Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 181 of 318
Found at i:56281268 original size:32 final size:27
Alignment explanation
Indices: 56281191--56281272 Score: 105
Period size: 27 Copynumber: 3.0 Consensus size: 27
56281181 GCGTCCTAGC
*
56281191 GGCTATGCCACA-ATTATCTGATCTGGT
1 GGCTCTGCCACATA-TATCTGATCTGGT
*
56281218 GGCTCTGCCACATATATCTGTTCTGGT
1 GGCTCTGCCACATATATCTGATCTGGT
*
56281245 GGCTCTGCCACA-ATATTTGTATCTGGT
1 GGCTCTGCCACATATATCTG-ATCTGGT
56281272 G
1 G
56281273 ACTTCGTCAC
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
26 6 0.12
27 42 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.35
Consensus pattern (27 bp):
GGCTCTGCCACATATATCTGATCTGGT
Found at i:56286074 original size:38 final size:40
Alignment explanation
Indices: 56286032--56286108 Score: 113
Period size: 40 Copynumber: 2.0 Consensus size: 40
56286022 AAAGTACAAC
* *
56286032 ATTTACAAT-CTCAT-TTTTTCACAAGGCTAAGATATAAT
1 ATTTACAATCCTCATCTTTTTCACAAGACTAACATATAAT
*
56286070 ATTTACAATCCTTATCTTTTTCACAAGACTAACATATAA
1 ATTTACAATCCTCATCTTTTTCACAAGACTAACATATAA
56286109 CCTTCCCCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 9 0.26
39 4 0.12
40 21 0.62
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.39
Consensus pattern (40 bp):
ATTTACAATCCTCATCTTTTTCACAAGACTAACATATAAT
Found at i:56287056 original size:30 final size:29
Alignment explanation
Indices: 56287020--56287079 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 29
56287010 AATTGCTGTC
56287020 CTTTTCCTTTTCTTTTAAAACAATTTATAT
1 CTTTTCCTTTTCTTTTAAAA-AATTTATAT
56287050 CTTTTCCTTTTCTTTTAAAAAATTTATAT
1 CTTTTCCTTTTCTTTTAAAAAATTTATAT
56287079 C
1 C
56287080 AAAATTCAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.27, C:0.17, G:0.00, T:0.57
Consensus pattern (29 bp):
CTTTTCCTTTTCTTTTAAAAAATTTATAT
Found at i:56298543 original size:93 final size:93
Alignment explanation
Indices: 56298431--56298602 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
56298421 CGCCCATAAG
* *
56298431 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
56298496 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
56298524 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
56298589 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
56298603 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:56298599 original size:46 final size:46
Alignment explanation
Indices: 56298424--56298599 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
56298414 TGTAACCCGC
* * *
56298424 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
56298470 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
56298520 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
56298563 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
56298600 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:56305986 original size:46 final size:46
Alignment explanation
Indices: 56305919--56306047 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
56305909 TGTAACCCGC
* * * *
56305919 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
56305965 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
56306011 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56306048 TGCTCAACCA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:56306066 original size:46 final size:45
Alignment explanation
Indices: 56305927--56306066 Score: 140
Period size: 46 Copynumber: 3.0 Consensus size: 45
56305917 GCCCATAAGC
* ** * *
56305927 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
*** *
56305973 GAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
56306019 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGT
56306065 GA
1 GA
56306067 CATGTCACTT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 79 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGT
Found at i:56309179 original size:27 final size:28
Alignment explanation
Indices: 56309149--56309218 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
56309139 ATAATAAGTC
*
56309149 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
56309176 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
56309204 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56309219 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:56317244 original size:30 final size:30
Alignment explanation
Indices: 56317189--56317379 Score: 291
Period size: 30 Copynumber: 6.5 Consensus size: 30
56317179 ATAGTGAATC
56317189 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
56317218 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
56317248 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
56317278 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
56317308 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
56317336 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
56317366 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56317380 CAATCTTGTC
Statistics
Matches: 152, Mismatches: 5, Indels: 9
0.92 0.03 0.05
Matches are distributed among these distances:
27 2 0.01
28 22 0.14
29 19 0.12
30 108 0.71
31 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:56324758 original size:28 final size:29
Alignment explanation
Indices: 56324659--56324757 Score: 159
Period size: 28 Copynumber: 3.5 Consensus size: 29
56324649 AATGAGATTG
56324659 GCACTAAGTGTGCGAGTTT-AATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
56324687 GCACTAAGTGTGCGAGTTTGAATTGTATA
1 GCACTAAGTGTGCGAGTTTGAATTGTATA
*
56324716 GCACTAAGTGTGCGGGTTTGAATAT-TA-A
1 GCACTAAGTGTGCGAGTTTGAAT-TGTATA
56324744 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
56324758 GACTTACTGT
Statistics
Matches: 68, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
28 34 0.50
29 33 0.49
30 1 0.01
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.32
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGTTTGAATTGTATA
Found at i:56328294 original size:44 final size:44
Alignment explanation
Indices: 56328244--56328360 Score: 173
Period size: 44 Copynumber: 2.7 Consensus size: 44
56328234 GTCCCAACAG
*
56328244 GGTCTTACTCGTACACATATATTGGAATCACATATCGATGCCAT
1 GGTCTTACTCGTACACATATATCGGAATCACATATCGATGCCAT
* *
56328288 GGTCTTACTCGCACACATATATCAGAATCACATATCGATGCCAT
1 GGTCTTACTCGTACACATATATCGGAATCACATATCGATGCCAT
* *
56328332 GGTCTTATTC-TCACACGTATATCGGAATC
1 GGTCTTACTCGT-ACACATATATCGGAATC
56328361 CTATGTCATG
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 65 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (44 bp):
GGTCTTACTCGTACACATATATCGGAATCACATATCGATGCCAT
Found at i:56328459 original size:15 final size:15
Alignment explanation
Indices: 56328423--56328451 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
56328413 CGGACGTCGT
56328423 AACTCGGTCGAAACG
1 AACTCGGTCGAAACG
56328438 AACTCGGTCGAAAC
1 AACTCGGTCGAAAC
56328452 AAGCTCGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.28, G:0.24, T:0.14
Consensus pattern (15 bp):
AACTCGGTCGAAACG
Found at i:56330375 original size:55 final size:56
Alignment explanation
Indices: 56330310--56330424 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
56330300 AGCATGGCTG
* *
56330310 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCA-ATGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCATA-GCCA
* * *
56330366 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
56330421 CCAG
1 CCAG
56330425 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
55 29 0.56
56 23 0.44
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:56330392 original size:27 final size:27
Alignment explanation
Indices: 56330335--56330424 Score: 108
Period size: 28 Copynumber: 3.2 Consensus size: 27
56330325 GTGACAGAGT
*
56330335 CACCAGATACAGATATTTTGTGGCAATGC
1 CACCAGA-ACAGATA-TTTGTGGCAAAGC
* **
56330364 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAAAGC
*
56330391 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGAT-ATTTGTGGCAAAGC
56330419 CACCAG
1 CACCAG
56330425 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
27 23 0.43
28 24 0.44
29 7 0.13
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAAAGC
Found at i:56330420 original size:28 final size:27
Alignment explanation
Indices: 56330335--56330424 Score: 110
Period size: 27 Copynumber: 3.2 Consensus size: 27
56330325 GTGACAGAGT
*
56330335 CACCAGATACAGATATTTTGTGGCAATGC
1 CACCAGA-ACAGATAATTTGTGGCAA-GC
* *
56330364 CACCAGAACAGAT-ATATGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-AGC
56330391 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCA-AGC
56330419 CACCAG
1 CACCAG
56330425 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 23 0.43
28 23 0.43
29 7 0.13
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCAAGC
Found at i:56330577 original size:28 final size:28
Alignment explanation
Indices: 56330530--56330594 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
56330520 AAATTAACCC
*
56330530 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
56330558 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
56330586 TAGGGGTAT
1 TAGGGGTAT
56330595 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:56338238 original size:26 final size:26
Alignment explanation
Indices: 56338178--56338266 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 26
56338168 GTGACAGAGT
56338178 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAG-GC
*
56338207 CACCAGAACAGATATATGTGGCAGGC
1 CACCAGAACAGATATTTGTGGCAGGC
*
56338233 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGAT-ATTTGTGGCA-GGC
56338261 CACCAG
1 CACCAG
56338267 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
26 15 0.27
27 18 0.33
28 15 0.27
29 7 0.13
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.20
Consensus pattern (26 bp):
CACCAGAACAGATATTTGTGGCAGGC
Found at i:56338419 original size:28 final size:28
Alignment explanation
Indices: 56338372--56338436 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
56338362 AAATTAACCC
*
56338372 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
56338400 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
56338428 TAGGGGTAT
1 TAGGGGTAT
56338437 TCTAGTAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:56338444 original size:28 final size:28
Alignment explanation
Indices: 56338372--56338445 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
56338362 AAATTAACCC
*
56338372 TAGGGGTATAA-AGGTCATTTTGCATACA
1 TAGGGGTATAATA-GTAATTTTGCATACA
*
56338400 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATAGTAATTTTGCATACA
**
56338428 TAGGGGTATTCTAGTAAT
1 TAGGGGTATAATAGTAAT
56338446 CTAACTATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAATAGTAATTTTGCATACA
Found at i:56345756 original size:46 final size:46
Alignment explanation
Indices: 56345706--56345878 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
56345696 TGGTTGAGCA
*
56345706 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
56345752 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* * *
56345797 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGC-GATCG
1 --TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT-G
* *
56345845 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTA
56345879 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 58 0.56
47 29 0.28
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.30
Consensus pattern (46 bp):
TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:56345862 original size:93 final size:93
Alignment explanation
Indices: 56345703--56345873 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
56345693 GGATGGTTGA
*
56345703 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCATTGAGT
56345768 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
56345796 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGC-GATCGCCCGAGCTCATTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAAT-GCCCGAACTCATTGAG
56345860 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
56345874 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56346140 original size:19 final size:20
Alignment explanation
Indices: 56346103--56346140 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
56346093 ATAAGGTGGT
56346103 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
56346123 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
56346141 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:56349741 original size:23 final size:23
Alignment explanation
Indices: 56349693--56349741 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
56349683 GCTTCTCGAT
* *
56349693 TTTCTTTTCCTTTTCTATCTTTC
1 TTTCTTTTCCTTATCTATCTTCC
56349716 TTTCTTTTCCTTATCTAAT-TTCC
1 TTTCTTTTCCTTATCT-ATCTTCC
56349739 TTT
1 TTT
56349742 TTGGAGTGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTCTTTTCCTTATCTATCTTCC
Found at i:56357328 original size:2 final size:2
Alignment explanation
Indices: 56357321--56357364 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
56357311 AGTATAGTTG
* * *
56357321 AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AT AG AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
56357363 AT
1 AT
56357365 TCGGCCATCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (2 bp):
AT
Found at i:56358040 original size:29 final size:29
Alignment explanation
Indices: 56358005--56358078 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
56357995 GTTGTGAGAT
* *
56358005 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
* *
56358034 TGGCACTAAGTGTGTGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
*
56358063 TGGCACTAAGTATGCG
1 TGGCACTAAGTGTGCG
56358079 TGGTTGATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 5 0.13
29 33 0.87
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:56364900 original size:26 final size:26
Alignment explanation
Indices: 56364864--56364916 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
56364854 AGAGAAAGAA
56364864 ATAAACAGGCATAACTTGGCCGGATG
1 ATAAACAGGCATAACTTGGCCGGATG
56364890 ATAAACAGGCATAACTTGGCCGGATG
1 ATAAACAGGCATAACTTGGCCGGATG
56364916 A
1 A
56364917 AGTATGTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (26 bp):
ATAAACAGGCATAACTTGGCCGGATG
Found at i:56365196 original size:19 final size:20
Alignment explanation
Indices: 56365172--56365217 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
56365162 CATCCATACA
56365172 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
56365191 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
56365211 CCAGAAA
1 CCAGAAA
56365218 TTATTTTTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:56367671 original size:25 final size:24
Alignment explanation
Indices: 56367637--56367690 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
56367627 CATTACCGAT
*
56367637 CAGGATGCTCGCAG-GAGCTATATAA
1 CAGGACGCTCG-AGAGAGCT-TATAA
*
56367662 CAGGACGCTCGAGAGGGCTTATAA
1 CAGGACGCTCGAGAGAGCTTATAA
56367686 CAGGA
1 CAGGA
56367691 TTGCTCGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 12 0.46
25 14 0.54
ACGTcount: A:0.31, C:0.20, G:0.31, T:0.17
Consensus pattern (24 bp):
CAGGACGCTCGAGAGAGCTTATAA
Found at i:56372965 original size:47 final size:47
Alignment explanation
Indices: 56372913--56373034 Score: 208
Period size: 47 Copynumber: 2.6 Consensus size: 47
56372903 GCATTGGTAC
56372913 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCACTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCACTTGG
*
56372960 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCACTTGG
* **
56373007 TAAGATAAGGATATGATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
56373035 CCAAGGCATA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 71 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCACTTGG
Found at i:56373221 original size:53 final size:54
Alignment explanation
Indices: 56373013--56373220 Score: 190
Period size: 54 Copynumber: 3.9 Consensus size: 54
56373003 TTGGTAAGAT
** * * *
56373013 AAGGATATGATGTAAGACCATGCCAAGGCAT-AGCATTGATAAGTTCTATAAGGT
1 AAGGATACCATGTAAGACCATGTCAAGACATGA-CATTGATAAGTTCTATAAGGC
* * * * *
56373067 AAGGAAATCATGTAAGACCATGTCAAGACATCACATTGATGAGTTACTAGAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGACATTGATAAGTT-CTATAAGGC
* * * *
56373122 AAAGG-TCCCATGTAAGACCATG-CTAAGGCATGACATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGACCATGTC-AAGACATGACATTGATAAGTTCTATAAGGC
* * * *
56373175 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTC
1 AAGGATACCATGTAAGACCATGTCAAGACATGACATTGATAAGTTC
56373221 AAAAAGGAAA
Statistics
Matches: 128, Mismatches: 20, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
52 4 0.03
53 39 0.30
54 41 0.32
55 40 0.31
56 4 0.03
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGACATTGATAAGTTCTATAAGGC
Found at i:56377345 original size:19 final size:20
Alignment explanation
Indices: 56377296--56377345 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
56377286 TTGGGATCAA
*
56377296 TTTGAAACAAATCAGAAAAT
1 TTTGAAAAAAATCAGAAAAT
* *
56377316 TTTGGAAAAAAT-TGAAAAT
1 TTTGAAAAAAATCAGAAAAT
56377335 TTTGAAAAAAA
1 TTTGAAAAAAA
56377346 GGGTCACACG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.56, C:0.04, G:0.12, T:0.28
Consensus pattern (20 bp):
TTTGAAAAAAATCAGAAAAT
Found at i:56379912 original size:40 final size:40
Alignment explanation
Indices: 56379754--56379917 Score: 224
Period size: 40 Copynumber: 4.1 Consensus size: 40
56379744 CAGATGATAA
*
56379754 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATA-T
* * *
56379794 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATAT
* *
56379834 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAACT-ACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTG-CAAGTGACTATAT
* *
56379874 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATAT
56379914 CCGG
1 CCGG
56379918 TTAAAGCCCG
Statistics
Matches: 110, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 104 0.95
41 3 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATAT
Found at i:56383694 original size:26 final size:26
Alignment explanation
Indices: 56383665--56383722 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
56383655 CTCGTTATAT
56383665 GGCTCTTCGTGAGCTTCCCGATTAAA
1 GGCTCTTCGTGAGCTTCCCGATTAAA
* ** *
56383691 GGCTCTTTGTGAGCTTCTTGATTAAT
1 GGCTCTTCGTGAGCTTCCCGATTAAA
56383717 GGCTCT
1 GGCTCT
56383723 CTAGAACTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCCCGATTAAA
Found at i:56383743 original size:23 final size:23
Alignment explanation
Indices: 56383715--56383762 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
56383705 TTCTTGATTA
*
56383715 ATGGCTCTCTAGAACTTCCAGAT
1 ATGGCTCACTAGAACTTCCAGAT
* *
56383738 ATGGCTCACTTGAACTTCCTGAT
1 ATGGCTCACTAGAACTTCCAGAT
56383761 AT
1 AT
56383763 ATGGCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (23 bp):
ATGGCTCACTAGAACTTCCAGAT
Found at i:56383780 original size:25 final size:25
Alignment explanation
Indices: 56383752--56383803 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
56383742 CTCACTTGAA
*
56383752 CTTCCTGA-TATATGGCTATTTGGAG
1 CTTCCTGATTA-ACGGCTATTTGGAG
*
56383777 CTTCCTGATTAACGGCTCTTTGGAG
1 CTTCCTGATTAACGGCTATTTGGAG
56383802 CT
1 CT
56383804 ACCCGTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (25 bp):
CTTCCTGATTAACGGCTATTTGGAG
Found at i:56391117 original size:16 final size:16
Alignment explanation
Indices: 56391096--56391135 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
56391086 TCATTTTCTC
56391096 TATCAAACCATGTCAT
1 TATCAAACCATGTCAT
56391112 TATCAAACCATGTCAT
1 TATCAAACCATGTCAT
56391128 TATCAAAC
1 TATCAAAC
56391136 TAGGTTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.40, C:0.25, G:0.05, T:0.30
Consensus pattern (16 bp):
TATCAAACCATGTCAT
Found at i:56407757 original size:16 final size:16
Alignment explanation
Indices: 56407736--56407775 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
56407726 ATCATTTCTC
56407736 TATCAAACCATGTCAT
1 TATCAAACCATGTCAT
56407752 TATCAAACCATGTCAT
1 TATCAAACCATGTCAT
56407768 TATCAAAC
1 TATCAAAC
56407776 TAGGTTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.40, C:0.25, G:0.05, T:0.30
Consensus pattern (16 bp):
TATCAAACCATGTCAT
Found at i:56428450 original size:16 final size:16
Alignment explanation
Indices: 56428425--56428456 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
56428415 AGGCCATGTG
56428425 GTTAACTAATTCAATT
1 GTTAACTAATTCAATT
*
56428441 GTTAATTAATTCAATT
1 GTTAACTAATTCAATT
56428457 TGAAAATAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (16 bp):
GTTAACTAATTCAATT
Found at i:56436245 original size:40 final size:39
Alignment explanation
Indices: 56436154--56436304 Score: 119
Period size: 40 Copynumber: 3.8 Consensus size: 39
56436144 ATAATCACGT
* * *
56436154 GCACAAATGCCTTCGGGTCTTAGCCCAGATAGAATGTCTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
56436194 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
* * ** *
56436234 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
* *
56436274 GCATAATTGTCTTCGGGAT-TTAGCCCGGATA
1 GCACAA-TGCCTTCGGG-TCTTAGCCCGGATA
56436305 TCATTCAATT
Statistics
Matches: 91, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 84 0.92
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:56436288 original size:80 final size:80
Alignment explanation
Indices: 56436154--56436303 Score: 189
Period size: 80 Copynumber: 1.9 Consensus size: 80
56436144 ATAATCACGT
*
56436154 GCACAAATGCCTTCGGGTCTTAGCCCAGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCAGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
56436218 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * * *
56436234 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCAGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
56436297 CCCGGAT
64 CCCGGAT
56436304 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
79 3 0.05
80 56 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCAGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:56439334 original size:15 final size:14
Alignment explanation
Indices: 56439314--56439354 Score: 64
Period size: 15 Copynumber: 2.9 Consensus size: 14
56439304 AATCAGTAGA
56439314 AATTAAATTAAACT
1 AATTAAATTAAACT
56439328 AATTTAAATTAAACT
1 AA-TTAAATTAAACT
*
56439343 AATGAAATTAAA
1 AATTAAATTAAA
56439355 TAAAATAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (14 bp):
AATTAAATTAAACT
Found at i:56442134 original size:26 final size:26
Alignment explanation
Indices: 56442105--56442238 Score: 241
Period size: 26 Copynumber: 5.2 Consensus size: 26
56442095 TGGTACAAAT
56442105 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56442131 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
56442157 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56442183 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
56442209 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56442235 TGAT
1 TGAT
56442239 GGGCATTTCA
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 103 1.00
ACGTcount: A:0.32, C:0.07, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:56444648 original size:37 final size:37
Alignment explanation
Indices: 56444598--56444680 Score: 123
Period size: 37 Copynumber: 2.2 Consensus size: 37
56444588 AAGTCTTACT
*
56444598 CGGACATAATCTCCACATGTAGTCATCGGGTCGT-ACC
1 CGGACATAATCTCCACACGTAGTCATCGGGTC-TCACC
*
56444635 CGGACATAATCTCCACACGTAGTCATTGGGTCTCACC
1 CGGACATAATCTCCACACGTAGTCATCGGGTCTCACC
56444672 CGGAACATA
1 CGG-ACATA
56444681 TTTCCAAGTT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
36 1 0.02
37 36 0.86
38 5 0.12
ACGTcount: A:0.27, C:0.30, G:0.20, T:0.23
Consensus pattern (37 bp):
CGGACATAATCTCCACACGTAGTCATCGGGTCTCACC
Found at i:56444816 original size:49 final size:49
Alignment explanation
Indices: 56444749--56445046 Score: 546
Period size: 49 Copynumber: 6.1 Consensus size: 49
56444739 TTTACCACAT
* *
56444749 ATATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
56444798 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
56444847 ATATATATACATTTTCACATTCATCACGTCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
56444896 ATATATAT--ATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
56444943 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
56444992 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
56445041 ATATAT
1 ATATAT
56445047 TATTATGTAC
Statistics
Matches: 241, Mismatches: 6, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
47 46 0.19
49 195 0.81
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.35
Consensus pattern (49 bp):
ATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:56444996 original size:145 final size:145
Alignment explanation
Indices: 56444751--56445050 Score: 548
Period size: 145 Copynumber: 2.1 Consensus size: 145
56444741 TACCACATAT
* * *
56444751 ATATATACACTTTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATACATTTTCAC
1 ATATATATATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTTTCAC
*
56444816 ATTCATCACATCGGCCATTAGGCCTCATCACATATATATACATTTTCACATTCATCACGTCGGCC
66 ATTCATCACATCGGCCATTAGGCCTCATCACATATATATACATTTTCACATTCATCACATCGGCC
56444881 ATTAGGCCTTATCAC
131 ATTAGGCCTTATCAC
56444896 ATATATATATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTTTCAC
1 ATATATATATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTTTCAC
*
56444961 ATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTTTCACATTCATCACATCGGCC
66 ATTCATCACATCGGCCATTAGGCCTCATCACATATATATACATTTTCACATTCATCACATCGGCC
56445026 ATTAGGCCTTATCAC
131 ATTAGGCCTTATCAC
56445041 ATATAT-TATT
1 ATATATATATT
56445051 ATGTACAGAC
Statistics
Matches: 150, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
144 4 0.03
145 146 0.97
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (145 bp):
ATATATATATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACATTTTCAC
ATTCATCACATCGGCCATTAGGCCTCATCACATATATATACATTTTCACATTCATCACATCGGCC
ATTAGGCCTTATCAC
Found at i:56460189 original size:40 final size:40
Alignment explanation
Indices: 56460129--56460312 Score: 214
Period size: 40 Copynumber: 4.6 Consensus size: 40
56460119 TATTCGAATG
*
56460129 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
56460169 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
56460209 ATATTCGGGCTAAGA-CCTGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCC-GAAGGCATTTATGCTAGTGACT
*
56460249 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* *
56460289 ATATCTGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
56460313 CTCGTGCGAG
Statistics
Matches: 123, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
39 3 0.02
40 115 0.93
41 5 0.04
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:56464946 original size:79 final size:80
Alignment explanation
Indices: 56464863--56465010 Score: 183
Period size: 79 Copynumber: 1.9 Consensus size: 80
56464853 TATGGTAACC
* * *
56464863 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGA-TTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
56464926 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
56464942 CGCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACCATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
56465007 CCGG
66 CCGG
56465011 TTATAATTTC
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
78 1 0.02
79 30 0.53
80 26 0.46
ACGTcount: A:0.23, C:0.31, G:0.24, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:56464955 original size:40 final size:40
Alignment explanation
Indices: 56464903--56465010 Score: 135
Period size: 40 Copynumber: 2.7 Consensus size: 40
56464893 TATCACGATT
** *
56464903 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
56464943 GCACGAATGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
* * *
56464983 GCACCATTGCCTTCGGGTCTTAACCCGG
1 GCACAAATGCCTTCGGGTCTTAGCCCGG
56465011 TTATAATTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 59 1.00
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAACCACTA
Found at i:56471011 original size:27 final size:26
Alignment explanation
Indices: 56470976--56471141 Score: 206
Period size: 27 Copynumber: 6.2 Consensus size: 26
56470966 ATCATGGCTG
* *
56470976 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
56471002 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
56471030 CCAGAATAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
56471057 CCAGATCAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
56471084 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * * *
56471111 CCAGATCAGATATTTGTGGCATAGCCT
1 CCAGAACAGATA-ATGTGGCAGAGCCA
56471138 CCAG
1 CCAG
56471142 GACACTTCCT
Statistics
Matches: 125, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
26 7 0.06
27 99 0.79
28 19 0.15
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:56471035 original size:54 final size:54
Alignment explanation
Indices: 56470976--56471141 Score: 253
Period size: 54 Copynumber: 3.1 Consensus size: 54
56470966 ATCATGGCTG
* *
56470976 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
*
56471030 CCAGAATAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
* * * *
56471084 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCT
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
56471138 CCAG
1 CCAG
56471142 GACACTTCCT
Statistics
Matches: 103, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
54 85 0.83
55 18 0.17
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:56471093 original size:81 final size:81
Alignment explanation
Indices: 56470976--56471141 Score: 230
Period size: 81 Copynumber: 2.0 Consensus size: 81
56470966 ATCATGGCTG
*
56470976 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATA-ATCGTGGCAGAGCCACCAGAAT-AG
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATATAT-GTGGCAGAGCCACCAG-ATCAG
56471039 ATATATGTGGCAGAGCCA
64 ATATATGTGGCAGAGCCA
* *
56471057 CCAGATCAGATAATCGTGGCAGAGCCACCAGA-ACAGATATATGTGGCAGAGCCACCAGATCAGA
1 CCAGAACAGATAAT-GTGACAGAGCCACCAGATACAGATATATGTGGCAGAGCCACCAGATCAGA
* * *
56471121 TATTTGTGGCATAGCCT
65 TATATGTGGCAGAGCCA
56471138 CCAG
1 CCAG
56471142 GACACTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
80 2 0.03
81 57 0.75
82 17 0.22
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (81 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATATATGTGGCAGAGCCACCAGATCAGAT
ATATGTGGCAGAGCCA
Found at i:56472753 original size:26 final size:26
Alignment explanation
Indices: 56472722--56472829 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
56472712 TGAAATGTCC
*
56472722 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAATCCATT
* *
56472748 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAATCCATT
*
56472774 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAATCCATT
56472800 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAATCCATT
56472826 ATCA
1 ATCA
56472830 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAATCCATT
Found at i:56473599 original size:29 final size:29
Alignment explanation
Indices: 56473557--56473614 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
56473547 TAAAACAGCC
56473557 CCCAAACACCCACTTATGAGTTCAAATCA
1 CCCAAACACCCACTTATGAGTTCAAATCA
56473586 CCCAAACACCCACTTATGAGTTCAAATCA
1 CCCAAACACCCACTTATGAGTTCAAATCA
56473615 ATCATTGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.34, G:0.07, T:0.21
Consensus pattern (29 bp):
CCCAAACACCCACTTATGAGTTCAAATCA
Found at i:56476168 original size:39 final size:39
Alignment explanation
Indices: 56476075--56476273 Score: 260
Period size: 39 Copynumber: 5.1 Consensus size: 39
56476065 CGGAATTTAG
* ** *
56476075 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTT-AC
* *
56476115 CCGGGTATAGCAACTCGCACAAATGCCTTCGGGTCTTAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAC
56476154 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTT-AC
*
56476194 CCGGA-ATAGCAACTCGCACAAATGCCTTCGGGTCTTAC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAC
* * *
56476232 CCGGATATATC-ACTAGCATAAATGCCTTCGGG-CTTAGC
1 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTA-C
56476270 CCGG
1 CCGG
56476274 GTATCATTCA
Statistics
Matches: 144, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
37 4 0.03
38 31 0.22
39 71 0.49
40 38 0.26
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.23
Consensus pattern (39 bp):
CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAC
Found at i:56476175 original size:79 final size:78
Alignment explanation
Indices: 56476075--56476277 Score: 311
Period size: 78 Copynumber: 2.6 Consensus size: 78
56476065 CGGAATTTAG
* *
56476075 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATG
1 CCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATG
56476140 CCTTCGGGTCTTAC
65 CCTTCGGGTCTTAC
* *
56476154 CCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCC-GGAATAGCAACTCGCACAAATG
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATG
56476218 CCTTCGGGTCTTAC
65 CCTTCGGGTCTTAC
* * *
56476232 CCGGATATATCACTAGCATAAATGCCTTCGGG-CTTAGCCCGGGTAT
1 CCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTAT
56476278 CATTCAATGC
Statistics
Matches: 113, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
76 7 0.06
77 23 0.20
78 46 0.41
79 37 0.33
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.23
Consensus pattern (78 bp):
CCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACAAATGC
CTTCGGGTCTTAC
Found at i:56484240 original size:40 final size:40
Alignment explanation
Indices: 56484113--56484296 Score: 268
Period size: 39 Copynumber: 4.7 Consensus size: 40
56484103 ATAACCACAA
*
56484113 GCACAATTGCCTTCGGGTCTTAACCCGG-TATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
56484152 GCACAAATGCCTTCGGGTCTTAGCCCGGATA-AACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
*
56484191 GCACAAATGCCTTCGGGTCTTAACCCGGATGTAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
56484231 GCACAAATGCCTTCGGGTCTTAACCCGGATATATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
56484270 GCATAAATGCCTTCGGG-CTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
56484297 GTATCATTCA
Statistics
Matches: 132, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
38 9 0.07
39 81 0.61
40 42 0.32
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:56484242 original size:79 final size:78
Alignment explanation
Indices: 56484097--56484296 Score: 287
Period size: 79 Copynumber: 2.6 Consensus size: 78
56484087 CGGAATTTAG
* *
56484097 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGTATAGCAACTCGCACAAATGC
1 CCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGTATAGCAACTCGCACAAATGC
*
56484162 CTTCGGGTCTTAGC
65 CTTCGGGTCTTAAC
* *
56484176 CCGGATA-AACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATGTAGCAACTCGCACAAATG
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGG-TATAGCAACTCGCACAAATG
56484240 CCTTCGGGTCTTAAC
64 CCTTCGGGTCTTAAC
* * *
56484255 CCGGATATATCACTAGCATAAATGCCTTCGGG-CTTAGCCCGG
1 CCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGG
56484297 GTATCATTCA
Statistics
Matches: 109, Mismatches: 9, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
77 1 0.01
78 40 0.37
79 66 0.61
80 2 0.02
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.23
Consensus pattern (78 bp):
CCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGTATAGCAACTCGCACAAATGCC
TTCGGGTCTTAAC
Found at i:56487732 original size:17 final size:19
Alignment explanation
Indices: 56487717--56487754 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
56487707 TTTTTTATTA
56487717 ATTATTTGTACATATTATAT
1 ATTATTTGTACATA-TATAT
56487737 ATTATTTGTACATATATA
1 ATTATTTGTACATATATA
56487755 CACTTTCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (19 bp):
ATTATTTGTACATATATAT
Found at i:56492961 original size:28 final size:28
Alignment explanation
Indices: 56492900--56492954 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
56492890 TCCAGACTAC
56492900 AAATTCTCAACATACATCAACATTCAAT
1 AAATTCTCAACATACATCAACATTCAAT
56492928 AAATTCTCAACATACATCAACATTCAA
1 AAATTCTCAACATACATCAACATTCAA
56492955 ACCATTCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.27
Consensus pattern (28 bp):
AAATTCTCAACATACATCAACATTCAAT
Found at i:56500069 original size:8 final size:8
Alignment explanation
Indices: 56500056--56500080 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
56500046 TTACTCTAAT
56500056 ATTTCACA
1 ATTTCACA
56500064 ATTTCACA
1 ATTTCACA
56500072 ATTTCACA
1 ATTTCACA
56500080 A
1 A
56500081 ACTCACAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (8 bp):
ATTTCACA
Found at i:56503806 original size:40 final size:40
Alignment explanation
Indices: 56503761--56503928 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
56503751 CGGAATATAA
*
56503761 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
56503801 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
56503841 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
56503881 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
56503921 CCGGATAT
1 CCGGATAT
56503929 CATTCAATTT
Statistics
Matches: 105, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
40 104 0.99
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:56503911 original size:80 final size:80
Alignment explanation
Indices: 56503777--56503928 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
56503767 ATAACCATGT
* *
56503777 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
56503842 CGGATATAGCCACTA
66 CGGATATAGCCACTA
* * ** * *
56503857 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGGCTTAG
56503920 CCCGGATAT
64 CCCGGATAT
56503929 CATTCAATTT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 3 0.05
80 59 0.95
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCACTA
Found at i:56511913 original size:40 final size:38
Alignment explanation
Indices: 56511807--56511915 Score: 123
Period size: 39 Copynumber: 2.8 Consensus size: 38
56511797 GATCACGATT
*
56511807 GCACAAATGCCTTCGGGTCTTAGCCCGGA-TAGAATGCTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATTAGAA-GCTA
*
56511846 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCA-CTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-TAG-AAGCTA
*
56511886 GCACAATTGCCTTCGGGTCTTAACCCGGAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGAT
56511916 ATAATTTCCA
Statistics
Matches: 62, Mismatches: 4, Indels: 7
0.85 0.05 0.10
Matches are distributed among these distances:
39 30 0.48
40 28 0.45
41 3 0.05
42 1 0.02
ACGTcount: A:0.21, C:0.29, G:0.26, T:0.24
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATTAGAAGCTA
Found at i:56511934 original size:40 final size:39
Alignment explanation
Indices: 56511807--56511957 Score: 144
Period size: 40 Copynumber: 3.8 Consensus size: 39
56511797 GATCACGATT
* * *
56511807 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATAC-CA
* ** *
56511846 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATA-ATACCA
* *
56511886 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAA-TACCA
* * *
56511926 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
56511958 CATTCAATTT
Statistics
Matches: 91, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
39 30 0.33
40 61 0.67
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATACCA
Found at i:56519911 original size:80 final size:80
Alignment explanation
Indices: 56519827--56519975 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
56519817 TATGGTAACC
* * * *
56519827 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
56519891 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
56519907 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
56519972 CCGG
66 CCGG
56519976 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:56519917 original size:40 final size:38
Alignment explanation
Indices: 56519868--56519975 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
56519858 ATCACGATTT
*
56519868 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
56519908 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
56519948 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
56519976 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:56521720 original size:135 final size:135
Alignment explanation
Indices: 56521555--56521826 Score: 544
Period size: 135 Copynumber: 2.0 Consensus size: 135
56521545 TTATAACACT
56521555 AAATCAATCATCATAAAATGTCATACATGAGCACACACATATTATAGGCATCAAAATAAATTTTT
1 AAATCAATCATCATAAAATGTCATACATGAGCACACACATATTATAGGCATCAAAATAAATTTTT
56521620 AATTATTTTTATGCCTCGGTTTTGTGGTCCCGAGACCACCTTCCGACTAGGGTCAATTTTGGGCT
66 AATTATTTTTATGCCTCGGTTTTGTGGTCCCGAGACCACCTTCCGACTAGGGTCAATTTTGGGCT
56521685 GTCAC
131 GTCAC
56521690 AAATCAATCATCATAAAATGTCATACATGAGCACACACATATTATAGGCATCAAAATAAATTTTT
1 AAATCAATCATCATAAAATGTCATACATGAGCACACACATATTATAGGCATCAAAATAAATTTTT
56521755 AATTATTTTTATGCCTCGGTTTTGTGGTCCCGAGACCACCTTCCGACTAGGGTCAATTTTGGGCT
66 AATTATTTTTATGCCTCGGTTTTGTGGTCCCGAGACCACCTTCCGACTAGGGTCAATTTTGGGCT
56521820 GTCAC
131 GTCAC
56521825 AA
1 AA
56521827 CTCTCCCCCA
Statistics
Matches: 137, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
135 137 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (135 bp):
AAATCAATCATCATAAAATGTCATACATGAGCACACACATATTATAGGCATCAAAATAAATTTTT
AATTATTTTTATGCCTCGGTTTTGTGGTCCCGAGACCACCTTCCGACTAGGGTCAATTTTGGGCT
GTCAC
Found at i:56528155 original size:80 final size:80
Alignment explanation
Indices: 56528071--56528219 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
56528061 TATGGTAACC
* * * *
56528071 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
56528135 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
56528151 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
56528216 CCGG
66 CCGG
56528220 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:56528161 original size:40 final size:38
Alignment explanation
Indices: 56528112--56528219 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
56528102 ATCACGATTT
*
56528112 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
56528152 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
56528192 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
56528220 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:56531139 original size:21 final size:21
Alignment explanation
Indices: 56531098--56531139 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
56531088 AACCATTTTA
*
56531098 GCCAAAATAAGCCAATTACAT
1 GCCAAAATAAGCCAATCACAT
56531119 GCCAAATATAAGCCAA-CACAT
1 GCCAAA-ATAAGCCAATCACAT
56531140 TTGGCCAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.48, C:0.26, G:0.10, T:0.17
Consensus pattern (21 bp):
GCCAAAATAAGCCAATCACAT
Found at i:56536889 original size:43 final size:43
Alignment explanation
Indices: 56536842--56536985 Score: 157
Period size: 43 Copynumber: 3.3 Consensus size: 43
56536832 CCCATATATA
* * * * *
56536842 GTCTTACATGTTATCTCATATCGATGCCACTGTCCCATACAGG
1 GTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGACATG
* * *
56536885 GTCTTACACGAAAT-TGAATAACGATGCCAATGTCCCAGACATG
1 GTCTTACACGTAATCT-CATATCGATGCCAATGTCCCAGACATG
* *
56536928 GTCTTACACGTAATCACA-ATACAATGCCAATGTCCCAGACATG
1 GTCTTACACGTAATCTCATAT-CGATGCCAATGTCCCAGACATG
*
56536971 GTCTTACATGTAATC
1 GTCTTACACGTAATC
56536986 ACATCTCGGA
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
42 2 0.02
43 82 0.98
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.28
Consensus pattern (43 bp):
GTCTTACACGTAATCTCATATCGATGCCAATGTCCCAGACATG
Found at i:56536986 original size:43 final size:43
Alignment explanation
Indices: 56536865--56536988 Score: 160
Period size: 43 Copynumber: 2.9 Consensus size: 43
56536855 TCTCATATCG
* * * * ** *
56536865 ATGCCACTGTCCCATACAGGGTCTTACACGAAAT-TGAATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAAT-ACA
56536908 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACA
*
56536951 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
56536989 TCTCGGAAAC
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
43 69 0.96
44 3 0.04
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACA
Found at i:56552721 original size:40 final size:40
Alignment explanation
Indices: 56552666--56552853 Score: 279
Period size: 40 Copynumber: 4.7 Consensus size: 40
56552656 TGAATGATAC
* * * * *
56552666 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGAGTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
56552706 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
56552746 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
56552786 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
56552826 CCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGTTAAGACCCGAAGGCATTTGTGC
56552854 TTGTGGTTAT
Statistics
Matches: 136, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
40 134 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (40 bp):
CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:56552799 original size:80 final size:80
Alignment explanation
Indices: 56552662--56552873 Score: 311
Period size: 80 Copynumber: 2.7 Consensus size: 80
56552652 CAATTGAATG
* * * * *
56552662 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGAGTATATCCGGGTTAAGACCCGAAGGC
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
56552726 ATTTGTGCGAGTTGCT
65 ATTTGTGCGAGTTGCT
* *
56552742 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
56552807 TTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCT
* * *
56552822 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
56552874 ATTCCGAAGA
Statistics
Matches: 119, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
79 6 0.05
80 111 0.93
81 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (80 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCT
Found at i:56556249 original size:43 final size:43
Alignment explanation
Indices: 56556200--56556325 Score: 157
Period size: 43 Copynumber: 2.9 Consensus size: 43
56556190 TATCTCATAT
* * * *
56556200 CAATGCCACTGTCCTATACAGGGTCTTACACGA-AATCA-AATAA
1 CAATGCCAATGTCCCAGACATGGTCTTACAC-ATAATCACAAT-A
*
56556243 CCATGCCAATGTCCCAGACATGGTCTTACACATAATCACAATA
1 CAATGCCAATGTCCCAGACATGGTCTTACACATAATCACAATA
**
56556286 CAATGCCAATGTCCCAGACATGGTCTTACAGGTAATCACA
1 CAATGCCAATGTCCCAGACATGGTCTTACACATAATCACA
56556326 TCTCGGTAAC
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
42 1 0.01
43 69 0.95
44 3 0.04
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.23
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGACATGGTCTTACACATAATCACAATA
Found at i:56566450 original size:47 final size:46
Alignment explanation
Indices: 56566377--56566642 Score: 200
Period size: 47 Copynumber: 5.7 Consensus size: 46
56566367 TGATTTGTGT
* * *
56566377 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCCAGACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCTAGATGAGA
* * * * * *
56566425 GCTAGTGTAAGACATGTCTGGGACATGCGTCAGCCATAT-TATGAGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-GGCATCTAGATGAGA
* * * *
56566471 GCAAGAGTAAGACATGTCTGGGACATGCATCGGCCTCGATAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATC--TAGATGAGA
* * * * *
56566518 GCCAGTGTAAGGCATGTCTGGGACACGCATCGGC-T-AAGAAT-TGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCTAG-ATGAGA
* * * *
56566562 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCATGCATATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCAT-C-TAGATGAGA
*
56566610 GCCAGTATAAGACCATGTCTGGGACATGGCATC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
56566643 AGCAATTCAT
Statistics
Matches: 168, Mismatches: 37, Indels: 24
0.73 0.16 0.10
Matches are distributed among these distances:
43 2 0.01
44 30 0.18
45 4 0.02
46 37 0.22
47 53 0.32
48 24 0.14
49 13 0.08
50 5 0.03
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCATCTAGATGAGA
Found at i:56583604 original size:46 final size:46
Alignment explanation
Indices: 56583449--56583670 Score: 209
Period size: 46 Copynumber: 4.8 Consensus size: 46
56583439 TCATTTGTGT
* **
56583449 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGA
* * ** *
56583495 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGATGA
* * *
56583543 GTGCTAATGTAAGACATGTTTGGGACATGCATCGGCCTCAAGATGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATG-A
* * * **
56583590 -AGCCAGTGTGAGACATGTCTGGGACATGCATCGGCCAT-AAAATCT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCAAGATGA
*
56583635 G-TC-AGTGTAAGACCATGTCTGGGACATAGCATCGGC
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
56583671 ACCTTACCTT
Statistics
Matches: 145, Mismatches: 24, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
44 8 0.06
45 15 0.10
46 70 0.48
47 29 0.20
48 23 0.16
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGA
Found at i:56591220 original size:12 final size:13
Alignment explanation
Indices: 56591203--56591231 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
56591193 AGGTCTTTAC
56591203 ACACGGGCTA-GG
1 ACACGGGCTAGGG
56591215 ACACGGGCTAGGG
1 ACACGGGCTAGGG
56591228 ACAC
1 ACAC
56591232 AGGCATGTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.28, C:0.28, G:0.38, T:0.07
Consensus pattern (13 bp):
ACACGGGCTAGGG
Found at i:56596205 original size:34 final size:34
Alignment explanation
Indices: 56596165--56596231 Score: 134
Period size: 34 Copynumber: 2.0 Consensus size: 34
56596155 TATTCGGCCA
56596165 AAGGAAGTAGATTGGTGTGCATGTATTCGGTTAT
1 AAGGAAGTAGATTGGTGTGCATGTATTCGGTTAT
56596199 AAGGAAGTAGATTGGTGTGCATGTATTCGGTTA
1 AAGGAAGTAGATTGGTGTGCATGTATTCGGTTA
56596232 GAGGCAACCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.27, C:0.06, G:0.33, T:0.34
Consensus pattern (34 bp):
AAGGAAGTAGATTGGTGTGCATGTATTCGGTTAT
Found at i:56596741 original size:28 final size:28
Alignment explanation
Indices: 56596672--56596772 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
56596662 GACAAGATTG
* * * *
56596672 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
56596702 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
56596730 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
56596759 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
56596773 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:56604696 original size:28 final size:28
Alignment explanation
Indices: 56604627--56604727 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
56604617 GACAAGATTG
* * * *
56604627 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
56604657 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
56604685 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
56604714 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
56604728 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:56607928 original size:28 final size:28
Alignment explanation
Indices: 56607845--56607929 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
56607835 TGAGCATGAT
* * **
56607845 TATGAATGTGACTGGGCCTAACAGGCCA
1 TATGAATGTGATTGGGCTTAATGGGCCA
* *
56607873 TATAAATGTGATTTAGGCTTAATGGGCCA
1 TATGAATGTGA-TTGGGCTTAATGGGCCA
*
56607902 TATGAATATGATTGGGCTTAATGGGCCA
1 TATGAATGTGATTGGGCTTAATGGGCCA
56607930 GATACTGGTA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 26 0.55
29 21 0.45
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.29
Consensus pattern (28 bp):
TATGAATGTGATTGGGCTTAATGGGCCA
Found at i:56610795 original size:48 final size:48
Alignment explanation
Indices: 56610713--56611117 Score: 337
Period size: 48 Copynumber: 8.4 Consensus size: 48
56610703 GGAGATATAA
* ** * *
56610713 GAGCCAGTGTAAGACCATGTATGGGGCGTGGCATCGGCCTCAACATGC
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCAATATGC
* * * ** *** *
56610761 AAGCCAGTGTAAGACCATGTTTGGAACATAGCATCAGTATTGTTATGT
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCAATATGC
* * *
56610809 GAGCCAATGTAAGACCATGTCTAGG-ACATGGCATCGGTCTCAATATGC
1 GAGCCAGTGTAAGACCATGT-TTGGAACATGGCATCGGCCTCAATATGC
* * *** *
56610857 GAGCCAGTGTAAGACCATGTTTGGAATATGGCATCGGCATTGTTATGT
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCAATATGC
* * * * * *
56610905 GAGCCAGTGTAAGACCATGTCTGGGACATGACATCGGCCTTAAAATGT
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCAATATGC
* * *
56610953 GAGCCAGTGTAAGACCATG-CTGGGACATGACATCGGCCTCAATATGC
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCAATATGC
* * *** **
56611000 GAGCCAATGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATAT
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCAATATGC
* * * * * * * *
56611048 GTGTCAGTGTAAGACCATGTCTGGGACATAGCATCGGCACTGATGTATGA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGC-CTCA-ATATGC
*
56611098 GAGCTAGTGTAAGACCATGT
1 GAGCCAGTGTAAGACCATGT
56611118 CCAGGACATG
Statistics
Matches: 283, Mismatches: 69, Indels: 8
0.79 0.19 0.02
Matches are distributed among these distances:
47 46 0.16
48 213 0.75
49 4 0.01
50 20 0.07
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCAATATGC
Found at i:56610877 original size:96 final size:96
Alignment explanation
Indices: 56610713--56611128 Score: 415
Period size: 96 Copynumber: 4.3 Consensus size: 96
56610703 GGAGATATAA
* * * * * *
56610713 GAGCCAGTGTAAGACCATGTATGGGGCGTGGCATCGGCCTCAACATGCAAGCCAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAATATGCGAGCCAGTGTAAGACCA
* * *
56610778 TGTTTGGAACATAGCATCAGTATTGTTATGT
66 TGTCTGGAACATAGCATCGGCATTGTTATGT
* *
56610809 GAGCCAATGTAAGACCATGTCTAGGACATGGCATCGGTCTCAATATGCGAGCCAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAATATGCGAGCCAGTGTAAGACCA
* * *
56610874 TGTTTGGAATATGGCATCGGCATTGTTATGT
66 TGTCTGGAACATAGCATCGGCATTGTTATGT
* * * * *
56610905 GAGCCAGTGTAAGACCATGTCTGGGACATGACATCGGCCTTAAAATGTGAGCCAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAATATGCGAGCCAGTGTAAGACCA
* * *** *
56610970 TG-CTGGGACAT-GACATCGGCCTCAATATGC
66 TGTCTGGAACATAG-CATCGGCATTGTTATGT
* * * *** ** * *
56611000 GAGCCAATGTAAGACCATGT-TTGGAACATGGCATCGGCATTGTTATATGTGTCAGTGTAAGACC
1 GAGCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCCTCAATATGCGAGCCAGTGTAAGACC
* * *
56611064 ATGTCTGGGACATAGCATCGGCACTGATGTATGA
65 ATGTCTGGAACATAGCATCGGCATTG-T-TATGT
* *
56611098 GAGCTAGTGTAAGACCATGTCCAGGACATGG
1 GAGCCAGTGTAAGACCATGTCTAGGACATGG
56611129 TATCATCATT
Statistics
Matches: 266, Mismatches: 47, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
94 4 0.02
95 71 0.27
96 160 0.60
97 1 0.00
98 28 0.11
99 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (96 bp):
GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCAATATGCGAGCCAGTGTAAGACCA
TGTCTGGAACATAGCATCGGCATTGTTATGT
Found at i:56611031 original size:143 final size:144
Alignment explanation
Indices: 56610762--56611127 Score: 475
Period size: 143 Copynumber: 2.5 Consensus size: 144
56610752 TCAACATGCA
* * * ** ***
56610762 AGCCAGTGTAAGACCATGTTTGGAACATAGCATCAGTATTGTTATGTGAGCCAATGTAAGACCAT
1 AGCCAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTTAAAATGTGAGCCAATGTAAGACCAT
* * * *
56610827 GTCTAGGACATGGCATCGGTCTCAATATGCGAGCCAGTGTAAGACCATGTTTGGAATATGGCATC
66 GTCTAGGACATGACATCGGCCTCAATATGCGAGCCAATGTAAGACCATGTTTGGAACATGGCATC
*
56610892 GGCATTGTTATGTG
131 GGCATTGTTATATG
*
56610906 AGCCAGTGTAAGACCATGTCTGGGACAT-GACATCGGCCTTAAAATGTGAGCCAGTGTAAGACCA
1 AGCCAGTGTAAGACCATGTCTGGGACATAG-CATCGGCCTTAAAATGTGAGCCAATGTAAGACCA
*
56610970 TG-CTGGGACATGACATCGGCCTCAATATGCGAGCCAATGTAAGACCATGTTTGGAACATGGCAT
65 TGTCTAGGACATGACATCGGCCTCAATATGCGAGCCAATGTAAGACCATGTTTGGAACATGGCAT
56611034 CGGCATTGTTATATG
130 CGGCATTGTTATATG
* * * ** * * *
56611049 TGTCAGTGTAAGACCATGTCTGGGACATAGCATCGGCACTGATGTATGAGAGCTAGTGTAAGACC
1 AGCCAGTGTAAGACCATGTCTGGGACATAGCATCGGC-CTTA-AAATGTGAGCCAATGTAAGACC
*
56611114 ATGTCCAGGACATG
64 ATGTCTAGGACATG
56611128 GTATCATCAT
Statistics
Matches: 193, Mismatches: 24, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
143 105 0.54
144 59 0.31
145 21 0.11
146 8 0.04
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (144 bp):
AGCCAGTGTAAGACCATGTCTGGGACATAGCATCGGCCTTAAAATGTGAGCCAATGTAAGACCAT
GTCTAGGACATGACATCGGCCTCAATATGCGAGCCAATGTAAGACCATGTTTGGAACATGGCATC
GGCATTGTTATATG
Found at i:56625920 original size:33 final size:33
Alignment explanation
Indices: 56625876--56625954 Score: 122
Period size: 33 Copynumber: 2.4 Consensus size: 33
56625866 CATTTTGCAC
*
56625876 TGTACTAATACTGAATAGGGCTTTAGCCCAGAA
1 TGTACTGATACTGAATAGGGCTTTAGCCCAGAA
* *
56625909 TGTACTGATACTGAATAGGGCTTTGGCCCAGAC
1 TGTACTGATACTGAATAGGGCTTTAGCCCAGAA
*
56625942 TGTATTGATACTG
1 TGTACTGATACTG
56625955 TGTTATTCAC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (33 bp):
TGTACTGATACTGAATAGGGCTTTAGCCCAGAA
Found at i:56632479 original size:299 final size:299
Alignment explanation
Indices: 56631936--56632533 Score: 1090
Period size: 299 Copynumber: 2.0 Consensus size: 299
56631926 GGGGAGGAGT
56631936 TGTAGCCGAATGGGTGTGTGTGAGGGTGCAAATTCGACCAAGGGGTTTTGGGTTAGGCATTTTCG
1 TGTAGCCGAATGGGTGTGTGTGAGGGTGCAAATTCGACCAAGGGGTTTTGGGTTAGGCATTTTCG
* * * *
56632001 ATAATTGATGTTTAGGAGTAAGTGCCGAATCCTTTTTTGCAACTTTTGGTTTTTTTGTGTTACAC
66 ATAATTGATGTTTAAGAGTAAGGGCCGAATCCTTCTTTGCAACTTTTGGTTTTTTTGTGCTACAC
56632066 TTTCGTGCCGAATTAATTGTGACTCTTACCTCTTCTCAATTTCTTCTCTTTTCGTCTTTGAGTCA
131 TTTCGTGCCGAATTAATTGTGACTCTTACCTCTTCTCAATTTCTTCTCTTTTCGTCTTTGAGTCA
*
56632131 AGCCTGCCGAATTCTCTTTAGCCGAACATTGGTAGCCTTTTTTCTTTTGTTGTGTTGAACATCTT
196 AGCCTGCCGAATTCTCTTTAGCCGAACATTGGTAGCCTTTTTCCTTTTGTTGTGTTGAACATCTT
56632196 TTTTCTTCCTTCTAAAG-TCGAAGAAACCGAACCCAACTC
261 TTTTCTTCCTTCTAAAGCT-GAAGAAACCGAACCCAACTC
56632235 TGTAGCCGAATGGGTGTGTGTGAGGGTGCAAATTCGACCAAGGGGTTTTGGGTTAGGCATTTTCG
1 TGTAGCCGAATGGGTGTGTGTGAGGGTGCAAATTCGACCAAGGGGTTTTGGGTTAGGCATTTTCG
* *
56632300 ATAATTGATGTTTAAGAGTAGGGGCCGAATCCTTCTTTGCAATTTTTGGTTTTTTTGTGCTACAC
66 ATAATTGATGTTTAAGAGTAAGGGCCGAATCCTTCTTTGCAACTTTTGGTTTTTTTGTGCTACAC
* *
56632365 TTTTGTGCCGAATTAATTGTGACTCTTACTTCTTCTCAATTTCTTCTCTTTTCGTCTTTGAGTCA
131 TTTCGTGCCGAATTAATTGTGACTCTTACCTCTTCTCAATTTCTTCTCTTTTCGTCTTTGAGTCA
56632430 AGCCTGCCGAATTCTCTTTAGCCGAACATTGGTAGCCTTTTTCCTTTTGTTGTGTTGAACATCTT
196 AGCCTGCCGAATTCTCTTTAGCCGAACATTGGTAGCCTTTTTCCTTTTGTTGTGTTGAACATCTT
*
56632495 TTTTCTTGCTTCTAAAGCTGAAGAAACCGAACCCAACTC
261 TTTTCTTCCTTCTAAAGCTGAAGAAACCGAACCCAACTC
56632534 CTCCTTCGTC
Statistics
Matches: 288, Mismatches: 10, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
299 287 1.00
300 1 0.00
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (299 bp):
TGTAGCCGAATGGGTGTGTGTGAGGGTGCAAATTCGACCAAGGGGTTTTGGGTTAGGCATTTTCG
ATAATTGATGTTTAAGAGTAAGGGCCGAATCCTTCTTTGCAACTTTTGGTTTTTTTGTGCTACAC
TTTCGTGCCGAATTAATTGTGACTCTTACCTCTTCTCAATTTCTTCTCTTTTCGTCTTTGAGTCA
AGCCTGCCGAATTCTCTTTAGCCGAACATTGGTAGCCTTTTTCCTTTTGTTGTGTTGAACATCTT
TTTTCTTCCTTCTAAAGCTGAAGAAACCGAACCCAACTC
Found at i:56642396 original size:14 final size:15
Alignment explanation
Indices: 56642377--56642406 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
56642367 ATATTTGACT
56642377 TGTTCTTAATT-TTG
1 TGTTCTTAATTCTTG
56642391 TGTTCTTAATTCTTG
1 TGTTCTTAATTCTTG
56642406 T
1 T
56642407 TTTGATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.63
Consensus pattern (15 bp):
TGTTCTTAATTCTTG
Found at i:56643016 original size:15 final size:15
Alignment explanation
Indices: 56642996--56643026 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
56642986 AGGTTATATG
56642996 TAAATTAAACTTTAA
1 TAAATTAAACTTTAA
56643011 TAAATTAAACTTTAA
1 TAAATTAAACTTTAA
56643026 T
1 T
56643027 TTATAATAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAATTAAACTTTAA
Found at i:56653621 original size:48 final size:48
Alignment explanation
Indices: 56653565--56653821 Score: 293
Period size: 48 Copynumber: 5.3 Consensus size: 48
56653555 GCGATATGAG
*
56653565 AGCCAGTGTAAGACCATGTTTGGAACATGGCATCAGCATTATTATGTA
1 AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATTATGTA
* * * * * *
56653613 AGCCAGTGTAAGACCATGTCTGGGACATTGCATCGGCCTCAATATGCT-
1 AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATTATG-TA
* * *
56653661 AGCCAGTGTAAGACCATGTTTGGAACATGGAATCGGCATTGTTATGTG
1 AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATTATGTA
* * *
56653709 AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTTTTATATT
1 AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATTATGTA
* * * * * *
56653757 TGTCAGTGTAAGCCCATGTCTGGGACATGGCATCGGCACTGATGTATG-A
1 AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCA-TTAT-TATGTA
56653806 GAGCCAGTGTAAGACC
1 -AGCCAGTGTAAGACC
56653822 CTGTCCAGGA
Statistics
Matches: 173, Mismatches: 31, Indels: 8
0.82 0.15 0.04
Matches are distributed among these distances:
47 1 0.01
48 154 0.89
49 3 0.02
50 15 0.09
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATTATGTA
Found at i:56653722 original size:96 final size:96
Alignment explanation
Indices: 56653565--56653840 Score: 327
Period size: 96 Copynumber: 2.9 Consensus size: 96
56653555 GCGATATGAG
* * *
56653565 AGCCAGTGTAAGACCATGTTTGGAACATGGCATCAGCATTATTATGTAAGCCAGTGTAAGACCAT
1 AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGTGAGCCAGTGTAAGACCAT
* * *
56653630 GTCTGGGACATTGCATCGGCCTCAATATGCT
66 GTCTGGGACATGGCATCGGCATCAATATACT
*
56653661 AGCCAGTGTAAGACCATGTTTGGAACATGGAATCGGCATTGTTATGTGAGCCAGTGTAAGACCAT
1 AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGTGAGCCAGTGTAAGACCAT
* * *** *
56653726 GTTTGGAACATGGCATCGGCATTTTTATATT
66 GTCTGGGACATGGCATCGGCATCAATATACT
* * * * * * *
56653757 TGTCAGTGTAAGCCCATGTCTGGGACATGGCATCGGCACTGATGTATGAGAGCCAGTGTAAGACC
1 AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTG-T-TATGTGAGCCAGTGTAAGACC
* **
56653822 CTGTCCAGGACATGGCATC
64 ATGTCTGGGACATGGCATC
56653841 AACATTTTAC
Statistics
Matches: 152, Mismatches: 26, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
96 117 0.77
97 1 0.01
98 34 0.22
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.27
Consensus pattern (96 bp):
AGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGTGAGCCAGTGTAAGACCAT
GTCTGGGACATGGCATCGGCATCAATATACT
Found at i:56656723 original size:47 final size:47
Alignment explanation
Indices: 56656640--56656803 Score: 188
Period size: 47 Copynumber: 3.5 Consensus size: 47
56656630 TTGAGCCATG
** *
56656640 ATCGGTAAGCTCCTCTTGAGCTGATGAACAGTAAGCTCTAACGAGATGA
1 ATCGGTAAGCTCC-AATGAGCTGA-AAACAGTAAGCTCTAACGAGATGA
* * *
56656689 AACGGTAAGCTCCAATGAGCTGAAAACAGTAAGCTCTACCGAGCTGA
1 ATCGGTAAGCTCCAATGAGCTGAAAACAGTAAGCTCTAACGAGATGA
* * * * *
56656736 ATTGGTAAGCTCCAATGAGCT-AAAATAGTAAGCTCTTACAAGTTGA
1 ATCGGTAAGCTCCAATGAGCTGAAAACAGTAAGCTCTAACGAGATGA
56656782 ATCGGTAAGC-CCATATGAGCTG
1 ATCGGTAAGCTCCA-ATGAGCTG
56656804 TGGTGAGTCT
Statistics
Matches: 99, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
45 3 0.03
46 36 0.36
47 40 0.40
48 8 0.08
49 12 0.12
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (47 bp):
ATCGGTAAGCTCCAATGAGCTGAAAACAGTAAGCTCTAACGAGATGA
Found at i:56656755 original size:23 final size:23
Alignment explanation
Indices: 56656669--56656770 Score: 87
Period size: 23 Copynumber: 4.4 Consensus size: 23
56656659 GCTGATGAAC
* * * *
56656669 AGTAAGCTCTAACGAGATGAAAC
1 AGTAAGCTCCAATGAGCTGAAAT
* *
56656692 GGTAAGCTCCAATGAGCTGAAAAC
1 AGTAAGCTCCAATGAGCTG-AAAT
* ** *
56656716 AGTAAGCTCTACCGAGCTGAATT
1 AGTAAGCTCCAATGAGCTGAAAT
* *
56656739 GGTAAGCTCCAATGAGCTAAAAT
1 AGTAAGCTCCAATGAGCTGAAAT
56656762 AGTAAGCTC
1 AGTAAGCTC
56656771 TTACAAGTTG
Statistics
Matches: 61, Mismatches: 17, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
23 42 0.69
24 19 0.31
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.21
Consensus pattern (23 bp):
AGTAAGCTCCAATGAGCTGAAAT
Found at i:56657877 original size:27 final size:27
Alignment explanation
Indices: 56657829--56657933 Score: 106
Period size: 27 Copynumber: 3.9 Consensus size: 27
56657819 GCGAGGCTGC
* * *
56657829 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
*
56657856 CAGATATTGTGGTAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
56657882 CAGATATATATGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
56657909 TAGATAATTATGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
56657934 GACGCTTCCT
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
26 8 0.12
27 57 0.85
28 2 0.03
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:56658339 original size:8 final size:8
Alignment explanation
Indices: 56658323--56658352 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
56658313 CTCAAAATAC
56658323 CGGCTTTT
1 CGGCTTTT
*
56658331 CGGCATTT
1 CGGCTTTT
56658339 CGGCTTTT
1 CGGCTTTT
56658347 CGGCTT
1 CGGCTT
56658353 ATGCCGATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.03, C:0.27, G:0.27, T:0.43
Consensus pattern (8 bp):
CGGCTTTT
Found at i:56669409 original size:12 final size:12
Alignment explanation
Indices: 56669392--56669423 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
56669382 TCTGACTTGT
56669392 GCCACACGGCCA
1 GCCACACGGCCA
56669404 GCCACACGGCCA
1 GCCACACGGCCA
56669416 GCCACACG
1 GCCACACG
56669424 CCCATGTGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.25, C:0.50, G:0.25, T:0.00
Consensus pattern (12 bp):
GCCACACGGCCA
Found at i:56677064 original size:39 final size:39
Alignment explanation
Indices: 56676971--56677313 Score: 535
Period size: 39 Copynumber: 8.8 Consensus size: 39
56676961 GCAAGACACT
* *
56676971 GAAATGTATCCGAGCCAAAGTCCCGCAGGCTTCGTGCT-
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
*
56677009 GAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
*
56677048 GAAATGTATCCGGGCTAAAGTCCCACAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* *
56677087 GAAATATATCCGGGCTAAAGTCCCACAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* * *
56677126 GAAATATATCCAGGCCAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* *
56677165 GAAATGTATCCGGACTAAAGTCCCGCAAGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
* * *
56677204 GAAATGTATCTGGGCCAAAGTCCCGCAGGCTTCGTACTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
*
56677243 GAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
*
56677282 GAAATGTATCCGGGTTAAAGTCCCGCAGGCTT
1 GAAATGTATCCGGGCTAAAGTCCCGCAGGCTT
56677314 TATGCTAATA
Statistics
Matches: 281, Mismatches: 23, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 0.12
39 246 0.88
ACGTcount: A:0.24, C:0.26, G:0.27, T:0.22
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
Found at i:56679360 original size:40 final size:40
Alignment explanation
Indices: 56679294--56679460 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
56679284 AAATTGAATG
* * *
56679294 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
56679333 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
56679373 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
56679413 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
56679453 ATATCCGG
1 ATATCCGG
56679461 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:56687449 original size:40 final size:39
Alignment explanation
Indices: 56687284--56687467 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
56687274 AAATTGAATG
* * *
56687284 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
56687324 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
56687364 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
56687404 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
56687443 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
56687468 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:56687492 original size:80 final size:81
Alignment explanation
Indices: 56687324--56687512 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
56687314 GCTGGAAATT
* * * *
56687324 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
56687389 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
56687405 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
56687468 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
56687484 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
56687513 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:56695563 original size:40 final size:39
Alignment explanation
Indices: 56695398--56695581 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
56695388 AAATTGAATG
* * *
56695398 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
56695438 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
56695478 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
56695518 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
56695557 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
56695582 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:56695606 original size:80 final size:81
Alignment explanation
Indices: 56695438--56695626 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
56695428 GCTGGAAATT
* * * *
56695438 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
56695503 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
56695519 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
56695582 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
56695598 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
56695627 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:56709972 original size:610 final size:611
Alignment explanation
Indices: 56707430--56715546 Score: 12955
Period size: 611 Copynumber: 13.2 Consensus size: 611
56707420 TTCAATTGGC
* *
56707430 TGATAAAACCATTAGATTTCCTAGAGGCATCATTGAAGATGTTCTTGCTAAGATCGATAAATTTA
1 TGATAAAACCATTAGATTTCCTAGAGGTATCATTGAAGATGTTCTTGTTAAGATCGATAAATTTA
* * * *
56707495 TATACCCGGTAGACTTTGTTGTTTTAGACATGGAAGAAGATAGCAATGCACCTTTGATTTTAGAA
66 TATACCCAGTAGACTTTGTTGTTTTAGACATGGAAGAAGATAGTAACGCACCTTTGATTTTAGGA
* * * *
56707560 CCACCCTTTTTAGCGACTGCTAGAACCATTATTGATGTCAACATAGGTGAACTCACACTTCGTGT
131 CGACCCTTTTTAGCGACTGCTAGAACCATTATTGATGTCAGCACAAGTGAACTCACACTTCGTGT
**
56707625 GGGAGATGAAACAATCACCCTTCAAGCTCGTAATTCAAATAACACATCGAAAATTGAAGGTGGTT
196 GGGAGATGAAACAATCACCCTTCAAGCTCGTAATTTGAATAACACATCGAAAATTGAAGGTGGTT
* * * *
56707690 GTATAAATCAATCTACTAAAACTGACCATGTGATGCAACCTACTTTGCAGGAAATAAGTTCGAAA
261 GTATAAATCATTCTACTAAAACTGACCATCTGGTGCAACCTACTTTGCAGGAAATAAGTTCGAAG
* * * * * *
56707755 AATCTACATGACCCATGTTCAGGTAACAACAAAGGACCTATCTATGAAGAACGACGACTACAAAT
326 AACCTACACGAGCCATGTTCAGGCAACAACAAAGGACCTATCTATGAAGAACGACGGCTACAGAT
* * * * *
56707820 CGAGGAACTAGATGAATGGCGGACACA-AAAACTGAGAACCCCCTATAAA-CTGAAA-TCGAGCT
391 CGAGGAACTAGATGAATGGCAGACACAGAAATC-GAGAACACCCGATAAATC-GAAACT-GAGCC
* *
56707882 AGGACAAACTCAATACATCACCAAATCAACTTAAGGTTCGAGACAAAGTACTACTAGATGCAGCA
453 AGGACAAGCTCAATACATCACCAAATCAACTTAAGGTTGGAGACAAAGTACTACTAGATGCAGCA
56707947 GATCCTTGCATTACCACTTCTGAACCTAATAAAGTAATCCCTCTTACGGTACTCAATATTTTCCC
518 GATCCTTGCATTACCACTTCTGAACCTAATAAAGTAATCCCTCTTACGGTACTCAATATTTTCCC
*
56708012 ATATGGTACAGTCGAGGTATCTTTGAAGA
583 ATATGGTACAGTCGAGGTATCATTGAAGA
*
56708041 TGATAAAACCATTAGATTTCCTAGAAGTATCATTGAAGATGTTCTTGTTAAGATCGATAAATTTA
1 TGATAAAACCATTAGATTTCCTAGAGGTATCATTGAAGATGTTCTTGTTAAGATCGATAAATTTA
* * * *
56708106 TATACCTAATAGACTTTGTTGTTTTAGACAGGGAAGAAGATAGTAACGCGCCTTTGATTTTAGGA
66 TATACCCAGTAGACTTTGTTGTTTTAGACATGGAAGAAGATAGTAACGCACCTTTGATTTTAGGA
* *
56708171 CGACCCGTTTTAGCGACTGATAGAACCATTATTGATGTCAGCACAAGTGAACTCACACTTCGTGT
131 CGACCCTTTTTAGCGACTGCTAGAACCATTATTGATGTCAGCACAAGTGAACTCACACTTCGTGT
*
56708236 GGGAGATGAAACAATCACCCTTCAAGCTCGTAATTTGAATAACACATCAAAAATTGAAGGTGGTT
196 GGGAGATGAAACAATCACCCTTCAAGCTCGTAATTTGAATAACACATCGAAAATTGAAGGTGGTT
* *
56708301 GTATAAATCATTCTACTAAAACTGACCATGTGGTGCAACCTCCTTTGCAGGAAATAAGTTC-AGA
261 GTATAAATCATTCTACTAAAACTGACCATCTGGTGCAACCTACTTTGCAGGAAATAAGTTCGA-A
* *
56708365 GAACCTACACGAGCCATGTTCAGGCAACAACAAAGGACCTATATATGAAGAACGACGGCTATAGA
325 GAACCTACACGAGCCATGTTCAGGCAACAACAAAGGACCTATCTATGAAGAACGACGGCTACAG-
* * *
56708430 AT-GAGGAACTAGATGAATGGCAGACACAGAAATTGAGAACACTCGATAAATCGAAACTGAGCAA
389 ATCGAGGAACTAGATGAATGGCAGACACAGAAATCGAGAACACCCGATAAATCGAAACTGAGCCA
56708494 GGACAAGCTCAATACATCACCAAATCAACTTAAGGTTGGAGACAAAGTACTACTAGATGCAGCAG
454 GGACAAGCTCAATACATCACCAAATCAACTTAAGGTTGGAGACAAAGTACTACTAGATGCAGCAG
56708559 ATCCTTGCATTACCACTTCTGAACCTAATAAAGTAATCCCTCTTACGGTACTCAATATTTTCCCA
519 ATCCTTGCATTACCACTTCTGAACCTAATAAAGTAATCCCTCTTACGGTACTCAATATTTTCCCA
*
56708624 TGTGGTACAGTCGAGGTATCATTGAAGA
584 TATGGTACAGTCGAGGTATCATTGAAGA
* *
56708652 TGATAAAAACATTAGATTTCCTAGAGGTATCATTGCAGATGTTCTTGTTAAGATCGATAAATTTA
1 TGATAAAACCATTAGATTTCCTAGAGGTATCATTGAAGATGTTCTTGTTAAGATCGATAAATTTA
* * *
56708717 TATACCCAATAGACTTTGTTGTTCTAGACATGGAAGAAGATAGTAACGCACCTTTGATTTTAAGA
66 TATACCCAGTAGACTTTGTTGTTTTAGACATGGAAGAAGATAGTAACGCACCTTTGATTTTAGGA
** *
56708782 CGACCCTTTTTAGCGACTGCTAGAACCATTATTGATGTTGGCACAAGTGAACTCACACTTCATGT
131 CGACCCTTTTTAGCGACTGCTAGAACCATTATTGATGTCAGCACAAGTGAACTCACACTTCGTGT
*
56708847 GGGAGATGAAACAATCACCCTTCAAGCTCGTAATTCGAATAACACATCGAAAATTGAAGGTGGTT
196 GGGAGATGAAACAATCACCCTTCAAGCTCGTAATTTGAATAACACATCGAAAATTGAAGGTGGTT
* *
56708912 GTCTAAATCATTCTACTAAAATTGACCATCTGGTGCAACCTACTTTGCAGGAAATAAGTTCGAAG
261 GTATAAATCATTCTACTAAAACTGACCATCTGGTGCAACCTACTTTGCAGGAAATAAGTTCGAAG
* * *
56708977 AACCTATACGAGCCATGTTCAGGCAACAACAAAGG-CCTATCTATGAAGAACGACGACTACAAAT
326 AACCTACACGAGCCATGTTCAGGCAACAACAAAGGACCTATCTATGAAGAACGACGGCTACAGAT
* ** * * *
56709041 CGAGGAACTAGATAAATGGTGGACACTGAAACCGAGAACACCCGATAAACTGAAAACACTCAATA
391 CGAGGAACTAGATGAATGGCAGACACAGAAATCGAGAACACCCG----A-T---AA-A-TC--GA
* * * *
56709106 AACCAAAATCGAGCCAGGACGAGTTCAATACATCACCAAATCAACTTAATGTTGGAAACAAAGTA
444 AA-C----T-GAGCCAGGACAAGCTCAATACATCACCAAATCAACTTAAGGTTGGAGACAAAGTA
*
56709171 CTACTAGATGCAGCAGATCCTTGCATTACCACTTCTGAACCTAATAAAATAATCCCTCTTACGGT
503 CTACTAGATGCAGCAGATCCTTGCATTACCACTTCTGAACCTAATAAAGTAATCCCTCTTACGGT
* *
56709236 ACTCAATATTTTCCCATATAGTACAGTCGAGGTATCGTTGAAGA
568 ACTCAATATTTTCCCATATGGTACAGTCGAGGTATCATTGAAGA
56709280 TGATAAAACCATTAGATTTCCTAGAGGTATCATTGAAGATGTTCTTGTTAAGATCGATAAATTTA
1 TGATAAAACCATTAGATTTCCTAGAGGTATCATTGAAGATGTTCTTGTTAAGATCGATAAATTTA
* * * *
56709345 TATACCCAATAGACTTTGTTTTTTTAGACATGGAAGAAGAGAGTAACGCACCTTTGATTTTAAGA
66 TATACCCAGTAGACTTTGTTGTTTTAGACATGGAAGAAGATAGTAACGCACCTTTGATTTTAGGA
* *
56709410 CGACCC-TTTTAGTGACTGCTAGAACCATTTTTGATGTCAGCACAAGTGAACTCACACTTCGTGT
131 CGACCCTTTTTAGCGACTGCTAGAACCATTATTGATGTCAGCACAAGTGAACTCACACTTCGTGT
56709474 GGGAGATGAAACAATCACCCTTCAAGCTCGTAATTTGAATAACACATC-AAAATTTGAAGGTGGT
196 GGGAGATGAAACAATCACCCTTCAAGCTCGTAATTTGAATAACACATCGAAAA-TTGAAGGTGGT
* * * *
56709538 TGTATAAATGATTCTGA-TAAAGCTGACCATGC-GGTGTAACCTCCTTTGCAGGAAATAAGTTCG
260 TGTATAAATCATTCT-ACTAAAACTGACCAT-CTGGTGCAACCTACTTTGCAGGAAATAAGTTCG
* * *
56709601 GAGAACCTACACGAGCCATGTTCAGGCAACAACAAAGGATCTATCTATAAAGAACGACGGCTACA
323 AAGAACCTACACGAGCCATGTTCAGGCAACAACAAAGGACCTATCTATGAAGAACGACGGCTACA
* * * * *
56709666 GATCGAGAAACTAGATGAATAGCGGACACAAAAATCGAGAACACCCGATAAATCGAAACTAAGCC
388 GATCGAGGAACTAGATGAATGGCAGACACAGAAATCGAGAACACCCGATAAATCGAAACTGAGCC
*
56709731 AGGACAAGCTCAATACATCACCAAATCAACTTAAGGTTGGAGACAAAGTACTACTAGATGCATCA
453 AGGACAAGCTCAATACATCACCAAATCAACTTAAGGTTGGAGACAAAGTACTACTAGATGCAGCA
* * * *
56709796 GATCCTTGTATTATCACTTCTGAACCTAATAAAGTAATACCTCTTACGGTACTCAATATTTTCCT
518 GATCCTTGCATTACCACTTCTGAACCTAATAAAGTAATCCCTCTTACGGTACTCAATATTTTCCC
*
56709861 ATATGGTACAGTCAAGGTATCATT-ACAGA
583 ATATGGTACAGTCGAGGTATCATTGA-AGA
*
56709890 TGATAGAACCATTAGATTTCCTAGAGGTATCATTGAAGATGTTCTTGTTAAGATCGATAAATTTA
1 TGATAAAACCATTAGATTTCCTAGAGGTATCATTGAAGATGTTCTTGTTAAGATCGATAAATTTA
*
56709955 TATACCCAGTAGACTTTGTTGTTTTAGACATGGAAGAAAATAGTAACGCACCTTTGATTTTAGGA
66 TATACCCAGTAGACTTTGTTGTTTTAGACATGGAAGAAGATAGTAACGCACCTTTGATTTTAGGA
* * * *
56710020 CGACCATTTTTAGCGACTACTAGAACCGTTATTGATGTCGGCACAAGTGAACTCACACTTCGTGT
131 CGACCCTTTTTAGCGACTGCTAGAACCATTATTGATGTCAGCACAAGTGAACTCACACTTCGTGT
* *
56710085 GGGAGATGAAACAATCACCCTTTAAGCTCGTAATTCGAATAACACATCGAAAATTGAAGGTGGTT
196 GGGAGATGAAACAATCACCCTTCAAGCTCGTAATTTGAATAACACATCGAAAATTGAAGGTGGTT
* *
56710150 GTATAAATCATTCTACTAAAATTGACCATCTGGTGCAACCTACTTTGCACGAAATAAGTTCGAAG
261 GTATAAATCATTCTACTAAAACTGACCATCTGGTGCAACCTACTTTGCAGGAAATAAGTTCGAAG
* *
56710215 AACCTACACGAGCCATGTTCAGGCAATAACAAAGGACCTATCTATGAAGAACGACGGCTATAGAT
326 AACCTACACGAGCCATGTTCAGGCAACAACAAAGGACCTATCTATGAAGAACGACGGCTACAGAT
56710280 CGAGGAACTAGATGAATGGCAGACACAGAAATCGAGAACACCCGATAAATCGAAACTGAGCCAGG
391 CGAGGAACTAGATGAATGGCAGACACAGAAATCGAGAACACCCGATAAATCGAAACTGAGCCAGG
*
56710345 ACAAGCTCAATACATCACCAAATCAACTTAAGGTTGGAGACAAAGCACTACTAGATGCAGCAGAT
456 ACAAGCTCAATACATCACCAAATCAACTTAAGGTTGGAGACAAAGTACTACTAGATGCAGCAGAT
* * * *
56710410 CCTCGCATTACCACTTCTGAACCTAATAAAGTAATCCCTCTTATGGTACTCAATACTTTCCCGTA
521 CCTTGCATTACCACTTCTGAACCTAATAAAGTAATCCCTCTTACGGTACTCAATATTTTCCCATA
*
56710475 TGGTACAGTCGAGGTATCATTAAAGA
586 TGGTACAGTCGAGGTATCATTGAAGA
* *
56710501 TGATAAAA-CATTAGATTTCCTAGAGGTATCACTGAAGATGTTCTTGTTAAGATCCATAAATTTA
1 TGATAAAACCATTAGATTTCCTAGAGGTATCATTGAAGATGTTCTTGTTAAGATCGATAAATTTA
* *
56710565 TATGCCCATTAGACTTTGTTGTTTTAGACATGGAAGAAGATAGTAACGCACCTTTGATTTTAGGA
66 TATACCCAGTAGACTTTGTTGTTTTAGACATGGAAGAAGATAGTAACGCACCTTTGATTTTAGGA
* * *
56710630 CGACCCTTTTTAGCGACTGCTAGAACCATTATTTATGTCGGTACAAGTGAACTCACACTTCGTGT
131 CGACCCTTTTTAGCGACTGCTAGAACCATTATTGATGTCAGCACAAGTGAACTCACACTTCGTGT
* * * * *
56710695 GGGAGATAAAAAAATCACCCTTCAAGCTCGTAATTTGAATAAAATATCGAAAATTGAAGGTGGTA
196 GGGAGATGAAACAATCACCCTTCAAGCTCGTAATTTGAATAACACATCGAAAATTGAAGGTGGTT
* * *
56710760 GTATAAATCATTGTGCTAAAACTGACCATCTAGTGCAACCTACTTTGCAGGAAATAAGTTCGAAG
261 GTATAAATCATTCTACTAAAACTGACCATCTGGTGCAACCTACTTTGCAGGAAATAAGTTCGAAG
* *
56710825 AACCTACACGAGCCATGTTCAGGCAACAACAAAGGACCCATCTATGAAGAACGACGGCTACAAAT
326 AACCTACACGAGCCATGTTCAGGCAACAACAAAGGACCTATCTATGAAGAACGACGGCTACAGAT
* * * * * *
56710890 TGAGGAACTAGATGAATGGCAGACATAGAAATCGAGAACACCAGATAAACCAAAACCGAGCCAGG
391 CGAGGAACTAGATGAATGGCAGACACAGAAATCGAGAACACCCGATAAATCGAAACTGAGCCAGG
* * * *
56710955 ACGAGCTCAATACATCACAAAATCAACTTAAGGTTGGAGACAATGTACTACTAGATGCAGCAAAT
456 ACAAGCTCAATACATCACCAAATCAACTTAAGGTTGGAGACAAAGTACTACTAGATGCAGCAGAT
* * * *
56711020 CCTCGCATTACCACTTCTGAACCTAATAAAGTAATCCCTCTTATGGTACTCAATACTTTCCCGTA
521 CCTTGCATTACCACTTCTGAACCTAATAAAGTAATCCCTCTTACGGTACTCAATATTTTCCCATA
56711085 TGGTACAGTCGAGGTATCATTGAAGA
586 TGGTACAGTCGAGGTATCATTGAAGA
*
56711111 TGATAAAA-CATTAGATTTCCTAGAGGTATCACTGAAGATGTTCTTGTTAAGATCGATAAATTTA
1 TGATAAAACCATTAGATTTCCTAGAGGTATCATTGAAGATGTTCTTGTTAAGATCGATAAATTTA
* *
56711175 TATGCCCATTAGACTTTGTTGTTTTAGACATGGAAGAAGATAGTAACGCACCTTTGATTTTAGGA
66 TATACCCAGTAGACTTTGTTGTTTTAGACATGGAAGAAGATAGTAACGCACCTTTGATTTTAGGA
* * * *
56711240 CGACCCTTTTTAGCGACTACTAGAACCATTATTTATGTCGGTACAAGTGAACTCACACTTCGTGT
131 CGACCCTTTTTAGCGACTGCTAGAACCATTATTGATGTCAGCACAAGTGAACTCACACTTCGTGT
* * *
56711305 GGGAGATAAAACAATCACCCTTCAAGCTCGTAATTTGAATAAAATATCGAAAATTGAAGGTGGTT
196 GGGAGATGAAACAATCACCCTTCAAGCTCGTAATTTGAATAACACATCGAAAATTGAAGGTGGTT
* * * *
56711370 GTATAAATCATTGTGCTAAAACTGACCATCTAGTGCAACTTACTTTGCAGGAAATAAGTTCGAAG
261 GTATAAATCATTCTACTAAAACTGACCATCTGGTGCAACCTACTTTGCAGGAAATAAGTTCGAAG
*
56711435 AACCTACACGAGCCATGTTCAGGCAACAACAAAGGACCCATCTATGAAGAACGACGGCTACA-AG
326 AACCTACACGAGCCATGTTCAGGCAACAACAAAGGACCTATCTATGAAGAACGACGGCTACAGA-
* * * * *
56711499 TTGAGGAACTAGATGAATGGCAGACATAGAAATCGAGAACACCAGATAAACCAAAACTGAGCCAG
390 TCGAGGAACTAGATGAATGGCAGACACAGAAATCGAGAACACCCGATAAATCGAAACTGAGCCAG
* * *
56711564 GACGAGCTCAATACATTACCAAATCAACTTAAGGTTGGAGACAATGTACTACTAGATGCAGCAGA
455 GACAAGCTCAATACATCACCAAATCAACTTAAGGTTGGAGACAAAGTACTACTAGATGCAGCAGA
56711629 TCCTTGCATTACCACTTCTGAACCTAATAAAGTAATCCCTCTTACGGTACTCAATATTTTCCCAT
520 TCCTTGCATTACCACTTCTGAACCTAATAAAGTAATCCCTCTTACGGTACTCAATATTTTCCCAT
56711694 ATGGTACAGTCGAGGTAT-ATTTGAAGA
585 ATGGTACAGTCGAGGTATCA-TTGAAGA
* *
56711721 TGATAAAACCATTAGATTTCCTAGAGGTATCATTGAAGATGTTTTTGTTAAAATCGATAAATTTA
1 TGATAAAACCATTAGATTTCCTAGAGGTATCATTGAAGATGTTCTTGTTAAGATCGATAAATTTA
*
56711786 TATACCCAGTAGACTTTGTTGTTTTAGACATGGAAGAAGAAAGTAACGCACCTTTGATTTTAGGA
66 TATACCCAGTAGACTTTGTTGTTTTAGACATGGAAGAAGATAGTAACGCACCTTTGATTTTAGGA
* **
56711851 CGACCCGTTTTAGCGACTAATAGAACCATTATTGATGTCAGCACAAGTGAACTCACACTTCGTGT
131 CGACCCTTTTTAGCGACTGCTAGAACCATTATTGATGTCAGCACAAGTGAACTCACACTTCGTGT
56711916 GGGAGATGAAACAATCACCCTTCAAGCTCGTAATTTGAATAACACATCGAAAATTGAAGGTGGTT
196 GGGAGATGAAACAATCACCCTTCAAGCTCGTAATTTGAATAACACATCGAAAATTGAAGGTGGTT
* * * *
56711981 GTATAAATCATTCTACTAAAACTGACCATGTGGTGTAACCTCCTTTGCAGGAAATAAGTTCGGAG
261 GTATAAATCATTCTACTAAAACTGACCATCTGGTGCAACCTACTTTGCAGGAAATAAGTTCGAAG
*
56712046 AACCTACACGAGCCATGTTCAGGCAACAACAAAGGACCTATCTATGAAGAACGACGGCTATAGAT
326 AACCTACACGAGCCATGTTCAGGCAACAACAAAGGACCTATCTATGAAGAACGACGGCTACAGAT
* * * *
56712111 CGAGGAACTAGATGAATGGTAGACACTGAAATCGAGAACACTCGATAAATCGAAACTGAGCAAGG
391 CGAGGAACTAGATGAATGGCAGACACAGAAATCGAGAACACCCGATAAATCGAAACTGAGCCAGG
56712176 ACAAGCTCAATACATCACCAAATCAACTTAAGGTTGGAGACAAAGTACTACTAGATGCAGCAGAT
456 ACAAGCTCAATACATCACCAAATCAACTTAAGGTTGGAGACAAAGTACTACTAGATGCAGCAGAT
* * *
56712241 CCTTGCATTACCACTTCTAAACCTAATAAAGTAATCCCTCTTACGGTGCTCAATATTTTACCATA
521 CCTTGCATTACCACTTCTGAACCTAATAAAGTAATCCCTCTTACGGTACTCAATATTTTCCCATA
56712306 TGGTACAGTCGAGGTATCATTGAAGA
586 TGGTACAGTCGAGGTATCATTGAAGA
*
56712332 TGATAGAACCATTAGATTTCCTAGAGGTATCATTGAAGATGTTCTTGTTAAGATCGATAAATTTA
1 TGATAAAACCATTAGATTTCCTAGAGGTATCATTGAAGATGTTCTTGTTAAGATCGATAAATTTA
* *
56712397 TATACCCAGTAGACTTTGTTGTTTTAGACATGGAAGAAGATAGTAACGAACCTTTGATTTTAAGA
66 TATACCCAGTAGACTTTGTTGTTTTAGACATGGAAGAAGATAGTAACGCACCTTTGATTTTAGGA
* * * *
56712462 CGATCCTTTTTAGCGACTGCTAGAACCAGTATTGATGTCGGCACAAGTGAACTCACACTTCATGT
131 CGACCCTTTTTAGCGACTGCTAGAACCATTATTGATGTCAGCACAAGTGAACTCACACTTCGTGT
*
56712527 GGGAGATGAAACAATCACCCTTCAAGCTCGTAATTCGAATAACACATCGAAAATTGAAGGTGGTT
196 GGGAGATGAAACAATCACCCTTCAAGCTCGTAATTTGAATAACACATCGAAAATTGAAGGTGGTT
* *
56712592 GTCTAAATCATTCTACTAAAATTGACCATCTGGTGCAACCTACTTTGCAGGAAATAAGTTCGAAG
261 GTATAAATCATTCTACTAAAACTGACCATCTGGTGCAACCTACTTTGCAGGAAATAAGTTCGAAG
* * *
56712657 AACCTATACGAGCCATGTTCAGGCAACAACAAAGG-CCTATCTATGAAGAACGACGGCTATAAAT
326 AACCTACACGAGCCATGTTCAGGCAACAACAAAGGACCTATCTATGAAGAACGACGGCTACAGAT
* ** * * *
56712721 CGAGGAACTAGATAAATGGTGGACACTGAAATCGAGAACACCCAATAAACTGAAAACACTCAAAA
391 CGAGGAACTAGATGAATGGCAGACACAGAAATCGAGAACA-CC------C-GATAA-A-TC--GA
* * *
56712786 AACCAAAATCGAGCCAGGACGAGTTCAATACATCACCAAATCAACTTAATGTTGGAGACAAAGTA
444 AA-C----T-GAGCCAGGACAAGCTCAATACATCACCAAATCAACTTAAGGTTGGAGACAAAGTA
*
56712851 CTACTAGATGCAGCAGATCCTTGCATTACCATTTCTGAACCTAATAAAGTAATCCCTCTTACGGT
503 CTACTAGATGCAGCAGATCCTTGCATTACCACTTCTGAACCTAATAAAGTAATCCCTCTTACGGT
* *
56712916 ACTCAATATTTTCCCATATAGTACAGTCGAGGTATCGTTGAAGA
568 ACTCAATATTTTCCCATATGGTACAGTCGAGGTATCATTGAAGA
56712960 TGATAAAACCATTAGATTTCCTAGAGGTATCATTGAAGATGTTCTTGTTAAGATCGATAAATTTA
1 TGATAAAACCATTAGATTTCCTAGAGGTATCATTGAAGATGTTCTTGTTAAGATCGATAAATTTA
* * *
56713025 TATACCCAATAGACTTTGTTGTTTTAGACATGGAAGAAGAGAGTAACGCACCTTTGATTTTAAGA
66 TATACCCAGTAGACTTTGTTGTTTTAGACATGGAAGAAGATAGTAACGCACCTTTGATTTTAGGA
* * *
56713090 CGACCC-TTTTAGCGACTACTAGAACCATTATTGATGTCAGTACAAGTGAACTCACATTTCGTGT
131 CGACCCTTTTTAGCGACTGCTAGAACCATTATTGATGTCAGCACAAGTGAACTCACACTTCGTGT
*
56713154 GGGAGATGAAACAATCACCCTTCAAGCTCGTAATTTGAATAACACATCAAAAATTGAAGGTGGTT
196 GGGAGATGAAACAATCACCCTTCAAGCTCGTAATTTGAATAACACATCGAAAATTGAAGGTGGTT
* * * *
56713219 GTATAAATGATTCTACTAAAACTGACCATGC-GGTGTAACCTCCTTTGCAGGAAATAAGTTCGGA
261 GTATAAATCATTCTACTAAAACTGACCAT-CTGGTGCAACCTACTTTGCAGGAAATAAGTTCGAA
* *
56713283 GAACCTACACGAGCCATGGTCAGGCAACAACAAAGGACCTATCTATGAAGAACGACGGCTATAGA
325 GAACCTACACGAGCCATGTTCAGGCAACAACAAAGGACCTATCTATGAAGAACGACGGCTACAGA
*
56713348 TCGAGGAACTAGATAAATGGCAGACACAGAAATCGAGAACACCCGATAAATCGAAACTGAGCCAG
390 TCGAGGAACTAGATGAATGGCAGACACAGAAATCGAGAACACCCGATAAATCGAAACTGAGCCAG
*
56713413 GACAAGCTCAATACATCACCAAATCAACTTAAGGTTGGAGACAAAGCACTACTAGATGCAGCAGA
455 GACAAGCTCAATACATCACCAAATCAACTTAAGGTTGGAGACAAAGTACTACTAGATGCAGCAGA
* * *
56713478 TCCTCGCATTACCACTTCTGAACCTAATAAAGTAATCCCTCTTACGGTACTCAATACTTTCCCGT
520 TCCTTGCATTACCACTTCTGAACCTAATAAAGTAATCCCTCTTACGGTACTCAATATTTTCCCAT
56713543 ATGGTACAGTCGAGGTATCATTGAAGA
585 ATGGTACAGTCGAGGTATCATTGAAGA
*
56713570 TGATAAAA-CATTAGATTTCCTAGAGGTATCACTGAAGATGTTCTTGTTAAGATCGATAAATTTA
1 TGATAAAACCATTAGATTTCCTAGAGGTATCATTGAAGATGTTCTTGTTAAGATCGATAAATTTA
* *
56713634 TATGCCCATTAGACTTTGTTGTTTTAGACATGGAAGAAGATAGTAACGCACCTTTGATTTTAGGA
66 TATACCCAGTAGACTTTGTTGTTTTAGACATGGAAGAAGATAGTAACGCACCTTTGATTTTAGGA
* * * *
56713699 CGACCCTTTTTAGCGACTGCTAGAACCATTATTTATGTCGGTACAAGTGGACTCACACTTCGTGT
131 CGACCCTTTTTAGCGACTGCTAGAACCATTATTGATGTCAGCACAAGTGAACTCACACTTCGTGT
* * *
56713764 GGGAGATAAAACAATCACCCTTCAAGCTCGTAATTTGAATAAAATATCGAAAATTGAAGGTGGTT
196 GGGAGATGAAACAATCACCCTTCAAGCTCGTAATTTGAATAACACATCGAAAATTGAAGGTGGTT
* * * *
56713829 GTATAAATCATTGTGCTAAAACTGACCATCTAGTGCAACCTACTTTGCAGGATATAAGTTCGAAG
261 GTATAAATCATTCTACTAAAACTGACCATCTGGTGCAACCTACTTTGCAGGAAATAAGTTCGAAG
* *
56713894 AACCTACACGAGCCATGTTCAGGCAACAACAAAGGACCCATCTATGAAGAACGACAGCTACAGAT
326 AACCTACACGAGCCATGTTCAGGCAACAACAAAGGACCTATCTATGAAGAACGACGGCTACAGAT
*
56713959 CGAGGAACTAGATGAATGGCGGACACAGAAATCGAGAACACCCGATAAATCGAAACTGAGCCAGG
391 CGAGGAACTAGATGAATGGCAGACACAGAAATCGAGAACACCCGATAAATCGAAACTGAGCCAGG
*
56714024 ACAAGCTCAATACATCACCAAATCAACTTAAGGTTGGAGACAAAGTACTACTAGATGCAGCATAT
456 ACAAGCTCAATACATCACCAAATCAACTTAAGGTTGGAGACAAAGTACTACTAGATGCAGCAGAT
*
56714089 CCTTGCATTATCACTTCTGAACCTAATAAAGTAATCCCTCTTACGGTACTCAATATTTTCCCATA
521 CCTTGCATTACCACTTCTGAACCTAATAAAGTAATCCCTCTTACGGTACTCAATATTTTCCCATA
*
56714154 TGGTACAGTCAAGGTATCATTGAAGA
586 TGGTACAGTCGAGGTATCATTGAAGA
**
56714180 TGATCGAACCATTAGATTTCCTAGAGGTATCATTGAAGATGTTCTTGTTAAGATCGATAAATTTA
1 TGATAAAACCATTAGATTTCCTAGAGGTATCATTGAAGATGTTCTTGTTAAGATCGATAAATTTA
* * * *
56714245 TATTCCAAGAAGACTTTGTTGTTTTAGACGTGGAAGAAGATAGTAACGCACCTTTGATTTTAGGA
66 TATACCCAGTAGACTTTGTTGTTTTAGACATGGAAGAAGATAGTAACGCACCTTTGATTTTAGGA
* *
56714310 CGACCCTTTTTAGCGACTACTAGAACCGTTATTGATGTCAGCACAAGTGAACTCACACTTCGTGT
131 CGACCCTTTTTAGCGACTGCTAGAACCATTATTGATGTCAGCACAAGTGAACTCACACTTCGTGT
*
56714375 GGGAGATGAAACAATCACCCTTCAAGCTCGTAATTTGAATAACACATCAAAAATTGAAGGTGGTT
196 GGGAGATGAAACAATCACCCTTCAAGCTCGTAATTTGAATAACACATCGAAAATTGAAGGTGGTT
* *
56714440 GTATAAATCATTCTACTAAAATTGACCATCTGGTGCAACCTACTTTACAGGAAATAAGTTCGAAG
261 GTATAAATCATTCTACTAAAACTGACCATCTGGTGCAACCTACTTTGCAGGAAATAAGTTCGAAG
* * * *
56714505 AACCTACATGAGCCATTTTCAGGAAATAACAAAGGACCTATCTATGAAGAACGACGGCTACAGAT
326 AACCTACACGAGCCATGTTCAGGCAACAACAAAGGACCTATCTATGAAGAACGACGGCTACAGAT
* *
56714570 CGAGGAACTAGATGAATGGCAGACACAAAAATCGAGAATACCCGATAAATCGAAACTGAGCCAGG
391 CGAGGAACTAGATGAATGGCAGACACAGAAATCGAGAACACCCGATAAATCGAAACTGAGCCAGG
*
56714635 ACAAGCTCAATACATCACCAAATCAACTTAAGGTTGGAGACAAAGCACTACTAGATGCAGCAGAT
456 ACAAGCTCAATACATCACCAAATCAACTTAAGGTTGGAGACAAAGTACTACTAGATGCAGCAGAT
* * *
56714700 CCTCGCATTACCACTTCTGAACCTAATAAAGTAATCCCTCTTACGGTACTCAATACTTTCCCGTA
521 CCTTGCATTACCACTTCTGAACCTAATAAAGTAATCCCTCTTACGGTACTCAATATTTTCCCATA
56714765 TGGTACAGTCGAGGTATCATTGAAGA
586 TGGTACAGTCGAGGTATCATTGAAGA
* *
56714791 TTATAAAACCATTAGATTTCCTAGAGGTATCACTGAAGATGTTCTTGTTAAGATCGATAAATTTA
1 TGATAAAACCATTAGATTTCCTAGAGGTATCATTGAAGATGTTCTTGTTAAGATCGATAAATTTA
* * *
56714856 TATGCCCATTAGACTTTGTTGTTTTAGACATGGAAGAAGACT-GTAACGGACCTTTGATTTTAGG
66 TATACCCAGTAGACTTTGTTGTTTTAGACATGGAAGAAGA-TAGTAACGCACCTTTGATTTTAGG
* * * *
56714920 ACGACCCTTTTTAGCGACTGCTAGAACCATTATTTATGTCTGTACAAGTGAACTCACACTTCGTA
130 ACGACCCTTTTTAGCGACTGCTAGAACCATTATTGATGTCAGCACAAGTGAACTCACACTTCGTG
* * *
56714985 TGGGAGATAAAACAATCACCCTTCAAGCTCGTAATTCGAATAACATATCGAAAATTGAAGGTGGT
195 TGGGAGATGAAACAATCACCCTTCAAGCTCGTAATTTGAATAACACATCGAAAATTGAAGGTGGT
* *
56715050 TGTATAAATCATTGTACTAAAACTGACCATCTAGTGCAACCTACTTTGCAGGAAATAAGTTCGAA
260 TGTATAAATCATTCTACTAAAACTGACCATCTGGTGCAACCTACTTTGCAGGAAATAAGTTCGAA
* *
56715115 GAACCTACACGAGCCATGTTCAGGCAACAACAAAGGACCCATCTATGAAGAACGACGGCTACAAA
325 GAACCTACACGAGCCATGTTCAGGCAACAACAAAGGACCTATCTATGAAGAACGACGGCTACAGA
* * * * * * *
56715180 TTGAGGAACTAGATGAATGG-AGGACATAGAAATCGAGAACACCAGATAAACCAAAACCGAGCCG
390 TCGAGGAACTAGATGAATGGCA-GACACAGAAATCGAGAACACCCGATAAATCGAAACTGAGCCA
* *
56715244 GGACGAGCTCAATACATCACCAAATTAACTTAAGGTTGGAGACAAAGTACTACTAGATGCAGCAG
454 GGACAAGCTCAATACATCACCAAATCAACTTAAGGTTGGAGACAAAGTACTACTAGATGCAGCAG
*
56715309 ATCCTTGCATTACCACTTCTGAACCTAATAAAGTAATCCCTCTTACGGTACTCAATATTTTACCA
519 ATCCTTGCATTACCACTTCTGAACCTAATAAAGTAATCCCTCTTACGGTACTCAATATTTTCCCA
56715374 TATGGTACAGTCGAGGTATCATTGAAGA
584 TATGGTACAGTCGAGGTATCATTGAAGA
*
56715402 TGATAAAACCATTAGATTTCCTAGAGGTATCATTAAAGATGTTCTTGTTAAGATCGATAAATTTA
1 TGATAAAACCATTAGATTTCCTAGAGGTATCATTGAAGATGTTCTTGTTAAGATCGATAAATTTA
56715467 TATACCCAGTAGACTTTGTTGTTTTAGACATGGAAGAAGATAGTAACGCACCTTTGATTTTAGGA
66 TATACCCAGTAGACTTTGTTGTTTTAGACATGGAAGAAGATAGTAACGCACCTTTGATTTTAGGA
56715532 CGACCCTTTTTAGCG
131 CGACCCTTTTTAGCG
56715547 TGTAACTCCC
Statistics
Matches: 6978, Mismatches: 462, Indels: 132
0.92 0.06 0.02
Matches are distributed among these distances:
609 128 0.02
610 2182 0.31
611 3492 0.50
612 16 0.00
614 1 0.00
615 3 0.00
616 6 0.00
617 1 0.00
618 10 0.00
619 4 0.00
620 10 0.00
621 1 0.00
622 6 0.00
623 3 0.00
624 1 0.00
626 4 0.00
627 409 0.06
628 701 0.10
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.27
Consensus pattern (611 bp):
TGATAAAACCATTAGATTTCCTAGAGGTATCATTGAAGATGTTCTTGTTAAGATCGATAAATTTA
TATACCCAGTAGACTTTGTTGTTTTAGACATGGAAGAAGATAGTAACGCACCTTTGATTTTAGGA
CGACCCTTTTTAGCGACTGCTAGAACCATTATTGATGTCAGCACAAGTGAACTCACACTTCGTGT
GGGAGATGAAACAATCACCCTTCAAGCTCGTAATTTGAATAACACATCGAAAATTGAAGGTGGTT
GTATAAATCATTCTACTAAAACTGACCATCTGGTGCAACCTACTTTGCAGGAAATAAGTTCGAAG
AACCTACACGAGCCATGTTCAGGCAACAACAAAGGACCTATCTATGAAGAACGACGGCTACAGAT
CGAGGAACTAGATGAATGGCAGACACAGAAATCGAGAACACCCGATAAATCGAAACTGAGCCAGG
ACAAGCTCAATACATCACCAAATCAACTTAAGGTTGGAGACAAAGTACTACTAGATGCAGCAGAT
CCTTGCATTACCACTTCTGAACCTAATAAAGTAATCCCTCTTACGGTACTCAATATTTTCCCATA
TGGTACAGTCGAGGTATCATTGAAGA
Found at i:56716975 original size:40 final size:40
Alignment explanation
Indices: 56716901--56717077 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 40
56716891 ACCCAAGTAT
* *
56716901 CTTCGGGAT-TTAG-CCGGATATAACAACTCACACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
56716940 CTTCGGGTCTTAGCCCGAATATAGCAAATCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
56716980 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
56717020 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
56717060 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
56717078 TTATCATCTG
Statistics
Matches: 115, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 99 0.86
41 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:56721713 original size:35 final size:35
Alignment explanation
Indices: 56721673--56721743 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
56721663 TATATTCATG
56721673 ATTATGTTGCTATCTATTTGAATGTGAACTTACTA
1 ATTATGTTGCTATCTATTTGAATGTGAACTTACTA
56721708 ATTATGTTGCTATCTATTTGAATGTGAACTTACTA
1 ATTATGTTGCTATCTATTTGAATGTGAACTTACTA
56721743 A
1 A
56721744 GCTTTATGCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.45
Consensus pattern (35 bp):
ATTATGTTGCTATCTATTTGAATGTGAACTTACTA
Found at i:56724944 original size:42 final size:42
Alignment explanation
Indices: 56724897--56724981 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
56724887 ACTGAGAAGG
56724897 TGCCCTCACCATGGGTTACCACTTT-GCTTGCAAGTACAAACA
1 TGCCCTCACCATGGGTTACCACTTTGGC-TGCAAGTACAAACA
*
56724939 TGCCCTCACCATGGGTTACCACTTTGGCTGTAAGTACAAACA
1 TGCCCTCACCATGGGTTACCACTTTGGCTGCAAGTACAAACA
56724981 T
1 T
56724982 TCTACAATGG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
42 39 0.95
43 2 0.05
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (42 bp):
TGCCCTCACCATGGGTTACCACTTTGGCTGCAAGTACAAACA
Found at i:56741075 original size:19 final size:19
Alignment explanation
Indices: 56741051--56741089 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
56741041 AATTAGTAAG
56741051 TAGAAATATGAGTCTAGTT
1 TAGAAATATGAGTCTAGTT
56741070 TAGAAATATGAGTCTAGTT
1 TAGAAATATGAGTCTAGTT
56741089 T
1 T
56741090 CATAGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (19 bp):
TAGAAATATGAGTCTAGTT
Found at i:56742548 original size:17 final size:17
Alignment explanation
Indices: 56742528--56742566 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
56742518 CTTTTATTAA
56742528 GTTTTTAAGATTCATTC
1 GTTTTTAAGATTCATTC
*
56742545 GTTTTTAAGATTCATTT
1 GTTTTTAAGATTCATTC
56742562 GTTTT
1 GTTTT
56742567 CTTTTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.59
Consensus pattern (17 bp):
GTTTTTAAGATTCATTC
Found at i:56760170 original size:49 final size:49
Alignment explanation
Indices: 56760093--56760279 Score: 257
Period size: 49 Copynumber: 3.8 Consensus size: 49
56760083 TAGCCGAAGC
* * *
56760093 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTATACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * *
56760142 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACC-AAT
* * * *
56760192 CATCTGATACACATAGTAGCCTACACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
*
56760241 TATCTAGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
56760280 CGTGACCTCA
Statistics
Matches: 117, Mismatches: 20, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
49 76 0.65
50 41 0.35
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:56760265 original size:99 final size:99
Alignment explanation
Indices: 56760094--56760287 Score: 334
Period size: 99 Copynumber: 2.0 Consensus size: 99
56760084 AGCCGAAGCT
* * * * *
56760094 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTATACATGCGACCAATTATCCGGTACACGTAGT
1 ATCTGATACACATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAGT
56760159 AGCCTGCACTTAGTACTACACACGTGACCTAACC
66 AGCCTGCACTTAGTACTACACACGTGACCTAACC
*
56760193 ATCTGATACACATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCTAGTACACGTAGT
1 ATCTGATACACATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAGT
56760258 AGCCTGCACTTAGTACTACACACGTGACCT
66 AGCCTGCACTTAGTACTACACACGTGACCT
56760288 CACAATAGCT
Statistics
Matches: 89, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
99 89 1.00
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (99 bp):
ATCTGATACACATAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCAGTACACGTAGT
AGCCTGCACTTAGTACTACACACGTGACCTAACC
Found at i:56764657 original size:43 final size:43
Alignment explanation
Indices: 56764596--56764679 Score: 132
Period size: 43 Copynumber: 2.0 Consensus size: 43
56764586 GGGTGTTACA
* *
56764596 TCTCATCTCATAATCATTTCTCATATTTTCTATTTTAATATTT
1 TCTCATCTCATAATCATTTCTCATATTTTCCATTTCAATATTT
* *
56764639 TCTCATCTCATATTCATTTCTCATCTTTTCCATTTCAATAT
1 TCTCATCTCATAATCATTTCTCATATTTTCCATTTCAATAT
56764680 CAATCACATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.24, C:0.23, G:0.00, T:0.54
Consensus pattern (43 bp):
TCTCATCTCATAATCATTTCTCATATTTTCCATTTCAATATTT
Found at i:56767473 original size:44 final size:44
Alignment explanation
Indices: 56767282--56767474 Score: 217
Period size: 44 Copynumber: 4.4 Consensus size: 44
56767272 ATATATGCAA
* * *
56767282 AAATTAGATTCATTGCACCAAACTTGGAACCAACTTTGTAATTT
1 AAATTAGATTCATTGGAACAAACTTGGAACAAACTTTGTAATTT
* * *
56767326 AAATTAGATTCATTGTAACAAACTTGGAACCAACTTTGTACTTT
1 AAATTAGATTCATTGGAACAAACTTGGAACAAACTTTGTAATTT
* * * * *
56767370 AAATTAGATTAATTAGAACAAACATGAAACAAACTTT-TGCATTT
1 AAATTAGATTCATTGGAACAAACTTGGAACAAACTTTGT-AATTT
* * * *
56767414 CAATTAGTTTCATTGGAACAAACTTGGATCAAACTTTGTAATAT
1 AAATTAGATTCATTGGAACAAACTTGGAACAAACTTTGTAATTT
* *
56767458 AAATTATATACATTGGA
1 AAATTAGATTCATTGGA
56767475 GTACATTAGC
Statistics
Matches: 123, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
43 1 0.01
44 121 0.98
45 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.11, T:0.35
Consensus pattern (44 bp):
AAATTAGATTCATTGGAACAAACTTGGAACAAACTTTGTAATTT
Found at i:56771545 original size:30 final size:30
Alignment explanation
Indices: 56771511--56771568 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
56771501 TCCTTAACTC
56771511 AAACTTTTGAAAAATTACAATTTTGCCCTT
1 AAACTTTTGAAAAATTACAATTTTGCCCTT
* * * *
56771541 AAACTTTTGCATATTTACACTTTTGCCC
1 AAACTTTTGAAAAATTACAATTTTGCCC
56771569 CTAGGCTCGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCTT
Found at i:56777125 original size:2 final size:2
Alignment explanation
Indices: 56777118--56777151 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
56777108 GAGTATAATA
56777118 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
56777152 GTGTGTGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:56778454 original size:15 final size:15
Alignment explanation
Indices: 56778434--56778464 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
56778424 TGTTGGAGCT
56778434 TTTAGTCTTGCCGTC
1 TTTAGTCTTGCCGTC
56778449 TTTAGTCTTGCCGTC
1 TTTAGTCTTGCCGTC
56778464 T
1 T
56778465 CATTAAATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.26, G:0.19, T:0.48
Consensus pattern (15 bp):
TTTAGTCTTGCCGTC
Found at i:56788157 original size:40 final size:40
Alignment explanation
Indices: 56787992--56788159 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
56787982 AAATTGAATG
* * **
56787992 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGC-GAGTGATT
* * * **
56788032 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTGATT
* * *
56788072 ATATCCTGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-ATGCGAGTGATT
* *
56788112 CTATCCGGGCTAAGACCCGAAGGCATTTATGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCGA-GTGATT
56788152 ATATCCGG
1 ATATCCGG
56788160 CTATATTCCG
Statistics
Matches: 103, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
39 4 0.04
40 97 0.94
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTGATT
Found at i:56793071 original size:12 final size:12
Alignment explanation
Indices: 56793056--56793104 Score: 62
Period size: 12 Copynumber: 3.9 Consensus size: 12
56793046 CAATAGTGAA
56793056 AATAATAAATAT
1 AATAATAAATAT
56793068 AATAATAAATAT
1 AATAATAAATAT
* *
56793080 AATGATATATAT
1 AATAATAAATAT
56793092 ATATATATAAATA
1 A-ATA-ATAAATA
56793105 ATACTACATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
12 23 0.74
13 2 0.06
14 6 0.19
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (12 bp):
AATAATAAATAT
Found at i:56793091 original size:2 final size:2
Alignment explanation
Indices: 56793064--56793143 Score: 51
Period size: 2 Copynumber: 40.5 Consensus size: 2
56793054 AAAATAATAA
* *
56793064 AT AT A- AT A- AT AA AT AT A- AT GAT AT AT AT AT AT AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT
* * * *
56793104 A- AT ACT AC AT AT AA AG AGT AT AT AT AT AT AT AT AT GT AT A
1 AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT A
56793144 AAACATAATA
Statistics
Matches: 60, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
1 4 0.07
2 51 0.85
3 5 0.08
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.39
Consensus pattern (2 bp):
AT
Found at i:56793580 original size:18 final size:18
Alignment explanation
Indices: 56793553--56793589 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
56793543 TGTCAAATAC
*
56793553 ATTAACCAAAATAATAAT
1 ATTAAACAAAATAATAAT
*
56793571 ATTAAACAAATTAATAAT
1 ATTAAACAAAATAATAAT
56793589 A
1 A
56793590 CTATATGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (18 bp):
ATTAAACAAAATAATAAT
Found at i:56797626 original size:32 final size:32
Alignment explanation
Indices: 56797585--56797662 Score: 147
Period size: 32 Copynumber: 2.4 Consensus size: 32
56797575 GTACATAACC
*
56797585 TAACAATTGAGCATGCGAGAACTCATTTCTAT
1 TAACAATTGAGCATGCGAGAACTAATTTCTAT
56797617 TAACAATTGAGCATGCGAGAACTAATTTCTAT
1 TAACAATTGAGCATGCGAGAACTAATTTCTAT
56797649 TAACAATTGAGCAT
1 TAACAATTGAGCAT
56797663 CGATATCAGT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (32 bp):
TAACAATTGAGCATGCGAGAACTAATTTCTAT
Done.