Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 76 of 182
Found at i:23082465 original size:27 final size:27
Alignment explanation
Indices: 23082423--23082481 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
23082413 TTTTAGTCCT
23082423 TTGGCACCATTAGTGCCGCCAATCTCA
1 TTGGCACCATTAGTGCCGCCAATCTCA
* * * * *
23082450 TTGGCACCTTTGGTGCCTCCAATGTGA
1 TTGGCACCATTAGTGCCGCCAATCTCA
23082477 TTGGC
1 TTGGC
23082482 CTGATCAGGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.17, C:0.29, G:0.24, T:0.31
Consensus pattern (27 bp):
TTGGCACCATTAGTGCCGCCAATCTCA
Found at i:23084007 original size:22 final size:22
Alignment explanation
Indices: 23083982--23084026 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
23083972 TTTTTTTAAA
23083982 AATATTT-ATATTATTTTAATTT
1 AATATTTAATATT-TTTTAATTT
*
23084004 AATATTTAATATTTTTTTATTT
1 AATATTTAATATTTTTTAATTT
23084026 A
1 A
23084027 TTGACATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
AATATTTAATATTTTTTAATTT
Found at i:23084021 original size:23 final size:22
Alignment explanation
Indices: 23083964--23084026 Score: 69
Period size: 20 Copynumber: 3.0 Consensus size: 22
23083954 CTGCCCGTAT
* *
23083964 TATTTTTATTTTTTTAA--AAA
1 TATTTATATTTTTTTAATTTAA
*
23083984 TATTTATATTATTTTAATTTAA
1 TATTTATATTTTTTTAATTTAA
23084006 TATTTAATATTTTTTT-ATTTA
1 TATTT-ATATTTTTTTAATTTA
23084027 TTGACATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
20 15 0.42
22 12 0.33
23 9 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TATTTATATTTTTTTAATTTAA
Found at i:23084386 original size:15 final size:16
Alignment explanation
Indices: 23084355--23084387 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
23084345 TTTTGTTACG
*
23084355 AAACTTTATATTAATT
1 AAACTTTATAGTAATT
23084371 AAACTTTA-AGTAATT
1 AAACTTTATAGTAATT
23084386 AA
1 AA
23084388 TGAATCAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (16 bp):
AAACTTTATAGTAATT
Found at i:23085775 original size:31 final size:31
Alignment explanation
Indices: 23085732--23085792 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
23085722 GGCTATTATC
* *
23085732 ATCGCCACCACTTTAAGAGAAAATGAAACGT
1 ATCGCCACCACTTTAAAAGAAAACGAAACGT
*
23085763 ATCGTCACCACTTTAAAAGAAAACGAAACG
1 ATCGCCACCACTTTAAAAGAAAACGAAACG
23085793 AATATTATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.44, C:0.23, G:0.15, T:0.18
Consensus pattern (31 bp):
ATCGCCACCACTTTAAAAGAAAACGAAACGT
Found at i:23086258 original size:31 final size:31
Alignment explanation
Indices: 23086223--23086288 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
23086213 CTTAATGCGC
* *
23086223 TTTTGAATGATTATTCAATGTTAATCGTGAA
1 TTTTGAATGATTATCCAATGCTAATCGTGAA
* * *
23086254 TTTTGGATGATTATCCGATGCTAATTGTGAA
1 TTTTGAATGATTATCCAATGCTAATCGTGAA
23086285 TTTT
1 TTTT
23086289 ATACTCTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.27, C:0.08, G:0.18, T:0.47
Consensus pattern (31 bp):
TTTTGAATGATTATCCAATGCTAATCGTGAA
Found at i:23087467 original size:18 final size:19
Alignment explanation
Indices: 23087441--23087483 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
23087431 ATAATAATTA
*
23087441 TAAAAAAATAGAAA-TATT
1 TAAAAAAATAAAAACTATT
*
23087459 TAAAGAAATAAAAACTTATT
1 TAAAAAAATAAAAAC-TATT
23087479 TAAAA
1 TAAAA
23087484 TATCAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 12 0.60
20 8 0.40
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (19 bp):
TAAAAAAATAAAAACTATT
Found at i:23091345 original size:41 final size:41
Alignment explanation
Indices: 23091288--23091382 Score: 190
Period size: 41 Copynumber: 2.3 Consensus size: 41
23091278 ATTGAAATTT
23091288 GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
1 GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
23091329 GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
1 GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
23091370 GTGATCTGAATCA
1 GTGATCTGAATCA
23091383 AAGGAGCGAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.23
Consensus pattern (41 bp):
GTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCG
Found at i:23091610 original size:41 final size:41
Alignment explanation
Indices: 23091550--23091725 Score: 246
Period size: 41 Copynumber: 4.3 Consensus size: 41
23091540 GTTTGGAATT
*
23091550 GGTGATCTGAATCAGGCTATAAGCCTAGAAAGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGAAGGCTAAGTGCC
* * *
23091591 GGTGATCTGAATCATGCTATAAGCCTAGCAGGTTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGAAGGCTAAGTGCC
* * *
23091632 GGTGATCTGAATAAGGCTATAAGCCTAGTAGGCTAAATGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGAAGGCTAAGTGCC
* * *
23091673 GGTGATATGAATCAGGTTATAAACCTA-ACAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGA-AGGCTAAGTGCC
23091714 GGTGATCTGAAT
1 GGTGATCTGAAT
23091726 ATGTTAAATT
Statistics
Matches: 118, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
41 118 1.00
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.25
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAGCCTAGAAGGCTAAGTGCC
Found at i:23093501 original size:41 final size:41
Alignment explanation
Indices: 23093385--23093501 Score: 155
Period size: 41 Copynumber: 2.9 Consensus size: 41
23093375 TTTAACATAT
* * ** *
23093385 TCACCGGCACTTAGCCTGTTAGGCTTATTGCCTGATTCAGA
1 TCACCGGCACGTAGCCTGCTAGGCTTAAAGTCTGATTCAGA
*
23093426 TCACCGGCACGTAGCCTGCTAGGTTTATAA-TCTGATTCAGA
1 TCACCGGCACGTAGCCTGCTAGGCTTA-AAGTCTGATTCAGA
*
23093467 TCACCGGCACGTAGCCTGCTAGACTTAAAGTCTGA
1 TCACCGGCACGTAGCCTGCTAGGCTTAAAGTCTGA
23093502 ATTAATTCAC
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
40 2 0.03
41 64 0.97
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (41 bp):
TCACCGGCACGTAGCCTGCTAGGCTTAAAGTCTGATTCAGA
Found at i:23106148 original size:22 final size:24
Alignment explanation
Indices: 23106096--23106148 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 24
23106086 AAGTTAGGTA
* *
23106096 AAATAAAACTGCAATTTTTAATGC
1 AAATAAAGCTGCAATTTTTAATCC
*
23106120 AGA-AAAGCTGC-A-TTTTAATCC
1 AAATAAAGCTGCAATTTTTAATCC
23106141 AAATAAAG
1 AAATAAAG
23106149 ACAATGTCCC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 10 0.42
22 5 0.21
23 7 0.29
24 2 0.08
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.28
Consensus pattern (24 bp):
AAATAAAGCTGCAATTTTTAATCC
Found at i:23109495 original size:16 final size:17
Alignment explanation
Indices: 23109474--23109506 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
23109464 TTATTATTTC
23109474 ATATTTATTT-TTTTAT
1 ATATTTATTTATTTTAT
*
23109490 ATATTTTTTTATTTTAT
1 ATATTTATTTATTTTAT
23109507 CATGATGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
ATATTTATTTATTTTAT
Found at i:23111364 original size:15 final size:16
Alignment explanation
Indices: 23111328--23111372 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
23111318 TTTTTTGAAC
23111328 TTTTATGAACTTTTTATA
1 TTTTAT-AA-TTTTTATA
*
23111346 TTTTTTAATTTTTAT-
1 TTTTATAATTTTTATA
23111361 TTTTATAATTTT
1 TTTTATAATTTT
23111373 GAATTATTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 11 0.44
16 7 0.28
17 2 0.08
18 5 0.20
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (16 bp):
TTTTATAATTTTTATA
Found at i:23120919 original size:17 final size:17
Alignment explanation
Indices: 23120897--23120929 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
23120887 GGAAGACCTA
23120897 AGCATGCAGCATGCAGC
1 AGCATGCAGCATGCAGC
23120914 AGCATGCAGCATGCAG
1 AGCATGCAGCATGCAG
23120930 ATTGAAGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.27, G:0.30, T:0.12
Consensus pattern (17 bp):
AGCATGCAGCATGCAGC
Found at i:23125129 original size:972 final size:970
Alignment explanation
Indices: 23123152--23125338 Score: 3865
Period size: 972 Copynumber: 2.2 Consensus size: 970
23123142 GGACTTACAA
* *
23123152 GTATGTTCAAAGCTTGTGGCTAGCAAGGATGTTTGCCCAAGCAGGTGGATTGTCTCTAGAAGCGG
1 GTATGTTCAAAGCTTGTGGCTAGCAAGGATGTTTG-CCAAGCAGGTAGATTGTCTCTAAAAGC-G
* *
23123217 GAGGTTTAGGTCTTTCAAGAAGACGCGTGCAGTCCAAGTCCTTTGCTGAGATAGAGGGTCAAACG
64 GAGGTTTAGGTCTTTCAAGAAGACGCGTGCAGTCCAAGTCCCTTGCTAAGATAGAGGGTCAAACG
* * *
23123282 GAGAGTAAGAATATCGGAGAGACAGTCACCAAGGCGTTCGAGTAGAGCCGAAGGATTGTTTACGA
129 GAGAGTAAGAATATGGGAGAAACAGTCACCAAGGCGTTCGAGTAGAGCCGAAGGATTGGTTACGA
* *
23123347 TTATTTCTCAGATGGCTTGTTACGCTGGCACATGTCCACCTGTACTGGAAGTATAATAATTTACG
194 TTATTTCTCAGATGGCTTGTCACGCTGGCACATGTCCACCTGTAATGGAAGTATAATAATTTACG
* *
23123412 GTTTATTTTTTGTCTGATTATCTAACCTTTTAATAAATACATATTGATCAAATCGAGTGTTTTTA
259 GTTTATTTTTTGTCTGATTATCTAACCTTTTAATAAATACATATTAATCAAATCGAGTGTTATTA
*
23123477 ATGCTATTCAATGGTTATTATTGCAGAAATAAATAACTTGCGTTACTTAAAACCTGATTGGTGTT
324 ATGCTATTCAATGGTTATTATTGCAGAAATAAATAACTTGCGTTACTTAAAACCGGATTGGTGTT
23123542 GGATTTCAAGTTTAAGAATTTAATTCGAATCTAAATTTAATTGATGTTTAATGTAATTATTTTTT
389 GGATTTCAAGTTTAAGAATTTAATTCGAATCTAAATTTAATTGATGTTTAATGTAATTATTTTTT
* *
23123607 TGTTGGTAGCTTTCATGTTTATTTCACTGTTCATATTCAACGAACAAAGGACGCATTTTTCTAGC
454 TGTTGGTAGCTTTCATGTTTATTTCACAGTTCATATTCAACGAACAAAAGACGCATTTTTCTAGC
* *
23123672 ATCGAAATATCGAAAAAAAATAAGGAGCCTACTTTTTCGTATTTTTGGGCATGACTAGTTTGAAG
519 ACCGAAATATCGAAAAAAAATAAGGAGCCTACTTTTTCGTATTTTTGGGCATGACTAGTTTGAAC
*
23123737 ATTCTAAACAACTCGCGTTGCCCATGTCGTACAAGTGCACCCCAACCCCGATGATTTGGACTTGC
584 ATTCTAAACAACTCGCGTTGCCCACGTCGTACAAGTGCACCCCAACCCCGATGATTTGGACTTGC
23123802 ACCCCCCTATGCAAGAGGTAAGGTTCCAAACTTAGTCATTCAATTATTTTTCAAGAGGGTTCCCA
649 ACCCCCCTATGCAAGAGGTAAGGTTCCAAACTTAGTCATTCAATTATTTTTCAAGAGGGTTCCCA
*
23123867 TATATAAACACATCTCACACTTGGTATTTAACCAATGTGGGATTTAAGCTTTTCTTTTCCTCAAC
714 TATATAAACACATCTCACACTTGGTATTTAACCAATGTGGGATCTAAGCTTTTCTTTTCCTCAAC
*
23123932 AAATATTTTCAACTAGCTTACTTTAAGCATCAATTTTTCATTCATCGCTAAACCATTTTGAACAT
779 AAATATTTTCAACTAGCTTACTTTAAGCATCAATTTCTCATTCATCGCTAAACCATTTTGAACAT
23123997 ATAATATACCGTTGTAAAGGTCTCATGGAGTAGAATATGAAACCATAATTTTATGATTCAACTCT
844 ATAATATACCGTTGTAAAGGTCTCATGGAGTAGAATATGAAACCATAATTTTATGATTCAACTCT
* *
23124062 GTACCTTTACCTATCGAGAATATCCCTCAACGTTCCGTAAAATGCAATTTTTCTAACAACTG
909 GTACCTTTACCTATCGAGAATATCCCTCAAAGTTCCGTAAAATGCAATTTTTCCAACAACTG
*
23124124 GTATGTTCAAATCTTGTGGCTAGCAAGGATGTTTGCCAAGCAGGTAGATTGTCTCTAAAAGCGAG
1 GTATGTTCAAAGCTTGTGGCTAGCAAGGATGTTTGCCAAGCAGGTAGATTGTCTCTAAAAGCG-G
23124189 AGGTTTAGGTCTTTCAAGAAGACGCGTGCAGTCCAAGTCCCTTGCTAAGATAGAGGGTCAAACGG
65 AGGTTTAGGTCTTTCAAGAAGACGCGTGCAGTCCAAGTCCCTTGCTAAGATAGAGGGTCAAACGG
23124254 AGAGTAAGAATATGGGAGAAACAGTCACCAAGGCGTTCGAGTAGAGCCGAAGGATTGGTTACGAT
130 AGAGTAAGAATATGGGAGAAACAGTCACCAAGGCGTTCGAGTAGAGCCGAAGGATTGGTTACGAT
23124319 TATTTCTCAGATGGCTTGTCACGCTGGCACATGTCCACCTGTAATGGAAGTATAATAATTTACGG
195 TATTTCTCAGATGGCTTGTCACGCTGGCACATGTCCACCTGTAATGGAAGTATAATAATTTACGG
*
23124384 TTTATTTTTTGTCTGATTATCTAACCTTTTAATAAGTACATATTAATCAAATCGAGTGTTATTAA
260 TTTATTTTTTGTCTGATTATCTAACCTTTTAATAAATACATATTAATCAAATCGAGTGTTATTAA
*
23124449 TGCTATTCAATGGTTATTGTTGCAGAAATAAATAACTTGCGTTACTTAAAACCGGATTGGTGTTG
325 TGCTATTCAATGGTTATTATTGCAGAAATAAATAACTTGCGTTACTTAAAACCGGATTGGTGTTG
* * * *
23124514 GATTTCGAGTTTAAGAATTTGATTCGAGTCTAAATTTAATTTATGTTTAATGTAATTATTTTTTT
390 GATTTCAAGTTTAAGAATTTAATTCGAATCTAAATTTAATTGATGTTTAATGTAATTATTTTTTT
* * *
23124579 GTTGGTAGCTTTCATGTTTATTTCACAGTTCATATTTAACGAACAAAAGATG-ATTTTTTCTATC
455 GTTGGTAGCTTTCATGTTTATTTCACAGTTCATATTCAACGAACAAAAGACGCA-TTTTTCTAGC
*
23124643 ACCGAAATATCGAAAAAAAATAAGGAGCCTACTTTTTCGTTTTTTTGGGCATGACTAGTTTGAAC
519 ACCGAAATATCGAAAAAAAATAAGGAGCCTACTTTTTCGTATTTTTGGGCATGACTAGTTTGAAC
* **
23124708 ATTCTGAACATTTCGCGTTGCCCACGTCGTACAAGTGCACCCCAACCCCGATAGATTTGGACTTG
584 ATTCTAAACAACTCGCGTTGCCCACGTCGTACAAGTGCACCCCAACCCCGAT-GATTTGGACTTG
*
23124773 CACCCCCCTATGCAAGAGGTAATGTTCCAAACTTAGTCATTCAATTATTTTTCAAGAGGGTTCCC
648 CACCCCCCTATGCAAGAGGTAAGGTTCCAAACTTAGTCATTCAATTATTTTTCAAGAGGGTTCCC
*
23124838 ATATATAAACACATCTCACGCTTGGTATTTAACCAATGTGGGATCTAAGCTTTTCTTTTCCTCAA
713 ATATATAAACACATCTCACACTTGGTATTTAACCAATGTGGGATCTAAGCTTTTCTTTTCCTCAA
* *
23124903 CAAATATTTTCAACTAGCTTACTTTAAGCATCAATTTCTCATTCATCGCTCAACCATTTTGAGCA
778 CAAATATTTTCAACTAGCTTACTTTAAGCATCAATTTCTCATTCATCGCTAAACCATTTTGAACA
23124968 TATAATATACCGTTGTAAAGGTCTCATGGAGTAGAATATGAAACCATAATTTTATGATTCAACTC
843 TATAATATACCGTTGTAAAGGTCTCATGGAGTAGAATATGAAACCATAATTTTATGATTCAACTC
* *
23125033 TGTACCTTTACCTATTGAGAATATGCCTCAAAGTTCCGTAAAATGCAATTTTTCCAACAAC-G
908 TGTACCTTTACCTATCGAGAATATCCCTCAAAGTTCCGTAAAATGCAATTTTTCCAACAACTG
* *
23125095 GATATGTTCAAAGCTTGTGGCTAGCAATGATGTTTTCCAAGCAGGTAGATTGTCTCTAAAAGCGG
1 G-TATGTTCAAAGCTTGTGGCTAGCAAGGATGTTTGCCAAGCAGGTAGATTGTCTCTAAAAGCGG
*
23125160 AAGGTTTAGGTCTTTCAAGAAGACGCGTGTAGTCCAAGTCCCTTGCTAAGATAGAGGGTCAAACG
65 -AGGTTTAGGTCTTTCAAGAAGACGCGTGCAGTCCAAGTCCCTTGCTAAGATAGAGGGTCAAACG
23125225 GAGAGTAAGAATATGGGAGAAACAGTCACCAAGGCGTTCGAGTAGAGCCGAAGGATTGGTTACGA
129 GAGAGTAAGAATATGGGAGAAACAGTCACCAAGGCGTTCGAGTAGAGCCGAAGGATTGGTTACGA
* * * *
23125290 TTATTTCTCAGATAGCTTGTCACGCTGGCACGTGTCCATCTGTAGTGGA
194 TTATTTCTCAGATGGCTTGTCACGCTGGCACATGTCCACCTGTAATGGA
23125339 TTTTTTGTTG
Statistics
Matches: 1161, Mismatches: 49, Indels: 10
0.95 0.04 0.01
Matches are distributed among these distances:
970 2 0.00
971 570 0.49
972 589 0.51
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (970 bp):
GTATGTTCAAAGCTTGTGGCTAGCAAGGATGTTTGCCAAGCAGGTAGATTGTCTCTAAAAGCGGA
GGTTTAGGTCTTTCAAGAAGACGCGTGCAGTCCAAGTCCCTTGCTAAGATAGAGGGTCAAACGGA
GAGTAAGAATATGGGAGAAACAGTCACCAAGGCGTTCGAGTAGAGCCGAAGGATTGGTTACGATT
ATTTCTCAGATGGCTTGTCACGCTGGCACATGTCCACCTGTAATGGAAGTATAATAATTTACGGT
TTATTTTTTGTCTGATTATCTAACCTTTTAATAAATACATATTAATCAAATCGAGTGTTATTAAT
GCTATTCAATGGTTATTATTGCAGAAATAAATAACTTGCGTTACTTAAAACCGGATTGGTGTTGG
ATTTCAAGTTTAAGAATTTAATTCGAATCTAAATTTAATTGATGTTTAATGTAATTATTTTTTTG
TTGGTAGCTTTCATGTTTATTTCACAGTTCATATTCAACGAACAAAAGACGCATTTTTCTAGCAC
CGAAATATCGAAAAAAAATAAGGAGCCTACTTTTTCGTATTTTTGGGCATGACTAGTTTGAACAT
TCTAAACAACTCGCGTTGCCCACGTCGTACAAGTGCACCCCAACCCCGATGATTTGGACTTGCAC
CCCCCTATGCAAGAGGTAAGGTTCCAAACTTAGTCATTCAATTATTTTTCAAGAGGGTTCCCATA
TATAAACACATCTCACACTTGGTATTTAACCAATGTGGGATCTAAGCTTTTCTTTTCCTCAACAA
ATATTTTCAACTAGCTTACTTTAAGCATCAATTTCTCATTCATCGCTAAACCATTTTGAACATAT
AATATACCGTTGTAAAGGTCTCATGGAGTAGAATATGAAACCATAATTTTATGATTCAACTCTGT
ACCTTTACCTATCGAGAATATCCCTCAAAGTTCCGTAAAATGCAATTTTTCCAACAACTG
Found at i:23126044 original size:765 final size:766
Alignment explanation
Indices: 23124573--23126103 Score: 2796
Period size: 765 Copynumber: 2.0 Consensus size: 766
23124563 ATGTAATTAT
*
23124573 TTTTTTGTTGGTAGCTTTCATGTTTATTTCACAGTTCATATTTAACGAACAAAAGATGATTTTTT
1 TTTTTTGTTGGTAGCTTTCATGTTTATTTCACAGTTCATATTCAACGAACAAAAGATGATTTTTT
* * *
23124638 CTATCACCGAAATATCGAAAAAAAATAAGGAGCCTACTTTTTCGTTTTTTTGGGCATGACTAGTT
66 CTATCACCGAAATATCGAAAAAAAATAAGGAGCCTACTTTATCATATTTTTGGGCATGACTAGTT
* * *
23124703 TGAACATTCTGAACATTTCGCGTTGCCCACGTCGTACAAGTGCACCCCAACCCCGATAGATTTGG
131 TGAACATTCTGAACATTTCACGTTGCCCACATCGTACAAGTGCACCCCAACCCCGATAGATTTAG
* *
23124768 ACTTGCACCCCCCTATGCAAGAGGTAATGTTCCAAACTTAGTCATTCAATTATTTTTCAAGAGGG
196 ACTTGCACCCCCCTATGCAAGAGGTAAGGTTCCAAACTTAGTCATTCAATTATCTTTCAAGAGGG
*
23124833 TTCCCATATATAAACACATCTCACGCTTGGTATTTAACCAATGTGGGATCTAAGCTTTTCTTTTC
261 TTCCCATATATAAACACATCTCACACTTGGTATTTAACCAATGTGGGATCTAAGCTTTTCTTTTC
23124898 CTCAACAAATATTTTCAACTAGCTTACTTTAAGCATCAATTTCTCATTCATCGCTCAACCATTTT
326 CTCAACAAATATTTTCAACTAGCTTACTTTAAGCATCAATTTCTCATTCATCGCTCAACCATTTT
23124963 GAGCATATAATATACCGTTGTAAAGGTCTCATGGAGTAGAATATGAAACCATAATTTTATGATTC
391 GAGCATATAATATACCGTTGTAAAGGTCTCATGGAGTAGAATATGAAACCATAATTTTATGATTC
23125028 AACTCTGTACCTTTACCTATTGAGAATATGCCTCAAAGTTCCGTAAAATGCAATTTTTCCAACAA
456 AACTCTGTACCTTTACCTATTGAGAATATGCCTCAAAGTTCCGTAAAATGCAATTTTTCCAACAA
* * *
23125093 CGGATATGTTCAAAGCTTGTGGCTAGCAATGATGTTTTCCAAGCAGGTAGATTGTCTCTAAAAGC
521 CGGATATGTTCAAAGCTTGTGGCTAGCAAGGATGTTTGCCAAGCAGGTAGATTGTCTCTAAAAGA
* * * *
23125158 GGAAGGTTTAGGTCTTTCAAGAAGACGCGTGTAGTCCAAGTCCCTTGCTAAGATAGAGGGTCAAA
586 GGAAGGTTTAGGTCTTTCAAGAAGACGCATGCAGTCCAAGTCCCTTGCTAAGATAAAGGATCAAA
* **
23125223 CGGAGAGTAAGAATATGGGAGAAACAGTCACCAAGGCGTTCGAGTAGAGCCGAAGGATTGGTTAC
651 CAGAGAGTAAGAATATGGGAGAAACAACCACCAAGGCGTTCGAGTAGAGCCGAAGGATTGGTTAC
*
23125288 GATTATTTCTCAGATAGCTTGTCACGCTGGCACGTGTCCATCTGTAGTGGA
716 GATTATTTCTCAGATAGCTTGTCACGCTGGCACGTGTCCACCTGTAGTGGA
*
23125339 TTTTTTGTTGGTAGCTTTCATGTTTATTTCACGGTTCATATTCAACGAACAAAAGATGATTTTTT
1 TTTTTTGTTGGTAGCTTTCATGTTTATTTCACAGTTCATATTCAACGAACAAAAGATGATTTTTT
23125404 CTATCACCGAAATATCGAAAAAAAATAAGGAGCCTACTTTATCATATTTTTGGGCATGACTAGTT
66 CTATCACCGAAATATCGAAAAAAAATAAGGAGCCTACTTTATCATATTTTTGGGCATGACTAGTT
23125469 TGAACATTCTGAACATTTCACGTTGCCCACATCGTACAAGTGCACCCCAACCCCGATAGATTTAG
131 TGAACATTCTGAACATTTCACGTTGCCCACATCGTACAAGTGCACCCCAACCCCGATAGATTTAG
23125534 ACTTGCA-CCCCCTATGCAAGAGGTAAGGTTCCAAACTTAGTCATTCAATTATCTTTCAAGAGGG
196 ACTTGCACCCCCCTATGCAAGAGGTAAGGTTCCAAACTTAGTCATTCAATTATCTTTCAAGAGGG
23125598 TTCCCATATATAAACACATCTCACACTTGGTATTTAACCAATGTGGGATCTAAGCTTTTCTTTTC
261 TTCCCATATATAAACACATCTCACACTTGGTATTTAACCAATGTGGGATCTAAGCTTTTCTTTTC
23125663 CTCAACAAATATTTTCAACTAGCTTACTTTAAGCATCAATTTCTCATTCATCGCTCAACCATTTT
326 CTCAACAAATATTTTCAACTAGCTTACTTTAAGCATCAATTTCTCATTCATCGCTCAACCATTTT
23125728 GAGCATATAATATACCGTTGTAAAGGTCTCATGGAGTAGAATATGAAACCATAATTTTATGATTC
391 GAGCATATAATATACCGTTGTAAAGGTCTCATGGAGTAGAATATGAAACCATAATTTTATGATTC
*
23125793 AACTCTGTACCTTTACCTATTGAGAATATGCCTCAAAGTTCCGTAAAATGCAATTTTTCTAACAA
456 AACTCTGTACCTTTACCTATTGAGAATATGCCTCAAAGTTCCGTAAAATGCAATTTTTCCAACAA
23125858 CTGG-TATGTTCAAAGCTTGTGGCTAGCAAGGATGTTTGCCAAGCAGGTAGATTGTCTCTAAAAG
521 C-GGATATGTTCAAAGCTTGTGGCTAGCAAGGATGTTTGCCAAGCAGGTAGATTGTCTCTAAAAG
* *
23125922 AGGGAGGTTTAGGTCTTTCAAGAAGACGCATGCAGTCCAAGTCCCTTGCTGAGATAAAGGATCAA
585 AGGAAGGTTTAGGTCTTTCAAGAAGACGCATGCAGTCCAAGTCCCTTGCTAAGATAAAGGATCAA
*
23125987 ACAGAGAGTAAGAATATGGGAGAGACAACCACCAAGGCGTTCGAGTAGAGCCGAAGGATTGGTTA
650 ACAGAGAGTAAGAATATGGGAGAAACAACCACCAAGGCGTTCGAGTAGAGCCGAAGGATTGGTTA
*
23126052 CGATTATTTCTCAGATGGCTTGTCACGCTGGCACGTGTCCACCTGTAGTGGA
715 CGATTATTTCTCAGATAGCTTGTCACGCTGGCACGTGTCCACCTGTAGTGGA
23126104 AGTATAATAA
Statistics
Matches: 737, Mismatches: 27, Indels: 3
0.96 0.04 0.00
Matches are distributed among these distances:
765 541 0.73
766 196 0.27
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.32
Consensus pattern (766 bp):
TTTTTTGTTGGTAGCTTTCATGTTTATTTCACAGTTCATATTCAACGAACAAAAGATGATTTTTT
CTATCACCGAAATATCGAAAAAAAATAAGGAGCCTACTTTATCATATTTTTGGGCATGACTAGTT
TGAACATTCTGAACATTTCACGTTGCCCACATCGTACAAGTGCACCCCAACCCCGATAGATTTAG
ACTTGCACCCCCCTATGCAAGAGGTAAGGTTCCAAACTTAGTCATTCAATTATCTTTCAAGAGGG
TTCCCATATATAAACACATCTCACACTTGGTATTTAACCAATGTGGGATCTAAGCTTTTCTTTTC
CTCAACAAATATTTTCAACTAGCTTACTTTAAGCATCAATTTCTCATTCATCGCTCAACCATTTT
GAGCATATAATATACCGTTGTAAAGGTCTCATGGAGTAGAATATGAAACCATAATTTTATGATTC
AACTCTGTACCTTTACCTATTGAGAATATGCCTCAAAGTTCCGTAAAATGCAATTTTTCCAACAA
CGGATATGTTCAAAGCTTGTGGCTAGCAAGGATGTTTGCCAAGCAGGTAGATTGTCTCTAAAAGA
GGAAGGTTTAGGTCTTTCAAGAAGACGCATGCAGTCCAAGTCCCTTGCTAAGATAAAGGATCAAA
CAGAGAGTAAGAATATGGGAGAAACAACCACCAAGGCGTTCGAGTAGAGCCGAAGGATTGGTTAC
GATTATTTCTCAGATAGCTTGTCACGCTGGCACGTGTCCACCTGTAGTGGA
Found at i:23131859 original size:13 final size:13
Alignment explanation
Indices: 23131841--23131865 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23131831 AGATCTTTAT
23131841 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
23131854 TGCTTTTGAGAA
1 TGCTTTTGAGAA
23131866 ATTTGAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:23133992 original size:72 final size:72
Alignment explanation
Indices: 23133871--23134040 Score: 265
Period size: 72 Copynumber: 2.4 Consensus size: 72
23133861 AAATCATATT
** *
23133871 TAAACAACTATTGATAAAACTA-ATTTAGTATAAATAAGTAGAACATAAATTCAATATCCAAAGA
1 TAAACAACTATTGATAAAACTAGATTTAACATAAATAAGTAGAACATAAATTCAATATCCAAAAA
23133935 CCAAACA
66 CCAAACA
*
23133942 TAAACAACTATTAATAAAACTAGA-TTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
1 TAAACAACTATTGATAAAACTAGATTTA-ACATAAATAAGTAGAACATAAATTCAATATCCAAAA
23134006 ACCAAACA
65 ACCAAACA
*
23134014 TAAATAACTATTGATAAAACTAG-TTTA
1 TAAACAACTATTGATAAAACTAGATTTA
23134041 GCATTGTTGT
Statistics
Matches: 90, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
71 24 0.27
72 66 0.73
ACGTcount: A:0.54, C:0.14, G:0.06, T:0.26
Consensus pattern (72 bp):
TAAACAACTATTGATAAAACTAGATTTAACATAAATAAGTAGAACATAAATTCAATATCCAAAAA
CCAAACA
Found at i:23134486 original size:18 final size:18
Alignment explanation
Indices: 23134465--23134512 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
23134455 CCCATCAATT
*
23134465 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
*
23134483 TGAACATCATTCAAAATG
1 TGAACATCATTTAAAATG
23134501 TGAACATCATTT
1 TGAACATCATTT
23134513 CTCATATTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:23134677 original size:43 final size:43
Alignment explanation
Indices: 23134629--23134880 Score: 238
Period size: 43 Copynumber: 5.9 Consensus size: 43
23134619 GTTTTTAGAA
* *
23134629 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGTGCTTTCCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCC
* * *
23134672 ACAAACACCGCTAAAGACCACGACTTTTAGCGGCGCTTTCCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCC
** ** ** * *
23134715 ACAAACGCCGCTAAAGGTCTTGGTCTATAGCGACGC-TTCTCCC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTC-CCC
* * * * ***
23134758 ACAAATGCCACTAAAGACCAAGACTTTTAGCGACGCTTTTATC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCC
* * ***
23134801 ACAAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTATC
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCC
* *
23134844 ACAAACGCCGCTAAAGAACAA-ACCTTTAGTGGCGCTT
1 ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTT
23134881 CTAGCAAAAA
Statistics
Matches: 169, Mismatches: 38, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
42 18 0.11
43 149 0.88
44 2 0.01
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTCCCC
Found at i:23134832 original size:86 final size:85
Alignment explanation
Indices: 23134629--23134905 Score: 270
Period size: 86 Copynumber: 3.2 Consensus size: 85
23134619 GTTTTTAGAA
* * * *
23134629 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGTGCTTTCCCCACAAACACCGCTAAAGACCACG
1 ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTT-CCCACAAACGCCGCTAAAGACCAAG
**
23134694 ACTTTTAGCGGCGCTTTCCCC
65 ACTTTTAGCGGCGCTTTTACC
** * ** * * * *
23134715 ACAAACGCCGCTAAAGGTCTTGGTCTATAGCGACGCTTCTCCCACAAATGCCACTAAAGACCAAG
1 ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTT-TCCCACAAACGCCGCTAAAGACCAAG
* *
23134780 ACTTTTAGCGACGCTTTTATC
65 ACTTTTAGCGGCGCTTTTACC
* * ** *
23134801 ACAAACGCCGCTATAGACCATGACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACAA-
1 ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGC-TTTCCCACAAACGCCGCTAAAGACCAAG
* * * *
23134865 ACCTTTAGTGGCGCTTCTAGC
65 ACTTTTAGCGGCGCTTTTACC
*
23134886 AAAAACGCCGCTAAA-AACAT
1 ACAAACGCCGCTAAAGAACAT
23134906 AATCTTTAAA
Statistics
Matches: 151, Mismatches: 38, Indels: 6
0.77 0.19 0.03
Matches are distributed among these distances:
84 4 0.03
85 29 0.19
86 115 0.76
87 3 0.02
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (85 bp):
ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCACAAACGCCGCTAAAGACCAAGA
CTTTTAGCGGCGCTTTTACC
Found at i:23134892 original size:42 final size:43
Alignment explanation
Indices: 23134783--23134913 Score: 140
Period size: 42 Copynumber: 3.1 Consensus size: 43
23134773 GACCAAGACT
* * * * * * *
23134783 TTTAGCGACGCTTTTATCACAAACGCCGCTATAGACCATGACC
1 TTTAGCGGCGCTTCTAGCAAAAACGCCGCTAAAGAACATAACC
* * *
23134826 TTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACA-AACC
1 TTTAGCGGCGCTTCTAGCAAAAACGCCGCTAAAGAACATAACC
* *
23134868 TTTAGTGGCGCTTCTAGCAAAAACGCCGCTAAA-AACATAATC
1 TTTAGCGGCGCTTCTAGCAAAAACGCCGCTAAAGAACATAACC
23134910 TTTA
1 TTTA
23134914 AAAAAGTTTA
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
41 4 0.05
42 39 0.50
43 35 0.45
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (43 bp):
TTTAGCGGCGCTTCTAGCAAAAACGCCGCTAAAGAACATAACC
Found at i:23138481 original size:24 final size:24
Alignment explanation
Indices: 23138454--23138501 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
23138444 AACGACGCCG
*
23138454 TTTTGTTATGCTAAATATT-TTTTA
1 TTTTG-TATGCTAAAAATTATTTTA
*
23138478 TTTTGTCTGCTAAAAATTATTTTA
1 TTTTGTATGCTAAAAATTATTTTA
23138502 AAGTAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.27, C:0.06, G:0.08, T:0.58
Consensus pattern (24 bp):
TTTTGTATGCTAAAAATTATTTTA
Found at i:23139105 original size:31 final size:31
Alignment explanation
Indices: 23139067--23139131 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
23139057 TAATACCTTT
23139067 CTAGCTTTACAAACCTTAAACCCCATAACCC
1 CTAGCTTTACAAACCTTAAACCCCATAACCC
23139098 CTAGCTTTACAAACCTTAAACCCCATAACCC
1 CTAGCTTTACAAACCTTAAACCCCATAACCC
23139129 CTA
1 CTA
23139132 AACCTTAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.35, C:0.38, G:0.03, T:0.23
Consensus pattern (31 bp):
CTAGCTTTACAAACCTTAAACCCCATAACCC
Found at i:23139153 original size:14 final size:15
Alignment explanation
Indices: 23139124--23139156 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
23139114 TAAACCCCAT
23139124 AACCCCTAAACCTTA
1 AACCCCTAAACCTTA
*
23139139 AACCCC-AACCCTTA
1 AACCCCTAAACCTTA
23139153 AACC
1 AACC
23139157 ATAAACCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.39, C:0.45, G:0.00, T:0.15
Consensus pattern (15 bp):
AACCCCTAAACCTTA
Found at i:23139154 original size:21 final size:22
Alignment explanation
Indices: 23139108--23139163 Score: 78
Period size: 21 Copynumber: 2.5 Consensus size: 22
23139098 CTAGCTTTAC
23139108 AAACCTTAAACCCCATAACCCCT
1 AAACCTTAAACCCCA-AACCCCT
*
23139131 AAACCTTAAACCCC-AACCCTT
1 AAACCTTAAACCCCAAACCCCT
*
23139152 AAACCATAAACC
1 AAACCTTAAACC
23139164 ATAATCCCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 17 0.55
23 14 0.45
ACGTcount: A:0.43, C:0.41, G:0.00, T:0.16
Consensus pattern (22 bp):
AAACCTTAAACCCCAAACCCCT
Found at i:23139860 original size:14 final size:14
Alignment explanation
Indices: 23139841--23139870 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23139831 AATAGTAACT
23139841 CCCTAAACCTTAAA
1 CCCTAAACCTTAAA
*
23139855 CCCTAACCCTTAAA
1 CCCTAAACCTTAAA
23139869 CC
1 CC
23139871 ACATAATCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.43, G:0.00, T:0.20
Consensus pattern (14 bp):
CCCTAAACCTTAAA
Found at i:23139906 original size:15 final size:15
Alignment explanation
Indices: 23139865--23139913 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
23139855 CCCTAACCCT
*
23139865 TAAACCACATAATCCA
1 TAAA-CACATAATCCC
*
23139881 TAATC-CATAATCCC
1 TAAACACATAATCCC
23139895 TAAACACATAATCCC
1 TAAACACATAATCCC
23139910 TAAA
1 TAAA
23139914 TTACCTTAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 12 0.41
15 14 0.48
16 3 0.10
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (15 bp):
TAAACACATAATCCC
Found at i:23140591 original size:41 final size:41
Alignment explanation
Indices: 23140541--23140737 Score: 304
Period size: 41 Copynumber: 4.8 Consensus size: 41
23140531 TATGATAAAT
*
23140541 CTGAGCATTAGCGACGCTTCTTCAAAAACGCCGCTAAATCC
1 CTGAGCATTAGCGACGCTTCTTCAAAAACGCCGCTAAAGCC
23140582 CTGAGCATTAGCGACGCTTCTTCAAAAACGCCGCTAAAGCC
1 CTGAGCATTAGCGACGCTTCTTCAAAAACGCCGCTAAAGCC
* *
23140623 CTGATCATTAACGACGCTTCTTCAAAAACGCCGCTAAAGCC
1 CTGAGCATTAGCGACGCTTCTTCAAAAACGCCGCTAAAGCC
* * *
23140664 CTGAGCATTAGCGGCGCTTATTTAAAAACGCCGCTAAAGCC
1 CTGAGCATTAGCGACGCTTCTTCAAAAACGCCGCTAAAGCC
* * * *
23140705 CTCAGCATTAGCGGCGCTTTTTCAAAAATGCCG
1 CTGAGCATTAGCGACGCTTCTTCAAAAACGCCG
23140738 TTAATGCCTC
Statistics
Matches: 144, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 144 1.00
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (41 bp):
CTGAGCATTAGCGACGCTTCTTCAAAAACGCCGCTAAAGCC
Found at i:23140847 original size:39 final size:39
Alignment explanation
Indices: 23140800--23140917 Score: 141
Period size: 40 Copynumber: 3.0 Consensus size: 39
23140790 CGCTTTTTGG
*
23140800 AAAA-CGCCGCTAATGCTCATTTTTAGAGGCGTTTTTTA
1 AAAAGCGCCGCTAATGCTCATTTTTAGAGGCATTTTTTA
* * * *
23140838 AAAAGCGCCGCTAATACTCAATATTTAGTGGCATTTTTTT
1 AAAAGCGCCGCTAATGCTC-ATTTTTAGAGGCATTTTTTA
*
23140878 AAAAGCGCCGCTAATGCTTGATTTTTA-ACGGCATTTTTTA
1 AAAAGCGCCGCTAATGC-TCATTTTTAGA-GGCATTTTTTA
23140918 TCCAAACGCC
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
38 4 0.06
39 13 0.20
40 48 0.73
41 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.37
Consensus pattern (39 bp):
AAAAGCGCCGCTAATGCTCATTTTTAGAGGCATTTTTTA
Found at i:23141967 original size:23 final size:24
Alignment explanation
Indices: 23141940--23141986 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
23141930 TATTAAACTT
*
23141940 AAATATATTGTAAATCAT-TTAAA
1 AAATATATTGTAAACCATATTAAA
23141963 AAATATATTGTAAACCATATTAAA
1 AAATATATTGTAAACCATATTAAA
23141987 CTTTTTTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.36
Consensus pattern (24 bp):
AAATATATTGTAAACCATATTAAA
Found at i:23142417 original size:31 final size:31
Alignment explanation
Indices: 23142379--23142443 Score: 121
Period size: 31 Copynumber: 2.1 Consensus size: 31
23142369 ACATGGATGT
*
23142379 CAAAGTCATTTCAATATAAGATTGATTTAAA
1 CAAAGTCATTTCAATATAAGATTGATTGAAA
23142410 CAAAGTCATTTCAATATAAGATTGATTGAAA
1 CAAAGTCATTTCAATATAAGATTGATTGAAA
23142441 CAA
1 CAA
23142444 CTTTAACCAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (31 bp):
CAAAGTCATTTCAATATAAGATTGATTGAAA
Found at i:23143917 original size:15 final size:15
Alignment explanation
Indices: 23143894--23143937 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
23143884 AAATTTAAGA
23143894 ACAGGTAAATGAAAG
1 ACAGGTAAATGAAAG
* *
23143909 ACAGTTAAA--CAAG
1 ACAGGTAAATGAAAG
23143922 ACAGGTAAATGAAAG
1 ACAGGTAAATGAAAG
23143937 A
1 A
23143938 AACAAAACAG
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
13 11 0.48
15 12 0.52
ACGTcount: A:0.55, C:0.09, G:0.23, T:0.14
Consensus pattern (15 bp):
ACAGGTAAATGAAAG
Found at i:23147271 original size:17 final size:18
Alignment explanation
Indices: 23147239--23147272 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
23147229 ACACAACAAC
23147239 AACATATTTCAAAAATTT
1 AACATATTTCAAAAATTT
*
23147257 AACAT-TTTCACAAATT
1 AACATATTTCAAAAATT
23147273 GGTAAATGGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (18 bp):
AACATATTTCAAAAATTT
Found at i:23154080 original size:737 final size:737
Alignment explanation
Indices: 23152660--23154132 Score: 2545
Period size: 737 Copynumber: 2.0 Consensus size: 737
23152650 AATTTTGTGC
* * * *
23152660 ATTTATAGGTAAATAGACGGATGGTTAGAATGAGAAATTCATATTCTAGAATACTTGATACAGAA
1 ATTTATAGGTAAATAGACGGATGGTCAGAATGAGAAATTCAGATTCTAGAAGACTTGATACAAAA
23152725 ATATATCTATCAGGTCAGTTCTAATCGGAAAATGTTATTATAGGTTAAAGTCATCCCAATTGTTA
66 ATATATCTATCAGGTCAGTTCTAATCGGAAAATGTTATTATAGGTTAAAGTCATCCCAATTGTTA
*
23152790 AAGTTATCGCAGTTGTGTAAAATGATATTGTTTGACGCTTTCCTGGAAAAAGGGGAACAAATATC
131 AAGTTATCGCAGTTGTGTAAAATGATATTGCTTGACGCTTTCCTGGAAAAAGGGGAACAAATATC
*
23152855 AGTTGAAAGTTACAGATGCAACCATGTCAGAAACATCAGTTAGAGTTTGATAATCCGAGTTTCTC
196 AGTTGAAAGTTACAGATGCAACCATGTCAGAAACATCAGTCAGAGTTTGATAATCCGAGTTTCTC
*
23152920 AATTATATTTCGACAGACGATTACTGGGAATTTCTCGGTAGTTATACTACTAGTGATAAAGTGAT
261 AATTATATTTCAACAGACGATTACTGGGAATTTCTCGGTAGTTATACTACTAGTGATAAAGTGAT
**
23152985 GACAGGAGAACATCAGAGCTACTTAGTTAAGTTCAGGTCTAGTATCAAGTTCTAAAATAAGTTTT
326 GACAGGAGAACATCAGAGCTACTTAGTTAAGTTCAGGTCTAGTATCAAGTTCTAAAATAAGTACT
* *
23153050 GATATGAGTTCGGAAATGATATGAGTTATGATTGATTTTTATAGACTTCGATTGAAAAGGTGGAA
391 GATATGAGTTCGGAAATGATATGAGTTATGATTGATTTTTATAGACTTCAATTAAAAAGGTGGAA
* *
23153115 GGAACAATTGACTTAATAGCTTGTACCAAGTAAGAAATTTCGATGACAAAATTTTTGTAAGGGGG
456 GGAACAATTGACTTAATAGCTTGTACCAAGTAAGAAATTTCGAGGACAAAATTTTTGTAAGGGAG
23153180 AAGAGTTGTAACATCCCGTTTTTTTAGTGGTATCAGAAACAGTGGTTTCGGGGCCACCAAATCTG
521 AAGAGTTGTAACATCCCGTTTTTTTAGTGGTATCAGAAACAGTGGTTTCGGGGCCACCAAATCTG
23153245 ACGAGTAAGTTCATAAATATTATTATTTAATATTTACGAGTCAAAACTGATTTTAAAAAAGATTT
586 ACGAGTAAGTTCATAAATATTATTATTTAATATTTACGAGTCAAAACTGATTTTAAAAAAGATTT
* * *
23153310 TTGATTTGATAATTTATGTTATATAAGTGATTTATTAAGTTCAAGTGATTTTAGAAAATAAGGTA
651 TTGATTTGATAATTTATGTTATATAAATGATTTATTAAGTTCAAGTGATTTTAAAAAATAAAGTA
*
23153375 TCGAGACCTTGTTTTTATAAAT
716 TCGAGACATTGTTTTTATAAAT
*
23153397 ATTTATGGGTAAATAGACGGA-GAGTCAGAATGAGAAATTCAGATTCTAGAAGACTTGATACAAA
1 ATTTATAGGTAAATAGACGGATG-GTCAGAATGAGAAATTCAGATTCTAGAAGACTTGATACAAA
* * * ** *
23153461 AATATATCTATCAGGTTAGTTCTAATCGGGAAATGTTATTATGGGTTAAAGTTGTCCCGATTGTT
65 AATATATCTATCAGGTCAGTTCTAATCGGAAAATGTTATTATAGGTTAAAGTCATCCCAATTGTT
* *
23153526 GAAGTTATCGCAGTTGTGTAAAATGATATTGCTTGACGCTTTCTTGGAAAAAGGGGAACAAATAT
130 AAAGTTATCGCAGTTGTGTAAAATGATATTGCTTGACGCTTTCCTGGAAAAAGGGGAACAAATAT
*
23153591 CAGTTGAAAGTTACAGATGCAACCACT-TCAGAAACATCAGTCAGAGTTTGATAATCTGAGTTTC
195 CAGTTGAAAGTTACAGATGCAACCA-TGTCAGAAACATCAGTCAGAGTTTGATAATCCGAGTTTC
* * *
23153655 TCGATTATGTTTCAACAGATGATTACTGGGAATTTCTCGGTAGTTATACTACTAGTGATAAAGTG
259 TCAATTATATTTCAACAGACGATTACTGGGAATTTCTCGGTAGTTATACTACTAGTGATAAAGTG
*
23153720 ATGACAGGAGAACATCAGAGCTACTTAGTTAAGTTCAGGTCTAGTATCAAGTTCTAAAATGAGTA
324 ATGACAGGAGAACATCAGAGCTACTTAGTTAAGTTCAGGTCTAGTATCAAGTTCTAAAATAAGTA
*
23153785 CTGATATGAGTTCGGAAATGATATGAGTTATGATTGATTTTTATGGACTTCAATTAAAAAGGTGG
389 CTGATATGAGTTCGGAAATGATATGAGTTATGATTGATTTTTATAGACTTCAATTAAAAAGGTGG
* *
23153850 AAGGAACACTTGACTTAATAGCTTGTACCAAGTAAGAAATTTCGAGGACGAAATTTTTGTAAGGG
454 AAGGAACAATTGACTTAATAGCTTGTACCAAGTAAGAAATTTCGAGGACAAAATTTTTGTAAGGG
* *
23153915 AGAAGAGTTGTAACATCCCGTTTTTTTAGTGGTGTCAGAAACAGTGGTTTCGGGGCCACTAAATC
519 AGAAGAGTTGTAACATCCCGTTTTTTTAGTGGTATCAGAAACAGTGGTTTCGGGGCCACCAAATC
* * *
23153980 TGACGAGTAAGTTCGTAAATATTATTATTTAATATTTACGAGTCAAAAGTGATTTTTAAAAAGAT
584 TGACGAGTAAGTTCATAAATATTATTATTTAATATTTACGAGTCAAAACTGATTTTAAAAAAGAT
*
23154045 TTTTGATTTGATAATTTATGTTATATAAATGATTTATTAAGTTCAAGTGGTTTTAAAAAATAAAG
649 TTTTGATTTGATAATTTATGTTATATAAATGATTTATTAAGTTCAAGTGATTTTAAAAAATAAAG
*
23154110 TATCGGGACATTGTTTTTATAAA
714 TATCGAGACATTGTTTTTATAAA
23154133 CTGAGCCGTA
Statistics
Matches: 693, Mismatches: 41, Indels: 4
0.94 0.06 0.01
Matches are distributed among these distances:
736 1 0.00
737 691 1.00
738 1 0.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.34
Consensus pattern (737 bp):
ATTTATAGGTAAATAGACGGATGGTCAGAATGAGAAATTCAGATTCTAGAAGACTTGATACAAAA
ATATATCTATCAGGTCAGTTCTAATCGGAAAATGTTATTATAGGTTAAAGTCATCCCAATTGTTA
AAGTTATCGCAGTTGTGTAAAATGATATTGCTTGACGCTTTCCTGGAAAAAGGGGAACAAATATC
AGTTGAAAGTTACAGATGCAACCATGTCAGAAACATCAGTCAGAGTTTGATAATCCGAGTTTCTC
AATTATATTTCAACAGACGATTACTGGGAATTTCTCGGTAGTTATACTACTAGTGATAAAGTGAT
GACAGGAGAACATCAGAGCTACTTAGTTAAGTTCAGGTCTAGTATCAAGTTCTAAAATAAGTACT
GATATGAGTTCGGAAATGATATGAGTTATGATTGATTTTTATAGACTTCAATTAAAAAGGTGGAA
GGAACAATTGACTTAATAGCTTGTACCAAGTAAGAAATTTCGAGGACAAAATTTTTGTAAGGGAG
AAGAGTTGTAACATCCCGTTTTTTTAGTGGTATCAGAAACAGTGGTTTCGGGGCCACCAAATCTG
ACGAGTAAGTTCATAAATATTATTATTTAATATTTACGAGTCAAAACTGATTTTAAAAAAGATTT
TTGATTTGATAATTTATGTTATATAAATGATTTATTAAGTTCAAGTGATTTTAAAAAATAAAGTA
TCGAGACATTGTTTTTATAAAT
Found at i:23154550 original size:5 final size:5
Alignment explanation
Indices: 23154540--23154566 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
23154530 TTTAAGCATA
23154540 TATAT TATAT TATAT TATAT TATAT TA
1 TATAT TATAT TATAT TATAT TATAT TA
23154567 AAAAATAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:23159956 original size:12 final size:12
Alignment explanation
Indices: 23159939--23159965 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
23159929 TTCGACATAA
23159939 CTTCGTGTTTCT
1 CTTCGTGTTTCT
23159951 CTTCGTGTTTCT
1 CTTCGTGTTTCT
23159963 CTT
1 CTT
23159966 TTATATCTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.26, G:0.15, T:0.59
Consensus pattern (12 bp):
CTTCGTGTTTCT
Found at i:23160046 original size:22 final size:22
Alignment explanation
Indices: 23160021--23160064 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
23160011 TTAAAATTTT
23160021 GTGATAAGCATAAAGCAAAACA
1 GTGATAAGCATAAAGCAAAACA
23160043 GTGATAAGCATAAAGCAAAACA
1 GTGATAAGCATAAAGCAAAACA
23160065 AAGTAAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.14, G:0.18, T:0.14
Consensus pattern (22 bp):
GTGATAAGCATAAAGCAAAACA
Found at i:23168404 original size:52 final size:52
Alignment explanation
Indices: 23168286--23168386 Score: 184
Period size: 52 Copynumber: 1.9 Consensus size: 52
23168276 AAAACAAAGC
*
23168286 TTACATATATTGATTGAAAAATAAATTATGTTTAACATATGACAATATTAGA
1 TTACATATATTAATTGAAAAATAAATTATGTTTAACATATGACAATATTAGA
*
23168338 TTACATATATTAATTGAAAAATAAATTATGTTTAACTTATGACAATATT
1 TTACATATATTAATTGAAAAATAAATTATGTTTAACATATGACAATATT
23168387 GTAATTTATA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.41
Consensus pattern (52 bp):
TTACATATATTAATTGAAAAATAAATTATGTTTAACATATGACAATATTAGA
Found at i:23168614 original size:13 final size:13
Alignment explanation
Indices: 23168596--23168628 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
23168586 CTCTCTAATA
23168596 GTAGTCCTATTTG
1 GTAGTCCTATTTG
23168609 GTAGTCCTATTTG
1 GTAGTCCTATTTG
23168622 GTAGTCC
1 GTAGTCC
23168629 AAATGAGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.15, C:0.18, G:0.24, T:0.42
Consensus pattern (13 bp):
GTAGTCCTATTTG
Found at i:23170390 original size:12 final size:12
Alignment explanation
Indices: 23170376--23170419 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
23170366 TAAATTTTAT
* *
23170376 TATTATTCCTAT
1 TATTATTACTAC
23170388 TATTATTACTAC
1 TATTATTACTAC
23170400 TATTATTACTAC
1 TATTATTACTAC
23170412 TATTATTA
1 TATTATTA
23170420 TAGATGTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.32, C:0.14, G:0.00, T:0.55
Consensus pattern (12 bp):
TATTATTACTAC
Found at i:23170392 original size:15 final size:15
Alignment explanation
Indices: 23170372--23170420 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
23170362 TTTTTAAATT
* *
23170372 TTATTATTATTCCTA
1 TTATTATTACTACTA
23170387 TTATTATTACTACTA
1 TTATTATTACTACTA
* *
23170402 TTATTACTACTATTA
1 TTATTATTACTACTA
23170417 TTAT
1 TTAT
23170421 AGATGTTATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATTATTACTACTA
Found at i:23181968 original size:113 final size:113
Alignment explanation
Indices: 23181770--23182094 Score: 542
Period size: 113 Copynumber: 2.9 Consensus size: 113
23181760 CAATAAGCAA
* * *
23181770 TAGCGGCGTTTTTTAAAAAGCGCCGCAAAAAACCTAATCCAAAACAACGCAGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
*
23181835 GTGGATTTAGCAGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
66 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
*
23181883 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACATAATCCAAAACGACGCAGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
*
23181948 GTGGATTTAGCGGCATTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
66 GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
* *
23181996 TAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCCGTTTTGTGAGCTTT
1 TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
* * *
23182061 CGGGGATTTAGCGGCGTTTTTTAGAAAGCGCCGC
66 -GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGC
23182095 AAAAAACCTA
Statistics
Matches: 198, Mismatches: 13, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
113 169 0.85
114 29 0.15
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (113 bp):
TAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCAGTTTTGTGAGCTTT
GTGGATTTAGCGGCGTTTTTAAGGAAGCGCCGCTAATGCTCAGGGCTT
Found at i:23182113 original size:73 final size:73
Alignment explanation
Indices: 23181994--23182152 Score: 237
Period size: 73 Copynumber: 2.2 Consensus size: 73
23181984 TGCTCAGGGC
* * *
23181994 TTTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAACCTAATCCAAAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
23182059 TTCGGGGA
66 TTCGGGGA
* * * * *
23182067 TTTAGCGGCGTTTTTTAGAAAGCGCCGCAAAAAACCTAAGCCAAAACTACACCTTTTTTTGCGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
23182132 TTCGGGGA
66 TTCGGGGA
*
23182140 TTTAGCGGTGTTT
1 TTTAGCGGCGTTT
23182153 AATTGATTTA
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
73 77 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACACCGTTTTGTGAGCT
TTCGGGGA
Found at i:23182537 original size:17 final size:17
Alignment explanation
Indices: 23182506--23182549 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
23182496 TAGGGAGTAT
23182506 TTATGGATT--TAGGGA
1 TTATGGATTAATAGGGA
23182521 TTATGGATTAATAGGGA
1 TTATGGATTAATAGGGA
*
23182538 TTATGGTTTAAT
1 TTATGGATTAAT
23182550 TAAGGGTTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
15 9 0.35
17 17 0.65
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (17 bp):
TTATGGATTAATAGGGA
Found at i:23182860 original size:14 final size:15
Alignment explanation
Indices: 23182830--23182867 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
23182820 CTACTATATA
23182830 TATGGATTTAGGGAT
1 TATGGATTTAGGGAT
*
23182845 TATGGA-TTAGGTAT
1 TATGGATTTAGGGAT
23182859 TATGG-TTTA
1 TATGGATTTA
23182868 ATTAAGGGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (15 bp):
TATGGATTTAGGGAT
Found at i:23182942 original size:14 final size:14
Alignment explanation
Indices: 23182897--23182945 Score: 64
Period size: 14 Copynumber: 3.4 Consensus size: 14
23182887 GATTTAAGGT
23182897 TTAGGGGTTAAGAG
1 TTAGGGGTTAAGAG
23182911 TTTAGGGGTT-AGACG
1 -TTAGGGGTTAAGA-G
*
23182926 TTAGTGGTTAAGAG
1 TTAGGGGTTAAGAG
23182940 TTAGGG
1 TTAGGG
23182946 ATTTAGGGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
14 17 0.57
15 13 0.43
ACGTcount: A:0.24, C:0.02, G:0.41, T:0.33
Consensus pattern (14 bp):
TTAGGGGTTAAGAG
Found at i:23182958 original size:29 final size:30
Alignment explanation
Indices: 23182887--23182958 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 30
23182877 CGTTGGTCGA
*
23182887 GATTTAAGGTTTAGGGGTTAAGAGTTTAGG
1 GATTTAGGGTTTAGGGGTTAAGAGTTTAGG
* * *
23182917 G-GTTAGACG-TTAGTGGTTAAGAG-TTAGG
1 GATTTAG-GGTTTAGGGGTTAAGAGTTTAGG
23182945 GATTTAGGGTTTAG
1 GATTTAGGGTTTAG
23182959 AGTTTTAGGG
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
28 7 0.21
29 24 0.73
30 2 0.06
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (30 bp):
GATTTAGGGTTTAGGGGTTAAGAGTTTAGG
Found at i:23183429 original size:47 final size:46
Alignment explanation
Indices: 23183364--23183464 Score: 157
Period size: 47 Copynumber: 2.2 Consensus size: 46
23183354 AATAATGAAA
* *
23183364 TAAAAACACTAAACTTTTAATTTTATCTAATTTTTATAAATATTACT
1 TAAAAA-ACTAAACTTTTAAATTTATCTAATTTTTATAAATATAACT
*
23183411 TAAAAAACTAAAATTTTTAAATTTATCTAATTTTTATAAATATAACT
1 TAAAAAACT-AAACTTTTAAATTTATCTAATTTTTATAAATATAACT
23183458 TAAAAAA
1 TAAAAAA
23183465 ACCTATGTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
46 3 0.06
47 47 0.94
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (46 bp):
TAAAAAACTAAACTTTTAAATTTATCTAATTTTTATAAATATAACT
Found at i:23186598 original size:14 final size:14
Alignment explanation
Indices: 23186579--23186608 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
23186569 ACATAAAGCA
23186579 ACTAACCTTTTCCC
1 ACTAACCTTTTCCC
23186593 ACTAACCTTTTCCC
1 ACTAACCTTTTCCC
23186607 AC
1 AC
23186609 ACCTAATCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.43, G:0.00, T:0.33
Consensus pattern (14 bp):
ACTAACCTTTTCCC
Found at i:23187793 original size:15 final size:15
Alignment explanation
Indices: 23187773--23187802 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23187763 GAGTTGAAAG
23187773 TGAAGAAGAAGATGA
1 TGAAGAAGAAGATGA
*
23187788 TGAAGATGAAGATGA
1 TGAAGAAGAAGATGA
23187803 AGATGATCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.33, T:0.17
Consensus pattern (15 bp):
TGAAGAAGAAGATGA
Found at i:23188060 original size:16 final size:16
Alignment explanation
Indices: 23188036--23188069 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
23188026 TAATACTAAT
*
23188036 TAATTTTTTATATTAA
1 TAATGTTTTATATTAA
*
23188052 TAATGTTTTATTTTAA
1 TAATGTTTTATATTAA
23188068 TA
1 TA
23188070 TTTAATATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TAATGTTTTATATTAA
Found at i:23188303 original size:43 final size:43
Alignment explanation
Indices: 23188141--23188324 Score: 172
Period size: 43 Copynumber: 4.3 Consensus size: 43
23188131 ATGGTGTTTT
* ** * * * * *
23188141 TAGCGGCGTTTGTAATCAAAGCGTCGCTAAAGGTCTTTGATCTA
1 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATC-CTAAGCTA
* * * * * *
23188185 TAGTGGCGTTTG-TGGTAAAAGCGTCGCTAAAGGTCTTGAGCTA
1 TAGCGGCGTTTGTTAG-AAAAGCGCCGCTAAAGATCCTAAGCTA
* * * *
23188228 TAGTGGCGTTTGTTAAAAAAGTGCCGCTAAAGATCCCAAGCTA
1 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCCTAAGCTA
*
23188271 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCCTAATCTA
1 TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCCTAAGCTA
23188314 TAGCGGCGTTT
1 TAGCGGCGTTT
23188325 ATTTCTAAAA
Statistics
Matches: 119, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
43 89 0.75
44 30 0.25
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (43 bp):
TAGCGGCGTTTGTTAGAAAAGCGCCGCTAAAGATCCTAAGCTA
Found at i:23188920 original size:39 final size:39
Alignment explanation
Indices: 23188844--23188920 Score: 127
Period size: 39 Copynumber: 2.0 Consensus size: 39
23188834 TCAGTATCAA
*
23188844 AGTTTATATATTCCATATATCATAATATTAACCAATTTG
1 AGTTTATATATTCCATATATCATAATATTAACAAATTTG
* *
23188883 AGTTTATATATTTCATATATCATAATATTAATAAATTT
1 AGTTTATATATTCCATATATCATAATATTAACAAATTT
23188921 AAATATCATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.40, C:0.09, G:0.04, T:0.47
Consensus pattern (39 bp):
AGTTTATATATTCCATATATCATAATATTAACAAATTTG
Found at i:23196979 original size:20 final size:18
Alignment explanation
Indices: 23196940--23196975 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
23196930 TTTATTAATT
23196940 TTTTCGGTTAACCGAAAA
1 TTTTCGGTTAACCGAAAA
23196958 TTTTCGGTTAACCGAAAA
1 TTTTCGGTTAACCGAAAA
23196976 AATTAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (18 bp):
TTTTCGGTTAACCGAAAA
Found at i:23197201 original size:9 final size:9
Alignment explanation
Indices: 23197185--23197263 Score: 122
Period size: 9 Copynumber: 8.8 Consensus size: 9
23197175 GGTATTTTTC
23197185 GGTAATTCG
1 GGTAATTCG
*
23197194 GTTAATTCG
1 GGTAATTCG
*
23197203 GTTAATTCG
1 GGTAATTCG
* *
23197212 GTTAATTCA
1 GGTAATTCG
23197221 GGTAATTCG
1 GGTAATTCG
23197230 GGTAATTCG
1 GGTAATTCG
23197239 GGTAATTCG
1 GGTAATTCG
23197248 GGTAATTCG
1 GGTAATTCG
23197257 GGTAATT
1 GGTAATT
23197264 TCTAACCAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 66 1.00
ACGTcount: A:0.24, C:0.10, G:0.28, T:0.38
Consensus pattern (9 bp):
GGTAATTCG
Found at i:23197441 original size:12 final size:12
Alignment explanation
Indices: 23197424--23197448 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23197414 AGTAATTTCG
23197424 GGTCGGTTAACC
1 GGTCGGTTAACC
23197436 GGTCGGTTAACC
1 GGTCGGTTAACC
23197448 G
1 G
23197449 AATGAACACC
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:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:23199095 original size:28 final size:27
Alignment explanation
Indices: 23199064--23199130 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
23199054 TCGGCTGGCC
*
23199064 TAAGACACATTAAAAATTTGTATTAAAT
1 TAAGACACATTAAAAATATGTATT-AAT
*
23199092 TAAGACA-ACTT-AATATATGTATTAAT
1 TAAGACACA-TTAAAAATATGTATTAAT
23199118 TACAG-CACATTAA
1 TA-AGACACATTAA
23199131 TACTTGAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
26 9 0.27
27 15 0.45
28 9 0.27
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.34
Consensus pattern (27 bp):
TAAGACACATTAAAAATATGTATTAAT
Found at i:23199700 original size:34 final size:34
Alignment explanation
Indices: 23199635--23199704 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
23199625 AAGTCGTCCC
* **
23199635 AACAATGTCAACTCTAGGATTGGTCTTTACCTTT
1 AACAATGTCAACTCTAGGATTCGTCCCTACCTTT
23199669 AACAATGTCAACTCT-GGAATTCGTCCCTACCTTT
1 AACAATGTCAACTCTAGG-ATTCGTCCCTACCTTT
23199703 AA
1 AA
23199705 AATTATTTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 2 0.06
34 30 0.94
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.34
Consensus pattern (34 bp):
AACAATGTCAACTCTAGGATTCGTCCCTACCTTT
Found at i:23207980 original size:6 final size:6
Alignment explanation
Indices: 23207969--23207995 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
23207959 AAACAGCTAA
23207969 AAAACC AAAACC AAAACC AAAACC AAA
1 AAAACC AAAACC AAAACC AAAACC AAA
23207996 CTAAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.30, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACC
Found at i:23212643 original size:6 final size:6
Alignment explanation
Indices: 23212632--23212658 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
23212622 AAACAGCTAA
23212632 AAAACC AAAACC AAAACC AAAACC AAA
1 AAAACC AAAACC AAAACC AAAACC AAA
23212659 CTAAAAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.30, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAACC
Found at i:23223851 original size:44 final size:44
Alignment explanation
Indices: 23223801--23223892 Score: 148
Period size: 44 Copynumber: 2.1 Consensus size: 44
23223791 TTTAAAACCT
* *
23223801 CACAAGCTATGCATTAAATGAAACACTTAGTATTATATGCGGCA
1 CACAAGCTATGCATTAAATGAAACACCTAATATTATATGCGGCA
* *
23223845 CACAAGCTATGTATTAAATGGAACACCTAATATTATATGCGGCA
1 CACAAGCTATGCATTAAATGAAACACCTAATATTATATGCGGCA
23223889 CACA
1 CACA
23223893 TTTATATTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (44 bp):
CACAAGCTATGCATTAAATGAAACACCTAATATTATATGCGGCA
Found at i:23223922 original size:21 final size:22
Alignment explanation
Indices: 23223896--23223937 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
23223886 GCACACATTT
*
23223896 ATATTATATGAC-ATGAAAAAA
1 ATATTATATGACTATCAAAAAA
23223917 ATATTATATGACTATCAAAAA
1 ATATTATATGACTATCAAAAA
23223938 TTTTAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (22 bp):
ATATTATATGACTATCAAAAAA
Found at i:23233448 original size:58 final size:59
Alignment explanation
Indices: 23233351--23233474 Score: 214
Period size: 58 Copynumber: 2.1 Consensus size: 59
23233341 TGTTTTGAGC
23233351 TAATATTTATAGTTTCCATGTATTATGACCTAATTAGGTCGATTATAAACTGGGTTACAAGT
1 TAATATTTATAGTTTCC---TATTATGACCTAATTAGGTCGATTATAAACTGGGTTACAAGT
23233413 TAATATTTATAGTTTCC-ATTATGACCTAATTAGGTCGATTATAAACTGGGTTACAAGT
1 TAATATTTATAGTTTCCTATTATGACCTAATTAGGTCGATTATAAACTGGGTTACAAGT
23233471 TAAT
1 TAAT
23233475 TAAGGTTGTG
Statistics
Matches: 62, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
58 45 0.73
62 17 0.27
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.40
Consensus pattern (59 bp):
TAATATTTATAGTTTCCTATTATGACCTAATTAGGTCGATTATAAACTGGGTTACAAGT
Found at i:23235679 original size:18 final size:18
Alignment explanation
Indices: 23235636--23235679 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
23235626 GCTTTTATCT
*
23235636 CAAAAGTACTTTTTGTCC
1 CAAAAGTGCTTTTTGTCC
23235654 CAAAAGTGCTTTTTGTCC
1 CAAAAGTGCTTTTTGTCC
*
23235672 TAAAAGTG
1 CAAAAGTG
23235680 TTTCTTAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (18 bp):
CAAAAGTGCTTTTTGTCC
Found at i:23238070 original size:28 final size:27
Alignment explanation
Indices: 23238031--23238094 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 27
23238021 TACATCATTG
* *
23238031 AAAGTCAAACTCTTTGAGTTTGAAGTA
1 AAAGTAAAACTCTTTGACTTTGAAGTA
23238058 AAAGATAAAACTCTTTGACTTTGAAGTA
1 AAAG-TAAAACTCTTTGACTTTGAAGTA
23238086 AAAGTAAAA
1 AAAGTAAAA
23238095 TAGTTTCTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
27 9 0.26
28 25 0.74
ACGTcount: A:0.45, C:0.09, G:0.16, T:0.30
Consensus pattern (27 bp):
AAAGTAAAACTCTTTGACTTTGAAGTA
Found at i:23240600 original size:41 final size:41
Alignment explanation
Indices: 23240543--23240718 Score: 316
Period size: 41 Copynumber: 4.3 Consensus size: 41
23240533 AATTTAACAT
* *
23240543 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
* *
23240584 ATTCATATCACCGGCACTTAGCCTACTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
23240625 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
23240666 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
23240707 ATTCAGATCACC
1 ATTCAGATCACC
23240719 AATTTCAAAC
Statistics
Matches: 129, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 129 1.00
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
Found at i:23242181 original size:13 final size:13
Alignment explanation
Indices: 23242163--23242187 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23242153 CAATCAAATG
23242163 CACACAAAATAAA
1 CACACAAAATAAA
23242176 CACACAAAATAA
1 CACACAAAATAA
23242188 TATTAAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:23246529 original size:5 final size:5
Alignment explanation
Indices: 23246519--23246569 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
23246509 ATTGAAAAGT
* **
23246519 TTTAA TTTAA -TTAG TTTAA TTTTT TTATAA TTTAA TTTAA TTTTAA TTTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TT-TAA TTTAA TTTAA -TTTAA TTTAA
23246570 AAGTTTTACA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
4 3 0.08
5 26 0.70
6 8 0.22
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (5 bp):
TTTAA
Found at i:23246554 original size:16 final size:16
Alignment explanation
Indices: 23246519--23246569 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
23246509 ATTGAAAAGT
*
23246519 TTTAATTTAA--TTAG
1 TTTAATTTAATTTTAA
*
23246533 TTTAATTT-TTTTATAA
1 TTTAATTTAATTT-TAA
23246549 TTTAATTTAATTTTAA
1 TTTAATTTAATTTTAA
23246565 TTTAA
1 TTTAA
23246570 AAGTTTTACA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 8 0.27
15 1 0.03
16 18 0.60
17 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
TTTAATTTAATTTTAA
Found at i:23246813 original size:12 final size:12
Alignment explanation
Indices: 23246778--23246813 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
23246768 GTTTAAGAAC
*
23246778 AAGCTCGTTTAA
1 AAGCTCGTTTAT
*
23246790 AAGCTCATTTAT
1 AAGCTCGTTTAT
23246802 AAGCTCGTTTAT
1 AAGCTCGTTTAT
23246814 TGACTCTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.39
Consensus pattern (12 bp):
AAGCTCGTTTAT
Found at i:23252257 original size:21 final size:21
Alignment explanation
Indices: 23252231--23252274 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
23252221 GAGAGGGAAT
*
23252231 AAAAGAAACAAAG-AGAGAAGA
1 AAAAGAAA-AAAGAAGAAAAGA
*
23252252 AAAAGATAAAAGAAGAAAAGA
1 AAAAGAAAAAAGAAGAAAAGA
23252273 AA
1 AA
23252275 GATCATGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.75, C:0.02, G:0.20, T:0.02
Consensus pattern (21 bp):
AAAAGAAAAAAGAAGAAAAGA
Found at i:23252275 original size:19 final size:20
Alignment explanation
Indices: 23252240--23252277 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
23252230 TAAAAGAAAC
23252240 AAAGAGAGAAGAAAAAGATA
1 AAAGAGAGAAGAAAAAGATA
23252260 AAAGA-AGAA-AAGAAAGAT
1 AAAGAGAGAAGAA-AAAGAT
23252278 CATGATGTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 2 0.12
19 10 0.59
20 5 0.29
ACGTcount: A:0.71, C:0.00, G:0.24, T:0.05
Consensus pattern (20 bp):
AAAGAGAGAAGAAAAAGATA
Found at i:23254123 original size:11 final size:12
Alignment explanation
Indices: 23254102--23254173 Score: 57
Period size: 11 Copynumber: 6.2 Consensus size: 12
23254092 CTAACGAAGT
23254102 ATATAAATTTAA
1 ATATAAATTTAA
23254114 ATAT-AATTTAA
1 ATATAAATTTAA
* *
23254125 GAAATAAATATAA
1 -ATATAAATTTAA
23254138 TATATAAA--T--
1 -ATATAAATTTAA
23254147 ATATAAATATTAA
1 ATATAAAT-TTAA
23254160 A-ATAAATTTAA
1 ATATAAATTTAA
23254171 ATA
1 ATA
23254174 AATTAACAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 16
0.71 0.06 0.24
Matches are distributed among these distances:
8 7 0.15
11 14 0.29
12 14 0.29
13 13 0.27
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (12 bp):
ATATAAATTTAA
Found at i:23254184 original size:11 final size:10
Alignment explanation
Indices: 23254155--23254210 Score: 53
Period size: 10 Copynumber: 5.7 Consensus size: 10
23254145 ATATATAAAT
23254155 ATTAAAATAA
1 ATTAAAATAA
*
23254165 ATTTAAATAA
1 ATTAAAATAA
23254175 ATTAACAAT--
1 ATTAA-AATAA
*
23254184 ATTGAAATAA
1 ATTAAAATAA
* *
23254194 GTTCAAATAA
1 ATTAAAATAA
23254204 ATTAAAA
1 ATTAAAA
23254211 ATGTTAAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
8 3 0.08
9 4 0.11
10 26 0.72
11 3 0.08
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.32
Consensus pattern (10 bp):
ATTAAAATAA
Found at i:23254184 original size:29 final size:29
Alignment explanation
Indices: 23254141--23254221 Score: 99
Period size: 29 Copynumber: 2.8 Consensus size: 29
23254131 AATATAATAT
* *
23254141 ATAAATATATAAATATTAAAATAAATTTAA
1 ATAAAT-TAAAAATATTAAAATAAATTCAA
* * *
23254171 ATAAATTAACAATATTGAAATAAGTTCAA
1 ATAAATTAAAAATATTAAAATAAATTCAA
*
23254200 ATAAATTAAAAATGTTAAAATA
1 ATAAATTAAAAATATTAAAATA
23254222 TTTGAAAGAG
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 37 0.86
30 6 0.14
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (29 bp):
ATAAATTAAAAATATTAAAATAAATTCAA
Found at i:23254565 original size:3 final size:3
Alignment explanation
Indices: 23254557--23254626 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
23254547 TATATAAGCG
** * *
23254557 AAT AAT AAT -AT CAAT AAT AGC AAT AAT AGT AAT AAT ACT AAT AAT
1 AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
23254602 AAT GAA- AGT AAT AAT AAT AAT AAT A
1 AAT -AAT AAT AAT AAT AAT AAT AAT A
23254627 TCAAAATTAT
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
2 3 0.06
3 46 0.87
4 4 0.08
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:23261989 original size:17 final size:18
Alignment explanation
Indices: 23261964--23262009 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
23261954 TATAAGAATA
*
23261964 ATTATATTA-AGAATTTT
1 ATTAAATTATAGAATTTT
* *
23261981 ATTAAATTATATATTTTT
1 ATTAAATTATAGAATTTT
23261999 ATTAAATTATA
1 ATTAAATTATA
23262010 TTTAATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTAAATTATAGAATTTT
Found at i:23262005 original size:55 final size:54
Alignment explanation
Indices: 23261940--23262056 Score: 128
Period size: 55 Copynumber: 2.1 Consensus size: 54
23261930 TATATTATGA
* * * *
23261940 TTTTAGTAAATTCATA-TAAGAATAATTATATTAAGAATTTTATTAAATTATATAT
1 TTTTATTAAATT-ATATTAAGAATAATTATATTAA-AATATGATTAAAATATATAT
* * *
23261995 TTTTATTAAATTATATTTAATAATAATTATGTTAAAATATGATTAAAATATTTAT
1 TTTTATTAAATTATA-TTAAGAATAATTATATTAAAATATGATTAAAATATATAT
23262050 TATTTAT
1 T-TTTAT
23262057 ATTAATAATC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
54 3 0.06
55 28 0.54
56 21 0.40
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.50
Consensus pattern (54 bp):
TTTTATTAAATTATATTAAGAATAATTATATTAAAATATGATTAAAATATATAT
Found at i:23262258 original size:45 final size:44
Alignment explanation
Indices: 23262169--23262261 Score: 143
Period size: 44 Copynumber: 2.1 Consensus size: 44
23262159 ATTACAACAT
*
23262169 CATTCCATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
*
23262213 CATTCCATTCAACCAAACA-ATTGAATTACTATTACAGCTCTATTC
1 CATTCCATTCAACCAAACACA-AGAA-TACTATTACAGCTCTATTC
23262258 CATT
1 CATT
23262262 ACAGCGAATC
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.49
45 22 0.49
ACGTcount: A:0.37, C:0.27, G:0.04, T:0.32
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACAGCTCTATTC
Found at i:23262642 original size:16 final size:18
Alignment explanation
Indices: 23262617--23262654 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
23262607 ATTCTAAATT
23262617 ATAATGAAAAT-ATAA-A
1 ATAATGAAAATAATAATA
*
23262633 ATAATTAAAATAATAATA
1 ATAATGAAAATAATAATA
23262651 ATAA
1 ATAA
23262655 AGTACAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 10 0.53
17 4 0.21
18 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
ATAATGAAAATAATAATA
Found at i:23266355 original size:49 final size:49
Alignment explanation
Indices: 23266299--23266396 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
23266289 GATGATATTA
*
23266299 TAAAATATATATTGAGATAAGGTTGTGCTTTTTCTCAGCACAAGAGTGT
1 TAAAATATATATTGAGATAAGGTTGTGCTTTTTCCCAGCACAAGAGTGT
23266348 TAAAATATATATTGAGATAAGGTTGTGCTTTTTCCCAGCACAAGAGTGT
1 TAAAATATATATTGAGATAAGGTTGTGCTTTTTCCCAGCACAAGAGTGT
23266397 CGAATGAATT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (49 bp):
TAAAATATATATTGAGATAAGGTTGTGCTTTTTCCCAGCACAAGAGTGT
Found at i:23268633 original size:20 final size:20
Alignment explanation
Indices: 23268563--23268635 Score: 75
Period size: 19 Copynumber: 3.8 Consensus size: 20
23268553 ACAAAAATGA
23268563 AAAAAGTTTCAAAATATTTT
1 AAAAAGTTTCAAAATATTTT
23268583 AAAAAAGTTT--AAATAATTTT
1 -AAAAAGTTTCAAAAT-ATTTT
*
23268603 TAAAA--TTCAAAATATTTAT
1 AAAAAGTTTCAAAATATTT-T
23268622 AAAAA-TTTCAAAAT
1 AAAAAGTTTCAAAAT
23268636 TTATGTTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
17 2 0.04
18 4 0.09
19 17 0.38
20 13 0.29
21 9 0.20
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (20 bp):
AAAAAGTTTCAAAATATTTT
Found at i:23270600 original size:20 final size:20
Alignment explanation
Indices: 23270566--23270607 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
23270556 AACTATTTAA
** *
23270566 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
23270586 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
23270606 AT
1 AT
23270608 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:23277338 original size:23 final size:23
Alignment explanation
Indices: 23277292--23277408 Score: 132
Period size: 23 Copynumber: 5.1 Consensus size: 23
23277282 ATATATGCTA
*
23277292 ATATTGTTATCGAACT-ATTTTG
1 ATATTGTTACCGAACTGATTTTG
*
23277314 ATATTGTTACCGAATTGATTTTG
1 ATATTGTTACCGAACTGATTTTG
* **
23277337 ATACTACTACC-ATACTGATTTTG
1 ATATTGTTACCGA-ACTGATTTTG
* *
23277360 ATACTT-TTACCAAACTAATTTTG
1 ATA-TTGTTACCGAACTGATTTTG
23277383 ATATTGTTACCGAACTGATTTTG
1 ATATTGTTACCGAACTGATTTTG
23277406 ATA
1 ATA
23277409 CTGAAATGCA
Statistics
Matches: 79, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
22 17 0.22
23 60 0.76
24 2 0.03
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (23 bp):
ATATTGTTACCGAACTGATTTTG
Found at i:23278516 original size:14 final size:14
Alignment explanation
Indices: 23278497--23278523 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23278487 TTATCTAATA
23278497 ATTAATTCCAAATT
1 ATTAATTCCAAATT
23278511 ATTAATTCCAAAT
1 ATTAATTCCAAAT
23278524 ACATTATAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTAATTCCAAATT
Found at i:23281754 original size:57 final size:60
Alignment explanation
Indices: 23281653--23281811 Score: 193
Period size: 57 Copynumber: 2.6 Consensus size: 60
23281643 ATTTTCTAAC
* *
23281653 ATTATATATTATGATTTTTATT-AATTCATATTTTAATAATAATTATATTAAAA-ATTTATTAA
1 ATTAT-TATTATCATTTTTATTAAATT-ATA-TTTAATAATAATTATATTAAAATA-TGATTAA
* * *
23281715 ATTA-TA-TATTA-TTTTATTAAATTTTATTTAATAATAATTATGTTAAAATATGATTAA
1 ATTATTATTATCATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATGATTAA
23281772 ATTATTTATTATCATTTTTATTAAATTATATTTAATAATA
1 ATTA-TTATTATCATTTTTATTAAATTATATTTAATAATA
23281812 TTAATAATCA
Statistics
Matches: 85, Mismatches: 6, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
57 31 0.36
58 10 0.12
59 10 0.12
60 6 0.07
61 24 0.28
62 4 0.05
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (60 bp):
ATTATTATTATCATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATGATTAA
Found at i:23281942 original size:44 final size:46
Alignment explanation
Indices: 23281892--23281979 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 46
23281882 TACAACATCT
*
23281892 ATTCCATTAAACCAAAC-ACTAGAA-TA-TTATTACAGCTCTATTTC
1 ATTCCATTAAACCAAACAACT-GAATTACTGATTACAGCTCTATTTC
* *
23281936 ATTCCATTCAACCAAACAACTGAATTACTGGTTACAGCTCTATT
1 ATTCCATTAAACCAAACAACTGAATTACTGATTACAGCTCTATT
23281980 CCACTACATT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
44 19 0.50
45 5 0.13
46 14 0.37
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (46 bp):
ATTCCATTAAACCAAACAACTGAATTACTGATTACAGCTCTATTTC
Found at i:23282816 original size:47 final size:49
Alignment explanation
Indices: 23282758--23282858 Score: 125
Period size: 49 Copynumber: 2.1 Consensus size: 49
23282748 CTATAAATGA
* * * *
23282758 TTTATGGGTTACAAGATAATGAATTT-A-GGGGTTATGGACATTCATTT
1 TTTAAGGGTTACAAGAGAATAAATTTGAGGGGGTTATGGACATCCATTT
* *
23282805 TTTAAGGGTTACAATAGGATAAATTTGAGGGGGTTATGGACATCCATTT
1 TTTAAGGGTTACAAGAGAATAAATTTGAGGGGGTTATGGACATCCATTT
*
23282854 ATTAA
1 TTTAA
23282859 TGGATTTACA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
47 21 0.47
48 1 0.02
49 23 0.51
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.38
Consensus pattern (49 bp):
TTTAAGGGTTACAAGAGAATAAATTTGAGGGGGTTATGGACATCCATTT
Found at i:23289624 original size:20 final size:20
Alignment explanation
Indices: 23289596--23289651 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
23289586 AACTTTGACA
*
23289596 AATAGTTTTTTTTAATTTTT
1 AATAATTTTTTTTAATTTTT
* * *
23289616 AATACTTTTTTATACTTTTT
1 AATAATTTTTTTTAATTTTT
23289636 -ATAATTTTTTTTAATT
1 AATAATTTTTTTTAATT
23289652 ATATGGATTG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.68
Consensus pattern (20 bp):
AATAATTTTTTTTAATTTTT
Found at i:23289644 original size:10 final size:10
Alignment explanation
Indices: 23289601--23289651 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 10
23289591 TGACAAATAG
*
23289601 TTTTTTTTAA
1 TTTTTTATAA
* *
23289611 TTTTTAATAC
1 TTTTTTATAA
23289621 TTTTTTAT-A
1 TTTTTTATAA
*
23289630 CTTTTTATAA
1 TTTTTTATAA
*
23289640 TTTTTTTTAA
1 TTTTTTATAA
23289650 TT
1 TT
23289652 ATATGGATTG
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
9 7 0.22
10 25 0.78
ACGTcount: A:0.24, C:0.04, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:23289707 original size:25 final size:22
Alignment explanation
Indices: 23289674--23289734 Score: 79
Period size: 25 Copynumber: 2.6 Consensus size: 22
23289664 TTATACTTTA
23289674 AAATATATTTAAAATTATAAATTAT
1 AAATATATTTAAAATT-TAAA-T-T
23289699 AAATATATTTATAAATTTAAATT
1 AAATATATTTA-AAATTTAAATT
23289722 -AATATATTTAAAA
1 AAATATATTTAAAA
23289735 ATGAAAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
21 3 0.09
22 10 0.29
23 1 0.03
24 1 0.03
25 15 0.43
26 5 0.14
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
AAATATATTTAAAATTTAAATT
Found at i:23289742 original size:22 final size:22
Alignment explanation
Indices: 23289700--23289743 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
23289690 ATAAATTATA
* **
23289700 AATATATTTATAAATTTAAATT
1 AATATATTTAAAAATGAAAATT
23289722 AATATATTTAAAAATGAAAATT
1 AATATATTTAAAAATGAAAATT
23289744 TGGAGAATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
AATATATTTAAAAATGAAAATT
Found at i:23291017 original size:6 final size:6
Alignment explanation
Indices: 23291006--23291044 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
23290996 AAAAATGATA
23291006 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
23291045 TAAAAGTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:23291059 original size:10 final size:9
Alignment explanation
Indices: 23291034--23291134 Score: 62
Period size: 9 Copynumber: 10.7 Consensus size: 9
23291024 AAAAATAAAA
*
23291034 ATAAAAATAA
1 ATAAAAAT-T
*
23291044 ATAAAAGTT
1 ATAAAAATT
23291053 ATAAAAATT
1 ATAAAAATT
*
23291062 AT-TAAATT
1 ATAAAAATT
* *
23291070 CTAATAAAACT
1 AT-A-AAAATT
*
23291081 ATAAAAAAAT
1 AT-AAAAATT
23291091 ATTAAAAAATT
1 A-T-AAAAATT
23291102 ATAAAAATT
1 ATAAAAATT
*
23291111 ATAAAATCTT
1 ATAAAA-ATT
23291121 A-AAAAATT
1 ATAAAAATT
23291129 ATAAAA
1 ATAAAA
23291135 TATATAGAAA
Statistics
Matches: 73, Mismatches: 12, Indels: 13
0.74 0.12 0.13
Matches are distributed among these distances:
8 9 0.12
9 31 0.42
10 17 0.23
11 16 0.22
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.31
Consensus pattern (9 bp):
ATAAAAATT
Found at i:23291164 original size:8 final size:8
Alignment explanation
Indices: 23291044--23291166 Score: 53
Period size: 8 Copynumber: 15.0 Consensus size: 8
23291034 ATAAAAATAA
23291044 ATAAAAGTT
1 ATAAAA-TT
23291053 ATAAAAATT
1 AT-AAAATT
*
23291062 ATTAAATTCT
1 A-TAAAAT-T
*
23291072 AATAAAACT
1 -ATAAAATT
23291081 ATAAAA--
1 ATAAAATT
*
23291087 A-AATATT
1 ATAAAATT
*
23291094 AAAAAATT
1 ATAAAATT
23291102 ATAAAAATT
1 AT-AAAATT
23291111 ATAAAATCTT
1 ATAAAA--TT
*
23291121 AAAAAATT
1 ATAAAATT
23291129 ATAAAATAT
1 ATAAAAT-T
23291138 ATAGAAA-T
1 ATA-AAATT
*
23291146 ATAGAA--
1 ATAAAATT
23291152 A-AAAATT
1 ATAAAATT
23291159 ATAAAATT
1 ATAAAATT
23291167 TTATAAAGTC
Statistics
Matches: 89, Mismatches: 10, Indels: 31
0.68 0.08 0.24
Matches are distributed among these distances:
5 6 0.07
6 2 0.02
7 4 0.04
8 34 0.38
9 22 0.25
10 20 0.22
11 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (8 bp):
ATAAAATT
Found at i:23291164 original size:10 final size:10
Alignment explanation
Indices: 23291065--23291164 Score: 59
Period size: 10 Copynumber: 10.1 Consensus size: 10
23291055 AAAAATTATT
*
23291065 AAATTCTAATA
1 AAATTATAA-A
*
23291076 AAACTATAAA
1 AAATTATAAA
*
23291086 AAAATATTAAA
1 AAATTA-TAAA
23291097 AAATTAT-AA
1 AAATTATAAA
23291106 AAATTAT--A
1 AAATTATAAA
23291114 AAATCT-TAAA
1 AAAT-TATAAA
23291124 AAATTATAAA
1 AAATTATAAA
* *
23291134 ATA-TAT-AG
1 AAATTATAAA
*
23291142 AAATATAGAAAA
1 AAAT-TA-TAAA
23291154 AAATTATAAA
1 AAATTATAAA
23291164 A
1 A
23291165 TTTTATAAAG
Statistics
Matches: 70, Mismatches: 10, Indels: 19
0.71 0.10 0.19
Matches are distributed among these distances:
8 9 0.13
9 14 0.20
10 24 0.34
11 18 0.26
12 5 0.07
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (10 bp):
AAATTATAAA
Found at i:23291455 original size:19 final size:19
Alignment explanation
Indices: 23291412--23291465 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
23291402 TGCATTTGAT
23291412 TTTTTTATGA-TTTTTATAA
1 TTTTTTAT-ATTTTTTATAA
** *
23291431 AATTTTATTTTTTTTATAA
1 TTTTTTATATTTTTTATAA
*
23291450 TTTTTTCTATTTTTTA
1 TTTTTTATATTTTTTA
23291466 ATTTTTATTA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (19 bp):
TTTTTTATATTTTTTATAA
Found at i:23292135 original size:3 final size:3
Alignment explanation
Indices: 23292122--23292154 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
23292112 TTCCTCCCTA
23292122 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AA
23292155 ATTCTAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:23292340 original size:32 final size:33
Alignment explanation
Indices: 23292298--23292363 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 33
23292288 TCTCGACACA
* * *
23292298 TTAAATAATAATTATGTTGTTTT-AAGTTTTTT
1 TTAAATAATAAATATATTGTTTTCAAGTTGTTT
* *
23292330 TTAATTAATAAATATATTTTTTTCAAGTTGTTT
1 TTAAATAATAAATATATTGTTTTCAAGTTGTTT
23292363 T
1 T
23292364 ATTTTTAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 19 0.68
33 9 0.32
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.59
Consensus pattern (33 bp):
TTAAATAATAAATATATTGTTTTCAAGTTGTTT
Found at i:23292405 original size:22 final size:23
Alignment explanation
Indices: 23292377--23292430 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
23292367 TTTAATTCAT
23292377 CTTTTTATAAA-ATCAAATATTA
1 CTTTTTATAAACATCAAATATTA
* * *
23292399 CTTTTTAAAAACATCAACTATTT
1 CTTTTTATAAACATCAAATATTA
*
23292422 CTTTATATA
1 CTTTTTATA
23292431 TAATATTTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 10 0.38
23 16 0.62
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (23 bp):
CTTTTTATAAACATCAAATATTA
Found at i:23299127 original size:23 final size:23
Alignment explanation
Indices: 23299101--23299198 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
23299091 ATAAGTGCCA
23299101 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
23299124 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
23299147 CACTG-GATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
23299169 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
23299192 CACTGAT
1 CACTGAT
23299199 CAATAACACT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
22 21 0.30
23 50 0.70
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:23299166 original size:45 final size:45
Alignment explanation
Indices: 23299108--23299196 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
23299098 CCACACTGAT
*
23299108 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
23299153 ATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
23299197 ATCAATAACA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.30, C:0.27, G:0.24, T:0.19
Consensus pattern (45 bp):
ATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:23303733 original size:39 final size:39
Alignment explanation
Indices: 23303679--23303758 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
23303669 CAACATTAAG
*
23303679 TTGGCAGGGAAACACTGACCTTGTATCATCAAAGGACAA
1 TTGGCAGGGAAACACTGACCTTGTATAATCAAAGGACAA
23303718 TTGGCAGGGAAACACTGACCTTGTATAATCAAAGGACAA
1 TTGGCAGGGAAACACTGACCTTGTATAATCAAAGGACAA
23303757 TT
1 TT
23303759 TTTGCATATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (39 bp):
TTGGCAGGGAAACACTGACCTTGTATAATCAAAGGACAA
Found at i:23306538 original size:23 final size:23
Alignment explanation
Indices: 23306512--23306609 Score: 171
Period size: 23 Copynumber: 4.3 Consensus size: 23
23306502 ATAAGTGCCA
23306512 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
23306535 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
23306558 CACTG-GATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
23306580 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
23306603 CACTGAT
1 CACTGAT
23306610 CAATAACACT
Statistics
Matches: 71, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
22 21 0.30
23 50 0.70
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:23306577 original size:45 final size:45
Alignment explanation
Indices: 23306519--23306607 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
23306509 CCACACTGAT
*
23306519 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
23306564 ATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
23306608 ATCAATAACA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.30, C:0.27, G:0.24, T:0.19
Consensus pattern (45 bp):
ATGTAGCCGAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:23309667 original size:12 final size:13
Alignment explanation
Indices: 23309650--23309686 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
23309640 GAACCGGACA
23309650 CGAACCGAA-CTC
1 CGAACCGAAGCTC
23309662 CGAACC-AAGCTC
1 CGAACCGAAGCTC
*
23309674 CGAACCGTAGCTC
1 CGAACCGAAGCTC
23309687 TGATGCCACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
11 2 0.09
12 15 0.68
13 5 0.23
ACGTcount: A:0.30, C:0.41, G:0.19, T:0.11
Consensus pattern (13 bp):
CGAACCGAAGCTC
Found at i:23312939 original size:9 final size:9
Alignment explanation
Indices: 23312925--23313003 Score: 52
Period size: 9 Copynumber: 8.6 Consensus size: 9
23312915 TAAACTTATA
23312925 AAAATAATT
1 AAAATAATT
23312934 AAAAT-ATT
1 AAAATAATT
*
23312942 ATAATAATT
1 AAAATAATT
**
23312951 CTAATAATT
1 AAAATAATT
**
23312960 CTAATAAATT
1 AAAAT-AATT
* *
23312970 ATAATTAATA
1 A-AAATAATT
*
23312980 AAACATATTT
1 AAA-ATAATT
23312990 AAAATAATT
1 AAAATAATT
23312999 AAAAT
1 AAAAT
23313004 CCTATAAAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
8 7 0.12
9 33 0.59
10 14 0.25
11 2 0.04
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (9 bp):
AAAATAATT
Found at i:23313013 original size:20 final size:18
Alignment explanation
Indices: 23312990--23313040 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 18
23312980 AAACATATTT
23312990 AAAATAATTAAAATCCTATA
1 AAAATAATTAAAAT--TATA
* *
23313010 AAAATCATAAAAATTATA
1 AAAATAATTAAAATTATA
23313028 AAAA-AATATAAAA
1 AAAATAAT-TAAAA
23313041 AAGTATTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 2 0.08
18 12 0.46
20 12 0.46
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (18 bp):
AAAATAATTAAAATTATA
Found at i:23313051 original size:20 final size:20
Alignment explanation
Indices: 23313009--23313051 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
23312999 AAAATCCTAT
*
23313009 AAAAATCATAAAAATTATAA
1 AAAAATCATAAAAAGTATAA
23313029 AAAAAT-ATAAAAAAGTATTAA
1 AAAAATCAT-AAAAAGTA-TAA
23313050 AA
1 AA
23313052 TTGATATCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 13 0.65
21 5 0.25
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (20 bp):
AAAAATCATAAAAAGTATAA
Found at i:23313789 original size:12 final size:12
Alignment explanation
Indices: 23313774--23313800 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
23313764 TTAAATTTTC
23313774 TATTAATATACA
1 TATTAATATACA
23313786 TATTAATATACA
1 TATTAATATACA
23313798 TAT
1 TAT
23313801 ATGATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.44
Consensus pattern (12 bp):
TATTAATATACA
Found at i:23317303 original size:13 final size:13
Alignment explanation
Indices: 23317285--23317309 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23317275 GTGAGCTAAC
23317285 GTACTTAGTAAGT
1 GTACTTAGTAAGT
23317298 GTACTTAGTAAG
1 GTACTTAGTAAG
23317310 AGTTCAAAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (13 bp):
GTACTTAGTAAGT
Found at i:23319367 original size:17 final size:15
Alignment explanation
Indices: 23319336--23319375 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
23319326 CATTAGATTT
23319336 TTTTATATTTTATAA
1 TTTTATATTTTATAA
23319351 TTTTATAGTTTTAATAA
1 TTTTATA-TTTT-ATAA
*
23319368 GTTTATAT
1 TTTTATAT
23319376 CAATTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 7 0.32
16 5 0.23
17 10 0.45
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (15 bp):
TTTTATATTTTATAA
Found at i:23319425 original size:44 final size:42
Alignment explanation
Indices: 23319361--23319481 Score: 148
Period size: 44 Copynumber: 3.0 Consensus size: 42
23319351 TTTTATAGTT
23319361 TTAATAAGTTTATATCAATTTTATAACGTTTTATGATTTTTA
1 TTAATAAGTTTATATCAATTTTATAACGTTTTATGATTTTTA
* * *
23319403 TTATATCAAGTTTATATCAATTTTATAA-TTTTTATTA-TGTTA
1 TTA-AT-AAGTTTATATCAATTTTATAACGTTTTATGATTTTTA
23319445 TTAAT-A-TTTA-AT--ATTTTATAACGTTTTATGATTTTTA
1 TTAATAAGTTTATATCAATTTTATAACGTTTTATGATTTTTA
23319482 ATCATTTTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
35 9 0.13
36 7 0.10
37 6 0.09
38 4 0.06
39 1 0.01
41 2 0.03
42 10 0.14
43 9 0.13
44 21 0.30
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.57
Consensus pattern (42 bp):
TTAATAAGTTTATATCAATTTTATAACGTTTTATGATTTTTA
Found at i:23319463 original size:18 final size:18
Alignment explanation
Indices: 23319422--23319463 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
23319412 GTTTATATCA
* *
23319422 ATTTTA-TAATTTTTATT
1 ATTTTATTAATATTTAAT
*
23319439 ATGTTATTAATATTTAAT
1 ATTTTATTAATATTTAAT
23319457 ATTTTAT
1 ATTTTAT
23319464 AACGTTTTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
ATTTTATTAATATTTAAT
Found at i:23320473 original size:22 final size:21
Alignment explanation
Indices: 23320428--23320481 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
23320418 TTGCTCCCTA
**
23320428 AATAATAATAATAATCTAAATT
1 AATAATAA-AATAAGATAAATT
23320450 AATAATAAAATAAGATAAACTT
1 AATAATAAAATAAGATAAA-TT
*
23320472 AAAAATAAAA
1 AATAATAAAA
23320482 AAGTCTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 9 0.32
22 19 0.68
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (21 bp):
AATAATAAAATAAGATAAATT
Found at i:23323233 original size:15 final size:15
Alignment explanation
Indices: 23323213--23323246 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
23323203 GAACAATGTT
*
23323213 AATAAATAATAAATA
1 AATAAACAATAAATA
23323228 AATAAACAATAAATA
1 AATAAACAATAAATA
23323243 AATA
1 AATA
23323247 CATACACACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAAACAATAAATA
Found at i:23327915 original size:41 final size:41
Alignment explanation
Indices: 23327858--23327961 Score: 172
Period size: 41 Copynumber: 2.5 Consensus size: 41
23327848 TTTAACATAT
* *
23327858 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTACAACCTGATTCAGA
*
23327899 TCACCGGCACTTAGCCTGCTAGGTTTACAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTACAACCTGATTCAGA
*
23327940 TCACCAGCACTTAGCCTGCTAG
1 TCACCGGCACTTAGCCTGCTAG
23327962 ATTTATAGTC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTACAACCTGATTCAGA
Found at i:23335642 original size:41 final size:42
Alignment explanation
Indices: 23335581--23335664 Score: 134
Period size: 41 Copynumber: 2.0 Consensus size: 42
23335571 CTTAATTTAA
* *
23335581 CATATTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATT
1 CATATTCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATT
*
23335623 CATA-TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATT
1 CATATTCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATT
23335664 C
1 C
23335665 CGATCTGGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 35 0.90
42 4 0.10
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.30
Consensus pattern (42 bp):
CATATTCACCGGCACGTAGCCTGCTAGGCTTATAACCTGATT
Found at i:23337839 original size:8 final size:8
Alignment explanation
Indices: 23337826--23337865 Score: 53
Period size: 8 Copynumber: 4.6 Consensus size: 8
23337816 TTAGTTAATA
23337826 TATATTAT
1 TATATTAT
23337834 TATATTAT
1 TATATTAT
23337842 TATATTATAT
1 TATA-T-TAT
23337852 TATATTAT
1 TATATTAT
23337860 ATATAT
1 -TATAT
23337866 AAAACAAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 15 0.52
9 7 0.24
10 7 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TATATTAT
Done.