Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 233 of 362
Found at i:78830287 original size:27 final size:27
Alignment explanation
Indices: 78830257--78830512 Score: 291
Period size: 27 Copynumber: 9.5 Consensus size: 27
78830247 TGTAGGATAG
** **
78830257 AATTACCAAAATACCTTTGGTTTACAA
1 AATTACCAAAATACCCCTGGTTTGTAA
78830284 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* * *
78830311 AATTACTAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* *
78830338 AATTACCAAAATACCACTAGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
78830365 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* *
78830392 AATTATCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTGGTTTGTAA
* *
78830419 AATTACCAAAATACCCCTGATTTGTGA
1 AATTACCAAAATACCCCTGGTTTGTAA
*** *
78830446 AATTATTGAAATA-CCCTCGGCTTGTAA
1 AATTACCAAAATACCCCT-GGTTTGTAA
* * *
78830473 AATTACCAAAGTA-CCCTCGATTTATAA
1 AATTACCAAAATACCCCT-GGTTTGTAA
*
78830500 AATTACCCAAATA
1 AATTACCAAAATA
78830513 TCCTCGATTT
Statistics
Matches: 193, Mismatches: 35, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 4 0.02
27 189 0.98
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGGTTTGTAA
Found at i:78830522 original size:81 final size:80
Alignment explanation
Indices: 78830282--78830539 Score: 286
Period size: 81 Copynumber: 3.2 Consensus size: 80
78830272 TTTGGTTTAC
* * * * *
78830282 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAA
1 AAAATTATCGAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTCGATTTATAAAATTACCAA
*
78830347 AATACCACTAGTTTGT
66 AATACCACGA-TTTGT
* * * * *
78830363 AAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAAAATACCC-CTAGTTTGTAAAATTACCA
1 AAAATTATCGAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTCGA-TTTATAAAATTACCA
*
78830427 AAATACCCCTGATTTGT
65 AAATACCAC-GATTTGT
* * * * *
78830444 GAAATTATTGAAATA-CCCTCGGCTTGTAAAATTACCAAAGTACCCTCGATTTATAAAATTACCC
1 AAAATTATCGAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCTCGATTTATAAAATTACCA
* *
78830508 AAATATCCTCGATTTAT
65 AAATA-CCACGATTTGT
78830525 AAAATTATCGAAATA
1 AAAATTATCGAAATA
78830540 AGATAGAATT
Statistics
Matches: 150, Mismatches: 22, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
80 4 0.03
81 140 0.93
82 6 0.04
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.31
Consensus pattern (80 bp):
AAAATTATCGAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTCGATTTATAAAATTACCAA
AATACCACGATTTGT
Found at i:78830538 original size:27 final size:27
Alignment explanation
Indices: 78830277--78830539 Score: 143
Period size: 27 Copynumber: 9.7 Consensus size: 27
78830267 ATACCTTTGG
* *
78830277 TTTACAAAATTA-CCAAAATACCC-CTGG
1 TTTATAAAATTATCC-AAATACCCTC-GA
* * * *
78830304 TTTGTAAAATTA-CTAAAATACCCTTGG
1 TTTATAAAATTATC-CAAATACCCTCGA
*
78830331 TTTATAAAATTA-CCAAAATACCACTAG-
1 TTTATAAAATTATCC-AAATACC-CTCGA
* *
78830358 TTTGTAAAATTA-CCAAAATACCC-CTGG
1 TTTATAAAATTATCC-AAATACCCTC-GA
* * *
78830385 TTTGTAAAATTATCAAAATACCC-CTA
1 TTTATAAAATTATCCAAATACCCTCGA
*
78830411 GTTTGTAAAATTA-CCAAAATACCC-CTGA
1 -TTTATAAAATTATCC-AAATACCCTC-GA
* * ** *
78830439 TTTGTGAAATTATTGAAATACCCTCGG
1 TTTATAAAATTATCCAAATACCCTCGA
* *
78830466 CTTGTAAAATTA-CCAAAGTACCCTCGA
1 TTTATAAAATTATCCAAA-TACCCTCGA
* *
78830493 TTTATAAAATTACCCAAATATCCTCGA
1 TTTATAAAATTATCCAAATACCCTCGA
*
78830520 TTTATAAAATTATCGAAATA
1 TTTATAAAATTATCCAAATA
78830540 AGATAGAATT
Statistics
Matches: 194, Mismatches: 28, Indels: 28
0.78 0.11 0.11
Matches are distributed among these distances:
26 6 0.03
27 177 0.91
28 11 0.06
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
TTTATAAAATTATCCAAATACCCTCGA
Found at i:78830574 original size:27 final size:26
Alignment explanation
Indices: 78830544--78830632 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 26
78830534 GAAATAAGAT
78830544 AGAATTATCATTTTACCCTCGATTTAC
1 AGAATTA-CATTTTACCCTCGATTTAC
* *
78830571 AGAATTACTGTTTTACCCTCAATTTAC
1 AGAATTAC-ATTTTACCCTCGATTTAC
78830598 AGAATTACCATTTTACCCTCGATTTAC
1 AGAATTA-CATTTTACCCTCGATTTAC
*
78830625 AAAATTAC
1 AGAATTAC
78830633 TGAAATACCC
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.04
27 52 0.95
28 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (26 bp):
AGAATTACATTTTACCCTCGATTTAC
Found at i:78830610 original size:54 final size:54
Alignment explanation
Indices: 78830544--78830661 Score: 164
Period size: 54 Copynumber: 2.2 Consensus size: 54
78830534 GAAATAAGAT
* * ***
78830544 AGAATTATCATTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCAATTTAC
1 AGAATTACCATTTTACCCTCGATTTACAAAATTACTGAAATACCCTCAATTTAC
* *
78830598 AGAATTACCATTTTACCCTCGATTTACAAAATTACTGAAATACCCTTAGTTTAC
1 AGAATTACCATTTTACCCTCGATTTACAAAATTACTGAAATACCCTCAATTTAC
*
78830652 AAAATTACCA
1 AGAATTACCA
78830662 AAATACCCTC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.36
Consensus pattern (54 bp):
AGAATTACCATTTTACCCTCGATTTACAAAATTACTGAAATACCCTCAATTTAC
Found at i:78830641 original size:27 final size:27
Alignment explanation
Indices: 78830557--78830723 Score: 120
Period size: 27 Copynumber: 6.2 Consensus size: 27
78830547 ATTATCATTT
* *****
78830557 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCAAAA
* * ***
78830584 TACCCTCAATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAAA
**
78830611 TACCCTCGATTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACCAAAA
*
78830638 TACCCT-TAGTTTACAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACCAAAA
** *
78830665 TACCCTCGATCAATAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
* * * **
78830692 TACCATTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCAAAA
78830719 TACCC
1 TACCC
78830724 CTGATTTGTG
Statistics
Matches: 114, Mismatches: 24, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
26 1 0.01
27 112 0.98
28 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.07, T:0.32
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAAAA
Found at i:78830669 original size:54 final size:54
Alignment explanation
Indices: 78830557--78830751 Score: 176
Period size: 54 Copynumber: 3.6 Consensus size: 54
78830547 ATTATCATTT
* *** * * * ***
78830557 TACCCTCGATTTACAGAATTACTGTTTTACCCTCAATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGAAATACCCTTAGTTTACAAAATTACCAAAA
78830611 TACCCTCGATTTACAAAATTACTGAAATACCCTTAGTTTACAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTGAAATACCCTTAGTTTACAAAATTACCAAAA
** * ** * * **
78830665 TACCCTCGATCAATAAAATTACCAAAATACCATTGGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTGAAATACCCTTAGTTTACAAAATTACCAAAA
***
78830719 TACCC-CTGATTTGTGAAATTACTGAAATACCCT
1 TACCCTC-GATTTACAAAATTACTGAAATACCCT
78830752 ATAGGGTAGA
Statistics
Matches: 114, Mismatches: 26, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
53 1 0.01
54 113 0.99
ACGTcount: A:0.37, C:0.23, G:0.08, T:0.32
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACTGAAATACCCTTAGTTTACAAAATTACCAAAA
Found at i:78830731 original size:27 final size:27
Alignment explanation
Indices: 78830652--78830750 Score: 101
Period size: 27 Copynumber: 3.7 Consensus size: 27
78830642 CTTAGTTTAC
***
78830652 AAAATTACCAAAATA-CCCTCGATCAAT
1 AAAATTACCAAAATACCCCT-GATTTGT
** *
78830679 AAAATTACCAAAATACCATTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
78830706 AAAATTACCAAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* **
78830733 GAAATTACTGAAATACCC
1 AAAATTACCAAAATACCC
78830751 TATAGGGTAG
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
27 57 0.97
28 2 0.03
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.27
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:78830764 original size:26 final size:26
Alignment explanation
Indices: 78830735--78830848 Score: 138
Period size: 27 Copynumber: 4.3 Consensus size: 26
78830725 TGATTTGTGA
* *
78830735 AATTACTGAAATACCCTATAGGGTAG
1 AATTACCGAAATACCCTGTAGGGTAG
78830761 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCC-TGTAGGGTAG
* *
78830788 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATA-CCCTGTAGGGTAG
* * *
78830815 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCC-TGTAGGGTAG
78830842 AATTACC
1 AATTACC
78830849 ATTTTGCCCC
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 18 0.24
27 55 0.72
28 3 0.04
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.25
Consensus pattern (26 bp):
AATTACCGAAATACCCTGTAGGGTAG
Found at i:78830791 original size:54 final size:55
Alignment explanation
Indices: 78830733--78830847 Score: 182
Period size: 54 Copynumber: 2.1 Consensus size: 55
78830723 CCTGATTTGT
78830733 GAAATTACTGAAATA-CCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTA
1 GAAATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTA
* * *
78830787 GAAA-TACTGAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTA
1 GAAATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTA
78830841 -AAATTAC
1 GAAATTAC
78830848 CATTTTGCCC
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
53 13 0.23
54 43 0.77
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (55 bp):
GAAATTACTGAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTA
Found at i:78831283 original size:25 final size:25
Alignment explanation
Indices: 78831254--78831348 Score: 100
Period size: 25 Copynumber: 3.6 Consensus size: 25
78831244 ATTCACATTT
78831254 TGATTTTGATTCTGTTACCTGATACC
1 TGATTTTGATTCTGTTACCTGATA-C
78831280 GATTTTGATTTTGATTCTGTTACCTGATAC
1 -----TGATTTTGATTCTGTTACCTGATAC
* * * *
78831310 TGATTCTGATTCTGTCACCTAATTC
1 TGATTTTGATTCTGTTACCTGATAC
78831335 TGATTTTGATTCTG
1 TGATTTTGATTCTG
78831349 ATTCTAGTTC
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
25 34 0.58
30 1 0.02
31 24 0.41
ACGTcount: A:0.19, C:0.17, G:0.16, T:0.48
Consensus pattern (25 bp):
TGATTTTGATTCTGTTACCTGATAC
Found at i:78831288 original size:31 final size:31
Alignment explanation
Indices: 78831250--78831320 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
78831240 TTGCATTCAC
78831250 ATTTTGATTTTGATTCTGTTACCTGATACCG
1 ATTTTGATTTTGATTCTGTTACCTGATACCG
*
78831281 ATTTTGATTTTGATTCTGTTACCTGATACTG
1 ATTTTGATTTTGATTCTGTTACCTGATACCG
*
78831312 ATTCTGATT
1 ATTTTGATT
78831321 CTGTCACCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.20, C:0.14, G:0.15, T:0.51
Consensus pattern (31 bp):
ATTTTGATTTTGATTCTGTTACCTGATACCG
Found at i:78836856 original size:42 final size:41
Alignment explanation
Indices: 78836736--78836888 Score: 121
Period size: 42 Copynumber: 3.7 Consensus size: 41
78836726 AATCATACCA
* * *
78836736 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATTG
1 ATGCCATGTCCCAGACATGGTCTTACAT-GAATCTCATATTG
* * * *
78836778 ATGCGAATAG-CCCAG-CTATGGTCTTAAACGATTCTCATATTG
1 ATGC-CAT-GTCCCAGAC-ATGGTCTTACATGAATCTCATATTG
* **
78836820 ATGCCATGTCCCAGACATGGTTTTACATGAAATCTCATAACG
1 ATGCCATGTCCCAGACATGGTCTTACATG-AATCTCATATTG
* * * *
78836862 ATGTCGTATCCCAGATATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
78836889 CGTAAACTCA
Statistics
Matches: 86, Mismatches: 19, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
40 1 0.01
41 17 0.20
42 51 0.59
43 17 0.20
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (41 bp):
ATGCCATGTCCCAGACATGGTCTTACATGAATCTCATATTG
Found at i:78836899 original size:84 final size:83
Alignment explanation
Indices: 78836736--78836900 Score: 188
Period size: 84 Copynumber: 2.0 Consensus size: 83
78836726 AATCATACCA
* ** ** *
78836736 ATGCCATATCCCAGATATGGTCTTACATGGGATCTCATATTGATGCGAATAGCCCAGCTATGGTC
1 ATGCCATATCCCAGACATGGTCTTACATGAAATCTCATAACGATGCG-ATAGCCCAGATATGGTC
**
78836801 TTAAACGATTCTCATATTG
65 TTAAACGAAACTCATATTG
* * *
78836820 ATGCCATGTCCCAGACATGGTTTTACATGAAATCTCATAACGATGTCG-TATCCCAGATATGGTC
1 ATGCCATATCCCAGACATGGTCTTACATGAAATCTCATAACGATG-CGATAGCCCAGATATGGTC
*
78836884 TTACACGTAAACTCATA
65 TTAAACG-AAACTCATA
78836901 ACCCTAATGT
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
83 20 0.30
84 45 0.67
85 2 0.03
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (83 bp):
ATGCCATATCCCAGACATGGTCTTACATGAAATCTCATAACGATGCGATAGCCCAGATATGGTCT
TAAACGAAACTCATATTG
Found at i:78839117 original size:27 final size:27
Alignment explanation
Indices: 78839069--78839227 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
78839059 GCGAGGCTGC
* *
78839069 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
78839096 CAGATATTGTGGTAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
78839122 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
78839149 CAGATAATTGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
78839176 TAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
78839203 TAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
78839228 GATGCTTCCT
Statistics
Matches: 116, Mismatches: 8, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 101 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:78839159 original size:54 final size:54
Alignment explanation
Indices: 78839087--78839227 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
78839077 GTGACGAAGT
* *
78839087 CACCAGATACAGAT-ATTGTGGTAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
78839141 CACCAGATCAGATAATTGTGGCATAGCCACCAGAATAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
78839195 CACCAGATTAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
78839228 GATGCTTCCT
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 77 0.94
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:78840882 original size:26 final size:26
Alignment explanation
Indices: 78840853--78840957 Score: 183
Period size: 26 Copynumber: 4.0 Consensus size: 26
78840843 AATGCCCATA
*
78840853 ATGGAACATTTACCTAAACCATTATC
1 ATGGAACATTTACCTAACCCATTATC
78840879 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
* *
78840905 ATGGAATATTTACCTAATCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
78840931 ATGGAACATTTACCTAACCCATTATC
1 ATGGAACATTTACCTAACCCATTATC
78840957 A
1 A
78840958 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATGGAACATTTACCTAACCCATTATC
Found at i:78846683 original size:39 final size:39
Alignment explanation
Indices: 78846636--78846847 Score: 295
Period size: 39 Copynumber: 5.4 Consensus size: 39
78846626 TGATATCCGA
78846636 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCGG
1 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCGG
78846675 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATAT-CGG
*
78846715 GC-AAGTCCCGAAGGCATTTGTGCTATTGACTATATTCGG
1 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATA-TCGG
* *
78846754 GCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATAT-CGG
* * *
78846794 GCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCCG
1 GCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCGG
*
78846833 GCTAAATCCCGAAGG
1 GCTAAGTCCCGAAGG
78846848 TACTTGGGTT
Statistics
Matches: 161, Mismatches: 7, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
39 88 0.55
40 71 0.44
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCGG
Found at i:78846771 original size:79 final size:79
Alignment explanation
Indices: 78846628--78846847 Score: 313
Period size: 79 Copynumber: 2.8 Consensus size: 79
78846618 TATTCGAATG
* * *
78846628 ATATCCGAGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCGGGCTAAGTCCCGAAGGCAT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCGGGCTAAGACCCGAAGGCAT
*
78846693 TTGTGCTAG-TGACT
66 TTGTGCGAGTTG-CT
78846707 ATATCCGGGC-AAGTCCCGAAGGCATTTGTGCTATTGACTATATTCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATA-TCGGGCTAAGACCCGAAGGCA
78846771 TTTGTGCGAGTTGCT
65 TTTGTGCGAGTTGCT
* * *
78846786 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCCGGCTAA-ATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACTATATCGGGCTAAGA-CCCGAAGG
78846848 TACTTGGGTT
Statistics
Matches: 129, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
78 32 0.25
79 66 0.51
80 28 0.22
81 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCGGGCTAAGACCCGAAGGCAT
TTGTGCGAGTTGCT
Found at i:78854776 original size:40 final size:39
Alignment explanation
Indices: 78854721--78854942 Score: 270
Period size: 40 Copynumber: 5.6 Consensus size: 39
78854711 TATTCGAATG
78854721 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAT-CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
78854761 ATATCAGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATC-GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
78854801 ATATTCGGGCCAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATA-TCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
78854841 ATATCCGGGCTAAGACCCGAAGCCATTTGTG-TGAGTTG-CT
1 ATAT-CGGGCTAAGTCCCGAAGGCATTTGTGCT-AG-TGACT
** *
78854881 ATATACGGGCTAACACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATAT-CGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
78854921 ATATCCGGCTAAATCCCGAAGG
1 ATATCGGGCTAAGTCCCGAAGG
78854943 TACTTGGGTT
Statistics
Matches: 163, Mismatches: 13, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
39 18 0.11
40 141 0.87
41 4 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (39 bp):
ATATCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:78868545 original size:65 final size:66
Alignment explanation
Indices: 78868456--78868625 Score: 181
Period size: 65 Copynumber: 2.6 Consensus size: 66
78868446 AATTAGTTGC
* *
78868456 ATCACACGGCCAAAT-ACACGCCCGTGTGGTAGGCCGTGTGAAAACT-GGAGGGTATACTGAC-T
1 ATCACACGGCCAAGTCACACGCCCGTGTGGTAGGCCGTGTGAAAACTAGG-GGATATACTGACTT
78868518 -T
65 GT
* * * ** **
78868519 ATCAGCACGGCCAAGTCGCACGCCCGTGTGCTTGGCCGTGTGTCATTTAGGGGATATACTGACTT
1 ATCA-CACGGCCAAGTCACACGCCCGTGTGGTAGGCCGTGTGAAAACTAGGGGATATACTGACTT
78868584 GT
65 GT
*
78868586 ACCACACGGCC-AGTCACACGCCCGTGT-GTGAGGCCGTGTG
1 ATCACACGGCCAAGTCACACGCCCGTGTGGT-AGGCCGTGTG
78868626 GAGCATACTA
Statistics
Matches: 88, Mismatches: 13, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
63 4 0.05
64 11 0.12
65 59 0.67
66 10 0.11
67 4 0.05
ACGTcount: A:0.21, C:0.27, G:0.30, T:0.22
Consensus pattern (66 bp):
ATCACACGGCCAAGTCACACGCCCGTGTGGTAGGCCGTGTGAAAACTAGGGGATATACTGACTTG
T
Found at i:78869682 original size:23 final size:23
Alignment explanation
Indices: 78869652--78869701 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
78869642 GCTAATGAAC
*
78869652 AGTAAGCTCT-ATTGAGCTGAAAT
1 AGTAAGCTCTGA-CGAGCTGAAAT
*
78869675 AGTAAGCTCTGACGAGCTGAATT
1 AGTAAGCTCTGACGAGCTGAAAT
78869698 AGTA
1 AGTA
78869702 CAATCTACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 23 0.96
24 1 0.04
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (23 bp):
AGTAAGCTCTGACGAGCTGAAAT
Found at i:78877787 original size:40 final size:40
Alignment explanation
Indices: 78877725--78877840 Score: 171
Period size: 40 Copynumber: 2.9 Consensus size: 40
78877715 TATTTGGATG
*
78877725 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACC
* *
78877765 A-AATCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
1 ATAA-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACC
* *
78877805 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
78877841 AGCTATATCC
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
39 2 0.03
40 64 0.94
41 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACC
Found at i:78884408 original size:41 final size:41
Alignment explanation
Indices: 78884332--78884514 Score: 135
Period size: 41 Copynumber: 4.5 Consensus size: 41
78884322 AATACTCGAT
* * * *
78884332 ATCTCGCACACTAAGTACCAAAGCATAGCTGAAGCTATTATA
1 ATCTCGCACACTAAGTGCCATATCATAGCCGAAGCTATTA-A
* *
78884374 ATCTCGCACACTTAGTGCC-TTTCATAGCCGAAGCTATCTAA
1 ATCTCGCACACTAAGTGCCATATCATAGCCGAAGCTAT-TAA
* * * **
78884415 GTCTCGTACACTAAGTGCCATAT-ATAGTCGAAGCTATTCCG
1 ATCTCGCACACTAAGTGCCATATCATAGCCGAAGCTATT-AA
** **
78884456 AT-TCGCACA-TAAAGTGCTTTAT-ATAGCCGAAGCTATCTCG
1 ATCTCGCACACT-AAGTGCCATATCATAGCCGAAGCTAT-TAA
*
78884496 AT-ACGCACACTAAGTGCCA
1 ATCTCGCACACTAAGTGCCA
78884515 AACATAGTCG
Statistics
Matches: 114, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
39 1 0.01
40 45 0.39
41 47 0.41
42 21 0.18
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (41 bp):
ATCTCGCACACTAAGTGCCATATCATAGCCGAAGCTATTAA
Found at i:78884479 original size:40 final size:40
Alignment explanation
Indices: 78884378--78884512 Score: 116
Period size: 40 Copynumber: 3.4 Consensus size: 40
78884368 ATTATAATCT
* * * *
78884378 CGCACACTTAGTGCCTTT-CATAGCCGAAGCTATCT-AAGTCT
1 CGCACACTAAGTG-CTTTATATAGCCGAAGCTATCTCGA-T-A
* ** * *
78884419 CGTACACTAAGTGCCATATATAGTCGAAGCTAT-TCCGATT
1 CGCACACTAAGTGCTTTATATAGCCGAAGCTATCT-CGATA
78884459 CGCACA-TAAAGTGCTTTATATAGCCGAAGCTATCTCGATA
1 CGCACACT-AAGTGCTTTATATAGCCGAAGCTATCTCGATA
78884499 CGCACACTAAGTGC
1 CGCACACTAAGTGC
78884513 CAAACATAGT
Statistics
Matches: 76, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
39 1 0.01
40 47 0.62
41 27 0.36
42 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (40 bp):
CGCACACTAAGTGCTTTATATAGCCGAAGCTATCTCGATA
Found at i:78901916 original size:16 final size:16
Alignment explanation
Indices: 78901895--78901929 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
78901885 ATGATGACAA
* *
78901895 AAAAGAAAAGAGAAAG
1 AAAAGAAAAAAAAAAG
78901911 AAAAGAAAAAAAAAAG
1 AAAAGAAAAAAAAAAG
78901927 AAA
1 AAA
78901930 GGCTCTCATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAAAAAG
Found at i:78903243 original size:40 final size:40
Alignment explanation
Indices: 78903188--78903405 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
78903178 TGGATGATAA
* * *
78903188 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
78903228 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
78903268 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
78903308 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
78903348 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
78903388 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
78903406 TACTTGGCTT
Statistics
Matches: 166, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 16 0.10
40 150 0.90
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:78909983 original size:11 final size:11
Alignment explanation
Indices: 78909962--78909995 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
78909952 AATGATGATG
78909962 AAAAAAAAGAA
1 AAAAAAAAGAA
* *
78909973 AAGAGAAAGAA
1 AAAAAAAAGAA
78909984 AAAAAAAAGAA
1 AAAAAAAAGAA
78909995 A
1 A
78909996 GGCTCTCATG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:78911338 original size:40 final size:40
Alignment explanation
Indices: 78911257--78911339 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
78911247 GATGATAACT
* *
78911257 GGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCC
1 GGGCTAAGTCCCAAAGGCATTTGCGCGAGTGACTAGTTCC
* *
78911297 GGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTA-TATCC
1 GGGCTAAGTCCCAAAGGCATTTGCGCGAGTGACTAGT-TCC
78911337 GGG
1 GGG
78911340 TGGTATTCGC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.03
40 37 0.97
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCAAAGGCATTTGCGCGAGTGACTAGTTCC
Found at i:78913170 original size:18 final size:17
Alignment explanation
Indices: 78913147--78913180 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
78913137 GAATAATAAA
*
78913147 ATGTTATTATAATAATTT
1 ATGTTATAATAA-AATTT
78913165 ATGTTATAATAAAATT
1 ATGTTATAATAAAATT
78913181 CATCATGCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (17 bp):
ATGTTATAATAAAATTT
Found at i:78914164 original size:56 final size:56
Alignment explanation
Indices: 78914076--78914267 Score: 287
Period size: 56 Copynumber: 3.4 Consensus size: 56
78914066 ACCATGGCAT
* * *
78914076 CGATATAGGTGTGGGAGTAAGATCACGTTTAATACGTTGGCATCGATATGTGATTC
1 CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
* *
78914132 CAATATATGTGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
1 CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
* * *
78914188 CGATATATGTGTGCGAGTAAGACCACATTTAATACATTGGCATTGATATGTGATTC
1 CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
*
78914244 CGATTTATGTGTGC-AGGTAAGACC
1 CGATATATGTGTGCGA-GTAAGACC
78914268 CTGTCTGGGA
Statistics
Matches: 125, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
55 1 0.01
56 124 0.99
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
Found at i:78914298 original size:112 final size:112
Alignment explanation
Indices: 78914076--78914298 Score: 263
Period size: 112 Copynumber: 2.0 Consensus size: 112
78914066 ACCATGGCAT
* * * *
78914076 CGATATAGGTGTGGGAGTAAGATCACGTTTAATACGTTGGCATCGATATGTGATTCCAATATATG
1 CGATATAGGTGTGCGAGTAAGACCACATTTAATACATTGGCATCGATATGTGATTCCAATATATG
* * * **
78914141 TGTGTGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
66 TGTGAGAGTAAGACCACGTCTAAGACGTTGGCATCGATAAATGATTC
* * * *
78914188 CGATATATGTGTGCGAGTAAGACCACATTTAATACATTGGCATTGATATGTGATTCCGATTTATG
1 CGATATAGGTGTGCGAGTAAGACCACATTTAATACATTGGCATCGATATGTGATTCCAATATATG
**
78914253 TGTGCAG-GTAAGACC-CTGTCTGGGACAG-TGGCATCGATAAATGATT
66 TGTG-AGAGTAAGACCAC-GTCTAAGAC-GTTGGCATCGATAAATGATT
78914299 ACATGTAAGA
Statistics
Matches: 93, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
111 1 0.01
112 90 0.97
113 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (112 bp):
CGATATAGGTGTGCGAGTAAGACCACATTTAATACATTGGCATCGATATGTGATTCCAATATATG
TGTGAGAGTAAGACCACGTCTAAGACGTTGGCATCGATAAATGATTC
Found at i:78914532 original size:18 final size:19
Alignment explanation
Indices: 78914498--78914533 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
78914488 AATACAATTT
78914498 ATATATGATGTAAATGAAA
1 ATATATGATGTAAATGAAA
*
78914517 ATATATG-TGTATATGAA
1 ATATATGATGTAAATGAA
78914534 TAGTACATTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36
Consensus pattern (19 bp):
ATATATGATGTAAATGAAA
Found at i:78924866 original size:21 final size:21
Alignment explanation
Indices: 78924818--78924867 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
78924808 ATGAATTTTG
*
78924818 AAAG-TTTGATGATAGATATT
1 AAAGTTTTGATGATAAATATT
78924838 AAAGTTTTGATGATAAATATT
1 AAAGTTTTGATGATAAATATT
78924859 AAAGTTTTG
1 AAAGTTTTG
78924868 TTAAGTGACT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
20 4 0.14
21 24 0.86
ACGTcount: A:0.40, C:0.00, G:0.18, T:0.42
Consensus pattern (21 bp):
AAAGTTTTGATGATAAATATT
Found at i:78932275 original size:2 final size:2
Alignment explanation
Indices: 78932270--78932295 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
78932260 TTCATATATA
78932270 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
78932296 AAATGATTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:78934633 original size:16 final size:16
Alignment explanation
Indices: 78934612--78934645 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
78934602 TTATGAACTC
78934612 AGACCACAACTCAATG
1 AGACCACAACTCAATG
78934628 AGACCACAACTCAATG
1 AGACCACAACTCAATG
78934644 AG
1 AG
78934646 TTTAGATCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.29, G:0.15, T:0.12
Consensus pattern (16 bp):
AGACCACAACTCAATG
Found at i:78943084 original size:51 final size:51
Alignment explanation
Indices: 78943004--78943111 Score: 171
Period size: 51 Copynumber: 2.1 Consensus size: 51
78942994 ACAATCCTCA
* *
78943004 TTTGAAGAATAGGTAAGTTCTTTAATGTATTATGGACTTTTTATTTAGTTG
1 TTTGAAGAATAGGTAACTTCTTTAATGTATTATGGACTTTCTATTTAGTTG
* *
78943055 TTTGAAGAATAGGTAACTTTTTTAGTGTATTATGGACTTTCTATTTAGTTG
1 TTTGAAGAATAGGTAACTTCTTTAATGTATTATGGACTTTCTATTTAGTTG
78943106 TATTGA
1 T-TTGA
78943112 GTGAAATATT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
51 48 0.92
52 4 0.08
ACGTcount: A:0.27, C:0.05, G:0.19, T:0.49
Consensus pattern (51 bp):
TTTGAAGAATAGGTAACTTCTTTAATGTATTATGGACTTTCTATTTAGTTG
Found at i:78944581 original size:16 final size:16
Alignment explanation
Indices: 78944532--78944584 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
78944522 ATTTTATGTT
*
78944532 ATTTGTTATCATTCTA
1 ATTTTTTATCATTCTA
* *
78944548 ATTTTTTACCCCTT-TA
1 ATTTTTTA-TCATTCTA
*
78944564 ATTTTTTATCTTTCTA
1 ATTTTTTATCATTCTA
78944580 ATTTT
1 ATTTT
78944585 CTTTCTACTC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 3 0.10
16 24 0.80
17 3 0.10
ACGTcount: A:0.21, C:0.15, G:0.02, T:0.62
Consensus pattern (16 bp):
ATTTTTTATCATTCTA
Found at i:78945711 original size:3 final size:3
Alignment explanation
Indices: 78945703--78945739 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
78945693 AATTTCAAAT
78945703 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
78945740 TCCATCTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:78949878 original size:37 final size:37
Alignment explanation
Indices: 78949828--78949930 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
78949818 GGAAATATAT
*
78949828 TCCGGTTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
78949865 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
78949902 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
78949931 GGACTATTCG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:78957085 original size:55 final size:56
Alignment explanation
Indices: 78957020--78957134 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
78957010 AGCATGGCTG
* *
78957020 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
** * *
78957076 CCAGA-ACAGATTTATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
78957131 CCAG
1 CCAG
78957135 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:78957096 original size:27 final size:27
Alignment explanation
Indices: 78957045--78957134 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 27
78957035 GTGACAGAGT
78957045 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
*
78957074 CACCAGAACAGAT-TTATGTGGCAGGGC
1 CACCAGAACAGATATT-TGTGGCAGTGC
78957101 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
78957129 CACCAG
1 CACCAG
78957135 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
26 2 0.04
27 23 0.42
28 21 0.38
29 9 0.16
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.21
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:78957287 original size:28 final size:28
Alignment explanation
Indices: 78957240--78957332 Score: 161
Period size: 28 Copynumber: 3.3 Consensus size: 28
78957230 AAATTAACCC
*
78957240 TAGGGGTATAGA-GGTCATTTTGCATACA
1 TAGGGGTATA-ATGGTAATTTTGCATACA
78957268 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
78957296 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
78957324 TAGGGGTAT
1 TAGGGGTAT
78957333 TCTAGTACAT
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
27 1 0.02
28 62 0.98
ACGTcount: A:0.30, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:78958975 original size:38 final size:40
Alignment explanation
Indices: 78958924--78959057 Score: 112
Period size: 40 Copynumber: 3.4 Consensus size: 40
78958914 AATCAAGCAT
*
78958924 CTTCGGGGT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTC-GGGTCTTAGCCCGGATATAACCACTAGCACAAAGGC
** * *
78958962 CTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACCACTAGCACAAAGGC
* * * ** * *
78959002 CTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAACCAC-TAGCACAAAGGC
*
78959043 CTTCGGGACTTAGCC
1 CTTCGGGTCTTAGCC
78959058 GATATCATTC
Statistics
Matches: 80, Mismatches: 12, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
37 4 0.05
38 8 0.10
39 16 0.20
40 29 0.36
41 23 0.29
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACCACTAGCACAAAGGC
Found at i:78959020 original size:40 final size:41
Alignment explanation
Indices: 78958960--78959057 Score: 137
Period size: 40 Copynumber: 2.4 Consensus size: 41
78958950 CTCGCACAAG
* *
78958960 GCCTTCGGGTCTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGATCTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
78959000 GCCTTCGGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGATCTTAGCCCGGATATAGTCGCTTAGCACAAAA
78959041 GCCTTCGGGA-CTTAGCC
1 GCCTTC-GGATCTTAGCC
78959058 GATATCATTC
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
40 27 0.53
41 21 0.41
42 3 0.06
ACGTcount: A:0.21, C:0.28, G:0.26, T:0.26
Consensus pattern (41 bp):
GCCTTCGGATCTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:78962893 original size:24 final size:24
Alignment explanation
Indices: 78962861--78962911 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
78962851 TTTGTTTGTG
78962861 TCTATTAGTTATATAAATAAATAA
1 TCTATTAGTTATATAAATAAATAA
*
78962885 TCTATTAGTTATATAAATAAATGA
1 TCTATTAGTTATATAAATAAATAA
78962909 TCT
1 TCT
78962912 TTTATTTAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (24 bp):
TCTATTAGTTATATAAATAAATAA
Found at i:78963554 original size:29 final size:27
Alignment explanation
Indices: 78963522--78963578 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 27
78963512 TTATCGATAA
78963522 TTTTTATAA-ATTTATAATATTTTACAAC
1 TTTTTA-AATATTTATAATATTTTA-AAC
*
78963550 TTTTTAAATTTTTTATAATATTTTAAAC
1 TTTTTAAA-TATTTATAATATTTTAAAC
78963578 T
1 T
78963579 ACATCTAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 2 0.08
28 10 0.38
29 14 0.54
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (27 bp):
TTTTTAAATATTTATAATATTTTAAAC
Found at i:78963573 original size:19 final size:19
Alignment explanation
Indices: 78963522--78963576 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
78963512 TTATCGATAA
78963522 TTTTTATAA-A-TTTATAAT
1 TTTTTATAATATTTTA-AAT
* *
78963540 ATTTTACAACT-TTTTAAAT
1 TTTTTATAA-TATTTTAAAT
78963559 TTTTTATAATATTTTAAA
1 TTTTTATAATATTTTAAA
78963577 CTACATCTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
18 8 0.28
19 17 0.59
20 4 0.14
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTTATAATATTTTAAAT
Found at i:78963574 original size:10 final size:10
Alignment explanation
Indices: 78963518--78963574 Score: 52
Period size: 10 Copynumber: 6.1 Consensus size: 10
78963508 TTAATTATCG
78963518 ATAAT-TTTT
1 ATAATATTTT
78963527 ATAA-A-TTT
1 ATAATATTTT
78963535 ATAATATTTT
1 ATAATATTTT
*
78963545 ACAACT-TTTT
1 ATAA-TATTTT
*
78963555 A-AATTTTTT
1 ATAATATTTT
78963564 ATAATATTTT
1 ATAATATTTT
78963574 A
1 A
78963575 AACTACATCT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
8 8 0.20
9 12 0.30
10 19 0.47
11 1 0.03
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.58
Consensus pattern (10 bp):
ATAATATTTT
Found at i:78964125 original size:23 final size:22
Alignment explanation
Indices: 78964078--78964146 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 22
78964068 GATAATAATT
78964078 CAAATAAA--AAAATTTATATA
1 CAAATAAACCAAAATTTATATA
78964098 C--AT-AACCATAAATGTTATATA
1 CAAATAAACCA-AAAT-TTATATA
*
78964119 CAAATAAACCAAAATATTACATA
1 CAAATAAACCAAAAT-TTATATA
78964142 CAAAT
1 CAAAT
78964147 TCATATACAT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
17 2 0.05
18 2 0.05
19 1 0.03
20 5 0.12
21 8 0.20
23 17 0.43
24 5 0.12
ACGTcount: A:0.58, C:0.13, G:0.01, T:0.28
Consensus pattern (22 bp):
CAAATAAACCAAAATTTATATA
Found at i:78970829 original size:132 final size:132
Alignment explanation
Indices: 78970605--78971099 Score: 398
Period size: 131 Copynumber: 3.8 Consensus size: 132
78970595 CGAGGATGAG
* * ** * *
78970605 ATTCGAT-CTTTGGCAACTCGTG-GAATAGTGCCCTAATATGTTGAGTTGCAATTTCGT-GTTTG
1 ATTCGATGC-TTGGCAATTC-TGAGAATCGTGCCCTAACGTGCTGGGTTGCAATTTC-TCGTTTG
* * * * * *
78970667 CTCAAAACAATTGAATATCTCTTCAAAATTTCACTCGTACCTTTCAAAAATTCTTCAAAACGAAG
63 CTCAAAACAATCGAAGATCCCTTTAGAATTTCACTCGTACCTTTCAAAAATCCTTCAAAACGAAG
78970732 GCGAT
128 GCGAT
* * *
78970737 ATTCGATACTTGGTAATTCATG-GAATCGTGCCCTAACGTGTTGGGTTGCAATTTCTCGTTTGCT
1 ATTCGATGCTTGGCAATTC-TGAGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCT
** * * ** *
78970801 CAAAGTAATCGAAGGTCCCTTTAGAATTTCACCCGTTTC-TTCTAAAAATCCTTTAAAACGAAGG
65 CAAAACAATCGAAGATCCCTTTAGAATTTCACTCGTACCTTTC-AAAAATCCTTCAAAACGAAGG
*
78970865 CAAT
129 CGAT
* * * ** * * **
78970869 ACTCGGTGTTTAACAATTC-GAGAATCATGCCCTACCGTGCTGGGTTGTGATTTCTCGTTTGCTC
1 ATTCGATGCTTGGCAATTCTGAGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTC
* * * ** * ** *
78970933 AAAATAATCGAATATTCCTTTAGGTTTTCACTCAT-GTTTATTAAAAA-CCTTGCAAAACGAAGG
66 AAAACAATCGAAGATCCCTTTAGAATTTCACTCGTACCTT-TCAAAAATCCTT-CAAAACGAAGG
78970996 CGAT
129 CGAT
* * * * * ** *
78971000 ATTCGATGTTTGGCGATT-TGAGAATCGAGCCCTATCGCGCTGGGTTGCGCTTTCTCTTTTGCTC
1 ATTCGATGCTTGGCAATTCTGAGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTC
*
78971064 AAAACAATCGAAGATCCC-TTCGAAATTTCACTCGTA
66 AAAACAATCGAAGATCCCTTTAG-AATTTCACTCGTA
78971100 TTTTCTAAGG
Statistics
Matches: 288, Mismatches: 65, Indels: 20
0.77 0.17 0.05
Matches are distributed among these distances:
130 8 0.03
131 163 0.57
132 116 0.40
133 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (132 bp):
ATTCGATGCTTGGCAATTCTGAGAATCGTGCCCTAACGTGCTGGGTTGCAATTTCTCGTTTGCTC
AAAACAATCGAAGATCCCTTTAGAATTTCACTCGTACCTTTCAAAAATCCTTCAAAACGAAGGCG
AT
Found at i:78985309 original size:12 final size:10
Alignment explanation
Indices: 78985292--78985338 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
78985282 TTGAGACCTT
78985292 AAAAAATCAAGA
1 AAAAAAT-AA-A
78985304 AAAAAATAAA
1 AAAAAATAAA
*
78985314 AAAAAGA-ATA
1 AAAAA-ATAAA
78985324 AAAAAATAAA
1 AAAAAATAAA
78985334 AAAAA
1 AAAAA
78985339 GAATCAACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
9 1 0.03
10 20 0.65
11 3 0.10
12 7 0.23
ACGTcount: A:0.85, C:0.02, G:0.04, T:0.09
Consensus pattern (10 bp):
AAAAAATAAA
Found at i:78985317 original size:20 final size:20
Alignment explanation
Indices: 78985292--78985338 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
78985282 TTGAGACCTT
*
78985292 AAAAAATCAAGAAAAAAATA
1 AAAAAAACAAGAAAAAAATA
* *
78985312 AAAAAAAGAATAAAAAAATA
1 AAAAAAACAAGAAAAAAATA
78985332 AAAAAAA
1 AAAAAAA
78985339 GAATCAACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.85, C:0.02, G:0.04, T:0.09
Consensus pattern (20 bp):
AAAAAAACAAGAAAAAAATA
Found at i:78985356 original size:20 final size:20
Alignment explanation
Indices: 78985303--78985342 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
78985293 AAAAATCAAG
78985303 AAAAAAATAAAAAAAAGAAT
1 AAAAAAATAAAAAAAAGAAT
78985323 AAAAAAATAAAAAAAAGAAT
1 AAAAAAATAAAAAAAAGAAT
78985343 CAACCAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.05, T:0.10
Consensus pattern (20 bp):
AAAAAAATAAAAAAAAGAAT
Found at i:78986527 original size:64 final size:64
Alignment explanation
Indices: 78986449--78986640 Score: 305
Period size: 64 Copynumber: 3.0 Consensus size: 64
78986439 TCATTCATAA
*
78986449 CACATCTAGGTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* * ** *
78986513 CACATCTAGTTAGGACCATTTTATTCATTTCGATCATAGTGTCCTAATTAGTTGACATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
*
78986577 CACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTCG-CATAAGCAT
1 CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTT-GACATAAGCAT
78986641 AGATACATGA
Statistics
Matches: 115, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
64 114 0.99
65 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (64 bp):
CACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:78987146 original size:177 final size:176
Alignment explanation
Indices: 78986957--78987593 Score: 809
Period size: 177 Copynumber: 3.6 Consensus size: 176
78986947 AAGTTGTAGT
* * * * *
78986957 GAAGTAGACTGAAAATT-ACACATCTTATCTCCCTAAGCAATAGTGGTGCAGATCAAAGATGGCA
1 GAAGCAGACTGAAAATTGA-AGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCA
* ** *
78987021 AATCTTACCTCCATGTATCGGTAATGGAGTAGATTCT-AGCCACAAGCCTTATCTCTCTGAGGTA
65 AATCTTATCTCCATGTATCGACAATGGAGCAGATT-TAAGCCAC-AGCCTTATCTCTCTGAGGTA
* *
78987085 GCAAGAGAGTAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAA
128 GCAAGAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAG
* * **
78987134 GAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGGTGGTGA
1 GAAGCAGACTGAAAATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAA
* *
78987199 ATCTTATCTTCATGTATCGACAATGGAGCAGATTTAAGCCACCAGCCTTATCTCTCTGAGGTAGT
66 ATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCA-CAGCCTTATCTCTCTGAGGTAGC
* * *
78987264 AAGAGAGCAAGTTGGCAATGGTAGTCTTATCTTCCTGAGGTAGCAAG
130 AAGAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAG
*
78987311 GAAGCAGACT-AAAGATTGAAGATCGTATCTCCCTAAGCAGCT-GTGGAGCAGATCGAAGATGGC
1 GAAGCAGACTGAAA-ATTGAAGATCTTATCTCCCTAAGCAG-TAGTGGAGCAGATCGAAGATGGC
* * * * * * * *
78987374 GAGTCTTATCTCTATGTTTC-AGTAATAGAGCAGATTTTAGCCATCAGCCTTATCTCTCTGAAGT
64 AAATCTTATCTCCATGTATCGA-CAATGGAGCAGATTTAAGCCA-CAGCCTTATCTCTCTGAGGT
*
78987438 AGCAAGAGAGCAGGTTGGCGATTGTAGTCTTATCTTCTTGAGGTAGCAAG
127 AGCAAGAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAG
* * * * * * *
78987488 GAAGCAGATTGAAGATTGTAGATC-TATTTCCCTAAGCAGTTGTAGAGCAGATCGAGGATGGCAA
1 GAAGCAGACTGAAAATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAA
* *
78987552 ATCTTATCTCTATTTATCGACAATGGAGCAGATTTAAGCCAC
66 ATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCAC
78987594 CAGTCCTATT
Statistics
Matches: 400, Mismatches: 51, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
175 2 0.00
176 71 0.18
177 322 0.81
178 5 0.01
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (176 bp):
GAAGCAGACTGAAAATTGAAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAA
ATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCACAGCCTTATCTCTCTGAGGTAGCA
AGAGAGCAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAG
Found at i:78987494 original size:44 final size:44
Alignment explanation
Indices: 78987422--78987508 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 44
78987412 AGCCATCAGC
* **
78987422 CTTATCTCTCTGAAGTAGCAAGAGAGCAGGTTGGCGATTGTAGT
1 CTTATCTCTCTGAAGTAGCAAGAGAGCAGATTGAAGATTGTAGT
*
78987466 CTTATCT-TCTTGAGGTAGCAAG-GAAGCAGATTGAAGATTGTAG
1 CTTATCTCTC-TGAAGTAGCAAGAG-AGCAGATTGAAGATTGTAG
78987509 ATCTATTTCC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
43 3 0.08
44 34 0.92
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.30
Consensus pattern (44 bp):
CTTATCTCTCTGAAGTAGCAAGAGAGCAGATTGAAGATTGTAGT
Found at i:78987770 original size:15 final size:15
Alignment explanation
Indices: 78987750--78987779 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
78987740 ATCCAAAAAA
*
78987750 AAACCAGAAATAAAT
1 AAACCAAAAATAAAT
78987765 AAACCAAAAATAAAT
1 AAACCAAAAATAAAT
78987780 TAAAATAAAA
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:0.70, C:0.13, G:0.03, T:0.13
Consensus pattern (15 bp):
AAACCAAAAATAAAT
Found at i:78995801 original size:48 final size:48
Alignment explanation
Indices: 78995721--78995870 Score: 165
Period size: 48 Copynumber: 3.1 Consensus size: 48
78995711 CCATGTCCCA
* **
78995721 TCTTACACTGGCACACATATCAATGCCAATGCCATGTCCTAGACATTT
1 TCTTACACTGGCACACATATCAACGCCAATGCCATGTCCTAGACATGG
* ***
78995769 TCTTACACTGGCAGACATATCAACGTTGATGCCATGTCCTAGACATGG
1 TCTTACACTGGCACACATATCAACGCCAATGCCATGTCCTAGACATGG
* * * * * * *
78995817 TCTTACACTGGCTCTCATCTCGGATGCCGATGCCATGTCCCAGACATGG
1 TCTTACACTGGCACACATATC-AACGCCAATGCCATGTCCTAGACATGG
78995866 TCTTA
1 TCTTA
78995871 TACGGGATCT
Statistics
Matches: 85, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
48 58 0.68
49 27 0.32
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (48 bp):
TCTTACACTGGCACACATATCAACGCCAATGCCATGTCCTAGACATGG
Found at i:78996300 original size:3 final size:3
Alignment explanation
Indices: 78996285--78996319 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
78996275 ATAATATTGC
*
78996285 ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
78996320 CACAAGAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:79004811 original size:21 final size:21
Alignment explanation
Indices: 79004774--79004816 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
79004764 ATATGAGTTT
79004774 TGAAGGTTGATGATAGA-AAA
1 TGAAGGTTGATGATAGATAAA
* *
79004794 TGAATGGTTGTTGTTAGATAAA
1 TGAA-GGTTGATGATAGATAAA
79004816 T
1 T
79004817 AACTTTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 11 0.58
22 4 0.21
ACGTcount: A:0.37, C:0.00, G:0.28, T:0.35
Consensus pattern (21 bp):
TGAAGGTTGATGATAGATAAA
Found at i:79007025 original size:51 final size:50
Alignment explanation
Indices: 79006970--79007068 Score: 153
Period size: 51 Copynumber: 2.0 Consensus size: 50
79006960 ATATATGTGG
* *
79006970 CATCTGAGCTCGTTGAGAGGTCTGAGTTCATAATGGATGTGATTCATGTAA
1 CATCTAAGCTCGTTGAGAGGTCTGAGTTCATAATGGATGT-ATACATGTAA
* *
79007021 CATCTAAGCTCGTTGAGTGGTCTGAGTTCATTATGGATGTATACATGT
1 CATCTAAGCTCGTTGAGAGGTCTGAGTTCATAATGGATGTATACATGT
79007069 TATGAGGTAG
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
50 7 0.16
51 37 0.84
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.35
Consensus pattern (50 bp):
CATCTAAGCTCGTTGAGAGGTCTGAGTTCATAATGGATGTATACATGTAA
Found at i:79012404 original size:48 final size:48
Alignment explanation
Indices: 79012310--79012624 Score: 214
Period size: 48 Copynumber: 6.7 Consensus size: 48
79012300 ATGGATGTGT
* ** *
79012310 GCTAGTGTAAGA-CATGT-TAGGGACAT-GCATCGGCCA-CATTATGAGA
1 GCTAGTGTAAGACCATGTCT-GGGACATGGCATCGG-CATTAAGACGAGA
*
79012356 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGACGAGA
* * * * * *
79012404 GCTAGTGTAAGA-CATGTGTGGGACAT-GCATCAGCCTCGATATATGCA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TA-AGACG-AGA
* * *
79012452 GCTAGTGTAAGATCATGTTTGGGACATGACATCGGCATTAAGACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGACGAGA
* * * * ** *
79012500 GCTAGTGTAAGA-CATGTATGGAACAT-GCATCAGCCTCGAGA-TATGCAA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGACGA-G--A
*
79012548 GCTAGTGTAAGACC-TGTCTGGGACATGGCATCGGC-TT--GAC-ATGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGACGA-GA
*
79012592 G-TCAGTGTAAGACC-TGTCTAGGACATGGCATCG
1 GCT-AGTGTAAGACCATGTCTGGGACATGGCATCG
79012625 ACAGCGATAG
Statistics
Matches: 219, Mismatches: 33, Indels: 36
0.76 0.11 0.12
Matches are distributed among these distances:
43 1 0.00
44 30 0.14
45 1 0.00
46 35 0.16
47 41 0.19
48 81 0.37
49 23 0.11
50 7 0.03
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTAAGACGAGA
Found at i:79012486 original size:96 final size:94
Alignment explanation
Indices: 79012310--79012582 Score: 399
Period size: 96 Copynumber: 2.9 Consensus size: 94
79012300 ATGGATGTGT
* * *
79012310 GCTAGTGTAAGACATGTTAGGGACATGCATCGGCCAC-AT-TATG-AGAGCCAGTGTAAGACCAT
1 GCTAGTGTAAGACATGTT-GGGACATGCATCAGCCTCGATATATGCA-AGCTAGTGTAAGA-CAT
79012372 GTCTGGGACATGGCATCGGCATTAAGACGAGA
63 GTCTGGGACATGGCATCGGCATTAAGACGAGA
79012404 GCTAGTGTAAGACATGTGTGGGACATGCATCAGCCTCGATATATGCAAGCTAGTGTAAGATCATG
1 GCTAGTGTAAGACATGT-TGGGACATGCATCAGCCTCGATATATGCAAGCTAGTGTAAGA-CATG
* *
79012469 TTTGGGACATGACATCGGCATTAAGACGAGA
64 TCTGGGACATGGCATCGGCATTAAGACGAGA
* * *
79012500 GCTAGTGTAAGACATGTATGGAACATGCATCAGCCTCGAGATATGCAAGCTAGTGTAAGACCTGT
1 GCTAGTGTAAGACATGT-TGGGACATGCATCAGCCTCGATATATGCAAGCTAGTGTAAGACATGT
79012565 CTGGGACATGGCATCGGC
65 CTGGGACATGGCATCGGC
79012583 TTGACATGTG
Statistics
Matches: 163, Mismatches: 12, Indels: 7
0.90 0.07 0.04
Matches are distributed among these distances:
94 33 0.20
95 23 0.14
96 106 0.65
97 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTTGGGACATGCATCAGCCTCGATATATGCAAGCTAGTGTAAGACATGTC
TGGGACATGGCATCGGCATTAAGACGAGA
Found at i:79013084 original size:28 final size:29
Alignment explanation
Indices: 79013030--79013084 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
79013020 TATAGTGGAT
*
79013030 TTCACACGGCCGGTCACACACCCGTGTTC
1 TTCACACGGCCGATCACACACCCGTGTTC
* *
79013059 TTCACACGGCC-ATGACACGCCCGTGT
1 TTCACACGGCCGATCACACACCCGTGT
79013085 CCTAGCCCGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 12 0.52
29 11 0.48
ACGTcount: A:0.18, C:0.40, G:0.22, T:0.20
Consensus pattern (29 bp):
TTCACACGGCCGATCACACACCCGTGTTC
Found at i:79014177 original size:46 final size:46
Alignment explanation
Indices: 79014094--79014209 Score: 137
Period size: 46 Copynumber: 2.5 Consensus size: 46
79014084 AAGTCAAAGC
*
79014094 CATGTCCCAGACATGGTCTTACATTGACAATCATCTCGTA-GCCGACG
1 CATGTCCCAGACAT-GTCTTACACTGACAATCATCTCG-AGGCCGACG
* * * *
79014141 CATGTCCCAGACATGTCTTACACTGGC-TTACGTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGACAAT-CATCTCGAGGCCGACG
*
79014187 CATGTCCTAGACATGTCTTACAC
1 CATGTCCCAGACATGTCTTACAC
79014210 AGCACTTGTC
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
45 2 0.03
46 45 0.74
47 14 0.23
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGACAATCATCTCGAGGCCGACG
Found at i:79022349 original size:6 final size:6
Alignment explanation
Indices: 79022338--79022364 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
79022328 AATTAGCTAC
79022338 AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAA
79022365 GGTAAGGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:79030796 original size:40 final size:39
Alignment explanation
Indices: 79030708--79030890 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 39
79030698 GAATGATGTT
* * * *
79030708 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATC
1 CGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAATC
* *
79030748 CGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTC
1 CGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAATC
* * *
79030788 TGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATC
*
79030827 CGGGTTAAGTTCCGAAGGCATTTGTGCGAGTTACTATAA-C
1 CGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTA-AATC
*
79030867 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGT-CCGAAGGCATTTG
79030891 AATGAGTAGC
Statistics
Matches: 121, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 35 0.29
40 76 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATC
Found at i:79030841 original size:79 final size:81
Alignment explanation
Indices: 79030708--79030888 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 81
79030698 GAATGATGTT
* *
79030708 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
*
79030772 TGCGAGTTACTA-ATTC
66 TGCGAGTTACTATA-AC
* * * * ** *
79030788 TGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAGTTCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
79030851 TGCGAGTTACTATAAC
66 TGCGAGTTACTATAAC
*
79030867 CGGGCTATGTCCCGAAGGCATT
1 CGGGCTAAGTCCCGAAGGCATT
79030889 TGAATGAGTA
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
79 59 0.69
80 27 0.31
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
CGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGTTACTATAAC
Found at i:79030912 original size:79 final size:78
Alignment explanation
Indices: 79030743--79030923 Score: 204
Period size: 79 Copynumber: 2.3 Consensus size: 78
79030733 CTAAGTGACC
* * * *
79030743 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCTGGGCTAAGCCCGAAGGCAT
1 ATATCCGG-TTAAGTTCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCAT
**
79030808 TGGTGCGAGTTACT
65 TGGAACGAGTTACT
* *
79030822 AAATCCGGGTTAAGTTCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGC
1 ATATCC-GGTTAAGTTCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGC
* *
79030886 ATTTGAATGAG-TAGCT
63 ATTGGAACGAGTTA-CT
*
79030902 ATATCCGGTTAAATTCCGAAGG
1 ATATCCGGTTAAGTTCCGAAGG
79030924 TACGTGATTC
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 2 0.02
79 59 0.69
80 25 0.29
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (78 bp):
ATATCCGGTTAAGTTCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATT
GGAACGAGTTACT
Found at i:79034984 original size:37 final size:37
Alignment explanation
Indices: 79034923--79035001 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
79034913 TTATTACGAA
* * *
79034923 GTCTTACCCAGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
* *
79034960 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
79034997 GTCTT
1 GTCTT
79035002 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
Found at i:79035246 original size:49 final size:49
Alignment explanation
Indices: 79035120--79035916 Score: 1338
Period size: 49 Copynumber: 16.6 Consensus size: 49
79035110 CCCTTCGGGA
* * * * *
79035120 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
79035167 CCTGTCAC--ATATATACACTTTTACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
79035214 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79035263 CTTATCACAT-T-TATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79035310 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
79035357 CTTACCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79035406 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79035453 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79035502 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
79035551 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
79035600 CCTATCACAT-T-TATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79035647 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
79035696 CTTATAACATATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79035745 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79035794 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
79035841 CCTATCACATATATATACACTTTCACATTCATCACATCTGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79035890 CTTATCAC--ATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
79035917 ACCAACCCTT
Statistics
Matches: 714, Mismatches: 22, Indels: 28
0.93 0.03 0.04
Matches are distributed among these distances:
46 2 0.00
47 287 0.40
48 3 0.00
49 422 0.59
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:79035295 original size:96 final size:98
Alignment explanation
Indices: 79035120--79035916 Score: 1338
Period size: 96 Copynumber: 8.3 Consensus size: 98
79035110 CCCTTCGGGA
* * * * * * *
79035120 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
79035181 ACACTTTTACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
79035214 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT-T-TAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
79035277 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
79035310 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
79035373 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
79035406 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
79035469 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
79035502 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
79035567 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
79035600 CCTATCACAT-T-TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
79035663 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
* *
79035696 CTTATAACATATATATACACTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
79035761 ACACTTTCACATTCATCACATCGGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
79035794 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
79035857 ACACTTTCACATTCATCACATCTGCCATTAGGC
66 ACACTTTCACATTCATCACATCGGCCATTAGGC
79035890 CTTATCAC--ATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
79035917 ACCAACCCTT
Statistics
Matches: 671, Mismatches: 22, Indels: 18
0.94 0.03 0.03
Matches are distributed among these distances:
94 57 0.08
95 2 0.00
96 422 0.63
97 3 0.00
98 187 0.28
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (98 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
ACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:79035598 original size:194 final size:194
Alignment explanation
Indices: 79035120--79035916 Score: 1353
Period size: 194 Copynumber: 4.1 Consensus size: 194
79035110 CCCTTCGGGA
* * * * * *
79035120 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
*
79035181 ACACTTTTACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCAT
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATATACACTTTCACATTCAT
79035246 CACATCGGCCATTAGGCCTTATCACAT-T-TATACACTTTCACATTCATCACATCGGCCATTAGG
129 CACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG
79035309 C
194 C
* *
79035310 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
*
79035373 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTTTCACATTCATCA
79035438 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79035502 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
*
79035567 ACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATTTATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTTTCACATTCATCA
79035632 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
79035696 CTTATAACATATATATACACTTTCACATTCATCACATCGACCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
*
79035761 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTTTCACATTCATCA
* *
79035826 CATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACATCTGCCATTAGGC
131 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
79035890 CTTATCAC--ATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
79035917 ACCAACCCTT
Statistics
Matches: 577, Mismatches: 22, Indels: 14
0.94 0.04 0.02
Matches are distributed among these distances:
189 1 0.00
190 93 0.16
191 1 0.00
192 108 0.19
194 374 0.65
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (194 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
ACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACACTTTCACATTCATCA
CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:79036210 original size:39 final size:40
Alignment explanation
Indices: 79036120--79036283 Score: 133
Period size: 40 Copynumber: 4.1 Consensus size: 40
79036110 CGGAATTTAA
**
79036120 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACATAGC
* * *
79036160 CCGGTTATAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAGC
* * * *
79036199 CTGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CATAGC
* * *
79036239 CCGGATATGGTCACTTAC-CACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-T-CGCACAAATGCCTTCGGGACATAGC
79036279 CCGGA
1 CCGGA
79036284 CATCATTCAA
Statistics
Matches: 101, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
38 3 0.03
39 30 0.30
40 56 0.55
41 11 0.11
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAGC
Found at i:79043891 original size:40 final size:40
Alignment explanation
Indices: 79043700--79043884 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
79043690 TCGAATGATG
* * * * *
79043700 TCCGGGCTAAGTCCCGAA-GCCTTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
79043740 TCCGGACTAAGAT-CCGAAGGCATTTATGCGAGTTAATAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
79043780 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
79043819 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
79043860 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
79043885 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 33 0.27
40 78 0.64
41 11 0.09
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:79063833 original size:31 final size:31
Alignment explanation
Indices: 79063795--79063856 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
79063785 TCAATCAATC
79063795 AATAATAAACACTTATGTTATCTCCATAAAG
1 AATAATAAACACTTATGTTATCTCCATAAAG
79063826 AATAATAAACACTTATGTTATCTCCATAAAG
1 AATAATAAACACTTATGTTATCTCCATAAAG
79063857 TAAACTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.32
Consensus pattern (31 bp):
AATAATAAACACTTATGTTATCTCCATAAAG
Found at i:79074513 original size:44 final size:45
Alignment explanation
Indices: 79074464--79074602 Score: 160
Period size: 44 Copynumber: 3.1 Consensus size: 45
79074454 ACAAAGTTCA
79074464 CATGTATGAATCTGTCATATCTATG-ATCATT-TTCTATGAATTTG
1 CATGTATGAATCTGTCATATCTATGAAT-ATTCTTCTATGAATTTG
* *
79074508 CATGTATGAATCTGCCATATCTATGAATATTCTTCTATGATTTTG
1 CATGTATGAATCTGTCATATCTATGAATATTCTTCTATGAATTTG
* * * * **
79074553 TATATATGAATCTGTGATATCTA--AACTATTCTTTTATGAATCCG
1 CATGTATGAATCTGTCATATCTATGAA-TATTCTTCTATGAATTTG
79074597 CATGTA
1 CATGTA
79074603 GGAGCCTGGC
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
43 2 0.03
44 45 0.56
45 33 0.41
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (45 bp):
CATGTATGAATCTGTCATATCTATGAATATTCTTCTATGAATTTG
Found at i:79083935 original size:26 final size:26
Alignment explanation
Indices: 79083900--79083950 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
79083890 AATGTGAAAG
*
79083900 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
79083926 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
79083951 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:79083962 original size:103 final size:104
Alignment explanation
Indices: 79083822--79084044 Score: 369
Period size: 103 Copynumber: 2.2 Consensus size: 104
79083812 TGTATATAAA
** * *
79083822 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
79083886 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
79083925 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
79083990 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
79084029 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
79084045 GATATCCATT
Statistics
Matches: 112, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 90 0.80
104 22 0.20
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:79084109 original size:26 final size:26
Alignment explanation
Indices: 79084074--79084125 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
79084064 AAATGAAAAG
* *
79084074 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
79084100 GGGGTTGCTAAGTGATGATTCCCCGA
1 GGGGTTGCTAAGTGATGATTCCCCGA
79084126 TTCAGTGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.15, C:0.21, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGATGATTCCCCGA
Found at i:79084112 original size:70 final size:72
Alignment explanation
Indices: 79083963--79084113 Score: 243
Period size: 72 Copynumber: 2.1 Consensus size: 72
79083953 TCATTGGTGG
* *
79083963 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
79084028 GAGGGGT
66 GAGGGGT
***
79084035 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATT-CCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
79084098 GAGGGGT
66 GAGGGGT
79084105 TGCTAAGTG
1 TGCTAAGTG
79084114 ATGATTCCCC
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
70 20 0.27
71 24 0.32
72 30 0.41
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:79091464 original size:26 final size:26
Alignment explanation
Indices: 79091429--79091479 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
79091419 AATGTGAAAG
*
79091429 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
79091455 GGGGTTGCTAAGTGCTGATTCCCCG
1 GGGGTTGCTAAGTGCTGATTCCCCG
79091480 GTTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.12, C:0.24, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:79091530 original size:103 final size:102
Alignment explanation
Indices: 79091352--79091572 Score: 363
Period size: 103 Copynumber: 2.2 Consensus size: 102
79091342 TTGTATATAA
** * *
79091352 AGGGGTTGCTGTGTGCTGATTCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTTT
1 AGGGGTTGCTAAGTGCTGATTCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTTT
79091417 GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
66 GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
* *
79091454 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATT-CCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
79091518 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
64 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
79091557 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
79091573 GATATCCATT
Statistics
Matches: 111, Mismatches: 6, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
102 19 0.17
103 91 0.82
104 1 0.01
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (102 bp):
AGGGGTTGCTAAGTGCTGATTCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTTT
GAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:79100221 original size:79 final size:81
Alignment explanation
Indices: 79100112--79100294 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
79100102 TACTCGTTCA
* *
79100112 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
79100175 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
79100192 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
79100255 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
79100271 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
79100295 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:79100294 original size:40 final size:40
Alignment explanation
Indices: 79100091--79100294 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
79100081 CGGAATTTAA
** *
79100091 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
79100131 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
79100171 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
79100210 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
79100250 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
79100290 CCGGA
1 CCGGA
79100295 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:79108262 original size:40 final size:40
Alignment explanation
Indices: 79108225--79108407 Score: 178
Period size: 40 Copynumber: 4.6 Consensus size: 40
79108215 GCTACTCGTT
*
79108225 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
79108265 CAAATGCCTTTGGGACTTAACCCGAATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCG-GTTATAGTAACTCGCA
* * *
79108305 CCAATGCCTTCGGG-CTTAGCCAGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
** * * * *
79108344 CAAATGCCTTC-GGATCTTAGTTCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
79108385 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
79108408 ACATCATTCG
Statistics
Matches: 115, Mismatches: 20, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
38 2 0.02
39 29 0.25
40 70 0.61
41 14 0.12
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:79111610 original size:15 final size:17
Alignment explanation
Indices: 79111580--79111611 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
79111570 ACTTGTATTC
79111580 ATATTGTCATTGAATTG
1 ATATTGTCATTGAATTG
79111597 ATATTGT-A-TGAATTG
1 ATATTGTCATTGAATTG
79111612 TTAAGTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (17 bp):
ATATTGTCATTGAATTG
Found at i:79111873 original size:47 final size:47
Alignment explanation
Indices: 79111822--79112125 Score: 175
Period size: 47 Copynumber: 6.5 Consensus size: 47
79111812 GAGTGCCAGA
*
79111822 GTAAGACATGTCTGGGACATGCATCGGCCTCGACAGAGATAACCAAT
1 GTAAGACATGTCTGGGACATGCATCGGCCTCGACAGAGATAGCCAAT
* * * * * *
79111869 GTAAGACGTGTCTGGGACACGCATCGG-CT--A-AGAGTTGTGCTAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCTCGACAGAGAT-AGCCAAT
* ** * * *
79111913 GTAAGACATGTTTGGGACATGCATTAG-CACG-CATGTATGAGAGCCACT
1 GTAAGACATGTCTGGGACATGCATCGGCCTCGACA-G-A-GATAGCCAAT
* * *** * *
79111961 GTAAGACTATGTCTAGGACATGGCCTCGATATAGAAATGAG-T-GCCAGA-
1 GTAAGAC-ATGTCTGGGACAT-GCATCGGCCTCGACA-GAGATAGCCA-AT
* *
79112009 GTAAGACATGTCTGGGACATGCATCAGCCTCGACAGAGATAGCCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCTCGACAGAGATAGCCAAT
* * * * * *
79112056 GTAAGACGTGTCTGGGACACGCATCGG-CT--A-AGAGTTGTGCTAGT
1 GTAAGACATGTCTGGGACATGCATCGGCCTCGACAGAGAT-AGCCAAT
79112100 GTAAGACATGTCTGGGACATAGCATC
1 GTAAGACATGTCTGGGACAT-GCATC
79112126 AGCAATTTCT
Statistics
Matches: 193, Mismatches: 47, Indels: 36
0.70 0.17 0.13
Matches are distributed among these distances:
43 10 0.05
44 51 0.26
45 8 0.04
46 14 0.07
47 66 0.34
48 23 0.12
49 12 0.06
50 4 0.02
51 2 0.01
52 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (47 bp):
GTAAGACATGTCTGGGACATGCATCGGCCTCGACAGAGATAGCCAAT
Found at i:79111931 original size:91 final size:91
Alignment explanation
Indices: 79111822--79112128 Score: 359
Period size: 91 Copynumber: 3.3 Consensus size: 91
79111812 GAGTGCCAGA
* *
79111822 GTAAGACATGTCTGGGACATGCATCGGCCTCGACAGAGATAACCAATGTAAGACGTGTCTGGGAC
1 GTAAGACATGTCTGGGACATGCATCAGCCTCGACAGAGATAGCCAATGTAAGACGTGTCTGGGAC
79111887 ACGCATCGGCTAAGAGTTGTGCTAGT
66 ACGCATCGGCTAAGAGTTGTGCTAGT
* * * * * * *
79111913 GTAAGACATGTTTGGGACATGCATTAG-CACG-CATGTATGAGAGCCACTGTAAGACTATGTCTA
1 GTAAGACATGTCTGGGACATGCATCAGCCTCGACA-G-A-GATAGCCAATGTAAGAC-GTGTCTG
* * * * * * *
79111976 GGACATGGCCTC-GATATAGAAATGAGTGCCAGA
62 GGACA-CGCATCGGCTA-AG-AGT-TGTGCTAGT
*
79112009 GTAAGACATGTCTGGGACATGCATCAGCCTCGACAGAGATAGCCAGTGTAAGACGTGTCTGGGAC
1 GTAAGACATGTCTGGGACATGCATCAGCCTCGACAGAGATAGCCAATGTAAGACGTGTCTGGGAC
79112074 ACGCATCGGCTAAGAGTTGTGCTAGT
66 ACGCATCGGCTAAGAGTTGTGCTAGT
79112100 GTAAGACATGTCTGGGACATAGCATCAGC
1 GTAAGACATGTCTGGGACAT-GCATCAGC
79112129 AATTTCTTCC
Statistics
Matches: 174, Mismatches: 30, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
89 2 0.01
90 4 0.02
91 51 0.29
92 24 0.14
93 19 0.11
94 19 0.11
95 17 0.10
96 32 0.18
97 4 0.02
98 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (91 bp):
GTAAGACATGTCTGGGACATGCATCAGCCTCGACAGAGATAGCCAATGTAAGACGTGTCTGGGAC
ACGCATCGGCTAAGAGTTGTGCTAGT
Found at i:79112088 original size:187 final size:186
Alignment explanation
Indices: 79111722--79112129 Score: 658
Period size: 187 Copynumber: 2.2 Consensus size: 186
79111712 TGATTTGTGC
* * * *
79111722 GCTAGTGTAAGACATGTCTGGGCCATGC-TTCAGC-CATATTATGAAAGTCAGTGTAAGACCATG
1 GCTAGTGTAAGACATGTCTGGGACATGCATT-AGCACACATTATGAAAGCCACTGTAAGACCATG
* *
79111785 TCTAGGACATGGTCTCGATATAGAAATGAGTGCCAGAGTAAGACATGTCTGGGACATGCATCGGC
65 TCTAGGACATGGCCTCGATATAGAAATGAGTGCCAGAGTAAGACATGTCTGGGACATGCATCAGC
79111850 CTCGACAGAGATAACCAATGTAAGACGTGTCTGGGACACGCATCGGCTAAGAGTTGT
130 CTCGACAGAGATAACCAATGTAAGACGTGTCTGGGACACGCATCGGCTAAGAGTTGT
* * * *
79111907 GCTAGTGTAAGACATGTTTGGGACATGCATTAGCACGCATGTATGAGAGCCACTGTAAGACTATG
1 GCTAGTGTAAGACATGTCTGGGACATGCATTAGCACACAT-TATGAAAGCCACTGTAAGACCATG
79111972 TCTAGGACATGGCCTCGATATAGAAATGAGTGCCAGAGTAAGACATGTCTGGGACATGCATCAGC
65 TCTAGGACATGGCCTCGATATAGAAATGAGTGCCAGAGTAAGACATGTCTGGGACATGCATCAGC
* *
79112037 CTCGACAGAGATAGCCAGTGTAAGACGTGTCTGGGACACGCATCGGCTAAGAGTTGT
130 CTCGACAGAGATAACCAATGTAAGACGTGTCTGGGACACGCATCGGCTAAGAGTTGT
*
79112094 GCTAGTGTAAGACATGTCTGGGACATAGCATCAGCA
1 GCTAGTGTAAGACATGTCTGGGACAT-GCATTAGCA
79112130 ATTTCTTCCA
Statistics
Matches: 205, Mismatches: 14, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
185 29 0.14
186 5 0.02
187 163 0.80
188 8 0.04
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (186 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATTAGCACACATTATGAAAGCCACTGTAAGACCATGT
CTAGGACATGGCCTCGATATAGAAATGAGTGCCAGAGTAAGACATGTCTGGGACATGCATCAGCC
TCGACAGAGATAACCAATGTAAGACGTGTCTGGGACACGCATCGGCTAAGAGTTGT
Found at i:79114653 original size:3 final size:3
Alignment explanation
Indices: 79114645--79114670 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
79114635 GTGCCCTCCT
79114645 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
79114671 TTTTAGCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:79117454 original size:22 final size:24
Alignment explanation
Indices: 79117418--79117465 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
79117408 AATTCTATGC
79117418 TAAATTGATAAAGAT-TAA-TATA
1 TAAATTGATAAAGATATAATTATA
79117440 TAAATT-ATAATAGATATAATTATA
1 TAAATTGATAA-AGATATAATTATA
79117464 TA
1 TA
79117466 TTAAAGATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 10 0.43
23 3 0.13
24 6 0.26
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (24 bp):
TAAATTGATAAAGATATAATTATA
Found at i:79122897 original size:28 final size:28
Alignment explanation
Indices: 79122840--79123019 Score: 285
Period size: 28 Copynumber: 6.5 Consensus size: 28
79122830 TAAATTGTGC
*
79122840 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
79122867 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
79122895 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
79122923 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
79122950 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
79122978 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
79123005 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
79123020 GACTTAATAT
Statistics
Matches: 145, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
27 66 0.46
28 79 0.54
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:79122904 original size:55 final size:55
Alignment explanation
Indices: 79122840--79123019 Score: 299
Period size: 55 Copynumber: 3.3 Consensus size: 55
79122830 TAAATTGTGC
*
79122840 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAG-TTGATTATGT
*
79122895 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGATTATGT
* *
79122950 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGATTATGT
*
79123005 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
79123020 GACTTAATAT
Statistics
Matches: 118, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
55 91 0.77
56 27 0.23
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGATTATGT
Found at i:79122979 original size:83 final size:82
Alignment explanation
Indices: 79122840--79123019 Score: 315
Period size: 83 Copynumber: 2.2 Consensus size: 82
79122830 TAAATTGTGC
79122840 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGT
*
79122905 GTGCGAGTTTGACTATGT
66 GTGCGAG-TTGACTATAT
*
79122923 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGT
*
79122988 GTGCGAGTTGATTATAT
66 GTGCGAGTTGACTATAT
*
79123005 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
79123020 GACTTAATAT
Statistics
Matches: 93, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
82 22 0.24
83 71 0.76
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGT
GTGCGAGTTGACTATAT
Found at i:79130121 original size:42 final size:43
Alignment explanation
Indices: 79130042--79130131 Score: 119
Period size: 42 Copynumber: 2.1 Consensus size: 43
79130032 TTACATGGGG
* * * *
79130042 TCTCATATCGATGCCAATAGCCCAACTATGGTCTTACACAAAA
1 TCTCAGATCGATGCCAATAACCCAAATATAGTCTTACACAAAA
**
79130085 TCTCAGATCGATGCC-ATAACCCAAATATAGTCTTACACGTAA
1 TCTCAGATCGATGCCAATAACCCAAATATAGTCTTACACAAAA
79130127 TCTCA
1 TCTCA
79130132 ACTAACCCTA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
42 27 0.66
43 14 0.34
ACGTcount: A:0.34, C:0.28, G:0.11, T:0.27
Consensus pattern (43 bp):
TCTCAGATCGATGCCAATAACCCAAATATAGTCTTACACAAAA
Found at i:79131958 original size:27 final size:27
Alignment explanation
Indices: 79131939--79132177 Score: 345
Period size: 27 Copynumber: 8.9 Consensus size: 27
79131929 ATTACCAAAG
* * * *
79131939 TACCCTTGATTTACAGAATTGCCGTTT
1 TACCCTCGATTTATAGAATTACCATTT
**
79131966 TACCCTCGATTTATAGAGCTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
79131993 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
79132020 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
79132047 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
** *
79132074 TACTTTCGATTTACAGAA-TACCCATTT
1 TACCCTCGATTTATAGAATTA-CCATTT
* *
79132101 TACCCTCGATTTACAGAATTATCATTT
1 TACCCTCGATTTATAGAATTACCATTT
79132128 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAGAATTACCATTT
*
79132155 TACCCTCGATTTACAGAATTACC
1 TACCCTCGATTTATAGAATTACC
79132178 GTACAAAATT
Statistics
Matches: 191, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
26 2 0.01
27 187 0.98
28 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCATTT
Found at i:79132222 original size:27 final size:27
Alignment explanation
Indices: 79132192--79132443 Score: 235
Period size: 27 Copynumber: 9.4 Consensus size: 27
79132182 AAAATTATTG
* **
79132192 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCCTGGTTTGTAAAATTACCA
* *
79132219 AAATA-CCCTCGATTAGTAAAATTACCA
1 AAATACCCCT-GGTTTGTAAAATTACCA
*
79132246 AAATACCCCTGGTTTGTAAAATTACTA
1 AAATACCCCTGGTTTGTAAAATTACCA
79132273 AAATACCCCTGGTTTGTAAAATTACCA
1 AAATACCCCTGGTTTGTAAAATTACCA
*
79132300 AAATACCCCTGGCTTGTAAAATTACCA
1 AAATACCCCTGGTTTGTAAAATTACCA
* ** * *
79132327 AAATACCTCTAATTTGTGAAATTATCA
1 AAATACCCCTGGTTTGTAAAATTACCA
* * * *
79132354 AAATA-CTCTCGATTTGTAAAA-TATCG
1 AAATACCCCT-GGTTTGTAAAATTACCA
** *
79132380 AAATACCCCT-GTAGGGTAGAATTACCA
1 AAATACCCCTGGT-TTGTAAAATTACCA
** *
79132407 AAATACCCCT-GTAGGGTAAAATTACCG
1 AAATACCCCTGGT-TTGTAAAATTACCA
79132434 AAATACCCCT
1 AAATACCCCT
79132444 ATAGGGTAGA
Statistics
Matches: 191, Mismatches: 28, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
25 1 0.01
26 21 0.11
27 165 0.86
28 4 0.02
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (27 bp):
AAATACCCCTGGTTTGTAAAATTACCA
Found at i:79132370 original size:81 final size:81
Alignment explanation
Indices: 79132182--79132495 Score: 235
Period size: 81 Copynumber: 3.9 Consensus size: 81
79132172 ATTACCGTAC
* * * * ** *
79132182 AAAATTATTGAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGATTAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTGGATT-GTAAAATTACCA
**
79132246 AAATACCCCTGGTTTGT
65 AAATACCCCTAATTTGT
* *
79132263 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTGGCTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTGGATTGTAAAATTACCAA
*
79132328 AATACCTCTAATTTGT
66 AATACCCCTAATTTGT
* * * * * ** *
79132344 GAAATTA-TCAAAATA-CTCTCGATTTGTAAAA-TATCGAAATACCCCTGTAGGGTAGAATTACC
1 AAAATTACT-AAAATACCCCT-GATTTGTAAAATTACCAAAATACCCCTGGATTGTAAAATTACC
* **
79132406 AAAATACCCCT-GTAGGGT
64 AAAATACCCCTAAT-TTGT
** ** * * * ** * *
79132424 AAAATTACCGAAATACCCCT-ATAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCG
1 AAAATTACTAAAATACCCCTGAT-TTGTAAAATTACCAAAATACCCCTGGATTGTAAAATTACCA
79132488 AAATACCC
65 AAATACCC
79132496 TTGTAGGGTA
Statistics
Matches: 190, Mismatches: 35, Indels: 16
0.79 0.15 0.07
Matches are distributed among these distances:
79 3 0.02
80 56 0.29
81 124 0.65
82 7 0.04
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.28
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTGGATTGTAAAATTACCAA
AATACCCCTAATTTGT
Found at i:79132448 original size:27 final size:27
Alignment explanation
Indices: 79132378--79132567 Score: 247
Period size: 27 Copynumber: 7.0 Consensus size: 27
79132368 TGTAAAATAT
79132378 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
79132405 CAAAATACCCCTGTAGGGTAAAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
79132432 CGAAATACCCCTATAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
**
79132459 TAAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
79132486 CGAAATACCCTTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* * *
79132513 TGAAATACCCTTGTAGTGTAGAATTA-
1 CGAAATACCCCTGTAGGGTAGAATTAC
* ** *
79132539 CGAAGATACCCTTGCGGGGTAAAATTAC
1 CGAA-ATACCCCTGTAGGGTAGAATTAC
79132567 C
1 C
79132568 ATTTTGCCCC
Statistics
Matches: 143, Mismatches: 18, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
26 3 0.02
27 139 0.97
28 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:79132806 original size:25 final size:25
Alignment explanation
Indices: 79132772--79132891 Score: 195
Period size: 25 Copynumber: 4.8 Consensus size: 25
79132762 AGGAAGTGCT
79132772 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
79132797 AAAAGGGCTTTGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
79132822 AAAAAGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
79132847 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
79132872 AAAAGGGCTTTGCCCTAGTT
1 AAAAGGGCTTTGCCCCAGTT
79132892 ATTAAAAGAG
Statistics
Matches: 88, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 88 1.00
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:79132915 original size:75 final size:75
Alignment explanation
Indices: 79132772--79132916 Score: 204
Period size: 75 Copynumber: 1.9 Consensus size: 75
79132762 AGGAAGTGCT
* **
79132772 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTACTGAAAAAGGCTTTGCCC
1 AAAAGGGCTTTGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTACTGAAAAAGGCTAGGCCC
79132837 CAGTTTACCG
66 CAGTTTACCG
* * *
79132847 AAAAGGGCTTTGCCCCAGTTTATCAAAAAGGGCTTTGCCCTAG-TTA-TTAAAAGAGGCTAGGCC
1 AAAAGGGCTTTGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTACTGAAAA-AGGCTAGGCC
79132910 TCCAGTT
65 -CCAGTT
79132917 ATAAGATAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
73 5 0.08
74 11 0.18
75 46 0.74
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (75 bp):
AAAAGGGCTTTGCCCCAGTTTACCAAAAAGGGCTTTGCCCCAGTTTACTGAAAAAGGCTAGGCCC
CAGTTTACCG
Found at i:79148688 original size:40 final size:40
Alignment explanation
Indices: 79148567--79148785 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
79148557 TATTCGAATG
* * * *
79148567 ATATTCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
79148607 ATATCCGGACTAAGATCCGAAGGCA-TTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
**
79148646 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAACGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * * *
79148686 ATATCCGGGCTAAGCCCCAAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* **
79148726 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
79148765 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
79148786 ATACTTGGGT
Statistics
Matches: 150, Mismatches: 25, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
37 1 0.01
38 13 0.09
39 49 0.33
40 87 0.58
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:79148768 original size:79 final size:79
Alignment explanation
Indices: 79148567--79148776 Score: 237
Period size: 79 Copynumber: 2.7 Consensus size: 79
79148557 TATTCGAATG
* * * * * * *
79148567 ATATTCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCAAAGGCA
* *
79148632 TTGTGCGAGTTGCT
66 TTATGCGAGTTGCC
** *
79148646 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAACGACTATATCCGGGCTAAGCCCCAAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCAAAGGCA
*
79148711 TTTATGCTAG-TGACC
66 -TTATGCGAGTTG-CC
* **
79148726 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCTAGTGGTTATATCC-GGCTAA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAA
79148777 ATCCCGAAGA
Statistics
Matches: 111, Mismatches: 18, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
78 6 0.05
79 73 0.66
80 32 0.29
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCAAAGGCA
TTATGCGAGTTGCC
Found at i:79156667 original size:40 final size:40
Alignment explanation
Indices: 79156550--79156751 Score: 283
Period size: 40 Copynumber: 5.2 Consensus size: 40
79156540 GTATTCGATG
79156550 ATATCCGGGCTAAGTCCCGAAGGC-TTT-TGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
79156588 ATATCC-GGCTAAGT-CCGAAGGCA-TTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
**
79156625 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAACGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
79156665 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* **
79156705 ATATCCGGGCTAAGACCCGAAGGCA-TTGTGCTAGTGGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
79156744 ATATCCGG
1 ATATCCGG
79156752 TAAATCCCAA
Statistics
Matches: 146, Mismatches: 11, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
36 10 0.07
37 21 0.14
38 16 0.11
39 29 0.20
40 70 0.48
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:79169418 original size:40 final size:40
Alignment explanation
Indices: 79169363--79169504 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
79169353 CGGATGATAA
* *
79169363 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATA-TC
79169403 CGGGCTAAGTCCCGAAGGC--TTGTG-TGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTATATC
* *
79169441 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATC
* *
79169481 CGGACTAAGTCCCAAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
79169505 AGCAAGTAGT
Statistics
Matches: 91, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
37 1 0.01
38 32 0.35
39 1 0.01
40 57 0.63
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATATC
Found at i:79169803 original size:22 final size:21
Alignment explanation
Indices: 79169762--79169805 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
79169752 GAATGTGCAT
79169762 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
79169784 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
79169806 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:79185230 original size:41 final size:43
Alignment explanation
Indices: 79185159--79185259 Score: 109
Period size: 41 Copynumber: 2.4 Consensus size: 43
79185149 CTATATACAA
* * **
79185159 CACTTAGTGTCCGA-ATTGAAATAGCCTTGGTTTTATGTG-G-
1 CACTAAGTGTGCGATATTGAAATAGCCTTGGTTCAATGTGAGC
* **
79185199 CACTAAGTGTGCGATATTGAGATAGTTTTGGTTCAATGTGATGC
1 CACTAAGTGTGCGATATTGAAATAGCCTTGGTTCAATGTGA-GC
79185243 CACTAAGTGTGCGATAT
1 CACTAAGTGTGCGATAT
79185260 CGTTATAGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 12 0.24
41 20 0.40
43 1 0.02
44 17 0.34
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.36
Consensus pattern (43 bp):
CACTAAGTGTGCGATATTGAAATAGCCTTGGTTCAATGTGAGC
Found at i:79189139 original size:40 final size:40
Alignment explanation
Indices: 79189045--79189269 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
79189035 TATTCGAATG
* *
79189045 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GTGACT
* * * * *
79189086 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGACT
* *
79189126 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* *
79189166 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
* * *
79189206 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
*
79189246 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
79189270 CTTGCGCAAG
Statistics
Matches: 159, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 129 0.81
41 29 0.18
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACT
Found at i:79189225 original size:80 final size:80
Alignment explanation
Indices: 79189045--79189305 Score: 303
Period size: 80 Copynumber: 3.3 Consensus size: 80
79189035 TATTCGAATG
* * * *
79189045 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
79189110 ATTCGTGCGAGTTGCT
65 ATTCGTGCGAGTCGCT
* * * *
79189126 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
79189191 TTTGTGCTAG-CGACT
66 TTCGTGCGAGTCG-CT
* * * *
79189206 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * * *
79189271 TT-GCGCAAGTAGTT
66 TTCGTGCGAGTCGCT
*
79189285 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
79189306 ATTACTTGAG
Statistics
Matches: 154, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
78 14 0.09
79 13 0.08
80 95 0.62
81 32 0.21
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCGCT
Found at i:79192742 original size:42 final size:42
Alignment explanation
Indices: 79192683--79192767 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
79192673 GAATTTTTCC
79192683 AAATAGAATTTAAAAGGAATTACATTAGCCAGAGATTCCTTG
1 AAATAGAATTTAAAAGGAATTACATTAGCCAGAGATTCCTTG
79192725 AAATAGAATTTAAAAGGAATTACATTAGCCAGAGATTCCTTG
1 AAATAGAATTTAAAAGGAATTACATTAGCCAGAGATTCCTTG
79192767 A
1 A
79192768 TTAGAAAAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (42 bp):
AAATAGAATTTAAAAGGAATTACATTAGCCAGAGATTCCTTG
Found at i:79197699 original size:27 final size:27
Alignment explanation
Indices: 79197664--79197728 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
79197654 TTAGCTCTTA
*
79197664 TGAGCTTCCCGATTATA-TGGCTCTTTG
1 TGAGCTTCCC-ATTAAATTGGCTCTTTG
* *
79197691 TGAGGTTCCCATTAAATTGTCTCTTTG
1 TGAGCTTCCCATTAAATTGGCTCTTTG
79197718 TGAGCTTCCCA
1 TGAGCTTCCCA
79197729 ATATGGCTCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 5 0.15
27 28 0.85
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.40
Consensus pattern (27 bp):
TGAGCTTCCCATTAAATTGGCTCTTTG
Found at i:79199461 original size:41 final size:44
Alignment explanation
Indices: 79199416--79199502 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
79199406 ACGATTAAAC
79199416 CAATTAAACC-AA-C-CAAGAAGATTAACTTTTTTTAGGGGTTG
1 CAATTAAACCAAATCACAAGAAGATTAACTTTTTTTAGGGGTTG
** *
79199457 CAATTAAACCAAATCACCTGAAGATTAATTTTTTTTAGGGGTTG
1 CAATTAAACCAAATCACAAGAAGATTAACTTTTTTTAGGGGTTG
79199501 CA
1 CA
79199503 TGGAAAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
41 10 0.25
42 2 0.05
43 1 0.03
44 27 0.68
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (44 bp):
CAATTAAACCAAATCACAAGAAGATTAACTTTTTTTAGGGGTTG
Found at i:79203711 original size:18 final size:20
Alignment explanation
Indices: 79203665--79203711 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 20
79203655 CACTGCCAAG
*
79203665 GCCA-ATTTGGGCTGTGTGG
1 GCCACATTTGGGCTGTGTGA
79203684 GCCACA--TGGGC-GTGTGA
1 GCCACATTTGGGCTGTGTGA
79203701 GCC-CATTTGGG
1 GCCACATTTGGG
79203712 TGAAATAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
16 2 0.08
17 8 0.33
18 9 0.38
19 4 0.17
20 1 0.04
ACGTcount: A:0.13, C:0.21, G:0.40, T:0.26
Consensus pattern (20 bp):
GCCACATTTGGGCTGTGTGA
Found at i:79208210 original size:31 final size:31
Alignment explanation
Indices: 79208172--79208250 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
79208162 TTTAACGGTT
79208172 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
79208203 ACTGGGCCGAAGCCATTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
79208234 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
79208251 ACTGTAAATG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:79208499 original size:25 final size:25
Alignment explanation
Indices: 79208471--79208536 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
79208461 CTCTTTTAAT
79208471 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTC-GATA
* *
79208496 AACTGAGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
79208521 AACTAGGGCAGAGCCC
1 AACTGGGGCAAAGCCC
79208537 ATTTAGCACT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 31 0.89
26 4 0.11
ACGTcount: A:0.29, C:0.26, G:0.26, T:0.20
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:79209498 original size:27 final size:27
Alignment explanation
Indices: 79209445--79209681 Score: 199
Period size: 27 Copynumber: 8.7 Consensus size: 27
79209435 TTTCATCCTA
* * *
79209445 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
** **
79209472 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
79209499 CAATGGTATTTCT-ATAATTTTTAGAAAGT
1 CAAGGGTATTT-TGGTAA-TTTTACAAA-C
* ** *
79209528 CAAGGGTATTTTTGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
79209555 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
** *
79209582 TGAGGGTATTTTGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
79209609 C-AGTGGTATTTCGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAAC
*
79209636 TAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
79209663 TAGGGGTATTTTGGTAATT
1 CAAGGGTATTTTGGTAATT
79209682 CTATCCTACA
Statistics
Matches: 172, Mismatches: 32, Indels: 12
0.80 0.15 0.06
Matches are distributed among these distances:
26 2 0.01
27 140 0.81
28 17 0.10
29 13 0.08
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:79209697 original size:54 final size:53
Alignment explanation
Indices: 79209531--79209714 Score: 188
Period size: 54 Copynumber: 3.4 Consensus size: 53
79209521 AGAAAGTCAA
* *** * **
79209531 GGGTATTTTTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTG
1 GGGTATTTTGGTAATTTCACAAACTAGGGGTATTTTGGTAATTTTACAAACAG
* * * *
79209584 AGGGTATTTTGGTAATTTCACAAACCAGTGGTATTTCGGTAATTTTACAAACTAA
1 -GGGTATTTTGGTAATTTCACAAACTAGGGGTATTTTGGTAATTTTACAAAC-AG
* * **
79209639 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTATCCTACAG
1 GGGTATTTTGGTAATTTCACAAACTAGGGGTATTTTGGTAATTTTA-CAAACAG
**
79209693 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTTGGTAATTTCACAA
79209715 TCGAGGGTAA
Statistics
Matches: 106, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
54 103 0.97
55 3 0.03
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTCACAAACTAGGGGTATTTTGGTAATTTTACAAACAG
Found at i:79209698 original size:81 final size:81
Alignment explanation
Indices: 79209531--79209714 Score: 212
Period size: 81 Copynumber: 2.3 Consensus size: 81
79209521 AGAAAGTCAA
** ** * * *
79209531 GGGTATTTTTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGG
1 GGGTATTTCAGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTTGG
79209596 TAATTTCACAAACCAG
66 TAATTTCACAAACCAG
* *
79209612 TGGTATTTCGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTTG
1 GGGTATTTCAGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTTG
**
79209676 GTAA-TTCTATCCTA-CAG
65 GTAATTTC-A-CAAACCAG
*
79209693 GGGTATTTCAGTAATTTCACAA
1 GGGTATTTCAGTAATTTTACAA
79209715 TCGAGGGTAA
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
80 3 0.03
81 80 0.92
82 4 0.05
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAATAGAGGGTATTTTGG
TAATTTCACAAACCAG
Done.