Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 29 of 172
Found at i:9017935 original size:14 final size:14
Alignment explanation
Indices: 9017916--9017948 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
9017906 TCAACAAGCT
*
9017916 TTAGACATATTTAA
1 TTAGACATATATAA
9017930 TTAGACATATATAA
1 TTAGACATATATAA
9017944 TTAGA
1 TTAGA
9017949 GATCAAATAA
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:0.09, T:0.39
Consensus pattern (14 bp):
TTAGACATATATAA
Found at i:9020340 original size:38 final size:39
Alignment explanation
Indices: 9020270--9020345 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 39
9020260 TTACATGTTA
*
9020270 TAATGAGATCTAGAATTTGTTGCAGATCCTCAGGTTATT
1 TAATGAGATCTAGAACTTGTTGCAGATCCTCAGGTTATT
* * *
9020309 TAATGAGATCTAG-CCTTGTTGTAGATTCTCAGGTTAT
1 TAATGAGATCTAGAACTTGTTGCAGATCCTCAGGTTAT
9020346 ATGTAACATA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
38 20 0.61
39 13 0.39
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.39
Consensus pattern (39 bp):
TAATGAGATCTAGAACTTGTTGCAGATCCTCAGGTTATT
Found at i:9027124 original size:24 final size:25
Alignment explanation
Indices: 9027094--9027150 Score: 89
Period size: 24 Copynumber: 2.3 Consensus size: 25
9027084 TTTCTTTTAT
9027094 TTATTATATTTAGTA-ATTTTATTA
1 TTATTATATTTAGTATATTTTATTA
9027118 TTATTATATTTAGTATTATTTTATTA
1 TTATTATATTTAGTA-TATTTTATTA
*
9027144 TCATTAT
1 TTATTAT
9027151 TCCTACTAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 15 0.50
26 15 0.50
ACGTcount: A:0.32, C:0.02, G:0.04, T:0.63
Consensus pattern (25 bp):
TTATTATATTTAGTATATTTTATTA
Found at i:9027283 original size:16 final size:16
Alignment explanation
Indices: 9027264--9027299 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
9027254 TAGTAGGTTC
*
9027264 TATTCTTATTATTTTT
1 TATTCTTATTATTTAT
*
9027280 TATTGTTATTATTTAT
1 TATTCTTATTATTTAT
9027296 TATT
1 TATT
9027300 ACGATATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.72
Consensus pattern (16 bp):
TATTCTTATTATTTAT
Found at i:9028702 original size:18 final size:17
Alignment explanation
Indices: 9028679--9028740 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 17
9028669 ATCACTGATC
9028679 TTATTTATTTTTTTAGTT
1 TTATTTATTTTTTTA-TT
9028697 TTATTTTTATTTTTGTTATT
1 TTA--TTTATTTTT-TTATT
*
9028717 GTT-TTTAGTTGTTTTATT
1 -TTATTTA-TTTTTTTATT
9028735 TTATTT
1 TTATTT
9028741 CTTATAACTT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
17 2 0.05
18 15 0.41
19 4 0.11
20 11 0.30
21 5 0.14
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (17 bp):
TTATTTATTTTTTTATT
Found at i:9036575 original size:24 final size:27
Alignment explanation
Indices: 9036543--9036594 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 27
9036533 AGTTCATGCA
9036543 ATATTAAAGC-ATTTAA-ATAC-AACT
1 ATATTAAAGCTATTTAACATACGAACT
9036567 ATATTAAAGCTTATTTAACATACGAACT
1 ATATTAAAGC-TATTTAACATACGAACT
9036595 TACCTCGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 10 0.42
26 6 0.25
27 4 0.17
28 4 0.17
ACGTcount: A:0.46, C:0.13, G:0.06, T:0.35
Consensus pattern (27 bp):
ATATTAAAGCTATTTAACATACGAACT
Found at i:9042361 original size:40 final size:40
Alignment explanation
Indices: 9042295--9042469 Score: 133
Period size: 40 Copynumber: 4.3 Consensus size: 40
9042285 AACTATGTTT
* **
9042295 AGCACTTAGTGTGCGTTTCAAGATAGCTTCGGCTAT-ATAA
1 AGCACTTAGTGTGAGAATCAA-ATAGCTTCGGCTATGATAA
*
9042335 AGCACTTAGTGTGAGAATCATAATAGCTTCGGCTAT-ATAT
1 AGCACTTAGTGTGAGAATCA-AATAGCTTCGGCTATGATAA
** * * *
9042375 AGCACTTAGCGTGTGAGGTTGAGATAGCTTTGGCTATGA-AA
1 AGCACTTA--GTGTGAGAATCAAATAGCTTCGGCTATGATAA
* * * * **
9042416 GGCACTT-GTGTGTGAGATTATAATAGCTTCGGCTATGCTTT
1 AGCACTTAGTGTGAGA-ATCA-AATAGCTTCGGCTATGATAA
9042457 AGCACTTAGTGTG
1 AGCACTTAGTGTG
9042470 CAAGATATTG
Statistics
Matches: 106, Mismatches: 21, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
38 6 0.06
39 2 0.02
40 56 0.53
41 27 0.25
42 15 0.14
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (40 bp):
AGCACTTAGTGTGAGAATCAAATAGCTTCGGCTATGATAA
Found at i:9042403 original size:81 final size:82
Alignment explanation
Indices: 9042315--9042465 Score: 209
Period size: 81 Copynumber: 1.9 Consensus size: 82
9042305 GTGCGTTTCA
9042315 AGATAGCTTCGGCTAT-ATAAAGCACTTAGTGTGAGA-ATCATAATAGCTTCGGCTAT-ATATAG
1 AGATAGCTTCGGCTATGA-AAAGCACTT-GTGTGAGAGATCATAATAGCTTCGGCTATGATATAG
9042377 CACTTAGCGTGTGAGGTTG
64 CACTTAGCGTGTGAGGTTG
* * * * * *
9042396 AGATAGCTTTGGCTATGAAAGGCACTTGTGTGTGAGATTATAATAGCTTCGGCTATGCTTTAGCA
1 AGATAGCTTCGGCTATGAAAAGCACTTGTGTGAGAGATCATAATAGCTTCGGCTATGATATAGCA
9042461 CTTAG
66 CTTAG
9042466 TGTGCAAGAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
80 7 0.11
81 42 0.69
82 12 0.20
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (82 bp):
AGATAGCTTCGGCTATGAAAAGCACTTGTGTGAGAGATCATAATAGCTTCGGCTATGATATAGCA
CTTAGCGTGTGAGGTTG
Found at i:9044797 original size:48 final size:48
Alignment explanation
Indices: 9044648--9044795 Score: 197
Period size: 48 Copynumber: 3.1 Consensus size: 48
9044638 CACATGGTAG
* * * * * *
9044648 GATGCCAATGCCATATCCCCGATATGGTATTACATGAGATCACATATT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
** *
9044696 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCGTAGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* *
9044744 GATGTCAATGCCATGTCCCAGACATAGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
9044792 GATG
1 GATG
9044796 TCGATAGCTC
Statistics
Matches: 86, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 86 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:9053313 original size:10 final size:10
Alignment explanation
Indices: 9053298--9053324 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
9053288 AGATAAGCTC
9053298 TTATTCTTTA
1 TTATTCTTTA
9053308 TTATTCTTTA
1 TTATTCTTTA
9053318 TTATTCT
1 TTATTCT
9053325 GAGATGTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.70
Consensus pattern (10 bp):
TTATTCTTTA
Found at i:9055629 original size:51 final size:50
Alignment explanation
Indices: 9055550--9055650 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 50
9055540 AAGTTCGACA
* * *
9055550 CTTTTAAGGTAAACAACACCTATTTAAAACCATATTTTGATGAGATTGAT
1 CTTTTAAGGTAAACAACACCCATCTAAAACCATATTTTGATGAGAATGAT
* * *
9055600 NCTTTTAAGGTAAACTACACCCGTCTAAAACCTTATTTTGATGAGAATGAT
1 -CTTTTAAGGTAAACAACACCCATCTAAAACCATATTTTGATGAGAATGAT
9055651 AGTAGGAATG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (50 bp):
CTTTTAAGGTAAACAACACCCATCTAAAACCATATTTTGATGAGAATGAT
Found at i:9060685 original size:29 final size:29
Alignment explanation
Indices: 9060642--9060700 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
9060632 TCTAACTTGA
* *
9060642 CACAAATTCTCAACGAACAAGTTCTTCAC
1 CACAAACTCTCAACGAACAAGTTCTCCAC
*
9060671 CACAAACTCTTAACGAACAAGTTCTCCAC
1 CACAAACTCTCAACGAACAAGTTCTCCAC
9060700 C
1 C
9060701 TCTTCTACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.37, C:0.34, G:0.07, T:0.22
Consensus pattern (29 bp):
CACAAACTCTCAACGAACAAGTTCTCCAC
Found at i:9063125 original size:161 final size:162
Alignment explanation
Indices: 9062853--9063182 Score: 581
Period size: 161 Copynumber: 2.0 Consensus size: 162
9062843 TTTGTTGTGC
*
9062853 TCAAGTGGGAATTATTTTTCCTTCTCCCTGTTTGTGCCGCCCATGTTGTTGGTAATTGGGTTAAA
1 TCAAGTGGGAATTATTTTTCCTACTCCCTGTTTGTGCCGCCCATGTTGTTGGTAATTGGGTTAAA
*
9062918 TTCAAATTCTGATTAGTTAGATAAGATTAGTGGTTAAATCTTGTTAGTTGATATAATAGTG-TTT
66 TTCAAATTCTGATTAGTTAGATAAGATTAGTGGTTAAATATTGTTAGTTGATATAATAGTGTTTT
9062982 TTTTTAAATTGAGGAATATCTCCTAAAATCTT
131 TTTTTAAATTGAGGAATATCTCCTAAAATCTT
* *
9063014 TCAAGTGGGAATTATTTTTCCTACTTCCTGTTTGTGTCGCCCATGTTGTTGGTAATTGGGTTAAA
1 TCAAGTGGGAATTATTTTTCCTACTCCCTGTTTGTGCCGCCCATGTTGTTGGTAATTGGGTTAAA
* * * *
9063079 TTTAAATTTTGATTAGTTGGATAGGATTAGTGGTTAAATATTGTTAGTTGATATAATAGTGTTTT
66 TTCAAATTCTGATTAGTTAGATAAGATTAGTGGTTAAATATTGTTAGTTGATATAATAGTGTTTT
9063144 TTTTTAAATTGAGGAATATCTCCTAAAATCTT
131 TTTTTAAATTGAGGAATATCTCCTAAAATCTT
9063176 TCAAGTG
1 TCAAGTG
9063183 ACTATCACAC
Statistics
Matches: 160, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
161 118 0.74
162 42 0.26
ACGTcount: A:0.26, C:0.10, G:0.19, T:0.44
Consensus pattern (162 bp):
TCAAGTGGGAATTATTTTTCCTACTCCCTGTTTGTGCCGCCCATGTTGTTGGTAATTGGGTTAAA
TTCAAATTCTGATTAGTTAGATAAGATTAGTGGTTAAATATTGTTAGTTGATATAATAGTGTTTT
TTTTTAAATTGAGGAATATCTCCTAAAATCTT
Found at i:9067623 original size:16 final size:15
Alignment explanation
Indices: 9067602--9067659 Score: 57
Period size: 15 Copynumber: 3.8 Consensus size: 15
9067592 CAACCAAAAG
*
9067602 TGTTAATTAAGGTTAA
1 TGTTAATTAA-ATTAA
9067618 TGTTAA-TAAATTAA
1 TGTTAATTAAATTAA
*
9067632 TGTTTAATTAAACTAA
1 TG-TTAATTAAATTAA
9067648 T-TATAATTAAAT
1 TGT-TAATTAAAT
9067660 AATAAGTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
14 7 0.19
15 15 0.42
16 14 0.39
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.45
Consensus pattern (15 bp):
TGTTAATTAAATTAA
Found at i:9069639 original size:49 final size:49
Alignment explanation
Indices: 9069582--9069675 Score: 143
Period size: 49 Copynumber: 1.9 Consensus size: 49
9069572 GGCTAGGCCG
*
9069582 TGTGATCCACACGGCCAAGGCCAATTTCGGCCGTGTGGGCCCACATGCC
1 TGTGATCCACACGGCCAAGGCCAATTTCAGCCGTGTGGGCCCACATGCC
* ** *
9069631 TGTGATCCATACGGTGAAGGCCAATTTCAGTCGTGTGGGCCCACA
1 TGTGATCCACACGGCCAAGGCCAATTTCAGCCGTGTGGGCCCACA
9069676 CGAGTAGGCC
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.20, C:0.30, G:0.29, T:0.21
Consensus pattern (49 bp):
TGTGATCCACACGGCCAAGGCCAATTTCAGCCGTGTGGGCCCACATGCC
Found at i:9070840 original size:48 final size:48
Alignment explanation
Indices: 9070786--9070933 Score: 199
Period size: 48 Copynumber: 3.1 Consensus size: 48
9070776 AACCAAACAT
* * *
9070786 TATTATTCATTAATCGTGTAGGTTTAACCCTAATGGGTAATTAGGCAC
1 TATTATTCATTATTCGTGTAGGTTTAACCCTAACGGGTAACTAGGCAC
*
9070834 TATTATTCATTATTCGTGTAGGTTTAACCCTAACGGGTAACTAGGTAC
1 TATTATTCATTATTCGTGTAGGTTTAACCCTAACGGGTAACTAGGCAC
* * * * *
9070882 TATTA-TCTTTTATTCATGTAGGTTTAACCCAAACGGGTAACCAGACAC
1 TATTATTC-ATTATTCGTGTAGGTTTAACCCTAACGGGTAACTAGGCAC
9070930 TATT
1 TATT
9070934 TTTTTCACCT
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
47 2 0.02
48 87 0.98
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (48 bp):
TATTATTCATTATTCGTGTAGGTTTAACCCTAACGGGTAACTAGGCAC
Found at i:9073358 original size:43 final size:44
Alignment explanation
Indices: 9073309--9073459 Score: 193
Period size: 43 Copynumber: 3.5 Consensus size: 44
9073299 GATGACCGAG
*
9073309 ATGTGATTACATGTAAGACCATGTTTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATGTTTGGGACATTGGCATCGTAT
*
9073353 -TGTGATTACATGTAAGATCAT-TTCTGGGACATTGGCATCGT-T
1 ATGTGATTACATGTAAGACCATGTT-TGGGACATTGGCATCGTAT
* * * * *
9073395 ATATGATTTCGTGTAAGACCATGTCTGAGACATTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATGTTTGGGACATTGGCATCGTAT
*
9073438 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
9073460 ATCTAGGATA
Statistics
Matches: 91, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
42 3 0.03
43 87 0.96
44 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.34
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTTTGGGACATTGGCATCGTAT
Found at i:9083579 original size:40 final size:40
Alignment explanation
Indices: 9083515--9083606 Score: 125
Period size: 40 Copynumber: 2.3 Consensus size: 40
9083505 ATTAATTTCA
*
9083515 GCACTAAGTGTGCGGTTTGAAATAGCTTCGGCTACA-AATG
1 GCACTAAGTGTGCGGTTTGAAATAGCTTCAGCTACATAA-G
* *
9083555 GCACTAAGTGTGCGAG-TTGGAATAGCTTCAGCTACATGAG
1 GCACTAAGTGTGCG-GTTTGAAATAGCTTCAGCTACATAAG
9083595 GCACTAAGTGTG
1 GCACTAAGTGTG
9083607 TGATACCGAG
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
40 45 0.96
41 2 0.04
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.26
Consensus pattern (40 bp):
GCACTAAGTGTGCGGTTTGAAATAGCTTCAGCTACATAAG
Found at i:9085253 original size:20 final size:20
Alignment explanation
Indices: 9085228--9085295 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
9085218 AAAATAACAA
9085228 AGTAAGTATATGAATTACTT
1 AGTAAGTATATGAATTACTT
* * **
9085248 AGTAAGTTTAAAT-AATAACAA
1 AGTAAG--TATATGAATTACTT
*
9085269 ACTAAGTATATGAATTACTT
1 AGTAAGTATATGAATTACTT
9085289 AGTAAGT
1 AGTAAGT
9085296 TTACACAATT
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
19 4 0.11
20 17 0.49
21 10 0.29
22 4 0.11
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (20 bp):
AGTAAGTATATGAATTACTT
Found at i:9085275 original size:41 final size:41
Alignment explanation
Indices: 9085220--9085298 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
9085210 ATAGAAAAAA
*
9085220 AATAACAAAGTAAGTATATGAATTACTTAGTAAGTTTAAAT
1 AATAACAAACTAAGTATATGAATTACTTAGTAAGTTTAAAT
9085261 AATAACAAACTAAGTATATGAATTACTTAGTAAGTTTA
1 AATAACAAACTAAGTATATGAATTACTTAGTAAGTTTA
9085299 CACAATTTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.34
Consensus pattern (41 bp):
AATAACAAACTAAGTATATGAATTACTTAGTAAGTTTAAAT
Found at i:9089811 original size:14 final size:16
Alignment explanation
Indices: 9089780--9089811 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
9089770 CTAGAGATAT
9089780 ATATGTAATCATTAAA
1 ATATGTAATCATTAAA
9089796 ATATGT-ATCA-TAAA
1 ATATGTAATCATTAAA
9089810 AT
1 AT
9089812 GAAGATTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 4 0.25
16 6 0.38
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (16 bp):
ATATGTAATCATTAAA
Found at i:9090153 original size:29 final size:27
Alignment explanation
Indices: 9090107--9090160 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
9090097 ATATAAATAG
9090107 TCAAAATAATATGATATAAAAATAAATT
1 TCAAAATAATATGATAT-AAAATAAATT
**
9090135 TCAAAATAATGATTTTATAAAATAAA
1 TCAAAATAAT-ATGATATAAAATAAA
9090161 GTAAAGTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (27 bp):
TCAAAATAATATGATATAAAATAAATT
Found at i:9093194 original size:17 final size:18
Alignment explanation
Indices: 9093169--9093202 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9093159 AATAACTTCA
9093169 TTCAAACCAA-ATCAACT
1 TTCAAACCAATATCAACT
*
9093186 TTCATACCAATATCAAC
1 TTCAAACCAATATCAAC
9093203 CCAAATTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.44, C:0.29, G:0.00, T:0.26
Consensus pattern (18 bp):
TTCAAACCAATATCAACT
Found at i:9094109 original size:5 final size:5
Alignment explanation
Indices: 9094099--9094124 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
9094089 ATGAATTTGT
9094099 TTCAA TTCAA TTCAA TTCAA TTCAA T
1 TTCAA TTCAA TTCAA TTCAA TTCAA T
9094125 ACTACAATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.42
Consensus pattern (5 bp):
TTCAA
Found at i:9094424 original size:21 final size:23
Alignment explanation
Indices: 9094399--9094440 Score: 70
Period size: 21 Copynumber: 1.9 Consensus size: 23
9094389 ATCCCTAAAC
9094399 AAAACTAATT-T-TATTTTCAAT
1 AAAACTAATTCTGTATTTTCAAT
9094420 AAAACTAATTCTGTATTTTCA
1 AAAACTAATTCTGTATTTTCA
9094441 TTCTATTCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.53
22 1 0.05
23 8 0.42
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.45
Consensus pattern (23 bp):
AAAACTAATTCTGTATTTTCAAT
Found at i:9101207 original size:48 final size:48
Alignment explanation
Indices: 9101125--9101220 Score: 115
Period size: 48 Copynumber: 2.0 Consensus size: 48
9101115 GCTTGAGCTT
* * *
9101125 TAGGGCTGGAATATTACTTTCTGCGATCTTTATTGAAATATCCTGCTG
1 TAGGGCTGGAATATTACTTTCCGCAATCTTTATTGAAATATCCCGCTG
* *
9101173 TAGGGCTGGTAA-ATTGCTTTCCGCAAT-TTCTATTGGAATATCCCGCTG
1 TAGGGCTGG-AATATTACTTTCCGCAATCTT-TATTGAAATATCCCGCTG
9101221 AAGTGGTCGA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
47 2 0.05
48 37 0.90
49 2 0.05
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.38
Consensus pattern (48 bp):
TAGGGCTGGAATATTACTTTCCGCAATCTTTATTGAAATATCCCGCTG
Found at i:9107171 original size:23 final size:24
Alignment explanation
Indices: 9107127--9107171 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
9107117 GAAATCCTAC
9107127 CCATCCAACCTCTACACACCATCT
1 CCATCCAACCTCTACACACCATCT
*
9107151 CCATCCAACC-CTACACTCCAT
1 CCATCCAACCTCTACACACCAT
9107172 GTGGGGATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.29, C:0.51, G:0.00, T:0.20
Consensus pattern (24 bp):
CCATCCAACCTCTACACACCATCT
Found at i:9112893 original size:57 final size:57
Alignment explanation
Indices: 9112829--9113006 Score: 199
Period size: 57 Copynumber: 3.1 Consensus size: 57
9112819 ATTATTGTTG
9112829 TTAATTTAGTGTTTAAATTAAATTATTATCAGAAAATTTTACTGTATCTATTTTTTA
1 TTAATTTAGTGTTTAAATTAAATTATTATCAGAAAATTTTACTGTATCTATTTTTTA
* * ** * *
9112886 TTAATTTA-TG--GAAATTATAATTATTAGATACA-AATATATTTA-TAAAAT-TA-TTGTTG
1 TTAATTTAGTGTTTAAATTA-AATTATT--AT-CAGAAAAT-TTTACT-GTATCTATTTTTTA
9112942 TTAATTTAGTGTTTAAATTAAATTATTATCAGAAAATTTTACTGTATCTATTTTTTA
1 TTAATTTAGTGTTTAAATTAAATTATTATCAGAAAATTTTACTGTATCTATTTTTTA
9112999 TTAATTTA
1 TTAATTTA
9113007 TGGAAATTAT
Statistics
Matches: 96, Mismatches: 12, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
54 6 0.06
55 15 0.16
56 23 0.24
57 31 0.32
58 15 0.16
59 6 0.06
ACGTcount: A:0.38, C:0.04, G:0.07, T:0.51
Consensus pattern (57 bp):
TTAATTTAGTGTTTAAATTAAATTATTATCAGAAAATTTTACTGTATCTATTTTTTA
Found at i:9112911 original size:55 final size:54
Alignment explanation
Indices: 9112843--9113025 Score: 194
Period size: 55 Copynumber: 3.3 Consensus size: 54
9112833 TTTAGTGTTT
9112843 AAATTAAATTATTATCAGAAAATTTTACTGTATCTATTTTTTATTAATTTATGG
1 AAATTAAATTATTATCAGAAAATTTTACTGTATCTATTTTTTATTAATTTATGG
* ** * * *
9112897 AAATTATAATTATTAGATACA-AATATATTTA-TAAAAT-TA-TTGTTGTTAATTTAGTGTTT
1 AAATTA-AATTATT--AT-CAGAAAAT-TTTACT-GTATCTATTTTTTATTAATTTA-TG--G
9112956 AAATTAAATTATTATCAGAAAATTTTACTGTATCTATTTTTTATTAATTTATGG
1 AAATTAAATTATTATCAGAAAATTTTACTGTATCTATTTTTTATTAATTTATGG
9113010 AAATTATAATTATTAT
1 AAATTA-AATTATTAT
9113026 TATTAGGAAA
Statistics
Matches: 103, Mismatches: 12, Indels: 27
0.73 0.08 0.19
Matches are distributed among these distances:
54 12 0.12
55 24 0.23
56 23 0.22
57 23 0.22
58 15 0.15
59 6 0.06
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (54 bp):
AAATTAAATTATTATCAGAAAATTTTACTGTATCTATTTTTTATTAATTTATGG
Found at i:9112946 original size:113 final size:113
Alignment explanation
Indices: 9112777--9113024 Score: 487
Period size: 113 Copynumber: 2.2 Consensus size: 113
9112767 TACTAATATT
*
9112777 TTTATGAAAATTATAATTATTAGATACAAATATATTTATAAAATTATTGTTGTTAATTTAGTGTT
1 TTTATGGAAATTATAATTATTAGATACAAATATATTTATAAAATTATTGTTGTTAATTTAGTGTT
9112842 TAAATTAAATTATTATCAGAAAATTTTACTGTATCTATTTTTTATTAA
66 TAAATTAAATTATTATCAGAAAATTTTACTGTATCTATTTTTTATTAA
9112890 TTTATGGAAATTATAATTATTAGATACAAATATATTTATAAAATTATTGTTGTTAATTTAGTGTT
1 TTTATGGAAATTATAATTATTAGATACAAATATATTTATAAAATTATTGTTGTTAATTTAGTGTT
9112955 TAAATTAAATTATTATCAGAAAATTTTACTGTATCTATTTTTTATTAA
66 TAAATTAAATTATTATCAGAAAATTTTACTGTATCTATTTTTTATTAA
9113003 TTTATGGAAATTATAATTATTA
1 TTTATGGAAATTATAATTATTA
9113025 TTATTAGGAA
Statistics
Matches: 134, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
113 134 1.00
ACGTcount: A:0.40, C:0.03, G:0.08, T:0.50
Consensus pattern (113 bp):
TTTATGGAAATTATAATTATTAGATACAAATATATTTATAAAATTATTGTTGTTAATTTAGTGTT
TAAATTAAATTATTATCAGAAAATTTTACTGTATCTATTTTTTATTAA
Found at i:9113025 original size:58 final size:58
Alignment explanation
Indices: 9112850--9113037 Score: 178
Period size: 56 Copynumber: 3.3 Consensus size: 58
9112840 TTTAAATTAA
9112850 ATTATTATCAGAAAATTTTACTGTATCTATTTTTTATTAATTTATGGAAATTATAATT
1 ATTATTATCAGAAAATTTTACTGTATCTATTTTTTATTAATTTATGGAAATTATAATT
* * ** * * *
9112908 ATTA-GATACA-AATATATTTA-TAAAAT-TA-TTGTTGTTAATTTA-GTG--TTTA-AATT
1 ATTATTAT-CAGAAAAT-TTTACT-GTATCTATTTTTTATTAATTTATG-GAAATTATAATT
9112961 AAATTATTATCAGAAAATTTTACTGTATCTATTTTTTATTAATTTATGGAAATTATAATT
1 --ATTATTATCAGAAAATTTTACTGTATCTATTTTTTATTAATTTATGGAAATTATAATT
*
9113021 ATTATTATTAGGAAAAT
1 ATTATTATCA-GAAAAT
9113038 ATATATATTA
Statistics
Matches: 99, Mismatches: 15, Indels: 31
0.68 0.10 0.21
Matches are distributed among these distances:
53 4 0.04
54 3 0.03
55 13 0.13
56 22 0.22
57 22 0.22
58 22 0.22
59 9 0.09
60 4 0.04
ACGTcount: A:0.39, C:0.04, G:0.08, T:0.49
Consensus pattern (58 bp):
ATTATTATCAGAAAATTTTACTGTATCTATTTTTTATTAATTTATGGAAATTATAATT
Found at i:9114896 original size:8 final size:8
Alignment explanation
Indices: 9114883--9114912 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
9114873 CTAGATCAGC
9114883 AAAAGCCG
1 AAAAGCCG
9114891 AAAAGCCG
1 AAAAGCCG
*
9114899 AAAAGTCG
1 AAAAGCCG
9114907 AAAAGC
1 AAAAGC
9114913 TGGCATTTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.53, C:0.20, G:0.23, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:9115664 original size:60 final size:59
Alignment explanation
Indices: 9115540--9115680 Score: 178
Period size: 60 Copynumber: 2.4 Consensus size: 59
9115530 CCCAACTGTG
* * * *
9115540 CTGATATGGGCAAGGCCCAATATATCTCGACTTGTATAGGGCTACGGCCCAGATTGATA
1 CTGATATGGGCTAGGCCCAGTATATCTCGACTTGTAAAGGGCTACGGCCCAGATTAATA
*
9115599 CTGATATGGGCTAGGCCCAGTATA-CTCTGTTAC-TGTAAAGGGCTATGGCCCAGATTAATA
1 CTGATATGGGCTAGGCCCAGTATATCTC-G--ACTTGTAAAGGGCTACGGCCCAGATTAATA
*
9115659 TTGATATGGGCTAAGGCCCAGT
1 CTGATATGGGCT-AGGCCCAGT
9115681 TAACACTCAA
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
58 3 0.04
59 23 0.32
60 35 0.49
61 11 0.15
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (59 bp):
CTGATATGGGCTAGGCCCAGTATATCTCGACTTGTAAAGGGCTACGGCCCAGATTAATA
Found at i:9128698 original size:47 final size:47
Alignment explanation
Indices: 9128620--9129072 Score: 699
Period size: 47 Copynumber: 9.6 Consensus size: 47
9128610 CCCTTCGGGA
* * * * * *
9128620 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
9128667 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
9128714 CTCATCACATATATACACTTTCACATTCATCATATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
9128761 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9128808 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
9128855 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9128904 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
9128951 CTTATCACATATATATACACTTTCACACTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9129000 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
9129047 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
9129073 CACAATTATC
Statistics
Matches: 374, Mismatches: 28, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
47 285 0.76
49 89 0.24
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:9128905 original size:96 final size:96
Alignment explanation
Indices: 9128620--9129072 Score: 711
Period size: 96 Copynumber: 4.8 Consensus size: 96
9128610 CCCTTCGGGA
* * * * * * * *
9128620 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
9128683 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * *
9128714 CTCATCACATATATACACTTTCACATTCATCATATCGGCTATTAGGCCTTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
9128777 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
9128808 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
9128873 ACTTTCACATTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
9128904 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* * *
9128969 ACTTTCACACTCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
9129000 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
9129065 A--TTCACAT
66 ACTTTCACAT
9129073 CACAATTATC
Statistics
Matches: 337, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
94 140 0.42
96 197 0.58
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:9128933 original size:143 final size:141
Alignment explanation
Indices: 9128620--9129072 Score: 699
Period size: 143 Copynumber: 3.2 Consensus size: 141
9128610 CCCTTCGGGA
* * * * * * * *
9128620 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
9128685 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCATATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
9128750 GGCTATTAGGC
131 GGCCATTAGGC
*
9128761 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
9128826 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
* *
9128891 TTGGCCATTCGGC
129 TCGGCCATTAGGC
9128904 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* * *
9128969 ACTTTCACACTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
9129034 TCGGCCATTAGGC
129 TCGGCCATTAGGC
* *
9129047 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
9129073 CACAATTATC
Statistics
Matches: 286, Mismatches: 22, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
141 92 0.32
143 150 0.52
145 44 0.15
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:9132918 original size:14 final size:14
Alignment explanation
Indices: 9132899--9132933 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
9132889 AATACTATTG
9132899 ATAGATTAAATCCT
1 ATAGATTAAATCCT
9132913 ATAGATTAAATCCT
1 ATAGATTAAATCCT
*
9132927 AAAGATT
1 ATAGATT
9132934 GTTATAGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.34
Consensus pattern (14 bp):
ATAGATTAAATCCT
Found at i:9133224 original size:5 final size:6
Alignment explanation
Indices: 9133206--9133236 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
9133196 TTAAACCCAC
*
9133206 TTGTTT TTATTT TTGTTT TTGTTT TTGTTT T
1 TTGTTT TTGTTT TTGTTT TTGTTT TTGTTT T
9133237 ACTTGTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.03, C:0.00, G:0.13, T:0.84
Consensus pattern (6 bp):
TTGTTT
Found at i:9145368 original size:11 final size:11
Alignment explanation
Indices: 9145307--9145460 Score: 57
Period size: 11 Copynumber: 13.3 Consensus size: 11
9145297 GTACTATTTA
9145307 TATATTTATAT
1 TATATTTATAT
* * *
9145318 AAAATTTTTAT
1 TATATTTATAT
*
9145329 T-TATCATATAT
1 TATAT-TTATAT
*
9145340 TAT-TTTCCTAT
1 TATATTT-ATAT
9145351 ATATATTTATAT
1 -TATATTTATAT
9145363 TATATTT-TAT
1 TATATTTATAT
9145373 TATATAAAATT-TAT
1 TATAT----TTATAT
*
9145387 TATATTTTTAT
1 TATATTTATAT
9145398 TATATATTACTTAT
1 TATAT-TTA--TAT
* *
9145412 TATTTTTTTAT
1 TATATTTATAT
*
9145423 TATATGTTAT-G
1 TATAT-TTATAT
*
9145434 TATATCGTATAT
1 TATAT-TTATAT
*
9145446 TATCTGTTATAT
1 TATAT-TTATAT
9145458 TAT
1 TAT
9145461 TTATGTTTTA
Statistics
Matches: 106, Mismatches: 22, Indels: 29
0.68 0.14 0.18
Matches are distributed among these distances:
10 13 0.12
11 47 0.44
12 24 0.23
13 5 0.05
14 17 0.16
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (11 bp):
TATATTTATAT
Found at i:9145395 original size:25 final size:25
Alignment explanation
Indices: 9145360--9145427 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 25
9145350 TATATATTTA
*
9145360 TATTATA-TTTTATTATATAAAATT
1 TATTATATTTTTATTATATAAAACT
**
9145384 TATTATATTTTTATTATATATTACT
1 TATTATATTTTTATTATATAAAACT
*
9145409 TATTATTTTTTTATTATAT
1 TATTATATTTTTATTATAT
9145428 GTTATGTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 7 0.18
25 32 0.82
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (25 bp):
TATTATATTTTTATTATATAAAACT
Found at i:9145412 original size:14 final size:13
Alignment explanation
Indices: 9145350--9145485 Score: 56
Period size: 11 Copynumber: 10.4 Consensus size: 13
9145340 TATTTTCCTA
9145350 TATATATT-TATAT
1 TATATATTAT-TAT
*
9145363 TATATTTTATTA-
1 TATATATTATTAT
* *
9145375 TATAAAAT-TTAT
1 TATATATTATTAT
9145387 TATAT-TT-TTAT
1 TATATATTATTAT
9145398 TATATATTACTTAT
1 TATATATTA-TTAT
*
9145412 TAT-T-TTTTTAT
1 TATATATTATTAT
*
9145423 TATATGTTATGTAT
1 TATATATTAT-TAT
* *
9145437 ATCGTATATTATCTGT
1 -T-ATATATTAT-TAT
9145453 TATATTATTTATGT-T
1 TATA-TA-TTAT-TAT
9145468 T-TATATTATTCAT
1 TATATATTATT-AT
9145481 TATAT
1 TATAT
9145486 TATTCATAAT
Statistics
Matches: 94, Mismatches: 14, Indels: 29
0.69 0.10 0.21
Matches are distributed among these distances:
11 21 0.22
12 18 0.19
13 17 0.18
14 18 0.19
15 6 0.06
16 14 0.15
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.62
Consensus pattern (13 bp):
TATATATTATTAT
Found at i:9145483 original size:12 final size:12
Alignment explanation
Indices: 9145468--9145492 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9145458 TATTTATGTT
9145468 TTATATTATTCA
1 TTATATTATTCA
9145480 TTATATTATTCA
1 TTATATTATTCA
9145492 T
1 T
9145493 AATTTTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (12 bp):
TTATATTATTCA
Found at i:9145668 original size:43 final size:40
Alignment explanation
Indices: 9145607--9145720 Score: 95
Period size: 43 Copynumber: 2.8 Consensus size: 40
9145597 TTTTAAATTG
* ** **
9145607 ATATTTTTA-TGTATTATATAATTATTTTATAAATTCTTTTAC
1 ATATTTTTATTTTA-TATATAATTATTTTATAAAAAC--CAAC
* * * *
9145649 ATACTTTTTATTTTATATATTATTTTTTTAAAAAAACCAAT
1 ATA-TTTTTATTTTATATATAATTATTTTATAAAAACCAAC
9145690 ATATTTTTATTTTATATATAATTATTATTAT
1 ATATTTTTATTTTATATATAATTATT-TTAT
9145721 TTTGTGAAAT
Statistics
Matches: 57, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
40 21 0.37
41 7 0.12
42 3 0.05
43 23 0.40
44 3 0.05
ACGTcount: A:0.36, C:0.04, G:0.01, T:0.59
Consensus pattern (40 bp):
ATATTTTTATTTTATATATAATTATTTTATAAAAACCAAC
Found at i:9151051 original size:20 final size:20
Alignment explanation
Indices: 9151011--9151053 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
9151001 ATCAGTACTC
*
9151011 TTATCCTGAATTTCAGGATT
1 TTATCCTGAATTTCAAGATT
*
9151031 TTATCCTGAATTTCAATATT
1 TTATCCTGAATTTCAAGATT
9151051 TTA
1 TTA
9151054 ATTTGGATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.28, C:0.14, G:0.09, T:0.49
Consensus pattern (20 bp):
TTATCCTGAATTTCAAGATT
Found at i:9151414 original size:20 final size:20
Alignment explanation
Indices: 9151391--9151428 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9151381 TCAAACCAAA
9151391 GGTTCAAGGTTCAAGTTTAG
1 GGTTCAAGGTTCAAGTTTAG
*
9151411 GGTTCAAGGTTCGAGTTT
1 GGTTCAAGGTTCAAGTTT
9151429 GGATTTGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.11, G:0.32, T:0.37
Consensus pattern (20 bp):
GGTTCAAGGTTCAAGTTTAG
Found at i:9151521 original size:34 final size:35
Alignment explanation
Indices: 9151478--9151576 Score: 96
Period size: 35 Copynumber: 2.9 Consensus size: 35
9151468 TGAGTTTAGT
* * * *
9151478 GTTTTGAGTTCGGGGTTTAATGTT-AGAGATTC-GA
1 GTTTAGAGTTCGAGGTTCAATATTCA-AGATTCAGA
*
9151512 GTTTAGAGTTCTAGGTTCAATATTCAAGATTCAGA
1 GTTTAGAGTTCGAGGTTCAATATTCAAGATTCAGA
* *
9151547 GTTTAGGGTTC-ATGGTTCGATATTCAAGAT
1 GTTTAGAGTTCGA-GGTTCAATATTCAAGAT
9151577 GAAAATAATT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
34 26 0.47
35 29 0.53
ACGTcount: A:0.25, C:0.09, G:0.26, T:0.39
Consensus pattern (35 bp):
GTTTAGAGTTCGAGGTTCAATATTCAAGATTCAGA
Found at i:9151564 original size:35 final size:34
Alignment explanation
Indices: 9151504--9151576 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 34
9151494 TTAATGTTAG
9151504 AGATTCGAGTTTAGAGTTCTAGGTTCAATATTCA
1 AGATTCGAGTTTAGAGTTCTAGGTTCAATATTCA
* *
9151538 AGATTCAGAGTTTAGGGTTC-ATGGTTCGATATTCA
1 AGATTC-GAGTTTAGAGTTCTA-GGTTCAATATTCA
9151573 AGAT
1 AGAT
9151577 GAAAATAATT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
34 7 0.20
35 28 0.80
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (34 bp):
AGATTCGAGTTTAGAGTTCTAGGTTCAATATTCA
Found at i:9153067 original size:62 final size:62
Alignment explanation
Indices: 9152990--9153114 Score: 223
Period size: 62 Copynumber: 2.0 Consensus size: 62
9152980 CATATGTTAG
* * *
9152990 TTTACGAATACTTCATGCTAACATGACACTATTTGTTTTTTGTGTCACACTAACAAATAATT
1 TTTACAAATACTTCATGCTAACATGACACTATTTGTTTTATGTGTCACACCAACAAATAATT
9153052 TTTACAAATACTTCATGCTAACATGACACTATTTGTTTTATGTGTCACACCAACAAATAATT
1 TTTACAAATACTTCATGCTAACATGACACTATTTGTTTTATGTGTCACACCAACAAATAATT
9153114 T
1 T
9153115 CAAATTTATA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.39
Consensus pattern (62 bp):
TTTACAAATACTTCATGCTAACATGACACTATTTGTTTTATGTGTCACACCAACAAATAATT
Found at i:9153402 original size:149 final size:148
Alignment explanation
Indices: 9153237--9153535 Score: 553
Period size: 149 Copynumber: 2.0 Consensus size: 148
9153227 ATAATTTCGG
*
9153237 TAAGAAAACAACAATTCGAGTCTTTTTAAAAGATTGATGATCAAATACGACTATTTCTGAAAAAT
1 TAAGAAAACAACAATTCGAATCTTTTTAAAAGATTGATGATCAAATACGACTATTTCTGAAAAAT
*
9153302 TTAGGATTAAATTTAATTAAAAAAATTAATAATAATTAAATTGATAAAAAAAATTATAAAGACTG
66 TTAGGATTAAATTTAATTAAAAAAATTAATAATAATCAAATTGAT-AAAAAAATTATAAAGACTG
*
9153367 AAGGCTAAAATCATTATAC
130 AAGGATAAAATCATTATAC
*
9153386 TAAGAAAACAACAATTCGAATCTTTTTAAAAGATTGATGATCAAATACGACTATTTCTGAAAAGT
1 TAAGAAAACAACAATTCGAATCTTTTTAAAAGATTGATGATCAAATACGACTATTTCTGAAAAAT
9153451 TTAGGATTAAATTTAATTAAAAAAATTAATAATAATCAAATTGATAAAAAAATTATAAAGACTGA
66 TTAGGATTAAATTTAATTAAAAAAATTAATAATAATCAAATTGATAAAAAAATTATAAAGACTGA
9153516 AGGATAAAATCATTATAC
131 AGGATAAAATCATTATAC
9153534 TA
1 TA
9153536 TTATAATATA
Statistics
Matches: 146, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
148 39 0.27
149 107 0.73
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (148 bp):
TAAGAAAACAACAATTCGAATCTTTTTAAAAGATTGATGATCAAATACGACTATTTCTGAAAAAT
TTAGGATTAAATTTAATTAAAAAAATTAATAATAATCAAATTGATAAAAAAATTATAAAGACTGA
AGGATAAAATCATTATAC
Found at i:9154558 original size:96 final size:96
Alignment explanation
Indices: 9154451--9154738 Score: 567
Period size: 96 Copynumber: 3.0 Consensus size: 96
9154441 CCCCCACATC
9154451 AGTGATCTTTGCCAACTTGAGAGGAAAGAAAATTCCATTAATCCTTTTCATATTGGCGAAAAAGA
1 AGTGATCTTTGCCAACTTGAGAGGAAAGAAAATTCCATTAATCCTTTTCATATTGGCGAAAAAGA
9154516 AAACAAAATGATATAAACAGGGACCTGAATG
66 AAACAAAATGATATAAACAGGGACCTGAATG
9154547 AGTGATCTTTGCCAACTTGAGAGGAAAGAAAATTCCATTAATCCTTTTCATATTGGCGAAAAAGA
1 AGTGATCTTTGCCAACTTGAGAGGAAAGAAAATTCCATTAATCCTTTTCATATTGGCGAAAAAGA
9154612 AAACAAAATGATATAAACAGGGACCTGAATG
66 AAACAAAATGATATAAACAGGGACCTGAATG
*
9154643 AGTGATCTTTGCCAACTTGAGAGGAAAGAAAATTCCATTAATCCTTTTCATATTGGCCAAAAAGA
1 AGTGATCTTTGCCAACTTGAGAGGAAAGAAAATTCCATTAATCCTTTTCATATTGGCGAAAAAGA
9154708 AAACAAAATGATATAAACAGGGACCTGAATG
66 AAACAAAATGATATAAACAGGGACCTGAATG
9154739 GGGGAAACAT
Statistics
Matches: 191, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 191 1.00
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (96 bp):
AGTGATCTTTGCCAACTTGAGAGGAAAGAAAATTCCATTAATCCTTTTCATATTGGCGAAAAAGA
AAACAAAATGATATAAACAGGGACCTGAATG
Found at i:9155419 original size:31 final size:31
Alignment explanation
Indices: 9155377--9155443 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
9155367 TTAGTCCTTT
* *
9155377 AACTTGGCAATTGTT-TCTATATTGAAGCCTG
1 AACTTGACAATTATTCT-TATATTGAAGCCTG
9155408 AACTTGACAATTATTCTTATATTGAAGCCTG
1 AACTTGACAATTATTCTTATATTGAAGCCTG
9155439 AACTT
1 AACTT
9155444 TAGGGTTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 32 0.97
32 1 0.03
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (31 bp):
AACTTGACAATTATTCTTATATTGAAGCCTG
Found at i:9170742 original size:24 final size:23
Alignment explanation
Indices: 9170715--9170766 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
9170705 CATGAAAAAA
*
9170715 TAAAAAAAATTACAATAAAATATT
1 TAAAAAAAATTAAAATAAAATA-T
* * *
9170739 TAAAAATATTTAAAATAATATAT
1 TAAAAAAAATTAAAATAAAATAT
9170762 TAAAA
1 TAAAA
9170767 TTTATCTTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
TAAAAAAAATTAAAATAAAATAT
Found at i:9171179 original size:10 final size:10
Alignment explanation
Indices: 9171166--9171248 Score: 50
Period size: 10 Copynumber: 8.6 Consensus size: 10
9171156 TTAAATTTTA
9171166 ATAAAAATAT
1 ATAAAAATAT
*
9171176 ATAAAAGT-T
1 ATAAAAATAT
*
9171185 ATAAAAGT-T
1 ATAAAAATAT
*
9171194 ATTAAAA-AT
1 ATAAAAATAT
*
9171203 -TAGAAATA-
1 ATAAAAATAT
9171211 ATATAAAATAT
1 ATA-AAAATAT
*
9171222 ATAGAAATAT
1 ATAAAAATAT
* *
9171232 AGAAAAAAATT
1 ATAAAAATA-T
9171243 ATAAAA
1 ATAAAA
9171249 CTTTATAAAG
Statistics
Matches: 56, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
8 4 0.07
9 19 0.34
10 24 0.43
11 9 0.16
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (10 bp):
ATAAAAATAT
Found at i:9171279 original size:9 final size:9
Alignment explanation
Indices: 9171166--9171282 Score: 51
Period size: 9 Copynumber: 12.2 Consensus size: 9
9171156 TTAAATTTTA
9171166 ATAAAAATAT
1 ATAAAAAT-T
*
9171176 ATAAAAGTT
1 ATAAAAATT
*
9171185 ATAAAAGTT
1 ATAAAAATT
9171194 ATTAAAAATT
1 A-TAAAAATT
*
9171204 AGAAATAA-T
1 ATAAA-AATT
9171213 AT-AAAATAT
1 ATAAAAAT-T
*
9171222 ATAGAAATATAG
1 ATA-AAA-AT-T
*
9171234 AAAAAAATT
1 ATAAAAATT
*
9171243 ATAAAACTT
1 ATAAAAATT
*
9171252 -TATAAAGTCGT
1 ATA-AAAAT--T
*
9171263 AAAAAAATT
1 ATAAAAATT
9171272 ATAAAAATT
1 ATAAAAATT
9171281 AT
1 AT
9171283 CGTATCCTAT
Statistics
Matches: 83, Mismatches: 13, Indels: 23
0.70 0.11 0.19
Matches are distributed among these distances:
7 2 0.02
8 4 0.05
9 41 0.49
10 19 0.23
11 11 0.13
12 6 0.07
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.31
Consensus pattern (9 bp):
ATAAAAATT
Found at i:9171766 original size:20 final size:20
Alignment explanation
Indices: 9171741--9171826 Score: 86
Period size: 20 Copynumber: 4.2 Consensus size: 20
9171731 TATATTTTAT
*
9171741 AATTTTTACATTTTTTATAA
1 AATTTTTAGATTTTTTATAA
*
9171761 AATTTTTATGATTTTTTTTATA
1 AATTTTTA-GATTTTTTATA-A
9171783 AATTTTGT-GA-TTTTTATAA
1 AATTTT-TAGATTTTTTATAA
* * *
9171802 ATTTTTTATATTTTTAATAA
1 AATTTTTAGATTTTTTATAA
9171822 AATTT
1 AATTT
9171827 AAATATTTTC
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
18 1 0.02
19 7 0.13
20 27 0.50
21 11 0.20
22 7 0.13
23 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (20 bp):
AATTTTTAGATTTTTTATAA
Found at i:9171851 original size:20 final size:19
Alignment explanation
Indices: 9171792--9171856 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
9171782 AAATTTTGTG
9171792 ATTTTTATAAATTTTTT-AT
1 ATTTTTAT-AATTTTTTAAT
** *
9171811 ATTTTTAATAAAATTTAAAT
1 ATTTTT-ATAATTTTTTAAT
9171831 ATTTTCTATAATTTTTTAAT
1 ATTTT-TATAATTTTTTAAT
9171851 ATTTTT
1 ATTTTT
9171857 TGTAACTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 12 0.32
20 24 0.65
21 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTTTATAATTTTTTAAT
Found at i:9171866 original size:20 final size:20
Alignment explanation
Indices: 9171792--9171866 Score: 55
Period size: 20 Copynumber: 3.8 Consensus size: 20
9171782 AAATTTTGTG
* *
9171792 ATTTT-TATAAATTTTTTAT
1 ATTTTCTATAACTTTTTAAT
** *
9171811 ATTTT-TAATAAAATTTAAAT
1 ATTTTCT-ATAACTTTTTAAT
*
9171831 ATTTTCTATAATTTTTTAAT
1 ATTTTCTATAACTTTTTAAT
* *
9171851 ATTTTTTGTAACTTTT
1 ATTTTCTATAACTTTT
9171867 ATTTATTTGA
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
19 6 0.13
20 38 0.84
21 1 0.02
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (20 bp):
ATTTTCTATAACTTTTTAAT
Found at i:9172176 original size:21 final size:19
Alignment explanation
Indices: 9172152--9172206 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 19
9172142 AAATTTACAA
*
9172152 TTTTTCTATTTTTAATAAT
1 TTTTTTTATTTTTAATAAT
*
9172171 TCTTTTTTACTTTTAAATAAT
1 T-TTTTTTA-TTTTTAATAAT
9172192 TTTTTGTATATTTTT
1 TTTTT-T-TATTTTT
9172207 TTTGTAAGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 1 0.03
20 10 0.34
21 16 0.55
22 2 0.07
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTTTTTATTTTTAATAAT
Found at i:9174696 original size:21 final size:22
Alignment explanation
Indices: 9174657--9174697 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
9174647 AATTATTTAA
*
9174657 ATTTTATTAAAGTCAAATTATC
1 ATTTTATTAAAGACAAATTATC
9174679 ATTTTATTAAA-ACAAATTA
1 ATTTTATTAAAGACAAATTA
9174698 ATTTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.44
Consensus pattern (22 bp):
ATTTTATTAAAGACAAATTATC
Found at i:9185933 original size:42 final size:42
Alignment explanation
Indices: 9185873--9185955 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
9185863 AAAAAGTGAG
*
9185873 TTACATGGCCTAGACACACGCCCATGTCCTTGCCCGTGTGGC
1 TTACATGGCCTAGACACACGCCCATGTCCTTGACCGTGTGGC
* * * * *
9185915 TTACATGGCCTGGGCACACGTCTATGTCCTTGATCGTGTGG
1 TTACATGGCCTAGACACACGCCCATGTCCTTGACCGTGTGG
9185956 TTCGAAAGCA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.16, C:0.30, G:0.27, T:0.28
Consensus pattern (42 bp):
TTACATGGCCTAGACACACGCCCATGTCCTTGACCGTGTGGC
Found at i:9185997 original size:104 final size:105
Alignment explanation
Indices: 9185812--9186046 Score: 305
Period size: 104 Copynumber: 2.3 Consensus size: 105
9185802 ATTCATATGC
* * ** *
9185812 CACAC-GGCCTGGACACACGCCCATGTCCTTGCTCATGTGGTTCTTAATCATAAAAAGTGAGTTA
1 CACACTGGCCTGGGCACACGCCCATGTCCTTGATCATGTGGTTCGAAAGCATAAAAAGTGAGTTA
*
9185876 CATGGCCTAGACACACGCCCATGTCCTTGCCCGTGTGGCT
66 CACGGCCTAGACACACGCCCATGTCCTTGCCCGTGTGGCT
* * * * *
9185916 TACA-TGGCCTGGGCACACGTCTATGTCCTTGATCGTGTGGTTCGAAAGCATAAACAGTGAGTTA
1 CACACTGGCCTGGGCACACGCCCATGTCCTTGATCATGTGGTTCGAAAGCATAAAAAGTGAGTTA
* * *
9185980 CACGGCCTGGACACACGCCCATGTCCTTGTCGGTGTGGCT
66 CACGGCCTAGACACACGCCCATGTCCTTGCCCGTGTGGCT
* *
9186020 CACACT-GCCTAGGCACAAGCCCATGTC
1 CACACTGGCCTGGGCACACGCCCATGTC
9186047 TTTGGCTGTG
Statistics
Matches: 110, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
104 109 0.99
105 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.24, T:0.24
Consensus pattern (105 bp):
CACACTGGCCTGGGCACACGCCCATGTCCTTGATCATGTGGTTCGAAAGCATAAAAAGTGAGTTA
CACGGCCTAGACACACGCCCATGTCCTTGCCCGTGTGGCT
Found at i:9187242 original size:21 final size:22
Alignment explanation
Indices: 9187206--9187252 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
9187196 TTAAAAATGC
*
9187206 TTTTTGTGACATTTTTCTAGTG
1 TTTTTGTGACAGTTTTCTAGTG
9187228 TTTTTGTGAC-GTTTTCTAGTG
1 TTTTTGTGACAGTTTTCTAGTG
9187249 TTTT
1 TTTT
9187253 GTAACAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.11, C:0.09, G:0.19, T:0.62
Consensus pattern (22 bp):
TTTTTGTGACAGTTTTCTAGTG
Found at i:9187263 original size:21 final size:22
Alignment explanation
Indices: 9187206--9187263 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
9187196 TTAAAAATGC
*
9187206 TTTTTGTGACATTTTTCTAGTG
1 TTTTTGTGACAATTTTCTAGTG
*
9187228 TTTTTGTGAC-GTTTTCTAGTG
1 TTTTTGTGACAATTTTCTAGTG
*
9187249 -TTTTGTAACAATTTT
1 TTTTTGTGACAATTTT
9187264 GAAATGCCAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.25
21 14 0.44
22 10 0.31
ACGTcount: A:0.16, C:0.09, G:0.17, T:0.59
Consensus pattern (22 bp):
TTTTTGTGACAATTTTCTAGTG
Found at i:9188150 original size:9 final size:9
Alignment explanation
Indices: 9188136--9188161 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9188126 TTATACATCA
9188136 TTTATAATT
1 TTTATAATT
9188145 TTTATAATT
1 TTTATAATT
9188154 TTTATAAT
1 TTTATAAT
9188162 ATTGGTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTATAATT
Found at i:9191554 original size:16 final size:16
Alignment explanation
Indices: 9191533--9191565 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
9191523 AGAGTTGTAG
9191533 AAAATAAACAAAAAAT
1 AAAATAAACAAAAAAT
*
9191549 AAAATAAATAAAAAAT
1 AAAATAAACAAAAAAT
9191565 A
1 A
9191566 GAAGAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAATAAACAAAAAAT
Found at i:9192564 original size:131 final size:131
Alignment explanation
Indices: 9192369--9192702 Score: 533
Period size: 131 Copynumber: 2.5 Consensus size: 131
9192359 TACTAGCTTC
* * * * * * *
9192369 AATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTGTTCTACTGTAATC
1 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTTGCAATTCTTCGGTCTGTTCCACTGTAATC
9192434 TCAGGGAAATAAGACCTGACGCGATCTACTCTGTTGTAACTTCAGAGAGATAAGATCCTTCATTT
66 TCAGGGAAATAAGACCTGACGCGATCTACTCTGTTGTAACTTCAGAGAGATAAGATCCTTCATTT
9192499 T
131 T
* * *
9192500 AATCCGCTCCTCTGTAATCTTAGGGAGATAGGATTTGCAATTCTTCGGTCTGTTCCACTATAATC
1 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTTGCAATTCTTCGGTCTGTTCCACTGTAATC
* *
9192565 TTAGGGAAATAAGACCTGACGCGATCTACTCTGTTGTAACTTCAGAGAGATAAGGTCCTTCATTT
66 TCAGGGAAATAAGACCTGACGCGATCTACTCTGTTGTAACTTCAGAGAGATAAGATCCTTCATTT
9192630 T
131 T
* * *
9192631 AATCCGCTCCACTATAATATCAGGGAGATAGGATTTCCAATTCTTCGGTCTGTTCCACTGTAATC
1 AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTTGCAATTCTTCGGTCTGTTCCACTGTAATC
9192696 TCAGGGA
66 TCAGGGA
9192703 GATAGGATTT
Statistics
Matches: 185, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
131 185 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (131 bp):
AATCCGCTCCACTGTAATCTCAGGGAGATAGGATTTGCAATTCTTCGGTCTGTTCCACTGTAATC
TCAGGGAAATAAGACCTGACGCGATCTACTCTGTTGTAACTTCAGAGAGATAAGATCCTTCATTT
T
Found at i:9192700 original size:46 final size:46
Alignment explanation
Indices: 9192638--9192748 Score: 186
Period size: 46 Copynumber: 2.4 Consensus size: 46
9192628 TTTAATCCGC
* *
9192638 TCCACTATAATATCAGGGAGATAGGATTTCCAATTCTTCGGTCTGT
1 TCCACTGTAATCTCAGGGAGATAGGATTTCCAATTCTTCGGTCTGT
*
9192684 TCCACTGTAATCTCAGGGAGATAGGATTTGCAATTCTTCGGTCTGT
1 TCCACTGTAATCTCAGGGAGATAGGATTTCCAATTCTTCGGTCTGT
*
9192730 TCCACTGTAATCTTAGGGA
1 TCCACTGTAATCTCAGGGA
9192749 AATAAGACCT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 61 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (46 bp):
TCCACTGTAATCTCAGGGAGATAGGATTTCCAATTCTTCGGTCTGT
Found at i:9192870 original size:44 final size:44
Alignment explanation
Indices: 9192813--9193060 Score: 161
Period size: 44 Copynumber: 5.7 Consensus size: 44
9192803 ATTTTAATTC
* *
9192813 GCTCCACTTTAATCTCAGGGAGATAGGATTACTAGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCT
* * * **
9192857 GCTCCGCTGTAATCTCAGGGAGATAAGATCTGA-AATTCTTCGGTCT
1 GCTCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-GCTTCAATCT
** * * * *
9192903 ATTCCACTGTAATCTCAGGGAAATAAGA--CCT-GAC-GCGATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAG-CTTCAATCT
* *** * * * * *
9192944 ACTCTGTTGTAA-CTTCAGAGAGATAAGA-TCCTTCA-TTTTAATCC
1 GCTCCACTGTAATC-TCAGGGAGATAAGATTAC-T-AGCTTCAATCT
*
9192988 GCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCT
1 GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCT
*
9193032 GCTCCGCTGTAATCTCAGGGAGATAAGAT
1 GCTCCACTGTAATCTCAGGGAGATAAGAT
9193061 CTGAAATTAT
Statistics
Matches: 151, Mismatches: 39, Indels: 28
0.69 0.18 0.13
Matches are distributed among these distances:
40 1 0.01
41 25 0.17
42 3 0.02
43 2 0.01
44 83 0.55
45 5 0.03
46 32 0.21
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
GCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCT
Found at i:9192963 original size:175 final size:175
Alignment explanation
Indices: 9192500--9193109 Score: 950
Period size: 175 Copynumber: 3.5 Consensus size: 175
9192490 CCTTCATTTT
* * * * * * * *
9192500 AATCCGCTCCTCTGTAATCTTAGGGAGATAGGATTTGCAATTCTTCGGTCTGTTCCACTATAATC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATC
* *
9192565 TTAGGGAAATAAGACCTGACGCGATCTACTCTGTTGTAACTTCAGAGAGATAAGGTCCTTCATTT
66 TCAGGGAAATAAGACCTGACGCGATCTACTCTGTTGTAACTTCAGAGAGATAAGATCCTTCATTT
* * * *
9192630 TAATCCGCTCCACTATAATATCAGGGAGATAGGATTTCCAATTCTTC
131 TAATCCGCTCCACTATAATCTCAGGGAGATAGGA-TTACTA-GCTTC
** * * * * * *
9192677 GGTCTGTTCCACTGTAATCTCAGGGAGATAGGATTTGCAATTCTTCGGTCTGTTCCACTGTAATC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATC
* *
9192742 TTAGGGAAATAAGACCTGACGCGATCTACTCTGTTGTAAATTCAGAGAGATAAGATCCTTCATTT
66 TCAGGGAAATAAGACCTGACGCGATCTACTCTGTTGTAACTTCAGAGAGATAAGATCCTTCATTT
* *
9192807 TAATTCGCTCCACTTTAATCTCAGGGAGATAGGATTACTAGCTTC
131 TAATCCGCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTC
9192852 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATC
9192917 TCAGGGAAATAAGACCTGACGCGATCTACTCTGTTGTAACTTCAGAGAGATAAGATCCTTCATTT
66 TCAGGGAAATAAGACCTGACGCGATCTACTCTGTTGTAACTTCAGAGAGATAAGATCCTTCATTT
*
9192982 TAATCCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTC
131 TAATCCGCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTC
*
9193027 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTATTCGGTCTATTCCACTGTAATC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATC
9193092 TCAGGGAAATAAGACCTG
66 TCAGGGAAATAAGACCTG
9193110 TATAATGAAC
Statistics
Matches: 405, Mismatches: 28, Indels: 2
0.93 0.06 0.00
Matches are distributed among these distances:
175 249 0.61
176 4 0.01
177 152 0.38
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (175 bp):
AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATC
TCAGGGAAATAAGACCTGACGCGATCTACTCTGTTGTAACTTCAGAGAGATAAGATCCTTCATTT
TAATCCGCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTC
Found at i:9205414 original size:16 final size:16
Alignment explanation
Indices: 9205393--9205425 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
9205383 AGAGTTGTAG
9205393 AAAATAAACAAAAAAT
1 AAAATAAACAAAAAAT
*
9205409 AAAATAAATAAAAAAT
1 AAAATAAACAAAAAAT
9205425 A
1 A
9205426 GAAGACAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAATAAACAAAAAAT
Found at i:9206615 original size:18 final size:18
Alignment explanation
Indices: 9206589--9206643 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
9206579 AGAGCAACAA
*
9206589 ATCTTAATAGAAAATCAT
1 ATCTCAATAGAAAATCAT
*
9206607 ATCTCAATAGGAAATCAT
1 ATCTCAATAGAAAATCAT
* *
9206625 ATCCCAATAGAAAACCAT
1 ATCTCAATAGAAAATCAT
9206643 A
1 A
9206644 ACAAAAACAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.49, C:0.18, G:0.07, T:0.25
Consensus pattern (18 bp):
ATCTCAATAGAAAATCAT
Found at i:9210046 original size:18 final size:18
Alignment explanation
Indices: 9209990--9210046 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
9209980 AGGACTTCTA
9209990 CCTCTGCCACG---ACCT
1 CCTCTGCCACGATAACCT
* *
9210005 CCTCTACCACGATAACCA
1 CCTCTGCCACGATAACCT
9210023 CCTCTGCCACGATAACCT
1 CCTCTGCCACGATAACCT
*
9210041 CTTCTG
1 CCTCTG
9210047 TATGTGGCCA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 10 0.29
18 24 0.71
ACGTcount: A:0.21, C:0.46, G:0.11, T:0.23
Consensus pattern (18 bp):
CCTCTGCCACGATAACCT
Found at i:9210958 original size:18 final size:18
Alignment explanation
Indices: 9210932--9210986 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
9210922 AGAGCAACAA
*
9210932 ATCTTAATAGAAAATCAT
1 ATCTCAATAGAAAATCAT
*
9210950 ATCTCAATAGGAAATCAT
1 ATCTCAATAGAAAATCAT
* *
9210968 ATCCCAACAGAAAATCAT
1 ATCTCAATAGAAAATCAT
9210986 A
1 A
9210987 ACAAAAACAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.49, C:0.18, G:0.07, T:0.25
Consensus pattern (18 bp):
ATCTCAATAGAAAATCAT
Found at i:9213964 original size:11 final size:11
Alignment explanation
Indices: 9213948--9213977 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
9213938 ATGTCAAATC
9213948 ATCGAGAATAA
1 ATCGAGAATAA
9213959 ATCGAGAATAA
1 ATCGAGAATAA
*
9213970 ATCAAGAA
1 ATCGAGAA
9213978 CAAAACTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.57, C:0.10, G:0.17, T:0.17
Consensus pattern (11 bp):
ATCGAGAATAA
Found at i:9217278 original size:41 final size:40
Alignment explanation
Indices: 9217210--9217403 Score: 173
Period size: 41 Copynumber: 4.7 Consensus size: 40
9217200 TGGTCGAGGG
* *
9217210 TTTTAGTGGCGTTTTTA-ATCAACCGCCGCTAACGTTAAGGT
1 TTTTAGCGGCGTTTTTATAT-AAGCGCCGCTAA-GTTAAGGT
* * * *
9217251 ATTTAGCGGCGATTTCTT-TA-AAGCGCCGTTAAGATATGGT
1 TTTTAGCGGCG-TTT-TTATATAAGCGCCGCTAAGTTAAGGT
*
9217291 CTTTTAGCGGCGTTTTTATATAAGCGCCGCTAAAGTTAAGAT
1 -TTTTAGCGGCGTTTTTATATAAGCGCCGCT-AAGTTAAGGT
* *
9217333 TTTTAGCGGCGTTTTTATGATAAGCGTCGCTAA-TATATGGT
1 TTTTAGCGGCGTTTTTAT-ATAAGCGCCGCTAAGT-TAAGGT
*
9217374 CTTTTAGCGGCGTTTTTGT-TGAAGCGCCGC
1 -TTTTAGCGGCGTTTTTATAT-AAGCGCCGC
9217404 AAAAAACATT
Statistics
Matches: 126, Mismatches: 16, Indels: 22
0.77 0.10 0.13
Matches are distributed among these distances:
39 2 0.02
40 13 0.10
41 70 0.56
42 38 0.30
43 3 0.02
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTTATATAAGCGCCGCTAAGTTAAGGT
Found at i:9217390 original size:83 final size:83
Alignment explanation
Indices: 9217210--9217403 Score: 236
Period size: 82 Copynumber: 2.4 Consensus size: 83
9217200 TGGTCGAGGG
* * * *
9217210 TTTTAGTGGCGTTTTTA-ATCAACCGCCGCTAACGTTAAGGTATTTAGCGGCGATTTCTTTAAAG
1 TTTTAGCGGCGTTTTTATATCAAGCGCCGCTAAAGTTAAGATATTTAGCGGCGATTTCTTTAAAG
*
9217274 CGCCGTTAAGATATGGTC
66 CGCCGCTAAGATATGGTC
*
9217292 TTTTAGCGGCGTTTTTATAT-AAGCGCCGCTAAAGTTAAGATTTTTAGCGGCG-TTT-TTATGAT
1 TTTTAGCGGCGTTTTTATATCAAGCGCCGCTAAAGTTAAGATATTTAGCGGCGATTTCTT-T-A-
* *
9217354 AAGCGTCGCTAATATATGGTC
63 AAGCGCCGCTAAGATATGGTC
* *
9217375 TTTTAGCGGCGTTTTTGT-TGAAGCGCCGC
1 TTTTAGCGGCGTTTTTATATCAAGCGCCGC
9217404 AAAAAACATT
Statistics
Matches: 98, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
80 2 0.02
81 4 0.04
82 46 0.47
83 46 0.47
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (83 bp):
TTTTAGCGGCGTTTTTATATCAAGCGCCGCTAAAGTTAAGATATTTAGCGGCGATTTCTTTAAAG
CGCCGCTAAGATATGGTC
Found at i:9218344 original size:7 final size:7
Alignment explanation
Indices: 9218332--9218404 Score: 56
Period size: 7 Copynumber: 9.9 Consensus size: 7
9218322 GATATAATGT
9218332 TTAGGGG
1 TTAGGGG
9218339 TTAGGGG
1 TTAGGGG
*
9218346 TTAGGGAT
1 TTAGGG-G
9218354 TTAGGGG
1 TTAGGGG
**
9218361 TTAGGAAT
1 TTAGG-GG
*
9218369 TTAAGGG
1 TTAGGGG
*
9218376 TTAGGAGAT
1 TTAGG-G-G
*
9218385 TTATGGG
1 TTAGGGG
9218392 TTAGGGG
1 TTAGGGG
9218399 TTAGGG
1 TTAGGG
9218405 ATTTAAGGTT
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
7 34 0.68
8 12 0.24
9 4 0.08
ACGTcount: A:0.22, C:0.00, G:0.45, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:9218359 original size:15 final size:15
Alignment explanation
Indices: 9218339--9218397 Score: 82
Period size: 15 Copynumber: 3.9 Consensus size: 15
9218329 TGTTTAGGGG
9218339 TTAGGGGTTAGGGAT
1 TTAGGGGTTAGGGAT
*
9218354 TTAGGGGTTAGGAAT
1 TTAGGGGTTAGGGAT
*
9218369 TTAAGGGTTAGGAGAT
1 TTAGGGGTTAGG-GAT
*
9218385 TTATGGGTTAGGG
1 TTAGGGGTTAGGG
9218398 GTTAGGGATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
15 26 0.67
16 13 0.33
ACGTcount: A:0.24, C:0.00, G:0.42, T:0.34
Consensus pattern (15 bp):
TTAGGGGTTAGGGAT
Found at i:9219041 original size:18 final size:18
Alignment explanation
Indices: 9219015--9219057 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
9219005 GGATAGGATC
*
9219015 AAAATATATGAAAAAT-AA
1 AAAAAATAT-AAAAATGAA
9219033 AAAAAATATAAAAATGAA
1 AAAAAATATAAAAATGAA
9219051 ATAAAAA
1 A-AAAAA
9219058 ACTAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 6 0.27
18 11 0.50
19 5 0.23
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.19
Consensus pattern (18 bp):
AAAAAATATAAAAATGAA
Found at i:9220575 original size:40 final size:40
Alignment explanation
Indices: 9220531--9220753 Score: 275
Period size: 40 Copynumber: 5.6 Consensus size: 40
9220521 CCAGCATGAT
* * * * *
9220531 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** ** *
9220571 TGCTCTTCGGGGTTTAGCATGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * * *
9220611 TGCTCTTCGGAACTTAGTCTGGATACATCATTAGCGCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
9220651 TGCTCTTCGAGACTTAGCCCAGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
9220691 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
9220731 TGCTCTTCGGAACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
9220754 CATTTCACCC
Statistics
Matches: 156, Mismatches: 27, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 156 1.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:9220744 original size:120 final size:120
Alignment explanation
Indices: 9220531--9220747 Score: 317
Period size: 120 Copynumber: 1.8 Consensus size: 120
9220521 CCAGCATGAT
* * * ** *
9220531 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAAATGCTCTTCGGGGTTTAGCATGGATA
1 TGCTCTTCGAGACCTAGCCCAGATACAACACCAGCACAAATGCTCTTCGGGACTTAGCACGGATA
*
9220596 TATCACTAGCACGAATGCTCTTCGGAACTTAGTCTGGATACATCATTAGCGCGAA
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCTGGATACATCATTAGCGCGAA
* * * * *
9220651 TGCTCTTCGAGACTTAGCCCAGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATA
1 TGCTCTTCGAGACCTAGCCCAGATACAACACCAGCACAAATGCTCTTCGGGACTTAGCACGGATA
*
9220716 CATCACTAGCATGAATGCTCTTCGGAACTTAG
66 CATCACTAGCACGAATGCTCTTCGGAACTTAG
9220748 CCCGGACATT
Statistics
Matches: 84, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
120 84 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (120 bp):
TGCTCTTCGAGACCTAGCCCAGATACAACACCAGCACAAATGCTCTTCGGGACTTAGCACGGATA
CATCACTAGCACGAATGCTCTTCGGAACTTAGTCTGGATACATCATTAGCGCGAA
Found at i:9222252 original size:49 final size:49
Alignment explanation
Indices: 9222127--9222266 Score: 189
Period size: 47 Copynumber: 2.9 Consensus size: 49
9222117 CCATTCGGGA
* * * * *
9222127 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
9222174 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
9222221 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
9222267 CGCCATACTA
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
46 1 0.01
47 43 0.54
49 36 0.45
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:9223766 original size:22 final size:21
Alignment explanation
Indices: 9223741--9223798 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 21
9223731 CACACATATC
9223741 CCCTTAACCATTAAACCCATAA
1 CCCTTAACC-TTAAACCCATAA
9223763 CCCTTAATCCTTAAACCCATAA
1 CCCTTAA-CCTTAAACCCATAA
* *
9223785 TCCATAACCCTTAA
1 CCCTTAA-CCTTAA
9223799 CCTTTACCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 30 0.94
23 2 0.06
ACGTcount: A:0.38, C:0.36, G:0.00, T:0.26
Consensus pattern (21 bp):
CCCTTAACCTTAAACCCATAA
Found at i:9223779 original size:15 final size:14
Alignment explanation
Indices: 9223760--9223807 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
9223750 ATTAAACCCA
9223760 TAACCCTTAATCCT
1 TAACCCTTAATCCT
* *
9223774 TAAACCCATAATCCA
1 T-AACCCTTAATCCT
9223789 TAACCCTTAA-CCT
1 TAACCCTTAATCCT
*
9223802 TTACCC
1 TAACCC
9223808 ACTAATCCCT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
13 7 0.25
14 9 0.32
15 12 0.43
ACGTcount: A:0.33, C:0.38, G:0.00, T:0.29
Consensus pattern (14 bp):
TAACCCTTAATCCT
Found at i:9223789 original size:29 final size:28
Alignment explanation
Indices: 9223757--9223815 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
9223747 ACCATTAAAC
9223757 CCATAACCCTTAATCCTTAAACCCA-TAAT
1 CCATAACCCTTAA-CCTT-AACCCACTAAT
*
9223786 CCATAACCCTTAACCTTTACCCACTAAT
1 CCATAACCCTTAACCTTAACCCACTAAT
9223814 CC
1 CC
9223816 CTAAACTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 5 0.18
28 10 0.36
29 13 0.46
ACGTcount: A:0.34, C:0.39, G:0.00, T:0.27
Consensus pattern (28 bp):
CCATAACCCTTAACCTTAACCCACTAAT
Found at i:9224353 original size:20 final size:20
Alignment explanation
Indices: 9224328--9224369 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
9224318 TGTTTTCCGC
9224328 AAAACGCCGCTAATGAAACT
1 AAAACGCCGCTAATGAAACT
9224348 AAAACGCCGCTAATGAAACT
1 AAAACGCCGCTAATGAAACT
9224368 AA
1 AA
9224370 GGGCCGAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.48, C:0.24, G:0.14, T:0.14
Consensus pattern (20 bp):
AAAACGCCGCTAATGAAACT
Found at i:9224656 original size:32 final size:32
Alignment explanation
Indices: 9224620--9224684 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
9224610 CAATCTAGAG
*
9224620 TCAGTTATTTTTACTCTCGAAAGGGATATTAA
1 TCAGTTATTTTTACTCTCAAAAGGGATATTAA
9224652 TCAGTTATTTTTACTCTCAAAAGGGATATTAA
1 TCAGTTATTTTTACTCTCAAAAGGGATATTAA
9224684 T
1 T
9224685 ATAATTTAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (32 bp):
TCAGTTATTTTTACTCTCAAAAGGGATATTAA
Found at i:9227452 original size:77 final size:77
Alignment explanation
Indices: 9227325--9227476 Score: 304
Period size: 77 Copynumber: 2.0 Consensus size: 77
9227315 AACCTTGCTC
9227325 AGACGTCATGATAAGAATAGGGTAATCACTTGAATTTTATTAATACATCTCAAGGACATATATAT
1 AGACGTCATGATAAGAATAGGGTAATCACTTGAATTTTATTAATACATCTCAAGGACATATATAT
9227390 CTATGTAGTAGT
66 CTATGTAGTAGT
9227402 AGACGTCATGATAAGAATAGGGTAATCACTTGAATTTTATTAATACATCTCAAGGACATATATAT
1 AGACGTCATGATAAGAATAGGGTAATCACTTGAATTTTATTAATACATCTCAAGGACATATATAT
9227467 CTATGTAGTA
66 CTATGTAGTA
9227477 ATAGTTACAT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (77 bp):
AGACGTCATGATAAGAATAGGGTAATCACTTGAATTTTATTAATACATCTCAAGGACATATATAT
CTATGTAGTAGT
Found at i:9229804 original size:18 final size:18
Alignment explanation
Indices: 9229775--9229867 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
9229765 TACGACCGTT
9229775 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
9229793 TACAGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
9229811 TACGGTACTATTTACGTA
1 TACGGTACTATTCACGTA
*
9229829 TACGGTACTATTCACATA
1 TACGGTACTATTCACGTA
*
9229847 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
9229865 TAC
1 TAC
9229868 AGTAGTTGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:9242614 original size:20 final size:20
Alignment explanation
Indices: 9242582--9242620 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
9242572 TAAATTAAAA
*
9242582 TTTAGTTTTTATACATTTTG
1 TTTAGTTTTTATAAATTTTG
9242602 TTTA-TTTTATATAAATTTT
1 TTTAGTTTT-TATAAATTTT
9242621 ATTTGTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTAGTTTTTATAAATTTTG
Found at i:9243977 original size:14 final size:14
Alignment explanation
Indices: 9243958--9243985 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
9243948 TAGTAATATA
9243958 AATAATTAATTAAT
1 AATAATTAATTAAT
9243972 AATAATTAATTAAT
1 AATAATTAATTAAT
9243986 TAAAAATGAA
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATAATTAATTAAT
Found at i:9243981 original size:18 final size:17
Alignment explanation
Indices: 9243951--9243988 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
9243941 TACCTATTAG
9243951 TAATATAAATAATTAAT
1 TAATATAAATAATTAAT
*
9243968 TAATAATAATTAATTAAT
1 TAAT-ATAAATAATTAAT
9243986 TAA
1 TAA
9243989 AAATGAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAATATAAATAATTAAT
Found at i:9245387 original size:22 final size:23
Alignment explanation
Indices: 9245362--9245408 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
9245352 AAATTTATAT
9245362 TTTATTTTTATATAAATATT-TG
1 TTTATTTTTATATAAATATTATG
* *
9245384 TTTATTTTTATTTATATATTATG
1 TTTATTTTTATATAAATATTATG
9245407 TT
1 TT
9245409 ATCTAACGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (23 bp):
TTTATTTTTATATAAATATTATG
Found at i:9246895 original size:48 final size:47
Alignment explanation
Indices: 9246739--9246915 Score: 182
Period size: 47 Copynumber: 3.8 Consensus size: 47
9246729 TTCAGGTGCG
* * ** * *
9246739 AGTTGCCTTGAGTAGGCTTCGGGCCATGGTATAGCCATTTC--G-GA
1 AGTTACCTTGAGTTGGCTTCGGGCCATGGTATAGGTACTCCGAGCGA
* * * *
9246783 TGTTATCTTGAATTGGCTTCGGGCCATGGTATAGATACTCCGAGCGA
1 AGTTACCTTGAGTTGGCTTCGGGCCATGGTATAGGTACTCCGAGCGA
* * *
9246830 AGTTACCTTGAGTTGGCTTTGGGCCATGGTATAGGTACTTC-AGTGA
1 AGTTACCTTGAGTTGGCTTCGGGCCATGGTATAGGTACTCCGAGCGA
*
9246876 TAGGTTACTTTGAGTTGGCTTCGGGCCATGGTATAGGTAC
1 -A-GTTACCTTGAGTTGGCTTCGGGCCATGGTATAGGTAC
9246916 CTATGGTATG
Statistics
Matches: 110, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
44 32 0.29
46 5 0.05
47 38 0.35
48 35 0.32
ACGTcount: A:0.19, C:0.18, G:0.31, T:0.33
Consensus pattern (47 bp):
AGTTACCTTGAGTTGGCTTCGGGCCATGGTATAGGTACTCCGAGCGA
Found at i:9254528 original size:44 final size:45
Alignment explanation
Indices: 9254458--9254584 Score: 148
Period size: 44 Copynumber: 2.8 Consensus size: 45
9254448 CTTCAGGTGC
* * * *
9254458 AAGTTGCCTTGAGTAGGCTTCGGGCCATGGTATAGGCATTTCGA-
1 AAGTTACCTTGAGTTGGCTTCGGGCCATGGTATAGGCACTCCGAG
* * * **
9254502 AGGTTATCTTGAGTTGGCTTTGGGCCATGGTATAGATACTCCGAGCG
1 AAGTTACCTTGAGTTGGCTTCGGGCCATGGTATAGGCACTCCGA--G
9254549 AAGTTACCTTGAGTTGGCTTCGGGCCATGGTATAGG
1 AAGTTACCTTGAGTTGGCTTCGGGCCATGGTATAGG
9254585 TACCTATGGC
Statistics
Matches: 67, Mismatches: 13, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
44 35 0.52
47 32 0.48
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.31
Consensus pattern (45 bp):
AAGTTACCTTGAGTTGGCTTCGGGCCATGGTATAGGCACTCCGAG
Found at i:9254607 original size:47 final size:48
Alignment explanation
Indices: 9254508--9254609 Score: 111
Period size: 47 Copynumber: 2.2 Consensus size: 48
9254498 TCGAAGGTTA
* * **
9254508 TCTTGAGTTGGCTTTGGGCCATGGTATAGATACTCCGAGCGAAGTTAC
1 TCTTGAGTTGGCTTCGGGCCATGGTATAGATACTACGAGCGAAGAGAC
* * *
9254556 -CTTGAGTTGGCTTCGGGCCATGGTATAGGTACCTATG-GC-ATGAGAC
1 TCTTGAGTTGGCTTCGGGCCATGGTATAGATA-CTACGAGCGAAGAGAC
9254602 TCTTGAGT
1 TCTTGAGT
9254610 ATCCGACTTC
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
46 4 0.09
47 38 0.84
48 3 0.07
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (48 bp):
TCTTGAGTTGGCTTCGGGCCATGGTATAGATACTACGAGCGAAGAGAC
Found at i:9262411 original size:16 final size:18
Alignment explanation
Indices: 9262390--9262426 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
9262380 TAATTGGCCA
9262390 TTGGGC-TTTA-GGTTTT
1 TTGGGCTTTTAGGGTTTT
9262406 TTGGGCTTTTAGGGTTTT
1 TTGGGCTTTTAGGGTTTT
9262424 TTG
1 TTG
9262427 CATTTGTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.32
17 4 0.21
18 9 0.47
ACGTcount: A:0.05, C:0.05, G:0.32, T:0.57
Consensus pattern (18 bp):
TTGGGCTTTTAGGGTTTT
Found at i:9267676 original size:19 final size:18
Alignment explanation
Indices: 9267638--9267672 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9267628 AAAATTCATA
*
9267638 TAAATAAAATATCAAAAT
1 TAAATAAAATATAAAAAT
*
9267656 TAAATAAATTATAAAAA
1 TAAATAAAATATAAAAA
9267673 ATTATTAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAATAAAATATAAAAAT
Found at i:9270975 original size:144 final size:144
Alignment explanation
Indices: 9270092--9270939 Score: 1482
Period size: 144 Copynumber: 5.9 Consensus size: 144
9270082 CTCAAGGAAC
**
9270092 ATGCTTGTTGGTCCAATCCCATCTTCTGTCAACAACTTAACCAATCTTGCATCGTTGGTTCTTTA
1 ATGCTTGTTGGTCCAATCCCATCTTCTGTCAACAACTTAACCAATCTTGCATCACTGGTTCTTTA
9270157 TGGAAACCAACTCAATGGATCCATTCCGCAAGAAATTGGGAGACTGACAAATTTGATTACATTGG
66 TGGAAACCAACTCAATGGATCCATTCCGCAAGAAATTGGGAGACTGACAAATTTGATTACATTGG
9270222 AGCTATCTTCTAAT
131 AGCTATCTTCTAAT
**
9270236 ATGCTTGTTGGTCCAATCCCATCTTCTGTCAACAACTTAACCAATCTTGCATCGTTGGTTCTTTA
1 ATGCTTGTTGGTCCAATCCCATCTTCTGTCAACAACTTAACCAATCTTGCATCACTGGTTCTTTA
9270301 TGGAAACCAACTCAATGGATCCATTCCGCAAGAAATTGGGAGACTGACAAATTTGATTACATTGG
66 TGGAAACCAACTCAATGGATCCATTCCGCAAGAAATTGGGAGACTGACAAATTTGATTACATTGG
9270366 AGCTATCTTCTAAT
131 AGCTATCTTCTAAT
**
9270380 ATGCTTGTTGGTCCAATCCCATCTTCTGTCAACAACTTAACCAATCTTGCATCGTTGGTTCTTTA
1 ATGCTTGTTGGTCCAATCCCATCTTCTGTCAACAACTTAACCAATCTTGCATCACTGGTTCTTTA
9270445 TGGAAACCAACTCAATGGATCCATTCCGCAAGAAATTGGGAGACTGACAAATTTGATTACATTGG
66 TGGAAACCAACTCAATGGATCCATTCCGCAAGAAATTGGGAGACTGACAAATTTGATTACATTGG
9270510 AGCTATCTTCTAAT
131 AGCTATCTTCTAAT
*
9270524 ATGCTTGTTGGTCCAATCCCATCTTCTGTCAACCACTTAACCAATCTTGCATCACTGGTTCTTTA
1 ATGCTTGTTGGTCCAATCCCATCTTCTGTCAACAACTTAACCAATCTTGCATCACTGGTTCTTTA
* *
9270589 TGGAAACCAACTTAATGGATCCATTCCACAAGAAATTGGGAGACTGACAAATTTGATTACATTGG
66 TGGAAACCAACTCAATGGATCCATTCCGCAAGAAATTGGGAGACTGACAAATTTGATTACATTGG
*
9270654 ATCTATCTTCTAAT
131 AGCTATCTTCTAAT
*
9270668 ATGCTTGTTGGTCCAATCCCATCTTCTGTCAACCACTTAACCAATCTTGCATCACTGGTTCTTTA
1 ATGCTTGTTGGTCCAATCCCATCTTCTGTCAACAACTTAACCAATCTTGCATCACTGGTTCTTTA
* *
9270733 TGGAAACCAACTTAATGGATCCATTCCACAAGAAATTGGGAGACTGACAAATTTGATTACATTGG
66 TGGAAACCAACTCAATGGATCCATTCCGCAAGAAATTGGGAGACTGACAAATTTGATTACATTGG
* *
9270798 ATCTATCTTTTAAT
131 AGCTATCTTCTAAT
* *
9270812 ATGCTTGTTGGTCCAATCCCATCTTCTGTCAACCACTTAACCAATCTTGCATCACTGGTTCTTAA
1 ATGCTTGTTGGTCCAATCCCATCTTCTGTCAACAACTTAACCAATCTTGCATCACTGGTTCTTTA
* * * * *
9270877 T-GACAACCAACTCAATGGATCCATTCCGCATGAAATTGGGAGGCTAACGAATTTGGTTACATT
66 TGGA-AACCAACTCAATGGATCCATTCCGCAAGAAATTGGGAGACTGACAAATTTGATTACATT
9270940 ACATCTATCC
Statistics
Matches: 688, Mismatches: 15, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
143 2 0.00
144 686 1.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.33
Consensus pattern (144 bp):
ATGCTTGTTGGTCCAATCCCATCTTCTGTCAACAACTTAACCAATCTTGCATCACTGGTTCTTTA
TGGAAACCAACTCAATGGATCCATTCCGCAAGAAATTGGGAGACTGACAAATTTGATTACATTGG
AGCTATCTTCTAAT
Found at i:9271695 original size:54 final size:55
Alignment explanation
Indices: 9271608--9271716 Score: 193
Period size: 54 Copynumber: 2.0 Consensus size: 55
9271598 ATTGCACCCC
9271608 TCCAATTTGTTCATCGAGACATCTCAAGCAATAACATTTAGTTGAACTCTGAATT
1 TCCAATTTGTTCATCGAGACATCTCAAGCAATAACATTTAGTTGAACTCTGAATT
* *
9271663 TCCAA-TTGTTCATCGAGACATCTCAAGTAATAACATTTTGTTGAACTCTGAATT
1 TCCAATTTGTTCATCGAGACATCTCAAGCAATAACATTTAGTTGAACTCTGAATT
9271717 GGAAGCTTTT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
54 47 0.90
55 5 0.10
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (55 bp):
TCCAATTTGTTCATCGAGACATCTCAAGCAATAACATTTAGTTGAACTCTGAATT
Found at i:9276086 original size:11 final size:11
Alignment explanation
Indices: 9276066--9276107 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
9276056 TTAGAATATT
*
9276066 CCCATTCCTTG
1 CCCATACCTTG
9276077 CCCATACCTTG
1 CCCATACCTTG
*
9276088 CCCATACCTTT
1 CCCATACCTTG
9276099 CCCATACCT
1 CCCATACCT
9276108 ACTCATACCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.17, C:0.48, G:0.05, T:0.31
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:9276679 original size:18 final size:18
Alignment explanation
Indices: 9276657--9276725 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
9276647 CGTTTACGGT
*
9276657 ACTATTCATGTATACGAC
1 ACTATTCACGTATACGAC
* * * *
9276675 GCTATTTACATATACGGC
1 ACTATTCACGTATACGAC
**
9276693 ACTATTCACGTATACGGT
1 ACTATTCACGTATACGAC
*
9276711 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
9276726 AGTAGTTGGG
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.33
Consensus pattern (18 bp):
ACTATTCACGTATACGAC
Found at i:9280787 original size:11 final size:11
Alignment explanation
Indices: 9280767--9280809 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
9280757 TTAGAATATA
*
9280767 CCCATTCCTTG
1 CCCATACCTTG
9280778 CCCATACCTTG
1 CCCATACCTTG
*
9280789 CCCATACC-TA
1 CCCATACCTTG
9280799 CCCATACCTTG
1 CCCATACCTTG
9280810 GAAAGGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.19, C:0.47, G:0.07, T:0.28
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:9285886 original size:18 final size:18
Alignment explanation
Indices: 9285863--9285899 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
9285853 TCTTTGTTTC
9285863 TTGTTGCTGTAAAACATG
1 TTGTTGCTGTAAAACATG
*
9285881 TTGTTGTTGTAAAACATG
1 TTGTTGCTGTAAAACATG
9285899 T
1 T
9285900 CTTCAGCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (18 bp):
TTGTTGCTGTAAAACATG
Found at i:9286704 original size:18 final size:19
Alignment explanation
Indices: 9286681--9286721 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
9286671 CCTTTGTTTT
*
9286681 ATTTTT-TACTCAAATTAA
1 ATTTTTCTACTCAAATAAA
*
9286699 ATTTTTCTTCTCAAATAAA
1 ATTTTTCTACTCAAATAAA
9286718 ATTT
1 ATTT
9286722 AAAACGGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTTTCTACTCAAATAAA
Found at i:9291747 original size:47 final size:47
Alignment explanation
Indices: 9291678--9291772 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
9291668 TATGTCTTTA
9291678 CCTATGACTGAGAATAAGCTGCAACACTAAAACAATCTGTAAAGTTT
1 CCTATGACTGAGAATAAGCTGCAACACTAAAACAATCTGTAAAGTTT
* *
9291725 CCTATGTCTGAGAATTAGCTGCAACACTAAAACAATCTGTAAAGTTT
1 CCTATGACTGAGAATAAGCTGCAACACTAAAACAATCTGTAAAGTTT
9291772 C
1 C
9291773 ATGGACTAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (47 bp):
CCTATGACTGAGAATAAGCTGCAACACTAAAACAATCTGTAAAGTTT
Found at i:9293453 original size:14 final size:14
Alignment explanation
Indices: 9293434--9293465 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
9293424 TCCAATCACC
9293434 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
9293448 GGGCCAGTTTGGTT
1 GGGCCAGTTTGGTT
9293462 GGGC
1 GGGC
9293466 TAAATGACCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.16, G:0.47, T:0.31
Consensus pattern (14 bp):
GGGCCAGTTTGGTT
Found at i:9308151 original size:54 final size:54
Alignment explanation
Indices: 9308075--9308233 Score: 192
Period size: 54 Copynumber: 2.9 Consensus size: 54
9308065 CATGACAAAT
* * *
9308075 GAAGACCATATAGTGTATGACCTAGTCTAAGACTATGGCGTCATATGGGGATGT
1 GAAGACCATATAGTGTAAGACCTAGTCTAAGACTATGGCGTCATATGGGAATGC
* * * * * * *
9308129 GGATACCACATAGTGTAAGACCTAGTCTGAGATTATGGCGTTATATAGGAATGC
1 GAAGACCATATAGTGTAAGACCTAGTCTAAGACTATGGCGTCATATGGGAATGC
* * * *
9308183 GAAGACCATATAGTGCAAGACCTAGTCTAGGACTTTGGCGTCATGTGGGAA
1 GAAGACCATATAGTGTAAGACCTAGTCTAAGACTATGGCGTCATATGGGAA
9308234 AAATATTAAA
Statistics
Matches: 84, Mismatches: 21, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 84 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (54 bp):
GAAGACCATATAGTGTAAGACCTAGTCTAAGACTATGGCGTCATATGGGAATGC
Found at i:9308406 original size:29 final size:29
Alignment explanation
Indices: 9308374--9308429 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
9308364 ATATGTGAAC
**
9308374 CTTTGTGGTTGAATCTATTATATATGAGT
1 CTTTGTGACTGAATCTATTATATATGAGT
* *
9308403 CTTTGTGACTGAATTTGTTATATATGA
1 CTTTGTGACTGAATCTATTATATATGA
9308430 AAGCCTTTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.25, C:0.07, G:0.20, T:0.48
Consensus pattern (29 bp):
CTTTGTGACTGAATCTATTATATATGAGT
Found at i:9308438 original size:31 final size:29
Alignment explanation
Indices: 9308364--9308439 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 29
9308354 GTTCTCTGTA
* * **
9308364 ATATGTGAACCTTTGTGGTTGAATCTATT
1 ATATATGAGCCTTTGTGACTGAATCTATT
* * *
9308393 ATATATGAGTCTTTGTGACTGAATTTGTT
1 ATATATGAGCCTTTGTGACTGAATCTATT
9308422 ATATATGAAAGCCTTTGT
1 ATATATG--AGCCTTTGT
9308440 AGCTGTTATC
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
29 29 0.78
31 8 0.22
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.45
Consensus pattern (29 bp):
ATATATGAGCCTTTGTGACTGAATCTATT
Found at i:9311373 original size:18 final size:17
Alignment explanation
Indices: 9311346--9311379 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
9311336 CAACATGATA
9311346 CAAATACATTCTTCATAT
1 CAAATACATTC-TCATAT
*
9311364 CAAATTCATTCTCATA
1 CAAATACATTCTCATA
9311380 CCTTTCGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.38, C:0.24, G:0.00, T:0.38
Consensus pattern (17 bp):
CAAATACATTCTCATAT
Found at i:9313070 original size:29 final size:29
Alignment explanation
Indices: 9313036--9313109 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
9313026 TAATCAACCG
*
9313036 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
9313065 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
9313094 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
9313110 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:9329394 original size:49 final size:49
Alignment explanation
Indices: 9329338--9329437 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
9329328 GGCTAAAAGA
9329338 AAGATTAATTGCATACTATCTGTGATCCAATAATTGGGCCTATACCAGG
1 AAGATTAATTGCATACTATCTGTGATCCAATAATTGGGCCTATACCAGG
*
9329387 AAGATTAATTGCATACTATCTGTGATCCAATAATTGGGCCTATATCAGG
1 AAGATTAATTGCATACTATCTGTGATCCAATAATTGGGCCTATACCAGG
9329436 AA
1 AA
9329438 CTGAAACATC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (49 bp):
AAGATTAATTGCATACTATCTGTGATCCAATAATTGGGCCTATACCAGG
Found at i:9329420 original size:25 final size:25
Alignment explanation
Indices: 9329343--9329422 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
9329333 AAAGAAAGAT
9329343 TAATTGCATACTATCTGTGATCCAA
1 TAATTGCATACTATCTGTGATCCAA
* * * ** *
9329368 TAATTGGGCCTA-TACCAG-GA-AGAT
1 TAATT--GCATACTATCTGTGATCCAA
9329392 TAATTGCATACTATCTGTGATCCAA
1 TAATTGCATACTATCTGTGATCCAA
9329417 TAATTG
1 TAATTG
9329423 GGCCTATATC
Statistics
Matches: 38, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
22 4 0.11
23 4 0.11
24 8 0.21
25 14 0.37
26 4 0.11
27 4 0.11
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (25 bp):
TAATTGCATACTATCTGTGATCCAA
Found at i:9330314 original size:62 final size:62
Alignment explanation
Indices: 9330217--9330340 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
9330207 AAAAATCAAG
9330217 TTAATTTACAATTTTTAAATTTATGTACCAACTAGCTCAATAAATAAATATACCAAATTTAA
1 TTAATTTACAATTTTTAAATTTATGTACCAACTAGCTCAATAAATAAATATACCAAATTTAA
9330279 TTAATTTACAATTTTTAAATTTATGTACCAACTAGCTCAATAAATAAATATACCAAATTTAA
1 TTAATTTACAATTTTTAAATTTATGTACCAACTAGCTCAATAAATAAATATACCAAATTTAA
9330341 ATACTTCCGT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.39
Consensus pattern (62 bp):
TTAATTTACAATTTTTAAATTTATGTACCAACTAGCTCAATAAATAAATATACCAAATTTAA
Found at i:9331231 original size:29 final size:28
Alignment explanation
Indices: 9331198--9331269 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
9331188 TTAGGAGTCA
*
9331198 AAGTTAAAAATTTTATATTAAAAATGTTT
1 AAGTTAAAAATTTT-TATTAAAAATGTTG
* * *
9331227 AAGTTAAATTATTTTTTTTAAAAGTGTTG
1 AAGTTAAA-AATTTTTATTAAAAATGTTG
* *
9331256 AAATTATAAATTTT
1 AAGTTAAAAATTTT
9331270 CCATTTAATC
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
28 5 0.14
29 25 0.71
30 5 0.14
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (28 bp):
AAGTTAAAAATTTTTATTAAAAATGTTG
Found at i:9331347 original size:13 final size:13
Alignment explanation
Indices: 9331329--9331357 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
9331319 GAAAAAACTA
9331329 TAAAATAAATTTC
1 TAAAATAAATTTC
9331342 TAAAATAAATTTC
1 TAAAATAAATTTC
9331355 TAA
1 TAA
9331358 TTGAACCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATAAATTTC
Found at i:9332059 original size:20 final size:17
Alignment explanation
Indices: 9332020--9332072 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 17
9332010 CTAAAAAATT
9332020 ATTTTAATTTTTTATAC
1 ATTTTAATTTTTTATAC
9332037 ATTTTAATTTTATTATGTAC
1 ATTTTAATTTT-TTA--TAC
*
9332057 ATTTTATTATTTTTAT
1 ATTTTAAT-TTTTTAT
9332073 CAATTATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
17 11 0.35
18 4 0.13
20 13 0.42
21 3 0.10
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (17 bp):
ATTTTAATTTTTTATAC
Found at i:9336604 original size:18 final size:18
Alignment explanation
Indices: 9336581--9336619 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
9336571 TGAGTAAGGA
*
9336581 GATACTTGAAACTCTTGT
1 GATACTTGAAACTCTGGT
9336599 GATACTTGAAACTCTGGT
1 GATACTTGAAACTCTGGT
9336617 GAT
1 GAT
9336620 CAATATAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (18 bp):
GATACTTGAAACTCTGGT
Found at i:9339656 original size:12 final size:12
Alignment explanation
Indices: 9339639--9339667 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
9339629 TTTAACCAAA
9339639 TACAGAAATACT
1 TACAGAAATACT
9339651 TACAGAAATACT
1 TACAGAAATACT
9339663 TACAG
1 TACAG
9339668 GATTAGTGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.17, G:0.10, T:0.24
Consensus pattern (12 bp):
TACAGAAATACT
Done.