Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 42 of 310
Found at i:12157227 original size:12 final size:12
Alignment explanation
Indices: 12157212--12157253 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
12157202 TTAATTTATT
12157212 TATTTTTAATTA
1 TATTTTTAATTA
12157224 TATTTTTAA-TA
1 TATTTTTAATTA
*
12157235 -AATTTTAATTA
1 TATTTTTAATTA
*
12157246 TTTTTTTA
1 TATTTTTA
12157254 TCCTTTCTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
10 7 0.28
11 4 0.16
12 14 0.56
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TATTTTTAATTA
Found at i:12158414 original size:22 final size:22
Alignment explanation
Indices: 12158371--12158414 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
12158361 GATCATTGTC
*
12158371 TTGCAACATGGGAAGTTCAATG
1 TTGCAACATGGGAAGTACAATG
*
12158393 TTGCAACATAGGG-AGTAGAATG
1 TTGCAACAT-GGGAAGTACAATG
12158415 CAAGAATATC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TTGCAACATGGGAAGTACAATG
Found at i:12162376 original size:54 final size:54
Alignment explanation
Indices: 12162302--12162436 Score: 198
Period size: 54 Copynumber: 2.5 Consensus size: 54
12162292 GTCGTTAAAA
* * * *
12162302 GGGATTTAGCCTGGATTGGTAATCCTGACAATGCTCTATGAGTTAATAATACGG
1 GGGATTTAGCCTGGACTGGTAATCCCGACAATGCTCAATGAGTTAATAATACAG
* * * *
12162356 GGGATTTAGCCTAGACTGGTAATCCCGACAATGCTCAATTAGTTAATACTATAG
1 GGGATTTAGCCTGGACTGGTAATCCCGACAATGCTCAATGAGTTAATAATACAG
12162410 GGGATTTAGCCTGGACTGGTAATCCCG
1 GGGATTTAGCCTGGACTGGTAATCCCG
12162437 CAGTAAGATG
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (54 bp):
GGGATTTAGCCTGGACTGGTAATCCCGACAATGCTCAATGAGTTAATAATACAG
Found at i:12164445 original size:13 final size:13
Alignment explanation
Indices: 12164427--12164454 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
12164417 CTGCCAAATA
12164427 GACACGGCCGTGT
1 GACACGGCCGTGT
12164440 GACACGGCCGTGT
1 GACACGGCCGTGT
12164453 GA
1 GA
12164455 GGAAGTCCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.29, G:0.39, T:0.14
Consensus pattern (13 bp):
GACACGGCCGTGT
Found at i:12166911 original size:489 final size:488
Alignment explanation
Indices: 12165954--12166931 Score: 1938
Period size: 489 Copynumber: 2.0 Consensus size: 488
12165944 TTTGATGATG
12165954 AGCTTTGGAGCTCTTTATAACTGTGATAGAATCAGGAACTTTTTAGGAAATATAAGGAAGTATAA
1 AGCTTTGGAGCTCTTTATAACTGTGATAGAATCAGGAACTTTTTAGGAAATATAAGGAAGTATAA
12166019 TTACTCGTAATGAAATAGCCGAAACTATAAATTATTCAATAAAAATTATAAAAACTAAAATTAAA
66 TTACTCGTAATGAAATAGCCGAAACTATAAATTATTCAATAAAAATTATAAAAACTAAAATTAAA
12166084 ATAATATTAAAGGAAAATGAAATAAAAAGTACTTAAATAAGATAAATAAAGATAAAAGTGAAAAT
131 ATAATATTAAAGGAAAATGAAATAAAAAGTACTTAAATAAGATAAATAAAGATAAAAGTGAAAAT
12166149 AAAAATAATAAATAAATTTTTTTTAAACATCGTCATTTCCGGATGGTTTGCGAGGTGGTGGTGGC
196 AAAAATAATAAATAAATTTTTTTTAAACATCGTCATTTCCGGATGGTTTGCGAGGTGGTGGTGGC
12166214 GGCGATGAGATGTGAAGGTGCTGACAAATCTGATGAAGTGTAGCATCAATGTGATCAAAATGCTG
261 GGCGATGAGATGTGAAGGTGCTGACAAATCTGATGAAGTGTAGCATCAATGTGATCAAAATGCTG
12166279 AAAACATTGCTGCTCAAATCGAGTAAGGCGCTCAGAGATGTCAGAGTATGAAGTCGCCGCATGAA
326 AAAACATTGCTGCTCAAATCGAGTAAGGCGCTCAGAGATGTCAGAGTATGAAGTCGCCGCATGAA
12166344 CTGGATGATGGATGGGTAGTGGCTGAGACGGTGGGTCCTCATGACGTGGAGGGACATCATCAGGA
391 CTGGATGATGGATGGGTAGTGGCTGAGACGGTGGGTCCTCATGACGTGGAGGGACATCATCAGGA
12166409 ATATCCTTTGGGTCTTCCTCCTCGATTGACTGA
456 ATATCCTTTGGGTCTTCCTCCTCGATTGACTGA
12166442 AGCTTTGGAGCTCTTTATAACTGTGATAGAATCAGGAACTTTTTTAGGAAATATAAGGAAGTATA
1 AGCTTTGGAGCTCTTTATAACTGTGATAGAATCAGGAAC-TTTTTAGGAAATATAAGGAAGTATA
*
12166507 ATTACTCGTAATGAAATAGTCGAAACTATAAATTATTCAATAAAAATTATAAAAACTAAAATTAA
65 ATTACTCGTAATGAAATAGCCGAAACTATAAATTATTCAATAAAAATTATAAAAACTAAAATTAA
12166572 AATAATATTAAAGGAAAATGAAATAAAAAGTACTTAAATAAGATAAATAAAGATAAAAGTGAAAA
130 AATAATATTAAAGGAAAATGAAATAAAAAGTACTTAAATAAGATAAATAAAGATAAAAGTGAAAA
12166637 TAAAAATAATAAATAAATTTTTTTTAAACATCGTCATTTCCGGATGGTTTGCGAGGTGGTGGTGG
195 TAAAAATAATAAATAAATTTTTTTTAAACATCGTCATTTCCGGATGGTTTGCGAGGTGGTGGTGG
12166702 CGGCGATGAGATGTGAAGGTGCTGACAAATCTGATGAAGTGTAGCATCAATGTGATCAAAATGCT
260 CGGCGATGAGATGTGAAGGTGCTGACAAATCTGATGAAGTGTAGCATCAATGTGATCAAAATGCT
12166767 GAAAACATTGCTGCTCAAATCGAGTAAGGCGCTCAGAGATGTCAGAGTATGAAGTCGCCGCATGA
325 GAAAACATTGCTGCTCAAATCGAGTAAGGCGCTCAGAGATGTCAGAGTATGAAGTCGCCGCATGA
12166832 ACTGGATGATGGATGGGTAGTGGCTGAGACGGTGGGTCCTCATGACGTGGAGGGACATCATCAGG
390 ACTGGATGATGGATGGGTAGTGGCTGAGACGGTGGGTCCTCATGACGTGGAGGGACATCATCAGG
12166897 AATATCCTTTGGGTCTTCCTCCTCGATTGACTGA
455 AATATCCTTTGGGTCTTCCTCCTCGATTGACTGA
12166931 A
1 A
12166932 TGAGGCGGTA
Statistics
Matches: 488, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
488 39 0.08
489 449 0.92
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (488 bp):
AGCTTTGGAGCTCTTTATAACTGTGATAGAATCAGGAACTTTTTAGGAAATATAAGGAAGTATAA
TTACTCGTAATGAAATAGCCGAAACTATAAATTATTCAATAAAAATTATAAAAACTAAAATTAAA
ATAATATTAAAGGAAAATGAAATAAAAAGTACTTAAATAAGATAAATAAAGATAAAAGTGAAAAT
AAAAATAATAAATAAATTTTTTTTAAACATCGTCATTTCCGGATGGTTTGCGAGGTGGTGGTGGC
GGCGATGAGATGTGAAGGTGCTGACAAATCTGATGAAGTGTAGCATCAATGTGATCAAAATGCTG
AAAACATTGCTGCTCAAATCGAGTAAGGCGCTCAGAGATGTCAGAGTATGAAGTCGCCGCATGAA
CTGGATGATGGATGGGTAGTGGCTGAGACGGTGGGTCCTCATGACGTGGAGGGACATCATCAGGA
ATATCCTTTGGGTCTTCCTCCTCGATTGACTGA
Found at i:12178446 original size:20 final size:20
Alignment explanation
Indices: 12178423--12178468 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
12178413 TAAGCTTAGT
12178423 TGAGCTCAAACGAGCTGAAA
1 TGAGCTCAAACGAGCTGAAA
* *
12178443 TGAGCTCAAATGAGCTGAAT
1 TGAGCTCAAACGAGCTGAAA
12178463 TGAGCT
1 TGAGCT
12178469 GGATAGAGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (20 bp):
TGAGCTCAAACGAGCTGAAA
Found at i:12178469 original size:10 final size:10
Alignment explanation
Indices: 12178423--12178469 Score: 58
Period size: 10 Copynumber: 4.7 Consensus size: 10
12178413 TAAGCTTAGT
*
12178423 TGAGCTCAAA
1 TGAGCTGAAA
*
12178433 CGAGCTGAAA
1 TGAGCTGAAA
*
12178443 TGAGCTCAAA
1 TGAGCTGAAA
*
12178453 TGAGCTGAAT
1 TGAGCTGAAA
12178463 TGAGCTG
1 TGAGCTG
12178470 GATAGAGCTC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (10 bp):
TGAGCTGAAA
Found at i:12181930 original size:54 final size:54
Alignment explanation
Indices: 12181865--12182053 Score: 324
Period size: 54 Copynumber: 3.5 Consensus size: 54
12181855 GTCGTTAAAT
* * *
12181865 GGGATTTAGCCTGGACTGGTAATCCTGCCAATGCTCTATGAGTTAATACTACAG
1 GGGATTTAGCCTGGACTGGTAATCCCGACAATGCTCTATGAGTTAATACTACGG
*
12181919 GGGATTTAGCCTAGACTGGTAATCCCGACAATGCTCTATGAGTTAATACTACGG
1 GGGATTTAGCCTGGACTGGTAATCCCGACAATGCTCTATGAGTTAATACTACGG
*
12181973 GGGATTTAGCCTGGACTGGTAATCCCGACAATGCTTTATGAGTTAATACTACGG
1 GGGATTTAGCCTGGACTGGTAATCCCGACAATGCTCTATGAGTTAATACTACGG
*
12182027 GGGATTTAGCCTGGACTAGTAATCCCG
1 GGGATTTAGCCTGGACTGGTAATCCCG
12182054 CCGTAAGATG
Statistics
Matches: 128, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 128 1.00
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (54 bp):
GGGATTTAGCCTGGACTGGTAATCCCGACAATGCTCTATGAGTTAATACTACGG
Found at i:12193888 original size:102 final size:102
Alignment explanation
Indices: 12193712--12193912 Score: 375
Period size: 102 Copynumber: 2.0 Consensus size: 102
12193702 GAAATGCCTG
* *
12193712 GTATGTCAGTAAGTTAAAGCTGAACATCAAGTGCCTTCAGGTTTGCTATAGCCTGTGATGGTCCC
1 GTATGTCAGCAAGTTAAAGCTGAACATCAAGTGCCTTCAGGTTTGCTACAGCCTGTGATGGTCCC
12193777 CGAATGGAAGTGGGACAGAGTTACTATGGATTTCTTA
66 CGAATGGAAGTGGGACAGAGTTACTATGGATTTCTTA
*
12193814 GTATGTCAGCATGTTAAAGCTGAACATCAAGTGCCTTCAGGTTTGCTACAGCCTGTGATGGTCCC
1 GTATGTCAGCAAGTTAAAGCTGAACATCAAGTGCCTTCAGGTTTGCTACAGCCTGTGATGGTCCC
12193879 CGAATGGAAGTGGGACAGAGTTACTATGGATTTC
66 CGAATGGAAGTGGGACAGAGTTACTATGGATTTC
12193913 GTGACAGGAT
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 96 1.00
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (102 bp):
GTATGTCAGCAAGTTAAAGCTGAACATCAAGTGCCTTCAGGTTTGCTACAGCCTGTGATGGTCCC
CGAATGGAAGTGGGACAGAGTTACTATGGATTTCTTA
Found at i:12194289 original size:161 final size:161
Alignment explanation
Indices: 12194024--12194353 Score: 653
Period size: 161 Copynumber: 2.1 Consensus size: 161
12194014 CTCCCTCGAT
12194024 AGATTGGTCGACTTGTACATTTCTGAGATTGTAAGATTGCATGGGGTACCACTGTCAATTATTTC
1 AGATTGGTCGACTTGTACATTTCTGAGATTGTAAGATTGCATGGGGTACCACTGTCAATTATTTC
12194089 CGACAGAGACCTGAGGTTCACTTCGAGATTCTGGAAGAAATTACAAGAAGCCTTGGGTACGAAGT
66 CGACAGAGACCTGAGGTTCACTTCGAGATTCTGGAAGAAATTACAAGAAGCCTTGGGTACGAAGT
12194154 TATGCTTTAGTACAGCTTTTCACCCTTAGAC
131 TATGCTTTAGTACAGCTTTTCACCCTTAGAC
12194185 AGATTGGTCGACTTGTACATTTCTGAGATTGTAAGATTGCATGGGGTACCACTGTCAATTATTTC
1 AGATTGGTCGACTTGTACATTTCTGAGATTGTAAGATTGCATGGGGTACCACTGTCAATTATTTC
12194250 CGACAGAGACCTGAGGTTCACTTCGAGATTCTGGAAGAAATTACAAGAAGCCTTGGGTACGAAGT
66 CGACAGAGACCTGAGGTTCACTTCGAGATTCTGGAAGAAATTACAAGAAGCCTTGGGTACGAAGT
12194315 TATGCTTTAGTACAGCTTTTCACCCTTAGAC
131 TATGCTTTAGTACAGCTTTTCACCCTTAGAC
12194346 AGA-TGGTC
1 AGATTGGTC
12194354 AGTCTGAGCG
Statistics
Matches: 169, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
160 5 0.03
161 164 0.97
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.31
Consensus pattern (161 bp):
AGATTGGTCGACTTGTACATTTCTGAGATTGTAAGATTGCATGGGGTACCACTGTCAATTATTTC
CGACAGAGACCTGAGGTTCACTTCGAGATTCTGGAAGAAATTACAAGAAGCCTTGGGTACGAAGT
TATGCTTTAGTACAGCTTTTCACCCTTAGAC
Found at i:12215221 original size:24 final size:23
Alignment explanation
Indices: 12215183--12215238 Score: 58
Period size: 24 Copynumber: 2.4 Consensus size: 23
12215173 AATAAATGCG
*
12215183 AATAAAAATCGTAATACAAAATT
1 AATAAAAAACGTAATACAAAATT
* * **
12215206 AATTAAAAAACTTAATCCAATTTT
1 AA-TAAAAAACGTAATACAAAATT
12215230 AATAAAAAA
1 AATAAAAAA
12215239 TATGAGAGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 9 0.33
24 18 0.67
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.29
Consensus pattern (23 bp):
AATAAAAAACGTAATACAAAATT
Found at i:12215304 original size:22 final size:22
Alignment explanation
Indices: 12215265--12215316 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
12215255 GAGAATTGAG
*
12215265 TTGAGTGAGAATTAAGAAAGAA
1 TTGAGAGAGAATTAAGAAAGAA
* * *
12215287 TTGAGAGAGGATTGAGAATGAA
1 TTGAGAGAGAATTAAGAAAGAA
12215309 TTGAGAGA
1 TTGAGAGA
12215317 AAGTTGAGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.23
Consensus pattern (22 bp):
TTGAGAGAGAATTAAGAAAGAA
Found at i:12215323 original size:22 final size:22
Alignment explanation
Indices: 12215279--12215334 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
12215269 GTGAGAATTA
* *
12215279 AGAAAGAATTGAGAGAGGATTG
1 AGAATGAATTGAGAGAAGATTG
12215301 AGAATGAATTGAGAGAA-AGTTG
1 AGAATGAATTGAGAGAAGA-TTG
* *
12215323 AGAGTAAATTGA
1 AGAATGAATTGA
12215335 AAAAGTGGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 1 0.03
22 28 0.97
ACGTcount: A:0.46, C:0.00, G:0.32, T:0.21
Consensus pattern (22 bp):
AGAATGAATTGAGAGAAGATTG
Found at i:12215700 original size:16 final size:16
Alignment explanation
Indices: 12215672--12215704 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
12215662 GTAAACTAAT
12215672 ATATATCTATAATTTA
1 ATATATCTATAATTTA
12215688 ATATA-CTAGTAATTTA
1 ATATATCTA-TAATTTA
12215704 A
1 A
12215705 AATGATTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (16 bp):
ATATATCTATAATTTA
Found at i:12217539 original size:15 final size:15
Alignment explanation
Indices: 12217494--12217541 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
12217484 AACCCATACT
* *
12217494 TAATTTTTTTTAGAT
1 TAATTTTTTTTAAAA
* *
12217509 TAGTTTTATTTAAAAA
1 TAATTTT-TTTTAAAA
12217525 TAATTTTTTTTAAAA
1 TAATTTTTTTTAAAA
12217540 TA
1 TA
12217542 TAATATATAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 15 0.58
16 11 0.42
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (15 bp):
TAATTTTTTTTAAAA
Found at i:12220362 original size:16 final size:17
Alignment explanation
Indices: 12220341--12220381 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
12220331 CGCCATTTGA
12220341 CGAACTCTAAGGT-TGG
1 CGAACTCTAAGGTCTGG
*
12220357 CGAACTCTAGGGTCTGG
1 CGAACTCTAAGGTCTGG
*
12220374 CGGACTCT
1 CGAACTCT
12220382 TTTATGAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.24
Consensus pattern (17 bp):
CGAACTCTAAGGTCTGG
Found at i:12221912 original size:26 final size:26
Alignment explanation
Indices: 12221883--12221940 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
12221873 CCCAATATAT
12221883 GGCTCTTCGTGAACTTCCCGATTAAA
1 GGCTCTTCGTGAACTTCCCGATTAAA
* * ** *
12221909 GGCTCTTTGTGAGCTTCTTGATTAAT
1 GGCTCTTCGTGAACTTCCCGATTAAA
12221935 GGCTCT
1 GGCTCT
12221941 CTAGAGCTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (26 bp):
GGCTCTTCGTGAACTTCCCGATTAAA
Found at i:12222070 original size:24 final size:24
Alignment explanation
Indices: 12222043--12222104 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
12222033 GGCTCGCATA
*
12222043 AGCTTTCCGATTATGGCTCTTATG
1 AGCTTTCCGATTATAGCTCTTATG
*
12222067 AGC-TTCCTAATTATAGCTCTTATG
1 AGCTTTCC-GATTATAGCTCTTATG
*
12222091 AGCTTCCCG-TTATA
1 AGCTTTCCGATTATA
12222105 CAGCCCGGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
23 9 0.28
24 20 0.62
25 3 0.09
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (24 bp):
AGCTTTCCGATTATAGCTCTTATG
Found at i:12229549 original size:6 final size:7
Alignment explanation
Indices: 12229532--12229558 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
12229522 CCAATTTGTG
12229532 AAAAAAT
1 AAAAAAT
12229539 AAAAAAT
1 AAAAAAT
12229546 AAAAAAT
1 AAAAAAT
12229553 AAAAAA
1 AAAAAA
12229559 AATAAAGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:12230815 original size:27 final size:27
Alignment explanation
Indices: 12230785--12230837 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
12230775 AGAAAACAAG
*
12230785 GTTGGATCGTATTAAAATGTTGCATAA
1 GTTGGATCGTATTAAAATATTGCATAA
12230812 GTTGGATCGTATTAAAATATTGCATA
1 GTTGGATCGTATTAAAATATTGCATA
12230838 CTTCATTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.38
Consensus pattern (27 bp):
GTTGGATCGTATTAAAATATTGCATAA
Found at i:12231428 original size:21 final size:21
Alignment explanation
Indices: 12231402--12231443 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
12231392 CTAAGTTAGC
12231402 CTAGCTCTCAAAAGATGAGAA
1 CTAGCTCTCAAAAGATGAGAA
12231423 CTAGCTCTCAAAAGATGAGAA
1 CTAGCTCTCAAAAGATGAGAA
12231444 TTCTCCCGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (21 bp):
CTAGCTCTCAAAAGATGAGAA
Found at i:12234632 original size:44 final size:44
Alignment explanation
Indices: 12234511--12234684 Score: 251
Period size: 44 Copynumber: 4.0 Consensus size: 44
12234501 TATTATACAG
* *
12234511 TACTATTCGGGCCTTGAGCCTAGCAGGCTATAATGCTGGTAAGA
1 TACTATTCGGGCCTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
12234555 TATTATTTGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCC-TTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
12234600 TACTATTCGGGCCTTGAGCCTAGTAGGCTATAATGCCAGTGAGA
1 TACTATTCGGGCCTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * *
12234644 CACTATTCGGGCCTCGAGCCTAGCAGGCGA-AATGCCGGTGA
1 TACTATTCGGGCCTTGAGCCTAGCAGGCTATAATGCCGGTGA
12234685 TTTGATAAAA
Statistics
Matches: 116, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
43 10 0.09
44 66 0.57
45 40 0.34
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (44 bp):
TACTATTCGGGCCTTGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:12243982 original size:25 final size:25
Alignment explanation
Indices: 12243954--12244029 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 25
12243944 AAAATGAAAT
*
12243954 AAAGAAAAAGAAA-GAGAGAAAGTAA
1 AAAGAAAAAGAAAGGAAAGAAAG-AA
* **
12243979 AAAGTAGCAGAAAGGAAAGAAAGAA
1 AAAGAAAAAGAAAGGAAAGAAAGAA
*
12244004 AAAGAAAAAGAGAAAG-AAGAAAGAA
1 AAAGAAAAAGA-AAGGAAAGAAAGAA
12244029 A
1 A
12244030 CAAACGCGAA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
25 30 0.73
26 11 0.27
ACGTcount: A:0.71, C:0.01, G:0.25, T:0.03
Consensus pattern (25 bp):
AAAGAAAAAGAAAGGAAAGAAAGAA
Found at i:12244041 original size:44 final size:44
Alignment explanation
Indices: 12243939--12244031 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
12243929 TTATATAATA
* * * *
12243939 AAACAAAAATGAAATAAAGAAAAAGAAAGAGAGAAAGTAAAAAG
1 AAACAGAAAGGAAAGAAAGAAAAAGAAAAAGAGAAAGTAAAAAG
* *
12243983 TAGCAGAAAGGAAAGAAAGAAAAAGAAAAAGAGAAAG-AAGAAAG
1 AAACAGAAAGGAAAGAAAGAAAAAGAAAAAGAGAAAGTAA-AAAG
12244027 AAACA
1 AAACA
12244032 AACGCGAAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
43 2 0.05
44 38 0.95
ACGTcount: A:0.71, C:0.03, G:0.22, T:0.04
Consensus pattern (44 bp):
AAACAGAAAGGAAAGAAAGAAAAAGAAAAAGAGAAAGTAAAAAG
Found at i:12249966 original size:17 final size:17
Alignment explanation
Indices: 12249944--12249979 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
12249934 GGTTTGTTTT
12249944 ATAACTCAAAAGAGCAA
1 ATAACTCAAAAGAGCAA
12249961 ATAACTCAAAAGAGCAA
1 ATAACTCAAAAGAGCAA
12249978 AT
1 AT
12249980 TGTTATAGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.58, C:0.17, G:0.11, T:0.14
Consensus pattern (17 bp):
ATAACTCAAAAGAGCAA
Found at i:12253404 original size:14 final size:15
Alignment explanation
Indices: 12253380--12253408 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
12253370 TTTCACAAAT
12253380 GATTGTTGTACTTGA
1 GATTGTTGTACTTGA
12253395 GATT-TTGTACTTGA
1 GATTGTTGTACTTGA
12253409 ACAAAACATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.21, C:0.07, G:0.24, T:0.48
Consensus pattern (15 bp):
GATTGTTGTACTTGA
Found at i:12257169 original size:94 final size:95
Alignment explanation
Indices: 12257038--12257214 Score: 284
Period size: 94 Copynumber: 1.9 Consensus size: 95
12257028 AAAACAAAAA
* *
12257038 CTGAAAACCAAAAAACCCACTGAAAATACAAGTAAAGAAGCATAAATCTGAAACTACAACAGAGA
1 CTGAAAACCAAAAAACCCACTGAAAATACAAATAAAGAAGCATAAATCTGAAACTAAAACAGAGA
* *
12257103 TGAAAAGGCAAAGAAAAACTTGTTCTAAAG
66 TGAAAAGGAAAAAAAAAACTTGTTCTAAAG
* * *
12257133 CTGAAAACCAAAAAACTCACTG-AAATACAAATAAAGAAGCTTAGATCTGAAACTAAAACAGAGA
1 CTGAAAACCAAAAAACCCACTGAAAATACAAATAAAGAAGCATAAATCTGAAACTAAAACAGAGA
12257197 TGAAAAGGAAAAAAAAAA
66 TGAAAAGGAAAAAAAAAA
12257215 AAGTTCAAGT
Statistics
Matches: 75, Mismatches: 7, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
94 54 0.72
95 21 0.28
ACGTcount: A:0.56, C:0.15, G:0.14, T:0.14
Consensus pattern (95 bp):
CTGAAAACCAAAAAACCCACTGAAAATACAAATAAAGAAGCATAAATCTGAAACTAAAACAGAGA
TGAAAAGGAAAAAAAAAACTTGTTCTAAAG
Found at i:12262410 original size:22 final size:22
Alignment explanation
Indices: 12262385--12262434 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
12262375 GCCACAACTA
*
12262385 AATCCCCTACCGGAGGAACCAC
1 AATCCCCTACCGGAGCAACCAC
* *
12262407 AAT-CCCTGCTGGAGCAACCAC
1 AATCCCCTACCGGAGCAACCAC
*
12262428 AACCCCC
1 AATCCCC
12262435 ATCTGAAGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.30, C:0.44, G:0.16, T:0.10
Consensus pattern (22 bp):
AATCCCCTACCGGAGCAACCAC
Found at i:12266247 original size:128 final size:126
Alignment explanation
Indices: 12265791--12266310 Score: 672
Period size: 128 Copynumber: 4.1 Consensus size: 126
12265781 GCCAAATAAG
* *
12265791 AACTACTGTAGAAAAAGA-GCGTCCACGTGGGAGCTTTTTTT-AGTAATTTTGCTGACAGTGCAT
1 AACTACTGTAGAAAAA-ACGCGTCCACGTGGGAG-TTTTTTTCAGTAATTTTACTAACAGTGCAT
* *
12265854 CCTGCTTGAAGCATTTTTGAAACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAAA
64 CCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAAA
* ** * ** * * * * *
12265917 AACCACTGTAGAAAAAGTGCGTCCACATAAGA-TCTTTTTCAGTACTTTTGCTGACAGTACATCC
1 AACTACTGTAGAAAAAACGCGTCCACGTGGGAGTTTTTTTCAGTAATTTTACTAACAGTGCATCC
*
12265981 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTC-AAATT-TTTTTTCACA
66 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAAA
* * * * * * * *
12266040 AGCTACTGTAGAAAAAGCCCGTCCATGTGGGAGATTTTTTCAGTAATTTTACTAATAGTGTATCT
1 AACTACTGTAGAAAAAACGCGTCCACGTGGGAGTTTTTTTCAGTAATTTTACTAACAGTGCATCC
* *
12266105 TGCTTGAAGCGTTTTTGACACTATTTGTTCAAAAACATCTTCTCAAAATTATTTTTTCAGA
66 TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAAA
* ** *
12266166 AACAACTGTAGAAAAAACGCGTCCACGTGGGAGCTTTTTTTTCAGTGCTTTTACTAATAGTGCAT
1 AACTACTGTAGAAAAAACGCGTCCACGTGGGAG--TTTTTTTCAGTAATTTTACTAACAGTGCAT
* * *
12266231 CCTGCTTGAAGCGTTTTTGGCACTATTTGTTCAGAAACGTCTTCTCAAATTTATTTTTTCAAA
64 CCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAAA
12266294 AACTACTGTAGAAAAAA
1 AACTACTGTAGAAAAAA
12266311 ATTTATTGCT
Statistics
Matches: 341, Mismatches: 46, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
123 33 0.10
124 77 0.23
125 69 0.20
126 63 0.18
128 99 0.29
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.37
Consensus pattern (126 bp):
AACTACTGTAGAAAAAACGCGTCCACGTGGGAGTTTTTTTCAGTAATTTTACTAACAGTGCATCC
TGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAAA
Found at i:12266539 original size:14 final size:15
Alignment explanation
Indices: 12266520--12266552 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
12266510 TAAAAACTTA
*
12266520 AAAAACA-TAACCCT
1 AAAAACACTAACACT
12266534 AAAAACACTAACACT
1 AAAAACACTAACACT
12266549 AAAA
1 AAAA
12266553 TCCTAAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.64, C:0.24, G:0.00, T:0.12
Consensus pattern (15 bp):
AAAAACACTAACACT
Found at i:12266884 original size:25 final size:23
Alignment explanation
Indices: 12266856--12266921 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 23
12266846 ACTAAACCCA
12266856 AAATTATAACCCCAAACCAAAACT
1 AAATTA-AACCCCAAACCAAAACT
* *
12266880 GAAATTGAAACCTCAATCCAAAACT
1 -AAATT-AAACCCCAAACCAAAACT
12266905 AAATATAAAACCCCAAA
1 AAAT-T-AAACCCCAAA
12266922 TGAAAACCCT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
24 4 0.12
25 29 0.85
26 1 0.03
ACGTcount: A:0.55, C:0.26, G:0.03, T:0.17
Consensus pattern (23 bp):
AAATTAAACCCCAAACCAAAACT
Found at i:12267587 original size:12 final size:12
Alignment explanation
Indices: 12267553--12267592 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
12267543 ATCAAAACCC
*
12267553 AAAATTGAAACT
1 AAAATTGAAATT
12267565 AAAATTGAAATT
1 AAAATTGAAATT
* *
12267577 AAAATCGAAATC
1 AAAATTGAAATT
12267589 AAAA
1 AAAA
12267593 CCCCAAACTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.62, C:0.07, G:0.07, T:0.23
Consensus pattern (12 bp):
AAAATTGAAATT
Found at i:12271101 original size:22 final size:20
Alignment explanation
Indices: 12271075--12271119 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
12271065 TCCCATGTTC
*
12271075 TTCTCTATTTCGTCTCTTTACT
1 TTCTCTATTTC-TATCTTTA-T
*
12271097 TTCTCTTTTTCTATCTTTAT
1 TTCTCTATTTCTATCTTTAT
12271117 TTC
1 TTC
12271120 ATTTATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.19
21 7 0.33
22 10 0.48
ACGTcount: A:0.09, C:0.24, G:0.02, T:0.64
Consensus pattern (20 bp):
TTCTCTATTTCTATCTTTAT
Found at i:12271224 original size:22 final size:23
Alignment explanation
Indices: 12271199--12271246 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
12271189 TATAAGTAAA
*
12271199 TACATACATGTAT-TTACAAATG
1 TACAAACATGTATATTACAAATG
* *
12271221 TACAAACATGTTTATTACACATG
1 TACAAACATGTATATTACAAATG
12271244 TAC
1 TAC
12271247 CTTACTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (23 bp):
TACAAACATGTATATTACAAATG
Found at i:12272235 original size:38 final size:38
Alignment explanation
Indices: 12272192--12272341 Score: 246
Period size: 38 Copynumber: 3.9 Consensus size: 38
12272182 TCAATACATT
* *
12272192 GGCACAAAGCCTGCTAGGCACAGAGCCCAAATAACACC
1 GGCACAAAACTTGCTAGGCACAGAGCCCAAATAACACC
12272230 GGCACAAAACTTGCTAGGCACAGAGCCCAAATAACACC
1 GGCACAAAACTTGCTAGGCACAGAGCCCAAATAACACC
12272268 GGCACAAAACTTGCTAGGCACAGAGCCCAAATAACACC
1 GGCACAAAACTTGCTAGGCACAGAGCCCAAATAACACC
* * **
12272306 AGCACAAGACTTGCTAGGCACAGAGCCTGAATAACA
1 GGCACAAAACTTGCTAGGCACAGAGCCCAAATAACA
12272342 TTACGCTTCT
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 106 1.00
ACGTcount: A:0.39, C:0.31, G:0.20, T:0.11
Consensus pattern (38 bp):
GGCACAAAACTTGCTAGGCACAGAGCCCAAATAACACC
Found at i:12273996 original size:11 final size:11
Alignment explanation
Indices: 12273970--12274004 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
12273960 TAGAATACAA
12273970 ATTTTTATTTT
1 ATTTTTATTTT
12273981 A-TTTTATTTT
1 ATTTTTATTTT
*
12273991 ATTTTTATATT
1 ATTTTTATTTT
12274002 ATT
1 ATT
12274005 CTTAGTCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (11 bp):
ATTTTTATTTT
Found at i:12276913 original size:45 final size:45
Alignment explanation
Indices: 12276857--12276983 Score: 132
Period size: 45 Copynumber: 2.8 Consensus size: 45
12276847 TATATGCCTA
* * * *
12276857 AAATGAGTAAGACCATAGTTGAAAGATGCTATGACGTTATGACA-
1 AAATAAGTAAGACCATAGATGAAAGATGCTATGACATCATGACAG
* * * *
12276901 AAGATAAGTAAGACCATAGCTAAAAGATGTTAT-AGCATCATGATAG
1 AA-ATAAGTAAGACCATAGATGAAAGATGCTATGA-CATCATGACAG
* *
12276947 AAATGAGTAAGACTATAGATGAAAGATGCTATGACAT
1 AAATAAGTAAGACCATAGATGAAAGATGCTATGACAT
12276984 TAGGTGATAG
Statistics
Matches: 67, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
44 3 0.04
45 61 0.91
46 3 0.04
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.24
Consensus pattern (45 bp):
AAATAAGTAAGACCATAGATGAAAGATGCTATGACATCATGACAG
Found at i:12283933 original size:24 final size:25
Alignment explanation
Indices: 12283905--12283962 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
12283895 GTGCTTGCTA
*
12283905 TTCAGCTCAATAAATCTTATCGTT-
1 TTCAGCTCAATAAAGCTTATCGTTC
* *
12283929 TTCAGCCCAATAAAGCTTATTGTTC
1 TTCAGCTCAATAAAGCTTATCGTTC
*
12283954 ATCAGCTCA
1 TTCAGCTCA
12283963 GGAAGAGCTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 21 0.75
25 7 0.25
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.36
Consensus pattern (25 bp):
TTCAGCTCAATAAAGCTTATCGTTC
Found at i:12295828 original size:3 final size:3
Alignment explanation
Indices: 12295820--12295852 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
12295810 TATGCATAAA
*
12295820 TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
12295853 GGTTTTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:12296799 original size:6 final size:6
Alignment explanation
Indices: 12296788--12296821 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
12296778 ACTCTGTACC
* *
12296788 TTACTG TTACTG TTACTA TTACTG TTACCG TTAC
1 TTACTG TTACTG TTACTG TTACTG TTACTG TTAC
12296822 GGTGTATTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.47
Consensus pattern (6 bp):
TTACTG
Found at i:12300402 original size:26 final size:26
Alignment explanation
Indices: 12300334--12300404 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 26
12300324 TCTCATCCAA
*
12300334 ATTTTACCCATGATAAAATTATGACG
1 ATTTTACCCCTGATAAAATTATGACG
* *
12300360 -TTTTACCCCCT-ACAAAATTATGATG
1 ATTTTA-CCCCTGATAAAATTATGACG
*
12300385 ATTTTACCCCTGGTAAAATT
1 ATTTTACCCCTGATAAAATT
12300405 TTGAGAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
25 22 0.59
26 15 0.41
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.37
Consensus pattern (26 bp):
ATTTTACCCCTGATAAAATTATGACG
Found at i:12300550 original size:12 final size:12
Alignment explanation
Indices: 12300533--12300557 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12300523 TGTAAATAAA
12300533 TCATTTCCATTT
1 TCATTTCCATTT
12300545 TCATTTCCATTT
1 TCATTTCCATTT
12300557 T
1 T
12300558 TAGACGCCTA
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:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:12302006 original size:39 final size:40
Alignment explanation
Indices: 12301955--12302048 Score: 122
Period size: 39 Copynumber: 2.4 Consensus size: 40
12301945 ATCTCGGTAC
*
12301955 CGCACACTTAGTGCCTCA-TATAACCGAAGCTATTCCAATT
1 CGCACACTTAGTGCCT-ATTATAACCGAAGCTATTCCAAAT
* *
12301995 CGCAC-CTTAGTG-CTATTTATAGCCGAAGCTATTTCAAAT
1 CGCACACTTAGTGCCTA-TTATAACCGAAGCTATTCCAAAT
12302034 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
12302049 GAACATAATC
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
37 1 0.02
38 2 0.04
39 31 0.66
40 12 0.26
41 1 0.02
ACGTcount: A:0.28, C:0.29, G:0.15, T:0.29
Consensus pattern (40 bp):
CGCACACTTAGTGCCTATTATAACCGAAGCTATTCCAAAT
Found at i:12311935 original size:3 final size:3
Alignment explanation
Indices: 12311929--12311964 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
12311919 ATAATAATAA
12311929 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
12311965 TACAAATGGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:12313167 original size:37 final size:38
Alignment explanation
Indices: 12313126--12313219 Score: 102
Period size: 40 Copynumber: 2.4 Consensus size: 38
12313116 GCTCCGGATA
*
12313126 GATGAGGCGTTGGTCGCCAC-TTTGCTTC-AGCTTAGCC
1 GATGAGGCGTTGGTCGCCACTTTTGCTTCGAAC-TAGCC
* * * *
12313163 GATGAGACGTTGGTCGTCACTTATTTGCTTCGAACTATCT
1 GATGAGGCGTTGGTCGCCAC-T-TTTGCTTCGAACTAGCC
12313203 GATGAGGCGTTGGTCGC
1 GATGAGGCGTTGGTCGC
12313220 GATCCTGGTG
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
37 18 0.39
40 26 0.57
41 2 0.04
ACGTcount: A:0.16, C:0.22, G:0.30, T:0.32
Consensus pattern (38 bp):
GATGAGGCGTTGGTCGCCACTTTTGCTTCGAACTAGCC
Found at i:12313989 original size:348 final size:348
Alignment explanation
Indices: 12313352--12314048 Score: 1385
Period size: 348 Copynumber: 2.0 Consensus size: 348
12313342 AAAGTGATAT
*
12313352 TGTAAGATGGAATGTGAGATGAAATTTGTAAAGAGATTGAAGGTATGAACCAAAGGTTCATGAAG
1 TGTAAGATGGAATGTGAGATGAAATTTGTAAAGAAATTGAAGGTATGAACCAAAGGTTCATGAAG
12313417 TGTTCATATTTGAAATGTGAATTGAATAATTATATGTGGTTGAGAGATGAATCAAAGGTTCATGA
66 TGTTCATATTTGAAATGTGAATTGAATAATTATATGTGGTTGAGAGATGAATCAAAGGTTCATGA
12313482 GTTATTTGAAATCTCATTGATAATTTATTGGACCTATCATTGGAAATGATATAATAGAAATATGA
131 GTTATTTGAAATCTCATTGATAATTTATTGGACCTATCATTGGAAATGATATAATAGAAATATGA
12313547 TAGTTTGGTATGAATTTATATATATGATTTGTATGTATGATTTGCTAATTATCTATGTATGTTAT
196 TAGTTTGGTATGAATTTATATATATGATTTGTATGTATGATTTGCTAATTATCTATGTATGTTAT
12313612 GATATTTTATTGTTGTTATAATTTGAATTATGATAATACCACTGAGTATTTCCAATACTCAGCGT
261 GATATTTTATTGTTGTTATAATTTGAATTATGATAATACCACTGAGTATTTCCAATACTCAGCGT
12313677 ACGGTTGTTTCCTATGCGCAGGA
326 ACGGTTGTTTCCTATGCGCAGGA
12313700 TGTAAGATGGAATGTGAGATGAAATTTGTAAAGAAATTGAAGGTATGAACCAAAGGTTCATGAAG
1 TGTAAGATGGAATGTGAGATGAAATTTGTAAAGAAATTGAAGGTATGAACCAAAGGTTCATGAAG
12313765 TGTTCATATTTGAAATGTGAATTGAATAATTATATGTGGTTGAGAGATGAATCAAAGGTTCATGA
66 TGTTCATATTTGAAATGTGAATTGAATAATTATATGTGGTTGAGAGATGAATCAAAGGTTCATGA
12313830 GTTATTTGAAATCTCATTGATAATTTATTGGACCTATCATTGGAAATGATATAATAGAAATATGA
131 GTTATTTGAAATCTCATTGATAATTTATTGGACCTATCATTGGAAATGATATAATAGAAATATGA
12313895 TAGTTTGGTATGAATTTATATATATGATTTGTATGTATGATTTGCTAATTATCTATGTATGTTAT
196 TAGTTTGGTATGAATTTATATATATGATTTGTATGTATGATTTGCTAATTATCTATGTATGTTAT
12313960 GATATTTTATTGTTGTTATAATTTGAATTATGATAATACCACTGAGTATTTCCAATACTCAGCGT
261 GATATTTTATTGTTGTTATAATTTGAATTATGATAATACCACTGAGTATTTCCAATACTCAGCGT
12314025 ACGGTTGTTTCCTATGCGCAGGA
326 ACGGTTGTTTCCTATGCGCAGGA
12314048 T
1 T
12314049 AGGTAAAGTT
Statistics
Matches: 348, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
348 348 1.00
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.39
Consensus pattern (348 bp):
TGTAAGATGGAATGTGAGATGAAATTTGTAAAGAAATTGAAGGTATGAACCAAAGGTTCATGAAG
TGTTCATATTTGAAATGTGAATTGAATAATTATATGTGGTTGAGAGATGAATCAAAGGTTCATGA
GTTATTTGAAATCTCATTGATAATTTATTGGACCTATCATTGGAAATGATATAATAGAAATATGA
TAGTTTGGTATGAATTTATATATATGATTTGTATGTATGATTTGCTAATTATCTATGTATGTTAT
GATATTTTATTGTTGTTATAATTTGAATTATGATAATACCACTGAGTATTTCCAATACTCAGCGT
ACGGTTGTTTCCTATGCGCAGGA
Found at i:12322641 original size:29 final size:29
Alignment explanation
Indices: 12322602--12322681 Score: 117
Period size: 28 Copynumber: 2.8 Consensus size: 29
12322592 CACTTTGTGC
12322602 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGATGGATTATAT
*
12322631 TATTCTGGTGTGTTTGGGA-GGATTATAT
1 TATTCTGGTGTGTTTTGGATGGATTATAT
* * *
12322659 GATACTGGTGTGTTTTGGTTGGA
1 TATTCTGGTGTGTTTTGGATGGA
12322682 CATTTTGGTG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
28 24 0.53
29 21 0.47
ACGTcount: A:0.16, C:0.04, G:0.33, T:0.47
Consensus pattern (29 bp):
TATTCTGGTGTGTTTTGGATGGATTATAT
Found at i:12322936 original size:21 final size:21
Alignment explanation
Indices: 12322888--12322939 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
12322878 ATGTGTCATA
*
12322888 TTTCAGGCACCTTGTGTGTCG
1 TTTCAGGCACCTCGTGTGTCG
*** *
12322909 CAGCAGGCACCTCGTTTGTCG
1 TTTCAGGCACCTCGTGTGTCG
12322930 TTTCAGGCAC
1 TTTCAGGCAC
12322940 TTATGTGTCG
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.13, C:0.29, G:0.27, T:0.31
Consensus pattern (21 bp):
TTTCAGGCACCTCGTGTGTCG
Found at i:12332071 original size:18 final size:18
Alignment explanation
Indices: 12332034--12332072 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
12332024 TAAAAAAGAA
*
12332034 TAAAAATAAAAAATATTT
1 TAAAAATAAAAAATAGTT
*
12332052 TAAAAATAAAAACTAGTT
1 TAAAAATAAAAAATAGTT
12332070 TAA
1 TAA
12332073 CTAGTTCGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (18 bp):
TAAAAATAAAAAATAGTT
Found at i:12332239 original size:29 final size:30
Alignment explanation
Indices: 12332207--12332269 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
12332197 CTTCATTTGG
**
12332207 AATTT-AGTCATCCTAC-TTTTATTTTTAAA
1 AATTTAAGTCAT-CTACTTTTTAGATTTAAA
*
12332236 AATTTAATTCATCTACTTTTTAGATTTAAA
1 AATTTAAGTCATCTACTTTTTAGATTTAAA
12332266 AATT
1 AATT
12332270 CGCTTTCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 9 0.31
30 20 0.69
ACGTcount: A:0.35, C:0.11, G:0.03, T:0.51
Consensus pattern (30 bp):
AATTTAAGTCATCTACTTTTTAGATTTAAA
Found at i:12332380 original size:29 final size:30
Alignment explanation
Indices: 12332346--12332404 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
12332336 CTAATTAACA
12332346 ATATTAAAAAGTAA-TATAAAAATTAAATT
1 ATATTAAAAAGTAAGTATAAAAATTAAATT
* *
12332375 ATATTAAAAATTAATGTATAAAGATTAAAT
1 ATATTAAAAAGTAA-GTATAAAAATTAAAT
12332405 ATCAAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 13 0.50
31 13 0.50
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (30 bp):
ATATTAAAAAGTAAGTATAAAAATTAAATT
Found at i:12336834 original size:19 final size:17
Alignment explanation
Indices: 12336798--12336837 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
12336788 TAAGAAAATT
12336798 TTATAAAAAATTAAAAA
1 TTATAAAAAATTAAAAA
*
12336815 TTATATAAAAATATAGAAA
1 TTATA-AAAAAT-TAAAAA
12336834 TTAT
1 TTAT
12336838 GAGAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 6 0.30
19 9 0.45
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
TTATAAAAAATTAAAAA
Found at i:12338532 original size:23 final size:24
Alignment explanation
Indices: 12338504--12338557 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
12338494 CTGTTAGAGA
12338504 CTGTTAGTCTAATAGT-TG-TTAG
1 CTGTTAGTCTAATAGTCTGATTAG
*
12338526 TCTGTTAG-CTAGTAGTCTGATTAG
1 -CTGTTAGTCTAATAGTCTGATTAG
12338550 CTGTTAGT
1 CTGTTAGT
12338558 TTGTTATTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 7 0.26
23 16 0.59
24 4 0.15
ACGTcount: A:0.20, C:0.11, G:0.24, T:0.44
Consensus pattern (24 bp):
CTGTTAGTCTAATAGTCTGATTAG
Found at i:12343606 original size:26 final size:26
Alignment explanation
Indices: 12343575--12343682 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
12343565 TGAAATGCCC
*
12343575 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
12343601 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
12343627 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
12343653 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
12343679 ATCA
1 ATCA
12343683 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:12346669 original size:15 final size:15
Alignment explanation
Indices: 12346649--12346702 Score: 63
Period size: 15 Copynumber: 3.5 Consensus size: 15
12346639 ATGTTAGAGT
12346649 CTGTTAGTCTAATAG
1 CTGTTAGTCTAATAG
**
12346664 CTGTTAGTCTGTTAG
1 CTGTTAGTCTAATAG
*
12346679 CTGGTAGTCTAATTAG
1 CTGTTAGTCTAA-TAG
*
12346695 TTGTTAGT
1 CTGTTAGT
12346703 TTATTATTCA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
15 22 0.71
16 9 0.29
ACGTcount: A:0.20, C:0.11, G:0.24, T:0.44
Consensus pattern (15 bp):
CTGTTAGTCTAATAG
Found at i:12353713 original size:24 final size:23
Alignment explanation
Indices: 12353685--12353748 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 23
12353675 TTGTTCTTGG
12353685 TATTTTGTTGTTGTTTTTTGCTAT
1 TATTTT-TTGTTGTTTTTTGCTAT
* *
12353709 TATTTTTT-TTGCTCTTTTTGTTGT
1 TATTTTTTGTTG-T-TTTTTGCTAT
12353733 TA-TTTTTGTTGTTTTT
1 TATTTTTTGTTGTTTTT
12353749 GCTGTTTGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
22 7 0.20
23 9 0.26
24 19 0.54
ACGTcount: A:0.06, C:0.05, G:0.14, T:0.75
Consensus pattern (23 bp):
TATTTTTTGTTGTTTTTTGCTAT
Found at i:12353738 original size:12 final size:12
Alignment explanation
Indices: 12353687--12353745 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
12353677 GTTCTTGGTA
*
12353687 TTTTGTTGTTGTT
1 TTTTGTTGTT-AT
* *
12353700 TTTTGCTATTAT
1 TTTTGTTGTTAT
* * *
12353712 TTTTTTTGCTCT
1 TTTTGTTGTTAT
12353724 TTTTGTTGTTAT
1 TTTTGTTGTTAT
12353736 TTTTGTTGTT
1 TTTTGTTGTT
12353746 TTTGCTGTTT
Statistics
Matches: 35, Mismatches: 11, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
12 27 0.77
13 8 0.23
ACGTcount: A:0.05, C:0.05, G:0.15, T:0.75
Consensus pattern (12 bp):
TTTTGTTGTTAT
Found at i:12353740 original size:21 final size:21
Alignment explanation
Indices: 12353714--12353754 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
12353704 GCTATTATTT
*
12353714 TTTTTGCTCTTTTTGTTGTTA
1 TTTTTGCTCTTTTTGCTGTTA
* *
12353735 TTTTTGTTGTTTTTGCTGTT
1 TTTTTGCTCTTTTTGCTGTT
12353755 TGTACAATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.02, C:0.07, G:0.17, T:0.73
Consensus pattern (21 bp):
TTTTTGCTCTTTTTGCTGTTA
Found at i:12354561 original size:15 final size:16
Alignment explanation
Indices: 12354541--12354582 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
12354531 GCTATAAATA
12354541 TAAATTTATGTTT-AT
1 TAAATTTATGTTTAAT
*
12354556 TAAATTTATATTTAAT
1 TAAATTTATGTTTAAT
*
12354572 TAAATTAATGT
1 TAAATTTATGT
12354583 GTCACTGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 12 0.52
16 11 0.48
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (16 bp):
TAAATTTATGTTTAAT
Found at i:12355930 original size:30 final size:30
Alignment explanation
Indices: 12355894--12355951 Score: 107
Period size: 30 Copynumber: 1.9 Consensus size: 30
12355884 TTAAGTTGAG
*
12355894 CCATGAAATATTGTTGCATTTAAGCTGAAA
1 CCATGAAATATTGCTGCATTTAAGCTGAAA
12355924 CCATGAAATATTGCTGCATTTAAGCTGA
1 CCATGAAATATTGCTGCATTTAAGCTGA
12355952 TCTCATTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (30 bp):
CCATGAAATATTGCTGCATTTAAGCTGAAA
Found at i:12360831 original size:23 final size:23
Alignment explanation
Indices: 12360801--12360846 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
12360791 CCTAAAAGTC
12360801 AGTGGTGTCATAAACGGTGATTT
1 AGTGGTGTCATAAACGGTGATTT
12360824 AGTGGTGTCATAAACGGTGATTT
1 AGTGGTGTCATAAACGGTGATTT
12360847 TGGAATTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.09, G:0.30, T:0.35
Consensus pattern (23 bp):
AGTGGTGTCATAAACGGTGATTT
Found at i:12366773 original size:9 final size:9
Alignment explanation
Indices: 12366759--12366785 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
12366749 TGTTTCTTAG
12366759 GAAATTTTA
1 GAAATTTTA
12366768 GAAATTTTA
1 GAAATTTTA
12366777 GAAATTTTA
1 GAAATTTTA
12366786 ATGGTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (9 bp):
GAAATTTTA
Found at i:12367115 original size:21 final size:21
Alignment explanation
Indices: 12367073--12367117 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
12367063 ATTTTTTGGA
**
12367073 TTTTTAATAAATTTTCTTATT
1 TTTTTAATAAATTTAATTATT
12367094 TTTTTAA-AAATTTAATTCATT
1 TTTTTAATAAATTTAATT-ATT
12367115 TTT
1 TTT
12367118 ATCATTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTAATAAATTTAATTATT
Found at i:12367839 original size:18 final size:19
Alignment explanation
Indices: 12367813--12367851 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
12367803 TAAGCAAGTT
*
12367813 TTGATAAAC-TCTATATAA
1 TTGAGAAACTTCTATATAA
12367831 TTGAGAAACTTCTATATAA
1 TTGAGAAACTTCTATATAA
12367850 TT
1 TT
12367852 AGTACCATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.41, C:0.10, G:0.08, T:0.41
Consensus pattern (19 bp):
TTGAGAAACTTCTATATAA
Found at i:12373832 original size:20 final size:20
Alignment explanation
Indices: 12373796--12373833 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12373786 TTTATTAGGT
*
12373796 AAATATTTTGGAGAATTTCA
1 AAATATTTTGGAAAATTTCA
12373816 AAAT-TTTTGGATAAATTT
1 AAATATTTTGGA-AAATTT
12373834 AAGAGGGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (20 bp):
AAATATTTTGGAAAATTTCA
Found at i:12377315 original size:15 final size:15
Alignment explanation
Indices: 12377295--12377325 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
12377285 CTCACACAGA
12377295 ACACTTCCTCCACAT
1 ACACTTCCTCCACAT
*
12377310 ACACTTCCTCTACAT
1 ACACTTCCTCCACAT
12377325 A
1 A
12377326 ATTCAAATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.42, G:0.00, T:0.29
Consensus pattern (15 bp):
ACACTTCCTCCACAT
Found at i:12391165 original size:26 final size:26
Alignment explanation
Indices: 12391115--12391165 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
12391105 TTGATAGCTT
* * *
12391115 AATGTTATAATTACATGCTGTTATGA
1 AATGTTATAATTAAATGATGCTATGA
*
12391141 AATGTTATAATTAAATTATGCTATG
1 AATGTTATAATTAAATGATGCTATG
12391166 GCCGAATATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (26 bp):
AATGTTATAATTAAATGATGCTATGA
Found at i:12395549 original size:26 final size:26
Alignment explanation
Indices: 12395499--12395549 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
12395489 TTGATAGCTT
* * *
12395499 AATGTTATAATTACATGCTGTTATGA
1 AATGTTATAATTAAATGATGCTATGA
*
12395525 AATGTTATAATTAAATTATGCTATG
1 AATGTTATAATTAAATGATGCTATG
12395550 GCTGAATATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.37, C:0.06, G:0.14, T:0.43
Consensus pattern (26 bp):
AATGTTATAATTAAATGATGCTATGA
Found at i:12400940 original size:18 final size:18
Alignment explanation
Indices: 12400919--12400955 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
12400909 TGAGTTTTCG
*
12400919 AATTAGAATAACTCGAAT
1 AATTAGAATAAATCGAAT
*
12400937 AATTTGAATAAATCGAAT
1 AATTAGAATAAATCGAAT
12400955 A
1 A
12400956 GTAAACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (18 bp):
AATTAGAATAAATCGAAT
Found at i:12401123 original size:30 final size:29
Alignment explanation
Indices: 12401089--12401148 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
12401079 TCTACCCAAA
12401089 ATTTA-TTTCCCACCAAAATTTTACTCTCCC
1 ATTTACTTTCCC-CCAAAATTTTACTC-CCC
* *
12401119 ATTTACTTTTCCTCAAAATTTTACTCCCC
1 ATTTACTTTCCCCCAAAATTTTACTCCCC
12401148 A
1 A
12401149 AAACCCTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 4 0.15
30 18 0.67
31 5 0.19
ACGTcount: A:0.27, C:0.32, G:0.00, T:0.42
Consensus pattern (29 bp):
ATTTACTTTCCCCCAAAATTTTACTCCCC
Found at i:12404556 original size:42 final size:42
Alignment explanation
Indices: 12404492--12404717 Score: 150
Period size: 42 Copynumber: 5.2 Consensus size: 42
12404482 TAGCCCAGCT
* * * *
12404492 ATGGTCTTACATGAAATCTCATAACAATGCCATGTCCTAGAC
1 ATGGTCTTACACGAAATATCATATCAATGCCATGTCCCAGAC
* * * *
12404534 ATGGTCTTATACGTAATATCATATCGATACCA-GTAGCCCAG-C
1 ATGGTCTTACACGAAATATCATATCAATGCCATGT--CCCAGAC
* * * ** * *
12404576 TATGGTCTTACACGGAATCTCGTATCGGTGCCATGTCCCAAAT
1 -ATGGTCTTACACGAAATATCATATCAATGCCATGTCCCAGAC
* * * *
12404619 ATGGTCTTACATGAAATATCATATCAAAGCCATGTCCTAGAT
1 ATGGTCTTACACGAAATATCATATCAATGCCATGTCCCAGAC
* * * *
12404661 ATGGTCTTACATGAAGTCTCATAACGGTGCCGATGCCATGTCCCAGAC
1 ATGGTCTTACACGAAATATCAT-A---T--CAATGCCATGTCCCAGAC
12404709 ATGGTCTTA
1 ATGGTCTTA
12404718 TACGGGACCT
Statistics
Matches: 142, Mismatches: 31, Indels: 16
0.75 0.16 0.08
Matches are distributed among these distances:
41 2 0.01
42 83 0.58
43 31 0.22
44 2 0.01
46 1 0.01
48 23 0.16
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (42 bp):
ATGGTCTTACACGAAATATCATATCAATGCCATGTCCCAGAC
Found at i:12404573 original size:85 final size:84
Alignment explanation
Indices: 12404461--12404721 Score: 265
Period size: 85 Copynumber: 3.0 Consensus size: 84
12404451 GATCTTACAT
* *
12404461 GTAATCTCATATCGAAGCCAATAGCCCAGCTATGGTCTTACATGAAATCTCATAACAATGCCATG
1 GTAATATCATATCGAAGCC-ATAGCCCAGCTATGGTCTTACATGAAATCTCATAACGATGCCATG
*
12404526 TCCTAGACATGGTCTTATAC
65 TCCCAGACATGGTCTTATAC
* * * * *
12404546 GTAATATCATATCGATA-CCAGTAGCCCAGCTATGGTCTTACACGGAATCTCGTATCGGTGCCAT
1 GTAATATCATATCGA-AGCCA-TAGCCCAGCTATGGTCTTACATGAAATCTCATAACGATGCCAT
* * * *
12404610 GTCCCAAATATGGTCTTACAT
64 GTCCCAGACATGGTCTTATAC
* * * * *
12404631 GAAATATCATATCAAAGCCAT-GTCCTAGATATGGTCTTACATGAAGTCTCATAACGGTGCCGAT
1 GTAATATCATATCGAAGCCATAG-CCCAGCTATGGTCTTACATGAAATCTCATAA------CGAT
12404695 GCCATGTCCCAGACATGGTCTTATAC
59 GCCATGTCCCAGACATGGTCTTATAC
12404721 G
1 G
12404722 GGACCTCATA
Statistics
Matches: 140, Mismatches: 26, Indels: 15
0.77 0.14 0.08
Matches are distributed among these distances:
83 1 0.01
84 27 0.19
85 85 0.61
86 1 0.01
90 26 0.19
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (84 bp):
GTAATATCATATCGAAGCCATAGCCCAGCTATGGTCTTACATGAAATCTCATAACGATGCCATGT
CCCAGACATGGTCTTATAC
Found at i:12404745 original size:48 final size:48
Alignment explanation
Indices: 12404647--12404852 Score: 209
Period size: 48 Copynumber: 4.3 Consensus size: 48
12404637 TCATATCAAA
* * * ** * *
12404647 GCCATGTCCTAGATATGGTCTTACAT-GAAGTCTCATAACGGTGCCGAT
1 GCCATATCCCAGATATGGTCTTACATGGGA-TCTCATATTGATGCCAAT
* * * * * *
12404695 GCCATGTCCCAGACATGGTCTTATACGGGACCTCATATTAATGCCAAT
1 GCCATATCCCAGATATGGTCTTACATGGGATCTCATATTGATGCCAAT
*
12404743 GCCATATCCCTGATATGGTCTTACATGGGATCTCAT-TTCGATGCCAAT
1 GCCATATCCCAGATATGGTCTTACATGGGATCTCATATT-GATGCCAAT
* * * *
12404791 GTCATATCCTAGATATGGTCTTACATGGGATTTCATATTGATGCCGAT
1 GCCATATCCCAGATATGGTCTTACATGGGATCTCATATTGATGCCAAT
*
12404839 GTCATATCCCAGAT
1 GCCATATCCCAGAT
12404853 TTTATATTGA
Statistics
Matches: 131, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
47 2 0.02
48 125 0.95
49 4 0.03
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (48 bp):
GCCATATCCCAGATATGGTCTTACATGGGATCTCATATTGATGCCAAT
Found at i:12404845 original size:17 final size:17
Alignment explanation
Indices: 12404823--12404907 Score: 58
Period size: 17 Copynumber: 5.4 Consensus size: 17
12404813 ACATGGGATT
12404823 TCATATTGATGCCGATG
1 TCATATTGATGCCGATG
* *
12404840 TC--A-T-ATCCCAGATT
1 TCATATTGATGCC-GATG
*
12404854 TTATATTGATGCCGATG
1 TCATATTGATGCCGATG
* * *
12404871 TCATA-T-CT-CGGATT
1 TCATATTGATGCCGATG
12404885 TCATATTGATGCCGATG
1 TCATATTGATGCCGATG
12404902 TCATAT
1 TCATAT
12404908 CCCAGATATG
Statistics
Matches: 48, Mismatches: 12, Indels: 16
0.63 0.16 0.21
Matches are distributed among these distances:
13 4 0.08
14 14 0.29
15 3 0.06
16 3 0.06
17 20 0.42
18 4 0.08
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.39
Consensus pattern (17 bp):
TCATATTGATGCCGATG
Found at i:12404854 original size:31 final size:31
Alignment explanation
Indices: 12404819--12404914 Score: 165
Period size: 31 Copynumber: 3.1 Consensus size: 31
12404809 TCTTACATGG
12404819 GATTTCATATTGATGCCGATGTCATATCCCA
1 GATTTCATATTGATGCCGATGTCATATCCCA
* * *
12404850 GATTTTATATTGATGCCGATGTCATATCTCG
1 GATTTCATATTGATGCCGATGTCATATCCCA
12404881 GATTTCATATTGATGCCGATGTCATATCCCA
1 GATTTCATATTGATGCCGATGTCATATCCCA
12404912 GAT
1 GAT
12404915 ATGGTCTTAT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 59 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.38
Consensus pattern (31 bp):
GATTTCATATTGATGCCGATGTCATATCCCA
Found at i:12408466 original size:27 final size:27
Alignment explanation
Indices: 12408436--12408613 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
12408426 ATATTGAGTC
* * * *
12408436 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
12408463 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
12408490 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
12408518 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
12408545 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
12408572 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
12408599 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
12408614 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:12408575 original size:82 final size:81
Alignment explanation
Indices: 12408457--12408612 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
12408447 TGCTATATAA
* *
12408457 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
12408522 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
12408539 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
12408603 CACTTAGTGC
65 CACTTAGTGC
12408613 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:12421249 original size:20 final size:20
Alignment explanation
Indices: 12421211--12421249 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12421201 CTTTTAATTA
* * *
12421211 CTTAATTAATTTAATTTAAC
1 CTTAAATAATTAAACTTAAC
12421231 CTTAAATAATTAAACTTAA
1 CTTAAATAATTAAACTTAA
12421250 TCACCATCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.46, C:0.10, G:0.00, T:0.44
Consensus pattern (20 bp):
CTTAAATAATTAAACTTAAC
Found at i:12428075 original size:13 final size:13
Alignment explanation
Indices: 12428055--12428087 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
12428045 AAGTATAATA
12428055 AAAATAAGAAAAC
1 AAAATAAGAAAAC
*
12428068 AGAATAAGAAAAC
1 AAAATAAGAAAAC
12428081 AAAATAA
1 AAAATAA
12428088 TAAATATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.76, C:0.06, G:0.09, T:0.09
Consensus pattern (13 bp):
AAAATAAGAAAAC
Found at i:12428127 original size:20 final size:19
Alignment explanation
Indices: 12428089--12428127 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
12428079 ACAAAATAAT
*
12428089 AAATATAATAAAAATTAAC
1 AAATATAATAAAAAGTAAC
*
12428108 AAATAATAATAATAAGTAAC
1 AAAT-ATAATAAAAAGTAAC
12428128 TAAAAGAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (19 bp):
AAATATAATAAAAAGTAAC
Found at i:12442268 original size:42 final size:42
Alignment explanation
Indices: 12442150--12442269 Score: 125
Period size: 42 Copynumber: 2.9 Consensus size: 42
12442140 TGTTATCATG
* *
12442150 TAAGACCTTATCTGGGATATGGCGT-TGATATGAGATTTCGTA
1 TAAGACCATATCTGGGATATGGCATCT-ATATGAGATTTCGTA
** * * * * * *
12442192 TAAGACCACGTTTGGGACATCGTATCAAAATGAGATTTCGTA
1 TAAGACCATATCTGGGATATGGCATCTATATGAGATTTCGTA
*
12442234 TAAGACCATATCTGGGATATGGCATCTATGTGAGAT
1 TAAGACCATATCTGGGATATGGCATCTATATGAGAT
12442270 CCCATGTAAG
Statistics
Matches: 58, Mismatches: 19, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATGGCATCTATATGAGATTTCGTA
Found at i:12456974 original size:20 final size:20
Alignment explanation
Indices: 12456945--12456983 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12456935 ATTAATCATA
*
12456945 TTTTATTAAATAAAATTATT
1 TTTTAATAAATAAAATTATT
*
12456965 TTTTAATAAATAGAATTAT
1 TTTTAATAAATAAAATTAT
12456984 ATTAGTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (20 bp):
TTTTAATAAATAAAATTATT
Found at i:12481211 original size:42 final size:43
Alignment explanation
Indices: 12481152--12481268 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 43
12481142 TAGAGTTAGT
*
12481152 TGAGATTACGTGTAAGACCATATCTGGGATAT-TGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATCGGCATCGATA
* * * *
12481194 TGAGATTTCGTGTAAGACCATAGCTGGGCTATCGGCATTGATA
1 TGAGATTACGTGTAAGACCATATCTGGGATATCGGCATCGATA
** ** *
12481237 CAAGATGCCATGTAAGACCATATCTGGGATAT
1 TGAGATTACGTGTAAGACCATATCTGGGATAT
12481269 GGTATTGGTA
Statistics
Matches: 62, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 29 0.47
43 33 0.53
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (43 bp):
TGAGATTACGTGTAAGACCATATCTGGGATATCGGCATCGATA
Found at i:12481384 original size:20 final size:20
Alignment explanation
Indices: 12481359--12481397 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
12481349 CAATGTTTAA
12481359 GTTGTGAAAGACTATGGTAT
1 GTTGTGAAAGACTATGGTAT
*
12481379 GTTGTGAAAGATTATGGTA
1 GTTGTGAAAGACTATGGTA
12481398 AGTTACAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.03, G:0.31, T:0.36
Consensus pattern (20 bp):
GTTGTGAAAGACTATGGTAT
Found at i:12484060 original size:32 final size:32
Alignment explanation
Indices: 12483992--12484072 Score: 101
Period size: 32 Copynumber: 2.5 Consensus size: 32
12483982 TGAAATTAGT
* *
12483992 TTGTTGGATTTTGAAATTATTATGACTTGAAT
1 TTGTTGGATATTGAAATTATTATGACTTGAAC
* * *
12484024 TTGTTAGATATTGAAATTATTATG-TTTTAAGC
1 TTGTTGGATATTGAAATTATTATGACTTGAA-C
12484056 TTGTTGGATATTGAAAT
1 TTGTTGGATATTGAAAT
12484073 GATTGACAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 4 0.10
32 38 0.90
ACGTcount: A:0.30, C:0.02, G:0.19, T:0.49
Consensus pattern (32 bp):
TTGTTGGATATTGAAATTATTATGACTTGAAC
Found at i:12485084 original size:22 final size:25
Alignment explanation
Indices: 12485059--12485107 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
12485049 AATGTTGTTG
12485059 TTAT-CATGTGG-T-ATACTATTAA
1 TTATACATGTGGATAATACTATTAA
* *
12485081 TTATACATTTGGATAATATTATTAA
1 TTATACATGTGGATAATACTATTAA
12485106 TT
1 TT
12485108 TCTAGTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 4 0.18
23 6 0.27
24 1 0.05
25 11 0.50
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (25 bp):
TTATACATGTGGATAATACTATTAA
Found at i:12485171 original size:12 final size:12
Alignment explanation
Indices: 12485154--12485199 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
12485144 TTATTCAATC
12485154 TTTTTTTTTAAT
1 TTTTTTTTTAAT
*
12485166 TTTTTTATTCAAT
1 TTTTTT-TTTAAT
*
12485179 CTTTTTTTTAAT
1 TTTTTTTTTAAT
12485191 TTTTTTTTT
1 TTTTTTTTT
12485200 CTTATAAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
12 19 0.66
13 10 0.34
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTTTTTAAT
Found at i:12485183 original size:13 final size:13
Alignment explanation
Indices: 12485144--12485184 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
12485134 TAATTTAAAA
12485144 TTATTCAATCTTT
1 TTATTCAATCTTT
* * *
12485157 TTTTTTAATTTTT
1 TTATTCAATCTTT
12485170 TTATTCAATCTTT
1 TTATTCAATCTTT
12485183 TT
1 TT
12485185 TTTAATTTTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTCAATCTTT
Found at i:12485197 original size:26 final size:26
Alignment explanation
Indices: 12485144--12485196 Score: 99
Period size: 25 Copynumber: 2.1 Consensus size: 26
12485134 TAATTTAAAA
12485144 TTATTCAATCTTTTTTTTTAATTTTT
1 TTATTCAATCTTTTTTTTTAATTTTT
12485170 TTATTCAATC-TTTTTTTTAATTTTT
1 TTATTCAATCTTTTTTTTTAATTTTT
12485195 TT
1 TT
12485197 TTTCTTATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 17 0.63
26 10 0.37
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.74
Consensus pattern (26 bp):
TTATTCAATCTTTTTTTTTAATTTTT
Found at i:12485825 original size:15 final size:16
Alignment explanation
Indices: 12485805--12485842 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
12485795 TTTAAAAATC
*
12485805 AAATAAA-TTGATTAA
1 AAATAAATTTAATTAA
*
12485820 AAATAAATTTAATTAG
1 AAATAAATTTAATTAA
12485836 AAATAAA
1 AAATAAA
12485843 AATAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (16 bp):
AAATAAATTTAATTAA
Found at i:12485833 original size:20 final size:22
Alignment explanation
Indices: 12485796--12485849 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 22
12485786 TATAAGATGT
12485796 TTAAAAATCAAA-TAAATT-G-A
1 TTAAAAAT-AAATTAAATTAGAA
*
12485816 TTAAAAATAAATTTAATTAGAA
1 TTAAAAATAAATTAAATTAGAA
*
12485838 ATAAAAATAAAT
1 TTAAAAATAAAT
12485850 CAATTATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 3 0.10
20 13 0.45
21 1 0.03
22 12 0.41
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (22 bp):
TTAAAAATAAATTAAATTAGAA
Found at i:12486918 original size:11 final size:11
Alignment explanation
Indices: 12486904--12486953 Score: 59
Period size: 11 Copynumber: 4.7 Consensus size: 11
12486894 TTTCAATATT
12486904 CTCTCAAATTC
1 CTCTCAAATTC
12486915 CTCTCAAA-T-
1 CTCTCAAATTC
*
12486924 CTCTCAAATTT
1 CTCTCAAATTC
* *
12486935 CTTTTAAATTC
1 CTCTCAAATTC
12486946 CTCTCAAA
1 CTCTCAAA
12486954 ACTCTCGTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 8 0.25
10 2 0.06
11 22 0.69
ACGTcount: A:0.30, C:0.30, G:0.00, T:0.40
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:12486943 original size:20 final size:21
Alignment explanation
Indices: 12486896--12486953 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 21
12486886 CTTCAATCTT
12486896 TCAATATTCTCTCAAATTCCTC
1 TCAA-ATTCTCTCAAATTCCTC
* *
12486918 TCAAA-TCTCTCAAATTTCTT
1 TCAAATTCTCTCAAATTCCTC
*
12486938 TTAAATTCCTCTCAAA
1 TCAAATT-CTCTCAAA
12486954 ACTCTCGTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 17 0.55
21 2 0.06
22 12 0.39
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (21 bp):
TCAAATTCTCTCAAATTCCTC
Found at i:12489843 original size:116 final size:116
Alignment explanation
Indices: 12489639--12490253 Score: 1158
Period size: 116 Copynumber: 5.3 Consensus size: 116
12489629 TATTTGTACA
*
12489639 AACATTTTGAATCTTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
12489704 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
12489755 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
12489820 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
12489871 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
12489936 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
12489987 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
12490052 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
* * *
12490103 AACATTTTGAATATTTTTATATTATTTCATGTGATAATATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
* * *
12490168 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
66 TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
*
12490219 AATATTTTGAATATTTTTATATTATTTCATGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAAT
12490254 AAAATATAAA
Statistics
Matches: 490, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 490 1.00
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.47
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
TGTAATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGC
Found at i:12493427 original size:126 final size:126
Alignment explanation
Indices: 12493197--12493733 Score: 837
Period size: 126 Copynumber: 4.3 Consensus size: 126
12493187 GCCCAAGTTA
* * *
12493197 TTTCAGAAACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTACTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
**
12493262 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTATGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * *
12493323 TTTCAGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* *
12493388 TGTATCCTGCTTGAAGCGTTTTT-ACCACTATTTGCGCAGACACGTCTTCTCAAAATTAGTT
66 TGCATCCTGCTTGAAGCGTTTTTGA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * *
12493449 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCATGTGGAAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* *
12493514 TGCATCCTGCTTGAAGCGTTTTTTACACTATTTGCACAGACAC-T-TTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * *
12493573 TTTCAGATACTACTGTAGCAAAAGAACGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
*
12493638 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAATTTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* *
12493699 TTTCAGAGACTACTGTAACAAAAGAACGTCCACGT
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGT
12493734 AAAAGTTTTT
Statistics
Matches: 378, Mismatches: 29, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
124 115 0.30
125 3 0.01
126 259 0.69
127 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (126 bp):
TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
Found at i:12493669 original size:250 final size:252
Alignment explanation
Indices: 12493192--12493733 Score: 838
Period size: 250 Copynumber: 2.2 Consensus size: 252
12493182 TTATAGCCCA
* * *
12493192 AGTTATTTCAGAAACCACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTACT
1 AGTT-TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTACT
**
12493257 GAAAATGCATCCTGCTTGAAGCGTTTTTGACACTATTTATGCAGACACGTCTTCTCAAAATTATT
65 GAAAATGCATCCTGCTTGAAGCGTTTTTGACACTATTTACACAGACACGTCTTCTCAAAATTATT
* *
12493322 TTTTCAGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAA
130 TTTTCAGAGACCACTGTAGCAAAAGAACATCCACGTGGGAGCTTCTTCCAATAATTTTGCTGAAA
*
12493387 ATGTATCCTGCTTGAAGCGTTTTTACCACTATTTGCGCAGACACGTCTTCTCAAAATT
195 ATGCATCCTGCTTGAAGCGTTTTTACCACTATTTGCGCAGACACGTCTTCTCAAAATT
* *
12493445 AGTTTTTCAGAGACTACTGTAGCAAAAGAGCGTCCATGTGGAAGCTTCTTTCAGTACTTTTGCTG
1 AGTTTTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTACTG
* * *
12493510 ACAATGCATCCTGCTTGAAGCGTTTTTTACACTATTTGCACAGACAC-T-TTCTCAAAATTATTT
66 AAAATGCATCCTGCTTGAAGCGTTTTTGACACTATTTACACAGACACGTCTTCTCAAAATTATTT
* * * * * *
12493573 TTTCAGATACTACTGTAGCAAAAGAACGTCCACGTGGGAGCTTCTTTCAATACTTTTGCTGACAA
131 TTTCAGAGACCACTGTAGCAAAAGAACATCCACGTGGGAGCTTCTTCCAATAATTTTGCTGAAAA
*
12493638 TGCATCCTGCTTGAAGCGTTTTTGA-CACTATTTGCGCAGACACGTCTTCTCAAATTT
196 TGCATCCTGCTTGAAGCGTTTTT-ACCACTATTTGCGCAGACACGTCTTCTCAAAATT
* * *
12493695 ATTTTTTCAGAGACTACTGTAACAAAAGAACGTCCACGT
1 AGTTTTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGT
12493734 AAAAGTTTTT
Statistics
Matches: 264, Mismatches: 24, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
250 160 0.61
251 2 0.01
252 98 0.37
253 4 0.02
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (252 bp):
AGTTTTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTACTG
AAAATGCATCCTGCTTGAAGCGTTTTTGACACTATTTACACAGACACGTCTTCTCAAAATTATTT
TTTCAGAGACCACTGTAGCAAAAGAACATCCACGTGGGAGCTTCTTCCAATAATTTTGCTGAAAA
TGCATCCTGCTTGAAGCGTTTTTACCACTATTTGCGCAGACACGTCTTCTCAAAATT
Found at i:12494019 original size:96 final size:96
Alignment explanation
Indices: 12493820--12494025 Score: 256
Period size: 96 Copynumber: 2.1 Consensus size: 96
12493810 TTAAATGCCC
* * **
12493820 TAAAACCCTAAACCCTAAAGTCCTAATATAATTTTTTTAAAATTTATAATTAATTTACTCAAGTA
1 TAAAACCCTAAACACTAAAG-CCTAATATAATTTTTTTAAAATTTATAATTAATTTAATCAACAA
* *
12493885 ACCCTAAACCCTAATTTATTTGATTTTTTCCT
65 ACACTAAACCCTAATTTATTTAATTTTTTCCT
* * *
12493917 TAAAAACCATAAACACTAAA-CCATAATCTAA-TTTTTTAAAA-TTAGTAATTAATTTAATTAAC
1 T-AAAACCCTAAACACTAAAGCC-TAATATAATTTTTTTAAAATTTA-TAATTAATTTAATCAAC
*
12493979 AAACACTAAACCTTAATTTATTTAATTTTTTTCCT
63 AAACACTAAACCCTAATTTATTTAA-TTTTTTCCT
12494014 TAAAACCCTAAA
1 TAAAACCCTAAA
12494026 ATTTAAAAAT
Statistics
Matches: 94, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
95 3 0.03
96 57 0.61
97 18 0.19
98 16 0.17
ACGTcount: A:0.42, C:0.17, G:0.02, T:0.39
Consensus pattern (96 bp):
TAAAACCCTAAACACTAAAGCCTAATATAATTTTTTTAAAATTTATAATTAATTTAATCAACAAA
CACTAAACCCTAATTTATTTAATTTTTTCCT
Found at i:12494033 original size:15 final size:16
Alignment explanation
Indices: 12494015--12494056 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
12494005 TTTTTTCCTT
12494015 AAAACCCTAAAATTTA
1 AAAACCCTAAAATTTA
* *
12494031 AAAATCC-AAAATTCTC
1 AAAACCCTAAAATT-TA
12494047 AAAACCCTAA
1 AAAACCCTAA
12494057 CCCTAATTGC
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 6 0.29
16 13 0.62
17 2 0.10
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAACCCTAAAATTTA
Found at i:12494957 original size:151 final size:149
Alignment explanation
Indices: 12494786--12495777 Score: 1255
Period size: 151 Copynumber: 6.5 Consensus size: 149
12494776 CGGATTTTTC
* *
12494786 TACTTAAATAATATAAAAATAAAATACGAAAATAGGTTATTTTTAAAAATTAAAATACGAAAATA
1 TACTAAAATAATATAAAAATAAAATACGAAAATA-G-TATTTTTAAAAAATAAAAT-CGAAAATA
* * *
12494851 AAAAAAATAAGAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTAATAT-AAAAAACACTAAA
63 AAAAAAATAAAAACAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAAACACTAAA
* *
12494915 ATAATATATTTGAAACATTATA
128 ATAATACATTTGAAACATTATG
** *
12494937 TACTAAAATAATATAAAAATAAAATACGAAAATAGGATATTTAAAAAAAATAAAATCCAAAAATA
1 TACTAAAATAATATAAAAATAAAATACGAAAATA-G-TATTTTTAAAAAATAAAAT-CGAAAATA
* *
12495002 GAATAAATAATAAAAACAAAGGGCGAAAATCAGAGTTTTTTTACTAAATTAATAT-AAAAAACAC
63 -AA-AAA-AATAAAAACAAACGGCCAAAATCAGAG-TTTTTTACTAAATTAATATAAAAAAACAC
*
12495066 GAAAAATAATACATTTGAAACATTATG
124 -TAAAATAATACATTTGAAACATTATG
* * * * *
12495093 TACTAAATTATTATAAAAAAATAAAATACGAAAATAGTATAATTTAATAAATAAAATCTAAAAAT
1 TACTAAA--ATAATATAAAAATAAAATACGAAAATAGTAT-TTTTAAAAAATAAAATC-GAAAAT
* **
12495158 AAAATAAAATAAAATAAAAACAACCAAAATCAGAGTTTTTTACTAAATTAATAT-AAAAAACACT
62 AAAA-AAAATAAAA-ACAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAAACACT
12495222 AAAATAATACATTTGAAACATTATG
125 AAAATAATACATTTGAAACATTATG
* * *
12495247 TACTAAAATAATATAAAAAATAAAATACAAAAAAATAGCATATTTTAAAAAATAAAATCCAAAAA
1 TACTAAAATAATAT-AAAAATAAAATAC--GAAAATAGTAT-TTTTAAAAAATAAAAT-CGAAAA
*
12495312 TAAAATAAATAATAAAAACAAAAGGCCAAAA-CTAGAGTTTTTTACTAAATTAATATAAAAAAAA
61 T-AAA-AAA-AATAAAAACAAACGGCCAAAATC-AGAGTTTTTTACTAAATTAATAT-AAAAAAA
12495376 CACTAAAATAATACATTTGAAACATTATG
121 CACTAAAATAATACATTTGAAACATTATG
* * *
12495405 TATTAAAATAATATTAAAAAATAAAATACAAAAATAGTATATTTAAAAAATAAAATTCGAAAAT-
1 TACTAAAATAATA-T-AAAAATAAAATACGAAAATAGTATTTTTAAAAAATAAAA-TCGAAAATA
* *
12495469 AAAATAA-AAAAACAAACGGCCAAAATTAGAGTTTTTTACTAAATTAATATAAAAAAAACACTAA
63 AAAAAAATAAAAACAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATAT-AAAAAAACACTAA
12495533 AATAATACATTTGAAACATTATG
127 AATAATACATTTGAAACATTATG
* * *
12495556 TATTAAAATAATATTAAAAAATAAAATACAAAAATAGTATATTTAAAAAATAAAATTCGAAAAT-
1 TACTAAAATAATA-T-AAAAATAAAATACGAAAATAGTATTTTTAAAAAATAAAA-TCGAAAATA
* * *
12495620 AAAATAA-AAAAACAAACGGCCAAAATTAGAGTTTTTTACTAAATTAATATAAAAAAACACGAAA
63 AAAAAAATAAAAACAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAAACACTAAA
*
12495684 ATAATCCATTTGAAACATTA-G
128 ATAATACATTTGAAACATTATG
12495705 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAAAATAA
1 TACTAAAATAATATAAAAATAAAATACGAAAATAGTAT-TTTTAAAAAATAAAATC-GAAAATAA
*
12495770 AATAAATA
64 AAAAAATA
12495778 CCAAAATATA
Statistics
Matches: 764, Mismatches: 49, Indels: 57
0.88 0.06 0.07
Matches are distributed among these distances:
147 25 0.03
148 21 0.03
149 18 0.02
150 33 0.04
151 249 0.33
152 9 0.01
153 18 0.02
154 58 0.08
155 95 0.12
156 112 0.15
157 39 0.05
158 72 0.09
159 15 0.02
ACGTcount: A:0.60, C:0.08, G:0.06, T:0.27
Consensus pattern (149 bp):
TACTAAAATAATATAAAAATAAAATACGAAAATAGTATTTTTAAAAAATAAAATCGAAAATAAAA
AAAATAAAAACAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAAACACTAAAATA
ATACATTTGAAACATTATG
Found at i:12495017 original size:31 final size:31
Alignment explanation
Indices: 12494949--12495017 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
12494939 CTAAAATAAT
* * **
12494949 ATAAAAATAAAATACGAAAATAGGATATTTA
1 ATAAAAATAAAATACAAAAATAGAATAAATA
* *
12494980 AAAAAAATAAAATCCAAAAATAGAATAAATA
1 ATAAAAATAAAATACAAAAATAGAATAAATA
12495011 ATAAAAA
1 ATAAAAA
12495018 CAAAGGGCGA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.20
Consensus pattern (31 bp):
ATAAAAATAAAATACAAAAATAGAATAAATA
Found at i:12495272 original size:17 final size:17
Alignment explanation
Indices: 12495250--12495304 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
12495240 CATTATGTAC
12495250 TAAAATAATATAAAAAA
1 TAAAATAATATAAAAAA
*
12495267 TAAAAT-ACA-AAAAAA
1 TAAAATAATATAAAAAA
** * *
12495282 TAGCATATTTTAAAAAA
1 TAAAATAATATAAAAAA
12495299 TAAAAT
1 TAAAAT
12495305 CCAAAAATAA
Statistics
Matches: 28, Mismatches: 8, Indels: 4
0.70 0.20 0.10
Matches are distributed among these distances:
15 10 0.36
16 2 0.07
17 16 0.57
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (17 bp):
TAAAATAATATAAAAAA
Found at i:12495328 original size:32 final size:31
Alignment explanation
Indices: 12495250--12495329 Score: 76
Period size: 32 Copynumber: 2.5 Consensus size: 31
12495240 CATTATGTAC
12495250 TAAAAT-AATATAAAAAATAAAATACAAAAA
1 TAAAATAAATATAAAAAATAAAATACAAAAA
* * *
12495280 -AATAGCAT-ATTTTAAAAAATAAAATCCAAAAA
1 TAA-A--ATAAATATAAAAAATAAAATACAAAAA
12495312 TAAAATAAATAATAAAAA
1 TAAAATAAAT-ATAAAAA
12495330 CAAAAGGCCA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
29 2 0.05
30 3 0.08
31 2 0.05
32 30 0.77
33 2 0.05
ACGTcount: A:0.71, C:0.05, G:0.01, T:0.23
Consensus pattern (31 bp):
TAAAATAAATATAAAAAATAAAATACAAAAA
Found at i:12495405 original size:312 final size:305
Alignment explanation
Indices: 12494800--12495775 Score: 1347
Period size: 312 Copynumber: 3.2 Consensus size: 305
12494790 TAAATAATAT
* * *
12494800 AAAAATAAAATACGAAAATAGGT-TATTTTTAAAAATTAAAATAC-GAAAATAAAA-AAAATAAG
1 AAAAATAAAATACGAAAATA-GTATA-ATTTAAAAAATAAAAT-CTGAAAATAAAATAAAATAAA
* * *
12494862 AACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAAATAATATATTTG
63 AACAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAAATAATACATTTG
* * * *
12494927 AAACATTATATACTAAAATAATAT-AAAAATAAAATACGAAAATAGGATATTTAAAAAAAATAAA
128 AAACATTATGTACTAAAATAATATAAAAAATAAAATACAAAAATAGCATATTT-TAAAAAATAAA
* *
12494991 ATCCAAAAATAGAATAAATAATAAAAACAAAGGGCGAAAATCAGAGTTTTTTTACTAAATTAATA
192 ATCCAAAAATA-AATAAATAATAAAAACAAAAGGCCAAAAT-AGAG-TTTTTTACTAAATTAATA
12495056 T-AAAAAACACGAAAAATAATACATTTGAAACATTATGTACTAAATTATTATAA
254 TAAAAAAACAC-AAAAATAATACATTTGAAACATTATGTACTAAA-TATTATAA
* *
12495109 AAAAATAAAATACGAAAATAGTATAATTTAATAAATAAAATCTAAAAATAAAATAAAATAAAATA
1 AAAAATAAAATACGAAAATAGTATAATTTAAAAAATAAAATCTGAAAATAAAATAAAATAAAA-A
* **
12495174 AAAACAACCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAAATAATACATTTGAA
65 CAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAAATAATACATTTGAA
12495239 ACATTATGTACTAAAATAATATAAAAAATAAAATACAAAAAAATAGCATATTTTAAAAAATAAAA
130 ACATTATGTACTAAAATAATATAAAAAATAAAATAC--AAAAATAGCATATTTTAAAAAATAAAA
12495304 TCCAAAAATAAAATAAATAATAAAAACAAAAGGCCAAAACTAGAGTTTTTTACTAAATTAATATA
193 TCCAAAAAT-AAATAAATAATAAAAACAAAAGGCCAAAA-TAGAGTTTTTTACTAAATTAATAT-
* * * *
12495369 AAAAAAACACTAAAATAATACATTTGAAACATTATGTATTAAAATAATATTA
255 AAAAAAACACAAAAATAATACATTTGAAACATTATGTACT-AAATATTATAA
*
12495421 AAAAATAAAATACAAAAATAGTAT-ATTTAAAAAATAAAAT-TCGAAAATAAAAT--AA-AAAAA
1 AAAAATAAAATACGAAAATAGTATAATTTAAAAAATAAAATCT-GAAAATAAAATAAAATAAAAA
*
12495481 CAAACGGCCAAAATTAGAGTTTTTTACTAAATTAATATAAAAAAAACACTAAAATAATACATTTG
65 CAAACGGCCAAAATCAGAGTTTTTTACTAAATTAATAT--AAAAAACACTAAAATAATACATTTG
* *
12495546 AAACATTATGTATTAAAATAATATTAAAAAATAAAATACAAAAATAGTATA-TTTAAAAAATAAA
128 AAACATTATGTACTAAAATAATA-TAAAAAATAAAATACAAAAATAGCATATTTTAAAAAATAAA
* * *
12495610 ATTCGAAAAT--A-AAATAA-AAAAACAAACGGCCAAAATTAGAGTTTTTTACTAAATTAATATA
192 ATCCAAAAATAAATAAATAATAAAAACAAAAGGCCAAAA-TAGAGTTTTTTACTAAATTAATATA
* * * *
12495671 AAAAAACACGAAAATAATCCATTTGAAACATTA-GTACTAAA-ATAATAT
256 AAAAAACACAAAAATAATACATTTGAAACATTATGTACTAAATATTATAA
*
12495719 AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAAAATAAAATAAA
1 AAAAATAAAATACGAAAATAGTATAATTTAAAAAATAAAATCTGAAAATAAAATAAA
12495776 TACCAAAATA
Statistics
Matches: 604, Mismatches: 43, Indels: 48
0.87 0.06 0.07
Matches are distributed among these distances:
298 26 0.04
299 29 0.05
300 5 0.01
301 33 0.05
302 41 0.07
303 6 0.01
304 1 0.00
307 57 0.09
308 39 0.06
309 79 0.13
310 97 0.16
311 57 0.09
312 107 0.18
313 27 0.04
ACGTcount: A:0.60, C:0.08, G:0.06, T:0.27
Consensus pattern (305 bp):
AAAAATAAAATACGAAAATAGTATAATTTAAAAAATAAAATCTGAAAATAAAATAAAATAAAAAC
AAACGGCCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAACACTAAAATAATACATTTGAAA
CATTATGTACTAAAATAATATAAAAAATAAAATACAAAAATAGCATATTTTAAAAAATAAAATCC
AAAAATAAATAAATAATAAAAACAAAAGGCCAAAATAGAGTTTTTTACTAAATTAATATAAAAAA
ACACAAAAATAATACATTTGAAACATTATGTACTAAATATTATAA
Found at i:12495452 original size:28 final size:29
Alignment explanation
Indices: 12495415--12495469 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
12495405 TATTAAAATA
12495415 ATATT-AAAAAATAAAATACAAAAATAGT
1 ATATTAAAAAAATAAAATACAAAAATAGT
* * *
12495443 ATATTTAAAAAATAAAATTCGAAAATA
1 ATATTAAAAAAATAAAATACAAAAATA
12495470 AAATAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (29 bp):
ATATTAAAAAAATAAAATACAAAAATAGT
Found at i:12495480 original size:13 final size:13
Alignment explanation
Indices: 12495409--12495479 Score: 56
Period size: 13 Copynumber: 5.3 Consensus size: 13
12495399 ATTATGTATT
*
12495409 AAAATAATATTAA
1 AAAATAAAATTAA
12495422 AAAATAAAA-TACA
1 AAAATAAAATTA-A
*
12495435 AAAATAGTATATTTAA
1 AAAATA--A-AATTAA
**
12495451 AAAATAAAATTCG
1 AAAATAAAATTAA
12495464 AAAATAAAA-TAA
1 AAAATAAAATTAA
12495476 AAAA
1 AAAA
12495480 ACAAACGGCC
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
12 7 0.15
13 27 0.59
14 1 0.02
15 1 0.02
16 8 0.17
17 2 0.04
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (13 bp):
AAAATAAAATTAA
Found at i:12495577 original size:463 final size:455
Alignment explanation
Indices: 12494786--12495777 Score: 1403
Period size: 463 Copynumber: 2.2 Consensus size: 455
12494776 CGGATTTTTC
* ** * *
12494786 TACTTAAATAATATAAAAATAAAATACGAAAATAGGTTATTTTTAAAAATTAAAATACGAAAAT-
1 TACTAAAATAATATAAAAATAAAATACGAAAATAGCATA-TTTTAAAAAATAAAATCCGAAAATA
* *
12494850 AAA-AAA-AATAAGAACAAAGGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAACACTA
65 AAATAAATAATAAAAACAAAAGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAACACTA
* *
12494913 AAATAATATATTTGAAACATTATATACTAAAATAATATAAAAATAAAATACGAAAATAGGATATT
130 AAATAATACATTTGAAACATTATATACTAAAATAATATAAAAATAAAATACAAAAATAGGATATT
* *
12494978 TAAAAAAAATAAAATCCAAAAATAGAATAAATAATAAAAACAAAGGGCGAAAATCAGAGTTTTTT
195 T-AAAAAAATAAAATCCAAAAAT--AATAAATAATAAAAACAAACGGCCAAAATCAGAGTTTTTT
* *
12495043 TACTAAATTAATATAAAAAACACGAAAAATAATACATTTGAAACATTATGTACTAAATTATTATA
257 TACTAAATTAATATAAAAAACACGAAAAATAATACATTTGAAACATTATGTACTAAAATAATATA
* *
12495108 AAAAAATAAAATACGAAAATAGTATAATTTAATAAATAAAA-TCTAAAAATAAAATAAAATAAAA
322 AAAAAATAAAATACAAAAATAGTAT-ATTTAAAAAATAAAATTC-AAAAATAAAAT--AA-AAAA
*
12495172 TAAAAACAACCAAAATCAGAGTTTTTTACTAAATTAATAT-AAAAAACACTAAAATAATACATTT
382 -AAAAACAACCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAAACACGAAAATAATACATTT
12495236 GAAACATTATG
446 GAAACATTA-G
* *
12495247 TACTAAAATAATATAAAAAATAAAATACAAAAAAATAGCATATTTTAAAAAATAAAATCCAAAAA
1 TACTAAAATAATAT-AAAAATAAAATAC--GAAAATAGCATATTTTAAAAAATAAAATCCGAAAA
*
12495312 TAAAATAAATAATAAAAACAAAAGGCCAAAACTAGAGTTTTTTACTAAATTAATATAAAAAAAAC
63 TAAAATAAATAATAAAAACAAAAGGCCAAAACCAGAGTTTTTTACTAAATTAATAT--AAAAAAC
* *
12495377 ACTAAAATAATACATTTGAAACATTATGTATTAAAATAATATTAAAAAATAAAATACAAAAATAG
126 ACTAAAATAATACATTTGAAACATTATATACTAAAATAATA-T-AAAAATAAAATACAAAAATAG
* * * *
12495442 TATATTT-AAAAAATAAAATTCGAAAAT-A-AAATAA-AAAAACAAACGGCCAAAATTAGAG-TT
189 GATATTTAAAAAAATAAAATCCAAAAATAATAAATAATAAAAACAAACGGCCAAAATCAGAGTTT
* *
12495502 TTTTACTAAATTAATATAAAAAAAACAC-TAAAATAATACATTTGAAACATTATGTATTAAAATA
254 TTTTACTAAATTAATAT--AAAAAACACGAAAAATAATACATTTGAAACATTATGTACTAAAATA
* *
12495566 ATATTAAAAAATAAAATACAAAAATAGTATATTTAAAAAATAAAATTCGAAAATAAAATAAAAAA
317 ATATAAAAAAATAAAATACAAAAATAGTATATTTAAAAAATAAAATTCAAAAATAAAATAAAAAA
* ** * *
12495631 ACAAACGGCCAAAATTAGAGTTTTTTACTAAATTAATATAAAAAAACACGAAAATAATCCATTTG
382 AAAAACAACCAAAATCAGAGTTTTTTACTAAATTAATATAAAAAAACACGAAAATAATACATTTG
12495696 AAACATTAG
447 AAACATTAG
* *
12495705 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAAAATAA
1 TACTAAAATAATATAAAAATAAAATACGAAAATAGCATATTTTAAAAAATAAAATCCGAAAATAA
12495770 AATAAATA
66 AATAAATA
12495778 CCAAAATATA
Statistics
Matches: 479, Mismatches: 38, Indels: 34
0.87 0.07 0.06
Matches are distributed among these distances:
455 42 0.09
457 13 0.03
458 50 0.10
459 35 0.07
460 2 0.00
461 13 0.03
462 56 0.12
463 104 0.22
464 27 0.06
465 4 0.01
466 43 0.09
468 63 0.13
469 1 0.00
470 26 0.05
ACGTcount: A:0.60, C:0.08, G:0.06, T:0.27
Consensus pattern (455 bp):
TACTAAAATAATATAAAAATAAAATACGAAAATAGCATATTTTAAAAAATAAAATCCGAAAATAA
AATAAATAATAAAAACAAAAGGCCAAAACCAGAGTTTTTTACTAAATTAATATAAAAAACACTAA
AATAATACATTTGAAACATTATATACTAAAATAATATAAAAATAAAATACAAAAATAGGATATTT
AAAAAAATAAAATCCAAAAATAATAAATAATAAAAACAAACGGCCAAAATCAGAGTTTTTTTACT
AAATTAATATAAAAAACACGAAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAA
AATAAAATACAAAAATAGTATATTTAAAAAATAAAATTCAAAAATAAAATAAAAAAAAAAACAAC
CAAAATCAGAGTTTTTTACTAAATTAATATAAAAAAACACGAAAATAATACATTTGAAACATTAG
Found at i:12495603 original size:28 final size:29
Alignment explanation
Indices: 12495566--12495620 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
12495556 TATTAAAATA
12495566 ATATT-AAAAAATAAAATACAAAAATAGT
1 ATATTAAAAAAATAAAATACAAAAATAGT
* * *
12495594 ATATTTAAAAAATAAAATTCGAAAATA
1 ATATTAAAAAAATAAAATACAAAAATA
12495621 AAATAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (29 bp):
ATATTAAAAAAATAAAATACAAAAATAGT
Found at i:12495631 original size:13 final size:13
Alignment explanation
Indices: 12495560--12495630 Score: 56
Period size: 13 Copynumber: 5.3 Consensus size: 13
12495550 ATTATGTATT
*
12495560 AAAATAATATTAA
1 AAAATAAAATTAA
12495573 AAAATAAAA-TACA
1 AAAATAAAATTA-A
*
12495586 AAAATAGTATATTTAA
1 AAAATA--A-AATTAA
**
12495602 AAAATAAAATTCG
1 AAAATAAAATTAA
12495615 AAAATAAAA-TAA
1 AAAATAAAATTAA
12495627 AAAA
1 AAAA
12495631 ACAAACGGCC
Statistics
Matches: 46, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
12 7 0.15
13 27 0.59
14 1 0.02
15 1 0.02
16 8 0.17
17 2 0.04
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (13 bp):
AAAATAAAATTAA
Found at i:12502136 original size:18 final size:19
Alignment explanation
Indices: 12502108--12502143 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
12502098 AAAATTACCT
12502108 TTTCTTTTCTTTCTTCTCC
1 TTTCTTTTCTTTCTTCTCC
12502127 TTTC-TTTCTTTCTTCTC
1 TTTCTTTTCTTTCTTCTC
12502144 TTCTATTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTCTTTTCTTTCTTCTCC
Found at i:12502341 original size:17 final size:17
Alignment explanation
Indices: 12502319--12502352 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
12502309 AATATTAGTT
12502319 TTAAAAAACAAAAACTG
1 TTAAAAAACAAAAACTG
12502336 TTAAAAAACAAAAACTG
1 TTAAAAAACAAAAACTG
12502353 ATGTGACACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.12, G:0.06, T:0.18
Consensus pattern (17 bp):
TTAAAAAACAAAAACTG
Found at i:12502958 original size:27 final size:27
Alignment explanation
Indices: 12502911--12502980 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
12502901 TGAGGGTGTA
*
12502911 AGTGCCGCCTATGACATAGGCTTCACT
1 AGTGCCGCCTATGACAGAGGCTTCACT
* * * *
12502938 GGTGCCGCCTCTGCCAGAGGCTTCATT
1 AGTGCCGCCTATGACAGAGGCTTCACT
*
12502965 AGTGCCGCCTTTGACA
1 AGTGCCGCCTATGACA
12502981 TGCCCTCCAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.17, C:0.31, G:0.26, T:0.26
Consensus pattern (27 bp):
AGTGCCGCCTATGACAGAGGCTTCACT
Found at i:12503032 original size:17 final size:18
Alignment explanation
Indices: 12503002--12503037 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
12502992 AGTGTCACAT
*
12503002 CAGTTTTTGTTTTTTTAA
1 CAGTTTTTGATTTTTTAA
12503020 CAGTTTTT-ATTTTTTAA
1 CAGTTTTTGATTTTTTAA
12503037 C
1 C
12503038 TAATATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.19, C:0.08, G:0.08, T:0.64
Consensus pattern (18 bp):
CAGTTTTTGATTTTTTAA
Found at i:12504069 original size:21 final size:22
Alignment explanation
Indices: 12504045--12504086 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
12504035 GTGTTTACTA
* *
12504045 GTTATGTTTTA-ATTTTTAATG
1 GTTATATTTTACAATTTTAATG
12504066 GTTATATTTTACAATTTTAAT
1 GTTATATTTTACAATTTTAAT
12504087 AAACCAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.60
Consensus pattern (22 bp):
GTTATATTTTACAATTTTAATG
Found at i:12504144 original size:26 final size:25
Alignment explanation
Indices: 12504114--12504163 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
12504104 GAAAGTTCTT
*
12504114 TTTATAGCCAATTAGATGATTTTTAA
1 TTTATAACCAATTAG-TGATTTTTAA
* *
12504140 TTTATAACTAATTAGTTATTTTTA
1 TTTATAACCAATTAGTGATTTTTA
12504164 GTTTTTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.34, C:0.06, G:0.08, T:0.52
Consensus pattern (25 bp):
TTTATAACCAATTAGTGATTTTTAA
Found at i:12524130 original size:40 final size:40
Alignment explanation
Indices: 12524043--12524252 Score: 271
Period size: 40 Copynumber: 5.3 Consensus size: 40
12524033 TGTTACATAG
* * * * **
12524043 CCCGGATATAAC-ATCAGTATGAGTGCCTTC-GGAACTTGG
1 CCCGGATATAACAACCAGCACGAATGCCTTCAGG-ACTTAA
* *
12524082 CCCGGATATAACAACCAGCACGAATGCCTTTAGGACTTAG
1 CCCGGATATAACAACCAGCACGAATGCCTTCAGGACTTAA
* *
12524122 CCCAGATATAACAACCGGCACGAATGCCTTCAGGACTTAA
1 CCCGGATATAACAACCAGCACGAATGCCTTCAGGACTTAA
*
12524162 CCCGGATATAACAACCAGCACGAATGCCTTCGGGACTTAA
1 CCCGGATATAACAACCAGCACGAATGCCTTCAGGACTTAA
* * *
12524202 ACCGGATATAACAACCAGCACGAAAGCCTTCGGGACTTAA
1 CCCGGATATAACAACCAGCACGAATGCCTTCAGGACTTAA
12524242 CCCGGATATAA
1 CCCGGATATAA
12524253 TCCTCAATTA
Statistics
Matches: 153, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 12 0.08
40 139 0.91
41 2 0.01
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (40 bp):
CCCGGATATAACAACCAGCACGAATGCCTTCAGGACTTAA
Found at i:12527947 original size:28 final size:28
Alignment explanation
Indices: 12527915--12527969 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
12527905 CAAAGCAAAT
*
12527915 AGTGATTTGCGACTCAAAGCATCGGCAC
1 AGTGACTTGCGACTCAAAGCATCGGCAC
12527943 AGTGACTTGCGACTCAAAGCATCGGCA
1 AGTGACTTGCGACTCAAAGCATCGGCA
12527970 ACCACGTTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.20
Consensus pattern (28 bp):
AGTGACTTGCGACTCAAAGCATCGGCAC
Found at i:12532063 original size:40 final size:40
Alignment explanation
Indices: 12531978--12532165 Score: 270
Period size: 40 Copynumber: 4.7 Consensus size: 40
12531968 TCCAAACACA
*
12531978 AATGCCTTCGGGACTTAGCCCGGATATAAC-ACCAGTACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACAACCAGCACG
* ** * *
12532017 AGTGCCTTCGAAACTTGGCCCGGATATAATAACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACAACCAGCACG
* *
12532057 AATGCCTTCAGGACTTAGCCCAGATATAACAACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACAACCAGCACG
*
12532097 AATGCCTTCGGGACTTAACCCGGATATAACAACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACAACCAGCACG
* *
12532137 AAAGCCTTCGGGACTTAACCCGGATATAA
1 AATGCCTTCGGGACTTAGCCCGGATATAA
12532166 TCCTCAATTA
Statistics
Matches: 131, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 25 0.19
40 106 0.81
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.19
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAACAACCAGCACG
Found at i:12543471 original size:19 final size:20
Alignment explanation
Indices: 12543426--12543466 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
12543416 GGGACGTTAC
*
12543426 AACTTTACCCCCTAAAAGAA
1 AACTTTACCCCCCAAAAGAA
12543446 AACTTTACCCCCCAAAAGAA
1 AACTTTACCCCCCAAAAGAA
12543466 A
1 A
12543467 TTTTAACCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.46, C:0.32, G:0.05, T:0.17
Consensus pattern (20 bp):
AACTTTACCCCCCAAAAGAA
Found at i:12550463 original size:33 final size:33
Alignment explanation
Indices: 12550421--12550484 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
12550411 GTAAACTAAA
12550421 TGATGAACCTACAGATTAAAAAGGAAGGAAAAG
1 TGATGAACCTACAGATTAAAAAGGAAGGAAAAG
*
12550454 TGATGAACCTACAGATTGAAAAGGAAGGAAA
1 TGATGAACCTACAGATTAAAAAGGAAGGAAA
12550485 TTTTTTTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.50, C:0.09, G:0.25, T:0.16
Consensus pattern (33 bp):
TGATGAACCTACAGATTAAAAAGGAAGGAAAAG
Found at i:12551646 original size:21 final size:21
Alignment explanation
Indices: 12551605--12551646 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
12551595 CACGCTATTC
*
12551605 ATTTTAAATTCGTTTGTCATT
1 ATTTTAAATTCGTTTGACATT
12551626 ATTTGTAAATTCGTTT-ACATT
1 ATTT-TAAATTCGTTTGACATT
12551647 TTATGCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.55
Consensus pattern (21 bp):
ATTTTAAATTCGTTTGACATT
Done.