Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 88 of 120
Found at i:26273800 original size:44 final size:44
Alignment explanation
Indices: 26273752--26273890 Score: 115
Period size: 44 Copynumber: 3.2 Consensus size: 44
26273742 CAACCGAGAG
26273752 AGGCAAGGTTTGTGTCTTCGATATGCTTCGCTGTCAAGGCAGGA
1 AGGCAAGGTTTGTGTCTTCGATATGCTTCGCTGTCAAGGCAGGA
** * * * * * * *
26273796 AGGCAAAATCTGTTGTCTTCAACCA-GCTCCACT-ACAA-TC-GAGA
1 AGGCAAGGTTTG-TGTCTTCGA-TATGCTTCGCTGTCAAGGCAG-GA
* *
26273839 GAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAAGGCAGGA
1 -AGGCAAGGTTTGTGTCTTCGATATGCTTCGCTGTCAAGGCAGGA
26273884 AGGCAAG
1 AGGCAAG
26273891 ATCTACTATC
Statistics
Matches: 67, Mismatches: 20, Indels: 16
0.65 0.19 0.16
Matches are distributed among these distances:
42 1 0.01
43 17 0.25
44 30 0.45
45 17 0.25
46 2 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (44 bp):
AGGCAAGGTTTGTGTCTTCGATATGCTTCGCTGTCAAGGCAGGA
Found at i:26273977 original size:43 final size:43
Alignment explanation
Indices: 26273928--26274064 Score: 100
Period size: 43 Copynumber: 3.2 Consensus size: 43
26273918 CAACCGATGG
26273928 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCATGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCATGA
* * * * * * * * * *
26273971 AGGCAAGATCTGCTATCTTTAG-CCAGCTCCACTG-CAACTG-ATGG
1 AGGCAAG-GCT-TTGT-TTTCGATCTGCTTCGCTGTTAA-TGCATGA
* *
26274015 AGGCAAGGCTTTGTTTTCTATCTGCTTCGCTGTTAATGCGTGA
1 AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCATGA
*
26274058 ATGCAAG
1 AGGCAAG
26274065 ATCTGCTATC
Statistics
Matches: 64, Mismatches: 23, Indels: 14
0.63 0.23 0.14
Matches are distributed among these distances:
41 3 0.05
42 12 0.19
43 19 0.30
44 14 0.22
45 12 0.19
46 4 0.06
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (43 bp):
AGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGCATGA
Found at i:26273977 original size:87 final size:87
Alignment explanation
Indices: 26273599--26274393 Score: 1030
Period size: 87 Copynumber: 9.0 Consensus size: 87
26273589 CTATCTTCAG
* * * *
26273599 TCTGCTCCGCTGTTAACGCAGGAAGACAAGATCTAC-ATCTTTAACCAGCTCCACTACAATCGAT
1 TCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGAT
*
26273663 GGAGGCAATGCTTTGTTTTCGA
66 GGAGGCAAGGCTTTGTTTTCGA
* * *
26273685 TCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGA-
1 TCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGAT
26273749 GAGAGGCAAGG-TTTGTGTCTTCGA
66 G-GAGGCAAGGCTTTGT-T-TTCGA
* * * * * * * *
26273773 TATGCTTCGCTGTCAAGGCAGGAAGGCAAAATCTGTTGTCTTCAACCAGCTCCACTACAATCGA-
1 TCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGAT
26273837 GAGAGGCAAGG-TTTGTGTCTTCGA
66 G-GAGGCAAGGCTTTGT-T-TTCGA
* * *
26273861 TCTGCTTCGCTGTTAAGGCAGGAAGGCAAGATCTACTATCTTTAACCAGCTCCACTGCAACCGAT
1 TCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGAT
26273926 GGAGGCAAGGCTTTGTTTTCGA
66 GGAGGCAAGGCTTTGTTTTCGA
* * * * *
26273948 TCTGCTTCGCTGTTAATGCATGAAGGCAAGATCTGCTATCTTTAGCCAGCTCCACTGCAACTGAT
1 TCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGAT
*
26274013 GGAGGCAAGGCTTTGTTTTCTA
66 GGAGGCAAGGCTTTGTTTTCGA
* *
26274035 TCTGCTTCGCTGTTAATGC-GTGAATGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGA
1 TCTGCTTCGCTGTTAACGCAG-GAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGA
* **
26274099 TGGAGGGAAAACTTTGTTTTCGA
65 TGGAGGCAAGGCTTTGTTTTCGA
* *
26274122 TCTGCTTCACTGTTAACGCAGGAAGGCAAGATTTGCTATCTTTAACCAGCTCCACTACAACCGAT
1 TCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGAT
*
26274187 GGAGGCAAGACTTTGTTTTCGA
66 GGAGGCAAGGCTTTGTTTTCGA
*
26274209 TCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCT-TCTTTAACCAGCTCCACTGCAACCGAT
1 TCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGAT
26274273 GGAGGCAAGGCTTTGTTTTCGA
66 GGAGGCAAGGCTTTGTTTTCGA
*
26274295 TCTGCTTCGCTGTTAACTTTGCTGTTAACGCAGCAAGGCGAGATCTGCT-TCTTTAACCAGCTCC
1 TCTGCTTCGCTGTTAAC---GC-----A-G--G-AAGGCAAGATCTGCTATCTTTAACCAGCTCC
* *
26274359 ACTGCAACCGATGCAGGCAAGGCTTTGTTTTCGA
54 ACTACAACCGATGGAGGCAAGGCTTTGTTTTCGA
26274393 T
1 T
26274394 GTTCACTGAT
Statistics
Matches: 640, Mismatches: 49, Indels: 28
0.89 0.07 0.04
Matches are distributed among these distances:
86 102 0.16
87 310 0.48
88 154 0.24
89 8 0.01
94 1 0.00
95 1 0.00
97 1 0.00
98 63 0.10
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (87 bp):
TCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTACAACCGAT
GGAGGCAAGGCTTTGTTTTCGA
Found at i:26274386 original size:98 final size:98
Alignment explanation
Indices: 26274217--26274393 Score: 327
Period size: 98 Copynumber: 1.8 Consensus size: 98
26274207 GATCTGCTTC
* *
26274217 GCTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAG
1 GCTGTTAACGCAGCAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGCAGGCAAG
26274282 GCTTTGTTTTCGATCTGCTTCGCTGTTAACTTT
66 GCTTTGTTTTCGATCTGCTTCGCTGTTAACTTT
*
26274315 GCTGTTAACGCAGCAAGGCGAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGCAGGCAAG
1 GCTGTTAACGCAGCAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGCAGGCAAG
26274380 GCTTTGTTTTCGAT
66 GCTTTGTTTTCGAT
26274394 GTTCACTGAT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 76 1.00
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (98 bp):
GCTGTTAACGCAGCAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAACCGATGCAGGCAAG
GCTTTGTTTTCGATCTGCTTCGCTGTTAACTTT
Found at i:26275632 original size:6 final size:6
Alignment explanation
Indices: 26275631--26275666 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
26275621 ACTTTTCATT
26275631 TTTTCA TTTTCA TTTTCA TTTTTCA TCTTTCA TTTT
1 TTTTCA TTTTCA TTTTCA -TTTTCA T-TTTCA TTTT
26275667 TTTGAACTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 16 0.57
7 12 0.43
ACGTcount: A:0.14, C:0.17, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTTCA
Found at i:26275638 original size:20 final size:20
Alignment explanation
Indices: 26275623--26275666 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
26275613 TCCATTTTAC
26275623 TTTTCATTTTTTCATTTTCA
1 TTTTCATTTTTTCATTTTCA
26275643 TTTTCA-TTTTTCATCTTTCA
1 TTTTCATTTTTTCAT-TTTCA
26275663 TTTT
1 TTTT
26275667 TTTGAACTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.14, C:0.16, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTCATTTTTTCATTTTCA
Found at i:26275640 original size:7 final size:7
Alignment explanation
Indices: 26275623--26275667 Score: 58
Period size: 7 Copynumber: 6.6 Consensus size: 7
26275613 TCCATTTTAC
26275623 TTTTCATT
1 TTTTCA-T
26275631 TTTTCA-
1 TTTTCAT
26275637 TTTTCA-
1 TTTTCAT
26275643 TTTTCAT
1 TTTTCAT
26275650 TTTTCAT
1 TTTTCAT
*
26275657 CTTTCAT
1 TTTTCAT
26275664 TTTT
1 TTTT
26275668 TTGAACTTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
6 12 0.35
7 16 0.47
8 6 0.18
ACGTcount: A:0.13, C:0.16, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTCAT
Found at i:26276084 original size:49 final size:49
Alignment explanation
Indices: 26276024--26276122 Score: 135
Period size: 49 Copynumber: 2.0 Consensus size: 49
26276014 TTGCGTTTCA
* * **
26276024 TATTTTTATTTTGACTTTGATTGATTTCTCTTTTTCTTTTTGTTTTTTT
1 TATTTTGATTTTGACTTTGATTGATTTCTCTTTTTATTTTCCTTTTTTT
* **
26276073 TATTTTGATTTTGATTTTGATTTTTTTCTCTTTTTATTTTCCTTTTTTT
1 TATTTTGATTTTGACTTTGATTGATTTCTCTTTTTATTTTCCTTTTTTT
26276122 T
1 T
26276123 CGAATCGGAT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.10, C:0.08, G:0.07, T:0.75
Consensus pattern (49 bp):
TATTTTGATTTTGACTTTGATTGATTTCTCTTTTTATTTTCCTTTTTTT
Found at i:26276105 original size:43 final size:43
Alignment explanation
Indices: 26276026--26276112 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 43
26276016 GCGTTTCATA
* *
26276026 TTTTTATTTTGACTTTGATTGATTTCTCTTTTTCTTTTTGTTT
1 TTTTTATTTTGACTTTGATTGATTTCTCTTTCTCTTTTTATTT
*
26276069 TTTTTATTTTGATTTTGATTTTGATTT-T-TTTCTCTTTTTATTT
1 TTTTTATTTTGACTTTGA--TTGATTTCTCTTTCTCTTTTTATTT
26276112 T
1 T
26276113 CCTTTTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
43 31 0.79
44 1 0.03
45 7 0.18
ACGTcount: A:0.10, C:0.07, G:0.08, T:0.75
Consensus pattern (43 bp):
TTTTTATTTTGACTTTGATTGATTTCTCTTTCTCTTTTTATTT
Found at i:26280330 original size:110 final size:112
Alignment explanation
Indices: 26280077--26280395 Score: 552
Period size: 110 Copynumber: 2.9 Consensus size: 112
26280067 GAAATTCGAG
* * *
26280077 AGGATATTTGGCTATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
*
26280142 GAATTTCCCAAATGCAAAACATTGCCTTATTTCGAAAATTTTTTAAA
66 GAATTTCCCAAACGCAAAACATTGCCTTATTTCGAAAATTTTTTAAA
*
26280189 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTCTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
26280254 GAATTTCCCAAACGCAAAACATTGCCTTATTT-GAAAA-TTTTTAAA
66 GAATTTCCCAAACGCAAAACATTGCCTTATTTCGAAAATTTTTTAAA
*
26280299 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
* *
26280364 GAATTTCCCAAACGCGAAATATTGCCTTATTT
66 GAATTTCCCAAACGCAAAACATTGCCTTATTT
26280396 AGGAAAAGTT
Statistics
Matches: 198, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
110 101 0.51
111 5 0.03
112 92 0.46
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (112 bp):
AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
GAATTTCCCAAACGCAAAACATTGCCTTATTTCGAAAATTTTTTAAA
Found at i:26280995 original size:2 final size:2
Alignment explanation
Indices: 26280988--26281016 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
26280978 AATGTACATT
26280988 TA TA 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 T
26281017 TAGCAAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:26281050 original size:25 final size:26
Alignment explanation
Indices: 26280999--26281060 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 26
26280989 ATATATATAT
*
26280999 ATATATATATATATATATTAGCAAAAC
1 ATATATATATATATATAGTAG-AAAAC
* *
26281026 ATATGTATATATATATGGTAG-AAAC
1 ATATATATATATATATAGTAGAAAAC
*
26281051 GTATATATAT
1 ATATATATAT
26281061 TTAATGTATA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 12 0.40
27 18 0.60
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.39
Consensus pattern (26 bp):
ATATATATATATATATAGTAGAAAAC
Found at i:26283033 original size:86 final size:86
Alignment explanation
Indices: 26282916--26283531 Score: 681
Period size: 88 Copynumber: 7.1 Consensus size: 86
26282906 CTATCTTTAG
*
26282916 TCTGC-TCGGCTGTTAACGCAGGAAGGTAAGATCTGCATCTTTAACCAGCTCCACTGCAACCGAT
1 TCTGCTTC-GCTGTTAACGCAGGAAGGCAAGATCTGCATCTTTAACCAGCTCCACTGCAACCGAT
*
26282980 GGAGGCAAGGCTTTATTTTCGA
65 GGAGGCAAGGCTTTGTTTTCGA
** * *
26283002 TCTGCTTCATTGTTAACGCAGGAAGGCAAGATCTGCTTCTTTAACCAGCTCCACTGCAATCGATG
1 TCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCATCTTTAACCAGCTCCACTGCAACCGATG
*
26283067 GAGGCAAGGCTTTGTTTTCGT
66 GAGGCAAGGCTTTGTTTTCGA
* **
26283088 TCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGC-TGTTTTCAACCAGCTCCACTATAACC-A
1 TCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCAT-CTTT-AACCAGCTCCACTGCAACCGA
*
26283151 AGAGAGGCAAGG-TTTGTGTCTTCGA
64 TG-GAGGCAAGGCTTTGT-T-TTCGA
* * * * ** * *
26283176 TCTGCTTCACTGTCAAGGCAGGAAGACAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGA-
1 TCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTG-CATCTTTAACCAGCTCCACTGCAACCGAT
26283240 GAGAGGCAAGG-TTTGTGTCTTCGA
65 G-GAGGCAAGGCTTTGT-T-TTCGA
* * * * ** * *
26283264 TATGCTTCGCTGTCAAGGCAGGAAGGAAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGA-
1 TCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTG-CATCTTTAACCAGCTCCACTGCAACCGAT
26283328 GAGAGGCAAGG-TTTGTGTCTTCGA
65 G-GAGGCAAGGCTTTGT-T-TTCGA
* * * * * * *
26283352 TCTGCTTCGCTGTCAAGGCAGGAAGGCAAAATCTACTATCTTTAACTAACTCCACTGCAATCGAT
1 TCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGC-ATCTTTAACCAGCTCCACTGCAACCGAT
**
26283417 GGAGGCAATTCTTTGTTTTCGA
65 GGAGGCAAGGCTTTGTTTTCGA
* * *
26283439 TCTACTTCGCTGTTAATGCATGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGAT
1 TCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGC-ATCTTTAACCAGCTCCACTGCAACCGAT
26283504 GGAGGCAAGGCTTTGTTTTCGA
65 GGAGGCAAGGCTTTGTTTTCGA
26283526 TCTGCT
1 TCTGCT
26283532 NNNNNNNNNN
Statistics
Matches: 466, Mismatches: 52, Indels: 23
0.86 0.10 0.04
Matches are distributed among these distances:
85 1 0.00
86 120 0.26
87 114 0.24
88 221 0.47
89 9 0.02
90 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (86 bp):
TCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCATCTTTAACCAGCTCCACTGCAACCGATG
GAGGCAAGGCTTTGTTTTCGA
Found at i:26283161 original size:44 final size:43
Alignment explanation
Indices: 26283111--26283349 Score: 142
Period size: 44 Copynumber: 5.4 Consensus size: 43
26283101 TAACGCAGGA
*
26283111 AGGCAAGATCTGCTGTTTTCAACCAGCTCCACTATAACCAAGAG
1 AGGCAAGATCTG-TGTCTTCAACCAGCTCCACTATAACCAAGAG
* * * * * * * * *
26283155 AGGCAAGGTTTGTGTCTTCGATCTGCTTCACTGTCAAGGCAGGA-
1 AGGCAAGATCTGTGTCTTCAACCAGCTCCACTAT-AA-CCAAGAG
* * *
26283199 AGACAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGAGAG
1 AGGCAAGATCTG-TGTCTTCAACCAGCTCCACTATAACCAAGAG
* * * * * * * * *
26283243 AGGCAAGGTTTGTGTCTTCGA-TATGCTTCGCTGTCAAGGCAGGA-
1 AGGCAAGATCTGTGTCTTCAACCA-GCTCCACTAT-AA-CCAAGAG
* * *
26283287 AGGAAAGATCTGTTGTCTTCAACCAGCTCCACTACAACCGAGAG
1 AGGCAAGATCTG-TGTCTTCAACCAGCTCCACTATAACCAAGAG
* *
26283331 AGGCAAGGTTTGTGTCTTC
1 AGGCAAGATCTGTGTCTTC
26283350 GATCTGCTTC
Statistics
Matches: 136, Mismatches: 49, Indels: 21
0.66 0.24 0.10
Matches are distributed among these distances:
42 1 0.01
43 43 0.32
44 54 0.40
45 37 0.27
46 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (43 bp):
AGGCAAGATCTGTGTCTTCAACCAGCTCCACTATAACCAAGAG
Found at i:26287295 original size:124 final size:124
Alignment explanation
Indices: 26287076--26287331 Score: 352
Period size: 124 Copynumber: 2.1 Consensus size: 124
26287066 AAATAGTGGG
** * * * * *
26287076 AAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCGTGGCCTCGGGGACGCGATT
1 AAATCGCTGATACCAAGATGCCATATGAGAAGAAATTGTGAAATCGCGCCCTCGGGGACGCGATT
*
26287141 TCGCTATAGTGGTCATGTAAGAAATAAA-TTTTTTTGACGTTTTCTGAGCAAATAGTATA
66 TCGCTAAAGTGGTCATGTAAGAAATAAATTTTTTTTGACG-TTTCTGAGCAAATAGTATA
*
26287200 AAATCGCTGATACCAAGATGCCATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATT
1 AAATCGCTGATACCAAGATGCCATATGAGAAGAAATTGTGAAATCGCGCCCTCGGGGACGCGATT
* * * * * *
26287265 TCGCTACAATTGGTCATGTAGGAAATAATTTTTTTTTGATGTTTCTGAGCAAATAGTGTC
66 TCGCTA-AAGTGGTCATGTAAGAAATAAATTTTTTTTGACGTTTCTGAGCAAATAGTATA
26287325 AAATCGC
1 AAATCGC
26287332 ACCCTCGTGG
Statistics
Matches: 115, Mismatches: 15, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
124 63 0.55
125 42 0.37
126 10 0.09
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (124 bp):
AAATCGCTGATACCAAGATGCCATATGAGAAGAAATTGTGAAATCGCGCCCTCGGGGACGCGATT
TCGCTAAAGTGGTCATGTAAGAAATAAATTTTTTTTGACGTTTCTGAGCAAATAGTATA
Found at i:26288674 original size:23 final size:23
Alignment explanation
Indices: 26288647--26288963 Score: 238
Period size: 23 Copynumber: 12.4 Consensus size: 23
26288637 TTAGGTTAGG
26288647 GTTAGGGTTTTTAATTAAATTAA
1 GTTAGGGTTTTTAATTAAATTAA
*
26288670 GTTAGGTTAGGATTTTTAATTAAATTAG
1 GTTA-G---GG-TTTTTAATTAAATTAA
26288698 GTTAGGGTTTTTAATTAAATTAAACTA
1 GTTAGGGTTTTTAATTAAATT--A--A
* * *
26288725 GGTTAGAGCTTTTAATTAAGTTAA
1 -GTTAGGGTTTTTAATTAAATTAA
26288749 GTTAGGGTTTTTAATTAAATTAAATTA
1 GTTAGGGTTTTTAATTAAATT--A--A
* *
26288776 GGTTAGGGTTTTTAATTAAGTTAT
1 -GTTAGGGTTTTTAATTAAATTAA
* *
26288800 GTTAGGGGTTTTAATTAACTTAGGTTAGG
1 GTTAGGGTTTTTAATTAA---A--TTA-A
26288829 GTTAGGGTTTTTAATTAAATTAAGTTA
1 GTTAGGGTTTTTAATTAAATT-A---A
* *
26288856 GGTTAGGGTTTTTAATTAAGTTAG
1 -GTTAGGGTTTTTAATTAAATTAA
26288880 GTTAGGGTTTTTAATTAAATTAGGTTA
1 GTTAGGGTTTTTAATTAAATTA----A
*
26288907 GGGTTAGGGTTTTTAATTAAGTTAA
1 --GTTAGGGTTTTTAATTAAATTAA
*
26288932 GTTAGGGTTTTTAATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAA
26288955 GTTAGGGTT
1 GTTAGGGTT
26288964 AGGGTTTTTA
Statistics
Matches: 240, Mismatches: 23, Indels: 62
0.74 0.07 0.19
Matches are distributed among these distances:
23 104 0.43
24 6 0.03
25 4 0.02
26 3 0.01
27 5 0.02
28 80 0.33
29 38 0.16
ACGTcount: A:0.30, C:0.01, G:0.23, T:0.46
Consensus pattern (23 bp):
GTTAGGGTTTTTAATTAAATTAA
Found at i:26288712 original size:51 final size:51
Alignment explanation
Indices: 26288646--26288963 Score: 371
Period size: 51 Copynumber: 6.2 Consensus size: 51
26288636 ATTAGGTTAG
*
26288646 GGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGATTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTAAATTA
** * * *
26288697 GGTTAGGGTTTTTAATTAAATTAAACTAGGTTAGAGCTTTTAATTAAGTTA
1 GGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTAAATTA
* * *
26288748 AGTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTA
1 GGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTAAATTA
* * * *
26288799 TGTTAGGGGTTTTAATTAACTTAGGTTAGGGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTAAGTTA-GGTTAGGGTTTTTAATTAAATTA
*
26288851 AGTTA-GGTTAGGGTTT--TT-AATTAAGTTAGGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTT----TTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTAAATTA
*
26288902 GGTTAGGGTTAGGGTTT--TT-AATTAAGTTAAGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTT----TTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTAAATTA
26288954 GGTTAGGGTT
1 GGTTAGGGTT
26288964 AGGGTTTTTA
Statistics
Matches: 239, Mismatches: 22, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
51 145 0.61
52 89 0.37
53 2 0.01
55 3 0.01
ACGTcount: A:0.30, C:0.01, G:0.23, T:0.46
Consensus pattern (51 bp):
GGTTAGGGTTTTTAATTAAATTAAGTTAGGTTAGGGTTTTTAATTAAATTA
Found at i:26288953 original size:80 final size:79
Alignment explanation
Indices: 26288618--26288980 Score: 372
Period size: 80 Copynumber: 4.6 Consensus size: 79
26288608 TGTGCTGCAG
* * *
26288618 GTTAGGGTTTTTAGGTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAAGTTA-GGTTAGGA
1 GTTAGGGTTTTTA-TTAAATTAAGTTA-GGTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGG
*
26288682 TTTTTAATTAAATTAG
64 TTTTTAATTAAATTAA
** * * *
26288698 GTTAGGGTTTTTAATTAAATTAAACTAGGTTAGAGCTTTTAATTAAGTTAAGTTAGGGTT----T
1 GTTAGGGTTTTT-ATTAAATTAAGTTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGT
*
26288759 TTAATTAAATTAAATTAG
65 TT--TT-AATTAAATTAA
* * * *
26288777 GTTAGGG--TTT-TT-AATTAAGTTATGTTAGGGGTTTTAATTAACTTAGGTTAGGGTTAGGGTT
1 GTTAGGGTTTTTATTAAATTAAGTTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTT
26288838 TTTAATTAAATTAA
66 TTTAATTAAATTAA
*
26288852 GTTA-GGTTAGGGTTT-TT-AATTAAGTTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAG
1 GTTAGGGTT----TTTATTAAATTAAGTTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAG
*
26288914 GGTTTTTAATTAAGTTAA
62 GGTTTTTAATTAAATTAA
* *
26288932 GTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATCAAAT
1 GTTAGGGTTTTT-ATTAAATTAAGTTA-GGTTAGGGTTTTTAATTAAAT
26288981 AATGTCAAAA
Statistics
Matches: 242, Mismatches: 21, Indels: 39
0.80 0.07 0.13
Matches are distributed among these distances:
74 38 0.16
75 16 0.07
76 5 0.02
77 6 0.02
78 5 0.02
79 45 0.19
80 102 0.42
81 25 0.10
ACGTcount: A:0.30, C:0.01, G:0.23, T:0.45
Consensus pattern (79 bp):
GTTAGGGTTTTTATTAAATTAAGTTAGGTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTT
TTTAATTAAATTAA
Found at i:26291134 original size:22 final size:21
Alignment explanation
Indices: 26291106--26291152 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
26291096 TTTTATAACA
*
26291106 AAAAATAAATTAATAAATATCT
1 AAAAATAAATAAATAAA-ATCT
* *
26291128 AAAAATATATAAATAAAATTT
1 AAAAATAAATAAATAAAATCT
26291149 AAAA
1 AAAA
26291153 TTTAAATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAATAAATAAATAAAATCT
Found at i:26291388 original size:28 final size:30
Alignment explanation
Indices: 26291355--26291411 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 30
26291345 TTGAAGGAAA
*
26291355 TTGAGAGGATTTTGGAAGG-A-TTGAGAGT
1 TTGAGAGAATTTTGGAAGGAATTTGAGAGT
26291383 TTGAGAGAATTTTGGAAGGAATTTGAGAG
1 TTGAGAGAATTTTGGAAGGAATTTGAGAG
26291412 AATTTTTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.69
29 1 0.04
30 7 0.27
ACGTcount: A:0.32, C:0.00, G:0.37, T:0.32
Consensus pattern (30 bp):
TTGAGAGAATTTTGGAAGGAATTTGAGAGT
Found at i:26291401 original size:50 final size:51
Alignment explanation
Indices: 26291333--26291433 Score: 134
Period size: 50 Copynumber: 2.0 Consensus size: 51
26291323 TTAATATGGA
* * *
26291333 TTTGGAGATTTTTTGAAGGAAATTGAGAGGATTTTGGAA-GG-ATTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAACGGAATTGAGAG
* *
26291382 TTTGAGAGAATTTTGGAAGGAATTTGAGAGAATTTTTGAACGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAACGGAATTGAGAG
26291434 AATTTTTGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
49 4 0.09
50 30 0.68
51 2 0.05
52 8 0.18
ACGTcount: A:0.33, C:0.01, G:0.33, T:0.34
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAACGGAATTGAGAG
Found at i:26291452 original size:22 final size:20
Alignment explanation
Indices: 26291383--26291446 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 20
26291373 GATTGAGAGT
26291383 TTGAGAGAATTTTGGAAGGAA
1 TTGAGAGAATTTTGGAAGG-A
*
26291404 TTTGAGAGAATTTTTGAACGGAA
1 -TTGAGAGAATTTTGGAA-GG-A
*
26291427 TTGAGAGAATTTTTGAAGGA
1 TTGAGAGAATTTTGGAAGGA
26291447 AATTGATATT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
20 1 0.03
21 2 0.05
22 33 0.82
23 4 0.10
ACGTcount: A:0.36, C:0.02, G:0.30, T:0.33
Consensus pattern (20 bp):
TTGAGAGAATTTTGGAAGGA
Found at i:26292532 original size:21 final size:21
Alignment explanation
Indices: 26292502--26292542 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
26292492 TCTGTTGCCC
26292502 TTTCTTTCTTTTTT-CTTTTA
1 TTTCTTTCTTTTTTCCTTTTA
26292522 TTTCTATTCTTTTTTCCTTTT
1 TTTCT-TTCTTTTTTCCTTTT
26292543 TCAATCTCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 9 0.47
22 5 0.26
ACGTcount: A:0.05, C:0.17, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTCTTTCTTTTTTCCTTTTA
Found at i:26304358 original size:16 final size:17
Alignment explanation
Indices: 26304327--26304359 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
26304317 TGTTATTCTT
*
26304327 TTAAAGAAAATTTATAA
1 TTAAAGAAAATATATAA
26304344 TTAAA-AAAATATATAA
1 TTAAAGAAAATATATAA
26304360 AAAAATAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
TTAAAGAAAATATATAA
Found at i:26304671 original size:19 final size:20
Alignment explanation
Indices: 26304630--26304671 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
26304620 TTAAAAATAA
**
26304630 TTTAATTCAATTCACTTGGT
1 TTTAATTCAATTCACTTAAT
*
26304650 TTTAATTC-ATTCATTTAAT
1 TTTAATTCAATTCACTTAAT
26304669 TTT
1 TTT
26304672 CAGTTTTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.26, C:0.12, G:0.05, T:0.57
Consensus pattern (20 bp):
TTTAATTCAATTCACTTAAT
Found at i:26311790 original size:40 final size:40
Alignment explanation
Indices: 26311746--26311821 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
26311736 CTGCCAGGGG
*
26311746 CACCGGAGTGCATT-CAGGGGCACA-TATGTGCAAACATGGA
1 CACCGAAGTG-ATTACAGGGGCACAGT-TGTGCAAACATGGA
*
26311786 CACCGAAGTGTTTACAGGGGCACAGTTGTGCAAACA
1 CACCGAAGTGATTACAGGGGCACAGTTGTGCAAACA
26311822 AGAACATAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
39 2 0.06
40 29 0.91
41 1 0.03
ACGTcount: A:0.30, C:0.22, G:0.29, T:0.18
Consensus pattern (40 bp):
CACCGAAGTGATTACAGGGGCACAGTTGTGCAAACATGGA
Found at i:26311834 original size:40 final size:40
Alignment explanation
Indices: 26311760--26311837 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
26311750 GGAGTGCATT
* * *
26311760 CAGGGGCACATATGTGCAAACATGGACACCGAAGTGTTTA
1 CAGGGGCACATATGTGCAAACAAGAACACAGAAGTGTTTA
*
26311800 CAGGGGCACAGT-TGTGCAAACAAGAACATAGAAGTGTT
1 CAGGGGCACA-TATGTGCAAACAAGAACACAGAAGTGTT
26311838 ATGAAGGAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 32 0.97
41 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (40 bp):
CAGGGGCACATATGTGCAAACAAGAACACAGAAGTGTTTA
Found at i:26317269 original size:16 final size:16
Alignment explanation
Indices: 26317223--26317271 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
26317213 AAAAATTCTA
***
26317223 AAAAAATAAAACTTTG
1 AAAAAATAAAACTAAC
26317239 AAAAAAT--AA-TAAC
1 AAAAAATAAAACTAAC
26317252 AAAAAATAAAACTAAC
1 AAAAAATAAAACTAAC
26317268 AAAA
1 AAAA
26317272 CAAAATCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
13 8 0.30
14 2 0.07
15 2 0.07
16 15 0.56
ACGTcount: A:0.73, C:0.08, G:0.02, T:0.16
Consensus pattern (16 bp):
AAAAAATAAAACTAAC
Found at i:26327317 original size:30 final size:29
Alignment explanation
Indices: 26327283--26327351 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 29
26327273 ATGGGTTCAG
* *
26327283 GTGACTGATTTGTCAC-TTTCGTGAAGTTTA
1 GTGACTGATTTGTAACTTTTC--AAAGTTTA
*
26327313 GTGACTGAGTTGTAACTTTTCAAAGTTTA
1 GTGACTGATTTGTAACTTTTCAAAGTTTA
26327342 GTGACT-ATTT
1 GTGACTGATTT
26327352 TATTATTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
28 3 0.09
29 13 0.38
30 14 0.41
31 4 0.12
ACGTcount: A:0.23, C:0.12, G:0.22, T:0.43
Consensus pattern (29 bp):
GTGACTGATTTGTAACTTTTCAAAGTTTA
Found at i:26327992 original size:10 final size:11
Alignment explanation
Indices: 26327966--26327991 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
26327956 TAAAAAAATA
26327966 AAAAATATTTT
1 AAAAATATTTT
26327977 AAAAATATTTT
1 AAAAATATTTT
26327988 AAAA
1 AAAA
26327992 TTAAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:26328005 original size:7 final size:8
Alignment explanation
Indices: 26327951--26328016 Score: 60
Period size: 8 Copynumber: 7.8 Consensus size: 8
26327941 AACTTATTTT
*
26327951 AAAAATAA
1 AAAAATTA
*
26327959 AAAAATAA
1 AAAAATTA
26327967 AAAATATTTTA
1 AAAA-A--TTA
*
26327978 AAAATATTT
1 AAAA-ATTA
*
26327987 TAAAATTA
1 AAAAATTA
26327995 AAAAATTA
1 AAAAATTA
26328003 AAAAATTA
1 AAAAATTA
26328011 AAAAAT
1 AAAAAT
26328017 ATATTTATTA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
8 36 0.72
9 6 0.12
11 8 0.16
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (8 bp):
AAAAATTA
Found at i:26329415 original size:136 final size:136
Alignment explanation
Indices: 26329259--26329517 Score: 491
Period size: 136 Copynumber: 1.9 Consensus size: 136
26329249 AAATATTTAT
* **
26329259 TATATTTATTTGTGTTTTTTAATATAATAAAACATTTATTATATTTATGGTAGTATTTTTTAATA
1 TATATTTATTTGTGTTTTTTAATATAATAAAACATTTATTATATTAATGACAGTATTTTTTAATA
26329324 TGTTTTTATTGTGTTAGAAAACTTTTATTTTAGTCTTTTTTAGTGCATTTAGTATATTGTTTTTA
66 TGTTTTTATTGTGTTAGAAAACTTTTATTTTAGTCTTTTTTAGTGCATTTAGTATATTGTTTTTA
26329389 TGGTAG
131 TGGTAG
26329395 TATATTTATTTGTGTTTTTTAATATAATAAAACATTTATTATATTAATGACAGTATTTTTTAATA
1 TATATTTATTTGTGTTTTTTAATATAATAAAACATTTATTATATTAATGACAGTATTTTTTAATA
26329460 TGTTTTTATTGTGTTAGAAAACTTTTATTTTAGTCTTTTTTAGTGCATTTAGTATATT
66 TGTTTTTATTGTGTTAGAAAACTTTTATTTTAGTCTTTTTTAGTGCATTTAGTATATT
26329518 ATATTTTTTA
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
136 120 1.00
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.57
Consensus pattern (136 bp):
TATATTTATTTGTGTTTTTTAATATAATAAAACATTTATTATATTAATGACAGTATTTTTTAATA
TGTTTTTATTGTGTTAGAAAACTTTTATTTTAGTCTTTTTTAGTGCATTTAGTATATTGTTTTTA
TGGTAG
Found at i:26329539 original size:136 final size:136
Alignment explanation
Indices: 26329259--26329548 Score: 478
Period size: 136 Copynumber: 2.1 Consensus size: 136
26329249 AAATATTTAT
* **
26329259 TATATTTATTTGTGTTTTTTAATATAATAAAACATTTATTATATTTATGGTAGTATTTTTTAATA
1 TATATTTATTTGTGTTTTTTAATATAATAAAACATTTATTATATTAATGACAGTATTTTTTAATA
*
26329324 TGTTTTTATTGTGTTAGAAAACTTTTATTTTAGTCTTTTTTAGTGCATTTAGTATATTGTTTTTA
66 TGTTTTTATTGTGTTAGAAAACTTTTATTTTAGTCTTTTTTAGTGCATTTAGTATATTATTTTTA
**
26329389 TGGTAG
131 TAATAG
26329395 TATATTTATTTGTGTTTTTTAATATAATAAAACATTTATTATATTAATGACAGTATTTTTTAATA
1 TATATTTATTTGTGTTTTTTAATATAATAAAACATTTATTATATTAATGACAGTATTTTTTAATA
26329460 TGTTTTTATTGTGTTAGAAAACTTTTATTTTAGTCTTTTTTAGTGCATTTAGTATATTATATTTT
66 TGTTTTTATTGTGTTAGAAAACTTTTATTTTAGTCTTTTTTAGTGCATTTAGTATATTAT-TTTT
*
26329525 TTAATATG
130 ATAATA-G
26329533 T-T-TTTA-TTGTGTTTTT
1 TATATTTATTTGTGTTTTT
26329549 AGTGCATTTA
Statistics
Matches: 145, Mismatches: 7, Indels: 5
0.92 0.04 0.03
Matches are distributed among these distances:
135 10 0.07
136 125 0.86
137 8 0.06
138 2 0.01
ACGTcount: A:0.28, C:0.03, G:0.11, T:0.58
Consensus pattern (136 bp):
TATATTTATTTGTGTTTTTTAATATAATAAAACATTTATTATATTAATGACAGTATTTTTTAATA
TGTTTTTATTGTGTTAGAAAACTTTTATTTTAGTCTTTTTTAGTGCATTTAGTATATTATTTTTA
TAATAG
Found at i:26332048 original size:39 final size:39
Alignment explanation
Indices: 26331952--26332050 Score: 119
Period size: 39 Copynumber: 2.5 Consensus size: 39
26331942 ATTCACTTTT
* * * **
26331952 AAGCATATATCACATTACACATATAATTAGATAATGTTC
1 AAGCATATATCGCAATACTCATATAATTAGATAACATTC
* *
26331991 AAGCACATATCGCAATACTCATATAA-TCGCATAACATTC
1 AAGCATATATCGCAATACTCATATAATTAG-ATAACATTC
26332030 AAGCATATATCGCAATACTCA
1 AAGCATATATCGCAATACTCA
26332051 AAAACATGTT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
38 2 0.04
39 49 0.96
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.28
Consensus pattern (39 bp):
AAGCATATATCGCAATACTCATATAATTAGATAACATTC
Found at i:26341084 original size:2 final size:2
Alignment explanation
Indices: 26341077--26341110 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
26341067 TGAGTTGTGC
26341077 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26341111 GTGTGTGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26341115 original size:2 final size:2
Alignment explanation
Indices: 26341110--26341163 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
26341100 TATATATATA
26341110 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
26341152 TG TG TG TG TG TG
1 TG TG TG TG TG TG
26341164 AACCCTCTTG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:26341818 original size:27 final size:27
Alignment explanation
Indices: 26341773--26341838 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
26341763 TTGATTTTCG
* *
26341773 TATTTCATAATTTAATTATA-AATTATT
1 TATTT-ATATTTTAATTATATAAATATT
*
26341800 CTATTTATATTTTATTTATATAAATATT
1 -TATTTATATTTTAATTATATAAATATT
26341828 TATTTATATTT
1 TATTTATATTT
26341839 ATCTATTTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
27 23 0.68
28 11 0.32
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (27 bp):
TATTTATATTTTAATTATATAAATATT
Found at i:26348559 original size:2 final size:2
Alignment explanation
Indices: 26348552--26348577 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
26348542 CTGAAAAACA
26348552 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
26348578 GAAAAAGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26349031 original size:12 final size:11
Alignment explanation
Indices: 26349014--26349049 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
26349004 AACAAATCAT
26349014 CTCTCATATTTC
1 CTCTCA-ATTTC
*
26349026 CTCTCAATTTT
1 CTCTCAATTTC
26349037 CTCTCAATTTC
1 CTCTCAATTTC
26349048 CT
1 CT
26349050 TCCAAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 16 0.73
12 6 0.27
ACGTcount: A:0.17, C:0.33, G:0.00, T:0.50
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:26349144 original size:51 final size:51
Alignment explanation
Indices: 26349029--26349146 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 51
26349019 ATATTTCCTC
* * * *
26349029 TCAATTTTCTCTCAATTTCCTTCCAAAAATTCTCATAAATCCATATTTAATT
1 TCAATTTCCTCTCAAATTCATTCCAAAAATTCTCA-AAACCCATATTTAATT
26349081 TCAATTTCCTCTCAAATTCATTCCAAAAATCTCTC-AAACCCATATTTAATT
1 TCAATTTCCTCTCAAATTCATTCCAAAAAT-TCTCAAAACCCATATTTAATT
*
26349132 TCAATTTGCTCTCAA
1 TCAATTTCCTCTCAA
26349147 TTTCCTTTTT
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
51 29 0.48
52 27 0.45
53 4 0.07
ACGTcount: A:0.33, C:0.25, G:0.01, T:0.41
Consensus pattern (51 bp):
TCAATTTCCTCTCAAATTCATTCCAAAAATTCTCAAAACCCATATTTAATT
Found at i:26350960 original size:18 final size:18
Alignment explanation
Indices: 26350934--26350968 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
26350924 AGGTGCGTTT
* *
26350934 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
26350952 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
26350969 TCCTTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:26351400 original size:25 final size:25
Alignment explanation
Indices: 26351371--26351483 Score: 96
Period size: 25 Copynumber: 4.7 Consensus size: 25
26351361 TTTAAATTTA
26351371 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
** *
26351396 TTATTTGATGTAATACGCATAGAAAT
1 TTATTTGATGTAATA-AAATAGAAGT
* ** *
26351422 TT-TTCGA-GT--T-ATTTTG-A-T
1 TTATTTGATGTAATAAAATAGAAGT
26351440 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
26351466 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
26351484 ACCCTAACCT
Statistics
Matches: 67, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
18 1 0.01
19 3 0.04
20 6 0.09
21 2 0.03
22 1 0.01
23 1 0.01
24 5 0.07
25 38 0.57
26 10 0.15
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.43
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:26351521 original size:29 final size:29
Alignment explanation
Indices: 26351483--26351798 Score: 448
Period size: 29 Copynumber: 11.4 Consensus size: 29
26351473 ATGTAATAAA
* **
26351483 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
*
26351512 AA-CCT-A-A-ACCCTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
26351537 AACCCTAACATAACCTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
26351566 AA-CCTAAC---A--TAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
*
26351589 AACCCTAACCTAACCTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
26351618 AACCCTAACATAACCTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
*
26351647 AACCCTAACATAACATAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
26351676 AA--C---C-TAACCTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
*
26351699 AACCCTAACATAACCTAATTAAAAACCCA
1 AACCCTAACATAACCTAATTAAAAACCCT
*
26351728 AACCCTAACATAACATAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
26351757 AACCCTAACATAACCTAATTAAAAACCCT
1 AACCCTAACATAACCTAATTAAAAACCCT
26351786 AACCCTAACATAA
1 AACCCTAACATAA
26351799 TAATTTTACA
Statistics
Matches: 259, Mismatches: 12, Indels: 32
0.85 0.04 0.11
Matches are distributed among these distances:
23 36 0.14
24 7 0.03
25 19 0.07
26 3 0.01
27 4 0.02
28 11 0.04
29 179 0.69
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (29 bp):
AACCCTAACATAACCTAATTAAAAACCCT
Found at i:26351636 original size:81 final size:81
Alignment explanation
Indices: 26351479--26351798 Score: 440
Period size: 81 Copynumber: 3.9 Consensus size: 81
26351469 TTTGATGTAA
** *
26351479 TAAAAACCCTAACCTAATTTAATTAAAAACCCTAA-CCTAA---ACCCTAATTAAAAACCCTAAC
1 TAAAAACCCTAACCTAACATAATTAAAAACCCTAACCCTAACCTAACCTAATTAAAAACCCTAAC
26351540 CCTAACATAACCTAAT
66 CCTAACATAACCTAAT
26351556 TAAAAACCCTAACCTAACATAATTAAAAACCCTAACCCTAACCTAACCTAATTAAAAACCCTAAC
1 TAAAAACCCTAACCTAACATAATTAAAAACCCTAACCCTAACCTAACCTAATTAAAAACCCTAAC
26351621 CCTAACATAACCTAAT
66 CCTAACATAACCTAAT
*
26351637 TAAAAACCCTAACCCTAACATAACATAATTAAA----AACCCTAACCTAACCTAATTAAAAACCC
1 TAAAAACCCTAA-CCTAACATAA-TTAA--AAACCCTAACCCTAACCTAACCTAATTAAAAACCC
26351698 TAACCCTAACATAACCTAAT
62 TAACCCTAACATAACCTAAT
* *
26351718 TAAAAACCCAAACCCTAACATAACATAATTAAAAACCCTAACCCTAACATAACCTAATTAAAAAC
1 T---AA---AAACCCTAACCTAACATAATTAAAAACCCTAACCCTAACCTAACCTAATTAAAAAC
26351783 CCTAACCCTAACATAA
60 CCTAACCCTAACATAA
26351799 TAATTTTACA
Statistics
Matches: 218, Mismatches: 7, Indels: 26
0.87 0.03 0.10
Matches are distributed among these distances:
77 33 0.15
78 5 0.02
81 97 0.44
82 10 0.05
83 6 0.03
84 2 0.01
85 6 0.03
86 9 0.04
87 50 0.23
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (81 bp):
TAAAAACCCTAACCTAACATAATTAAAAACCCTAACCCTAACCTAACCTAATTAAAAACCCTAAC
CCTAACATAACCTAAT
Found at i:26351672 original size:110 final size:110
Alignment explanation
Indices: 26351483--26351799 Score: 525
Period size: 110 Copynumber: 2.9 Consensus size: 110
26351473 ATGTAATAAA
** *
26351483 AACCCTAACCTAATTTAATTAAAAACCCTAA-CCT-A-A-ACCCTAATTAAAAACCCTAACCCTA
1 AACCCTAACCTAACCTAATTAAAAACCCTAACCCTAACATAACCTAATTAAAAACCCTAACCCTA
26351544 ACATAACCTAATTAAAAACCCTAACCTAACATAATTAAAAACCCT
66 ACATAACCTAATTAAAAACCCTAACCTAACATAATTAAAAACCCT
26351589 AACCCTAACCTAACCTAATTAAAAACCCTAACCCTAACATAACCTAATTAAAAACCCTAACCCTA
1 AACCCTAACCTAACCTAATTAAAAACCCTAACCCTAACATAACCTAATTAAAAACCCTAACCCTA
* *
26351654 ACATAACATAATTAAAAACCCTAACCTAACCTAATTAAAAACCCT
66 ACATAACCTAATTAAAAACCCTAACCTAACATAATTAAAAACCCT
* * *
26351699 AACCCTAACATAACCTAATTAAAAACCCAAACCCTAACATAACATAATTAAAAACCCTAACCCTA
1 AACCCTAACCTAACCTAATTAAAAACCCTAACCCTAACATAACCTAATTAAAAACCCTAACCCTA
26351764 ACATAACCTAATTAAAAACCCTAACCCTAACATAAT
66 ACATAACCTAATTAAAAACCCTAA-CCTAACATAAT
26351800 AATTTTACAT
Statistics
Matches: 196, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
106 29 0.15
107 3 0.02
108 1 0.01
109 1 0.01
110 152 0.78
111 10 0.05
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (110 bp):
AACCCTAACCTAACCTAATTAAAAACCCTAACCCTAACATAACCTAATTAAAAACCCTAACCCTA
ACATAACCTAATTAAAAACCCTAACCTAACATAATTAAAAACCCT
Found at i:26351856 original size:55 final size:55
Alignment explanation
Indices: 26351796--26352007 Score: 406
Period size: 55 Copynumber: 3.9 Consensus size: 55
26351786 AACCCTAACA
*
26351796 TAATAATTTTACATAATTTGATAATTTTACTAACAATTAACACAATTTTTGGACG
1 TAATAATTTTACATAATTTGATAATTTTACTAACAATTAACACAATTTTTGGACT
26351851 TAATAATTTTACATAATTTGATAATTTTACTAACAATTAACACAATTTTTGGACT
1 TAATAATTTTACATAATTTGATAATTTTACTAACAATTAACACAATTTTTGGACT
26351906 TAATAATTTTACATAATTTGATAATTTTACTAACAATTAACACAATTTTTGGACT
1 TAATAATTTTACATAATTTGATAATTTTACTAACAATTAACACAATTTTTGGACT
*
26351961 TAATAATTTTACATAATTTGATAATTTTACTAACAATTAATACAATT
1 TAATAATTTTACATAATTTGATAATTTTACTAACAATTAACACAATT
26352008 ATCAATTAAT
Statistics
Matches: 155, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
55 155 1.00
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.43
Consensus pattern (55 bp):
TAATAATTTTACATAATTTGATAATTTTACTAACAATTAACACAATTTTTGGACT
Found at i:26355223 original size:125 final size:125
Alignment explanation
Indices: 26355001--26355227 Score: 391
Period size: 125 Copynumber: 1.8 Consensus size: 125
26354991 CCCAAACTTG
* * *
26355001 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCATAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCAATTTCACAATTTCTTCTCAAATAGCATCCTCG
* * * *
26355066 TAGAAGTGATTTTATATTTTTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACTTGAC
66 TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAAAAAAAAATTATTTCTTACTTGAC
26355126 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCAATTTCACAATTTCTTCTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCAATTTCACAATTTCTTCTCAAATAGCATCCTCG
26355191 TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAA
26355228 CTCGAAATAA
Statistics
Matches: 95, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
125 95 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.31
Consensus pattern (125 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCGCAATTTCACAATTTCTTCTCAAATAGCATCCTCG
TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAAAAAAAAATTATTTCTTACTTGAC
Found at i:26355945 original size:48 final size:48
Alignment explanation
Indices: 26355874--26355968 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
26355864 TTCTTTGCTT
*
26355874 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCGACAGC
1 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGC
* *
26355922 AAAAACGCCTAAGTCGGCCTAACTTGCAATGATAAAGGATTCAACAG
1 AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAG
26355969 AATTCCCTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.18
Consensus pattern (48 bp):
AAAAACGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGC
Found at i:26356215 original size:19 final size:19
Alignment explanation
Indices: 26356191--26356244 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 19
26356181 AAAGTTGTAT
26356191 ACAATTAGAACTCTAAGAC
1 ACAATTAGAACTCTAAGAC
* *
26356210 ACAATTAGAA-GCT--GTAT
1 ACAATTAGAACTCTAAG-AC
26356227 ACAATTAGAACTCTAAGA
1 ACAATTAGAACTCTAAGA
26356245 TTACATAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.04
17 11 0.39
18 4 0.14
19 11 0.39
20 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.13, T:0.24
Consensus pattern (19 bp):
ACAATTAGAACTCTAAGAC
Found at i:26361084 original size:48 final size:48
Alignment explanation
Indices: 26361013--26361107 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
26361003 TTCTTTGCTT
*
26361013 AAAAATGCCTAAGTCAGCCTAACTCACAATGATAAAGGATTCAACAGC
1 AAAAACGCCTAAGTCAGCCTAACTCACAATGATAAAGGATTCAACAGC
* **
26361061 AAAAACGCCTAAGTCGGCCTAACTTGCAATGATAAAGGATTCAACAG
1 AAAAACGCCTAAGTCAGCCTAACTCACAATGATAAAGGATTCAACAG
26361108 AATTCCCTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (48 bp):
AAAAACGCCTAAGTCAGCCTAACTCACAATGATAAAGGATTCAACAGC
Found at i:26361367 original size:36 final size:37
Alignment explanation
Indices: 26361312--26361383 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 37
26361302 ATCAAAGGCT
*
26361312 ACAATTTAAAAGCTGTATACAATTAGAACTCTAAGAC
1 ACAATTTAAAAGCCGTATACAATTAGAACTCTAAGAC
*
26361349 ACAA-TTAGAAGCCGTATACAATTAGAACTCTAAGA
1 ACAATTTAAAAGCCGTATACAATTAGAACTCTAAGA
26361384 TTACATAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
36 29 0.88
37 4 0.12
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.25
Consensus pattern (37 bp):
ACAATTTAAAAGCCGTATACAATTAGAACTCTAAGAC
Found at i:26367695 original size:22 final size:21
Alignment explanation
Indices: 26367652--26367695 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
26367642 ACACACAAAC
*
26367652 ATTTATAAAAGTCCTTATACA
1 ATTTATAAAAGTCCATATACA
26367673 ATTTATAGAAAGTCTCATA-ACA
1 ATTTATA-AAAGTC-CATATACA
26367695 A
1 A
26367696 CACAAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 7 0.35
22 10 0.50
23 3 0.15
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (21 bp):
ATTTATAAAAGTCCATATACA
Found at i:26370799 original size:17 final size:18
Alignment explanation
Indices: 26370779--26370816 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
26370769 AGTTAAATTT
*
26370779 TTTTGTTTCTAGTT-TAG
1 TTTTATTTCTAGTTGTAG
*
26370796 TTTTATTTCTATTTGTAG
1 TTTTATTTCTAGTTGTAG
26370814 TTT
1 TTT
26370817 AGGTTTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.13, C:0.05, G:0.13, T:0.68
Consensus pattern (18 bp):
TTTTATTTCTAGTTGTAG
Found at i:26370834 original size:23 final size:23
Alignment explanation
Indices: 26370788--26370835 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
26370778 TTTTTGTTTC
* *
26370788 TAGTTTAGTTTTATTTCTATTTG
1 TAGTTTAGGTTTATTTCTAGTTG
* *
26370811 TAGTTTAGGTTTCTTTTTAGTTG
1 TAGTTTAGGTTTATTTCTAGTTG
26370834 TA
1 TA
26370836 ATCGTAGTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.17, C:0.04, G:0.17, T:0.62
Consensus pattern (23 bp):
TAGTTTAGGTTTATTTCTAGTTG
Found at i:26384613 original size:51 final size:51
Alignment explanation
Indices: 26384552--26384742 Score: 176
Period size: 51 Copynumber: 3.8 Consensus size: 51
26384542 CCGGTTCACA
* * *
26384552 TAGTAGCCTGCACATAGTACTAGACATGTGACCATCACTATCTTATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTCATACACG
* * * *
26384603 TAGTATCCTGCACATAGTACTACACACGTGATCGA--AGCTATC-CAGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCTCA-TACACG
* * * * * **
26384654 TACTAGCCTACACATAGCACTACACATGCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCTCATACACG
*
26384704 TAGTAGCCTGCACATAGTACTACATACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
26384743 TTCACTTTCA
Statistics
Matches: 108, Mismatches: 24, Indels: 17
0.72 0.16 0.11
Matches are distributed among these distances:
49 4 0.04
50 37 0.34
51 64 0.59
52 2 0.02
53 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCTCATACACG
Found at i:26384707 original size:101 final size:102
Alignment explanation
Indices: 26384550--26384734 Score: 266
Period size: 101 Copynumber: 1.8 Consensus size: 102
26384540 TACCGGTTCA
* * * * * * *
26384550 CATAGTAGCCTGCACATAGTACTAGACATGTGACCATCACTATCTTATACACGTAGTATCCTGCA
1 CATACTAGCCTACACATAGCACTACACATGCGACCATCACTATCTGATACACGTAGTAGCCTGCA
26384615 CATAGTACTACACACGTGATCGAAGCTATCCAGTACG
66 CATAGTACTACACACGTGATCGAAGCTATCCAGTACG
*
26384652 CATACTAGCCTACACATAGCACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTGC
1 CATACTAGCCTACACATAGCACTACACATGCGACC-ATCACTATCTGATACACGTAGTAGCCTGC
*
26384715 ACATAGTACTACATACGTGA
65 ACATAGTACTACACACGTGA
26384735 CCATCACTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
101 38 0.52
102 31 0.42
103 4 0.05
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (102 bp):
CATACTAGCCTACACATAGCACTACACATGCGACCATCACTATCTGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGATCGAAGCTATCCAGTACG
Found at i:26386192 original size:122 final size:122
Alignment explanation
Indices: 26385970--26386233 Score: 352
Period size: 122 Copynumber: 2.2 Consensus size: 122
26385960 GAAGTCTTTT
** * * * *
26385970 TGTACCGGTAGAACTCTAATGGTTTCATTTGGTATTGGTAGAACCCATCAAAATATCGATAGAAA
1 TGTACCGGTAGAACTCTGGTGCTTTCAATTGGTATTGGTAGAACCCAACAAAACATCGATAGAAA
* *
26386035 TGTAGGGGAGGCTGAACCTTGACTACTATTTTGACTTGTTTCAG-TAAAAGTCCTCAA
66 TGCAGGGGAGGCTGAAACTTGACTACTATTTTGACTTGTTTC-GCTAAAAGTCCTCAA
* *
26386092 TGTAGCGGTAGAACTCTGGTGCTTTCAATTGGTATTGGTAGAACCCAACAAAGCATCGATAGAAA
1 TGTACCGGTAGAACTCTGGTGCTTTCAATTGGTATTGGTAGAACCCAACAAAACATCGATAGAAA
* * *
26386157 TGCAGGAGG-GGCTGAAATTTGGCTACTATTTTGACTTGTTTCGCTAGAAGTCCTCAA
66 TGCAGG-GGAGGCTGAAACTTGACTACTATTTTGACTTGTTTCGCTAAAAGTCCTCAA
* * *
26386214 GGTATCGGTATAACTCTGGT
1 TGTACCGGTAGAACTCTGGT
26386234 TGTATCGATA
Statistics
Matches: 124, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
121 1 0.01
122 121 0.98
123 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (122 bp):
TGTACCGGTAGAACTCTGGTGCTTTCAATTGGTATTGGTAGAACCCAACAAAACATCGATAGAAA
TGCAGGGGAGGCTGAAACTTGACTACTATTTTGACTTGTTTCGCTAAAAGTCCTCAA
Found at i:26387541 original size:52 final size:51
Alignment explanation
Indices: 26387463--26387582 Score: 170
Period size: 52 Copynumber: 2.3 Consensus size: 51
26387453 ACTAGTGACT
* *
26387463 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGTTTTGG-TCA
1 CAAGTGTGGTACTATGTGAACGCCACTTTGTGAAG-AAGATAGCTTTGGCT-A
* *
26387515 CAAGTGTGGTACTATGTGAACTCCACTTTGTGAAGAAGGTAGCTTTGGCTA
1 CAAGTGTGGTACTATGTGAACGCCACTTTGTGAAGAAGATAGCTTTGGCTA
*
26387566 CAAGGGTGGTACTATGT
1 CAAGTGTGGTACTATGT
26387583 ACAGGCCACC
Statistics
Matches: 62, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
51 28 0.45
52 34 0.55
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAACGCCACTTTGTGAAGAAGATAGCTTTGGCTA
Found at i:26389528 original size:22 final size:22
Alignment explanation
Indices: 26389503--26389558 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
26389493 TGATATAATC
* *
26389503 CAACCAAAAAGTATATAAAAGG
1 CAACCAAGAAGTATATAAAAAG
26389525 CAACCAAGAAGTATATAAAAAG
1 CAACCAAGAAGTATATAAAAAG
26389547 CAACCAAGAAGT
1 CAACCAAGAAGT
26389559 GAGGTCATAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.57, C:0.16, G:0.14, T:0.12
Consensus pattern (22 bp):
CAACCAAGAAGTATATAAAAAG
Found at i:26412329 original size:19 final size:20
Alignment explanation
Indices: 26412286--26412331 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
26412276 CTATTTCAAT
* **
26412286 CCAAATGAGCTAAATGAAGC
1 CCAAATGAACTAAAACAAGC
26412306 CCAAATGAACTAAAACAA-C
1 CCAAATGAACTAAAACAAGC
26412325 CCAAATG
1 CCAAATG
26412332 GCCATATTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.50, C:0.24, G:0.13, T:0.13
Consensus pattern (20 bp):
CCAAATGAACTAAAACAAGC
Found at i:26415299 original size:12 final size:12
Alignment explanation
Indices: 26415282--26415306 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
26415272 GTTCAAAGTG
26415282 AAAATTAAATTA
1 AAAATTAAATTA
26415294 AAAATTAAATTA
1 AAAATTAAATTA
26415306 A
1 A
26415307 TTGGTTATCA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
AAAATTAAATTA
Found at i:26417367 original size:21 final size:22
Alignment explanation
Indices: 26417341--26417392 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
26417331 CAGCGGTGGT
* *
26417341 GGTGAGATTAG-TTATTGTAGC
1 GGTGAGATTAGAATACTGTAGC
26417362 GGTGAGATT-GAATACTGTAGC
1 GGTGAGATTAGAATACTGTAGC
26417383 GGTGAGATTA
1 GGTGAGATTA
26417393 AAAACAATGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.27, C:0.06, G:0.35, T:0.33
Consensus pattern (22 bp):
GGTGAGATTAGAATACTGTAGC
Found at i:26421099 original size:24 final size:21
Alignment explanation
Indices: 26421071--26421118 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 21
26421061 AATAAATTAG
26421071 AAAGAAAGATACAGAAAAAAATGT
1 AAAGAAAGA-A-AGAAAAAAAT-T
26421095 AAAGAAAGAAAGAAAAAAATT
1 AAAGAAAGAAAGAAAAAAATT
26421116 AAA
1 AAA
26421119 AGATTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 4 0.17
22 10 0.42
23 1 0.04
24 9 0.38
ACGTcount: A:0.73, C:0.02, G:0.15, T:0.10
Consensus pattern (21 bp):
AAAGAAAGAAAGAAAAAAATT
Found at i:26421296 original size:16 final size:16
Alignment explanation
Indices: 26421277--26421310 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
26421267 GTTTTTCTAT
*
26421277 TTTTCTATTTTTACAA
1 TTTTCTATTTTTAAAA
*
26421293 TTTTTTATTTTTAAAA
1 TTTTCTATTTTTAAAA
26421309 TT
1 TT
26421311 ATTTGATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTTCTATTTTTAAAA
Found at i:26424091 original size:13 final size:13
Alignment explanation
Indices: 26424073--26424100 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
26424063 GTTATATTAA
26424073 ATAAATTCTACAT
1 ATAAATTCTACAT
26424086 ATAAATTCTACAT
1 ATAAATTCTACAT
26424099 AT
1 AT
26424101 TATTTGTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.14, G:0.00, T:0.39
Consensus pattern (13 bp):
ATAAATTCTACAT
Found at i:26427050 original size:30 final size:30
Alignment explanation
Indices: 26427011--26427067 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
26427001 TTTTATAAAT
26427011 AATTAATATTT-A-TTACTTAAAAGTATTTAA
1 AATTAATATTTCATTTA-TTAAAA-TATTTAA
*
26427041 AATTTATATTTCATTTATTAAAATATT
1 AATTAATATTTCATTTATTAAAATATT
26427068 AACAAGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 14 0.58
31 7 0.29
32 3 0.12
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (30 bp):
AATTAATATTTCATTTATTAAAATATTTAA
Found at i:26427260 original size:13 final size:13
Alignment explanation
Indices: 26427239--26427275 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
26427229 TTTAAACTAA
26427239 ACTTTTCAAAAAC
1 ACTTTTCAAAAAC
*
26427252 ACTTCTCAAAAAC
1 ACTTTTCAAAAAC
26427265 ACTTTTCAAAA
1 ACTTTTCAAAA
26427276 GTATTACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (13 bp):
ACTTTTCAAAAAC
Found at i:26430375 original size:17 final size:18
Alignment explanation
Indices: 26430355--26430389 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
26430345 AATTTTTTCC
26430355 CTAAACTCTATTT-TTAT
1 CTAAACTCTATTTATTAT
*
26430372 CTAAATTCTATTTATTAT
1 CTAAACTCTATTTATTAT
26430390 TATTTATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.54
Consensus pattern (18 bp):
CTAAACTCTATTTATTAT
Found at i:26433478 original size:12 final size:11
Alignment explanation
Indices: 26433461--26433506 Score: 56
Period size: 12 Copynumber: 3.9 Consensus size: 11
26433451 ATTTAATTTT
26433461 ATTAATATATAA
1 ATTAAT-TATAA
26433473 ATTAATTATAA
1 ATTAATTATAA
*
26433484 AGTATATTATTAA
1 ATTA-ATTA-TAA
26433497 ATTAATTATA
1 ATTAATTATA
26433507 TTATAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
11 10 0.33
12 14 0.47
13 6 0.20
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (11 bp):
ATTAATTATAA
Found at i:26433495 original size:31 final size:28
Alignment explanation
Indices: 26433458--26433536 Score: 81
Period size: 28 Copynumber: 2.7 Consensus size: 28
26433448 ATGATTTAAT
26433458 TTTATTAATATATAAATTAATTATAAAGTA
1 TTTATTAA-ATATAAATTAATTATAAA-TA
26433488 TATTATTAAAT-T-AATTATATTATAAATA
1 T-TTATTAAATATAAATTA-ATTATAAATA
*
26433516 TTATATTAAAAAATAAATTAA
1 TT-TATT-AAATATAAATTAA
26433537 ATAAAGACAA
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
27 1 0.02
28 12 0.29
29 12 0.29
30 5 0.12
31 12 0.29
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (28 bp):
TTTATTAAATATAAATTAATTATAAATA
Found at i:26433518 original size:14 final size:17
Alignment explanation
Indices: 26433486--26433523 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
26433476 AATTATAAAG
26433486 TATATTATTAAATTAAT
1 TATATTATTAAATTAAT
26433503 TATATTA-TAAA-T-AT
1 TATATTATTAAATTAAT
26433517 TATATTA
1 TATATTA
26433524 AAAAATAAAT
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:26433665 original size:3 final size:3
Alignment explanation
Indices: 26433657--26433685 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
26433647 AATTATTGTT
26433657 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
26433686 TATTATTATT
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:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:26433690 original size:3 final size:3
Alignment explanation
Indices: 26433684--26433714 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
26433674 AATAATAATA
26433684 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
26433715 CTATCAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:26433788 original size:19 final size:20
Alignment explanation
Indices: 26433761--26433808 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
26433751 GCTGGTAAAT
*
26433761 ACATGTGTA-ATAATAATAA
1 ACATATGTATATAATAATAA
*
26433780 ACATATGTATTTAATAATAA
1 ACATATGTATATAATAATAA
26433800 A-ATATGTAT
1 ACATATGTAT
26433809 TGCTTATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (20 bp):
ACATATGTATATAATAATAA
Found at i:26433809 original size:19 final size:20
Alignment explanation
Indices: 26433771--26433809 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
26433761 ACATGTGTAA
26433771 TAATAATAAACATATGTATT
1 TAATAATAAACATATGTATT
26433791 TAATAATAAA-ATATGTATT
1 TAATAATAAACATATGTATT
26433810 GCTTATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (20 bp):
TAATAATAAACATATGTATT
Found at i:26433871 original size:5 final size:5
Alignment explanation
Indices: 26433852--26433900 Score: 55
Period size: 5 Copynumber: 10.0 Consensus size: 5
26433842 TTATTATAAT
* * * *
26433852 TAAAA CAAAA T-AAA TAAAA TGAAA TGAAA TGAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA
26433901 AAACAAAAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
4 4 0.10
5 35 0.90
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.18
Consensus pattern (5 bp):
TAAAA
Found at i:26433876 original size:10 final size:10
Alignment explanation
Indices: 26433858--26433900 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
26433848 TAATTAAAAC
26433858 AAAAT-AAAT
1 AAAATGAAAT
26433867 AAAATGAAAT
1 AAAATGAAAT
*
26433877 GAAATGAAAT
1 AAAATGAAAT
*
26433887 AAAATAAAAT
1 AAAATGAAAT
26433897 AAAA
1 AAAA
26433901 AAACAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
9 5 0.17
10 25 0.83
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (10 bp):
AAAATGAAAT
Found at i:26434359 original size:17 final size:18
Alignment explanation
Indices: 26434337--26434370 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
26434327 TAAATGAGTT
26434337 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
26434354 AATTAGGGTATAAATTG
1 AATTAGGATATAAATTG
26434371 AATAAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.35
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:26434809 original size:23 final size:22
Alignment explanation
Indices: 26434782--26434842 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 22
26434772 TTTGTCGATT
26434782 AGGCACTTTATGTGTCGTATTTC
1 AGGCAC-TTATGTGTCGTATTTC
*
26434805 AGGCACTT-CGTGTCG--TTTC
1 AGGCACTTATGTGTCGTATTTC
*
26434824 AGGCACTTATGTGTGGTAT
1 AGGCACTTATGTGTCGTAT
26434843 ATTGATCAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 12 0.38
20 5 0.16
21 6 0.19
22 3 0.09
23 6 0.19
ACGTcount: A:0.16, C:0.18, G:0.26, T:0.39
Consensus pattern (22 bp):
AGGCACTTATGTGTCGTATTTC
Found at i:26437026 original size:8 final size:8
Alignment explanation
Indices: 26437013--26437037 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
26437003 AAGTAGCAAA
26437013 AGAAATTG
1 AGAAATTG
26437021 AGAAATTG
1 AGAAATTG
26437029 AGAAATTG
1 AGAAATTG
26437037 A
1 A
26437038 ACACACAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (8 bp):
AGAAATTG
Found at i:26437614 original size:3 final size:3
Alignment explanation
Indices: 26437606--26437656 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
26437596 ATTATATTCC
26437606 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
26437654 ATT
1 ATT
26437657 TGAATTATGG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:26439681 original size:15 final size:15
Alignment explanation
Indices: 26439641--26439681 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
26439631 TTAATTTCAC
26439641 ATTTTACTA-TTATGT
1 ATTTTA-TATTTATGT
26439656 ATTTTATATTTATGT
1 ATTTTATATTTATGT
*
26439671 CTTTTATATTT
1 ATTTTATATTT
26439682 TGCATGCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 2 0.08
15 22 0.92
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (15 bp):
ATTTTATATTTATGT
Found at i:26441406 original size:23 final size:22
Alignment explanation
Indices: 26441378--26441420 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
26441368 TGATTATCTT
26441378 AATATTAAATTAAATTTAATATA
1 AATATTAAATT-AATTTAATATA
*
26441401 AATATTATATTAATTTAATA
1 AATATTAAATTAATTTAATA
26441421 GAGTGATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AATATTAAATTAATTTAATATA
Found at i:26442726 original size:25 final size:23
Alignment explanation
Indices: 26442696--26442752 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
26442686 AAAACTTAAA
*
26442696 AATTAAATAAAACACAAAAACCCT
1 AATTTAATAAAACAC-AAAACCCT
* *
26442720 AATTTAAT-TAACACCAAACCCT
1 AATTTAATAAAACACAAAACCCT
26442742 AATTTAATAAA
1 AATTTAATAAA
26442753 CCTTAAACCC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 15 0.54
23 6 0.21
24 7 0.25
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (23 bp):
AATTTAATAAAACACAAAACCCT
Found at i:26442741 original size:22 final size:21
Alignment explanation
Indices: 26442713--26442767 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 21
26442703 TAAAACACAA
26442713 AAACCCTAATTTAATTAACACC-
1 AAACCCTAATTTAA-TAA-ACCT
26442735 AAACCCTAATTTAATAAACCTT
1 AAACCCTAATTTAATAAACC-T
26442757 AAACCCTAATT
1 AAACCCTAATT
26442768 AAACAATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 3 0.10
21 3 0.10
22 25 0.81
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.29
Consensus pattern (21 bp):
AAACCCTAATTTAATAAACCT
Found at i:26449193 original size:21 final size:21
Alignment explanation
Indices: 26449164--26449204 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
26449154 GTTATATGTA
*
26449164 TATACATACATACATTTTTTT
1 TATACATACATACATATTTTT
* *
26449185 TATATATACGTACATATTTT
1 TATACATACATACATATTTT
26449205 AAATTTTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.12, G:0.02, T:0.51
Consensus pattern (21 bp):
TATACATACATACATATTTTT
Found at i:26449280 original size:44 final size:46
Alignment explanation
Indices: 26449187--26449314 Score: 129
Period size: 44 Copynumber: 2.8 Consensus size: 46
26449177 ATTTTTTTTA
* * **
26449187 TATATACGTACATA-TTTTAAATTTTATAAATATATATATGTATAC
1 TATATACTTATATATTTTTAAATTTTATAAATATATATACATATAC
* *
26449232 -ATATACTTATATATTTTTATATTTTATAACT-TATATACATAT-C
1 TATATACTTATATATTTTTAAATTTTATAAATATATATACATATAC
* *
26449275 TATATATCTATATACATTTTTAAATTTTTATGAATATATA
1 TATATA-CT-TATATATTTTTAAA-TTTTATAAATATATA
26449315 AATACATGCT
Statistics
Matches: 67, Mismatches: 10, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 25 0.37
45 17 0.25
46 12 0.18
47 8 0.12
48 4 0.06
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (46 bp):
TATATACTTATATATTTTTAAATTTTATAAATATATATACATATAC
Found at i:26449296 original size:46 final size:45
Alignment explanation
Indices: 26449195--26449314 Score: 127
Period size: 45 Copynumber: 2.6 Consensus size: 45
26449185 TATATATACG
**
26449195 TACATATTTTAAATTTTATAAATATATATATGTATACATATACTTA
1 TACAT-TTTTAAATTTTATAAATATATATACATATACATATACTTA
* * *
26449241 TATATTTTTATATTTTATAACT-TATATACATAT-CTATATATCTATA
1 TACATTTTTAAATTTTATAAATATATATACATATAC-ATATA-CT-TA
*
26449287 TACATTTTTAAATTTTTATGAATATATA
1 TACATTTTTAAA-TTTTATAAATATATA
26449315 AATACATGCT
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.02
44 14 0.23
45 17 0.28
46 16 0.27
47 8 0.13
48 4 0.07
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.52
Consensus pattern (45 bp):
TACATTTTTAAATTTTATAAATATATATACATATACATATACTTA
Found at i:26453064 original size:61 final size:60
Alignment explanation
Indices: 26452995--26453163 Score: 185
Period size: 60 Copynumber: 2.8 Consensus size: 60
26452985 ATATATTTTT
*
26452995 AATTTTTAGAGTTAGGACTAAATTGATAGATTTTTGTAAATATTGAAGGCTAAATTTATTG
1 AATTTTTAGAATTAGGACTAAATTGATAGA-TTTTGTAAATATTGAAGGCTAAATTTATTG
* * ** * * * * *
26453056 AATTTTTAGAATTAGAACCAAAACGACAAATTTTGTAAACATTGAAGGTTAAATTTGTTG
1 AATTTTTAGAATTAGGACTAAATTGATAGATTTTGTAAATATTGAAGGCTAAATTTATTG
* * * * * *
26453116 AATTTTTATATTTAGGATTAAATTGATAGAATGTGTAAATATTAAAGG
1 AATTTTTAGAATTAGGACTAAATTGATAGATTTTGTAAATATTGAAGG
26453164 GATAATTTTA
Statistics
Matches: 85, Mismatches: 23, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
60 62 0.73
61 23 0.27
ACGTcount: A:0.40, C:0.04, G:0.17, T:0.40
Consensus pattern (60 bp):
AATTTTTAGAATTAGGACTAAATTGATAGATTTTGTAAATATTGAAGGCTAAATTTATTG
Found at i:26453725 original size:14 final size:14
Alignment explanation
Indices: 26453706--26453735 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
26453696 GAAGAGAGCG
26453706 CGGCCTTGAAAGCA
1 CGGCCTTGAAAGCA
26453720 CGGCCTTGAAAGCA
1 CGGCCTTGAAAGCA
26453734 CG
1 CG
26453736 ATTTGTGTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.30, G:0.30, T:0.13
Consensus pattern (14 bp):
CGGCCTTGAAAGCA
Found at i:26454244 original size:126 final size:125
Alignment explanation
Indices: 26453877--26454548 Score: 994
Period size: 125 Copynumber: 5.4 Consensus size: 125
26453867 ATGTGGACGC
* *
26453877 GAAGAATTTGTGAAATCGCGCCCTCCTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
1 GAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
* * * * *
26453942 TTTCGAGTTAACGTTTCTAAG-AAATAGTATAAAATCACTTCTA-CTAGGATGCT-TTATGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTCAAGC-AGGATGCTATT-TGA
* * * * * * * * *
26454001 GAAGAATTTGTTAAATCGCGCCCACGTGGACACGCTTTTCCTACAGTAGATCCT-GAAAAAATTA
1 GAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
*
26454065 TTTCGAGTTGACGTTTTTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTATTTGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAACGCTTCAAGCAGGATGCTATTTGA
*
26454126 GAAGAATTTTTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
1 GAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
26454191 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTATTTGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAACGCTTCAAGCAGGATGCTATTTGA
26454252 GAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
1 GAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
*
26454317 TTTCGAGTTGACGTTTCTGAGTAAATAGTATAAAAACGCTTCAAGCAGGATGCTATTTGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTCAAGCAGGATGCTATTTGA
* *
26454377 GAAGAATTTCTGAAATCGTGCCCTCGTGGACGCACTTTTGCTACAGTTGGTCCTGGAAGAAATAA
1 GAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
* ** * * *
26454442 TTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAATTGCTTCTACCAAGATGCT-TTATGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTCAAGCAGGATGCTATT-TGA
* * *
26454502 GAAGAATTTGTGAAATCGCGCCCACATGGACGCGCTTTTGCTACAGT
1 GAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
26454549 AGTATGTTTG
Statistics
Matches: 501, Mismatches: 41, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
123 26 0.05
124 58 0.12
125 252 0.50
126 165 0.33
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (125 bp):
GAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTCAAGCAGGATGCTATTTGA
Found at i:26454375 original size:251 final size:249
Alignment explanation
Indices: 26453877--26454550 Score: 1048
Period size: 251 Copynumber: 2.7 Consensus size: 249
26453867 ATGTGGACGC
* *
26453877 GAAGAATTTGTGAAATCGCGCCCTCCTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
1 GAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
* * *
26453942 TTTCGAGTTAACGTTTCTAAG-AAATAGTATAAAATCACTTCTACTAGGATGCTTTATGAGAAGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAC-AGGATGCTTTATGAGAAGA
* * * *
26454006 ATTTGTTAAATCGCGCCCACGTGGACACGCTTTTCCTACAGTAGATCCTGAAAAAATTATTTCGA
130 ATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGATCCTGAAAAAATAATTTCGA
*
26454071 GTTGACGTTTTTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTATTTGA
195 GTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTATTTGA
*
26454126 GAAGAATTTTTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
1 GAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
* *
26454191 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTATT-TGAGAA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAATCGCTTCTA-CAGGATGCT-TTATGAGAA
* * * * *
26454255 GAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAATTT
128 GAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGATCCT-GAAAAAATAATTT
*
26454320 CGAGTTGACGTTTCTGAGTAAATAGTAT-AAAAACGCTTCAAGCAGGATGCTATTTGA
192 CGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTATTTGA
* *
26454377 GAAGAATTTCTGAAATCGTGCCCTCGTGGACGCACTTTTGCTACAGTTGGTCCTGGAAGAAATAA
1 GAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
* * *
26454442 TTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAATTGCTTCTACCAAGATGCTTTATGAGAAGA
66 TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTA-CAGGATGCTTTATGAGAAGA
*
26454507 ATTTGTGAAATCGCGCCCACATGGACGCGCTTTTGCTACAGTAG
130 ATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAG
26454551 TATGTTTGGG
Statistics
Matches: 388, Mismatches: 31, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
249 84 0.22
250 75 0.19
251 189 0.49
252 40 0.10
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (249 bp):
GAAGAATTTCTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAAGAAATAA
TTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACAGGATGCTTTATGAGAAGAA
TTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGATCCTGAAAAAATAATTTCGAG
TTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTATTTGA
Found at i:26455608 original size:25 final size:25
Alignment explanation
Indices: 26455574--26455631 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
26455564 TCAAAATAAC
*
26455574 TCAAAAAAACTTCTATTTTATTACA
1 TCAAATAAACTTCTATTTTATTACA
26455599 TCAAATAAACTTCTATTTTATTACA
1 TCAAATAAACTTCTATTTTATTACA
26455624 TCAAATAA
1 TCAAATAA
26455632 TATCAAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.40
Consensus pattern (25 bp):
TCAAATAAACTTCTATTTTATTACA
Found at i:26455620 original size:70 final size:71
Alignment explanation
Indices: 26455546--26455677 Score: 239
Period size: 70 Copynumber: 1.9 Consensus size: 71
26455536 TAATCTCATG
* *
26455546 TTATTACATCAAATAATATCAAAATAACTC-AAAAAAACTTCTATTTTATTACATCAAATAAACT
1 TTATTACATCAAATAATATCAAAATAACTCAAAAAAAAATTCTATTTTATTACATAAAATAAACT
26455610 TCTATT
66 TCTATT
26455616 TTATTACATCAAATAATATCAAAATAACTCAAAAAAAAATTCTATTTTATTACATAAAATAA
1 TTATTACATCAAATAATATCAAAATAACTCAAAAAAAAATTCTATTTTATTACATAAAATAA
26455678 TATCAAAATA
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
70 30 0.51
71 29 0.49
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.36
Consensus pattern (71 bp):
TTATTACATCAAATAATATCAAAATAACTCAAAAAAAAATTCTATTTTATTACATAAAATAAACT
TCTATT
Found at i:26455674 original size:25 final size:25
Alignment explanation
Indices: 26455576--26455674 Score: 64
Period size: 25 Copynumber: 4.1 Consensus size: 25
26455566 AAAATAACTC
* *
26455576 AAAAAAACTTCTATTTTATTACATC
1 AAAAAAAATTCTATTTTATTACATA
* * *
26455601 AAATAAACTTCTATTTTATTACATC
1 AAAAAAAATTCTATTTTATTACATA
* * ** *
26455626 AAATAATA-TC-A--AAATAAC-TCA
1 AAAAAAAATTCTATTTTATTACAT-A
26455647 AAAAAAAATTCTATTTTATTACATA
1 AAAAAAAATTCTATTTTATTACATA
26455672 AAA
1 AAA
26455675 TAATATCAAA
Statistics
Matches: 56, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
20 1 0.02
21 10 0.18
22 2 0.04
23 2 0.04
24 2 0.04
25 38 0.68
26 1 0.02
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (25 bp):
AAAAAAAATTCTATTTTATTACATA
Found at i:26457466 original size:51 final size:51
Alignment explanation
Indices: 26457370--26457467 Score: 119
Period size: 51 Copynumber: 1.9 Consensus size: 51
26457360 AATTATTTAA
* *
26457370 AAATAGGAATTTAAGAGAAATTTAAGAAGAACTTGAGAGCTAATTGAAATT
1 AAATAGGAATTTAAGAGAAATTTAAGAAGAAATTGAGAGCAAATTGAAATT
* * *
26457421 AAATATGG-ATTTGAGAGAAATTT-TGAAGGAAATTGAGAGGAAATTGA
1 AAATA-GGAATTTAAGAGAAATTTAAGAA-GAAATTGAGAGCAAATTGA
26457468 GAGGAAATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
50 3 0.08
51 35 0.88
52 2 0.05
ACGTcount: A:0.47, C:0.02, G:0.23, T:0.28
Consensus pattern (51 bp):
AAATAGGAATTTAAGAGAAATTTAAGAAGAAATTGAGAGCAAATTGAAATT
Found at i:26457481 original size:12 final size:12
Alignment explanation
Indices: 26457429--26457481 Score: 69
Period size: 11 Copynumber: 4.7 Consensus size: 12
26457419 TTAAATATGG
26457429 ATTTGAGA-GAA
1 ATTTGAGAGGAA
26457440 ATTTTGA-AGGAA
1 A-TTTGAGAGGAA
26457452 A-TTGAGAGGAA
1 ATTTGAGAGGAA
26457463 A-TTGAGAGGAA
1 ATTTGAGAGGAA
26457474 ATTTGAGA
1 ATTTGAGA
26457482 AAGGATTAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
10 4 0.11
11 19 0.50
12 15 0.39
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.26
Consensus pattern (12 bp):
ATTTGAGAGGAA
Found at i:26459735 original size:55 final size:55
Alignment explanation
Indices: 26459668--26459859 Score: 280
Period size: 55 Copynumber: 3.5 Consensus size: 55
26459658 AAATAGAGTG
* * *
26459668 TTTATATGTTTAAATCAATTGTTATGTTGGAATATTGATTCTTTTGAATCGATTC
1 TTTATACGTTTAAATCGATTATTATGTTGGAATATTGATTCTTTTGAATCGATTC
*
26459723 TTTATACGTTTAAATCGATTATTATGTTGGAATATT-ACTTCTTTTGAATCGATTG
1 TTTATACGTTTAAATCGATTATTATGTTGGAATATTGA-TTCTTTTGAATCGATTC
* * *
26459778 TTTATATGTTTAAATCGATTATTATGTTGGAATATTGCTTCTTTTGAATCAATTGC
1 TTTATACGTTTAAATCGATTATTATGTTGGAATATTGATTCTTTTGAATCGATT-C
*
26459834 -TTATACGTTTAAATCGATTGTTATGT
1 TTTATACGTTTAAATCGATTATTATGT
26459860 AGCACATATA
Statistics
Matches: 124, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
54 1 0.01
55 123 0.99
ACGTcount: A:0.27, C:0.08, G:0.15, T:0.50
Consensus pattern (55 bp):
TTTATACGTTTAAATCGATTATTATGTTGGAATATTGATTCTTTTGAATCGATTC
Found at i:26459982 original size:13 final size:13
Alignment explanation
Indices: 26459960--26459992 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
26459950 AGATATAACT
*
26459960 ATAAATCTCGAAA
1 ATAAACCTCGAAA
26459973 ATAAACCTCGAAA
1 ATAAACCTCGAAA
26459986 ATAAACC
1 ATAAACC
26459993 GTAAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.55, C:0.21, G:0.06, T:0.18
Consensus pattern (13 bp):
ATAAACCTCGAAA
Found at i:26460655 original size:10 final size:10
Alignment explanation
Indices: 26460640--26460777 Score: 78
Period size: 10 Copynumber: 14.4 Consensus size: 10
26460630 GACATGTGAC
26460640 AAAAAATTAT
1 AAAAAATTAT
26460650 -AAAAA--AT
1 AAAAAATTAT
*
26460657 -AAAAATCA-
1 AAAAAATTAT
26460665 ATAAAAATTAT
1 A-AAAAATTAT
26460676 -AAAAATTAT
1 AAAAAATTAT
* **
26460685 TAAATTTTAAT
1 AAAAAATT-AT
*
26460696 AAAAATATAAT
1 AAAAA-ATTAT
** *
26460707 TTAAAATGA-
1 AAAAAATTAT
26460716 AAAAAATTAT
1 AAAAAATTAT
26460726 -AAAAATTAT
1 AAAAAATTAT
26460735 -AAAAATTAT
1 AAAAAATTAT
*
26460744 AAAAAATTGT
1 AAAAAATTAT
**
26460754 AAAATTTTAT
1 AAAAAATTAT
*
26460764 AAAAATTTAT
1 AAAAAATTAT
26460774 AAAA
1 AAAA
26460778 TGCATCAAAA
Statistics
Matches: 100, Mismatches: 18, Indels: 20
0.72 0.13 0.14
Matches are distributed among these distances:
7 7 0.07
9 39 0.39
10 43 0.43
11 10 0.10
12 1 0.01
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:26460677 original size:9 final size:9
Alignment explanation
Indices: 26460641--26460777 Score: 107
Period size: 9 Copynumber: 14.4 Consensus size: 9
26460631 ACATGTGACA
26460641 AAAAATTAT
1 AAAAATTAT
26460650 AAAAA--AT
1 AAAAATTAT
*
26460657 AAAAATCAAT
1 AAAAAT-TAT
26460667 AAAAATTAT
1 AAAAATTAT
26460676 AAAAATTATT
1 AAAAATTA-T
**
26460686 AAATTTTAAT
1 AAAAATT-AT
26460696 AAAAATATAATT
1 AAAAAT-T-A-T
* * *
26460708 TAAAATGAA
1 AAAAATTAT
26460717 AAAAATTAT
1 AAAAATTAT
26460726 AAAAATTAT
1 AAAAATTAT
26460735 AAAAATTAT
1 AAAAATTAT
*
26460744 AAAAAATTGT
1 -AAAAATTAT
*
26460754 AAAATTTTAT
1 AAAA-ATTAT
26460764 AAAAATTTAT
1 AAAAA-TTAT
26460774 AAAA
1 AAAA
26460778 TGCATCAAAA
Statistics
Matches: 103, Mismatches: 15, Indels: 19
0.75 0.11 0.14
Matches are distributed among these distances:
7 7 0.07
9 43 0.42
10 43 0.42
11 4 0.04
12 6 0.06
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:26460757 original size:18 final size:19
Alignment explanation
Indices: 26460641--26460777 Score: 97
Period size: 19 Copynumber: 7.2 Consensus size: 19
26460631 ACATGTGACA
26460641 AAAAATTAT-AAAAA--AT
1 AAAAATTATAAAAAATTAT
*
26460657 AAAAATCA-ATAAAAATTAT
1 AAAAATTATA-AAAAATTAT
* **
26460676 AAAAATTATTAAATTTTAAT
1 AAAAATTATAAAAAATT-AT
* *
26460696 AAAAA-TATAATTTAAAATGAA
1 AAAAATTATAA---AAAATTAT
26460717 AAAAATTAT-AAAAATTAT
1 AAAAATTATAAAAAATTAT
*
26460735 AAAAATTATAAAAAATTGT
1 AAAAATTATAAAAAATTAT
* *
26460754 AAAATTTTATAAAAATTTAT
1 AAAA-ATTATAAAAAATTAT
26460774 AAAA
1 AAAA
26460778 TGCATCAAAA
Statistics
Matches: 93, Mismatches: 16, Indels: 20
0.72 0.12 0.16
Matches are distributed among these distances:
16 7 0.08
17 5 0.05
18 15 0.16
19 30 0.32
20 23 0.25
21 7 0.08
22 6 0.06
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (19 bp):
AAAAATTATAAAAAATTAT
Found at i:26461027 original size:10 final size:9
Alignment explanation
Indices: 26461012--26461123 Score: 66
Period size: 9 Copynumber: 11.8 Consensus size: 9
26461002 TTCATACGAC
26461012 TTTATAATAT
1 TTTATAAT-T
26461022 TTTATAATT
1 TTTATAATT
*
26461031 TTTCCCTATATT
1 TTT--ATA-ATT
* * *
26461043 TCTACATTT
1 TTTATAATT
26461052 TTTAT-ATT
1 TTTATAATT
*
26461060 TTTATGATT
1 TTTATAATT
*
26461069 TTTATAAAAT
1 TTTAT-AATT
26461079 TTTA-AATTTT
1 TTTATAA--TT
26461089 TTTATAATT
1 TTTATAATT
**
26461098 TCTTACGATT
1 T-TTATAATT
26461108 TTTATAATT
1 TTTATAATT
26461117 TTTATAA
1 TTTATAA
26461124 CTTTAATTGA
Statistics
Matches: 78, Mismatches: 15, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
8 9 0.12
9 33 0.42
10 27 0.35
11 4 0.05
12 5 0.06
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTATAATT
Found at i:26462826 original size:198 final size:200
Alignment explanation
Indices: 26462494--26462880 Score: 609
Period size: 198 Copynumber: 1.9 Consensus size: 200
26462484 AATATCCATT
*
26462494 GATTCAAGAAATCGCGACCCAATACGTTAGGGCACAATTTCTTTAAAATCCCAAACTCGGAATAT
1 GATTCAAGAAATCGCGACCCAATACGTTAGGGCACAATTCCTTTAAAATCCCAAACTCGGAATAT
* * *
26462559 TTCCTTTATTAATTTTTTTAGAAAAAAAAAATCTTCATTTCGAGAAATCAGTATGTCACATCTAA
66 TTCCTTTATTAA-TTTTTTAG---AAAAAAATCTTCATTTCGAGAAATCAATACGTCACATCCAA
*
26462624 TACGTTAGGACACAACGTGTTGAATTCCCAACAATGAACTCTTATTTTTGATTAAGAGAATATCC
127 TACGTTAGGACACAACGTGTTAAATTCCCAACAATGAACTCTTATTTTTGATTAA-AGAATATCC
26462689 ATTTATTCAA
191 ATTTATTCAA
* * *
26462699 GATTTAAGAAATCGCGGCCCAATACGTTATGGCACAATTCCTTTAAAATCCCAAACTCGGAATAT
1 GATTCAAGAAATCGCGACCCAATACGTTAGGGCACAATTCCTTTAAAATCCCAAACTCGGAATAT
* *
26462764 TTCCTTTATT-A-TTTTTAG-GAAAAATCTTCATTTCGAGAAATCAATGCGTCACATCCAATACG
66 TTCCTTTATTAATTTTTTAGAAAAAAATCTTCATTTCGAGAAATCAATACGTCACATCCAATACG
*
26462826 TTAGGACACAACGTGTTAAATTCCCAATAATGAACTCTTATTTTTGATTAAAGAA
131 TTAGGACACAACGTGTTAAATTCCCAACAATGAACTCTTATTTTTGATTAAAGAA
26462881 GAATACTTGA
Statistics
Matches: 171, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
197 4 0.02
198 88 0.51
202 7 0.04
204 1 0.01
205 71 0.42
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.33
Consensus pattern (200 bp):
GATTCAAGAAATCGCGACCCAATACGTTAGGGCACAATTCCTTTAAAATCCCAAACTCGGAATAT
TTCCTTTATTAATTTTTTAGAAAAAAATCTTCATTTCGAGAAATCAATACGTCACATCCAATACG
TTAGGACACAACGTGTTAAATTCCCAACAATGAACTCTTATTTTTGATTAAAGAATATCCATTTA
TTCAA
Found at i:26463284 original size:2 final size:2
Alignment explanation
Indices: 26463277--26463301 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
26463267 TAAAACAAGA
26463277 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
26463302 CAAGTATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26465108 original size:2 final size:2
Alignment explanation
Indices: 26465101--26465131 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
26465091 GATAGAGACG
26465101 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
26465132 CCTGTTGTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:26467026 original size:28 final size:26
Alignment explanation
Indices: 26466981--26467035 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 26
26466971 ACCTTTCACT
* *
26466981 TACATATATATCTGCATGTCTACATTCA
1 TACATATATATATACATG-C-ACATTCA
26467009 TACATATATATATACATGCACATTCA
1 TACATATATATATACATGCACATTCA
26467035 T
1 T
26467036 GAACGCATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.32
27 1 0.04
28 16 0.64
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.38
Consensus pattern (26 bp):
TACATATATATATACATGCACATTCA
Found at i:26467250 original size:2 final size:2
Alignment explanation
Indices: 26467243--26467272 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
26467233 GATGTATTAC
*
26467243 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26467273 GAACCATACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:26471797 original size:26 final size:26
Alignment explanation
Indices: 26471768--26471857 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 26
26471758 TTATAGATTG
26471768 CAAATTAATTATTCATGAGCACTATT
1 CAAATTAATTATTCATGAGCACTATT
* * ** *
26471794 CAAATTAA-AAGTCATGATTTATCATCTT
1 CAAATTAATTATTCATGA-GCA-C-TATT
*
26471822 ACAAATTTAATTATTCATAAGCACTATT
1 -CAAA-TTAATTATTCATGAGCACTATT
26471850 CAAATTAA
1 CAAATTAA
26471858 AAGTGATGAT
Statistics
Matches: 47, Mismatches: 11, Indels: 12
0.67 0.16 0.17
Matches are distributed among these distances:
25 7 0.15
26 13 0.28
27 5 0.11
28 6 0.13
29 5 0.11
30 5 0.11
31 6 0.13
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.38
Consensus pattern (26 bp):
CAAATTAATTATTCATGAGCACTATT
Found at i:26471853 original size:56 final size:55
Alignment explanation
Indices: 26471768--26471875 Score: 189
Period size: 56 Copynumber: 1.9 Consensus size: 55
26471758 TTATAGATTG
*
26471768 CAAATTAATTATTCATGAGCACTATTCAAATTAAAAGTCATGATTTATCATCTTA
1 CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTCATGATTTATCATCTTA
*
26471823 CAAATTTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCATC
1 CAAA-TTAATTATTCATAAGCACTATTCAAATTAAAAGTCATGATTTATCATC
26471876 CAATGGATAC
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
55 4 0.08
56 46 0.92
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (55 bp):
CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTCATGATTTATCATCTTA
Found at i:26474483 original size:24 final size:24
Alignment explanation
Indices: 26474430--26474484 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
26474420 GACATGAGTA
*
26474430 TGTGAGACAATTGATTAAGGACGG
1 TGTGATACAATTGATTAAGGACGG
26474454 TGTGATACAATTGATTAAGGACGG
1 TGTGATACAATTGATTAAGGACGG
26474478 TGTGATA
1 TGTGATA
26474485 ACTGTTACCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.29
Consensus pattern (24 bp):
TGTGATACAATTGATTAAGGACGG
Found at i:26475541 original size:56 final size:55
Alignment explanation
Indices: 26475455--26475563 Score: 200
Period size: 56 Copynumber: 2.0 Consensus size: 55
26475445 TGTATCCTTT
*
26475455 AGATGATAAATCATCACTTTTAATTTGAATAGTGCTTATGAATAATTAAATTTGTA
1 AGATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATT-AATTTGTA
26475511 AGATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
1 AGATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTG
26475564 CAATCTATAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
55 6 0.12
56 46 0.88
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.40
Consensus pattern (55 bp):
AGATGATAAATCATCACTTTTAATTTGAATAGTGCTCATGAATAATTAATTTGTA
Found at i:26477563 original size:126 final size:125
Alignment explanation
Indices: 26477326--26477885 Score: 714
Period size: 126 Copynumber: 4.5 Consensus size: 125
26477316 AAATCAAAGG
* * * * * * *
26477326 AGGATGATTTATCAGAAGGATTTTTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTACAGTAGGT
1 AGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGT
* * * *
26477391 CTTGGAAAAATAATTTCGACTTGACGTTTCTGAGAAAATAGTTTAAAAAACGCTTCAAGC
66 CCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACACTTCAAGC
* * * *
26477451 AGGATGCTTTGTGAGAAGAATTTGTGAAATCGTGCCCTCGTGGACGCGCTTTTACTACAGTTGGT
1 AGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGT
* * * *
26477516 CCTGGAAGAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTTTAAAAAACGCTTCAAGC
66 CCTGGAA-AAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACACTTCAAGC
* * *
26477577 AAGG-TGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGG
1 -AGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGG
** ** * * * *
26477641 TCCTAAAAAAATAATTTTAAGTTTACGTTTCTGAGTAAATAGTATAAAACAACACTGCAAGC
65 TCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAA-AACACTTCAAGC
* * *
26477703 AGCATGCTATT-TGATAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGG
1 AGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGG
* **
26477767 TCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTAT-AAAATCACTTTTAGC
65 TCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACACTTCAAGC
*
26477827 AGGATACTTTATGAGAAGAATTTGTGAAATCGCG-CCTACGTGGACGCGCTTTTGCTACA
1 AGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCT-CGTGGACGCGCTTTTGCTACA
26477886 TTAACATGTT
Statistics
Matches: 376, Mismatches: 52, Indels: 15
0.85 0.12 0.03
Matches are distributed among these distances:
123 5 0.01
124 57 0.15
125 100 0.27
126 209 0.56
127 5 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (125 bp):
AGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGT
CCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACACTTCAAGC
Found at i:26477794 original size:251 final size:250
Alignment explanation
Indices: 26477333--26477885 Score: 779
Period size: 251 Copynumber: 2.2 Consensus size: 250
26477323 AGGAGGATGA
* * * * * **
26477333 TTTATCAGAAGGATTTTTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTACAGTAGGTCTTGGAA
1 TTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTAAAA
* * * * *
26477398 AAATAATTTCGACTTGACGTTTCTGAGAAAATAGTTTAAAAAACGCTTCAAGCAGGATGCTTTGT
66 AAATAATTTCAACTTGACGTTTCTGAGAAAATAGTATAAAAAACACTGCAAGCAGCATGCTTTGT
*
26477463 GAGAAGAATTTGTGAAATCGTGCCCTCGTGGACGCGCTTTTACTACAGTTGGTCCTGGAAGAAAT
131 GAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTTGGTCCTGGAAGAAAT
* * * * *
26477528 AATTTCGAGTTGACGTTTTTGAGCAAATAGTTTAAAAAACGCTTCAAGCAAGG-TGC
196 AATTTCGACTTGACGTTTCTGAGCAAATAGTAT-AAAAACACTTCAAGC-AGGATAC
26477584 TTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTAAAA
1 TTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTAAAA
* * * *
26477649 AAATAATTTTAAGTTTACGTTTCTGAGTAAATAGTATAAAACAACACTGCAAGCAGCATGCTATT
66 AAATAATTTCAACTTGACGTTTCTGAGAAAATAGTATAAAA-AACACTGCAAGCAGCATGCT-TT
* *
26477714 -TGATAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGGTCCTGGAA-AA
129 GTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTTGGTCCTGGAAGAA
* **
26477777 ATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAATCACTTTTAGCAGGATAC
194 ATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAACACTTCAAGCAGGATAC
* * *
26477834 TTTATGAGAAGAATTTGTGAAATCGCGCCTACGTGGACGCGCTTTTGCTACA
1 TTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACA
26477886 TTAACATGTT
Statistics
Matches: 269, Mismatches: 30, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
249 3 0.01
250 62 0.23
251 127 0.47
252 75 0.28
253 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (250 bp):
TTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTAAAA
AAATAATTTCAACTTGACGTTTCTGAGAAAATAGTATAAAAAACACTGCAAGCAGCATGCTTTGT
GAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTTGGTCCTGGAAGAAAT
AATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAACACTTCAAGCAGGATAC
Found at i:26481109 original size:22 final size:22
Alignment explanation
Indices: 26481065--26481894 Score: 883
Period size: 22 Copynumber: 38.0 Consensus size: 22
26481055 TCAAATTATA
26481065 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
26481086 TTTAAGTTAAGGGTTTTGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
26481108 TTAAAGTTAAGAGTATAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
26481130 TTAAAGTTAAGGGCTTAGGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
*
26481151 TTTAGGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
26481172 TTTAGGTTTAGGGTTTAGGGAT
1 TTTAAGTTAAGGGTTTAGGGTT
*
26481194 TTTAATTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
26481215 TTTAAGTTAAGGGTTTAGGTTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
26481237 TTTAAGTTAAGGGTCTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
26481259 TTAAAGTT-ATGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
26481280 TTTAATTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
26481301 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
26481323 TTTAAGTTAAAGGTCTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
26481345 CTAAAGTTAA-GGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
26481366 TTTAGGTTAAGTGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
26481388 TTTAATTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
26481409 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
26481431 TTTAAGTTAAGGGTCTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
26481453 TTAAAGTTAA-GGTTTTGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
26481474 TTTAGGTTAAGGG-TTAGGATT
1 TTTAAGTTAAGGGTTTAGGGTT
*
26481495 TTTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
26481517 TTT-ACTTTAGGG-CTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
26481537 TTTAAGTTAAGGGTTCAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
26481559 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
26481581 TTAAAGTTAA-GGTTTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
26481602 TTTAGGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
26481623 TTTAGGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
26481645 TTTAATTTAAGGGTTATA--GTT
1 TTTAAGTTAAGGGTT-TAGGGTT
*
26481666 TTTAAGTTAAGGGTTTACGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
26481688 TTTAGGTTAAGGGTCTAGGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
*
26481709 TTTAACGTTAAGGG-TTAGTGTT
1 TTTAA-GTTAAGGGTTTAGGGTT
* *
26481731 TTAAAGTTAATGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
**
26481752 TTTTGGTTAAGGATTTAGGTTTAGGGTT
1 TTTAAGTTAA-G-----GGTTTAGGGTT
* *
26481780 TTTAGGTTAAGGGTTTAGTGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
26481802 TTAAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
26481823 TTTAGGTTAAGGGGTTAAGGG-T
1 TTTAAGTTAA-GGGTTTAGGGTT
26481845 TTTAAGTTAAGGGTTAGGAGTAGGGTT
1 TTTAAGTTAAGGGTT-----TAGGGTT
* *
26481872 TTTAGGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
26481894 T
1 T
26481895 GTGAATTAAA
Statistics
Matches: 680, Mismatches: 95, Indels: 67
0.81 0.11 0.08
Matches are distributed among these distances:
20 18 0.03
21 283 0.42
22 333 0.49
23 7 0.01
26 4 0.01
27 18 0.03
28 17 0.03
ACGTcount: A:0.23, C:0.01, G:0.31, T:0.44
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:26481132 original size:43 final size:44
Alignment explanation
Indices: 26481065--26481894 Score: 883
Period size: 43 Copynumber: 19.0 Consensus size: 44
26481055 TCAAATTATA
*
26481065 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTTGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * * *
26481108 TTAAAGTTAAGAGTATAGGGTTTTAAAGTTAAGGGCTTAGGG-T
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
26481151 TTTAGGTTAAGGG-TTAGGGTTTTTAGGTTTAGGGTTTAGGGAT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
26481194 TTTAATTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGTTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
26481237 TTTAAGTTAAGGGTCTAGGGTTTTAAAGTT-ATGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
*
26481280 TTTAATTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
26481323 TTTAAGTTAAAGGTCTAGGGTTCTAAAGTTAA-GGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
26481366 TTTAGGTTAAGTGTTTAAGGTTTTTAATTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
*
26481409 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTCTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
26481453 TTAAAGTTAA-GGTTTTGGGTTTTTAGGTTAAGGG-TTAGGATT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
26481495 TTTAGGTTAAGGGTTTAGGGTTTTT-ACTTTAGGG-CTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
26481537 TTTAAGTTAAGGGTTCAAGGTTTTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
26481581 TTAAAGTTAA-GGTTTAGAGTTTTTAGGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* *
26481623 TTTAGGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTATA--GTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTT-TAGGGTT
* * *
26481666 TTTAAGTTAAGGGTTTACGGTTTTTAGGTTAAGGGTCTAGGG-T
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
26481709 TTTAACGTTAAGGG-TTAGTGTTTTAAAGTTAATGG-TTAGGGTT
1 TTTAA-GTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
** * *
26481752 TTTTGGTTAAGGATTTAGGTTTAGGGTTTTTAGGTTAAGGGTTTAGTGTT
1 TTTAAGTTAA-G-----GGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
26481802 TTAAAGTTAAGGG-TTAGGGTTTTTAGGTTAAGGGGTTAAGGG-T
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAA-GGGTTTAGGGTT
* *
26481845 TTTAAGTTAAGGGTTAGGAGTAGGGTTTTTAGGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTT-----TAGGGTTTTTAAGTTAAGGGTTTAGGGTT
26481894 T
1 T
26481895 GTGAATTAAA
Statistics
Matches: 650, Mismatches: 104, Indels: 60
0.80 0.13 0.07
Matches are distributed among these distances:
42 112 0.17
43 368 0.57
44 107 0.16
45 2 0.00
48 10 0.02
49 37 0.06
50 14 0.02
ACGTcount: A:0.23, C:0.01, G:0.31, T:0.44
Consensus pattern (44 bp):
TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
Found at i:26481758 original size:14 final size:14
Alignment explanation
Indices: 26481742--26481795 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
26481732 TAAAGTTAAT
*
26481742 GGTTAGGGTTTTTT
1 GGTTAGGGTTTTTA
* *
26481756 GGTTAAGG-ATTTA
1 GGTTAGGGTTTTTA
26481769 GGTTTAGGGTTTTTA
1 GG-TTAGGGTTTTTA
26481784 GGTTAAGGGTTT
1 GGTT-AGGGTTT
26481796 AGTGTTTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 5 0.16
14 14 0.44
15 13 0.41
ACGTcount: A:0.17, C:0.00, G:0.35, T:0.48
Consensus pattern (14 bp):
GGTTAGGGTTTTTA
Found at i:26481779 original size:28 final size:29
Alignment explanation
Indices: 26481744--26481802 Score: 93
Period size: 28 Copynumber: 2.1 Consensus size: 29
26481734 AAGTTAATGG
*
26481744 TTAGGGTTTTTTGGTTAAGGATTTAG-GT
1 TTAGGGTTTTTAGGTTAAGGATTTAGTGT
*
26481772 TTAGGGTTTTTAGGTTAAGGGTTTAGTGT
1 TTAGGGTTTTTAGGTTAAGGATTTAGTGT
26481801 TT
1 TT
26481803 TAAAGTTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.17, C:0.00, G:0.32, T:0.51
Consensus pattern (29 bp):
TTAGGGTTTTTAGGTTAAGGATTTAGTGT
Found at i:26481785 original size:15 final size:15
Alignment explanation
Indices: 26481744--26481795 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
26481734 AAGTTAATGG
*
26481744 TTAGGGTTTTTTGG-
1 TTAGGGTTTTTAGGT
* *
26481758 TTAAGG-ATTTAGGT
1 TTAGGGTTTTTAGGT
26481772 TTAGGGTTTTTAGGT
1 TTAGGGTTTTTAGGT
*
26481787 TAAGGGTTT
1 TTAGGGTTT
26481796 AGTGTTTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 5 0.17
14 10 0.33
15 15 0.50
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (15 bp):
TTAGGGTTTTTAGGT
Found at i:26481862 original size:92 final size:92
Alignment explanation
Indices: 26481677--26481894 Score: 278
Period size: 92 Copynumber: 2.4 Consensus size: 92
26481667 TTAAGTTAAG
* * * * *
26481677 GGTTTACGGTTTTTAGGTTAAGGGTCTAGGGTTTTAACGTTAAGGGTTAGTGTTTTAAAGTTAAT
1 GGTTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTAAAGTTAAGGGTTAGGGTTTTAAAGTTAAG
** *
26481742 GGTTAGGGTTTTTTGGTTAAGGATTTA
66 GGTTAGGGTTTTTAAGTTAAGGAGTTA
* * *
26481769 GGTTTAGGGTTTTTAGGTTAAGGGTTTAGTGTTTTAAAGTTAAGGGTTAGGGTTTTTAGGTTAAG
1 GGTTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTAAAGTTAAGGGTTAGGGTTTTAAAGTTAA-
26481834 GGGTTAAGGG-TTTTAAGTTAAGG-GTTA
65 GGGTT-AGGGTTTTTAAGTTAAGGAGTTA
** *
26481861 GGAGTAGGGTTTTTAGGTTAAGGGTTTAAGGTTT
1 GGTTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTT
26481895 GTGAATTAAA
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
92 90 0.83
93 15 0.14
94 4 0.04
ACGTcount: A:0.22, C:0.01, G:0.33, T:0.43
Consensus pattern (92 bp):
GGTTTAGGGTTTTTAGGTTAAGGGTTTAGGGTTTTAAAGTTAAGGGTTAGGGTTTTAAAGTTAAG
GGTTAGGGTTTTTAAGTTAAGGAGTTA
Done.