Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 69 of 163
Found at i:22775376 original size:105 final size:101
Alignment explanation
Indices: 22775173--22775378 Score: 272
Period size: 105 Copynumber: 2.0 Consensus size: 101
22775163 NNATAATTTT
* * *
22775173 GCGGCGTTTTTTTGAAAAACGCCGCAAAAAATAAATCAATTTCTAAAAATAAAAAAAAATTTAGC
1 GCGGCGTTTTTTTGAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAAAAAAAAATTTAGA
*
22775238 ATACCAAAACGGTGTCATTTTGATAAAAATGAAATA
66 ATACCAAAACGGCGTCATTTTGATAAAAATGAAATA
22775274 GCGGCGTTTTTTAT-AAAAACGCCGC-AAAAATAAATCAATTTATAAAAAACAAAATAAAAAATT
1 GCGGCGTTTTTT-TGAAAAACGCCGCAAAAAATAAATCAATTTAT-AAAAA-AAAA-AAAAAA--
* * * *
22775337 TTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAAATA
60 TTTAGAATACCAAAACGGCGTCATTTTGATAAAAATGAAATA
22775379 ATTTTGCGGC
Statistics
Matches: 91, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
100 17 0.19
101 28 0.31
102 4 0.04
103 6 0.07
105 36 0.40
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (101 bp):
GCGGCGTTTTTTTGAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAAAAAAAAAATTTAGA
ATACCAAAACGGCGTCATTTTGATAAAAATGAAATA
Found at i:22775547 original size:218 final size:219
Alignment explanation
Indices: 22775306--22775743 Score: 781
Period size: 218 Copynumber: 2.0 Consensus size: 219
22775296 CGCAAAAATA
22775306 AATCAATTTATAAAAAACAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAA
1 AATCAATTTATAAAAAACAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAA
*
22775371 ATGAAATAATTTTGCGGCGTTTTT-AT-GACGCCACTAAAGGTAAGCAATAGCGGCGTTTTTATA
66 ATGAAATAATTTTGCGGCGTTTTTCATAAACGCCACTAAAGGTAAGCAATAGCGGCGTTTTTATA
* *
22775434 AAAAGAGCCGCAAAAAATAAATCAATTTATAAAAAATAAAAAAAAATTTAGCATACCAAAACGGT
131 AAAA-AGCCGCAAAAAATAAATCAATTTATAAAAAATAAAAAAAAAATTAGCATACCAAAACGAT
22775499 GTCATTTTGATAAAAATGAAATAGC
195 GTCATTTTGATAAAAATGAAATAGC
*
22775524 AATCAATTTATAAAAAACAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTTAAA
1 AATCAATTTATAAAAAACAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAA
*
22775589 ATGAAATAATTTTGCGGCGTTTTTCATAAAAACGCCGCTAAAGGTAAGCAATAGCGGCGTTTTTA
66 ATGAAATAATTTTGCGGCGTTTTTCAT--AAACGCCACTAAAGGTAAGCAATAGCGGCGTTTTTA
*
22775654 TAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAATAAAAAAAAAATTAGCATACCAAAACGA
129 TAAAAAAGCCGCAAAAAATAAATCAATTTATAAAAAATAAAAAAAAAATTAGCATACCAAAACGA
22775719 TGTCATTTTGATAAAAATGAAATAG
194 TGTCATTTTGATAAAAATGAAATAG
22775744 TGGCGTTTTT
Statistics
Matches: 210, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
218 88 0.42
219 2 0.01
221 81 0.39
222 39 0.19
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.27
Consensus pattern (219 bp):
AATCAATTTATAAAAAACAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAA
ATGAAATAATTTTGCGGCGTTTTTCATAAACGCCACTAAAGGTAAGCAATAGCGGCGTTTTTATA
AAAAAGCCGCAAAAAATAAATCAATTTATAAAAAATAAAAAAAAAATTAGCATACCAAAACGATG
TCATTTTGATAAAAATGAAATAGC
Found at i:22775570 original size:75 final size:71
Alignment explanation
Indices: 22775453--22775596 Score: 189
Period size: 75 Copynumber: 2.0 Consensus size: 71
22775443 GCAAAAAATA
* * *
22775453 AATCAATTTATAAAAAATAAAAAAAAATTTAGCATACCAAAACGGTGTCATTTTGATAAAAATGA
1 AATCAATTTATAAAAAAAAAAAAAAAATTTAGAATACCAAAACGGCGTCATTTTGATAAAAATGA
22775518 AATAGC
66 AATAGC
* * * *
22775524 AATCAATTTATAAAAAACAAAATAAAAAATTTTTAGAATAGCAAAACGGCGTCGTTTTGTTTAAA
1 AATCAATTTATAAAAAA-AAAA-AAAAAA--TTTAGAATACCAAAACGGCGTCATTTTGATAAAA
22775589 ATGAAATA
62 ATGAAATA
22775597 ATTTTGCGGC
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
71 17 0.27
72 3 0.05
73 6 0.10
75 36 0.58
ACGTcount: A:0.52, C:0.09, G:0.10, T:0.28
Consensus pattern (71 bp):
AATCAATTTATAAAAAAAAAAAAAAAATTTAGAATACCAAAACGGCGTCATTTTGATAAAAATGA
AATAGC
Found at i:22775962 original size:18 final size:18
Alignment explanation
Indices: 22775941--22776001 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
22775931 AAACGCCGCA
22775941 AAAAATAAATCAATTTAT
1 AAAAATAAATCAATTTAT
* * **
22775959 AAAAAAAAATTAGCATACCA-
1 AAAAATAAATCA--AT-TTAT
22775979 AAAAATAAATCAATTTAT
1 AAAAATAAATCAATTTAT
22775997 AAAAA
1 AAAAA
22776002 ACAAAATAAA
Statistics
Matches: 31, Mismatches: 8, Indels: 8
0.66 0.17 0.17
Matches are distributed among these distances:
17 1 0.03
18 17 0.55
20 12 0.39
21 1 0.03
ACGTcount: A:0.66, C:0.08, G:0.02, T:0.25
Consensus pattern (18 bp):
AAAAATAAATCAATTTAT
Found at i:22775965 original size:20 final size:19
Alignment explanation
Indices: 22775940--22776002 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
22775930 AAAACGCCGC
22775940 AAAAAATAAATCAATTTAT
1 AAAAAATAAATCAATTTAT
* *** *
22775959 AAAAAA-AAATTAGCATACC
1 AAAAAATAAATCAATTTA-T
22775978 AAAAAATAAATCAATTTAT
1 AAAAAATAAATCAATTTAT
22775997 AAAAAA
1 AAAAAA
22776003 CAAAATAAAA
Statistics
Matches: 32, Mismatches: 10, Indels: 4
0.70 0.22 0.09
Matches are distributed among these distances:
18 7 0.22
19 18 0.56
20 7 0.22
ACGTcount: A:0.67, C:0.08, G:0.02, T:0.24
Consensus pattern (19 bp):
AAAAAATAAATCAATTTAT
Found at i:22776616 original size:3 final size:3
Alignment explanation
Indices: 22776608--22776636 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
22776598 CATCGCCTCT
22776608 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
22776637 ATATCTTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:22780136 original size:43 final size:43
Alignment explanation
Indices: 22779911--22780138 Score: 253
Period size: 43 Copynumber: 5.3 Consensus size: 43
22779901 ATGTTTTTTT
* * * * * *
22779911 TTTAGCGGCGTTT-TTGAGAGAAGCGTCGCTAACGGT-TTGTTC
1 TTTAGCGGCGTTTGTGGA-AAAAGCGCCGCTAAAGGTCATGGTC
* * * *
22779953 TATAGCGGCATTTGTGATAAAAAGCGCCGCTAAAGGTCATGGTT
1 TTTAGCGGCGTTTGTG-GAAAAAGCGCCGCTAAAGGTCATGGTC
* * *
22779997 TTTAGCGGCGTTTATGGAAAAAGTGCCGCTAAAGGTCATTGTC
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTC
*
22780040 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTC
* * **
22780083 TATAGCGGCGTTTGTGGAAAATGCGCCGCTAAAGGTCATGACC
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTC
*
22780126 TTTAGTGGCGTTT
1 TTTAGCGGCGTTT
22780139 ATTTTCAAAA
Statistics
Matches: 155, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
42 11 0.07
43 127 0.82
44 17 0.11
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:22780718 original size:41 final size:41
Alignment explanation
Indices: 22780659--22781007 Score: 601
Period size: 41 Copynumber: 8.5 Consensus size: 41
22780649 GACCTTTTGG
* * *
22780659 GGCTTTTAGCGGCGTTTTTGAAAAAGCACCGCTAATGCTCG
1 GGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
22780700 GAGC-TTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
1 G-GCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
* * *
22780741 GGCCTTTAGCGGCGTTTTTGAGAAAGCGCTGCTAATACTCA
1 GGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
* * *
22780782 GGCTTTTAGCAGCGTTTCTGAGGAAGCGCCGCTAATGCTCA
1 GGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
22780823 GGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
1 GGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
22780864 GGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
1 GGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
22780905 GGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
1 GGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
22780946 GGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
1 GGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
22780987 GGCTTTTAGCGGCGTTTTTGA
1 GGCTTTTAGCGGCGTTTTTGA
22781008 NNNNNNNNNN
Statistics
Matches: 292, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
40 2 0.01
41 288 0.99
42 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.30
Consensus pattern (41 bp):
GGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
Found at i:22781430 original size:15 final size:15
Alignment explanation
Indices: 22781412--22781441 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
22781402 TTATGATTTA
22781412 GGGTTTAGGAGATAG
1 GGGTTTAGGAGATAG
22781427 GGGTTTAGGAGATAG
1 GGGTTTAGGAGATAG
22781442 TTTAAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.47, T:0.27
Consensus pattern (15 bp):
GGGTTTAGGAGATAG
Found at i:22785600 original size:43 final size:43
Alignment explanation
Indices: 22785538--22785684 Score: 188
Period size: 43 Copynumber: 3.4 Consensus size: 43
22785528 TGTGTTATTA
*
22785538 AAAAAGTGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGG
1 AAAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGG
* * *
22785581 GAAAAGCGCCGTTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGA
1 AAAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGG
* * * * * *
22785624 AAAAAGCGCCGCTAAAGATAGCT-GTTTTTAGCGGTGATTGTAG
1 AAAAAGCGCCGCTAAAGGTCG-TGGTCTTTAGCGGCGTTTGTGG
22785667 AAAAAGCGCCGCTAAAGG
1 AAAAAGCGCCGCTAAAGG
22785685 CCTAAAAAAG
Statistics
Matches: 89, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
43 88 0.99
44 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (43 bp):
AAAAAGCGCCGCTAAAGGTCGTGGTCTTTAGCGGCGTTTGTGG
Found at i:22785694 original size:22 final size:22
Alignment explanation
Indices: 22785667--22785709 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
22785657 GTGATTGTAG
*
22785667 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
*
22785689 AAAAAGCGTCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
22785710 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.21, T:0.12
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:22800638 original size:44 final size:43
Alignment explanation
Indices: 22800588--22800751 Score: 193
Period size: 44 Copynumber: 3.6 Consensus size: 43
22800578 TTTGAGTACT
22800588 TCTGATCAGTGACAAATGATAAGTAGTAGCTTCAGCTACACTTA
1 TCTGATCAGTGACAAATGATAAGT-GTAGCTTCAGCTACACTTA
22800632 TCTGATCAGTGACAAATGGCAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAGTGAC--A----AA-TGATAAGTG-TAGCTTCAGCTACACTTA
* * * *
22800683 TCTGATCAATGACAAGTGATAAGTGGTAGCTTTAGCTACAGTTA
1 TCTGATCAGTGACAAATGATAAGT-GTAGCTTCAGCTACACTTA
*
22800727 TCTGATCAGTGACAAGTGATAAGTG
1 TCTGATCAGTGACAAATGATAAGTG
22800752 ATAAGTGGCA
Statistics
Matches: 106, Mismatches: 5, Indels: 19
0.82 0.04 0.15
Matches are distributed among these distances:
43 1 0.01
44 60 0.57
45 2 0.02
46 1 0.01
49 1 0.01
50 3 0.03
51 38 0.36
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (43 bp):
TCTGATCAGTGACAAATGATAAGTGTAGCTTCAGCTACACTTA
Found at i:22800750 original size:7 final size:7
Alignment explanation
Indices: 22800729--22800772 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
22800719 TACAGTTATC
*
22800729 TGATCAG
1 TGATAAG
*
22800736 TGACAAG
1 TGATAAG
22800743 TGATAAG
1 TGATAAG
22800750 TGATAAG
1 TGATAAG
**
22800757 TGGCAAG
1 TGATAAG
22800764 TGATAAG
1 TGATAAG
22800771 TG
1 TG
22800773 GTAGCTTAGC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.36, C:0.07, G:0.32, T:0.25
Consensus pattern (7 bp):
TGATAAG
Found at i:22800758 original size:21 final size:21
Alignment explanation
Indices: 22800729--22800772 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
22800719 TACAGTTATC
*
22800729 TGATCAGTGACAAGTGATAAG
1 TGATAAGTGACAAGTGATAAG
*
22800750 TGATAAGTGGCAAGTGATAAG
1 TGATAAGTGACAAGTGATAAG
22800771 TG
1 TG
22800773 GTAGCTTAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.07, G:0.32, T:0.25
Consensus pattern (21 bp):
TGATAAGTGACAAGTGATAAG
Found at i:22800759 original size:51 final size:51
Alignment explanation
Indices: 22800595--22800759 Score: 209
Period size: 51 Copynumber: 3.4 Consensus size: 51
22800585 ACTTCTGATC
* *
22800595 AGTGACAAATGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAGTGACA
* * *
22800646 AATGGCAAGTGATAAGTGATAGCTTCAGCTACACTTATCTG---A-T--CA
1 AGTGACAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAGTGACA
* *
22800691 A-TGACAAGTGATAAGTGGTAGCTTTAGCTACAGTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAGTGACA
*
22800741 AGTGATAAGTGATAAGTGG
1 AGTGACAAGTGATAAGTGG
22800760 CAAGTGATAA
Statistics
Matches: 97, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
44 35 0.36
45 3 0.03
47 2 0.02
48 2 0.02
50 3 0.03
51 52 0.54
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTCAGCTACACTTATCTGATCAGTGACA
Found at i:22800798 original size:64 final size:65
Alignment explanation
Indices: 22800695--22800817 Score: 221
Period size: 64 Copynumber: 1.9 Consensus size: 65
22800685 TGATCAATGA
* *
22800695 CAAGTGATAAGTGGTAGCTTTAGCTACAGTTATCTGATCAGTGACAAGTGATAAGTGATAAGTGG
1 CAAGTGATAAGTGGTAGCTTTAGCTACAATTATCTGATCAGGGACAAGTGATAAGTGATAAGTGG
22800760 CAAGTGATAAGTGGTAGC-TTAGCTACAATTATCTGATCAGGGACAAGTGATAAGTGAT
1 CAAGTGATAAGTGGTAGCTTTAGCTACAATTATCTGATCAGGGACAAGTGATAAGTGAT
22800818 CATACGTAAG
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
64 38 0.68
65 18 0.32
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.28
Consensus pattern (65 bp):
CAAGTGATAAGTGGTAGCTTTAGCTACAATTATCTGATCAGGGACAAGTGATAAGTGATAAGTGG
Found at i:22816391 original size:17 final size:16
Alignment explanation
Indices: 22816369--22816402 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
22816359 GGGGATGGCG
22816369 TTTGTTTGATGTTTATT
1 TTTGTTTGATG-TTATT
*
22816386 TTTGTTTGTTGTTATT
1 TTTGTTTGATGTTATT
22816402 T
1 T
22816403 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.09, C:0.00, G:0.18, T:0.74
Consensus pattern (16 bp):
TTTGTTTGATGTTATT
Found at i:22823934 original size:46 final size:46
Alignment explanation
Indices: 22823868--22824076 Score: 384
Period size: 46 Copynumber: 4.6 Consensus size: 46
22823858 TTTGAGTACT
22823868 TCTGATC-AGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
22823913 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
*
22823959 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGGTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
* *
22824005 TTTGATCAAGTGACAAAGTGATAAGTGTTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
22824051 TCTGATCAAGTGACAAAGTGATAAGT
1 TCTGATCAAGTGACAAAGTGATAAGT
22824077 TTTTATGCTC
Statistics
Matches: 158, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
45 7 0.04
46 151 0.96
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
Found at i:22826746 original size:79 final size:79
Alignment explanation
Indices: 22826615--22826775 Score: 286
Period size: 79 Copynumber: 2.0 Consensus size: 79
22826605 ATTTTGGTTT
* *
22826615 TCCCGTCGTTGGTAATGCTGCTATGCCAGGAAAAATGGATCCTACCCCGTAATGATTAAGAAGTC
1 TCCCGTCGTTGGTAATGCTACTATGCCAGGAAAAAGGGATCCTACCCCGTAATGATTAAGAAGTC
*
22826680 TTAGAAAATAAGGG
66 CTAGAAAATAAGGG
*
22826694 TCCCGTCGTTGGTAATGCTACTATGCCAGGAAAAAGGGATCCTACCCCGTAATGATTAAGAGGTC
1 TCCCGTCGTTGGTAATGCTACTATGCCAGGAAAAAGGGATCCTACCCCGTAATGATTAAGAAGTC
22826759 CTAGAAAATAAGGG
66 CTAGAAAATAAGGG
22826773 TCC
1 TCC
22826776 GATCAATGAA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (79 bp):
TCCCGTCGTTGGTAATGCTACTATGCCAGGAAAAAGGGATCCTACCCCGTAATGATTAAGAAGTC
CTAGAAAATAAGGG
Found at i:22843505 original size:9 final size:9
Alignment explanation
Indices: 22843480--22843540 Score: 52
Period size: 9 Copynumber: 6.6 Consensus size: 9
22843470 AAGCTTTAAT
22843480 TTTTTATTTA
1 TTTTTA-TTA
*
22843490 TTGTTATTA
1 TTTTTATTA
*
22843499 TTTTTATGA
1 TTTTTATTA
22843508 TTTTTATTA
1 TTTTTATTA
22843517 TCTTGTTATT-
1 T-TT-TTATTA
* *
22843527 TTATTAATA
1 TTTTTATTA
22843536 TTTTT
1 TTTTT
22843541 TAAAAAACGA
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
8 4 0.10
9 24 0.59
10 8 0.20
11 5 0.12
ACGTcount: A:0.21, C:0.02, G:0.05, T:0.72
Consensus pattern (9 bp):
TTTTTATTA
Found at i:22843538 original size:28 final size:27
Alignment explanation
Indices: 22843474--22843540 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 27
22843464 GCCTTTAAGC
22843474 TTTAAT-TTTTTATTTATTGTTATTAT
1 TTTAATATTTTTATTTATTGTTATTAT
* *
22843500 TTTTATGATTTTTATTATCTTGTTATT-T
1 TTTAAT-ATTTTTATT-TATTGTTATTAT
22843528 TATTAATATTTTT
1 T-TTAATATTTTT
22843541 TAAAAAACGA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 5 0.15
28 16 0.47
29 13 0.38
ACGTcount: A:0.22, C:0.01, G:0.04, T:0.72
Consensus pattern (27 bp):
TTTAATATTTTTATTTATTGTTATTAT
Found at i:22843540 original size:29 final size:29
Alignment explanation
Indices: 22843478--22843542 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
22843468 TTAAGCTTTA
*
22843478 ATTTTTTATTTATTGTTATTATTTTTATG
1 ATTTTTTATTTATTGTTATTATTTTAATG
*
22843507 A-TTTTTATTATCTTGTTATT-TTATTAAT-
1 ATTTTTTATT-TATTGTTATTATT-TTAATG
22843535 ATTTTTTA
1 ATTTTTTA
22843543 AAAAACGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
28 11 0.35
29 20 0.65
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.71
Consensus pattern (29 bp):
ATTTTTTATTTATTGTTATTATTTTAATG
Found at i:22854079 original size:29 final size:29
Alignment explanation
Indices: 22854045--22854100 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
22854035 TTTGATTATT
* * *
22854045 TTTAATAGTATAGGGGTTAAATTGATCCA
1 TTTAATAGTAAAGAGATTAAATTGATCCA
22854074 TTTAATAGTAAAGAGATTAAATTGATC
1 TTTAATAGTAAAGAGATTAAATTGATC
22854101 ATGTCCCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.38
Consensus pattern (29 bp):
TTTAATAGTAAAGAGATTAAATTGATCCA
Found at i:22855075 original size:14 final size:14
Alignment explanation
Indices: 22855058--22855084 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
22855048 AAAATACCAA
22855058 AATTTAAATAAATC
1 AATTTAAATAAATC
22855072 AATTTAAATAAAT
1 AATTTAAATAAAT
22855085 TATGACATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (14 bp):
AATTTAAATAAATC
Found at i:22856280 original size:20 final size:21
Alignment explanation
Indices: 22856243--22856287 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 21
22856233 AAGGAGAACA
*
22856243 AAATTGAATTGAAAAAGAAAC
1 AAATTAAATTGAAAAAGAAAC
22856264 AAATTAAATTG-AAAAGAAAC
1 AAATTAAATTGAAAAAGAAAC
22856284 AAAT
1 AAAT
22856288 AGCACACGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 13 0.57
21 10 0.43
ACGTcount: A:0.64, C:0.04, G:0.11, T:0.20
Consensus pattern (21 bp):
AAATTAAATTGAAAAAGAAAC
Found at i:22857871 original size:12 final size:13
Alignment explanation
Indices: 22857843--22857871 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
22857833 TAAGATAAGT
22857843 TATGATAAAACTA
1 TATGATAAAACTA
22857856 TATGATAAAA-TA
1 TATGATAAAACTA
22857868 TATG
1 TATG
22857872 TGAGTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.52, C:0.03, G:0.10, T:0.34
Consensus pattern (13 bp):
TATGATAAAACTA
Found at i:22863544 original size:29 final size:27
Alignment explanation
Indices: 22863512--22863588 Score: 68
Period size: 29 Copynumber: 2.7 Consensus size: 27
22863502 GCTCAAGTAC
22863512 ATTTTCTTTTGTTTGCATGTTT-GTTTCTT
1 ATTTTCTTTTGTTT--ATGTTTGGTTT-TT
* *
22863541 ATTTTCAGTTTGGTTTATTTTTGGTTTTT
1 ATTTTC--TTTTGTTTATGTTTGGTTTTT
*
22863570 ATTTTCTTTTGCTTA-GTTT
1 ATTTTCTTTTGTTTATGTTT
22863589 ACTTAAGGAC
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
26 3 0.08
27 7 0.17
29 19 0.47
30 4 0.10
31 7 0.17
ACGTcount: A:0.09, C:0.08, G:0.14, T:0.69
Consensus pattern (27 bp):
ATTTTCTTTTGTTTATGTTTGGTTTTT
Found at i:22897690 original size:16 final size:16
Alignment explanation
Indices: 22897671--22897706 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
22897661 CTAAAGATGA
22897671 ATATTAGAAAAGTTAC
1 ATATTAGAAAAGTTAC
22897687 ATATTAGAAAAGTTAC
1 ATATTAGAAAAGTTAC
22897703 ATAT
1 ATAT
22897707 GTGTGATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.06, G:0.11, T:0.33
Consensus pattern (16 bp):
ATATTAGAAAAGTTAC
Found at i:22902647 original size:22 final size:24
Alignment explanation
Indices: 22902595--22902648 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 24
22902585 ATTCAAAAAC
22902595 TTAAATTATTGTTATTAAATATGCT
1 TTAAATTATTGTTATT-AATATGCT
*
22902620 TGAAATTATTG-TATT-ATAT-CTT
1 TTAAATTATTGTTATTAATATGC-T
22902642 TTAAATT
1 TTAAATT
22902649 GAATTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 1 0.04
22 11 0.42
24 4 0.15
25 10 0.38
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (24 bp):
TTAAATTATTGTTATTAATATGCT
Found at i:22915017 original size:17 final size:18
Alignment explanation
Indices: 22914995--22915033 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
22914985 CGAACAATTT
22914995 TTAAATCTT-TAAAATAA
1 TTAAATCTTATAAAATAA
*
22915012 TTAAATTTTATAAAATAA
1 TTAAATCTTATAAAATAA
22915030 TTAA
1 TTAA
22915034 TAAAAATTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TTAAATCTTATAAAATAA
Found at i:22915077 original size:38 final size:37
Alignment explanation
Indices: 22915005--22915108 Score: 102
Period size: 39 Copynumber: 2.7 Consensus size: 37
22914995 TTAAATCTTT
*** * *
22915005 AAAATAATTAAATTTTATAAAATAATTAATAAAAATTCTA
1 AAAATAATTAAAAAATATAAAATTA-TAA-AAAATTTC-A
*
22915045 AAAAT-ATTATAAAAATATACAAATTATAAAAAATTTCC
1 AAAATAATTA-AAAAATATA-AAATTATAAAAAATTTCA
22915083 AAAATAATTAAAAAATATAAAATTAT
1 AAAATAATTAAAAAATATAAAATTAT
22915109 TATTAAACGA
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
37 7 0.13
38 14 0.25
39 15 0.27
40 14 0.25
41 5 0.09
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (37 bp):
AAAATAATTAAAAAATATAAAATTATAAAAAATTTCA
Found at i:22915078 original size:18 final size:18
Alignment explanation
Indices: 22915050--22915108 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
22915040 TTCTAAAAAT
22915050 ATTAT-AAAAATATACAA
1 ATTATAAAAAATATACAA
* *
22915067 ATTATAAAAAATTTCCAAA
1 ATTATAAAAAATATAC-AA
*
22915086 ATAATTAAAAAATATA-AA
1 ATTA-TAAAAAATATACAA
22915104 ATTAT
1 ATTAT
22915109 TATTAAACGA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
17 6 0.18
18 13 0.39
19 5 0.15
20 9 0.27
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (18 bp):
ATTATAAAAAATATACAA
Found at i:22917995 original size:3 final size:3
Alignment explanation
Indices: 22917987--22918028 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
22917977 GGTATGTCTG
22917987 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
22918029 AGTATTGATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:22918741 original size:44 final size:44
Alignment explanation
Indices: 22918691--22918776 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
22918681 TAATGCAATA
*
22918691 TTTGGTAGTACAAAATTAATTGAAACCTCTAAAAGAGCTAATTG
1 TTTGGTAGTACAAAATTAATTGAAACCTCCAAAAGAGCTAATTG
* *
22918735 TTTGGTAGTACAAAATTAGTTGAAAGCTCCAAAAGAGCTAAT
1 TTTGGTAGTACAAAATTAATTGAAACCTCCAAAAGAGCTAAT
22918777 ATAGCAACAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (44 bp):
TTTGGTAGTACAAAATTAATTGAAACCTCCAAAAGAGCTAATTG
Found at i:22920852 original size:57 final size:57
Alignment explanation
Indices: 22920764--22920877 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
22920754 AAGAAGATGA
22920764 TTTATTAAAACCTCACTAGCAAAAGTTGAGATTAAACCTCTTGTATTTCTAAAAAAT
1 TTTATTAAAACCTCACTAGCAAAAGTTGAGATTAAACCTCTTGTATTTCTAAAAAAT
22920821 TTTATTAAAACCTCACTAGCAAAAGTTGAGATTAAACCTCTTGTATTTCTAAAAAAT
1 TTTATTAAAACCTCACTAGCAAAAGTTGAGATTAAACCTCTTGTATTTCTAAAAAAT
22920878 ATATAAGCCC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (57 bp):
TTTATTAAAACCTCACTAGCAAAAGTTGAGATTAAACCTCTTGTATTTCTAAAAAAT
Found at i:22927628 original size:14 final size:15
Alignment explanation
Indices: 22927596--22927628 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
22927586 CAACTCAATT
22927596 TCATATCAATTAACA
1 TCATATCAATTAACA
22927611 -CATATCAATTAA-A
1 TCATATCAATTAACA
22927624 TCATA
1 TCATA
22927629 CTATTTTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 1 0.06
14 16 0.94
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.33
Consensus pattern (15 bp):
TCATATCAATTAACA
Found at i:22933038 original size:9 final size:8
Alignment explanation
Indices: 22933024--22933072 Score: 55
Period size: 8 Copynumber: 6.0 Consensus size: 8
22933014 TTAGAGTTCT
22933024 TTTATTTC
1 TTTATTTC
22933032 TTCTATTTC
1 TT-TATTTC
22933041 TTTATTTC
1 TTTATTTC
*
22933049 TTTGTTCTC
1 TTTATT-TC
*
22933058 TTTA-TTA
1 TTTATTTC
22933065 TTTATTTC
1 TTTATTTC
22933073 ATAACAGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
7 5 0.15
8 16 0.47
9 13 0.38
ACGTcount: A:0.12, C:0.14, G:0.02, T:0.71
Consensus pattern (8 bp):
TTTATTTC
Found at i:22933046 original size:17 final size:17
Alignment explanation
Indices: 22933020--22933063 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
22933010 AAAGTTAGAG
22933020 TTCT-TTTATTTCTTCTA
1 TTCTCTTTATTTCTT-TA
*
22933037 TT-TCTTTATTTCTTTG
1 TTCTCTTTATTTCTTTA
22933053 TTCTCTTTATT
1 TTCTCTTTATT
22933064 ATTTATTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.09, C:0.16, G:0.02, T:0.73
Consensus pattern (17 bp):
TTCTCTTTATTTCTTTA
Found at i:22933163 original size:20 final size:20
Alignment explanation
Indices: 22933138--22933175 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22933128 CATAAAATTT
22933138 ATTTTAATAATTTTTTAACA
1 ATTTTAATAATTTTTTAACA
* *
22933158 ATTTTATTTATTTTTTAA
1 ATTTTAATAATTTTTTAA
22933176 GATTTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTTAATAATTTTTTAACA
Found at i:22934332 original size:27 final size:27
Alignment explanation
Indices: 22934294--22934346 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
22934284 CTAATGTTGA
22934294 ATGATTGTATGATATCTTTTAAATTGT
1 ATGATTGTATGATATCTTTTAAATTGT
22934321 ATGATTGTATGATATCTTTTAAATTG
1 ATGATTGTATGATATCTTTTAAATTG
22934347 AACTTATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.04, G:0.15, T:0.51
Consensus pattern (27 bp):
ATGATTGTATGATATCTTTTAAATTGT
Found at i:22944894 original size:10 final size:10
Alignment explanation
Indices: 22944867--22944896 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
22944857 AGGGTTTAGG
*
22944867 GTAAAATCAT
1 GTAAAATTAT
22944877 GTAAAATTAT
1 GTAAAATTAT
22944887 GTAAAATTAT
1 GTAAAATTAT
22944897 TAAGTCCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.03, G:0.10, T:0.37
Consensus pattern (10 bp):
GTAAAATTAT
Found at i:22944953 original size:55 final size:55
Alignment explanation
Indices: 22944880--22945060 Score: 353
Period size: 55 Copynumber: 3.3 Consensus size: 55
22944870 AAATCATGTA
22944880 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
22944935 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
*
22944990 AAATTATGTAAAATTATTAAGTTCAAAAATTGTGTTAATGGTTAGTAAAATTATC
1 AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
22945045 AAATTATGTAAAATTA
1 AAATTATGTAAAATTA
22945061 GGTTAAGGTT
Statistics
Matches: 125, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
55 125 1.00
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.39
Consensus pattern (55 bp):
AAATTATGTAAAATTATTAAGTCCAAAAATTGTGTTAATGGTTAGTAAAATTATC
Found at i:22945184 original size:59 final size:58
Alignment explanation
Indices: 22945055--22945214 Score: 250
Period size: 59 Copynumber: 2.7 Consensus size: 58
22945045 AAATTATGTA
* * ** *
22945055 AAATTAGGTTAAGGTTAGGGTTTTTAATTAAATTAGGGTAATGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGGTAGGGTTTTTAATT
22945113 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGCAGT-GGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGG--GTAGGGTTTTTAATT
22945172 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGG
1 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGG
22945215 NNNNNNNNNN
Statistics
Matches: 95, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
58 39 0.41
59 55 0.58
60 1 0.01
ACGTcount: A:0.29, C:0.01, G:0.28, T:0.42
Consensus pattern (58 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGGTAGGGTTTTTAATT
Found at i:22945212 original size:29 final size:29
Alignment explanation
Indices: 22945055--22945214 Score: 250
Period size: 29 Copynumber: 5.5 Consensus size: 29
22945045 AAATTATGTA
*
22945055 AAATTAGGTTAAGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
* **
22945084 AAATTAGGGTAATGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
22945113 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
*
22945142 AAATTAGGTTAGGG-CAGTGGGTTTTTAATT
1 AAATTAGGTTAGGGTTA--GGGTTTTTAATT
22945172 AAATTAGGTTAGGGTTAGGGTTTTTAATT
1 AAATTAGGTTAGGGTTAGGGTTTTTAATT
22945201 AAATTAGGTTAGGG
1 AAATTAGGTTAGGG
22945215 NNNNNNNNNN
Statistics
Matches: 121, Mismatches: 7, Indels: 6
0.90 0.05 0.04
Matches are distributed among these distances:
28 1 0.01
29 93 0.77
30 26 0.21
31 1 0.01
ACGTcount: A:0.29, C:0.01, G:0.28, T:0.42
Consensus pattern (29 bp):
AAATTAGGTTAGGGTTAGGGTTTTTAATT
Found at i:22946699 original size:7 final size:7
Alignment explanation
Indices: 22946689--22946713 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
22946679 TTATATACAT
22946689 AATACTA
1 AATACTA
22946696 AATACTA
1 AATACTA
22946703 AATACTA
1 AATACTA
22946710 AATA
1 AATA
22946714 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:22947688 original size:14 final size:15
Alignment explanation
Indices: 22947671--22947704 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
22947661 AATATTTATC
22947671 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
22947685 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
22947700 TAAAA
1 TAAAA
22947705 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:22947856 original size:32 final size:33
Alignment explanation
Indices: 22947795--22947860 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 33
22947785 GCCATTGATG
22947795 AAAATATAAAAAAAAATTAAAATTATTTTAAAA
1 AAAATATAAAAAAAAATTAAAATTATTTTAAAA
* *
22947828 AAAATAT-AAAAAATA-TAAAATTATTTTTAAA
1 AAAATATAAAAAAAAATTAAAATTATTTTAAAA
22947859 AA
1 AA
22947861 TGAAATTGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 17 0.55
32 7 0.23
33 7 0.23
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (33 bp):
AAAATATAAAAAAAAATTAAAATTATTTTAAAA
Found at i:22947917 original size:29 final size:29
Alignment explanation
Indices: 22947885--22947973 Score: 75
Period size: 29 Copynumber: 3.3 Consensus size: 29
22947875 AATTGAAATT
22947885 AAATATGGATTTGAGAGAATTTTGGAAGG
1 AAATATGGATTTGAGAGAATTTTGGAAGG
* * **
22947914 AAAT-T-GA---GAG-GAA-ATTGAAATT
1 AAATATGGATTTGAGAGAATTTTGGAAGG
*
22947936 AAATATGGGTTTGAGAGAATTTTGGAAGG
1 AAATATGGATTTGAGAGAATTTTGGAAGG
*
22947965 AAATTTGGA
1 AAATATGGA
22947974 AGGAAATTGA
Statistics
Matches: 42, Mismatches: 11, Indels: 14
0.63 0.16 0.21
Matches are distributed among these distances:
22 9 0.21
23 4 0.10
24 4 0.10
27 5 0.12
28 4 0.10
29 16 0.38
ACGTcount: A:0.40, C:0.00, G:0.29, T:0.30
Consensus pattern (29 bp):
AAATATGGATTTGAGAGAATTTTGGAAGG
Found at i:22947918 original size:51 final size:51
Alignment explanation
Indices: 22947862--22947983 Score: 201
Period size: 51 Copynumber: 2.4 Consensus size: 51
22947852 TTTTAAAAAT
*
22947862 GAAATTGAGGGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
*
22947913 GAAATTGAGAGGAAATTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
22947964 GAAATTTG-GAAGGAAATTGA
1 GAAA-TTGAG-AGGAAATTGA
22947984 GAGGATTAGA
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
51 54 0.81
52 13 0.19
ACGTcount: A:0.42, C:0.00, G:0.30, T:0.29
Consensus pattern (51 bp):
GAAATTGAGAGGAAATTGAAATTAAATATGGATTTGAGAGAATTTTGGAAG
Found at i:22947973 original size:12 final size:12
Alignment explanation
Indices: 22947956--22947981 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22947946 TTGAGAGAAT
22947956 TTTGGAAGGAAA
1 TTTGGAAGGAAA
22947968 TTTGGAAGGAAA
1 TTTGGAAGGAAA
22947980 TT
1 TT
22947982 GAGAGGATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.31
Consensus pattern (12 bp):
TTTGGAAGGAAA
Found at i:22961192 original size:9 final size:9
Alignment explanation
Indices: 22961178--22961208 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
22961168 GTTAAACGAA
22961178 TCGAGTTAT
1 TCGAGTTAT
*
22961187 TCGAGTTAA
1 TCGAGTTAT
22961196 TCGAGTTAT
1 TCGAGTTAT
22961205 TCGA
1 TCGA
22961209 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:22968315 original size:24 final size:24
Alignment explanation
Indices: 22968288--22968339 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
22968278 TGAGGAGGAG
22968288 GATACATGAGAGGTGGAGATGGGT
1 GATACATGAGAGGTGGAGATGGGT
*
22968312 GATACATGAGAGGTGGAGGTGGGT
1 GATACATGAGAGGTGGAGATGGGT
22968336 GATA
1 GATA
22968340 AATTGGTGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.04, G:0.46, T:0.21
Consensus pattern (24 bp):
GATACATGAGAGGTGGAGATGGGT
Found at i:22969305 original size:14 final size:14
Alignment explanation
Indices: 22969267--22969309 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
22969257 CAAAATGTAC
22969267 AATATAATTAAA-T
1 AATATAATTAAATT
22969280 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
22969295 AA-ATAATTTAATT
1 AATATAATTAAATT
22969308 AA
1 AA
22969310 CTGATTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:22971224 original size:488 final size:490
Alignment explanation
Indices: 22970250--22971236 Score: 1714
Period size: 488 Copynumber: 2.0 Consensus size: 490
22970240 GAATGCTCCA
22970250 CCCCAAATTGAAATTGAGGATTGAGAAAATAACCTAAGTATATTATAAGAATATCATCAAATAAT
1 CCCCAAATTGAAATTGAGGATTGAGAAAATAACCTAAGTATATTATAAGAATATCATCAAATAAT
* *
22970315 AATAAGCTAAAGCTTAAAATAATAAAATATAAAAATAGTCCTTAATTATATGAAACATTTTATCT
66 AATAAGATAAAGCTTAAAATAATAAAATATAAAAATAATCCTTAATTATATGAAACATTTTATCT
22970380 TACCAGCTGAATGCAAGTCGAAATGCATAAAAGGAATGCATAAAATTTCATCTATTGTCAATAAT
131 TACCAGCTGAATGCAA--CG--ATGC-----AGGAATGCATAAAATTTCATCTATTGTCAATAAT
*
22970445 CTTTTCGTACTTGGTGAAATATCGACAATATTGTTGAATTGCTCCTTTAGCTCTATCAACAGCCT
187 CTTTTCGTACTTGGTGAAAGATCGACAATATTGTTGAATTGCTCCTTTAGCTCTATCAACAGCCT
*
22970510 CATAAATAAAGCCCATTGTTGGTTTTTCATCGCCATCCACAAGTCTCAATACTTTTACTAGGGGC
252 CATAAATAAAGCCCATTGCTGGTTTTTCATCGCCATCCACAAGTCTCAATACTTTTACTAGGGGC
*
22970575 TTGTAAAATTTTATGAGGTCGTTGGCTTTTTTCCAAAAATCTTTTTCCAAAACAATTTTTTTGGC
317 TCGTAAAATTTTATGAGGTCGTTGGCTTTTTTCCAAAAATCTTTTTCCAAAACAATTTTTTTGGC
22970640 TTCATAAGTAGGCCCTGACTTTTGCTGTCCCCATTTTAATTATTTAAATTCCTATATATTCATAA
382 TTCATAAGTAGGCCCTGACTTTTGCTGTCCCCATTTTAATTATTTAAATTCCTATATATTCATAA
22970705 GAAAAAAATTTAAAATAATATAATTTAAATTATTTGGAACTAAT
447 GAAAAAAATTTAAAATAATATAATTTAAATTATTTGGAACTAAT
*
22970749 CCCCAAATTGAAATTGAGGATTGAGAAAATAACCTAAGTATAATTTCTAAGAATATCATCAAATA
1 CCCCAAATTGAAATTGAGGATTGAGAAAATAACCTAAGTAT-A-TTATAAGAATATCATCAAATA
* *
22970814 ATAATAATATAAAGCTTAAAATAATAAAATATAAAAATAATTCTTAATTATATGAAACATTTTAT
64 ATAATAAGATAAAGCTTAAAATAATAAAATATAAAAATAATCCTTAATTATATGAAACATTTTAT
22970879 CTTACCAGCTGAATGCAA-G-T-C-GGAATGCATAAAATTTCATCTATTGTCAATAATCTTTTCG
129 CTTACCAGCTGAATGCAACGATGCAGGAATGCATAAAATTTCATCTATTGTCAATAATCTTTTCG
* * *
22970940 TACTCT-GTGAAAGATTGACAATCTTGTTGAATTGCTCGTTTAGCTCTATCAACAGCCTCATAAA
194 TACT-TGGTGAAAGATCGACAATATTGTTGAATTGCTCCTTTAGCTCTATCAACAGCCTCATAAA
* *
22971004 TAAAGCCCATTGCTGGTTTTTCATTGCTATCCACAAGTCTCAATACTTTTACTAGGGGCTCGTAA
258 TAAAGCCCATTGCTGGTTTTTCATCGCCATCCACAAGTCTCAATACTTTTACTAGGGGCTCGTAA
22971069 AATTTTATGAGGTCGTTGGCTTTTTTCCAAAAATCTTTTTCCAAAACAATTTTTTTGGCTTCATA
323 AATTTTATGAGGTCGTTGGCTTTTTTCCAAAAATCTTTTTCCAAAACAATTTTTTTGGCTTCATA
22971134 AGTAGGCCCTGACTTTTGCTGTCCCCATTTTAATTATTTAAATTCCTATATATTCATAAGAAAAA
388 AGTAGGCCCTGACTTTTGCTGTCCCCATTTTAATTATTTAAATTCCTATATATTCATAAGAAAAA
22971199 AATTTAAAATAATATAATTTAAATTATTTGGAACTAAT
453 AATTTAAAATAATATAATTTAAATTATTTGGAACTAAT
22971237 AAAATCATTA
Statistics
Matches: 472, Mismatches: 13, Indels: 17
0.94 0.03 0.03
Matches are distributed among these distances:
488 327 0.69
489 1 0.00
494 1 0.00
495 1 0.00
498 1 0.00
499 41 0.09
500 1 0.00
501 99 0.21
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (490 bp):
CCCCAAATTGAAATTGAGGATTGAGAAAATAACCTAAGTATATTATAAGAATATCATCAAATAAT
AATAAGATAAAGCTTAAAATAATAAAATATAAAAATAATCCTTAATTATATGAAACATTTTATCT
TACCAGCTGAATGCAACGATGCAGGAATGCATAAAATTTCATCTATTGTCAATAATCTTTTCGTA
CTTGGTGAAAGATCGACAATATTGTTGAATTGCTCCTTTAGCTCTATCAACAGCCTCATAAATAA
AGCCCATTGCTGGTTTTTCATCGCCATCCACAAGTCTCAATACTTTTACTAGGGGCTCGTAAAAT
TTTATGAGGTCGTTGGCTTTTTTCCAAAAATCTTTTTCCAAAACAATTTTTTTGGCTTCATAAGT
AGGCCCTGACTTTTGCTGTCCCCATTTTAATTATTTAAATTCCTATATATTCATAAGAAAAAAAT
TTAAAATAATATAATTTAAATTATTTGGAACTAAT
Found at i:22974306 original size:23 final size:22
Alignment explanation
Indices: 22974263--22974320 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
22974253 AAAGGGTATC
* *
22974263 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
22974284 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
22974307 TGCATATCATATCT
1 TACAAATCATATCT
22974321 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:22975232 original size:45 final size:44
Alignment explanation
Indices: 22974971--22975463 Score: 306
Period size: 45 Copynumber: 11.1 Consensus size: 44
22974961 AGATTCGCTG
* * * * * * *
22974971 TCTTCAGTTTGCTCCACTGTAAATTCTGGGAGATAAGACTTGTA
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTCTA
* * * * * *
22975015 ACTTTAATCCGCTCCACTGCAACCTCAGGGAGATAGGATTAT-TG
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TCTA
* * * *
22975059 GCTTTAGTCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGC--
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT-CTA
* * * * * * * *
22975102 -CAT-GATCTACTCTATTGCAACTTTAGAGAGATAAGATCTACGATTTA
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-T----TCTA
* * * *
22975149 TAGCTTTAATCTGTTCCACCGCAACTTCAGGGAAATAAGATTTGCTA
1 T--CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT-CTA
* * * *
22975196 TCTTCAGTCTGCTCCACTGCAGCTTCAGGAAGATAAGA-CT-TA
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTCTA
* * *
22975238 ACTTCAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCA
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT-CTA
* * * * * *
22975283 TCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAGGACTTACTT
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTTCTA
* *
22975328 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTC-A
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTCTA
* * * *
22975371 -CTTCAATCCGTTCCACTGCAACTTCAAGGAGATAGGATTAT-TGA
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-TCT-A
* * * *
22975415 -CTTTAATTTGCTCCACTGCAAGTTCAGGGAGATAAGATTTGCCA
1 TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT-CTA
22975459 TCTTC
1 TCTTC
22975464 TTCAATCCAT
Statistics
Matches: 340, Mismatches: 84, Indels: 49
0.72 0.18 0.10
Matches are distributed among these distances:
41 26 0.08
42 71 0.21
43 4 0.01
44 101 0.30
45 103 0.30
46 4 0.01
47 3 0.01
50 3 0.01
51 25 0.07
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (44 bp):
TCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTCTA
Found at i:22975274 original size:87 final size:87
Alignment explanation
Indices: 22974980--22975463 Score: 369
Period size: 87 Copynumber: 5.5 Consensus size: 87
22974970 GTCTTCAGTT
* * * * * * * * * *
22974980 TGCTCCACTGTAAATTCTGGGAGATAAGACTTG-TAACTTTAATCCGCTCCACTGCAACCTCAGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTTCA-G
* * *
22975044 GAGATAGGA-TTATTGGCTTTAGTC
65 GAGATAGGACTTA-T-ACTTCAATC
* * * * * *
22975068 TGCTCCACTGTAACTTCAGGGAGATAAGATTTGCCA---TGA-TCTACTCTATTGCAACTTTAGA
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTTCAG-
* *
22975129 GAGATAAGATCTACGATTTATAGCTTTAATC
65 GAGAT-AG------GACTTATA-CTTCAATC
* * * * *
22975160 TGTTCCACCGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAGCTTCAGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTTCAGG
*
22975225 AAGATAAGACTTA-ACTTCAATC
66 -AGATAGGACTTATACTTCAATC
* *
22975247 CGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGG
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTTCA-G
* * *
22975312 GGGATAGGACTTACTTTCTTCAGTC
65 GAGATAGGACTTA--TACTTCAATC
* * * *
22975337 TGCTCCACTGCAACTTCAGGGAGATAAGACTT--CA-CTTCAATCCGTTCCACTGCAACTTCAAG
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTTC-AG
* *
22975399 GAGATAGGA-TTATTGACTTTAATT
65 GAGATAGGACTTA-T-ACTTCAATC
*
22975423 TGCTCCACTGCAAGTTCAGGGAGATAAGATTTGCCATCTTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTC
22975464 TTCAATCCAT
Statistics
Matches: 320, Mismatches: 51, Indels: 49
0.76 0.12 0.12
Matches are distributed among these distances:
84 1 0.00
85 21 0.07
86 42 0.13
87 103 0.32
88 38 0.12
89 10 0.03
90 37 0.12
92 41 0.13
93 3 0.01
95 4 0.01
96 20 0.06
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (87 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTTCAGG
AGATAGGACTTATACTTCAATC
Found at i:22975339 original size:132 final size:132
Alignment explanation
Indices: 22975164--22975409 Score: 375
Period size: 132 Copynumber: 1.9 Consensus size: 132
22975154 TTAATCTGTT
* * *
22975164 CCACCGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAGCTTCAGGAAGA
1 CCACCGCAACTTCAGGGAAATAAGACTTACTATCTTCAGTCTGCTCCACTGCAACTTCAGGAAGA
*
22975229 TAAGACTTAACTTCAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTG
66 TAAGACTTAACTTCAATCCGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTG
22975294 CC
131 CC
* ** * * *
22975296 CCACTGCAACTTCAGGGGGATAGGACTTACTTTCTTCAGTCTGCTCCACTGCAACTTCAGGGAGA
1 CCACCGCAACTTCAGGGAAATAAGACTTACTATCTTCAGTCTGCTCCACTGCAACTTCAGGAAGA
* * *
22975361 TAAGACTTCACTTCAATCCGTTCCACTGCAACTTCAAGGAGATAGGATT
66 TAAGACTTAACTTCAATCCGCTCCACTGCAACTTCAAGGAGATAAGATT
22975410 ATTGACTTTA
Statistics
Matches: 101, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
132 101 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (132 bp):
CCACCGCAACTTCAGGGAAATAAGACTTACTATCTTCAGTCTGCTCCACTGCAACTTCAGGAAGA
TAAGACTTAACTTCAATCCGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTG
CC
Found at i:22981998 original size:11 final size:11
Alignment explanation
Indices: 22981971--22982016 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
22981961 ATTTATCCTT
*
22981971 TCTCAATTATTC
1 TCTCAATT-TCC
22981983 TCTCAATTTCC
1 TCTCAATTTCC
**
22981994 TCTCAATTTGT
1 TCTCAATTTCC
22982005 TCTCAATTTCC
1 TCTCAATTTCC
22982016 T
1 T
22982017 TCCAAATTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
11 21 0.72
12 8 0.28
ACGTcount: A:0.20, C:0.28, G:0.02, T:0.50
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:22982030 original size:22 final size:21
Alignment explanation
Indices: 22981971--22982076 Score: 69
Period size: 22 Copynumber: 5.0 Consensus size: 21
22981961 ATTTATCCTT
22981971 TCTCAATTATTCTCTCAATTTCC
1 TCTCAA-T-TTCTCTCAATTTCC
*
22981994 TCTCAATTTGTTCTCAATTTCC
1 TCTCAATTT-CTCTCAATTTCC
*
22982016 T-TCCAAATTTCTCTCAA-ATCC
1 TCT-C-AATTTCTCTCAATTTCC
* * *
22982037 -AT--ATTTAATCTCAATTTGC
1 TCTCAATTT-CTCTCAATTTCC
22982056 TCTCAATTTCTCTCAAATTTC
1 TCTCAATTTCTCTC-AATTTC
22982077 TCTTAAATCC
Statistics
Matches: 64, Mismatches: 9, Indels: 21
0.68 0.10 0.22
Matches are distributed among these distances:
17 4 0.06
18 6 0.09
19 2 0.03
20 1 0.02
21 11 0.17
22 29 0.45
23 11 0.17
ACGTcount: A:0.25, C:0.27, G:0.02, T:0.46
Consensus pattern (21 bp):
TCTCAATTTCTCTCAATTTCC
Found at i:22982050 original size:51 final size:50
Alignment explanation
Indices: 22981994--22982092 Score: 146
Period size: 50 Copynumber: 2.0 Consensus size: 50
22981984 CTCAATTTCC
*
22981994 TCTCAATTTGTTCTCAATTTC-CTTCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTGCTCTCAATTTCTC-T-CAAATTTCTCTCAAATCCATATTTAA
* *
22982045 TCTCAATTTGCTCTCAATTTCTCTCAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAATTTCTCTCAAATTTCTCTCAAATCCATATTT
22982093 TTAATTATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
50 22 0.50
51 21 0.48
52 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.02, T:0.46
Consensus pattern (50 bp):
TCTCAATTTGCTCTCAATTTCTCTCAAATTTCTCTCAAATCCATATTTAA
Found at i:22982074 original size:11 final size:10
Alignment explanation
Indices: 22981980--22982079 Score: 57
Period size: 11 Copynumber: 9.6 Consensus size: 10
22981970 TTCTCAATTA
22981980 TTCTCTCAAT
1 TTCTCTCAAT
22981990 TTCCTCTCAAT
1 TT-CTCTCAAT
*
22982001 TTGTTCTCAAT
1 TT-CTCTCAAT
22982012 TTC-CTTCCAAAT
1 TTCTC-T-C-AAT
22982024 TTCTCTCAA-
1 TTCTCTCAAT
*
22982033 --ATC-CATAT
1 TTCTCTCA-AT
*
22982041 TTAATCTCAAT
1 TT-CTCTCAAT
22982052 TTGCTCTCAAT
1 TT-CTCTCAAT
22982063 TTCTCTCAAAT
1 TTCTCTC-AAT
22982074 TTCTCT
1 TTCTCT
22982080 TAAATCCCTA
Statistics
Matches: 72, Mismatches: 6, Indels: 23
0.71 0.06 0.23
Matches are distributed among these distances:
6 2 0.03
7 3 0.04
9 1 0.01
10 10 0.14
11 46 0.64
12 9 0.12
13 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.02, T:0.47
Consensus pattern (10 bp):
TTCTCTCAAT
Found at i:22982508 original size:50 final size:50
Alignment explanation
Indices: 22982429--22982536 Score: 173
Period size: 50 Copynumber: 2.2 Consensus size: 50
22982419 GTGGAGACCC
* *
22982429 AAGATG-CACACATTCCATCTTCTATGTGGAGAGTGCACTAACACTTTGG
1 AAGATGTCACACATTCCATCTTCCACGTGGAGAGTGCACTAACACTTTGG
* *
22982478 AAGATGTCGCACATTCCATCTTCCACGTGGAGAGTGCACTATCACTTTGG
1 AAGATGTCACACATTCCATCTTCCACGTGGAGAGTGCACTAACACTTTGG
22982528 AAGATGTCA
1 AAGATGTCA
22982537 ATCTACAATT
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 6 0.11
50 47 0.89
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (50 bp):
AAGATGTCACACATTCCATCTTCCACGTGGAGAGTGCACTAACACTTTGG
Found at i:22983930 original size:18 final size:18
Alignment explanation
Indices: 22983907--22983943 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
22983897 GCCAGGTGCA
* *
22983907 TATCCTAGCCCTTTTATG
1 TATCCTAACCCTTATATG
22983925 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
22983943 T
1 T
22983944 TTCCGTTTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.27, G:0.08, T:0.43
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:22986159 original size:23 final size:22
Alignment explanation
Indices: 22986116--22986173 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
22986106 AAAGGGTATC
* *
22986116 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
22986137 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
22986160 TGCATATCATATCT
1 TACAAATCATATCT
22986174 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:22987981 original size:24 final size:23
Alignment explanation
Indices: 22987933--22987982 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
22987923 GAATTTCATA
*
22987933 TTTTTCTATTGTTTTTGATTGCT
1 TTTTTCTATTGTTTTGGATTGCT
*
22987956 TTTTTCTGTTGTATTTGGACTT-CT
1 TTTTTCTATTGT-TTTGGA-TTGCT
22987980 TTT
1 TTT
22987983 ACTTTTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 11 0.48
24 10 0.43
25 2 0.09
ACGTcount: A:0.08, C:0.10, G:0.14, T:0.68
Consensus pattern (23 bp):
TTTTTCTATTGTTTTGGATTGCT
Found at i:22988958 original size:17 final size:18
Alignment explanation
Indices: 22988926--22988959 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22988916 TATTTAAGTT
22988926 ATTGATTATATTATTTAG
1 ATTGATTATATTATTTAG
*
22988944 ATTGA-TATTTTATTTA
1 ATTGATTATATTATTTA
22988960 TTATTGATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (18 bp):
ATTGATTATATTATTTAG
Found at i:22988965 original size:18 final size:18
Alignment explanation
Indices: 22988924--22988967 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
22988914 GCTATTTAAG
22988924 TTATTGATTATATTATTTA
1 TTATTGA-TATATTATTTA
* *
22988943 -GATTGATATTTTATTTA
1 TTATTGATATATTATTTA
22988960 TTATTGAT
1 TTATTGAT
22988968 TTAGGTTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (18 bp):
TTATTGATATATTATTTA
Found at i:22995323 original size:28 final size:31
Alignment explanation
Indices: 22995265--22995323 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 31
22995255 ATATATAGTT
22995265 TTTATATTATTTATAAAGGTTATAATAATAA
1 TTTATATTATTTATAAAGGTTATAATAATAA
* *
22995296 TTTATA-TA-TTAT-AATGTTATTATAATAA
1 TTTATATTATTTATAAAGGTTATAATAATAA
22995324 AAACAAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 14 0.54
29 4 0.15
30 2 0.08
31 6 0.23
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (31 bp):
TTTATATTATTTATAAAGGTTATAATAATAA
Found at i:22997469 original size:67 final size:67
Alignment explanation
Indices: 22997390--22997523 Score: 214
Period size: 67 Copynumber: 2.0 Consensus size: 67
22997380 GTATTAGCTT
* *
22997390 AATTTGTAAGTATGATTTATGGCCTAATTGGTGTGATGGAATGGTATTGAGATTTGACTTGATTA
1 AATTTGTAAGTATGAATTATGGCCTAATTGGTGTGATGAAATGGTATTGAGATTTGACTTGATTA
22997455 AA
66 AA
** * *
22997457 AATTTGTAAGTATGAATTATGGTTTAATTTGTGTGATGAAATGGTATTGAGATTTGGCTTGATTA
1 AATTTGTAAGTATGAATTATGGCCTAATTGGTGTGATGAAATGGTATTGAGATTTGACTTGATTA
22997522 AA
66 AA
22997524 TAGGTAAAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.31, C:0.03, G:0.25, T:0.42
Consensus pattern (67 bp):
AATTTGTAAGTATGAATTATGGCCTAATTGGTGTGATGAAATGGTATTGAGATTTGACTTGATTA
AA
Found at i:22998363 original size:31 final size:30
Alignment explanation
Indices: 22998288--22998364 Score: 104
Period size: 29 Copynumber: 2.6 Consensus size: 30
22998278 GTAACAAAAC
22998288 GATAACATAAGTGACTAAAATGTAACATTT
1 GATAACATAAGTGACTAAAATGTAACATTT
*
22998318 TA-AACATAAGTGACTAAAATGTAA-ATTT
1 GATAACATAAGTGACTAAAATGTAACATTT
*
22998346 GAGGTAACAAAAGTGACTA
1 GA--TAACATAAGTGACTA
22998365 TTTTTGTAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
28 5 0.12
29 22 0.54
30 1 0.02
31 13 0.32
ACGTcount: A:0.48, C:0.09, G:0.16, T:0.27
Consensus pattern (30 bp):
GATAACATAAGTGACTAAAATGTAACATTT
Found at i:22998539 original size:16 final size:17
Alignment explanation
Indices: 22998514--22998548 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
22998504 ATATAACATT
*
22998514 ATATATTCAAATTATTA
1 ATATATTCAAAATATTA
22998531 ATATA-TCAAAATATTA
1 ATATATTCAAAATATTA
22998547 AT
1 AT
22998549 GATGAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (17 bp):
ATATATTCAAAATATTA
Found at i:22998704 original size:21 final size:21
Alignment explanation
Indices: 22998657--22998696 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
22998647 TGTGAACTCG
*
22998657 ATATTTTCTTTTCTAAAATAA
1 ATATTTTATTTTCTAAAATAA
*
22998678 ATATTTTATTTTTTAAAAT
1 ATATTTTATTTTCTAAAAT
22998697 TACTATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (21 bp):
ATATTTTATTTTCTAAAATAA
Found at i:23003686 original size:17 final size:17
Alignment explanation
Indices: 23003666--23003698 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
23003656 TATATTTTTA
23003666 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
23003683 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
23003699 TATATATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:23003935 original size:40 final size:37
Alignment explanation
Indices: 23003875--23003994 Score: 107
Period size: 40 Copynumber: 3.0 Consensus size: 37
23003865 NNNNNNNNNN
* *
23003875 ATATATTAAATATATATTTTTATTTTTAATCAAATAT
1 ATATATTAAATATTTTTTTTTATTTTTAATCAAATAT
* *
23003912 ACTTTTTATTAAATATTTTTTTTTTGGACTTTTAATCCAAAT-T
1 A---TATATTAAATA-TTTTTTTTT--ATTTTTAAT-CAAATAT
23003955 ATATATTAAATATATATATTTTTTATTTTTAATCAAATAT
1 ATATATTAAATAT-T-T-TTTTTTATTTTTAATCAAATAT
23003995 GGGCCAAATT
Statistics
Matches: 66, Mismatches: 6, Indels: 19
0.73 0.07 0.21
Matches are distributed among these distances:
37 1 0.02
39 6 0.09
40 30 0.45
41 8 0.12
42 6 0.09
43 10 0.15
44 5 0.08
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.56
Consensus pattern (37 bp):
ATATATTAAATATTTTTTTTTATTTTTAATCAAATAT
Found at i:23010532 original size:37 final size:37
Alignment explanation
Indices: 23010482--23010556 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
23010472 ATTTGTTGAG
23010482 TATGACTCCTATTTCAATCAAATTTGAGAAATAATCT
1 TATGACTCCTATTTCAATCAAATTTGAGAAATAATCT
*
23010519 TATGACTCTTATTTCAATCAAATTTGAGAAATAATCT
1 TATGACTCCTATTTCAATCAAATTTGAGAAATAATCT
23010556 T
1 T
23010557 CCAGTTAAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.37, C:0.15, G:0.08, T:0.40
Consensus pattern (37 bp):
TATGACTCCTATTTCAATCAAATTTGAGAAATAATCT
Found at i:23013761 original size:128 final size:129
Alignment explanation
Indices: 23013532--23013824 Score: 552
Period size: 129 Copynumber: 2.3 Consensus size: 129
23013522 GGAAACTAGT
*
23013532 GCTTTAATCTACTCCACTGCAACTTTCAGGGAGATAAGACTAAATACGATCTACTCTCTGCAACT
1 GCTTTAATCTGCTCCACTGCAAC-TTCAGGGAGATAAGACTAAATACGATCTACTCTCTGCAACT
23013597 TCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCAC-TACAACTTCAGGAAGATAGGATTATCG
65 TCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTTACAACTTCAGGAAGATAGGATTATCG
*
23013661 GCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGACTAAATACGATCTACTCTCTGCAACTT
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAAATACGATCTACTCTCTGCAACTT
23013726 CAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTTACAACTTCAGGAAGATAGGATTATCG
66 CAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTTACAACTTCAGGAAGATAGGATTATCG
23013790 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
1 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATA
23013825 TGATTTGCCA
Statistics
Matches: 160, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
128 78 0.49
129 82 0.51
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (129 bp):
GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTAAATACGATCTACTCTCTGCAACTT
CAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTTACAACTTCAGGAAGATAGGATTATCG
Found at i:23013899 original size:174 final size:172
Alignment explanation
Indices: 23013592--23014046 Score: 586
Period size: 172 Copynumber: 2.6 Consensus size: 172
23013582 CTACTCTCTG
* * * * * * * *
23013592 CAACTTCAGAGAGATAAGA-TCCAAGGTTTTAATCCACTCCACTACAACTTCAGGAAGATAGGAT
1 CAACTTCAGCGAGATAGGATTAC-AGGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGAT
* *
23013656 TATCGGC-T-TT-AATCTG-CTCCACTACAACTTCAGG-GAGATAAGACTAAATACGATCTACTC
65 T-T-GCCATCTTCAGTCTGCCT-CACTACAACTTCAGGAG-GATAAGACTAAATACGATCTACTC
23013716 TCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCCACTTA
126 TCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACT-CAC-TA
* *
23013765 CAACTTCAG-GAAGATAGGATTATC-GGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATATGA
1 CAACTTCAGCG-AGATAGGATTA-CAGGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGA
* * * *
23013828 TTTGCCATCTTCAG-CTTGCCTCACTGCAACTTCAGGAGGATAAGACTAGATGCGATCTGCTCTC
64 TTTGCCATCTTCAGTC-TGCCTCACTACAACTTCAGGAGGATAAGACTAAATACGATCTACTCTC
* * *
23013892 TGCAACTTCAGAGAGATAAGATCTAAGGTTTTAATCCTCTCACTG
128 TGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCACTA
23013937 CAACTTCAGCGAGATAGGATTACAGGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
1 CAACTTCAGCGAGATAGGATTACAGGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
23014002 TGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGACT
66 TGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGACT
23014047 TGCCTACTTA
Statistics
Matches: 250, Mismatches: 20, Indels: 25
0.85 0.07 0.08
Matches are distributed among these distances:
171 3 0.01
172 105 0.42
173 59 0.24
174 79 0.32
175 4 0.02
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (172 bp):
CAACTTCAGCGAGATAGGATTACAGGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
TGCCATCTTCAGTCTGCCTCACTACAACTTCAGGAGGATAAGACTAAATACGATCTACTCTCTGC
AACTTCAGAGAGATAAGATCCAAGGTTTTAATCCACTCACTA
Found at i:23013988 original size:44 final size:44
Alignment explanation
Indices: 23013532--23014001 Score: 257
Period size: 44 Copynumber: 10.9 Consensus size: 44
23013522 GGAAACTAGT
*
23013532 GCTTTAATCTACTCCACTGCAACTTTCAGGGAGATAAGACTA-A-
1 GCTTTAATCTACTCCACTGCAAC-TTCAGGGAGATAAGATTACAG
* *** * * *
23013575 -ATACGATCTACT-CTCTGCAACTTCAGAGAGATAAGA-TCCAAG
1 GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTAC-AG
* * * * *
23013617 GTTTTAATCCACTCCACTACAACTTCAGGAAGATAGGATTATC-G
1 GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTA-CAG
* * *
23013661 GCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGACTA-A-
1 GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTACAG
* *** * * *
23013703 -ATACGATCTACT-CTCTGCAACTTCAGAGAGATAAGA-TCCAAG
1 GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTAC-AG
* * * * *
23013745 GTTTTAATCCACTCCACTTACAACTTCAGGAAGATAGGATTATC-G
1 GCTTTAATCTACTCCAC-TGCAACTTCAGGGAGATAAGATTA-CAG
* * *
23013790 GCTTTAATCTGCTCCACTGCAACTTCAGGGAGATATGATT--TG
1 GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTACAG
* * * * * * *
23013832 CCATCTTCAGCTTGC-CTCACTGCAACTTCA-GGAGGATAAGACTAGAT
1 GC-T-TTAATC-TACTC-CACTGCAACTTCAGGGA-GATAAGATTACAG
* * * *
23013879 GC---GATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTA-AG
1 GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGAT-TACAG
* * *
23013919 GTTTTAATC--CTCTCACTGCAACTTCAGCGAGATAGGATTACAG
1 GCTTTAATCTACTC-CACTGCAACTTCAGGGAGATAAGATTACAG
23013962 GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
1 GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
23014002 TGCCATCTTC
Statistics
Matches: 320, Mismatches: 72, Indels: 69
0.69 0.16 0.15
Matches are distributed among these distances:
39 2 0.01
40 56 0.17
41 26 0.08
42 14 0.04
43 50 0.16
44 109 0.34
45 59 0.18
46 2 0.01
47 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (44 bp):
GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTACAG
Found at i:23014033 original size:45 final size:44
Alignment explanation
Indices: 23013973--23014090 Score: 161
Period size: 44 Copynumber: 2.7 Consensus size: 44
23013963 CTTTAATCTA
*
23013973 CTCCACTGCAACTTCAGGGAGATAAGATTTGCC-ATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCTA-CTT-AGTCTG
*
23014018 C-CTCACTACAACTTCA-GGAGGATAAGACTTGCCTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGCCTACTTAGTCTG
23014062 CTCCACTGCAACTTCAGGGAGATAAGACT
1 CTCCACTGCAACTTCAGGGAGATAAGACT
23014091 CGATCTGTTA
Statistics
Matches: 65, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
44 32 0.49
45 32 0.49
46 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCCTACTTAGTCTG
Found at i:23014068 original size:89 final size:88
Alignment explanation
Indices: 23013796--23014088 Score: 298
Period size: 89 Copynumber: 3.4 Consensus size: 88
23013786 ATCGGCTTTA
*
23013796 ATCTGCTCCACTGCAACTTCAGGGAGATATGATTTGCCATCTTCAG-CTTGCCTCACTGCAACTT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTC-TGCCTCACTGCAACTT
* *
23013860 CAGGAGGATAAGACTAG-ATGC-G
65 CAGGAGGATAAGACTTGCATGCTT
* * * **** * *
23013882 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTAAGGT-TTTAATC--CTCTCACTGCAACTT
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGC-CTCACTGCAACTT
* * *
23013943 CAGCGA-GATAGGA-TTACAGGCTTT
65 CAG-GAGGATAAGACTTGCATGC-TT
* *
23013967 AATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTACAACTT
1 -ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTT
* *
23014032 CAGGAGGATAAGACTTGCCTACTT
65 CAGGAGGATAAGACTTGCATGCTT
23014056 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 A-TCTGCTCCACTGCAACTTCAGGGAGATAAGA
23014089 CTCGATCTGT
Statistics
Matches: 161, Mismatches: 32, Indels: 25
0.74 0.15 0.11
Matches are distributed among these distances:
82 2 0.01
83 25 0.16
84 5 0.03
85 25 0.16
86 13 0.08
87 25 0.16
88 8 0.05
89 53 0.33
90 5 0.03
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (88 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTC
AGGAGGATAAGACTTGCATGCTT
Found at i:23014075 original size:44 final size:45
Alignment explanation
Indices: 23013797--23014090 Score: 178
Period size: 45 Copynumber: 6.7 Consensus size: 45
23013787 TCGGCTTTAA
* *
23013797 TCTGCTCCACTGCAACTTCAGGGAGATATGATTTGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
* *
23013842 -CTTGC-CTCACTGCAACTTCA-GGAGGATAAGACTAG--A--TGC-G
1 TC-TGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCCATCTTCAG
* * * * * *
23013882 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTAAG--GT-TTTAA
1 -TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGCCATCTTCAG
* * * * * *
23013926 TC--CTCTCACTGCAACTTCAGCGAGATAGGA-TT-ACAGGCTTTAA
1 TCTGCTC-CACTGCAACTTCAGGGAGATAAGACTTGCCA-TCTTCAG
* *
23013969 TCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
*
23014014 TCTGC-CTCACTACAACTTCA-GGAGGATAAGACTTGCC-TACTT-AG
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCCAT-CTTCAG
23014058 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT
23014091 CGATCTGTTA
Statistics
Matches: 197, Mismatches: 26, Indels: 53
0.71 0.09 0.19
Matches are distributed among these distances:
40 20 0.10
41 12 0.06
42 3 0.02
43 32 0.16
44 60 0.30
45 68 0.35
46 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAG
Found at i:23016126 original size:13 final size:13
Alignment explanation
Indices: 23016110--23016140 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
23016100 ACCCCACATA
23016110 GAGAAAGGCCACG
1 GAGAAAGGCCACG
*
23016123 GAGAAAGGTCACG
1 GAGAAAGGCCACG
23016136 GAGAA
1 GAGAA
23016141 GTCATCACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.16, G:0.39, T:0.03
Consensus pattern (13 bp):
GAGAAAGGCCACG
Found at i:23027926 original size:12 final size:12
Alignment explanation
Indices: 23027909--23027933 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23027899 GGTGTTCATT
23027909 CGGTTAACCGAC
1 CGGTTAACCGAC
23027921 CGGTTAACCGAC
1 CGGTTAACCGAC
23027933 C
1 C
23027934 CGAAATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:23028108 original size:9 final size:9
Alignment explanation
Indices: 23028094--23028119 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
23028084 TTTGGTTAAA
23028094 AATTACCCG
1 AATTACCCG
23028103 AATTACCCG
1 AATTACCCG
23028112 AATTACCC
1 AATTACCC
23028120 NNNNNNNNNN
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.35, G:0.08, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:23031936 original size:2 final size:2
Alignment explanation
Indices: 23031924--23031956 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
23031914 CAACTGGAGT
*
23031924 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23031957 GTGAGTGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:23037824 original size:20 final size:20
Alignment explanation
Indices: 23037801--23037838 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
23037791 AATATTATGT
*
23037801 TAATTATATATTTTAAATAA
1 TAATTATATATATTAAATAA
23037821 TAATTATATATATTAAAT
1 TAATTATATATATTAAAT
23037839 CACGAATCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATTATATATATTAAATAA
Found at i:23043979 original size:26 final size:26
Alignment explanation
Indices: 23043950--23043999 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
23043940 TAAGTTTGTG
* * *
23043950 TAATTAAATTGTGTATTTATATGTTT
1 TAATTAAATTATATATATATATGTTT
*
23043976 TAATTGAATTATATATATATATGT
1 TAATTAAATTATATATATATATGT
23044000 GTTTGTATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.54
Consensus pattern (26 bp):
TAATTAAATTATATATATATATGTTT
Found at i:23051161 original size:17 final size:17
Alignment explanation
Indices: 23051139--23051172 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
23051129 CACTAACATG
23051139 AAAATGTAATGACAATA
1 AAAATGTAATGACAATA
*
23051156 AAAATGTAATGGCAATA
1 AAAATGTAATGACAATA
23051173 TATACTTATC
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:0.56, C:0.06, G:0.15, T:0.24
Consensus pattern (17 bp):
AAAATGTAATGACAATA
Found at i:23051622 original size:21 final size:21
Alignment explanation
Indices: 23051598--23051651 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
23051588 TTCTCATTTT
* *
23051598 CAACTACTTCTTCTTCTTCAC
1 CAACAACTTCTTCTTCTACAC
*
23051619 CAACAACTTCCTCTTCTACAC
1 CAACAACTTCTTCTTCTACAC
23051640 CAACAACTTCTT
1 CAACAACTTCTT
23051652 TCTCAACAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.26, C:0.39, G:0.00, T:0.35
Consensus pattern (21 bp):
CAACAACTTCTTCTTCTACAC
Found at i:23069306 original size:18 final size:19
Alignment explanation
Indices: 23069283--23069324 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
23069273 TGTTTTTATA
23069283 AAATTTTAATAA-TTATTG
1 AAATTTTAATAATTTATTG
*
23069301 AAATTTTAATAATTTTTTG
1 AAATTTTAATAATTTATTG
23069320 AAATT
1 AAATT
23069325 ATATATATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (19 bp):
AAATTTTAATAATTTATTG
Found at i:23078871 original size:166 final size:165
Alignment explanation
Indices: 23078589--23079084 Score: 749
Period size: 166 Copynumber: 3.0 Consensus size: 165
23078579 CATAACTCAC
* *
23078589 CCCCGTATATTTACCCTGGAAGGCATTCTTAAAATAGTCCCAGATCACTTGTTCAGGTTGGGCAC
1 CCCCGTATATTTACCCTGGAAGGCATTCTTAAAATAGTCCCAGTTCACTTGTTCAGGTTGAGCAC
* * *
23078654 CTTGCTCAGCAGTTAACCACCACTGATAAGCTTCGCTCTGGAGTGGGGACACAACACCCCTCAAT
66 CTTGCTCAACAGTTAACCACCACTGATAAGCTTCGTTCTGGAGTAGGGACACAACACCCCTCAAT
*
23078719 TTCTTAGTAGGAATACAGTTAAGGTCTGTCATAACA
131 TT-TTAGTAGGAGTACAGTTAAGGTCTGTCATAACA
* *
23078755 CCCCGTATATTTACCCTGGAAGGCGTTTTTAAAATAGTCCCAGTTCACTTGTTCAGGTTGAGCAC
1 CCCCGTATATTTACCCTGGAAGGCATTCTTAAAATAGTCCCAGTTCACTTGTTCAGGTTGAGCAC
* * * * *
23078820 CTTGCTCAACAGTTAACCACCACTGATAAGCTTTGTTTTAGAATAGGGACACAACAGCCCTCAAT
66 CTTGCTCAACAGTTAACCACCACTGATAAGCTTCGTTCTGGAGTAGGGACACAACACCCCTCAAT
* **
23078885 TTTCGAGTAGGAGTACAGTTAAGGTCTGTTGTAACA
131 TTT-TAGTAGGAGTACAGTTAAGGTCTGTCATAACA
** * * *
23078921 CCATGCATATTTACCCTAGAAGGCATTCTTGAAATAGTCCCAGTTCACTTGTTCAGGTTGAGCAC
1 CCCCGTATATTTACCCTGGAAGGCATTCTTAAAATAGTCCCAGTTCACTTGTTCAGGTTGAGCAC
* * *
23078986 CTTGCTCAACAGTTAACCACCACTGACAAGCTTCGTTCTGGAGTAGGGACAAAACACCCATCAAT
66 CTTGCTCAACAGTTAACCACCACTGATAAGCTTCGTTCTGGAGTAGGGACACAACACCCCTCAAT
23079051 TTTTGAGTAGGAGTACAGTTAAGGTCTGTCATAA
131 TTTT-AGTAGGAGTACAGTTAAGGTCTGTCATAA
23079085 TACGCTCGGT
Statistics
Matches: 294, Mismatches: 34, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
165 1 0.00
166 293 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (165 bp):
CCCCGTATATTTACCCTGGAAGGCATTCTTAAAATAGTCCCAGTTCACTTGTTCAGGTTGAGCAC
CTTGCTCAACAGTTAACCACCACTGATAAGCTTCGTTCTGGAGTAGGGACACAACACCCCTCAAT
TTTTAGTAGGAGTACAGTTAAGGTCTGTCATAACA
Found at i:23097792 original size:19 final size:20
Alignment explanation
Indices: 23097751--23097795 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
23097741 AAAATAAATA
*
23097751 CCAAAATAAAAATAAAAGTT
1 CCAAAACAAAAATAAAAGTT
*
23097771 CCAAAACAAAATTAAAAG-T
1 CCAAAACAAAAATAAAAGTT
23097790 CCAAAA
1 CCAAAA
23097796 GTCCGTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (20 bp):
CCAAAACAAAAATAAAAGTT
Found at i:23098019 original size:26 final size:26
Alignment explanation
Indices: 23097988--23098037 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
23097978 TCAGATCAAA
*
23097988 ATTTTCATATTTTCATAACATATATC
1 ATTTTCATATTTTCAGAACATATATC
*
23098014 ATTTTCATATTTTCAGAACGTATA
1 ATTTTCATATTTTCAGAACATATA
23098038 GCATATCAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.34, C:0.14, G:0.04, T:0.48
Consensus pattern (26 bp):
ATTTTCATATTTTCAGAACATATATC
Found at i:23103768 original size:16 final size:16
Alignment explanation
Indices: 23103747--23103801 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
23103737 AATGCCATTA
23103747 TTCTAAA-TAATAGTTG
1 TTCTAAACT-ATAGTTG
*
23103763 TTCTAAACTTTAGTTG
1 TTCTAAACTATAGTTG
* *
23103779 TTCTTAAC-ATAAGTTA
1 TTCTAAACTAT-AGTTG
23103795 TTCTAAA
1 TTCTAAA
23103802 ATAACAACAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
15 1 0.03
16 30 0.94
17 1 0.03
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (16 bp):
TTCTAAACTATAGTTG
Found at i:23103898 original size:16 final size:16
Alignment explanation
Indices: 23103877--23103918 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
23103867 CATAGTTGTT
*
23103877 TTCTGAACAACAACTG
1 TTCTGAACAACAACTA
*
23103893 TTCTGAGCAACAACTA
1 TTCTGAACAACAACTA
*
23103909 TTCTAAACAA
1 TTCTGAACAA
23103919 GAGTTGTTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.40, C:0.24, G:0.10, T:0.26
Consensus pattern (16 bp):
TTCTGAACAACAACTA
Found at i:23104107 original size:15 final size:15
Alignment explanation
Indices: 23104082--23104124 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
23104072 CCTTCTTGTT
23104082 TTTGCATTCTAAAAAA
1 TTTG-ATTCTAAAAAA
*
23104098 TTTGATTCTAAAAAT
1 TTTGATTCTAAAAAA
*
23104113 TTTAATTC-AAAA
1 TTTGATTCTAAAA
23104125 TTAAGTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 4 0.16
15 17 0.68
16 4 0.16
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (15 bp):
TTTGATTCTAAAAAA
Found at i:23104114 original size:14 final size:16
Alignment explanation
Indices: 23104082--23104111 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
23104072 CCTTCTTGTT
23104082 TTTGCATTCTAAAAAA
1 TTTGCATTCTAAAAAA
23104098 TTTG-ATTCTAAAAA
1 TTTGCATTCTAAAAA
23104112 TTTTAATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (16 bp):
TTTGCATTCTAAAAAA
Found at i:23109665 original size:17 final size:17
Alignment explanation
Indices: 23109631--23109674 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
23109621 ATGCTAATGT
*
23109631 TGGCCCAAACGCCTGTG
1 TGGCCCACACGCCTGTG
23109648 TGGCCCACACG-CTCGTG
1 TGGCCCACACGCCT-GTG
*
23109665 TGACCCACAC
1 TGGCCCACAC
23109675 ACCCAACTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 2 0.08
17 22 0.92
ACGTcount: A:0.18, C:0.41, G:0.25, T:0.16
Consensus pattern (17 bp):
TGGCCCACACGCCTGTG
Found at i:23112036 original size:39 final size:39
Alignment explanation
Indices: 23111993--23112228 Score: 256
Period size: 39 Copynumber: 6.1 Consensus size: 39
23111983 TTAAATTATG
** *
23111993 AATGTTATGTGATTATACGAGTATTGCAATATATGCTTT
1 AATGTTATGTGATTATACGAGTATTGTGATATATGCTTA
* *
23112032 AATGTTATGTGATTATACGAGTATTGTAATATATTCTTA
1 AATGTTATGTGATTATACGAGTATTGTGATATATGCTTA
* ** * *
23112071 AATATTATGTGATTATATAAGTATTGTGTTATATGCTTG
1 AATGTTATGTGATTATACGAGTATTGTGATATATGCTTA
* * * *
23112110 AATGTTATGAGATTCTACAAGTATTGCGATATATGCTTA
1 AATGTTATGTGATTATACGAGTATTGTGATATATGCTTA
** ** *
23112149 AATGTTATGTGATTATTTGAACATTGTGATATATGCTTG
1 AATGTTATGTGATTATACGAGTATTGTGATATATGCTTA
* * * * *
23112188 TATGTTAGGTGATTATATGAGTACTATGATATATGCTTA
1 AATGTTATGTGATTATACGAGTATTGTGATATATGCTTA
23112227 AA
1 AA
23112229 AGTGAATATG
Statistics
Matches: 162, Mismatches: 35, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 162 1.00
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (39 bp):
AATGTTATGTGATTATACGAGTATTGTGATATATGCTTA
Found at i:23112200 original size:117 final size:117
Alignment explanation
Indices: 23111991--23112225 Score: 299
Period size: 117 Copynumber: 2.0 Consensus size: 117
23111981 TCTTAAATTA
* * * **
23111991 TGAATGTTATGTGATTATACGAGTATTGCAATATATGCTTTAATGTTATGTGATTATACGAGTAT
1 TGAATGTTATGAGATTATACAAGTATTGCAATATATGCTTAAATGTTATGTGATTATACGAACAT
* * * * *
23112056 TGTAATATATTCTTAAATATTATGTGATTATATAAGTATTGTGTTATATGCT
66 TGTAATATATGCTTAAATATTAGGTGATTATATAAGTACTATGATATATGCT
* * **
23112108 TGAATGTTATGAGATTCTACAAGTATTGCGATATATGCTTAAATGTTATGTGATTATTTGAACAT
1 TGAATGTTATGAGATTATACAAGTATTGCAATATATGCTTAAATGTTATGTGATTATACGAACAT
* ** * *
23112173 TGTGATATATGCTTGTATGTTAGGTGATTATATGAGTACTATGATATATGCT
66 TGTAATATATGCTTAAATATTAGGTGATTATATAAGTACTATGATATATGCT
23112225 T
1 T
23112226 AAAAGTGAAT
Statistics
Matches: 99, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
117 99 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.45
Consensus pattern (117 bp):
TGAATGTTATGAGATTATACAAGTATTGCAATATATGCTTAAATGTTATGTGATTATACGAACAT
TGTAATATATGCTTAAATATTAGGTGATTATATAAGTACTATGATATATGCT
Found at i:23116483 original size:27 final size:21
Alignment explanation
Indices: 23116428--23116472 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
23116418 TGAGTCAAAA
23116428 GTATGAATTTAAAATGTTCAT
1 GTATGAATTTAAAATGTTCAT
23116449 GTATGAATTTAAAATGTTCAT
1 GTATGAATTTAAAATGTTCAT
23116470 GTA
1 GTA
23116473 GTTATAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.16, T:0.42
Consensus pattern (21 bp):
GTATGAATTTAAAATGTTCAT
Found at i:23116723 original size:28 final size:29
Alignment explanation
Indices: 23116691--23116760 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 29
23116681 GTGTTATATG
* *
23116691 TATAATATATATGTGT-GGTTTTGCTATA
1 TATAATATATATATGTGGGTTTTACTATA
*
23116719 TATAATATATATATGTGGGTTTTATTATA
1 TATAATATATATATGTGGGTTTTACTATA
23116748 TATAATATATATA
1 TATAATATATATA
23116761 CGTTTATAGG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
28 15 0.39
29 23 0.61
ACGTcount: A:0.36, C:0.01, G:0.13, T:0.50
Consensus pattern (29 bp):
TATAATATATATATGTGGGTTTTACTATA
Found at i:23117666 original size:21 final size:21
Alignment explanation
Indices: 23117642--23117683 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
23117632 TGAGTCAAAA
*
23117642 GTATGAATTTGAAATGTTCAT
1 GTATGAATTTAAAATGTTCAT
23117663 GTATGAATTTAAAATGTTCAT
1 GTATGAATTTAAAATGTTCAT
23117684 ATAAGAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.43
Consensus pattern (21 bp):
GTATGAATTTAAAATGTTCAT
Found at i:23117691 original size:21 final size:21
Alignment explanation
Indices: 23117646--23117691 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
23117636 TCAAAAGTAT
* * *
23117646 GAATTTGAAATGTTCATGTAT
1 GAATTTAAAATGTTCATATAA
23117667 GAATTTAAAATGTTCATATAA
1 GAATTTAAAATGTTCATATAA
23117688 GAAT
1 GAAT
23117692 AAAATAGGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.04, G:0.15, T:0.39
Consensus pattern (21 bp):
GAATTTAAAATGTTCATATAA
Found at i:23117696 original size:19 final size:20
Alignment explanation
Indices: 23117653--23117696 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
23117643 TATGAATTTG
* *
23117653 AAATGTTCATGTATGAATTTA
1 AAATGTTCATATAAGAA-TTA
23117674 AAATGTTCATATAAGAA-TA
1 AAATGTTCATATAAGAATTA
23117693 AAAT
1 AAAT
23117697 AGGTAGGTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 6 0.29
21 15 0.71
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (20 bp):
AAATGTTCATATAAGAATTA
Found at i:23117877 original size:73 final size:73
Alignment explanation
Indices: 23117767--23117912 Score: 267
Period size: 73 Copynumber: 2.0 Consensus size: 73
23117757 TAATTATTGT
*
23117767 GTGCATTTAATCATGCATATTGTTCCTAATACACAGGCTAAGATAACATATGCGAAACCCTACTT
1 GTGCATTAAATCATGCATATTGTTCCTAATACACAGGCTAAGATAACATATGCGAAACCCTACTT
23117832 AATTAATA
66 AATTAATA
23117840 GTGCATCTAAATCATGCATA-TGTTCCTAATACACAGGCTAAGATAACATATGCGAAACCCTACT
1 GTGCAT-TAAATCATGCATATTGTTCCTAATACACAGGCTAAGATAACATATGCGAAACCCTACT
23117904 TAATTAATA
65 TAATTAATA
23117913 TTTTAACCTT
Statistics
Matches: 71, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
73 59 0.83
74 12 0.17
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (73 bp):
GTGCATTAAATCATGCATATTGTTCCTAATACACAGGCTAAGATAACATATGCGAAACCCTACTT
AATTAATA
Found at i:23120024 original size:284 final size:285
Alignment explanation
Indices: 23119503--23120071 Score: 1077
Period size: 284 Copynumber: 2.0 Consensus size: 285
23119493 ATATTTTAAC
23119503 CTTGATTTCTCCTAGTGCAAACTAGTACAATTTTGTTGAGTGTTGCGTATACATTCTGTTCGATT
1 CTTGATTTCTCCTAGTGCAAACTAGTACAATTTTGTTGAGTGTTGCGTATACATTCTGTTCGATT
23119568 TTAATGAGTCAAAAGTATGAATTTAAAATGTTCATGTAGTTATAATAATAAAATAGGTAGGTCGT
66 TTAATGAGTCAAAAGTATGAATTTAAAATGTTCATGTAGTTATAATAATAAAATAGGTAGGTCGT
23119633 AGCTGTAAACCATGTAGTTGACGTGATAAGTGTGTTTGAATTGTGCATCTAATTATTGTGTGTAT
131 AGCTGTAAACCATGTAGTTGACGTGATAAGTGTGTTTGAATTGTGCATCTAATTATTGTGTGTAT
* * * *
23119698 ATATATAATAGATATGCATAAGAGTTTTGTTATTTATATATAAGACATATGGATTTTGGTGTTAT
196 ATATATAATAGATACGCATAAGAGTTTTGTTATTTATATATAACACATACGGATTTTGGTGTAAT
23119763 ATATATAATATATATATGAGTGGGG
261 ATATATAATATATATATGAGTGGGG
23119788 CTTGATTTCT-CTAGTGCAAACTAGTACAATTTTGTTGAGTGTTGCGTATACATTCTGTTCGATT
1 CTTGATTTCTCCTAGTGCAAACTAGTACAATTTTGTTGAGTGTTGCGTATACATTCTGTTCGATT
23119852 TTAATGAGTCAAAAGTATGAATTTAAAATGTTCATGTAGTTATAATAATAAAATAGGTAGGTCGT
66 TTAATGAGTCAAAAGTATGAATTTAAAATGTTCATGTAGTTATAATAATAAAATAGGTAGGTCGT
23119917 AGCTGTAAACCATGTAGTTGACGTGATAAGTGTGTTTGAATTGTGCATCTAATTATTGTGTGTAT
131 AGCTGTAAACCATGTAGTTGACGTGATAAGTGTGTTTGAATTGTGCATCTAATTATTGTGTGTAT
* *
23119982 ATATATAATAGATACGCATAAGAGTTTTGTTATTTATATATAACACATACGGGTTTTTGTGTAAT
196 ATATATAATAGATACGCATAAGAGTTTTGTTATTTATATATAACACATACGGATTTTGGTGTAAT
23120047 ATATATAATATATATATGAGTGGGG
261 ATATATAATATATATATGAGTGGGG
23120072 TTTATAACAT
Statistics
Matches: 278, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
284 268 0.96
285 10 0.04
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (285 bp):
CTTGATTTCTCCTAGTGCAAACTAGTACAATTTTGTTGAGTGTTGCGTATACATTCTGTTCGATT
TTAATGAGTCAAAAGTATGAATTTAAAATGTTCATGTAGTTATAATAATAAAATAGGTAGGTCGT
AGCTGTAAACCATGTAGTTGACGTGATAAGTGTGTTTGAATTGTGCATCTAATTATTGTGTGTAT
ATATATAATAGATACGCATAAGAGTTTTGTTATTTATATATAACACATACGGATTTTGGTGTAAT
ATATATAATATATATATGAGTGGGG
Found at i:23120585 original size:18 final size:18
Alignment explanation
Indices: 23120564--23120603 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
23120554 ATTTGGTGAT
*
23120564 CTGTACTAATATGGCAAA
1 CTGTACTAATATGCCAAA
* *
23120582 CTGTATTAATTTGCCAAA
1 CTGTACTAATATGCCAAA
23120600 CTGT
1 CTGT
23120604 GTATTGTGAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (18 bp):
CTGTACTAATATGCCAAA
Found at i:23121208 original size:21 final size:21
Alignment explanation
Indices: 23121183--23121227 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
23121173 TGAGTTAAAA
23121183 GTATGAATTTAAAATGA-TCAT
1 GTATGAATTTAAAAT-ATTCAT
23121204 GTATGAATTTAAAATATTCAT
1 GTATGAATTTAAAATATTCAT
23121225 GTA
1 GTA
23121228 GTTATAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.42, C:0.04, G:0.13, T:0.40
Consensus pattern (21 bp):
GTATGAATTTAAAATATTCAT
Found at i:23121783 original size:29 final size:30
Alignment explanation
Indices: 23121718--23121783 Score: 100
Period size: 29 Copynumber: 2.2 Consensus size: 30
23121708 TATATGTATA
*
23121718 ATATATATGTGTGGTTTTTCTATATATAAT
1 ATATATATGTGTGGTTTTTCTATATAGAAT
23121748 ATATATATGTG-GGTTTTAT-TATATAGAAT
1 ATATATATGTGTGGTTTT-TCTATATAGAAT
23121777 ATATATA
1 ATATATA
23121784 CGTTTATAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 22 0.65
30 12 0.35
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.50
Consensus pattern (30 bp):
ATATATATGTGTGGTTTTTCTATATAGAAT
Found at i:23124200 original size:25 final size:25
Alignment explanation
Indices: 23124172--23124242 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
23124162 AAGCTCTTTT
* *
23124172 GAGCTAAATAATGATAAGCTCCTCC
1 GAGCTGAATAACGATAAGCTCCTCC
*
23124197 GAGCTGAATAACGGTAAGCTCCTCC
1 GAGCTGAATAACGATAAGCTCCTCC
* * *
23124222 AAGCTGAATAGCGGTAAGCTC
1 GAGCTGAATAACGATAAGCTC
23124243 ATATGAGCTG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.21
Consensus pattern (25 bp):
GAGCTGAATAACGATAAGCTCCTCC
Found at i:23124251 original size:25 final size:25
Alignment explanation
Indices: 23124172--23124253 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
23124162 AAGCTCTTTT
* * * * *
23124172 GAGCTAAATAATGATAAGCTCCTCC
1 GAGCTGAATAACGGTAAGCTCATAC
* *
23124197 GAGCTGAATAACGGTAAGCTCCTCC
1 GAGCTGAATAACGGTAAGCTCATAC
* * *
23124222 AAGCTGAATAGCGGTAAGCTCATAT
1 GAGCTGAATAACGGTAAGCTCATAC
23124247 GAGCTGA
1 GAGCTGA
23124254 GTATTGGTAA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (25 bp):
GAGCTGAATAACGGTAAGCTCATAC
Found at i:23125919 original size:17 final size:17
Alignment explanation
Indices: 23125812--23125919 Score: 90
Period size: 17 Copynumber: 6.4 Consensus size: 17
23125802 ATGATAGAGC
*
23125812 ATGAACTGTTATTTTGC
1 ATGAACTGTTATTTTGT
* *
23125829 ATGAATTGTTATTTGGT
1 ATGAACTGTTATTTTGT
* *
23125846 ATGAACTGATATTTTAT
1 ATGAACTGTTATTTTGT
* * * *
23125863 ATGAATTATTTTTTTGC
1 ATGAACTGTTATTTTGT
* * *
23125880 ATGAGCTGTCATTTGGT
1 ATGAACTGTTATTTTGT
* *
23125897 AAGAACTGTTATTTTAT
1 ATGAACTGTTATTTTGT
23125914 ATGAAC
1 ATGAAC
23125920 AAATGTTTTA
Statistics
Matches: 65, Mismatches: 26, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 65 1.00
ACGTcount: A:0.28, C:0.07, G:0.18, T:0.47
Consensus pattern (17 bp):
ATGAACTGTTATTTTGT
Found at i:23131861 original size:6 final size:6
Alignment explanation
Indices: 23131850--23131884 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
23131840 TTGAATGGTT
23131850 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTC
1 TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTTC
23131885 TTGTATATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTCA
Found at i:23132585 original size:29 final size:29
Alignment explanation
Indices: 23132530--23132585 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 29
23132520 AAAAAAGCCC
*
23132530 TTTTTTAAAAATTTTCCGAAATAGGCCGG
1 TTTTTTAAAAATTTACCGAAATAGGCCGG
** * *
23132559 TTTTTTAATTATTTACCGGAATGGGCC
1 TTTTTTAAAAATTTACCGAAATAGGCC
23132586 ATTTTCGCTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 22 1.00
ACGTcount: A:0.27, C:0.14, G:0.18, T:0.41
Consensus pattern (29 bp):
TTTTTTAAAAATTTACCGAAATAGGCCGG
Found at i:23132739 original size:22 final size:22
Alignment explanation
Indices: 23132714--23132782 Score: 102
Period size: 22 Copynumber: 3.1 Consensus size: 22
23132704 ACAAATCCCA
*
23132714 TCTCAATTTCATTCAAAAATTC
1 TCTCAATTTCCTTCAAAAATTC
*
23132736 TCTCAAATTCCTTCAAAAATTC
1 TCTCAATTTCCTTCAAAAATTC
* *
23132758 TCTTAATTTCCTTCCAAAATTC
1 TCTCAATTTCCTTCAAAAATTC
23132780 TCT
1 TCT
23132783 TAAACTCTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.32, C:0.26, G:0.00, T:0.42
Consensus pattern (22 bp):
TCTCAATTTCCTTCAAAAATTC
Found at i:23132817 original size:21 final size:20
Alignment explanation
Indices: 23132789--23132827 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
23132779 CTCTTAAACT
23132789 CTCAAA-TTCCTTTCAAAATC
1 CTCAAATTTCC-TTCAAAATC
23132809 CTCACAATTTCCTTCAAAA
1 CTCA-AATTTCCTTCAAAA
23132828 AATCTCTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.36, C:0.31, G:0.00, T:0.33
Consensus pattern (20 bp):
CTCAAATTTCCTTCAAAATC
Found at i:23132818 original size:52 final size:52
Alignment explanation
Indices: 23132735--23132834 Score: 139
Period size: 52 Copynumber: 1.9 Consensus size: 52
23132725 TTCAAAAATT
* ** * *
23132735 CTCTCAAATTCCTTCAAAAATTCTCTTAATTTCCTTCCAAAATTCTCTTAAA
1 CTCTCAAATTCCTTCAAAAATCCTCACAATTTCCTTCAAAAAATCTCTTAAA
23132787 CTCTCAAATTCCTTTC-AAAATCCTCACAATTTCCTTCAAAAAATCTCT
1 CTCTCAAATTCC-TTCAAAAATCCTCACAATTTCCTTCAAAAAATCTCT
23132835 CAACTCCATA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
52 39 0.93
53 3 0.07
ACGTcount: A:0.33, C:0.29, G:0.00, T:0.38
Consensus pattern (52 bp):
CTCTCAAATTCCTTCAAAAATCCTCACAATTTCCTTCAAAAAATCTCTTAAA
Found at i:23132909 original size:29 final size:28
Alignment explanation
Indices: 23132871--23132928 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 28
23132861 ATTCAATTTC
23132871 ATTTTTTTAAGAA-AATTTTAAATATTTTT
1 ATTTTTTTAA-AATAATTTTAAA-ATTTTT
23132900 ATTTTTTTAAAATAATTTTAAAATTTTT
1 ATTTTTTTAAAATAATTTTAAAATTTTT
23132928 A
1 A
23132929 ATATTTTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 9 0.32
29 19 0.68
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (28 bp):
ATTTTTTTAAAATAATTTTAAAATTTTT
Done.