATGAT
* * * * *
58758184 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
58758224 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
58758264 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
58758294 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:58758308 original size:40 final size:39
Alignment explanation
Indices: 58758184--58758333 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
58758174 ATTGAATGAT
* * * * * * *
58758184 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
58758224 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
58758264 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
58758304 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
58758334 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:58761419 original size:26 final size:26
Alignment explanation
Indices: 58761388--58761495 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
58761378 TGAAATGCCC
58761388 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
58761414 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* * *
58761440 ATCATGGAATATTCACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
58761466 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
58761492 ATCA
1 ATCA
58761496 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
25 3 0.04
26 71 0.96
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:58771587 original size:46 final size:46
Alignment explanation
Indices: 58771538--58771709 Score: 161
Period size: 46 Copynumber: 3.7 Consensus size: 46
58771528 GGTTGAGCAT
* *
58771538 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGC
* * * * * *
58771584 CCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--AATGTAACTAGGCAC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG--C
* * * **
58771631 CCGAACTCATTGAGCTGAGTCCAAGTTCACTTATGGATGCAAACAC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGC
*
58771677 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
58771710 GGGGCGGGTT
Statistics
Matches: 97, Mismatches: 22, Indels: 14
0.73 0.17 0.11
Matches are distributed among these distances:
43 4 0.04
45 4 0.04
46 57 0.59
47 24 0.25
48 3 0.03
50 5 0.05
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGC
Found at i:58773412 original size:15 final size:13
Alignment explanation
Indices: 58773394--58773420 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
58773384 ATAAGTGATG
58773394 TGTGTGAAAATTT
1 TGTGTGAAAATTT
58773407 TGTGTGAAAATTT
1 TGTGTGAAAATTT
58773420 T
1 T
58773421 TAACGTTTGT
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:0.00, G:0.22, T:0.48
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:58774574 original size:44 final size:41
Alignment explanation
Indices: 58774526--58774632 Score: 124
Period size: 42 Copynumber: 2.5 Consensus size: 41
58774516 AAGACCAAGA
* *
58774526 CTGGGACCTTGGCATCGATTTGAGATTTACGTGTAAAACCATGT
1 CTGGGACATTGGCATCGATATGA-ATTTA--TGTAAAACCATGT
* * *
58774570 CTGGGACATTGGCATCGTATATGATTTTATGTAAGACCCTGT
1 CTGGGACATTGGCATCG-ATATGAATTTATGTAAAACCATGT
*
58774612 CTGGGACAGTGGCATCGATAT
1 CTGGGACATTGGCATCGATAT
58774633 TTCATAACAT
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 4 0.07
42 27 0.48
44 20 0.36
45 5 0.09
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (41 bp):
CTGGGACATTGGCATCGATATGAATTTATGTAAAACCATGT
Found at i:58774616 original size:42 final size:43
Alignment explanation
Indices: 58774497--58774632 Score: 134
Period size: 44 Copynumber: 3.2 Consensus size: 43
58774487 ACATAGGATT
* * * * *
58774497 TCGATATGTGATTT-CTTGTAAGACCAAGACTGGGACCTTGGCA
1 TCGATATGAGATTTAC-TGTAAAACCATGTCTGGGACATTGGCA
*
58774540 TCGATTTGAGATTTACGTGTAAAACCATGTCTGGGACATTGGCA
1 TCGATATGAGATTTAC-TGTAAAACCATGTCTGGGACATTGGCA
* * * *
58774584 TCGTATATGA-TTTTA-TGTAAGACCCTGTCTGGGACAGTGGCA
1 TCG-ATATGAGATTTACTGTAAAACCATGTCTGGGACATTGGCA
58774626 TCGATAT
1 TCGATAT
58774633 TTCATAACAT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
41 4 0.05
42 27 0.34
43 12 0.15
44 31 0.39
45 5 0.06
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
TCGATATGAGATTTACTGTAAAACCATGTCTGGGACATTGGCA
Found at i:58777286 original size:27 final size:27
Alignment explanation
Indices: 58777256--58777531 Score: 169
Period size: 27 Copynumber: 9.8 Consensus size: 27
58777246 ATTACCAAAG
*
58777256 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACATAATTACCGTTT
* * *
58777283 TACCCCCGATTTA-TTGAAGTACCGTTT
1 TACCCTCGATTTACAT-AATTACCGTTT
* * * * *
58777310 TACCATTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACATAATTACCGTTT
* * *
58777337 TACCCTTGATTTACAAAATTACCATTT
1 TACCCTCGATTTACATAATTACCGTTT
*
58777364 TACCCTCGATTTACATAATTACCATTT
1 TACCCTCGATTTACATAATTACCGTTT
58777391 TACCCTCG-TTTAACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTT-A----C-A--TA----ATTACCGTTT
* * **
58777429 TACCCTCGATTTAAAAAATTATTGTTT
1 TACCCTCGATTTACATAATTACCGTTT
* * * **
58777456 TACCGTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACATAATTACCGTTT
* * **
58777483 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACATAATTACCGTTT
* *
58777510 TACCTTCGATTTACAAAATTAC
1 TACCCTCGATTTACATAATTAC
58777532 AGAAATACCC
Statistics
Matches: 202, Mismatches: 32, Indels: 30
0.77 0.12 0.11
Matches are distributed among these distances:
26 4 0.02
27 171 0.85
31 2 0.01
32 1 0.00
33 1 0.00
34 2 0.01
38 18 0.09
39 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACATAATTACCGTTT
Found at i:58777377 original size:38 final size:37
Alignment explanation
Indices: 58777362--58777441 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 37
58777352 AAATTACCAT
* *
58777362 TTTACCCTCGATTTACATAATTACCATTTTACCCTCG
1 TTTACCCTCGACTTACAGAATTACCATTTTACCCTCG
*
58777399 TTTAACCCTCGACTTACAGAATTACCGTTTTACCCTCG
1 TTT-ACCCTCGACTTACAGAATTACCATTTTACCCTCG
58777437 ATTTA
1 -TTTA
58777442 AAAAATTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
37 3 0.08
38 32 0.84
39 3 0.08
ACGTcount: A:0.25, C:0.29, G:0.07, T:0.39
Consensus pattern (37 bp):
TTTACCCTCGACTTACAGAATTACCATTTTACCCTCG
Found at i:58777494 original size:119 final size:120
Alignment explanation
Indices: 58777302--58777522 Score: 309
Period size: 119 Copynumber: 1.9 Consensus size: 120
58777292 TTTATTGAAG
* * * *
58777302 TACCGTTTTACCATTGATTTATAGAATTACTGTTTTACCCTTGATTTACAAAATTACCATTTTAC
1 TACCGTTTTACCATCGATTTAAAAAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTAC
*
58777367 CCTCGATTTACATAATTACCATTTTACCCTCG-TTTAACCCTCGACTTACAGAAT
66 CCTCGATTTACAGAATTACCATTTTACCCTCGATTTAACCCTCGACTTACAGAAT
* * * * * *
58777421 TACCGTTTTACCCTCGATTTAAAAAATTATTGTTTTACCGTCGATTTATAGAATTACTATTTTAC
1 TACCGTTTTACCATCGATTTAAAAAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTAC
* * *
58777486 CCTTGATTTACAGAATTACTATTTTACCTTCGATTTA
66 CCTCGATTTACAGAATTACCATTTTACCCTCGATTTA
58777523 CAAAATTACA
Statistics
Matches: 87, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
119 83 0.95
120 4 0.05
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.43
Consensus pattern (120 bp):
TACCGTTTTACCATCGATTTAAAAAATTACTGTTTTACCCTCGATTTACAAAATTACCATTTTAC
CCTCGATTTACAGAATTACCATTTTACCCTCGATTTAACCCTCGACTTACAGAAT
Found at i:58777530 original size:146 final size:146
Alignment explanation
Indices: 58777257--58777531 Score: 397
Period size: 146 Copynumber: 1.9 Consensus size: 146
58777247 TTACCAAAGT
* * *** *
58777257 ACCCCCGATTTACATAATTACCGTTTTACCCCCGATTTATTGAAGTACCGTTTTACCATTGATTT
1 ACCCCCGACTTACAGAATTACCGTTTTACCCCCGATTTAAAAAAGTACCGTTTTACCATCGATTT
* *
58777322 ATAGAATTACTGTTTTACCCTTGATTTACAAAATTACCATTTTACCCTCGATTTACATAATTACC
66 ATAGAATTACTATTTTACCCTTGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACC
58777387 ATTTTACCCTCGTTTA
131 ATTTTACCCTCGTTTA
* * * ** *
58777403 ACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTAAAAAATTATTGTTTTACCGTCGATTT
1 ACCCCCGACTTACAGAATTACCGTTTTACCCCCGATTTAAAAAAGTACCGTTTTACCATCGATTT
* * *
58777468 ATAGAATTACTATTTTACCCTTGATTTACAGAATTACTATTTTACCTTCGATTTACAAAATTAC
66 ATAGAATTACTATTTTACCCTTGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTAC
58777532 AGAAATACCC
Statistics
Matches: 112, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
146 112 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.40
Consensus pattern (146 bp):
ACCCCCGACTTACAGAATTACCGTTTTACCCCCGATTTAAAAAAGTACCGTTTTACCATCGATTT
ATAGAATTACTATTTTACCCTTGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACC
ATTTTACCCTCGTTTA
Found at i:58777557 original size:81 final size:81
Alignment explanation
Indices: 58777403--58777558 Score: 177
Period size: 81 Copynumber: 1.9 Consensus size: 81
58777393 CCCTCGTTTA
* ** *** * *
58777403 ACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTAAAAAATTATTGTTTTACCGTCGATTT
1 ACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTAAAAAATTACAGAAATACCCTCAATTT
*
58777468 ATAGAATTACTATTTT
66 ATAAAATTACTATTTT
* * * * *
58777484 ACCCTTGATTTACAGAATTACTATTTTACCTTCGATTTACAAAATTACAGAAATACCCTCAATTT
1 ACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTAAAAAATTACAGAAATACCCTCAATTT
*
58777549 GTAAAATTAC
66 ATAAAATTAC
58777559 CAAAATACCC
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
81 60 1.00
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.38
Consensus pattern (81 bp):
ACCCTCGACTTACAGAATTACCATTTTACCCTCGATTTAAAAAATTACAGAAATACCCTCAATTT
ATAAAATTACTATTTT
Found at i:58777582 original size:54 final size:53
Alignment explanation
Indices: 58777524--58777656 Score: 153
Period size: 54 Copynumber: 2.5 Consensus size: 53
58777514 TTCGATTTAC
*
58777524 AAAATTA-CAGAAATACCCTCAATTTGTAAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCA-AAATACCCT-AATTTGTAAAATTACCAAAATACCCTC-AATTTGT
** * * *
58777578 AAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTCAATTTTT
1 AAAATTACCAAAATACC-CTAATTTGTAAAATTACCAAAATACCCTCAATTTGT
58777632 AAAATTACCAAAATACCCCTAATTT
1 AAAATTACCAAAATA-CCCTAATTT
58777657 ACAAAGTTAC
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
54 60 0.90
55 7 0.10
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.30
Consensus pattern (53 bp):
AAAATTACCAAAATACCCTAATTTGTAAAATTACCAAAATACCCTCAATTTGT
Found at i:58777673 original size:81 final size:81
Alignment explanation
Indices: 58777525--58777675 Score: 232
Period size: 81 Copynumber: 1.9 Consensus size: 81
58777515 TCGATTTACA
* **
58777525 AAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACCAAA
58777590 ATACCACTGGTTTGTG
66 ATACCACTGGTTTGTG
* * *
58777606 AAATTACCGAAATACCCTCAATTTTTAAAATTACCAAAATACCCCTAATTTACAAAGTTA-CAGA
1 AAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACCA-A
58777670 AATACC
65 AATACC
58777676 CTTGACTTTC
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
80 2 0.03
81 61 0.97
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.28
Consensus pattern (81 bp):
AAATTACAGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAATTTACAAAATTACCAAA
ATACCACTGGTTTGTG
Found at i:58777736 original size:27 final size:27
Alignment explanation
Indices: 58777519--58777739 Score: 122
Period size: 27 Copynumber: 8.1 Consensus size: 27
58777509 TTACCTTCGA
* * *
58777519 TTTACAAAATTACAGAAATACCCTCAA
1 TTTACAAAATTACCGAAATACCCTTAG
** * *
58777546 TTTGTAAAATTACCAAAATACCCCTAG
1 TTTACAAAATTACCGAAATACCCTTAG
** * *
58777573 TTTGTAAAATTACCAAAATACCAC-TGG
1 TTTACAAAATTACCGAAATACC-CTTAG
*** * *
58777600 TTTGTGAAATTACCGAAATACCCTCAA
1 TTTACAAAATTACCGAAATACCCTTAG
** * * *
58777627 TTTTTAAAATTACCAAAATACCCCTAA
1 TTTACAAAATTACCGAAATACCCTTAG
* * *
58777654 TTTACAAAGTTACAGAAATACCCTTGAC
1 TTTACAAAATTACCGAAATACCCTT-AG
** * *
58777682 TTT-CTAAAAATTATAGAAATACCATTGG
1 TTTAC--AAAATTACCGAAATACCCTTAG
* *
58777710 TTTACAAAATTACTGAAATACCCTTGG
1 TTTACAAAATTACCGAAATACCCTTAG
58777737 TTT
1 TTT
58777740 GTAGATTTAC
Statistics
Matches: 155, Mismatches: 33, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
26 1 0.01
27 128 0.83
28 8 0.05
29 18 0.12
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTACCGAAATACCCTTAG
Found at i:58777823 original size:27 final size:27
Alignment explanation
Indices: 58777792--58777884 Score: 116
Period size: 27 Copynumber: 3.4 Consensus size: 27
58777782 TACCCCTATT
*
58777792 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
* * *
58777819 GGGTAAAGTGACAGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
*
58777846 AGGTAAAGTGACCGTAATA-CCCCTGTA
1 AGGTAAAATGACCGTAA-AGCCCCTGTA
*
58777873 TGGTAAAATGAC
1 AGGTAAAATGAC
58777885 GAATATGCCC
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
27 56 0.98
28 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (27 bp):
AGGTAAAATGACCGTAAAGCCCCTGTA
Found at i:58779074 original size:25 final size:25
Alignment explanation
Indices: 58779045--58779092 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
58779035 TTATAATACG
* *
58779045 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
58779070 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
58779093 GTTTATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:58779179 original size:20 final size:20
Alignment explanation
Indices: 58779136--58779179 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
58779126 TAAACATGGT
*
58779136 ATGTATGATATGCACGTGAC
1 ATGTATGATATGCACATGAC
*
58779156 ATGTATGATATGCACATGAG
1 ATGTATGATATGCACATGAC
58779176 ATGT
1 ATGT
58779180 TCATAAATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:58779305 original size:25 final size:24
Alignment explanation
Indices: 58779226--58779418 Score: 225
Period size: 25 Copynumber: 8.0 Consensus size: 24
58779216 AGGAAGTGCA
58779226 AAAGGGCTTATGCCCCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
*
58779249 AAAGGGCTTATGCCTCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTATAT
*
58779272 AAAGGGCTTATGCCCCAGTTGTGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
58779297 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
* *
58779322 GAAGGGCTTATGCCCCAGTTGTGAT
1 AAAGGGCTTATGCCCCAGTTAT-AT
* *
58779347 AAA-GGCTTATGCCCCAATTATAA
1 AAAGGGCTTATGCCCCAGTTATAT
*
58779370 AAAGGGCTTTTGCCCCAGTTACTA-
1 AAAGGGCTTATGCCCCAGTTA-TAT
*
58779394 AAAGAGGC-TAGGCCTCCAGTTATAT
1 AAAG-GGCTTATGCC-CCAGTTATAT
58779419 GATAAAGCAG
Statistics
Matches: 149, Mismatches: 14, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
23 46 0.31
24 41 0.28
25 62 0.42
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (24 bp):
AAAGGGCTTATGCCCCAGTTATAT
Found at i:58779316 original size:48 final size:49
Alignment explanation
Indices: 58779226--58779389 Score: 237
Period size: 48 Copynumber: 3.4 Consensus size: 49
58779216 AGGAAGTGCA
* *
58779226 AAAGGGCTTATGCCCCAGTTAT--TAAAGGGCTTATGCCTCAGTTAT-T
1 AAAGGGCTTATGCCCCAGTTGTGATAAAGGGCTTATGCCCCAGTTATAT
58779272 AAAGGGCTTATGCCCCAGTTGTGATAAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTGTGATAAAGGGCTTATGCCCCAGTTAT-AT
* * *
58779322 GAAGGGCTTATGCCCCAGTTGTGATAAA-GGCTTATGCCCCAATTATAA
1 AAAGGGCTTATGCCCCAGTTGTGATAAAGGGCTTATGCCCCAGTTATAT
*
58779370 AAAGGGCTTTTGCCCCAGTT
1 AAAGGGCTTATGCCCCAGTT
58779390 ACTAAAAGAG
Statistics
Matches: 107, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
46 21 0.20
48 41 0.38
49 17 0.16
50 28 0.26
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (49 bp):
AAAGGGCTTATGCCCCAGTTGTGATAAAGGGCTTATGCCCCAGTTATAT
Found at i:58779413 original size:73 final size:72
Alignment explanation
Indices: 58779225--58779416 Score: 223
Period size: 73 Copynumber: 2.7 Consensus size: 72
58779215 GAGGAAGTGC
*
58779225 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCT-CAGTTATTAAAGGGCTTATGCCCCA
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCTCCAGTTATTAAAGGGCTTATGCCCCA
* *
58779289 GTTGTGA
66 ATTATGA
* * *
58779296 TAAAGGGCTTATGCCCCAGTTATGATGAAGGGCTTATGCC-CCAGTTGTGATAAA-GGCTTATGC
1 AAAAGGGCTTATGCCCCAGTTAT-A-AAAGGGCTTATGCCTCCAGTTAT--TAAAGGGCTTATGC
58779359 CCCAATTAT-A
62 CCCAATTATGA
* *
58779369 AAAAGGGCTTTTGCCCCAGTTACTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCCTCCAGTTAT
58779417 ATGATAAAGC
Statistics
Matches: 102, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
71 22 0.22
72 8 0.08
73 51 0.50
74 17 0.17
75 4 0.04
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCTCCAGTTATTAAAGGGCTTATGCCCCA
ATTATGA
Found at i:58779645 original size:31 final size:31
Alignment explanation
Indices: 58779610--58779673 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
58779600 CGTTTACAGT
* *
58779610 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
*
58779641 AAAGGCTTCAGCCCAGTATTATGAAATATGA
1 AAAGGCTTCAGCCCAGTAATATGAAATATGA
58779672 AA
1 AA
58779674 TATGAAAAGG
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:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCAGCCCAGTAATATGAAATATGA
Found at i:58782550 original size:52 final size:52
Alignment explanation
Indices: 58782478--58782639 Score: 184
Period size: 52 Copynumber: 3.1 Consensus size: 52
58782468 ATTATTGAAA
***
58782478 TACCCTCGACTTGTA-AAATTACCAAAGTACCCCGATTTACA-AATTACCGTTT
1 TACCCTCGA-TT-TATAAATTACCATTTTACCCCGATTTACAGAATTACCGTTT
* * * *
58782530 TACCCTCGATTTATAGAATTACCGTTTTACCCTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATA-AATTACCATTTTACCCCGATTTACAGAATTACCGTTT
* * * *
58782583 TACCCTTGATTTACAAATTACCATTTTACCCCGATTTACATAATTACCATTT
1 TACCCTCGATTTATAAATTACCATTTTACCCCGATTTACAGAATTACCGTTT
58782635 TACCC
1 TACCC
58782640 CATTTTACCC
Statistics
Matches: 92, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
50 2 0.02
51 3 0.03
52 64 0.70
53 23 0.25
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (52 bp):
TACCCTCGATTTATAAATTACCATTTTACCCCGATTTACAGAATTACCGTTT
Found at i:58782552 original size:27 final size:27
Alignment explanation
Indices: 58782505--58782772 Score: 212
Period size: 27 Copynumber: 9.8 Consensus size: 27
58782495 ATTACCAAAG
*
58782505 TACCC-CGATTTACA-AATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
58782530 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* **
58782557 TACCCT-GATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
*
58782583 TACCCTTGATTTACA-AATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
58782609 TACCC-CGATTTACATAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
58782635 TACCC-C-ATTTTACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGA-TTTA----C-A--GA----ATTACCATTT
*
58782672 TACCCTCGATTTACAAAATTACC--TT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
58782697 TACCGTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
58782724 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
58782751 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
58782773 AAAATACCCT
Statistics
Matches: 206, Mismatches: 17, Indels: 38
0.79 0.07 0.15
Matches are distributed among these distances:
25 35 0.17
26 68 0.33
27 76 0.37
30 1 0.00
31 2 0.01
33 3 0.01
34 1 0.00
37 14 0.07
38 5 0.02
39 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:58782640 original size:26 final size:25
Alignment explanation
Indices: 58782505--58782644 Score: 165
Period size: 26 Copynumber: 5.4 Consensus size: 25
58782495 ATTACCAAAG
58782505 TACCCCGATTTACAAATTACCGTTT
1 TACCCCGATTTACAAATTACCGTTT
*
58782530 TACCCTCGATTTATAGAATTACCGTTT
1 TACCC-CGATTTACA-AATTACCGTTT
* * *
58782557 TACCCTGATTTATAGAATTACTGTTT
1 TACCCCGATTTACA-AATTACCGTTT
* *
58782583 TACCCTTGATTTACAAATTACCATTT
1 TACCC-CGATTTACAAATTACCGTTT
*
58782609 TACCCCGATTTACATAATTACCATTT
1 TACCCCGATTTACA-AATTACCGTTT
58782635 TACCCC-ATTT
1 TACCCCGATTT
58782645 TACCCTCGAC
Statistics
Matches: 104, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
25 17 0.16
26 63 0.61
27 24 0.23
ACGTcount: A:0.28, C:0.24, G:0.07, T:0.41
Consensus pattern (25 bp):
TACCCCGATTTACAAATTACCGTTT
Found at i:58782663 original size:89 final size:88
Alignment explanation
Indices: 58782554--58782728 Score: 237
Period size: 89 Copynumber: 2.0 Consensus size: 88
58782544 AGAATTACCG
* * * *
58782554 TTTTACCCTGATTTATAGAATTACTGTTTTACCCTTGATTTAC-AAATTACCATTTTACC-CCGA
1 TTTTACCCTGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACC--TTTACCGCCGA
*
58782617 TTTACATAATTACCATTTTACCCCA
64 TTTACAGAATTACCATTTTACCCCA
*
58782642 TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCTTTACCGTCGAT
1 TTTTACCCT-GACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCTTTACCGCCGAT
* *
58782707 TTATAGAATTACTATTTTACCC
65 TTACAGAATTACCATTTTACCC
58782729 TTGATTTACA
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
88 15 0.20
89 53 0.70
90 8 0.11
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.41
Consensus pattern (88 bp):
TTTTACCCTGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCTTTACCGCCGATT
TACAGAATTACCATTTTACCCCA
Found at i:58782666 original size:37 final size:36
Alignment explanation
Indices: 58782603--58782676 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 36
58782593 TTACAAATTA
* *
58782603 CCATTTTACCCCGATTTACATAATTACCATTTTACC
1 CCATTTTACCCCGACTTACAGAATTACCATTTTACC
*
58782639 CCATTTTACCCTCGACTTACAGAATTACCGTTTTACC
1 CCATTTTACCC-CGACTTACAGAATTACCATTTTACC
58782676 C
1 C
58782677 TCGATTTACA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 11 0.32
37 23 0.68
ACGTcount: A:0.26, C:0.32, G:0.05, T:0.36
Consensus pattern (36 bp):
CCATTTTACCCCGACTTACAGAATTACCATTTTACC
Found at i:58782699 original size:62 final size:61
Alignment explanation
Indices: 58782580--58782700 Score: 172
Period size: 62 Copynumber: 2.0 Consensus size: 61
58782570 AGAATTACTG
* * *
58782580 TTTTACCCTTGATTTACAAATTACCATTTTACCCCGATTTACATAATTACCATTTTACCCCA
1 TTTTACCCTCGACTTACAAATTACCATTTTACCCCGATTTACAAAATTACCA-TTTACCCCA
*
58782642 TTTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACC-TTTACC
1 TTTTACCCTCGACTTACA-AATTACCATTTTACCC-CGATTTACAAAATTACCATTTACC
58782701 GTCGATTTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
62 22 0.42
63 15 0.28
64 16 0.30
ACGTcount: A:0.28, C:0.28, G:0.05, T:0.39
Consensus pattern (61 bp):
TTTTACCCTCGACTTACAAATTACCATTTTACCCCGATTTACAAAATTACCATTTACCCCA
Found at i:58782700 original size:52 final size:53
Alignment explanation
Indices: 58782643--58782772 Score: 163
Period size: 52 Copynumber: 2.5 Consensus size: 53
58782633 TTTACCCCAT
* *
58782643 TTTACCCTCGACTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTAC-C
1 TTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACAC
* * * * * *
58782695 TTTACCGTCGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTAT
1 TTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTAC-AC
*
58782749 TTTACCCTCGATTTACAAAATTAC
1 TTTACCCTCGATTTACAGAATTAC
58782773 AAAATACCCT
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
52 44 0.68
54 21 0.32
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (53 bp):
TTTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACAC
Found at i:58782788 original size:26 final size:27
Alignment explanation
Indices: 58782751--58782887 Score: 149
Period size: 27 Copynumber: 5.2 Consensus size: 27
58782741 ATTACTATTT
* **
58782751 TACCCTCGATTTACAAAATTA-CAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
58782777 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
*
58782804 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTC-AATTTGTAAAATTACCAAAA
** * *
58782831 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCAATTTGTAAAATTACCAAAA
58782858 TA-CCTCAATTT-TAAAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAA
58782883 TACCC
1 TACCC
58782888 CTGATTTACA
Statistics
Matches: 94, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
25 16 0.17
26 25 0.27
27 52 0.55
28 1 0.01
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.29
Consensus pattern (27 bp):
TACCCTCAATTTGTAAAATTACCAAAA
Found at i:58782816 original size:27 final size:27
Alignment explanation
Indices: 58782765--58782913 Score: 150
Period size: 27 Copynumber: 5.7 Consensus size: 27
58782755 CTCGATTTAC
*
58782765 AAAATTA-CAAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-AGTTTGT
58782791 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* *
58782818 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* * * *
58782845 GAAATTACCGAAATACCTC-AATTT-T
1 AAAATTACCAAAATACCCCTAGTTTGT
*
58782870 AAAATTACCAAAATACCCCT-GATT-T
1 AAAATTACCAAAATACCCCTAGTTTGT
58782895 ACAAAGTTA-CAAAATACCC
1 A-AAA-TTACCAAAATACCC
58782914 TTGACTTTCT
Statistics
Matches: 105, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
25 21 0.20
26 23 0.22
27 57 0.54
28 4 0.04
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:58782930 original size:80 final size:79
Alignment explanation
Indices: 58782765--58782941 Score: 193
Period size: 80 Copynumber: 2.2 Consensus size: 79
58782755 CTCGATTTAC
* *
58782765 AAAATTACAAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAA
1 AAAATTACGAAATA-CCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTACCAAA
* *
58782830 ATACCACTGGTTTGT
65 ATACCACTGCTTTCT
*
58782845 GAAATTACCGAAATACCTCAATTT-TAAAATTACCAAAATACCCCT-GATT-TACAAAGTTA-CA
1 AAAATTA-CGAAATACCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTA-AAA-TTACCA
58782906 AAATACC-CTTGACTTTCT
63 AAATACCAC-TG-CTTTCT
*
58782924 AAAAATTATAGAAATACC
1 -AAAATTA-CGAAATACC
58782942 ATTGGTTTAC
Statistics
Matches: 83, Mismatches: 8, Indels: 12
0.81 0.08 0.12
Matches are distributed among these distances:
77 3 0.04
78 17 0.20
79 28 0.34
80 29 0.35
81 6 0.07
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (79 bp):
AAAATTACGAAATACCTCAATTTGTAAAATTACCAAAATACCCCTAGATTGTAAAATTACCAAAA
TACCACTGCTTTCT
Found at i:58782958 original size:27 final size:27
Alignment explanation
Indices: 58782925--58782976 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
58782915 TGACTTTCTA
58782925 AAAATTA-TAGAAATACCATTGGTTTAC
1 AAAATTACT-GAAATACCATTGGTTTAC
*
58782952 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCATTGGTTT
58782977 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTACTGAAATACCATTGGTTTAC
Found at i:58783060 original size:27 final size:27
Alignment explanation
Indices: 58783029--58783120 Score: 116
Period size: 27 Copynumber: 3.4 Consensus size: 27
58783019 TACCCCTATT
*
58783029 AGGTAAAAAGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
* *
58783056 GGGTAAAGTGA-CGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
*
58783082 AGGTAAAGTGACCGTAATA-CCCCTGTA
1 AGGTAAAATGACCGTAA-AGCCCCTGTA
*
58783109 TGGTAAAATGAC
1 AGGTAAAATGAC
58783121 GAATATGCCC
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
26 25 0.44
27 31 0.54
28 1 0.02
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
AGGTAAAATGACCGTAAAGCCCCTGTA
Found at i:58783070 original size:26 final size:26
Alignment explanation
Indices: 58783041--58783121 Score: 110
Period size: 26 Copynumber: 3.1 Consensus size: 26
58783031 GTAAAAAGAC
*
58783041 CGTAAAGCCCCTGTAGGGTAAAGTGA
1 CGTAAAGCCCCTGTAAGGTAAAGTGA
58783067 CGTAAAGCCCCTGTAAGGTAAAGTGA
1 CGTAAAGCCCCTGTAAGGTAAAGTGA
* *
58783093 CCGTAATA-CCCCTGTATGGTAAAATGA
1 -CGTAA-AGCCCCTGTAAGGTAAAGTGA
58783120 CG
1 CG
58783122 AATATGCCCT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
26 27 0.54
27 22 0.44
28 1 0.02
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (26 bp):
CGTAAAGCCCCTGTAAGGTAAAGTGA
Found at i:58784302 original size:25 final size:25
Alignment explanation
Indices: 58784273--58784320 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
58784263 TTATAATATG
* *
58784273 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
58784298 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
58784321 GTTTATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:58784403 original size:11 final size:11
Alignment explanation
Indices: 58784367--58784422 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
58784357 ACATGTATGT
58784367 ATGATATGCAC
1 ATGATATGCAC
* *
58784378 ATGACATG--T
1 ATGATATGCAC
58784387 ATGATATGCAC
1 ATGATATGCAC
*
58784398 ATGATATG--T
1 ATGATATGCAC
58784407 ATGATATGCAC
1 ATGATATGCAC
58784418 ATGAT
1 ATGAT
58784423 GTATATGCAC
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:58784429 original size:20 final size:20
Alignment explanation
Indices: 58784357--58784422 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
58784347 ATTTTGATAA
58784357 ACATG-TATGTATGATATGC
1 ACATGATATGTATGATATGC
*
58784376 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
58784396 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
58784416 ACATGAT
1 ACATGAT
58784423 GTATATGCAC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
19 5 0.11
20 39 0.89
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:58784429 original size:35 final size:38
Alignment explanation
Indices: 58784357--58784441 Score: 115
Period size: 40 Copynumber: 2.3 Consensus size: 38
58784347 ATTTTGATAA
58784357 ACATG-TATGTATGATATGCACATGACATGTATGATATGC
1 ACATGATATGTATGATATGCACATGA-ATG-ATGATATGC
58784396 ACATGATATGTATGATATGCACATG-ATG-T-ATATGC
1 ACATGATATGTATGATATGCACATGAATGATGATATGC
*
58784431 ACATGAGATGT
1 ACATGATATGT
58784442 TCATAAATGC
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
35 16 0.36
36 1 0.02
38 3 0.07
39 5 0.11
40 19 0.43
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (38 bp):
ACATGATATGTATGATATGCACATGAATGATGATATGC
Found at i:58784564 original size:24 final size:23
Alignment explanation
Indices: 58784487--58784649 Score: 219
Period size: 22 Copynumber: 7.0 Consensus size: 23
58784477 GAGGAAGTGC
58784487 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
58784510 -TAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
58784532 -AAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
58784554 GAAAAGGGCTTATGCCCCAGTT-T
1 -AAAAGGGCTTATGCCCCAGTTAT
58784577 ATAAAGGGCTTATGCCCCAGTTAT
1 A-AAAGGGCTTATGCCCCAGTTAT
58784601 AAAAAGGGCTT-TGCCCCAGTTACT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
58784625 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
58784649 A
1 A
58784650 TGATAAAGCA
Statistics
Matches: 128, Mismatches: 3, Indels: 17
0.86 0.02 0.11
Matches are distributed among these distances:
22 43 0.34
23 38 0.30
24 39 0.30
25 8 0.06
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:58784596 original size:47 final size:46
Alignment explanation
Indices: 58784488--58784621 Score: 220
Period size: 47 Copynumber: 2.9 Consensus size: 46
58784478 AGGAAGTGCA
*
58784488 AAAGGGCTTATGCCCCAGTTAT-TAAGGGCTTATGCCCCAG-TTAT
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTTAT
58784532 AAAGGGCTTATGCCCCAGTTATGAAAAGGGCTTATGCCCCAGTTTAT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTTAT
58784579 AAAGGGCTTATGCCCCAGTTATAAAAAGGGCTT-TGCCCCAGTT
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTT
58784622 ACTAAAAGAG
Statistics
Matches: 85, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
44 22 0.26
46 27 0.32
47 36 0.42
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (46 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTTAT
Found at i:58784875 original size:31 final size:31
Alignment explanation
Indices: 58784840--58784903 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
58784830 CGTTTACAGT
*
58784840 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
58784871 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
58784902 AA
1 AA
58784904 TATGAAAAGG
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:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:58786973 original size:29 final size:29
Alignment explanation
Indices: 58786933--58787035 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
58786923 GTTGAGAGAT
*
58786933 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
58786962 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
58786991 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
58787020 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
58787036 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:58795052 original size:29 final size:29
Alignment explanation
Indices: 58795012--58795114 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
58795002 GTTGAGAGAT
*
58795012 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
58795041 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
58795070 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
58795099 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
58795115 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:58801163 original size:49 final size:49
Alignment explanation
Indices: 58801094--58801442 Score: 626
Period size: 49 Copynumber: 7.1 Consensus size: 49
58801084 GTACATAATA
58801094 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* *
58801143 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
58801192 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAGATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
58801241 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
58801290 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAGATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
58801339 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* * *
58801388 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
58801437 ATATAT
1 ATATAT
58801443 ATATGTGGTA
Statistics
Matches: 291, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 291 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (49 bp):
ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
Found at i:58801568 original size:37 final size:36
Alignment explanation
Indices: 58801513--58801599 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
58801503 AACTTGGAAA
58801513 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
58801551 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
58801588 TATGTCCGGGTA
1 TATGTCCGGGTA
58801600 AGACTTCGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:58805972 original size:26 final size:26
Alignment explanation
Indices: 58805939--58806011 Score: 128
Period size: 26 Copynumber: 2.8 Consensus size: 26
58805929 CTCTTTTAAT
*
58805939 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
58805965 AATTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
58805991 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
58806012 GCACTTCCTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:58806080 original size:18 final size:19
Alignment explanation
Indices: 58806057--58806096 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
58806047 GCATTTATGA
58806057 ATACAT-CATGTGCATATC
1 ATACATACATGTGCATATC
58806075 ATACATACCATGTGCATATC
1 ATACATA-CATGTGCATATC
58806095 AT
1 AT
58806097 GTCAATCATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.30
20 14 0.70
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.33
Consensus pattern (19 bp):
ATACATACATGTGCATATC
Found at i:58814184 original size:9 final size:11
Alignment explanation
Indices: 58814121--58814187 Score: 74
Period size: 9 Copynumber: 6.6 Consensus size: 11
58814111 TTATGAATAC
58814121 ATCATGTGCAT
1 ATCATGTGCAT
*
58814132 ATCA--TACAT
1 ATCATGTGCAT
58814141 ATCATGTGCAT
1 ATCATGTGCAT
*
58814152 ATCA--TACAT
1 ATCATGTGCAT
58814161 ATCATGTGCAT
1 ATCATGTGCAT
58814172 ATCATGT-CA-
1 ATCATGTGCAT
58814181 ATCATGT
1 ATCATGT
58814188 ATATCAAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
9 23 0.48
10 2 0.04
11 23 0.48
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:58814187 original size:20 final size:20
Alignment explanation
Indices: 58814121--58814176 Score: 112
Period size: 20 Copynumber: 2.8 Consensus size: 20
58814111 TTATGAATAC
58814121 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58814141 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58814161 ATCATGTGCATATCAT
1 ATCATGTGCATATCAT
58814177 GTCAATCATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:58819472 original size:10 final size:10
Alignment explanation
Indices: 58819444--58819501 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
58819434 TTAAGATAAA
58819444 TGTTT-AATG
1 TGTTTAAATG
*
58819453 TGTTT-TATG
1 TGTTTAAATG
58819462 TGTTTAAATG
1 TGTTTAAATG
58819472 TGTTTAATATG
1 TGTTTAA-ATG
*
58819483 TCTGTTTTAATG
1 --TGTTTAAATG
58819495 TGTTTAA
1 TGTTTAA
58819502 TTTCAGGTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
9 13 0.32
10 16 0.39
11 3 0.07
12 3 0.07
13 6 0.15
ACGTcount: A:0.22, C:0.02, G:0.19, T:0.57
Consensus pattern (10 bp):
TGTTTAAATG
Found at i:58819494 original size:23 final size:21
Alignment explanation
Indices: 58819446--58819502 Score: 73
Period size: 23 Copynumber: 2.7 Consensus size: 21
58819436 AAGATAAATG
58819446 TTTAATGTGTTT--TATGTGT
1 TTTAATGTGTTTAATATGTGT
*
58819465 TTAAATGTGTTTAATATGTCTGT
1 TTTAATGTGTTTAATATG--TGT
58819488 TTTAATGTGTTTAAT
1 TTTAATGTGTTTAAT
58819503 TTCAGGTGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 11 0.34
21 4 0.12
23 17 0.53
ACGTcount: A:0.23, C:0.02, G:0.18, T:0.58
Consensus pattern (21 bp):
TTTAATGTGTTTAATATGTGT
Found at i:58819502 original size:9 final size:9
Alignment explanation
Indices: 58819444--58819502 Score: 55
Period size: 9 Copynumber: 5.9 Consensus size: 9
58819434 TTAAGATAAA
58819444 TGTTTAATG
1 TGTTTAATG
*
58819453 TGTTTTATG
1 TGTTTAATG
58819462 TGTTTAAATG
1 TGTTT-AATG
58819472 TGTTTAATATG
1 TGTTT-A-ATG
58819483 TCTGTTTTAATG
1 --TG-TTTAATG
58819495 TGTTTAAT
1 TGTTTAAT
58819503 TTCAGGTGTC
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
9 19 0.44
10 12 0.28
11 3 0.07
12 3 0.07
13 3 0.07
14 3 0.07
ACGTcount: A:0.22, C:0.02, G:0.19, T:0.58
Consensus pattern (9 bp):
TGTTTAATG
Found at i:58833331 original size:24 final size:24
Alignment explanation
Indices: 58833287--58833341 Score: 94
Period size: 25 Copynumber: 2.3 Consensus size: 24
58833277 CAGACTTATC
58833287 TTACTTTTTGGGGCATAAAAAAATT
1 TTACTTTTTGGGGCATAAAAAAA-T
58833312 TTACTTTTTGGGGCAT-AAAAAAT
1 TTACTTTTTGGGGCATAAAAAAAT
58833335 TTACTTT
1 TTACTTT
58833342 AAAAAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 8 0.27
24 6 0.20
25 16 0.53
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.44
Consensus pattern (24 bp):
TTACTTTTTGGGGCATAAAAAAAT
Found at i:58837150 original size:28 final size:27
Alignment explanation
Indices: 58837084--58837153 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
58837074 ATAGTGAGTC
* *
58837084 CGCACACTTAGTGCTATATAATCAGCT
1 CGCACACTTAGTGCTACATAATCAACT
*
58837111 CGCACACTTAGTGCTACATAATCAAATT
1 CGCACACTTAGTGCTACATAATC-AACT
58837139 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58837154 GTACAAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:58844794 original size:24 final size:25
Alignment explanation
Indices: 58844736--58844801 Score: 98
Period size: 24 Copynumber: 2.6 Consensus size: 25
58844726 TATAGTGAGC
*
58844736 CGCACACTTAGTGCTATATAATCAGCT
1 CGCACACTTAGTGC--TATAATCAGAT
58844763 CGCACACTTAGTGCTATAATCA-AT
1 CGCACACTTAGTGCTATAATCAGAT
58844787 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58844802 GTACAATTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
24 16 0.42
25 8 0.21
27 14 0.37
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (25 bp):
CGCACACTTAGTGCTATAATCAGAT
Found at i:58846909 original size:62 final size:64
Alignment explanation
Indices: 58846812--58846938 Score: 240
Period size: 62 Copynumber: 2.0 Consensus size: 64
58846802 AAATGTCCAA
58846812 TGGATGGGCAAAACAAGTGAACTTGGCTTGCTAACCCCTCGTGTCCGAC-A-CCGGCGATGGTC
1 TGGATGGGCAAAACAAGTGAACTTGGCTTGCTAACCCCTCGTGTCCGACAACCCGGCGATGGTC
58846874 TGGATGGGCAAAACAAGTGAACTTGGCTTGCTAACCCCTCGTGTCCGACAACCCGGCGATGGTC
1 TGGATGGGCAAAACAAGTGAACTTGGCTTGCTAACCCCTCGTGTCCGACAACCCGGCGATGGTC
58846938 T
1 T
58846939 CGGGTTCGGG
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
62 49 0.78
63 1 0.02
64 13 0.21
ACGTcount: A:0.23, C:0.28, G:0.28, T:0.21
Consensus pattern (64 bp):
TGGATGGGCAAAACAAGTGAACTTGGCTTGCTAACCCCTCGTGTCCGACAACCCGGCGATGGTC
Found at i:58854384 original size:34 final size:33
Alignment explanation
Indices: 58854335--58854412 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 33
58854325 ATGCTAAAAA
*
58854335 GGGCTAAGGCCCAGACTACCACTGTTACTGAAAT
1 GGGCTAAGGCCCAGACTACCACTATTACT-AAAT
* * *
58854369 GGGCTCAGGCGCAGACTACTACTATTACTAAATT
1 GGGCTAAGGCCCAGACTACCACTATTACTAAA-T
*
58854403 AGGCTAAGGC
1 GGGCTAAGGC
58854413 TAACTGATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
33 3 0.08
34 34 0.92
ACGTcount: A:0.29, C:0.24, G:0.24, T:0.22
Consensus pattern (33 bp):
GGGCTAAGGCCCAGACTACCACTATTACTAAAT
Found at i:58855884 original size:28 final size:29
Alignment explanation
Indices: 58855853--58855912 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
58855843 GATTTTCAGT
*
58855853 AAAAATGCATATT-AGGGATTAAATTGAG
1 AAAAATGCAAATTGAGGGATTAAATTGAG
* * * *
58855881 AAAAGTGTAAATTGAGGGGTTAAATTGTG
1 AAAAATGCAAATTGAGGGATTAAATTGAG
58855910 AAA
1 AAA
58855913 TAAATGAAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 10 0.38
29 16 0.62
ACGTcount: A:0.45, C:0.02, G:0.25, T:0.28
Consensus pattern (29 bp):
AAAAATGCAAATTGAGGGATTAAATTGAG
Found at i:58860579 original size:42 final size:42
Alignment explanation
Indices: 58860465--58860615 Score: 126
Period size: 43 Copynumber: 3.5 Consensus size: 42
58860455 ATAGGATCTG
* * * *
58860465 ATATGTGATTTCGTGTAAGACCAC-ATCTGGGACGTTGGCAT-
1 ATATCTGATTTCATGTAAGACC-CTGTCTGGGACATTGGCATC
* * * *
58860506 TTAATTCTGTTTTACGTGTAAGACCATGTCTGGGACATTGGCATC
1 AT-A-TCTGATTT-CATGTAAGACCCTGTCTGGGACATTGGCATC
* *
58860551 GTATCTGATTTCATGTAAGACCCTGTCTGGGACAGTGGCATC
1 ATATCTGATTTCATGTAAGACCCTGTCTGGGACATTGGCATC
* * *
58860593 AATGTTTGATTACATGTAAGACC
1 -ATATCTGATTTCATGTAAGACC
58860616 ACGTCTGTAA
Statistics
Matches: 89, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
41 1 0.01
42 29 0.33
43 31 0.35
44 27 0.30
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.34
Consensus pattern (42 bp):
ATATCTGATTTCATGTAAGACCCTGTCTGGGACATTGGCATC
Found at i:58860622 original size:43 final size:42
Alignment explanation
Indices: 58860478--58860622 Score: 134
Period size: 42 Copynumber: 3.4 Consensus size: 42
58860468 TGTGATTTCG
* * * *
58860478 TGTAAGACCACATCTGGGAC-GTTGGCATTTAATTCTGTTTTACG
1 TGTAAGACCACGTCTGGGACAG-TGGCA-TCAATTCTG-ATTACA
* * * *
58860522 TGTAAGACCATGTCTGGGACATTGGCATC-GTATCTGATTTCA
1 TGTAAGACCACGTCTGGGACAGTGGCATCAAT-TCTGATTACA
*
58860564 TGTAAGACC-CTGTCTGGGACAGTGGCATCAATGTTTGATTACA
1 TGTAAGACCAC-GTCTGGGACAGTGGCATCAAT-TCTGATTACA
58860607 TGTAAGACCACGTCTG
1 TGTAAGACCACGTCTG
58860623 TAACGTTGGC
Statistics
Matches: 82, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
42 30 0.37
43 28 0.34
44 24 0.29
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCAATTCTGATTACA
Found at i:58861745 original size:58 final size:58
Alignment explanation
Indices: 58861675--58861790 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
58861665 AGACACGCGG
58861675 GCGTGTCTAATGTCGTGTAAGGCACACGACCTGTTTACAAGGGCGTGTGACCTGTACT
1 GCGTGTCTAATGTCGTGTAAGGCACACGACCTGTTTACAAGGGCGTGTGACCTGTACT
*
58861733 GCGTGTCTAATGTCGTGTAAGGCACATGACCTGTTTACAAGGGCGTGTGACCTGTACT
1 GCGTGTCTAATGTCGTGTAAGGCACACGACCTGTTTACAAGGGCGTGTGACCTGTACT
58861791 TCTTTGAAAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (58 bp):
GCGTGTCTAATGTCGTGTAAGGCACACGACCTGTTTACAAGGGCGTGTGACCTGTACT
Found at i:58868139 original size:49 final size:49
Alignment explanation
Indices: 58868073--58868166 Score: 170
Period size: 49 Copynumber: 1.9 Consensus size: 49
58868063 TACATATATG
58868073 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAATGTATACATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAATGTATACATA
* *
58868122 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAATGTATA
58868167 GAATAGACTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.28
Consensus pattern (49 bp):
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAATGTATACATA
Found at i:58870021 original size:13 final size:13
Alignment explanation
Indices: 58870005--58870029 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
58869995 AAATAATTTC
58870005 TTGAAAATTTTGT
1 TTGAAAATTTTGT
58870018 TTGAAAATTTTG
1 TTGAAAATTTTG
58870030 ACGTTCGGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (13 bp):
TTGAAAATTTTGT
Found at i:58874317 original size:30 final size:30
Alignment explanation
Indices: 58874281--58874411 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
58874271 GACAAGATTG
* * * * *
58874281 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
58874311 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
58874339 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
58874369 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
58874398 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
58874412 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:58874372 original size:58 final size:58
Alignment explanation
Indices: 58874281--58874411 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
58874271 GACAAGATTG
* * * * * *
58874281 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
58874339 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
58874398 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
58874412 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:58877838 original size:45 final size:45
Alignment explanation
Indices: 58877788--58877875 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
58877778 AAACATGTGC
* *
58877788 CACATACATCATGAACTCAGACCACTACTCAATGAGTTTAGATGT
1 CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGATGT
* * *
58877833 CACATATATCATGAACTCAGACCACAATTTAATGAGTTCAGAT
1 CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGAT
58877876 CACATAGTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (45 bp):
CACATACATCATGAACTCAGACCACAACTCAATGAGTTCAGATGT
Found at i:58879987 original size:40 final size:40
Alignment explanation
Indices: 58879928--58880045 Score: 166
Period size: 40 Copynumber: 3.0 Consensus size: 40
58879918 GTGCGATTAG
*
58879928 GGGCACAGATGTGCCTTCAGGGGTACCGAAGTACAAAC-A
1 GGGCACAGATGTGCATTCAGGGGTACCGAAGTACAAACAA
* ** *
58879967 GAGGCACAAATGTGCATTCAGGGGTATTGAAGTACAAATAA
1 G-GGCACAGATGTGCATTCAGGGGTACCGAAGTACAAACAA
*
58880008 GGGAACAGATGTGCATTCAGGGGTACCGAAGTACAAAC
1 GGGCACAGATGTGCATTCAGGGGTACCGAAGTACAAAC
58880046 TGGGGCACTT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
39 1 0.01
40 64 0.96
41 2 0.03
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.18
Consensus pattern (40 bp):
GGGCACAGATGTGCATTCAGGGGTACCGAAGTACAAACAA
Found at i:58887329 original size:40 final size:39
Alignment explanation
Indices: 58887164--58887347 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
58887154 AAATTGAATG
* * *
58887164 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
58887204 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
58887244 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
58887284 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
58887323 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
58887348 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:58887372 original size:80 final size:81
Alignment explanation
Indices: 58887204--58887392 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
58887194 GCTGGAAATT
* * * *
58887204 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
58887269 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
58887285 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
58887348 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
58887364 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
58887393 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:58895443 original size:40 final size:39
Alignment explanation
Indices: 58895278--58895461 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
58895268 AAATTGAATG
* * *
58895278 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
58895318 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
58895358 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
58895398 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
58895437 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
58895462 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:58895486 original size:80 final size:81
Alignment explanation
Indices: 58895318--58895506 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
58895308 GCTGGAAATT
* * * *
58895318 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
58895383 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
58895399 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
58895462 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
58895478 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
58895507 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:58902883 original size:40 final size:39
Alignment explanation
Indices: 58902718--58902901 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
58902708 AAATTGAATG
* * *
58902718 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
58902758 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
58902798 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
58902838 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
58902877 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
58902902 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:58902926 original size:80 final size:81
Alignment explanation
Indices: 58902758--58902946 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
58902748 GCTGGAAATT
* * * *
58902758 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
58902823 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
58902839 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
58902902 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
58902918 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
58902947 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:58912447 original size:45 final size:45
Alignment explanation
Indices: 58912292--58912462 Score: 172
Period size: 45 Copynumber: 3.7 Consensus size: 45
58912282 TTGTGAGAAC
* *
58912292 CAGTGTAAGACCATGTCTGGGACATGGCATCGAC-ATTGAGATGAGT
1 CAGTGTAAGA-CATGTCTGGGACATGGCATCGACTA-CGAGATGTGT
* * * *
58912338 GCTAGTGTAAGACATGTTTGGG-CAT-GTATCGGCCT-CGAGACGTAAGT
1 -C-AGTGTAAGACATGTCTGGGACATGGCATC-GACTACGAGATGT--GT
*
58912385 CAATGTAAGACATGTCTGGGACAT-GCATCGACTACGAGATGTGT
1 CAGTGTAAGACATGTCTGGGACATGGCATCGACTACGAGATGTGT
58912429 CAGTGTAAGACCATGTCTGGGACATGGCATCGAC
1 CAGTGTAAGA-CATGTCTGGGACATGGCATCGAC
58912463 ACAGATATGC
Statistics
Matches: 103, Mismatches: 12, Indels: 19
0.77 0.09 0.14
Matches are distributed among these distances:
44 11 0.11
45 43 0.42
46 28 0.27
47 12 0.12
48 9 0.09
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (45 bp):
CAGTGTAAGACATGTCTGGGACATGGCATCGACTACGAGATGTGT
Found at i:58919083 original size:48 final size:45
Alignment explanation
Indices: 58918976--58919109 Score: 137
Period size: 48 Copynumber: 2.9 Consensus size: 45
58918966 GGGCTATTGT
*
58918976 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCACATTGTGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-G--GCATTGTGA
* *
58919022 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT--G-TGA
* * * *
58919070 GTGCTAGTGTAAGACCATTTTTGGGACATGGCATTGGCAT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
58919110 CTTACCCCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
45 4 0.05
46 13 0.18
47 15 0.20
48 42 0.57
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (45 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGTGA
Found at i:58920600 original size:38 final size:38
Alignment explanation
Indices: 58920549--58920625 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
58920539 GGTTCAAAGC
58920549 TTTTTGGGTTTGGCCAGATTCTATAGACGGTTTGTAAA
1 TTTTTGGGTTTGGCCAGATTCTATAGACGGTTTGTAAA
*
58920587 TTTTTGGGTTTGGCCGGATTCTATAGACGGTTTGTAAA
1 TTTTTGGGTTTGGCCAGATTCTATAGACGGTTTGTAAA
58920625 T
1 T
58920626 GAATTCTCTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.19, C:0.10, G:0.27, T:0.43
Consensus pattern (38 bp):
TTTTTGGGTTTGGCCAGATTCTATAGACGGTTTGTAAA
Found at i:58925903 original size:3 final size:3
Alignment explanation
Indices: 58925895--58925957 Score: 119
Period size: 3 Copynumber: 21.3 Consensus size: 3
58925885 AGCTTCTCTT
58925895 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
58925943 -TA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA T
58925958 AATTCATGAT
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 57 0.97
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:58934315 original size:47 final size:47
Alignment explanation
Indices: 58934261--58934501 Score: 410
Period size: 47 Copynumber: 5.1 Consensus size: 47
58934251 TTAGGATTTT
**
58934261 ATGTGATGAATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
58934308 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
58934355 ATGTGATGACTGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
58934402 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
58934449 ATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
58934496 ATGTGA
1 ATGTGA
58934502 AATATATATA
Statistics
Matches: 184, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 184 1.00
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:58934756 original size:37 final size:37
Alignment explanation
Indices: 58934706--58934818 Score: 190
Period size: 37 Copynumber: 3.1 Consensus size: 37
58934696 GGAAATATAT
* *
58934706 TCCGGGTAAGACCCGATGACTACGTGTGGGGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
58934743 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
58934780 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
58934817 TC
1 TC
58934819 TGAGCTAAAG
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 72 1.00
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:58935770 original size:21 final size:22
Alignment explanation
Indices: 58935723--58935777 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
58935713 CATTCAAGAT
**
58935723 AAAATAATATATAAAACTCTTTA
1 AAAATAATATA-AAAACTAATTA
*
58935746 AAAATAATATAAAAAC-AATTC
1 AAAATAATATAAAAACTAATTA
58935767 AAAAT-ATATAA
1 AAAATAATATAA
58935778 TGTATAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.21
21 7 0.24
22 5 0.17
23 11 0.38
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAATAATATAAAAACTAATTA
Found at i:58936008 original size:15 final size:15
Alignment explanation
Indices: 58935984--58936029 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
58935974 ATATAAATAG
*
58935984 AAATAAAAATATAAT
1 AAATAGAAATATAAT
*
58935999 AAATAGAAATTTAAT
1 AAATAGAAATATAAT
58936014 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
58936030 ATAGATAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 15 0.58
16 1 0.04
17 10 0.38
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:58936049 original size:15 final size:14
Alignment explanation
Indices: 58936022--58936092 Score: 56
Period size: 15 Copynumber: 4.9 Consensus size: 14
58936012 ATAATAGTAG
*
58936022 AAATATAAATAGAT
1 AAATAAAAATAGAT
58936036 AAATAAAAATTAGAT
1 AAATAAAAA-TAGAT
*
58936051 AAATAATAATAGTATT
1 AAATAAAAATAG-A-T
*
58936067 AGAATAACAA-A-AT
1 A-AATAAAAATAGAT
*
58936080 AAATAGAAATAGA
1 AAATAAAAATAGA
58936093 AACATAATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
12 6 0.13
13 3 0.07
14 13 0.28
15 14 0.30
16 3 0.07
17 7 0.15
ACGTcount: A:0.65, C:0.01, G:0.08, T:0.25
Consensus pattern (14 bp):
AAATAAAAATAGAT
Found at i:58945616 original size:8 final size:8
Alignment explanation
Indices: 58945603--58945632 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
58945593 GGCCGAAAAC
58945603 GGGCCAAT
1 GGGCCAAT
58945611 GGGCCAAT
1 GGGCCAAT
*
58945619 GGGCCAAC
1 GGGCCAAT
58945627 GGGCCA
1 GGGCCA
58945633 CTTTGGTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.40, T:0.07
Consensus pattern (8 bp):
GGGCCAAT
Found at i:58945925 original size:27 final size:26
Alignment explanation
Indices: 58945881--58945932 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
58945871 CTCGCTGCAA
*
58945881 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
58945908 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
58945933 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:58945997 original size:33 final size:32
Alignment explanation
Indices: 58945948--58946010 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
58945938 CTCGCTGCAA
* *
58945948 TCTGGTGGCTTCGCCACATATATATATATCTAT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTAT
*
58945981 TCTGGTGGCCTAGCCACAATATCTATATCT
1 TCTGGTGGCCTAGCCACAATATATATATCT
58946011 GGTGACTTCG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTAT
Found at i:58946025 original size:27 final size:26
Alignment explanation
Indices: 58945973--58946031 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
58945963 ACATATATAT
*
58945973 ATATCTATTCTGGTGGCCTAGCCACA
1 ATATCTATTCTGGTGACCTAGCCACA
* * *
58945999 ATATCTATATCTGGTGACTTCGTCACA
1 ATATCTAT-TCTGGTGACCTAGCCACA
58946026 ATATCT
1 ATATCT
58946032 GGCAGCCTCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (26 bp):
ATATCTATTCTGGTGACCTAGCCACA
Found at i:58953395 original size:2 final size:2
Alignment explanation
Indices: 58953388--58953415 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
58953378 GGCTTCGCAC
58953388 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
58953416 CTGTTCTGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58953464 original size:27 final size:26
Alignment explanation
Indices: 58953412--58953471 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
58953402 ATATATATAT
*
58953412 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
58953438 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
58953465 ATATCTG
1 ATATCTG
58953472 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:58957074 original size:20 final size:20
Alignment explanation
Indices: 58957045--58957113 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 20
58957035 TCATACGGGA
* *
58957045 TTGCACTTCGGTGCCTCTAT
1 TTGCATTTCGGTGCCTCTGT
*
58957065 TTGCATTTCGATGCCTCTGT
1 TTGCATTTCGGTGCCTCTGT
58957085 ATTGCACTTT-GGTGCCTCTGT
1 -TTGCA-TTTCGGTGCCTCTGT
*
58957106 TAGCATTT
1 TTGCATTT
58957114 TTAATGCTCT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
19 3 0.07
20 21 0.50
21 15 0.36
22 3 0.07
ACGTcount: A:0.12, C:0.25, G:0.20, T:0.43
Consensus pattern (20 bp):
TTGCATTTCGGTGCCTCTGT
Found at i:58957100 original size:21 final size:21
Alignment explanation
Indices: 58957044--58957105 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
58957034 CTCATACGGG
* *
58957044 ATTGCACTTCGGTGCCTCTAT
1 ATTGCACTTTGGTGCCTCTGT
*
58957065 -TTGCA-TTTCGATGCCTCTGT
1 ATTGCACTTT-GGTGCCTCTGT
58957085 ATTGCACTTTGGTGCCTCTGT
1 ATTGCACTTTGGTGCCTCTGT
58957106 TAGCATTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 2 0.06
20 14 0.41
21 15 0.44
22 3 0.09
ACGTcount: A:0.11, C:0.26, G:0.21, T:0.42
Consensus pattern (21 bp):
ATTGCACTTTGGTGCCTCTGT
Found at i:58966482 original size:30 final size:31
Alignment explanation
Indices: 58966446--58966509 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 31
58966436 TTTTCAAGCC
58966446 TAGGGGCAAAATCATAATTTTG-CAAAGGTT
1 TAGGGGCAAAATCATAATTTTGCCAAAGGTT
* * *
58966476 TAGGGGCATAATTATAATTTTGCCAAAGTTT
1 TAGGGGCAAAATCATAATTTTGCCAAAGGTT
58966507 TAG
1 TAG
58966510 TTAGGGAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 20 0.67
31 10 0.33
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.34
Consensus pattern (31 bp):
TAGGGGCAAAATCATAATTTTGCCAAAGGTT
Found at i:58967323 original size:47 final size:47
Alignment explanation
Indices: 58967263--58967384 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
58967253 GCATTAGCAC
58967263 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
58967310 TAAGACAAGGATACCATGTAAGACCATGTTTGGAGCATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
58967357 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
58967385 CCAAGGCATG
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:58967427 original size:54 final size:54
Alignment explanation
Indices: 58967363--58967559 Score: 227
Period size: 54 Copynumber: 3.6 Consensus size: 54
58967353 TTGGTAAGAT
*
58967363 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
* * *
58967417 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-CTATAAGGC
** * *
58967472 AAAGG-TCCCAGGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
* * ** * * *
58967525 AAGAATACCACATAAAACCATGTCAAGACATGGCA
1 AAGGATATCATGTAAGACCATGCCAAGGCATGGCA
58967560 ATGGTAAGTT
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 3 0.02
53 31 0.25
54 42 0.34
55 42 0.34
56 4 0.03
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTCTATAAGGC
Found at i:58967492 original size:55 final size:53
Alignment explanation
Indices: 58967374--58967559 Score: 203
Period size: 55 Copynumber: 3.5 Consensus size: 53
58967364 AGGATATCAT
* * * * *
58967374 GTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCAT
1 GTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGG-TACCAC
* * *
58967428 GTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCCCAG
1 GTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC-AAGGTACCAC
* * *
58967483 GTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGAATACCAC
1 GTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAG-GTACCAC
* * *
58967536 ATAAAACCATGTCAAGACATGGCA
1 GTAAGACCATGCCAAGACATGGCA
58967560 ATGGTAAGTT
Statistics
Matches: 112, Mismatches: 17, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
52 3 0.03
53 31 0.28
54 32 0.29
55 42 0.38
56 4 0.04
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.20
Consensus pattern (53 bp):
GTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGTACCAC
Found at i:58973632 original size:49 final size:49
Alignment explanation
Indices: 58973566--58974025 Score: 785
Period size: 49 Copynumber: 9.4 Consensus size: 49
58973556 TACATATATG
* * * * *
58973566 TGTGATAAGGCCGAATGGCCAATGCGATGCATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
58973615 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
58973664 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
58973713 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
58973762 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
58973811 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
58973860 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGGATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
58973909 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
58973958 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
58974007 TGTGATAAGGCCTAATGGC
1 TGTGATGAGGCCTAATGGC
58974026 TAATGTAAAA
Statistics
Matches: 392, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 392 1.00
ACGTcount: A:0.28, C:0.09, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:58974177 original size:37 final size:37
Alignment explanation
Indices: 58974127--58974211 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
58974117 GGAATATGTT
*
58974127 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
58974164 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGC
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
58974201 CCGGGTAAGAC
1 CCGGGTAAGAC
58974212 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.21, G:0.34, T:0.20
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:58976293 original size:29 final size:29
Alignment explanation
Indices: 58976251--58976439 Score: 333
Period size: 29 Copynumber: 6.5 Consensus size: 29
58976241 GCGAATGATT
58976251 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
58976280 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
58976309 GAGGTACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
58976338 GAGGCACTATGTGTGCGAGATCAGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
58976367 GAGGCACTATGTGTGCGAGATCGGTAATC
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
58976396 GAGGCACTATGTGTGCGAGATCAGTAATT
1 GAGGCACTATGTGTGCGAGATCAGTAATC
*
58976425 GAGGCACTGTGTGTG
1 GAGGCACTATGTGTG
58976440 TGAGTTTTTC
Statistics
Matches: 152, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 152 1.00
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.26
Consensus pattern (29 bp):
GAGGCACTATGTGTGCGAGATCAGTAATC
Found at i:58979758 original size:49 final size:49
Alignment explanation
Indices: 58979692--58980151 Score: 785
Period size: 49 Copynumber: 9.4 Consensus size: 49
58979682 TACATATATG
* * * * * *
58979692 TGTGATAAGGCCGAATGGCCAATGCGATGCATGTGAAAGTGTATGTACA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
58979741 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
58979790 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
58979839 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
58979888 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
58979937 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGAATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
58979986 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
58980035 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
58980084 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
58980133 TGTGATAAGGCCTAATGGC
1 TGTGATGAGGCCTAATGGC
58980152 TAATGTAAAA
Statistics
Matches: 393, Mismatches: 18, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 393 1.00
ACGTcount: A:0.28, C:0.09, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:58980303 original size:37 final size:37
Alignment explanation
Indices: 58980253--58980337 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
58980243 GGAATATGTT
*
58980253 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
58980290 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
58980327 CCGGGTAAGAC
1 CCGGGTAAGAC
58980338 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:58984267 original size:47 final size:47
Alignment explanation
Indices: 58984208--58984328 Score: 215
Period size: 47 Copynumber: 2.6 Consensus size: 47
58984198 GCATTAGCAC
58984208 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
58984255 TAAGACAAGGATACCATGTAAGACCATGTTTGGAGCATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
58984302 TAAGATAAGGATATCATGTAAGACCAT
1 TAAGACAAGGATACCATGTAAGACCAT
58984329 TCCAAGGCAT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:58984373 original size:54 final size:54
Alignment explanation
Indices: 58984308--58984504 Score: 213
Period size: 55 Copynumber: 3.6 Consensus size: 54
58984298 TTGGTAAGAT
*
58984308 AAGGATATCATGTAAGACCATTCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATATCATGTAAGACCATTCCAAGGCATGGCATTGATGAGTTCTATAAGGC
* *
58984362 AAGGAAATCATGTAAGACCATGT-CAAGACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATATCATGTAAGACCAT-TCCAAGGCATGGCATTGATGAGTT-CTATAAGGC
** * * *
58984417 AAAGG-TCCCAGGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGC
1 -AAGGATATCATGTAAGACCATTCCAAGGCATGGCATTGATGAGTTCTATAAGGC
* * ** *
58984470 AAGAATACCACATAAGACCATGT-CAAGACATGGCA
1 AAGGATATCATGTAAGACCAT-TCCAAGGCATGGCA
58984505 AAGGTAAGTT
Statistics
Matches: 121, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
52 3 0.02
53 31 0.26
54 41 0.34
55 42 0.35
56 4 0.03
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (54 bp):
AAGGATATCATGTAAGACCATTCCAAGGCATGGCATTGATGAGTTCTATAAGGC
Found at i:58990148 original size:48 final size:48
Alignment explanation
Indices: 58990077--58990346 Score: 227
Period size: 48 Copynumber: 5.6 Consensus size: 48
58990067 AAACAAAGTA
* *
58990077 CCAATGCCATGACCCAGACATGGTCTTACATGAATCCACATATA-ATCG
1 CCAATGCCATGTCCCAGACATGGTCTTACAT-AATGCACATATACATCG
*
58990125 CCAATGCCATGTCCCAGACATGGTCTTAC--AATGGCACATATATCATCC
1 CCAATGCCATGTCCCAGACATGGTCTTACATAAT-GCACATATA-CATCG
* * *
58990173 CCGATGCCATGTCCCAAACATGGTCTT--ATACAGGCACATATATCATCG
1 CCAATGCCATGTCCCAGACATGGTCTTACATA-ATGCACATATA-CATCG
* * *
58990221 CC-ATGCCATGTCCCAGACATGGTCTTACA-CAGGTACATATATCATCG
1 CCAATGCCATGTCCCAGACATGGTCTTACATAATGCACATATA-CATCG
*** * * * *
58990268 TTGATGCCATGTCCTAGACATGGTCTTACA-CAGGCACACT-TCTCGGAT-G
1 CCAATGCCATGTCCCAGACATGGTCTTACATAATGCACA-TAT-AC--ATCG
*
58990317 CCAATGCCATGTCCCAAACATGGTCTTACA
1 CCAATGCCATGTCCCAGACATGGTCTTACA
58990347 CAGAATCTCA
Statistics
Matches: 189, Mismatches: 20, Indels: 25
0.81 0.09 0.11
Matches are distributed among these distances:
45 3 0.02
46 8 0.04
47 39 0.21
48 108 0.57
49 29 0.15
50 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.25
Consensus pattern (48 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATAATGCACATATACATCG
Done.