Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 200 of 325
Found at i:61955071 original size:93 final size:92
Alignment explanation
Indices: 61954913--61955082 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 92
61954903 GCCCATAAGT
*
61954913 GAACTCGGACTCAACTCAACGAGCTCGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
61954978 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
61955005 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGG-CGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
61955070 CGAGTTCGGATGC
65 CGAGTTCGGATGC
61955083 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 27 0.36
93 48 0.64
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGCGCTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:61955098 original size:46 final size:46
Alignment explanation
Indices: 61954905--61955084 Score: 233
Period size: 45 Copynumber: 3.9 Consensus size: 46
61954895 TGTAACCCGC
* *
61954905 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
61954950 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
61955000 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
*
61955043 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTC
61955085 AACCATCCTA
Statistics
Matches: 116, Mismatches: 11, Indels: 15
0.82 0.08 0.11
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 37 0.32
46 37 0.32
47 32 0.28
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:61958926 original size:35 final size:35
Alignment explanation
Indices: 61958878--61958955 Score: 122
Period size: 35 Copynumber: 2.2 Consensus size: 35
61958868 CGTGACATAA
* *
61958878 CAGTGGCTGGAGCAGGTGGTGGAC-GACAGATGCAC
1 CAGTGGCTAGAGCAGGTGGTCGACAG-CAGATGCAC
61958913 CAGTGGCTAGAGCAGGTGGTCGACAGCAGATGCAC
1 CAGTGGCTAGAGCAGGTGGTCGACAGCAGATGCAC
61958948 CAGTGGCT
1 CAGTGGCT
61958956 GGAATAAGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
35 39 0.98
36 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.40, T:0.15
Consensus pattern (35 bp):
CAGTGGCTAGAGCAGGTGGTCGACAGCAGATGCAC
Found at i:61959922 original size:14 final size:14
Alignment explanation
Indices: 61959898--61959968 Score: 56
Period size: 14 Copynumber: 5.2 Consensus size: 14
61959888 CTTTTTACAA
61959898 AAACC-TAAACCCT
1 AAACCTTAAACCCT
*
61959911 AAACCTTAAACCAT
1 AAACCTTAAACCCT
* * *
61959925 AAACCAT-GACTCT
1 AAACCTTAAACCCT
** *
61959938 AAACCCCAAACCCC
1 AAACCTTAAACCCT
*
61959952 AAATCTTAAACCCT
1 AAACCTTAAACCCT
61959966 AAA
1 AAA
61959969 ACCAAAGAAA
Statistics
Matches: 42, Mismatches: 14, Indels: 3
0.71 0.24 0.05
Matches are distributed among these distances:
13 13 0.31
14 29 0.69
ACGTcount: A:0.46, C:0.35, G:0.01, T:0.17
Consensus pattern (14 bp):
AAACCTTAAACCCT
Found at i:61960614 original size:140 final size:140
Alignment explanation
Indices: 61960354--61961047 Score: 690
Period size: 140 Copynumber: 5.0 Consensus size: 140
61960344 AACACTTAGG
* * * * * **
61960354 AAAGTGTTGGCATAGTCTTGGACAAAACCGACTCTTATTTAAAAGTTGCCTTAGGCATGCATATC
1 AAAGTGTAGGCATAGTGTTCGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATC
* *
61960419 CCAACCCTTATACAAAGAGTTGGCCAAAGTGTATGTTGTCAAGTCTATCCCAACACTTAGGAAAG
66 CCAACCCTTATACAAAGAGTTGGCCAAAGAGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAG
61960484 TGTTGACCCA
131 TGTTGACCCA
* * *
61960494 AATGTGTAGGCATAGTGTTCGACAAAGCCGACTCTTATTTAAGCGTTGCCTTAAGCATGCATATC
1 AAAGTGTAGGCATAGTGTTCGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATC
* ** * * * * *
61960559 CCAACCCTTATACAAAAAGTTCACCAAAAAGTATGTCGACAAGTCTATCCTAACACTTAGGAAAA
66 CCAACCCTTATACAAAGAGTTGGCCAAAGAGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAG
* *
61960624 TGTCG--TC-
131 TGTTGACCCA
* * * *
61960631 ----T-TAGG---ACTG---GACAAAGCCAACTCTTATTTAAGCGTTGTCTTAGGAATACATATC
1 AAAGTGTAGGCATAGTGTTCGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATC
* *
61960685 GCAACCCTTATGCAAAGAGTTGGCCAAAGCA-TATGTTGGCAAGTCTATCCCAACACTTAGGAAA
66 CCAACCCTTATACAAAGAGTTGGCCAAAG-AGTATGTTGGCAAGTCTATCCCAACACTTAGGAAA
* *
61960749 GTGTCGCCCCA
130 GTGTTGACCCA
* * * * * * *
61960760 AAAGTGTCGTCTTAG-GACTAC-ACAAAAGCCAACTCTTATTCAAGTGTTGCCTTAGGCATACAT
1 AAAGTGTAGGCATAGTG--TTCGAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCAT
** * * *
61960823 ATCCCAACCCTTATTTAAAGAGTTGGCGAAAGTGTATGTTGGCAAGTCTATCCCAACACTTACGA
63 ATCCCAACCCTTATACAAAGAGTTGGCCAAAGAGTATGTTGGCAAGTCTATCCCAACACTTAGGA
*
61960888 AAGTG-TCACCCCA
128 AAGTGTTGA-CCCA
* * * * * *
61960901 AAAGTGTCGCCTTAG-GACTAGACAAAGCCAACTCTTATTTAAGCTTTGCCTTAGGCATGCATAT
1 AAAGTGTAGGCATAGTG-TTCGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATAT
* * * * *
61960965 CCCAACCCTTATACAAATAGTTGGCTAAAGCGTATATTGGCCAGTCTATCCCAACACTTAGGAAA
65 CCCAACCCTTATACAAAGAGTTGGCCAAAGAGTATGTTGGCAAGTCTATCCCAACACTTAGGAAA
*
61961030 GTGTCG-CCACA
130 GTGTTGACC-CA
61961041 AAAGTGT
1 AAAGTGT
61961048 CGTCTTAGGA
Statistics
Matches: 460, Mismatches: 71, Indels: 46
0.80 0.12 0.08
Matches are distributed among these distances:
126 98 0.21
127 1 0.00
128 1 0.00
129 3 0.01
132 4 0.01
133 2 0.00
134 2 0.00
136 1 0.00
137 1 0.00
138 1 0.00
139 2 0.00
140 225 0.49
141 119 0.26
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (140 bp):
AAAGTGTAGGCATAGTGTTCGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATC
CCAACCCTTATACAAAGAGTTGGCCAAAGAGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAG
TGTTGACCCA
Found at i:61960722 original size:266 final size:265
Alignment explanation
Indices: 61960248--61961047 Score: 899
Period size: 266 Copynumber: 3.0 Consensus size: 265
61960238 CATACTATTG
* * * *
61960248 GACAAAGCTAACTCTTATTTAAGTGTTGCCTTAGGCATGCATATACCATCTCTTATACAAAGAGT
1 GACAAAGCCAACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGT
* * * * * *
61960313 TAGCCAAAGCA-TATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTTGGCATA-GTCTTGGA
66 TA-CCAAA-AAGTATGTTGACAAGTCTATCCCAACACTTAGGAAAATGTCGCCTTAGGAC-TGGA
* * **
61960376 CAAAACCGACTCTTATTTAAAAGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTG
128 CAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTG
* * * *
61960441 GCCAAAGTGTATGTTGTCAAGTCTATCCCAACACTTAGGAAAGTGTTGACCCAAATGTGTAGGCA
193 GCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGACCCAAAAGTGTAGGCA
*
61960506 TAGTG-TTC
258 TAG-GATAC
* * * *
61960514 GACAAAGCCGACTCTTATTTAAGCGTTGCCTTAAGCATGCATATCCCAACCCTTATACAAAAAGT
1 GACAAAGCCAACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGT
* * *
61960579 TCACCAAAAAGTATGTCGACAAGTCTATCCTAACACTTAGGAAAATGTCGTCTTAGGACTGGACA
66 T-ACCAAAAAGTATGTTGACAAGTCTATCCCAACACTTAGGAAAATGTCGCCTTAGGACTGGACA
* * * * *
61960644 AAGCCAACTCTTATTTAAGCGTTGTCTTAGGAATACATATCGCAACCCTTATGCAAAGAGTTGGC
130 AAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGC
* * * * *
61960709 CAAAGCATATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGCCCCAAAAGTGTCGTCTTA
195 CAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGACCCAAAAGTGTAGGCATA
61960774 GGACTAC
260 GGA-TAC
* * **
61960781 -ACAAAAGCCAACTCTTATTCAAGTGTTGCCTTAGGCATACATATCCCAACCCTTATTTAAAGAG
1 GAC-AAAGCCAACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAG
* * ** *
61960845 TTGGCGAAAGTGTATGTTGGCAAGTCTATCCCAACACTTACGAAAGTGTCACCCCAAAAGTGTCG
65 TT-ACCAAAAAGTATGTTGACAAGTCTATCCCAACACTT-----AG-G-------AAAA-TGTCG
* *
61960910 CCTTAGGACTAGACAAAGCCAACTCTTATTTAAGCTTTGCCTTAGGCATGCATATCCCAACCCTT
115 CCTTAGGACTGGACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTT
* * * *
61960975 ATACAAATAGTTGGCTAAAGCGTATATTGGCCAGTCTATCCCAACACTTAGGAAAGTGTCG-CCA
180 ATACAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGACC-
61961039 CAAAAGTGT
244 CAAAAGTGT
61961048 CGTCTTAGGA
Statistics
Matches: 449, Mismatches: 64, Indels: 27
0.83 0.12 0.05
Matches are distributed among these distances:
265 2 0.00
266 222 0.49
267 89 0.20
272 2 0.00
273 1 0.00
280 6 0.01
281 127 0.28
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (265 bp):
GACAAAGCCAACTCTTATTTAAGTGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGT
TACCAAAAAGTATGTTGACAAGTCTATCCCAACACTTAGGAAAATGTCGCCTTAGGACTGGACAA
AGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGCC
AAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAAGTGTCGACCCAAAAGTGTAGGCATAG
GATAC
Found at i:61963706 original size:15 final size:15
Alignment explanation
Indices: 61963679--61963719 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
61963669 TAAAGATGAC
61963679 AAAGAAA-CCAAGAT
1 AAAGAAATCCAAGAT
*
61963693 GAAGAAATCCAAGAT
1 AAAGAAATCCAAGAT
61963708 AAAGAAATCCAA
1 AAAGAAATCCAA
61963720 AATACGATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.61, C:0.15, G:0.15, T:0.10
Consensus pattern (15 bp):
AAAGAAATCCAAGAT
Found at i:61970003 original size:50 final size:49
Alignment explanation
Indices: 61969886--61970074 Score: 225
Period size: 50 Copynumber: 3.8 Consensus size: 49
61969876 TGAGGTCGCA
* * *
61969886 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TT-GGTCACG
* * ** **
61969937 TGTGTAGTACTGAGTGCAGGCTACTACGTGTATTAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT-GGTCACG
** *
61969987 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCACG
* *
61970036 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
61970075 GCTTTAGCTA
Statistics
Matches: 117, Mismatches: 21, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
49 41 0.35
50 44 0.38
51 32 0.27
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCACG
Found at i:61970057 original size:49 final size:49
Alignment explanation
Indices: 61969883--61970074 Score: 206
Period size: 49 Copynumber: 3.9 Consensus size: 49
61969873 TTGTGAGGTC
* * *
61969883 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTTCGAT
1 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAA-TTGGTT
* * * ** ** *
61969933 -CACGTGTGTAGTACTGAGTGCAGGCTACTACGTGTATTAGATGGTTAGGTC
1 GCA--TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATT-GGTT
* * *
61969984 ACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTT
1 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTT
*
61970033 GCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGATA
1 GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
61970075 GCTTTAGCTA
Statistics
Matches: 115, Mismatches: 23, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
49 43 0.37
50 38 0.33
51 33 0.29
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
GCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAATTGGTT
Found at i:61971426 original size:48 final size:47
Alignment explanation
Indices: 61971355--61971616 Score: 176
Period size: 48 Copynumber: 5.7 Consensus size: 47
61971345 CGGGAAAGTT
61971355 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCACTGA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTATCATCACTGA
* * * * *
61971403 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCA-CATATTCGT
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTATCATC--ACT-GA
* **
61971453 GCCGATGCCATGTCCC--A-A---CTTACACTGAC-A-CATTTC-GTA
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTATCATCACTG-A
* * * * *
61971492 GCCAATG-CATGTCCCAGACATGTCTTACACTAGC-ACTCGTCTC-AA
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTA-TCATCACTGA
* * * *
61971537 TGCTGATGCCATGTACCAGACATGGTCTTACACTGGCTCTCATAATCTG-
1 -GCCGATGCCATGTCCCAGACAT-GTCTTACACTGGCTATCATCA-CTGA
61971586 GCCGATG-CATGTCCCAGACATGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGTCTTACACT
61971617 AGCCCACAAT
Statistics
Matches: 166, Mismatches: 29, Indels: 40
0.71 0.12 0.17
Matches are distributed among these distances:
38 9 0.05
39 6 0.04
40 1 0.01
41 3 0.02
43 9 0.05
44 10 0.06
45 1 0.01
46 19 0.11
47 28 0.17
48 60 0.36
49 3 0.02
50 17 0.10
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGGCTATCATCACTGA
Found at i:61972922 original size:42 final size:43
Alignment explanation
Indices: 61972864--61972949 Score: 138
Period size: 42 Copynumber: 2.0 Consensus size: 43
61972854 TGTGTCTCAT
* *
61972864 AATCATGAACTTAGACCACAACT-AATGAGTTCAAATCACATA
1 AATCATGAACTCAGACCACAACTCAAAGAGTTCAAATCACATA
*
61972906 AATCATGAACTCAGACCACAACTCAAAGAGTTCAGATCACATA
1 AATCATGAACTCAGACCACAACTCAAAGAGTTCAAATCACATA
61972949 A
1 A
61972950 TTCCTAGTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 22 0.55
43 18 0.45
ACGTcount: A:0.45, C:0.23, G:0.10, T:0.21
Consensus pattern (43 bp):
AATCATGAACTCAGACCACAACTCAAAGAGTTCAAATCACATA
Found at i:61981197 original size:13 final size:15
Alignment explanation
Indices: 61981179--61981210 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
61981169 TTTATTCATC
61981179 AATCTCTT-CCTC-G
1 AATCTCTTGCCTCTG
61981192 AATCTCTTGCCTCTG
1 AATCTCTTGCCTCTG
61981207 AATC
1 AATC
61981211 AGCTTTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 4 0.24
15 5 0.29
ACGTcount: A:0.19, C:0.34, G:0.09, T:0.38
Consensus pattern (15 bp):
AATCTCTTGCCTCTG
Found at i:61983888 original size:40 final size:39
Alignment explanation
Indices: 61983819--61984007 Score: 175
Period size: 40 Copynumber: 4.7 Consensus size: 39
61983809 TATAACCACA
* * * *
61983819 AGCACAATTGCCTTCGGGTCCTAAG-CCGGATTTGGTATCT
1 AGCACAAATGCCTTCGGGT-CTTAGCCCGGATATGATA-CT
* *
61983859 TGCACAAATGCCTTCGGGTCTTAGCCCGGATATGACAACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATGA-TACT
* * *
61983899 CGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATGAT-ACT
* * *
61983939 AGCATAAATGCCTTTGGGACTTAGCCCGGATAT-ATTCACT
1 AGCACAAATGCCTTCGGGTCTTAGCCCGGATATGA-T-ACT
* **
61983979 AGCATAAATGCCTTCGGGAGTTAGCCCGG
1 AGCACAAATGCCTTCGGGTCTTAGCCCGG
61984008 GTATCATTCA
Statistics
Matches: 128, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 5 0.04
40 122 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (39 bp):
AGCACAAATGCCTTCGGGTCTTAGCCCGGATATGATACT
Found at i:61999793 original size:24 final size:24
Alignment explanation
Indices: 61999766--61999817 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
61999756 TTTGTCCACT
61999766 AACTTATCCAATGGTCTAATTACC
1 AACTTATCCAATGGTCTAATTACC
61999790 AACTTATCCAATGGTCTAATTACC
1 AACTTATCCAATGGTCTAATTACC
61999814 AACT
1 AACT
61999818 AAGGACCTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.33
Consensus pattern (24 bp):
AACTTATCCAATGGTCTAATTACC
Found at i:62004122 original size:40 final size:40
Alignment explanation
Indices: 62004067--62004310 Score: 357
Period size: 40 Copynumber: 6.1 Consensus size: 40
62004057 CGGATGATAA
* * *
62004067 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
62004107 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
62004147 CCGGGTTAAGTCCCGAAGGCATTTGTCCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
62004187 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
62004227 CCGGGCTAAGTCTCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
62004267 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
62004307 CCGG
1 CCGG
62004311 TTAAATCCCA
Statistics
Matches: 189, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 3 0.02
40 186 0.98
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:62012673 original size:40 final size:40
Alignment explanation
Indices: 62012511--62012712 Score: 148
Period size: 40 Copynumber: 5.1 Consensus size: 40
62012501 CGAATGATGT
*
62012511 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTCG-CTATAA
* * * * ***
62012551 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTCGCTATAA
**
62012590 TCCGGGCTAA-TCCCGAAGGC-TTTGTGCAAGTTACTA-AA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
* *
62012628 CCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTCGCTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
** * * * *
62012669 CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
62012709 CCGG
1 CCGG
62012713 TTAAATTCCG
Statistics
Matches: 129, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
38 24 0.19
39 19 0.15
40 77 0.60
41 9 0.07
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTCGCTATAA
Found at i:62012675 original size:78 final size:79
Alignment explanation
Indices: 62012510--62012661 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 79
62012500 TCGAATGATG
* * *
62012510 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAA-TCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
* *
62012575 GTGCGAGTTAATAAA
65 GTGCAAGTCAATAAA
* **
62012590 TCCGGGCTAATCCCGAAGGCTTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATTC
1 TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATTC
62012653 GTGCAAGTC
65 GTGCAAGTC
62012662 GCTATAACCG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.02
78 35 0.56
79 17 0.27
80 10 0.16
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAATCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTCG
TGCAAGTCAATAAA
Found at i:62021819 original size:29 final size:29
Alignment explanation
Indices: 62021786--62021887 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
62021776 TGACGAGATC
62021786 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
62021815 GGCACTAAGTGTGCGTGCTGGAAATATAT
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
** * *
62021844 GGCACTAAGTGTGCAAGCTGGAAAAATAC
1 GGCACTAAGTGTGCGTGCTGGAAATATAT
**
62021873 GGCACTGGGTGTGCG
1 GGCACTAAGTGTGCG
62021888 AGCTCGGAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (29 bp):
GGCACTAAGTGTGCGTGCTGGAAATATAT
Found at i:62025363 original size:93 final size:93
Alignment explanation
Indices: 62025251--62025421 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
62025241 GCCCATAAGT
* *
62025251 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62025316 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
62025344 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62025409 CGAGTTCGGATGC
66 CGAGTTCGGATGC
62025422 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:62025418 original size:46 final size:46
Alignment explanation
Indices: 62025243--62025418 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
62025233 TGTAACCCGC
* * *
62025243 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
62025289 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
62025339 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
62025382 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
62025419 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:62030800 original size:46 final size:46
Alignment explanation
Indices: 62030750--62030925 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
62030740 TGGTTGAGCA
62030750 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62030796 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
62030841 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62030889 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62030926 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:62030906 original size:93 final size:93
Alignment explanation
Indices: 62030747--62030918 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
62030737 GGATGGTTGA
* *
62030747 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
62030812 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
62030840 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
62030905 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
62030919 CTTATGGGCG
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:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:62043737 original size:48 final size:48
Alignment explanation
Indices: 62043666--62043838 Score: 247
Period size: 50 Copynumber: 3.5 Consensus size: 48
62043656 TGAGGTCACG
62043666 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGATAATTGGTCGCA
* * * * * * *
62043714 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGATAA-T-TGGTCGCA
*
62043764 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-GATAATTGGTCGCA
62043813 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
62043839 TGCGTACCAG
Statistics
Matches: 107, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
48 35 0.33
49 32 0.30
50 38 0.36
51 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (48 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGATAATTGGTCGCA
Found at i:62043841 original size:99 final size:98
Alignment explanation
Indices: 62043661--62043846 Score: 354
Period size: 99 Copynumber: 1.9 Consensus size: 98
62043651 TATTGTGAGG
62043661 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGATAATTGGTCGCATGTGTAGTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGATAATTGGTCGCATGTGTAGTACTA
62043726 AGTGCAGGCTACTATGCGTACCTAAAACTGTGA
66 AGTGCAGGCTACTATGCGTACCTAAAACTGTGA
*
62043759 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-GATAATTGGTCGCATGTGTAGTACT
62043824 AAGTGCAGGCTACTATGCGTACC
65 AAGTGCAGGCTACTATGCGTACC
62043847 AGATAGCTTC
Statistics
Matches: 86, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
98 39 0.45
99 47 0.55
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGATAATTGGTCGCATGTGTAGTACTA
AGTGCAGGCTACTATGCGTACCTAAAACTGTGA
Found at i:62046862 original size:15 final size:15
Alignment explanation
Indices: 62046838--62046902 Score: 55
Period size: 15 Copynumber: 4.4 Consensus size: 15
62046828 GTATCTTGGG
*
62046838 TTTCTCTATTCTGGA
1 TTTCTTTATTCTGGA
*
62046853 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
62046868 TTT-TTCTA-TCTTAGA
1 TTTCTT-TATTC-TGGA
*
62046883 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
62046897 TTTCTT
1 TTTCTT
62046903 GTTATCTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
14 11 0.28
15 25 0.62
16 4 0.10
ACGTcount: A:0.11, C:0.15, G:0.12, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:62046869 original size:30 final size:30
Alignment explanation
Indices: 62046834--62046901 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
62046824 TATCGTATCT
*
62046834 TGGGTTTCTCTAT-TCTGGATTTCTTTATTC
1 TGGGTTTCTCTATCT-TAGATTTCTTTATTC
*
62046864 TGGGTTTTTCTATCTTAGATTTCTTTATTC
1 TGGGTTTCTCTATCTTAGATTTCTTTATTC
*
62046894 -GGTTTTCT
1 TGGGTTTCT
62046902 TGTTATCTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 6 0.18
30 26 0.79
31 1 0.03
ACGTcount: A:0.10, C:0.15, G:0.16, T:0.59
Consensus pattern (30 bp):
TGGGTTTCTCTATCTTAGATTTCTTTATTC
Found at i:62051008 original size:29 final size:29
Alignment explanation
Indices: 62050976--62051110 Score: 148
Period size: 29 Copynumber: 4.7 Consensus size: 29
62050966 ATACCCTCCG
** *
62050976 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATTTTTCC
* * *
62051005 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATTTTTCC
* *
62051034 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATTTTTCC
* *
62051063 AGCACGCACACTTAGTGCCATA-TATTCC
1 AGCTCGCACACTTAGTGCCATATTTTTCC
*
62051091 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
62051111 ATCTCGTCAC
Statistics
Matches: 91, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
28 24 0.26
29 66 0.73
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATTTTTCC
Found at i:62051043 original size:58 final size:57
Alignment explanation
Indices: 62050951--62051101 Score: 149
Period size: 58 Copynumber: 2.6 Consensus size: 57
62050941 AATTTAAGCC
* *** * * *
62050951 CGCACACACAGTGCCATACCCTCCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTCC-AGCACGCACACCCAGTGCCGTATATTTCCAGCA
* * * * ** *
62051009 TGCACACATAGTGTCATATTTTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATA-TATTCCAGCACGCACACCCAGTGCCGTATATTTCCAGCA
*
62051067 CGCACACTTAGTGCCATATATTCCAGCACGCACAC
1 CGCACACATAGTGCCATATATTCCAGCACGCACAC
62051102 TTAGTGCCAA
Statistics
Matches: 74, Mismatches: 18, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
57 15 0.20
58 56 0.76
59 3 0.04
ACGTcount: A:0.25, C:0.34, G:0.15, T:0.26
Consensus pattern (57 bp):
CGCACACATAGTGCCATATATTCCAGCACGCACACCCAGTGCCGTATATTTCCAGCA
Found at i:62059390 original size:35 final size:35
Alignment explanation
Indices: 62059349--62059415 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
62059339 GATGTGTTTA
*
62059349 TTTGTGGATGAGATGTACAATGAAGGGCACATTTG
1 TTTGTGGATGAGATGTACAATAAAGGGCACATTTG
*
62059384 TTTGTGGATGAGATGTACGATAAAGGGCACAT
1 TTTGTGGATGAGATGTACAATAAAGGGCACAT
62059416 GTGCTAAGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.30
Consensus pattern (35 bp):
TTTGTGGATGAGATGTACAATAAAGGGCACATTTG
Found at i:62062603 original size:42 final size:43
Alignment explanation
Indices: 62062536--62062628 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 43
62062526 GATTTATGTA
** * *
62062536 TAAGACCATGTCTGGGACATCGGCATCG-TATCTG-ATTTCGTG
1 TAAGACCATGTCTGGGACAGAGGCATCGATAT-TGAATTACATG
* *
62062578 TAAGACCCTGTCTGGGATAGAGGCATCGATATTGAATTACATG
1 TAAGACCATGTCTGGGACAGAGGCATCGATATTGAATTACATG
62062621 TAAGACCA
1 TAAGACCA
62062629 CATCTAGGAC
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
42 26 0.62
43 16 0.38
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACAGAGGCATCGATATTGAATTACATG
Found at i:62069262 original size:40 final size:40
Alignment explanation
Indices: 62069207--62069428 Score: 349
Period size: 40 Copynumber: 5.6 Consensus size: 40
62069197 TATTCGAATG
62069207 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
62069247 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
62069287 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
62069327 ATATCCGGGCCAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * * *
62069367 ATATCCGGGCTAAGACCCAAAGGAATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
62069407 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
62069429 TACTTGGGTT
Statistics
Matches: 168, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 13 0.08
40 153 0.91
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:62071421 original size:37 final size:37
Alignment explanation
Indices: 62071362--62071470 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
62071352 AGCTCAGACG
* *
62071362 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
62071399 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
62071436 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
62071471 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:62071740 original size:48 final size:49
Alignment explanation
Indices: 62071616--62071752 Score: 215
Period size: 50 Copynumber: 2.8 Consensus size: 49
62071606 GCACATCGCC
*
62071616 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA-A
* *
62071666 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTC-A
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCAA
62071714 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
62071753 TGCATCTTCA
Statistics
Matches: 80, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
48 36 0.45
49 2 0.03
50 42 0.52
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (49 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAA
Found at i:62071754 original size:50 final size:49
Alignment explanation
Indices: 62071615--62071880 Score: 211
Period size: 47 Copynumber: 5.6 Consensus size: 49
62071605 CGCACATCGC
*
62071615 CTACATATTTCACACTAGCCATTCGGCTTTACCACATATA--CATATCT
1 CTACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATATCT
*
62071662 CATATATATATTTCACATT-GACCATTCGGCTTTACCAC--ATATGCATATCT
1 C---TACATATTTCACATTAG-CCATTCGGCTTTACCACATATATGCATATCT
62071712 CATACATATTTCACATTAGCCATTCGGCTTTACCACATATATGC--ATCT
1 C-TACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATATCT
* * * * * *
62071760 -T-CATATTCACCACATTGGCCATTCGGCCTTATCACACATATGCAT-GCT
1 CTACATATT--TCACATTAGCCATTCGGCTTTACCACATATATGCATATCT
* * * * *
62071808 C-ACAT-TCATCACATTGGCCATTCGGCCTTATCACATATATGCATGT-T
1 CTACATAT-TTCACATTAGCCATTCGGCTTTACCACATATATGCATATCT
* *
62071855 C-ACAT-TCATCACATTGGCCATTCGGC
1 CTACATAT-TTCACATTAGCCATTCGGC
62071881 CTTATTCATA
Statistics
Matches: 189, Mismatches: 13, Indels: 34
0.80 0.06 0.14
Matches are distributed among these distances:
45 6 0.03
46 1 0.01
47 91 0.48
48 42 0.22
49 5 0.03
50 44 0.23
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (49 bp):
CTACATATTTCACATTAGCCATTCGGCTTTACCACATATATGCATATCT
Found at i:62071801 original size:47 final size:47
Alignment explanation
Indices: 62071722--62071914 Score: 266
Period size: 47 Copynumber: 4.1 Consensus size: 47
62071712 CATACATATT
* * * *
62071722 TCACATTAGCCATTCGGCTTTACCACATATATGCATCTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATCTTCACATTCA
* *
62071769 CCACATTGGCCATTCGGCCTTATCACACATATGCATGC-TCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCAT-CTTCACATTCA
*
62071816 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATCTTCACATTCA
* *
62071863 TCACATTGGCCATTCGGCCTTAT-TCATATATACA-CATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATC-TTCACATTCA
62071909 TCACAT
1 TCACAT
62071915 AAAATCCTAA
Statistics
Matches: 131, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
46 25 0.19
47 105 0.80
48 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATCTTCACATTCA
Found at i:62071846 original size:94 final size:95
Alignment explanation
Indices: 62071675--62071885 Score: 277
Period size: 94 Copynumber: 2.2 Consensus size: 95
62071665 ATATATATTT
* * * *
62071675 CACATTGACCATTCGGCTTTA-CCACATATGCATATCTCATACATATTTCACATTAGCCATTCGG
1 CACATTGGCCATTCGGCCTTATCCACATATGCATAGCTCA-ACATATATCACATTAGCCATTCGG
* *
62071739 CTTTACCACATATATGCATCTTCATATTCAC
65 CCTTACCACATATATGCATCTTCACATTCAC
*
62071770 CACATTGGCCATTCGGCCTTATCACACATATGCAT-GCTC-ACAT-TCATCACATTGGCCATTCG
1 CACATTGGCCATTCGGCCTTATC-CACATATGCATAGCTCAACATAT-ATCACATTAGCCATTCG
* * *
62071832 GCCTTATCACATATATGCATGTTCACATTCAT
64 GCCTTACCACATATATGCATCTTCACATTCAC
62071864 CACATTGGCCATTCGGCCTTAT
1 CACATTGGCCATTCGGCCTTAT
62071886 TCATATATAC
Statistics
Matches: 103, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
93 1 0.01
94 68 0.66
95 19 0.18
96 4 0.04
97 11 0.11
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.33
Consensus pattern (95 bp):
CACATTGGCCATTCGGCCTTATCCACATATGCATAGCTCAACATATATCACATTAGCCATTCGGC
CTTACCACATATATGCATCTTCACATTCAC
Found at i:62077895 original size:48 final size:48
Alignment explanation
Indices: 62077825--62078207 Score: 595
Period size: 48 Copynumber: 8.0 Consensus size: 48
62077815 AGATAAATAT
* * *
62077825 ATATATGTGTGATATGTGTATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
62077873 ATATATATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
62077921 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* *
62077969 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
*
62078017 ATATATATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * * *
62078065 ATATATGTGTGATATGTAGATGTGGTAAAGCTGAATGGCTAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
62078113 ATATGTATGAGATATGTATATGTCGTAAAGCCGAATGGCGAATGTGAA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
* * *
62078161 ATATGTATGAGATAAGAATATGTGGTAAAGCCGAATGGCTAATGTGA
1 ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGA
62078208 GTGTTGTAAC
Statistics
Matches: 309, Mismatches: 26, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 309 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.32
Consensus pattern (48 bp):
ATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
Found at i:62078000 original size:144 final size:144
Alignment explanation
Indices: 62077825--62078207 Score: 658
Period size: 144 Copynumber: 2.7 Consensus size: 144
62077815 AGATAAATAT
*
62077825 ATATATGTGTGATATGTGTATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATAAGATATGT
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATAAGATATGT
*
62077890 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTATATGTGGTAAAGCCGA
66 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTAGATGTGGTAAAGCCGA
62077955 ATGGCTAATGTGAA
131 ATGGCTAATGTGAA
62077969 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATAAGATATGT
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATAAGATATGT
*
62078034 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTAGATGTGGTAAAGCTGA
66 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTAGATGTGGTAAAGCCGA
62078099 ATGGCTAATGTGAA
131 ATGGCTAATGTGAA
* * * * * * * * *
62078113 ATATGTATGAGATATGTATATGTCGTAAAGCCGAATGGCGAATGTGAAATATGTATGAGATAAGA
1 ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATAAGATATGT
62078178 ATATGTGGTAAAGCCGAATGGCTAATGTGA
66 ATATGTGGTAAAGCCGAATGGCTAATGTGA
62078208 GTGTTGTAAC
Statistics
Matches: 227, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
144 227 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.32
Consensus pattern (144 bp):
ATATATGTGTGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATAAGATATGT
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATGTAGATGTGGTAAAGCCGA
ATGGCTAATGTGAA
Found at i:62083940 original size:55 final size:55
Alignment explanation
Indices: 62083818--62083920 Score: 129
Period size: 55 Copynumber: 1.9 Consensus size: 55
62083808 GAACCTAACA
* * *
62083818 AAAC-AACACGGGCGTTTGACACGCCCGTGTGGAAGACCCGTGGTTGAAACTGAG
1 AAACTAACACGGGCGTTCGACACGCCCGTGTGCAAGACCCGTGGTCGAAACTGAG
* **
62083872 AAACTAGCACGGGCGTTCGACACGCCCGTGT-CCCGTACCCGTGGTCGAA
1 AAACTAACACGGGCGTTCGACACGCCCGTGTGCAAG-ACCCGTGGTCGAA
62083921 CCTATTAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
54 5 0.12
55 36 0.88
ACGTcount: A:0.24, C:0.29, G:0.30, T:0.17
Consensus pattern (55 bp):
AAACTAACACGGGCGTTCGACACGCCCGTGTGCAAGACCCGTGGTCGAAACTGAG
Found at i:62097174 original size:27 final size:27
Alignment explanation
Indices: 62097125--62097260 Score: 152
Period size: 27 Copynumber: 5.1 Consensus size: 27
62097115 AGGAAGCGTC
* * *
62097125 CTGGTGGCTATGCCATA-ATTATCTGAT
1 CTGGTGGCTCTGCCACATA-TATCTGTT
*
62097152 CTGGTGGCTCTCCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
*
62097179 CTGGTGGCTCTGCCATATATATCTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
62097206 CTGGTGGCTCTGCCACGAT-TATCTGTT
1 CTGGTGGCTCTGCCAC-ATATATCTGTT
* ** *
62097233 CTGGTGACTCTATCACAT-TATTTGTT
1 CTGGTGGCTCTGCCACATATATCTGTT
62097259 CT
1 CT
62097261 AGCAGCCATG
Statistics
Matches: 96, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
26 11 0.11
27 82 0.85
28 3 0.03
ACGTcount: A:0.16, C:0.24, G:0.21, T:0.40
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATATATCTGTT
Found at i:62097209 original size:54 final size:54
Alignment explanation
Indices: 62097125--62097243 Score: 170
Period size: 54 Copynumber: 2.2 Consensus size: 54
62097115 AGGAAGCGTC
*
62097125 CTGGTGGCTATGCCATAATTATCTGATCTGGTGGCTCTCCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCATAATTATCTGATCTGGTGGCTCTCCCACGAT-TATCTGTT
* *
62097179 CTGGTGGCTCTGCCAT-ATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCATAAT-TATCTGATCTGGTGGCTCTCCCACGATTATCTGTT
*
62097233 CTGGTGACTCT
1 CTGGTGGCTCT
62097244 ATCACATTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
53 2 0.03
54 55 0.93
55 2 0.03
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTCTGCCATAATTATCTGATCTGGTGGCTCTCCCACGATTATCTGTT
Found at i:62101248 original size:40 final size:40
Alignment explanation
Indices: 62101123--62101329 Score: 213
Period size: 40 Copynumber: 5.2 Consensus size: 40
62101113 CAATTGAATG
* * ** * **
62101123 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
* * *
62101163 ATATCCGGGTTAAGA-CCGAAGGCAATT-GTGCTAG-TGACT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TT
*
62101202 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
* * * *
62101242 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
* * *
62101282 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
62101322 ATATCCGG
1 ATATCCGG
62101330 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
39 30 0.21
40 108 0.77
41 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
Found at i:62109033 original size:40 final size:40
Alignment explanation
Indices: 62108974--62109181 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
62108964 CAATTGAATG
* * * *
62108974 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
62109014 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
62109054 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
62109094 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
62109134 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
62109174 ATATCCGG
1 ATATCCGG
62109182 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:62109112 original size:80 final size:80
Alignment explanation
Indices: 62108975--62109181 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
62108965 AATTGAATGA
* * ** * * *
62108975 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
62109040 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
62109053 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
62109118 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
62109135 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
62109182 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:62114754 original size:24 final size:24
Alignment explanation
Indices: 62114722--62114798 Score: 136
Period size: 24 Copynumber: 3.2 Consensus size: 24
62114712 AAGTCTGTCA
*
62114722 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
62114746 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
62114770 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
62114794 GGAGA
1 GGAGA
62114799 ACAGTGTTGG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.32, C:0.03, G:0.43, T:0.22
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:62116233 original size:27 final size:26
Alignment explanation
Indices: 62116193--62116303 Score: 168
Period size: 27 Copynumber: 4.2 Consensus size: 26
62116183 AGGAAGCGTC
* *
62116193 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
62116220 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
62116247 CTGGTGGCTCTGCCACGATTATCTGTT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
*
62116274 CTGGTGGCTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
62116300 CTGG
1 CTGG
62116304 CAGCCATGCT
Statistics
Matches: 79, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
26 16 0.20
27 61 0.77
28 2 0.03
ACGTcount: A:0.14, C:0.24, G:0.24, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:62118733 original size:23 final size:22
Alignment explanation
Indices: 62118707--62118749 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
62118697 AATTTCTTCT
62118707 TTTTCGTATTATTCATTTTAACC
1 TTTTCGTATTA-TCATTTTAACC
**
62118730 TTTTTTTATTATCATTTTAA
1 TTTTCGTATTATCATTTTAA
62118750 ACTTGTTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.23, C:0.12, G:0.02, T:0.63
Consensus pattern (22 bp):
TTTTCGTATTATCATTTTAACC
Found at i:62118767 original size:21 final size:21
Alignment explanation
Indices: 62118718--62118767 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
62118708 TTTCGTATTA
* * **
62118718 TTCATTTTAACCTTTTTTTAT
1 TTCATTTTAAACTTGTTGCAT
62118739 TATCATTTTAAACTTGTTGCAT
1 T-TCATTTTAAACTTGTTGCAT
62118761 TTCATTT
1 TTCATTT
62118768 GTGTTAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.22, C:0.14, G:0.04, T:0.60
Consensus pattern (21 bp):
TTCATTTTAAACTTGTTGCAT
Found at i:62125185 original size:46 final size:46
Alignment explanation
Indices: 62125084--62125171 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
62125074 TGTAACCCGC
* * *
62125084 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
62125130 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
62125172 AACCATCCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:62127593 original size:30 final size:30
Alignment explanation
Indices: 62127548--62127636 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
62127538 CAAAGATAAC
*
62127548 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAGAACCAGAATAAAGAAATCCAAGATA
*
62127577 GAGA-AACCGAGAATAAAGAAATCC-AGAATA
1 AAGAGAACC-AGAATAAAGAAATCCAAG-ATA
* * *
62127607 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAGAACCAGAATAAAGAAATCCAAGATA
62127637 CGATACTATG
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
28 4 0.08
29 5 0.10
30 36 0.72
31 5 0.10
ACGTcount: A:0.57, C:0.15, G:0.18, T:0.10
Consensus pattern (30 bp):
AAGAGAACCAGAATAAAGAAATCCAAGATA
Found at i:62127636 original size:15 final size:15
Alignment explanation
Indices: 62127559--62127636 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
62127549 AGAAAACCGA
62127559 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
62127574 ATAGAGAAA-CCGAG
1 ATAAAGAAATCCAAG
62127588 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
62127603 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
62127619 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
62127634 ATA
1 ATA
62127637 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.14, G:0.18, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:62130679 original size:46 final size:46
Alignment explanation
Indices: 62130578--62130665 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
62130568 TGTAACCCGC
* * *
62130578 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
62130624 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
62130666 AACCATCCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:62133080 original size:30 final size:30
Alignment explanation
Indices: 62133036--62133124 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
62133026 CAAAGATAAC
62133036 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
62133065 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
62133095 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
62133125 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:62133084 original size:15 final size:15
Alignment explanation
Indices: 62133036--62133115 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
62133026 CAAAGATAAC
*
62133036 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
62133050 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
62133065 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
62133080 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
62133095 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
62133110 AAGAAA
1 AAGAAA
62133116 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:62133124 original size:15 final size:15
Alignment explanation
Indices: 62133047--62133124 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
62133037 AGAAAACCGA
62133047 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
62133062 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
62133076 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
62133091 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
62133107 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
62133122 ATA
1 ATA
62133125 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:62136183 original size:93 final size:93
Alignment explanation
Indices: 62136071--62136242 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
62136061 GCCCATAAGT
* *
62136071 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62136136 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
62136164 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
62136229 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
62136243 CAAATATCCA
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:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:62136238 original size:46 final size:46
Alignment explanation
Indices: 62136063--62136238 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
62136053 TGTAACCCGC
* * *
62136063 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
62136109 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
62136159 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
62136202 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
62136239 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:62140228 original size:46 final size:46
Alignment explanation
Indices: 62140127--62140214 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
62140117 TGTAACCCGC
* * *
62140127 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
62140173 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
62140215 AACCATCCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:62142637 original size:30 final size:30
Alignment explanation
Indices: 62142593--62142681 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
62142583 CAAAGATAAC
62142593 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
62142622 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
62142652 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
62142682 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:62142641 original size:15 final size:15
Alignment explanation
Indices: 62142593--62142672 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
62142583 CAAAGATAAC
*
62142593 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
62142607 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
62142622 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
62142637 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
62142652 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
62142667 AAGAAA
1 AAGAAA
62142673 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:62142681 original size:15 final size:15
Alignment explanation
Indices: 62142604--62142681 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
62142594 AGAAAACCGA
62142604 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
62142619 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
62142633 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
62142648 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
62142664 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
62142679 ATA
1 ATA
62142682 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:62145727 original size:46 final size:46
Alignment explanation
Indices: 62145626--62145713 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
62145616 TGTAACCCGC
** * *
62145626 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAACGCTCCCAT
* *
62145672 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAACGCTC
62145714 AACCATCCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAACGCTCCCAT
Found at i:62154380 original size:44 final size:45
Alignment explanation
Indices: 62154332--62154612 Score: 191
Period size: 44 Copynumber: 6.4 Consensus size: 45
62154322 TATCCTCCTG
* * *
62154332 AGGTAGCAGGGGAGCAGATTTTAG-CCACTAGCCTTATATCCCTA
1 AGGTAGCAAGGGAGCAGATTTAAGACCACTAGCCTTATCTCCCTA
* * ** * *
62154376 AGGTAGCAAGGAAGCAG-GTTAATGATTA-TAGTCTTATC-CTCCTG
1 AGGTAGCAAGGGAGCAGATTTAA-GACCACTAGCCTTATCTC-CCTA
* * *
62154420 AGGTAGCAGGGGAGCAGATTTTAG-CCACTAGCCTTATATCCCTA
1 AGGTAGCAAGGGAGCAGATTTAAGACCACTAGCCTTATCTCCCTA
* * ** * *
62154464 AGGTAGCAAGGAAGCAG-GTTAATGATTA-TAGTCTTATCTTCCTA
1 AGGTAGCAAGGGAGCAGATTTAA-GACCACTAGCCTTATCTCCCTA
* * * *** * ** * *
62154508 AGGTAGCAAGGGAGCAAACTGAAGATGGCAAATCTTATCTTCCTG
1 AGGTAGCAAGGGAGCAGATTTAAGACCACTAGCCTTATCTCCCTA
* *
62154553 AGGTAGCAGGGGAGCAGATTTTAG-CCACTAGCCTTATCTCCCTA
1 AGGTAGCAAGGGAGCAGATTTAAGACCACTAGCCTTATCTCCCTA
*
62154597 AGGTAGCAAAGGAGCA
1 AGGTAGCAAGGGAGCA
62154613 AGCTAATGAT
Statistics
Matches: 176, Mismatches: 51, Indels: 20
0.71 0.21 0.08
Matches are distributed among these distances:
43 8 0.05
44 127 0.72
45 41 0.23
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (45 bp):
AGGTAGCAAGGGAGCAGATTTAAGACCACTAGCCTTATCTCCCTA
Found at i:62154431 original size:88 final size:88
Alignment explanation
Indices: 62154319--62154523 Score: 383
Period size: 88 Copynumber: 2.3 Consensus size: 88
62154309 AAGCGGCGAA
62154319 TCTTATCCTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATATCCCTAAGGTAGCA
1 TCTTATCCTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATATCCCTAAGGTAGCA
62154384 AGGAAGCAGGTTAATGATTATAG
66 AGGAAGCAGGTTAATGATTATAG
62154407 TCTTATCCTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATATCCCTAAGGTAGCA
1 TCTTATCCTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATATCCCTAAGGTAGCA
62154472 AGGAAGCAGGTTAATGATTATAG
66 AGGAAGCAGGTTAATGATTATAG
* * *
62154495 TCTTATCTTCCTAAGGTAGCAAGGGAGCA
1 TCTTATCCTCCTGAGGTAGCAGGGGAGCA
62154524 AACTGAAGAT
Statistics
Matches: 114, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 114 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (88 bp):
TCTTATCCTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATATCCCTAAGGTAGCA
AGGAAGCAGGTTAATGATTATAG
Found at i:62154578 original size:133 final size:133
Alignment explanation
Indices: 62154407--62154660 Score: 402
Period size: 133 Copynumber: 1.9 Consensus size: 133
62154397 ATGATTATAG
62154407 TCTTATCCTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATATCCCTAAGGTAGC-
1 TCTTATCCTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATATCCCTAAGGTAGCA
* * *
62154471 AAGGAAGCAGGTTAATGATTATAGTCTTATCTTCCTAAGGTAGCAAGGGAGCAAACTGAAGATGG
66 AAGG-AGCAAGCTAATGATTACAGTCTTATCTTCCTAAGGTAGCAAGGGAGCAAACTGAAGATGG
62154536 CAAA
130 CAAA
* *
62154540 TCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTAAGGTAGCA
1 TCTTATCCTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATATCCCTAAGGTAGCA
* * * * *
62154605 AAGGAGCAAGCTAATGATTGCAGTCTTCTCTTCTTGAGGTAGTAAGGGAGCAAACT
66 AAGGAGCAAGCTAATGATTACAGTCTTATCTTCCTAAGGTAGCAAGGGAGCAAACT
62154661 AATGTTTCAG
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
133 106 0.96
134 4 0.04
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (133 bp):
TCTTATCCTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATATCCCTAAGGTAGCA
AAGGAGCAAGCTAATGATTACAGTCTTATCTTCCTAAGGTAGCAAGGGAGCAAACTGAAGATGGC
AAA
Found at i:62156596 original size:16 final size:16
Alignment explanation
Indices: 62156575--62156616 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
62156565 TCAATTGTTA
*
62156575 TTTTTATATATTCTTT
1 TTTTTATATATTCTTG
*
62156591 TTTTTATATATTGTTG
1 TTTTTATATATTCTTG
*
62156607 TATTTATATA
1 TTTTTATATA
62156617 ATTTATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (16 bp):
TTTTTATATATTCTTG
Found at i:62156896 original size:23 final size:23
Alignment explanation
Indices: 62156868--62156913 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
62156858 CAAATTTCTT
62156868 CTTTTTCGTATTATTCATTTTAAC
1 CTTTTTCGTATTA-TCATTTTAAC
**
62156892 CTTTTTTTTATTATCATTTTAA
1 CTTTTTCGTATTATCATTTTAA
62156914 ACTTGTTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.22, C:0.13, G:0.02, T:0.63
Consensus pattern (23 bp):
CTTTTTCGTATTATCATTTTAAC
Found at i:62165834 original size:27 final size:28
Alignment explanation
Indices: 62165778--62165847 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
62165768 AAATTTGTAC
62165778 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
62165806 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
62165833 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
62165848 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:62165858 original size:27 final size:27
Alignment explanation
Indices: 62165778--62165859 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
62165768 AAATTTGTAC
* *
62165778 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
62165806 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
62165833 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
62165860 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:62174136 original size:5 final size:5
Alignment explanation
Indices: 62174126--62174153 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
62174116 GACTAGTTTT
62174126 AAATA AAATA AAATA AAATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAATA AAA
62174154 GGCCTCATCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:62177986 original size:42 final size:42
Alignment explanation
Indices: 62177914--62178003 Score: 110
Period size: 42 Copynumber: 2.1 Consensus size: 42
62177904 TACGTGTAAA
*
62177914 ACCATATCTGGGATATGGCATCTGTATGAGACTTCGTATAAG
1 ACCATATCTGGGATATGACATCTGTATGAGACTTCGTATAAG
* * * * *
62177956 ACCATATTTGGGATATGATATC-GATGTGAGATTTCGTGTAAG
1 ACCATATCTGGGATATGACATCTG-TATGAGACTTCGTATAAG
62177998 ACCATA
1 ACCATA
62178004 GCTAGACTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 1 0.02
42 40 0.98
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.32
Consensus pattern (42 bp):
ACCATATCTGGGATATGACATCTGTATGAGACTTCGTATAAG
Found at i:62180152 original size:40 final size:40
Alignment explanation
Indices: 62180093--62180234 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
62180083 AAATTGAATG
* * *
62180093 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
62180133 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
62180173 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
62180213 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
62180235 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:62180235 original size:40 final size:39
Alignment explanation
Indices: 62180132--62180260 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
62180122 TGCTGGAAAT
* * *
62180132 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
62180172 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
62180212 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
62180252 TATATCCGG
1 TATATCCGG
62180261 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:62181361 original size:17 final size:18
Alignment explanation
Indices: 62181324--62181361 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
62181314 CTTTTTTTTT
62181324 TTCCTTTGTTTTCATCATA
1 TTCCTTTGTTTTCAT-ATA
*
62181343 TTCCTTTTTTTTCAT-TA
1 TTCCTTTGTTTTCATATA
62181360 TT
1 TT
62181362 TTATTCTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
19 14 0.78
ACGTcount: A:0.13, C:0.18, G:0.03, T:0.66
Consensus pattern (18 bp):
TTCCTTTGTTTTCATATA
Found at i:62186654 original size:6 final size:6
Alignment explanation
Indices: 62186624--62186792 Score: 89
Period size: 6 Copynumber: 27.3 Consensus size: 6
62186614 AAGAAACATT
* * *
62186624 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * * *
62186673 ATCAAA ATTAG- GTGACAGA ATCAGA ATCAGT ATCAGGTA A-CAAA ATCAGA
1 ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * *
62186723 ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCA-G-A
*
62186774 A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
62186793 GTGAATGCAA
Statistics
Matches: 122, Mismatches: 24, Indels: 34
0.68 0.13 0.19
Matches are distributed among these distances:
5 8 0.07
6 95 0.78
7 14 0.11
8 5 0.04
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:62186676 original size:25 final size:25
Alignment explanation
Indices: 62186645--62186733 Score: 133
Period size: 25 Copynumber: 3.6 Consensus size: 25
62186635 AATCAAAATG
62186645 AGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGGTGACAGAATC
* *
62186670 AGAATCAAAATTAGGTGACAGAATC
1 AGAATCAGAATCAGGTGACAGAATC
* * *
62186695 AGAATCAGTATCAGGTAACAAAATC
1 AGAATCAGAATCAGGTGACAGAATC
62186720 AGAATCAGAATCAG
1 AGAATCAGAATCAG
62186734 AATCAGAATT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 56 1.00
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.18
Consensus pattern (25 bp):
AGAATCAGAATCAGGTGACAGAATC
Found at i:62186729 original size:37 final size:37
Alignment explanation
Indices: 62186688--62186770 Score: 121
Period size: 37 Copynumber: 2.2 Consensus size: 37
62186678 AATTAGGTGA
*
62186688 CAGAATCAGAATCAGTATCAGGTAACAAAATCAGAAT
1 CAGAATCAGAATCAGAATCAGGTAACAAAATCAGAAT
* * *
62186725 CAGAATCAGAATCAGAATTAGGTGACAGAATCAGAAT
1 CAGAATCAGAATCAGAATCAGGTAACAAAATCAGAAT
*
62186762 CAGTATCAG
1 CAGAATCAG
62186771 GTAACAGAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.46, C:0.16, G:0.19, T:0.19
Consensus pattern (37 bp):
CAGAATCAGAATCAGAATCAGGTAACAAAATCAGAAT
Found at i:62186729 original size:62 final size:62
Alignment explanation
Indices: 62186663--62186792 Score: 233
Period size: 62 Copynumber: 2.1 Consensus size: 62
62186653 AATCAGGTGA
*
62186663 CAGAATCAGAATCAAAATTAGGTGACAGAATCAGAATCAGTATCAGGTAACAAAATCAGAAT
1 CAGAATCAGAATCAAAATTAGGTGACAGAATCAGAATCAGTATCAGGTAACAAAATCAAAAT
* *
62186725 CAGAATCAGAATCAGAATTAGGTGACAGAATCAGAATCAGTATCAGGTAACAGAATCAAAAT
1 CAGAATCAGAATCAAAATTAGGTGACAGAATCAGAATCAGTATCAGGTAACAAAATCAAAAT
62186787 CAGAAT
1 CAGAAT
62186793 GTGAATGCAA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 65 1.00
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (62 bp):
CAGAATCAGAATCAAAATTAGGTGACAGAATCAGAATCAGTATCAGGTAACAAAATCAAAAT
Found at i:62186753 original size:25 final size:25
Alignment explanation
Indices: 62186725--62186792 Score: 100
Period size: 25 Copynumber: 2.7 Consensus size: 25
62186715 AAATCAGAAT
* *
62186725 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
*
62186750 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
62186775 CAGAATCAAAATCAGAAT
1 CAGAATCAGAATCAGAAT
62186793 GTGAATGCAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:62186770 original size:31 final size:31
Alignment explanation
Indices: 62186663--62186770 Score: 121
Period size: 31 Copynumber: 3.5 Consensus size: 31
62186653 AATCAGGTGA
*
62186663 CAGAATCAGAATCAAAATTAGGTGACAGAAT
1 CAGAATCAGAATCAGAATTAGGTGACAGAAT
* ** **
62186694 CAGAATCAGTATCAGGTAACAAAAT--CAGAAT
1 CAGAATCAGAATCA-G-AATTAGGTGACAGAAT
62186725 CAGAATCAGAATCAGAATTAGGTGACAGAAT
1 CAGAATCAGAATCAGAATTAGGTGACAGAAT
*
62186756 CAGAATCAGTATCAG
1 CAGAATCAGAATCAG
62186771 GTAACAGAAT
Statistics
Matches: 61, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
29 4 0.07
30 1 0.02
31 52 0.85
33 4 0.07
ACGTcount: A:0.46, C:0.15, G:0.19, T:0.19
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATTAGGTGACAGAAT
Found at i:62186788 original size:31 final size:31
Alignment explanation
Indices: 62186688--62186792 Score: 117
Period size: 31 Copynumber: 3.4 Consensus size: 31
62186678 AATTAGGTGA
*
62186688 CAGAATCAGAATCAGTATCAGGTAACAAAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAAT
* * *
62186719 CAGAATCAGAATCAGAATCA-G-AATTAG-GT
1 CAGAATCAGAATCAGTATCAGGTAA-CAGAAT
62186748 GACAGAATCAGAATCAGTATCAGGTAACAGAAT
1 --CAGAATCAGAATCAGTATCAGGTAACAGAAT
*
62186781 CAAAATCAGAAT
1 CAGAATCAGAAT
62186793 GTGAATGCAA
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
29 3 0.05
30 2 0.03
31 49 0.82
32 3 0.05
33 3 0.05
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (31 bp):
CAGAATCAGAATCAGTATCAGGTAACAGAAT
Found at i:62187018 original size:27 final size:26
Alignment explanation
Indices: 62186912--62187018 Score: 92
Period size: 27 Copynumber: 4.0 Consensus size: 26
62186902 CATGGCTACC
* * *
62186912 AGAACAGATATTGTGACAGAGTCAGC-
1 AGAACAGATATTGTGGCAAAGCCA-CT
* *
62186938 AGATACAGATATTGTGGCAGAGCCACC
1 AGA-ACAGATATTGTGGCAAAGCCACT
*
62186965 AGAATAGATATTTGTGGCATAA-CCACT
1 AGAACAGATA-TTGTGGCA-AAGCCACT
*
62186992 AGAAACAGATAATGTGGCAAAGCCACT
1 AG-AACAGATATTGTGGCAAAGCCACT
62187019 TAACAGAATA
Statistics
Matches: 68, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
26 12 0.18
27 48 0.71
28 8 0.12
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (26 bp):
AGAACAGATATTGTGGCAAAGCCACT
Found at i:62187210 original size:22 final size:22
Alignment explanation
Indices: 62187176--62187240 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
62187166 GCAAATACGT
*
62187176 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
62187198 TTGGCATAGAGCCATATAT-AGG
1 TTGGCACAAAGCCATA-ATCAGG
*
62187220 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
62187241 AATAATTGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:62187647 original size:27 final size:27
Alignment explanation
Indices: 62187617--62188056 Score: 444
Period size: 27 Copynumber: 16.3 Consensus size: 27
62187607 GGGGCAAAAT
* *
62187617 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
62187644 GGTAA-TTCACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
62187670 AGT-ATTTCTACCCTACAAGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
62187697 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
62187724 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
62187751 GGT-ATTTCTACTCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
62187778 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * *
62187805 AGTAATTTTACCCTATAAGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * * *
62187832 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
62187859 GAT-ATTTCTACCCTATAAGTGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
*
62187886 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
62187913 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
62187940 AGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
62187967 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
62187994 GGT-ATTTTAACCCTACAAGGGTATATC
1 GGTAATTTT-ACCCTACAAGGGTATTTC
* * *
62188021 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
**
62188048 AATAATTTT
1 GGTAATTTT
62188057 GTAAATCAAG
Statistics
Matches: 355, Mismatches: 49, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
25 1 0.00
26 31 0.09
27 309 0.87
28 14 0.04
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:62187759 original size:81 final size:81
Alignment explanation
Indices: 62187619--62188054 Score: 563
Period size: 81 Copynumber: 5.4 Consensus size: 81
62187609 GGCAAAATGG
* * * *
62187619 TAATTTTACCCCACAAGGGTATCTCGGTAATTC-ACCCTACAGGGGTATTTCAGTATTTCTACCC
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCC
62187683 TACAAGGGTATTTTGA
66 TACAAGGGTATTTTGA
* * * *
62187699 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACTC
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCC
* *
62187764 TACAAGGGTATTTCGG
66 TACAAGGGTATTTTGA
* * * * * *
62187780 TATTTCTACCCTACAAGGGTATTTCAGTAATTTTACCCTATAAGGGTATTTTAGTAATTCTACCC
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCC
*
62187845 TACAGGGGTATTTTGA
66 TACAAGGGTATTTTGA
* * * * * *
62187861 TATTTCTACCCTATAAGTGTATTTCAGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCC
1 TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCC
*
62187926 TACAAGGGTA-TTTCA
66 TACAAGGGTATTTTGA
* *
62187941 GTAATTCTACCTTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTT-TAAC
1 -TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCT-AC
* *
62188005 CCTACAAGGGTATATCGA
64 CCTACAAGGGTATTTTGA
* *
62188023 TAATTCTACCCTACAGGGGTATTTCAATAATT
1 TAATTCTACCCTACAAGGGTATTTCAGTAATT
62188055 TTGTAAATCA
Statistics
Matches: 309, Mismatches: 43, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
80 34 0.11
81 273 0.88
82 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (81 bp):
TAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCC
TACAAGGGTATTTTGA
Found at i:62188186 original size:26 final size:27
Alignment explanation
Indices: 62188039--62188207 Score: 144
Period size: 27 Copynumber: 6.3 Consensus size: 27
62188029 TACCCTACAG
* ** *
62188039 GGGTATTTCAATAATTTTGTAAATCAA
1 GGGTATTTCAGTAATTTTACAAATCGA
*** * * * *
62188066 GGGTAAAACGGTAATTCTATAAATCGG
1 GGGTATTTCAGTAATTTTACAAATCGA
* * * *
62188093 GGGTACTTT-GGTAATTTTATAAGTTGA
1 GGGTA-TTTCAGTAATTTTACAAATCGA
*
62188120 GGGTATTTCAGTAATTTTACAAATTGA
1 GGGTATTTCAGTAATTTTACAAATCGA
62188147 GGGTATTTCAGTAATTTTAC-AATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* * *
62188173 CGATATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
62188200 GGGTATTT
1 GGGTATTT
62188208 GGGTAATTCG
Statistics
Matches: 114, Mismatches: 25, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
26 25 0.22
27 89 0.78
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCGA
Found at i:62188212 original size:27 final size:27
Alignment explanation
Indices: 62188074--62188215 Score: 153
Period size: 27 Copynumber: 5.3 Consensus size: 27
62188064 AAGGGTAAAA
* * *
62188074 CGGTAATTCTATAAATCGGGGGTACTTT
1 CGGTAATTTTACAAATCGAGGGTA-TTT
* * *
62188102 -GGTAATTTTATAAGTTGAGGGTATTT
1 CGGTAATTTTACAAATCGAGGGTATTT
* *
62188128 CAGTAATTTTACAAATTGAGGGTATTT
1 CGGTAATTTTACAAATCGAGGGTATTT
* * *
62188155 CAGTAATTTTAC-AATCGACGATATTT
1 CGGTAATTTTACAAATCGAGGGTATTT
62188181 CGGTAATTTTACAAATCGAGGGTATTT
1 CGGTAATTTTACAAATCGAGGGTATTT
*
62188208 GGGTAATT
1 CGGTAATT
62188216 CGGTAAACTA
Statistics
Matches: 98, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
26 25 0.26
27 73 0.74
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (27 bp):
CGGTAATTTTACAAATCGAGGGTATTT
Found at i:62188214 original size:53 final size:53
Alignment explanation
Indices: 62188074--62188215 Score: 160
Period size: 53 Copynumber: 2.6 Consensus size: 53
62188064 AAGGGTAAAA
* * * * * * *
62188074 CGGTAATTCTATAAATCGGGGGTACTTTGGTAATTTTATAAGTTGAGGGTATTT
1 CGGTAATTTTACAAATCGAGGGTA-TTTGGTAATTTTACAAGTCGACGATATTT
* * *
62188128 CAGTAATTTTACAAATTGAGGGTATTTCAGTAATTTTACAA-TCGACGATATTT
1 CGGTAATTTTACAAATCGAGGGTATTT-GGTAATTTTACAAGTCGACGATATTT
62188181 CGGTAATTTTACAAATCGAGGGTATTTGGGTAATT
1 CGGTAATTTTACAAATCGAGGGTATTT-GGTAATT
62188216 CGGTAAACTA
Statistics
Matches: 73, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
53 43 0.59
54 30 0.41
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (53 bp):
CGGTAATTTTACAAATCGAGGGTATTTGGTAATTTTACAAGTCGACGATATTT
Found at i:62190430 original size:40 final size:40
Alignment explanation
Indices: 62190371--62190618 Score: 284
Period size: 40 Copynumber: 6.2 Consensus size: 40
62190361 CAATTGAATG
* * * * **
62190371 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
* * *
62190411 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGT-GACT
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTCG-TT
* * *
62190451 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
* *
62190491 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
* *
62190531 CTATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
* * * *
62190571 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
62190611 ATATCCGG
1 ATATCCGG
62190619 TTGTATTCCG
Statistics
Matches: 182, Mismatches: 22, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
39 2 0.01
40 177 0.97
41 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTCGTT
Found at i:62197184 original size:40 final size:40
Alignment explanation
Indices: 62197110--62197203 Score: 106
Period size: 40 Copynumber: 2.4 Consensus size: 40
62197100 TATCTCAATA
62197110 TCGCACACTTAGTGCCTCTTATAGCCGAAGCTATTCC-AAC
1 TCGCACACTTAGTGCCTCTTATAG-CGAAGCTATTCCGAAC
*
62197150 TCGCACACTTAGTGCCATTTGTAGTAG-GAA-CTATTCCGAAC
1 TCGCACACTTAGTGCC-TCT-TA-TAGCGAAGCTATTCCGAAC
*
62197191 -CGTACACTTAGTG
1 TCGCACACTTAGTG
62197204 TGGAACATAG
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
40 35 0.73
41 8 0.17
42 2 0.04
43 3 0.06
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.29
Consensus pattern (40 bp):
TCGCACACTTAGTGCCTCTTATAGCGAAGCTATTCCGAAC
Found at i:62202910 original size:40 final size:40
Alignment explanation
Indices: 62202865--62202994 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
62202855 CGGAATACAA
62202865 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
62202905 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
62202945 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
62202985 CCGGATATAA
1 CCGGATATAA
62202995 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:62203009 original size:40 final size:40
Alignment explanation
Indices: 62202865--62203028 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
62202855 CGGAATACAA
* **
62202865 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
62202905 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
62202945 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
62202985 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
62203025 CCGG
1 CCGG
62203029 GTATCATTCA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:62210967 original size:40 final size:40
Alignment explanation
Indices: 62210922--62211051 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
62210912 CGGAATACAA
62210922 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
62210962 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
62211002 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
62211042 CCGGATATAA
1 CCGGATATAA
62211052 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:62211066 original size:40 final size:40
Alignment explanation
Indices: 62210922--62211084 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
62210912 CGGAATACAA
* **
62210922 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
62210962 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
62211002 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * *
62211042 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
62211081 CCGG
1 CCGG
62211085 TATCATTCAA
Statistics
Matches: 100, Mismatches: 20, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
39 11 0.11
40 89 0.89
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:62212841 original size:43 final size:43
Alignment explanation
Indices: 62212793--62212947 Score: 154
Period size: 43 Copynumber: 3.7 Consensus size: 43
62212783 GGCTGTCACA
62212793 GTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTATT
1 GTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTATT
** * * *
62212836 GTGATTATGTGTAACACCATGTCTGGGACATTAGCATTGTATT
1 GTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTATT
* * * * * *
62212879 ATGATTTCATGTAAGACCCTGGCTAGGACA-AGGCATCG-ATAT
1 GTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTAT-T
** *
62212921 GTGA-TAGTTGTAAGACCATATCTAGGA
1 GTGATTACATGTAAGACCATGTCTAGGA
62212948 TATGCCATTG
Statistics
Matches: 88, Mismatches: 23, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
41 19 0.22
42 9 0.10
43 60 0.68
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (43 bp):
GTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTATT
Found at i:62213770 original size:13 final size:13
Alignment explanation
Indices: 62213754--62213787 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
62213744 AATTTGAATA
*
62213754 TGGAATTGAGTAG
1 TGGAAATGAGTAG
62213767 TGGAAATGAGTAG
1 TGGAAATGAGTAG
*
62213780 TAGAAATG
1 TGGAAATG
62213788 GTGCAGGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.35, T:0.26
Consensus pattern (13 bp):
TGGAAATGAGTAG
Found at i:62215191 original size:71 final size:71
Alignment explanation
Indices: 62215107--62215270 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
62215097 CGATTTGTCT
62215107 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
62215172 CTTTCA
66 CTTTCA
62215178 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
62215243 CTTTCA
66 CTTTCA
62215249 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
62215271 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:62215308 original size:71 final size:70
Alignment explanation
Indices: 62215107--62215304 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
62215097 CGATTTGTCT
* * * *
62215107 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
62215172 CTTTCA
65 CTTTCA
* * * *
62215178 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
62215243 CTTTCA
65 CTTTCA
* *
62215249 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
62215305 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:62222277 original size:68 final size:68
Alignment explanation
Indices: 62222192--62222320 Score: 165
Period size: 68 Copynumber: 1.9 Consensus size: 68
62222182 CCAACCGATT
*
62222192 TGTCTCGTAGCTCTCTTGT-CTACATGGA-ATACATCTC-GTATCACACATGTGACCTAGCTACT
1 TGTCTCGTAGCTCTCTTGTAC-ACAT-GATATACA-CTCAGCATCACACATGTGACCTAGCTACT
62222254 ACAGGG
63 ACAGGG
* * * *
62222260 TGTCTCGTAGCTTTCTTGTACACATGATGTGCACTCAGCATCATACATGTGACCTAGCTAC
1 TGTCTCGTAGCTCTCTTGTACACATGATATACACTCAGCATCACACATGTGACCTAGCTAC
62222321 GCTCCCTCTA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
67 5 0.09
68 47 0.89
69 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (68 bp):
TGTCTCGTAGCTCTCTTGTACACATGATATACACTCAGCATCACACATGTGACCTAGCTACTACA
GGG
Found at i:62228919 original size:43 final size:42
Alignment explanation
Indices: 62228871--62229025 Score: 181
Period size: 43 Copynumber: 3.6 Consensus size: 42
62228861 GTTATCAAGA
62228871 TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCT-GGACATTGGCATTGTAT
** *
62228914 TGTGATTATGTGTAAGACCATGTTTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCT-GGACATTGGCATTGTAT
* * *
62228957 TATGATTTCATGTAAGACCCTGTCTGCGACA-TGGCATTGGT-T
1 TGTGATTACATGTAAGACCATGTCTG-GACATTGGCATT-GTAT
*
62228999 TGTGA-TAGCATGTAAGACCATATCTGG
1 TGTGATTA-CATGTAAGACCATGTCTGG
62229026 GATATGGTAT
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
41 2 0.02
42 29 0.31
43 64 0.67
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.35
Consensus pattern (42 bp):
TGTGATTACATGTAAGACCATGTCTGGACATTGGCATTGTAT
Found at i:62232414 original size:13 final size:13
Alignment explanation
Indices: 62232396--62232421 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
62232386 TCCTCAATAA
62232396 TTTTTTTAATTCT
1 TTTTTTTAATTCT
62232409 TTTTTTTAATTCT
1 TTTTTTTAATTCT
62232422 ATTCTCGTCG
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:0.15, C:0.08, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTTTAATTCT
Found at i:62233700 original size:27 final size:26
Alignment explanation
Indices: 62233666--62233776 Score: 132
Period size: 27 Copynumber: 4.1 Consensus size: 26
62233656 GCATGGCTGT
* *
62233666 CAGAACAGATAATGTGACAGAGTCAC
1 CAGAACAGATAATGTGGCAGAGCCAC
*
62233692 CAGATACAGATAATCGTGGCAAAGCCAC
1 CAGA-ACAGATAAT-GTGGCAGAGCCAC
62233720 CAGAACAGATATATGTGGCAGAGCCAC
1 CAGAACAGATA-ATGTGGCAGAGCCAC
* * *
62233747 CAGATCAGATAATTATGGCATAGCCAC
1 CAGAACAGATAA-TGTGGCAGAGCCAC
62233774 CAG
1 CAG
62233777 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 5 0.07
27 53 0.72
28 16 0.22
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CAGAACAGATAATGTGGCAGAGCCAC
Found at i:62233730 original size:54 final size:54
Alignment explanation
Indices: 62233666--62233776 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 54
62233656 GCATGGCTGT
* *
62233666 CAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAAAGCCAC
1 CAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCATGGCAAAGCCAC
* * *
62233720 CAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTATGGCATAGCCAC
1 CAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCATGGCAAAGCCAC
62233774 CAG
1 CAG
62233777 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.16
Consensus pattern (54 bp):
CAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCATGGCAAAGCCAC
Found at i:62241466 original size:27 final size:27
Alignment explanation
Indices: 62241436--62241522 Score: 131
Period size: 27 Copynumber: 3.2 Consensus size: 27
62241426 GTGACTGAGT
62241436 CACCAGATCAGATAATTGTGGCATAGC
1 CACCAGATCAGATAATTGTGGCATAGC
* *
62241463 CACCAGAACAGAT-ATATGTGGCAGAGC
1 CACCAGATCAGATAAT-TGTGGCATAGC
*
62241490 CACCAGATCAGATAATTATGGCATAGC
1 CACCAGATCAGATAATTGTGGCATAGC
62241517 CACCAG
1 CACCAG
62241523 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
26 2 0.04
27 49 0.92
28 2 0.04
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (27 bp):
CACCAGATCAGATAATTGTGGCATAGC
Found at i:62241496 original size:54 final size:53
Alignment explanation
Indices: 62241412--62241522 Score: 177
Period size: 54 Copynumber: 2.1 Consensus size: 53
62241402 AGCATGGCTG
* * *
62241412 CCAGAACAGATAATGTGACTGAGTCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTATGGCATAGCCA
*
62241465 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTATGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATCAGATAATTATGGCATAGCCA
62241519 CCAG
1 CCAG
62241523 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
53 12 0.23
54 41 0.77
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.19
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATCAGATAATTATGGCATAGCCA
Found at i:62245989 original size:48 final size:48
Alignment explanation
Indices: 62245937--62246610 Score: 1104
Period size: 48 Copynumber: 14.0 Consensus size: 48
62245927 CAAGATAAAT
*
62245937 ATATATATGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
62245985 ATATATATATGTGGTAAAGCCGAATGGCTAATGTAAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
62246033 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
62246081 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
62246129 ACATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
62246177 ATATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATA--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
62246227 ATATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATA--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
62246277 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAC
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
62246325 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
62246373 ATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
62246421 --ATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
62246467 --ATATATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
62246513 ATATATATATGTGGTAAATCTGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * * * * *
62246561 AGATGTATATTTGGTAAAGCCGAATGGCTAATGAGCAATATGTAGGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
62246609 AT
1 AT
62246611 GTGTGTATAT
Statistics
Matches: 598, Mismatches: 24, Indels: 8
0.95 0.04 0.01
Matches are distributed among these distances:
46 91 0.15
48 410 0.69
50 97 0.16
ACGTcount: A:0.37, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:62246369 original size:244 final size:241
Alignment explanation
Indices: 62245935--62246609 Score: 1144
Period size: 244 Copynumber: 2.8 Consensus size: 241
62245925 TACAAGATAA
*
62245935 ATATATATATGTGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATATATGTGGT
1 ATATAT-TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATATATGTGGT
*
62246000 AAAGCCGAATGGCTAATGTAAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGCTAAT
65 AAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGCTAAT
62246065 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
130 GTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
*
62246130 CATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
195 CATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
62246177 ATATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATGTATATGTG
1 ATATAT-TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATA--TATATGTG
*
62246242 GTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTA
63 GTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGCTA
*
62246307 ATGTGAAATATGTATGACATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
128 ATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGA
*
62246372 GATATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
193 GACATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
*
62246421 --ATA-TATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG--ATATATATGTGGTA
1 ATATATTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATATATGTGGTA
* * *
62246481 AAGCCGAATGGCTAATATGAAATATGTATGAGATATATATATGTGGTAAATCTGAATGGCTAATG
66 AAGCCGAATGGCTAATGTGAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGCTAATG
* * * * *
62246546 TGAAATATGTATGAGAGATGTATATTTGGTAAAGCCGAATGGCTAATGAGCAATATGTAGGAGA
131 TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGA
62246610 TGTGTGTATA
Statistics
Matches: 413, Mismatches: 18, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
236 130 0.31
238 3 0.01
240 42 0.10
242 56 0.14
244 182 0.44
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (241 bp):
ATATATTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATATATATGTGGTA
AAGCCGAATGGCTAATGTGAAATATGTATGAGATATATATATGTGGTAAAGCCGAATGGCTAATG
TGAAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAC
ATGTATATGTGGTAAAGCCGAATGGCTAATATGAAATATGTATGAG
Found at i:62250104 original size:28 final size:29
Alignment explanation
Indices: 62250060--62250173 Score: 144
Period size: 29 Copynumber: 4.0 Consensus size: 29
62250050 TACCTCTATC
* *
62250060 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
62250088 TGGTCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
*
62250117 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
62250146 TGGCCCGTTAGGCCC-AATCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
62250174 ATCATCCTCA
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
28 26 0.35
29 48 0.64
30 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:62250132 original size:57 final size:57
Alignment explanation
Indices: 62250051--62250166 Score: 153
Period size: 57 Copynumber: 2.0 Consensus size: 57
62250041 AATTTCACAT
* * *
62250051 ACCTCTATCTGGCCCATTAAGCCC-AATCATATTCATATGGTCCATTAGGCCCAAATC
1 ACCTCTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCC-AATC
* * * *
62250108 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCCCAATC
1 ACCTCTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAATC
62250165 AC
1 AC
62250167 ATTCATAATC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 27 0.53
58 24 0.47
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.27
Consensus pattern (57 bp):
ACCTCTATATGGCCCATTAAGCCCAAATCACATTCATATGGCCCATTAGGCCCAATC
Found at i:62251527 original size:17 final size:17
Alignment explanation
Indices: 62251488--62251523 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
62251478 ACCAAAAAAG
62251488 TTTGGGATTTCGGGATT
1 TTTGGGATTTCGGGATT
62251505 TTTGGG-TTTCGGGATT
1 TTTGGGATTTCGGGATT
62251521 TTT
1 TTT
62251524 TGGGGGTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.08, C:0.06, G:0.33, T:0.53
Consensus pattern (17 bp):
TTTGGGATTTCGGGATT
Found at i:62252770 original size:45 final size:45
Alignment explanation
Indices: 62252720--62252810 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
62252710 GCACACTTAG
62252720 TGCCTCATATAATCAATCCACATTTCACATACTCAAGCTTAACTA
1 TGCCTCATATAATCAATCCACATTTCACATACTCAAGCTTAACTA
62252765 TGCCTCATATAATCAATCCACATTTCACATACTCAAGCTTAACTA
1 TGCCTCATATAATCAATCCACATTTCACATACTCAAGCTTAACTA
62252810 T
1 T
62252811 CTCATTTCCA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.35, C:0.29, G:0.04, T:0.32
Consensus pattern (45 bp):
TGCCTCATATAATCAATCCACATTTCACATACTCAAGCTTAACTA
Found at i:62257762 original size:31 final size:31
Alignment explanation
Indices: 62257719--62257782 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
62257709 CCTGTTCATA
62257719 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
62257750 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
62257781 TT
1 TT
62257783 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:62258022 original size:24 final size:24
Alignment explanation
Indices: 62257975--62258143 Score: 245
Period size: 24 Copynumber: 7.0 Consensus size: 24
62257965 GCTTTATCAT
*
62257975 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
62258000 ATAACTGGGGCA-AAGCCCTTTTTTTA
1 ATAACTGGGGCATAAGCCC---TTTTA
62258026 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
62258049 ATAACTGGGGCATAAGCCTTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
62258073 ATAACTGGGGCATAAGCCCTTCTA
1 ATAACTGGGGCATAAGCCCTTTTA
62258097 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
62258121 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
62258144 GCACTTCATC
Statistics
Matches: 133, Mismatches: 5, Indels: 13
0.88 0.03 0.09
Matches are distributed among these distances:
23 23 0.17
24 79 0.59
25 8 0.06
26 17 0.13
27 6 0.05
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:62258220 original size:20 final size:20
Alignment explanation
Indices: 62258197--62258296 Score: 182
Period size: 20 Copynumber: 5.0 Consensus size: 20
62258187 GAACATCTCG
62258197 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
62258217 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
62258237 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
62258257 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
62258277 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
62258297 GGTTTATCAA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 76 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:62263325 original size:50 final size:50
Alignment explanation
Indices: 62263265--62263401 Score: 186
Period size: 50 Copynumber: 2.7 Consensus size: 50
62263255 TATGAGATTT
*
62263265 CCATGGAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGT-AATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTCAA-C
** * *
62263315 CCATGTAAGACCATGTCCAGGACATGGAATTGGCATTGATATGTGTCAAC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTCAAC
* * *
62263365 CCGTGTAAGACCATATCTGGGATATGGCATTGGCATC
1 CCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
62263402 TTACTATGAG
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
50 72 0.97
51 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (50 bp):
CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGTCAAC
Found at i:62269617 original size:2 final size:2
Alignment explanation
Indices: 62269610--62269638 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
62269600 TTCATGTATG
62269610 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
62269639 GCAATACTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:62269807 original size:2 final size:2
Alignment explanation
Indices: 62269802--62269869 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
62269792 TATATATATA
62269802 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
62269844 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
62269870 CATTTGGCAT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:62270723 original size:38 final size:38
Alignment explanation
Indices: 62270681--62270790 Score: 130
Period size: 42 Copynumber: 2.7 Consensus size: 38
62270671 TCGATATATT
*
62270681 ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTCATA
1 ATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGG---TA
*
62270722 TATATATCCGGGTTAAATCCTGCAGGCTTAGTGCTGGTA
1 -ATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
* *
62270761 CTATATCCGGGCTTAAAGTTCCGCAGGCTT
1 ATATATCCGGG-TTAAA-TCCCGCAGGCTT
62270791 TGAGCTAGTG
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
38 10 0.16
39 7 0.11
40 10 0.16
42 34 0.56
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.31
Consensus pattern (38 bp):
ATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
Found at i:62270766 original size:42 final size:42
Alignment explanation
Indices: 62270680--62270759 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
62270670 CTCGATATAT
*
62270680 TATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTCATA
1 TATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTCATA
*
62270722 TATATATCCGGGTTAAATCCTGCAGGCTTAGTGCTGGT
1 TATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGT
62270760 ACTATATCCG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (42 bp):
TATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTCATA
Found at i:62273043 original size:46 final size:45
Alignment explanation
Indices: 62272993--62273168 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 45
62272983 TGGTTGAGCA
62272993 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
62273039 TCCGAACTCGTTGAGTTGAGTTCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* *
62273084 CATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* *
62273132 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62273169 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Done.