Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009572.1 Hibiscus syriacus cultivar Beakdansim tig00116937_pilon, whole genome shotgun sequence
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: 2529503
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 13
Found at i:1979947 original size:500 final size:499
Alignment explanation
Indices: 1979000--1979980 Score: 1471
Period size: 500 Copynumber: 2.0 Consensus size: 499
1978990 CATTGTCCTT
* *
1979000 AATGCTTACTAAAACTAAGGAAAATTAAACTACATGCTATGAAATGCAATGCAATGCAAGGTACC
1 AATGCTTACTAAAACTAAGGAAAATGAAACTACATGCTATGAAATGCAATGCAATGCAAGATACC
* *
1979065 TTGGCTTTAAGCATGTGGTGGTGCAGCGGTGGCGCGGCGAGTGCGTTTTCTTAGCTTGGCAGGGC
66 TTGGCTTTAAGCATGTGGTGGTACAGCAGTGGCGCGGCGAGTGCGTTTTCTTAGCTTGGCAGGGC
* * * * *
1979130 TAGAATGTTCAGAGTTAGACGCAGGTGTAGCTGGAGGAGTGCTAGGTCCTTCTGGAACGGCTGGG
131 TAGAATGTTCAGAGTCAGACGCAGGTGCAGCTGGAAGAGTGCTAGGTCCATCTGGAACGACTGGG
* * *
1979195 AGCGGGGGTTCCTGATACTGAAATGTCTTCCTAAGGCGACGTCAGCTCCTACGCAAATGAGCTTG
196 AGCGGGGGCTCCTGATACTAAAATGTCTTCCTAAGGCGACGTCAGCTCCTACGCAAAGGAGCTTG
* * * * * ** * *
1979260 CCGTGGCATCTCGGATTGTGACTCTTCGGTTGACTCTGTGGGTTATGGTACTTCAGGGTATGCTT
261 CCGTGGAATCTCAGATTGTGACTCATCGATTAACTCCATGGGCTATGGTACTTCAAGGTATGCTT
* * ** *
1979325 CTTCCATAGGCACGGCAAGTTGCGGCATATGAGGATGTTCAGCCGTCAGGGGTTCAACGAATTGT
326 CTTCCATAGGCACGGCAAGTTACGACATATGAGGATGTTCAGCCACCAAGGGTTCAACGAATTGT
*
1979390 GGTGGTTCCGGGATATTGGCAAGTTGGAGGTTGGCTTCTCAATCTACGTCAGGTGACACAACATG
391 GGTGGTTCCAGGATATTGGCAAGTTGGAGGTTGGCTTCTCAATCTACGTCAGGTGACACAACATG
*
1979455 GACTGGATCAGGGTAAACTGGATCGTCCACTTTAGCGGGCTGGTG
456 GACTGGATCA-GGTAAACTGAATCGTCCACTTTAGCGGGCTGGTG
1979500 AATGCTTACTAAAACTAAGGAAAATGAAACTACATGCTATGAAATGCAATGCAATGCAAGATACC
1 AATGCTTACTAAAACTAAGGAAAATGAAACTACATGCTATGAAATGCAATGCAATGCAAGATACC
* *
1979565 TTGGCTTTAAGCGTGTGGTGGTACAGCAGTGGCGCGGCGAGTGCGTTTTCTTAGCTTGGCGGGGC
66 TTGGCTTTAAGCATGTGGTGGTACAGCAGTGGCGCGGCGAGTGCGTTTTCTTAGCTTGGCAGGGC
** * * *
1979630 TAGAATGTTTGGAGTCAGACGTAGGTGCGGCTGGAAGAGTGCTAGGTCCATCTGGAATGACTGGG
131 TAGAATGTTCAGAGTCAGACGCAGGTGCAGCTGGAAGAGTGCTAGGTCCATCTGGAACGACTGGG
* **
1979695 AGCGGGGGCTCCTGATGCTAAAATGTCCTT-CTAAGGCGACGTTGGCTCCTACGCAAAGGAGCTT
196 AGCGGGGGCTCCTGATACTAAAATGT-CTTCCTAAGGCGACGTCAGCTCCTACGCAAAGGAGCTT
*
1979759 GCCGTGGAATCTCAGATTGTGACTCCAT-GATTAACTCCATGGGCTGTGGTACTTCAAGGTATGC
260 GCCGTGGAATCTCAGATTGTGACT-CATCGATTAACTCCATGGGCTATGGTACTTCAAGGTATGC
* * * *
1979823 TTCTTCCATAGGCGCGGCAGGTTACGACATATGAGGATGTTTAGCTACCAAGGGTTCAACGAATT
324 TTCTTCCATAGGCACGGCAAGTTACGACATATGAGGATGTTCAGCCACCAAGGGTTCAACGAATT
* * * ** *
1979888 GTGGTGGTTCCAGGATATTGGCGAGTTGGAGGTTGGCTTCTCGATCTATGTTGGGTGACACAATA
389 GTGGTGGTTCCAGGATATTGGCAAGTTGGAGGTTGGCTTCTCAATCTACGTCAGGTGACACAACA
*
1979953 TGGACTGGATCAGGTCAACTGAATCGTC
454 TGGACTGGATCAGGTAAACTGAATCGTC
1979981 TGTTTCAGCG
Statistics
Matches: 429, Mismatches: 50, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
499 14 0.03
500 410 0.96
501 5 0.01
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (499 bp):
AATGCTTACTAAAACTAAGGAAAATGAAACTACATGCTATGAAATGCAATGCAATGCAAGATACC
TTGGCTTTAAGCATGTGGTGGTACAGCAGTGGCGCGGCGAGTGCGTTTTCTTAGCTTGGCAGGGC
TAGAATGTTCAGAGTCAGACGCAGGTGCAGCTGGAAGAGTGCTAGGTCCATCTGGAACGACTGGG
AGCGGGGGCTCCTGATACTAAAATGTCTTCCTAAGGCGACGTCAGCTCCTACGCAAAGGAGCTTG
CCGTGGAATCTCAGATTGTGACTCATCGATTAACTCCATGGGCTATGGTACTTCAAGGTATGCTT
CTTCCATAGGCACGGCAAGTTACGACATATGAGGATGTTCAGCCACCAAGGGTTCAACGAATTGT
GGTGGTTCCAGGATATTGGCAAGTTGGAGGTTGGCTTCTCAATCTACGTCAGGTGACACAACATG
GACTGGATCAGGTAAACTGAATCGTCCACTTTAGCGGGCTGGTG
Found at i:1981205 original size:13 final size:13
Alignment explanation
Indices: 1981183--1981212 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1981173 AAGATGAAAG
*
1981183 AAAGTGAAAGTGA
1 AAAGTAAAAGTGA
1981196 AAAGTAAAAGTGA
1 AAAGTAAAAGTGA
1981209 AAAG
1 AAAG
1981213 AAGATAAGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.27, T:0.13
Consensus pattern (13 bp):
AAAGTAAAAGTGA
Found at i:1986782 original size:37 final size:37
Alignment explanation
Indices: 1986732--1986805 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
1986722 TTGAACGTGA
1986732 CAGGTTTGAGCTCGAAGTGGGATACCTGAATTTCTGG
1 CAGGTTTGAGCTCGAAGTGGGATACCTGAATTTCTGG
1986769 CAGGTTTGAGCTCGAAGTGGGATACCTGAATTTCTGG
1 CAGGTTTGAGCTCGAAGTGGGATACCTGAATTTCTGG
1986806 GGCCACTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (37 bp):
CAGGTTTGAGCTCGAAGTGGGATACCTGAATTTCTGG
Found at i:1991612 original size:6 final size:6
Alignment explanation
Indices: 1991601--1991635 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
1991591 AGAGATGAAA
*
1991601 GAAAGT GAAAGT GAAAAGT AAAAGT GAAAGT GAAA
1 GAAAGT GAAAGT G-AAAGT GAAAGT GAAAGT GAAA
1991636 AGAAGATAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.57, C:0.00, G:0.29, T:0.14
Consensus pattern (6 bp):
GAAAGT
Found at i:1991637 original size:13 final size:12
Alignment explanation
Indices: 1991601--1991635 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
1991591 AGAGATGAAA
1991601 GAAAGTGAAAGT
1 GAAAGTGAAAGT
*
1991613 GAAAAGTAAAAGT
1 G-AAAGTGAAAGT
1991626 GAAAGTGAAA
1 GAAAGTGAAA
1991636 AGAAGATAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.57, C:0.00, G:0.29, T:0.14
Consensus pattern (12 bp):
GAAAGTGAAAGT
Found at i:1994292 original size:21 final size:21
Alignment explanation
Indices: 1994268--1994312 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
1994258 CAAGTCGATC
1994268 CAACATTTGATCGATGAACGG
1 CAACATTTGATCGATGAACGG
1994289 CAACATTTGATCGATGAACGG
1 CAACATTTGATCGATGAACGG
1994310 CAA
1 CAA
1994313 AGGGAAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (21 bp):
CAACATTTGATCGATGAACGG
Found at i:2005682 original size:148 final size:150
Alignment explanation
Indices: 2005510--2005812 Score: 430
Period size: 154 Copynumber: 2.0 Consensus size: 150
2005500 AACTAATTAT
* **
2005510 AAGATAATATTTATTTAGAATTTTTTAATATTTTG-AT-TATATATATATGGGATAGGATCTTGT
1 AAGATAATATTTATTTAGAATTTTTAAATATTTTGTATATATATATATATAAGATAGGATCTTGT
* * * **
2005573 TACACAATGTAAAATTCTTTTACTTTTATACAGATTTAGTATCGTTGGATGGGTGAAAATAGATG
66 TACACAATGTAAAACTCTTTTACTTTTATACAAATTTAGGATCGTTGGATAAGTGAAAATAGATG
2005638 ACTCAGATTAACAGTATGAC
131 ACTCAGATTAACAGTATGAC
*
2005658 AAGATAATATTTATTTAGAATTTTTAAATATTTTGATTATATATATATATATATAAGATATGATC
1 AAGATAATATTTATTTAGAATTTTTAAATATTTTG----TATATATATATATATAAGATAGGATC
* * *
2005723 TTGTTATACAGTGTAAAACTCTTTTACTTTTATACAAATTTAGGATTGTTGGATAAGTGAAAATA
62 TTGTTACACAATGTAAAACTCTTTTACTTTTATACAAATTTAGGATCGTTGGATAAGTGAAAATA
* *
2005788 GATGATTGAGATTAACAGTATGAC
127 GATGACTCAGATTAACAGTATGAC
2005812 A
1 A
2005813 TTAGAAGATA
Statistics
Matches: 135, Mismatches: 14, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
148 34 0.25
153 2 0.01
154 99 0.73
ACGTcount: A:0.37, C:0.06, G:0.15, T:0.42
Consensus pattern (150 bp):
AAGATAATATTTATTTAGAATTTTTAAATATTTTGTATATATATATATATAAGATAGGATCTTGT
TACACAATGTAAAACTCTTTTACTTTTATACAAATTTAGGATCGTTGGATAAGTGAAAATAGATG
ACTCAGATTAACAGTATGAC
Found at i:2008696 original size:2 final size:2
Alignment explanation
Indices: 2008689--2008738 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
2008679 TTATAAGATA
2008689 AT AT AT AT 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 AT AT AT AT
2008731 AT AT AT AT
1 AT AT AT AT
2008739 CAGAATTTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2009211 original size:14 final size:13
Alignment explanation
Indices: 2009188--2009219 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
2009178 AAAGTTTAAT
2009188 TATTAAAATATAA
1 TATTAAAATATAA
2009201 TATTAATAATATAA
1 TATTAA-AATATAA
2009215 TATTA
1 TATTA
2009220 TACTTTTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TATTAAAATATAA
Found at i:2009267 original size:25 final size:24
Alignment explanation
Indices: 2009239--2009310 Score: 59
Period size: 25 Copynumber: 3.2 Consensus size: 24
2009229 GTATTATAAC
2009239 AATATTCTTATTTTAATAAGTAATT
1 AATATTCTTATTTTAATAA-TAATT
*
2009264 AATA----TA-ATTAATAAT-A-T
1 AATATTCTTATTTTAATAATAATT
*
2009281 AATATTCTTATTTTAGTAAATAATT
1 AATATTCTTATTTTAAT-AATAATT
2009306 AATAT
1 AATAT
2009311 AATTTTTCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 16
0.65 0.05 0.29
Matches are distributed among these distances:
17 5 0.14
18 1 0.03
19 1 0.03
20 7 0.19
21 4 0.11
22 4 0.11
23 3 0.08
24 1 0.03
25 10 0.28
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (24 bp):
AATATTCTTATTTTAATAATAATT
Found at i:2009385 original size:14 final size:13
Alignment explanation
Indices: 2009355--2009403 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
2009345 ATTTTTATTT
*
2009355 ATAAAATTTTAGAA
1 ATAATATTTTA-AA
2009369 ATAATATTTTAATA
1 ATAATATTTTAA-A
**
2009383 ATAATATTGGAAA
1 ATAATATTTTAAA
2009396 ATAATATT
1 ATAATATT
2009404 AACTAATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 10 0.32
14 21 0.68
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (13 bp):
ATAATATTTTAAA
Found at i:2009708 original size:18 final size:18
Alignment explanation
Indices: 2009685--2009729 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
2009675 AAATACAACC
*
2009685 TACATGCCCCTCCCTAAT
1 TACATGCACCTCCCTAAT
*
2009703 TACATGCACCTCTCTAAT
1 TACATGCACCTCCCTAAT
2009721 TACATGCAC
1 TACATGCAC
2009730 TGTACTCCGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.27, C:0.38, G:0.07, T:0.29
Consensus pattern (18 bp):
TACATGCACCTCCCTAAT
Found at i:2010509 original size:36 final size:36
Alignment explanation
Indices: 2010407--2010512 Score: 126
Period size: 36 Copynumber: 2.9 Consensus size: 36
2010397 CCTTAGCTCC
*
2010407 ATAAGGAATTACAAGCTGATCGATGTTGAACCT-AT
1 ATAAGGAATTACCAGCTGATCGATGTTGAACCTGAT
* ***
2010442 ATAAGGAATTACCAGCTTGATCAAAACTGAACCTGCA-
1 ATAAGGAATTACCAGC-TGATCGATGTTGAACCTG-AT
*
2010479 ATAAGGAATTACCAGCTGATCGGTGTTGAACCTG
1 ATAAGGAATTACCAGCTGATCGATGTTGAACCTG
2010513 TAGAGACTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
35 15 0.26
36 26 0.45
37 16 0.28
38 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (36 bp):
ATAAGGAATTACCAGCTGATCGATGTTGAACCTGAT
Found at i:2013187 original size:20 final size:20
Alignment explanation
Indices: 2013162--2013201 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2013152 TGCAAAATGG
2013162 GTATCGATACCT-CTACAGTA
1 GTATCGATA-CTGCTACAGTA
2013182 GTATCGATACTGCTACAGTA
1 GTATCGATACTGCTACAGTA
2013202 AAATCAAGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (20 bp):
GTATCGATACTGCTACAGTA
Found at i:2014024 original size:162 final size:162
Alignment explanation
Indices: 2013757--2014081 Score: 634
Period size: 162 Copynumber: 2.0 Consensus size: 162
2013747 ACGTTTAACA
2013757 TCGATGATTAGTTGGGGTTGCATCGAGGCGGCCTGGCACTTCGATTGTAGGTGGCGGTGACCTGC
1 TCGATGATTAGTTGGGGTTGCATCGAGGCGGCCTGGCACTTCGATTGTAGGTGGCGGTGACCTGC
2013822 ACTGCCAGGCGAATGAGGGTGGATCGACAAAGGGAGGGCGACGTGCTAGGGATTGAGGGAAGAAT
66 ACTGCCAGGCGAATGAGGGTGGATCGACAAAGGGAGGGCGACGTGCTAGGGATTGAGGGAAGAAT
2013887 TTGGGAATTTTCTCACACTGGGGGGTTT-TGGT
131 TTGGGAATTTTCTCACACT-GGGGGTTTCTGGT
2013919 TCGATGATTAGTTGGGGTTGCATCGAGGCGGCCTGGCACTTCGATTGTAGGTGGCGGTGACCTGC
1 TCGATGATTAGTTGGGGTTGCATCGAGGCGGCCTGGCACTTCGATTGTAGGTGGCGGTGACCTGC
2013984 ACTGCCAGGCGAATGAGGGTGGATCGACAAAGGGAGGGCGACGTGCTAGGGATTGAGGGAAGAAT
66 ACTGCCAGGCGAATGAGGGTGGATCGACAAAGGGAGGGCGACGTGCTAGGGATTGAGGGAAGAAT
2014049 TTGGGAATTTTCTCACACTGGGGGTTTCTGGT
131 TTGGGAATTTTCTCACACTGGGGGTTTCTGGT
2014081 T
1 T
2014082 TTTGGGTACC
Statistics
Matches: 162, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
161 8 0.05
162 154 0.95
ACGTcount: A:0.20, C:0.16, G:0.39, T:0.25
Consensus pattern (162 bp):
TCGATGATTAGTTGGGGTTGCATCGAGGCGGCCTGGCACTTCGATTGTAGGTGGCGGTGACCTGC
ACTGCCAGGCGAATGAGGGTGGATCGACAAAGGGAGGGCGACGTGCTAGGGATTGAGGGAAGAAT
TTGGGAATTTTCTCACACTGGGGGTTTCTGGT
Found at i:2014106 original size:23 final size:23
Alignment explanation
Indices: 2014080--2014130 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
2014070 GGGTTTCTGG
**
2014080 TTTTTGGGTACCACCATATTTTA
1 TTTTTGGCAACCACCATATTTTA
**
2014103 TTTTTTTCAACCACCATATTTTA
1 TTTTTGGCAACCACCATATTTTA
2014126 TTTTT
1 TTTTT
2014131 TTCAACTGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.06, T:0.55
Consensus pattern (23 bp):
TTTTTGGCAACCACCATATTTTA
Found at i:2014131 original size:23 final size:23
Alignment explanation
Indices: 2014089--2014136 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
2014079 GTTTTTGGGT
2014089 ACCACCATATTTTATTTTTTTCA
1 ACCACCATATTTTATTTTTTTCA
2014112 ACCACCATATTTTATTTTTTTCA
1 ACCACCATATTTTATTTTTTTCA
2014135 AC
1 AC
2014137 TGATCAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (23 bp):
ACCACCATATTTTATTTTTTTCA
Found at i:2020168 original size:69 final size:69
Alignment explanation
Indices: 2020057--2020201 Score: 218
Period size: 69 Copynumber: 2.1 Consensus size: 69
2020047 AGTCTGGAAC
* * * *
2020057 AAATAAGGCATTAAATTCTACTTACTGAACCATAAACAGTACAAATCTAAAATTGAAAATTAAAT
1 AAATAAGACATTAAATTCTACTTACTGAACCACAAACAGTACAAATCTAAAAATAAAAATTAAAT
2020122 GAAT
66 GAAT
* * * *
2020126 AAATAAGATATTAAATTCTACTTACTGTACCACAAATAGTACAATTCTAAAAATAAAAATTAAAT
1 AAATAAGACATTAAATTCTACTTACTGAACCACAAACAGTACAAATCTAAAAATAAAAATTAAAT
2020191 GAAT
66 GAAT
2020195 AAATAAG
1 AAATAAG
2020202 GCACAGAGAT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.52, C:0.12, G:0.08, T:0.28
Consensus pattern (69 bp):
AAATAAGACATTAAATTCTACTTACTGAACCACAAACAGTACAAATCTAAAAATAAAAATTAAAT
GAAT
Found at i:2029472 original size:133 final size:132
Alignment explanation
Indices: 2029286--2029549 Score: 438
Period size: 133 Copynumber: 2.0 Consensus size: 132
2029276 ATAGTTAAAG
* *
2029286 TTACCATAGAATTCGCCCTTTCAATTTAAACAATATTTTACAGAGGAGGGAATAAATACTAAATA
1 TTACCATAGAATTAGCCCTTTCAATTTAAACAATATTTTACAGAGGAGAGAATAAATACTAAATA
* * *
2029351 GGAAGTCGGTAAATGCTATGCTACTCTGCTGTCGTAATTCGCTCAAAGCACCTGTTAAAGTTACC
66 GGAAGTCGGTAAATGCAATGCTACTATGCTGTCGTAACTCGCTCAAAGCACCTGTT-AAGTTACC
2029416 AAC
130 AAC
*
2029419 TTACCATAGAATTAGCCCTTTCAATTTAAACAATATTTTACAGAGGTGAGAATAAATACTAAATA
1 TTACCATAGAATTAGCCCTTTCAATTTAAACAATATTTTACAGAGGAGAGAATAAATACTAAATA
* * *
2029484 GGAAGTTGGTAAATGCAATGCTACTATGCTGTCGTAACTCTCTCAAAGCACTTGTTAAGTTACCA
66 GGAAGTCGGTAAATGCAATGCTACTATGCTGTCGTAACTCGCTCAAAGCACCTGTTAAGTTACCA
2029549 A
131 A
2029550 AGAATTTAAA
Statistics
Matches: 122, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
132 10 0.08
133 112 0.92
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (132 bp):
TTACCATAGAATTAGCCCTTTCAATTTAAACAATATTTTACAGAGGAGAGAATAAATACTAAATA
GGAAGTCGGTAAATGCAATGCTACTATGCTGTCGTAACTCGCTCAAAGCACCTGTTAAGTTACCA
AC
Found at i:2040060 original size:13 final size:13
Alignment explanation
Indices: 2040042--2040071 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2040032 TTATTTAAGC
*
2040042 TATGTTTTATGAT
1 TATGTTATATGAT
2040055 TATGTTATATGAT
1 TATGTTATATGAT
2040068 TATG
1 TATG
2040072 GAAATGTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (13 bp):
TATGTTATATGAT
Found at i:2040265 original size:21 final size:21
Alignment explanation
Indices: 2040241--2040330 Score: 60
Period size: 21 Copynumber: 4.2 Consensus size: 21
2040231 GGGTTCTATA
2040241 TGGTCATTCGGGATAATTATG
1 TGGTCATTCGGGATAATTATG
* * *
2040262 TGGTCCTTC-AGAAATATTATG
1 TGGTCATTCGGGATA-ATTATG
*
2040283 TGGT-ATTTTGGTGCA-AATATATG
1 TGGTCA-TTCGG-G-ATAAT-TATG
* *
2040306 GGGTCATTTGGGATAATTATG
1 TGGTCATTCGGGATAATTATG
2040327 TGGT
1 TGGT
2040331 ACTTTGGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
20 3 0.06
21 28 0.53
22 6 0.11
23 14 0.26
24 2 0.04
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (21 bp):
TGGTCATTCGGGATAATTATG
Found at i:2040315 original size:23 final size:22
Alignment explanation
Indices: 2040277--2040346 Score: 65
Period size: 21 Copynumber: 3.2 Consensus size: 22
2040267 CTTCAGAAAT
* *
2040277 ATTATGTGGTATTTTGGTGCAA
1 ATTATGGGGTACTTTGGTGCAA
2040299 ATATATGGGGT-CATTTGG-G-ATA
1 AT-TATGGGGTAC-TTTGGTGCA-A
*
2040321 ATTATGTGGTACTTTGGTGCAA
1 ATTATGGGGTACTTTGGTGCAA
2040343 ATTA
1 ATTA
2040347 CGAGCTGTGG
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
21 13 0.33
22 13 0.33
23 13 0.33
ACGTcount: A:0.26, C:0.06, G:0.27, T:0.41
Consensus pattern (22 bp):
ATTATGGGGTACTTTGGTGCAA
Found at i:2042935 original size:22 final size:22
Alignment explanation
Indices: 2042907--2042948 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
2042897 CGAGGTCATT
2042907 GTGACAAATCCATTATGACATA
1 GTGACAAATCCATTATGACATA
*
2042929 GTGACAAATCCATTGTGACA
1 GTGACAAATCCATTATGACA
2042949 AGAACCTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (22 bp):
GTGACAAATCCATTATGACATA
Found at i:2045078 original size:20 final size:20
Alignment explanation
Indices: 2045053--2045099 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
2045043 AAAAAGGATT
2045053 AATGAAATAAGAAATGA-AAG-
1 AATGAAAT--GAAATGATAAGA
2045073 AATGAAATGAAATGATAAGA
1 AATGAAATGAAATGATAAGA
2045093 AATGAAA
1 AATGAAA
2045100 GGCATAGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.28
19 3 0.12
20 15 0.60
ACGTcount: A:0.64, C:0.00, G:0.19, T:0.17
Consensus pattern (20 bp):
AATGAAATGAAATGATAAGA
Found at i:2045094 original size:10 final size:9
Alignment explanation
Indices: 2045061--2045100 Score: 55
Period size: 10 Copynumber: 4.3 Consensus size: 9
2045051 TTAATGAAAT
2045061 AAGAAATGA
1 AAGAAATGA
2045070 AAG-AATGA
1 AAGAAATGA
2045078 AATGAAATGA
1 AA-GAAATGA
2045088 TAAGAAATGA
1 -AAGAAATGA
2045098 AAG
1 AAG
2045101 GCATAGAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 7 0.25
9 7 0.25
10 12 0.43
11 2 0.07
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (9 bp):
AAGAAATGA
Found at i:2052015 original size:20 final size:20
Alignment explanation
Indices: 2051992--2052045 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
2051982 CTGGGTTGAG
2051992 AGTATCGATACCATGGGTAT
1 AGTATCGATACCATGGGTAT
2052012 AGTATCGATACCATGGGTAT
1 AGTATCGATACCATGGGTAT
2052032 AGTATCGATACCAT
1 AGTATCGATACCAT
2052046 TTTTGACATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (20 bp):
AGTATCGATACCATGGGTAT
Found at i:2052498 original size:13 final size:13
Alignment explanation
Indices: 2052480--2052509 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2052470 TTATTTAAGC
2052480 TATGTTTTATGAT
1 TATGTTTTATGAT
*
2052493 TATGTTTTATGTT
1 TATGTTTTATGAT
2052506 TATG
1 TATG
2052510 GAAATGTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.17, T:0.63
Consensus pattern (13 bp):
TATGTTTTATGAT
Found at i:2052694 original size:21 final size:21
Alignment explanation
Indices: 2052668--2052746 Score: 117
Period size: 21 Copynumber: 3.8 Consensus size: 21
2052658 GTCGAGGGTT
*
2052668 TTATGTGGTCCTTCAGG-ATAA
1 TTATGTGGTCCTTCGGGAAT-A
2052689 TTATGTGGTCCTTCGGGAATA
1 TTATGTGGTCCTTCGGGAATA
2052710 TTATGTGGTCCTTCGGGAATA
1 TTATGTGGTCCTTCGGGAATA
2052731 TTATGTGG-CACTTCGG
1 TTATGTGGTC-CTTCGG
2052747 TGCAAACCTA
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
20 1 0.02
21 52 0.95
22 2 0.04
ACGTcount: A:0.19, C:0.15, G:0.28, T:0.38
Consensus pattern (21 bp):
TTATGTGGTCCTTCGGGAATA
Found at i:2052778 original size:44 final size:44
Alignment explanation
Indices: 2052669--2052796 Score: 142
Period size: 44 Copynumber: 3.0 Consensus size: 44
2052659 TCGAGGGTTT
* *
2052669 TATGTGGTCCTTCAGG-ATAATTATGTGGTC-CTTCGG-G-AATA-T
1 TATGTGGTCCTTCGGGAAT-ATTATGTGG-CACTTCGGTGCAA-ACC
2052711 TATGTGGTCCTTCGGGAATATTATGTGGCACTTCGGTGCAAACC
1 TATGTGGTCCTTCGGGAATATTATGTGGCACTTCGGTGCAAACC
* *
2052755 TATGTGGTCGTTTGGGACA-ATTATGTGGCACTTCGGTGCAAA
1 TATGTGGTCCTTCGGGA-ATATTATGTGGCACTTCGGTGCAAA
2052797 TTATGAGTTG
Statistics
Matches: 76, Mismatches: 4, Indels: 10
0.84 0.04 0.11
Matches are distributed among these distances:
41 1 0.01
42 30 0.39
43 4 0.05
44 40 0.53
45 1 0.01
ACGTcount: A:0.21, C:0.16, G:0.28, T:0.34
Consensus pattern (44 bp):
TATGTGGTCCTTCGGGAATATTATGTGGCACTTCGGTGCAAACC
Found at i:2053353 original size:2 final size:2
Alignment explanation
Indices: 2053346--2053388 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
2053336 CCTTATTTGT
2053346 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2053388 T
1 T
2053389 GATTTGAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2054685 original size:3 final size:3
Alignment explanation
Indices: 2054677--2054768 Score: 184
Period size: 3 Copynumber: 30.7 Consensus size: 3
2054667 TTAAAAGAAC
2054677 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2054725 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2054769 AGATTATTGC
Statistics
Matches: 89, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 89 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2059245 original size:62 final size:61
Alignment explanation
Indices: 2059152--2059278 Score: 173
Period size: 62 Copynumber: 2.1 Consensus size: 61
2059142 ATTTTTTTAG
* *
2059152 TCGAATTTATAAAATTACAACTCAAAGTCAATTCAAATCAAAGTTTTTCGAGTCGAGTCGAA
1 TCGAATTTATAAAATTACAACTCAAAGTCAATTCAAAACAAAGTTTTT-GAGTCAAGTCGAA
* * * * * *
2059214 TCGAATTTATGAAATTATAATTCAAATTCAATTCAAAACGAAGTTTTTGAGTCAAGTCGAG
1 TCGAATTTATAAAATTACAACTCAAAGTCAATTCAAAACAAAGTTTTTGAGTCAAGTCGAA
2059275 TCGA
1 TCGA
2059279 GTTTTACTCA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
61 15 0.26
62 42 0.74
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (61 bp):
TCGAATTTATAAAATTACAACTCAAAGTCAATTCAAAACAAAGTTTTTGAGTCAAGTCGAA
Found at i:2059779 original size:3 final size:3
Alignment explanation
Indices: 2059771--2059837 Score: 125
Period size: 3 Copynumber: 22.0 Consensus size: 3
2059761 TTTCGTCCCG
2059771 TTA TTA TTA TTA TTA TTA TTA TTA TTAA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
2059817 TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA
2059838 CCAAGCTTTA
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 60 0.95
4 3 0.05
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:2060046 original size:26 final size:26
Alignment explanation
Indices: 2060007--2060078 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 26
2059997 CCTCAGTTGC
* * *
2060007 CCAAACCCAGGCCACCTTCGTCTGCA
1 CCAATCCCACGCCACCTTCATCTGCA
* *
2060033 CCAATCCC-CTGCCACCATCATCTGCC
1 CCAATCCCAC-GCCACCTTCATCTGCA
*
2060059 CCAGTCCCACGCCACCTTCA
1 CCAATCCCACGCCACCTTCA
2060079 CTACCACTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
26 36 0.97
27 1 0.03
ACGTcount: A:0.21, C:0.51, G:0.11, T:0.17
Consensus pattern (26 bp):
CCAATCCCACGCCACCTTCATCTGCA
Found at i:2060818 original size:75 final size:76
Alignment explanation
Indices: 2060667--2060825 Score: 202
Period size: 75 Copynumber: 2.1 Consensus size: 76
2060657 TTGCAAAATG
* * * *
2060667 GTCA-CTGTAGGGACTAGTTTTATAATTTACCCATTTCTTATGCATATTATATTTTTTTGGCTTA
1 GTCACCTGTAGGGACCAATTTTATAATTTACCCACTTCTTATGCATATTATATTTTTTAGGCTTA
2060731 ATTTATGTTTA
66 ATTTATGTTTA
* *
2060742 GTCACCTGTAGGGACCAATTTTATAATTTACCCACTT-TTATGCAT-GTATATATTTTTAGGGTT
1 GTCACCTGTAGGGACCAATTTTATAATTTACCCACTTCTTATGCATATTATAT-TTTTTAGGCTT
*
2060805 -ATTTGTTGTTTA
65 AATTT-ATGTTTA
2060817 GTC-CCTGTA
1 GTCACCTGTA
2060826 TGTTTAGCGT
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
74 15 0.20
75 30 0.41
76 29 0.39
ACGTcount: A:0.23, C:0.14, G:0.15, T:0.48
Consensus pattern (76 bp):
GTCACCTGTAGGGACCAATTTTATAATTTACCCACTTCTTATGCATATTATATTTTTTAGGCTTA
ATTTATGTTTA
Found at i:2061901 original size:131 final size:131
Alignment explanation
Indices: 2061666--2062276 Score: 714
Period size: 131 Copynumber: 4.7 Consensus size: 131
2061656 TGAGATAGTA
* * * * *
2061666 ATATCTTTTCATTTCGGTTGGAGTAATAAACGACTGCTTTAAGGCATGAGAGGTCATTTATTCTC
1 ATATCTCTTCATTTCGATTGGAGCAATAAATGATTGCTTTAAGGCATGAGAGGTCATTTATTCTC
* * * * *
2061731 AATTGGAAATAATTCT-ATATTATCATTCTCC-CTCAAATTAATATTTATTTTT-AGAATGGAAT
66 GATTGGAAATAATT-TGATATTATCGTT-TCCTCCCGAATTAATATTGATTTTTAAG-ATGGAAT
2061793 AATG
128 AATG
*
2061797 ATATCTCTTCATTTCGATTGGAGCAATAAATGATTGCTTTAAGGCATGAGATGTCATTTATTCTC
1 ATATCTCTTCATTTCGATTGGAGCAATAAATGATTGCTTTAAGGCATGAGAGGTCATTTATTCTC
* *
2061862 GATTGGAAATAATTTGATATTGTCGTTTCCTCCCGAATTAATATTGATTTTTAAGATAGAATAAT
66 GATTGGAAATAATTTGATATTATCGTTTCCTCCCGAATTAATATTGATTTTTAAGATGGAATAAT
2061927 G
131 G
* *
2061928 ACATCTATTCATTTCGATTGGAGCAATAAATGATTGCTTTAAGGCATGAGAGGTCATTTATTCTC
1 ATATCTCTTCATTTCGATTGGAGCAATAAATGATTGCTTTAAGGCATGAGAGGTCATTTATTCTC
* *** **
2061993 GATTGGAAATAATTTGATATTGTCGTTTCCTCCCGAATTAATATTGATTTTTAAGACATAATTGT
66 GATTGGAAATAATTTGATATTATCGTTTCCTCCCGAATTAATATTGATTTTTAAGATGGAATAAT
2062058 G
131 G
* * * *
2062059 ATATCTCTTCATTTCGATTAGAGCAATAAATGACTGCTTTAAGGTATGAGAGGTCATTCATTCTC
1 ATATCTCTTCATTTCGATTGGAGCAATAAATGATTGCTTTAAGGCATGAGAGGTCATTTATTCTC
* * * * * * * * *
2062124 AATTGGAAATCATTAGATATTACCGTTTCCACTCGAA--AATATTGAATTTTAAGACGAAATAGT
66 GATTGGAAATAATTTGATATTATCGTTTCCTCCCGAATTAATATTGATTTTTAAGATGGAATA--
2062187 AT-
129 ATG
* * ** * * * * *
2062189 ATATATCTTCATTT-GAATAAAGTAATAAATGTTTGTTTTAAGGCATGAAAGGTCGTTTATTCTC
1 ATATCTCTTCATTTCGATTGGAGCAATAAATGATTGCTTTAAGGCATGAGAGGTCATTTATTCTC
* * *
2062253 GGTTGAAAATAATTAGATATTATC
66 GATTGGAAATAATTTGATATTATC
2062277 ATTTTTATCT
Statistics
Matches: 421, Mismatches: 54, Indels: 12
0.86 0.11 0.02
Matches are distributed among these distances:
129 79 0.19
130 17 0.04
131 323 0.77
132 2 0.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.39
Consensus pattern (131 bp):
ATATCTCTTCATTTCGATTGGAGCAATAAATGATTGCTTTAAGGCATGAGAGGTCATTTATTCTC
GATTGGAAATAATTTGATATTATCGTTTCCTCCCGAATTAATATTGATTTTTAAGATGGAATAAT
G
Found at i:2068520 original size:41 final size:42
Alignment explanation
Indices: 2068421--2068520 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 42
2068411 TAAGAAGTCT
* * *
2068421 TTCGGGCCAT-CAGTAAGTCTTTCGAGCATGATGCTTAAATCC
1 TTCGGGCCATCCA-TAAGCCTTTCGAGCAAGATGCATAAATCC
** * **
2068463 TTCGGTTCATCTATAAGCCTTTCGAGCAAGATG-ATATGTCC
1 TTCGGGCCATCCATAAGCCTTTCGAGCAAGATGCATAAATCC
2068504 TTCGGGCCATCCATAAG
1 TTCGGGCCATCCATAAG
2068521 TCATTCGGGC
Statistics
Matches: 46, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
41 19 0.41
42 26 0.57
43 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (42 bp):
TTCGGGCCATCCATAAGCCTTTCGAGCAAGATGCATAAATCC
Found at i:2068936 original size:93 final size:93
Alignment explanation
Indices: 2068826--2069024 Score: 247
Period size: 93 Copynumber: 2.1 Consensus size: 93
2068816 GATTCAATCA
* * * * * *
2068826 TCCCTGAGGAACAGTGGAATGAATCGACAA-TTTCAGATCTGATTTTCCCTCAAGAAAAAGTGAA
1 TCCCTGAGTAACAGTGGAATAAAT-AAAAAGTTCCAGATCTGATTTTCCCTCAAGAAAAAGCGAA
* *
2068890 ACGGATCCATCTCTTTCAAAATTTGATAT
65 ACAGATCCATCTCCTTCAAAATTTGATAT
* * *
2068919 TCCCTGAGTAACAGTGGAATAAATAAAAAGTTCCAGATCTGATTTTCCCTCAATAAGAAGCGGAA
1 TCCCTGAGTAACAGTGGAATAAATAAAAAGTTCCAGATCTGATTTTCCCTCAAGAAAAAGCGAAA
* * * *
2068984 CATATCCCTCTCCTTCAAGATTTGATGT
66 CAGATCCATCTCCTTCAAAATTTGATAT
2069012 TCCCTGAGTAACA
1 TCCCTGAGTAACA
2069025 ATATAATAAG
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
92 3 0.03
93 87 0.97
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.29
Consensus pattern (93 bp):
TCCCTGAGTAACAGTGGAATAAATAAAAAGTTCCAGATCTGATTTTCCCTCAAGAAAAAGCGAAA
CAGATCCATCTCCTTCAAAATTTGATAT
Found at i:2069168 original size:134 final size:134
Alignment explanation
Indices: 2068951--2069673 Score: 818
Period size: 133 Copynumber: 5.5 Consensus size: 134
2068941 ATAAAAAGTT
* * * * *
2068951 CCAGATCTGATTTTCCCTCAATAAGAAGCGGAACATATCCCTCTCCTTCAAGATTTGATGTTCCC
1 CCAGATCTGATTTTCCCTCAAGAAGAAGTGGAACAAATCCCTCTCTTTCAAGATTTGATATTCCC
* ** * * * * *
2069016 TGAGTAACAATATAATAAGTCTGCCTCGATTCAATCTTCCATGAAGAACAGTGGAATAAATCAAC
66 TGAGTAACAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAAC
*
2069081 ACCC
131 ATCC
* * * * *
2069085 CCAAATCTGATTTTCCCTCAATAA-AATATAGAACAAATCCCTCTCTTTCAAGAGTTGATATTCC
1 CCAGATCTGATTTTCCCTCAAGAAGAA-GTGGAACAAATCCCTCTCTTTCAAGATTTGATATTCC
* * * * *
2069149 CTGAGTAACAATGGAATAAGTCTACCTCGGTTCAATCTTCCCTGAAGAATAATAGAATGAATCAA
65 CTGAGTAACAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAA
*
2069214 CGTCC
130 CATCC
* ** *
2069219 CCATATCTGATTTTCCCTCAAGAAGAAGCAGAACATATCCCTCTCTTTCAAGATTTGATA-TCCC
1 CCAGATCTGATTTTCCCTCAAGAAGAAGTGGAACAAATCCCTCTCTTTCAAGATTTGATATTCCC
* *
2069283 TGAGTAACAGTGGAACAAGTCTACCTAGATTCAATCTTCCCTGAAGAACAATGAAATGAATCAAC
66 TGAGTAACAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAAC
* *
2069348 GTCT
131 ATCC
* * *
2069352 CCAGATATGATTTTCCCTCAAGAAGAAGTGGAACAAATCCATCTCTTTC-AGATTTGATATTCCA
1 CCAGATCTGATTTTCCCTCAAGAAGAAGTGGAACAAATCCCTCTCTTTCAAGATTTGATATTCCC
*
2069416 T--GTAACAGTGG-ACAAG------TC----CAATCTT-CCTGAAGAACAATGAAATGAATCAAC
66 TGAGTAACAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAAC
* *
2069467 GTCT
131 ATCC
* *
2069471 CCAGATATGATTTTCCCTCAAGAAGAAGTGGAACAAATCCATCTCTTTCAAGATTTGATATTCCC
1 CCAGATCTGATTTTCCCTCAAGAAGAAGTGGAACAAATCCCTCTCTTTCAAGATTTGATATTCCC
* * * * *
2069536 TGAGTAACAGTGG-ACAAGTCTCCCTCAATTCAATCTTCCCTGAATAACAGTGGAATGAATCAAT
66 TGAGTAACAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAAC
2069600 ATCC
131 ATCC
* * ** * *
2069604 CCAGATCTGATTTTCCATCAAGAAAAAGTGGAACAGGTCCCTCGT-TTTCAAGATTTCATCTTCC
1 CCAGATCTGATTTTCCCTCAAGAAGAAGTGGAACAAATCCCTC-TCTTTCAAGATTTGATATTCC
*
2069668 ATGAGT
65 CTGAGT
2069674 TATTATAATT
Statistics
Matches: 514, Mismatches: 57, Indels: 37
0.85 0.09 0.06
Matches are distributed among these distances:
119 79 0.15
120 22 0.04
122 15 0.03
124 1 0.00
128 2 0.00
130 5 0.01
131 10 0.02
132 17 0.03
133 197 0.38
134 164 0.32
135 2 0.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (134 bp):
CCAGATCTGATTTTCCCTCAAGAAGAAGTGGAACAAATCCCTCTCTTTCAAGATTTGATATTCCC
TGAGTAACAGTGGAACAAGTCTACCTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAAC
ATCC
Found at i:2069627 original size:252 final size:253
Alignment explanation
Indices: 2069181--2069638 Score: 699
Period size: 252 Copynumber: 1.8 Consensus size: 253
2069171 TACCTCGGTT
* * *
2069181 CAATCTTCCCTGAAGAATAATAGAATGAATCAACGTCCCCATATCTGATTTTCCCTCAAGAAGAA
1 CAATCTTCCCTGAAGAACAATAGAATGAATCAACGTCCCCAGATATGATTTTCCCTCAAGAAGAA
* *
2069246 GCAGAACATATCCCTCTCTTTCAAGATTTGATATCCCTGAGTAACAGTGGAACAAGTCTACCTAG
66 GCAGAACAAATCCATCTCTTTCAAGATTTGATATCCCTGAGTAACAGTGGAACAAGTCTACCTAG
* * *
2069311 ATTCAATCTTCCCTGAAGAACAATGAAATGAATCAACGTCTCCAGATATGATTTTCCCTCAAGAA
131 ATTCAATCTTCCCTGAAGAACAATGAAATGAATCAACATCCCCAGATATGATTTTCCATCAAGAA
*
2069376 GAAGTGGAACAAATCCATCTCTTTCAGATTTGATATTCCATGTAACAGTGGACAAGTC
196 AAAGTGGAACAAATCCATCTCTTTCAGATTTGATATTCCATGTAACAGTGGACAAGTC
*
2069434 CAATCTT-CCTGAAGAACAAT-GAAATGAATCAACGTCTCCAGATATGATTTTCCCTCAAGAAGA
1 CAATCTTCCCTGAAGAACAATAG-AATGAATCAACGTCCCCAGATATGATTTTCCCTCAAGAAGA
** *
2069497 AGTGGAACAAATCCATCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGG-ACAAGTCTCCCT
65 AGCAGAACAAATCCATCTCTTTCAAGATTTGATA-TCCCTGAGTAACAGTGGAACAAGTCTACCT
* * * * *
2069561 CA-ATTCAATCTTCCCTGAATAACAGTGGAATGAATCAATATCCCCAGATCTGATTTTCCATCAA
129 -AGATTCAATCTTCCCTGAAGAACAATGAAATGAATCAACATCCCCAGATATGATTTTCCATCAA
2069625 GAAAAAGTGGAACA
193 GAAAAAGTGGAACA
2069639 GGTCCCTCGT
Statistics
Matches: 184, Mismatches: 18, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
251 1 0.01
252 158 0.86
253 25 0.14
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (253 bp):
CAATCTTCCCTGAAGAACAATAGAATGAATCAACGTCCCCAGATATGATTTTCCCTCAAGAAGAA
GCAGAACAAATCCATCTCTTTCAAGATTTGATATCCCTGAGTAACAGTGGAACAAGTCTACCTAG
ATTCAATCTTCCCTGAAGAACAATGAAATGAATCAACATCCCCAGATATGATTTTCCATCAAGAA
AAAGTGGAACAAATCCATCTCTTTCAGATTTGATATTCCATGTAACAGTGGACAAGTC
Found at i:2069687 original size:3 final size:3
Alignment explanation
Indices: 2069673--2069714 Score: 57
Period size: 3 Copynumber: 13.7 Consensus size: 3
2069663 CTTCCATGAG
* *
2069673 TTA TTA TAA TTA TTA TTA GTTA TTA TTA TTA TCA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TT
2069715 TTTAGGCTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:2071619 original size:66 final size:67
Alignment explanation
Indices: 2071543--2071675 Score: 259
Period size: 66 Copynumber: 2.0 Consensus size: 67
2071533 TCAAAGAATA
2071543 TTTTTGTAGGGGATCTTCAATTAAATTAGACTCAAACTCGTAAATTTCA-TGCAAAGACAACTAA
1 TTTTTGTAGGGGATCTTCAATTAAATTAGACTCAAACTCGTAAATTTCATTGCAAAGACAACTAA
2071607 TT
66 TT
2071609 TTTTTGTAGGGGATCTTCAATTAAATTAGACTCAAACTCGTAAATTTCATTGCAAAGACAACTAA
1 TTTTTGTAGGGGATCTTCAATTAAATTAGACTCAAACTCGTAAATTTCATTGCAAAGACAACTAA
2071674 TT
66 TT
2071676 AATTGACTAG
Statistics
Matches: 66, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
66 49 0.74
67 17 0.26
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (67 bp):
TTTTTGTAGGGGATCTTCAATTAAATTAGACTCAAACTCGTAAATTTCATTGCAAAGACAACTAA
TT
Found at i:2082702 original size:42 final size:43
Alignment explanation
Indices: 2082590--2082702 Score: 126
Period size: 42 Copynumber: 2.7 Consensus size: 43
2082580 TCTTACTTGG
* *
2082590 TAAGTCCTTCGGGCCAT-CAGTAAGT-CTTTCGAGCATGATGCT
1 TAAGTCCTTCGGGCCATCCA-TAAGTCCTTTCGAGCAAGATGCA
* * * *
2082632 TAAATCCTTTGGGTCATCTATAAG-CCTTTCGAGCAAGATG-A
1 TAAGTCCTTCGGGCCATCCATAAGTCCTTTCGAGCAAGATGCA
*
2082673 TAAGTCCTTCAGGCCATCCATAAGTCCTTT
1 TAAGTCCTTCGGGCCATCCATAAGTCCTTT
2082703 GGGCATGATG
Statistics
Matches: 57, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
41 19 0.33
42 37 0.65
43 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (43 bp):
TAAGTCCTTCGGGCCATCCATAAGTCCTTTCGAGCAAGATGCA
Found at i:2083208 original size:133 final size:133
Alignment explanation
Indices: 2082985--2083953 Score: 1179
Period size: 134 Copynumber: 7.3 Consensus size: 133
2082975 ACAAATCAAA
* * * ** * *
2082985 CTCGATTCAATCTTCCCTGAGGAACAGTGGAATGAATCAACAATTTCATATATGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAAC-GTCCCAGATCTGATTTTCCCTCA
* * * *
2083050 AGAAAAAGTGGAACATATCCATCTCTTTCAAGATTTGATATTCACTGAGTAACAGTGGAACAAGT
65 AGAAGAAGCGGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
*
2083115 CTAC
130 CTGC
* *
2083119 CTCGATTCAATCTTCCCTGAAGAACAATAGAATGAATCAACGTTCCAGATCTGATTTTCCCTCAA
1 CTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAACGTCCCAGATCTGATTTTCCCTCAA
* * *
2083184 GAAGAAGAGGAACATATCCCTCTCTTTCAAGATTTGATGTTCCCTGAGTAACAGTAGAACAAGTC
66 GAAGAAGCGGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTC
2083249 TGC
131 TGC
* * *
2083252 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATAAACGTCCTCAGATATGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAACGTCC-CAGATCTGATTTTCCCTCA
* * * * * *
2083317 ATAAGAAGCGGAACAAATTCCTCTATTTCAAGATTTGATATTCCATGAGTAATAGTGGAACAAGT
65 AGAAGAAGCGGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
* *
2083382 TTAC
130 CTGC
* * * *
2083386 CTTGATTCAATCTTCCTTAAAGAACAATGGAATGAATCAACGTCCCCAGATCTAATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAACGT-CCCAGATCTGATTTTCCCTCA
* * * * *
2083451 AGAAGAAGTGAAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTAAGTAACAGTGGAATAAGT
65 AGAAGAAGCGGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
2083516 CTGC
130 CTGC
* * * * * * *
2083520 CTCGATTCAATCTTCCCTGAATAACAGT-GAAAGAATCAATGTCCCCATATCTAATTATCCCTCA
1 CTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAACGT-CCCAGATCTGATTTTCCCTCA
* * * * * *
2083584 AGAAAAAGCGAAATAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAATAGTGGAATAAGT
65 AGAAGAAGCGGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
*
2083649 ATGC
130 CTGC
2083653 CTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAACGTCCCCAGATCTGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAACGT-CCCAGATCTGATTTTCCCTCA
* * * * *
2083718 AGAAGAAGCAGAACATATCCCTCTCTTTCAAGATTTGATATTCTCTAAGTAACAGTGTAA-TAGT
65 AGAAGAAGCGGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGT
*
2083782 TTGC
130 CTGC
* ** * *
2083786 GTCGATTCAATCTTTTCTGAAGAACAGTGGAATGAATCAACGTCCCTAGATCTGATTTTCCCACA
1 CTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAACGTCCC-AGATCTGATTTTCCCTCA
* * * * * * * * * *
2083851 AGAAAAAGCTGAACATGTCCCTCGT-ATTCAAGATTTGATCTTCCATGAGTAAAAATAGAACATG
65 AGAAGAAGCGGAACATATCCCTC-TCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAG
* *
2083915 TTTAC
129 TCTGC
*
2083920 CTCGATTCAATCTTCCCTAAAGAACAATGGAATG
1 CTCGATTCAATCTTCCCTGAAGAACAATGGAATG
2083954 GGTTAACATT
Statistics
Matches: 722, Mismatches: 107, Indels: 12
0.86 0.13 0.01
Matches are distributed among these distances:
132 3 0.00
133 351 0.49
134 366 0.51
135 2 0.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.29
Consensus pattern (133 bp):
CTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAACGTCCCAGATCTGATTTTCCCTCAA
GAAGAAGCGGAACATATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTC
TGC
Found at i:2083583 original size:267 final size:267
Alignment explanation
Indices: 2082985--2083953 Score: 1293
Period size: 267 Copynumber: 3.6 Consensus size: 267
2082975 ACAAATCAAA
* * ** *
2082985 CTCGATTCAATCTTCCCTGAGGAACAGTGGAATGAATCAACAAT-TTCATATATGATTTTCCCTC
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAAC-GTCCCCAGATATGATTTTCCCTC
* * * *
2083049 AAGAAAAAGTGGAACATATCCATCTCTTTCAAGATTTGATATT-CACTGAGTAACAGTGGAACAA
65 AAGAAAAAGCGGAACATATCCCTCTATTTCAAGATTTGATATTCCA-TGAGTAATAGTGGAACAA
* * * *
2083113 GTCTACCTCGATTCAATCTTCCCTGAAGAACAATAGAATGAATCAACGT-TCCAGATCTGATTTT
129 GTTTACCTCGATTCAATCTTCCCTAAAGAACAATGGAATGAATCAACGTCCCCAGATCTGATTTT
* * * *
2083177 CCCTCAAGAAGAAGAGGAACATATCCCTCTCTTTCAAGATTTGATGTTCCCTGAGTAACAGTAGA
194 CCCTCAAGAAGAAG-GAAACATATCCCTCTCTTTCAAGATTTGATATTCCCTAAGTAACAGTGGA
*
2083242 ACAAGTCTGC
258 ATAAGTCTGC
* *
2083252 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATAAACGTCCTCAGATATGATTTTCCCTCA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGATATGATTTTCCCTCA
* * * *
2083317 ATAAGAAGCGGAACAAATTCCTCTATTTCAAGATTTGATATTCCATGAGTAATAGTGGAACAAGT
66 AGAAAAAGCGGAACATATCCCTCTATTTCAAGATTTGATATTCCATGAGTAATAGTGGAACAAGT
* * *
2083382 TTACCTTGATTCAATCTTCCTTAAAGAACAATGGAATGAATCAACGTCCCCAGATCTAATTTTCC
131 TTACCTCGATTCAATCTTCCCTAAAGAACAATGGAATGAATCAACGTCCCCAGATCTGATTTTCC
*
2083447 CTCAAGAAGAAGTGAAACAGATCCCTCTCTTTCAAGATTTGATATTCCCTAAGTAACAGTGGAAT
196 CTCAAGAAGAAG-GAAACATATCCCTCTCTTTCAAGATTTGATATTCCCTAAGTAACAGTGGAAT
2083512 AAGTCTGC
260 AAGTCTGC
* * * * * * *
2083520 CTCGATTCAATCTTCCCTGAATAACAGT-GAAAGAATCAATGTCCCCATATCTAATTATCCCTCA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGATATGATTTTCCCTCA
* * * * * *
2083584 AGAAAAAGCGAAATAGATCCCTCTCTTTCAAGATTTGATATTCCCTGAGTAATAGTGGAATAAGT
66 AGAAAAAGCGGAACATATCCCTCTATTTCAAGATTTGATATTCCATGAGTAATAGTGGAACAAGT
* * *
2083649 ATGCCTCGATTCAATCTTCCCTGAAGAACAATGGAATGAATCAACGTCCCCAGATCTGATTTTCC
131 TTACCTCGATTCAATCTTCCCTAAAGAACAATGGAATGAATCAACGTCCCCAGATCTGATTTTCC
* * *
2083714 CTCAAGAAGAAGCAGAACATATCCCTCTCTTTCAAGATTTGATATTCTCTAAGTAACAGTGTAAT
196 CTCAAGAAGAAGGA-AACATATCCCTCTCTTTCAAGATTTGATATTCCCTAAGTAACAGTGGAAT
*
2083779 -AGTTTGC
260 AAGTCTGC
* ** * * *
2083786 GTCGATTCAATCTTTTCTGAAGAACAGTGGAATGAATCAACGTCCCTAGATCTGATTTTCCCACA
1 CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGATATGATTTTCCCTCA
* * * * * * *
2083851 AGAAAAAGCTGAACATGTCCCTCGTA-TTCAAGATTTGATCTTCCATGAGTAAAAATAGAACATG
66 AGAAAAAGCGGAACATATCCCTC-TATTTCAAGATTTGATATTCCATGAGTAATAGTGGAACAAG
2083915 TTTACCTCGATTCAATCTTCCCTAAAGAACAATGGAATG
130 TTTACCTCGATTCAATCTTCCCTAAAGAACAATGGAATG
2083954 GGTTAACATT
Statistics
Matches: 613, Mismatches: 83, Indels: 12
0.87 0.12 0.02
Matches are distributed among these distances:
266 32 0.05
267 470 0.77
268 111 0.18
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.29
Consensus pattern (267 bp):
CTCGATTCAATCTTCCCTGAAGAACAGTGGAATGAATCAACGTCCCCAGATATGATTTTCCCTCA
AGAAAAAGCGGAACATATCCCTCTATTTCAAGATTTGATATTCCATGAGTAATAGTGGAACAAGT
TTACCTCGATTCAATCTTCCCTAAAGAACAATGGAATGAATCAACGTCCCCAGATCTGATTTTCC
CTCAAGAAGAAGGAAACATATCCCTCTCTTTCAAGATTTGATATTCCCTAAGTAACAGTGGAATA
AGTCTGC
Found at i:2086494 original size:131 final size:130
Alignment explanation
Indices: 2086286--2086556 Score: 350
Period size: 131 Copynumber: 2.1 Consensus size: 130
2086276 AAATGACTGC
* * * **
2086286 AAGGCATGAGAGGTCATTTATTCTCAATTGGAAATAATTTGATTTTGTTGTTTCCTATCGAATAA
1 AAGGCATGAGAGGTCATTCATTCTCAATTGGAAATAATTAGATATTACTGTTTCCTATCGAATAA
* * * *
2086351 TATTGATTTTTTAAGAC-ATAATAGTGATATCTCTTCATTTTAATTGGAGAAATAAATGATTGCT
66 TATTGATATTTTAAGACGA-AATAGTAATATCTCTTCATTTCAACTGGAGAAATAAATGATTG-T
2086415 TT
129 TT
* ** *
2086417 AAGGTATGAGAGGTCATTCATTCTTGATTGGAAATCATTAGATATTACTGTTTCC-ACTCGAATC
1 AAGGCATGAGAGGTCATTCATTCTCAATTGGAAATAATTAGATATTACTGTTTCCTA-TCGAAT-
* *
2086481 AATATTGA-ATTTTAAGACGAAATAGTAATATCTCTTCATTTCGACTGGAGTAATAAATGATTGT
64 AATATTGATATTTTAAGACGAAATAGTAATATCTCTTCATTTCAACTGGAGAAATAAATGATTGT
2086545 TT
129 TT
2086547 AAGGCATGAG
1 AAGGCATGAG
2086557 GTTTATTCCG
Statistics
Matches: 121, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
130 13 0.11
131 99 0.82
132 9 0.07
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (130 bp):
AAGGCATGAGAGGTCATTCATTCTCAATTGGAAATAATTAGATATTACTGTTTCCTATCGAATAA
TATTGATATTTTAAGACGAAATAGTAATATCTCTTCATTTCAACTGGAGAAATAAATGATTGTTT
Found at i:2089576 original size:17 final size:16
Alignment explanation
Indices: 2089545--2089580 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
2089535 CCTTGATGAA
*
2089545 TATGTTATTTATTATT
1 TATGTTATATATTATT
2089561 TATGTTATAATATTATT
1 TATGTTAT-ATATTATT
2089578 TAT
1 TAT
2089581 TATTATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (16 bp):
TATGTTATATATTATT
Found at i:2089592 original size:17 final size:17
Alignment explanation
Indices: 2089554--2089592 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
2089544 ATATGTTATT
*
2089554 TATTATTTATGTTATAA
1 TATTATTTATATTATAA
2089571 TATTATTTATTATTATAA
1 TATTATTTA-TATTATAA
2089589 -ATTA
1 TATTA
2089593 AGTAAAAGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TATTATTTATATTATAA
Found at i:2090400 original size:15 final size:16
Alignment explanation
Indices: 2090380--2090410 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
2090370 TCAGGGAATT
2090380 ATTTAATT-TTTTAAA
1 ATTTAATTATTTTAAA
2090395 ATTTAATTATTTTAAA
1 ATTTAATTATTTTAAA
2090411 TATATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTTAATTATTTTAAA
Found at i:2090894 original size:20 final size:21
Alignment explanation
Indices: 2090856--2090894 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2090846 ATTGCTTTTA
* *
2090856 ATTTTTAATAGTATTTTTAGT
1 ATTTTAAATAGTATATTTAGT
2090877 ATTTTAAATA-TATATTTA
1 ATTTTAAATAGTATATTTA
2090895 ACTTTTTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (21 bp):
ATTTTAAATAGTATATTTAGT
Found at i:2090905 original size:19 final size:19
Alignment explanation
Indices: 2090852--2090905 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 19
2090842 TATCATTGCT
*
2090852 TTTAATTTTTAATAGTATT
1 TTTAATTTTTAATAGTATA
*
2090871 TTTAGTATTTTAAATA-TATA
1 TTTA--ATTTTTAATAGTATA
2090891 TTTAACTTTTTAATA
1 TTTAA-TTTTTAATA
2090906 ATTTAATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 1 0.03
19 12 0.41
20 7 0.24
21 9 0.31
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (19 bp):
TTTAATTTTTAATAGTATA
Found at i:2090919 original size:17 final size:17
Alignment explanation
Indices: 2090897--2090942 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
2090887 TATATTTAAC
2090897 TTTTTAATAATTTAATA
1 TTTTTAATAATTTAATA
* * *
2090914 TTTTTACTACTTTTATA
1 TTTTTAATAATTTAATA
2090931 TTTTTAA-AATTT
1 TTTTTAATAATTT
2090943 TAGTCGAGGG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTTAATAATTTAATA
Found at i:2098018 original size:2 final size:2
Alignment explanation
Indices: 2098013--2098040 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2098003 TGAAAATGAG
2098013 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
2098041 CCTCCACCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2099017 original size:22 final size:22
Alignment explanation
Indices: 2098989--2099040 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
2098979 TTTGGTCGGG
2098989 TCTCGGGTGGAGGTTCCCTTGT
1 TCTCGGGTGGAGGTTCCCTTGT
2099011 TCTCGGGTGGAGGTTCCCTTGT
1 TCTCGGGTGGAGGTTCCCTTGT
2099033 TCTCGGGT
1 TCTCGGGT
2099041 CAGGTCAGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.04, C:0.23, G:0.37, T:0.37
Consensus pattern (22 bp):
TCTCGGGTGGAGGTTCCCTTGT
Found at i:2099673 original size:16 final size:16
Alignment explanation
Indices: 2099652--2099685 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
2099642 AGACTTTATC
*
2099652 ATTTTATTATTAAATA
1 ATTTTAATATTAAATA
*
2099668 ATTTTAATATTAATTA
1 ATTTTAATATTAAATA
2099684 AT
1 AT
2099686 CATTCTGGAA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
ATTTTAATATTAAATA
Found at i:2099945 original size:34 final size:34
Alignment explanation
Indices: 2099864--2099950 Score: 94
Period size: 34 Copynumber: 2.6 Consensus size: 34
2099854 ATCTTTTGGT
2099864 ATTCGGGTCGGGTC-GAGTTTTTTATAAAAAAAA
1 ATTCGGGTCGGGTCGGAGTTTTTTATAAAAAAAA
* *
2099897 A-TGGGGATCAGGTCGGA-TTTTTTA-AAAAAAAGA
1 ATTCGGG-TCGGGTCGGAGTTTTTTATAAAAAAA-A
2099930 ATTCGGGTTCGGGTCGG-GTTT
1 ATTCGGG-TCGGGTCGGAGTTT
2099951 AGGGTGAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
32 11 0.25
33 16 0.36
34 17 0.39
ACGTcount: A:0.29, C:0.09, G:0.30, T:0.32
Consensus pattern (34 bp):
ATTCGGGTCGGGTCGGAGTTTTTTATAAAAAAAA
Found at i:2100695 original size:16 final size:16
Alignment explanation
Indices: 2100674--2100739 Score: 105
Period size: 16 Copynumber: 4.1 Consensus size: 16
2100664 AGACTTTATC
*
2100674 ATTTTATTATTAAATA
1 ATTTTAATATTAAATA
*
2100690 ATTTTAGTATTAAATA
1 ATTTTAATATTAAATA
2100706 ATTTTAATATTAAATA
1 ATTTTAATATTAAATA
*
2100722 ATTTTAATATTAATTA
1 ATTTTAATATTAAATA
2100738 AT
1 AT
2100740 CATTCCCCCC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATTTTAATATTAAATA
Found at i:2107740 original size:36 final size:35
Alignment explanation
Indices: 2107691--2107849 Score: 160
Period size: 35 Copynumber: 4.5 Consensus size: 35
2107681 AATTATGTTA
* * *
2107691 TGTTTTTAATTGTATTATTTTAACTAAGTCTATGTG
1 TGTTTTTAGTTGTACT-TTTTAACTAAGTTTATGTG
*
2107727 TGTGTTTAGTTGTACTATTTTAACTAAG-TT-TGTG
1 TGTTTTTAGTTGTACT-TTTTAACTAAGTTTATGTG
* * * * * *
2107761 TTTTTTTAGTTGGAATTTTTTAACCACGTTTATTTG
1 TGTTTTTAGTT-GTACTTTTTAACTAAGTTTATGTG
* *
2107797 TGTTTTTACTTGTACTTTTTAACTAAGTTTATGTA
1 TGTTTTTAGTTGTACTTTTTAACTAAGTTTATGTG
*
2107832 TGTTTCTAGTTGTACTTT
1 TGTTTTTAGTTGTACTTT
2107850 CTTTTTGTGT
Statistics
Matches: 99, Mismatches: 21, Indels: 7
0.78 0.17 0.06
Matches are distributed among these distances:
34 22 0.22
35 40 0.40
36 37 0.37
ACGTcount: A:0.21, C:0.08, G:0.15, T:0.57
Consensus pattern (35 bp):
TGTTTTTAGTTGTACTTTTTAACTAAGTTTATGTG
Found at i:2107779 original size:32 final size:35
Alignment explanation
Indices: 2107707--2107843 Score: 93
Period size: 34 Copynumber: 3.9 Consensus size: 35
2107697 TAATTGTATT
*
2107707 ATTTTAACTAAGTCTATGTGTGTGTTTAGTTGTAC
1 ATTTTAACTAAGTCTATGTGTGTGTTTAGTTGGAC
* *
2107742 TATTTTAACTAAGT-T-TGTGTTTTTTTAGTTGGA-
1 -ATTTTAACTAAGTCTATGTGTGTGTTTAGTTGGAC
* * * * * * *
2107775 ATTTTTTAACCACGTTTATTTGTGTTTTTACTTGTAC
1 A--TTTTAACTAAGTCTATGTGTGTGTTTAGTTGGAC
* * *
2107812 TTTTTAACTAAGTTTATGTATGT-TTCTAGTTG
1 ATTTTAACTAAGTCTATGTGTGTGTT-TAGTTG
2107844 TACTTTCTTT
Statistics
Matches: 80, Mismatches: 15, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
32 1 0.01
34 27 0.34
35 25 0.31
36 27 0.34
ACGTcount: A:0.21, C:0.08, G:0.16, T:0.55
Consensus pattern (35 bp):
ATTTTAACTAAGTCTATGTGTGTGTTTAGTTGGAC
Found at i:2109642 original size:28 final size:28
Alignment explanation
Indices: 2109602--2109655 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
2109592 TCCGTTTACA
*
2109602 TTATATTAATGAGTTAGTGCTTGAAATT
1 TTATATTAATGAGTCAGTGCTTGAAATT
*
2109630 TTATATTATTGAGTCAGTGCTTGAAA
1 TTATATTAATGAGTCAGTGCTTGAAA
2109656 ACAACGCCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.31, C:0.06, G:0.19, T:0.44
Consensus pattern (28 bp):
TTATATTAATGAGTCAGTGCTTGAAATT
Found at i:2110186 original size:17 final size:17
Alignment explanation
Indices: 2110146--2110178 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2110136 TATCATATAT
*
2110146 ATTATTATTTTTAATAA
1 ATTAATATTTTTAATAA
2110163 ATTAATATTTTTAATA
1 ATTAATATTTTTAATA
2110179 GAATAATAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTAATATTTTTAATAA
Found at i:2110279 original size:13 final size:13
Alignment explanation
Indices: 2110261--2110286 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2110251 TCTCCAAACA
2110261 AGTTTTTTCAATG
1 AGTTTTTTCAATG
2110274 AGTTTTTTCAATG
1 AGTTTTTTCAATG
2110287 CAAAAGCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.15, T:0.54
Consensus pattern (13 bp):
AGTTTTTTCAATG
Found at i:2110800 original size:60 final size:60
Alignment explanation
Indices: 2110736--2110863 Score: 141
Period size: 60 Copynumber: 2.1 Consensus size: 60
2110726 TGAATTTGGA
** *
2110736 GATGAAATGCA-AATACTAAAAAATTTGGGGATCAATTTAGAAAAAGGGTCATAGTTTAGG
1 GATGAAAT-CAGAATACTAAAAAATTTAAGGATCAATTTAGAAAAAGAGTCATAGTTTAGG
* ** * * * * *
2110796 GATGAAATTAGAATGTTCAAAAGTTTAAGGATTAATTTAGAATAAGAGTCATAGTTTGGG
1 GATGAAATCAGAATACTAAAAAATTTAAGGATCAATTTAGAAAAAGAGTCATAGTTTAGG
2110856 GATGAAAT
1 GATGAAAT
2110864 TTGCATCTCT
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
59 1 0.02
60 55 0.98
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.30
Consensus pattern (60 bp):
GATGAAATCAGAATACTAAAAAATTTAAGGATCAATTTAGAAAAAGAGTCATAGTTTAGG
Found at i:2110807 original size:31 final size:30
Alignment explanation
Indices: 2110763--2110864 Score: 73
Period size: 31 Copynumber: 3.4 Consensus size: 30
2110753 AAAAAATTTG
* *
2110763 GGGATCAATTTAGAAAAAGGGTCATAGTTTA
1 GGGATGAAATTAG-AAAAGGGTCATAGTTTA
* * *
2110794 GGGATGAAATTAG--AATGTTCAAAAGTTTA
1 GGGATGAAATTAGAAAAGGGTC-ATAGTTTA
* * * * *
2110823 AGGATTAATTTAGAATAAGAGTCATAGTTTG
1 GGGATGAAATTAGAA-AAGGGTCATAGTTTA
2110854 GGGATGAAATT
1 GGGATGAAATT
2110865 TGCATCTCTA
Statistics
Matches: 51, Mismatches: 16, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
28 5 0.10
29 17 0.33
31 25 0.49
32 4 0.08
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.31
Consensus pattern (30 bp):
GGGATGAAATTAGAAAAGGGTCATAGTTTA
Found at i:2110878 original size:60 final size:60
Alignment explanation
Indices: 2110764--2110894 Score: 165
Period size: 60 Copynumber: 2.2 Consensus size: 60
2110754 AAAAATTTGG
* *
2110764 GGATCAATTTAGAAAAAGGGTCATAGTTTAGGGATGAAATTAGAATGTTCAAAAGTTTAA
1 GGATCAATTTAGAAAAAGAGTCATAGTTTAGGGATGAAATTAGAATCTTCAAAAGTTTAA
* * * * *
2110824 GGATTAATTTAGAATAAGAGTCATAGTTTGGGGATGAAATTTGCATC-TCTAAAAGTTTAA
1 GGATCAATTTAGAAAAAGAGTCATAGTTTAGGGATGAAATTAGAATCTTC-AAAAGTTTAA
* *
2110884 GAACCAATTTA
1 GGATCAATTTA
2110895 AAATGAAGTT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 2 0.03
60 58 0.97
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.32
Consensus pattern (60 bp):
GGATCAATTTAGAAAAAGAGTCATAGTTTAGGGATGAAATTAGAATCTTCAAAAGTTTAA
Found at i:2111115 original size:27 final size:27
Alignment explanation
Indices: 2111083--2111158 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
2111073 AAGGTAATAA
* *
2111083 TAAAAATATATTCATTATATTATAATT
1 TAAAAATATATTCATTATAATATAAAT
*
2111110 TAAAAATATATTAATTATAATATAAAT
1 TAAAAATATATTCATTATAATATAAAT
*
2111137 TATAAATATATTC-TTATAATAT
1 TAAAAATATATTCATTATAATAT
2111159 TTTATTAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 9 0.20
27 35 0.80
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (27 bp):
TAAAAATATATTCATTATAATATAAAT
Found at i:2111165 original size:27 final size:26
Alignment explanation
Indices: 2111085--2111170 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 26
2111075 GGTAATAATA
* *
2111085 AAAATATATTCATTATATTATAAT-TT
1 AAAATATATTC-TTATAATATTATATT
* *
2111111 AAAAATATATTAATTATAATA-TAAATT
1 -AAAATATATT-CTTATAATATTATATT
*
2111138 ATAAATATATTCTTATAATATTTTATT
1 A-AAATATATTCTTATAATATTATATT
2111165 AAAATA
1 AAAATA
2111171 GATTAAAGGA
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
26 15 0.31
27 33 0.69
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (26 bp):
AAAATATATTCTTATAATATTATATT
Found at i:2111170 original size:13 final size:13
Alignment explanation
Indices: 2111085--2111175 Score: 51
Period size: 13 Copynumber: 6.8 Consensus size: 13
2111075 GGTAATAATA
2111085 AAAATATATTCATT
1 AAAATATATT-ATT
* * *
2111099 ATATTATAATT-TA
1 AAAATAT-ATTATT
2111112 AAAATATATTAATT
1 AAAATATATT-ATT
* *
2111126 ATAATATA-AATT
1 AAAATATATTATT
*
2111138 ATAAATATATTCTT
1 A-AAATATATTATT
* *
2111152 ATAATATTTTATT
1 AAAATATATTATT
*
2111165 AAAATAGATTA
1 AAAATATATTA
2111176 AAGGATATAA
Statistics
Matches: 55, Mismatches: 17, Indels: 11
0.66 0.20 0.13
Matches are distributed among these distances:
12 7 0.13
13 29 0.53
14 16 0.29
15 3 0.05
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (13 bp):
AAAATATATTATT
Found at i:2111297 original size:23 final size:21
Alignment explanation
Indices: 2111249--2111297 Score: 53
Period size: 23 Copynumber: 2.2 Consensus size: 21
2111239 CGTTTACCTG
2111249 TCTTTATGACACTTTTTCTCT
1 TCTTTATGACACTTTTTCTCT
* * *
2111270 ACTTTGTGACACGTTTTTTGTCT
1 TCTTTATGACAC--TTTTTCTCT
2111293 TCTTT
1 TCTTT
2111298 TTCTGTCATT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 10 0.45
23 12 0.55
ACGTcount: A:0.12, C:0.20, G:0.10, T:0.57
Consensus pattern (21 bp):
TCTTTATGACACTTTTTCTCT
Found at i:2116664 original size:30 final size:30
Alignment explanation
Indices: 2116630--2116703 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 30
2116620 AGGAGGAGGA
2116630 GGAGTTAACGGCCACATCATAAGAGTTAAC
1 GGAGTTAACGGCCACATCATAAGAGTTAAC
* **
2116660 GGAGTTAATGGTAACATCATAAGAGTTAAC
1 GGAGTTAACGGCCACATCATAAGAGTTAAC
*
2116690 GGAGTTAACAGCCA
1 GGAGTTAACGGCCA
2116704 TGTCAAATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (30 bp):
GGAGTTAACGGCCACATCATAAGAGTTAAC
Found at i:2117488 original size:59 final size:60
Alignment explanation
Indices: 2117378--2117563 Score: 227
Period size: 60 Copynumber: 3.1 Consensus size: 60
2117368 TATCACACAC
* * * *
2117378 CCTCAAATTATGAC-ATTTATTCTAAATTGGTCACT-AAACATTTAAATATTCCAATTTTAT
1 CCTCAAACTATGACTA-TCATTCTAAATTGGTC-CTCAAACTTTTAAATATTCCAATTTCAT
* * *
2117438 CCT-AAACTATGACTATCATTCTAAATTTGTCCTCAAACTTTTGAACATTCCAATTTCAT
1 CCTCAAACTATGACTATCATTCTAAATTGGTCCTCAAACTTTTAAATATTCCAATTTCAT
* *
2117497 CCTCAAACTATGACTCTCATTCTAAATTGGT-CTCCAAACTTTTAAATTTTCCAATTTCAT
1 CCTCAAACTATGACTATCATTCTAAATTGGTCCT-CAAACTTTTAAATATTCCAATTTCAT
*
2117557 CCCCAAA
1 CCTCAAA
2117564 TCCATCCAAA
Statistics
Matches: 109, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
58 2 0.02
59 49 0.45
60 58 0.53
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.39
Consensus pattern (60 bp):
CCTCAAACTATGACTATCATTCTAAATTGGTCCTCAAACTTTTAAATATTCCAATTTCAT
Found at i:2117850 original size:60 final size:59
Alignment explanation
Indices: 2117681--2117856 Score: 183
Period size: 60 Copynumber: 2.9 Consensus size: 59
2117671 TAGTATATAC
* * *
2117681 ATATAGTTTGCGATGAAATTGAAATGTTCAAAAAGTTTGGAGACCAATTTAGAATGAAGG
1 ATATAGTTTGGGATGAAATTAAAATGTTCAAAAA-TTTGGAGATCAATTTAGAATGAAGG
* * * * * *
2117741 ACATAGTTTGGGGATGAAACTAAAATGCTCAAAAGTTTGGGGATAAATTTAGAATGATA-G
1 ATATAGTTT-GGGATGAAATTAAAATGTTCAAAAATTTGGAGATCAATTTAGAATGA-AGG
* * * * *
2117801 TTATAGTTTAGGGATGAAATTAAAATATTTAAAAATTTAGAGATCAATTTAAAATG
1 ATATAGTTT-GGGATGAAATTAAAATGTTCAAAAATTTGGAGATCAATTTAGAATG
2117857 GGAAGTTATA
Statistics
Matches: 93, Mismatches: 21, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
60 72 0.77
61 21 0.23
ACGTcount: A:0.42, C:0.05, G:0.21, T:0.32
Consensus pattern (59 bp):
ATATAGTTTGGGATGAAATTAAAATGTTCAAAAATTTGGAGATCAATTTAGAATGAAGG
Found at i:2125332 original size:20 final size:19
Alignment explanation
Indices: 2125286--2125333 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
2125276 ATGACCAACA
* *
2125286 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCC
2125305 AAATCGCAACGCGATCTCC
1 AAATCGCAACGCGATCTCC
2125324 AATATCGCAA
1 AA-ATCGCAA
2125334 AACAGTTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCC
Found at i:2125400 original size:34 final size:36
Alignment explanation
Indices: 2125352--2125531 Score: 130
Period size: 41 Copynumber: 4.6 Consensus size: 36
2125342 CCATATTCGT
* *
2125352 AACGCGATTTTGACTATCGCAATGCGA-AT-ATCGC
1 AACGCGATTCTGACTATCGCAACGCGACATGATCGC
2125386 AACGCGATTCTGACTATCGCAACGCGATAATACATGATCGC
1 AACGCGATTCTGACTATCGCAACGCG-----ACATGATCGC
* *
2125427 AACGCGATTCTGACTATTGCAACGCGATAATACATAATCGC
1 AACGCGATTCTGACTATCGCAACGCG-----ACATGATCGC
* * *
2125468 AATGCGATTTTGACTATCGCAACGCGATAATACATAATCGC
1 AACGCGATTCTGACTATCGCAACGCG-----ACATGATCGC
* *
2125509 AACTCGATTCTGACTGTCGCAAC
1 AACGCGATTCTGACTATCGCAAC
2125532 ACTGAATTTC
Statistics
Matches: 128, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
34 24 0.19
39 1 0.01
40 2 0.02
41 101 0.79
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (36 bp):
AACGCGATTCTGACTATCGCAACGCGACATGATCGC
Found at i:2125405 original size:20 final size:20
Alignment explanation
Indices: 2125380--2125531 Score: 130
Period size: 20 Copynumber: 7.5 Consensus size: 20
2125370 GCAATGCGAA
*
2125380 TATCGCAACGCGATTCTGAC
1 TATCGCAACGCGATTATGAC
*
2125400 TATCGCAACGCGATAAT-AC
1 TATCGCAACGCGATTATGAC
*
2125419 ATGATCGCAACGCGATTCTGAC
1 -T-ATCGCAACGCGATTATGAC
* *
2125441 TATTGCAACGCGATAAT-AC
1 TATCGCAACGCGATTATGAC
* *
2125460 ATAATCGCAATGCGATTTTGAC
1 -T-ATCGCAACGCGATTATGAC
*
2125482 TATCGCAACGCGATAAT-AC
1 TATCGCAACGCGATTATGAC
* *
2125501 ATAATCGCAACTCGATTCTGAC
1 -T-ATCGCAACGCGATTATGAC
*
2125523 TGTCGCAAC
1 TATCGCAAC
2125532 ACTGAATTTC
Statistics
Matches: 105, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
19 6 0.06
20 51 0.49
21 42 0.40
22 6 0.06
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (20 bp):
TATCGCAACGCGATTATGAC
Found at i:2125438 original size:41 final size:41
Alignment explanation
Indices: 2125381--2125531 Score: 248
Period size: 41 Copynumber: 3.7 Consensus size: 41
2125371 CAATGCGAAT
*
2125381 ATCGCAACGCGATTCTGACTATCGCAACGCGATAATACATG
1 ATCGCAACGCGATTCTGACTATCGCAACGCGATAATACATA
*
2125422 ATCGCAACGCGATTCTGACTATTGCAACGCGATAATACATA
1 ATCGCAACGCGATTCTGACTATCGCAACGCGATAATACATA
* *
2125463 ATCGCAATGCGATTTTGACTATCGCAACGCGATAATACATA
1 ATCGCAACGCGATTCTGACTATCGCAACGCGATAATACATA
* *
2125504 ATCGCAACTCGATTCTGACTGTCGCAAC
1 ATCGCAACGCGATTCTGACTATCGCAAC
2125532 ACTGAATTTC
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 101 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (41 bp):
ATCGCAACGCGATTCTGACTATCGCAACGCGATAATACATA
Found at i:2126360 original size:16 final size:16
Alignment explanation
Indices: 2126339--2126374 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
2126329 ACTAGTCGAT
2126339 TCAAATTTGATCTTGG
1 TCAAATTTGATCTTGG
2126355 TCAAATTTGATCTTGG
1 TCAAATTTGATCTTGG
2126371 TCAA
1 TCAA
2126375 TACTCGGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (16 bp):
TCAAATTTGATCTTGG
Found at i:2129028 original size:40 final size:39
Alignment explanation
Indices: 2128973--2129217 Score: 214
Period size: 34 Copynumber: 6.6 Consensus size: 39
2128963 TTACACATTC
*
2128973 ATTTGAATATCGCAACGCGAATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGAATTTGA-TATCGCAACGCGA
* * *
2129013 ATTTGATTATCGCAACTC-AA----AAATCGCAACGCGA
1 ATTTGACTATCGCAACGCGAATTTGATATCGCAACGCGA
* * *
2129047 ATTTGACTATCGCAACGC-AA----AAATTGCAATGCGA
1 ATTTGACTATCGCAACGCGAATTTGATATCGCAACGCGA
*
2129081 ATTTGACTATCGCAACGCGAATTTGACTATCGTAACGCGA
1 ATTTGACTATCGCAACGCGAATTTGA-TATCGCAACGCGA
* * *
2129121 ATTTGACTATCGTAACGTGAATTTGATTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGAATTTGA-TATCGCAACGCGA
* * *
2129161 ATTTGACTATCGCAACGAGAA----A-ATCGCAAAGCGT
1 ATTTGACTATCGCAACGCGAATTTGATATCGCAACGCGA
* *
2129195 ATTAGACTATCGCAACACGAATT
1 ATTTGACTATCGCAACGCGAATT
2129218 GACTTTCGCG
Statistics
Matches: 173, Mismatches: 24, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
34 87 0.50
35 3 0.02
36 1 0.01
39 3 0.02
40 79 0.46
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (39 bp):
ATTTGACTATCGCAACGCGAATTTGATATCGCAACGCGA
Found at i:2129063 original size:54 final size:53
Alignment explanation
Indices: 2128978--2129177 Score: 188
Period size: 54 Copynumber: 3.6 Consensus size: 53
2128968 CATTCATTTG
2128978 AATATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACTCA
1 AATATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGA-TATCGCAACTCA
* * * * **
2129032 AAAATCGCAACGCGAATTTGACTATCGCAACGCAAAAATTGCA-AT-GCGAATTTG
1 AATATCGCAACGCGAATTTGACTATCGCAACGC-GAATTTG-ATATCGC-AACTCA
* * * *
2129086 ACTATCGCAACGCGAATTTGACTATCGTAACGCGAATTTGACTATCGTAACGTGA
1 AATATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGA-TATCGCAAC-TCA
*
2129141 ATTTGATTATCGCAACGAGAATTTGACTATCGCAACG
1 A----A-TATCGCAACGCGAATTTGACTATCGCAACG
2129178 AGAAAATCGC
Statistics
Matches: 116, Mismatches: 18, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
52 1 0.01
53 7 0.06
54 71 0.61
55 8 0.07
56 1 0.01
60 28 0.24
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (53 bp):
AATATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATATCGCAACTCA
Found at i:2129181 original size:20 final size:20
Alignment explanation
Indices: 2128973--2129177 Score: 218
Period size: 20 Copynumber: 10.8 Consensus size: 20
2128963 TTACACATTC
*
2128973 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
2128993 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
2129013 ATTTGATTATCGCAACTC-A
1 ATTTGACTATCGCAACGCGA
*
2129032 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
2129047 ATTTGACTATCGCAACGC-A
1 ATTTGACTATCGCAACGCGA
* * *
2129066 A----A-AATTGCAATGCGA
1 ATTTGACTATCGCAACGCGA
2129081 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
2129101 ATTTGACTATCGTAACGCGA
1 ATTTGACTATCGCAACGCGA
* *
2129121 ATTTGACTATCGTAACGTGA
1 ATTTGACTATCGCAACGCGA
* *
2129141 ATTTGATTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGA
2129161 ATTTGACTATCGCAACG
1 ATTTGACTATCGCAACG
2129178 AGAAAATCGC
Statistics
Matches: 155, Mismatches: 18, Indels: 24
0.79 0.09 0.12
Matches are distributed among these distances:
14 17 0.11
15 6 0.04
19 6 0.04
20 126 0.81
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.27
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:2129245 original size:20 final size:20
Alignment explanation
Indices: 2129216--2129279 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
2129206 GCAACACGAA
*
2129216 TTGACTTTCGCGTTGCGATT
1 TTGACTTTCGCATTGCGATT
*
2129236 TTGGCTTTCGCATTGCGATT
1 TTGACTTTCGCATTGCGATT
2129256 TTGACTTTCGCATTGCGATT
1 TTGACTTTCGCATTGCGATT
2129276 TTGA
1 TTGA
2129280 GTTTAGTGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.45
Consensus pattern (20 bp):
TTGACTTTCGCATTGCGATT
Found at i:2129409 original size:36 final size:35
Alignment explanation
Indices: 2129368--2129472 Score: 100
Period size: 36 Copynumber: 3.2 Consensus size: 35
2129358 TTACATTTCA
2129368 ATCAATTAAATAAGCAAAAATAAGAATTATTTACAC
1 ATCAATTAAATAAGC-AAAATAAGAATTATTTACAC
* * *
2129404 ATCAATTAAAT-----AAAT--CAACT-TTTACAA
1 ATCAATTAAATAAGCAAAATAAGAATTATTTACAC
*
2129431 ATCAATTAAACAAGCACAAATAAGAATTATTTACAC
1 ATCAATTAAATAAGCA-AAATAAGAATTATTTACAC
2129467 ATCAAT
1 ATCAAT
2129473 ATTAAACAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 18
0.68 0.09 0.23
Matches are distributed among these distances:
27 16 0.30
28 3 0.06
30 4 0.08
33 4 0.08
35 3 0.06
36 23 0.43
ACGTcount: A:0.53, C:0.14, G:0.04, T:0.29
Consensus pattern (35 bp):
ATCAATTAAATAAGCAAAATAAGAATTATTTACAC
Found at i:2129452 original size:63 final size:65
Alignment explanation
Indices: 2129345--2129514 Score: 256
Period size: 63 Copynumber: 2.6 Consensus size: 65
2129335 GATTGAAATC
*
2129345 AACAAATCAACTTTTACATTTCAATCAATTAAATAAGCAAAAATAAGAATTATTTACACATC-A-
1 AACAAATCAACTTTTACA----AATCAATTAAACAAGCAAAAATAAGAATTATTTACACATCAAT
2129408 ATTA
62 ATTA
* *
2129412 AATAAATCAACTTTTACAAATCAATTAAACAAGCACAAATAAGAATTATTTACACATCAATATTA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAATAAGAATTATTTACACATCAATATTA
2129477 AACAAATCAA-TTTTACAAATCAATTAAACAAGCAAAAA
1 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAA
2129515 ATGCTAATAA
Statistics
Matches: 96, Mismatches: 5, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
63 38 0.40
64 28 0.29
65 13 0.14
67 17 0.18
ACGTcount: A:0.54, C:0.15, G:0.03, T:0.28
Consensus pattern (65 bp):
AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAATAAGAATTATTTACACATCAATATTA
Found at i:2129507 original size:13 final size:13
Alignment explanation
Indices: 2129473--2129507 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
2129463 ACACATCAAT
2129473 ATTAAACAAATCA
1 ATTAAACAAATCA
**
2129486 ATTTTACAAATCA
1 ATTAAACAAATCA
2129499 ATTAAACAA
1 ATTAAACAA
2129508 GCAAAAAATG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (13 bp):
ATTAAACAAATCA
Found at i:2130947 original size:42 final size:42
Alignment explanation
Indices: 2130888--2130979 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
2130878 ATGAATCGGG
*
2130888 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAAGGGC
1 CTCTTGAACGGTGGGAGGGGA-CTCTTCAACGATGACAAGGGC
* ** * *
2130930 CTCTTGAACGGTGGGAGGGGACTCTTGAGGGATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTTCAACGATGACAAGGGC
2130972 CTCTTGAA
1 CTCTTGAA
2130980 TGATAGAGAG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 39 0.91
43 4 0.09
ACGTcount: A:0.22, C:0.18, G:0.37, T:0.23
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGGGGACTCTTCAACGATGACAAGGGC
Found at i:2130954 original size:21 final size:20
Alignment explanation
Indices: 2130888--2130957 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
2130878 ATGAATCGGG
*
2130888 CTCTTGAATGGTGGGAGGGA
1 CTCTTGAACGGTGGGAGGGA
* * ** *
2130908 CCTCTTCAACGATGACAAGGGC
1 -CTCTTGAACGGTG-GGAGGGA
2130930 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGA-GGGA
2130951 CTCTTGA
1 CTCTTGA
2130958 GGGATGATAG
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
20 1 0.03
21 31 0.86
22 4 0.11
ACGTcount: A:0.21, C:0.20, G:0.36, T:0.23
Consensus pattern (20 bp):
CTCTTGAACGGTGGGAGGGA
Found at i:2130984 original size:18 final size:20
Alignment explanation
Indices: 2130961--2130999 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2130951 CTCTTGAGGG
2130961 ATGATAG-G-GGCCTCTTGA
1 ATGATAGAGAGGCCTCTTGA
2130979 ATGATAGAGAGGCCTCTTGA
1 ATGATAGAGAGGCCTCTTGA
2130999 A
1 A
2131000 CGATGACAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.37
19 1 0.05
20 11 0.58
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (20 bp):
ATGATAGAGAGGCCTCTTGA
Found at i:2131518 original size:19 final size:20
Alignment explanation
Indices: 2131482--2131524 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
2131472 AATAGTTTCT
2131482 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
* *
2131502 GAAACTT-AAATCTCAACGC
1 GAAACTTAAAATCGCAACAC
2131521 GAAA
1 GAAA
2131525 ATGACTATCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.49, C:0.23, G:0.12, T:0.16
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:2131540 original size:20 final size:20
Alignment explanation
Indices: 2131515--2131559 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
2131505 ACTTAAATCT
2131515 CAACGCGAAAATGACTATCG
1 CAACGCGAAAATGACTATCG
**
2131535 CAACGCGAATTTGACTATCG
1 CAACGCGAAAATGACTATCG
2131555 CAACG
1 CAACG
2131560 GGATAATCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.27, G:0.20, T:0.18
Consensus pattern (20 bp):
CAACGCGAAAATGACTATCG
Found at i:2131697 original size:20 final size:20
Alignment explanation
Indices: 2131672--2131760 Score: 108
Period size: 20 Copynumber: 4.5 Consensus size: 20
2131662 GCGATTATCC
* *
2131672 CGTTGCGATAGTCAAATT-CG
1 CGTTGCGATAGTC-ATTTCCA
*
2131692 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCA
* *
2131712 CATTGCAATAGTCATTTCCA
1 CGTTGCGATAGTCATTTCCA
*
2131732 CGTTGCGATAGTCATTTTCA
1 CGTTGCGATAGTCATTTCCA
2131752 CGTTGCGAT
1 CGTTGCGAT
2131761 TTAAGTTTCG
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
19 3 0.05
20 58 0.95
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCA
Found at i:2132330 original size:18 final size:18
Alignment explanation
Indices: 2132307--2132355 Score: 98
Period size: 18 Copynumber: 2.7 Consensus size: 18
2132297 GTGGTCGATC
2132307 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
2132325 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
2132343 AGGTGATGGCTCT
1 AGGTGATGGCTCT
2132356 TGAAGTGGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.12, C:0.12, G:0.47, T:0.29
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:2133708 original size:20 final size:20
Alignment explanation
Indices: 2133685--2133767 Score: 78
Period size: 20 Copynumber: 4.2 Consensus size: 20
2133675 GAAACTTAAA
2133685 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
*** **
2133705 ATCGCAATGTGAATTTGACT
1 ATCGCAACACGAAAATGACT
* **
2133725 ATCGCAACGCG-AAATGAAA
1 ATCGCAACACGAAAATGACT
*
2133744 ATTGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
2133764 ATCG
1 ATCG
2133768 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 16, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
19 13 0.28
20 33 0.72
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.20
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:2134169 original size:22 final size:22
Alignment explanation
Indices: 2134143--2134192 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
2134133 ATGGAGATAA
2134143 ACGGATTTCGTCCGAGATGGGG
1 ACGGATTTCGTCCGAGATGGGG
* *
2134165 ACGGATTTTGTCGGAGATGGGG
1 ACGGATTTCGTCCGAGATGGGG
2134187 ACGGAT
1 ACGGAT
2134193 GTCGCGTAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.20, C:0.14, G:0.42, T:0.24
Consensus pattern (22 bp):
ACGGATTTCGTCCGAGATGGGG
Found at i:2134385 original size:20 final size:20
Alignment explanation
Indices: 2134357--2134428 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
2134347 ATTTTGTATT
* *
2134357 ATCGTGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAAA
* *
2134377 ATCGCGTTGCGAT-TTACATA
1 ATCGCGTTGCGATAGT-CAAA
* * *
2134397 TTCGCATTGCGATAGCCAAA
1 ATCGCGTTGCGATAGTCAAA
2134417 ATCGCGTTGCGA
1 ATCGCGTTGCGA
2134429 ATATGGAAAT
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
19 1 0.03
20 39 0.98
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAAA
Found at i:2134438 original size:20 final size:20
Alignment explanation
Indices: 2134415--2134489 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
2134405 GCGATAGCCA
2134415 AAATCGCGTTGCGA-ATATGG
1 AAATCGCGTTGCGATAT-TGG
* **
2134435 AAATTGATTTGCGATATTGG
1 AAATCGCGTTGCGATATTGG
*
2134455 AGATCGCGTTGCGATATTGG
1 AAATCGCGTTGCGATATTGG
* *
2134475 AGATCGCATTGCGAT
1 AAATCGCGTTGCGAT
2134490 TTTGTTGGTC
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 44 0.96
21 2 0.04
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.31
Consensus pattern (20 bp):
AAATCGCGTTGCGATATTGG
Found at i:2139926 original size:42 final size:42
Alignment explanation
Indices: 2139880--2139981 Score: 145
Period size: 42 Copynumber: 2.4 Consensus size: 42
2139870 TTCGTATTTA
2139880 TTTCACGTAATTCATTTTTCAG-AAAATATTTTTCC-GTGTTTG
1 TTTCACGTAATTCATTTTT-AGAAAAATA-TTTTCCAGTGTTTG
* *
2139922 TTTCACGTAATTCGTTTTTTGAAAAATATTTTCCAGTGTTTG
1 TTTCACGTAATTCATTTTTAGAAAAATATTTTCCAGTGTTTG
*
2139964 TTTCACGTAATTGATTTT
1 TTTCACGTAATTCATTTT
2139982 CCTGAACATA
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
41 7 0.13
42 47 0.87
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.51
Consensus pattern (42 bp):
TTTCACGTAATTCATTTTTAGAAAAATATTTTCCAGTGTTTG
Found at i:2140203 original size:31 final size:29
Alignment explanation
Indices: 2140168--2140299 Score: 91
Period size: 30 Copynumber: 4.6 Consensus size: 29
2140158 CAAAATTTAT
2140168 TATTA-ATTTATTAATATTTATAATAAAATAA
1 TATTATATTT-TTAATA-TTAT-ATAAAATAA
2140199 TATTATATTTTTAATATTATATAAAATAA
1 TATTATATTTTTAATATTATATAAAATAA
* *
2140228 TCAATTATA-TTATAATA--ATATAAGATATTA
1 T--ATTATATTTTTAATATTATATAA-A-ATAA
*
2140258 TATT-TA-TTTTAATAATATAATAAAAT--
1 TATTATATTTTTAATATTAT-ATAAAATAA
* *
2140284 TTTTATATATTTAATA
1 TATTATATTTTTAATA
2140300 ATGAATAATT
Statistics
Matches: 86, Mismatches: 5, Indels: 23
0.75 0.04 0.20
Matches are distributed among these distances:
26 3 0.03
27 11 0.13
28 18 0.21
29 14 0.16
30 19 0.22
31 17 0.20
32 4 0.05
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (29 bp):
TATTATATTTTTAATATTATATAAAATAA
Found at i:2140227 original size:34 final size:33
Alignment explanation
Indices: 2140168--2140248 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 33
2140158 CAAAATTTAT
2140168 TATTA-ATTTATTAATATTTATAATAA-AATAA
1 TATTATATTTATTAATATTTATAATAACAATAA
2140199 TATTATATTT-TTAATA-TTAT-ATAA-AATAA
1 TATTATATTTATTAATATTTATAATAACAATAA
*
2140228 TCAATTATATTATAATAATAT
1 T--ATTATATT-TATTAATAT
2140249 AAGATATTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
29 10 0.23
30 4 0.09
31 19 0.44
32 5 0.12
33 5 0.12
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (33 bp):
TATTATATTTATTAATATTTATAATAACAATAA
Found at i:2140298 original size:25 final size:26
Alignment explanation
Indices: 2140270--2140330 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
2140260 TTTATTTTAA
2140270 TAATATAATAAAATTT-TTATATATT
1 TAATATAATAAAATTTATTATATATT
*
2140295 TAATAATGAAT-AATTTTATTATATATT
1 TAAT-AT-AATAAAATTTATTATATATT
2140322 TAA-ATAATA
1 TAATATAATA
2140331 TTTTAATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
24 3 0.10
25 6 0.19
26 7 0.23
27 15 0.48
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (26 bp):
TAATATAATAAAATTTATTATATATT
Found at i:2140353 original size:23 final size:23
Alignment explanation
Indices: 2140334--2140378 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2140324 AATAATATTT
2140334 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
2140357 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
2140379 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:2140707 original size:15 final size:15
Alignment explanation
Indices: 2140657--2140712 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
2140647 CAAAAAAATA
2140657 TAATT-ATTTTCCAG
1 TAATTCATTTTCCAG
**
2140671 -AATTCAAATTCCAG
1 TAATTCATTTTCCAG
2140685 TAATTCATTTTCCAG
1 TAATTCATTTTCCAG
2140700 TAATTCATTTTCC
1 TAATTCATTTTCC
2140713 GAAAAACCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
13 4 0.11
14 7 0.19
15 25 0.69
ACGTcount: A:0.30, C:0.20, G:0.05, T:0.45
Consensus pattern (15 bp):
TAATTCATTTTCCAG
Found at i:2140987 original size:1 final size:1
Alignment explanation
Indices: 2140983--2141116 Score: 88
Period size: 1 Copynumber: 134.0 Consensus size: 1
2140973 ATATATTTAC
* * * ** * * * *
2140983 TTTTTATTTTATTTTTTTATTTTTTTAATTTTTTATTTTTTTATTTTTTTATTTTTTTATTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * ** * * * * * * *
2141048 TATTTTTTTATTTTTTTAATTTTTTATTTTTTTATTTTTTTATTTTTTATTTTATTTTTATTTAT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
2141113 TTTT
1 TTTT
2141117 ATTTATTAGG
Statistics
Matches: 97, Mismatches: 36, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
1 97 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (1 bp):
T
Found at i:2141002 original size:8 final size:8
Alignment explanation
Indices: 2140989--2141116 Score: 206
Period size: 8 Copynumber: 16.2 Consensus size: 8
2140979 TTACTTTTTA
2140989 TTTTATTT
1 TTTTATTT
2140997 TTTTATTT
1 TTTTATTT
*
2141005 TTTTAATT
1 TTTTATTT
2141013 TTTTATTT
1 TTTTATTT
2141021 TTTTATTT
1 TTTTATTT
2141029 TTTTATTT
1 TTTTATTT
2141037 TTTTATTT
1 TTTTATTT
2141045 TTTTATTT
1 TTTTATTT
2141053 TTTTATTT
1 TTTTATTT
*
2141061 TTTTAATT
1 TTTTATTT
2141069 TTTTATTT
1 TTTTATTT
2141077 TTTTATTT
1 TTTTATTT
2141085 TTTTA-TT
1 TTTTATTT
2141092 TTTTATTT
1 TTTTATTT
*
2141100 TATT-TTT
1 TTTTATTT
*
2141107 ATTTATTT
1 TTTTATTT
2141115 TT
1 TT
2141117 ATTTATTAGG
Statistics
Matches: 110, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
7 12 0.11
8 98 0.89
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (8 bp):
TTTTATTT
Found at i:2141118 original size:16 final size:16
Alignment explanation
Indices: 2140985--2141355 Score: 107
Period size: 15 Copynumber: 22.8 Consensus size: 16
2140975 ATATTTACTT
*
2140985 TTTATTTTATTTTTTTA
1 TTTATTTT-TATTTTTA
*
2141002 TTT-TTTTAATTTTT-
1 TTTATTTTTATTTTTA
2141016 TATT-TTTTTATTTTT-
1 T-TTATTTTTATTTTTA
*
2141031 TTATTTTTTTATTTTT-
1 TT-TATTTTTATTTTTA
*
2141047 TTATTTTTTTATTTTT-
1 TT-TATTTTTATTTTTA
*
2141063 TTAATTTTT-TATTTT-
1 TTTATTTTTAT-TTTTA
2141078 TTTATTTTT-TTATTT-
1 TTTATTTTTATT-TTTA
2141093 TTTA-TTTTATTTTTA
1 TTTATTTTTATTTTTA
2141108 TTTATTTTTATTTATTA
1 TTTATTTTTATTT-TTA
** *** *
2141125 GGTATATACAATTATTA
1 TTTAT-TTTTATTTTTA
* * *
2141142 -GTATTTTTCTTTAT-
1 TTTATTTTTATTTTTA
* *
2141156 TTTAGTCTTATTTTTA
1 TTTATTTTTATTTTTA
* * *
2141172 TTT-TATTTACTCGTTATC
1 TTTATTTTTA-T--TTTTA
*
2141190 TTTATTTTAATTATTTA
1 TTTATTTTTATT-TTTA
* *
2141207 TTTATTTTTCTTCATTTC
1 TTTATTTTTATT--TTTA
* *
2141225 TTCATTTTTTATTTCT-
1 TTTA-TTTTTATTTTTA
2141241 TTTATTTTTATGTTCTTTA
1 TTTATTTTTA--TT-TTTA
*
2141260 TTT-TATTTAGTTTTTA
1 TTTATTTTTA-TTTTTA
2141276 TCTT-TATTTTATTTTT-
1 T-TTAT-TTTTATTTTTA
* * *
2141292 TATATCTTT-TCTTTA
1 TTTATTTTTATTTTTA
*
2141307 TCTTATTTTTCTTTTTCA
1 T-TTATTTTTATTTTT-A
2141325 TTTATTTATT-TATTTTA
1 TTTATTT-TTAT-TTTTA
2141342 TTTTATTTTTATTT
1 -TTTATTTTTATTT
2141356 AGTTTATTTA
Statistics
Matches: 272, Mismatches: 48, Indels: 68
0.70 0.12 0.18
Matches are distributed among these distances:
14 15 0.06
15 77 0.28
16 66 0.24
17 55 0.20
18 45 0.17
19 14 0.05
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (16 bp):
TTTATTTTTATTTTTA
Found at i:2141240 original size:15 final size:14
Alignment explanation
Indices: 2141190--2141355 Score: 52
Period size: 13 Copynumber: 12.0 Consensus size: 14
2141180 ACTCGTTATC
* *
2141190 TTTATTT-TAATTA
1 TTTATTTCTTATTT
*
2141203 TTTATTTATT-TTT
1 TTTATTTCTTATTT
*
2141216 CTTCATTTCTTCATTT
1 -TTTATTTCTT-ATTT
*
2141232 TTTATTTCTTTTATT
1 TTTATTTCTTAT-TT
2141247 TTTATGTTCTTTATTTT
1 TTTAT-TTC-TTA-TTT
*
2141264 ATTTAGTTT-TTA-TC
1 -TTTA-TTTCTTATTT
2141278 TTTA-TT-TTATTT
1 TTTATTTCTTATTT
* *
2141290 TTTATATCTT-TTC
1 TTTATTTCTTATTT
2141303 TTTA--TCTTATTT
1 TTTATTTCTTATTT
*
2141315 TTCT-TTT-TCATTT
1 TT-TATTTCTTATTT
*
2141328 ATTTATTTATT-TTAT
1 -TTTATTTCTTATT-T
2141343 TTTATTT-TTATTT
1 TTTATTTCTTATTT
2141356 AGTTTATTTA
Statistics
Matches: 117, Mismatches: 14, Indels: 44
0.67 0.08 0.25
Matches are distributed among these distances:
11 9 0.08
12 9 0.08
13 30 0.26
14 30 0.26
15 18 0.15
16 9 0.08
17 4 0.03
18 7 0.06
19 1 0.01
ACGTcount: A:0.17, C:0.07, G:0.01, T:0.75
Consensus pattern (14 bp):
TTTATTTCTTATTT
Found at i:2141246 original size:42 final size:41
Alignment explanation
Indices: 2141200--2141355 Score: 99
Period size: 42 Copynumber: 3.7 Consensus size: 41
2141190 TTTATTTTAA
2141200 TTATTTATTTATTTTTCTTCATTTCTTCATTTTT-TATTTCTT
1 TTATTTATTTATTTTTCTT-ATTTCTT-ATTTTTATATTTCTT
* * * *
2141242 TTA-TT-TTTA-TGTTCTTTATTTTATTTAGTTTTTATCTTTATT
1 TTATTTATTTATTTTTC-TTA-TTT-CTTA-TTTTTATATTTCTT
* * * * *
2141284 TTATTTTTTATATCTTTTCTT-TATCTTATTTTTCTTTTTCAT
1 TTATTTATT-TAT-TTTTCTTATTTCTTATTTTTATATTTCTT
*
2141326 TTATTTATTTATTTTATTTTATTT-TTATTT
1 TTATTTATTTATTTT-TCTTATTTCTTATTT
2141356 AGTTTATTTA
Statistics
Matches: 88, Mismatches: 14, Indels: 25
0.69 0.11 0.20
Matches are distributed among these distances:
39 5 0.06
40 13 0.15
41 21 0.24
42 32 0.36
43 5 0.06
44 4 0.05
45 2 0.02
46 2 0.02
47 4 0.05
ACGTcount: A:0.16, C:0.08, G:0.01, T:0.75
Consensus pattern (41 bp):
TTATTTATTTATTTTTCTTATTTCTTATTTTTATATTTCTT
Found at i:2141268 original size:9 final size:9
Alignment explanation
Indices: 2141231--2141366 Score: 73
Period size: 9 Copynumber: 14.1 Consensus size: 9
2141221 TTTCTTCATT
*
2141231 TTTTATTTC
1 TTTTATTTA
2141240 TTTTATTTTTA
1 TTTTA--TTTA
* *
2141251 TGTTCTTTA
1 TTTTATTTA
2141260 TTTTATTTA
1 TTTTATTTA
2141269 GTTTTTATCTTTA
1 --TTTTA--TTTA
2141282 TTTTATTT-
1 TTTTATTTA
*
2141290 TTTATATCTTT
1 TTT-TAT-TTA
2141301 TCTTTATCTTA
1 T-TTTAT-TTA
2141312 TTTT-TCTT-
1 TTTTAT-TTA
*
2141320 TTTCATTTA
1 TTTTATTTA
2141329 -TTTATTTA
1 TTTTATTTA
2141337 TTTTATTTTA
1 TTTTA-TTTA
2141347 TTTTTATTTA
1 -TTTTATTTA
*
2141357 GTTTATTTA
1 TTTTATTTA
2141366 T
1 T
2141367 CTTCATTGCC
Statistics
Matches: 102, Mismatches: 10, Indels: 30
0.72 0.07 0.21
Matches are distributed among these distances:
8 15 0.15
9 39 0.38
10 13 0.13
11 29 0.28
12 2 0.02
13 4 0.04
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (9 bp):
TTTTATTTA
Found at i:2141293 original size:25 final size:25
Alignment explanation
Indices: 2141276--2141364 Score: 74
Period size: 25 Copynumber: 3.6 Consensus size: 25
2141266 TTAGTTTTTA
2141276 TCTTTATTTTATTTTTTATATCTTT
1 TCTTTATTTTATTTTTTATATCTTT
* * * *
2141301 TCTTTATCTTATTTTTCTTTTTCATT
1 TCTTTATTTTATTTTT-TATATCTTT
* *
2141327 TATTTA-TTTATTTTATTTTAT-TTT
1 TCTTTATTTTATTTT-TTATATCTTT
* *
2141351 TATTTAGTTTATTT
1 TCTTTATTTTATTT
2141365 ATCTTCATTG
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
24 8 0.15
25 33 0.62
26 12 0.23
ACGTcount: A:0.17, C:0.07, G:0.01, T:0.75
Consensus pattern (25 bp):
TCTTTATTTTATTTTTTATATCTTT
Found at i:2141366 original size:24 final size:22
Alignment explanation
Indices: 2140985--2141364 Score: 162
Period size: 24 Copynumber: 16.3 Consensus size: 22
2140975 ATATTTACTT
* *
2140985 TTTATTTTATT-TTTTTATTTT
1 TTTATTTTTTTATTTTTATTTA
* *
2141006 TTTAATTTTTTATTTTTTTATTTT
1 TTT-ATTTTTT-TATTTTTATTTA
2141030 TTTATTTTTTTA-TTTT-TTTA
1 TTTATTTTTTTATTTTTATTTA
*
2141050 TTT-TTTTATTT-TTTTAATTT-
1 TTTATTTT-TTTATTTTTATTTA
2141070 TTTATTTTTTTA-TTTT-TTTA
1 TTTATTTTTTTATTTTTATTTA
2141090 TTT-TTTATTTTATTTTTATTTA
1 TTTATTT-TTTTATTTTTATTTA
** * **
2141112 TTT-TTATTTATTAGGTATATACA
1 TTTATT-TTT-TTATTTTTATTTA
* *
2141135 ATTATTAGTATTTT-TCTTTATTTTA
1 TTTATT--T-TTTTATTTTTA-TTTA
2141160 GTCTTA--TTTTTA-TTTTATTTA
1 -T-TTATTTTTTTATTTTTATTTA
**
2141181 CTCGTTATCTTTATTT-TAATTATTTA
1 -T--TTAT-TTT-TTTATTTTTATTTA
2141207 TTTATTTTTCTTCATTTCTTCATTT-
1 TTTATTTTT-TT-ATTT-TT-ATTTA
*
2141232 TTTATTTCTTTTATTTTTATGTTC
1 TTTATTT-TTTTATTTTTAT-TTA
2141256 TTTATTTTATTTAGTTTTTATCTTTA
1 TTTATTTT-TTTA-TTTTTA--TTTA
*
2141282 TTTTATTTTTTATATCTTTTCTTTA
1 -TTTATTTTTT-TAT-TTTTATTTA
*
2141307 TCTTATTTTTCTTTTTCATTTATTTA
1 T-TTATTTTT-TTATT--TTTATTTA
2141333 TTTATTTTATTTTATTTTTATTTA
1 TTTA-TTT-TTTTATTTTTATTTA
2141357 GTTTATTT
1 -TTTATTT
2141365 ATCTTCATTG
Statistics
Matches: 280, Mismatches: 30, Indels: 95
0.69 0.07 0.23
Matches are distributed among these distances:
19 10 0.04
20 29 0.10
21 24 0.09
22 36 0.13
23 29 0.10
24 47 0.17
25 46 0.16
26 39 0.14
27 20 0.07
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTATTTTTTTATTTTTATTTA
Found at i:2141380 original size:59 final size:59
Alignment explanation
Indices: 2141260--2141381 Score: 133
Period size: 59 Copynumber: 2.1 Consensus size: 59
2141250 ATGTTCTTTA
** * **
2141260 TTTTATTTAGTTTTTATCTTTATTTTATTTTTTATATCTTTTCTTTATCTTATTTTTCT
1 TTTTATTTAGTTTTTATCTTTATTTTATTTTTTATATAGTTTATTTATCTTATTTGCCT
* *
2141319 TTTTCATTTATTTATTTAT-TTTATTTTA-TTTTTATTTAGTTTATTTATCTTCA-TTGCCT
1 TTTT-ATTTAGTT-TTTATCTTTATTTTATTTTTTATATAGTTTATTTATCTT-ATTTGCCT
2141378 TTTT
1 TTTT
2141382 TTTCTAACAT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
59 31 0.58
60 17 0.32
61 5 0.09
ACGTcount: A:0.16, C:0.08, G:0.02, T:0.73
Consensus pattern (59 bp):
TTTTATTTAGTTTTTATCTTTATTTTATTTTTTATATAGTTTATTTATCTTATTTGCCT
Found at i:2142046 original size:12 final size:12
Alignment explanation
Indices: 2142031--2142057 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2142021 CGTCAGTTTA
2142031 CTCTTTTTTTTT
1 CTCTTTTTTTTT
2142043 CTCTTTTTTTTT
1 CTCTTTTTTTTT
2142055 CTC
1 CTC
2142058 ATGTGATAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (12 bp):
CTCTTTTTTTTT
Found at i:2145904 original size:12 final size:12
Alignment explanation
Indices: 2145887--2145911 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2145877 CCAGAGCAAC
2145887 AACAACAACAAA
1 AACAACAACAAA
2145899 AACAACAACAAA
1 AACAACAACAAA
2145911 A
1 A
2145912 CCCAATTCCC
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:0.76, C:0.24, G:0.00, T:0.00
Consensus pattern (12 bp):
AACAACAACAAA
Found at i:2148054 original size:3 final size:3
Alignment explanation
Indices: 2148030--2148074 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
2148020 TAAAATGTAG
* *
2148030 TAA TAA TAC TAT TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
2148075 TAAAACCCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:2155880 original size:20 final size:20
Alignment explanation
Indices: 2155836--2156049 Score: 198
Period size: 20 Copynumber: 10.6 Consensus size: 20
2155826 GATTCTGACT
* *
2155836 ATCGCAACGAGTATCCATAAA
1 ATCGCAACGCGTATCCGT-AA
2155857 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
2155877 ATCGCAATGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGT-AA
*
2155898 ATCGCAACGCGTATCCATAA
1 ATCGCAACGCGTATCCGTAA
* * *
2155918 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
*
2155938 ATCGCAACGCGTATCTGTAA
1 ATCGCAACGCGTATCCGTAA
* * *
2155958 ATCGCAACGAGAATACGTAA
1 ATCGCAACGCGTATCCGTAA
* *
2155978 ATCGCAATGCGTATCTGTAA
1 ATCGCAACGCGTATCCGTAA
* *
2155998 ATCGCAACGAC-AATACGTAAA
1 ATCGCAACG-CGTATCCGT-AA
* *
2156019 ATCGTAACACGTATCCGTAA
1 ATCGCAACGCGTATCCGTAA
2156039 ATCGCAACGCG
1 ATCGCAACGCG
2156050 ATTTTTAAAG
Statistics
Matches: 151, Mismatches: 36, Indels: 13
0.75 0.18 0.06
Matches are distributed among these distances:
20 105 0.70
21 46 0.30
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGTATCCGTAA
Found at i:2155951 original size:40 final size:41
Alignment explanation
Indices: 2155836--2156047 Score: 302
Period size: 41 Copynumber: 5.2 Consensus size: 41
2155826 GATTCTGACT
* * *
2155836 ATCGCAACGAGTATCCATAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* * *
2155877 ATCGCAATGACAATACGTAAAATCGCAACGCGTATCCATAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
2155918 ATCGCAACGAGAATACGT-AAATCGCAACGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
2155958 ATCGCAACGAGAATACGT-AAATCGCAATGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* * *
2155998 ATCGCAACGACAATACGTAAAATCGTAACACGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
2156039 ATCGCAACG
1 ATCGCAACG
2156048 CGATTTTTAA
Statistics
Matches: 154, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 76 0.49
41 78 0.51
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:2156498 original size:68 final size:68
Alignment explanation
Indices: 2156390--2156532 Score: 252
Period size: 68 Copynumber: 2.1 Consensus size: 68
2156380 ATGATAAGTT
2156390 TACTGGTAATTTCAATAATAGATTACCATTTCACTTAGATTTCTTATTAAATTCATTCGATTGCT
1 TACTGGTAATTTC-A-AATAGATTACCATTTCACTTAGATTTCTTATTAAATTCATTCGATTGCT
2156455 GCCAA
64 GCCAA
2156460 TACTGGTAATTTC-AATAGATTAACCATTTCACTTAGATTTCTTATTAAATTCATTCGATTGCTG
1 TACTGGTAATTTCAAATAGATT-ACCATTTCACTTAGATTTCTTATTAAATTCATTCGATTGCTG
2156524 CCAA
65 CCAA
2156528 TACTG
1 TACTG
2156533 CTAAACTGTT
Statistics
Matches: 72, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
67 8 0.11
68 51 0.71
70 13 0.18
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.41
Consensus pattern (68 bp):
TACTGGTAATTTCAAATAGATTACCATTTCACTTAGATTTCTTATTAAATTCATTCGATTGCTGC
CAA
Found at i:2156698 original size:34 final size:34
Alignment explanation
Indices: 2156655--2156723 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
2156645 CTTAAAATCG
2156655 CAACATGAAAATGAAAATCGCAACGAGAGAATGA
1 CAACATGAAAATGAAAATCGCAACGAGAGAATGA
2156689 CAACATGAAAATGAAAATCGCAACGAGAGAATGA
1 CAACATGAAAATGAAAATCGCAACGAGAGAATGA
2156723 C
1 C
2156724 TATCGCAACG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.52, C:0.16, G:0.20, T:0.12
Consensus pattern (34 bp):
CAACATGAAAATGAAAATCGCAACGAGAGAATGA
Found at i:2156721 original size:20 final size:20
Alignment explanation
Indices: 2156648--2156760 Score: 80
Period size: 20 Copynumber: 6.0 Consensus size: 20
2156638 TTTCTAACTT
*
2156648 AAAATCGCAAC-ATGAAAATG
1 AAAATCGCAACGA-GAGAATG
2156668 AAAATCGCAACGAGAGAATG
1 AAAATCGCAACGAGAGAATG
* *
2156688 ACAA---C-ATGA-A-AATG
1 AAAATCGCAACGAGAGAATG
2156702 AAAATCGCAACGAGAGAATG
1 AAAATCGCAACGAGAGAATG
** *
2156722 ACTATCGCAACGCG-GAAATG
1 AAAATCGCAACGAGAG-AATG
**
2156742 ACTATCGCAACGAGAGAAT
1 AAAATCGCAACGAGAGAAT
2156761 CGCAACGCGA
Statistics
Matches: 75, Mismatches: 9, Indels: 18
0.74 0.09 0.18
Matches are distributed among these distances:
14 7 0.09
15 1 0.01
16 3 0.04
17 2 0.03
18 3 0.04
19 2 0.03
20 55 0.73
21 2 0.03
ACGTcount: A:0.48, C:0.18, G:0.21, T:0.13
Consensus pattern (20 bp):
AAAATCGCAACGAGAGAATG
Found at i:2156741 original size:40 final size:34
Alignment explanation
Indices: 2156663--2156786 Score: 119
Period size: 34 Copynumber: 3.5 Consensus size: 34
2156653 CGCAACATGA
**
2156663 AAATGAAAATCGCAAC-GAGAGAAT-GACAACATG
1 AAATGAAAATCGCAACGGAGAGAATCG-CAACGCG
2156696 AAAATGAAAATCGCAACGAGAGAATGACTATCGCAACGCGG
1 -AAATGAAAATCGCAACG-GAG-A-GA--ATCGCAACGC-G
**
2156737 AAATGACTATCGCAAC-GAGAGAATCGCAACGCG
1 AAATGAAAATCGCAACGGAGAGAATCGCAACGCG
2156770 AAATGAAAATCGCAACG
1 AAATGAAAATCGCAACG
2156787 CGAAACCAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 18
0.76 0.06 0.18
Matches are distributed among these distances:
33 15 0.20
34 26 0.35
36 5 0.07
37 2 0.03
38 5 0.07
40 20 0.27
41 2 0.03
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (34 bp):
AAATGAAAATCGCAACGGAGAGAATCGCAACGCG
Found at i:2156782 original size:19 final size:19
Alignment explanation
Indices: 2156697--2156802 Score: 87
Period size: 20 Copynumber: 5.7 Consensus size: 19
2156687 GACAACATGA
*
2156697 AAATGAAAATCGCAACGAG
1 AAATGAAAATCGCAACGCG
**
2156716 AGAATGACTATCGCAACGCGG
1 A-AATGAAAATCGCAACGC-G
**
2156737 AAATGACTATCGCAA--CG
1 AAATGAAAATCGCAACGCG
*
2156754 --A-GAGAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
2156770 AAATGAAAATCGCAACGCG
1 AAATGAAAATCGCAACGCG
**
2156789 AAACCAAAATCGCA
1 AAATGAAAATCGCA
2156803 TTTCGATTTC
Statistics
Matches: 72, Mismatches: 8, Indels: 14
0.77 0.09 0.15
Matches are distributed among these distances:
14 9 0.12
15 1 0.01
16 2 0.03
17 1 0.01
18 2 0.03
19 27 0.38
20 28 0.39
21 2 0.03
ACGTcount: A:0.44, C:0.23, G:0.22, T:0.11
Consensus pattern (19 bp):
AAATGAAAATCGCAACGCG
Done.