Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 97 of 135
Found at i:33104989 original size:21 final size:21
Alignment explanation
Indices: 33104902--33104994 Score: 73
Period size: 21 Copynumber: 4.3 Consensus size: 21
33104892 AAATTAATGC
*
33104902 AAATTAAATAAATAATAATAAT
1 AAATAAAATAAATAATAA-AAT
*
33104924 AAA-AGAGAT-AATAATAAAAT
1 AAATA-AAATAAATAATAAAAT
* * *
33104944 GACATGAAAATAAATAACAAGAT
1 -AAAT-AAAATAAATAATAAAAT
*
33104967 AAATAAAATAAATAATTAAAT
1 AAATAAAATAAATAATAAAAT
*
33104988 AATTAAA
1 AAATAAA
33104995 TGCTAAAATA
Statistics
Matches: 55, Mismatches: 11, Indels: 11
0.71 0.14 0.14
Matches are distributed among these distances:
20 3 0.05
21 30 0.55
22 12 0.22
23 10 0.18
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (21 bp):
AAATAAAATAAATAATAAAAT
Found at i:33105068 original size:15 final size:15
Alignment explanation
Indices: 33105034--33105075 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
33105024 ATTAGGCATG
*
33105034 AAAATAAAT-GACAA
1 AAAATAAATAAACAA
33105048 ATAAATAAATAAACAA
1 A-AAATAAATAAACAA
*
33105064 AAAATCAATAAA
1 AAAATAAATAAA
33105076 TTAAATGCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 1 0.04
15 18 0.75
16 5 0.21
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.17
Consensus pattern (15 bp):
AAAATAAATAAACAA
Found at i:33105909 original size:45 final size:45
Alignment explanation
Indices: 33105786--33106380 Score: 569
Period size: 45 Copynumber: 13.2 Consensus size: 45
33105776 GGTGTTGTAA
* * *
33105786 CTTCAATCTACCCC-TTGGATTTAGGGATAAAAGATTGGATTTGG-TG
1 CTTCAATCTGCCCCTTTAGA-TTAGGGGTAAAAGATTGGA--TGGTTG
* **
33105832 ACTTCAATCTGCCCCTCTAGATTAGGTATAAAAGATTGGATGGTTG
1 -CTTCAATCTGCCCCTTTAGATTAGGGGTAAAAGATTGGATGGTTG
* * *
33105878 CTTTAATCTGCCCCTTTAGATTAAGGGTAAAAGATTGGATGGTGG
1 CTTCAATCTGCCCCTTTAGATTAGGGGTAAAAGATTGGATGGTTG
* * * *
33105923 CTTCAATCTGTCACTCT-GTATTAGGGGTAAAAGATTGGATGGTGG
1 CTTCAATCTGCCCCTTTAG-ATTAGGGGTAAAAGATTGGATGGTTG
* * *
33105968 CTTCAATCTACCCCTCTAGATTAGGGGTAAAAGATCGGATGGTTG
1 CTTCAATCTGCCCCTTTAGATTAGGGGTAAAAGATTGGATGGTTG
* * * * *
33106013 CTTCAATCTG-CCCTCTAGATTAAGGGTAAAAAACTGGATGGTAG
1 CTTCAATCTGCCCCTTTAGATTAGGGGTAAAAGATTGGATGGTTG
* * * * * *
33106057 CTTTAATCTGCCCCTCTAGATTAGTGGTAAAAGACTGAACGGTTG
1 CTTCAATCTGCCCCTTTAGATTAGGGGTAAAAGATTGGATGGTTG
*
33106102 CTTCAATCTGCCCCTCTT-GATTAGGGGTAAAAGATTGGATGGTGG
1 CTTCAATCTGCCCCT-TTAGATTAGGGGTAAAAGATTGGATGGTTG
* * * *
33106147 CTTTAATCTGTCCCTCTAAAATT-GGGGTAAAAGATTGGATGGTTG
1 CTTCAATCTGCCCCT-TTAGATTAGGGGTAAAAGATTGGATGGTTG
* ** * *
33106192 CTTCAATTTGCCCC-TCCGAATTAGGGGTAAAAGATTGGTTGGTGG
1 CTTCAATCTGCCCCTTTAG-ATTAGGGGTAAAAGATTGGATGGTTG
* * * *
33106237 CTTCAATCTACCCCTTTGGATTAGGGGTAAAAGACTAGAT-GTTG
1 CTTCAATCTGCCCCTTTAGATTAGGGGTAAAAGATTGGATGGTTG
* * *
33106281 ACTTCAATCTACCACTCTAGATTAGGGGTAAAAGATTGGAT-GTTAG
1 -CTTCAATCTGCCCCTTTAGATTAGGGGTAAAAGATTGGATGGTT-G
* * * * * * * *
33106327 CTTAAATTTGCCCCTTTGGATTAGAGGTAAAAGACTAGATGATAG
1 CTTCAATCTGCCCCTTTAGATTAGGGGTAAAAGATTGGATGGTTG
33106372 CTTCAATCT
1 CTTCAATCT
33106381 ATTCAGGATT
Statistics
Matches: 456, Mismatches: 79, Indels: 28
0.81 0.14 0.05
Matches are distributed among these distances:
43 1 0.00
44 45 0.10
45 365 0.80
46 11 0.02
47 31 0.07
48 3 0.01
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (45 bp):
CTTCAATCTGCCCCTTTAGATTAGGGGTAAAAGATTGGATGGTTG
Found at i:33106381 original size:90 final size:90
Alignment explanation
Indices: 33105806--33106380 Score: 633
Period size: 90 Copynumber: 6.4 Consensus size: 90
33105796 CCCCTTGGAT
* * **
33105806 TTAGGGATAAAAGATTGGATTTGG-TGACTTCAATCTGCCCCTCTAGATTAGGTATAAAAGATTG
1 TTAGGGGTAAAAGACTGGA--TGGTTG-CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTG
*
33105870 GATGGTTGCTTTAATCTGCCCCTTTAGA
63 GATGGTGGCTTTAATCTGCCCCTTTAGA
* * * * *
33105898 TTAAGGGTAAAAGATTGGATGGTGGCTTCAATCTGTCACTCT-GTATTAGGGGTAAAAGATTGGA
1 TTAGGGGTAAAAGACTGGATGGTTGCTTCAATCTGCCCCTCTAG-ATTAGGGGTAAAAGATTGGA
* * *
33105962 TGGTGGCTTCAATCTACCCCTCTAGA
65 TGGTGGCTTTAATCTGCCCCTTTAGA
* * *
33105988 TTAGGGGTAAAAGA-TCGGATGGTTGCTTCAATCTG-CCCTCTAGATTAAGGGTAAAAAACTGGA
1 TTAGGGGTAAAAGACT-GGATGGTTGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGA
* *
33106051 TGGTAGCTTTAATCTGCCCCTCTAGA
65 TGGTGGCTTTAATCTGCCCCTTTAGA
* * * *
33106077 TTAGTGGTAAAAGACTGAACGGTTGCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTGGAT
1 TTAGGGGTAAAAGACTGGATGGTTGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGAT
* * *
33106142 GGTGGCTTTAATCTGTCCCTCTAAAA
66 GGTGGCTTTAATCTGCCCCT-TTAGA
* * * *
33106168 TT-GGGGTAAAAGATTGGATGGTTGCTTCAATTTGCCCCTC-CGAATTAGGGGTAAAAGATTGGT
1 TTAGGGGTAAAAGACTGGATGGTTGCTTCAATCTGCCCCTCTAG-ATTAGGGGTAAAAGATTGGA
* * *
33106231 TGGTGGCTTCAATCTACCCCTTTGGA
65 TGGTGGCTTTAATCTGCCCCTTTAGA
* * *
33106257 TTAGGGGTAAAAGACTAGAT-GTTGACTTCAATCTACCACTCTAGATTAGGGGTAAAAGATTGGA
1 TTAGGGGTAAAAGACTGGATGGTTG-CTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGA
* * * * *
33106321 TGTTAGCTTAAATTTGCCCCTTTGGA
65 TGGTGGCTTTAATCTGCCCCTTTAGA
* * * *
33106347 TTAGAGGTAAAAGACTAGATGATAGCTTCAATCT
1 TTAGGGGTAAAAGACTGGATGGTTGCTTCAATCT
33106381 ATTCAGGATT
Statistics
Matches: 411, Mismatches: 60, Indels: 26
0.83 0.12 0.05
Matches are distributed among these distances:
89 86 0.21
90 300 0.73
91 8 0.02
92 17 0.04
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (90 bp):
TTAGGGGTAAAAGACTGGATGGTTGCTTCAATCTGCCCCTCTAGATTAGGGGTAAAAGATTGGAT
GGTGGCTTTAATCTGCCCCTTTAGA
Found at i:33106722 original size:147 final size:147
Alignment explanation
Indices: 33106487--33106985 Score: 468
Period size: 147 Copynumber: 3.4 Consensus size: 147
33106477 TCCCTCTTTA
* * ** * *
33106487 ATTTTAGGGTGTTAGGTCCGCCATTATAACTTTAACCTCCTATCCCTCTTTAATTTTAAGGTGTT
1 ATTTTAGGGTGTTAGGTCCACCGTTACGACTTCAA---CCTATCCCTCTTCAATTTTAAGGTGTT
* * * *
33106552 AGGTCCGCCATTACGACTTCAACCTATCCCTTTTCAATTTTCAGGTGTAAGATCCACCGTTGAGA
63 AGGTCCACCATTACGACTTCAACCTATCCCTCTTCAACTTTAAGGTGTAAGATCCACCGTTGAGA
33106617 CTTCAATCTTTTCCTT-TTCG
128 CTTCAATC-TTTCCTTCTTCG
* * ** * * * *
33106637 ATTTTAGGGTGTTAGGTCTATCGTTGTGGCTTCAATCTATCCCTCTTCGATTTTAGGGTGTTAGG
1 ATTTTAGGGTGTTAGGTCCACCGTTACGACTTCAACCTATCCCTCTTCAATTTTAAGGTGTTAGG
* * * * * * *
33106702 TCTATCATTACGGCTTCAACCTATCCCTCTTCAGCTTTAAGGTGTAAGATTCATCGTTGTGACTT
66 TCCACCATTACGACTTCAACCTATCCCTCTTCAACTTTAAGGTGTAAGATCCACCGTTGAGACTT
*
33106767 TAATCTTTCCTTCTTCG
131 CAATCTTTCCTTCTTCG
* * **
33106784 ATTTTAGGGTGTTAGGTCCACCGTTACGACTTCAACCTGTCCCTCTTCAATTTTAAGGTGTAATA
1 ATTTTAGGGTGTTAGGTCCACCGTTACGACTTCAACCTATCCCTCTTCAATTTTAAGGTGTTAGG
* * * * * * * * *
33106849 TCCATCGTTAC-AGCTTCAATCTTTCTCTCTTCGATTTTAGGGTGTTAA-ATCTACCGTT-ATGA
66 TCCACCATTACGA-CTTCAACCTATCCCTCTTCAACTTTAAGGTG-TAAGATCCACCGTTGA-GA
* * *
33106911 TTTTC-ATCTATCCTTCTTCA
128 -CTTCAATCTTTCCTTCTTCG
* * * * *
33106931 ATTTTAGGGTGTTAGATTCACCGTTGCGACTTTAACCTATCCCTCTTCAACTTTA
1 ATTTTAGGGTGTTAGGTCCACCGTTACGACTTCAACCTATCCCTCTTCAATTTTA
33106986 TGATTTGGTG
Statistics
Matches: 284, Mismatches: 60, Indels: 13
0.80 0.17 0.04
Matches are distributed among these distances:
146 7 0.02
147 245 0.86
148 5 0.02
150 27 0.10
ACGTcount: A:0.20, C:0.23, G:0.16, T:0.41
Consensus pattern (147 bp):
ATTTTAGGGTGTTAGGTCCACCGTTACGACTTCAACCTATCCCTCTTCAATTTTAAGGTGTTAGG
TCCACCATTACGACTTCAACCTATCCCTCTTCAACTTTAAGGTGTAAGATCCACCGTTGAGACTT
CAATCTTTCCTTCTTCG
Found at i:33106733 original size:49 final size:49
Alignment explanation
Indices: 33106416--33106985 Score: 383
Period size: 49 Copynumber: 11.6 Consensus size: 49
33106406 TCGTCGTTGT
* * *** * * *
33106416 GACTTCAATCTTTCCCTCTTTGGTTTTAGGTTGTTAAGTCCGCCGTTAC
1 GACTTCAACCTATCCCTCTTCAATTTTAGGGTGTTAGGTCCACCGTTAC
* * * * *
33106465 TACTTCAACCTATCCCTCTTTAATTTTAGGGTGTTAGGTCCGCCATTAT
1 GACTTCAACCTATCCCTCTTCAATTTTAGGGTGTTAGGTCCACCGTTAC
* * * * * *
33106514 AACTTTAACCTCCTATCCCTCTTTAATTTTAAGGTGTTAGGTCCGCCATTAC
1 GACTTCAA---CCTATCCCTCTTCAATTTTAGGGTGTTAGGTCCACCGTTAC
* * *
33106566 GACTTCAACCTATCCCTTTTCAATTTTCA-GGTGTAAGATCCACCGTTGA-
1 GACTTCAACCTATCCCTCTTCAATTTT-AGGGTGTTAGGTCCACCGTT-AC
* * * * * * * **
33106615 GACTTCAATCTTTTCCTTTTCGATTTTAGGGTGTTAGGTCTATCGTTGT
1 GACTTCAACCTATCCCTCTTCAATTTTAGGGTGTTAGGTCCACCGTTAC
* * * * * *
33106664 GGCTTCAATCTATCCCTCTTCGATTTTAGGGTGTTAGGTCTATCATTAC
1 GACTTCAACCTATCCCTCTTCAATTTTAGGGTGTTAGGTCCACCGTTAC
* ** * * * * * **
33106713 GGCTTCAACCTATCCCTCTTCAGCTTTAAGGTGTAAGATTCATCGTTGT
1 GACTTCAACCTATCCCTCTTCAATTTTAGGGTGTTAGGTCCACCGTTAC
* * * * *
33106762 GACTTTAATCTTTCCTTCTTCGATTTTAGGGTGTTAGGTCCACCGTTAC
1 GACTTCAACCTATCCCTCTTCAATTTTAGGGTGTTAGGTCCACCGTTAC
* * * ** *
33106811 GACTTCAACCTGTCCCTCTTCAATTTTAAGGTGTAATATCCATCGTTAC
1 GACTTCAACCTATCCCTCTTCAATTTTAGGGTGTTAGGTCCACCGTTAC
* * * * ** * *
33106860 -AGCTTCAATCTTTCTCTCTTCGATTTTAGGGTGTTAAATCTACCGTTAT
1 GA-CTTCAACCTATCCCTCTTCAATTTTAGGGTGTTAGGTCCACCGTTAC
* * * * * *
33106909 GATTTTC-ATCTATCCTTCTTCAATTTTAGGGTGTTAGATTCACCGTTGC
1 GA-CTTCAACCTATCCCTCTTCAATTTTAGGGTGTTAGGTCCACCGTTAC
* *
33106958 GACTTTAACCTATCCCTCTTCAACTTTA
1 GACTTCAACCTATCCCTCTTCAATTTTA
33106986 TGATTTGGTG
Statistics
Matches: 411, Mismatches: 100, Indels: 20
0.77 0.19 0.04
Matches are distributed among these distances:
48 4 0.01
49 356 0.87
50 6 0.01
52 45 0.11
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (49 bp):
GACTTCAACCTATCCCTCTTCAATTTTAGGGTGTTAGGTCCACCGTTAC
Found at i:33119311 original size:932 final size:921
Alignment explanation
Indices: 33117338--33119594 Score: 3282
Period size: 932 Copynumber: 2.4 Consensus size: 921
33117328 TTAAAAGCGT
* * * *
33117338 AAACAAAAAACCTACGCATCTATTTTGGGTAATCACTAAAAGTTCGGCATGTCTCTACCTAGGAT
1 AAACAAAGAACCTACGCATCTATTTCGGGTAATCACTAAAAGTTCGGCATGGCTTTACCTAGGAT
33117403 AGGCACCTAAGGTTCACTATATGTAGTTTGAGTTCTAGAGTAAAGGTACCCAAACCAGCAGACTT
66 AGGCACCTAAGGTTCACTATATGTAGTTTGAGTTCTAGAGTAAAGGTACCCAAACCAGCAGA-TT
* * *
33117468 -CTCAATCCTCACCAATTATAGACTCATACGGACGAGTTCAATTCAGGGAGACATATTTC-CATA
130 CCTCAATCCTCACCCATTATAGGCTCATAC-AACGAGTTCAATTCAGGGAGACATATTTCTCATA
* * * * *
33117531 TGTTTTCATGGAAGTGAAAACCTCACAAAAACACAGATACGGATATATCCTGAAAGCAATCCATT
194 TGTTTGCATGGAAGTGAAAACCTCACGAAAACACAGGTACAGATATATCCCGAAAGCAATCCATT
*
33117596 ATCCTGCACGGAGGCAAAAGCCTCACGAAGAAGTAGCTTCTTACTTCCACTTAGAAAGTATAATA
259 ATCCTGCACGGAGG-AAAAACCTCACGAAGAAGTAGCTTCTTACTTCCACTTAGAAAGTATAATA
* *
33117661 ACACATGCAAATGTATACGAAAACATTAAAAATTAAATAC-A-ACATAT---AT---A--C---A
323 ACACATGCAAATGTATGCGAAAACATTACAAATTAAATACAACACATATACAATAAAATGCAAAA
*
33117713 ATAAAATACAAAGGATCACAACTTAAATTAAACCGAATTTTAAATTTTCAACAAAAAAAATAATC
388 ATAAAATGCAAAGGATCACAACTTAAATTAAACCGAATTTTAAATTTTCAACAAAAAAAATAATC
** *
33117778 GACTTGTGGCCTGACTCTCTAAAAAAAGTCCATAGTGGAGTCGCTCAGCTGTCGAAACCATTTTT
453 GACTTGTACCCTGACTCTCTAAAAAAAGTCCATAGTGGAGTCGCTCAGCTATCGAAACCATTTTT
** * *
33117843 TTGAAAAAAAAACAAGTCTCGGTTATATTTTGGAAAACACGAAAATGGAGTTGCCACTAACTTTT
518 TTGAAAAAAAAACAAGTCTCAATTATATTTTGGAAAACACGAAAATGGAGTCGCCACCAACTTTT
*
33117908 TTAAAAAAATAGTTGTGATTGGGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTG
583 TTAAAAAAATAGGTGTGATTGGGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTG
*
33117973 ATCTCTAAAACCATAAAATGGGTTCGGGAGTCAGTTACGAGTAAGGAAGAATTAGCACCCTTACA
648 ATCTCTAAAACCATAAAATGGGTTCGGAAGTCAGTTACGAGTAAGGAAGAATTAGCACCCTTACA
* *
33118038 CGCCCAAAAATTGGTACCTAATGCATGCATGCCATATTTATTTATTTTGAAAAAATATTTTTTTA
713 AGCACAAAAATTGGTACCTAATGCATGCATGCCATATTTATTTATTTTGAAAAAATATTTTTTTA
* ** ***
33118103 CGAAGAAAGCTCGTTATTTGGAATTAATCGAGAAAAAAATCACATCTTGTAAGTTAGGACATAAC
778 CGAAGAAAGCTCATTATTTCAAATTAATCGAGAAAAAAATCACATCCAATAAGTTAGGACATAAC
33118168 AATTCGAATTTTCAAAAATAGCAAACATTCCTAATTATTATCCCAAAATCTCGTATTTGAACTTT
843 AATTCGAATTTTCAAAAATAGCAAACATTCCTAATTATTATCCCAAAATCTCGTATTTGAACTTT
33118233 AAAAAGGATACTCA
908 AAAAAGGATACTCA
* *
33118247 AAACAAAGAACCTACGCATCTATTTCGAGTAATCACTAAAAGTTCGGCATGGCTTTACCTAGTAT
1 AAACAAAGAACCTACGCATCTATTTCGGGTAATCACTAAAAGTTCGGCATGGCTTTACCTAGGAT
* * * *
33118312 AGGCACCTAAGGTTCACTATATATAGTTTGAGTTCTAGAGTAAAGATACCAAAACCAACAGATTC
66 AGGCACCTAAGGTTCACTATATGTAGTTTGAGTTCTAGAGTAAAGGTACCCAAACCAGCAGATTC
* * * * *
33118377 CTCAATCCTCACCCATTCTAGGCTAATACATACGAGTTCGATTCAAGGAGACATATTTCTTATAT
131 CTCAATCCTCACCCATTATAGGCTCATACA-ACGAGTTCAATTCAGGGAGACATATTTCTCATAT
* * *
33118442 GTTTGCATGGAAGTGAAAACCTCATGAAAACACAGGTACAGATATATCCCAAAAGCAATCCATTT
195 GTTTGCATGGAAGTGAAAACCTCACGAAAACACAGGTACAGATATATCCCGAAAGCAATCCATTA
*
33118507 TCCTGCACGGAGGTGAAAACCTCACGAAGAAGTAGCTTCTTACTTCCACTTAGAAAGTATAATAA
260 TCCTGCACGGAGG-AAAAACCTCACGAAGAAGTAGCTTCTTACTTCCACTTAGAAAGTATAATAA
*
33118572 CACATGCAAATGTATGCGAAAACATTACAAATTAAATTCAACACATATACAATAAAATGCAAAAA
324 CACATGCAAATGTATGCGAAAACATTACAAATTAAATACAACACATATACAATAAAATGCAAAAA
*
33118637 TAAAATGCTAAGGATCACAACTTAAATTAAACCGAATTTTAAATTTTCAACAAAAAAACCAAAAA
389 TAAAATGCAAAGGATCACAACTTAAATTAAACCGAATTTTAAATTTTCAAC----AAA--AAAAA
*
33118702 TAATCGATTTGTACCCTGACTCTCTAAAAAAAAGTATCCA-A-TGGAGTCGC-CAAGCTATC-AT
448 TAATCGACTTGTACCCTGACTCTCT-AAAAAAAG--TCCATAGTGGAGTCGCTC-AGCTATCGA-
* * * *
33118763 AATCATTTCTTTTG-AAACAAAACAAGTCTCAATTATATTTTGGAAAACACGGAAGTGGAGTCGC
508 AACCATTT-TTTTGAAAAAAAAACAAGTCTCAATTATATTTTGGAAAACACGAAAATGGAGTCGC
* *
33118827 CACCAACCTTTTTCTAACAAAATAGGTGTGATTGGGTCACCTTTTAAAAAGTTTTAAGATCATTA
572 CACCAA-CTTTTT-TAAAAAAATAGGTGTGATTGGGTCACCTTTTAAAAAGTTTTAAAATCATTA
* * * *
33118892 AAAATAAATTTTGGTCTTTGAAACCATAAAATGGGTTCGGAAGTCAGTTACGAGTAAGGAAGAAT
635 AAAACAAATTTTGATCTCTAAAACCATAAAATGGGTTCGGAAGTCAGTTACGAGTAAGGAAGAAT
* * * *
33118957 TAGCACCCTTACAATCACAATAATTGGTACCTAATGCATGCATGTCATATTTATTTATTTT-TAA
700 TAGCACCCTTACAAGCACAAAAATTGGTACCTAATGCATGCATGCCATATTTATTTATTTTGAAA
*
33119021 AAATATTTTTTTACGAAGAAAGCTCATTATTTCAAATTAATCGAGAAAAAAATCACATCCAATAT
765 AAATATTTTTTTACGAAGAAAGCTCATTATTTCAAATTAATCGAGAAAAAAATCACATCCAATAA
** *
33119086 GTTAGGACATAACAATTCGAAATTTTTGAAAATAGCAAGA-ATTCCTCATTATTATCCCAAAATC
830 GTTAGGACATAACAATTCG-AATTTTCAAAAATAGCAA-ACATTCCTAATTATTATCCCAAAATC
* *
33119150 TCGTATTTTAACTTTAAAAAGGATACTGA
893 TCGTATTTGAACTTTAAAAAGGATACTCA
*
33119179 AAACAAAGAACCTACGCATCTATTCCGGGTAATCACTAAAAGTTCGGCATGGCTTTACCTAGGAT
1 AAACAAAGAACCTACGCATCTATTTCGGGTAATCACTAAAAGTTCGGCATGGCTTTACCTAGGAT
*
33119244 AGGCACCTAAGGTTCACTATATGTAGTTTGAGTTCTAGAGTAAAGGTACCCAAACCAGCATATTC
66 AGGCACCTAAGGTTCACTATATGTAGTTTGAGTTCTAGAGTAAAGGTACCCAAACCAGCAGATTC
* * * *
33119309 CTCAACCCTCACCCATTATAGGCTCAGACGAACGAGTTTAGTTCAGGGAGACATATTTCTCATAT
131 CTCAATCCTCACCCATTATAGGCTCATAC-AACGAGTTCAATTCAGGGAGACATATTTCTCATAT
*** * * * * * * *
33119374 GTTTGCACAAAAGTAAAAAGCCTTACGAAAACACAAGTACTGATATATCTCGAAAGAAATCCACT
195 GTTTGCATGGAAGTGAAAA-CCTCACGAAAACACAGGTACAGATATATCCCGAAAGCAATCCATT
* * **
33119439 ATCTTGCAC-GATGGCAAAAACCTCACGAAGAAGTAGCTTCTTACTTCCACTTAGATAGTATCGT
259 ATCCTGCACGGA-GG-AAAAACCTCACGAAGAAGTAGCTTCTTACTTCCACTTAGAAAGTATAAT
*
33119503 AACACATGCAAATGTATGCGAAAACATTACAAATTAAATACAACATATATACAATAAAATGCAAA
322 AACACATGCAAATGTATGCGAAAACATTACAAATTAAATACAACACATATACAATAAAATGCAAA
33119568 GCAATAAAATGCAAAGGATCACAACTT
387 --AATAAAATGCAAAGGATCACAACTT
33119595 TTTTTAAAAA
Statistics
Matches: 1200, Mismatches: 111, Indels: 48
0.88 0.08 0.04
Matches are distributed among these distances:
908 2 0.00
909 168 0.14
910 159 0.13
911 1 0.00
912 6 0.00
915 2 0.00
918 1 0.00
920 1 0.00
923 51 0.04
927 3 0.00
929 29 0.02
930 79 0.07
931 91 0.08
932 427 0.36
933 156 0.13
935 24 0.02
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.28
Consensus pattern (921 bp):
AAACAAAGAACCTACGCATCTATTTCGGGTAATCACTAAAAGTTCGGCATGGCTTTACCTAGGAT
AGGCACCTAAGGTTCACTATATGTAGTTTGAGTTCTAGAGTAAAGGTACCCAAACCAGCAGATTC
CTCAATCCTCACCCATTATAGGCTCATACAACGAGTTCAATTCAGGGAGACATATTTCTCATATG
TTTGCATGGAAGTGAAAACCTCACGAAAACACAGGTACAGATATATCCCGAAAGCAATCCATTAT
CCTGCACGGAGGAAAAACCTCACGAAGAAGTAGCTTCTTACTTCCACTTAGAAAGTATAATAACA
CATGCAAATGTATGCGAAAACATTACAAATTAAATACAACACATATACAATAAAATGCAAAAATA
AAATGCAAAGGATCACAACTTAAATTAAACCGAATTTTAAATTTTCAACAAAAAAAATAATCGAC
TTGTACCCTGACTCTCTAAAAAAAGTCCATAGTGGAGTCGCTCAGCTATCGAAACCATTTTTTTG
AAAAAAAAACAAGTCTCAATTATATTTTGGAAAACACGAAAATGGAGTCGCCACCAACTTTTTTA
AAAAAATAGGTGTGATTGGGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTGATC
TCTAAAACCATAAAATGGGTTCGGAAGTCAGTTACGAGTAAGGAAGAATTAGCACCCTTACAAGC
ACAAAAATTGGTACCTAATGCATGCATGCCATATTTATTTATTTTGAAAAAATATTTTTTTACGA
AGAAAGCTCATTATTTCAAATTAATCGAGAAAAAAATCACATCCAATAAGTTAGGACATAACAAT
TCGAATTTTCAAAAATAGCAAACATTCCTAATTATTATCCCAAAATCTCGTATTTGAACTTTAAA
AAGGATACTCA
Found at i:33119574 original size:15 final size:15
Alignment explanation
Indices: 33119554--33119583 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
33119544 AACATATATA
33119554 CAATAAAATGCAAAG
1 CAATAAAATGCAAAG
33119569 CAATAAAATGCAAAG
1 CAATAAAATGCAAAG
33119584 GATCACAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.13, G:0.13, T:0.13
Consensus pattern (15 bp):
CAATAAAATGCAAAG
Found at i:33121536 original size:897 final size:901
Alignment explanation
Indices: 33119603--33123936 Score: 4870
Period size: 897 Copynumber: 4.8 Consensus size: 901
33119593 TTTTTTTAAA
* *
33119603 AAAAAAATAGGTATGATTTGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTGGTC
1 AAAAAAATAAGTGTGATTTGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTGGTC
* *
33119668 TCTGAAACCA-TATAATGGGTCCGGGAGTCAGTTACGAGTAAGGAAGGATTAGCACCCTTACACG
66 TTTGAAACCATTA-AATGGGTTCGGGAGTCAGTTACGAG-AAGGAAGGATTAGCACCCTTACACG
*
33119732 CCCAAAAATTGGTACCCAATGCATGCATGTCATATTTATTTATTTTGAAAAAATATTTTTTTTAC
129 CCCAAAAATTGGTACCTAATGCATGCATGTCATATTTATTTATTTTGAAAAAATA-TTTTTTTAC
* * * * *
33119797 GAAGAAAGCTCGTTATTTCGAATTAATCGAGAACAAAATCACATTCTATAAGTTTGGACATAAAA
193 GAAGAAAGCTCGTTATTTCGAATTAATCGAGAAAAAAATCACATCCTGTAAGTTAGGACATAACA
* *
33119862 ATTCGAATTTTCGAAAATAGCAAGTATTCCTAATTATTATCCCAAAATCTCGTATTTTAACTTTA
258 ATTCGAATTTTCGAAAATAACAAGCATTCCTAATTATTATCCCAAAATCTCGTATTTTAACTTT-
* * *
33119927 AAAAAGGAAACTCAAAACAAAAAACCTACACATCTATTTCGAG-ATATCACTAAAAGTTCGGCAT
322 AAAAAGGATACTCAAAACAAAGAACCTACACATCTATTTCGGGTA-ATCACTAAAAGTTCGGCAT
* *
33119991 GGCTCTACCTAGGATAGACACCTAAGGTTCACTATATGTTGTTTGAGTTCTAGAGTAAAGGTACC
386 GGCTCTACCTAGGATAGGCACCTAAGGTTCACTATATGTAGTTTGAGTTCTAGAGTAAAGGTACC
** * * * * *
33120056 CAAATAAATAGATTCCTCAAACCTCACCCAATATAGGCTCATACGGACGAATACAGTTCAGGGAG
451 CAAACCAACAGATTCCTCAATCCTCACCCATTATAGGCTCATACGGACGAGTTCAGTTCAGGGAG
* * * * *
33120121 ACATATTTCTCATATGTTGGCACGGAAA-TGAAAATCTCACGAAAACACAGGTATGGATATATCC
516 ACATATTTCCCATATGTTTGCAC-GAAAGTGAAAACCTCACGAAAACACAGGTACGAATATATCC
* * *
33120185 CGAAAGCATTCCATTATCCTGCACTGA-GGCGAAAACCTCACAAAGAAGTAGCTTCTTACTTCCA
580 CGAAAGCAATCCACTATCCTGCAC-GATGGCGAAAACTTCACAAAGAAGTAGCTTCTTACTTCCA
*
33120249 CTTAGAAAGTATAATAACACATGCAAATTTATGCGAAAACATTACAAATTAAATACAACATATAT
644 CTTAGAAAGTATAATAACACATGCAAATGTATGCGAAAACATTACAAATTAAATACAAC--ATAT
* *
33120314 AAAATAAAAAGCTAAGGATCACAACTTAAATTAAACCGAATTTTAAATTTTCAAC-AAAAAACCC
707 ---AT----A---AAGGATCACAACTTAAATTAAACCAAATTTTAAATTTTCAACAAAAAAACCA
* * * * * *
33120378 AAAATAATCGACTTGTGGCCTAACTCTCTATAAAAAAGTC-CCAGTGGAATCGCCAAGCTGTCGA
762 AAAATAAACGACTTGTGGCCTGACTCTCTAAAAAAAAGTCAACAGTGGAGTCGCTAAGCTGTCGA
33120442 AACCATTTTTTTTAAAATAAAAA--CT--ATCA-A---T---AAA-AT-----T-GAGTC-CTCA
827 AACCATTTTTTTTAAAA-AAAAAGTCTCGATCATATTTTGGAAAACATGAAAATAGAGTCGC-CA
* *
33120488 CCAACCCTTTTTT
890 CTAA-CATTTTTT
*
33120501 -AAAAAATAAGTGTGATTGGGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTGGT
1 AAAAAAATAAGTGTGATT-TGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTGGT
* * * * * * *
33120565 CTTTGAAACCATAAAAATGAGTTCAGGAGTCAGTTACGTGTAAGGAAGAATTAGCACCCTTAAAT
65 CTTTGAAACCAT-TAAATGGGTTCGGGAGTCAGTTACGAG-AAGGAAGGATTAGCACCCTTACAC
* * * *
33120630 GCGCAAAAATTGGTACCTAAAGCATGCGTGTCATATTTATTTATTTTG-AAAAATACTTTTTTAC
128 GCCCAAAAATTGGTACCTAATGCATGCATGTCATATTTATTTATTTTGAAAAAATATTTTTTTAC
* *
33120694 GAAGAAAGCTCGTTATTTCAAATTAATCGAGAAAAAAATCACATCCTATAAGTTAGGACATAACA
193 GAAGAAAGCTCGTTATTTCGAATTAATCGAGAAAAAAATCACATCCTGTAAGTTAGGACATAACA
* * *
33120759 ATTCGAAATTTTCGAAAATAGCATGCATTCCTAATTATTATCCCAAAATCTTGTATTTTAACTTT
258 ATTCG-AATTTTCGAAAATAACAAGCATTCCTAATTATTATCCCAAAATCTCGTATTTTAACTTT
** * *
33120824 AAAAAGGATACTCAAAACAAAGAACCTATGCATTTATTTCGGGTAATCACTAAAATTTCGGCATG
322 AAAAAGGATACTCAAAACAAAGAACCTACACATCTATTTCGGGTAATCACTAAAAGTTCGGCATG
* * * *
33120889 ACTCTACCTAAGATAGGCACCTAAGGTTCACTACATGTAGTTTGAGTTCTAGGGTAAAGGTACCC
387 GCTCTACCTAGGATAGGCACCTAAGGTTCACTATATGTAGTTTGAGTTCTAGAGTAAAGGTACCC
* * * * *
33120954 AAACCAGCAGATTCCACAATCCTCACCCATTATAAGCTCATACGAACGAGTTCAGTTCAGTGAGA
452 AAACCAACAGATTCCTCAATCCTCACCCATTATAGGCTCATACGGACGAGTTCAGTTCAGGGAGA
* * *
33121019 CATATTTCCCATATGTTTGCACAAAAGTGAAAACCTCACGAAAAAACAGGTACGAATATATCTCG
517 CATATTTCCCATATGTTTGCACGAAAGTGAAAACCTCACGAAAACACAGGTACGAATATATCCCG
* *
33121084 AAAGCAATCCACTATCATGCACGATGGCGAAAACTTCACAAAGAAGTAACTTCTTACTTCCACTT
582 AAAGCAATCCACTATCCTGCACGATGGCGAAAACTTCACAAAGAAGTAGCTTCTTACTTCCACTT
*
33121149 AGAAAGTATAGTAACACATGCAAATGTATGCGAAAACATTACAAATTAAATACAACATATATAAA
647 AGAAAGTATAATAACACATGCAAATGTATGCGAAAACATTACAAATTAAATACAACATATATAAA
* *
33121214 GGATCACGACTTAAATTAAACCAAATTTTAAATTTTCAACAAAAAGACCAAAAATAAACGACTTG
712 GGATCACAACTTAAATTAAACCAAATTTTAAATTTTCAACAAAAAAACCAAAAATAAACGACTTG
* * * *
33121279 GGGCTTGACTCTCTCAAAAAAAGTCAACAGTGGAGTCGCTAAGCTGTCAAAACCATTTTTTTT-A
777 TGGCCTGACTCTCTAAAAAAAAGTCAACAGTGGAGTCGCTAAGCTGTCGAAACCATTTTTTTTAA
* *
33121343 AAAAAAAGTCTCGATTATATTTTGGAAAACATGAAAATATAGTCGCCACTAA-ATTTTTT
842 AAAAAAAGTCTCGATCATATTTTGGAAAACATGAAAATAGAGTCGCCACTAACATTTTTT
* *
33121402 AAAAAAATAAGTGTGATTTGTCATCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTGATC
1 AAAAAAATAAGTGTGATTTGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTGGTC
* * * *
33121467 TCTGAAACCGTTAAATGGATTCGGGAGTCAGTTAC-A-AAAGAAGGATTAGCACCCTTACACGCC
66 TTTGAAACCATTAAATGGGTTCGGGAGTCAGTTACGAGAAGGAAGGATTAGCACCCTTACACGCC
*
33121530 CAAAAATTGGTACCTAATGCATGCATGTCATATTCATTTATTTTGAAAAAATATTTTTTTTACGA
131 CAAAAATTGGTACCTAATGCATGCATGTCATATTTATTTATTTTGAAAAAATA-TTTTTTTACGA
* *
33121595 AGAAAGCTCATTATTTCGAATTAATCGAGAAAAAAAATCA-TTGCCTGTAAGTTAGGACATAACA
195 AGAAAGCTCGTTATTTCGAATTAATCGAG-AAAAAAATCACAT-CCTGTAAGTTAGGACATAACA
* * * *
33121659 ATTCGAATTTTCGAAAATAACAAGTATTCCTAATTATTATCCCCAGATCTCGTATTTTAACATTA
258 ATTCGAATTTTCGAAAATAACAAGCATTCCTAATTATTATCCCAAAATCTCGTATTTTAACTTTA
* *
33121724 AAAAGGATACTCAAAACGAAGAACCTACAAATCTATTTCGGGTAATCACTAAAAGTTCGGCATGG
323 AAAAGGATACTCAAAACAAAGAACCTACACATCTATTTCGGGTAATCACTAAAAGTTCGGCATGG
* * *
33121789 CTCTGCCTTGGATAGGCACCTAAGGTTCACTATATGTAGTTTGAGTTCTAGAGTAAATGTACCCA
388 CTCTACCTAGGATAGGCACCTAAGGTTCACTATATGTAGTTTGAGTTCTAGAGTAAAGGTACCCA
* * * *
33121854 AACAAACAGATTCCTCAATCCTCACCCATTATAGGCTCATACGGACAAGTTCGGTTCATGGAGAC
453 AACCAACAGATTCCTCAATCCTCACCCATTATAGGCTCATACGGACGAGTTCAGTTCAGGGAGAC
** * * *
33121919 ATATTTCCCATATGTTTGCACGATTGTGAAAACCTCATGAAAACACAGGTACGGATATATCTCGA
518 ATATTTCCCATATGTTTGCACGAAAGTGAAAACCTCACGAAAACACAGGTACGAATATATCCCGA
* * *
33121984 AAGCAATCCACTATCCTGCACGGTGGCGAAAACATCACGAAGAAGTAGCTT-TATACTTCCACTT
583 AAGCAATCCACTATCCTGCACGATGGCGAAAACTTCACAAAGAAGTAGCTTCT-TACTTCCACTT
* *
33122048 AGAAAGTATAGTAACACATGCAAATGTATGCGAAAATATTACAAATTAAATACAACATATATACA
647 AGAAAGTATAATAACACATGCAAATGTATGCGAAAACATTACAAATTAAAT---AC----A-AC-
*
33122113 ATAAAATGTAAAGTAATAAAATGCAAAGGATCACAACTAAAATTAAACCAAATTTTAAATTTTCA
703 -----------A-T-AT---AT--AAAGGATCACAACTTAAATTAAACCAAATTTTAAATTTTCA
** *
33122178 ACAAAAAAATAAAAAATAATCGACTTGTGGCCTGACTCTCTAAAAAAAAAGTCAACAGTGGAGTC
750 ACAAAAAAACCAAAAATAAACGACTTGTGGCCTGACTCTCT-AAAAAAAAGTCAACAGTGGAGTC
* * *
33122243 GCTAAGCTGTTGAAACCATTTTTTTTGAAAAAAAAGTCTCGATTATATTTTGGAAAACATGAAAA
814 GCTAAGCTGTCGAAACCATTTTTTTTAAAAAAAAAGTCTCGATCATATTTTGGAAAACATGAAAA
* *
33122308 TATAGTCGCCACTAACTTTTTTT
879 TAGAGTCGCCACTAACATTTTTT
* *
33122331 AAAAAAATACGTGTGATTTGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTGGCC
1 AAAAAAATAAGTGTGATTTGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTGGTC
* * * *
33122396 TTTGCAACCATTAAATGGGTTCGGGAGTAAGTTACGAGTAAGGAAGGATTAACACCCTTAGACGC
66 TTTGAAACCATTAAATGGGTTCGGGAGTCAGTTACGAG-AAGGAAGGATTAGCACCCTTACACGC
* * *
33122461 CCAAAAACTGGTGCCTAATGCATGCATGTCTTATTTATTTATTTTGAAAAAATATTTTTTTACGA
130 CCAAAAATTGGTACCTAATGCATGCATGTCATATTTATTTATTTTGAAAAAATATTTTTTTACGA
* *
33122526 AGAAAGCTCGTTATTTCGAACTAATCGAGAAAAAAAATCACAGCCTGTAAGTTAGGACATAACAA
195 AGAAAGCTCGTTATTTCGAATTAATCGAG-AAAAAAATCACATCCTGTAAGTTAGGACATAACAA
*
33122591 TTCGAATTTTCGAAAATAACAAGCATTCCTAATTATTATCCCAAAATCTCGTATTTTAAATTTAA
259 TTCGAATTTTCGAAAATAACAAGCATTCCTAATTATTATCCCAAAATCTCGTATTTTAACTTTAA
* ** * * *
33122656 AAAGGATACTAAAAATGAAGAACCTACAAATCTATTTCGGGTAATCACTAAAAGCTCGGTATGGC
324 AAAGGATACTCAAAACAAAGAACCTACACATCTATTTCGGGTAATCACTAAAAGTTCGGCATGGC
* * *
33122721 TCTACCTAGGATAGGCACCTAAGGTTCACTATGTGTAGTTTGAGTTCTAGAGTAAAGG--CTCAT
389 TCTACCTAGGATAGGCACCTAAGGTTCACTATATGTAGTTTGAGTTCTAGAGTAAAGGTACCCAA
** * * * * ** * * * *** **
33122784 ACGGACATG-TTCGGTTTAGGGAGACAT-ATTTCCCA-TAT-GTTTGC--ACGAATGCGAAAACC
454 ACCAACA-GATTC--CTCA---A-TCCTCA---CCCATTATAGGCT-CATACGGACGAGTTCAGT
* * * * * ** * * * * ** * * * ** *
33122843 TCACGAAAAAACAGGTACGA-ATATAT-CTTGAAA--G-CAATC-CAC-TATCCTACACGGTGGC
508 TCAGGGAGACATATTTCCCATATGTTTGCACGAAAGTGAAAACCTCACGAAAAC-ACA-GGT-AC
* ** * * * * * * *
33122901 GAAAACCTCACG-AAG-AAGT-AACT-T-CT-TAC--T-TC---CACTT-AGAAAGTA-TAG-TA
570 GAATATATCCCGAAAGCAA-TCCACTATCCTGCACGATGGCGAAAACTTCACAAAGAAGTAGCT-
* * * * ** * * * * * * * *
33122951 AC--ACATGCAAATATATGCGAAAACATTATAAATTAAATACAATATATATAC-AATAA-AATGC
633 TCTTAC-TTCCACT-TA---GAAAGTATAAT-AA-CACATGCAA-ATGTATGCGAA-AACATTAC
** * * *
33123012 AAA-GCAAT--AA-A-ATGTAAAGGATCACAACCTAAATTAAACCGAATTTTAAATTTTCAACAA
689 AAATTAAATACAACATATATAAAGGATCACAACTTAAATTAAACCAAATTTTAAATTTTCAACAA
* * * * * *
33123072 AAAAATCAAACAA-AAATTGACTTGTGGCCTGAATCTC-AAAAAAAAATCCACAATGGAGTCGCT
754 AAAAACCAAA-AATAAA-CGACTTGTGGCCTGACTCTCTAAAAAAAAGTCAACAGTGGAGTCGCT
* *
33123135 AGGCTAG-CGAAACCATTTTTTTTTGAAAAAAAACAAGTCTCGATCATATTTTGGAAAACACGAA
817 AAGCT-GTCGAAACCA-TTTTTTTT--AAAAAAA-AAGTCTCGATCATATTTTGGAAAACATGAA
* * * **
33123199 AATGGAATCGCCATCAAATTTTTTTT
877 AATAGAGTCGCCA-CTAACATTTTTT
* *
33123225 AAAAAAAAAATAGGTGTGATTGGGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTT
1 ---AAAAAAATAAGTGTGATT-TGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTT
* * *
33123290 GGTCTTTGAAACCATAAAATGGGTTTGGGAGTCAGTTACGAGTAAGGAAGAATTAGCACCCTTAC
62 GGTCTTTGAAACCATTAAATGGGTTCGGGAGTCAGTTACGAG-AAGGAAGGATTAGCACCCTTAC
* *
33123355 ACGCCCAAAAATTGGTACCTAATGCAAGCATGTCATATTTATTTATTATT--AAAGATATTTTTT
126 ACGCCCAAAAATTGGTACCTAATGCATGCATGTCATATTTATTTATT-TTGAAAAAATATTTTTT
* *
33123418 TATGAAAAAAGCTCGTTATTTCGAATTAATCGAGAAAAAAATCACATCCTGTAAGTTAGGACATA
190 TACGAAGAAAGCTCGTTATTTCGAATTAATCGAGAAAAAAATCACATCCTGTAAGTTAGGACATA
* * *
33123483 ACAATTCAAATTTTCAAAAATAACAAGCATTCCTAATTATTATCCAAAAATCTCGTATTTTAACT
255 ACAATTCGAATTTTCGAAAATAACAAGCATTCCTAATTATTATCCCAAAATCTCGTATTTTAACT
* * * * *
33123548 TT-AAAAGGATACTCAAAACAGAGAACCTACGCATCTATTTCGGGTAATAACTAAAAGTACGACA
320 TTAAAAAGGATACTCAAAACAAAGAACCTACACATCTATTTCGGGTAATCACTAAAAGTTCGGCA
* *
33123612 TGGCTCTACCTAGGATAGACACTTAAGGTTCACTATATGTAGTTTGAGTTCTAGAGTAAAGGTAC
385 TGGCTCTACCTAGGATAGGCACCTAAGGTTCACTATATGTAGTTTGAGTTCTAGAGTAAAGGTAC
* *
33123677 CCAAACCAAAAGATTCCTCAATCCTCACCCATTATAGGCTCACACGGACGAGTTC-GATTCAGGG
450 CCAAACCAACAGATTCCTCAATCCTCACCCATTATAGGCTCATACGGACGAGTTCAG-TTCAGGG
* * *
33123741 AGACATATTTCCCATATGTTTGCATGAAAGTGAAAACCTCACGAAAACATAGGTACGTATATATC
514 AGACATATTTCCCATATGTTTGCACGAAAGTGAAAACCTCACGAAAACACAGGTACGAATATATC
* * * **
33123806 CCGAAAGCAATCCATTATCTTGCACGGA-GGC-AAAAATCTCATGAAGAAGTAGCTTCTTACTTC
579 CCGAAAGCAATCCACTATCCTGCAC-GATGGCGAAAACT-TCACAAAGAAGTAGCTTCTTACTTC
* *
33123869 TACTTAGAAAGTATAATAACACATGCAAATGTATGCGAAAACATTACAAATTAAATACAACACAT
642 CACTTAGAAAGTATAATAACACATGCAAATGTATGCGAAAACATTACAAATTAAATACAACATAT
33123934 ATA
707 ATA
33123937 CAATAAAATG
Statistics
Matches: 2896, Mismatches: 392, Indels: 285
0.81 0.11 0.08
Matches are distributed among these distances:
885 45 0.02
886 44 0.02
887 35 0.01
888 1 0.00
889 41 0.01
890 67 0.02
891 24 0.01
892 28 0.01
893 43 0.01
894 16 0.01
895 118 0.04
896 111 0.04
897 566 0.20
898 279 0.10
899 522 0.18
900 57 0.02
901 61 0.02
902 20 0.01
903 17 0.01
904 16 0.01
905 5 0.00
906 11 0.00
907 5 0.00
908 6 0.00
909 10 0.00
910 5 0.00
911 3 0.00
912 1 0.00
915 2 0.00
916 5 0.00
917 5 0.00
918 5 0.00
919 4 0.00
920 8 0.00
921 7 0.00
922 15 0.01
923 9 0.00
924 2 0.00
925 2 0.00
926 76 0.03
927 49 0.02
928 63 0.02
929 118 0.04
930 11 0.00
931 248 0.09
932 76 0.03
933 4 0.00
934 18 0.01
935 4 0.00
936 4 0.00
937 4 0.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (901 bp):
AAAAAAATAAGTGTGATTTGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTGGTC
TTTGAAACCATTAAATGGGTTCGGGAGTCAGTTACGAGAAGGAAGGATTAGCACCCTTACACGCC
CAAAAATTGGTACCTAATGCATGCATGTCATATTTATTTATTTTGAAAAAATATTTTTTTACGAA
GAAAGCTCGTTATTTCGAATTAATCGAGAAAAAAATCACATCCTGTAAGTTAGGACATAACAATT
CGAATTTTCGAAAATAACAAGCATTCCTAATTATTATCCCAAAATCTCGTATTTTAACTTTAAAA
AGGATACTCAAAACAAAGAACCTACACATCTATTTCGGGTAATCACTAAAAGTTCGGCATGGCTC
TACCTAGGATAGGCACCTAAGGTTCACTATATGTAGTTTGAGTTCTAGAGTAAAGGTACCCAAAC
CAACAGATTCCTCAATCCTCACCCATTATAGGCTCATACGGACGAGTTCAGTTCAGGGAGACATA
TTTCCCATATGTTTGCACGAAAGTGAAAACCTCACGAAAACACAGGTACGAATATATCCCGAAAG
CAATCCACTATCCTGCACGATGGCGAAAACTTCACAAAGAAGTAGCTTCTTACTTCCACTTAGAA
AGTATAATAACACATGCAAATGTATGCGAAAACATTACAAATTAAATACAACATATATAAAGGAT
CACAACTTAAATTAAACCAAATTTTAAATTTTCAACAAAAAAACCAAAAATAAACGACTTGTGGC
CTGACTCTCTAAAAAAAAGTCAACAGTGGAGTCGCTAAGCTGTCGAAACCATTTTTTTTAAAAAA
AAAGTCTCGATCATATTTTGGAAAACATGAAAATAGAGTCGCCACTAACATTTTTT
Found at i:33123021 original size:15 final size:15
Alignment explanation
Indices: 33123001--33123030 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33122991 AATATATATA
33123001 CAATAAAATGCAAAG
1 CAATAAAATGCAAAG
*
33123016 CAATAAAATGTAAAG
1 CAATAAAATGCAAAG
33123031 GATCACAACC
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:0.60, C:0.10, G:0.13, T:0.17
Consensus pattern (15 bp):
CAATAAAATGCAAAG
Found at i:33123157 original size:890 final size:892
Alignment explanation
Indices: 33121886--33124041 Score: 2913
Period size: 890 Copynumber: 2.4 Consensus size: 892
33121876 CACCCATTAT
* *
33121886 AGGCTCATACGGACAAGTTCGGTTCATGGAGACATATTTCCCATATGTTTGCACGATTGTGAAAA
1 AGGCTCATACGGACAAGTTCGGTTCAGGGAGACATATTTCCCATATGTTTGCACGAATGTGAAAA
* *
33121951 CCTCATGAAAACACAGGTACGGATATATCTCGAAAGCAATCCACTATCCTGCACGGTGGCGAAAA
66 CCTCACGAAAACACAGGTACGAATATATCTCGAAAGCAATCCACTATCCTGCACGGTGGCGAAAA
*
33122016 CATCACGAAGAAGTAGCTT-TATACTTCCACTTAGAAAGTATAGTAACACATGCAAATGTATGCG
131 CCTCACGAAGAAGTAGCTTCT-TACTTCCACTTAGAAAGTATAGTAACACATGCAAATGTATGCG
* * * *
33122080 AAAATATTACAAATTAAATACAACATATATACAATAAAATGTAAAGTAATAAAATGCAAAGGATC
195 AAAACATTACAAATTAAATACAACATATATACAATAAAATGAAAAGCAATAAAATGTAAAGGATC
*
33122145 ACAA-CTAAAATTAAACCAAATTTTAAATTTTCAACAAAAAAATAAAAAATAATCGACTTGTGGC
260 ACAACCT-AAATTAAACCGAATTTTAAATTTTCAACAAAAAAATAAAAAATAATCGACTTGTGGC
* * *
33122209 CTGACTCTCTAAAAAAAAAGTCAACAGTGGAGTCGCTAAGCTGTTGAAACCATTTTTTTTG-AAA
324 CTGAATCTCTAAAAAAAAAGTCAACAATGGAGTCGCTAAGCTGTCGAAACCATTTTTTTTGAAAA
* * * * *
33122273 AAA-AAGTCTCGATTATATTTTGGAAAACATGAAAATATAGTCGCCA-CTAACTTTTTTT-AAAA
389 AAACAAGTCTCGATCATATTTTGGAAAACACGAAAATAGAATCGCCATCAAACTTTTTTTAAAAA
*
33122335 AAATACGTGTGATT-TGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTGGCCTTT
454 AAATACGTGTGATTGGGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTGGCCTTT
* * * *
33122399 GCAACCATTAAATGGGTTCGGGAGTAAGTTACGAGTAAGGAAGGATTAACACCCTTAGACGCCCA
519 GAAACCATAAAATGGGTTCGGGAGTAAGTTACGAGTAAGGAAGAATTAACACCCTTACACGCCCA
* * * *
33122464 AAAACTGGTGCCTAATGCATGCATGTCTTATTTATTTATT-TTGAAAAAATATTTTTTTACGAAG
584 AAAACTGGTACCTAATGCAAGCATGTCATATTTATTTATTATT--AAAAATATTTTTTTACGAAA
33122528 AAAGCTCGTTATTTCGAACTAATCGAGAAAAAAAATCACAGCCTGTAAGTTAGGACATAACAATT
647 AAAGCTCGTTATTTCGAACTAATCGAG-AAAAAAATCACAGCCTGTAAGTTAGGACATAACAATT
* * *
33122593 CGAATTTTCGAAAATAACAAGCATTCCTAATTATTATCCCAAAATCTCGTATTTTAAATTTAAAA
711 CAAATTTTCAAAAATAACAAGCATTCCTAATTATTATCCAAAAATCTCGTATTTTAAATTT-AAA
* **
33122658 AGGATACT-AAAA-ATGAAGAACCTACAAATCTATTTCGGGTAATCACTAAAAGCT-CGGTATGG
775 AGGATACTCAAAACA-G-AGAACCTACAAATCTATTTCGGGTAATAACTAAAAG-TACGACATGG
* *
33122720 CTCTACCTAGGATAGGCACCTAAGGTTCACTATGTGTAGTTTGAGTTCTAGAGTAA
837 CTCTACCTAGGATAGACACCTAAGGTTCACTATATGTAGTTTGAGTTCTAGAGTAA
* * *
33122776 AGGCTCATACGGACATGTTCGGTTTAGGGAGACATATTTCCCATATGTTTGCACGAATGCGAAAA
1 AGGCTCATACGGACAAGTTCGGTTCAGGGAGACATATTTCCCATATGTTTGCACGAATGTGAAAA
* * *
33122841 CCTCACGAAAAAACAGGTACGAATATATCTTGAAAGCAATCCACTATCCTACACGGTGGCGAAAA
66 CCTCACGAAAACACAGGTACGAATATATCTCGAAAGCAATCCACTATCCTGCACGGTGGCGAAAA
* *
33122906 CCTCACGAAGAAGTAACTTCTTACTTCCACTTAGAAAGTATAGTAACACATGCAAATATATGCGA
131 CCTCACGAAGAAGTAGCTTCTTACTTCCACTTAGAAAGTATAGTAACACATGCAAATGTATGCGA
* * *
33122971 AAACATTATAAATTAAATACAATATATATACAATAAAATGCAAAGCAATAAAATGTAAAGGATCA
196 AAACATTACAAATTAAATACAACATATATACAATAAAATGAAAAGCAATAAAATGTAAAGGATCA
*
33123036 CAACCTAAATTAAACCGAATTTTAAATTTTCAACAAAAAAATCAAACAAA-AATTGACTTGTGGC
261 CAACCTAAATTAAACCGAATTTTAAATTTTCAACAAAAAAAT-AAA-AAATAATCGACTTGTGGC
* *
33123100 CTGAATCTC-AAAAAAAAA-TCCACAATGGAGTCGCTAGGCTAG-CGAAACCATTTTTTTTTGAA
324 CTGAATCTCTAAAAAAAAAGTCAACAATGGAGTCGCTAAGCT-GTCGAAACCA-TTTTTTTTG-A
* *
33123162 AAAAAACAAGTCTCGATCATATTTTGGAAAACACGAAAATGGAATCGCCATCAAATTTTTTTTAA
386 AAAAAACAAGTCTCGATCATATTTTGGAAAACACGAAAATAGAATCGCCATCAAACTTTTTTT--
*
33123227 AAAAAAAATAGGTGTGATTGGGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTGG
449 AAAAAAAATACGTGTGATTGGGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTGG
* * * *
33123292 TCTTTGAAACCATAAAATGGGTTTGGGAGTCAGTTACGAGTAAGGAAGAATTAGCACCCTTACAC
514 CCTTTGAAACCATAAAATGGGTTCGGGAGTAAGTTACGAGTAAGGAAGAATTAACACCCTTACAC
* * *
33123357 GCCCAAAAATTGGTACCTAATGCAAGCATGTCATATTTATTTATTATTAAAGATATTTTTTTATG
579 GCCCAAAAACTGGTACCTAATGCAAGCATGTCATATTTATTTATTATTAAAAATATTTTTTTACG
* *
33123422 AAAAAAGCTCGTTATTTCGAATTAATCGAGAAAAAAATCACATCCTGTAAGTTAGGACATAACAA
644 AAAAAAGCTCGTTATTTCGAACTAATCGAGAAAAAAATCACAGCCTGTAAGTTAGGACATAACAA
*
33123487 TTCAAATTTTCAAAAATAACAAGCATTCCTAATTATTATCCAAAAATCTCGTATTTTAACTTTAA
709 TTCAAATTTTCAAAAATAACAAGCATTCCTAATTATTATCCAAAAATCTCGTATTTTAAATTTAA
**
33123552 AAGGATACTCAAAACAGAGAACCTACGCATCTATTTCGGGTAATAACTAAAAGTACGACATGGCT
774 AAGGATACTCAAAACAGAGAACCTACAAATCTATTTCGGGTAATAACTAAAAGTACGACATGGCT
*
33123617 CTACCTAGGATAGACACTTAAGGTTCACTATATGTAGTTTGAGTTCTAGAGTAA
839 CTACCTAGGATAGACACCTAAGGTTCACTATATGTAGTTTGAGTTCTAGAGTAA
*
33123671 AGGTACCCAAACCAAAAGATTCCTCAATCCTCACCCATTATAGGCTCACACGGACGAGTTCGATT
1 A-G--------------G----CTC-A---T-A--C------GG-----AC--A--AGTTCGGTT
* * * *
33123736 CAGGGAGACATATTTCCCATATGTTTGCATGAAAGTGAAAACCTCACGAAAACATAGGTACGTAT
25 CAGGGAGACATATTTCCCATATGTTTGCACGAATGTGAAAACCTCACGAAAACACAGGTACGAAT
* * * * * * *
33123801 ATATCCCGAAAGCAATCCATTATCTTGCACGGAGGCAAAAATCTCATGAAGAAGTAGCTTCTTAC
90 ATATCTCGAAAGCAATCCACTATCCTGCACGGTGGCGAAAACCTCACGAAGAAGTAGCTTCTTAC
* *
33123866 TTCTACTTAGAAAGTATAATAACACATGCAAATGTATGCGAAAACATTACAAATTAAATACAACA
155 TTCCACTTAGAAAGTATAGTAACACATGCAAATGTATGCGAAAACATTACAAATTAAATACAACA
* *
33123931 CATATACAATAAAATGAAAAGCAATAAAATGCT-AAGGATCACAACTTAAATTAAACCGAATTTT
220 TATATACAATAAAATGAAAAGCAATAAAATG-TAAAGGATCACAACCTAAATTAAACCGAATTTT
*
33123995 AAATTTTCAACAAAAAAAATACCAAAAATAATCGACTAGTGGCCTGA
284 AAATTTTCAAC-AAAAAAATA--AAAAATAATCGACTTGTGGCCTGA
33124042 CTCATTATAG
Statistics
Matches: 1109, Mismatches: 93, Indels: 80
0.87 0.07 0.06
Matches are distributed among these distances:
889 26 0.02
890 296 0.27
891 27 0.02
892 9 0.01
893 38 0.03
894 11 0.01
895 104 0.09
896 99 0.09
897 61 0.06
898 142 0.13
899 2 0.00
910 1 0.00
914 3 0.00
915 1 0.00
918 1 0.00
919 1 0.00
921 1 0.00
927 2 0.00
932 2 0.00
934 1 0.00
936 251 0.23
937 12 0.01
938 18 0.02
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (892 bp):
AGGCTCATACGGACAAGTTCGGTTCAGGGAGACATATTTCCCATATGTTTGCACGAATGTGAAAA
CCTCACGAAAACACAGGTACGAATATATCTCGAAAGCAATCCACTATCCTGCACGGTGGCGAAAA
CCTCACGAAGAAGTAGCTTCTTACTTCCACTTAGAAAGTATAGTAACACATGCAAATGTATGCGA
AAACATTACAAATTAAATACAACATATATACAATAAAATGAAAAGCAATAAAATGTAAAGGATCA
CAACCTAAATTAAACCGAATTTTAAATTTTCAACAAAAAAATAAAAAATAATCGACTTGTGGCCT
GAATCTCTAAAAAAAAAGTCAACAATGGAGTCGCTAAGCTGTCGAAACCATTTTTTTTGAAAAAA
ACAAGTCTCGATCATATTTTGGAAAACACGAAAATAGAATCGCCATCAAACTTTTTTTAAAAAAA
ATACGTGTGATTGGGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTGGCCTTTGA
AACCATAAAATGGGTTCGGGAGTAAGTTACGAGTAAGGAAGAATTAACACCCTTACACGCCCAAA
AACTGGTACCTAATGCAAGCATGTCATATTTATTTATTATTAAAAATATTTTTTTACGAAAAAAG
CTCGTTATTTCGAACTAATCGAGAAAAAAATCACAGCCTGTAAGTTAGGACATAACAATTCAAAT
TTTCAAAAATAACAAGCATTCCTAATTATTATCCAAAAATCTCGTATTTTAAATTTAAAAGGATA
CTCAAAACAGAGAACCTACAAATCTATTTCGGGTAATAACTAAAAGTACGACATGGCTCTACCTA
GGATAGACACCTAAGGTTCACTATATGTAGTTTGAGTTCTAGAGTAA
Found at i:33124295 original size:15 final size:15
Alignment explanation
Indices: 33124275--33124304 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33124265 AACATATAAA
33124275 CAATAAAATGCAAAG
1 CAATAAAATGCAAAG
*
33124290 CAATAAAATGTAAAG
1 CAATAAAATGCAAAG
33124305 GATCACAACT
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:0.60, C:0.10, G:0.13, T:0.17
Consensus pattern (15 bp):
CAATAAAATGCAAAG
Found at i:33124333 original size:338 final size:335
Alignment explanation
Indices: 33123706--33124379 Score: 1019
Period size: 338 Copynumber: 2.0 Consensus size: 335
33123696 AATCCTCACC
* *
33123706 CATTATAGGCTCACACGGACGAGTTCGATTCAGGGAGACATATTTCCCATATGTTTGCATGAAAG
1 CATTATAGGCTCACACGGACGAGTTCGATTCAAGGAGACATATTTCCCATATGTTTGCACGAAAG
* * * *
33123771 TGAAAACCTCACGAAAACATAGGTACGTATATATCCCGAAAGCAATCCATTATCTTGCACGGAGG
66 TGAAAACCTCACGAAAACACAGGTACGAATATATCCCGAAAGCAATCCACTATCCTGCACGGAGG
* * * *
33123836 CAAAAATCTCATGAAGAAGTAGCTTCTTACTTCTACTTAGAAAGTATAATAACACATGCAAATGT
131 CAAAAACCTCACGAAGAAGTAGCTTCTTACTTCCACTTAGAAAGTATAATAACACATGCAAATGA
* *
33123901 ATGCGAAAACATTACAAATTAAATACAACACATATACAATAAAATGAAAAGCAATAAAATGCTAA
196 ATGCCAAAACATTACAAATTAAATACAACACATAAACAATAAAATGAAAAGCAATAAAATGCTAA
*
33123966 GGATCACAACTTAAATTAAACCGAATTTTAAATTTTCAACAAAAAAAATACCAAAAATAATCGAC
261 GGATCACAACTTAAATTAAACCAAATTTTAAATTTTCAAC--AAAAAA-ACCAAAAATAATCGAC
33124031 TAGTGGCCTGACT
323 TAGTGGCCTGACT
** * * *
33124044 CATTATAGGCTCATGCGGAGGTGTTCGGTTCAAGGAGACATATTTCCCATATGTTTGCACGAAAG
1 CATTATAGGCTCACACGGACGAGTTCGATTCAAGGAGACATATTTCCCATATGTTTGCACGAAAG
* ** *
33124109 TGAAAACCTCACGAACACACAGGTACGAATATATTTCGTAAA-CAATCCACTATCCTGCACGGTG
66 TGAAAACCTCACGAAAACACAGGTACGAATATATCCCG-AAAGCAATCCACTATCCTGCACGGAG
* *
33124173 GCAAAAACCTCACGAAGAAGTAGTTTCTTACTTCCACTTAGAAAGTATAGTAACACATGCAAATG
130 GCAAAAACCTCACGAAGAAGTAGCTTCTTACTTCCACTTAGAAAGTATAATAACACATGCAAATG
* *
33124238 AATGCCAAAACATTACAAATTAAATACAACATATAAACAATAAAATGCAAAGCAATAAAATG-TA
195 AATGCCAAAACATTACAAATTAAATACAACACATAAACAATAAAATGAAAAGCAATAAAATGCT-
* * *
33124302 AAGGATCACAACTTAAATTATACCAAATTTTAAATTTTCAACAAGAAAACCAAAAATTATCGACT
259 AAGGATCACAACTTAAATTAAACCAAATTTTAAATTTTCAACAAAAAAACCAAAAATAATCGACT
*
33124367 TGTGGCCTGACT
324 AGTGGCCTGACT
33124379 C
1 C
33124380 TCTAAAAAAA
Statistics
Matches: 304, Mismatches: 30, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
335 28 0.09
336 5 0.02
337 1 0.00
338 267 0.88
339 3 0.01
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.25
Consensus pattern (335 bp):
CATTATAGGCTCACACGGACGAGTTCGATTCAAGGAGACATATTTCCCATATGTTTGCACGAAAG
TGAAAACCTCACGAAAACACAGGTACGAATATATCCCGAAAGCAATCCACTATCCTGCACGGAGG
CAAAAACCTCACGAAGAAGTAGCTTCTTACTTCCACTTAGAAAGTATAATAACACATGCAAATGA
ATGCCAAAACATTACAAATTAAATACAACACATAAACAATAAAATGAAAAGCAATAAAATGCTAA
GGATCACAACTTAAATTAAACCAAATTTTAAATTTTCAACAAAAAAACCAAAAATAATCGACTAG
TGGCCTGACT
Found at i:33125222 original size:15 final size:14
Alignment explanation
Indices: 33125201--33125239 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
33125191 CAATAAATAT
33125201 ACAATAAAATGAAA
1 ACAATAAAATGAAA
*
33125215 AGCAATAAAATGCAA
1 A-CAATAAAATGAAA
33125230 A-AATAAAATG
1 ACAATAAAATG
33125240 CGAAGGATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 9 0.39
14 1 0.04
15 13 0.57
ACGTcount: A:0.67, C:0.08, G:0.10, T:0.15
Consensus pattern (14 bp):
ACAATAAAATGAAA
Found at i:33126308 original size:15 final size:15
Alignment explanation
Indices: 33126288--33126317 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33126278 AACATATATA
33126288 CAATAAAATGCAAAG
1 CAATAAAATGCAAAG
*
33126303 CAATAAAATGTAAAG
1 CAATAAAATGCAAAG
33126318 GATCACAATT
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:0.60, C:0.10, G:0.13, T:0.17
Consensus pattern (15 bp):
CAATAAAATGCAAAG
Found at i:33127234 original size:15 final size:14
Alignment explanation
Indices: 33127213--33127251 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
33127203 CAACACATAT
33127213 ACAATAAAATGAAA
1 ACAATAAAATGAAA
*
33127227 AGCAATAAAATGCAA
1 A-CAATAAAATGAAA
33127242 A-AATAAAATG
1 ACAATAAAATG
33127252 CTAAGGATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 9 0.39
14 1 0.04
15 13 0.57
ACGTcount: A:0.67, C:0.08, G:0.10, T:0.15
Consensus pattern (14 bp):
ACAATAAAATGAAA
Found at i:33128176 original size:15 final size:15
Alignment explanation
Indices: 33128156--33128184 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
33128146 ACATATATAT
33128156 AATAAAATGCAAAGC
1 AATAAAATGCAAAGC
33128171 AATAAAATGCAAAG
1 AATAAAATGCAAAG
33128185 GATCACAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.10, G:0.14, T:0.14
Consensus pattern (15 bp):
AATAAAATGCAAAGC
Found at i:33128783 original size:933 final size:930
Alignment explanation
Indices: 33125874--33132164 Score: 8533
Period size: 933 Copynumber: 6.8 Consensus size: 930
33125864 GAGTTCTATC
* *
33125874 ATCCCAAAATCTCGTATTTTAAATTTAAAAAGGA-ATCTCAAAATAAAGAACCTACGCATCTATT
1 ATCCCAAAATCTCGTATTTTAACTTTAAAAAGGATA-CTCAAAACAAAGAACCTACGCATCTATT
** * * * * * * *
33125938 TCGGGTAATCACTAAAAGCGCGACATGGCTCTATCTAGCATAGGCACCTAAGGTTTATTTTATGC
65 TCGGGTAATCACTAAAAGTTCGGCATGGCTCTACCTAGGATAGGCACCTAAGGTTCACTATATGT
* * *
33126003 AGTTTGAGTTCTAGAGTAAAGGTATCCAAACCTGA-ATATTCCTCAATCCTCACCCATTATAGGC
130 AGTTTGAGTTCTAGAGTAAAGGTACCCAAACC-AACAGATTCCTCAATCCTCACCCATTATAGGC
* * *
33126067 TCATACAGACGAGTTCGGTTCAGGGAGACATATTTCCCATATGTTTACACGAAAGTGAAAACCTC
194 TCATACGGACGAGTTCAGTTCAGGGAGACATATTTCCCATATGTTTGCACGAAAGTGAAAACCTC
* * *
33126132 ACGAAAACACAGGTACGGATATATTTCGAAAGCAATCCACTATCCTACACGGTGGCGAAAACGTC
259 ACGAAAACACAGGTACGGATATATCTCGAAAGCAATCCACTATCCTGCACGGTGGCGAAAACCTC
** *
33126197 ATAAAGAAGTAGCTTCTTACTTCCACTTAGAAAGTATTGTAACACATGCAAATGAATGCGAAAAC
324 ACGAAGAAGTAGCTTCTTACTTCCACTTAGAAAGTATAGTAACACATGCAAATGAATGCGAAAAC
* *
33126262 ATTACAAATTAAATACAACATATATACAATAAAATGCAAAGCAATAAAATGTAAAGGATCACAAT
389 ATTACAAATTAAATACAACATATATACAATAAAATGCAAAGCAATAAAATGCAAAGGATCACAAC
* * * * * *
33126327 TTAAATTAAACTGAAATTTAAATTTTCAATAAGAAAACCAAAAATTATCGACTTGTGGCTTGACT
454 TTAAATTAAACCGAATTTTAAATTTTCAACAAAAAAACCAAAAATAATCGACTTGTGGCCTGACT
* * * *
33126392 CTCTAAAAAAAAGTCCCCAGTGGAGTCGCTAAGCAATCGAAA-AATTTTTTTT-GAAAAAAAAGA
519 CTCT-AAAAAAAGT-CCCAGTGGAGTCGCTAAGCTATCGAAACCATTTTTTTTAAAAAAAAAAGT
* * * * * *
33126455 ATCGAATATATCTGGGAAAACACGAAAATGGAGTCGCCGCTAAC-TTTTTTT-AAAAAATAAGTG
582 CTCGATTATATTTTGGAAAACACGAAAATGGAGTCGCCACTAACTTTTTTTTAAAAAAATAGGTG
* * * *
33126518 TGATT-TGTAACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTGATCTCTGAAACCATA
647 TGATTGGGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTGGTCTTTGAAACCATA
* * * * **
33126582 AAATGGGTTCAGGAGTCAATTACGAGCAAGGAATG-ATTAACACCCTTACACACTAAAAAATTGG
712 AAATGGGTTC-GGAGTCAGTTACGAGTAAGGAA-GAATTAGCACCCTTACACGCCCAAAAATTGG
* *
33126646 TACCTAATGCATGTATGTCATATTTATTTATTTTGAAAAAATATTTTTTTACAAAGAAAGCTCGT
775 TACCTAATGCATGCATGTCATATTTATTTATTTTGAAAAAATATTTTTTTACGAAGAAAGCTCGT
*
33126711 TTTTTCGAATTAATCGTG-AAAAAAATCACATCCTGTAA-TTAGGACATAACAATTC-AATATTT
840 TTTTTCGAATTAATCGAGAAAAAAAATCACATCCTGTAAGTTAGGACATAACAATTCGAAT-TTT
* **
33126773 CGAAAATAGCAAGCATTTCTAACAATT
904 CGAAAATAGCAAGCATTCCTAATTATT
* * *
33126800 ATCCAAAAATCTCGTATTTTAACTTTAAGAAGGATACTCAAAACAAAGGACCTACGCATCTATTT
1 ATCCCAAAATCTCGTATTTTAACTTTAAAAAGGATACTCAAAACAAAGAACCTACGCATCTATTT
* * * *
33126865 CGGATAATCACTAAAAGTTCGGCATGGCTCCACCTAAGATAGGCACCTAAGGTTCACTATATGTT
66 CGGGTAATCACTAAAAGTTCGGCATGGCTCTACCTAGGATAGGCACCTAAGGTTCACTATATGTA
* * *
33126930 GTTTGAGTTCTAGAGTAAAGATACCCAAACGAAAAGATTCCTCAATCCTCACCCATTATAGGCTC
131 GTTTGAGTTCTAGAGTAAAGGTACCCAAACCAACAGATTCCTCAATCCTCACCCATTATAGGCTC
* * * * *
33126995 ATACGGACGAATTCGGTTTAGGGAGACATATTTCCCATATGTTTGCACGAAAGTGAAACCCTCAT
196 ATACGGACGAGTTCAGTTCAGGGAGACATATTTCCCATATGTTTGCACGAAAGTGAAAACCTCAC
* * * * * ** * *
33127060 GAAAACACAAGTACAGATATATCCCGAAAGTAATCCATTATCCTAAACGGAGGCAAAAACCTCAC
261 GAAAACACAGGTACGGATATATCTCGAAAGCAATCCACTATCCTGCACGGTGGCGAAAACCTCAC
* * ** *
33127125 AAAGAAGTAGCTTTTTACTTCCACTTAGAAAGTATAACAACACATGCAAATGTATGCGAAAACAT
326 GAAGAAGTAGCTTCTTACTTCCACTTAGAAAGTATAGTAACACATGCAAATGAATGCGAAAACAT
* *
33127190 TACAAATTAAATACAACACATATACAATAAAATGAAAAGCAATAAAATGCAAAAATAAAATGCTA
391 TACAAATTAAATACAACATATATACAATAAAAT-----GC----AAA-GC---AATAAAATGCAA
33127255 AGGATCACAACTTAAATTAAACCGAATTTTAAATTTTCAACAAAAAAATACC-AAAATAATCGAC
443 AGGATCACAACTTAAATTAAACCGAATTTTAAATTTTCAAC-AAAAAA-ACCAAAAATAATCGAC
** * * *
33127319 TACTGGCCTGACTCT-AAAAAAAAGTCCCAGTGGAGTCACCAAGCTATCGAAACCA-TTTTTTT-
506 TTGTGGCCTGACTCTCTAAAAAAAGTCCCAGTGGAGTCGCTAAGCTATCGAAACCATTTTTTTTA
* * * * *
33127381 GAAAAAAAAGTCTCAATTATATTTTGGAAAACACGAAAATGGAGTCGCC-GTCAACCTTTTTCTA
571 AAAAAAAAAGTCTCGATTATATTTTGGAAAACACGAAAATGGAGTCGCCACT-AACTTTTTTTTA
* * *
33127445 TAAAAATTGGTGTGATTGGGTCACCTTTTAAAAAGTTTTAAAATCATTAAATACAAATTTTGGTC
635 AAAAAATAGGTGTGATTGGGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTGGTC
** *
33127510 TTTGAAACCATAAAATGATTTTGGGAGTCAGTTACGAGTAAGGAAGAATTAGCACCCTTACACGC
700 TTTGAAACCATAAAATG-GGTTCGGAGTCAGTTACGAGTAAGGAAGAATTAGCACCCTTACACGC
*
33127575 CCAAAAATTGGTACCTAATGCATGCATGTCATATTTATTTATTTTTAAAAAATA-TTTTTTACGA
764 CCAAAAATTGGTACCTAATGCATGCATGTCATATTTATTTATTTTGAAAAAATATTTTTTTACGA
* * *
33127639 AGAAAGCTCATTATTTCAAATTAATCGAG-AAAAAAATCACATCCTGTAAGTTAGGACATAACAA
829 AGAAAGCTCGTTTTTTCGAATTAATCGAGAAAAAAAATCACATCCTGTAAGTTAGGACATAACAA
33127703 TTCGAAATTTTCGAAAATAGCAAGCATTCCTAATTATT
894 TTCG-AATTTTCGAAAATAGCAAGCATTCCTAATTATT
** * * * *
33127741 ATCTTAAAATCTCATATTTTAACTTTAAAAAGGATACTCATATCAAAGAACCTACGCATTTATTT
1 ATCCCAAAATCTCGTATTTTAACTTTAAAAAGGATACTCAAAACAAAGAACCTACGCATCTATTT
* * *
33127806 CGGGTAGTCACTAAAAGTTCGGCATGGCTCTCCCTAGGATAGGCACCTAAGGTTCATTATATGTA
66 CGGGTAATCACTAAAAGTTCGGCATGGCTCTACCTAGGATAGGCACCTAAGGTTCACTATATGTA
* * *
33127871 GTTTGAGTTCTAGAGTAAAGGTATCCAAACTAATAGATTCCTCAATCCTCACCCATTATAGGCTC
131 GTTTGAGTTCTAGAGTAAAGGTACCCAAACCAACAGATTCCTCAATCCTCACCCATTATAGGCTC
* * * * * *
33127936 ATACGGACGACTTCAGTTTAGGGAGACATATTTCCCATATATTTGTACGAAAGTGAAAACCTAAA
196 ATACGGACGAGTTCAGTTCAGGGAGACATATTTCCCATATGTTTGCACGAAAGTGAAAACCTCAC
* *
33128001 GAAAACACAGGTACGGATATATCTCGAAAGCAATCCACTATCCTGCACGGTGGCAAAAACCTTAC
261 GAAAACACAGGTACGGATATATCTCGAAAGCAATCCACTATCCTGCACGGTGGCGAAAACCTCAC
*
33128066 GATGAAGTAGCTTCTTACTTCCACTTAGAAAGTATAGTAACACATGCAAATGAATGCGAAAACAT
326 GAAGAAGTAGCTTCTTACTTCCACTTAGAAAGTATAGTAACACATGCAAATGAATGCGAAAACAT
* *
33128131 TACAAATGAAATACAACATATATATAATAAAATGCAAAGCAATAAAATGCAAAGGATCACAACTT
391 TACAAATTAAATACAACATATATACAATAAAATGCAAAGCAATAAAATGCAAAGGATCACAACTT
* * *
33128196 AAATTAAACCAAATTTTAAATTTTCAACAAAAAAATCAAAAATTATCGACTTGTGGCCTGACTCT
456 AAATTAAACCGAATTTTAAATTTTCAACAAAAAAACCAAAAATAATCGACTTGTGGCCTGACTCT
* * **
33128261 CTAAAAAATAGTCCCAGTAGAGTCGCTAAGCAATCGAAACCATTTTTTAAAAAAAAAACACAAGT
521 CTAAAAAA-AGTCCCAGTGGAGTCGCTAAGCTATCGAAACCATTTTTT-TTAAAAAAA-A-AAGT
*
33128326 CTCGATTATATTTTGGAAAACACAAAAATGGAGTCGCCACTAACTTTTTTTTAAAAAAATAGGTG
582 CTCGATTATATTTTGGAAAACACGAAAATGGAGTCGCCACTAACTTTTTTTTAAAAAAATAGGTG
* * * * *
33128391 TGATT-TGTCATCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTGATCTCTAAAACCATA
647 TGATTGGGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTGGTCTTTGAAACCATA
* * *
33128455 AAATGGGTTCGGAAGTCAGTTACGAATAAGGAAGGATTAGCACCCTTACACGCCTAAAAATTGGT
712 AAATGGGTTCGG-AGTCAGTTACGAGTAAGGAAGAATTAGCACCCTTACACGCCCAAAAATTGGT
* * *
33128520 TCCTAATGCATGCATGTCATATTTATTTATTTT-AAAAAATATGTTTTTTACGGAGAAAGCTCAT
776 ACCTAATGCATGCATGTCATATTTATTTATTTTGAAAAAATAT-TTTTTTACGAAGAAAGCTCGT
33128584 TTTTTCGAATTAATCGAG-AAAAAAATCACATCCTGTAAGTTAGGACATAACAATTC-AAGTTTT
840 TTTTTCGAATTAATCGAGAAAAAAAATCACATCCTGTAAGTTAGGACATAACAATTCGAA-TTTT
33128647 CGAAAATAGCAAGCATTCCTAATTATT
904 CGAAAATAGCAAGCATTCCTAATTATT
* *
33128674 ATCCCAAAATCTCGTATTTTAACTTTAAAAATGATACTCAAAACAAAGAATCTACGCATCTATTT
1 ATCCCAAAATCTCGTATTTTAACTTTAAAAAGGATACTCAAAACAAAGAACCTACGCATCTATTT
*
33128739 CGGGTAATCACTAAAAGTTCGGCATGGCTCTACCTAGTATAGGCACCTAAGGTTCACTATATGTA
66 CGGGTAATCACTAAAAGTTCGGCATGGCTCTACCTAGGATAGGCACCTAAGGTTCACTATATGTA
* * * *
33128804 GTTTGAGTTCTAGGGTAAAGGTACGCAAACCAACAAATTTCTCAATCCTCACCCATTATAGGCTC
131 GTTTGAGTTCTAGAGTAAAGGTACCCAAACCAACAGATTCCTCAATCCTCACCCATTATAGGCTC
* * *
33128869 ATACGGACGAGTTC-GATTCAAGGAGACATATTTCGCATATGTTTGCAGGAAAGTGAAAACCTCA
196 ATACGGACGAGTTCAG-TTCAGGGAGACATATTTCCCATATGTTTGCACGAAAGTGAAAACCTCA
* * * * * * * *
33128933 TGAAGACACAGGTACGGATATATATCAAAAGCAATCCACTGTGCTGCACGGTGGCGAAAAGCTAA
260 CGAAAACACAGGTACGGATATATCTCGAAAGCAATCCACTATCCTGCACGGTGGCGAAAACCTCA
* * * *
33128998 CGAAGAAGTAGCTTCTTACTTCCACATAAAAAGTATAGTAAGACATGCAAATGTATGCGAAAACA
325 CGAAGAAGTAGCTTCTTACTTCCACTTAGAAAGTATAGTAACACATGCAAATGAATGCGAAAACA
*
33129063 TTACAAATTAAACACAACATATATACAATAAAAT-----G-------A---AAAGGATCACAACT
390 TTACAAATTAAATACAACATATATACAATAAAATGCAAAGCAATAAAATGCAAAGGATCACAACT
* * *
33129113 AAAATTAAACCGAATTTTAAATTTTCATCAAAAAATCCAAAAATAATCGACTTGTGGCCTGACTC
455 TAAATTAAACCGAATTTTAAATTTTCAACAAAAAAACCAAAAATAATCGACTTGTGGCCTGACTC
* * * **
33129178 TCTGAAAAAAAAAGTCAACAGTGGAGTCGCTAAGCTGTCGAAACTATTTTTTTTTGAAAAAAAA-
520 TCT---AAAAAAAGTC-CCAGTGGAGTCGCTAAGCTATCGAAACCATTTTTTTTAAAAAAAAAAG
* ** * *
33129242 TCTCGATTATATTTTGGAAAACATGAAAATATAGTCGCCACTAACTTTTTTAT-AAAAAATACGT
581 TCTCGATTATATTTTGGAAAACACGAAAATGGAGTCGCCACTAACTTTTTTTTAAAAAAATAGGT
* * * * *
33129306 GTGCTT-TGTCCCCTTTTAAAAAGTTTTAAAATCATTAAAAATAAATTTTGGTCTCTGAAACCAT
646 GTGATTGGGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTGGTCTTTGAAACCAT
* * * * * *
33129370 TAAATGGGTTTAGGAGTCAGTTACGAGTAAGGAAGGACTAGCACCCTTACATGCCCAAAAACTGG
711 AAAATGGG-TTCGGAGTCAGTTACGAGTAAGGAAGAATTAGCACCCTTACACGCCCAAAAATTGG
*
33129435 TACCTAATGCATGCATGTCATATTTATTTATTTTTAAAAAATATTTTTTTACGAAGAAAGCTCGT
775 TACCTAATGCATGCATGTCATATTTATTTATTTTGAAAAAATATTTTTTTACGAAGAAAGCTCGT
* * * *
33129500 TATTTCGAACTAATCGAGAAAAAAAATCACATCCTATAAGTTACGACATAACAATTCGAATTTTC
840 TTTTTCGAATTAATCGAGAAAAAAAATCACATCCTGTAAGTTAGGACATAACAATTCGAATTTTC
*
33129565 AAAAATAGCAAGCATTCCTAATTATT
905 GAAAATAGCAAGCATTCCTAATTATT
* * * * **
33129591 ATCTCAAAATCTCCTATTTTAAATTTAAAAAGGATACT-AAAAAATGAAGAACCTACAAATCTAT
1 ATCCCAAAATCTCGTATTTTAACTTTAAAAAGGATACTCAAAACA--AAGAACCTACGCATCTAT
* *
33129655 TTCCGGTAATTACTAAAAGTTCGGCATGGCTCTACCTAGGATAGGCACCTAAGGTTCACTATATG
64 TTCGGGTAATCACTAAAAGTTCGGCATGGCTCTACCTAGGATAGGCACCTAAGGTTCACTATATG
* * * *
33129720 TAGTTTGAGTTCTAGAGTAAAGGTACCCAAATCAGCAGATTCCTCAATCCTAACTCATTATAGGC
129 TAGTTTGAGTTCTAGAGTAAAGGTACCCAAACCAACAGATTCCTCAATCCTCACCCATTATAGGC
* * * *
33129785 TCATACAGACGTGTTCAGTTCATGGAAACATATTTCCCATATGTTTGCACGAAAGTGAAAACCTC
194 TCATACGGACGAGTTCAGTTCAGGGAGACATATTTCCCATATGTTTGCACGAAAGTGAAAACCTC
* *
33129850 ACGAAAACACAGGTACAGATATATCTCGAAAGCAATCCACTATTCTGCACGGTGGCGAAAACCTC
259 ACGAAAACACAGGTACGGATATATCTCGAAAGCAATCCACTATCCTGCACGGTGGCGAAAACCTC
*
33129915 ACGAAGAAGTAGCTTCTTACTTCCACTTAGAAAGTATAGTAACACATGCAAAT-ATATGAGAAAA
324 ACGAAGAAGTAGCTTCTTACTTCCACTTAGAAAGTATAGTAACACATGCAAATGA-ATGCGAAAA
* * *
33129979 CATTACAAATTAAATACAATATATGTACAATAAAATGCAAAGTAATAAAATGCAAAGGATCACAA
388 CATTACAAATTAAATACAACATATATACAATAAAATGCAAAGCAATAAAATGCAAAGGATCACAA
* *
33130044 CTTAAATTAAACTGAATTTTAAATTTTCAAC-AAAAAACCAAAAATAATCGACTTGTGGCCTGAT
453 CTTAAATTAAACCGAATTTTAAATTTTCAACAAAAAAACCAAAAATAATCGACTTGTGGCCTGAC
* ** * *
33130108 TCTCTAAAAAAAATCCACAGTGGAGTCGCTAAGCTGGCGAAACCATTTTTTTGAGAAAAAACAAG
518 TCTCTAAAAAAAGTCC-CAGTGGAGTCGCTAAGCTATCGAAACCATTTTTTTTA-AAAAAAAAAG
* ** * **
33130173 TCTCGATTATATTTTGGAAAACATGAAAACAGAGTCGCCACCAACTTTTTTAAAAAAAAATAGGT
581 TCTCGATTATATTTTGGAAAACACGAAAATGGAGTCGCCACTAACTTTTTTTTAAAAAAATAGGT
* * *
33130238 GTGATTGAGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTGGTATTTGAAAACAT
646 GTGATTGGGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTGGTCTTTGAAACCAT
* *
33130303 AAAATGGGTTC---G---G----GA--AAGGAAGAATTAGCACCCTTACACACCCAAAAATTGGA
711 AAAATGGGTTCGGAGTCAGTTACGAGTAAGGAAGAATTAGCACCCTTACACGCCCAAAAATTGGT
***
33130356 ACCTAATGCATGCATGTCATATTTATTTATTTTGAAAAAA-A--AAATTACGAAGAAAGCTCGTT
776 ACCTAATGCATGCATGTCATATTTATTTATTTTGAAAAAATATTTTTTTACGAAGAAAGCTCGTT
*
33130418 ATTTT-GAATTAATTGAGAAAAAAAATCACATCCTGTAAGTTAGGACATAACAATTCGAATTTTC
841 -TTTTCGAATTAATCGAGAAAAAAAATCACATCCTGTAAGTTAGGACATAACAATTCGAATTTTC
* *
33130482 AAAAATAGCAAACATTCCTAATTATT
905 GAAAATAGCAAGCATTCCTAATTATT
* *
33130508 ATCCCAAAATCCCGTATTTTAAATTTAAAAAGGATACTCAAAACAAAGAACCTACGCATCTATTT
1 ATCCCAAAATCTCGTATTTTAACTTTAAAAAGGATACTCAAAACAAAGAACCTACGCATCTATTT
* * *
33130573 CGGGTAATCACTAAAAGTTCGACTTGGCTCTACCTAGGATAGGCACCTAAGGTTCACTATATATA
66 CGGGTAATCACTAAAAGTTCGGCATGGCTCTACCTAGGATAGGCACCTAAGGTTCACTATATGTA
* *
33130638 GTTTGAGTTCTAGAGTAAAGGTACCAAAACCAGCAGATTCCTCAATCCTCACCCATTATAGGCTC
131 GTTTGAGTTCTAGAGTAAAGGTACCCAAACCAACAGATTCCTCAATCCTCACCCATTATAGGCTC
* * * *
33130703 ATACGGATGAGTTCAGTTCAGGAAGACATATTTCCCACATGTTTGCATGAAAGTGAAAACCTCAC
196 ATACGGACGAGTTCAGTTCAGGGAGACATATTTCCCATATGTTTGCACGAAAGTGAAAACCTCAC
* *
33130768 GAAAATACAGGTACGGATATATCTCGAAAGCAATCCACTATCCTGCACGGTGGCAAAAACCTCAC
261 GAAAACACAGGTACGGATATATCTCGAAAGCAATCCACTATCCTGCACGGTGGCGAAAACCTCAC
*
33130833 GAAGAAGTAGCTTCTTACTTCCACTTAGAAAGTATAATAACACATGCAAATGAATGCGAAAACAT
326 GAAGAAGTAGCTTCTTACTTCCACTTAGAAAGTATAGTAACACATGCAAATGAATGCGAAAACAT
* * *
33130898 TACAAATTAAATACAACATATATACAAGAAAATGCAAAGTAATAAAATGCAAAGGATCACAATTT
391 TACAAATTAAATACAACATATATACAATAAAATGCAAAGCAATAAAATGCAAAGGATCACAACTT
33130963 AAATTAAACCGAATTTTAAATTTTCAACAAAAAAACCAAAAATAATCGACTTGTGGCCTGACTCT
456 AAATTAAACCGAATTTTAAATTTTCAACAAAAAAACCAAAAATAATCGACTTGTGGCCTGACTCT
* ** * * * * * *
33131028 CTAAAAAAAGTCCCCAATGGAACCCCTAAGCAATCGAAACCATTTTTTTGAAAAGAATAA-TTTC
521 CTAAAAAAAGT-CCCAGTGGAGTCGCTAAGCTATCGAAACCATTTTTTTTAAAAAAAAAAGTCTC
* * * *
33131092 GATTATATTTGGGAAAACACAAAAAAGGAGTCGCCACTAAC-TTTTTTTAAAAAAATTAGTTGTG
585 GATTATATTTTGGAAAACACGAAAATGGAGTCGCCACTAACTTTTTTTTAAAAAAA-TAGGTGTG
*
33131156 ATTGGGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAAATTTGGTCTTTGAAACCATAAA
649 ATTGGGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTGGTCTTTGAAACCATAAA
** * *
33131221 ATGAATTCGGGAGTCAGTTACGAGTAAGGAAGAATTAGCACCCTTACACACCTAAAAATTGGTAC
714 ATGGGTTC-GGAGTCAGTTACGAGTAAGGAAGAATTAGCACCCTTACACGCCCAAAAATTGGTAC
* **
33131286 CTAATGCATGCATGTCATATTTATTTATTTTGAAAAAATATTTTTTTATGAAGAAAGCTTTTTTT
778 CTAATGCATGCATGTCATATTTATTTATTTTGAAAAAATATTTTTTTACGAAGAAAGCTCGTTTT
* * * *
33131351 TTCGAATTAACCGAGAAAAAAAAT-ACATCTTGTAAGTTAGAACATAACAATTCGAGTTTTCGAA
843 TTCGAATTAATCGAGAAAAAAAATCACATCCTGTAAGTTAGGACATAACAATTCGAATTTTCGAA
33131415 AATAGCAAGCATTCCTAATTATT
908 AATAGCAAGCATTCCTAATTATT
* *
33131438 ATCCCAAAATCTCGTATTTTAACTTTAAAAAGGATACTCAAAACAAATAACCTACGCGTCTATTT
1 ATCCCAAAATCTCGTATTTTAACTTTAAAAAGGATACTCAAAACAAAGAACCTACGCATCTATTT
* *
33131503 CGCGTAATCACTAAAAGTTCGGCATGGCTCTACCTAGGATAGGCACCTAAGGTTCATTATATGTA
66 CGGGTAATCACTAAAAGTTCGGCATGGCTCTACCTAGGATAGGCACCTAAGGTTCACTATATGTA
* * *
33131568 GTTTGAGTTCTATAGTAAAGGTACCCAAACCAGCAGATTCTTCAATCCTCACCCATTATAGGCTC
131 GTTTGAGTTCTAGAGTAAAGGTACCCAAACCAACAGATTCCTCAATCCTCACCCATTATAGGCTC
* *
33131633 ATACGGACGAGTTC-GATTCAGGGAGACATATTTCCAATATGTTTGGAC-AGAAGTGAAAACCTC
196 ATACGGACGAGTTCAG-TTCAGGGAGACATATTTCCCATATGTTTGCACGA-AAGTGAAAACCTC
* * * * * * * * * *
33131696 ACAAAAATACAGGTACGGATATGTCCCGAAAGCAATCTATTATCCTACACGGAGGTGAAAACCTG
259 ACGAAAACACAGGTACGGATATATCTCGAAAGCAATCCACTATCCTGCACGGTGGCGAAAACCTC
* * *
33131761 AGGAAGAAGGAGCTTCTTACTTCCACTTAGAAAGTATAATAACACATGCAAATGAATGCGAAAAC
324 ACGAAGAAGTAGCTTCTTACTTCCACTTAGAAAGTATAGTAACACATGCAAATGAATGCGAAAAC
* * * * *
33131826 ATTAC-AATACAACATATAGACAATAAAATTCAAAGAAATAAAATGCAAAGCAATAAAATGCTAA
389 ATTACAAAT-TAA-ATACA-AC-AT---A-T-ATA-CAATAAAATGCAAAGCAATAAAATGCAAA
* *
33131890 GGATCACAATTTAAATTATACCGAATTTTAAATTTTCAACCAAAAAAAACCAAAAATAATC-ATC
444 GGATCACAACTTAAATTAAACCGAATTTTAAATTTTCAA-C-AAAAAAACCAAAAATAATCGA-C
* * * **
33131954 TTGTGGCCTGACTCTCTAAAAAAAATCCACAGTAGAGTCG-TCAAGCTGTTAAAACCATTTTTTT
506 TTGTGGCCTGACTCTCTAAAAAAAGTCC-CAGTGGAGTCGCT-AAGCTATCGAAACCATTTTTTT
* * * * * *
33132018 TGAAAAAAAAAGTCTCAATTATATTTTGAAAAACACGAAAATGGAGTCGCCACCAACCTTTTTCT
569 TAAAAAAAAAAGTCTCGATTATATTTTGGAAAACACGAAAATGGAGTCGCCACTAACTTTTTTTT
*
33132083 AAAAAAATATGTGTGATTGGGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTGGT
634 AAAAAAATAGGTGTGATTGGGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTGGT
*
33132148 CTTTGAAACCATGAAAT
699 CTTTGAAACCATAAAAT
33132165 TGATACCTAA
Statistics
Matches: 4761, Mismatches: 489, Indels: 214
0.87 0.09 0.04
Matches are distributed among these distances:
914 12 0.00
915 112 0.02
916 607 0.13
917 370 0.08
918 428 0.09
919 4 0.00
920 80 0.02
921 37 0.01
922 3 0.00
923 1 0.00
925 1 0.00
926 378 0.08
927 31 0.01
928 134 0.03
929 78 0.02
930 436 0.09
931 91 0.02
932 78 0.02
933 649 0.14
934 139 0.03
935 4 0.00
936 6 0.00
937 78 0.02
938 18 0.00
939 179 0.04
940 195 0.04
941 487 0.10
942 112 0.02
943 13 0.00
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (930 bp):
ATCCCAAAATCTCGTATTTTAACTTTAAAAAGGATACTCAAAACAAAGAACCTACGCATCTATTT
CGGGTAATCACTAAAAGTTCGGCATGGCTCTACCTAGGATAGGCACCTAAGGTTCACTATATGTA
GTTTGAGTTCTAGAGTAAAGGTACCCAAACCAACAGATTCCTCAATCCTCACCCATTATAGGCTC
ATACGGACGAGTTCAGTTCAGGGAGACATATTTCCCATATGTTTGCACGAAAGTGAAAACCTCAC
GAAAACACAGGTACGGATATATCTCGAAAGCAATCCACTATCCTGCACGGTGGCGAAAACCTCAC
GAAGAAGTAGCTTCTTACTTCCACTTAGAAAGTATAGTAACACATGCAAATGAATGCGAAAACAT
TACAAATTAAATACAACATATATACAATAAAATGCAAAGCAATAAAATGCAAAGGATCACAACTT
AAATTAAACCGAATTTTAAATTTTCAACAAAAAAACCAAAAATAATCGACTTGTGGCCTGACTCT
CTAAAAAAAGTCCCAGTGGAGTCGCTAAGCTATCGAAACCATTTTTTTTAAAAAAAAAAGTCTCG
ATTATATTTTGGAAAACACGAAAATGGAGTCGCCACTAACTTTTTTTTAAAAAAATAGGTGTGAT
TGGGTCACCTTTTAAAAAGTTTTAAAATCATTAAAAACAAATTTTGGTCTTTGAAACCATAAAAT
GGGTTCGGAGTCAGTTACGAGTAAGGAAGAATTAGCACCCTTACACGCCCAAAAATTGGTACCTA
ATGCATGCATGTCATATTTATTTATTTTGAAAAAATATTTTTTTACGAAGAAAGCTCGTTTTTTC
GAATTAATCGAGAAAAAAAATCACATCCTGTAAGTTAGGACATAACAATTCGAATTTTCGAAAAT
AGCAAGCATTCCTAATTATT
Found at i:33130027 original size:15 final size:15
Alignment explanation
Indices: 33130007--33130035 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
33129997 ATATATGTAC
33130007 AATAAAATGCAAAGT
1 AATAAAATGCAAAGT
33130022 AATAAAATGCAAAG
1 AATAAAATGCAAAG
33130036 GATCACAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.07, G:0.14, T:0.17
Consensus pattern (15 bp):
AATAAAATGCAAAGT
Found at i:33131867 original size:15 final size:15
Alignment explanation
Indices: 33131847--33131886 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
33131837 ACATATAGAC
*
33131847 AATAAAATTCAAAGA
1 AATAAAATGCAAAGA
*
33131862 AATAAAATGCAAAGC
1 AATAAAATGCAAAGA
33131877 AATAAAATGC
1 AATAAAATGC
33131887 TAAGGATCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.17
Consensus pattern (15 bp):
AATAAAATGCAAAGA
Found at i:33135977 original size:15 final size:15
Alignment explanation
Indices: 33135957--33136001 Score: 81
Period size: 15 Copynumber: 3.0 Consensus size: 15
33135947 AACATATATA
*
33135957 CAATAAAATACAAAG
1 CAATAAAATGCAAAG
33135972 CAATAAAATGCAAAG
1 CAATAAAATGCAAAG
33135987 CAATAAAATGCAAAG
1 CAATAAAATGCAAAG
33136002 GATCACAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.62, C:0.13, G:0.11, T:0.13
Consensus pattern (15 bp):
CAATAAAATGCAAAG
Found at i:33138827 original size:18 final size:18
Alignment explanation
Indices: 33138773--33138828 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
33138763 TTCAAGCTCA
*
33138773 CTTTTCTTTCCTTTGTTT-
1 CTTTTCTTTTC-TTGTTTG
*
33138791 CTTGTCTTTTAC-T-TTTG
1 CTTTTCTTTT-CTTGTTTG
33138808 CTTTTCTTTTCTTGTTTG
1 CTTTTCTTTTCTTGTTTG
33138826 CTT
1 CTT
33138829 GAGGACAAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 4 0.13
17 11 0.35
18 15 0.48
19 1 0.03
ACGTcount: A:0.02, C:0.20, G:0.09, T:0.70
Consensus pattern (18 bp):
CTTTTCTTTTCTTGTTTG
Found at i:33150946 original size:42 final size:42
Alignment explanation
Indices: 33150887--33150969 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
33150877 CTAGACTTTA
*
33150887 GTTTTCAGTTTTATTTGTATTTTCAGTTTCGAAATGAGATTT
1 GTTTTCAGTTTTATTTGTATTTTCAGTTTCGAAACGAGATTT
* *
33150929 GTTTTCAGTTTTATTTGTATTTTTAGTTTTGAAACGAGATT
1 GTTTTCAGTTTTATTTGTATTTTCAGTTTCGAAACGAGATT
33150970 GTAGAAGTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.22, C:0.06, G:0.17, T:0.55
Consensus pattern (42 bp):
GTTTTCAGTTTTATTTGTATTTTCAGTTTCGAAACGAGATTT
Found at i:33157479 original size:18 final size:17
Alignment explanation
Indices: 33157437--33157479 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
33157427 AACTTTAATT
*
33157437 TTTAATCATTTTAAGAC
1 TTTAATTATTTTAAGAC
33157454 TTTGAATTATTTTAAGAC
1 TTT-AATTATTTTAAGAC
33157472 TTGTAATT
1 TT-TAATT
33157480 TTTGGATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.13
18 19 0.83
19 1 0.04
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (17 bp):
TTTAATTATTTTAAGAC
Found at i:33158650 original size:15 final size:15
Alignment explanation
Indices: 33158627--33158661 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
33158617 CACACCGAGA
*
33158627 GGTAGAGTGATTATG
1 GGTATAGTGATTATG
33158642 GGTATAGTGATTATG
1 GGTATAGTGATTATG
33158657 GGTAT
1 GGTAT
33158662 TAAATTTAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.37, T:0.37
Consensus pattern (15 bp):
GGTATAGTGATTATG
Found at i:33162463 original size:49 final size:48
Alignment explanation
Indices: 33162410--33162610 Score: 204
Period size: 49 Copynumber: 4.1 Consensus size: 48
33162400 AACCCCAATA
* *
33162410 TTTCCCATCACATCTCTAGGGTACAAGGTTCGCCATTGCGGATTCAACC
1 TTTCCC-TCACATCTCTAGGGTACAAGATTCGCCATTGCGGCTTCAACC
* * * * * *
33162459 TTTCCCTCTATAACTCTAGGGTACAAGATTCACCGTCGCGGCTTCAATC
1 TTTCCCTC-ACATCTCTAGGGTACAAGATTCGCCATTGCGGCTTCAACC
* * * * *
33162508 TTTCCCATCACGTCCCTAAGGTACAAGGTTCGTCATTGCGGCTTCAACC
1 TTTCCC-TCACATCTCTAGGGTACAAGATTCGCCATTGCGGCTTCAACC
* ** * *
33162557 TTTCTCCTCATATCTCTAGGGTATTAGATTTGCCATTGCGGCTTCAATC
1 TTTC-CCTCACATCTCTAGGGTACAAGATTCGCCATTGCGGCTTCAACC
33162606 TTTCC
1 TTTCC
33162611 TTTCAAACCT
Statistics
Matches: 120, Mismatches: 29, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
48 3 0.03
49 113 0.94
50 4 0.03
ACGTcount: A:0.20, C:0.30, G:0.17, T:0.33
Consensus pattern (48 bp):
TTTCCCTCACATCTCTAGGGTACAAGATTCGCCATTGCGGCTTCAACC
Found at i:33162531 original size:98 final size:98
Alignment explanation
Indices: 33162405--33162610 Score: 279
Period size: 98 Copynumber: 2.1 Consensus size: 98
33162395 GTTGCAACCC
* * *
33162405 CAATATTTCCCATCACATCTCTAGGGTACAAGGTTCGCCATTGCGGATTCAACCTTTC-CCTCTA
1 CAATCTTTCCCATCACATCCCTAAGGTACAAGGTTCGCCATTGCGGATTCAACCTTTCTCCTC-A
*
33162469 TAACTCTAGGGTACAAGATTCACCGTCGCGGCTT
65 TAACTCTAGGGTACAAGATTCACCATCGCGGCTT
* * *
33162503 CAATCTTTCCCATCACGTCCCTAAGGTACAAGGTTCGTCATTGCGGCTTCAACCTTTCTCCTCAT
1 CAATCTTTCCCATCACATCCCTAAGGTACAAGGTTCGCCATTGCGGATTCAACCTTTCTCCTCAT
* ** ** *
33162568 ATCTCTAGGGTATTAGATTTGCCATTGCGGCTT
66 AACTCTAGGGTACAAGATTCACCATCGCGGCTT
33162601 CAATCTTTCC
1 CAATCTTTCC
33162611 TTTCAAACCT
Statistics
Matches: 94, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
98 90 0.96
99 4 0.04
ACGTcount: A:0.21, C:0.30, G:0.17, T:0.33
Consensus pattern (98 bp):
CAATCTTTCCCATCACATCCCTAAGGTACAAGGTTCGCCATTGCGGATTCAACCTTTCTCCTCAT
AACTCTAGGGTACAAGATTCACCATCGCGGCTT
Found at i:33163559 original size:9 final size:8
Alignment explanation
Indices: 33163496--33163558 Score: 54
Period size: 8 Copynumber: 7.1 Consensus size: 8
33163486 CTCGACCTCC
33163496 CTTTTTTT
1 CTTTTTTT
*
33163504 CTTTTCTT
1 CTTTTTTT
33163512 CTTTTTTT
1 CTTTTTTT
33163520 CCTATTCTTTTT
1 -C--TT-TTTTT
*
33163532 CTCTTTTT
1 CTTTTTTT
33163540 CTCTTTTTT
1 CT-TTTTTT
33163549 CATTTTTTT
1 C-TTTTTTT
33163558 C
1 C
33163559 AATTTTTTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
8 21 0.47
9 15 0.33
10 1 0.02
11 3 0.07
12 5 0.11
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (8 bp):
CTTTTTTT
Found at i:33168306 original size:19 final size:19
Alignment explanation
Indices: 33168255--33168306 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
33168245 ACAGAATAAA
* * *
33168255 ATATATTCATACATGCTAT
1 ATATATACATATAAGCTAT
* * *
33168274 ATATAAAAAAATAAGCTAT
1 ATATATACATATAAGCTAT
33168293 ATATATACATATAA
1 ATATATACATATAA
33168307 CTTAAGGAAA
Statistics
Matches: 24, Mismatches: 9, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.35
Consensus pattern (19 bp):
ATATATACATATAAGCTAT
Found at i:33168397 original size:70 final size:70
Alignment explanation
Indices: 33168263--33168445 Score: 233
Period size: 70 Copynumber: 2.5 Consensus size: 70
33168253 AAATATATTC
* * * * *
33168263 ATACATGCTATATATAAAAAAATAAGCTATATATATACATATAACTTAAGGAAACAGTGGGTATA
1 ATACATACTATATAT-AAAGAATAAACTATATATAT--ATACAACTTAAAGAAACA--GGGTATA
*
33168328 TGGCAAATAT
61 TGACAAATAT
*
33168338 ATACATACTATATATAAAGAATAAACTATATATATATACAACTTAAAGATAGCA-GGTATATGAC
1 ATACATACTATATATAAAGAATAAACTATATATATATACAACTTAAAGA-AACAGGGTATATGAC
33168402 AAATAT
65 AAATAT
*
33168408 ATACATACTATATATAAAGAATAAACAATATATATATA
1 ATACATACTATATATAAAGAATAAACTATATATATATA
33168446 TAAAAGGAAG
Statistics
Matches: 99, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
70 52 0.53
72 12 0.12
73 3 0.03
74 18 0.18
75 14 0.14
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.30
Consensus pattern (70 bp):
ATACATACTATATATAAAGAATAAACTATATATATATACAACTTAAAGAAACAGGGTATATGACA
AATAT
Found at i:33169664 original size:11 final size:11
Alignment explanation
Indices: 33169634--33169666 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
33169624 TTATTTATTT
*
33169634 ATAAAATAATA
1 ATAAAATAAAA
33169645 AT-AAATAAAA
1 ATAAAATAAAA
33169655 ATAAAATAAAA
1 ATAAAATAAAA
33169666 A
1 A
33169667 AACAAAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
ATAAAATAAAA
Found at i:33171040 original size:26 final size:28
Alignment explanation
Indices: 33171006--33171058 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
33170996 TTAGAAAAGG
33171006 AAAATGAGAAAA-AGAAAGAA-AAAAAAT
1 AAAATGAGAAAAGA-AAAGAAGAAAAAAT
33171033 AAAA-GAGAAAAGAAAAGAAGAAAAAA
1 AAAATGAGAAAAGAAAAGAAGAAAAAA
33171059 ATGTTTGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (28 bp):
AAAATGAGAAAAGAAAAGAAGAAAAAAT
Found at i:33171043 original size:13 final size:14
Alignment explanation
Indices: 33170998--33171057 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 14
33170988 TCAGTCACTT
*
33170998 AGAAAAGGAAAATG-
1 AGAAAAAGAAAA-GA
33171012 AGAAAAAG-AAAGA
1 AGAAAAAGAAAAGA
* *
33171025 AAAAAAATAAAAG-
1 AGAAAAAGAAAAGA
33171038 AG-AAAAGAAAAGA
1 AGAAAAAGAAAAGA
33171051 AGAAAAA
1 AGAAAAA
33171058 AATGTTTGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
12 10 0.27
13 12 0.32
14 15 0.41
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (14 bp):
AGAAAAAGAAAAGA
Found at i:33171056 original size:20 final size:19
Alignment explanation
Indices: 33170998--33171057 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 19
33170988 TCAGTCACTT
33170998 AGAAAAGGAAAATG-AGAAAA
1 AGAAAA-GAAAA-GAAGAAAA
* *
33171018 AG-AAAGAAAAAAAATAAAA
1 AGAAAAG-AAAAGAAGAAAA
33171037 GAGAAAAGAAAAGAAGAAAA
1 -AGAAAAGAAAAGAAGAAAA
33171057 A
1 A
33171058 AATGTTTGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
18 1 0.03
19 13 0.41
20 14 0.44
21 4 0.12
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (19 bp):
AGAAAAGAAAAGAAGAAAA
Found at i:33172062 original size:30 final size:30
Alignment explanation
Indices: 33172026--33172084 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
33172016 GAGGAACAAT
33172026 TAGGGAGTAGTCCTAGTAGTCTAGAGATAA
1 TAGGGAGTAGTCCTAGTAGTCTAGAGATAA
33172056 TAGGGAGTAGTCCTAGTAGTCTAGAGATA
1 TAGGGAGTAGTCCTAGTAGTCTAGAGATA
33172085 GTAAGTTTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.32, C:0.10, G:0.31, T:0.27
Consensus pattern (30 bp):
TAGGGAGTAGTCCTAGTAGTCTAGAGATAA
Found at i:33173632 original size:19 final size:20
Alignment explanation
Indices: 33173595--33173633 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
33173585 GAATTTTAGC
* *
33173595 CTAGTCGAAAAAGAGAAAAA
1 CTAGTCGAAAAAAACAAAAA
33173615 CTAGT-GAAAAAAACAAAAA
1 CTAGTCGAAAAAAACAAAAA
33173634 GAAAATGAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.64, C:0.10, G:0.15, T:0.10
Consensus pattern (20 bp):
CTAGTCGAAAAAAACAAAAA
Found at i:33181257 original size:20 final size:20
Alignment explanation
Indices: 33181221--33181270 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
33181211 TCATTAAGCT
*
33181221 TTAATTAATCACTTTTA-ATC
1 TTAATTAAACACTTTTACA-C
33181241 TTAATTAAAC-CTATTTACAC
1 TTAATTAAACACT-TTTACAC
33181261 TTAATATAAA
1 TTAAT-TAAA
33181271 TCATGCTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 19 0.73
21 5 0.19
ACGTcount: A:0.42, C:0.14, G:0.00, T:0.44
Consensus pattern (20 bp):
TTAATTAAACACTTTTACAC
Found at i:33181565 original size:18 final size:18
Alignment explanation
Indices: 33181542--33181579 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
33181532 AAACAACATT
33181542 ACTCATGCATCATTCATC
1 ACTCATGCATCATTCATC
33181560 ACTCATGCATCATTCATC
1 ACTCATGCATCATTCATC
33181578 AC
1 AC
33181580 ATACTTCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.34, G:0.05, T:0.32
Consensus pattern (18 bp):
ACTCATGCATCATTCATC
Found at i:33187335 original size:19 final size:20
Alignment explanation
Indices: 33187298--33187335 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33187288 TCAGTTGCAG
*
33187298 TTTCAAAGAGGATAAAATTC
1 TTTCAAAGAGGACAAAATTC
33187318 TTTCAAAGA-GACAAAATT
1 TTTCAAAGAGGACAAAATT
33187336 ATTCACTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (20 bp):
TTTCAAAGAGGACAAAATTC
Found at i:33196240 original size:31 final size:31
Alignment explanation
Indices: 33196173--33196245 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
33196163 AATTTTTTAC
* *
33196173 CCCTGAACTTGGCAACTAGGTCCGCTTTAGT
1 CCCTGAACTTGGCAACTAGATCCACTTTAGT
* ** * *
33196204 ACCTGAACTTGGCAACTAGATTTATTTTGGT
1 CCCTGAACTTGGCAACTAGATCCACTTTAGT
33196235 CCCTGAACTTG
1 CCCTGAACTTG
33196246 AAAAATATAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.33
Consensus pattern (31 bp):
CCCTGAACTTGGCAACTAGATCCACTTTAGT
Found at i:33204698 original size:28 final size:28
Alignment explanation
Indices: 33204657--33204712 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
33204647 AATATCTGAT
*
33204657 TTACTCCCTGTTGACCCAAAGGTCATGC
1 TTACTCCCTATTGACCCAAAGGTCATGC
33204685 TTACTCCCTATTGACCCAAAGGTCATGC
1 TTACTCCCTATTGACCCAAAGGTCATGC
33204713 CTATTACCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.23, C:0.32, G:0.16, T:0.29
Consensus pattern (28 bp):
TTACTCCCTATTGACCCAAAGGTCATGC
Found at i:33205750 original size:18 final size:19
Alignment explanation
Indices: 33205727--33205766 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
33205717 TCTTCACTTA
33205727 ATTCTTTTGTTAATT-AAC
1 ATTCTTTTGTTAATTAAAC
33205745 ATTCTTTTGTTAATTAAAC
1 ATTCTTTTGTTAATTAAAC
33205764 ATT
1 ATT
33205767 AAATCAAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.30, C:0.10, G:0.05, T:0.55
Consensus pattern (19 bp):
ATTCTTTTGTTAATTAAAC
Found at i:33206137 original size:90 final size:90
Alignment explanation
Indices: 33205984--33206166 Score: 249
Period size: 90 Copynumber: 2.0 Consensus size: 90
33205974 ATTCTTGATC
* * *
33205984 AGGTGACTCTTCAAAAGACTAAGGGAAGACTCTTCAAATGCTAATCGATTTTCGTGCACTTAAAT
1 AGGTGACTCTTCAAAAGACCAAGGGAAGACTCTTCAAATGCTAATCGATTTTCGTACACTTAAAG
* *
33206049 GCCAATTCATGGCATCAATTAAAGG
66 GCCAATTCAAGACATCAATTAAAGG
* * * * * * *
33206074 AGGTGACTCTTCAAAAGACCAAGGGAAGATTTTTCAAATGTTGATCGGTTTTGGTACAGTTAAAG
1 AGGTGACTCTTCAAAAGACCAAGGGAAGACTCTTCAAATGCTAATCGATTTTCGTACACTTAAAG
*
33206139 GTCAATTCAAGACATCAATTAAAGG
66 GCCAATTCAAGACATCAATTAAAGG
33206164 AGG
1 AGG
33206167 AAATGCAAAT
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
90 80 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (90 bp):
AGGTGACTCTTCAAAAGACCAAGGGAAGACTCTTCAAATGCTAATCGATTTTCGTACACTTAAAG
GCCAATTCAAGACATCAATTAAAGG
Found at i:33212210 original size:59 final size:61
Alignment explanation
Indices: 33212129--33212245 Score: 148
Period size: 62 Copynumber: 1.9 Consensus size: 61
33212119 ATTATTTTGA
* * * * * *
33212129 TATTAAATTAATCTAATATTTA-T-CATGATAAATATTAGATTAAATTTAATATTAAAACT
1 TATTAAAATAATATAATATTTACTACAAGATAAACATTAAATTAAATCTAATATTAAAACT
*
33212188 TATTAAAATAATATAATGTTTATCTACAAGATAAACATTAAATTAAATCTAATATTAA
1 TATTAAAATAATATAATATTTA-CTACAAGATAAACATTAAATTAAATCTAATATTAA
33212246 GCTCATCACT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 19 0.40
61 1 0.02
62 28 0.58
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (61 bp):
TATTAAAATAATATAATATTTACTACAAGATAAACATTAAATTAAATCTAATATTAAAACT
Found at i:33217122 original size:19 final size:19
Alignment explanation
Indices: 33217100--33217144 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
33217090 TTTTATTAGG
33217100 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
33217119 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
33217138 ATTTAAT
1 ATTTAAT
33217145 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:33217964 original size:20 final size:22
Alignment explanation
Indices: 33217941--33218000 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 22
33217931 TTCGACTTTC
33217941 CTATTTTC-TAT-TTTTTAATT
1 CTATTTTCTTATATTTTTAATT
*
33217961 CTATTTTCTTTTATTTTTAATT
1 CTATTTTCTTATATTTTTAATT
* *
33217983 CT-GTTTCTTTTATTTTTA
1 CTATTTTCTTATATTTTTA
33218001 CTCAGATCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 8 0.22
21 17 0.47
22 11 0.31
ACGTcount: A:0.17, C:0.10, G:0.02, T:0.72
Consensus pattern (22 bp):
CTATTTTCTTATATTTTTAATT
Found at i:33217989 original size:21 final size:22
Alignment explanation
Indices: 33217952--33218000 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 22
33217942 TATTTTCTAT
*
33217952 TTTTTAATTCTATTTTCTTTTA
1 TTTTTAATTCTAGTTTCTTTTA
33217974 TTTTTAATTCT-GTTTCTTTTA
1 TTTTTAATTCTAGTTTCTTTTA
33217995 TTTTTA
1 TTTTTA
33218001 CTCAGATCGC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 15 0.58
22 11 0.42
ACGTcount: A:0.16, C:0.08, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTTTAATTCTAGTTTCTTTTA
Found at i:33219230 original size:21 final size:21
Alignment explanation
Indices: 33219191--33219230 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
33219181 GCAATCTATA
*
33219191 GATTTTCAAAAGCAAATTGTG
1 GATTTTCAAAAGAAAATTGTG
33219212 GATTTTCAAAAGAAAATTG
1 GATTTTCAAAAGAAAATTG
33219231 AGACATCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.07, G:0.17, T:0.33
Consensus pattern (21 bp):
GATTTTCAAAAGAAAATTGTG
Found at i:33224845 original size:19 final size:19
Alignment explanation
Indices: 33224823--33224867 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
33224813 TTTTATTAGG
33224823 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
33224842 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
33224861 ATTTAAT
1 ATTTAAT
33224868 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:33225715 original size:21 final size:20
Alignment explanation
Indices: 33225668--33225721 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 20
33225658 GACTTCCCTA
*
33225668 TTTTCTATT-TTTTTAATTC
1 TTTTCTTTTATTTTTAATTC
*
33225687 TATT-TTTTATTTTTAATTC
1 TTTTCTTTTATTTTTAATTC
33225706 TGTTTCTTTTATTTTT
1 T-TTTCTTTTATTTTT
33225722 CCTCAGATCG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 3 0.10
19 14 0.48
20 2 0.07
21 10 0.34
ACGTcount: A:0.15, C:0.07, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTCTTTTATTTTTAATTC
Found at i:33242492 original size:8 final size:8
Alignment explanation
Indices: 33242479--33242505 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
33242469 CTCATATATG
33242479 TTCACAAT
1 TTCACAAT
33242487 TTCACAAT
1 TTCACAAT
33242495 TTCACAAT
1 TTCACAAT
33242503 TTC
1 TTC
33242506 GTAAGCATAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.41
Consensus pattern (8 bp):
TTCACAAT
Found at i:33243000 original size:20 final size:21
Alignment explanation
Indices: 33242977--33243015 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
33242967 AATCTTTAAC
*
33242977 GAAA-CTTCAAAATATGTTTA
1 GAAACCTTCAAAACATGTTTA
*
33242997 GAAACCTTCTAAACATGTT
1 GAAACCTTCAAAACATGTT
33243016 AAAAATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.33
Consensus pattern (21 bp):
GAAACCTTCAAAACATGTTTA
Found at i:33252353 original size:51 final size:51
Alignment explanation
Indices: 33252269--33252391 Score: 158
Period size: 51 Copynumber: 2.4 Consensus size: 51
33252259 GCCATGGAGC
* *
33252269 CTCACTCACATGGTCTTACACCTCCTACCATATTTGTAGACGCAATGAAG-
1 CTCACTCACATGGTCTTACACCTCATACAATATTTGTAGACGCAATGAAGA
* * * *
33252319 CTTCACTCACATGGTCTTACACCTCATACAATATTTGTGGATGCCATGGAGA
1 C-TCACTCACATGGTCTTACACCTCATACAATATTTGTAGACGCAATGAAGA
* *
33252371 CTCTCTTACATGGTCTTACAC
1 CTCACTCACATGGTCTTACAC
33252392 TGTCTTTCCT
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
50 1 0.02
51 61 0.97
52 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (51 bp):
CTCACTCACATGGTCTTACACCTCATACAATATTTGTAGACGCAATGAAGA
Found at i:33264909 original size:60 final size:56
Alignment explanation
Indices: 33264802--33265041 Score: 168
Period size: 52 Copynumber: 4.4 Consensus size: 56
33264792 TCGCATTTGC
* * * * * *
33264802 TACTCATGATGACATAGAGTCATTAGACCTCTAATCCGTAATGGGATTCATTTCGTTTAA
1 TACTCACGATGACACATAGTCATCAGACCTCTAATCTGTAA-AGGATTCATTTCG--T-A
*
33264862 TACTCACGATGTCACATAGTCATCAGACCTCGTAATCTGTAAAGG----A-TTCGTA
1 TACTCACGATGACACATAGTCATCAGACCTC-TAATCTGTAAAGGATTCATTTCGTA
* * *
33264914 TACTCACGATGACACGTAATCATCAGACCTCATAATCTATAAAGGATTCA-----TA
1 TACTCACGATGACACATAGTCATCAGACCTC-TAATCTGTAAAGGATTCATTTCGTA
* * * * *
33264966 TACTCACGATGAAACGTAATCATCGGACCTCATAATCCGTAAAGGATTCA-----TA
1 TACTCACGATGACACATAGTCATCAGACCTC-TAATCTGTAAAGGATTCATTTCGTA
*
33265018 TACTCACGATGACACGTAGTCATC
1 TACTCACGATGACACATAGTCATC
33265042 GGATCCTTTT
Statistics
Matches: 157, Mismatches: 18, Indels: 18
0.81 0.09 0.09
Matches are distributed among these distances:
52 113 0.72
53 1 0.01
55 4 0.03
56 2 0.01
60 28 0.18
61 9 0.06
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (56 bp):
TACTCACGATGACACATAGTCATCAGACCTCTAATCTGTAAAGGATTCATTTCGTA
Found at i:33265044 original size:52 final size:52
Alignment explanation
Indices: 33264861--33265041 Score: 272
Period size: 52 Copynumber: 3.5 Consensus size: 52
33264851 ATTTCGTTTA
* * * * *
33264861 ATACTCACGATGTCACATAGTCATCAGACCTCGTAATCTGTAAAGGATTCGT
1 ATACTCACGATGACACGTAATCATCAGACCTCATAATCTGTAAAGGATTCAT
*
33264913 ATACTCACGATGACACGTAATCATCAGACCTCATAATCTATAAAGGATTCAT
1 ATACTCACGATGACACGTAATCATCAGACCTCATAATCTGTAAAGGATTCAT
* * *
33264965 ATACTCACGATGAAACGTAATCATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACGTAATCATCAGACCTCATAATCTGTAAAGGATTCAT
*
33265017 ATACTCACGATGACACGTAGTCATC
1 ATACTCACGATGACACGTAATCATC
33265042 GGATCCTTTT
Statistics
Matches: 117, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 117 1.00
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.27
Consensus pattern (52 bp):
ATACTCACGATGACACGTAATCATCAGACCTCATAATCTGTAAAGGATTCAT
Found at i:33266615 original size:52 final size:52
Alignment explanation
Indices: 33266554--33266839 Score: 396
Period size: 52 Copynumber: 5.5 Consensus size: 52
33266544 ATTTCTTTTA
* * * *
33266554 ATACTCACGATAACACATAGTAATCGGACCTCGTAATCTGTAAAGGATTCAT
1 ATACTCACGATGACACGTAGTCATCGGACCTCGTAATCCGTAAAGGATTCAT
* * * *
33266606 ATACTCACGATGACATGTAGTCATCAGACTTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACGTAGTCATCGGACCTCGTAATCCGTAAAGGATTCAT
*
33266658 ATACTCACGATGACACGTAGTCATCGGATCTCAG-AATCCGTAAAGGATTCAT
1 ATACTCACGATGACACGTAGTCATCGGACCTC-GTAATCCGTAAAGGATTCAT
33266710 ATACTCACGATGACACGTAGTCATCGGACCTCAG-AATCCGTAAAGGATTCAT
1 ATACTCACGATGACACGTAGTCATCGGACCTC-GTAATCCGTAAAGGATTCAT
* * * * * *
33266762 ATACTCACTATCACACGTAGTCATCGAACTTCATAATCCGTAAATGATTCAT
1 ATACTCACGATGACACGTAGTCATCGGACCTCGTAATCCGTAAAGGATTCAT
*
33266814 ATACTCACAATGACACGTAGTCATCG
1 ATACTCACGATGACACGTAGTCATCG
33266840 AACCCTTTTT
Statistics
Matches: 210, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
52 210 1.00
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (52 bp):
ATACTCACGATGACACGTAGTCATCGGACCTCGTAATCCGTAAAGGATTCAT
Found at i:33266793 original size:156 final size:156
Alignment explanation
Indices: 33266554--33266839 Score: 459
Period size: 156 Copynumber: 1.8 Consensus size: 156
33266544 ATTTCTTTTA
* *
33266554 ATACTCACGATAACACATAGTAATCGGACCTCGTAATCTGTAAAGGATTCATATACTCACGATGA
1 ATACTCACGATAACACATAGTAATCGGACCTCGTAATCCGTAAAGGATTCATATACTCACGATCA
* *
33266619 CATGTAGTCATCAGACTTCATAATCCGTAAAGGATTCATATACTCACGATGACACGTAGTCATCG
66 CACGTAGTCATCAGACTTCATAATCCGTAAAGGATTCATATACTCACAATGACACGTAGTCATCG
33266684 GATCTCAGAATCCGTAAAGGATTCAT
131 GATCTCAGAATCCGTAAAGGATTCAT
* * * *
33266710 ATACTCACGATGACACGTAGTCATCGGACCTCAG-AATCCGTAAAGGATTCATATACTCACTATC
1 ATACTCACGATAACACATAGTAATCGGACCTC-GTAATCCGTAAAGGATTCATATACTCACGATC
*
33266774 ACACGTAGTCATC-GAACTTCATAATCCGTAAATGATTCATATACTCACAATGACACGTAGTCAT
65 ACACGTAGTCATCAG-ACTTCATAATCCGTAAAGGATTCATATACTCACAATGACACGTAGTCAT
33266838 CG
129 CG
33266840 AACCCTTTTT
Statistics
Matches: 119, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
155 1 0.01
156 117 0.98
157 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (156 bp):
ATACTCACGATAACACATAGTAATCGGACCTCGTAATCCGTAAAGGATTCATATACTCACGATCA
CACGTAGTCATCAGACTTCATAATCCGTAAAGGATTCATATACTCACAATGACACGTAGTCATCG
GATCTCAGAATCCGTAAAGGATTCAT
Found at i:33276398 original size:22 final size:21
Alignment explanation
Indices: 33276373--33276413 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
33276363 ATTAATCATT
33276373 AAAATAATAATTATAATATTTA
1 AAAATAATAATTA-AATATTTA
**
33276395 AAAATTTTAATTAAATATT
1 AAAATAATAATTAAATATT
33276414 AAATGCGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AAAATAATAATTAAATATTTA
Found at i:33278173 original size:31 final size:30
Alignment explanation
Indices: 33278104--33278204 Score: 98
Period size: 31 Copynumber: 3.2 Consensus size: 30
33278094 CTGTTTTAAT
* *
33278104 AATTTATTTTTTATTTTTAA-AAAATTAAATTA
1 AATTT-TTTATTATTTTTAATAAAA-TAAA-AA
33278136 AA-TTTTTATTATTTTTAATAAAATAAAAA
1 AATTTTTTATTATTTTTAATAAAATAAAAA
*
33278165 ATATTTTTTATTATTTTAAATATTTAAATAAAAA
1 A-ATTTTTTATTATTTTTAATA---AAATAAAAA
33278199 AATTTT
1 AATTTT
33278205 ATTCTAAAAG
Statistics
Matches: 60, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
29 2 0.03
30 18 0.30
31 23 0.38
32 2 0.03
33 5 0.08
34 10 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (30 bp):
AATTTTTTATTATTTTTAATAAAATAAAAA
Found at i:33282834 original size:19 final size:19
Alignment explanation
Indices: 33282810--33282852 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
33282800 AAACATAAAT
33282810 TAAATACAAAT-TTAAATAA
1 TAAATA-AAATATTAAATAA
* *
33282829 TAAATAATATATTAAATAT
1 TAAATAAAATATTAAATAA
33282848 TAAAT
1 TAAAT
33282853 CCTAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
TAAATAAAATATTAAATAA
Found at i:33283397 original size:34 final size:34
Alignment explanation
Indices: 33283354--33283423 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
33283344 AAGCTTACCA
*
33283354 AGACACCTATTTGATCACCATTGTCTCCAAATTT
1 AGACACCTATTTGATCACCATTATCTCCAAATTT
*
33283388 AGACACCTATTTGTTCACCATTATCTCCAAATTT
1 AGACACCTATTTGATCACCATTATCTCCAAATTT
33283422 AG
1 AG
33283424 TTCTCTTCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.36
Consensus pattern (34 bp):
AGACACCTATTTGATCACCATTATCTCCAAATTT
Found at i:33284424 original size:14 final size:13
Alignment explanation
Indices: 33284388--33284439 Score: 56
Period size: 13 Copynumber: 4.1 Consensus size: 13
33284378 TTGGACATAT
33284388 AATAAAATA-AATA
1 AATAAAATAGAA-A
33284401 AATAAAATAGAAA
1 AATAAAATAGAAA
33284414 AATAGAAATAGAAA
1 AATA-AAATAGAAA
*
33284428 TA-AAAATA-AAA
1 AATAAAATAGAAA
33284439 A
1 A
33284440 TAATTGGGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 3 0.09
12 5 0.14
13 15 0.43
14 12 0.34
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (13 bp):
AATAAAATAGAAA
Found at i:33284442 original size:6 final size:6
Alignment explanation
Indices: 33284400--33284442 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
33284390 TAAAATAAAT
* * *
33284400 AAATAA AATAGAA AAATAG AAATAG AAATAA AAATAA AAATAA
1 AAATAA AA-ATAA AAATAA AAATAA AAATAA AAATAA AAATAA
33284443 TTGGGTTGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:33288021 original size:19 final size:19
Alignment explanation
Indices: 33287997--33288039 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
33287987 AAACATAAAT
33287997 TAAATATAAAT-TTAAATAA
1 TAAATA-AAATCTTAAATAA
* *
33288016 TAAATAATATCTTAAATAT
1 TAAATAAAATCTTAAATAA
33288035 TAAAT
1 TAAAT
33288040 CCTAATAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAATAAAATCTTAAATAA
Found at i:33288068 original size:29 final size:29
Alignment explanation
Indices: 33288013--33288068 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
33288003 TAAATTTAAA
*
33288013 TAATAAATAATATCTTAAATATTAAATCC
1 TAATAAATAATATCTTAAATATAAAATCC
*
33288042 TAATAAAATAATATTTTAAA-ATAAAAT
1 TAAT-AAATAATATCTTAAATATAAAAT
33288069 AAAATAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (29 bp):
TAATAAATAATATCTTAAATATAAAATCC
Found at i:33290681 original size:16 final size:16
Alignment explanation
Indices: 33290660--33290709 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 16
33290650 AATTCGGTTG
33290660 AAAAAATTATTTAATT
1 AAAAAATTATTTAATT
*
33290676 AAAAAATTAATTAATT
1 AAAAAATTATTTAATT
33290692 AATTAAAATTAATTTAAT
1 AA--AAAATT-ATTTAAT
33290710 AATATTTATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 17 0.59
18 6 0.21
19 6 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
AAAAAATTATTTAATT
Found at i:33292632 original size:21 final size:22
Alignment explanation
Indices: 33292608--33292660 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 22
33292598 AATCTTCCGA
* *
33292608 TCATTTTTAA-GAATTCCTTTT
1 TCATTTTTAATGAATTCATTTC
*
33292629 TCATTTCTAAATGAATTCATTTC
1 TCATTT-TTAATGAATTCATTTC
33292652 TCATTTTTA
1 TCATTTTTA
33292661 TTTTCATTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 6 0.23
22 5 0.19
23 15 0.58
ACGTcount: A:0.26, C:0.15, G:0.04, T:0.55
Consensus pattern (22 bp):
TCATTTTTAATGAATTCATTTC
Found at i:33293624 original size:25 final size:25
Alignment explanation
Indices: 33293596--33293646 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
33293586 AGTCTTTCAA
33293596 TTAGTTTTCTTATTTTCGAATAAAC
1 TTAGTTTTCTTATTTTCGAATAAAC
33293621 TTAGTTTTCTTATTTTCGAATAAAC
1 TTAGTTTTCTTATTTTCGAATAAAC
33293646 T
1 T
33293647 AAGGACAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.53
Consensus pattern (25 bp):
TTAGTTTTCTTATTTTCGAATAAAC
Found at i:33296952 original size:19 final size:19
Alignment explanation
Indices: 33296907--33296954 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
33296897 TTTATAAAAA
33296907 TTTCTTTC-TTTTTCT--T
1 TTTCTTTCTTTTTTCTCAT
*
33296923 TTTCTTCCTTTTTTCTCAT
1 TTTCTTTCTTTTTTCTCAT
*
33296942 TTTGTTTCTTTTT
1 TTTCTTTCTTTTT
33296955 CAAATGACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 7 0.27
17 7 0.27
19 12 0.46
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTCTTTCTTTTTTCTCAT
Found at i:33307495 original size:19 final size:19
Alignment explanation
Indices: 33307450--33307497 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 19
33307440 TTATCAAAAA
33307450 TTTCTTTC-TTTTTCT--T
1 TTTCTTTCTTTTTTCTCAT
*
33307466 TTTCTTCCTTTTTTCTCAT
1 TTTCTTTCTTTTTTCTCAT
*
33307485 TTTGTTTCTTTTT
1 TTTCTTTCTTTTT
33307498 CAAATGACTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 7 0.27
17 7 0.27
19 12 0.46
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTCTTTCTTTTTTCTCAT
Found at i:33308560 original size:18 final size:15
Alignment explanation
Indices: 33308549--33308581 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
33308539 CTCTTCATTC
33308549 TCTTCTTCCTCTTTT
1 TCTTCTTCCTCTTTT
33308564 TCTTCTT-C-CTTTT
1 TCTTCTTCCTCTTTT
33308577 TCTTC
1 TCTTC
33308582 ATCAGGTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 1 0.06
15 7 0.39
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (15 bp):
TCTTCTTCCTCTTTT
Found at i:33321419 original size:19 final size:20
Alignment explanation
Indices: 33321388--33321426 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
33321378 ACTGGTGATG
33321388 CCATTCGTCTCAGATTATTT
1 CCATTCGTCTCAGATTATTT
33321408 CCATTC-TCTCAGATTATTT
1 CCATTCGTCTCAGATTATTT
33321427 ACAACAGTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.21, C:0.26, G:0.08, T:0.46
Consensus pattern (20 bp):
CCATTCGTCTCAGATTATTT
Found at i:33337752 original size:24 final size:24
Alignment explanation
Indices: 33337716--33337761 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
33337706 ACATTCATCC
* *
33337716 AATTCATGCATTA-GCATTCAAAAG
1 AATTCAAGAATTACGCA-TCAAAAG
33337740 AATTCAAGAATTACGCATCAAA
1 AATTCAAGAATTACGCATCAAA
33337762 TGAAAAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (24 bp):
AATTCAAGAATTACGCATCAAAAG
Found at i:33338436 original size:9 final size:8
Alignment explanation
Indices: 33338400--33338486 Score: 62
Period size: 8 Copynumber: 11.5 Consensus size: 8
33338390 AATACTTTCT
33338400 TCTTCTTC
1 TCTTCTTC
*
33338408 -CTTCTCC
1 TCTTCTTC
*
33338415 TCTTCATTT
1 TCTTC-TTC
33338424 TCTTCCTTC
1 TCTT-CTTC
33338433 TCTTCTTC
1 TCTTCTTC
33338441 -CTT-TTC
1 TCTTCTTC
*
33338447 T-TCCTTC
1 TCTTCTTC
*
33338454 TCCTCTTC
1 TCTTCTTC
33338462 -CTT-TTC
1 TCTTCTTC
*
33338468 T-TTTTTC
1 TCTTCTTC
33338475 TCTTCTTC
1 TCTTCTTC
33338483 TCTT
1 TCTT
33338487 GCTCCTTCAT
Statistics
Matches: 61, Mismatches: 9, Indels: 18
0.69 0.10 0.20
Matches are distributed among these distances:
6 9 0.15
7 19 0.31
8 21 0.34
9 11 0.18
10 1 0.02
ACGTcount: A:0.01, C:0.37, G:0.00, T:0.62
Consensus pattern (8 bp):
TCTTCTTC
Found at i:33338438 original size:12 final size:12
Alignment explanation
Indices: 33338400--33338482 Score: 67
Period size: 12 Copynumber: 7.7 Consensus size: 12
33338390 AATACTTTCT
33338400 TCTTCTTCCTTC
1 TCTTCTTCCTTC
* *
33338412 TCCTCTT-CAT-
1 TCTTCTTCCTTC
33338422 T-TTCTTCCTTC
1 TCTTCTTCCTTC
33338433 TCTTCTTCC-T-
1 TCTTCTTCCTTC
33338443 T-TTCTTCCTTC
1 TCTTCTTCCTTC
* *
33338454 TCCTCTTCCTTT
1 TCTTCTTCCTTC
33338466 TCTT-TT--TTC
1 TCTTCTTCCTTC
33338475 TCTTCTTC
1 TCTTCTTC
33338483 TCTTGCTCCT
Statistics
Matches: 55, Mismatches: 8, Indels: 17
0.69 0.10 0.21
Matches are distributed among these distances:
9 17 0.31
10 7 0.13
11 7 0.13
12 24 0.44
ACGTcount: A:0.01, C:0.37, G:0.00, T:0.61
Consensus pattern (12 bp):
TCTTCTTCCTTC
Found at i:33338452 original size:42 final size:42
Alignment explanation
Indices: 33338402--33338482 Score: 135
Period size: 42 Copynumber: 1.9 Consensus size: 42
33338392 TACTTTCTTC
33338402 TTCTTCCTTCTCCTCTTCATTTTCTTCCTTCTCTTCTTCCTT
1 TTCTTCCTTCTCCTCTTCATTTTCTTCCTTCTCTTCTTCCTT
* **
33338444 TTCTTCCTTCTCCTCTTCCTTTTCTTTTTTCTCTTCTTC
1 TTCTTCCTTCTCCTCTTCATTTTCTTCCTTCTCTTCTTC
33338483 TCTTGCTCCT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.01, C:0.37, G:0.00, T:0.62
Consensus pattern (42 bp):
TTCTTCCTTCTCCTCTTCATTTTCTTCCTTCTCTTCTTCCTT
Found at i:33338482 original size:21 final size:21
Alignment explanation
Indices: 33338402--33338469 Score: 118
Period size: 21 Copynumber: 3.2 Consensus size: 21
33338392 TACTTTCTTC
*
33338402 TTCTTCCTTCTCCTCTTCATT
1 TTCTTCCTTCTCCTCTTCCTT
*
33338423 TTCTTCCTTCTCTTCTTCCTT
1 TTCTTCCTTCTCCTCTTCCTT
33338444 TTCTTCCTTCTCCTCTTCCTT
1 TTCTTCCTTCTCCTCTTCCTT
33338465 TTCTT
1 TTCTT
33338470 TTTTCTCTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.01, C:0.38, G:0.00, T:0.60
Consensus pattern (21 bp):
TTCTTCCTTCTCCTCTTCCTT
Found at i:33338494 original size:15 final size:15
Alignment explanation
Indices: 33338476--33338509 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
33338466 TCTTTTTTCT
* *
33338476 CTTCTTCTCTTGCTC
1 CTTCATCTCGTGCTC
33338491 CTTCATCTCGTGCTC
1 CTTCATCTCGTGCTC
33338506 CTTC
1 CTTC
33338510 GTTGGCTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.03, C:0.41, G:0.09, T:0.47
Consensus pattern (15 bp):
CTTCATCTCGTGCTC
Found at i:33354707 original size:6 final size:6
Alignment explanation
Indices: 33354696--33354721 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
33354686 GTGAGCGCCC
33354696 AAAGAA AAAGAA AAAGAA AAAGAA AA
1 AAAGAA AAAGAA AAAGAA AAAGAA AA
33354722 TAGGTTGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:33359981 original size:16 final size:17
Alignment explanation
Indices: 33359952--33359994 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
33359942 TTAGAGTTAG
* *
33359952 AAAAAGAAAAGAAAA-C
1 AAAAACAAAAGAAAAGA
*
33359968 AAAAACAAATGAAAAGA
1 AAAAACAAAAGAAAAGA
33359985 AAAAACAAAA
1 AAAAACAAAA
33359995 ATGAGTAGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.81, C:0.07, G:0.09, T:0.02
Consensus pattern (17 bp):
AAAAACAAAAGAAAAGA
Found at i:33376192 original size:21 final size:21
Alignment explanation
Indices: 33376166--33376223 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 21
33376156 GCCTTCTTCA
33376166 TTGCAACATAGCATGTCTATG
1 TTGCAACATAGCATGTCTATG
* **
33376187 TTGCAACA-AAC-CCTCT-TG
1 TTGCAACATAGCATGTCTATG
*
33376205 TCGCAACATAGCATGTCTA
1 TTGCAACATAGCATGTCTA
33376224 CATCACGACA
Statistics
Matches: 27, Mismatches: 7, Indels: 6
0.68 0.17 0.15
Matches are distributed among these distances:
18 9 0.33
19 5 0.19
20 5 0.19
21 8 0.30
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (21 bp):
TTGCAACATAGCATGTCTATG
Found at i:33377437 original size:15 final size:14
Alignment explanation
Indices: 33377398--33377440 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
33377388 TATAGATACA
*
33377398 ATTTTCTTTATTTT
1 ATTTTGTTTATTTT
33377412 ATTTTGTTTATTTCT
1 ATTTTGTTTATTT-T
33377427 ATTTT-TATTATTTT
1 ATTTTGT-TTATTTT
33377441 TAGGCTATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 14 0.54
15 12 0.46
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (14 bp):
ATTTTGTTTATTTT
Found at i:33383481 original size:11 final size:11
Alignment explanation
Indices: 33383465--33383494 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
33383455 TTCTTATTTT
33383465 ATTGCTTTATG
1 ATTGCTTTATG
33383476 ATTGCTTTATG
1 ATTGCTTTATG
33383487 ATTGCTTT
1 ATTGCTTT
33383495 TCCTATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.17, C:0.10, G:0.17, T:0.57
Consensus pattern (11 bp):
ATTGCTTTATG
Found at i:33387950 original size:12 final size:12
Alignment explanation
Indices: 33387933--33387962 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
33387923 ATAAGAGGGT
33387933 CCAGAATTGCAC
1 CCAGAATTGCAC
*
33387945 CCAGAATTGCGC
1 CCAGAATTGCAC
33387957 CCAGAA
1 CCAGAA
33387963 CTATCGTAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.33, C:0.33, G:0.20, T:0.13
Consensus pattern (12 bp):
CCAGAATTGCAC
Found at i:33406308 original size:12 final size:12
Alignment explanation
Indices: 33406291--33406318 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
33406281 ACAAAAGAGA
33406291 CAATTAAAACAT
1 CAATTAAAACAT
33406303 CAATTAAAACAT
1 CAATTAAAACAT
33406315 CAAT
1 CAAT
33406319 CGGTTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.18, G:0.00, T:0.25
Consensus pattern (12 bp):
CAATTAAAACAT
Found at i:33408593 original size:15 final size:14
Alignment explanation
Indices: 33408569--33408599 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
33408559 CTATTGATGG
33408569 TTGTTATAACTCCC
1 TTGTTATAACTCCC
33408583 TTGTCTATAACTCCC
1 TTGT-TATAACTCCC
33408598 TT
1 TT
33408600 AGTTTGAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.19, C:0.29, G:0.06, T:0.45
Consensus pattern (14 bp):
TTGTTATAACTCCC
Found at i:33426491 original size:17 final size:17
Alignment explanation
Indices: 33426471--33426504 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
33426461 TCGTAATTTC
33426471 GTTGCCATCGCAAGGTT
1 GTTGCCATCGCAAGGTT
* *
33426488 GTTGTCGTCGCAAGGTT
1 GTTGCCATCGCAAGGTT
33426505 ATCGCCACCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.21, G:0.32, T:0.32
Consensus pattern (17 bp):
GTTGCCATCGCAAGGTT
Found at i:33434748 original size:37 final size:35
Alignment explanation
Indices: 33434685--33434760 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 35
33434675 ATTCGAAAAA
33434685 TAATATTATTTTAATAATTTAATATTAAATTTAAT-T
1 TAATATTATTTTAATAATTT-ATATT-AATTTAATAT
33434721 TAATACTTATTTTAATAGTATTT-TATTAATTTAATAT
1 TAATA-TTATTTTAATA--ATTTATATTAATTTAATAT
33434758 TAA
1 TAA
33434761 AGTGATTATC
Statistics
Matches: 36, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
36 13 0.36
37 19 0.53
39 4 0.11
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (35 bp):
TAATATTATTTTAATAATTTATATTAATTTAATAT
Found at i:33434758 original size:11 final size:11
Alignment explanation
Indices: 33434685--33434760 Score: 52
Period size: 12 Copynumber: 6.8 Consensus size: 11
33434675 ATTCGAAAAA
*
33434685 TAATATTATTT
1 TAATATTAATT
33434696 TAATAATTTAATAT
1 TAAT-A-TTAAT-T
33434710 TAA-ATTTAATT
1 TAATA-TTAATT
*
33434721 TAATACTTATTT
1 TAATA-TTAATT
*
33434733 TAATAGT-ATT
1 TAATATTAATT
33434743 T--TATTAATT
1 TAATATTAATT
33434752 TAATATTAA
1 TAATATTAA
33434761 AGTGATTATC
Statistics
Matches: 52, Mismatches: 6, Indels: 14
0.72 0.08 0.19
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 3 0.06
11 15 0.29
12 19 0.37
13 4 0.08
14 4 0.08
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:33440543 original size:21 final size:21
Alignment explanation
Indices: 33440517--33440561 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
33440507 TCTACCTAGT
*
33440517 TTATTTGATTAAT-TTTGATTG
1 TTATTTGATT-ATCTTTAATTG
*
33440538 TTATTTGGTTATCTTTAATTG
1 TTATTTGATTATCTTTAATTG
33440559 TTA
1 TTA
33440562 GTTAATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.22, C:0.02, G:0.13, T:0.62
Consensus pattern (21 bp):
TTATTTGATTATCTTTAATTG
Found at i:33444460 original size:81 final size:80
Alignment explanation
Indices: 33444320--33444474 Score: 179
Period size: 81 Copynumber: 1.9 Consensus size: 80
33444310 TTGGTAAGAC
* * * * * *
33444320 AAAAAGAAATTGAAGGAAAAGAAAAAGAGAGATGATTCATGGAAGAAAATTAGAGAAAAATAAAA
1 AAAAAGAAATTGAAAGAAAAGAAAAAAAAAGATGATTCATAGAAGAAAATGAGA-AAAAAAAAAA
*
33444385 GAGTTTGAGAGGAGAA
65 GAGATTGAGAGGAGAA
* * *
33444401 AAAAAGAAATTGAAAGAAAAGAAAAATAAAAG-TTATTGATA-AGAGAAAATGAGAAAAAAAAAG
1 AAAAAGAAATTGAAAGAAAAGAAAAA-AAAAGATGATTCATAGA-AGAAAATGAGAAAAAAAAAA
33444464 AGAGATTGAGA
64 AGAGATTGAGA
33444475 TTGAAAAAGA
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
80 18 0.29
81 41 0.66
82 3 0.05
ACGTcount: A:0.61, C:0.01, G:0.23, T:0.15
Consensus pattern (80 bp):
AAAAAGAAATTGAAAGAAAAGAAAAAAAAAGATGATTCATAGAAGAAAATGAGAAAAAAAAAAAG
AGATTGAGAGGAGAA
Found at i:33447178 original size:55 final size:55
Alignment explanation
Indices: 33447083--33447187 Score: 147
Period size: 55 Copynumber: 1.9 Consensus size: 55
33447073 AATGTCGCCT
* ** *
33447083 CATGAGCATATCTAGAATTACGCCCAAAATTTTTACCGCATCTGATAGCTCGCTG
1 CATGAGCATATCCAGAATTACGCCCAAAATAGTTACCGCATCTGACAGCTCGCTG
* **
33447138 CATGAGCATATCCAGAATTGCGCCCAAAATAGTTGTCGCATCTGACAGCT
1 CATGAGCATATCCAGAATTACGCCCAAAATAGTTACCGCATCTGACAGCT
33447188 GTTGAGATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (55 bp):
CATGAGCATATCCAGAATTACGCCCAAAATAGTTACCGCATCTGACAGCTCGCTG
Found at i:33459533 original size:12 final size:12
Alignment explanation
Indices: 33459505--33459551 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
33459495 GAAGATGAGG
33459505 AAGAAG-AGAAGA
1 AAGAAGAAGAA-A
*
33459517 AAGAAGAAGCAA
1 AAGAAGAAGAAA
* *
33459529 GAGAAAAAGAAA
1 AAGAAGAAGAAA
33459541 AAGAAGAAGAA
1 AAGAAGAAGAA
33459552 TTTGTAGCAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
12 25 0.89
13 3 0.11
ACGTcount: A:0.70, C:0.02, G:0.28, T:0.00
Consensus pattern (12 bp):
AAGAAGAAGAAA
Found at i:33470368 original size:17 final size:17
Alignment explanation
Indices: 33470346--33470393 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
33470336 TATCATGTGG
33470346 TTGTCATCACATTTTTA-
1 TTGTCA-CACATTTTTAT
33470363 TTGTCACTACA-TTTTAT
1 TTGTCAC-ACATTTTTAT
33470380 TTGTCAACACATTT
1 TTGTC-ACACATTT
33470394 ACATTGTAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 6 0.22
17 17 0.63
18 4 0.15
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.50
Consensus pattern (17 bp):
TTGTCACACATTTTTAT
Found at i:33470394 original size:16 final size:17
Alignment explanation
Indices: 33470346--33470400 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
33470336 TATCATGTGG
* *
33470346 TTGTCATCACATTTTTA
1 TTGTCAACACATTTATA
33470363 TTGTC-ACTACATTT-TA
1 TTGTCAAC-ACATTTATA
*
33470379 TTTGTCAACACATTTACA
1 -TTGTCAACACATTTATA
33470397 TTGT
1 TTGT
33470401 AGTTGCATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
16 3 0.09
17 26 0.81
18 3 0.09
ACGTcount: A:0.25, C:0.18, G:0.07, T:0.49
Consensus pattern (17 bp):
TTGTCAACACATTTATA
Found at i:33475702 original size:30 final size:30
Alignment explanation
Indices: 33475668--33475731 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
33475658 CCATTTGAGG
33475668 TGTGTCTCTGTCCGTGCTACATATTTGTTA
1 TGTGTCTCTGTCCGTGCTACATATTTGTTA
* ** * *
33475698 TGTGTTTCTGTTTGTGCTACATTTTTGTTG
1 TGTGTCTCTGTCCGTGCTACATATTTGTTA
33475728 TGTG
1 TGTG
33475732 ACGGTGTTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.09, C:0.14, G:0.23, T:0.53
Consensus pattern (30 bp):
TGTGTCTCTGTCCGTGCTACATATTTGTTA
Found at i:33477641 original size:58 final size:58
Alignment explanation
Indices: 33477574--33477740 Score: 223
Period size: 58 Copynumber: 2.9 Consensus size: 58
33477564 AATTATTGTT
33477574 ATTAAATTTTAATA-AGATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTA
1 ATTAAATTTTAATATA-ATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTA
* * * *
33477632 ATTATATTTTAACATAATTATTATTAAATACAATTTAAT-AAAATAATATATAATTTA
1 ATTAAATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTA
* *
33477689 ATAAAATTTTTAATATAATTATTATTAAAATATGAA-TTAATAAAAATCATAA
1 ATTAAA-TTTTAATATAATTATTATT-AAATAT-AATTTAATAAAAATAATAA
33477741 TATATAATAC
Statistics
Matches: 94, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
57 21 0.22
58 52 0.55
59 11 0.12
60 10 0.11
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (58 bp):
ATTAAATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTA
Found at i:33487130 original size:17 final size:17
Alignment explanation
Indices: 33487110--33487148 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
33487100 GAAGGCCAAG
*
33487110 AGAAGAAAAATATGAGT
1 AGAAGAAAAATATGAGC
* *
33487127 AGAAGAAGAATTTGAGC
1 AGAAGAAAAATATGAGC
33487144 AGAAG
1 AGAAG
33487149 GACCCTACAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.54, C:0.03, G:0.28, T:0.15
Consensus pattern (17 bp):
AGAAGAAAAATATGAGC
Found at i:33487457 original size:21 final size:21
Alignment explanation
Indices: 33487431--33487477 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
33487421 AGTTGGTTCG
* *
33487431 AAGGACAAGAAGAGGAAGCAC
1 AAGGACAAAAAGAAGAAGCAC
33487452 AAGGACAAAAAGAAGAAGCAC
1 AAGGACAAAAAGAAGAAGCAC
33487473 AAGGA
1 AAGGA
33487478 GGAAGGAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.57, C:0.13, G:0.30, T:0.00
Consensus pattern (21 bp):
AAGGACAAAAAGAAGAAGCAC
Found at i:33497891 original size:21 final size:21
Alignment explanation
Indices: 33497858--33497902 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
33497848 AGTTGGTTCG
* * * *
33497858 AAGGGCAAGAAGAGGAAGCGC
1 AAGGACAAAAAGAAGAAGCAC
33497879 AAGGACAAAAAGAAGAAGCAC
1 AAGGACAAAAAGAAGAAGCAC
33497900 AAG
1 AAG
33497903 CAGGAAGGAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.53, C:0.13, G:0.33, T:0.00
Consensus pattern (21 bp):
AAGGACAAAAAGAAGAAGCAC
Found at i:33508856 original size:123 final size:123
Alignment explanation
Indices: 33508632--33508995 Score: 577
Period size: 126 Copynumber: 2.9 Consensus size: 123
33508622 CTATCTTTCC
* *
33508632 TTATTTAATATCTCATATTAAAATGGAAATATTCCTTTAGAGAAATATATGGAAGGTTTATTAAA
1 TTATATAATATCTCATATTAAAATGGAAATATTCCTTTAAAGAAATATATGGAAGGTTTATTAAA
* *
33508697 ACATTATATCATTTCCAAAAGTATATTAACTTCCATGTTTTTAATATTTAATTTCCTT
66 ACATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTTAATTTCCTT
* * *
33508755 TTATATAATATTTCATATTAAAATGGAAATATTCCTTCAAAGAAATATATGGAAGGTTCATTAAA
1 TTATATAATATCTCATATTAAAATGGAAATATTCCTTTAAAGAAATATATGGAAGGTTTATTAAA
*
33508820 ACATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTTTTAATATTCAATTTCCTT
66 ACATTATATCCTTTCCAAAAGGATATTAACTTCCATG---TTTTTAATATTTAATTTCCTT
*
33508881 TTATATAATATCTCATATTAAAATGGAAATATTCCTTTAAAAAAATATATGGAAGGTTTATTAAA
1 TTATATAATATCTCATATTAAAATGGAAATATTCCTTTAAAGAAATATATGGAAGGTTTATTAAA
* * **
33508946 ACATTATACCCTTTCCAAAAGGATATTAATTTATATG-TTTTAATATTTAA
66 ACATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTTAA
33508996 CAAAATCATT
Statistics
Matches: 221, Mismatches: 17, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
122 12 0.05
123 95 0.43
126 114 0.52
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (123 bp):
TTATATAATATCTCATATTAAAATGGAAATATTCCTTTAAAGAAATATATGGAAGGTTTATTAAA
ACATTATATCCTTTCCAAAAGGATATTAACTTCCATGTTTTTAATATTTAATTTCCTT
Found at i:33522341 original size:11 final size:11
Alignment explanation
Indices: 33522325--33522349 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
33522315 CACGCAGGAT
33522325 TTTATAAAAGA
1 TTTATAAAAGA
33522336 TTTATAAAAGA
1 TTTATAAAAGA
33522347 TTT
1 TTT
33522350 CTCCAAGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (11 bp):
TTTATAAAAGA
Found at i:33525738 original size:12 final size:12
Alignment explanation
Indices: 33525721--33525756 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
33525711 ATGATCATGC
33525721 AGAGAAGGATGA
1 AGAGAAGGATGA
*
33525733 AGAGAAGGACGA
1 AGAGAAGGATGA
*
33525745 AGCGAAGGATGA
1 AGAGAAGGATGA
33525757 TGAACACATT
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:0.47, C:0.06, G:0.42, T:0.06
Consensus pattern (12 bp):
AGAGAAGGATGA
Found at i:33537453 original size:51 final size:51
Alignment explanation
Indices: 33537387--33537515 Score: 168
Period size: 51 Copynumber: 2.5 Consensus size: 51
33537377 GGAATTCATA
* * * *
33537387 TACTCACGATAACACTGAGTCATCGGACATTTAATCCATCACGGATTAATT
1 TACTCACGATGACACTCAGTCATCGGACATTTAATCCATAAAGGATTAATT
* * * * *
33537438 TACTCACGATGACACTCAGTCATTGAACCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTCAGTCATCGGACATTTAATCCATAAAGGATTAATT
*
33537489 TACTCACGATGACACTTAGTCATCGGA
1 TACTCACGATGACACTCAGTCATCGGA
33537516 TCCTTTCAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 66 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (51 bp):
TACTCACGATGACACTCAGTCATCGGACATTTAATCCATAAAGGATTAATT
Found at i:33539913 original size:40 final size:40
Alignment explanation
Indices: 33539858--33539939 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
33539848 AAAATTTTTT
*
33539858 TCCATGAGAAAGAGGTTGTTCAAGTTCAACCCCATCATCA
1 TCCATGAGAAAGAGGTTGTTCAACTTCAACCCCATCATCA
*
33539898 TCCATGAGAAAGAGGTTGTTCAACTTCAATCCCATCATCA
1 TCCATGAGAAAGAGGTTGTTCAACTTCAACCCCATCATCA
33539938 TC
1 TC
33539940 ATCATCTCCC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.27
Consensus pattern (40 bp):
TCCATGAGAAAGAGGTTGTTCAACTTCAACCCCATCATCA
Found at i:33543636 original size:28 final size:28
Alignment explanation
Indices: 33543587--33543676 Score: 76
Period size: 28 Copynumber: 3.2 Consensus size: 28
33543577 ACACGAGACT
* * * *
33543587 TTTTGGATACTTGGGGGCAAAATGGTAA
1 TTTTGGAAACTCGAGGGTAAAATGGTAA
* *
33543615 TTTTGGAAA-TTGAGGTTAAAAATGG-AA
1 TTTTGGAAACTCGAGGGT-AAAATGGTAA
* *
33543642 TTATGGAAAGCTCGGGGGTAAAATGGTAA
1 TTTTGGAAA-CTCGAGGGTAAAATGGTAA
33543671 TTTTGG
1 TTTTGG
33543677 TGAAATTAAG
Statistics
Matches: 49, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
27 15 0.31
28 22 0.45
29 12 0.24
ACGTcount: A:0.32, C:0.04, G:0.31, T:0.32
Consensus pattern (28 bp):
TTTTGGAAACTCGAGGGTAAAATGGTAA
Found at i:33543739 original size:37 final size:37
Alignment explanation
Indices: 33543698--33543774 Score: 86
Period size: 39 Copynumber: 2.1 Consensus size: 37
33543688 GAAAATTGAA
* * *
33543698 TTTTGTAAAACTT-GGTC-AAAATGTAATTTTTAGAAAG
1 TTTTGGAAAA-TTGGGTCAAAAATGAAATTTTGA-AAAG
33543735 TTTTGGAAAATTGGGGTCAAAAATGAAATTTTGAAAAG
1 TTTTGGAAAATT-GGGTCAAAAATGAAATTTTGAAAAG
33543773 TT
1 TT
33543775 CAGGGGTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
36 2 0.06
37 9 0.26
38 10 0.29
39 13 0.38
ACGTcount: A:0.39, C:0.04, G:0.19, T:0.38
Consensus pattern (37 bp):
TTTTGGAAAATTGGGTCAAAAATGAAATTTTGAAAAG
Found at i:33543792 original size:121 final size:122
Alignment explanation
Indices: 33543615--33543864 Score: 342
Period size: 121 Copynumber: 2.0 Consensus size: 122
33543605 AAAATGGTAA
* * * * *
33543615 TTTTGGAAATTGAGGTTAAAAATGGAATTATGGAAAGCTCGGGGGTAAAATGGTAATTTTGGTGA
1 TTTTGGAAATTGAGGTCAAAAATGAAATTATGAAAAGCTCAGGGGTAAAATGGTAATATTGGTGA
* *
33543680 AATTAAGGG-AAAATTGAATTTTGTAAAACTT-GGTCAAAATGTAATTTTTAGAAAG
66 AATTAAGGGAAAAATGGAATTTTGTAAAACTTGGGTCAAAATGTAATTTTTAAAAAG
* * *
33543735 TTTTGGAAAATTGGGGTCAAAAATGAAATTTTGAAAAGTTCAGGGGTAAAATGGTAATATTGGTG
1 TTTTGG-AAATTGAGGTCAAAAATGAAATTATGAAAAGCTCAGGGGTAAAATGGTAATATTGGTG
* *
33543800 AAATTAGGGGCAAAAATGGAATTTTGTAAAACTTAGGGGTTAAAATGTAATTTTTAAAAAG
65 AAATTAAGGG-AAAAATGGAATTTTGTAAAACTT--GGGTCAAAATGTAATTTTTAAAAAG
33543861 TTTT
1 TTTT
33543865 AGGGTTAAAA
Statistics
Matches: 112, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
120 6 0.05
121 59 0.53
123 21 0.19
126 26 0.23
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (122 bp):
TTTTGGAAATTGAGGTCAAAAATGAAATTATGAAAAGCTCAGGGGTAAAATGGTAATATTGGTGA
AATTAAGGGAAAAATGGAATTTTGTAAAACTTGGGTCAAAATGTAATTTTTAAAAAG
Found at i:33543853 original size:29 final size:27
Alignment explanation
Indices: 33543735--33543858 Score: 92
Period size: 29 Copynumber: 4.4 Consensus size: 27
33543725 TTTTAGAAAG
* *
33543735 TTTTGGAAAATT-GGGGTCAAAAATGAAA
1 TTTTGTAAAATTAGGGGT--AAAATGTAA
33543763 TTTTG-AAAAGTTCAGGGGTAAAATGGTAA
1 TTTTGTAAAA-TT-AGGGGTAAAAT-GTAA
* * * *
33543792 TATTGGTGAAATTAGGGGCAAAAATGGAA
1 T-TTTGTAAAATTAGGGG-TAAAATGTAA
33543821 TTTTGTAAAACTTAGGGGTTAAAATGTAA
1 TTTTGTAAAA-TTAGGGG-TAAAATGTAA
33543850 TTTT-TAAAA
1 TTTTGTAAAA
33543859 AGTTTTAGGG
Statistics
Matches: 78, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
27 4 0.05
28 24 0.31
29 32 0.41
30 15 0.19
31 3 0.04
ACGTcount: A:0.40, C:0.03, G:0.24, T:0.32
Consensus pattern (27 bp):
TTTTGTAAAATTAGGGGTAAAATGTAA
Found at i:33543872 original size:30 final size:30
Alignment explanation
Indices: 33543836--33543925 Score: 128
Period size: 30 Copynumber: 3.0 Consensus size: 30
33543826 TAAAACTTAG
33543836 GGGTTAAAATGTAATTTTTAAAAAGTTTTA
1 GGGTTAAAATGTAATTTTTAAAAAGTTTTA
* *
33543866 GGGTTAAAATATAA-TTTTAAAGAAGTTTAA
1 GGGTTAAAATGTAATTTTTAAA-AAGTTTTA
* *
33543896 GGGTTAAAATGAAATTTTTAGAAAGTTTTA
1 GGGTTAAAATGTAATTTTTAAAAAGTTTTA
33543926 AGGTGAATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
29 7 0.13
30 39 0.75
31 6 0.12
ACGTcount: A:0.42, C:0.00, G:0.18, T:0.40
Consensus pattern (30 bp):
GGGTTAAAATGTAATTTTTAAAAAGTTTTA
Found at i:33543961 original size:58 final size:60
Alignment explanation
Indices: 33543832--33543962 Score: 185
Period size: 60 Copynumber: 2.2 Consensus size: 60
33543822 TTTGTAAAAC
* *
33543832 TTAGGGGTTAAAATGTAATTTTTAAAAAGTTTTAGGGTTAAAATATAATTTTAAAGAAGT
1 TTAGGGGTTAAAATGAAATTTTTAAAAAGTTTTAAGGTTAAAATATAATTTTAAAGAAGT
* * * **
33543892 TTAAGGGTTAAAATGAAATTTTTAGAAAGTTTTAAGG-T-GAATATAATTTTGGAGAAGT
1 TTAGGGGTTAAAATGAAATTTTTAAAAAGTTTTAAGGTTAAAATATAATTTTAAAGAAGT
33543950 TTAGGGGTTAAAA
1 TTAGGGGTTAAAA
33543963 AACTATTTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
58 29 0.46
59 1 0.02
60 33 0.52
ACGTcount: A:0.40, C:0.00, G:0.21, T:0.38
Consensus pattern (60 bp):
TTAGGGGTTAAAATGAAATTTTTAAAAAGTTTTAAGGTTAAAATATAATTTTAAAGAAGT
Found at i:33543971 original size:58 final size:59
Alignment explanation
Indices: 33543832--33543981 Score: 155
Period size: 58 Copynumber: 2.5 Consensus size: 59
33543822 TTTGTAAAAC
** * *
33543832 TTAGGGGTTAAAATGTAATTTTTAAAAAGTTTTAGGGTTAAAATATAATTTTAAAGAAGT
1 TTAGGGGTTAAAAAAT-ATTTTTAGAAAGTTTTAAGGTTAAAATATAATTTTAAAGAAGT
* * **
33543892 TTAAGGGTTAAAATGAA-ATTTTTAGAAAGTTTTAAGG-T-GAATATAATTTTGGAGAAGT
1 TTAGGGGTTAAAA--AATATTTTTAGAAAGTTTTAAGGTTAAAATATAATTTTAAAGAAGT
33543950 TTAGGGGTTAAAAAACTATTTTT-GAATAGTTT
1 TTAGGGGTTAAAAAA-TATTTTTAGAA-AGTTT
33543982 AGGGACTTTT
Statistics
Matches: 76, Mismatches: 9, Indels: 12
0.78 0.09 0.12
Matches are distributed among these distances:
56 2 0.03
57 3 0.04
58 40 0.53
59 1 0.01
60 30 0.39
ACGTcount: A:0.39, C:0.01, G:0.20, T:0.40
Consensus pattern (59 bp):
TTAGGGGTTAAAAAATATTTTTAGAAAGTTTTAAGGTTAAAATATAATTTTAAAGAAGT
Found at i:33545164 original size:15 final size:16
Alignment explanation
Indices: 33545138--33545182 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
33545128 AATTTTTTTT
*
33545138 TATTATTCTTAATTAA
1 TATTATTATTAATTAA
33545154 TA-TATTATTAA-TAA
1 TATTATTATTAATTAA
33545168 TATTATTATT-ATTAA
1 TATTATTATTAATTAA
33545183 ATGAAATTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 6 0.23
15 18 0.69
16 2 0.08
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
TATTATTATTAATTAA
Found at i:33545823 original size:17 final size:17
Alignment explanation
Indices: 33545803--33545846 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
33545793 TAAATGTATT
*
33545803 TTAAATTTAAATTAAAC
1 TTAAATTTAAAATAAAC
* *
33545820 TTAATTTTAAAATAAAT
1 TTAAATTTAAAATAAAC
33545837 TTAAACTTTA
1 TTAAA-TTTA
33545847 TTGGGCCCGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (17 bp):
TTAAATTTAAAATAAAC
Found at i:33545828 original size:23 final size:23
Alignment explanation
Indices: 33545800--33545844 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
33545790 TATTAAATGT
*
33545800 ATTTTAAATTTAAA-TTAAACTTA
1 ATTTTAAA-ATAAATTTAAACTTA
33545823 ATTTTAAAATAAATTTAAACTT
1 ATTTTAAAATAAATTTAAACTT
33545845 TATTGGGCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTTTAAAATAAATTTAAACTTA
Found at i:33546603 original size:133 final size:133
Alignment explanation
Indices: 33546366--33546654 Score: 352
Period size: 133 Copynumber: 2.2 Consensus size: 133
33546356 ATTTGGTCTT
* * ** *
33546366 CTTCTCAGTGTCTCATTAGGAAGATGACCGCATCACTTTTTTTATTCGTTTCTCTGGATCTCCTC
1 CTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTTTTTAATTCACTTCTCTGGATCTCATC
* *
33546431 AGGAAGACGAATTTGGTCCACTTCTTAGTGTCTCATCAGGAAGCTAACCA-TTTATTGCTTCGAC
66 AAGAAGACGAATTTGGTCCACTTCTTAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGAC
33546495 CTG
131 CTG
* * * * **
33546498 CTTCTCAGTGTTTCATCAGGAAGATGACCGCCTC-GTTTGTTTCAATTCACTTCTTTGTTTCTCA
1 CTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTT-TTT-AATTCACTTCTCTGGATCTCA
* * * *
33546562 TCAAGAAGACGGATTTGGTCCACTTCTCT-GTATCTCATCAGGAAGCTAACCATTTTCTTGTTTT
64 TCAAGAAGACGAATTTGGTCCACTTCT-TAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTC
33546626 GACCTG
128 GACCTG
*
33546632 CTTCTCTA-TGTCTCATCAAGAAG
1 CTTCTC-AGTGTCTCATCAGGAAG
33546655 CTGAGGTTCG
Statistics
Matches: 133, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
131 3 0.02
132 34 0.26
133 61 0.46
134 34 0.26
135 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.37
Consensus pattern (133 bp):
CTTCTCAGTGTCTCATCAGGAAGATGACCGCATCACTTTTTTAATTCACTTCTCTGGATCTCATC
AAGAAGACGAATTTGGTCCACTTCTTAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGAC
CTG
Found at i:33558787 original size:38 final size:38
Alignment explanation
Indices: 33558745--33558818 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
33558735 TTTTGGGGTC
33558745 AAATATAATTTTAAAGAAGTTTAGGGGTCAAAATGTCA
1 AAATATAATTTTAAAGAAGTTTAGGGGTCAAAATGTCA
** *
33558783 AAATATAATTTTGGAGAAGTTTGGGGGTCAAAATGT
1 AAATATAATTTTAAAGAAGTTTAGGGGTCAAAATGT
33558819 AATTTTTAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.41, C:0.04, G:0.23, T:0.32
Consensus pattern (38 bp):
AAATATAATTTTAAAGAAGTTTAGGGGTCAAAATGTCA
Found at i:33558815 original size:30 final size:30
Alignment explanation
Indices: 33558779--33559061 Score: 120
Period size: 30 Copynumber: 9.2 Consensus size: 30
33558769 GGGTCAAAAT
33558779 GTCAAAATATAATTTTGGAGAAGTTTGGGG
1 GTCAAAATATAATTTTGGAGAAGTTTGGGG
* *
33558809 GTCAAAATGTAATTTT-TAGAAAGTTTTGGAAAATTGGG
1 GTCAAAATATAATTTTGGAG-AAG-TTT-G------GGG
33558847 GTCAAAA-ATGGAATTTTGGA-AAGTTCT-GGG
1 GTCAAAATAT--AATTTTGGAGAAGTT-TGGGG
* * * * *
33558877 GT-AAAATGGTAATATTGGTGAA-CTTAGGG
1 GTCAAAAT-ATAATTTTGGAGAAGTTTGGGG
* **
33558906 G-CAAAA-ATGGAATTTTGTA-AAACTTGGGG
1 GTCAAAATAT--AATTTTGGAGAAGTTTGGGG
* ** * * *
33558935 GTCAAAATGTAATTTTCAAAAAGTTTTGAG
1 GTCAAAATATAATTTTGGAGAAGTTTGGGG
* **
33558965 GTTAAAATATAATTTTAAAGAAGTTTGGGG
1 GTCAAAATATAATTTTGGAGAAGTTTGGGG
* * *
33558995 GTCAAAATGTAATTTT-TAGAAAGCTTT-AGG
1 GTCAAAATATAATTTTGGAG-AAG-TTTGGGG
* *
33559025 ATTAAAATATAATTTTGGAGAAGTTTGGGG
1 GTCAAAATATAATTTTGGAGAAGTTTGGGG
33559055 GTCAAAA
1 GTCAAAA
33559062 CACTATTTTT
Statistics
Matches: 188, Mismatches: 37, Indels: 56
0.67 0.13 0.20
Matches are distributed among these distances:
27 1 0.01
28 3 0.02
29 47 0.25
30 102 0.54
31 10 0.05
32 1 0.01
37 3 0.02
38 14 0.07
39 6 0.03
40 1 0.01
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.34
Consensus pattern (30 bp):
GTCAAAATATAATTTTGGAGAAGTTTGGGG
Found at i:33558864 original size:28 final size:28
Alignment explanation
Indices: 33558832--33558950 Score: 91
Period size: 29 Copynumber: 4.1 Consensus size: 28
33558822 TTTTAGAAAG
33558832 TTTTGGAAAATT-GGGGTCAAAAATGGAA
1 TTTTGGAAAATTAGGGGTC-AAAATGGAA
* *
33558860 TTTTGGAAAGTTCTGGGGT-AAAATGGTAA
1 TTTTGGAAAATT-AGGGGTCAAAATGG-AA
* * *
33558889 TATTGGTGAACTTAGGGG-CAAAAATGGAA
1 TTTTGG-AAAATTAGGGGTC-AAAATGGAA
* * *
33558918 TTTTGTAAAACTTGGGGGTCAAAATGTAA
1 TTTTGGAAAA-TTAGGGGTCAAAATGGAA
33558947 TTTT
1 TTTT
33558951 CAAAAAGTTT
Statistics
Matches: 72, Mismatches: 11, Indels: 15
0.73 0.11 0.15
Matches are distributed among these distances:
28 20 0.28
29 35 0.49
30 17 0.24
ACGTcount: A:0.34, C:0.05, G:0.28, T:0.33
Consensus pattern (28 bp):
TTTTGGAAAATTAGGGGTCAAAATGGAA
Found at i:33559002 original size:60 final size:60
Alignment explanation
Indices: 33558929--33559061 Score: 205
Period size: 60 Copynumber: 2.2 Consensus size: 60
33558919 TTTGTAAAAC
*
33558929 TTGGGGGTCAAAATGTAATTTTCAAAAAGTTTTGAGG-TTAAAATATAATTTTAAAGAAGT
1 TTGGGGGTCAAAATGTAATTTTCAAAAAGCTTT-AGGATTAAAATATAATTTTAAAGAAGT
* * **
33558989 TTGGGGGTCAAAATGTAATTTTTAGAAAGCTTTAGGATTAAAATATAATTTTGGAGAAGT
1 TTGGGGGTCAAAATGTAATTTTCAAAAAGCTTTAGGATTAAAATATAATTTTAAAGAAGT
33559049 TTGGGGGTCAAAA
1 TTGGGGGTCAAAA
33559062 CACTATTTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
59 3 0.04
60 64 0.96
ACGTcount: A:0.38, C:0.04, G:0.23, T:0.35
Consensus pattern (60 bp):
TTGGGGGTCAAAATGTAATTTTCAAAAAGCTTTAGGATTAAAATATAATTTTAAAGAAGT
Done.