Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 104 of 318
Found at i:31777846 original size:29 final size:31
Alignment explanation
Indices: 31777813--31777882 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 31
31777803 ATAATAGAAT
31777813 ATTT-ATATACAAGATAA-ACATTAA-ATTAA
1 ATTTAATAT-CAAGATAACACATTAATATTAA
* *
31777842 ATTTAATATTAAGATAATCACTTTAATATTAA
1 ATTTAATATCAAGATAA-CACATTAATATTAA
31777874 ATTTAATAT
1 ATTTAATAT
31777883 TATTTTTGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 11 0.31
30 4 0.11
31 6 0.17
32 14 0.40
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (31 bp):
ATTTAATATCAAGATAACACATTAATATTAA
Found at i:31777850 original size:62 final size:59
Alignment explanation
Indices: 31777737--31777853 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
31777727 ATCACTTTAA
* * * *
31777737 TATTAAATTAATATAATATTTATTAAGATAAATATTAGATTAAATATAATATTAAATCT
1 TATTAAAATAATAGAATATTTATTAAGATAAACATTAAATTAAATATAATATTAAATCT
*
31777796 TATTAAAATAATAGAATATTTATATACAAGATAAACATTAAATTAAATTTAATATTAA
1 TATTAAAATAATAGAATATTTAT-T--AAGATAAACATTAAATTAAATATAATATTAA
31777854 GATAATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 21 0.42
60 1 0.02
62 28 0.56
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (59 bp):
TATTAAAATAATAGAATATTTATTAAGATAAACATTAAATTAAATATAATATTAAATCT
Found at i:31784501 original size:18 final size:17
Alignment explanation
Indices: 31784451--31784511 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 17
31784441 TAAATAAAGG
31784451 TATTGAATAATTGACTGT
1 TATTGAA-AATTGACTGT
* * *
31784469 TACTGCAAGACTGACTGT
1 TATTG-AAAATTGACTGT
31784487 TATTGAACAATTGACCT-T
1 TATTGAA-AATTGA-CTGT
31784505 TATTGAA
1 TATTGAA
31784512 TAATCGATGA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
17 2 0.06
18 28 0.82
19 4 0.12
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (17 bp):
TATTGAAAATTGACTGT
Found at i:31787803 original size:31 final size:31
Alignment explanation
Indices: 31787768--31787836 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
31787758 ACCAAAAAAT
31787768 ATTTAAACCTCAATATGAAAAAAATT-ATCAA
1 ATTTAAACCTCAATATGAAAAAAATTGA-CAA
** * *
31787799 ATTTAATTCTTAATATGAAAATAATTGACAA
1 ATTTAAACCTCAATATGAAAAAAATTGACAA
31787830 ATTTAAA
1 ATTTAAA
31787837 ACCTAATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 31 0.97
32 1 0.03
ACGTcount: A:0.52, C:0.09, G:0.04, T:0.35
Consensus pattern (31 bp):
ATTTAAACCTCAATATGAAAAAAATTGACAA
Found at i:31790929 original size:14 final size:14
Alignment explanation
Indices: 31790910--31790940 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
31790900 GATAATAGGA
31790910 ATTTTAATCCCTTT
1 ATTTTAATCCCTTT
31790924 ATTTTAATCCCTTT
1 ATTTTAATCCCTTT
31790938 ATT
1 ATT
31790941 ATATGACTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.19, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTTTAATCCCTTT
Found at i:31802176 original size:234 final size:235
Alignment explanation
Indices: 31801766--31802217 Score: 755
Period size: 234 Copynumber: 1.9 Consensus size: 235
31801756 TTGTTAGTTT
* * * *
31801766 CACCACTTTCTTATTGGTGCTTTGGGCCAATTTGACCCTAGAACAGTTGTAAAAAGTGTTGTTGA
1 CACCACTTTCTTATTGGTGCCTTGAGCCAATGTGACCCTAGAACAGTTGTAAAAAATGTTGTTGA
*
31801831 GGTAGAGTTGTTGGAAAAGAGATGTTAGATTGAAAATATCTTAAATAACTAAGAATACTTCTTGT
66 GGTAGAGCTGTTGGAAAAGAGATGTTAGATTGAAAATATCTTAAATAACTAAGAATACTTCTTGT
* *
31801896 CTTCTCAAGTATTTTATGAAGACATTCAATTGTTAATGAAACTCTTTGTCAATACTTTAAGTTTC
131 CTTCTCAAGTATTTTATGAAGACATTCAATTATCAATGAAACTCTTTGTCAATACTTTAAGTTTC
*
31801961 TGCCTTTAACCTTTGGAGACTTTCCTGCTACGTTCCTAGA
196 TGCCTTTAACCTTTAGAGACTTTCCTGCTACGTTCCTAGA
31802001 CACCACTTTCTTATTGGTGCCTTGAGCCAATGTGACCCTAGAACAGTT-TAAAAAATGTTGTTGA
1 CACCACTTTCTTATTGGTGCCTTGAGCCAATGTGACCCTAGAACAGTTGTAAAAAATGTTGTTGA
* * *
31802065 GGTAGAGCTGTTGGAAAAGAGCTGTTAGATTGAAAATATCTTAAAT-AGTGAAGAATACTTGTTG
66 GGTAGAGCTGTTGGAAAAGAGATGTTAGATTGAAAATATCTTAAATAACT-AAGAATACTTCTTG
* * *
31802129 TCTTCTGAAGTATTTTATGAAGACATTCAGTTATCAATGCAACTCTTTGTCAATACTTTAAGTTT
130 TCTTCTCAAGTATTTTATGAAGACATTCAATTATCAATGAAACTCTTTGTCAATACTTTAAGTTT
31802194 CTGCCTTTAACCTTTAGAGACTTT
195 CTGCCTTTAACCTTTAGAGACTTT
31802218 TTTTGGTTTA
Statistics
Matches: 202, Mismatches: 14, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
233 2 0.01
234 155 0.77
235 45 0.22
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.37
Consensus pattern (235 bp):
CACCACTTTCTTATTGGTGCCTTGAGCCAATGTGACCCTAGAACAGTTGTAAAAAATGTTGTTGA
GGTAGAGCTGTTGGAAAAGAGATGTTAGATTGAAAATATCTTAAATAACTAAGAATACTTCTTGT
CTTCTCAAGTATTTTATGAAGACATTCAATTATCAATGAAACTCTTTGTCAATACTTTAAGTTTC
TGCCTTTAACCTTTAGAGACTTTCCTGCTACGTTCCTAGA
Found at i:31809673 original size:16 final size:18
Alignment explanation
Indices: 31809652--31809689 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
31809642 GTTCTTATGG
31809652 ATTTTACT-TT-TATTTT
1 ATTTTACTATTGTATTTT
31809668 ATTTTACTATTGTATTTT
1 ATTTTACTATTGTATTTT
31809686 ATTT
1 ATTT
31809690 AAATAAGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (18 bp):
ATTTTACTATTGTATTTT
Found at i:31814432 original size:3 final size:3
Alignment explanation
Indices: 31814424--31814464 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
31814414 ATTCAAAGGC
31814424 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
31814465 AGCTTCAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:31817314 original size:26 final size:25
Alignment explanation
Indices: 31817252--31817316 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 25
31817242 CATATATTTC
*
31817252 CATATAACCAATTCTTGTAAACATTT
1 CATATAACC-ATTCTTGTAAACAATT
*
31817278 CATACAACCATT-TTGTATAAACAATT
1 CATATAACCATTCTTG--TAAACAATT
31817304 CATATAACCATTC
1 CATATAACCATTC
31817317 GTCATCAGGG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
24 3 0.09
25 3 0.09
26 27 0.82
ACGTcount: A:0.40, C:0.22, G:0.03, T:0.35
Consensus pattern (25 bp):
CATATAACCATTCTTGTAAACAATT
Found at i:31817461 original size:46 final size:46
Alignment explanation
Indices: 31817399--31817764 Score: 527
Period size: 46 Copynumber: 8.0 Consensus size: 46
31817389 TCATCTTCAA
* * * * * *
31817399 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* * ** *
31817445 CACGTTGCCATGGTGTCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
31817491 CACGTTGTCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* * *
31817537 CATGTTGCCATGGTATCTTTCAACGATGGTCATACGCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
31817583 CATGTTGTCATGGTATCTTTCAACAATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
31817629 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
31817675 CATGTTGCCATGGTATCTTTCAACCATTGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
31817721 CATGTTGCTATGGTATCTTTCAACCATGGTTTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
31817765 TTCAGAAAGC
Statistics
Matches: 294, Mismatches: 25, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
45 4 0.01
46 290 0.99
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:31819911 original size:28 final size:28
Alignment explanation
Indices: 31819879--31819965 Score: 174
Period size: 28 Copynumber: 3.1 Consensus size: 28
31819869 TCATATTTAC
31819879 ACTTTAACCTCTCAGTTTTTGAGTATTT
1 ACTTTAACCTCTCAGTTTTTGAGTATTT
31819907 ACTTTAACCTCTCAGTTTTTGAGTATTT
1 ACTTTAACCTCTCAGTTTTTGAGTATTT
31819935 ACTTTAACCTCTCAGTTTTTGAGTATTT
1 ACTTTAACCTCTCAGTTTTTGAGTATTT
31819963 ACT
1 ACT
31819966 CTTGTGCATT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.22, C:0.18, G:0.10, T:0.49
Consensus pattern (28 bp):
ACTTTAACCTCTCAGTTTTTGAGTATTT
Found at i:31825011 original size:55 final size:55
Alignment explanation
Indices: 31824947--31825065 Score: 150
Period size: 55 Copynumber: 2.2 Consensus size: 55
31824937 CTGCTAAAAC
* * *
31824947 AACACGGGCGTG-TGACACGCCCGTGCCTTGAAACCGTGGCTGAACCTGTCAAATT
1 AACACGGGCGTGCT-ACACGCCCATGCCTTGAAACCATGGCTAAACCTGTCAAATT
* ** * *
31825002 AACATGGGCGTGCTACACGCCCATGTTTTGAAACCATGGGTAAACCTGTCAATTT
1 AACACGGGCGTGCTACACGCCCATGCCTTGAAACCATGGCTAAACCTGTCAAATT
31825057 AACACGGGC
1 AACACGGGC
31825066 ATGCACCTGC
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
55 53 0.98
56 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.25, T:0.22
Consensus pattern (55 bp):
AACACGGGCGTGCTACACGCCCATGCCTTGAAACCATGGCTAAACCTGTCAAATT
Found at i:31827063 original size:6 final size:6
Alignment explanation
Indices: 31827033--31827209 Score: 121
Period size: 6 Copynumber: 28.8 Consensus size: 6
31827023 AAGAAACATT
* * * * *
31827033 ATCAGA A-CTAGA ATCAAA ATAAGA ATGAGA ATCAGA ATCAAA ATTAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * * *
31827081 ATCAGA ATCAG- GTGACAGA ATTAGA GTCAGA ATCAGA ATCAGA ATTAGGTA
1 ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* * *
31827132 AT-AGA ATTAGA ATCAGT ATCAGGTA A-CAGA ATCAGA ATCAGA ATCAAA
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA
*
31827180 ATCAGA ATTAGGTA A-CAGA ATCAGA ATCAG
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAG
31827210 TATTATGTAA
Statistics
Matches: 134, Mismatches: 23, Indels: 28
0.72 0.12 0.15
Matches are distributed among these distances:
5 9 0.07
6 107 0.80
7 11 0.08
8 7 0.05
ACGTcount: A:0.49, C:0.12, G:0.19, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:31827063 original size:24 final size:24
Alignment explanation
Indices: 31827033--31827187 Score: 86
Period size: 25 Copynumber: 6.3 Consensus size: 24
31827023 AAGAAACATT
31827033 ATCAGAA-CTAGAATCAAAATAAGA
1 ATCAGAATC-AGAATCAAAATAAGA
* *
31827057 ATGAGAATCAGAATCAAAATTAGA
1 ATCAGAATCAGAATCAAAATAAGA
* * *
31827081 ATCAGAATCAG-GTGACAGAATTAGA
1 ATCAGAATCAGAAT--CAAAATAAGA
* * *
31827106 GTCAGAATCAGAATCAGAATTAGGTA
1 ATCAGAATCAGAATCA-AAATAAG-A
* ** *
31827132 AT-AGAATTAGAATCAGTATCAGGTA
1 ATCAGAATCAGAATCAAAAT-AAG-A
*
31827157 A-CAGAATCAGAATCAGAATCAA-A
1 ATCAGAATCAGAATCAAAAT-AAGA
31827180 ATCAGAAT
1 ATCAGAAT
31827188 TAGGTAACAG
Statistics
Matches: 103, Mismatches: 19, Indels: 18
0.74 0.14 0.13
Matches are distributed among these distances:
23 3 0.03
24 39 0.38
25 58 0.56
26 3 0.03
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.21
Consensus pattern (24 bp):
ATCAGAATCAGAATCAAAATAAGA
Found at i:31827100 original size:31 final size:31
Alignment explanation
Indices: 31827065--31827237 Score: 115
Period size: 31 Copynumber: 5.6 Consensus size: 31
31827055 GAATGAGAAT
* * *
31827065 CAGAATCAAAATTAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
* *
31827096 CAGAATTAGAGTCAGAATCAGAATCA-G-AA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
* * *
31827125 TTAGGTAAT-AGAATTAGAATCAGTATCAGGTAA
1 -CA-G-AATCAGAATCAGAATCAGAATCAGGTAA
*
31827158 CAGAATCAGAATCAGAATCAAAATCA-G-AA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
* * * *
31827187 TTAGGTAA-CAGAATCAGAATCAGTATTATGTAA
1 -CA-G-AATCAGAATCAGAATCAGAATCAGGTAA
* *
31827220 CAAAATCAGGATCAGAAT
1 CAGAATCAGAATCAGAAT
31827238 TTGAATGCAA
Statistics
Matches: 110, Mismatches: 20, Indels: 24
0.71 0.13 0.16
Matches are distributed among these distances:
29 3 0.03
30 9 0.08
31 85 0.77
32 9 0.08
33 4 0.04
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.22
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:31827119 original size:37 final size:37
Alignment explanation
Indices: 31827060--31827187 Score: 118
Period size: 37 Copynumber: 3.5 Consensus size: 37
31827050 AATAAGAATG
* * * *
31827060 AGAATCAGAATCAAAATTAGAATCAGAATCAGGTGAC
1 AGAATTAGAATCAGAATCAGAATCAGAATCAGGTAAC
* * *
31827097 AGAATTAGAGTCAGAATCAGAATCAGAATTAGGTAAT
1 AGAATTAGAATCAGAATCAGAATCAGAATCAGGTAAC
*
31827134 AGAATTAGAATCAGTATCAGGTAA-CAGAATCA-G-AATC
1 AGAATTAGAATCAGAATCA-G-AATCAGAATCAGGTAA-C
* *
31827171 AGAATCAAAATCAGAAT
1 AGAATTAGAATCAGAAT
31827188 TAGGTAACAG
Statistics
Matches: 74, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
36 2 0.03
37 62 0.84
38 8 0.11
39 2 0.03
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (37 bp):
AGAATTAGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:31827137 original size:25 final size:25
Alignment explanation
Indices: 31827060--31827175 Score: 107
Period size: 25 Copynumber: 4.7 Consensus size: 25
31827050 AATAAGAATG
*
31827060 AGAATCAGAATCAAAATTA-G-AATC
1 AGAATCAGAATCAGAATTAGGTAA-C
*
31827084 AGAATCAG-GTGACAGAATTAGAGT--C
1 AGAATCAGAAT--CAGAATTAG-GTAAC
*
31827109 AGAATCAGAATCAGAATTAGGTAAT
1 AGAATCAGAATCAGAATTAGGTAAC
* * *
31827134 AGAATTAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATTAGGTAAC
31827159 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
31827176 CAAAATCAGA
Statistics
Matches: 74, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
23 3 0.04
24 17 0.23
25 52 0.70
26 1 0.01
27 1 0.01
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.22
Consensus pattern (25 bp):
AGAATCAGAATCAGAATTAGGTAAC
Found at i:31827153 original size:62 final size:62
Alignment explanation
Indices: 31827074--31827237 Score: 229
Period size: 62 Copynumber: 2.6 Consensus size: 62
31827064 TCAGAATCAA
* * * * * *
31827074 AATTAGAATCAGAATCAGGTGACAGAATTAGAGTCAGAATCAGAATCAGAATTAGGTAATAG
1 AATTAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAAAATCAGAATTAGGTAACAG
31827136 AATTAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAAAATCAGAATTAGGTAACAG
1 AATTAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAAAATCAGAATTAGGTAACAG
* * * * *
31827198 AATCAGAATCAGTATTATGTAACAAAATCAGGATCAGAAT
1 AATTAGAATCAGTATCAGGTAACAGAATCAGAATCAGAAT
31827238 TTGAATGCAA
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 91 1.00
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.23
Consensus pattern (62 bp):
AATTAGAATCAGTATCAGGTAACAGAATCAGAATCAGAATCAAAATCAGAATTAGGTAACAG
Found at i:31827198 original size:25 final size:25
Alignment explanation
Indices: 31827170--31827238 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
31827160 GAATCAGAAT
*
31827170 CAGAATCAAAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAATTAGGTAA
* *
31827195 CAGAATCAGAATCAGTATTATGTAA
1 CAGAATCAGAATCAGAATTAGGTAA
* *
31827220 CAAAATCAGGATCAGAATT
1 CAGAATCAGAATCAGAATT
31827239 TGAATGCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.48, C:0.13, G:0.16, T:0.23
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATTAGGTAA
Found at i:31827425 original size:27 final size:27
Alignment explanation
Indices: 31827355--31827428 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
31827345 AGCATGGCTG
* * *
31827355 CCAGAA-CAGATATTATGACAGAGTCA
1 CCAGAATCAGATATTGTGGCAGAGCCA
31827381 CCAG-ATACAGATATTGTGGCAGAGCCA
1 CCAGAAT-CAGATATTGTGGCAGAGCCA
*
31827408 CCAGAATCAGATAATGTGGCA
1 CCAGAATCAGATATTGTGGCA
31827429 AAGCTACTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 1 0.02
26 4 0.10
27 34 0.83
28 2 0.05
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (27 bp):
CCAGAATCAGATATTGTGGCAGAGCCA
Found at i:31827584 original size:78 final size:78
Alignment explanation
Indices: 31827464--31827700 Score: 384
Period size: 78 Copynumber: 3.0 Consensus size: 78
31827454 CAAAGCTATT
* * * * *
31827464 GATAACGGGCCTATAATCGGCACGACGCCCACAATAACGGCACACAACCTTCGGTAACATGACCG
1 GATAACGGGTCTATAATCGGCACGAAGCCCACAATAATGGCACACAGCCTTCGGTAACATGATCG
31827529 GCACTCAGCCATC
66 GCACTCAGCCATC
* * *
31827542 GATAACAGGTCTATAATCGGCACGAAGCCTACAATAATGGCACACAGCCTTCGGTAACATTATCG
1 GATAACGGGTCTATAATCGGCACGAAGCCCACAATAATGGCACACAGCCTTCGGTAACATGATCG
31827607 GCACTCAGCCATC
66 GCACTCAGCCATC
*
31827620 GATAACGGGTCTATAATCGACACGAAGCCCACAATAATGGCACACAGCCTTCGGTAACATGATCG
1 GATAACGGGTCTATAATCGGCACGAAGCCCACAATAATGGCACACAGCCTTCGGTAACATGATCG
*
31827685 GCATTCAGCCATC
66 GCACTCAGCCATC
31827698 GAT
1 GAT
31827701 CGGTCAACAG
Statistics
Matches: 146, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 146 1.00
ACGTcount: A:0.32, C:0.30, G:0.20, T:0.18
Consensus pattern (78 bp):
GATAACGGGTCTATAATCGGCACGAAGCCCACAATAATGGCACACAGCCTTCGGTAACATGATCG
GCACTCAGCCATC
Found at i:31827745 original size:27 final size:27
Alignment explanation
Indices: 31827706--31827817 Score: 147
Period size: 27 Copynumber: 4.1 Consensus size: 27
31827696 TCGATCGGTC
* *
31827706 AACAGATA-TTGTGACAGAGTCACCAG
1 AACAGATATTTGTGGCAGAGCCACCAG
31827732 ATACAGATA-TTGTGGCAGAGCCACCAG
1 A-ACAGATATTTGTGGCAGAGCCACCAG
* *
31827759 AGCAGATATTTGTGGCATAGCCACCAG
1 AACAGATATTTGTGGCAGAGCCACCAG
*
31827786 AAACAGATATTTGTGGCATAGCCACCAG
1 -AACAGATATTTGTGGCAGAGCCACCAG
31827814 AACA
1 AACA
31827818 CTTCCTCCAT
Statistics
Matches: 78, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
26 7 0.09
27 45 0.58
28 26 0.33
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (27 bp):
AACAGATATTTGTGGCAGAGCCACCAG
Found at i:31828089 original size:27 final size:27
Alignment explanation
Indices: 31828059--31828162 Score: 145
Period size: 27 Copynumber: 3.9 Consensus size: 27
31828049 ACCCAATAAA
* *
31828059 GGTATCTCGGTAATTCTACCCTACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
*
31828086 GGTATTTCAGTAATTCTACCCTATAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
*
31828113 GGTATTTCAGTAATTCTACCCTACAAG
1 GGTATTTCAGTAATTCTACCCTACAGG
* * *
31828140 TGTATTTCAGTAATACTAGCCTA
1 GGTATTTCAGTAATTCTACCCTA
31828163 TAGATATGAG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (27 bp):
GGTATTTCAGTAATTCTACCCTACAGG
Found at i:31828106 original size:54 final size:54
Alignment explanation
Indices: 31828041--31828153 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
31828031 GGGTAAAATG
* * *
31828041 GTAATTTTACCCAATAAAGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCAATAAAGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCA
* ** * *
31828095 GTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCTACAAGTGTATTTCA
1 GTAATTCTACCCAATAAAGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCA
31828149 GTAAT
1 GTAAT
31828154 ACTAGCCTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (54 bp):
GTAATTCTACCCAATAAAGGTATCTCAGTAATTCTACCCTACAAGGGTATTTCA
Found at i:31828163 original size:54 final size:54
Alignment explanation
Indices: 31828059--31828165 Score: 160
Period size: 54 Copynumber: 2.0 Consensus size: 54
31828049 ACCCAATAAA
* * *
31828059 GGTATCTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGG
1 GGTATCTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATACTACCCTATAGG
* * *
31828113 GGTATTTCAGTAATTCTACCCTACAAGTGTATTTCAGTAATACTAGCCTATAG
1 GGTATCTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATACTACCCTATAG
31828166 ATATGAGATT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.35
Consensus pattern (54 bp):
GGTATCTCAGTAATTCTACCCTACAAGGGTATTTCAGTAATACTACCCTATAGG
Found at i:31834470 original size:43 final size:42
Alignment explanation
Indices: 31834410--31834529 Score: 188
Period size: 43 Copynumber: 2.8 Consensus size: 42
31834400 TACTGTACCA
31834410 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
* * *
31834452 ATGCCAATAGCCCAGATATGGTCTTACACG-AAGTTTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGTAA-TCTCATATCG
31834495 ATGCCATATCCCAGATATGGTCTTACATGTAATCT
1 ATGCCATATCCCAGATATGGTCTTACATGTAATCT
31834530 TAGTAACCCT
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
42 31 0.45
43 38 0.55
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACATGTAATCTCATATCG
Found at i:31843783 original size:25 final size:25
Alignment explanation
Indices: 31843755--31843849 Score: 138
Period size: 25 Copynumber: 3.8 Consensus size: 25
31843745 TCCTGTACAT
*
31843755 GTATGCT-TACACGAGCTGTGAATCG
1 GTATGCTCT-CACGAGCTGTAAATCG
* * *
31843780 GTATGCTTTCAGGAGCTATAAATCG
1 GTATGCTCTCACGAGCTGTAAATCG
31843805 GTATGCTCTCACGAGCTGTAAATCG
1 GTATGCTCTCACGAGCTGTAAATCG
31843830 GTATGCTCTCACGAGCTGTA
1 GTATGCTCTCACGAGCTGTA
31843850 GGTCAGAACG
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
25 62 0.98
26 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTGTAAATCG
Found at i:31854945 original size:117 final size:119
Alignment explanation
Indices: 31854808--31855044 Score: 370
Period size: 117 Copynumber: 2.0 Consensus size: 119
31854798 ACATAGATAA
* * * **
31854808 AATTAACATATGAATTTGATTCATATAAAATATTAATTGCATATATTTTATCGGATTTATTAATA
1 AATTAACATATGAAGTTGATTCATATAAAATATTAATTGCATATATTGTACCAAATTTATTAATA
*
31854873 TAAATAGTTATATTAATTAATTCTGGTCAAAATAT-A-AGACATGGAAATTAAT
66 TAAACAGTTATATTAATTAATTCTGGTCAAAATATAAGAGACATGGAAATTAAT
* * * *
31854925 AATTAATATATGGAGTTGATTCATATAAATTATTAATTGCGTATATTGTACCAAATTTATTAATA
1 AATTAACATATGAAGTTGATTCATATAAAATATTAATTGCATATATTGTACCAAATTTATTAATA
31854990 TAAACAGTTATATTAATTAATTCTGGTCAAAATATAAGAGACATGGAAATTAAT
66 TAAACAGTTATATTAATTAATTCTGGTCAAAATATAAGAGACATGGAAATTAAT
31855044 A
1 A
31855045 TGCTTTTGGA
Statistics
Matches: 108, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
117 90 0.83
118 1 0.01
119 17 0.16
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (119 bp):
AATTAACATATGAAGTTGATTCATATAAAATATTAATTGCATATATTGTACCAAATTTATTAATA
TAAACAGTTATATTAATTAATTCTGGTCAAAATATAAGAGACATGGAAATTAAT
Found at i:31855073 original size:138 final size:137
Alignment explanation
Indices: 31854923--31855601 Score: 768
Period size: 138 Copynumber: 5.0 Consensus size: 137
31854913 ATGGAAATTA
* * * * *
31854923 ATAATTAATATATGGAGTTGATTCATATAAATTATTAATTGCGTATATTGTACCAAATTTATTAA
1 ATAATTAATATATGAATTTGATTCATATAAAATATTAATT-TGTATATTTTACCAAATTTATTAA
* *
31854988 TATAAACAGTTATATTAATTAA-TTCTGGTCAAAATATAAGAGACATGGAAATTAATATGCTTTT
65 TATAAACAGTTATATTAATTAATTTC-GGTCAAAATATAAAAGACATGGAAATTAATATTCTTTT
31855052 GGAAAGAAT
129 GGAAAGAAT
* * *
31855061 ATAATTAATATATGAATTTTATTCATGA-AAAATATTAATTTTATATATTTTACCAAATTTATAA
1 ATAATTAATATATGAATTTGATTCAT-ATAAAATATTAA-TTTGTATATTTTACCAAATTTATTA
* * *
31855125 ATATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGAAATGGAAATTAATATTCTTTT
64 ATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTT
*
31855190 TGAAAGAAT
129 GGAAAGAAT
* ***
31855199 ATAATTAATATATGAATTTGATTCAT-TCAAAATATTAATTGTTTATATTTTAATGAATTTATTA
1 ATAATTAATATATGAATTTGATTCATAT-AAAATATTAATT-TGTATATTTTACCAAATTTATTA
*
31855263 ATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATT-ATATTCTTTT
64 ATATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTT
31855327 GGAAAG-A-
129 GGAAAGAAT
* ** ** * *
31855334 AT-A--CA-AT-T-CCTTT--TTC---TAACTTATTAATTTTTATATTTTACCAAATTTATAAAT
1 ATAATTAATATATGAATTTGATTCATATAAAATATTAATTTGTATATTTTACCAAATTTATTAAT
* * * **
31855388 ATAAATAGTTATATTAATTAATTTTGGTCAAAATATAAAAGGCATATAAATTAATATTCTTTTGG
66 ATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGG
31855453 AAAGAAT
131 AAAGAAT
* * ***
31855460 ATAATTAATATATGAATTTGATTCATAAAAAATATTAA-TTGTATA-TATAATGAATTTATTAAT
1 ATAATTAATATATGAATTTGATTCATATAAAATATTAATTTGTATATTTTACCAAATTTATTAAT
* * *
31855523 ATAAAAACAGTTATATTAATTAATTTCGGTCAAAATATAAATGATATTGAAATTATTATTATT-T
66 AT--AAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTA--A-TATTCT
31855587 TTTGGAAAGAAT
126 TTTGGAAAGAAT
31855599 ATA
1 ATA
31855602 TGTAACAACT
Statistics
Matches: 459, Mismatches: 57, Indels: 49
0.81 0.10 0.09
Matches are distributed among these distances:
123 67 0.15
124 26 0.06
125 2 0.00
126 2 0.00
127 4 0.01
129 4 0.01
130 3 0.01
131 3 0.01
132 4 0.01
134 4 0.01
135 17 0.04
136 7 0.02
137 69 0.15
138 220 0.48
139 23 0.05
140 4 0.01
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (137 bp):
ATAATTAATATATGAATTTGATTCATATAAAATATTAATTTGTATATTTTACCAAATTTATTAAT
ATAAACAGTTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGG
AAAGAAT
Found at i:31855340 original size:67 final size:66
Alignment explanation
Indices: 31855131--31855341 Score: 153
Period size: 67 Copynumber: 3.1 Consensus size: 66
31855121 ATAAATATAA
31855131 ACAATTATATTAATTAATTTCAGTCAAAATATAAAAGAAATGGAAATTAATATTCTTTTTGAAAG
1 ACAATTATATTAATTAATTTCAGTCAAAATATAAAAGAAATGGAAATT-ATATTC-TTTTGAAAG
31855196 AAT
64 AAT
* * * ** * *** * *
31855199 ATAATTAATATATGAATTTGA-TTCATTCAAAATATTAATTGTTTATATTTTAATGA-ATT-TAT
1 ACAATT-ATAT-T-AA-TTAATTTCAGTCAAAATA-TAAAAG---AAATGGAAATTATATTCTTT
*
31855261 T-AATATAA-
58 TGAA-AGAAT
* *
31855269 ACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTATATTCTTTTGGAAAGA
1 ACAATTATATTAATTAATTTCAGTCAAAATATAAAAGAAATGGAAATTATATTCTTTT-GAAAGA
31855334 AT
65 AT
31855336 ACAATT
1 ACAATT
31855342 CCTTTTTCTA
Statistics
Matches: 103, Mismatches: 25, Indels: 31
0.65 0.16 0.19
Matches are distributed among these distances:
63 7 0.07
64 3 0.03
65 3 0.03
66 10 0.10
67 21 0.20
68 6 0.06
69 8 0.08
70 8 0.08
71 20 0.19
72 7 0.07
73 3 0.03
74 1 0.01
75 6 0.06
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (66 bp):
ACAATTATATTAATTAATTTCAGTCAAAATATAAAAGAAATGGAAATTATATTCTTTTGAAAGAA
T
Found at i:31855391 original size:261 final size:263
Alignment explanation
Indices: 31855093--31855599 Score: 790
Period size: 261 Copynumber: 1.9 Consensus size: 263
31855083 TCATGAAAAA
31855093 TATTAATTTTATATATTTTACCAAATTTATAAATATAAACAATTATATTAATTAATTTCAGTCAA
1 TATTAATTTTATATATTTTACCAAATTTATAAATATAAACAATTATATTAATTAATTTCAGTCAA
* *
31855158 AATATAAAAGAAATGGAAATTAATATTCTTTTTGAAAGAATATAATTAATATATGAATTTGATTC
66 AATATAAAAGAAATAGAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTC
** *
31855223 ATTCAAAATATTAATTGTTTATATTTTAATGAATTTATTAATAT-AAACAATTATATTAATTAAT
131 ATAAAAAATATTAATTG--TATA-TATAATGAATTTATTAATATAAAACAATTATATTAATTAAT
31855287 TTCGGTCAAAATATAAAAGACATGGAAATTA-TA-T-TCTTTTGGAAAGAATACAATTCCTTTTT
193 TTCGGTCAAAATATAAAAGACATGGAAATTATTATTATCTTTTGGAAAGAATACAATTCCTTTTT
31855349 CTAACT
258 CTAACT
* * **
31855355 TATTAATTTT-TATATTTTACCAAATTTATAAATATAAATAGTTATATTAATTAATTTTGGTCAA
1 TATTAATTTTATATATTTTACCAAATTTATAAATATAAACAATTATATTAATTAATTTCAGTCAA
** *
31855419 AATATAAAAGGCATATAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTC
66 AATATAAAAGAAATAGAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTC
*
31855484 ATAAAAAATATTAATTGTATATATAATGAATTTATTAATATAAAAACAGTTATATTAATTAATTT
131 ATAAAAAATATTAATTGTATATATAATGAATTTATTAATAT-AAAACAATTATATTAATTAATTT
* * * *
31855549 CGGTCAAAATATAAATGATATTGAAATTATTATTATTTTTTGGAAAGAATA
195 CGGTCAAAATATAAAAGACATGGAAATTATTATTATCTTTTGGAAAGAATA
31855600 TATGTAACAA
Statistics
Matches: 223, Mismatches: 17, Indels: 9
0.90 0.07 0.04
Matches are distributed among these distances:
258 19 0.09
259 4 0.02
260 47 0.21
261 127 0.57
262 11 0.05
263 15 0.07
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (263 bp):
TATTAATTTTATATATTTTACCAAATTTATAAATATAAACAATTATATTAATTAATTTCAGTCAA
AATATAAAAGAAATAGAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTC
ATAAAAAATATTAATTGTATATATAATGAATTTATTAATATAAAACAATTATATTAATTAATTTC
GGTCAAAATATAAAAGACATGGAAATTATTATTATCTTTTGGAAAGAATACAATTCCTTTTTCTA
ACT
Found at i:31855392 original size:123 final size:125
Alignment explanation
Indices: 31855231--31855465 Score: 357
Period size: 123 Copynumber: 1.9 Consensus size: 125
31855221 TCATTCAAAA
** *
31855231 TATTAATTGTTTATATTTTAATGAATTTATTAATATAAACAATTATATTAATTAATTTCGGTCAA
1 TATTAATTGTTTATATTTTAACAAATTTATAAATATAAACAATTATATTAATTAATTTCGGTCAA
*
31855296 AATATAAAAGACATGGAAATT-ATATTCTTTTGGAAAGAATACAATTCCTTTTTCTAACT
66 AATATAAAAGACATAGAAATTAATATTCTTTTGGAAAGAATACAATTCCTTTTTCTAACT
* * * *
31855355 TATTAATT-TTTATATTTTACCAAATTTATAAATATAAATAGTTATATTAATTAATTTTGGTCAA
1 TATTAATTGTTTATATTTTAACAAATTTATAAATATAAACAATTATATTAATTAATTTCGGTCAA
* * *
31855419 AATATAAAAGGCATATAAATTAATATTCTTTTGGAAAGAATATAATT
66 AATATAAAAGACATAGAAATTAATATTCTTTTGGAAAGAATACAATT
31855466 AATATATGAA
Statistics
Matches: 99, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
123 67 0.68
124 32 0.32
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.44
Consensus pattern (125 bp):
TATTAATTGTTTATATTTTAACAAATTTATAAATATAAACAATTATATTAATTAATTTCGGTCAA
AATATAAAAGACATAGAAATTAATATTCTTTTGGAAAGAATACAATTCCTTTTTCTAACT
Found at i:31857667 original size:26 final size:26
Alignment explanation
Indices: 31857638--31857690 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
31857628 TCCAACATGC
31857638 ATTTAGGTCAATTTA-CTCCTAGGGGT
1 ATTTAGGT-AATTTATCTCCTAGGGGT
* *
31857664 ATTTCGGTACTTTATCTCCTAGGGGT
1 ATTTAGGTAATTTATCTCCTAGGGGT
31857690 A
1 A
31857691 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.40
Consensus pattern (26 bp):
ATTTAGGTAATTTATCTCCTAGGGGT
Found at i:31859935 original size:45 final size:46
Alignment explanation
Indices: 31859835--31859959 Score: 189
Period size: 45 Copynumber: 2.7 Consensus size: 46
31859825 AACCCGCCGC
* * * * *
31859835 TAAGTGAACTCGGGCTCAACTCAACAAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
31859881 TAAGTGAACTCGGACTCAACT-TACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
31859926 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
31859960 TGCTCAACCA
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
45 40 0.56
46 31 0.44
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:31860416 original size:30 final size:30
Alignment explanation
Indices: 31860382--31860441 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
31860372 ATTTAATACG
31860382 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
31860412 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
31860442 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:31861639 original size:24 final size:24
Alignment explanation
Indices: 31861607--31861711 Score: 156
Period size: 24 Copynumber: 4.3 Consensus size: 24
31861597 GCCGGCCAAC
*
31861607 TCCTGCTCCCTGATCAGCTCCTAAA
1 TCCT-CTCCCTTATCAGCTCCTAAA
* *
31861632 TCTTCTCCTTTATCAGCTCCTAAA
1 TCCTCTCCCTTATCAGCTCCTAAA
31861656 TCCTCTCCCTTATCAGCTCCTAAA
1 TCCTCTCCCTTATCAGCTCCTAAA
*
31861680 TCCTCTCCCTTATTAGCTCCTAAA
1 TCCTCTCCCTTATCAGCTCCTAAA
*
31861704 TCTTCTCC
1 TCCTCTCC
31861712 TGATAGCCTT
Statistics
Matches: 73, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
24 70 0.96
25 3 0.04
ACGTcount: A:0.19, C:0.39, G:0.06, T:0.36
Consensus pattern (24 bp):
TCCTCTCCCTTATCAGCTCCTAAA
Found at i:31869357 original size:39 final size:38
Alignment explanation
Indices: 31869231--31869359 Score: 127
Period size: 40 Copynumber: 3.3 Consensus size: 38
31869221 ATGCTGGAAA
* * *
31869231 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGGC
1 TTATATCCGGGCTAAGA-CCGAAGGCATTTGTGC-A-CAGC
* *
31869272 -TATATCCGGGCTAAGACCTGAAGGCATTCGTGC-GAGTC
1 TTATATCCGGGCTAAGACC-GAAGGCATTTGTGCACAG-C
*
31869310 ATTCTATCCGGGCTAAGACCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCGAAGGCATTTGTGCACA-GC
31869350 TTATATCCGG
1 TTATATCCGG
31869360 TTATATTCCG
Statistics
Matches: 73, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 24 0.33
40 46 0.63
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (38 bp):
TTATATCCGGGCTAAGACCGAAGGCATTTGTGCACAGC
Found at i:31877183 original size:28 final size:28
Alignment explanation
Indices: 31877137--31877205 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
31877127 TTTAAAACCC
*
31877137 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
31877164 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
31877192 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
31877206 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:31878843 original size:20 final size:20
Alignment explanation
Indices: 31878820--31878857 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31878810 CACATCCAAA
*
31878820 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
31878840 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
31878858 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:31885149 original size:28 final size:28
Alignment explanation
Indices: 31885103--31885171 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
31885093 TTTAAAACCC
*
31885103 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
31885130 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
31885158 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
31885172 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:31888121 original size:26 final size:26
Alignment explanation
Indices: 31888092--31888143 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
31888082 CATATTCAGA
31888092 CATAACA-AATATAAATTCTAACATTT
1 CATAACAGAATATAAATT-TAACATTT
* * *
31888118 CATAGCAGCATATATATTTAACATTT
1 CATAACAGAATATAAATTTAACATTT
31888144 AACTACTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.44, C:0.15, G:0.04, T:0.37
Consensus pattern (26 bp):
CATAACAGAATATAAATTTAACATTT
Found at i:31894421 original size:11 final size:11
Alignment explanation
Indices: 31894405--31894434 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
31894395 CTCGTTTCGC
*
31894405 TATCAACTCAT
1 TATCAACCCAT
31894416 TATCAACCCAT
1 TATCAACCCAT
31894427 TATCAACC
1 TATCAACC
31894435 TTCTAGGCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.37, C:0.33, G:0.00, T:0.30
Consensus pattern (11 bp):
TATCAACCCAT
Found at i:31896293 original size:18 final size:18
Alignment explanation
Indices: 31896262--31896300 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
31896252 TGTAACAACC
* * *
31896262 TAATTTTCGGGATTTTTG
1 TAATTCTCGAGATTTTGG
31896280 TAATTCTCGAGATTTTGG
1 TAATTCTCGAGATTTTGG
31896298 TAA
1 TAA
31896301 ATTTTGTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.23, C:0.08, G:0.21, T:0.49
Consensus pattern (18 bp):
TAATTCTCGAGATTTTGG
Found at i:31897635 original size:21 final size:20
Alignment explanation
Indices: 31897609--31897647 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
31897599 CACGTTGGTA
31897609 AATTGGGCCTCAAGGGGCTGG
1 AATTGGGCC-CAAGGGGCTGG
*
31897630 AATTGGGCCCAATGGGCT
1 AATTGGGCCCAAGGGGCT
31897648 TCGGGCCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.21, C:0.21, G:0.38, T:0.21
Consensus pattern (20 bp):
AATTGGGCCCAAGGGGCTGG
Found at i:31898026 original size:11 final size:11
Alignment explanation
Indices: 31898000--31898064 Score: 62
Period size: 11 Copynumber: 6.1 Consensus size: 11
31897990 ATTTTGATAT
31898000 ACATGATATG-
1 ACATGATATGC
31898010 ACATGATATGC
1 ACATGATATGC
31898021 ACATGATATG-
1 ACATGATATGC
** *
31898031 TTATGAGATGC
1 ACATGATATGC
*
31898042 ACATGATATAC
1 ACATGATATGC
* *
31898053 TCATTATATGC
1 ACATGATATGC
31898064 A
1 A
31898065 TGGGTTGGGT
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
10 17 0.40
11 25 0.60
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.32
Consensus pattern (11 bp):
ACATGATATGC
Found at i:31898026 original size:21 final size:21
Alignment explanation
Indices: 31898000--31898050 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
31897990 ATTTTGATAT
*
31898000 ACATGATATGACATGATATGC
1 ACATGATATGACATGAGATGC
**
31898021 ACATGATATGTTATGAGATGC
1 ACATGATATGACATGAGATGC
31898042 ACATGATAT
1 ACATGATAT
31898051 ACTCATTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (21 bp):
ACATGATATGACATGAGATGC
Found at i:31898062 original size:32 final size:31
Alignment explanation
Indices: 31898002--31898062 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
31897992 TTTGATATAC
* *
31898002 ATGATATGACATGATATGCACATGATATGTT
1 ATGAGATGACATGATATACACATGATATGTT
* *
31898033 ATGAGATGCACATGATATACTCATTATATG
1 ATGAGATG-ACATGATATACACATGATATG
31898063 CATGGGTTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 7 0.28
32 18 0.72
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.34
Consensus pattern (31 bp):
ATGAGATGACATGATATACACATGATATGTT
Found at i:31898132 original size:25 final size:25
Alignment explanation
Indices: 31898096--31898192 Score: 176
Period size: 25 Copynumber: 3.9 Consensus size: 25
31898086 GGAGGAAGTG
*
31898096 CAAAAAGGGCTTTGCCCCAGTTTAC
1 CAAAAAGGGCTTTGCCCCAGTTTAT
*
31898121 CGAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAAGGGCTTTGCCCCAGTTTAT
31898146 CAAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAAGGGCTTTGCCCCAGTTTAT
31898171 CAAAAAGGGCTTTGCCCCAGTT
1 CAAAAAGGGCTTTGCCCCAGTT
31898193 ATTAAAAGAG
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 69 1.00
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.26
Consensus pattern (25 bp):
CAAAAAGGGCTTTGCCCCAGTTTAT
Found at i:31898205 original size:24 final size:25
Alignment explanation
Indices: 31898098--31898205 Score: 136
Period size: 25 Copynumber: 4.4 Consensus size: 25
31898088 AGGAAGTGCA
*
31898098 AAAAG-GGCTTTGCCCCAGTTTACC
1 AAAAGAGGCTTTGCCCCAGTTTATC
31898122 GAAAAG-GGCTTTGCCCCAGTTTATC
1 -AAAAGAGGCTTTGCCCCAGTTTATC
31898147 AAAA-AGGGCTTTGCCCCAGTTTATC
1 AAAAGA-GGCTTTGCCCCAGTTTATC
*
31898172 AAAA-AGGGCTTTGCCCCAG-TTATT
1 AAAAGA-GGCTTTGCCCCAGTTTATC
31898196 AAAAGAGGCT
1 AAAAGAGGCT
31898206 AGGCCTCCAG
Statistics
Matches: 78, Mismatches: 2, Indels: 7
0.90 0.02 0.08
Matches are distributed among these distances:
24 16 0.21
25 62 0.79
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCCAGTTTATC
Found at i:31898216 original size:50 final size:50
Alignment explanation
Indices: 31898096--31898217 Score: 149
Period size: 50 Copynumber: 2.4 Consensus size: 50
31898086 GGAGGAAGTG
** *
31898096 CAAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAAGGGCTAGGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTAT
** *
31898146 CAAAAAGGGCTTTGCCCCAGTTTATCAAAAAGGGCTTTGCCCCAG-TTAT
1 CAAAAAGGGCTAGGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTAT
*
31898195 -TAAAAGAGGCTAGGCCTCCAGTT
1 CAAAAAG-GGCTAGGCC-CCAGTT
31898218 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
48 5 0.08
49 11 0.17
50 49 0.75
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (50 bp):
CAAAAAGGGCTAGGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTAT
Found at i:31898446 original size:31 final size:31
Alignment explanation
Indices: 31898411--31898493 Score: 89
Period size: 31 Copynumber: 2.7 Consensus size: 31
31898401 CGCTTACAGT
* * *
31898411 AAAGGCTTCGGCCCAGTGATATGAATTTTGA
1 AAAGGATTCAGCCCAGTGATATGAATTATGA
* *
31898442 AAAGGATTCAGCCTAGTGTTATGAATTATG-
1 AAAGGATTCAGCCCAGTGATATGAATTATGA
* *
31898472 AAAGGTTTTAGCCCAGT-ATATG
1 AAAGGATTCAGCCCAGTGATATG
31898494 TTGAGACTGA
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
29 4 0.09
30 14 0.33
31 25 0.58
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.31
Consensus pattern (31 bp):
AAAGGATTCAGCCCAGTGATATGAATTATGA
Found at i:31899607 original size:27 final size:27
Alignment explanation
Indices: 31899577--31899836 Score: 340
Period size: 27 Copynumber: 9.6 Consensus size: 27
31899567 TTAGTTTACC
*
31899577 AAATTACCAAAATACCCCTGGTTTTTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** *
31899604 AAATTACTAAAATACCTTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
31899631 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
31899658 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
31899685 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
31899712 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
31899739 AAATTACCAAAATACCGCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
31899766 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
31899793 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
*
31899820 AAATTACTAAAATACCC
1 AAATTACCAAAATACCC
31899837 TCGACCTGTA
Statistics
Matches: 200, Mismatches: 33, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 200 1.00
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:31899642 original size:54 final size:54
Alignment explanation
Indices: 31899577--31899837 Score: 389
Period size: 54 Copynumber: 4.8 Consensus size: 54
31899567 TTAGTTTACC
* *
31899577 AAATTACCAAAATACCCCTGGTTTTTAAAATTACTAAAATACCTTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * *
31899631 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
*
31899685 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * * *
31899739 AAATTACCAAAATACCGCTAGTTTGTAAAATTA-TCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACT-AAAATACCCTTGGTTTATA
* *
31899793 AAATTACCAAAATACCCCTGATTTGTGAAATTACTAAAATACCCT
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCT
31899838 CGACCTGTAA
Statistics
Matches: 187, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
53 1 0.01
54 185 0.99
55 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
Found at i:31899847 original size:54 final size:54
Alignment explanation
Indices: 31899577--31899909 Score: 368
Period size: 54 Copynumber: 6.2 Consensus size: 54
31899567 TTAGTTTACC
* * *
31899577 AAATTACCAAAATACCCCTGGTTTTTAAAATTACTAAAATACCTTTGGTTTATA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * *
31899631 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTTGGTTTATA
31899685 AAATTACCAAAATACCCCT-AGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGA-TTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * *
31899739 AAATTACCAAAATACCGCT-AGTTTGTAAAATTA-TCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTAAAATTACT-AAAATACCCTTGGTTTATA
* * *** *
31899793 AAATTACCAAAATACCCCTGATTTGTGAAATTACTAAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTTGGTTTATA
*** * * * * * *
31899847 AAATTATTGAAATA-CCATCGACTTGTAAAATTACCAAAGTACCCTTGATTTACA
1 AAATTACCAAAATACCCCT-GATTTGTAAAATTACTAAAATACCCTTGGTTTATA
31899901 AAATTACCA
1 AAATTACCA
31899910 TTTTACCCTT
Statistics
Matches: 237, Mismatches: 37, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
53 4 0.02
54 231 0.97
55 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGATTTGTAAAATTACTAAAATACCCTTGGTTTATA
Found at i:31899908 original size:27 final size:27
Alignment explanation
Indices: 31899577--31899947 Score: 316
Period size: 27 Copynumber: 13.7 Consensus size: 27
31899567 TTAGTTTACC
* * *
31899577 AAATTACCAAAATACCCCTGGTTTTTA
1 AAATTACCAAAATACCCTTGATTTGTA
* * * *
31899604 AAATTACTAAAATACCTTTGGTTTATA
1 AAATTACCAAAATACCCTTGATTTGTA
* * *
31899631 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* **
31899658 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGATTTGTA
*
31899685 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCTTGA-TTTGTA
* * *
31899712 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGATTTGTA
*
31899739 AAATTACCAAAATACCGCTAG-TTTGTA
1 AAATTACCAAAATACC-CTTGATTTGTA
* *
31899766 AAATTATCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCTTGA-TTTGTA
* *
31899793 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCTTGATTTGTA
* * **
31899820 AAATTACTAAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
*** * * *
31899847 AAATTATTGAAATACCATCGACTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
* **
31899874 AAATTACCAAAGTACCCTTGATTTACA
1 AAATTACCAAAATACCCTTGATTTGTA
*** * **
31899901 AAATTACCATTTTACCCTTAATTTACA
1 AAATTACCAAAATACCCTTGATTTGTA
*
31899928 AAATTACCGAAATACCCTTG
1 AAATTACCAAAATACCCTTG
31899948 TAGGGTAGAA
Statistics
Matches: 281, Mismatches: 57, Indels: 12
0.80 0.16 0.03
Matches are distributed among these distances:
26 1 0.00
27 276 0.98
28 4 0.01
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGATTTGTA
Found at i:31900364 original size:27 final size:27
Alignment explanation
Indices: 31899927--31900367 Score: 546
Period size: 27 Copynumber: 16.3 Consensus size: 27
31899917 CTTAATTTAC
*
31899927 AAAATTACCGAAATACCCTTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
*
31899954 AGAAA-TACCGAAATACCCTTGTAGGGT
1 A-AAATTACCGAAATACCCCTGTAGGGT
* * *
31899981 AAAAATACTGAAATACCCTTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
31900008 AGAAA-TACCGAAATACCCCTGTAGGGT
1 A-AAATTACCGAAATACCCCTGTAGGGT
**
31900035 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
*
31900062 AGAATTACCGAAATACCCCTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
* *
31900089 AAAATTACCAAAATACCCCTGTACGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
31900116 AGAAA-TACCGAAATACCCCTGTAGGGT
1 A-AAATTACCGAAATACCCCTGTAGGGT
* ** *
31900143 AGAATTACTAAAATACCCTTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
* * *
31900170 AGAATTACTGAAATACCCCTATAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
*
31900197 AGAATTACCGAAATACCCCTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
* *
31900224 AGAATTACCGAAATACCACTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
* * *
31900251 AGAATTATCGAAATAACCCTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
* *
31900278 AGAATTACCGAAATACCCCTATAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
* **
31900305 AGAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
* * * *
31900332 GAAATTACCGAGATACCCTTGTGGGGT
1 AAAATTACCGAAATACCCCTGTAGGGT
31900359 AAAATTACC
1 AAAATTACC
31900368 ATTTTGCCCT
Statistics
Matches: 368, Mismatches: 40, Indels: 12
0.88 0.10 0.03
Matches are distributed among these distances:
26 8 0.02
27 351 0.95
28 9 0.02
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
AAAATTACCGAAATACCCCTGTAGGGT
Found at i:31900377 original size:27 final size:27
Alignment explanation
Indices: 31900347--31900410 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
31900337 TACCGAGATA
*
31900347 CCCTTGTGGGGTAAAATTACCATTTTG
1 CCCTTGTGGGGTAAAATGACCATTTTG
* * **
31900374 CCCTTAG-GGTGTTAAATGACTGTTTTG
1 CCCTT-GTGGGGTAAAATGACCATTTTG
31900401 CCCTTGTGGG
1 CCCTTGTGGG
31900411 CAAGTGACTA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
26 1 0.03
27 27 0.93
28 1 0.03
ACGTcount: A:0.17, C:0.19, G:0.27, T:0.38
Consensus pattern (27 bp):
CCCTTGTGGGGTAAAATGACCATTTTG
Found at i:31902708 original size:27 final size:27
Alignment explanation
Indices: 31902678--31903044 Score: 423
Period size: 27 Copynumber: 13.6 Consensus size: 27
31902668 TTAGTTTACC
* *
31902678 AAATTACCAAAACACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
31902705 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
31902732 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
31902759 AAATTACC-AAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
31902785 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
31902812 AAATTACAAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
31902839 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * **
31902866 AAATTACCAAAATATCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
31902893 AAATTACCCAAATACCCCTTGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** * * *
31902920 AAATTATTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
31902947 AAATTACCAAAATA-CCCTCAGTTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
* *
31902974 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
31903001 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
31903028 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
31903045 TCGACCTGTA
Statistics
Matches: 284, Mismatches: 53, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
26 25 0.09
27 255 0.90
28 4 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:31902743 original size:54 final size:54
Alignment explanation
Indices: 31902678--31903045 Score: 501
Period size: 54 Copynumber: 6.8 Consensus size: 54
31902668 TTAGTTTACC
*
31902678 AAATTACCAAAACACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * *
31902732 AAATCACCAAAATACCCCTAGTTTGTAAAATTAC-CAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* *
31902785 AAATTACCAAAATACCCCTGGTTTGTAAAATTACAAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * * *
31902839 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATATCCTTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * *
31902893 AAATTACCCAAATACCCCTTGTTTGTAAAATTATTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * *
31902947 AAATTACCAAAATA-CCCTCAGTTTGTAAAATTA-TCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCT-AGTTTGTAAAATTACT-AAAATACCCTTGGTTTATA
* *
31903001 AAATTACCAAAATACCCCT-GATTTGTGAAATTACTGAAATACCCT
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACTAAAATACCCT
31903046 CGACCTGTAA
Statistics
Matches: 280, Mismatches: 28, Indels: 12
0.88 0.09 0.04
Matches are distributed among these distances:
53 55 0.20
54 220 0.79
55 5 0.02
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.32
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
Found at i:31903046 original size:81 final size:81
Alignment explanation
Indices: 31902678--31903105 Score: 425
Period size: 81 Copynumber: 5.3 Consensus size: 81
31902668 TTAGTTTACC
* * * * *
31902678 AAATTACCAAAACACCCCT-AGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAA
1 AAATTACCAAAATACCCCTGA-TTTGTAAAATTACCAAAATACCCTCGGTTTGTAAAATTACCAA
31902742 AATACCCCTAGTTTGTA
65 AATACCCCTAGTTTGTA
* * ** *
31902759 AAATTACC-AAATACCCTTGGTTTACAAAATTACCAAAATACCC-CTGGTTTGTAAAATTACAAA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTC-GGTTTGTAAAATTACCAA
* * *
31902822 AATACCCTTGGTTTATA
65 AATACCCCTAGTTTGTA
* * * * ** *
31902839 AAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATATCCTTGGTTTACAAAATTACCCAA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGGTTTGTAAAATTACCAAA
*
31902904 ATACCCCTTGTTTGTA
66 ATACCCCTAGTTTGTA
** * * * *
31902920 AAATTATTAAAATACCCTTTG-TTTATAAAATTACCAAAATACCCTCAGTTTGTAAAATTATCAA
1 AAATTACCAAAATACCC-CTGATTTGTAAAATTACCAAAATACCCTCGGTTTGTAAAATTACCAA
31902984 AATACCCCTAGTTTGTA
65 AATACCCCTAGTTTGTA
* ** *** ***
31903001 AAATTACCAAAATACCCCTGATTTGTGAAATTACTGAAATACCCTCGACCTGTAAAATTATTGAA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGGTTTGTAAAATTACCAAA
* *
31903066 ATA-CCCTCGACTTGTA
66 ATACCCCTAG-TTTGTA
* *
31903082 AAATTACCAAAGTACCCTTGATTT
1 AAATTACCAAAATACCCCTGATTT
31903106 ACAGAATTAT
Statistics
Matches: 284, Mismatches: 56, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
80 71 0.25
81 211 0.74
82 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTCGGTTTGTAAAATTACCAAA
ATACCCCTAGTTTGTA
Found at i:31903097 original size:27 final size:27
Alignment explanation
Indices: 31902678--31903105 Score: 318
Period size: 27 Copynumber: 15.9 Consensus size: 27
31902668 TTAGTTTACC
* *
31902678 AAATTACCAAAACACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * * *
31902705 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
31902732 AAATCACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* * **
31902759 AAATTACC-AAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
*
31902785 AAATTACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * * *
31902812 AAATTACAAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
31902839 AAATCACCAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * * **
31902866 AAATTACCAAAATATCCTTGGTTTACA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
31902893 AAATTACCCAAATACCCCTTG-TTTGTA
1 AAATTACCAAAATA-CCCTCGATTTGTA
** * *
31902920 AAATTATTAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC-TCGATTTGTA
31902947 AAATTACCAAAATACCCTC-AGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
31902974 AAATTATCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
31903001 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
** **
31903028 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
31903055 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
31903082 AAATTACCAAAGTACCCTTGATTT
1 AAATTACCAAAATACCCTCGATTT
31903106 ACAGAATTAT
Statistics
Matches: 324, Mismatches: 62, Indels: 30
0.78 0.15 0.07
Matches are distributed among these distances:
26 25 0.08
27 292 0.90
28 7 0.02
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:31903187 original size:27 final size:27
Alignment explanation
Indices: 31903149--31903668 Score: 700
Period size: 27 Copynumber: 19.3 Consensus size: 27
31903139 CGATTTACAA
* *
31903149 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
31903176 AAATGCCAAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
31903203 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
31903230 AAATACCGAAATACCCTTTTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
31903257 AATTACCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
31903284 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
31903311 AATTATCGAAATACCCCTGTATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
31903338 AATTACCGAAATACCCTTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
31903365 AATTACCGAAATAACCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
31903392 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
31903419 AATTACTAAAATGCCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
31903446 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
31903473 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
31903500 AATTATCGAAATACCCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
31903527 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
31903554 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
31903581 AATTATCGAAACACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
**
31903608 AATTACTAAAATACCCCTGTAGGGT-G
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
31903634 AAATTACCGAGATACCCTTGTGGGGTAA
1 -AATTACCGAAATACCCCTGTAGGGTAG
31903662 AATTACC
1 AATTACC
31903669 ATTTTGCCCC
Statistics
Matches: 437, Mismatches: 54, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
26 1 0.00
27 436 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:31904110 original size:6 final size:6
Alignment explanation
Indices: 31904099--31904124 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
31904089 TACCTGTCAC
31904099 CTGATT CTGATT CTGATT CTGATT CT
1 CTGATT CTGATT CTGATT CTGATT CT
31904125 AGTTCTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.19, G:0.15, T:0.50
Consensus pattern (6 bp):
CTGATT
Found at i:31911647 original size:21 final size:22
Alignment explanation
Indices: 31911613--31911658 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 22
31911603 TTTTGTGCAC
31911613 GCTGGTAAGTTGGGCCTCAAGGG
1 GCTGGTAAGTTGGGCC-CAAGGG
*
31911636 GCTGG-AA-TTGGGCCCAATGG
1 GCTGGTAAGTTGGGCCCAAGGG
31911656 GCT
1 GCT
31911659 TCGGGCCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 8 0.36
21 7 0.32
22 2 0.09
23 5 0.23
ACGTcount: A:0.17, C:0.20, G:0.41, T:0.22
Consensus pattern (22 bp):
GCTGGTAAGTTGGGCCCAAGGG
Found at i:31912039 original size:11 final size:10
Alignment explanation
Indices: 31912004--31912060 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
31911994 CATGAGATTT
31912004 TGATAT-ACA
1 TGATATGACA
31912013 TGATATGACA
1 TGATATGACA
*
31912023 TGATATGCACG
1 TGATATG-ACA
**
31912034 TGATATGTTA
1 TGATATGACA
*
31912044 TGAGATGCACA
1 TGATATG-ACA
31912055 TGATAT
1 TGATAT
31912061 ACTCATTATA
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
9 6 0.16
10 16 0.43
11 15 0.41
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (10 bp):
TGATATGACA
Found at i:31912039 original size:21 final size:21
Alignment explanation
Indices: 31912010--31912060 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
31912000 ATTTTGATAT
*
31912010 ACATGATATGACATGATATGC
1 ACATGATATGACATGAGATGC
* **
31912031 ACGTGATATGTTATGAGATGC
1 ACATGATATGACATGAGATGC
31912052 ACATGATAT
1 ACATGATAT
31912061 ACTCATTATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (21 bp):
ACATGATATGACATGAGATGC
Found at i:31912142 original size:25 final size:25
Alignment explanation
Indices: 31912106--31912177 Score: 117
Period size: 25 Copynumber: 2.9 Consensus size: 25
31912096 GGAGGAAGTG
*
31912106 CAAAAAGGGCTTTGCCCTAGTTTAC
1 CAAAAAGGGCTTTGCCCCAGTTTAC
* *
31912131 CGAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAAGGGCTTTGCCCCAGTTTAC
31912156 CAAAAAGGGCTTTGCCCCAGTT
1 CAAAAAGGGCTTTGCCCCAGTT
31912178 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (25 bp):
CAAAAAGGGCTTTGCCCCAGTTTAC
Found at i:31912190 original size:24 final size:24
Alignment explanation
Indices: 31912108--31912204 Score: 83
Period size: 25 Copynumber: 4.0 Consensus size: 24
31912098 AGGAAGTGCA
* *
31912108 AAAAG-GGCTTTGCCCTAGTTTACC
1 AAAAGAGGCTTTGCCCCAG-TTATC
31912132 GAAAAG-GGCTTTGCCCCAGTTTATC
1 -AAAAGAGGCTTTGCCCCAG-TTATC
*
31912157 AAAA-AGGGCTTTGCCCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATC
**
31912181 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
31912205 GATAAAGCAG
Statistics
Matches: 63, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
24 19 0.30
25 44 0.70
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:31912201 original size:50 final size:50
Alignment explanation
Indices: 31912106--31912202 Score: 117
Period size: 50 Copynumber: 1.9 Consensus size: 50
31912096 GGAGGAAGTG
* **
31912106 CAAAAAGGGCTTTGCCCTAGTTTACCGAAAAGGGCTTTGCCCCAGTTTAT
1 CAAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTAT
**
31912156 CAAAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAGTT
1 CAAAAAGGGCTTTGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAGTT
31912203 ATGATAAAGC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
48 5 0.12
49 10 0.25
50 25 0.62
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (50 bp):
CAAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTAT
Found at i:31912463 original size:30 final size:31
Alignment explanation
Indices: 31912396--31912478 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 31
31912386 TGCTTACAGT
* *
31912396 AAAGGCTTCGTCCCAGTGATATGAATTTTGA
1 AAAGGCTTCGGCCCAGTGATATGAATTATGA
* *
31912427 AAAGGCTTCGGCCCAGTGTTGTGAATTATG-
1 AAAGGCTTCGGCCCAGTGATATGAATTATGA
*
31912457 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
31912479 TTGAGACTGA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 3 0.07
30 16 0.36
31 26 0.58
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATTATGA
Found at i:31918079 original size:39 final size:39
Alignment explanation
Indices: 31917993--31918116 Score: 142
Period size: 39 Copynumber: 3.2 Consensus size: 39
31917983 CCGAGTCCAA
* * * * * *
31917993 TTTCTAGCACAAAGCCTGCGGGACTTTAAGCCCAGATATA
1 TTTCCAGCACATAGCCTGC-GGACTTCAAGTCCGGATATG
31918033 TTTCCAGCACATAGCCTGCAGG-CTTCAAGTCCGGATATG
1 TTTCCAGCACATAGCCTGC-GGACTTCAAGTCCGGATATG
* * *
31918072 TTTCCAGCACGTAGCCTGCGGACCTCAAGTCCGAATATG
1 TTTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATG
31918111 TTTCCA
1 TTTCCA
31918117 AGTATCATGC
Statistics
Matches: 73, Mismatches: 10, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
38 2 0.03
39 52 0.71
40 19 0.26
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
TTTCCAGCACATAGCCTGCGGACTTCAAGTCCGGATATG
Found at i:31918800 original size:2 final size:2
Alignment explanation
Indices: 31918783--31918820 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
31918773 TAAGGCATAA
* *
31918783 AT AT AC AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31918821 GGTGCATGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:31920899 original size:13 final size:13
Alignment explanation
Indices: 31920881--31920907 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
31920871 GGTAAAGCCT
31920881 CGTAACCCTAGTC
1 CGTAACCCTAGTC
31920894 CGTAACCCTAGTC
1 CGTAACCCTAGTC
31920907 C
1 C
31920908 AGCGATAAAT
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:0.22, C:0.41, G:0.15, T:0.22
Consensus pattern (13 bp):
CGTAACCCTAGTC
Found at i:31927939 original size:40 final size:40
Alignment explanation
Indices: 31927845--31927989 Score: 202
Period size: 40 Copynumber: 3.6 Consensus size: 40
31927835 TACTCGAATG
*
31927845 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
31927886 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
31927926 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
*
31927966 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
31927990 CTTGTGCGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 63 0.68
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:31935937 original size:40 final size:40
Alignment explanation
Indices: 31935844--31935987 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
31935834 TACTCGAATG
* *
31935844 ATAT-CGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGAGACT
* *
31935884 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGAGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGAGACT
* * *
31935924 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGAGACT
*
31935964 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
31935988 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 1 0.01
40 65 0.71
41 24 0.26
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGAGACT
Found at i:31957020 original size:6 final size:6
Alignment explanation
Indices: 31957009--31957280 Score: 265
Period size: 6 Copynumber: 44.8 Consensus size: 6
31956999 AACCAAAATG
*
31957009 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC A-ATATT AGTAA-C
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGA-ATC AG-AATC
* * *
31957057 AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATC AGAATC AGAATT
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* *
31957106 AGTAA-C AGAATC AGAATC AGAATC AGTATT AGTAAT- AGAATC AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC
* * *
31957154 AGAATC AGAATC AGAATT ACGTGA-C AGAATC AGAATC AGAATC A-ATAAC
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC AGA-ATC
* *
31957203 AGAATC AGAATC AGAATC AGTATT AGTAA-C AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
*
31957251 AGAATTAC ATAA-C AGAATC AGAATC AGAAT
1 AGAA-T-C AGAATC AGAATC AGAATC AGAAT
31957281 GTGAATGCAA
Statistics
Matches: 222, Mismatches: 23, Indels: 42
0.77 0.08 0.15
Matches are distributed among these distances:
5 17 0.08
6 186 0.84
7 12 0.05
8 7 0.03
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:31957130 original size:85 final size:85
Alignment explanation
Indices: 31957009--31957280 Score: 420
Period size: 85 Copynumber: 3.1 Consensus size: 85
31956999 AACCAAAATG
*
31957009 AGAATCAGAATCAG-AATCAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAATCAGAA
1 AGAATCAGAATCAGTAA-CAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAA
*
31957073 TCAGAATTAGGTGACAGAATC
65 TCAGAATTACGTGACAGAATC
*
31957094 AGAATCAGAATTAGTAACAGAATCAGAATCAGAATCAGTATTAGTAATAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAG---T--AA-CAGAATCAGAAT
31957159 CAGAATCAGAATTACGTGACAGAATC
60 CAGAATCAGAATTACGTGACAGAATC
*
31957185 AGAATCAGAATCAATAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAAT
1 AGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAAT
* *
31957250 CAGAATTACATAACAGAATC
66 CAGAATTACGTGACAGAATC
31957270 AGAATCAGAAT
1 AGAATCAGAAT
31957281 GTGAATGCAA
Statistics
Matches: 173, Mismatches: 7, Indels: 14
0.89 0.04 0.07
Matches are distributed among these distances:
85 86 0.50
86 4 0.02
88 2 0.01
90 2 0.01
91 79 0.46
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.21
Consensus pattern (85 bp):
AGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAAT
CAGAATTACGTGACAGAATC
Found at i:31957164 original size:91 final size:91
Alignment explanation
Indices: 31957020--31957255 Score: 384
Period size: 91 Copynumber: 2.6 Consensus size: 91
31957010 GAATCAGAAT
* * * * *
31957020 CAGAATCAGAATCAGAATCAGAATCAATATTAGTAA-CAGAATCAGAATCAGAATCAGAATTAGG
1 CAGAATCAGAATCAGAATCAGTATTAGTAATAG-AATCAGAATCAGAATCAGAATCAGAATTACG
* *
31957084 TGACAGAATCAGAATCAGAATTAGTAA
65 TGACAGAATCAGAATCAGAATCAATAA
31957111 CAGAATCAGAATCAGAATCAGTATTAGTAATAGAATCAGAATCAGAATCAGAATCAGAATTACGT
1 CAGAATCAGAATCAGAATCAGTATTAGTAATAGAATCAGAATCAGAATCAGAATCAGAATTACGT
31957176 GACAGAATCAGAATCAGAATCAATAA
66 GACAGAATCAGAATCAGAATCAATAA
*
31957202 CAGAATCAGAATCAGAATCAGTATTAGTAACAGAATCAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAATCAGTATTAGTAATAGAATCAGAATCAGAATCAGAAT
31957256 TACATAACAG
Statistics
Matches: 136, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
90 2 0.01
91 134 0.99
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (91 bp):
CAGAATCAGAATCAGAATCAGTATTAGTAATAGAATCAGAATCAGAATCAGAATCAGAATTACGT
GACAGAATCAGAATCAGAATCAATAA
Found at i:31957435 original size:27 final size:26
Alignment explanation
Indices: 31957398--31957463 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 26
31957388 AGCATGGCTG
*
31957398 CCAGAACAGATATCATGACAGAGTCA
1 CCAGAACAGATATCATGACAGAGCCA
** *
31957424 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATCATGACAGAGCCA
31957451 CCAGAATCAGATA
1 CCAGAA-CAGATA
31957464 ATGTGGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATCATGACAGAGCCA
Found at i:31957468 original size:27 final size:27
Alignment explanation
Indices: 31957416--31957471 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
31957406 GATATCATGA
* *
31957416 CAGAGTCACCAGATACAGATATTGTGG
1 CAGAGCCACCAGATACAGATAATGTGG
31957443 CAGAGCCACCAGA-ATCAGATAATGTGG
1 CAGAGCCACCAGATA-CAGATAATGTGG
31957470 CA
1 CA
31957472 AACCTACCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 25 0.96
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGAGCCACCAGATACAGATAATGTGG
Found at i:31957683 original size:22 final size:22
Alignment explanation
Indices: 31957635--31957693 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
31957625 GTAAATACGT
*
31957635 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
31957657 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
31957679 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
31957694 TAATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:31957849 original size:27 final size:26
Alignment explanation
Indices: 31957781--31957863 Score: 103
Period size: 27 Copynumber: 3.1 Consensus size: 26
31957771 TCGATCGGTC
* * *
31957781 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
*
31957807 ATACAGATATTATGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
31957834 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
31957861 AAC
1 AAC
31957864 GCTTCCTCCG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
26 8 0.16
27 41 0.84
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:31958109 original size:54 final size:54
Alignment explanation
Indices: 31958061--31958231 Score: 220
Period size: 54 Copynumber: 3.2 Consensus size: 54
31958051 AGGGGCAAAA
* *
31958061 TGGTAATTTTACCCCACAAAGGTATCTCGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTTTACCCTACAAAGGTATTTCGATAATTCTACCCTACAGGGGTATTT
31958115 TGGT-ATTTCTACCCTAC-AAGGCTATTTCGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTT-TACCCTACAAAGG-TATTTCGATAATTCTACCCTACAGGGGTATTT
* * * * * *
31958169 TGGTAATTCTATCCTATAAGGGTATTTCAATAATTCTACCCTATAGGGGTATTT
1 TGGTAATTTTACCCTACAAAGGTATTTCGATAATTCTACCCTACAGGGGTATTT
**
31958223 CAGTAATTT
1 TGGTAATTT
31958232 CACAATCAAG
Statistics
Matches: 102, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
53 8 0.08
54 88 0.86
55 6 0.06
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.37
Consensus pattern (54 bp):
TGGTAATTTTACCCTACAAAGGTATTTCGATAATTCTACCCTACAGGGGTATTT
Found at i:31958224 original size:27 final size:27
Alignment explanation
Indices: 31958081--31958223 Score: 169
Period size: 27 Copynumber: 5.3 Consensus size: 27
31958071 ACCCCACAAA
*
31958081 GGTATCTCGATAATTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
* * * *
31958108 GGTATTTTGGTATTTCTACCCTACAAG
1 GGTATTTCGATAATTCTACCCTACAGG
*
31958135 GCTATTTCGATAATTCTACCCTACAGG
1 GGTATTTCGATAATTCTACCCTACAGG
* * * * *
31958162 GGTATTTTGGTAATTCTATCCTATAAG
1 GGTATTTCGATAATTCTACCCTACAGG
* *
31958189 GGTATTTCAATAATTCTACCCTATAGG
1 GGTATTTCGATAATTCTACCCTACAGG
31958216 GGTATTTC
1 GGTATTTC
31958224 AGTAATTTCA
Statistics
Matches: 95, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 95 1.00
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (27 bp):
GGTATTTCGATAATTCTACCCTACAGG
Found at i:31958265 original size:27 final size:27
Alignment explanation
Indices: 31958235--31958939 Score: 825
Period size: 27 Copynumber: 26.2 Consensus size: 27
31958225 GTAATTTCAC
*
31958235 AATCAAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
31958262 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
31958289 AA-CTGAGGGTAAACCAGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * *
31958316 AATCAAGGGTAAAACGGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
31958343 AATCGACGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* * *
31958370 AATCGAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
31958397 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
31958424 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
31958451 AA-CTGA-GGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
** *
31958477 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
31958504 AA-CTGAGGGTAACACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* * *
31958531 AATCGAGGGTAAAACAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
31958558 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
31958585 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
31958612 AA-CTGA-GGTAAAACGGTAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
** * *
31958638 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
31958665 AA-CTGAGGGTAAAACGATAATTCTATA
1 AATC-GAGGGTAAAACGGTAATTCTATA
** * *
31958692 AATCGAGGGTAAAATAGTAATTTTACA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
31958719 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
31958746 AATCGAGGGTAAAACAGTAATTCTTTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
31958773 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
** *
31958800 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
31958827 AA-CTGAGGGTAAAACGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTATA
* *
31958854 AATCGAGGGTAAAACGGTAATTTTAAA
1 AATCGAGGGTAAAACGGTAATTCTATA
* *
31958881 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTATA
*
31958908 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTATA
31958935 AATCG
1 AATCG
31958940 GGAGTACTTT
Statistics
Matches: 571, Mismatches: 91, Indels: 32
0.82 0.13 0.05
Matches are distributed among these distances:
26 51 0.09
27 515 0.90
28 5 0.01
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTATA
Found at i:31958312 original size:54 final size:54
Alignment explanation
Indices: 31958240--31958921 Score: 914
Period size: 54 Copynumber: 12.7 Consensus size: 54
31958230 TTCACAATCA
31958240 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC-GATAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG-TAATTTTGTAAACTG
* * * * * **
31958294 AGGGTAAACCAGTAATTCTGTAAATCAAGGGTAAAACGGTAATTTTACAAA-TCG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACT-G
* * **
31958348 ACGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTACAAA-TCG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACT-G
* *
31958402 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
* *
31958456 A-GGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
* * **
31958509 AGGGTAACACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTTTACAAA-TCG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACT-G
* *
31958563 AGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
*
31958617 A-GGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTAAACTG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
* * **
31958670 AGGGTAAAACGATAATTCTATAAATCGAGGGTAAAATAGTAATTTTACAAA-TCG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACT-G
*
31958724 AGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACAGTAATTCTT-TAAACTG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATT-TTGTAAACTG
* * *
31958778 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
* * * *
31958832 AGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTT-AAAAATCG
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACT-G
* *
31958886 AGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAA
1 AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAA
31958922 TGGTAATTCT
Statistics
Matches: 567, Mismatches: 49, Indels: 24
0.89 0.08 0.04
Matches are distributed among these distances:
53 109 0.19
54 452 0.80
55 6 0.01
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (54 bp):
AGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAACTG
Found at i:31958366 original size:161 final size:161
Alignment explanation
Indices: 31958223--31958936 Score: 1085
Period size: 161 Copynumber: 4.4 Consensus size: 161
31958213 AGGGGTATTT
* * *
31958223 CAGTAATTTCAC-AATCAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAC-GATAATTTT
1 CAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAG-TAATTCT
* * * * **
31958286 GTAAACTGAGGGTAAACCAGTAATTCTGTAAATCAAGGGTAAAACGGTAATT-T-TACAAATCGA
65 GTAAACTGA-GGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTA-AAAT-GA
*
31958349 CGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
127 GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAA
*
31958384 CAGTAATTTTACAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTG
1 CAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTG
*
31958449 TAAACTGAGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGGT
66 TAAACTGAGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAAATGAGGGT
*
31958514 AACACGGTAATTCTGTAAATCGAGGGTAAAA
131 AAAACGGTAATTCTGTAAATCGAGGGTAAAA
*
31958545 CAGTAATTTTACAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTG
1 CAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTG
* *
31958610 TAAACTGAGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTAAACTGAGGGT
66 TAAACTGAGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAAATGAGGGT
* *
31958675 AAAACGATAATTCTATAAATCGAGGGTAAAA
131 AAAACGGTAATTCTGTAAATCGAGGGTAAAA
* * *
31958706 TAGTAATTTTACAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACAGTAATTCTT
1 CAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTG
* *
31958771 TAAACTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAACTGAGGG
66 TAAACTGA-GGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAAATGAGGG
31958836 TAAAACGGTAATTCTGTAAATCGAGGGTAAAA
130 TAAAACGGTAATTCTGTAAATCGAGGGTAAAA
* * * * ** *
31958868 CGGTAATTTTAAAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAATGGTAATTCTA
1 CAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTG
31958933 TAAA
66 TAAA
31958937 TCGGGAGTAC
Statistics
Matches: 516, Mismatches: 32, Indels: 9
0.93 0.06 0.02
Matches are distributed among these distances:
161 308 0.60
162 205 0.40
163 3 0.01
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.27
Consensus pattern (161 bp):
CAGTAATTTTACAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTG
TAAACTGAGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTCTGTAAAATGAGGGT
AAAACGGTAATTCTGTAAATCGAGGGTAAAA
Found at i:31962428 original size:37 final size:37
Alignment explanation
Indices: 31962386--31962464 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 37
31962376 CGGGGTTTTA
* *
31962386 ACCCGGATAAAATCTCCACACGTGGTCATCGGGTCTT
1 ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
*
31962423 ACCCGGACAGAATCTCCACACGTAGTCATCGGGTCTT
1 ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
31962460 ACCCG
1 ACCCG
31962465 AAATATATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.24, C:0.33, G:0.22, T:0.22
Consensus pattern (37 bp):
ACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTT
Found at i:31962657 original size:48 final size:48
Alignment explanation
Indices: 31962596--31962739 Score: 139
Period size: 48 Copynumber: 3.0 Consensus size: 48
31962586 ATTCGGCCAC
* * * *
31962596 AATATACACATCTCCTGCGTATTGCACAAT-AGCCATTCGGCTTTACCA
1 AATATACATATCTCATACATATTGCA-AATCAGCCATTCGGCTTTACCA
* * * *
31962644 AATATACGTATCTCATACATATTTCATATCAGCCATTTGGCTTTACCA
1 AATATACATATCTCATACATATTGCAAATCAGCCATTCGGCTTTACCA
* * * * *
31962692 CATATACATATCTCATACATGTCT-CATATTAGCCATTCAGCTTTACCA
1 AATATACATATCTCATACATAT-TGCAAATCAGCCATTCGGCTTTACCA
31962740 CACATATATA
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
47 2 0.03
48 77 0.96
49 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.34
Consensus pattern (48 bp):
AATATACATATCTCATACATATTGCAAATCAGCCATTCGGCTTTACCA
Found at i:31962740 original size:48 final size:48
Alignment explanation
Indices: 31962625--31962750 Score: 171
Period size: 48 Copynumber: 2.6 Consensus size: 48
31962615 TATTGCACAA
* * *
31962625 TAGCCATTCGGCTTTACCAAATATACGTATCTCATACATATTTCATAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATCTCATAT
* * *
31962673 CAGCCATTTGGCTTTACCACATATACATATCTCATACATGTCTCATAT
1 TAGCCATTCGGCTTTACCACATATACATATCTCATACATATCTCATAT
* * *
31962721 TAGCCATTCAGCTTTACCACACATATATAT
1 TAGCCATTCGGCTTTACCACATATACATAT
31962751 ATTTACCTTG
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (48 bp):
TAGCCATTCGGCTTTACCACATATACATATCTCATACATATCTCATAT
Found at i:31966733 original size:40 final size:40
Alignment explanation
Indices: 31966632--31966776 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
31966622 TACTCGAATG
* *
31966632 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACT
* * *
31966673 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTAACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACT
* *
31966713 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
31966753 ATATCCGGGCTAAGACCCGCAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
31966777 CTTGGGCGAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 60 0.67
41 28 0.31
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:31973544 original size:42 final size:43
Alignment explanation
Indices: 31973439--31973599 Score: 175
Period size: 43 Copynumber: 3.7 Consensus size: 43
31973429 TTATACAATA
* * * * *
31973439 CCAATGTCCCAGATGA-GGTCTTACATGTAATCAAATATCAATG
1 CCAATGTCCCAGA-CATGGTCTTACACGAAATCATATATCGATG
* * *
31973482 CCACTGTCCCAGACAGGGTCTTACACGAAATCATATA-CGACG
1 CCAATGTCCCAGACATGGTCTTACACGAAATCATATATCGATG
*
31973524 CCAATGTCCCAGACATGGTCTTACACGTAAATC-TCAAATCGATG
1 CCAATGTCCCAGACATGGTCTTACACG-AAATCAT-ATATCGATG
* *
31973568 CCAACGTCCCAGACATGGTCTTACATGAAATC
1 CCAATGTCCCAGACATGGTCTTACACGAAATC
31973600 TTGTACCAAA
Statistics
Matches: 101, Mismatches: 13, Indels: 8
0.83 0.11 0.07
Matches are distributed among these distances:
42 30 0.30
43 42 0.42
44 29 0.29
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
CCAATGTCCCAGACATGGTCTTACACGAAATCATATATCGATG
Found at i:31973580 original size:44 final size:44
Alignment explanation
Indices: 31973469--31973600 Score: 155
Period size: 44 Copynumber: 3.0 Consensus size: 44
31973459 TTACATGTAA
* *
31973469 TCAAATATCAATGCC-ACTGTCCCAGACAGGGTCTTACACGAAA--
1 TCAAATA-CGATGCCAAC-GTCCCAGACATGGTCTTACACGAAATC
* * *
31973512 TCATATACGACGCCAATGTCCCAGACATGGTCTTACACGTAAATC
1 TCAAATACGATGCCAACGTCCCAGACATGGTCTTACACG-AAATC
*
31973557 TCAAAT-CGATGCCAACGTCCCAGACATGGTCTTACATGAAATC
1 TCAAATACGATGCCAACGTCCCAGACATGGTCTTACACGAAATC
31973600 T
1 T
31973601 TGTACCAAAA
Statistics
Matches: 76, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
42 26 0.34
43 16 0.21
44 29 0.38
45 5 0.07
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (44 bp):
TCAAATACGATGCCAACGTCCCAGACATGGTCTTACACGAAATC
Found at i:31973598 original size:86 final size:85
Alignment explanation
Indices: 31973439--31973599 Score: 211
Period size: 86 Copynumber: 1.9 Consensus size: 85
31973429 TTATACAATA
* *
31973439 CCAATGTCCCAGATGAGGTCTTACATGTAATCAAATATCAATGCCACTGTCCCAGACAGGGTCTT
1 CCAATGTCCCAGATCAGGTCTTACACGTAATCAAATATCAATGCCACTGTCCCAGACAGGGTCTT
31973504 ACACGAAATCATATACGACG
66 ACACGAAATCATATACGACG
* * *
31973524 CCAATGTCCCAGA-CATGGTCTTACACGTAAATCTCAA-ATCGATGCCAAC-GTCCCAGACATGG
1 CCAATGTCCCAGATCA-GGTCTTACACGT-AATC-AAATATCAATGCC-ACTGTCCCAGACAGGG
*
31973586 TCTTACATGAAATC
62 TCTTACACGAAATC
31973600 TTGTACCAAA
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
84 1 0.02
85 24 0.36
86 37 0.56
87 4 0.06
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (85 bp):
CCAATGTCCCAGATCAGGTCTTACACGTAATCAAATATCAATGCCACTGTCCCAGACAGGGTCTT
ACACGAAATCATATACGACG
Found at i:31973814 original size:13 final size:13
Alignment explanation
Indices: 31973796--31973821 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31973786 ATTTAACATC
31973796 ATTTATTCACTTA
1 ATTTATTCACTTA
31973809 ATTTATTCACTTA
1 ATTTATTCACTTA
31973822 CGAACTTACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTTATTCACTTA
Found at i:31977052 original size:21 final size:21
Alignment explanation
Indices: 31977026--31977067 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
31977016 AATAAACATA
*
31977026 CCTTTCAGTTTCGAAAGCCTT
1 CCTTTCAGCTTCGAAAGCCTT
31977047 CCTTTCAGCTTCGAAAGCCTT
1 CCTTTCAGCTTCGAAAGCCTT
31977068 GTTTAAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.31, G:0.14, T:0.36
Consensus pattern (21 bp):
CCTTTCAGCTTCGAAAGCCTT
Found at i:31978093 original size:29 final size:29
Alignment explanation
Indices: 31978027--31978145 Score: 129
Period size: 29 Copynumber: 4.2 Consensus size: 29
31978017 TACATACTTG
* *
31978027 CATATGGCCCACTAGGCCCAA-TCTTATT
1 CATATGGCCCATTAGGCCCAATTCATATT
* * *
31978055 CAAATGGCCCATTTGGCCCAGTTCATATT
1 CATATGGCCCATTAGGCCCAATTCATATT
*
31978084 C-TGATGGCCCACTAGGCCCAATTC-TCATT
1 CAT-ATGGCCCATTAGGCCCAATTCAT-ATT
*
31978113 CATATGGCCCATTAGGCCCAAATCATATT
1 CATATGGCCCATTAGGCCCAATTCATATT
31978142 -ATAT
1 CATAT
31978146 TCATGCTCAC
Statistics
Matches: 75, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
28 22 0.29
29 51 0.68
30 2 0.03
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAATTCATATT
Found at i:31978131 original size:58 final size:57
Alignment explanation
Indices: 31978030--31978141 Score: 170
Period size: 58 Copynumber: 1.9 Consensus size: 57
31978020 ATACTTGCAT
* * **
31978030 ATGGCCCACTAGGCCCAATCTTATTCAAATGGCCCATTTGGCCCAGTTCATATTCTG
1 ATGGCCCACTAGGCCCAATCTCATTCAAATGGCCCATTAGGCCCAAATCATATTCTG
*
31978087 ATGGCCCACTAGGCCCAATTCTCATTCATATGGCCCATTAGGCCCAAATCATATT
1 ATGGCCCACTAGGCCCAA-TCTCATTCAAATGGCCCATTAGGCCCAAATCATATT
31978142 ATATTCATGC
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
57 18 0.37
58 31 0.63
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (57 bp):
ATGGCCCACTAGGCCCAATCTCATTCAAATGGCCCATTAGGCCCAAATCATATTCTG
Found at i:31978380 original size:16 final size:16
Alignment explanation
Indices: 31978356--31978398 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
31978346 GTAGCCCAAC
*
31978356 TTTCAGCTTTTCGACA
1 TTTCGGCTTTTCGACA
**
31978372 TTTCGGCTTTTCGGTA
1 TTTCGGCTTTTCGACA
31978388 TTTCGGCTTTT
1 TTTCGGCTTTT
31978399 GCCGATTCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.09, C:0.21, G:0.19, T:0.51
Consensus pattern (16 bp):
TTTCGGCTTTTCGACA
Found at i:31982607 original size:29 final size:29
Alignment explanation
Indices: 31982527--31982645 Score: 91
Period size: 29 Copynumber: 4.2 Consensus size: 29
31982517 TACATACATG
* *
31982527 CATATGGCCCACTAGGCCCAA-TCTTATT
1 CATATAGCCCACTAGGCCCAATTCATATT
* * * ***
31982555 CAAATAGCCCATTTGGCTTGATTCATATT
1 CATATAGCCCACTAGGCCCAATTCATATT
* *
31982584 CTTATAGCCCACTAGGCCTAATTC-TCATT
1 CATATAGCCCACTAGGCCCAATTCAT-ATT
* * *
31982613 CATATGGCCCATTAGGCCCAAATCATATT
1 CATATAGCCCACTAGGCCCAATTCATATT
31982642 -ATAT
1 CATAT
31982646 TCATGCTCAC
Statistics
Matches: 69, Mismatches: 19, Indels: 6
0.73 0.20 0.06
Matches are distributed among these distances:
28 19 0.28
29 49 0.71
30 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.33
Consensus pattern (29 bp):
CATATAGCCCACTAGGCCCAATTCATATT
Found at i:31982639 original size:58 final size:57
Alignment explanation
Indices: 31982533--31982641 Score: 128
Period size: 58 Copynumber: 1.9 Consensus size: 57
31982523 CATGCATATG
* * *** *
31982533 GCCCACTAGGCCCAATCTTATTCAAATAGCCCATTTGGCTTGATTCATATTCTTATA
1 GCCCACTAGGCCCAATCTCATTCAAATAGCCCATTAGGCCCAAATCATATTCTTATA
* * *
31982590 GCCCACTAGGCCTAATTCTCATTCATATGGCCCATTAGGCCCAAATCATATT
1 GCCCACTAGGCCCAA-TCTCATTCAAATAGCCCATTAGGCCCAAATCATATT
31982642 ATATTCATGC
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
57 14 0.33
58 28 0.67
ACGTcount: A:0.27, C:0.28, G:0.13, T:0.32
Consensus pattern (57 bp):
GCCCACTAGGCCCAATCTCATTCAAATAGCCCATTAGGCCCAAATCATATTCTTATA
Found at i:31998593 original size:24 final size:24
Alignment explanation
Indices: 31998563--31998805 Score: 414
Period size: 24 Copynumber: 10.1 Consensus size: 24
31998553 GAATGTGACT
* *
31998563 ATAGCAAATCGCACACATAGTGCT
1 ATAGTAAATCGCACACATAGTGCC
*
31998587 ATAGCAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
31998611 ATAGTAAATCGCACACACAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
31998635 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
31998659 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
31998683 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
31998707 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
31998731 ATAGTAAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
31998755 ATAGTAAATCGCACACACAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
*
31998779 ATAGTGAATCGCACACATAGTGCC
1 ATAGTAAATCGCACACATAGTGCC
31998803 ATA
1 ATA
31998806 TGGTCTTTGC
Statistics
Matches: 210, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 210 1.00
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.20
Consensus pattern (24 bp):
ATAGTAAATCGCACACATAGTGCC
Found at i:32004298 original size:20 final size:20
Alignment explanation
Indices: 32004275--32004313 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
32004265 GCTGATAAAC
32004275 TGCCAGTATTGTAGACAAGT
1 TGCCAGTATTGTAGACAAGT
* *
32004295 TGCCAGTTTTGTGGACAAG
1 TGCCAGTATTGTAGACAAG
32004314 CCACCAGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (20 bp):
TGCCAGTATTGTAGACAAGT
Found at i:32004332 original size:60 final size:59
Alignment explanation
Indices: 32004238--32004353 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 59
32004228 CAATAACACA
* * * * * *
32004238 CCAGTTTGTGGACAAGCCACTAGTATTGCTGATAAACTGCCAGTATTGTAGACAAGTTG
1 CCAGTTTGTGGACAAGCCACCAGTAATACAGATAAACTACCAATATTGTAGACAAGTTG
*
32004297 CCAGTTTTGTGGACAAGCCACCAGTAATACAGATAAACTACCAATATTGTGGACAAG
1 CCAG-TTTGTGGACAAGCCACCAGTAATACAGATAAACTACCAATATTGTAGACAAG
32004354 CCACCAATAA
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
59 4 0.08
60 45 0.92
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26
Consensus pattern (59 bp):
CCAGTTTGTGGACAAGCCACCAGTAATACAGATAAACTACCAATATTGTAGACAAGTTG
Found at i:32008642 original size:39 final size:40
Alignment explanation
Indices: 32008558--32008642 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
32008548 ACTTAATTCA
* * *
32008558 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
* *
32008598 CCAGCATGAAGCCAGCGGGTCTCT-AACCCGGATGCAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
32008637 TCAGCA
1 CCAGCA
32008643 CAATTCATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 19 0.49
40 20 0.51
ACGTcount: A:0.28, C:0.32, G:0.22, T:0.18
Consensus pattern (40 bp):
CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
Found at i:32008767 original size:45 final size:46
Alignment explanation
Indices: 32008713--32008821 Score: 150
Period size: 47 Copynumber: 2.3 Consensus size: 46
32008703 TGCACACTTT
* *
32008713 TCACAATTGGTCATTCGGCCTTATCACATAT-TCACTTACACATAT-A
1 TCAC-ATTGGCCATTCGGCCTTATCACATATAACACTTACACAT-TCA
*
32008759 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATA-ACACTTACACATTCA
32008806 TCACATTGGCCATTCG
1 TCACATTGGCCATTCG
32008822 ATCTTAAGCT
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
45 25 0.44
46 5 0.09
47 27 0.47
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (46 bp):
TCACATTGGCCATTCGGCCTTATCACATATAACACTTACACATTCA
Found at i:32011410 original size:22 final size:20
Alignment explanation
Indices: 32011370--32011410 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
32011360 AGTCCTATTA
*
32011370 ACTAAATTCACATGCAATTC
1 ACTAAATTCACATGAAATTC
32011390 ACTAAATTCAAACATGAAATT
1 ACTAAATTC--ACATGAAATT
32011411 TTCACACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.20, G:0.05, T:0.29
Consensus pattern (20 bp):
ACTAAATTCACATGAAATTC
Found at i:32024457 original size:46 final size:46
Alignment explanation
Indices: 32024404--32024579 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
32024394 TATTTGGGCA
32024404 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
32024450 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
32024497 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
32024543 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
32024580 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:32024559 original size:93 final size:93
Alignment explanation
Indices: 32024400--32024571 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
32024390 GGGATATTTG
* *
32024400 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
32024465 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
32024493 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
32024558 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
32024572 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:32027573 original size:15 final size:15
Alignment explanation
Indices: 32027534--32027612 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
32027524 GTATCTTGGG
*
32027534 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
32027549 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
32027564 TTTCTTTATTC-GGG
1 TTTCTTTATTCTGGA
*
32027578 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
32027593 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
32027607 TTTCTT
1 TTTCTT
32027613 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 2 0.04
14 17 0.32
15 32 0.60
16 2 0.04
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:32027597 original size:29 final size:29
Alignment explanation
Indices: 32027525--32027611 Score: 95
Period size: 29 Copynumber: 3.0 Consensus size: 29
32027515 CATAGTATCG
* * * *
32027525 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTC-GGATTTCTC
*
32027555 TAT-TCTGGATTTCTTTATTCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCGGATTTCTC
*
32027584 TATCTTGGATTTCTTTATTCGGTTTTCT
1 TATCTTGGATTTCTTTATTCGGATTTCT
32027612 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 32 0.65
30 17 0.35
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (29 bp):
TATCTTGGATTTCTTTATTCGGATTTCTC
Found at i:32030050 original size:46 final size:46
Alignment explanation
Indices: 32029997--32030172 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
32029987 TATTTGGGCA
32029997 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
32030043 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
32030090 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
32030136 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
32030173 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:32030152 original size:93 final size:93
Alignment explanation
Indices: 32029993--32030164 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
32029983 GGGATATTTG
* *
32029993 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
32030058 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
32030086 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
32030151 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
32030165 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:32038275 original size:17 final size:17
Alignment explanation
Indices: 32038253--32038285 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
32038243 CTCAAAGGGT
32038253 AGTGCATCTGATTCTAG
1 AGTGCATCTGATTCTAG
32038270 AGTGCATCTGATTCTA
1 AGTGCATCTGATTCTA
32038286 CACCTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.36
Consensus pattern (17 bp):
AGTGCATCTGATTCTAG
Found at i:32039608 original size:28 final size:29
Alignment explanation
Indices: 32039576--32039690 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
32039566 TACCTGTATC
* *
32039576 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
32039604 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
* *
32039633 TGACCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* * *
32039662 TGGCTCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
32039690 T
1 T
32039691 TTATGCTCAC
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 27 0.36
29 46 0.62
30 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:32039640 original size:57 final size:58
Alignment explanation
Indices: 32039567--32039677 Score: 152
Period size: 58 Copynumber: 1.9 Consensus size: 58
32039557 AAATTCACAT
* * *
32039567 ACCTGTATCTGGCCCATTAAGCCC-AATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGACCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
* * * *
32039624 ACCTGTATATGACCCATTAGGCCCAAATCACATTTATATGGCTCGTTAGGCCCA
1 ACCTGTATATGACCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCA
32039678 GTCACATTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 21 0.46
58 25 0.54
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.27
Consensus pattern (58 bp):
ACCTGTATATGACCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:32044140 original size:28 final size:29
Alignment explanation
Indices: 32044108--32044221 Score: 108
Period size: 29 Copynumber: 4.0 Consensus size: 29
32044098 CTTATATCTG
* *
32044108 GCCCATTAAGCCT-AATCATATTCATATA
1 GCCCATTAGGCCTAAATCACATTCATATA
* * *
32044136 GCCCACTAGGCCTAAATCACCTAT-ATATG
1 GCCCATTAGGCCTAAATCACAT-TCATATA
* *
32044165 GCCCATTAGGCCTAAATCACATTTATATG
1 GCCCATTAGGCCTAAATCACATTCATATA
* * *
32044194 GCCCGTTAGGCC-CAGTCACATTCATATA
1 GCCCATTAGGCCTAAATCACATTCATATA
32044222 TATGCTCACA
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
28 24 0.34
29 46 0.65
30 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (29 bp):
GCCCATTAGGCCTAAATCACATTCATATA
Found at i:32044191 original size:29 final size:29
Alignment explanation
Indices: 32044106--32044205 Score: 121
Period size: 29 Copynumber: 3.5 Consensus size: 29
32044096 TACTTATATC
* * *
32044106 TGGCCCATTAAGCCT-AATCATATTCATA
1 TGGCCCATTAGGCCTAAATCACATTTATA
* * * *
32044134 TAGCCCACTAGGCCTAAATCACCTATATA
1 TGGCCCATTAGGCCTAAATCACATTTATA
32044163 TGGCCCATTAGGCCTAAATCACATTTATA
1 TGGCCCATTAGGCCTAAATCACATTTATA
*
32044192 TGGCCCGTTAGGCC
1 TGGCCCATTAGGCC
32044206 CAGTCACATT
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
28 12 0.20
29 47 0.80
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCTAAATCACATTTATA
Found at i:32049826 original size:41 final size:41
Alignment explanation
Indices: 32049622--32049910 Score: 194
Period size: 41 Copynumber: 7.1 Consensus size: 41
32049612 TAAAAATTGT
* *
32049622 AAAACACAGAGCA-TAGCAGCG-TTTTTGGTAAAACGCCGCTA
1 AAAAC-CAGAGCATTAGCGGCGCTTTCT-GTAAAACGCCGCTA
* * * * * *
32049663 AAAA-TAGAGAAATAGCGGTGTTTTGTGTTAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTCTG-TAAAACGCCGCTA
* * ** * **
32049704 AAAA-CAGAGCAATAGCAGCATTTTTTGTTAAAACAACGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTCTG-TAAAACGCCGCTA
* * * * * * ** * *
32049745 AAAA-TATAGTAATAGCAGCGTTTTAC-CAAAAAAGCTGCTA
1 AAAACCAGAGCATTAGCGGCGCTTT-CTGTAAAACGCCGCTA
* * *
32049785 AAAACCAAAGAATTAGCGGCGCTTTCTGTAAAACGCTGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTCTGTAAAACGCCGCTA
* * *
32049826 AAAACCAGAGCATTAGGGGTGCTTTCTATAAAACGCCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTCTGTAAAACGCCGCTA
* *
32049867 AAAACCAGAGCATTAGCGGCGCTTTCGGTAAAACACCGCTA
1 AAAACCAGAGCATTAGCGGCGCTTTCTGTAAAACGCCGCTA
32049908 AAA
1 AAA
32049911 GTCATATAAC
Statistics
Matches: 198, Mismatches: 44, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
39 5 0.03
40 20 0.10
41 173 0.87
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (41 bp):
AAAACCAGAGCATTAGCGGCGCTTTCTGTAAAACGCCGCTA
Found at i:32050020 original size:22 final size:22
Alignment explanation
Indices: 32049951--32050026 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 22
32049941 AAAAAATCAT
**
32049951 AAACACT-AATATATAACCCCTA
1 AAACACTAAAT-TATAACCTTTA
** *
32049973 AAACACTAAACCACTAAACTTT-
1 AAACACTAAATTA-TAACCTTTA
32049995 AAACACTAAATTATAACCTTTA
1 AAACACTAAATTATAACCTTTA
*
32050017 AAACCCTAAA
1 AAACACTAAA
32050027 CCCCAAAAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
21 7 0.17
22 28 0.67
23 7 0.17
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.24
Consensus pattern (22 bp):
AAACACTAAATTATAACCTTTA
Done.