Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold91
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: 988755
ACGTcount: A:0.27, C:0.14, G:0.13, T:0.27
Warning! 189020 characters in sequence are not A, C, G, or T
File 3 of 4
Found at i:498812 original size:40 final size:42
Alignment explanation
Indices: 498748--498826 Score: 117
Period size: 40 Copynumber: 1.9 Consensus size: 42
498738 AGGCACGAAG
*
498748 GCCCGAATACACATCACCAACATGATTGCTCTTCGGGACCTA
1 GCCCGAATACACATCACCAACATGAATGCTCTTCGGGACCTA
* *
498790 GCCCGAATATA-A-CACCAGCATGAATGCTCTTCGGGAC
1 GCCCGAATACACATCACCAACATGAATGCTCTTCGGGAC
498827 TTAACCCTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 23 0.68
41 1 0.03
42 10 0.29
ACGTcount: A:0.29, C:0.32, G:0.19, T:0.20
Consensus pattern (42 bp):
GCCCGAATACACATCACCAACATGAATGCTCTTCGGGACCTA
Found at i:501429 original size:6 final size:6
Alignment explanation
Indices: 501412--501442 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
501402 TTAAAAGGGG
*
501412 AAATAA AGATAA AAATAA AAATAA AAATAA A
1 AAATAA AAATAA AAATAA AAATAA AAATAA A
501443 TAAAAGATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:516855 original size:10 final size:10
Alignment explanation
Indices: 516840--516883 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
516830 AGTAAGTTAA
516840 AAAGATAAAT
1 AAAGATAAAT
516850 AAAGATAAAAAT
1 AAAGAT--AAAT
*
516862 AAAAATAAAT
1 AAAGATAAAT
516872 AAAAGATAAAT
1 -AAAGATAAAT
516883 A
1 A
516884 GTAGGGGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
10 11 0.38
11 9 0.31
12 9 0.31
ACGTcount: A:0.75, C:0.00, G:0.07, T:0.18
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:519308 original size:38 final size:38
Alignment explanation
Indices: 519257--519379 Score: 203
Period size: 38 Copynumber: 3.3 Consensus size: 38
519247 GCGTGGTATT
*
519257 TGGAACATATCCGGACTTGAGGTCCGCAGGCTACGTGC
1 TGGAACATATCCGGACTTGAGGTCCGCAGGCTATGTGC
*
519295 TGGAACATATCCGGACTTGAGGTCCGTAGGCTATGTGC
1 TGGAACATATCCGGACTTGAGGTCCGCAGGCTATGTGC
*
519333 TGGAATATATCCGGACTTGAGGTCCGCAGGCTATGTGC
1 TGGAACATATCCGGACTTGAGGTCCGCAGGCTATGTGC
*
519371 TAGAA-ATAT
1 TGGAACATAT
519380 ATTCGGGCCT
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
37 4 0.05
38 76 0.95
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (38 bp):
TGGAACATATCCGGACTTGAGGTCCGCAGGCTATGTGC
Found at i:521383 original size:42 final size:43
Alignment explanation
Indices: 521306--521406 Score: 116
Period size: 42 Copynumber: 2.4 Consensus size: 43
521296 TCCTAGACGT
* ** *
521306 GGTCTTACATGTAATTCAGTATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACATGTAAATCAGTATCGATGCCGATGTCCCAAACAG
* *
521349 GGTCTTATATG-AAATCAG-ATACGATGCCGATGTCCCAAACAT
1 GGTCTTACATGTAAATCAGTAT-CGATGCCGATGTCCCAAACAG
*
521391 GGTCTTACACGTAAAT
1 GGTCTTACATGTAAAT
521407 TTCAAATCGA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
41 2 0.04
42 32 0.67
43 14 0.29
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (43 bp):
GGTCTTACATGTAAATCAGTATCGATGCCGATGTCCCAAACAG
Found at i:528986 original size:94 final size:94
Alignment explanation
Indices: 528881--529064 Score: 359
Period size: 94 Copynumber: 2.0 Consensus size: 94
528871 GAGTTCTTAG
528881 TTTAGATAATTAGTTAATTAAAACAAAACCCCATTATTCTTAGGCTAGATAATAAAAAGACAGTC
1 TTTAGATAATTAGTTAATTAAAACAAAACCCCATTATTCTTAGGCTAGATAATAAAAAGACAGTC
528946 ATTACTAGTACTTTTAGTTCCTTTGAGTT
66 ATTACTAGTACTTTTAGTTCCTTTGAGTT
*
528975 TTTAGATAATTAGTTAATTAAAACAAAACCCCATTATTCTTAGGCTAGGTAATAAAAAGACAGTC
1 TTTAGATAATTAGTTAATTAAAACAAAACCCCATTATTCTTAGGCTAGATAATAAAAAGACAGTC
529040 ATTACTAGTACTTTTAGTTCCTTTG
66 ATTACTAGTACTTTTAGTTCCTTTG
529065 GGTTCGACAT
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 89 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (94 bp):
TTTAGATAATTAGTTAATTAAAACAAAACCCCATTATTCTTAGGCTAGATAATAAAAAGACAGTC
ATTACTAGTACTTTTAGTTCCTTTGAGTT
Found at i:533700 original size:64 final size:64
Alignment explanation
Indices: 533620--533791 Score: 186
Period size: 67 Copynumber: 2.7 Consensus size: 64
533610 AGACATTATG
* * *
533620 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGAAAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGAAAAGAGAGCTACGAGATAA
* * * * * *
533684 ATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGAAAAGAGAGCTACGAGAT
533749 AA
63 AA
* * *
533751 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGT
533792 GTACAAGAGA
Statistics
Matches: 87, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
63 9 0.10
64 25 0.29
66 21 0.24
67 30 0.34
68 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGAAAAGAGAGCTACGAGATAA
Found at i:535893 original size:50 final size:50
Alignment explanation
Indices: 535818--535995 Score: 259
Period size: 50 Copynumber: 3.5 Consensus size: 50
535808 ACCATGGAAA
535818 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * * *
535868 AAAGTGATAAGTAATAACTTCGGCTACACTTATCTGATTAAGGACAAGTG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
535918 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATG
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATG
* * * *
535968 ACAACTGAAAAGTGGTAGCTTCAGCTAC
1 A-AAGTGATAAGTGATAGCTTCGGCTAC
535996 CTGATCAGTG
Statistics
Matches: 114, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
50 90 0.79
51 24 0.21
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.26
Consensus pattern (50 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:536181 original size:31 final size:31
Alignment explanation
Indices: 535973--536174 Score: 305
Period size: 31 Copynumber: 6.5 Consensus size: 31
535963 AAATGACAAC
535973 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
536004 TGAAAAGTGGTAGTTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
536035 TGAAAAGTGGTAGCTTCTGCTACCTAATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
536066 TGAAAAGTGGTAGCTTCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
536097 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* ** *
536128 TGAAAAATGGTAGCACCAGCTACCTGATCTG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
536159 TGAATAGTGGTAGCTT
1 TGAAAAGTGGTAGCTT
536175 TGGCTACAAG
Statistics
Matches: 156, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 156 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:536274 original size:47 final size:48
Alignment explanation
Indices: 536205--536328 Score: 155
Period size: 47 Copynumber: 2.6 Consensus size: 48
536195 CAAGTGATTT
*
536205 CTGTATAAGACCATATCTGGGATATGGCATC-GTTGTGATATATG-CTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAG-TGAGATATATGACTA
* * *
536252 CTGTATAAGACCATATCTGGGATATGACATCAGTGAGATATGTGATTA
1 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
* * *
536300 C-GTGTAAGACCATAGCTGGGCTATGGCAT
1 CTGTATAAGACCATATCTGGGATATGGCAT
536329 TATGTAAAGA
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
47 63 0.94
48 4 0.06
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (48 bp):
CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGACTA
Found at i:541352 original size:64 final size:64
Alignment explanation
Indices: 541271--541453 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
541261 AGACATTATG
* * *
541271 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
541335 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
541400 AA
63 AA
* *
541402 ACTG--GCTAGGTCACATGGGTGGTACTA-GTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
541454 CGAACTATAT
Statistics
Matches: 99, Mismatches: 15, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
61 1 0.01
62 19 0.19
63 1 0.01
64 24 0.24
66 21 0.21
67 31 0.31
68 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:545044 original size:27 final size:27
Alignment explanation
Indices: 544920--545239 Score: 164
Period size: 27 Copynumber: 11.8 Consensus size: 27
544910 CTCAATTTGT
* *
544920 AAAATTACCAAAGTACCCTCGATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
*** *
544947 AAAATTA-CAGTTTTACCCTTGATTTAT
1 AAAATTACCA-AAATACCCTTGATTTAC
* **** **
544974 AGAATTACCGTTTTACCCACGATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* *** *
545001 AGAATTACCATTTTACCATTGATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
* *
545028 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
**
545055 AAAATTACCAAAATACCCTT-AGTTTGT
1 AAAATTACCAAAATACCCTTGA-TTTAC
* **
545082 AAAATTACCAAAATACCACTAG-TTTGT
1 AAAATTACCAAAATACC-CTTGATTTAC
* * * ** **
545109 GAAATTACCGAAATATCCTCAATTTGT
1 AAAATTACCAAAATACCCTTGATTTAC
* *
545136 AAAATTACCAAAATACCCCTAATTTAC
1 AAAATTACCAAAATACCCTTGATTTAC
***
545163 AAAATTATTGAAATACCCTTGACTTT-C
1 AAAATTACCAAAATACCCTTGA-TTTAC
* * *
545190 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACCA-AAATACCCTTGATTTAC
**
545219 AAAATTACTGAAATACCCTTG
1 AAAATTACCAAAATACCCTTG
545240 GTTTGTAGAT
Statistics
Matches: 233, Mismatches: 48, Indels: 24
0.76 0.16 0.08
Matches are distributed among these distances:
26 4 0.02
27 200 0.86
28 11 0.05
29 18 0.08
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.33
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGATTTAC
Found at i:545086 original size:54 final size:54
Alignment explanation
Indices: 545028--545258 Score: 214
Period size: 54 Copynumber: 4.2 Consensus size: 54
545018 ATTGATTTAC
* * *
545028 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTTAGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTACAAAATTACCGAAATACCCTTAGTTTGT
*** * * *
545082 AAAATTACCAAAATACCAC-TAGTTTGTGAAATTACCGAAATATCCTCAATTTGT
1 AAAATTACCAAAATACC-CTTAGTTTACAAAATTACCGAAATACCCTTAGTTTGT
* * ** * *
545136 AAAATTACCAAAATACCCCTAATTTACAAAATTATTGAAATACCCTTGACTTTCT
1 AAAATTACCAAAATACCCTTAGTTTACAAAATTACCGAAATACCCTT-AGTTTGT
* * * * *
545191 AAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGT
1 -AAAATTACCA-AAATACCCTTAGTTTACAAAATTACCGAAATACCCTTAGTTTGT
* *
545246 AGATTTACCAAAA
1 AAAATTACCAAAA
545259 CACCTTTGTA
Statistics
Matches: 140, Mismatches: 31, Indels: 12
0.77 0.17 0.07
Matches are distributed among these distances:
53 1 0.01
54 88 0.63
55 12 0.09
56 39 0.28
ACGTcount: A:0.42, C:0.18, G:0.08, T:0.32
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTTAGTTTACAAAATTACCGAAATACCCTTAGTTTGT
Found at i:545327 original size:27 final size:27
Alignment explanation
Indices: 545284--545357 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
545274 AAATGACTAA
*
545284 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
545311 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
* *
545338 AATACCCTTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
545358 TGAAAAATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:548060 original size:27 final size:27
Alignment explanation
Indices: 548030--548185 Score: 217
Period size: 27 Copynumber: 5.8 Consensus size: 27
548020 ATTACCAAAG
* *
548030 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
548057 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
548084 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
548111 TACCCTCAATTTACAGAATTA-CATTT
1 TACCCTCGATTTACAGAATTACCATTT
548137 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
548164 TACCC-CTGATTTACAAAATTAC
1 TACCCTC-GATTTACAGAATTAC
548186 TATAAATACC
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
26 25 0.22
27 91 0.78
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:548088 original size:54 final size:54
Alignment explanation
Indices: 548030--548185 Score: 233
Period size: 53 Copynumber: 2.9 Consensus size: 54
548020 ATTACCAAAG
* *
548030 TACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTT
* **
548084 TACCCTCGATTTATAGAATTACTATTTTACCCTCAATTTACAGAATTA-CATTT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTT
* * *
548137 TACCCTCGATTTACAGAATTACCATTTTACCCCTGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTACCATTTTACCCTTGATTTACAGAATTAC
548186 TATAAATACC
Statistics
Matches: 90, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 46 0.51
54 44 0.49
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTTGATTTACAGAATTACCATTT
Found at i:548165 original size:80 final size:81
Alignment explanation
Indices: 548030--548188 Score: 232
Period size: 80 Copynumber: 2.0 Consensus size: 81
548020 ATTACCAAAG
* * * * *
548030 TACCCTCGATTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACCGTTTTA-CCCTCGAT
1 TACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCCT-GAT
* *
548094 TTATAGAATTACTATTT
65 TTACAAAATTACTATTT
548111 TACCCTCAATTTACAGAATTA-CATTTTACCCTCGATTTACAGAATTACCATTTTACCCCTGATT
1 TACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCCTGATT
548175 TACAAAATTACTAT
66 TACAAAATTACTAT
548189 AAATACCCTT
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
80 47 0.67
81 23 0.33
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.40
Consensus pattern (81 bp):
TACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCCTGATT
TACAAAATTACTATTT
Found at i:548197 original size:27 final size:26
Alignment explanation
Indices: 548137--548249 Score: 100
Period size: 27 Copynumber: 4.2 Consensus size: 26
548127 AATTACATTT
* ***
548137 TACCCTCGATTTACAGAATTACCATTT
1 TACCCT-GATTTACAAAATTACCAAAA
*
548164 TACCCCTGATTTACAAAATTACTATAAA
1 TA-CCCTGATTTACAAAATTACCA-AAA
*
548192 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCC-TGATTTACAAAATTACCAAAA
* **
548219 TACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTGA-TTTACAAAATTACCAAAA
548246 TACC
1 TACC
548250 ACTGGTTGTG
Statistics
Matches: 71, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
26 1 0.01
27 48 0.68
28 22 0.31
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
TACCCTGATTTACAAAATTACCAAAA
Found at i:548265 original size:26 final size:27
Alignment explanation
Indices: 548178--548277 Score: 91
Period size: 27 Copynumber: 3.7 Consensus size: 27
548168 CCTGATTTAC
*
548178 AAAATTACTATAAATACCCTT-GGTT-T
1 AAAATTACCA-AAATACCCTTAGGTTGT
*
548204 ACAAAATTACCAAAATACCCTTAGTTTGT
1 --AAAATTACCAAAATACCCTTAGGTTGT
548233 AAAATTACCAAAATACCAC-T-GGTTGT
1 AAAATTACCAAAATACC-CTTAGGTTGT
* * *
548259 GAAATTATCGAAATACCCT
1 AAAATTACCAAAATACCCT
548278 CAATTTGGTG
Statistics
Matches: 62, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
25 1 0.02
26 19 0.31
27 28 0.45
28 13 0.21
29 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTAGGTTGT
Found at i:738839 original size:53 final size:55
Alignment explanation
Indices: 738782--738885 Score: 142
Period size: 53 Copynumber: 1.9 Consensus size: 55
738772 ACAACATTAA
*
738782 CTGATC-TGGTGGCTCTGCCACATATA-CTGTCCT-GTGGCTAGGCCACAATTAGT
1 CTGATCGT-GTGGCACTGCCACATATATCTGTCCTGGTGGCTAGGCCACAATTAGT
* **
738835 CTGATCGTGTGGCACTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAT
1 CTGATCGTGTGGCACTGCCACATATATCTGTCCTGGTGGCTAGGCCACAAT
738886 ATCGTATCTG
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
53 23 0.52
54 7 0.16
55 14 0.32
ACGTcount: A:0.18, C:0.27, G:0.24, T:0.31
Consensus pattern (55 bp):
CTGATCGTGTGGCACTGCCACATATATCTGTCCTGGTGGCTAGGCCACAATTAGT
Found at i:746626 original size:47 final size:47
Alignment explanation
Indices: 746572--746757 Score: 282
Period size: 47 Copynumber: 4.0 Consensus size: 47
746562 TTAGGATTTT
** *
746572 ATGTGATGAATGTGAATGTGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
746619 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
746666 ATGTGATGAATGTGAGCACGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
746713 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
746758 TAGTGTGAAA
Statistics
Matches: 126, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 126 1.00
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.25
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:746672 original size:22 final size:22
Alignment explanation
Indices: 746601--746672 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
746591 GCATATATGA
746601 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
746623 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
746648 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
746670 GAT
1 GAT
746673 GAATGTGAGC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:747027 original size:37 final size:37
Alignment explanation
Indices: 746919--747027 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
746909 GGAAATATAT
* *
746919 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
746956 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
746993 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
747028 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:748194 original size:26 final size:26
Alignment explanation
Indices: 748165--748272 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
748155 TGGTACAAAT
748165 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * **
748191 TGATAATGGATTAGGTAACTAATCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
748217 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
748243 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
748269 TGAT
1 TGAT
748273 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:749910 original size:27 final size:27
Alignment explanation
Indices: 749870--750010 Score: 164
Period size: 27 Copynumber: 5.2 Consensus size: 27
749860 AGGAAGCGTC
*
749870 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
749897 CTGGTGGCTCTGCCAC-ATATATTTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
749923 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
* *
749951 CTGGTGGCACTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
749978 CTGGTGGCTCTACCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
750005 CTGGTG
1 CTGGTG
750011 ACTTCGTCAC
Statistics
Matches: 97, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
26 11 0.11
27 82 0.85
28 4 0.04
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:749949 original size:54 final size:54
Alignment explanation
Indices: 749867--750010 Score: 227
Period size: 54 Copynumber: 2.7 Consensus size: 54
749857 TGGAGGAAGC
* *
749867 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATTT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCACTGCCACATATATCT
749921 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCACTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCACTGCCACATATATCT
* * *
749975 GTTCTGGTGGCTCTACCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
750011 ACTTCGTCAC
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 6 0.07
54 78 0.93
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCACTGCCACATATATCT
Found at i:750022 original size:81 final size:80
Alignment explanation
Indices: 749870--750028 Score: 191
Period size: 81 Copynumber: 2.0 Consensus size: 80
749860 AGGAAGCGTC
* * *
749870 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATTTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTCCTGGTGACTAT
749935 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* *
749951 CTGGTGGC-ACTGCCAC-ATATATCTGTTCTGGTGGCTCTACCACA-ATATCTGTATCTGGTGAC
1 CTGGTGGCTA-TGCCACAAT-TATCTGATCTGGTGGCTCTACCACATATATCTGT-CCTGGTGAC
*
750013 T-TCGTCACAATATCTG
63 TAT-GCCACAATATCTG
750029 GCAGCCTCGC
Statistics
Matches: 68, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
80 17 0.25
81 51 0.75
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTACCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGAT
Found at i:754522 original size:19 final size:19
Alignment explanation
Indices: 754500--754536 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
754490 GGAATAATAT
*
754500 ATATAGTAAAATATATAAC
1 ATATAATAAAATATATAAC
*
754519 ATATAATAAAATTTATAA
1 ATATAATAAAATATATAA
754537 ATAAAATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (19 bp):
ATATAATAAAATATATAAC
Found at i:754527 original size:10 final size:10
Alignment explanation
Indices: 754500--754559 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
754490 GGAATAATAT
*
754500 ATATAGTAAA
1 ATATAATAAA
*
754510 ATAT-ATAAC
1 ATATAATAAA
754519 ATATAATAAA
1 ATATAATAAA
754529 ATTTATAAATAAA
1 A--TAT-AATAAA
* *
754542 ATATATTATA
1 ATATAATAAA
754552 ATATAATA
1 ATATAATA
754560 TGATAAATAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
9 7 0.17
10 20 0.50
11 3 0.08
12 3 0.08
13 7 0.17
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (10 bp):
ATATAATAAA
Found at i:758952 original size:23 final size:25
Alignment explanation
Indices: 758926--758977 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
758916 TTTTAATCCT
758926 TTTTAAAT-TTTT-TATATAATTTA
1 TTTTAAATATTTTATATATAATTTA
*
758949 TTTTAAATATTTTATATATTATTTA
1 TTTTAAATATTTTATATATAATTTA
758974 TTTT
1 TTTT
758978 TACTATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 8 0.31
24 4 0.15
25 14 0.54
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTTAAATATTTTATATATAATTTA
Found at i:759074 original size:13 final size:14
Alignment explanation
Indices: 759046--759098 Score: 76
Period size: 15 Copynumber: 3.9 Consensus size: 14
759036 TATTATTCAT
759046 ATTTTATTATAT--
1 ATTTTATTATATAC
759058 ATTTTATT-TATAC
1 ATTTTATTATATAC
759071 ATTTTATTATATATC
1 ATTTTATTATATA-C
759086 ATTTTATTATATA
1 ATTTTATTATATA
759099 TTATTCATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
11 3 0.08
12 8 0.22
13 8 0.22
14 4 0.11
15 14 0.38
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTTTATTATATAC
Found at i:759083 original size:27 final size:27
Alignment explanation
Indices: 759046--759119 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 27
759036 TATTATTCAT
759046 ATTTTA-T-TATATATTTTATTTATAC
1 ATTTTATTATATATATTTTATTTATAC
*
759071 ATTTTATTATATATCATTTTA-TTATAT
1 ATTTTATTATATAT-ATTTTATTTATAC
759098 ATTATTCATTATAT-TATTTTAT
1 ATT-TT-ATTATATATATTTTAT
759120 ATAATTATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
25 6 0.14
26 1 0.02
27 19 0.45
28 9 0.21
29 7 0.17
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (27 bp):
ATTTTATTATATATATTTTATTTATAC
Found at i:759090 original size:15 final size:14
Alignment explanation
Indices: 759044--759119 Score: 81
Period size: 13 Copynumber: 5.6 Consensus size: 14
759034 TGTATTATTC
759044 ATATTTTA-T-TAT
1 ATATTTTATTATAT
759056 ATATTTTATT-TAT
1 ATATTTTATTATAT
*
759069 ACATTTTATTATAT
1 ATATTTTATTATAT
759083 ATCATTTTATTATAT
1 AT-ATTTTATTATAT
*
759098 AT-TATTCATTATAT
1 ATAT-TTTATTATAT
759112 -TATTTTAT
1 ATATTTTAT
759120 ATAATTATTT
Statistics
Matches: 55, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.15
13 19 0.35
14 14 0.25
15 14 0.25
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (14 bp):
ATATTTTATTATAT
Found at i:759126 original size:25 final size:26
Alignment explanation
Indices: 759049--759149 Score: 95
Period size: 25 Copynumber: 3.8 Consensus size: 26
759039 TATTCATATT
759049 TTATTATA-TATTTTATTTATACATT-
1 TTATTATATTATTTTA-TTATACATTA
*
759074 TTATTATATATCATTTTATTATATATTA
1 TTATTATAT-T-ATTTTATTATACATTA
759102 TTCATTATATTATTTTA-TATA-ATTA
1 TT-ATTATATTATTTTATTATACATTA
759127 TTTATTAT-TTATTATTATGTATA
1 -TTATTATATTATT-TTAT-TATA
759150 ATTTAAAAAA
Statistics
Matches: 66, Mismatches: 1, Indels: 16
0.80 0.01 0.19
Matches are distributed among these distances:
24 5 0.08
25 20 0.30
26 6 0.09
27 19 0.29
28 9 0.14
29 7 0.11
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (26 bp):
TTATTATATTATTTTATTATACATTA
Found at i:759134 original size:15 final size:14
Alignment explanation
Indices: 759016--759142 Score: 73
Period size: 15 Copynumber: 9.7 Consensus size: 14
759006 ATTATTATAA
759016 ATATATTATTT-TT
1 ATATATTATTTATT
*
759029 ATCTATGTA-TTATT
1 ATATAT-TATTTATT
*
759043 -CATA-T-TTTATT
1 ATATATTATTTATT
759054 ATATA-T-TTTATT
1 ATATATTATTTATT
*
759066 -TATA-CATTTTATT
1 ATATATTA-TTTATT
*
759079 ATATATCATTTTATT
1 ATATATTA-TTTATT
*
759094 ATATATTATTCA-T
1 ATATATTATTTATT
759107 -TATATTA-TT-TT
1 ATATATTATTTATT
759118 ATATAATTATTTATT
1 ATAT-ATTATTTATT
*
759133 ATTTATTATT
1 ATATATTATT
759143 ATGTATAATT
Statistics
Matches: 92, Mismatches: 9, Indels: 25
0.73 0.07 0.20
Matches are distributed among these distances:
11 12 0.13
12 20 0.22
13 20 0.22
14 19 0.21
15 21 0.23
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (14 bp):
ATATATTATTTATT
Found at i:759340 original size:36 final size:36
Alignment explanation
Indices: 759227--759340 Score: 110
Period size: 36 Copynumber: 3.1 Consensus size: 36
759217 AATACTCTAA
*
759227 AATTATTATATCATATAGTTTTTTATATTATTTTAATT
1 AATTATTATATCATATAGTTTTTT-TA-TATATTAATT
** * *
759265 -CCTATTATAT-A-AT-GTTATTTTTATAAAATATATT
1 AATTATTATATCATATAGTT-TTTTTATATATTA-ATT
759299 AAATTATTATATCATATAGTTTTTTTATATATTAATT
1 -AATTATTATATCATATAGTTTTTTTATATATTAATT
759336 AATTA
1 AATTA
759341 ACCATTTTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 16
0.71 0.11 0.19
Matches are distributed among these distances:
33 4 0.07
34 8 0.13
35 6 0.10
36 14 0.23
37 12 0.20
38 13 0.22
39 3 0.05
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.56
Consensus pattern (36 bp):
AATTATTATATCATATAGTTTTTTTATATATTAATT
Found at i:765472 original size:25 final size:23
Alignment explanation
Indices: 765388--765474 Score: 90
Period size: 22 Copynumber: 3.8 Consensus size: 23
765378 TGTACTATTA
*
765388 AACAGAGAGCATTAAAGTGCTAT
1 AACAGAGAGCATTAATGTGCTAT
*
765411 -ACAGAGAGCA-CAGATGTGCTA-
1 AACAGAGAGCATTA-ATGTGCTAT
* *
765432 AACGGAGAGCACTAATGTGCTAAT
1 AACAGAGAGCATTAATGTGCT-AT
765456 AATCAGAGAGCATTAATGT
1 AA-CAGAGAGCATTAATGT
765475 ACTAATAATC
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
21 1 0.02
22 33 0.63
23 2 0.04
24 2 0.04
25 14 0.27
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (23 bp):
AACAGAGAGCATTAATGTGCTAT
Found at i:765479 original size:25 final size:25
Alignment explanation
Indices: 765436--765485 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
765426 GTGCTAAACG
*
765436 GAGAGCACTAATGTGCTAATAATCA
1 GAGAGCACTAATGTACTAATAATCA
*
765461 GAGAGCATTAATGTACTAATAATCA
1 GAGAGCACTAATGTACTAATAATCA
765486 AATAGCACGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (25 bp):
GAGAGCACTAATGTACTAATAATCA
Found at i:765492 original size:25 final size:25
Alignment explanation
Indices: 765437--765493 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 25
765427 TGCTAAACGG
* *
765437 AGAGCACTAATGTGCTAATAATCAG
1 AGAGCACTAATGTACTAATAATCAA
*
765462 AGAGCATTAATGTACTAATAATCAA
1 AGAGCACTAATGTACTAATAATCAA
*
765487 ATAGCAC
1 AGAGCAC
765494 GCTAGAGCTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.25
Consensus pattern (25 bp):
AGAGCACTAATGTACTAATAATCAA
Found at i:771832 original size:9 final size:9
Alignment explanation
Indices: 771807--771839 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
771797 TGTTATTAAA
771807 GGTTAAAAT
1 GGTTAAAAT
771816 GG-TAAAAT
1 GGTTAAAAT
771824 GGTTAAAAT
1 GGTTAAAAT
771833 GGCTTAA
1 GG-TTAA
771840 TTAACTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.36
9 10 0.45
10 4 0.18
ACGTcount: A:0.42, C:0.03, G:0.24, T:0.30
Consensus pattern (9 bp):
GGTTAAAAT
Found at i:775046 original size:4 final size:4
Alignment explanation
Indices: 775037--775081 Score: 90
Period size: 4 Copynumber: 11.2 Consensus size: 4
775027 CCCTTTTCTA
775037 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
775082 CACGTTTGCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:775941 original size:48 final size:48
Alignment explanation
Indices: 775864--775999 Score: 193
Period size: 48 Copynumber: 2.8 Consensus size: 48
775854 GGAGTCTCGT
* * *
775864 ACCCTAAGTGCTAATATCATAGCCCGAAGCCAACTCAATGAATCTCAC
1 ACCCGAAGTGCTAATATCATGGCCTGAAGCCAACTCAATGAATCTCAC
* * *
775912 ACCTGAAGTGCCAATATCATGGCCTGAAGCCAACTCAATGAATCTCGC
1 ACCCGAAGTGCTAATATCATGGCCTGAAGCCAACTCAATGAATCTCAC
*
775960 ACCCGAAGTGCTAATATCATGG-CTCAAAGCCAACTCAATG
1 ACCCGAAGTGCTAATATCATGGCCT-GAAGCCAACTCAATG
776000 TAACCCCTAA
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
47 2 0.03
48 76 0.97
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (48 bp):
ACCCGAAGTGCTAATATCATGGCCTGAAGCCAACTCAATGAATCTCAC
Found at i:777690 original size:24 final size:24
Alignment explanation
Indices: 777658--777794 Score: 89
Period size: 24 Copynumber: 5.5 Consensus size: 24
777648 CCATATAATA
*
777658 GGAAGCTCATAACAGCCATAATCG
1 GGAAGCTCATAAAAGCCATAATCG
*
777682 GGAAGCTCATAAAAGCCATTATCG
1 GGAAGCTCATAAAAGCCATAATCG
* * * *
777706 GGTAGCTTCA-GAGAGTCATTAATCG
1 GGAAGC-TCATAAAAGCCA-TAATCG
* *
777731 AGAAGCTCATGAAATAG-CATTTAATCA
1 GGAAGCTCAT-AAA-AGCCA--TAATCG
** * *
777758 GGAAGCTCCGAAGATCCATATATCG
1 GGAAGCTCATAAAAGCCATA-ATCG
777783 GGAAGCTCATAA
1 GGAAGCTCATAA
777795 GAGTTGTTGT
Statistics
Matches: 85, Mismatches: 20, Indels: 15
0.71 0.17 0.12
Matches are distributed among these distances:
24 37 0.44
25 26 0.31
26 7 0.08
27 15 0.18
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (24 bp):
GGAAGCTCATAAAAGCCATAATCG
Found at i:777894 original size:25 final size:25
Alignment explanation
Indices: 777863--777936 Score: 107
Period size: 25 Copynumber: 3.0 Consensus size: 25
777853 GCTATTAATG
*
777863 GGAAGCTCGTTAGAGCCATATATCA
1 GGAAGCTCGTAAGAGCCATATATCA
777888 GGAAGCTCGTAAGAGCCATATATCA
1 GGAAGCTCGTAAGAGCCATATATCA
*
777913 GGAAGCTC-AAGAGAGCCA-ATATCA
1 GGAAGCTCGTA-AGAGCCATATATCA
777937 AGATGCTTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
24 7 0.15
25 39 0.85
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.19
Consensus pattern (25 bp):
GGAAGCTCGTAAGAGCCATATATCA
Found at i:777950 original size:24 final size:24
Alignment explanation
Indices: 777874--777957 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 24
777864 GAAGCTCGTT
* *
777874 AGAGCCATATATCAGGAAGCTCGTA-
1 AGAGCCA-ATATCAAGAAGCTC-AAG
*
777899 AGAGCCATATATCAGGAAGCTCAAG
1 AGAGCCA-ATATCAAGAAGCTCAAG
* * *
777924 AGAGCCAATATCAAGATGCTTATG
1 AGAGCCAATATCAAGAAGCTCAAG
*
777948 AGAGCTAATA
1 AGAGCCAATA
777958 ACGGGACGCT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
24 23 0.44
25 29 0.56
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (24 bp):
AGAGCCAATATCAAGAAGCTCAAG
Found at i:782280 original size:22 final size:22
Alignment explanation
Indices: 782252--782296 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
782242 CGTTGCAGAG
782252 TATGAAGTATTCCAAGTAAAAA
1 TATGAAGTATTCCAAGTAAAAA
*
782274 TATGAAGTATTCTAAGTAAAAA
1 TATGAAGTATTCCAAGTAAAAA
782296 T
1 T
782297 TGGGTGTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.07, G:0.13, T:0.31
Consensus pattern (22 bp):
TATGAAGTATTCCAAGTAAAAA
Found at i:783533 original size:42 final size:42
Alignment explanation
Indices: 783451--783545 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 42
783441 TTAAACCAAA
* *
783451 AAATAATATTTAAATTATATCATATTTCTCAATTTAATACTT
1 AAATAGTATTTAAATTATATCATATTTCTCAATGTAATACTT
* *
783493 AAATAGTATTTAAATTATAAT-ATGTTATCTCAA-GTGATACTT
1 AAATAGTATTTAAATTAT-ATCATATT-TCTCAATGTAATACTT
783535 AAACT-GTATTT
1 AAA-TAGTATTT
783546 TATTATTCTA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
42 37 0.80
43 9 0.20
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.45
Consensus pattern (42 bp):
AAATAGTATTTAAATTATATCATATTTCTCAATGTAATACTT
Found at i:784017 original size:26 final size:25
Alignment explanation
Indices: 783978--784033 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
783968 AATTTAATTA
*
783978 AATTTGATTTTTATAATTTAAATTTT
1 AATTTGATTCTTATAA-TTAAATTTT
* *
784004 TATTTTATTCTTATAATTAAATTTT
1 AATTTGATTCTTATAATTAAATTTT
784029 AATTT
1 AATTT
784034 AAAAATATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (25 bp):
AATTTGATTCTTATAATTAAATTTT
Found at i:784096 original size:39 final size:39
Alignment explanation
Indices: 784047--784125 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
784037 AATATCACAT
784047 ATTAAAAAATGATTGGTTAAATGATTTTTTTAACTGCAA
1 ATTAAAAAATGATTGGTTAAATGATTTTTTTAACTGCAA
* *
784086 ATTACAAAATGATTTGTTAAATGATTTTTTTAACTGCAA
1 ATTAAAAAATGATTGGTTAAATGATTTTTTTAACTGCAA
784125 A
1 A
784126 GATAATTTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.41, C:0.06, G:0.11, T:0.42
Consensus pattern (39 bp):
ATTAAAAAATGATTGGTTAAATGATTTTTTTAACTGCAA
Found at i:785439 original size:26 final size:24
Alignment explanation
Indices: 785409--785458 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
785399 AAATAAAAAA
*
785409 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
785435 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
785459 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:792308 original size:21 final size:21
Alignment explanation
Indices: 792282--792325 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
792272 TATTCTCTTT
792282 CTACCAATCATGACAAGCTTC
1 CTACCAATCATGACAAGCTTC
792303 CTACCAATCATGACAAGCTTC
1 CTACCAATCATGACAAGCTTC
792324 CT
1 CT
792326 CTATTCTCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.32, C:0.34, G:0.09, T:0.25
Consensus pattern (21 bp):
CTACCAATCATGACAAGCTTC
Found at i:793033 original size:68 final size:68
Alignment explanation
Indices: 792924--793059 Score: 272
Period size: 68 Copynumber: 2.0 Consensus size: 68
792914 TGTTACGCTT
792924 GATTTATTTTCTTAACATCAATGAATATACTTCTTTTTTTATACAATGTTTACTTCTATCCATAA
1 GATTTATTTTCTTAACATCAATGAATATACTTCTTTTTTTATACAATGTTTACTTCTATCCATAA
792989 TCA
66 TCA
792992 GATTTATTTTCTTAACATCAATGAATATACTTCTTTTTTTATACAATGTTTACTTCTATCCATAA
1 GATTTATTTTCTTAACATCAATGAATATACTTCTTTTTTTATACAATGTTTACTTCTATCCATAA
793057 TCA
66 TCA
793060 ATATACGATT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 68 1.00
ACGTcount: A:0.31, C:0.16, G:0.04, T:0.49
Consensus pattern (68 bp):
GATTTATTTTCTTAACATCAATGAATATACTTCTTTTTTTATACAATGTTTACTTCTATCCATAA
TCA
Found at i:803105 original size:46 final size:46
Alignment explanation
Indices: 802945--803256 Score: 199
Period size: 47 Copynumber: 6.6 Consensus size: 46
802935 TTTGTGCGCT
* *
802945 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA-GATGAGAGCC
* * * * * *
802991 AGTATAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGATGAGAGCC
*
803039 AGTGTTAAGACATGTCTGGGACATGCATCGGCCTCGCGATGTA-AGCC
1 AGTG-TAAGACATGTCTGGGACATGCATCGGCCTCGAGATG-AGAGCC
* * **
803086 AGTGTAAGACATGTTTGGGACATGCATCGG-CTACGAGAT--GTGTT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGAGAGCC
* * * ** * * *
803130 AGTGTATGACCATGTCTGGGACATGGCGTCCGCCTCGATTTCAATAGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGAT-GAGAGCC
* * *
803179 AGTGTAAGACCATGTTTGGGACATGGCATC-GACT--TGATGGATGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGAT-GA-GAGCC
* *
803226 AGTGTAAGACCATGTCTAGGACGTGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
803257 ACATTATACC
Statistics
Matches: 208, Mismatches: 43, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
44 9 0.04
45 15 0.07
46 49 0.24
47 65 0.31
48 35 0.17
49 35 0.17
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGAGAGCC
Found at i:813143 original size:25 final size:25
Alignment explanation
Indices: 813110--813162 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
813100 ATTCTATTCA
813110 AACTCTATTTTACATCAATAAAATT
1 AACTCTATTTTACATCAATAAAATT
813135 AACTCTATTTTACATCAATAAAATT
1 AACTCTATTTTACATCAATAAAATT
813160 AAC
1 AAC
813163 ACAATTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (25 bp):
AACTCTATTTTACATCAATAAAATT
Found at i:813169 original size:25 final size:25
Alignment explanation
Indices: 813116--813169 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
813106 TTCAAACTCT
* *
813116 ATTTTACATCAATAAAATTAACTCT
1 ATTTTACATCAATAAAATTAACACA
813141 ATTTTACATCAATAAAATTAACACA
1 ATTTTACATCAATAAAATTAACACA
813166 ATTT
1 ATTT
813170 AAAAAGATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (25 bp):
ATTTTACATCAATAAAATTAACACA
Found at i:814337 original size:60 final size:60
Alignment explanation
Indices: 814273--814391 Score: 195
Period size: 60 Copynumber: 2.0 Consensus size: 60
814263 ATACTAAACT
* *
814273 AAACACAACAATTTATAACATAA-TCTTAAATTAGTAATAAATTAATTTTAAAATAATTAC
1 AAACACAACAATTTATAACATAATTC-TAAATTACTAACAAATTAATTTTAAAATAATTAC
*
814333 AAACACAACAATTTATAACGTAATTCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAACAATTTATAACATAATTCTAAATTACTAACAAATTAATTTTAAAATAATTA
814392 TAAAAAATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
60 53 0.96
61 2 0.04
ACGTcount: A:0.53, C:0.11, G:0.02, T:0.34
Consensus pattern (60 bp):
AAACACAACAATTTATAACATAATTCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:814458 original size:27 final size:25
Alignment explanation
Indices: 814410--814475 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
814400 ATTTTTATAT
*
814410 TTTTAATA-AAAATAA-AATAATAATA
1 TTTTAATATAAAA-AATAA-AAAAATA
*
814435 TTTT-ATTTAAAAAATAAAAAAATA
1 TTTTAATATAAAAAATAAAAAAATA
814459 TTTTAATATAAAAAATA
1 TTTTAATATAAAAAATA
814476 TATTACGCCC
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
24 14 0.40
25 21 0.60
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
TTTTAATATAAAAAATAAAAAAATA
Found at i:814460 original size:19 final size:19
Alignment explanation
Indices: 814438--814479 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
814428 AATAATATTT
814438 TATTTAAAAAATAAAAAA-A
1 TATTT-AAAAATAAAAAATA
* *
814457 TATTTTAATATAAAAAATA
1 TATTTAAAAATAAAAAATA
814476 TATT
1 TATT
814480 ACGCCCATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TATTTAAAAATAAAAAATA
Found at i:818791 original size:11 final size:11
Alignment explanation
Indices: 818760--818850 Score: 58
Period size: 11 Copynumber: 7.9 Consensus size: 11
818750 CAAATGTCTC
*
818760 TAAAATAGTAA
1 TAAAATAATAA
*
818771 CAAAATTAATAA
1 TAAAA-TAATAA
818783 TAAAATAATAAA
1 TAAAATAAT-AA
*
818795 TATATAATATTCAA
1 TA-A-AATAAT-AA
* *
818809 -ATAATAACAA
1 TAAAATAATAA
* *
818819 CAAAATAATAG
1 TAAAATAATAA
*
818830 TAAAATAATAG
1 TAAAATAATAA
818841 TAAAATAATA
1 TAAAATAATA
818851 GCAAAACAAT
Statistics
Matches: 63, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
10 2 0.03
11 39 0.62
12 13 0.21
13 2 0.03
14 7 0.11
ACGTcount: A:0.65, C:0.04, G:0.03, T:0.27
Consensus pattern (11 bp):
TAAAATAATAA
Found at i:818836 original size:22 final size:22
Alignment explanation
Indices: 818811--818856 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
818801 ATATTCAAAT
*
818811 AATAACAACAAAATAATAGTAA
1 AATAACAACAAAATAATAGCAA
* **
818833 AATAATAGTAAAATAATAGCAA
1 AATAACAACAAAATAATAGCAA
818855 AA
1 AA
818857 CAATGGAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.20
Consensus pattern (22 bp):
AATAACAACAAAATAATAGCAA
Found at i:818851 original size:11 final size:11
Alignment explanation
Indices: 818820--818856 Score: 65
Period size: 11 Copynumber: 3.4 Consensus size: 11
818810 TAATAACAAC
818820 AAAATAATAGT
1 AAAATAATAGT
818831 AAAATAATAGT
1 AAAATAATAGT
*
818842 AAAATAATAGC
1 AAAATAATAGT
818853 AAAA
1 AAAA
818857 CAATGGAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.22
Consensus pattern (11 bp):
AAAATAATAGT
Found at i:818867 original size:22 final size:22
Alignment explanation
Indices: 818820--818867 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
818810 TAATAACAAC
* * *
818820 AAAATAATAGTAAAATAATAGT
1 AAAATAATAGCAAAACAATAGA
*
818842 AAAATAATAGCAAAACAATGGA
1 AAAATAATAGCAAAACAATAGA
818864 AAAA
1 AAAA
818868 AGTAAAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.67, C:0.04, G:0.10, T:0.19
Consensus pattern (22 bp):
AAAATAATAGCAAAACAATAGA
Found at i:821013 original size:9 final size:10
Alignment explanation
Indices: 820998--821023 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
820988 TATGTATTTG
820998 TATTTTTTAA
1 TATTTTTTAA
821008 TATTTTTTAA
1 TATTTTTTAA
821018 TATTTT
1 TATTTT
821024 ACTATACCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TATTTTTTAA
Found at i:821736 original size:133 final size:133
Alignment explanation
Indices: 821586--821827 Score: 448
Period size: 133 Copynumber: 1.8 Consensus size: 133
821576 TATCAATACA
821586 CCCTCAAGCTTCACTACATTGGGATGATCCAACTTCAGTAATATCATTATTTATTGTGCCATAAA
1 CCCTCAAGCTTCACTACATTGGGATGATCCAACTTCAGTAATATCATTATTTATTGTGCCATAAA
* *
821651 TTTCACTCTCCCTGGATCTGATATTTCAAACCGGAACTTCTTCACTTTTGTGCTCCATTATCTGT
66 TTTCACACTCCCAGGATCTGATATTTCAAACCGGAACTTCTTCACTTTTGTGCTCCATTATCTGT
821716 AGT
131 AGT
*
821719 CCCTCAAGCTTCACTACATTGGGATGATCCAACTTCTGTAATATCATTATTTATTGTGCCATAAA
1 CCCTCAAGCTTCACTACATTGGGATGATCCAACTTCAGTAATATCATTATTTATTGTGCCATAAA
*
821784 TTTCACACTCCCAGGATCTGATATTTCAAACCGGACCTTCTTCA
66 TTTCACACTCCCAGGATCTGATATTTCAAACCGGAACTTCTTCA
821828 AGTCAACTAT
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
133 105 1.00
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (133 bp):
CCCTCAAGCTTCACTACATTGGGATGATCCAACTTCAGTAATATCATTATTTATTGTGCCATAAA
TTTCACACTCCCAGGATCTGATATTTCAAACCGGAACTTCTTCACTTTTGTGCTCCATTATCTGT
AGT
Found at i:825332 original size:16 final size:15
Alignment explanation
Indices: 825293--825328 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
825283 ATTATGATGT
*
825293 ATATATATTTTTTAA
1 ATATTTATTTTTTAA
*
825308 ATATTTATTTTTTTA
1 ATATTTATTTTTTAA
825323 ATATTT
1 ATATTT
825329 TATTGAACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (15 bp):
ATATTTATTTTTTAA
Found at i:827272 original size:11 final size:11
Alignment explanation
Indices: 827266--827297 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
827256 TGAAATTTTC
827266 TCAAAATTCTA
1 TCAAAATTCTA
827277 TCAAAATTCTA
1 TCAAAATTCTA
827288 TCAAAATTCT
1 TCAAAATTCT
827298 TTGTTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (11 bp):
TCAAAATTCTA
Found at i:827495 original size:48 final size:48
Alignment explanation
Indices: 827431--827564 Score: 143
Period size: 48 Copynumber: 2.8 Consensus size: 48
827421 AGTGATAATT
827431 TTAAATTTTCAATACTATTCGATATTATT-TTAATTTATGCAAATT-TAA
1 TTAAATTTTCAATACTATTCGATATT-TTATTAATTTATGC-AATTATAA
* *
827479 TTAAATTTGT-AATACTATTTGATATTTTATTCATTTATGCAATTATAA
1 TTAAATTT-TCAATACTATTCGATATTTTATTAATTTATGCAATTATAA
* * * *
827527 TTACAA-TTTCAATACTGTTTGAT-TTTTTTTCATTTATG
1 TTA-AATTTTCAATACTATTCGATATTTTATTAATTTATG
827565 ATGTTTGCAT
Statistics
Matches: 77, Mismatches: 4, Indels: 11
0.84 0.04 0.12
Matches are distributed among these distances:
47 21 0.27
48 53 0.69
49 3 0.04
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.53
Consensus pattern (48 bp):
TTAAATTTTCAATACTATTCGATATTTTATTAATTTATGCAATTATAA
Found at i:829176 original size:18 final size:18
Alignment explanation
Indices: 829153--829195 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
829143 TGTCAAGTGC
*
829153 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
829171 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
829189 GTTTCCT
1 GTATCCT
829196 TTTCCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:832889 original size:126 final size:126
Alignment explanation
Indices: 832664--832918 Score: 431
Period size: 126 Copynumber: 2.0 Consensus size: 126
832654 TTATAGCCTC
* *
832664 ATTTTTCTATAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGTTG
1 ATTTTTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTAGGAGCTTTTTCCAGAAATTTTGTTG
* *
832729 ACAGTGTATCCTGCTTGAAGCGTTTTCGACACTATTTGTTTAGAAATGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAATGTCTACTCAGAATT
*
832790 ATTTTTCTACGAACTACTGTAGCAAAAGAGCGTCCACGTAGGAGCTTTTTCCAGAAATTTTGTTG
1 ATTTTTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTAGGAGCTTTTTCCAGAAATTTTGTTG
* *
832855 ACAGTGCATCCTGTTTGAAGCGTTTTC-AGCACTATTTGTTCAGAAATGTCTGCTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGA-CACTATTTGTTCAGAAATGTCTACTCAGAATT
832916 ATT
1 ATT
832919 CTTGCAGAAA
Statistics
Matches: 121, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
125 1 0.01
126 120 0.99
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.36
Consensus pattern (126 bp):
ATTTTTCTACAAACTACTGTAGCAAAAGAGCGTCCACGTAGGAGCTTTTTCCAGAAATTTTGTTG
ACAGTGCATCCTGCTTGAAGCGTTTTCGACACTATTTGTTCAGAAATGTCTACTCAGAATT
Found at i:833389 original size:15 final size:15
Alignment explanation
Indices: 833369--833398 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
833359 TTAATTATTT
*
833369 TCCTAAAACCCTAAA
1 TCCTAAAACACTAAA
833384 TCCTAAAACACTAAA
1 TCCTAAAACACTAAA
833399 CCCTTACAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (15 bp):
TCCTAAAACACTAAA
Found at i:836315 original size:3 final size:3
Alignment explanation
Indices: 836307--836333 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
836297 ACTTTCTCCT
836307 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
836334 GATTATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:839403 original size:9 final size:9
Alignment explanation
Indices: 839389--839431 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
839379 AAATATTATT
839389 TTTTATAAA
1 TTTTATAAA
*
839398 TTTTATAGA
1 TTTTATAAA
*
839407 TTTTAAATAA
1 TTTTATA-AA
839417 TTTTAATAAA
1 TTTT-ATAAA
839427 TTTTA
1 TTTTA
839432 ATTTTTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 15 0.54
10 11 0.39
11 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (9 bp):
TTTTATAAA
Found at i:839416 original size:20 final size:20
Alignment explanation
Indices: 839396--839432 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
839386 ATTTTTTATA
*
839396 AATTTT-ATAGATTTTAAAT
1 AATTTTAATAAATTTTAAAT
839415 AATTTTAATAAATTTTAA
1 AATTTTAATAAATTTTAA
839433 TTTTTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (20 bp):
AATTTTAATAAATTTTAAAT
Found at i:839433 original size:10 final size:10
Alignment explanation
Indices: 839388--839433 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
839378 AAAATATTAT
*
839388 TTTTTATAAA
1 TTTTAATAAA
*
839398 TTTT-ATAGA
1 TTTTAATAAA
839407 TTTTAA-ATAA
1 TTTTAATA-AA
839417 TTTTAATAAA
1 TTTTAATAAA
839427 TTTTAAT
1 TTTTAAT
839434 TTTTAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
9 9 0.29
10 21 0.68
11 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (10 bp):
TTTTAATAAA
Found at i:839443 original size:29 final size:29
Alignment explanation
Indices: 839367--839447 Score: 85
Period size: 29 Copynumber: 2.7 Consensus size: 29
839357 TAGCTAATTC
* *
839367 TTTTAAATTTTAAAATATTATTTTTTATAAA
1 TTTTAAATTTTAAAA-A-TAATTTTAATAAA
839398 TTTTATAGATTTT--AAATAATTTTAATAAA
1 TTTTA-A-ATTTTAAAAATAATTTTAATAAA
*
839427 TTTTAATTTTTAAAAATAATT
1 TTTTAAATTTTAAAAATAATT
839448 CTTATAATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
27 4 0.09
28 1 0.02
29 24 0.56
30 1 0.02
31 7 0.16
32 1 0.02
33 5 0.12
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (29 bp):
TTTTAAATTTTAAAAATAATTTTAATAAA
Found at i:839454 original size:29 final size:28
Alignment explanation
Indices: 839367--839459 Score: 82
Period size: 29 Copynumber: 3.1 Consensus size: 28
839357 TAGCTAATTC
*
839367 TTTTAAATTTTAAAATATTATTTTTTATAAA
1 TTTTAAATTTTAAAA-A-TA-ATTTTATAAA
839398 TTTTATAGATTTT--AAATAATTTTAATAAA
1 TTTTA-A-ATTTTAAAAATAATTTT-ATAAA
* *
839427 TTTTAATTTTTAAAAATAATTCTTATAAT
1 TTTTAAATTTTAAAAATAATT-TTATAAA
839456 TTTT
1 TTTT
839460 TTGAAAATTT
Statistics
Matches: 53, Mismatches: 3, Indels: 14
0.76 0.04 0.20
Matches are distributed among these distances:
27 4 0.08
28 5 0.09
29 28 0.53
30 3 0.06
31 7 0.13
32 1 0.02
33 5 0.09
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (28 bp):
TTTTAAATTTTAAAAATAATTTTATAAA
Found at i:840120 original size:21 final size:21
Alignment explanation
Indices: 840094--840136 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
840084 TATAATTATG
840094 TAATCAG-TTACCATCCATACC
1 TAATCAGATT-CCATCCATACC
840115 TAATCAGATTCCATCCATACC
1 TAATCAGATTCCATCCATACC
840136 T
1 T
840137 TTTATTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.33, C:0.33, G:0.05, T:0.30
Consensus pattern (21 bp):
TAATCAGATTCCATCCATACC
Found at i:845505 original size:25 final size:25
Alignment explanation
Indices: 845471--845522 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
845461 GCTTGAATTA
*
845471 TTTTTTTTTTTGAAAGTTTAGAAAC
1 TTTTTTTTTTTGAAAATTTAGAAAC
845496 TTTTTTTTTTTGAAAATTTAGAAAC
1 TTTTTTTTTTTGAAAATTTAGAAAC
845521 TT
1 TT
845523 ACTCTCTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.04, G:0.10, T:0.58
Consensus pattern (25 bp):
TTTTTTTTTTTGAAAATTTAGAAAC
Found at i:847736 original size:25 final size:25
Alignment explanation
Indices: 847573--847741 Score: 80
Period size: 24 Copynumber: 6.8 Consensus size: 25
847563 CTCTCTTTCA
* * **
847573 AGCCATATAACAGGAAGCT-CATTG
1 AGCCATATATCGGGAAGCTCCAGAG
* * *
847597 AGCCATGTAACGGGAAGCT-CATAAG
1 AGCCATATATCGGGAAGCTCCA-GAG
** * *
847622 AGCTGTA-ATCGGGAAGTTCAAGAG
1 AGCCATATATCGGGAAGCTCCAGAG
* *
847646 AGCCA-ATATTGGGAAACTCCAGAG
1 AGCCATATATCGGGAAGCTCCAGAG
* *
847670 AGCCATTTATCGGGGAGCT-CATGAAAG
1 AGCCATATATCGGGAAGCTCCA-G--AG
* * *
847697 AGCC-TTTAATTGGGAAGCTCCAGGG
1 AGCCATAT-ATCGGGAAGCTCCAGAG
*
847722 AGCCATATATCGGGATGCTC
1 AGCCATATATCGGGAAGCTC
847742 ATAAGAGCTA
Statistics
Matches: 108, Mismatches: 27, Indels: 19
0.70 0.18 0.12
Matches are distributed among these distances:
23 1 0.01
24 53 0.49
25 31 0.29
26 5 0.05
27 16 0.15
28 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.21
Consensus pattern (25 bp):
AGCCATATATCGGGAAGCTCCAGAG
Found at i:849654 original size:14 final size:17
Alignment explanation
Indices: 849622--849659 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
849612 GATTATAAAG
849622 TATATTATTAAATTAAT
1 TATATTATTAAATTAAT
849639 TATATTA-TAAA-T-AT
1 TATATTATTAAATTAAT
849653 TATATTA
1 TATATTA
849660 AGAAATAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 9 0.43
15 1 0.05
16 4 0.19
17 7 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTATTAAATTAAT
Found at i:850762 original size:22 final size:22
Alignment explanation
Indices: 850721--850762 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
850711 ATATTTGAGT
*
850721 ATTGGTATTGAATTTAAATTGA
1 ATTGGTATTGAATTCAAATTGA
* *
850743 ATTGGTATTTAATTCGAATT
1 ATTGGTATTGAATTCAAATT
850763 TTAATTATTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.02, G:0.17, T:0.48
Consensus pattern (22 bp):
ATTGGTATTGAATTCAAATTGA
Found at i:852519 original size:87 final size:86
Alignment explanation
Indices: 852290--852621 Score: 332
Period size: 87 Copynumber: 3.7 Consensus size: 86
852280 ATTCTTTAAA
* * *
852290 TTTTTCAAAAAAGGCAATTAAGCCCTTGCTTTTTTTTTTGCACAT-AATTTGG-TATTTGAACTT
1 TTTTTCAAAAAAAGCAATTAAG-CC-T--TTTTTTTTTT-CAC-TCAA-TTGGATACTTAAACTT
* *
852353 TCAAAATACATAAAAAAAGGCCTTCAAAC
59 TCAAAATACAT-CAAAAAGGCCCTCAAAC
** * * *
852382 TTTTT-AAAAAATAATAATAAAGCC-CTTTTTTTTACACTCAATT-GAGTACTTAAACTTTCAAA
1 TTTTTCAAAAAA-AGCAATTAAGCCTTTTTTTTTTTCACTCAATTGGA-TACTTAAACTTTCAAA
852444 ATACATCAAAAAGGCCCTCAAAC
64 ATACATCAAAAAGGCCCTCAAAC
852467 TTTTTCAAAAAAAGCAATTAAGCTCTTTTTTTTTTTCACTCAATTGGATACTTAAACTTTCAAAA
1 TTTTTCAAAAAAAGCAATTAAGC-CTTTTTTTTTTTCACTCAATTGGATACTTAAACTTTCAAAA
* *
852532 TGCATCAAAAAGGCCCTTAAAC
65 TACATCAAAAAGGCCCTCAAAC
* * * * *
852554 TTTTCCAAAAAAAGCAATTAAGCCATTGATTTTTTTTCTTCACTCAATTTGATATTTGAACTGTC
1 TTTTTCAAAAAAAGCAATTAAGCC--T--TTTTTTTT-TTCACTCAATTGGATACTTAAACTTTC
852619 AAA
61 AAA
852622 TGCATAAAAA
Statistics
Matches: 205, Mismatches: 22, Indels: 27
0.81 0.09 0.11
Matches are distributed among these distances:
84 1 0.00
85 31 0.15
86 33 0.16
87 84 0.41
88 3 0.01
90 8 0.04
91 34 0.17
92 11 0.05
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.37
Consensus pattern (86 bp):
TTTTTCAAAAAAAGCAATTAAGCCTTTTTTTTTTTCACTCAATTGGATACTTAAACTTTCAAAAT
ACATCAAAAAGGCCCTCAAAC
Found at i:852794 original size:19 final size:20
Alignment explanation
Indices: 852770--852809 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
852760 AATAAAAGTT
852770 ATAG-AAAAATTAAATTTTA
1 ATAGAAAAAATTAAATTTTA
852789 ATAGAAAAAAATTAAATTTTA
1 ATAG-AAAAAATTAAATTTTA
852810 TTAAAAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.21
21 15 0.79
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (20 bp):
ATAGAAAAAATTAAATTTTA
Found at i:853115 original size:18 final size:19
Alignment explanation
Indices: 853083--853259 Score: 76
Period size: 19 Copynumber: 9.3 Consensus size: 19
853073 TCATAATTTC
853083 TTTTTTACAA-TTTTTATA
1 TTTTTTACAATTTTTTATA
853101 TTTCTTTAC-ATTTTTTATA
1 TTT-TTTACAATTTTTTATA
* * * *
853120 TTTTTTACGACTTTATAAA
1 TTTTTTACAATTTTTTATA
* * * *
853139 ATTTATA-ATTTTTTTCTA
1 TTTTTTACAATTTTTTATA
* * *
853157 TATTTCTA-TATATTTTATAA
1 T-TTTTTACAATTTTTTAT-A
*
853177 TTTTTTACGA-TTTTTATAA
1 TTTTTTACAATTTTTTAT-A
** *
853196 AATATTACAAATTTTTTATAA
1 TTTTTTAC-AATTTTTTAT-A
** * *
853217 TTTTTTATGATTTTATAAA
1 TTTTTTACAATTTTTTATA
* *
853236 TTTTTTATAATTTTTAATA
1 TTTTTTACAATTTTTTATA
853255 TTTTT
1 TTTTT
853260 ATAGTTTTTA
Statistics
Matches: 116, Mismatches: 35, Indels: 15
0.70 0.21 0.09
Matches are distributed among these distances:
18 14 0.12
19 78 0.67
20 11 0.09
21 13 0.11
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.63
Consensus pattern (19 bp):
TTTTTTACAATTTTTTATA
Found at i:853161 original size:58 final size:58
Alignment explanation
Indices: 853093--853242 Score: 164
Period size: 58 Copynumber: 2.6 Consensus size: 58
853083 TTTTTTACAA
* * *
853093 TTTTTATATTTCTTTACATTTTTTATATTTTTTACGA-CTTTATAAAAT-TTATAATTT
1 TTTTTATATTTCTTTACATTTTATA-ATTTTTTACGATCTTTATAAAATATTACAAATT
* * *
853150 TTTTCTATATTTCTATATATTTTATAATTTTTTACGATTTTTATAAAATATTACAAA-T
1 TTTT-TATATTTCTTTACATTTTATAATTTTTTACGATCTTTATAAAATATTACAAATT
*
853208 TTTTTATAATTT-TTTATGATTTTATAAATTTTTTA
1 TTTTTAT-ATTTCTTTA-CATTTTAT-AATTTTTTA
853243 TAATTTTTAA
Statistics
Matches: 79, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
57 21 0.27
58 44 0.56
59 14 0.18
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (58 bp):
TTTTTATATTTCTTTACATTTTATAATTTTTTACGATCTTTATAAAATATTACAAATT
Found at i:853250 original size:29 final size:28
Alignment explanation
Indices: 853140--853258 Score: 105
Period size: 29 Copynumber: 4.1 Consensus size: 28
853130 CTTTATAAAA
* * *
853140 TTTATAATTTTTTTCTATATTTCTATATAT
1 TTTATAAATTTTTTATA-ATTT-TTTATAT
** *
853170 TTTAT-AATTTTTTACGATTTTTATAAAAT
1 TTTATAAATTTTTTATAATTTTT-T-ATAT
* *
853199 ATTACAAATTTTTTATAATTTTTTATGAT
1 TTTATAAATTTTTTATAATTTTTTAT-AT
*
853228 TTTATAAATTTTTTATAATTTTTAATAT
1 TTTATAAATTTTTTATAATTTTTTATAT
853256 TTT
1 TTT
853259 TATAGTTTTT
Statistics
Matches: 71, Mismatches: 14, Indels: 10
0.75 0.15 0.11
Matches are distributed among these distances:
27 1 0.01
28 11 0.15
29 39 0.55
30 20 0.28
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (28 bp):
TTTATAAATTTTTTATAATTTTTTATAT
Found at i:853259 original size:29 final size:29
Alignment explanation
Indices: 853140--853297 Score: 101
Period size: 29 Copynumber: 5.4 Consensus size: 29
853130 CTTTATAAAA
* * *
853140 TTTATAATTTTTTTCTATATTTCT-ATATAT
1 TTTATAAATTTTTTATA-ATTTTTAATAT-T
** * *
853170 TTTAT-AATTTTTTACGATTTTTATAAAAT
1 TTTATAAATTTTTTATAATTTTTA-ATATT
* * *
853199 ATTACAAATTTTTTATAATTTTTTATGA-T
1 TTTATAAATTTTTTATAATTTTTAAT-ATT
853228 TTTATAAATTTTTTATAATTTTTAATATT
1 TTTATAAATTTTTTATAATTTTTAATATT
* **
853257 TTTAT--AGTTTTTATTAAAATTTAATCATT
1 TTTATAAATTTTTTA-TAATTTTTAAT-ATT
*
853286 TTTATAACTTTT
1 TTTATAAATTTT
853298 ATTTATTTTT
Statistics
Matches: 98, Mismatches: 21, Indels: 17
0.72 0.15 0.12
Matches are distributed among these distances:
27 7 0.07
28 15 0.15
29 50 0.51
30 23 0.23
31 3 0.03
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (29 bp):
TTTATAAATTTTTTATAATTTTTAATATT
Found at i:853297 original size:10 final size:9
Alignment explanation
Indices: 853084--853309 Score: 66
Period size: 9 Copynumber: 23.8 Consensus size: 9
853074 CATAATTTCT
*
853084 TTTTTACAA
1 TTTTTATAA
*
853093 TTTTTATAT
1 TTTTTATAA
* *
853102 TTCTTTACAT
1 TT-TTTATAA
*
853112 TTTTTATAT
1 TTTTTATAA
**
853121 TTTTTACGA
1 TTTTTATAA
*
853130 -CTTTATAA
1 TTTTTATAA
**
853138 AATTTATAA
1 TTTTTATAA
*
853147 TTTTTTTCTATA
1 --TTTTTATA-A
*
853159 TTTCTAT-A
1 TTTTTATAA
853167 TATTTTATAA
1 T-TTTTATAA
853177 TTTTT-TACGA
1 TTTTTATA--A
853187 TTTTTATAAA
1 TTTTTAT-AA
* * *
853197 ATATTACAAA
1 TTTTTA-TAA
853207 TTTTTTATAA
1 -TTTTTATAA
*
853217 TTTTTTATGA
1 -TTTTTATAA
853227 -TTTTATAAA
1 TTTTTAT-AA
853236 TTTTTTATAA
1 -TTTTTATAA
853246 TTTTTA-ATA
1 TTTTTATA-A
*
853255 TTTTTATAG
1 TTTTTATAA
853264 TTTTTATTAAA
1 TTTTTA-T-AA
* * *
853275 ATTTAATCA
1 TTTTTATAA
853284 TTTTTATAA
1 TTTTTATAA
* *
853293 CTTTTATTTA
1 TTTTTA-TAA
853303 TTTTTAT
1 TTTTTAT
853310 TTTTATCATT
Statistics
Matches: 160, Mismatches: 36, Indels: 42
0.67 0.15 0.18
Matches are distributed among these distances:
8 16 0.10
9 70 0.44
10 51 0.32
11 21 0.13
12 2 0.01
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:853308 original size:29 final size:28
Alignment explanation
Indices: 853227--853308 Score: 76
Period size: 29 Copynumber: 2.9 Consensus size: 28
853217 TTTTTTATGA
853227 TTTTATAAATTTT-TTATAATTTTTAATAT
1 TTTTATAAATTTTATT-T-ATTTTTAATAT
** * **
853256 TTTTATAGTTTTTATTAAAATTTAATCAT
1 TTTTATAAATTTTATTTATTTTTAAT-AT
*
853285 TTTTATAACTTTTATTTATTTTTA
1 TTTTATAAATTTTATTTATTTTTA
853309 TTTTTATCAT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
28 7 0.17
29 32 0.78
30 2 0.05
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (28 bp):
TTTTATAAATTTTATTTATTTTTAATAT
Found at i:859167 original size:10 final size:10
Alignment explanation
Indices: 859137--859168 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
859127 CTCACAGCAG
859137 TTTTTGTTTT
1 TTTTTGTTTT
*
859147 GTTTTGTTTT
1 TTTTTGTTTT
859157 TTTTTGTTTT
1 TTTTTGTTTT
859167 TT
1 TT
859169 GTCTTGCAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (10 bp):
TTTTTGTTTT
Found at i:863948 original size:39 final size:39
Alignment explanation
Indices: 863891--863973 Score: 148
Period size: 39 Copynumber: 2.1 Consensus size: 39
863881 GCTGAAGAAG
*
863891 AAACTCAATCATCCAATCAGTTCATCATTCTAATGAAAT
1 AAACTCAATCATCAAATCAGTTCATCATTCTAATGAAAT
*
863930 AAACTGAATCATCAAATCAGTTCATCATTCTAATGAAAT
1 AAACTCAATCATCAAATCAGTTCATCATTCTAATGAAAT
863969 AAACT
1 AAACT
863974 AAGTTAAACT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.30
Consensus pattern (39 bp):
AAACTCAATCATCAAATCAGTTCATCATTCTAATGAAAT
Found at i:864286 original size:23 final size:23
Alignment explanation
Indices: 864260--864307 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
864250 AAAAGAAGAA
864260 AAAGAAAGGGTATTTATACTGAT
1 AAAGAAAGGGTATTTATACTGAT
864283 AAAGAAAGGGTATTTATACTGAT
1 AAAGAAAGGGTATTTATACTGAT
864306 AA
1 AA
864308 TCCGAAAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.46, C:0.04, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGAAAGGGTATTTATACTGAT
Found at i:871981 original size:25 final size:25
Alignment explanation
Indices: 871947--871997 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
871937 TTCCTTATAA
*
871947 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTATATTAGG
871972 ACTTTAAATTAGGAATTATATTAGG
1 ACTTTAAATTAGGAATTATATTAGG
871997 A
1 A
871998 TTTTCCTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTATATTAGG
Found at i:876668 original size:25 final size:25
Alignment explanation
Indices: 876619--876669 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
876609 TTCCTTATAA
** *
876619 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGAATAGG
876644 ACTTTAAATTAGGAATTAGAATAGG
1 ACTTTAAATTAGGAATTAGAATAGG
876669 A
1 A
876670 TTTTCCTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGAATAGG
Found at i:879716 original size:40 final size:40
Alignment explanation
Indices: 879665--879745 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
879655 TTATAAAGCC
879665 AAAATTTTCATAGATTGTCCTCAACCTCTTCCAACCATAA
1 AAAATTTTCATAGATTGTCCTCAACCTCTTCCAACCATAA
879705 AAAATTTTCATAGATTGTCCTCAACCTCTTCCAACCATAA
1 AAAATTTTCATAGATTGTCCTCAACCTCTTCCAACCATAA
879745 A
1 A
879746 GCCAATTCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.36, C:0.27, G:0.05, T:0.32
Consensus pattern (40 bp):
AAAATTTTCATAGATTGTCCTCAACCTCTTCCAACCATAA
Found at i:882877 original size:23 final size:23
Alignment explanation
Indices: 882827--882878 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
882817 CGGATATGTT
882827 TTTTGAAGAAAAATGCACTAAAA
1 TTTTGAAGAAAAATGCACTAAAA
* * *
882850 GTTTGAA-AATAATGCATTGAAAA
1 TTTTGAAGAAAAATGCACT-AAAA
882873 TTTTGA
1 TTTTGA
882879 TTGACTTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.46, C:0.06, G:0.15, T:0.33
Consensus pattern (23 bp):
TTTTGAAGAAAAATGCACTAAAA
Found at i:888729 original size:11 final size:11
Alignment explanation
Indices: 888713--888747 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
888703 TTCGCTCATT
888713 TAATTAAATAA
1 TAATTAAATAA
888724 TAATTAAATAA
1 TAATTAAATAA
*
888735 TAA-TATATAA
1 TAATTAAATAA
888745 TAA
1 TAA
888748 ACTTTGAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
TAATTAAATAA
Found at i:898300 original size:19 final size:19
Alignment explanation
Indices: 898276--898315 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
898266 TATGGAACAC
898276 CTTCTTTATTCACCCTCCA
1 CTTCTTTATTCACCCTCCA
*
898295 CTTCTTTATTCGCCCTCCA
1 CTTCTTTATTCACCCTCCA
898314 CT
1 CT
898316 CCAGGGGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.12, C:0.42, G:0.03, T:0.42
Consensus pattern (19 bp):
CTTCTTTATTCACCCTCCA
Found at i:898934 original size:17 final size:17
Alignment explanation
Indices: 898912--898945 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
898902 ATCCACTAAT
*
898912 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
898929 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
898946 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:903573 original size:17 final size:17
Alignment explanation
Indices: 903551--903584 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
903541 ATCCACTAAT
*
903551 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
903568 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
903585 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:904064 original size:6 final size:6
Alignment explanation
Indices: 904049--904089 Score: 75
Period size: 6 Copynumber: 7.0 Consensus size: 6
904039 TGATCTCCCA
904049 CCCC-T CCCCTT CCCCTT CCCCTT CCCCTT CCCCTT CCCCTT
1 CCCCTT CCCCTT CCCCTT CCCCTT CCCCTT CCCCTT CCCCTT
904090 TTGTTTCTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.11
6 31 0.89
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (6 bp):
CCCCTT
Found at i:905651 original size:26 final size:27
Alignment explanation
Indices: 905588--905657 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
905578 AATTAATTTA
* *
905588 TTTAAAAAATTTTAAAAATATTACATT
1 TTTATAAATTTTTAAAAATATTACATT
*
905615 TTTATACATTTTTAATAAAT-TTA-ATT
1 TTTATAAATTTTTAA-AAATATTACATT
905641 ATTT-TAAATTTTTAAAA
1 -TTTATAAATTTTTAAAA
905658 TTAAAAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
25 2 0.05
26 13 0.35
27 18 0.49
28 4 0.11
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (27 bp):
TTTATAAATTTTTAAAAATATTACATT
Found at i:906096 original size:30 final size:31
Alignment explanation
Indices: 906040--906118 Score: 133
Period size: 30 Copynumber: 2.6 Consensus size: 31
906030 ATGTAATACC
906040 AATAAAAATTAAATAATTTAGATAATTGAAA
1 AATAAAAATTAAATAATTTAGATAATTGAAA
906071 AATAAAAATTAAATAATTT-GATAATTGAAA
1 AATAAAAATTAAATAATTTAGATAATTGAAA
* *
906101 AATAAATATTAAAAAATT
1 AATAAAAATTAAATAATT
906119 AATTATTGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
30 27 0.59
31 19 0.41
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (31 bp):
AATAAAAATTAAATAATTTAGATAATTGAAA
Found at i:907044 original size:29 final size:27
Alignment explanation
Indices: 907030--907082 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
907020 TGTAAATTTT
907030 TATAAAAATAGTAAAAAATTATAAAATA
1 TATAAAAATA-TAAAAAATTATAAAATA
*
907058 TATAGAAATATAAAAAA-TATAAAAT
1 TATAAAAATATAAAAAATTATAAAAT
907083 TCTATAATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 8 0.33
27 7 0.29
28 9 0.38
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (27 bp):
TATAAAAATATAAAAAATTATAAAATA
Found at i:907051 original size:19 final size:19
Alignment explanation
Indices: 906983--907055 Score: 58
Period size: 19 Copynumber: 3.7 Consensus size: 19
906973 AAAATTTAGG
*
906983 AAAAAAATATAAAAATCA-T
1 AAAAAATTATAAAAAT-AGT
* *
907002 AAAAATTATATAAAAAATTGT
1 AAAAAAT-TAT-AAAAATAGT
***
907023 AAATTTTTATAAAAATAGT
1 AAAAAATTATAAAAATAGT
907042 AAAAAATTATAAAA
1 AAAAAATTATAAAA
907056 TATATAGAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
19 24 0.57
20 6 0.14
21 12 0.29
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (19 bp):
AAAAAATTATAAAAATAGT
Found at i:907071 original size:17 final size:16
Alignment explanation
Indices: 907030--907082 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 16
907020 TGTAAATTTT
*
907030 TATAAAAATAGTAAAAAA
1 TATAAAAA-A-TATAAAA
*
907048 TTATAAAATATATAGAAA
1 -TATAAAAAATATA-AAA
907066 TATAAAAAATATAAAA
1 TATAAAAAATATAAAA
907082 T
1 T
907083 TCTATAATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 4 0.13
17 15 0.50
18 4 0.13
19 7 0.23
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (16 bp):
TATAAAAAATATAAAA
Found at i:907088 original size:19 final size:18
Alignment explanation
Indices: 906993--907089 Score: 56
Period size: 19 Copynumber: 5.1 Consensus size: 18
906983 AAAAAAATAT
906993 AAAAATCATAAAAATTATATA
1 AAAAAT-AT-AAAATT-TATA
* *
907014 AAAAAT-TGTAAATTTTTA
1 AAAAATAT-AAAATTTATA
*
907032 TAAAAATAGTAAAAAATTATA
1 -AAAAATA-T-AAAATTTATA
*
907053 AAATATATAGAAA--TATA
1 AAAAATATA-AAATTTATA
907070 AAAAATATAAAATTCTATA
1 AAAAATATAAAATT-TATA
907089 A
1 A
907090 TGTCGTAAGA
Statistics
Matches: 60, Mismatches: 9, Indels: 16
0.71 0.11 0.19
Matches are distributed among these distances:
16 3 0.05
17 12 0.20
18 4 0.07
19 21 0.35
20 6 0.10
21 14 0.23
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (18 bp):
AAAAATATAAAATTTATA
Found at i:907311 original size:19 final size:19
Alignment explanation
Indices: 907287--907367 Score: 76
Period size: 20 Copynumber: 4.2 Consensus size: 19
907277 TCGTTAATTT
907287 TTTTATGATTTTTATAAAA
1 TTTTATGATTTTTATAAAA
*
907306 TTTTAT-AATTTTAT-AAA
1 TTTTATGATTTTTATAAAA
907323 TTTTCCATGATTTTTATAAAAA
1 TTTT--ATGATTTTTAT-AAAA
* * *
907345 ATTTCTAATTTTTAATAAAA
1 TTTTATGATTTTT-ATAAAA
907365 TTT
1 TTT
907368 ACTTTTTTAT
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
17 7 0.14
18 7 0.14
19 8 0.16
20 20 0.40
21 2 0.04
22 6 0.12
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.56
Consensus pattern (19 bp):
TTTTATGATTTTTATAAAA
Found at i:907409 original size:45 final size:49
Alignment explanation
Indices: 907332--907431 Score: 120
Period size: 46 Copynumber: 2.1 Consensus size: 49
907322 ATTTTCCATG
*
907332 ATTTTTATAAAAAATTTCTAATTTTTAATAAAATTTACT-TTT-TTAT-
1 ATTTTTATAAAAAATTTATAATTTTTAATAAAATTTACTATTTATTATA
* * *
907378 ATTTTTAT-TAAAATTTAATAATTTTT-CTAAAATTTATTATTTATTATA
1 ATTTTTATAAAAAATTT-ATAATTTTTAATAAAATTTACTATTTATTATA
907426 ATTTTT
1 ATTTTT
907432 TCTAATTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
45 17 0.37
46 19 0.41
47 4 0.09
48 6 0.13
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (49 bp):
ATTTTTATAAAAAATTTATAATTTTTAATAAAATTTACTATTTATTATA
Found at i:907543 original size:86 final size:87
Alignment explanation
Indices: 907448--907611 Score: 233
Period size: 87 Copynumber: 1.9 Consensus size: 87
907438 TTTTAATAAG
* * * * *
907448 AGTAGGGGCTTAATTGC-TTTTTTGAAAAAATTTGAGGGTCTTTTTGATGTATTTTTA-AAGTTC
1 AGTAGGGGCTTAATTACTTTTTTTGAAAAAATTTAAGAGCCTTTTTGATGCA-TTTTAGAAGTTC
907511 AAGTACTCAATTGAGTGAAAAAA
65 AAGTACTCAATTGAGTGAAAAAA
* * *
907534 AGTAGGGGCTTAATTACTTTTTTTGAAGAAGTTTAAGAGCCTTTTTTATGCATTTTAGAAGTTCA
1 AGTAGGGGCTTAATTACTTTTTTTGAAAAAATTTAAGAGCCTTTTTGATGCATTTTAGAAGTTCA
907599 AGTACTCAATTGA
66 AGTACTCAATTGA
907612 ATTTAAAAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
86 21 0.31
87 47 0.69
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (87 bp):
AGTAGGGGCTTAATTACTTTTTTTGAAAAAATTTAAGAGCCTTTTTGATGCATTTTAGAAGTTCA
AGTACTCAATTGAGTGAAAAAA
Found at i:907620 original size:87 final size:86
Alignment explanation
Indices: 907439--907621 Score: 224
Period size: 87 Copynumber: 2.1 Consensus size: 86
907429 TTTTCTAATT
* * * * * *
907439 TTTAATAAGAGTAGGGGCTTAATTGCTTTTTTGAAAAAATTTGAGGGTCTTTTTGATGTATTTTT
1 TTTAA-AAAAGTAGGGGCTTAATTACTTTTTTGAAAAAATTTAAGAGCCTTTTTGATGCATTTTT
*
907504 AAAGTTCAAGTACTCAATTGAG
65 AAAGTTCAAGTACTCAATTGAA
** * * *
907526 TGAAAAAAAGTAGGGGCTTAATTACTTTTTTTGAAGAAGTTTAAGAGCCTTTTTTATGCA-TTTT
1 TTTAAAAAAGTAGGGGCTTAATTAC-TTTTTTGAAAAAATTTAAGAGCCTTTTTGATGCATTTTT
907590 AGAAGTTCAAGTACTCAATTGAA
65 A-AAGTTCAAGTACTCAATTGAA
907613 TTTAAAAAA
1 TTTAAAAAA
907622 AAGAAGAGGG
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
86 23 0.29
87 57 0.71
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.40
Consensus pattern (86 bp):
TTTAAAAAAGTAGGGGCTTAATTACTTTTTTGAAAAAATTTAAGAGCCTTTTTGATGCATTTTTA
AAGTTCAAGTACTCAATTGAA
Found at i:907643 original size:87 final size:85
Alignment explanation
Indices: 907451--907644 Score: 196
Period size: 87 Copynumber: 2.2 Consensus size: 85
907441 TAATAAGAGT
* * * * *
907451 AGGGGCTTAATTGCTTTTTTGAAAAAATTTGAGGGTCTTTTTGATGTATTTTTAAAGTTCAAGTA
1 AGGGGCTTAA-TACTTTTTTGAAAAAATTTAAGAGCCTTTTTGATGCATTTTTAAAGTTCAAGTA
* *
907516 CTCAATTGAGTGAAAAAAAGT
65 CTCAATTGAGTAAAAAAAAGA
* * *
907537 AGGGGCTTAATTACTTTTTTTGAAGAAGTTTAAGAGCCTTTTTTATGCA-TTTTAGAAGTTCAAG
1 AGGGGCTTAA-TAC-TTTTTTGAAAAAATTTAAGAGCCTTTTTGATGCATTTTTA-AAGTTCAAG
*
907601 TACTCAATTGAATTTAAAAAAAAGA
63 TACTCAATTG-A-GTAAAAAAAAGA
907626 AGAGGGACTT-A-ACTTTTTT
1 AG-GGG-CTTAATACTTTTTT
907645 TTTTTAAGTT
Statistics
Matches: 91, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
86 18 0.20
87 52 0.57
88 3 0.03
89 11 0.12
90 4 0.04
91 3 0.03
ACGTcount: A:0.34, C:0.08, G:0.19, T:0.39
Consensus pattern (85 bp):
AGGGGCTTAATACTTTTTTGAAAAAATTTAAGAGCCTTTTTGATGCATTTTTAAAGTTCAAGTAC
TCAATTGAGTAAAAAAAAGA
Found at i:911499 original size:32 final size:33
Alignment explanation
Indices: 911437--911501 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 33
911427 CAAAAATACT
*
911437 AAAAATATTAAAATAAATATTTTTAATAAATAA
1 AAAAATATTAAAATAAATATTTATAATAAATAA
* *
911470 AAAAAT-TTTAAA-AAATATTTATACTTAAATAA
1 AAAAATATTAAAATAAATATTTATA-ATAAATAA
911502 CATTAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 10 0.36
32 12 0.43
33 6 0.21
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (33 bp):
AAAAATATTAAAATAAATATTTATAATAAATAA
Found at i:911610 original size:37 final size:38
Alignment explanation
Indices: 911539--911611 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
911529 AAATGCCTCT
*
911539 AAAATAGTAATAAAATTAATAATAAAACAATAACAACA
1 AAAATAATAATAAAATTAATAATAAAACAATAACAACA
* * * *
911577 AAAATAATAATAACA-TAATAGTAAAATAGTAACAA
1 AAAATAATAATAAAATTAATAATAAAACAATAACAA
911612 AATAATGAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 17 0.57
38 13 0.43
ACGTcount: A:0.67, C:0.07, G:0.04, T:0.22
Consensus pattern (38 bp):
AAAATAATAATAAAATTAATAATAAAACAATAACAACA
Found at i:916058 original size:24 final size:24
Alignment explanation
Indices: 916031--916078 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
916021 AAAAGAGAAA
916031 AAAAAGTCTGAGAAATTTTAGAGT
1 AAAAAGTCTGAGAAATTTTAGAGT
916055 AAAAAGTCTGAGAAATTTTAGAGT
1 AAAAAGTCTGAGAAATTTTAGAGT
916079 GAACCTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAAAGTCTGAGAAATTTTAGAGT
Found at i:916332 original size:16 final size:17
Alignment explanation
Indices: 916311--916353 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
916301 TACGCATTGC
*
916311 AAGAGTTATT-CTTAAT
1 AAGAGTTATTCCTGAAT
*
916327 AAGAGTTGTTCCTGAAT
1 AAGAGTTATTCCTGAAT
*
916344 AAAAGTTATT
1 AAGAGTTATT
916354 TTGGCTATTC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (17 bp):
AAGAGTTATTCCTGAAT
Found at i:937315 original size:125 final size:125
Alignment explanation
Indices: 937200--937512 Score: 455
Period size: 125 Copynumber: 2.5 Consensus size: 125
937190 GCCAAACGGT
* * *
937200 AAATCGAAACCCAGTACAATTGGGCACGATTTATCGAACTTCCAAATACGAAATATTGTCTCATT
1 AAATCGAAACCCAGCACAATTGGGCACGATTTATCGAACTTCCAAATACGAAATATTGCCTCACT
* **
937265 TTAATTTAAGAAAACATGGATGAAATTCCAAAAGGATATTCCATATTTTAGTCGAATGAA
66 TTAATTTAAGAAAACATAGACAAAATTCCAAAAGGATATTCCATATTTTAGTCGAATGAA
*
937325 AAATCGAAACCCAGCACAATTGGGCACGATTTATCGAACTTCCAAATACGAAATATTGCCTCGCT
1 AAATCGAAACCCAGCACAATTGGGCACGATTTATCGAACTTCCAAATACGAAATATTGCCTCACT
* * **
937390 TTAATTTAAGAGAACATAGACAAAATTTCAAAAGGATATTCTGTATTTTAGTCGAATGAA
66 TTAATTTAAGAAAACATAGACAAAATTCCAAAAGGATATTCCATATTTTAGTCGAATGAA
* * * * * * * *
937450 AAATCGAAACCTAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAAGATTTCCTCA
1 AAATCGAAACCCAGCACAATTGGGCACGATTTATCGAACTTCCAAATACGAAATATTGCCTCA
937513 TGTTGAGGGG
Statistics
Matches: 168, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
125 168 1.00
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (125 bp):
AAATCGAAACCCAGCACAATTGGGCACGATTTATCGAACTTCCAAATACGAAATATTGCCTCACT
TTAATTTAAGAAAACATAGACAAAATTCCAAAAGGATATTCCATATTTTAGTCGAATGAA
Found at i:938122 original size:29 final size:26
Alignment explanation
Indices: 938058--938109 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
938048 AGTTAAATTG
* *
938058 TACATAAATAAATTTTAAAGAAAATA
1 TACATAAATAAATCTAAAAGAAAATA
*
938084 TATAT-AATAAATCTAAAAGAAAATA
1 TACATAAATAAATCTAAAAGAAAATA
938109 T
1 T
938110 TTACATACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (26 bp):
TACATAAATAAATCTAAAAGAAAATA
Found at i:938388 original size:24 final size:22
Alignment explanation
Indices: 938330--938391 Score: 63
Period size: 24 Copynumber: 2.8 Consensus size: 22
938320 AATGAATGCC
*
938330 AAATGAA-TTTAAAGAAATAAT
1 AAATGAATTTTAAAGAAATAAA
* * *
938351 GAATGACTTATAAAGAATATAAA
1 AAATGAATTTTAAAGAA-ATAAA
938374 AACATGAATTTTAAAGAA
1 AA-ATGAATTTTAAAGAA
938392 CTCAATGGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 5 0.16
22 8 0.26
23 5 0.16
24 13 0.42
ACGTcount: A:0.58, C:0.03, G:0.11, T:0.27
Consensus pattern (22 bp):
AAATGAATTTTAAAGAAATAAA
Found at i:944143 original size:18 final size:18
Alignment explanation
Indices: 944122--944157 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
944112 AATAATTTTA
*
944122 AAAAATTAGATAAAATTT
1 AAAAATAAGATAAAATTT
*
944140 AAAAATAAGATTAAATTT
1 AAAAATAAGATAAAATTT
944158 GTGATATATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (18 bp):
AAAAATAAGATAAAATTT
Done.