Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 85 of 221
Found at i:25564400 original size:17 final size:18
Alignment explanation
Indices: 25564375--25564408 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
25564365 TATCCTAACC
*
25564375 TCCCTCTAA-CCACTAAA
1 TCCCACTAACCCACTAAA
25564392 TCCCACTAACCCACTAA
1 TCCCACTAACCCACTAA
25564409 CCCACTATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.44, G:0.00, T:0.21
Consensus pattern (18 bp):
TCCCACTAACCCACTAAA
Found at i:25571017 original size:40 final size:40
Alignment explanation
Indices: 25570980--25571205 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
25570970 GCTACTCGTT
* *
25570980 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
25571020 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
25571060 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** *
25571100 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
25571140 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
*
25571181 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
25571206 CATCATTCAA
Statistics
Matches: 171, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 3 0.02
40 154 0.90
41 14 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:25579018 original size:40 final size:40
Alignment explanation
Indices: 25578981--25579206 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
25578971 GCTACTCGTT
* *
25578981 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
25579021 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
25579061 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** *
25579101 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * * *
25579141 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-AACTCGCA
*
25579182 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
25579207 CATCATTCAA
Statistics
Matches: 171, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 3 0.02
40 154 0.90
41 14 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:25582392 original size:74 final size:74
Alignment explanation
Indices: 25582271--25582424 Score: 292
Period size: 74 Copynumber: 2.1 Consensus size: 74
25582261 TATTAAAAGC
25582271 TTATACGCCACATGACTTATACTTTATTTTATTATTTTATTAAATTTTTAATACAACAACCTAGT
1 TTATACGCCACATGACTTATACTTTATTTTATTATTTTATTAAATTTTTAATACAACAACCTAGT
25582336 TTTACAGAG
66 TTTACAGAG
*
25582345 TTATACGCCACATGACTTATACTTTATTTTATTATTTTATTAAATTTTTAATACAACACCCTAGT
1 TTATACGCCACATGACTTATACTTTATTTTATTATTTTATTAAATTTTTAATACAACAACCTAGT
25582410 TTTACAGAG
66 TTTACAGAG
25582419 -TATACG
1 TTATACG
25582425 TCAAAAATAG
Statistics
Matches: 79, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
73 6 0.08
74 73 0.92
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (74 bp):
TTATACGCCACATGACTTATACTTTATTTTATTATTTTATTAAATTTTTAATACAACAACCTAGT
TTTACAGAG
Found at i:25585330 original size:51 final size:50
Alignment explanation
Indices: 25585140--25585327 Score: 189
Period size: 51 Copynumber: 3.7 Consensus size: 50
25585130 AGTGAAAGTG
** * * *
25585140 ATGGTCATGTGTGTAGTACTATGTGCAGGCTATTACATGTACCGGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATATGTACCGG-ATGGT
* * *
25585191 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTATACGTACCGGATTGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATATGTACCGGATGGT
* ** * * * *
25585240 TTCGAACACGTGTGGAGTACTATGTGCAGGCTACTATGTGTATCGGATGGT
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATATGTACCGGATGGT
**
25585291 AATGGTCACATGTGTAGTACTATGTTTAGGCTACTAT
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTAT
25585328 GTGAACCAAA
Statistics
Matches: 109, Mismatches: 25, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
49 3 0.03
50 37 0.34
51 68 0.62
52 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (50 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATATGTACCGGATGGT
Found at i:25589105 original size:35 final size:35
Alignment explanation
Indices: 25589064--25589132 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
25589054 GTAAATTGGA
25589064 AAATGGTAAAACTCGATATATTCGATATTGAAATT
1 AAATGGTAAAACTCGATATATTCGATATTGAAATT
25589099 AAATGGTAAAACTCGATATATTCGATATTGAAAT
1 AAATGGTAAAACTCGATATATTCGATATTGAAAT
25589133 GGAAAATGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.33
Consensus pattern (35 bp):
AAATGGTAAAACTCGATATATTCGATATTGAAATT
Found at i:25591239 original size:33 final size:33
Alignment explanation
Indices: 25591197--25591259 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
25591187 AGAACACTAG
*
25591197 TTGTCGCCATTTAGCCACCGTTGTTCAACCACA
1 TTGTCGCCATTTAGCCACCGTCGTTCAACCACA
25591230 TTGTCGCCATTTAGCCACCGTCGTTCAACC
1 TTGTCGCCATTTAGCCACCGTCGTTCAACC
25591260 GCTATCTGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.19, C:0.35, G:0.16, T:0.30
Consensus pattern (33 bp):
TTGTCGCCATTTAGCCACCGTCGTTCAACCACA
Found at i:25601809 original size:9 final size:9
Alignment explanation
Indices: 25601781--25601810 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
25601771 AAATTACTTG
25601781 ATTAAATTA
1 ATTAAATTA
*
25601790 ACTAAATTA
1 ATTAAATTA
25601799 ATTAAATTA
1 ATTAAATTA
25601808 ATT
1 ATT
25601811 TCTAAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (9 bp):
ATTAAATTA
Found at i:25607878 original size:38 final size:40
Alignment explanation
Indices: 25607835--25607912 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
25607825 CTTTTTAAGC
25607835 TATTCAATTC-TTT-CTCATTTTAATAGAAACTATTCTCA
1 TATTCAATTCTTTTACTCATTTTAATAGAAACTATTCTCA
* *
25607873 TATTCAGTTCTTTTACTCATTTTAATAGTAACTATTCTCA
1 TATTCAATTCTTTTACTCATTTTAATAGAAACTATTCTCA
25607913 CTGTCATGCA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 9 0.25
39 3 0.08
40 24 0.67
ACGTcount: A:0.29, C:0.18, G:0.04, T:0.49
Consensus pattern (40 bp):
TATTCAATTCTTTTACTCATTTTAATAGAAACTATTCTCA
Found at i:25611510 original size:14 final size:14
Alignment explanation
Indices: 25611493--25611520 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25611483 TAAGATTTCC
25611493 GTTAAACAATTTTA
1 GTTAAACAATTTTA
25611507 GTTAAACAATTTTA
1 GTTAAACAATTTTA
25611521 ATAGAAGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (14 bp):
GTTAAACAATTTTA
Found at i:25611758 original size:48 final size:48
Alignment explanation
Indices: 25611703--25611848 Score: 238
Period size: 48 Copynumber: 3.0 Consensus size: 48
25611693 CTTTGGGTTA
* * * *
25611703 AAATTGTGCCATTAAATGTTTATCATATCAGGGATTGAAGGAGTTGGT
1 AAATTGTGTCATTAGATATTTATCATATCAAGGATTGAAGGAGTTGGT
25611751 AAATTGTGTCATTAGATATTTATCATATCAAGGATTGAAGGAGTTGGT
1 AAATTGTGTCATTAGATATTTATCATATCAAGGATTGAAGGAGTTGGT
* *
25611799 AAATTGTGTCATTAGATATTTATCATATCAAGTATTGAAAGAGTTGGT
1 AAATTGTGTCATTAGATATTTATCATATCAAGGATTGAAGGAGTTGGT
25611847 AA
1 AA
25611849 TGGTGGTTCG
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 92 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.37
Consensus pattern (48 bp):
AAATTGTGTCATTAGATATTTATCATATCAAGGATTGAAGGAGTTGGT
Found at i:25611902 original size:59 final size:60
Alignment explanation
Indices: 25611817--25611929 Score: 174
Period size: 59 Copynumber: 1.9 Consensus size: 60
25611807 TCATTAGATA
* *
25611817 TTTATCATATCAAGTATTGAAAGAGTTGGTAATGGTGGTTCGAAGGTGGTGTGTTAAATG
1 TTTATCATATCAAGGATTGAAAGAGTTGGTAATGGTGATTCGAAGGTGGTGTGTTAAATG
* * *
25611877 TTTATCATATC-CGGATTGAAGGAGTTGGTAATGGTGATTCGGAGGTGGTGTGT
1 TTTATCATATCAAGGATTGAAAGAGTTGGTAATGGTGATTCGAAGGTGGTGTGT
25611930 GATAGGGTAG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
59 37 0.77
60 11 0.23
ACGTcount: A:0.25, C:0.06, G:0.33, T:0.36
Consensus pattern (60 bp):
TTTATCATATCAAGGATTGAAAGAGTTGGTAATGGTGATTCGAAGGTGGTGTGTTAAATG
Found at i:25618057 original size:8 final size:8
Alignment explanation
Indices: 25618044--25618073 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
25618034 TTCCCACAGG
25618044 TAATAAAA
1 TAATAAAA
25618052 TAATAAAA
1 TAATAAAA
25618060 TAATAAAA
1 TAATAAAA
25618068 TAATAA
1 TAATAA
25618074 TTTACTCATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
TAATAAAA
Found at i:25624197 original size:194 final size:193
Alignment explanation
Indices: 25623838--25624229 Score: 493
Period size: 194 Copynumber: 2.0 Consensus size: 193
25623828 TCACACGACT
* * *
25623838 GTGTGCCTCACACAGATGAGACACACGCCCATGTTTCAGGCCATGTAACTTTTGAACTAGGGACA
1 GTGTGCCTCACACAGATGAGACACACGCCCATGTCTCAAGCCATGTAACTTTCGAACTAGGGACA
* *
25623903 CACGACCGTGTCCTAGCCTGTGTCCTCACCCGTGTAACTCGCTGAGTAGGGTCACATGGTCGTGT
66 CACGACCGTGTCCTAGCCTGTGTCCTCACCCGTGTAACTCACTGAGTAGGGTCACATGGTCATGT
* * * *
25623968 AACACACTTGTGTGCTAGGCTGTGTAACACTTTGAGTCGCCCCACATGCCCGTGTTGCCAGGCC
131 AACACACTCGTGTGCTAGGCCGTGTAACACTTTGAGTCACCCCACATGCACGTG-TGCCAGGCC
* * * *
25624032 GTGTGCCTCACACGGCTGAGACACACGCCTATGTCTCAAGCCGTGTAACTTTCGAACTAGGGACA
1 GTGTGCCTCACACAGATGAGACACACGCCCATGTCTCAAGCCATGTAACTTTCGAACTAGGGACA
** * *
25624097 CACGGTCGTGT-TTCAGCCTGTGTCCTCACCTGTGTAACTCACTGAGTA-GGTCCACATGGTCAT
66 CACGACCGTGTCCT-AGCCTGTGTCCTCACCCGTGTAACTCACTGAGTAGGGT-CACATGGTCAT
* ** * ** * *
25624160 GTCACATGCTCGTTTG-TCAGGCCGTGTAATGCTTTGAGTTACCCCACATGCATGTGTGCCAGGC
129 GTAACACACTCGTGTGCT-AGGCCGTGTAACACTTTGAGTCACCCCACATGCACGTGTGCCAGGC
25624224 C
193 C
*
25624225 ATGTG
1 GTGTG
25624230 TTCGGTCGTG
Statistics
Matches: 169, Mismatches: 26, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
193 18 0.11
194 151 0.89
ACGTcount: A:0.20, C:0.29, G:0.25, T:0.26
Consensus pattern (193 bp):
GTGTGCCTCACACAGATGAGACACACGCCCATGTCTCAAGCCATGTAACTTTCGAACTAGGGACA
CACGACCGTGTCCTAGCCTGTGTCCTCACCCGTGTAACTCACTGAGTAGGGTCACATGGTCATGT
AACACACTCGTGTGCTAGGCCGTGTAACACTTTGAGTCACCCCACATGCACGTGTGCCAGGCC
Found at i:25626238 original size:8 final size:8
Alignment explanation
Indices: 25626227--25626251 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
25626217 ATTTCTATAG
25626227 ATAATAAA
1 ATAATAAA
25626235 ATAATAAA
1 ATAATAAA
25626243 ATAATAAA
1 ATAATAAA
25626251 A
1 A
25626252 ATTTACTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
ATAATAAA
Found at i:25627419 original size:13 final size:14
Alignment explanation
Indices: 25627401--25627438 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
25627391 AATGAAAACA
25627401 ATTATATGAAA-AG
1 ATTATATGAAATAG
25627414 ATTATATGAGAATAG
1 ATTATATGA-AATAG
25627429 A-TATATGAAA
1 ATTATATGAAA
25627439 GGGACTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 11 0.48
14 9 0.39
15 3 0.13
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.32
Consensus pattern (14 bp):
ATTATATGAAATAG
Found at i:25628149 original size:10 final size:10
Alignment explanation
Indices: 25628134--25628167 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
25628124 TTGTATGTTA
25628134 TTTGGTGTGT
1 TTTGGTGTGT
*
25628144 TTTGGTATGT
1 TTTGGTGTGT
25628154 TTTGGTGTGT
1 TTTGGTGTGT
25628164 TTTG
1 TTTG
25628168 AATATTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.03, C:0.00, G:0.35, T:0.62
Consensus pattern (10 bp):
TTTGGTGTGT
Found at i:25630318 original size:43 final size:42
Alignment explanation
Indices: 25630261--25630460 Score: 181
Period size: 43 Copynumber: 4.7 Consensus size: 42
25630251 TAAATTCAGT
*
25630261 GATACGGGGAATCAGCACATAGCAACCTCTTTCACAATCAAA
1 GATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAA
* * * **
25630303 GATACGGTGGAATCAGCACTTAGCAACCACCTTT-ATATTCAGT
1 GATACGG-GGAATCAGCACATAGCAACC-CCTTTCACAATCAAA
* *
25630346 GATACGGGGAATCAACACATTGCAACCCCTTTCACAATCAAA
1 GATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAA
* * * *
25630388 TATATGGTGGAATCAGCACTTAGCAACCACCTTT-AGAATCAATA
1 GATACGG-GGAATCAGCACATAGCAACC-CCTTTCACAATCAA-A
* * * * *
25630432 -ATTCGAGGATTCAGTACTTAGCAACCCCT
1 GATACGGGGAATCAGCACATAGCAACCCCT
25630461 CGGGGAATCT
Statistics
Matches: 128, Mismatches: 24, Indels: 13
0.78 0.15 0.08
Matches are distributed among these distances:
41 8 0.06
42 52 0.41
43 58 0.45
44 10 0.08
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (42 bp):
GATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAA
Found at i:25630371 original size:42 final size:41
Alignment explanation
Indices: 25630231--25630422 Score: 151
Period size: 43 Copynumber: 4.5 Consensus size: 41
25630221 CTCAGTGGAT
*
25630231 TCAACACTTAGCAACCAGC-TTAAATTCAGTGATACGGGGAA
1 TCAACACTTAGCAACC-CCTTTAAATTCAGTGATACGGGGAA
* * * **
25630272 TCAGCACATAGCAACCTCTTTCACAA-TCAAAGATACGGTGGAA
1 TCAACACTTAGCAACCCCTTT-A-AATTCAGTGATACGG-GGAA
* *
25630315 TCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAA
1 TCAACACTTAGCAACC-CCTTTAAATTCAGTGATACGGGGAA
* *
25630357 TCAACACATT-GCAACCCCTTTCACAA-TCAAAT-ATATGGTGGAA
1 TCAACAC-TTAGCAACCCCTTT-A-AATTC-AGTGATACGG-GGAA
*
25630400 TCAGCACTTAGCAACCACCTTTA
1 TCAACACTTAGCAACC-CCTTTA
25630423 GAATCAATAA
Statistics
Matches: 123, Mismatches: 15, Indels: 24
0.76 0.09 0.15
Matches are distributed among these distances:
40 1 0.01
41 21 0.17
42 38 0.31
43 54 0.44
44 9 0.07
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.24
Consensus pattern (41 bp):
TCAACACTTAGCAACCCCTTTAAATTCAGTGATACGGGGAA
Found at i:25630371 original size:85 final size:85
Alignment explanation
Indices: 25630225--25630422 Score: 308
Period size: 85 Copynumber: 2.3 Consensus size: 85
25630215 CCGTTACTCA
* * * * *
25630225 GTGGATTCAACACTTAGCAACCAGC-TTAAATTCAGTGATACGGGGAATCAGCACATAGCAACCT
1 GTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAACACATAGCAACCC
25630289 CTTTCACAATCAAAGATACG
66 CTTTCACAATCAAAGATACG
* *
25630309 GTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAACACATTGCAACCC
1 GTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAACACATAGCAACCC
* *
25630374 CTTTCACAATCAAATATATG
66 CTTTCACAATCAAAGATACG
25630394 GTGGAATCAGCACTTAGCAACCACCTTTA
1 GTGGAATCAGCACTTAGCAACCACCTTTA
25630423 GAATCAATAA
Statistics
Matches: 104, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
84 22 0.21
85 82 0.79
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (85 bp):
GTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAACACATAGCAACCC
CTTTCACAATCAAAGATACG
Found at i:25630456 original size:85 final size:86
Alignment explanation
Indices: 25630225--25630460 Score: 257
Period size: 85 Copynumber: 2.8 Consensus size: 86
25630215 CCGTTACTCA
* * * * * * *
25630225 GTGGATTCAACACTTAGCAACCAGC-TTA-AATTCAGTGATACGGGGAATCAGCACA-TAGCAAC
1 GTGGAATCAGCACTTAGCAACCACCTTTAGAA-TCAATAATACGAGGAATCAACACATTAGCAAC
*
25630287 CTCTTTCACAATCAAAGATACG
65 CCCTTTCACAATCAAAGATACG
* * * * *
25630309 GTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGGGAATCAACACATT-GCAACC
1 GTGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATACGAGGAATCAACACATTAGCAACC
* *
25630373 CCTTTCACAATCAAATATATG
66 CCTTTCACAATCAAAGATACG
* * **
25630394 GTGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATTCGAGGATTCAGTAC-TTAGCAACC
1 GTGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATACGAGGAATCAACACATTAGCAACC
25630458 CCT
66 CCT
25630461 CGGGGAATCT
Statistics
Matches: 131, Mismatches: 17, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
84 24 0.18
85 105 0.80
86 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.25
Consensus pattern (86 bp):
GTGGAATCAGCACTTAGCAACCACCTTTAGAATCAATAATACGAGGAATCAACACATTAGCAACC
CCTTTCACAATCAAAGATACG
Found at i:25636407 original size:42 final size:42
Alignment explanation
Indices: 25636280--25636503 Score: 167
Period size: 42 Copynumber: 5.3 Consensus size: 42
25636270 CGGTGGATTA
* * *
25636280 AGCATTTAGCAACCACC-TTAAATTCAGTGATACG-GGAAATC
1 AGCACTTAGCAACCACCTTTAAATTCAATGATATGTGG-AATC
* * * *
25636321 AACACATAGCAACC-CCTTTCACAA-TCAAAGATACGGTGGAATC
1 AGCACTTAGCAACCACCTTT-A-AATTCAATGATA-TGTGGAATC
* * *
25636364 AGCACTTAGCAACCACCTTTATATTCAGTGATATGAGGAATC
1 AGCACTTAGCAACCACCTTTAAATTCAATGATATGTGGAATC
* *
25636406 AGCACATAGCAACC-CTTTTCACAA-TCAAAT-ATATTGTGGAATC
1 AGCACTTAGCAACCACCTTT-A-AATTC-AATGATA-TGTGGAATC
* * * *
25636449 AGTACTTAGCAACCACCTTTAGAATT-AATAATTTGGGGAATC
1 AGCACTTAGCAACCACCTTTA-AATTCAATGATATGTGGAATC
25636491 AGCACTTAGCAAC
1 AGCACTTAGCAAC
25636504 TCCTCGAGGA
Statistics
Matches: 144, Mismatches: 25, Indels: 27
0.73 0.13 0.14
Matches are distributed among these distances:
40 2 0.01
41 17 0.12
42 58 0.40
43 55 0.38
44 12 0.08
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (42 bp):
AGCACTTAGCAACCACCTTTAAATTCAATGATATGTGGAATC
Found at i:25636412 original size:85 final size:85
Alignment explanation
Indices: 25636270--25636474 Score: 279
Period size: 85 Copynumber: 2.4 Consensus size: 85
25636260 ATCCTTTACT
* * *
25636270 CGGTGGATTAAGCATTTAGCAACCACC-TTAAATTCAGTGATACGGGAAATCAACACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGAAATCAACACATAGCAAC
25636334 CCCTTTCACAATCAAAGATA
66 CCCTTTCACAATCAAAGATA
* * *
25636354 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATATGAGG-AATCAGCACATAGCAA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACG-GGAAATCAACACATAGCAA
* *
25636418 CCCTTTTCACAATCAAATATA
65 CCCCTTTCACAATCAAAGATA
** *
25636439 TTGTGGAATCAGTACTTAGCAACCACCTTTAGAATT
1 CGGTGGAATCAGCACTTAGCAACCACCTTTA-AATT
25636475 AATAATTTGG
Statistics
Matches: 106, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
84 24 0.23
85 77 0.73
86 5 0.05
ACGTcount: A:0.36, C:0.23, G:0.16, T:0.26
Consensus pattern (85 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGAAATCAACACATAGCAAC
CCCTTTCACAATCAAAGATA
Found at i:25636489 original size:85 final size:85
Alignment explanation
Indices: 25636270--25636503 Score: 267
Period size: 85 Copynumber: 2.8 Consensus size: 85
25636260 ATCCTTTACT
* * * * * * *
25636270 CGGTGGATTAAGCATTTAGCAACCACC-TTAAATTCAGTGATACG-GGAAATCAACACATAGCAA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAATAATATGAGG-AATCAGCACATAGCAA
25636333 CCCCTTTCACAATCAAAGATA
65 CCCCTTTCACAATCAAAGATA
* * *
25636354 CGGTGGAATCAGCACTTAGCAACCACCTTTATATTCAGTGATATGAGGAATCAGCACATAGCAAC
1 CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAATAATATGAGGAATCAGCACATAGCAAC
* *
25636419 CCTTTTCACAATCAAATATA
66 CCCTTTCACAATCAAAGATA
** * * * *
25636439 TTGTGGAATCAGTACTTAGCAACCACCTTTAGAATT-AATAATTTGGGGAATCAGCACTTAGCAA
1 CGGTGGAATCAGCACTTAGCAACCACCTTTA-AATTCAATAATATGAGGAATCAGCACATAGCAA
25636503 C
65 C
25636504 TCCTCGAGGA
Statistics
Matches: 130, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
84 24 0.18
85 101 0.78
86 5 0.04
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (85 bp):
CGGTGGAATCAGCACTTAGCAACCACCTTTAAATTCAATAATATGAGGAATCAGCACATAGCAAC
CCCTTTCACAATCAAAGATA
Found at i:25637337 original size:347 final size:348
Alignment explanation
Indices: 25636811--25637508 Score: 1335
Period size: 347 Copynumber: 2.0 Consensus size: 348
25636801 TTCTTTCTTG
*
25636811 AACTATAATAACACATTTAACTTATTTAACATGAAAATTCATCAACTTTGGCAAAATTATAATTT
1 AACTATAATAACACATTTAACTTATTTAACAGGAAAATTCATCAACTTTGGCAAAATTATAATTT
25636876 TGCCCCTAAACTTTTGCATATTTACACTTTTTCCCCAAAGCTCAGAAATTAAACTCCATCTCTTA
66 TGCCCCTAAACTTTTGCATATTTACACTTTTTCCCCAAAGCTCAGAAATTAAACTCCATCTCTTA
25636941 TTATTATGTTTTATGACATACTAAACATTTTTCTCTTCTATGGTAACATCAAATTCCCATTCTAA
131 TTATTATGTTTTATGACATACTAAACATTTTTCTCTTCTATGGTAACATCAAATTCCCATTCTAA
*
25637006 CACTTACTTATGAACATTAGGTATTTTTACCGATTATGTCGTTTTACTCGTTTTCACTTAAAATC
196 CACTTACTTATGAACATTAGGTATTTTTACCGATTATGTCGTTTTACTCATTTTCACTTAAAATC
* *
25637071 GCTTAGCAATAGTTGTTTAACATAATTTCAGCTATGGGTATTTTTCCAAATATAAACCCTAGGTT
261 GCTTAGCAAAAGTTGTTTAACATAATTTCAGCTATGGGTATTTTTCAAAATATAAACCCTAGGTT
25637136 AAATTATTGCTAGAAATAGATAA
326 AAATTATTGCTAGAAATAGATAA
25637159 AACTATAATAACACATTTAACTTATTTAACAGGAAAATTCATCAACTTTGGCAAAATTATAATTT
1 AACTATAATAACACATTTAACTTATTTAACAGGAAAATTCATCAACTTTGGCAAAATTATAATTT
*
25637224 TGCCCCTAAACTTTTGCATATTTACAC-TTTTCCCCAAAGCTCAGAAATTAAACTTCATCTCTTA
66 TGCCCCTAAACTTTTGCATATTTACACTTTTTCCCCAAAGCTCAGAAATTAAACTCCATCTCTTA
25637288 TTATTATGTTTTATGACATACTAAACATTTTTCTCTTCTATGGTAACATCAAATTCCCATTCTAA
131 TTATTATGTTTTATGACATACTAAACATTTTTCTCTTCTATGGTAACATCAAATTCCCATTCTAA
25637353 CACTTACTTATGAACATTAGGTATTTTTACCGATTATGTCGTTTTACTCATTTTCACTTAAAATC
196 CACTTACTTATGAACATTAGGTATTTTTACCGATTATGTCGTTTTACTCATTTTCACTTAAAATC
25637418 GCTTAGCAAAAGTTGTTTAACATAATTTCAGCTATGGGTATTTTTCAAAATATAAACCCTAGGTT
261 GCTTAGCAAAAGTTGTTTAACATAATTTCAGCTATGGGTATTTTTCAAAATATAAACCCTAGGTT
*
25637483 AAATTATTTCTAGAAATAGATAA
326 AAATTATTGCTAGAAATAGATAA
25637506 AAC
1 AAC
25637509 AAGTTACCGA
Statistics
Matches: 344, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
347 253 0.74
348 91 0.26
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.39
Consensus pattern (348 bp):
AACTATAATAACACATTTAACTTATTTAACAGGAAAATTCATCAACTTTGGCAAAATTATAATTT
TGCCCCTAAACTTTTGCATATTTACACTTTTTCCCCAAAGCTCAGAAATTAAACTCCATCTCTTA
TTATTATGTTTTATGACATACTAAACATTTTTCTCTTCTATGGTAACATCAAATTCCCATTCTAA
CACTTACTTATGAACATTAGGTATTTTTACCGATTATGTCGTTTTACTCATTTTCACTTAAAATC
GCTTAGCAAAAGTTGTTTAACATAATTTCAGCTATGGGTATTTTTCAAAATATAAACCCTAGGTT
AAATTATTGCTAGAAATAGATAA
Found at i:25639368 original size:26 final size:26
Alignment explanation
Indices: 25639337--25639401 Score: 112
Period size: 26 Copynumber: 2.5 Consensus size: 26
25639327 ATTTCAACCT
25639337 ACAACTCGTGTGAGTAGGCCCATTTC
1 ACAACTCGTGTGAGTAGGCCCATTTC
25639363 ACAACTCGTGTGAGTAGGCCCATTTC
1 ACAACTCGTGTGAGTAGGCCCATTTC
* *
25639389 ATAGCTCGTGTGA
1 ACAACTCGTGTGA
25639402 TCAATGATGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (26 bp):
ACAACTCGTGTGAGTAGGCCCATTTC
Found at i:25641778 original size:39 final size:40
Alignment explanation
Indices: 25641627--25641796 Score: 189
Period size: 40 Copynumber: 4.3 Consensus size: 40
25641617 GGACTAAGAT
* * * *
25641627 CCGAAGGCCTTTGTGCGAGATACTAAATCTGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * *
25641667 CCGAGGGCATTCGTGCGGGTTATTAAAGCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
** *
25641707 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
* * * * *
25641747 CCGAAGGCA-TGGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
25641786 CCGAAGGCATT
1 CCGAAGGCATT
25641797 TGAACGAGGA
Statistics
Matches: 109, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 32 0.29
40 77 0.71
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTACTAAATCCGGGTTAAGTC
Found at i:25676144 original size:21 final size:21
Alignment explanation
Indices: 25676109--25676150 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
25676099 GATACATAGT
**
25676109 AAAAGGTATGTATACTGTTTG
1 AAAAGGTATCAATACTGTTTG
*
25676130 AAAAGGTATCAATACTTTTTG
1 AAAAGGTATCAATACTGTTTG
25676151 TCATTGATTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.07, G:0.19, T:0.38
Consensus pattern (21 bp):
AAAAGGTATCAATACTGTTTG
Found at i:25676300 original size:20 final size:19
Alignment explanation
Indices: 25676277--25676334 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
25676267 ATTTGTTTTA
25676277 AAAATTTTTTAACTTGATTG
1 AAAA-TTTTTAACTTGATTG
* **
25676297 AAAATGTTTAACTCAATTG
1 AAAATTTTTAACTTGATTG
25676316 AAACCA-TTTTAACTTGATT
1 AAA--ATTTTTAACTTGATT
25676335 TTATCATTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
19 15 0.50
20 14 0.47
21 1 0.03
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.43
Consensus pattern (19 bp):
AAAATTTTTAACTTGATTG
Found at i:25676308 original size:19 final size:19
Alignment explanation
Indices: 25676283--25676334 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
25676273 TTTAAAAATT
25676283 TTTTAACTTGATTGAAA-A
1 TTTTAACTTGATTGAAACA
**
25676301 TGTTTAACTCAATTGAAACCA
1 T-TTTAACTTGATTGAAA-CA
25676322 TTTTAACTTGATT
1 TTTTAACTTGATT
25676335 TTATCATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 1 0.04
19 14 0.52
20 10 0.37
21 2 0.07
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.44
Consensus pattern (19 bp):
TTTTAACTTGATTGAAACA
Found at i:25676387 original size:22 final size:25
Alignment explanation
Indices: 25676359--25676408 Score: 70
Period size: 22 Copynumber: 2.1 Consensus size: 25
25676349 ATTTTGTTCA
25676359 ATTTTAACTT-TTAT-TCAAAA-AT
1 ATTTTAACTTGTTATATCAAAACAT
*
25676381 ATTTTAATTTGTTATATCAAAACAT
1 ATTTTAACTTGTTATATCAAAACAT
25676406 ATT
1 ATT
25676409 ATCAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 9 0.38
23 4 0.17
24 6 0.25
25 5 0.21
ACGTcount: A:0.40, C:0.08, G:0.02, T:0.50
Consensus pattern (25 bp):
ATTTTAACTTGTTATATCAAAACAT
Found at i:25682857 original size:25 final size:25
Alignment explanation
Indices: 25682828--25682910 Score: 80
Period size: 25 Copynumber: 3.4 Consensus size: 25
25682818 AGCACCAATT
25682828 TGGACAGCATTAATATGCTCAAAAA
1 TGGACAGCATTAATATGCTCAAAAA
* * * **
25682853 TGGACAGCATT--TAAGCACTAATT
1 TGGACAGCATTAATATGCTCAAAAA
* * *
25682876 TGGACAACATTAATATACTAAAAAA
1 TGGACAGCATTAATATGCTCAAAAA
25682901 TGGACAGCAT
1 TGGACAGCAT
25682911 CTTATCATCA
Statistics
Matches: 42, Mismatches: 14, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
23 17 0.40
25 25 0.60
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (25 bp):
TGGACAGCATTAATATGCTCAAAAA
Found at i:25682907 original size:48 final size:48
Alignment explanation
Indices: 25682800--25682910 Score: 159
Period size: 48 Copynumber: 2.3 Consensus size: 48
25682790 TGATTTGTAC
** * * * *
25682800 AAAAATGGACAATAATTAAGCACCAATTTGGACAGCATTAATATGCTC
1 AAAAATGGACAGCATTTAAGCACCAATTTGGACAACATTAATATACTA
*
25682848 AAAAATGGACAGCATTTAAGCACTAATTTGGACAACATTAATATACTA
1 AAAAATGGACAGCATTTAAGCACCAATTTGGACAACATTAATATACTA
25682896 AAAAATGGACAGCAT
1 AAAAATGGACAGCAT
25682911 CTTATCATCA
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.24
Consensus pattern (48 bp):
AAAAATGGACAGCATTTAAGCACCAATTTGGACAACATTAATATACTA
Found at i:25687780 original size:40 final size:40
Alignment explanation
Indices: 25687736--25687860 Score: 153
Period size: 40 Copynumber: 3.1 Consensus size: 40
25687726 TTATTGTACG
* *
25687736 AATGCATATACATGCCCCTGTTTGTACTTCGATACCCCTA
1 AATGCACATACATGCCCCTGTTTGTACTTCGGTACCCCTA
* * * *
25687776 AATGCACATACGTCCCCCTATTT-TGACTTCGGTACCCCAA
1 AATGCACATACATGCCCCTGTTTGT-ACTTCGGTACCCCTA
* * *
25687816 AATACACATACATGCCCCTGTTTGTACTTCGGTGCCCCTG
1 AATGCACATACATGCCCCTGTTTGTACTTCGGTACCCCTA
25687856 AATGC
1 AATGC
25687861 GCTTTCGTGC
Statistics
Matches: 69, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
39 1 0.01
40 67 0.97
41 1 0.01
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.30
Consensus pattern (40 bp):
AATGCACATACATGCCCCTGTTTGTACTTCGGTACCCCTA
Found at i:25687872 original size:40 final size:40
Alignment explanation
Indices: 25687736--25687877 Score: 151
Period size: 40 Copynumber: 3.5 Consensus size: 40
25687726 TTATTGTACG
* * *
25687736 AATGCATATACATGCCCCTGTTTGTACTTCGATACCCCTA
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * *
25687776 AATGCACATACGTCCCCCTATTT-TGACTTCGGTACCCCAA
1 AATGCACATACGTGCCCCTGTTTGT-ACTTCGGTACCCCTA
* * * *
25687816 AATACACATACATGCCCCTGTTTGTACTTCGGTGCCCCTG
1 AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
* * *
25687856 AATGCGCTTTCGTGCCCCTGTT
1 AATGCACATACGTGCCCCTGTT
25687878 AAAAATCTGG
Statistics
Matches: 82, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
39 1 0.01
40 80 0.98
41 1 0.01
ACGTcount: A:0.21, C:0.32, G:0.15, T:0.31
Consensus pattern (40 bp):
AATGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTA
Found at i:25688534 original size:17 final size:16
Alignment explanation
Indices: 25688512--25688568 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 16
25688502 GTGTAACTCA
25688512 GCCGTGTGAGACACACG
1 GCCGTGTGAGACACA-G
*
25688529 GCCGTGTGTA-ACTCA-
1 GCCGTGTG-AGACACAG
*
25688544 GCCGTGTTAGACACATG
1 GCCGTGTGAGACACA-G
25688561 GCCGTGTG
1 GCCGTGTG
25688569 CCATCTTAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 1 0.03
15 11 0.34
17 19 0.59
18 1 0.03
ACGTcount: A:0.19, C:0.26, G:0.33, T:0.21
Consensus pattern (16 bp):
GCCGTGTGAGACACAG
Found at i:25688541 original size:32 final size:32
Alignment explanation
Indices: 25688500--25688568 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
25688490 TGATACATGG
25688500 GTGTGTAACTCAGCCGTGTGAGACACACGGCC
1 GTGTGTAACTCAGCCGTGTGAGACACACGGCC
* *
25688532 GTGTGTAACTCAGCCGTGTTAGACACATGGCC
1 GTGTGTAACTCAGCCGTGTGAGACACACGGCC
25688564 GTGTG
1 GTGTG
25688569 CCATCTTAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.20, C:0.25, G:0.32, T:0.23
Consensus pattern (32 bp):
GTGTGTAACTCAGCCGTGTGAGACACACGGCC
Found at i:25688549 original size:15 final size:15
Alignment explanation
Indices: 25688500--25688550 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
25688490 TGATACATGG
25688500 GTGTGTAACTCAGCC
1 GTGTGTAACTCAGCC
*
25688515 GTGTG-AGACACACGGCC
1 GTGTGTA-ACTCA--GCC
25688532 GTGTGTAACTCAGCC
1 GTGTGTAACTCAGCC
25688547 GTGT
1 GTGT
25688551 TAGACACATG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
14 1 0.03
15 16 0.53
17 12 0.40
18 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.31, T:0.24
Consensus pattern (15 bp):
GTGTGTAACTCAGCC
Found at i:25693809 original size:37 final size:38
Alignment explanation
Indices: 25693746--25693858 Score: 94
Period size: 37 Copynumber: 3.1 Consensus size: 38
25693736 ATTCCAAAAA
*
25693746 TAATA-TTATTTTAATAGTTTAATATTAAATTAA-ATT
1 TAATATTTATCTTAATAGTTTAATATTAAATTAATATT
* *
25693782 TAATATTTATCTTAATAGTATT-TTATTAAGTTAATATT
1 TAATATTTATCTTAATAGT-TTAATATTAAATTAATATT
* * * *
25693820 AAAT-TGATTATCTTAATA-TTAAAT-TTAATTTAATGTT
1 TAATAT--TTATCTTAATAGTTTAATATTAAATTAATATT
25693857 TA
1 TA
25693859 TCTTGTAAAT
Statistics
Matches: 62, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
36 5 0.08
37 36 0.58
38 10 0.16
39 11 0.18
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (38 bp):
TAATATTTATCTTAATAGTTTAATATTAAATTAATATT
Found at i:25697866 original size:22 final size:21
Alignment explanation
Indices: 25697837--25697880 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
25697827 CGTTTTATTC
*
25697837 AATTTAAACTAAAAACTAAAT
1 AATTTAAAATAAAAACTAAAT
* *
25697858 AATTCTAAAATAAACATTAAAT
1 AATT-TAAAATAAAAACTAAAT
25697880 A
1 A
25697881 CGTAAAACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (21 bp):
AATTTAAAATAAAAACTAAAT
Found at i:25698843 original size:10 final size:10
Alignment explanation
Indices: 25698830--25698874 Score: 74
Period size: 10 Copynumber: 4.6 Consensus size: 10
25698820 CATTCAACTG
*
25698830 AAAATTTTTA
1 AAAATTTTAA
25698840 AAAATTTT-A
1 AAAATTTTAA
25698849 AAAATTTTAA
1 AAAATTTTAA
25698859 AAAATTTTAA
1 AAAATTTTAA
25698869 AAAATT
1 AAAATT
25698875 GATTTTATCC
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 9 0.26
10 25 0.74
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
AAAATTTTAA
Found at i:25698847 original size:9 final size:9
Alignment explanation
Indices: 25698830--25698871 Score: 66
Period size: 9 Copynumber: 4.6 Consensus size: 9
25698820 CATTCAACTG
*
25698830 AAAATTTTT
1 AAAAATTTT
25698839 AAAAATTTT
1 AAAAATTTT
25698848 AAAAATTTT
1 AAAAATTTT
25698857 AAAAAATTTT
1 -AAAAATTTT
25698867 AAAAA
1 AAAAA
25698872 ATTGATTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
9 22 0.71
10 9 0.29
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AAAAATTTT
Found at i:25698854 original size:19 final size:19
Alignment explanation
Indices: 25698830--25698871 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
25698820 CATTCAACTG
*
25698830 AAAATTTTTAAAAATTTTA
1 AAAATTTTAAAAAATTTTA
25698849 AAAATTTTAAAAAATTTTA
1 AAAATTTTAAAAAATTTTA
25698868 AAAA
1 AAAA
25698872 ATTGATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAATTTTAAAAAATTTTA
Found at i:25702210 original size:14 final size:14
Alignment explanation
Indices: 25702191--25702218 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
25702181 CGGGTTTTAC
25702191 TTTGAGATAAGTGA
1 TTTGAGATAAGTGA
25702205 TTTGAGATAAGTGA
1 TTTGAGATAAGTGA
25702219 ACCGTAACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.36
Consensus pattern (14 bp):
TTTGAGATAAGTGA
Found at i:25707311 original size:16 final size:17
Alignment explanation
Indices: 25707274--25707315 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
25707264 TTTAAAAATC
25707274 TTTTTTCTGAAATGCTT
1 TTTTTTCTGAAATGCTT
* *
25707291 CTTTTTCTGAAATGTTT
1 TTTTTTCTGAAATGCTT
25707308 TTTTTTCT
1 TTTTTTCT
25707316 AGTGGGGCAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.14, C:0.12, G:0.10, T:0.64
Consensus pattern (17 bp):
TTTTTTCTGAAATGCTT
Found at i:25711462 original size:17 final size:17
Alignment explanation
Indices: 25711440--25711498 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
25711430 TAAATTAAAA
25711440 TTTATAAACTTTGATAT
1 TTTATAAACTTTGATAT
* *
25711457 TTTATAAAATCTGATAT
1 TTTATAAACTTTGATAT
* *
25711474 TTTAT-ACCTTTTTATAT
1 TTTATAAAC-TTTGATAT
25711491 TTTATAAA
1 TTTATAAA
25711499 AATTATATCT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
16 1 0.03
17 31 0.94
18 1 0.03
ACGTcount: A:0.36, C:0.07, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTATAAACTTTGATAT
Found at i:25711817 original size:24 final size:21
Alignment explanation
Indices: 25711783--25711829 Score: 58
Period size: 24 Copynumber: 2.1 Consensus size: 21
25711773 ATATTTTTAA
25711783 TATTTTATAAACTTATAAACATTT
1 TATTTTATAAA-TTA-AAA-ATTT
*
25711807 TATTTTTTAAATTAAAAATTT
1 TATTTTATAAATTAAAAATTT
25711828 TA
1 TA
25711830 AAATAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 3 0.14
23 3 0.14
24 10 0.45
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (21 bp):
TATTTTATAAATTAAAAATTT
Found at i:25712152 original size:14 final size:14
Alignment explanation
Indices: 25712133--25712165 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
25712123 TGTTTGAATG
*
25712133 AAAATGGTTTCTGA
1 AAAATGATTTCTGA
25712147 AAAATGATTTCTGA
1 AAAATGATTTCTGA
25712161 AAAAT
1 AAAAT
25712166 TACTTACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.33
Consensus pattern (14 bp):
AAAATGATTTCTGA
Found at i:25715231 original size:11 final size:11
Alignment explanation
Indices: 25715215--25715241 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
25715205 TTAATTGGTA
25715215 TGTTTGAAAAG
1 TGTTTGAAAAG
25715226 TGTTTGAAAAG
1 TGTTTGAAAAG
25715237 TGTTT
1 TGTTT
25715242 AGGTCTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (11 bp):
TGTTTGAAAAG
Found at i:25715926 original size:47 final size:47
Alignment explanation
Indices: 25715873--25716016 Score: 270
Period size: 47 Copynumber: 3.1 Consensus size: 47
25715863 AGTAAAAGAT
25715873 TAAGTGAGGTAACAATATATTCCTACATTGAAACAATTTAATCACAA
1 TAAGTGAGGTAACAATATATTCCTACATTGAAACAATTTAATCACAA
*
25715920 TAAGTGAGGTAACAATATATTCCTACATTAAAACAATTTAATCACAA
1 TAAGTGAGGTAACAATATATTCCTACATTGAAACAATTTAATCACAA
*
25715967 TAAGTGAGGTAACAATATGTTCCTACATTGAAACAATTTAATCACAA
1 TAAGTGAGGTAACAATATATTCCTACATTGAAACAATTTAATCACAA
25716014 TAA
1 TAA
25716017 TCTTGCAAGT
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 94 1.00
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (47 bp):
TAAGTGAGGTAACAATATATTCCTACATTGAAACAATTTAATCACAA
Found at i:25721353 original size:28 final size:28
Alignment explanation
Indices: 25721292--25721355 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 28
25721282 GACTCCAACA
* *
25721292 ATCATATTGTAACGGTTAGATTCCAATG
1 ATCATATTGTAACAGTCAGATTCCAATG
** *
25721320 GCCATATTGTAACAGTCAGATTCTAATG
1 ATCATATTGTAACAGTCAGATTCCAATG
25721348 ATCATATT
1 ATCATATT
25721356 TTTGCATTAC
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (28 bp):
ATCATATTGTAACAGTCAGATTCCAATG
Found at i:25735110 original size:20 final size:22
Alignment explanation
Indices: 25735076--25735117 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
25735066 AGACGAGGTA
25735076 TGTGACAGCCCT-AAATTGACC
1 TGTGACAGCCCTAAAATTGACC
25735097 TGTGACAG-CCTAAAATTGACC
1 TGTGACAGCCCTAAAATTGACC
25735118 CTAGTCGGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (22 bp):
TGTGACAGCCCTAAAATTGACC
Found at i:25736158 original size:14 final size:14
Alignment explanation
Indices: 25736139--25736169 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
25736129 ATTCCGAAGT
25736139 ATATATATATATAC
1 ATATATATATATAC
25736153 ATATATATATATAC
1 ATATATATATATAC
25736167 ATA
1 ATA
25736170 AGTATGCCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATATATATATAC
Found at i:25736686 original size:28 final size:28
Alignment explanation
Indices: 25736618--25736715 Score: 117
Period size: 27 Copynumber: 3.5 Consensus size: 28
25736608 CATGAGATTG
* * * *
25736618 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
25736647 GCACTAAGTGTGTGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
25736675 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
25736702 ACACTGAGTGTGCG
1 GCACTAAGTGTGCG
25736716 GACTTAATAT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 23 0.38
28 21 0.34
29 17 0.28
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:25736726 original size:27 final size:27
Alignment explanation
Indices: 25736648--25736728 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 27
25736638 AATTGTACAG
* * * *
25736648 CACTAAGTGTGTGAGTTTGATTATATAG
1 CACTAAGTGTGCGA-CTTGAATATATAA
* *
25736676 CACTAAGTGTGCGAGTTGATTATATAA
1 CACTAAGTGTGCGACTTGAATATATAA
*
25736703 CACTGAGTGTGCGGACTT-AATATATA
1 CACTAAGTGTGC-GACTTGAATATATA
25736729 CTTTTGAATC
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 29 0.63
28 17 0.37
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (27 bp):
CACTAAGTGTGCGACTTGAATATATAA
Found at i:25739387 original size:19 final size:19
Alignment explanation
Indices: 25739363--25739400 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
25739353 TAATTGCTTC
25739363 TTGTAATTTTTATATTTTT
1 TTGTAATTTTTATATTTTT
*
25739382 TTGTAATTTTTATGTTTTT
1 TTGTAATTTTTATATTTTT
25739401 GTGATTGTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (19 bp):
TTGTAATTTTTATATTTTT
Found at i:25739401 original size:17 final size:19
Alignment explanation
Indices: 25739363--25739402 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
25739353 TAATTGCTTC
*
25739363 TTGTAATTTTTATATTTTT
1 TTGTAATTTTTATATGTTT
25739382 TTGTAA-TTTT-TATGTTT
1 TTGTAATTTTTATATGTTT
25739399 TTGT
1 TTGT
25739403 GATTGTTGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 10 0.50
18 4 0.20
19 6 0.30
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.72
Consensus pattern (19 bp):
TTGTAATTTTTATATGTTT
Found at i:25744128 original size:24 final size:24
Alignment explanation
Indices: 25744096--25744149 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
25744086 AGTTAACTGA
*
25744096 AGAAACCGAGGTTGATTTAGTTCG
1 AGAAACCGAGGTTGATTTAGATCG
25744120 AGAAACCGAGGTTGATTTAGATCG
1 AGAAACCGAGGTTGATTTAGATCG
25744144 AGAAAC
1 AGAAAC
25744150 TGAAGAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.35, C:0.13, G:0.28, T:0.24
Consensus pattern (24 bp):
AGAAACCGAGGTTGATTTAGATCG
Found at i:25748649 original size:50 final size:50
Alignment explanation
Indices: 25748564--25748705 Score: 230
Period size: 50 Copynumber: 2.8 Consensus size: 50
25748554 ATTTGGGTAA
* * *
25748564 AGAGTTCCCGTGTAAGACCATGTTTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
25748614 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** *
25748664 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
25748706 TGTTATTATC
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 86 1.00
ACGTcount: A:0.23, C:0.23, G:0.33, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:25749973 original size:36 final size:36
Alignment explanation
Indices: 25749933--25750004 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
25749923 TTACCGAATT
25749933 AAATTAATTCTATAATTAATTTAATTCAAGCGACCC
1 AAATTAATTCTATAATTAATTTAATTCAAGCGACCC
25749969 AAATTAATTCTATAATTAATTTAATTCAAGCGACCC
1 AAATTAATTCTATAATTAATTTAATTCAAGCGACCC
25750005 CAAAAACAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.36
Consensus pattern (36 bp):
AAATTAATTCTATAATTAATTTAATTCAAGCGACCC
Found at i:25763863 original size:26 final size:25
Alignment explanation
Indices: 25763820--25763888 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
25763810 TCATCTCTAT
*
25763820 TTTACCCC-AGCAAAATTTTGAAAATG
1 TTTACCCCTAGTAAAATTTTG--AATG
*
25763846 -TTACCCCTAGTAAAATTTTGACTG
1 TTTACCCCTAGTAAAATTTTGAATG
*
25763870 TTTTCCCCTAGTAAAATTT
1 TTTACCCCTAGTAAAATTT
25763889 CGAGAAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
24 3 0.08
25 24 0.63
26 11 0.29
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (25 bp):
TTTACCCCTAGTAAAATTTTGAATG
Found at i:25763945 original size:18 final size:18
Alignment explanation
Indices: 25763922--25763957 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
25763912 ACAACTCAAC
25763922 ATGTTCACCATGACCAAA
1 ATGTTCACCATGACCAAA
25763940 ATGTTCACCATGACCAAA
1 ATGTTCACCATGACCAAA
25763958 TGGTTTGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.11, T:0.22
Consensus pattern (18 bp):
ATGTTCACCATGACCAAA
Found at i:25765047 original size:3 final size:3
Alignment explanation
Indices: 25765041--25765071 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
25765031 GTTGTTGTTG
25765041 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
25765072 GACTGGAGGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:25781968 original size:25 final size:25
Alignment explanation
Indices: 25781906--25781971 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 25
25781896 TATAAATTGA
* *
25781906 TAAGCTCATACGAGCTGAGAATCAG
1 TAAGCTCATACGAGCTCAAAATCAG
* *
25781931 TAAACTC-TCACGAGC-CACAAATCGG
1 TAAGCTCAT-ACGAGCTCA-AAATCAG
25781956 TAAGCTCATACGAGCT
1 TAAGCTCATACGAGCT
25781972 GTGGTGTATC
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
24 2 0.06
25 29 0.91
26 1 0.03
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.20
Consensus pattern (25 bp):
TAAGCTCATACGAGCTCAAAATCAG
Found at i:25789073 original size:24 final size:25
Alignment explanation
Indices: 25789020--25789073 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
25789010 ATCTCGAGAG
*
25789020 AGAGCTTACCGATATTCAGCTCGTA
1 AGAGCTTACCGATATTCAACTCGTA
*
25789045 TGAGCTTACC-AT-TTACAACTCGTA
1 AGAGCTTACCGATATT-CAACTCGTA
25789069 AGAGC
1 AGAGC
25789074 ATATTAATTC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.08
24 14 0.56
25 9 0.36
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (25 bp):
AGAGCTTACCGATATTCAACTCGTA
Found at i:25801794 original size:50 final size:50
Alignment explanation
Indices: 25801729--25801971 Score: 276
Period size: 50 Copynumber: 4.9 Consensus size: 50
25801719 ACATTAAGAG
* *
25801729 GATGAGA--TCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
* *
25801777 GATGAGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
* *
25801827 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACTTA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
* ** * * *
25801877 TATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGT-A
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
* * * ** * * * *
25801926 CAAGAAACATCCCATGTAAGACTATATCTGGGACATAGCTTTGGCA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
25801972 TGTTATATTC
Statistics
Matches: 169, Mismatches: 24, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
48 7 0.04
49 38 0.22
50 124 0.73
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACTGA
Found at i:25805595 original size:51 final size:51
Alignment explanation
Indices: 25805533--25805677 Score: 213
Period size: 51 Copynumber: 2.8 Consensus size: 51
25805523 GATACTGGTT
* *
25805533 CACATAGTAGCCTACACATAGTACTACACATGTGACCATCACTATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATA
* * *
25805584 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCGATA
25805635 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
25805678 TTTACTTTCA
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
50 3 0.04
51 77 0.93
52 3 0.04
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATA
Found at i:25807230 original size:27 final size:27
Alignment explanation
Indices: 25807200--25807347 Score: 174
Period size: 27 Copynumber: 5.4 Consensus size: 27
25807190 TTGAGTCCGT
* * *
25807200 ACACTCAGTGCTATATAATCAACTCGC
1 ACACTTAGTGCTACATAATCAAATCGC
*
25807227 ACACTTAGTGCTACGTAATCAAATCGC
1 ACACTTAGTGCTACATAATCAAATCGC
*
25807254 ACACTTAGTGCTACATAGTCAAACTCGC
1 ACACTTAGTGCTACATAATCAAA-TCGC
* **
25807282 ACACTTAGTGC-ATCATATTCATTTCGC
1 ACACTTAGTGCTA-CATAATCAAATCGC
*
25807309 ACACTTAGTG-TAACATAGTCAAATCGC
1 ACACTTAGTGCT-ACATAATCAAATCGC
25807336 ACACTTAGTGCT
1 ACACTTAGTGCT
25807348 GTACAATTTA
Statistics
Matches: 104, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
27 80 0.77
28 24 0.23
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (27 bp):
ACACTTAGTGCTACATAATCAAATCGC
Found at i:25807286 original size:55 final size:56
Alignment explanation
Indices: 25807200--25807347 Score: 189
Period size: 55 Copynumber: 2.7 Consensus size: 56
25807190 TTGAGTCCGT
* * * *
25807200 ACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTA-CGTAATCAAATCGC
1 ACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTATCATAATCAAATCGC
* **
25807254 ACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGC-ATCATATTCATTTCGC
1 ACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTATCATAATCAAATCGC
25807309 ACACTTAGTG-TAACATAGTCAAA-TCGCACACTTAGTGCT
1 ACACTTAGTGCT-ACATAGTCAAACTCGCACACTTAGTGCT
25807348 GTACAATTTA
Statistics
Matches: 83, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
54 34 0.41
55 49 0.59
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (56 bp):
ACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTATCATAATCAAATCGC
Found at i:25825213 original size:43 final size:41
Alignment explanation
Indices: 25825152--25825271 Score: 150
Period size: 42 Copynumber: 2.9 Consensus size: 41
25825142 CACATTATAT
*
25825152 TCAATGATACGGGGAATCAGCACATAGCAACCCCTTTCACAA
1 TCAATGATACGGGGAATCAGCACTTAGCAACCCCTTT-ACAA
* *
25825194 TCAAGGATACGGTGGAATCAGCACTTAGCAACCACCTTTAGAA
1 TCAATGATACGG-GGAATCAGCACTTAGCAACC-CCTTTACAA
* ** *
25825237 TCAATAATTTGGGGAATCAACACTTAGCAACCCCT
1 TCAATGATACGGGGAATCAGCACTTAGCAACCCCT
25825272 CAGGGAATCT
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
41 3 0.04
42 30 0.44
43 30 0.44
44 5 0.07
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.22
Consensus pattern (41 bp):
TCAATGATACGGGGAATCAGCACTTAGCAACCCCTTTACAA
Found at i:25825263 original size:42 final size:42
Alignment explanation
Indices: 25825158--25825271 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 42
25825148 ATATTCAATG
* *
25825158 ATACGGGGAATCAGCACATAGCAACCCCTTTCACAATCAAGG
1 ATACGGGGAATCAGCACTTAGCAACCCCTTTCACAATCAAGA
* *
25825200 ATACGGTGGAATCAGCACTTAGCAACCACCTTT-AGAATCAATA
1 ATACGG-GGAATCAGCACTTAGCAACC-CCTTTCACAATCAAGA
** *
25825243 ATTTGGGGAATCAACACTTAGCAACCCCT
1 ATACGGGGAATCAGCACTTAGCAACCCCT
25825272 CAGGGAATCT
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
41 3 0.05
42 25 0.40
43 30 0.48
44 5 0.08
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (42 bp):
ATACGGGGAATCAGCACTTAGCAACCCCTTTCACAATCAAGA
Found at i:25825277 original size:26 final size:26
Alignment explanation
Indices: 25825248--25825297 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
25825238 CAATAATTTG
25825248 GGGAATCAACACTTAGCAACCCCTCA
1 GGGAATCAACACTTAGCAACCCCTCA
*
25825274 GGGAATCTACACTTAGCAACCCCT
1 GGGAATCAACACTTAGCAACCCCT
25825298 TTTTGATCAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (26 bp):
GGGAATCAACACTTAGCAACCCCTCA
Found at i:25825316 original size:41 final size:41
Alignment explanation
Indices: 25825271--25825462 Score: 285
Period size: 41 Copynumber: 4.7 Consensus size: 41
25825261 TAGCAACCCC
* * *
25825271 TCAGGGAATCTACACTTAGCAACCCCTTTTTGATCAGTGAT
1 TCAGGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGAT
* *
25825312 TCAGGGAATCTGCATTTAGCAACCCCTTTTCTATCAATGAT
1 TCAGGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGAT
* *
25825353 TCGGGGAATTTGCACTTAGCAACCCCTTTTCGATCAATGAT
1 TCAGGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGAT
* **
25825394 TCGGGGAATCTGCACTTAGCAACCAGTTTTCGATCAATGAT
1 TCAGGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGAT
*
25825435 TTAGGGAATCTGCACTTAGCAACCCCTT
1 TCAGGGAATCTGCACTTAGCAACCCCTT
25825463 ACATTCAATG
Statistics
Matches: 135, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 135 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (41 bp):
TCAGGGAATCTGCACTTAGCAACCCCTTTTCGATCAATGAT
Found at i:25827518 original size:32 final size:32
Alignment explanation
Indices: 25827477--25827701 Score: 198
Period size: 34 Copynumber: 6.8 Consensus size: 32
25827467 TAATATATAA
*
25827477 ATACATATACAAATCAATTCGGCAATAGGTGT
1 ATACATATACAATTCAATTCGGCAATAGGTGT
* ***
25827509 ATACGTATACAATTCAATTCGGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATAGGTGT
* * *
25827541 ATATATATACAATTCAATTCAGAAATAGGTGT
1 ATACATATACAATTCAATTCGGCAATAGGTGT
* * * *
25827573 ATACCTATACAATTCAATTCGACAATATAAGTAT
1 ATACATATACAATTCAATTCGGC-A-ATAGGTGT
* * *
25827607 ATATATATACAATTCAATTCGGCAATATAAGTTT
1 ATACATATACAATTCAATTCGGC-A-ATAGGTGT
* ** * *
25827641 ATATATATACAATTCAATTTAGCAATATAAGTAT
1 ATACATATACAATTCAATTCGGC-A-ATAGGTGT
* *
25827675 ATATATATACAATTCAATTCGGAAATA
1 ATACATATACAATTCAATTCGGCAATA
25827702 AATAAAACAT
Statistics
Matches: 162, Mismatches: 29, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
32 73 0.45
33 2 0.01
34 87 0.54
ACGTcount: A:0.44, C:0.13, G:0.10, T:0.34
Consensus pattern (32 bp):
ATACATATACAATTCAATTCGGCAATAGGTGT
Found at i:25827549 original size:64 final size:65
Alignment explanation
Indices: 25827481--25827701 Score: 300
Period size: 68 Copynumber: 3.4 Consensus size: 65
25827471 ATATAAATAC
* * *
25827481 ATATACAAATCAATTCGGCAATAGGTGTATACGTATACAATTCAATTCGGCAATATAAG-TATAT
1 ATATACAATTCAATTCGGAAATAGGTGTATACATATACAATTCAATTCGGCAATATAAGATATAT
* * *
25827545 ATATACAATTCAATTCAGAAATAGGTGTATACCTATACAATTCAATTCGACAATATAAGTATATA
1 ATATACAATTCAATTCGGAAATAGGTGTATACATATACAATTCAATTCGGCAATATAAG-ATATA
25827610 T
65 T
* * * **
25827611 ATATACAATTCAATTCGGCAATATAAGTTTATATATATACAATTCAATTTAGCAATATAAGTATA
1 ATATACAATTCAATTCGG-AA-ATAGGTGTATACATATACAATTCAATTCGGCAATATAAG-ATA
25827676 TAT
63 TAT
25827679 ATATACAATTCAATTCGGAAATA
1 ATATACAATTCAATTCGGAAATA
25827702 AATAAAACAT
Statistics
Matches: 140, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
64 54 0.39
66 25 0.18
67 4 0.03
68 57 0.41
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (65 bp):
ATATACAATTCAATTCGGAAATAGGTGTATACATATACAATTCAATTCGGCAATATAAGATATAT
Found at i:25827621 original size:34 final size:34
Alignment explanation
Indices: 25827514--25827695 Score: 239
Period size: 34 Copynumber: 5.5 Consensus size: 34
25827504 GGTGTATACG
*
25827514 TATACAATTCAATTCGGCAATATAAG--TATATA
1 TATACAATTCAATTCGACAATATAAGTATATATA
* * * **
25827546 TATACAATTCAATTC-AGAA-ATAGGTGTATACC
1 TATACAATTCAATTCGACAATATAAGTATATATA
25827578 TATACAATTCAATTCGACAATATAAGTATATATA
1 TATACAATTCAATTCGACAATATAAGTATATATA
* *
25827612 TATACAATTCAATTCGGCAATATAAGTTTATATA
1 TATACAATTCAATTCGACAATATAAGTATATATA
*
25827646 TATACAATTCAATT-TAGCAATATAAGTATATATA
1 TATACAATTCAATTCGA-CAATATAAGTATATATA
25827680 TATACAATTCAATTCG
1 TATACAATTCAATTCG
25827696 GAAATAAATA
Statistics
Matches: 128, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
30 4 0.03
31 2 0.02
32 34 0.27
33 3 0.02
34 85 0.66
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.36
Consensus pattern (34 bp):
TATACAATTCAATTCGACAATATAAGTATATATA
Found at i:25842159 original size:25 final size:25
Alignment explanation
Indices: 25842099--25842159 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
25842089 CTCCTAAATT
*
25842099 TTAATTTAATTATCTAATTTTTCAA
1 TTAATTAAATTATCTAATTTTTCAA
* *
25842124 TTTATTGAATTAT-TAATATTTT-ATA
1 TTAATTAAATTATCTAAT-TTTTCA-A
25842149 TTAATTAAATT
1 TTAATTAAATT
25842160 TTTGAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 5 0.17
25 25 0.83
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (25 bp):
TTAATTAAATTATCTAATTTTTCAA
Found at i:25855871 original size:14 final size:14
Alignment explanation
Indices: 25855841--25855887 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
25855831 ATGTTATTTC
25855841 TTTCTTT-CTTTTCT
1 TTTCTTTCCTTTT-T
*
25855855 TTTTTTTCCTTTTT
1 TTTCTTTCCTTTTT
25855869 TTTCTTTCCTTTTT
1 TTTCTTTCCTTTTT
*
25855883 CTTCT
1 TTTCT
25855888 GTTTGTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 24 0.83
15 5 0.17
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTCTTTCCTTTTT
Found at i:25858879 original size:19 final size:19
Alignment explanation
Indices: 25858846--25858885 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
25858836 AAAATATCAT
*
25858846 ATTAATTTTAATTTATTTG
1 ATTAATTTTAATTTAATTG
25858865 ATTAA-TTTAATTTTAATTG
1 ATTAATTTTAA-TTTAATTG
25858884 AT
1 AT
25858886 CAAAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTAATTTTAATTTAATTG
Found at i:25862734 original size:12 final size:11
Alignment explanation
Indices: 25862697--25862759 Score: 53
Period size: 12 Copynumber: 5.7 Consensus size: 11
25862687 AATCACCTTA
25862697 ATATTAAATTT
1 ATATTAAATTT
25862708 A-ATCT-AATATT
1 ATAT-TAAAT-TT
25862719 -TATTAAATATT
1 ATATTAAAT-TT
25862730 ATATTAAATTT
1 ATATTAAATTT
*
25862741 AATATTAAATCT
1 -ATATTAAATTT
25862753 -TATTAAA
1 ATATTAAA
25862760 ATAATATAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
10 13 0.29
11 14 0.31
12 18 0.40
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (11 bp):
ATATTAAATTT
Found at i:25868336 original size:2 final size:2
Alignment explanation
Indices: 25868329--25868421 Score: 177
Period size: 2 Copynumber: 46.5 Consensus size: 2
25868319 TTAATATTGT
25868329 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
25868371 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC GC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
25868413 TC TC TC TC T
1 TC TC TC TC T
25868422 ACTTTTTGTG
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 89 1.00
ACGTcount: A:0.00, C:0.49, G:0.01, T:0.49
Consensus pattern (2 bp):
TC
Found at i:25871019 original size:31 final size:31
Alignment explanation
Indices: 25870950--25871008 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
25870940 AATGATCGTT
25870950 GAACTATTCAAAAGTTTTCATTTAAGTCATC
1 GAACTATTCAAAAGTTTTCATTTAAGTCATC
*
25870981 GAACTATTCAAAAGTTTTTATTTAAGTC
1 GAACTATTCAAAAGTTTTCATTTAAGTC
25871009 TCTCGGCTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.41
Consensus pattern (31 bp):
GAACTATTCAAAAGTTTTCATTTAAGTCATC
Found at i:25873580 original size:22 final size:22
Alignment explanation
Indices: 25873552--25873617 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
25873542 TCCACAATTT
25873552 TTACTGGCAGTTTATCTACAAA
1 TTACTGGCAGTTTATCTACAAA
* * * *
25873574 TTACTGGCGGTTCATCCACAAC
1 TTACTGGCAGTTTATCTACAAA
* * *
25873596 TTACTGACAGCTTATCTGCAAA
1 TTACTGGCAGTTTATCTACAAA
25873618 CTTTTTATCT
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (22 bp):
TTACTGGCAGTTTATCTACAAA
Found at i:25873600 original size:44 final size:44
Alignment explanation
Indices: 25873518--25873618 Score: 107
Period size: 44 Copynumber: 2.3 Consensus size: 44
25873508 CTGCAAACTT
* * *
25873518 TTTATCTA-AAACACTGGTGGTCCATCCACAATTTTTACTGGCAG
1 TTTATCTACAAACACTGGCGGTCCATCCACAA-TCTTACTGACAG
* *
25873562 TTTATCTACAAATTACTGGCGGTTCATCCACAA-CTTACTGACAG
1 TTTATCTACAAA-CACTGGCGGTCCATCCACAATCTTACTGACAG
* *
25873606 CTTATCTGCAAAC
1 TTTATCTACAAAC
25873619 TTTTTATCTA
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
44 27 0.57
45 3 0.06
46 17 0.36
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.33
Consensus pattern (44 bp):
TTTATCTACAAACACTGGCGGTCCATCCACAATCTTACTGACAG
Found at i:25873658 original size:103 final size:103
Alignment explanation
Indices: 25873479--25873905 Score: 617
Period size: 103 Copynumber: 4.1 Consensus size: 103
25873469 AAACATTGGT
* * *
25873479 GGTTCATCCACAACTTACTGGCAGCTTGTCTGCAAACTTTTTATCTAAAACACTGGTGGTCCATC
1 GGTTCATCCACAACTTACTGACAGCTTGTCTGCAAACTTTTTATCTAAAACACTAGTGGTTCATC
*
25873544 CACAATTTTTACTGGCAGTTTATCTACAAATTACTGGC
66 CACAATTTTTACTGGCAGTTTATCTGCAAATTACTGGC
* *
25873582 GGTTCATCCACAACTTACTGACAGCTTATCTGCAAACTTTTTATCTAAAACACTGGTGGTTCATC
1 GGTTCATCCACAACTTACTGACAGCTTGTCTGCAAACTTTTTATCTAAAACACTAGTGGTTCATC
*** *
25873647 CACAATTTTTACAAACAGTTTATTTGCAAATTACT-GC
66 CACAATTTTTACTGGCAGTTTATCTGCAAATTACTGGC
* *
25873684 TGGTTCATCCACAACTTACTAGA-AGCTTGTTTGCAAATTTTTTATCTAAAACACTAGTGGTTCA
1 -GGTTCATCCACAACTTACT-GACAGCTTGTCTGCAAACTTTTTATCTAAAACACTAGTGGTTCA
* *
25873748 TCCACAATTTTTACTGGCAGATTATCTGCAAATTACTGGT
64 TCCACAATTTTTACTGGCAGTTTATCTGCAAATTACTGGC
* * *
25873788 GGTTCATCCAAAACTTATTGGCAGCTTGTCTGCAAACTTTTTATCT-AAACACTAGTGGTTCATC
1 GGTTCATCCACAACTTACTGACAGCTTGTCTGCAAACTTTTTATCTAAAACACTAGTGGTTCATC
* *
25873852 CACAATTTTTTTTACTGGCAGTTTATCTGCACATTACTGGT
66 CACAA---TTTTTACTGGCAGTTTATCTGCAAATTACTGGC
25873893 GGTTCATCCACAA
1 GGTTCATCCACAA
25873906 AACGGAGTGT
Statistics
Matches: 291, Mismatches: 26, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
102 26 0.09
103 219 0.75
104 3 0.01
105 43 0.15
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (103 bp):
GGTTCATCCACAACTTACTGACAGCTTGTCTGCAAACTTTTTATCTAAAACACTAGTGGTTCATC
CACAATTTTTACTGGCAGTTTATCTGCAAATTACTGGC
Found at i:25875008 original size:20 final size:20
Alignment explanation
Indices: 25874983--25875020 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
25874973 TCACGTGACA
*
25874983 ATTAAATTTAAAATAAAAGT
1 ATTAAAGTTAAAATAAAAGT
*
25875003 ATTAAAGTTAAATTAAAA
1 ATTAAAGTTAAAATAAAA
25875021 ATAAAAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (20 bp):
ATTAAAGTTAAAATAAAAGT
Found at i:25875458 original size:20 final size:20
Alignment explanation
Indices: 25875433--25875481 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
25875423 TTTTTTAGAA
*
25875433 ATATTTTTTACAATACTTTT
1 ATATTTTTTACAATACTCTT
*
25875453 ATATTTTTTACAATTCTCTT
1 ATATTTTTTACAATACTCTT
*
25875473 ACATTTTTT
1 ATATTTTTT
25875482 GTAATAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.61
Consensus pattern (20 bp):
ATATTTTTTACAATACTCTT
Found at i:25876232 original size:30 final size:30
Alignment explanation
Indices: 25876198--25876272 Score: 123
Period size: 30 Copynumber: 2.5 Consensus size: 30
25876188 TTATTTTTTT
25876198 TATTTTTTTAATTTTAAAATATTATTAAAA
1 TATTTTTTTAATTTTAAAATATTATTAAAA
*
25876228 TATTTTTTTAATTTTAAAATATTTTTAAAA
1 TATTTTTTTAATTTTAAAATATTATTAAAA
* *
25876258 TACTTTTTAAATTTT
1 TATTTTTTTAATTTT
25876273 TTTATTTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (30 bp):
TATTTTTTTAATTTTAAAATATTATTAAAA
Found at i:25876266 original size:12 final size:11
Alignment explanation
Indices: 25876209--25876268 Score: 63
Period size: 11 Copynumber: 5.6 Consensus size: 11
25876199 ATTTTTTTAA
25876209 TTTTAAAATAT
1 TTTTAAAATAT
*
25876220 TATTAAAATAT
1 TTTTAAAATAT
* *
25876231 TTTT---TTAA
1 TTTTAAAATAT
25876239 TTTTAAAATAT
1 TTTTAAAATAT
25876250 TTTTAAAATACT
1 TTTTAAAATA-T
25876262 TTTTAAA
1 TTTTAAA
25876269 TTTTTTTATT
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
8 6 0.15
11 25 0.64
12 8 0.21
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:25876269 original size:11 final size:10
Alignment explanation
Indices: 25876208--25876276 Score: 50
Period size: 11 Copynumber: 6.7 Consensus size: 10
25876198 TATTTTTTTA
*
25876208 ATTTTAAAAT
1 ATTTTTAAAT
*
25876218 ATTATTAAAAT
1 ATT-TTTAAAT
**
25876229 ATTTTTTTA-
1 ATTTTTAAAT
*
25876238 ATTTTAAAAT
1 ATTTTTAAAT
25876248 ATTTTTAAAAT
1 ATTTTT-AAAT
25876259 ACTTTTTAAAT
1 A-TTTTTAAAT
*
25876270 TTTTTTA
1 ATTTTTA
25876277 TTTTTAAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
9 6 0.13
10 17 0.36
11 19 0.40
12 5 0.11
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (10 bp):
ATTTTTAAAT
Found at i:25876627 original size:16 final size:17
Alignment explanation
Indices: 25876601--25876635 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
25876591 CAGGAAAACA
25876601 AAAATCACAACCTGAGC
1 AAAATCACAACCTGAGC
25876618 AAAA-CACAACCTGAGC
1 AAAATCACAACCTGAGC
25876634 AA
1 AA
25876636 CTAATAGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.51, C:0.29, G:0.11, T:0.09
Consensus pattern (17 bp):
AAAATCACAACCTGAGC
Found at i:25880198 original size:16 final size:16
Alignment explanation
Indices: 25880177--25880215 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
25880167 TATAATTTAA
*
25880177 TTTTAATTAATTAATT
1 TTTTAATTAAATAATT
25880193 TTTTAATTAAATAATT
1 TTTTAATTAAATAATT
25880209 TTCTTAA
1 TT-TTAA
25880216 CTCGATTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
TTTTAATTAAATAATT
Found at i:25882429 original size:30 final size:30
Alignment explanation
Indices: 25882385--25882447 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
25882375 ACTTAACAAG
*
25882385 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAAAAACAAAATTAA
* * *
25882415 CAAATGTCTTTAAAATAAAAATAAAATTAA
1 CAAATGCCTCTAAAATAAAAACAAAATTAA
25882445 CAA
1 CAA
25882448 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.59, C:0.13, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAAAAACAAAATTAA
Found at i:25884553 original size:25 final size:25
Alignment explanation
Indices: 25884516--25884652 Score: 114
Period size: 25 Copynumber: 5.5 Consensus size: 25
25884506 GTAAACACGG
** *
25884516 ATTCTCTGGAAAGCCTTTGTGGTAA
1 ATTCTCTATAAAGCCTTTGTGGCAA
* **
25884541 ATTCTCTATAAAGACTTTGTGGTGA
1 ATTCTCTATAAAGCCTTTGTGGCAA
*
25884566 ATTCTCTATAAAGTCTTTGTGGCAA
1 ATTCTCTATAAAGCCTTTGTGGCAA
* * * * *
25884591 ATTCTTTGTAAACCCTTTGTAGCGA
1 ATTCTCTATAAAGCCTTTGTGGCAA
* *
25884616 ATAT-TCTATGAAGCCTTTGTGGCGA
1 AT-TCTCTATAAAGCCTTTGTGGCAA
* *
25884641 ACTCTCTGTAAA
1 ATTCTCTATAAA
25884653 ATCTTCTTGG
Statistics
Matches: 89, Mismatches: 21, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
24 1 0.01
25 87 0.98
26 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (25 bp):
ATTCTCTATAAAGCCTTTGTGGCAA
Found at i:25884609 original size:50 final size:50
Alignment explanation
Indices: 25884516--25884652 Score: 141
Period size: 50 Copynumber: 2.7 Consensus size: 50
25884506 GTAAACACGG
** * * * * *
25884516 ATTCTCTGGAAAGCCTTTGTGGTAAATTCTCTATAAAGACTTTGTGGTGA
1 ATTCTCTATAAAGCCTTTGTGGCAAATTCTCTGTAAACACTTTGTAGCGA
* * *
25884566 ATTCTCTATAAAGTCTTTGTGGCAAATTCTTTGTAAACCCTTTGTAGCGA
1 ATTCTCTATAAAGCCTTTGTGGCAAATTCTCTGTAAACACTTTGTAGCGA
* * *
25884616 ATAT-TCTATGAAGCCTTTGTGGCGAACTCTCTGTAAA
1 AT-TCTCTATAAAGCCTTTGTGGCAAATTCTCTGTAAA
25884653 ATCTTCTTGG
Statistics
Matches: 71, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
50 70 0.99
51 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (50 bp):
ATTCTCTATAAAGCCTTTGTGGCAAATTCTCTGTAAACACTTTGTAGCGA
Found at i:25887734 original size:34 final size:34
Alignment explanation
Indices: 25887691--25887762 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
25887681 TATCATTAGC
25887691 ATGAAAATATAAATTTCATTCGAGCTTTGGGTCG
1 ATGAAAATATAAATTTCATTCGAGCTTTGGGTCG
*
25887725 ATGAAAATATAAATTTCATTCGAGTTTTGGGTCG
1 ATGAAAATATAAATTTCATTCGAGCTTTGGGTCG
25887759 ATGA
1 ATGA
25887763 TGGCAAGTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (34 bp):
ATGAAAATATAAATTTCATTCGAGCTTTGGGTCG
Found at i:25889890 original size:42 final size:42
Alignment explanation
Indices: 25889802--25889962 Score: 151
Period size: 43 Copynumber: 3.8 Consensus size: 42
25889792 CAATGCCAAC
* * *** * *
25889802 GTCCTAGACGTGGTCTTACATGTAATCAAATAACGATGTCACT
1 GTCCCAGACATGGTCTTACACAAAATCACAT-ACGATGTCAAT
*
25889845 GTCCCAGACAGGGTCTTACACAAAATCACATACGATGTCAAT
1 GTCCCAGACATGGTCTTACACAAAATCACATACGATGTCAAT
* * * * *
25889887 GTCCCGGACATGGTCTTACACATAAATCTCAAATCGATGCCAAC
1 GTCCCAGACATGGTCTTACACA-AAATCACATA-CGATGTCAAT
* * *
25889931 GTCCCAAACATGGTCTTACACGATATCACATA
1 GTCCCAGACATGGTCTTACACAAAATCACATA
25889963 TCGAATTTCC
Statistics
Matches: 96, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
42 30 0.31
43 39 0.41
44 27 0.28
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACAAAATCACATACGATGTCAAT
Found at i:25893037 original size:56 final size:56
Alignment explanation
Indices: 25892931--25893084 Score: 227
Period size: 56 Copynumber: 2.7 Consensus size: 56
25892921 ATAAGTTAGA
* * *
25892931 ATATTATTATGTGATATTATCTTTTTTGCAATTTGATCCCTAATAGGATATTATAGG
1 ATATTATTATGAGATATTATC-TTTTAGCAATTTGATTCCTAATAGGATATTATAGG
* * * *
25892988 GTATTATTATGGGATATTATCTCTTAGCAATTTGATTCCTAATGGGATATTATAGG
1 ATATTATTATGAGATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTATAGG
*
25893044 ATATTATTATGAGATATTATCTTTTAGCAATTTAATTCCTA
1 ATATTATTATGAGATATTATCTTTTAGCAATTTGATTCCTA
25893085 TGTAATTACT
Statistics
Matches: 87, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
56 68 0.78
57 19 0.22
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (56 bp):
ATATTATTATGAGATATTATCTTTTAGCAATTTGATTCCTAATAGGATATTATAGG
Found at i:25897112 original size:44 final size:43
Alignment explanation
Indices: 25897063--25897304 Score: 181
Period size: 44 Copynumber: 5.7 Consensus size: 43
25897053 TTTAATCCGT
* * *
25897063 TCCACTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTGG-TTCTTCAGTCTGC
* * * *
25897107 TCCACTGCAACTTCAGGGAGATAAGACTGG--ATGC-GATATGC
1 TCCACTGCAACTTCAGGGAGATAAGATTGGTTCTTCAG-TCTGC
* * * * *
25897148 TCTACTGCAACTTCAGAGAGATAAGATCTGTGGTCTT-AATCCGC
1 TCCACTGCAACTTCAGGGAGATAAGAT-TG-GTTCTTCAGTCTGC
* * * *
25897192 TCCACTGCAACTTCAAGGAGATAGGATTAGTAGCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTGGT-TCTTCAGTCTGC
* * * * *
25897236 TCCACTGCAACTTCAGGGAGATAAGACTGGAT-GT-AATCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTGGTTCTTCAGTCTGC
* * *
25897277 TCTACTGCAACTTTAGAGAGATAAGATT
1 TCCACTGCAACTTCAGGGAGATAAGATT
25897305 TGTAGTTTTA
Statistics
Matches: 154, Mismatches: 36, Indels: 19
0.74 0.17 0.09
Matches are distributed among these distances:
40 1 0.01
41 59 0.38
42 4 0.03
43 5 0.03
44 84 0.55
45 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (43 bp):
TCCACTGCAACTTCAGGGAGATAAGATTGGTTCTTCAGTCTGC
Found at i:25897253 original size:129 final size:129
Alignment explanation
Indices: 25897049--25897348 Score: 456
Period size: 129 Copynumber: 2.3 Consensus size: 129
25897039 ACGAGATTTA
* * * ** *
25897049 TGGTTTTAATCCGTTCCACTGTAACTTCAGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTG
1 TGGTTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATTAGTAGCTTCAGTCTGCTCCACTG
* *
25897114 CAACTTCAGGGAGATAAGACTGGATGCGATATGCTCTACTGCAACTTCAGAGAGATAAGATCTG
66 CAACTTCAGGGAGATAAGACTGGATGCAATATACTCTACTGCAACTTCAGAGAGATAAGATCTG
* *
25897178 TGGTCTTAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTAGTAGCTTCAGTCTGCTCCACTG
1 TGGTTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATTAGTAGCTTCAGTCTGCTCCACTG
* * * *
25897243 CAACTTCAGGGAGATAAGACTGGATGTAATCTACTCTACTGCAACTTTAGAGAGATAAGATTTG
66 CAACTTCAGGGAGATAAGACTGGATGCAATATACTCTACTGCAACTTCAGAGAGATAAGATCTG
* *
25897307 TAGTTTTAATCCACTCCACTGTAACTTCAAGGAGATAGGATT
1 TGGTTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATT
25897349 CGCCATTGCG
Statistics
Matches: 153, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
129 153 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.30
Consensus pattern (129 bp):
TGGTTTTAATCCGCTCCACTGTAACTTCAAGGAGATAGGATTAGTAGCTTCAGTCTGCTCCACTG
CAACTTCAGGGAGATAAGACTGGATGCAATATACTCTACTGCAACTTCAGAGAGATAAGATCTG
Found at i:25897273 original size:85 final size:88
Alignment explanation
Indices: 25897145--25897343 Score: 208
Period size: 85 Copynumber: 2.3 Consensus size: 88
25897135 GGATGCGATA
* * * * *
25897145 TGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTCTTAATCCGCTCCACTGCAACTTCAAG-
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATCGTAATCCACTCCACTGCAACTT-AAGA
* *
25897209 GAGATAGGATTAGTAGCTTCAGTC
65 GAGATAAGATTAGTAGCTTCAATC
* * *
25897233 TGCTCCACTGCAACTTCAGGGAGATAAGA-CTG-GAT-GTAATCTACTCTACTGCAACTTTAGAG
1 TGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATCGTAATCCACTCCACTGCAACTTAAGAG
* * *
25897295 AGATAAGATTTGTAGTTTTAATC
66 AGATAAGATTAGTAGCTTCAATC
** * *
25897318 CACTCCACTGTAACTTCAAGGAGATA
1 TGCTCCACTGCAACTTCAGGGAGATA
25897344 GGATTCGCCA
Statistics
Matches: 93, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
84 2 0.02
85 59 0.63
86 2 0.02
87 3 0.03
88 27 0.29
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (88 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGATCGTAATCCACTCCACTGCAACTTAAGAG
AGATAAGATTAGTAGCTTCAATC
Found at i:25897333 original size:44 final size:44
Alignment explanation
Indices: 25897151--25897343 Score: 164
Period size: 44 Copynumber: 4.5 Consensus size: 44
25897141 GATATGCTCT
* * *
25897151 ACTGCAACTTCAGAGAGATAAGATCTGTGGTCTTAATCCGCTCC
1 ACTGCAACTTCAGAGAGATAAGATCTGTAGTTTTAATCCACTCC
* * * * **
25897195 ACTGCAACTTCA-AGGAGATAGGAT-TAGTAGCTTCAGTCTGCTCC
1 ACTGCAACTTCAGA-GAGATAAGATCT-GTAGTTTTAATCCACTCC
* * * * *
25897239 ACTGCAACTTCAGGGAGATAAGA-CTG--GATGTAATCTACTCT
1 ACTGCAACTTCAGAGAGATAAGATCTGTAGTTTTAATCCACTCC
* *
25897280 ACTGCAACTTTAGAGAGATAAGATTTGTAGTTTTAATCCACTCC
1 ACTGCAACTTCAGAGAGATAAGATCTGTAGTTTTAATCCACTCC
*
25897324 ACTGTAACTTCA-AGGAGATA
1 ACTGCAACTTCAGA-GAGATA
25897344 GGATTCGCCA
Statistics
Matches: 117, Mismatches: 24, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
41 30 0.26
42 2 0.02
43 4 0.03
44 81 0.69
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (44 bp):
ACTGCAACTTCAGAGAGATAAGATCTGTAGTTTTAATCCACTCC
Found at i:25897481 original size:50 final size:50
Alignment explanation
Indices: 25897427--25897956 Score: 309
Period size: 50 Copynumber: 10.7 Consensus size: 50
25897417 GCACTGCCAA
* * * * *
25897427 GGAAGTAAGATTCGCTGTTGCGGCTTCAATCTTTTAAATTGCAATATCAG
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAG
* * * * * ** * * * *
25897477 GGAAGCAATATTCACCGTCGTAGCTTTAATCTGCTCCATTGTACTGCCAG
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAG
* * * *
25897527 GGAAGTGAGATTCACAGTTGTGGCTTTAATCCTTTT-AATTGCAATGTCGG
1 GGAAGTAAGATTCACCGTTGTGGCTTCAAT-CTTTTCAATTGCAATGTCAG
* * * ** * * *
25897577 GGAA-TAAGATTCGCCATTGTAGCTTCAATCTAATCCACTGC-ATCGCCAG
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTCAATTGCAAT-GTCAG
* * * * * *
25897626 GAAAGTAAGATTCGCCCTTGCGGCTTCAATCTTTTTAATTGCAATGTCGG
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAG
* * * * ** * * ****
25897676 GGAAGCAAGATTCACCGTCGTAGCTTTAATCTGGTCCACTGCACCACCAG
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAG
* * * * * *
25897726 GAAAGTAAGATTCACCGTTGCGGCTTCAGTCTTTTAAATTGGAATGTCGG
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAG
* ** * * * *
25897776 GGAACG--AGATTCACCGTTGTAGCTTCAATCTGATCCACTG-TATCGTTAG
1 GGAA-GTAAGATTCACCGTTGTGGCTTCAATCTTTTCAATTGCAAT-GTCAG
* * * * *
25897825 GAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGG
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAG
* * * * * * * *
25897875 GGAA-TAAGATTCACTGTTGTAGCTTCAATATGTTCCACTGCACTGCCAG
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAG
* *
25897924 GGAGGTAAGATTCACCGTTGCGGCTTCAATCTT
1 GGAAGTAAGATTCACCGTTGTGGCTTCAATCTT
25897957 CTTTGCTGCA
Statistics
Matches: 338, Mismatches: 131, Indels: 22
0.69 0.27 0.04
Matches are distributed among these distances:
48 8 0.02
49 97 0.29
50 225 0.67
51 8 0.02
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (50 bp):
GGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTCAATTGCAATGTCAG
Found at i:25897739 original size:199 final size:200
Alignment explanation
Indices: 25897364--25897954 Score: 762
Period size: 199 Copynumber: 3.0 Consensus size: 200
25897354 TTGCGACCTC
* * * * * *
25897364 AATTACAATGTCAGGGAACATGATTCG-CAGTCGTAGCTTGAATCTGTTCCACTGCA-CTGCCAA
1 AATTGCAATGTCGGGGAACAAGATTCGCCA-TTGTAGCTTCAATCTGATCCACTGCATC-GCC-A
* * * *
25897427 GG-AAGTAAGATTCGCTGTTGCGGCTTCAATCTTTTAAATTGCAATATCAGGGAAGCAATATTCA
63 GGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCA
* * * * * *
25897491 CCGTCGTAGCTTTAATCTGCTCCATTGTACTGCCAGGGAAGTGAGATTCACAGTTGTGGCTTTAA
128 CCGTCGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAAGTAAGATTCACCGTTGCGGCTTCAA
25897556 TCCTTTT-
193 TCCTTTTA
* *
25897563 AATTGCAATGTCGGGGAATAAGATTCGCCATTGTAGCTTCAATCTAATCCACTGCATCGCCAGGA
1 AATTGCAATGTCGGGGAACAAGATTCGCCATTGTAGCTTCAATCTGATCCACTGCATCGCCAGGA
* *
25897628 AAGTAAGATTCGCCCTTGCGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCG
66 AAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCG
* ** * *
25897693 TCGTAGCTTTAATCTGGTCCACTGCACCACCAGGAAAGTAAGATTCACCGTTGCGGCTTCAGT-C
131 TCGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAAGTAAGATTCACCGTTGCGGCTTCAATCC
25897757 TTTTA
196 TTTTA
* * * * * **
25897762 AATTGGAATGTCGGGGAACGAGATTCACCGTTGTAGCTTCAATCTGATCCACTGTATCGTTAGGA
1 AATTGCAATGTCGGGGAACAAGATTCGCCATTGTAGCTTCAATCTGATCCACTGCATCGCCAGGA
* *
25897827 AAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAA-TAAGATTCACTG
66 AAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCG
* * * * *
25897891 TTGTAGCTTCAATATGTTCCACTGCACTGCCAGGGAGGTAAGATTCACCGTTGCGGCTTCAATC
131 TCGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAAGTAAGATTCACCGTTGCGGCTTCAATC
25897955 TTCTTTGCTG
Statistics
Matches: 340, Mismatches: 47, Indels: 10
0.86 0.12 0.03
Matches are distributed among these distances:
198 72 0.21
199 265 0.78
200 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (200 bp):
AATTGCAATGTCGGGGAACAAGATTCGCCATTGTAGCTTCAATCTGATCCACTGCATCGCCAGGA
AAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACCG
TCGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAAGTAAGATTCACCGTTGCGGCTTCAATCC
TTTTA
Found at i:25897967 original size:99 final size:99
Alignment explanation
Indices: 25897364--25897956 Score: 672
Period size: 99 Copynumber: 6.0 Consensus size: 99
25897354 TTGCGACCTC
* * * * * * *
25897364 AATTACAATGTCAGGGAACATGATTCGCAGTCGTAGCTTGAATCTGTTCCACTGCACTGCCAAGG
1 AATTGCAATGTCGGGGAACAAGATTCACCGTCGTAGCTTCAATCTGATCCACTGCACTGCC-AGG
* *
25897429 -AAGTAAGATTCGCTGTTGCGGCTTCAATCTTTTA
65 AAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTA
* * * * * * *
25897463 AATTGCAATATCAGGGAAGCAATATTCACCGTCGTAGCTTTAATCTGCTCCATTGTACTGCCAGG
1 AATTGCAATGTCGGGGAA-CAAGATTCACCGTCGTAGCTTCAATCTGATCCACTGCACTGCCAGG
* * * * *
25897528 GAAGTGAGATTCACAGTTGTGGCTTTAATCCTTTT-
65 AAAGTAAGATTCACCGTTGCGGCTTCAAT-CTTTTA
* * * * *
25897563 AATTGCAATGTCGGGGAATAAGATTCGCCATTGTAGCTTCAATCTAATCCACTGCA-TCGCCAGG
1 AATTGCAATGTCGGGGAACAAGATTCACCGTCGTAGCTTCAATCTGATCCACTGCACT-GCCAGG
* * *
25897627 AAAGTAAGATTCGCCCTTGCGGCTTCAATCTTTTT
65 AAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTA
* * **
25897662 AATTGCAATGTCGGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGGTCCACTGCACCACCAGG
1 AATTGCAATGTCGGGGAA-CAAGATTCACCGTCGTAGCTTCAATCTGATCCACTGCACTGCCAGG
*
25897727 AAAGTAAGATTCACCGTTGCGGCTTCAGTCTTTTA
65 AAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTA
* * * * **
25897762 AATTGGAATGTCGGGGAACGAGATTCACCGTTGTAGCTTCAATCTGATCCACTGTA-TCGTTAGG
1 AATTGCAATGTCGGGGAACAAGATTCACCGTCGTAGCTTCAATCTGATCCACTGCACT-GCCAGG
*
25897826 AAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTA
65 AAAGTAAGATTCACCGTTGCGGCTTCAATCTTTTA
* * * * * *
25897861 AATTGCAATGTCGGGGAATAAGATTCACTGTTGTAGCTTCAATATGTTCCACTGCACTGCCAGGG
1 AATTGCAATGTCGGGGAACAAGATTCACCGTCGTAGCTTCAATCTGATCCACTGCACTGCCAGGA
*
25897926 AGGTAAGATTCACCGTTGCGGCTTCAATCTT
66 AAGTAAGATTCACCGTTGCGGCTTCAATCTT
25897957 CTTTGCTGCA
Statistics
Matches: 414, Mismatches: 71, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
98 6 0.01
99 244 0.59
100 159 0.38
101 5 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.30
Consensus pattern (99 bp):
AATTGCAATGTCGGGGAACAAGATTCACCGTCGTAGCTTCAATCTGATCCACTGCACTGCCAGGA
AAGTAAGATTCACCGTTGCGGCTTCAATCTTTTA
Found at i:25898136 original size:90 final size:90
Alignment explanation
Indices: 25897997--25898247 Score: 387
Period size: 90 Copynumber: 2.8 Consensus size: 90
25897987 GTTTCGCCAT
*
25897997 CAATACAGGAAGGCAAGATCTGTTATCTTCAGTCTACTTTGCTGA-CAATACAGGAAGACAAGAC
1 CAATACAGGAAGACAAGATCTGTTATCTTCAGTCTACTTTGCT-ACCAATACAGGAAGACAAGAC
25898061 TTGCTATCTTCGATCTACTTCGCTGC
65 TTGCTATCTTCGATCTACTTCGCTGC
* *
25898087 CAATACAGGAAGACAAGATCTGTTATCTTTAGTCTACTTCGCTACCAATACAGGAAGACAAGACT
1 CAATACAGGAAGACAAGATCTGTTATCTTCAGTCTACTTTGCTACCAATACAGGAAGACAAGACT
* *
25898152 TACTATCTTCGATCTACTTCGCTGT
66 TGCTATCTTCGATCTACTTCGCTGC
* * * * * *
25898177 CAATACAGGAAGACAAGATCTGCTACCTTCAGTTTACTTTACTGCCAATATAGGAAGACAAGACT
1 CAATACAGGAAGACAAGATCTGTTATCTTCAGTCTACTTTGCTACCAATACAGGAAGACAAGACT
25898242 TGCTAT
66 TGCTAT
25898248 GATGACTTCA
Statistics
Matches: 146, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
89 1 0.01
90 145 0.99
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (90 bp):
CAATACAGGAAGACAAGATCTGTTATCTTCAGTCTACTTTGCTACCAATACAGGAAGACAAGACT
TGCTATCTTCGATCTACTTCGCTGC
Found at i:25898232 original size:135 final size:135
Alignment explanation
Indices: 25897997--25898239 Score: 334
Period size: 135 Copynumber: 1.8 Consensus size: 135
25897987 GTTTCGCCAT
* *
25897997 CAATACAGGAAGGCAAGATCTGTTATCTTCAGTCTACTTTGCTGACAATACAGGAAGACAAGACT
1 CAATACAGGAAGACAAGATCTGTTATCTTCAGTCTACTTCGCTGACAATACAGGAAGACAAGACT
* *
25898062 TGCTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTTAGTCTACTTC
66 TGCTACCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGTTATCTTTAGTCTACTTC
25898127 GCTAC
131 GCTAC
*
25898132 CAATACAGGAAGACAAGA-CT-TACTATCTTC-GATCTACTTCGCTGTCAATACAGGAAGACAAG
1 CAATACAGGAAGACAAGATCTGT--TATCTTCAG-TCTACTTCGCTGACAATACAGGAAGACAAG
* * *
25898194 A-TCTGCTACCTTC-AGTTTACTTTACTGCCAATATAGGAAGACAAGA
63 ACT-TGCTACCTTCGA-TCTACTTCACTGCCAATACAGGAAGACAAGA
25898240 CTTGCTATGA
Statistics
Matches: 95, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
133 1 0.01
134 5 0.05
135 89 0.94
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (135 bp):
CAATACAGGAAGACAAGATCTGTTATCTTCAGTCTACTTCGCTGACAATACAGGAAGACAAGACT
TGCTACCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGTTATCTTTAGTCTACTTC
GCTAC
Found at i:25898246 original size:45 final size:45
Alignment explanation
Indices: 25897997--25898247 Score: 296
Period size: 45 Copynumber: 5.6 Consensus size: 45
25897987 GTTTCGCCAT
* * * *
25897997 CAATACAGGAAGGCAAGATCTGTTATCTTCAGTCTACTTTGCTGA
1 CAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTCGCTGC
25898042 CAATACAGGAAGACAAGA-CTTGCTATCTTC-GATCTACTTCGCTGC
1 CAATACAGGAAGACAAGATC-TGCTATCTTCAG-TCTACTTCGCTGC
* * *
25898087 CAATACAGGAAGACAAGATCTGTTATCTTTAGTCTACTTCGCTAC
1 CAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTCGCTGC
* *
25898132 CAATACAGGAAGACAAGA-CTTACTATCTTC-GATCTACTTCGCTGT
1 CAATACAGGAAGACAAGATC-TGCTATCTTCAG-TCTACTTCGCTGC
* * **
25898177 CAATACAGGAAGACAAGATCTGCTACCTTCAGTTTACTTTACTGC
1 CAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTCGCTGC
*
25898222 CAATATAGGAAGACAAGA-CTTGCTAT
1 CAATACAGGAAGACAAGATC-TGCTAT
25898248 GATGACTTCA
Statistics
Matches: 177, Mismatches: 20, Indels: 18
0.82 0.09 0.08
Matches are distributed among these distances:
44 5 0.03
45 168 0.95
46 4 0.02
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (45 bp):
CAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTTCGCTGC
Found at i:25898800 original size:46 final size:44
Alignment explanation
Indices: 25898701--25898802 Score: 105
Period size: 46 Copynumber: 2.2 Consensus size: 44
25898691 GCAAAGCTCG
* * *
25898701 AAATGAATGAATCAATCAAGATAGCAATTTTTGCTAGAATAAAA
1 AAATGAATAAATCAATCAAGATAGCAATTTTTGCAAAAATAAAA
* * * * *
25898745 AATAAGAATAAATTAATCAAGATGGCGTATTTTTTCAAAAATACAAA
1 AA-ATGAATAAATCAATCAAGATAGC-AATTTTTGCAAAAATA-AAA
25898792 AAATGAATAAA
1 AAATGAATAAA
25898803 ATGGAAATAG
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
44 2 0.04
45 19 0.41
46 20 0.43
47 5 0.11
ACGTcount: A:0.53, C:0.08, G:0.12, T:0.27
Consensus pattern (44 bp):
AAATGAATAAATCAATCAAGATAGCAATTTTTGCAAAAATAAAA
Found at i:25899569 original size:8 final size:8
Alignment explanation
Indices: 25899556--25899624 Score: 52
Period size: 8 Copynumber: 8.6 Consensus size: 8
25899546 CCGGTAGAGG
25899556 TTTTTTGT
1 TTTTTTGT
*
25899564 TTTTTT-A
1 TTTTTTGT
25899571 TTTTTT-T
1 TTTTTTGT
* *
25899578 TATTTTCT
1 TTTTTTGT
* *
25899586 TATTTTCT
1 TTTTTTGT
25899594 TATTTTTGTT
1 T-TTTTTG-T
25899604 TTTTTTGT
1 TTTTTTGT
*
25899612 TTTTTTAT
1 TTTTTTGT
25899620 TTTTT
1 TTTTT
25899625 GCCTCCACGG
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
7 11 0.21
8 29 0.56
9 10 0.19
10 2 0.04
ACGTcount: A:0.07, C:0.03, G:0.04, T:0.86
Consensus pattern (8 bp):
TTTTTTGT
Found at i:25899575 original size:9 final size:9
Alignment explanation
Indices: 25899563--25899624 Score: 54
Period size: 9 Copynumber: 6.6 Consensus size: 9
25899553 AGGTTTTTTG
25899563 TTTTTTTAT
1 TTTTTTTAT
25899572 TTTTTTTAT
1 TTTTTTTAT
*
25899581 TTTCTTATTTT
1 TTT-TT-TTAT
*
25899592 CTTATTTTTGT
1 -TT-TTTTTAT
*
25899603 TTTTTTT-G
1 TTTTTTTAT
25899611 TTTTTTTAT
1 TTTTTTTAT
25899620 TTTTT
1 TTTTT
25899625 GCCTCCACGG
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
8 7 0.16
9 22 0.50
10 4 0.09
11 6 0.14
12 4 0.09
13 1 0.02
ACGTcount: A:0.08, C:0.03, G:0.03, T:0.85
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:25905321 original size:18 final size:17
Alignment explanation
Indices: 25905288--25905321 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
25905278 AATTTTCATG
25905288 ATAAAAAATGATAAAAA
1 ATAAAAAATGATAAAAA
*
25905305 ATAAAAGAATTATAAAA
1 ATAAAA-AATGATAAAA
25905322 TAAATAACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (17 bp):
ATAAAAAATGATAAAAA
Found at i:25908201 original size:13 final size:13
Alignment explanation
Indices: 25908185--25908209 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25908175 TTACCTCTTT
25908185 ATTTAATTTTTAA
1 ATTTAATTTTTAA
25908198 ATTTAATTTTTA
1 ATTTAATTTTTA
25908210 TGAAATAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
ATTTAATTTTTAA
Found at i:25913179 original size:17 final size:16
Alignment explanation
Indices: 25913157--25913190 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25913147 ATTATATAAT
25913157 TAATGATAATTAAATTA
1 TAATGAT-ATTAAATTA
*
25913174 TAATGATATTATATTA
1 TAATGATATTAAATTA
25913190 T
1 T
25913191 TAAATAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
TAATGATATTAAATTA
Found at i:25914336 original size:40 final size:41
Alignment explanation
Indices: 25914259--25914346 Score: 106
Period size: 40 Copynumber: 2.2 Consensus size: 41
25914249 TATTATGGAA
* * *
25914259 TACTGAATATTGTTTTTGAGTACTAAATTAAATTGTGAAGT
1 TACTGAATATTGTTTATGAGTACTAAATTAAACTGTGAAAT
* ** *
25914300 TACTGAATATTG-TTATGTGTACTGCATTGAACTGTGAAAT
1 TACTGAATATTGTTTATGAGTACTAAATTAAACTGTGAAAT
25914340 TACTGAA
1 TACTGAA
25914347 GTAATGAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 28 0.70
41 12 0.30
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (41 bp):
TACTGAATATTGTTTATGAGTACTAAATTAAACTGTGAAAT
Found at i:25914618 original size:45 final size:45
Alignment explanation
Indices: 25914550--25914650 Score: 121
Period size: 45 Copynumber: 2.2 Consensus size: 45
25914540 GCTGACTACT
* *
25914550 GTTACTGTTACCGATTAACCACTTCGTGTGTCGGATACTGTTACC
1 GTTACTGTTACAGATTAACCACTTCGTGTGTCGAATACTGTTACC
* * * * * *
25914595 GTTACTGTTACAGATTCAGCACTTTGTGTGTTGAATATTGTTACT
1 GTTACTGTTACAGATTAACCACTTCGTGTGTCGAATACTGTTACC
*
25914640 GTTATTGTTAC
1 GTTACTGTTAC
25914651 CGTTACTGAT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.42
Consensus pattern (45 bp):
GTTACTGTTACAGATTAACCACTTCGTGTGTCGAATACTGTTACC
Found at i:25920639 original size:17 final size:16
Alignment explanation
Indices: 25920617--25920650 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25920607 ATTATATAAT
25920617 TAATGATAATTAAATTA
1 TAATGAT-ATTAAATTA
*
25920634 TAATGATATTATATTA
1 TAATGATATTAAATTA
25920650 T
1 T
25920651 TAAATAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
TAATGATATTAAATTA
Found at i:25925353 original size:24 final size:24
Alignment explanation
Indices: 25925315--25925360 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
25925305 CATATATCAT
25925315 TAAGCACAAAGTGC-AAATAATGA
1 TAAGCACAAAGTGCAAAATAATGA
*
25925338 TAAGCACCGAAGTGCAAAATAAT
1 TAAGCA-CAAAGTGCAAAATAAT
25925361 TACAATAAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.17
Consensus pattern (24 bp):
TAAGCACAAAGTGCAAAATAATGA
Found at i:25927003 original size:25 final size:24
Alignment explanation
Indices: 25926969--25927159 Score: 82
Period size: 25 Copynumber: 8.1 Consensus size: 24
25926959 CTTATCAGGG
25926969 TACGCCACAAAGGCAACATATAGAA
1 TACGCCACAAAGGC-ACATATAGAA
25926994 TACGCCACAAAGG--C-TATCAGAA
1 TACGCCACAAAGGCACATAT-AGAA
* * * *
25927016 TATGCCACAAA-ACGC-TATCAGAG
1 TACGCCACAAAGGCACATAT-AGAA
** ** * *
25927039 TTTGCCACAAATGAAACATACATAA
1 TACGCCACAAA-GGCACATATAGAA
*
25927064 TACGCCACAAAGGTCA-A-ATAAAA
1 TACGCCACAAAGG-CACATATAGAA
*
25927087 TACACCACAAA-G-AC-TATCA-AA
1 TACGCCACAAAGGCACATAT-AGAA
* *
25927108 GTACGCCACAAAGGCAACATACAAAA
1 -TACGCCACAAAGGC-ACATATAGAA
* *
25927134 TACACCACAAAGGC-CAAATAGAA
1 TACGCCACAAAGGCACATATAGAA
25927157 TAC
1 TAC
25927160 CACCCAGACA
Statistics
Matches: 128, Mismatches: 22, Indels: 34
0.70 0.12 0.18
Matches are distributed among these distances:
20 1 0.01
21 7 0.05
22 27 0.21
23 42 0.33
24 2 0.02
25 43 0.34
26 6 0.05
ACGTcount: A:0.48, C:0.25, G:0.13, T:0.14
Consensus pattern (24 bp):
TACGCCACAAAGGCACATATAGAA
Found at i:25927036 original size:23 final size:23
Alignment explanation
Indices: 25926990--25927049 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
25926980 GGCAACATAT
* *
25926990 AGAATACGCCAC-AAAGGCTATC
1 AGAATATGCCACAAAACGCTATC
25927012 AGAATATGCCACAAAACGCTATC
1 AGAATATGCCACAAAACGCTATC
* *
25927035 AGAGTTTGCCACAAA
1 AGAATATGCCACAAA
25927050 TGAAACATAC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
22 11 0.33
23 22 0.67
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.17
Consensus pattern (23 bp):
AGAATATGCCACAAAACGCTATC
Done.