Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 363 of 770
Found at i:111387457 original size:54 final size:54
Alignment explanation
Indices: 111387353--111387464 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
111387343 AGGAAGCGTC
* * *
111387353 CTGGTGGCTATGCCATAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACATATATCTGTT
* * *
111387407 CTGGTGGCTCTGCCACGATTATCTGTATCTAGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTAGTGACTCTGCCACATATATCTGTT
111387461 CTGG
1 CTGG
111387465 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTAGTGACTCTGCCACATATATCTGTT
Found at i:111389717 original size:29 final size:27
Alignment explanation
Indices: 111389683--111389785 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
111389673 TACTCAATCA
*
111389683 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
111389712 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
111389741 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
111389770 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
111389786 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:111390302 original size:40 final size:40
Alignment explanation
Indices: 111390246--111390371 Score: 189
Period size: 40 Copynumber: 3.1 Consensus size: 40
111390236 TAGTGACCAC
* *
111390246 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAA
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAT
* * *
111390286 ATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTTCT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAT
* *
111390326 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTAT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAT
111390366 ATCCGG
1 ATCCGG
111390372 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCGTTAT
Found at i:111392124 original size:40 final size:40
Alignment explanation
Indices: 111392079--111392246 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
111392069 CGGAATATAA
111392079 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
111392119 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
111392159 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
111392199 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
111392239 CCGGATAT
1 CCGGATAT
111392247 CATTCAATTT
Statistics
Matches: 107, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 106 0.99
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:111397512 original size:29 final size:29
Alignment explanation
Indices: 111397422--111397581 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
111397412 ACTCGATTTC
* * **
111397422 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
111397451 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
111397479 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
111397509 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
111397538 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
111397567 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
111397582 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:111402354 original size:29 final size:29
Alignment explanation
Indices: 111402264--111402423 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
111402254 ACTCGATTTC
* * **
111402264 GCACACTTAGTGCCATGTGATTT-AAGCCC
1 GCACACTTAGTGCCATAT-ATTTCCAGCAT
* *** *
111402293 GCACACATAGTGCCATACCCTTCGAGC-T
1 GCACACTTAGTGCCATATATTTCCAGCAT
** *
111402321 CGCACACCCAGTGCCGTATATTTCCAGCAT
1 -GCACACTTAGTGCCATATATTTCCAGCAT
111402351 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
111402380 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
111402409 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
111402424 ATCTCGTCAC
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:111409811 original size:40 final size:40
Alignment explanation
Indices: 111409752--111409959 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 40
111409742 CAATTGAATG
* * * *
111409752 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * ** *
111409792 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
111409832 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
111409872 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
111409912 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
111409952 ATATCCGG
1 ATATCCGG
111409960 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 28, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 140 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:111409890 original size:80 final size:80
Alignment explanation
Indices: 111409753--111409959 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
111409743 AATTGAATGA
* * ** * * *
111409753 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
111409818 TTGTGCTAG-CG-AC
66 TTGTGCAAGTCGTAC
* * *
111409831 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
111409896 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
111409913 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
111409960 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 104 0.95
81 2 0.02
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:111413916 original size:14 final size:14
Alignment explanation
Indices: 111413897--111413942 Score: 92
Period size: 14 Copynumber: 3.3 Consensus size: 14
111413887 CTCGTCAATG
111413897 TAATTGTCCACACA
1 TAATTGTCCACACA
111413911 TAATTGTCCACACA
1 TAATTGTCCACACA
111413925 TAATTGTCCACACA
1 TAATTGTCCACACA
111413939 TAAT
1 TAAT
111413943 AAAAAGTAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.30
Consensus pattern (14 bp):
TAATTGTCCACACA
Found at i:111414148 original size:20 final size:20
Alignment explanation
Indices: 111414123--111414170 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
111414113 AAAGGCACTG
111414123 AAGTGC-ATACAGAGGCA-CA
1 AAGTGCAAT-CAGAGGCACCA
111414142 AATGTGCAATCAGAGGCACCA
1 AA-GTGCAATCAGAGGCACCA
111414163 AAGTGCAA
1 AAGTGCAA
111414171 ACCCATACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 2 0.08
20 18 0.69
21 6 0.23
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.12
Consensus pattern (20 bp):
AAGTGCAATCAGAGGCACCA
Found at i:111417188 original size:28 final size:28
Alignment explanation
Indices: 111417148--111417217 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
111417138 ATGAAAATTT
* *
111417148 CACTAAGCATGCGAGTTTGGTTAAT-GAG
1 CACTAAGTATGCGAGTTTGATT-ATCGAG
*
111417176 CACTAAGTGTGCGAGTTTGATTATCGAG
1 CACTAAGTATGCGAGTTTGATTATCGAG
111417204 CACTAAGTATGCGA
1 CACTAAGTATGCGA
111417218 AAGAAAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 2 0.05
28 35 0.95
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.29
Consensus pattern (28 bp):
CACTAAGTATGCGAGTTTGATTATCGAG
Found at i:111421104 original size:12 final size:12
Alignment explanation
Indices: 111421087--111421120 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
111421077 GGCCTGGACA
111421087 CGCCCGTGTCAT
1 CGCCCGTGTCAT
111421099 CGCCCGTGTCAT
1 CGCCCGTGTCAT
111421111 CGCCCGTGTC
1 CGCCCGTGTC
111421121 CAAAAACCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.06, C:0.44, G:0.26, T:0.24
Consensus pattern (12 bp):
CGCCCGTGTCAT
Found at i:111422468 original size:43 final size:43
Alignment explanation
Indices: 111422403--111422485 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
111422393 ACATGTAACA
* * *
111422403 CATCCATAATGAACTCGGACCTCTCAATGAGCTTAGATGCTTG
1 CATCCATAATGAACTCGAACCTCTCAACGAGCTCAGATGCTTG
111422446 CATCCATAATGAACTCGAACCTCTCAACGAGCTCAGATGC
1 CATCCATAATGAACTCGAACCTCTCAACGAGCTCAGATGC
111422486 CACATATCTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (43 bp):
CATCCATAATGAACTCGAACCTCTCAACGAGCTCAGATGCTTG
Found at i:111425097 original size:80 final size:80
Alignment explanation
Indices: 111424964--111425131 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
111424954 TGAATGATAC
* ** *
111424964 CCGGGCTAAGTCCCGAAGGCATTTATGCTAATGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAATGACCAAATCCGGGCTAAGACCCGAAGGCAATT-
*
111425028 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * *
111425044 CCGGGCTAAGACCCGAAGGCATTTGTGC-AAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAA-TGACCAAATCCGGGCTAAGACCCGAAGGCAATT
**
111425108 GTGCTTGTGGTTATAT
65 GTGCGAGTGGTTATAT
111425124 CC-GGCTAA
1 CCGGGCTAA
111425132 ATTCCAAGAA
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
79 8 0.11
80 65 0.86
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAATGACCAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:111425126 original size:40 final size:40
Alignment explanation
Indices: 111424964--111425131 Score: 171
Period size: 40 Copynumber: 4.2 Consensus size: 40
111424954 TGAATGATAC
* * * *
111424964 CCGGGCTAAGTCCCGAAGGCATTTATGCTAATGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
111425004 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * ** *
111425044 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
111425084 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
111425124 CC-GGCTAA
1 CCGGGCTAA
111425132 ATTCCAAGAA
Statistics
Matches: 103, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
39 8 0.08
40 91 0.88
41 4 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:111433186 original size:80 final size:80
Alignment explanation
Indices: 111433053--111433220 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
111433043 TGAATGATAC
* ** *
111433053 CCGGGCTAAGTCCCGAAGGCATTTATGCTAATGATTATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAATGACCAAATCCGGGCTAAGACCCGAAGGCAATT-
*
111433117 GTGCGAGTTGTTATAT
65 GTGCGAGTGGTTATAT
* * *
111433133 CCGGGCTAAGACCCGAAGGCATTTGTGC-AAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAA-TGACCAAATCCGGGCTAAGACCCGAAGGCAATT
**
111433197 GTGCTTGTGGTTATAT
65 GTGCGAGTGGTTATAT
111433213 CC-GGCTAA
1 CCGGGCTAA
111433221 ATTCCGAAGA
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
79 8 0.11
80 65 0.86
81 3 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAATGACCAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGGTTATAT
Found at i:111433215 original size:40 final size:40
Alignment explanation
Indices: 111433053--111433220 Score: 171
Period size: 40 Copynumber: 4.2 Consensus size: 40
111433043 TGAATGATAC
* * * *
111433053 CCGGGCTAAGTCCCGAAGGCATTTATGCTAATGATTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
*
111433093 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATAT
* * * ** *
111433133 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
* * *
111433173 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
111433213 CC-GGCTAA
1 CCGGGCTAA
111433221 ATTCCGAAGA
Statistics
Matches: 103, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
39 8 0.08
40 91 0.88
41 4 0.04
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATAT
Found at i:111435409 original size:29 final size:28
Alignment explanation
Indices: 111435377--111435452 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 28
111435367 TTTTGATGGG
*
111435377 GATCACAACAAAGGCTTATTGATAACACA
1 GATCACCACAAAGGCTTATT-ATAACACA
*
111435406 GATCACCACAAAGGCTTAATTATAACAGA
1 GATCACCACAAAGGCTT-ATTATAACACA
* *
111435435 GATCGCCACTAAGGCTTA
1 GATCACCACAAAGGCTTA
111435453 CTTTCAGAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 1 0.02
29 38 0.90
30 3 0.07
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.21
Consensus pattern (28 bp):
GATCACCACAAAGGCTTATTATAACACA
Found at i:111437997 original size:25 final size:25
Alignment explanation
Indices: 111437935--111438025 Score: 92
Period size: 25 Copynumber: 3.6 Consensus size: 25
111437925 TGCACATGTT
* *
111437935 TGCTCATACGAGCTGTAAATCAGTA
1 TGCTCACACGAGCTGTAAATCGGTA
** * *
111437960 TGCTCACTTGAGCTGTAGATCGGCA
1 TGCTCACACGAGCTGTAAATCGGTA
* * *
111437985 TGCTCTCACGAGCTATAAATTGGTA
1 TGCTCACACGAGCTGTAAATCGGTA
*
111438010 TGCTCACACAAGCTGT
1 TGCTCACACGAGCTGT
111438026 GAGTCGGAAT
Statistics
Matches: 50, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (25 bp):
TGCTCACACGAGCTGTAAATCGGTA
Found at i:111440269 original size:41 final size:41
Alignment explanation
Indices: 111440224--111440341 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
111440214 TGAAAGATAA
111440224 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
111440265 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
111440295 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
111440336 ATGTAG
1 ATGTAG
111440342 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:111440280 original size:71 final size:71
Alignment explanation
Indices: 111440192--111440355 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
111440182 GAGATGTATC
111440192 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
111440257 AGGACA
66 AGGACA
111440263 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
111440328 AGGACA
66 AGGACA
111440334 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
111440356 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:111442520 original size:40 final size:40
Alignment explanation
Indices: 111442357--111442522 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
111442347 AAATTGAATG
* * **
111442357 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGATT
* * **
111442396 ATATCCGGGTTAAGA-CCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
* *
111442435 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGATT
* *
111442475 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGATT
111442515 ATATCCGG
1 ATATCCGG
111442523 TTATATTCCG
Statistics
Matches: 102, Mismatches: 19, Indels: 11
0.77 0.14 0.08
Matches are distributed among these distances:
39 46 0.45
40 54 0.53
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
Found at i:111447653 original size:40 final size:40
Alignment explanation
Indices: 111447594--111447801 Score: 229
Period size: 40 Copynumber: 5.2 Consensus size: 40
111447584 CATTGGAATG
* * *
111447594 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
**
111447634 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATT
* * * **
111447674 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* * *
111447714 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* ** * * *
111447754 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
111447794 ATATCCGG
1 ATATCCGG
111447802 TTAAATTCCG
Statistics
Matches: 141, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.02
40 136 0.96
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
Found at i:111451188 original size:40 final size:40
Alignment explanation
Indices: 111451129--111451336 Score: 229
Period size: 40 Copynumber: 5.2 Consensus size: 40
111451119 CATTGGAATG
* * *
111451129 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
**
111451169 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTCATT
* * * **
111451209 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* * *
111451249 AAATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
* ** * * *
111451289 ATAACCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
111451329 ATATCCGG
1 ATATCCGG
111451337 TTAAATTCCG
Statistics
Matches: 141, Mismatches: 25, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.02
40 136 0.96
41 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTCATT
Found at i:111453078 original size:27 final size:25
Alignment explanation
Indices: 111453044--111453137 Score: 116
Period size: 27 Copynumber: 3.5 Consensus size: 25
111453034 GCATGGCTGG
111453044 CAGAACAGATAATGTGACAGAGTCAC
1 CAGAACAGATAATGTGACAGAG-CAC
111453070 CAGATACAGATAATCGTGACAGAGCTAC
1 CAGA-ACAGATAAT-GTGACAGAGC-AC
*
111453098 CAGAACAGATATATGTGGCAGAGCCAC
1 CAGAACAGATA-ATGTGACAGAG-CAC
*
111453125 CAGATCAGATAAT
1 CAGAACAGATAAT
111453138 TTGTGGCATA
Statistics
Matches: 61, Mismatches: 2, Indels: 10
0.84 0.03 0.14
Matches are distributed among these distances:
26 6 0.10
27 37 0.61
28 18 0.30
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.17
Consensus pattern (25 bp):
CAGAACAGATAATGTGACAGAGCAC
Found at i:111453151 original size:28 final size:28
Alignment explanation
Indices: 111453044--111453155 Score: 106
Period size: 28 Copynumber: 4.1 Consensus size: 28
111453034 GCATGGCTGG
* * *
111453044 CAGAACAGATAA--TGTGACAGAGTCAC
1 CAGATCAGATAATTTGTGGCAGAGCCAC
* * *
111453070 CAGATACAGATAA-TCGTGACAGAGCTAC
1 CAGAT-CAGATAATTTGTGGCAGAGCCAC
* *
111453098 CAGAACAGAT-ATATGTGGCAGAGCCAC
1 CAGATCAGATAATTTGTGGCAGAGCCAC
*
111453125 CAGATCAGATAATTTGTGGCATAGCCAC
1 CAGATCAGATAATTTGTGGCAGAGCCAC
111453153 CAG
1 CAG
111453156 GACGCTTCCT
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
26 5 0.07
27 32 0.46
28 33 0.47
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (28 bp):
CAGATCAGATAATTTGTGGCAGAGCCAC
Found at i:111453155 original size:55 final size:54
Alignment explanation
Indices: 111453044--111453155 Score: 145
Period size: 55 Copynumber: 2.1 Consensus size: 54
111453034 GCATGGCTGG
* *
111453044 CAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGACAGAGCTAC
1 CAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGACAGAGCCAC
* * * *
111453098 CAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTTGTGGCATAGCCAC
1 CAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAA-TCGTGACAGAGCCAC
111453153 CAG
1 CAG
111453156 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
54 18 0.36
55 32 0.64
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (54 bp):
CAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGACAGAGCCAC
Found at i:111460894 original size:28 final size:27
Alignment explanation
Indices: 111460846--111460951 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
111460836 TTGCTAGAAT
* *
111460846 AGATAATGTGACAGAGTCACCAGATAC
1 AGATAATGTGGCAGAGCCACCAGATAC
111460873 AGATAATCGTGGCAGAGCCACCAGA-AC
1 AGATAAT-GTGGCAGAGCCACCAGATAC
111460900 AGATATATGTGGCAGAGCCACCAGAT-C
1 AGATA-ATGTGGCAGAGCCACCAGATAC
*
111460927 AGATAATTTGTGGCATAGCCACCAG
1 AGATAA--TGTGGCAGAGCCACCAG
111460952 GATGCTTCCT
Statistics
Matches: 71, Mismatches: 3, Indels: 9
0.86 0.04 0.11
Matches are distributed among these distances:
26 1 0.01
27 37 0.52
28 33 0.46
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.18
Consensus pattern (27 bp):
AGATAATGTGGCAGAGCCACCAGATAC
Found at i:111460940 original size:55 final size:54
Alignment explanation
Indices: 111460841--111460951 Score: 152
Period size: 55 Copynumber: 2.0 Consensus size: 54
111460831 CATGGTTGCT
* *
111460841 AGAATAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACC
1 AGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACC
* * *
111460895 AGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTTGTGGCATAGCCACC
1 AGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAA-TCGTGGCAGAGCCACC
111460950 AG
1 AG
111460952 GATGCTTCCT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
54 16 0.32
55 34 0.68
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (54 bp):
AGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACC
Found at i:111467238 original size:49 final size:49
Alignment explanation
Indices: 111467058--111467253 Score: 214
Period size: 50 Copynumber: 3.9 Consensus size: 49
111467048 TCTATTGTGA
* * * *
111467058 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAG-ATA-TGT
* * * ** * *
111467109 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTGA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAT-ATGT
* *
111467159 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTAT-T
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA-TATGT
* *
111467208 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATA
111467254 GCTTCGGCTA
Statistics
Matches: 123, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
48 2 0.02
49 40 0.33
50 45 0.37
51 36 0.29
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATATGT
Found at i:111470249 original size:15 final size:15
Alignment explanation
Indices: 111470229--111470282 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
111470219 TATCGTATCT
111470229 TGGGTTTCTTTATTC
1 TGGGTTTCTTTATTC
111470244 TGGGTTT-TTCTA-TC
1 TGGGTTTCTT-TATTC
*
111470258 TTGGATTTCTTTATTC
1 -TGGGTTTCTTTATTC
*
111470274 -GGTTTTCTT
1 TGGGTTTCTT
111470283 GTTATCTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
14 12 0.36
15 17 0.52
16 4 0.12
ACGTcount: A:0.07, C:0.13, G:0.19, T:0.61
Consensus pattern (15 bp):
TGGGTTTCTTTATTC
Found at i:111474704 original size:54 final size:54
Alignment explanation
Indices: 111474646--111474753 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
111474636 TGTTCAAGGT
*
111474646 AAGGTTAAGGTGAGGTTTTAGTTTTTTGGTGTAAAATATGTGTTAAGCATACGA
1 AAGGTTAAGGTGAGGTTTGAGTTTTTTGGTGTAAAATATGTGTTAAGCATACGA
111474700 AAGGTTAAGGTGAGGTTTGAGTTTTTTGGTGTAAAATATGTGTTAAGCATACGA
1 AAGGTTAAGGTGAGGTTTGAGTTTTTTGGTGTAAAATATGTGTTAAGCATACGA
111474754 TTTATGGAAG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.30, C:0.04, G:0.29, T:0.38
Consensus pattern (54 bp):
AAGGTTAAGGTGAGGTTTGAGTTTTTTGGTGTAAAATATGTGTTAAGCATACGA
Found at i:111474891 original size:16 final size:16
Alignment explanation
Indices: 111474855--111474896 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
111474845 GTAGATTGGC
*
111474855 AAAAGCCGAAATGCGA
1 AAAAGCTGAAATGCGA
111474871 AAAAGCTGAAATGCTG-
1 AAAAGCTGAAATGC-GA
111474887 AAAAGCTGAA
1 AAAAGCTGAA
111474897 TGTTTAGCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 23 0.96
17 1 0.04
ACGTcount: A:0.50, C:0.14, G:0.24, T:0.12
Consensus pattern (16 bp):
AAAAGCTGAAATGCGA
Found at i:111479366 original size:6 final size:6
Alignment explanation
Indices: 111479331--111479455 Score: 87
Period size: 6 Copynumber: 20.3 Consensus size: 6
111479321 AAGAAACATT
* * * *
111479331 ATCAGA A-CTAGA ATCAAA ATGAGG ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
111479380 ATCAGA ATCAGT ATCAGA ATCAGA ATCAG- GTGACAAA ATCAGA ATCAGT
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
111479429 ATCAGGTA A-CAGA ATCAGA ATCAGA AT
1 ATCA-G-A ATCAGA ATCAGA ATCAGA AT
111479456 GTAAATGCAA
Statistics
Matches: 92, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
5 5 0.05
6 75 0.82
7 9 0.10
8 3 0.03
ACGTcount: A:0.46, C:0.15, G:0.20, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:111479381 original size:19 final size:19
Alignment explanation
Indices: 111479357--111479427 Score: 110
Period size: 19 Copynumber: 3.8 Consensus size: 19
111479347 AAATGAGGAT
111479357 CAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGGTGA
111479376 CAGAATCAGAATCA-GT-A
1 CAGAATCAGAATCAGGTGA
111479393 TCAGAATCAGAATCAGGTGA
1 -CAGAATCAGAATCAGGTGA
*
111479413 CAAAATCAGAATCAG
1 CAGAATCAGAATCAG
111479428 TATCAGGTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
17 1 0.02
18 16 0.33
19 30 0.62
20 1 0.02
ACGTcount: A:0.45, C:0.17, G:0.21, T:0.17
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTGA
Found at i:111479381 original size:37 final size:37
Alignment explanation
Indices: 111479340--111479446 Score: 153
Period size: 37 Copynumber: 2.9 Consensus size: 37
111479330 TATCAGAACT
* * *
111479340 AGAATCAAAATGAGGATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGTATCAGAATCAGAATCAGGTGAC
111479377 AGAATCAGAATCAGTATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGTATCAGAATCAGAATCAGGTGAC
*
111479414 AAAATCAGAATCAGTATCAGGTAA-CAGAATCAG
1 AGAATCAGAATCAGTATCA-G-AATCAGAATCAG
111479447 AATCAGAATG
Statistics
Matches: 64, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
37 52 0.81
38 10 0.16
39 2 0.03
ACGTcount: A:0.46, C:0.15, G:0.21, T:0.18
Consensus pattern (37 bp):
AGAATCAGAATCAGTATCAGAATCAGAATCAGGTGAC
Found at i:111479420 original size:25 final size:25
Alignment explanation
Indices: 111479392--111479455 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
111479382 CAGAATCAGT
*
111479392 ATCAGAATCAGAATCAGGTGACAAA
1 ATCAGAATCAGAATCAGGTAACAAA
* *
111479417 ATCAGAATCAGTATCAGGTAACAGA
1 ATCAGAATCAGAATCAGGTAACAAA
111479442 ATCAGAATCAGAAT
1 ATCAGAATCAGAAT
111479456 GTAAATGCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.19
Consensus pattern (25 bp):
ATCAGAATCAGAATCAGGTAACAAA
Found at i:111479614 original size:27 final size:26
Alignment explanation
Indices: 111479573--111479658 Score: 109
Period size: 27 Copynumber: 3.2 Consensus size: 26
111479563 AGCATGGCTG
* *
111479573 CCAGAATAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
*
111479599 CCAGATACAGATATTGTGCCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* *
111479626 CCAGAACAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCA
111479653 CCAGAA
1 CCAGAA
111479659 ACACTTTCTC
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
26 12 0.23
27 41 0.77
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:111479892 original size:27 final size:27
Alignment explanation
Indices: 111479862--111480111 Score: 329
Period size: 27 Copynumber: 9.3 Consensus size: 27
111479852 GGGGCAAAAT
* *
111479862 GGTAATTTTACCCTACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
111479889 GGTAATTTTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
111479916 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
111479943 AATAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
111479970 AGTAATTCTAACCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
111479997 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
111480024 GGTATTTCTACCCTACAAGGCTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
111480051 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
111480078 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
111480105 AGTAATT
1 GGTAATT
111480112 TTACAGGTCG
Statistics
Matches: 197, Mismatches: 26, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 197 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:111482114 original size:33 final size:33
Alignment explanation
Indices: 111481980--111482153 Score: 145
Period size: 33 Copynumber: 5.3 Consensus size: 33
111481970 GGTCCACACT
* *
111481980 CCCTTTTCAAGTGGTACACACGAAGTGTACATA
1 CCCTTTTCAAGTGGTACACACAAAGTGTACCTA
* * *
111482013 CCCTTTTCAATTTGTACACACAAAGTGTACATA
1 CCCTTTTCAAGTGGTACACACAAAGTGTACCTA
* *** *
111482046 CCCTTTCCAAGT-GTACACATTTAGTGTACCTT
1 CCCTTTTCAAGTGGTACACACAAAGTGTACCTA
* * * *
111482078 TCCTTTTCAAGTGGTATACACAAAGTATACCTT
1 CCCTTTTCAAGTGGTACACACAAAGTGTACCTA
* * * *
111482111 TCCTTTTCGTA-TGGTATACACAAAGTATACCTA
1 CCCTTTTC-AAGTGGTACACACAAAGTGTACCTA
**
111482144 AACTTTTCAA
1 CCCTTTTCAA
111482154 ATTGTACCAT
Statistics
Matches: 117, Mismatches: 22, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
32 26 0.22
33 90 0.77
34 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (33 bp):
CCCTTTTCAAGTGGTACACACAAAGTGTACCTA
Found at i:111487569 original size:46 final size:46
Alignment explanation
Indices: 111487387--111487605 Score: 171
Period size: 46 Copynumber: 4.7 Consensus size: 46
111487377 TCACTTGTGT
* * * *
111487387 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGA-GACGA
* *
111487433 GAGCTAGTGTAAGACTATGTCTTGGACATGGCATCAGC-ATTGAGACGA
1 GAGCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCAGCTA-CGAGACGA
* * * * *
111487481 GTGCTACTGTAAGACATGTCTAGGACAGGCTTCAGCCT-CGAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAG-CTACGAGACG-A
* * *
111487528 -AGCCAGTGTAAGACATGTTTGGGACATGCATCAGCTACGAGA-TA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGACGA
* * *
111487572 -CGTTAGTGTAATATCATGTCTGGGACATGGCATC
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
111487606 GGCACTTGAC
Statistics
Matches: 139, Mismatches: 24, Indels: 20
0.76 0.13 0.11
Matches are distributed among these distances:
44 10 0.07
45 15 0.11
46 64 0.46
47 26 0.19
48 23 0.17
49 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGACGA
Found at i:111490609 original size:69 final size:69
Alignment explanation
Indices: 111490494--111490627 Score: 164
Period size: 69 Copynumber: 1.9 Consensus size: 69
111490484 AATGCCAACG
* * * *
111490494 TCCCAGACGTGGTCTTACATGTAATCACATGTCAATGCCACTGTCCCAGACAG-GGTCTTACACG
1 TCCCAGACATGGTATTACATGAAATCACATATCAATGCCACTGTCCCAGA-AGTGGTCTTACACG
111490558 AATCA
65 AATCA
* ** *
111490563 TCCCAGACATGGTATTACTTGAAATCACATATTGATGCCAAC-GTCCCAGATGTGGTCTTACACG
1 TCCCAGACATGGTATTACATGAAATCACATATCAATGCC-ACTGTCCCAGAAGTGGTCTTACACG
111490627 A
65 A
111490628 GAACACATAT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
68 1 0.02
69 52 0.95
70 2 0.04
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (69 bp):
TCCCAGACATGGTATTACATGAAATCACATATCAATGCCACTGTCCCAGAAGTGGTCTTACACGA
ATCA
Found at i:111491171 original size:29 final size:27
Alignment explanation
Indices: 111491139--111491198 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 27
111491129 CAAGCCCACA
*
111491139 CAATTCATTTATTTTACATTTTAGTCCCT
1 CAATTCA-TTATTTTACAATTTAG-CCCT
* *
111491168 CAATTTATTATTTTGCAATTTAGCCCT
1 CAATTCATTATTTTACAATTTAGCCCT
111491195 -AATT
1 CAATT
111491199 ACTCAAATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 4 0.14
27 4 0.14
28 14 0.50
29 6 0.21
ACGTcount: A:0.27, C:0.18, G:0.05, T:0.50
Consensus pattern (27 bp):
CAATTCATTATTTTACAATTTAGCCCT
Found at i:111496379 original size:2 final size:2
Alignment explanation
Indices: 111496372--111496398 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
111496362 TCATGAAATG
111496372 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
111496399 GACTAGTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:111503197 original size:40 final size:40
Alignment explanation
Indices: 111503070--111503199 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
111503060 ATGCTGGAAA
* *
111503070 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
111503110 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
111503150 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
111503190 TTATATCCGG
1 TTATATCCGG
111503200 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 4 0.05
40 74 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:111508695 original size:46 final size:46
Alignment explanation
Indices: 111508645--111508769 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
111508635 TGAGCATCCG
*
111508645 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG-TCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCT-CA
*
111508691 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCTCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCTCA
*
111508737 AACTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
111508770 GCGGGTTACA
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
46 74 0.99
47 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCTCA
Found at i:111514106 original size:17 final size:18
Alignment explanation
Indices: 111514064--111514112 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
111514054 AGTTGAAAAG
111514064 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
111514083 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
111514100 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
111514113 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:111514995 original size:40 final size:40
Alignment explanation
Indices: 111514929--111515095 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
111514919 AAATTGAATG
* * *
111514929 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
111514968 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
111515008 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
111515048 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
111515088 ATATCCGG
1 ATATCCGG
111515096 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:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:111522103 original size:17 final size:18
Alignment explanation
Indices: 111522061--111522109 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
111522051 AGTTGAAAAG
111522061 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
111522080 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
111522097 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
111522110 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:111522997 original size:40 final size:40
Alignment explanation
Indices: 111522931--111523097 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
111522921 AAATTGAATG
* * *
111522931 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
111522970 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
111523010 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
111523050 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
111523090 ATATCCGG
1 ATATCCGG
111523098 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:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:111527280 original size:40 final size:39
Alignment explanation
Indices: 111527112--111527291 Score: 161
Period size: 40 Copynumber: 4.5 Consensus size: 39
111527102 AGAAATTGAA
* *
111527112 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
111527152 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
111527192 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
111527232 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
*
111527272 TGATATCCGGG-TAAGTCCCG
1 TGATATCCGGGCTAAGACCCG
111527292 TTGGCCTTGG
Statistics
Matches: 115, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.03
39 12 0.10
40 95 0.83
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:111535294 original size:40 final size:39
Alignment explanation
Indices: 111535126--111535296 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
111535116 AGAAATTGAA
* *
111535126 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
111535166 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
111535206 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
111535246 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
111535286 TGATATCCGGG
1 TGATATCCGGG
111535297 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:111537946 original size:37 final size:37
Alignment explanation
Indices: 111537887--111537995 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
111537877 AGCTCAGACG
* *
111537887 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
111537924 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
111537961 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
111537996 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:111538197 original size:50 final size:48
Alignment explanation
Indices: 111538140--111538324 Score: 282
Period size: 48 Copynumber: 3.8 Consensus size: 48
111538130 GCACATCGCC
* *
111538140 TACATATTTCACACTAGCCATTCAGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
111538190 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
*
111538238 TACATATTTCACATTAACCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
111538286 TACATATTTCACATTAGCCATTCGACTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
111538325 TGCATGTTCA
Statistics
Matches: 124, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
48 82 0.66
49 1 0.01
50 41 0.33
ACGTcount: A:0.32, C:0.26, G:0.05, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:111538329 original size:98 final size:97
Alignment explanation
Indices: 111538140--111538323 Score: 291
Period size: 98 Copynumber: 1.9 Consensus size: 97
111538130 GCACATCGCC
* *
111538140 TACATATTTCACACTAGCCATTCAGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAACCATTCAGCTTTACCACATATACATATCTCA-ATACATATTTCACATT
*
111538205 GACCATTCGGCTTTACCACATATGCATATCTCA
65 GACCATTCGACTTTACCACATATGCATATCTCA
* *
111538238 TACATATTTCACATTAACCATTCGGCTTTACCACATATACATATCTC-ATACATATTTCACATT-
1 TACATATTTCACACTAACCATTCAGCTTTACCACATATACATATCTCAATACATATTTCACATTG
111538301 AGCCATTCGACTTTACCACATAT
66 A-CCATTCGACTTTACCACATAT
111538324 ATGCATGTTC
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
95 1 0.01
96 35 0.44
98 44 0.55
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.36
Consensus pattern (97 bp):
TACATATTTCACACTAACCATTCAGCTTTACCACATATACATATCTCAATACATATTTCACATTG
ACCATTCGACTTTACCACATATGCATATCTCA
Found at i:111538373 original size:47 final size:47
Alignment explanation
Indices: 111538294--111538487 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
111538284 CATACATATT
* * * * *
111538294 TCACATTAGCCATTCGACTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
111538341 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
111538388 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
111538435 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
111538482 TCACAT
1 TCACAT
111538488 AAAATCCTAA
Statistics
Matches: 132, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 132 1.00
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:111538414 original size:22 final size:22
Alignment explanation
Indices: 111538387--111538458 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
111538377 GCTCACATTC
111538387 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
111538409 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
111538433 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
111538456 ATC
1 ATC
111538459 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:111542549 original size:40 final size:40
Alignment explanation
Indices: 111542517--111542828 Score: 489
Period size: 40 Copynumber: 7.8 Consensus size: 40
111542507 CCAGCATGAT
* * * *
111542517 TGCTCTTCGGGACCTAGCCCAGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
111542557 TGCTCTTCGGAACTTTGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
111542597 TGCTCTTCGGGACTTAGTCCGAATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
111542637 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
111542677 TGCTCTTCGGGACTTAGCCGGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
111542717 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
111542757 TGCTCTTCGAGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
111542797 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
111542829 CTCAATTCTC
Statistics
Matches: 252, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 252 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:111543883 original size:37 final size:37
Alignment explanation
Indices: 111543824--111543932 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
111543814 AGCTCAGACG
* *
111543824 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
111543861 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
111543898 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
111543933 ATATATTTCC
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:111544202 original size:48 final size:48
Alignment explanation
Indices: 111544078--111544310 Score: 405
Period size: 48 Copynumber: 4.8 Consensus size: 48
111544068 GCACATCGCC
*
111544078 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
111544128 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
111544176 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
111544224 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
111544272 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
111544311 TGCATGTTCA
Statistics
Matches: 176, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
48 132 0.75
49 2 0.01
50 42 0.24
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:111544350 original size:23 final size:23
Alignment explanation
Indices: 111544324--111544397 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
111544314 ATGTTCATAT
111544324 TCACCATTGGCCATTCGGCCTTA
1 TCACCATTGGCCATTCGGCCTTA
* *
111544347 TCACACATAT-G-CATGCTC-ACATTCA
1 TCAC-CAT-TGGCCAT--TCGGCCTT-A
111544372 TCA-CATTGGCCATTCGGCCTTA
1 TCACCATTGGCCATTCGGCCTTA
111544394 TCAC
1 TCAC
111544398 ATATATGCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 18
0.63 0.07 0.30
Matches are distributed among these distances:
22 7 0.18
23 14 0.37
24 10 0.26
25 7 0.18
ACGTcount: A:0.23, C:0.34, G:0.14, T:0.30
Consensus pattern (23 bp):
TCACCATTGGCCATTCGGCCTTA
Found at i:111544380 original size:47 final size:47
Alignment explanation
Indices: 111544280--111544471 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
111544270 CATACATATT
* * * *
111544280 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
111544327 -C-CATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
111544372 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
111544419 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
111544466 TCACAT
1 TCACAT
111544472 AAAATCCTAA
Statistics
Matches: 131, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
45 38 0.29
46 2 0.02
47 91 0.69
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:111544398 original size:22 final size:22
Alignment explanation
Indices: 111544371--111544442 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
111544361 GCTCACATTC
111544371 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
111544393 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
111544417 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
111544440 ATC
1 ATC
111544443 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:111544406 original size:92 final size:94
Alignment explanation
Indices: 111544184--111544471 Score: 295
Period size: 94 Copynumber: 3.1 Consensus size: 94
111544174 CATACATATT
* * * *
111544184 TCACATTAGCCATTCGGCTTTACCACATATA--CATATCTCATACATAT-TTCACATTAGCCATT
1 TCACATTAGCCATTCGGCCTTACCACATATATGCATGT-TC--ACAT-TCATCACATTGGCCATT
* * *
111544246 CGGCTTTA-C-CACATATACATATCTCATACATAT-T
62 CGGCCTTATCACACATATACACA-CTC--ACAT-TCA
* *
111544280 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA-C-CATTGGCCATTCGGC
1 TCACATTAGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
* **
111544343 CTTATCACACATATGCATGCTCACATTCA
66 CTTATCACACATATACACACTCACATTCA
* *
111544372 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 TCACATTAGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
* * *
111544437 CTTATCTCATATATACACATTCACATTCA
66 CTTATCACACATATACACACTCACATTCA
111544466 TCACAT
1 TCACAT
111544472 AAAATCCTAA
Statistics
Matches: 166, Mismatches: 18, Indels: 18
0.82 0.09 0.09
Matches are distributed among these distances:
91 1 0.01
92 47 0.28
93 18 0.11
94 50 0.30
95 13 0.08
96 31 0.19
97 2 0.01
98 4 0.02
ACGTcount: A:0.28, C:0.28, G:0.09, T:0.34
Consensus pattern (94 bp):
TCACATTAGCCATTCGGCCTTACCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
CTTATCACACATATACACACTCACATTCA
Found at i:111564567 original size:30 final size:31
Alignment explanation
Indices: 111564533--111564592 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
111564523 AGCTCCAACC
*
111564533 AGCTCACTTGAGCTTGCTT-CAGCTCGTTTG
1 AGCTCACTTGAGCTTCCTTCCAGCTCGTTTG
** *
111564563 AGCTCGTTTTAGCTTCCTTCCAGCTCGTTT
1 AGCTCACTTGAGCTTCCTTCCAGCTCGTTT
111564593 CTTATTCTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.12, C:0.28, G:0.20, T:0.40
Consensus pattern (31 bp):
AGCTCACTTGAGCTTCCTTCCAGCTCGTTTG
Found at i:111567093 original size:15 final size:15
Alignment explanation
Indices: 111567046--111567095 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
111567036 CAAAAATAGT
*
111567046 AAAAGAAAAAAAAGA
1 AAAAGAAAGAAAAGA
*
111567061 AAAAGAAAGAAAATA
1 AAAAGAAAGAAAAGA
*
111567076 AAAAG-AAGAGCAAGA
1 AAAAGAAAGA-AAAGA
111567091 AAAAG
1 AAAAG
111567096 TGAGGAGTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 4 0.13
15 26 0.87
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (15 bp):
AAAAGAAAGAAAAGA
Found at i:111569065 original size:10 final size:10
Alignment explanation
Indices: 111569052--111569085 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
111569042 AGCTCACTTG
* *
111569052 AGCTTGTTTC
1 AGCTCGTTTT
111569062 AGCTCGTTTT
1 AGCTCGTTTT
111569072 AGCTCGTTTT
1 AGCTCGTTTT
111569082 AGCT
1 AGCT
111569086 TCCTTCCAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.12, C:0.21, G:0.21, T:0.47
Consensus pattern (10 bp):
AGCTCGTTTT
Found at i:111577405 original size:103 final size:103
Alignment explanation
Indices: 111577226--111577435 Score: 420
Period size: 103 Copynumber: 2.0 Consensus size: 103
111577216 GCATGTACTG
111577226 TATAGTATGCTTATCCCTACTCGGTGGCTTTCTTGCACTTCCGAAATAGATCCAATTTTTCTTGC
1 TATAGTATGCTTATCCCTACTCGGTGGCTTTCTTGCACTTCCGAAATAGATCCAATTTTTCTTGC
111577291 ACTTCTAGCAAATTTCTTTTACTTTTAGTTTTTGGCAT
66 ACTTCTAGCAAATTTCTTTTACTTTTAGTTTTTGGCAT
111577329 TATAGTATGCTTATCCCTACTCGGTGGCTTTCTTGCACTTCCGAAATAGATCCAATTTTTCTTGC
1 TATAGTATGCTTATCCCTACTCGGTGGCTTTCTTGCACTTCCGAAATAGATCCAATTTTTCTTGC
111577394 ACTTCTAGCAAATTTCTTTTACTTTTAGTTTTTGGCAT
66 ACTTCTAGCAAATTTCTTTTACTTTTAGTTTTTGGCAT
111577432 TATA
1 TATA
111577436 TTCTCACTAT
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.21, C:0.21, G:0.13, T:0.45
Consensus pattern (103 bp):
TATAGTATGCTTATCCCTACTCGGTGGCTTTCTTGCACTTCCGAAATAGATCCAATTTTTCTTGC
ACTTCTAGCAAATTTCTTTTACTTTTAGTTTTTGGCAT
Found at i:111577619 original size:75 final size:75
Alignment explanation
Indices: 111577530--111577682 Score: 297
Period size: 75 Copynumber: 2.0 Consensus size: 75
111577520 GTTTACTTTG
*
111577530 CTTTCTTTTAAGTCTTTTCATAATCTTGTGATCATGTTACTATGGTAATACTCTGCAAGAAGATA
1 CTTTCTTTTAAGTCTTTTCATAATCTTGTGATCATGTTACTATGCTAATACTCTGCAAGAAGATA
111577595 ATGCTAACAT
66 ATGCTAACAT
111577605 CTTTCTTTTAAGTCTTTTCATAATCTTGTGATCATGTTACTATGCTAATACTCTGCAAGAAGATA
1 CTTTCTTTTAAGTCTTTTCATAATCTTGTGATCATGTTACTATGCTAATACTCTGCAAGAAGATA
111577670 ATGCTAACAT
66 ATGCTAACAT
111577680 CTT
1 CTT
111577683 CTGCCATTTT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 77 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (75 bp):
CTTTCTTTTAAGTCTTTTCATAATCTTGTGATCATGTTACTATGCTAATACTCTGCAAGAAGATA
ATGCTAACAT
Found at i:111590042 original size:18 final size:18
Alignment explanation
Indices: 111590005--111590043 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
111589995 TTATAAATTA
*
111590005 AAATTATTAAAAGATGAT
1 AAATTATTAAAAGATAAT
111590023 AAATTATTAAATAGA-AAT
1 AAATTATTAAA-AGATAAT
111590041 AAA
1 AAA
111590044 ATTCATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (18 bp):
AAATTATTAAAAGATAAT
Found at i:111596916 original size:33 final size:33
Alignment explanation
Indices: 111596843--111596912 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
111596833 GCAAAAGCAT
**
111596843 GCATTAAAGGAGCTGTTTAGCATGCAAGGGATG
1 GCATTAAAGGAGCTGTGAAGCATGCAAGGGATG
* *
111596876 TCATTAAAGGAGCTGTGAAGCATGC-ATGGATG
1 GCATTAAAGGAGCTGTGAAGCATGCAAGGGATG
111596908 GCATT
1 GCATT
111596913 TAAAAAAAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 10 0.31
33 22 0.69
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.26
Consensus pattern (33 bp):
GCATTAAAGGAGCTGTGAAGCATGCAAGGGATG
Found at i:111600162 original size:80 final size:80
Alignment explanation
Indices: 111600078--111600226 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
111600068 TATGGTAACC
* * * *
111600078 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
111600142 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
111600158 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
111600223 CCGG
66 CCGG
111600227 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:111600168 original size:40 final size:38
Alignment explanation
Indices: 111600119--111600226 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
111600109 ATCACGATTT
*
111600119 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
111600159 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
111600199 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
111600227 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:111615489 original size:15 final size:15
Alignment explanation
Indices: 111615469--111615537 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
111615459 GTATCTTGGG
111615469 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
111615484 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
111615499 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
111615514 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
111615529 TTTCTTTAT
1 TTTCTTTAT
111615538 TCGGTTTCTT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:111615538 original size:30 final size:30
Alignment explanation
Indices: 111615460--111615546 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
111615450 CATAGTATCG
* * * * *
111615460 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGGTTTCTC
111615490 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGGTTTCTC
111615520 TATCTTGGATTTCTTTATTC--GGTTTCT
1 TATCTTGGATTTCTTTATTCTGGGTTTCT
111615547 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
28 7 0.14
29 1 0.02
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGGTTTCTC
Found at i:111619024 original size:40 final size:40
Alignment explanation
Indices: 111618965--111619106 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
111618955 AAATTGAATG
* * *
111618965 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
111619005 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
111619045 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
111619085 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
111619107 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:111619107 original size:40 final size:39
Alignment explanation
Indices: 111619004--111619132 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
111618994 TGCTGGAAAT
* * *
111619004 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
111619044 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
111619084 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
111619124 TATATCCGG
1 TATATCCGG
111619133 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:111621134 original size:47 final size:47
Alignment explanation
Indices: 111621065--111621191 Score: 254
Period size: 47 Copynumber: 2.7 Consensus size: 47
111621055 AGGATATTTG
111621065 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
111621112 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
111621159 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
111621192 ACTCATGGAT
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 80 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (47 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:111625454 original size:79 final size:82
Alignment explanation
Indices: 111625314--111625498 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
111625304 TCGAATGATG
* * *
111625314 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
111625378 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
111625394 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
111625456 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
111625474 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
111625499 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:111625506 original size:40 final size:40
Alignment explanation
Indices: 111625315--111625506 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
111625305 CGAATGATGT
* * * * *
111625315 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
111625355 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
111625395 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
111625434 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
111625474 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
111625507 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:111631561 original size:79 final size:82
Alignment explanation
Indices: 111631421--111631605 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
111631411 TCGAATGATG
* * *
111631421 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
111631485 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
111631501 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
111631563 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
111631581 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
111631606 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:111631613 original size:40 final size:40
Alignment explanation
Indices: 111631422--111631613 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
111631412 CGAATGATGT
* * * * *
111631422 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
111631462 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
111631502 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
111631541 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
111631581 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
111631614 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:111631636 original size:79 final size:79
Alignment explanation
Indices: 111631421--111631638 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
111631411 TCGAATGATG
* * * * ** *
111631421 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
111631484 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
111631501 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
111631566 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
111631581 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
111631639 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:111641976 original size:16 final size:16
Alignment explanation
Indices: 111641957--111641988 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
111641947 AATTATTTTA
111641957 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
111641973 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
111641989 ACTCCATTCT
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:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:111642253 original size:50 final size:50
Alignment explanation
Indices: 111642188--111642683 Score: 414
Period size: 50 Copynumber: 9.9 Consensus size: 50
111642178 ACCGAAGCTC
* * *
111642188 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * * * * *
111642238 TCTGGTACACGTAGTAGTCTGTACTTAGTACTACACATGT-AACTTTACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTAT-CAA
* * * * ** *
111642288 TCTGATGCACGTAGTAGCGTGCACTTAGTACTACACACGTGATCAAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAA
* * * *
111642340 -CGGGTACGCATAGTAGCCTGCACTTAGTACTGCACATGCT-ACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACG-TGACCTATCAA
* * * *
111642389 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * * *
111642439 TCTGGTACACATAGTAGCTTGCATTTAGTACTACACACATGATCCAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAA
* * * *
111642491 --TGGATACCCATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCA
1 TCTGG-TACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* ** * * *
111642540 TCTGATACATGTAGTAGCTTGCACTTAGTACTACACACGTGATCCAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAA
* * *
111642592 --TGGATACCCATAGTAGCCTGCACTTAGTACT-CTACATGCGACCTATCAA
1 TCTGG-TACACATAGTAGCCTGCACTTAGTACTAC-ACACGTGACCTATCAA
** * *
111642641 TCTAATACACGTAGTAGCCTACACTTAGTACTACACACGTGAC
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGAC
111642684 TCATAATGGA
Statistics
Matches: 344, Mismatches: 83, Indels: 38
0.74 0.18 0.08
Matches are distributed among these distances:
49 12 0.03
50 225 0.65
51 102 0.30
52 4 0.01
53 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
Found at i:111642368 original size:101 final size:101
Alignment explanation
Indices: 111642199--111642531 Score: 277
Period size: 101 Copynumber: 3.3 Consensus size: 101
111642189 CTGGTACGCA
* * ** * * * * * *
111642199 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCTA-TCAATCTGGTACACGTAGTAGTCTGTAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAA-CGGGTACGCATAGTAGCCTGCAC
* * *
111642262 TTAGTACTACACATG-TAACTTTACCATCTGATGCACG
65 TTAGTACTACACATGCTAACTAT-CAATCTGATACACG
*
111642299 TAGTAGCGTGCACTTAGTACTACACACGTGATCAAAGTTAACGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAACGGGTACGCATAGTAGCCTGCACT
* * *
111642364 TAGTACTGCACATGCTACCTATCAATCTGGTACACG
66 TAGTACTACACATGCTAACTATCAATCTGATACACG
* ** * * * * *
111642400 TAGTAGCCTGCACTTAGTACTACACACGTGA-CTTAA-CCATCTGGTACACATAGTAGCTTGCAT
1 TAGTAGCCTGCACTTAGTACTACACACGTGATC-AAAGTTAACGGGTACGCATAGTAGCCTGCAC
* * * * *
111642463 TTAGTACTACACACATGATCCAAGT-T-AAT-GGATACCCA
65 TTAGTACT--ACACATG--CTAACTATCAATCTGATACACG
111642501 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
111642532 CTTAACCATC
Statistics
Matches: 191, Mismatches: 34, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
100 57 0.30
101 113 0.59
102 17 0.09
103 1 0.01
104 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTTAACGGGTACGCATAGTAGCCTGCACT
TAGTACTACACATGCTAACTATCAATCTGATACACG
Found at i:111642467 original size:151 final size:151
Alignment explanation
Indices: 111642191--111642581 Score: 550
Period size: 151 Copynumber: 2.6 Consensus size: 151
111642181 GAAGCTCTCT
* *
111642191 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCTACCTATCAATCTGGTACACGTAGTAGC
* * * * * *
111642256 CTGTACTTAGTACTACACATGTAACTTTACCATCTGATGCACGTAGTAGCGTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACATAGTAGCGTGCACTTAGTACTA
*
111642321 CACACGTGATCAAAGTTAACG
131 CACACATGATCAAAGTTAACG
*
111642342 GGTACGCATAGTAGCCTGCACTTAGTACTGCACATGCTACCTATCAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCTACCTATCAATCTGGTACACGTAGTAGC
* * *
111642407 CTGCACTTAGTACTACACACGTGACTTAACCATCTGGTACACATAGTAGCTTGCATTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACATAGTAGCGTGCACTTAGTACTA
* *
111642472 CACACATGATCCAAGTTAATG
131 CACACATGATCAAAGTTAACG
* * * * * * * *
111642493 GATACCCATAGTAGCCTGCACTTAGTACTACACACG-TGACTTAACCATCTGATACATGTAGTAG
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCT-ACCTATCAATCTGGTACACGTAGTAG
*
111642557 CTTGCACTTAGTACTACACACGTGA
65 CCTGCACTTAGTACTACACACGTGA
111642582 TCCAAGTTAA
Statistics
Matches: 214, Mismatches: 25, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
150 1 0.00
151 213 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCTACCTATCAATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACATAGTAGCGTGCACTTAGTACTA
CACACATGATCAAAGTTAACG
Found at i:111642679 original size:101 final size:101
Alignment explanation
Indices: 111642400--111642682 Score: 433
Period size: 101 Copynumber: 2.8 Consensus size: 101
111642390 CTGGTACACG
* * *
111642400 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGGTACACATAGTAGCTTGCATTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCTTGCACTT
*
111642465 AGTACTACACACATGATCCAAGTTAATGGATACCCA
66 AGTACTACACACGTGATCCAAGTTAATGGATACCCA
*
111642501 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACATGTAGTAGCTTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCTTGCACTT
111642566 AGTACTACACACGTGATCCAAGTTAATGGATACCCA
66 AGTACTACACACGTGATCCAAGTTAATGGATACCCA
* * * * * * * *
111642602 TAGTAGCCTGCACTTAGTACT-CTACATGCGACCTATCAATCTAATACACGTAGTAGCCTACACT
1 TAGTAGCCTGCACTTAGTACTAC-ACACGTGACTTAACCATCTGATACACGTAGTAGCTTGCACT
111642666 TAGTACTACACACGTGA
65 TAGTACTACACACGTGA
111642683 CTCATAATGG
Statistics
Matches: 167, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
100 1 0.01
101 166 0.99
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGTAGCTTGCACTT
AGTACTACACACGTGATCCAAGTTAATGGATACCCA
Found at i:111649115 original size:40 final size:40
Alignment explanation
Indices: 111649078--111649208 Score: 140
Period size: 40 Copynumber: 3.3 Consensus size: 40
111649068 GCTACTCGTT
*
111649078 CAAATGCCTTCAGGAAATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCAGGAAATAACCCGGATT-TAGTAACTCGCA
* ** *
111649118 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTTGCA
1 CAAATGCCTTCAGGAAATAACCCGGATTTAGTAACTCGCA
** **
111649158 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCAGGA-AATAACCCGGATTTAGTAACTCGCA
*
111649198 CGAATGCCTTC
1 CAAATGCCTTC
111649209 GGATCTTAGT
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.94
41 2 0.03
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCAGGAAATAACCCGGATTTAGTAACTCGCA
Found at i:111649257 original size:40 final size:40
Alignment explanation
Indices: 111649106--111649250 Score: 195
Period size: 40 Copynumber: 3.6 Consensus size: 40
111649096 AGCCCGGTTA
* **
111649106 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATT
1 TAGTAACTTGCACAAATGCCTTC-GGATCTTAGTCCGGATT
111649146 TAGTAACTTGCACAAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTTGCACAAATGCCTTCGGATCTTAGTCCGGATT
* * *
111649186 TAGTAACTCGCACGAATGCCTTCGGATCTTAGTCCGGATA
1 TAGTAACTTGCACAAATGCCTTCGGATCTTAGTCCGGATT
*
111649226 TAGTCACTTAGCACAAA-GCCTTCGG
1 TAGTAACTT-GCACAAATGCCTTCGG
111649251 GACTTAGCCC
Statistics
Matches: 94, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.03
40 85 0.90
41 6 0.06
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (40 bp):
TAGTAACTTGCACAAATGCCTTCGGATCTTAGTCCGGATT
Found at i:111653927 original size:2 final size:2
Alignment explanation
Indices: 111653920--111653955 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
111653910 TTGTGGTTCC
111653920 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
111653956 TTGGTTTTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111660406 original size:12 final size:12
Alignment explanation
Indices: 111660389--111660413 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
111660379 TTTTAAATGA
111660389 ATTTGATTAAAT
1 ATTTGATTAAAT
111660401 ATTTGATTAAAT
1 ATTTGATTAAAT
111660413 A
1 A
111660414 AGTTTAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATTTGATTAAAT
Found at i:111661464 original size:17 final size:17
Alignment explanation
Indices: 111661414--111661464 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
111661404 CTAAGCTAAG
111661414 TTAGCTTACTTTGTATA
1 TTAGCTTACTTTGTATA
* ** *
111661431 -T-GTTTTTTTTATATA
1 TTAGCTTACTTTGTATA
111661446 TTAGCTTACTTTGTATA
1 TTAGCTTACTTTGTATA
111661463 TT
1 TT
111661465 TTTTTTATAT
Statistics
Matches: 24, Mismatches: 8, Indels: 4
0.67 0.22 0.11
Matches are distributed among these distances:
15 10 0.42
16 2 0.08
17 12 0.50
ACGTcount: A:0.22, C:0.08, G:0.10, T:0.61
Consensus pattern (17 bp):
TTAGCTTACTTTGTATA
Found at i:111661469 original size:30 final size:31
Alignment explanation
Indices: 111661414--111661475 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 31
111661404 CTAAGCTAAG
111661414 TTAGCTTACTTTGTATATGTTTTTTTTATATA
1 TTAGCTTACTTTGTATA-GTTTTTTTTATATA
111661446 TTAGCTTACTTTGTATA-TTTTTTTTATATA
1 TTAGCTTACTTTGTATAGTTTTTTTTATATA
111661476 ATTGTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 13 0.43
32 17 0.57
ACGTcount: A:0.23, C:0.06, G:0.08, T:0.63
Consensus pattern (31 bp):
TTAGCTTACTTTGTATAGTTTTTTTTATATA
Found at i:111664481 original size:12 final size:15
Alignment explanation
Indices: 111664449--111664482 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
111664439 GAGTAAATTA
111664449 ATGATGTTAATGAAG
1 ATGATGTTAATGAAG
111664464 ATGATGTTAATGAAG
1 ATGATGTTAATGAAG
111664479 ATGA
1 ATGA
111664483 CAAGGCCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.26, T:0.32
Consensus pattern (15 bp):
ATGATGTTAATGAAG
Found at i:111666509 original size:27 final size:28
Alignment explanation
Indices: 111666452--111666521 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
111666442 AAATTTGTAC
**
111666452 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
111666480 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
111666507 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
111666522 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:111666530 original size:27 final size:27
Alignment explanation
Indices: 111666452--111666533 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
111666442 AAATTTGTAC
* *
111666452 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
111666480 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
111666507 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
111666534 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:111669132 original size:14 final size:14
Alignment explanation
Indices: 111669115--111669142 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
111669105 AAAAAAAGTT
111669115 AATCAAAACAATGA
1 AATCAAAACAATGA
111669129 AATCAAAACAATGA
1 AATCAAAACAATGA
111669143 TAACGTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.14, G:0.07, T:0.14
Consensus pattern (14 bp):
AATCAAAACAATGA
Found at i:111672052 original size:20 final size:21
Alignment explanation
Indices: 111672014--111672052 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
111672004 ATCCTCAAAG
111672014 CAAAAGATCGACTTACCTCTT
1 CAAAAGATCGACTTACCTCTT
111672035 CAAAACGATC-AC-TACCTC
1 CAAAA-GATCGACTTACCTC
111672053 GAATCAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 7 0.41
22 4 0.24
ACGTcount: A:0.36, C:0.33, G:0.08, T:0.23
Consensus pattern (21 bp):
CAAAAGATCGACTTACCTCTT
Found at i:111682125 original size:40 final size:40
Alignment explanation
Indices: 111682066--111682273 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
111682056 CAATTGAATG
* * * *
111682066 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
111682106 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
111682146 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
111682186 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
111682226 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
111682266 ATATCCGG
1 ATATCCGG
111682274 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:111682204 original size:80 final size:80
Alignment explanation
Indices: 111682067--111682273 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
111682057 AATTGAATGA
* * ** * * *
111682067 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
111682132 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
111682145 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
111682210 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
111682227 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
111682274 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:111690138 original size:40 final size:40
Alignment explanation
Indices: 111690079--111690286 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 40
111690069 CAATTGAATG
* * * *
111690079 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * * *
111690119 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
111690159 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
111690199 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
111690239 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
111690279 ATATCCGG
1 ATATCCGG
111690287 TCGTATTCCG
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:111690217 original size:80 final size:80
Alignment explanation
Indices: 111690080--111690286 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 80
111690070 AATTGAATGA
* * ** * * *
111690080 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCAA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
*
111690145 TTGTGCTAGT-G-AC
66 TTGTGCAAGTCGTAC
* * *
111690158 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
* *
111690223 ATTTGTGCAAGTCGTTC
64 AATTGTGCAAGTCGTAC
* *
111690240 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
111690287 TCGTATTCCG
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
80 105 0.96
81 1 0.01
82 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAA
TTGTGCAAGTCGTAC
Found at i:111695693 original size:40 final size:40
Alignment explanation
Indices: 111695612--111695792 Score: 242
Period size: 40 Copynumber: 4.6 Consensus size: 40
111695602 AAACCAAGTA
** * *
111695612 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
* *
111695651 CCTTCGGGACTTAGCTCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
111695691 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATA
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
111695731 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
111695771 CCTTCCGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
111695793 CAATCCGAAT
Statistics
Matches: 125, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 26 0.21
40 99 0.79
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:111696391 original size:2 final size:2
Alignment explanation
Indices: 111696384--111696409 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
111696374 TTAAAATACC
111696384 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
111696410 TCATAAGTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:111701696 original size:46 final size:46
Alignment explanation
Indices: 111701643--111701818 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
111701633 TATTTGGGCA
111701643 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
111701689 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
111701736 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
111701782 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
111701819 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:111701798 original size:93 final size:93
Alignment explanation
Indices: 111701639--111701810 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
111701629 GGGATATTTG
* *
111701639 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
111701704 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
111701732 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
111701797 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
111701811 ACTTATGGGC
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:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:111706199 original size:46 final size:46
Alignment explanation
Indices: 111706050--111706312 Score: 195
Period size: 46 Copynumber: 5.7 Consensus size: 46
111706040 TGTGTGAGCT
* *
111706050 AGTGTAAGA-CATGTCT-GGACATGCATCGGCCAC-ATTATG-AGAGCC
1 AGTGTAAGACCATGTCTAGGACATGCATC-GCCTCGA-GATGTA-AGCC
* * * * * * * *
111706095 AATGTAAGACCATGTTTGGGACATGGCATCGACATTGAGACG-AGTGCT
1 AGTGTAAGACCATGTCTAGGACAT-GCATCG-CCTCGAGATGTA-AGCC
* *
111706143 AGTGTAAGA-CATGTCTAGGACATGCATCAGCCTCGGGACGTAAGCC
1 AGTGTAAGACCATGTCTAGGACATGCATC-GCCTCGAGATGTAAGCC
* * * *
111706189 AATATAAGA-CATGTCTAGGACATGCATCGGCTACGAGATGT--GTC
1 AGTGTAAGACCATGTCTAGGACATGCATCGCCT-CGAGATGTAAGCC
111706233 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAAGATG-ATAGCC
1 AGTGTAAGACCATGTCTAGGACAT-GCATC-GCCTCG-AGATGTA-AGCC
111706282 AGTGTAAGACCATGTCTAGGACATGACATCG
1 AGTGTAAGACCATGTCTAGGACATG-CATCG
111706313 GCACTTTACC
Statistics
Matches: 175, Mismatches: 27, Indels: 29
0.76 0.12 0.13
Matches are distributed among these distances:
44 9 0.05
45 25 0.14
46 59 0.34
47 29 0.17
48 22 0.13
49 31 0.18
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTAGGACATGCATCGCCTCGAGATGTAAGCC
Found at i:111706210 original size:93 final size:94
Alignment explanation
Indices: 111706047--111706312 Score: 287
Period size: 93 Copynumber: 2.9 Consensus size: 94
111706037 ATTTGTGTGA
* *
111706047 GCTAGTGTAAGACATGTCT-GGACATGCATCGGCCAC-ATTATGAGAGCCAATGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGA-GATGAGAGCCAATGTAAGACCATGT
* * *
111706110 TTGGGACATGGCATCGAC-ATTGAGACGAGT
65 CTAGGACATGGCATCGACTA-CGAGACGAGT
* * * *
111706140 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCTCGGGACGTA-AGCCAATATAAGA-CATGT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATG-AGAGCCAATGTAAGACCATGT
* * *
111706203 CTAGGACAT-GCATCGGCTACGAGATGTGT
65 CTAGGACATGGCATCGACTACGAGACGAGT
* *
111706232 -C-AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAAGATGATAGCCAGTGTAAGACCAT
1 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCG-AGATGAGAGCCAATGTAAGACCAT
*
111706295 GTCTAGGACATGACATCG
63 GTCTAGGACATGGCATCG
111706313 GCACTTTACC
Statistics
Matches: 145, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
90 9 0.06
91 15 0.10
92 26 0.18
93 46 0.32
94 43 0.30
95 6 0.04
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (94 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATGAGAGCCAATGTAAGACCATGTC
TAGGACATGGCATCGACTACGAGACGAGT
Found at i:111709420 original size:65 final size:65
Alignment explanation
Indices: 111709316--111709511 Score: 356
Period size: 65 Copynumber: 3.0 Consensus size: 65
111709306 CCCCTAGGGT
* *
111709316 TAAGGTTGACCTGGATGCATGTTTGACTGTTACTATTTACTGCATGTCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
*
111709381 TAAGGTTGACTTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
*
111709446 TAAGGTTTACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
1 TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
111709511 T
1 T
111709512 GCATGGGACT
Statistics
Matches: 126, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
65 126 1.00
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.43
Consensus pattern (65 bp):
TAAGGTTGACCTGAATGCATGTTTGACTGTTACTATTTACTGCATGCCATGTTATTATTATCTGA
Found at i:111709432 original size:30 final size:30
Alignment explanation
Indices: 111709398--111709498 Score: 89
Period size: 30 Copynumber: 3.2 Consensus size: 30
111709388 GACTTGAATG
111709398 CATGTTTGACTGTTACTATTTACTGCATGC
1 CATGTTTGACTGTTACTATTTACTGCATGC
* * * *
111709428 CATGTTATTATTATCTGA-TAAGGTTTACCTGAATG-
1 CATGTT-TGACTGT-T-ACT-A--TTTA-CTGCATGC
111709463 CATGTTTGACTGTTACTATTTACTGCATGC
1 CATGTTTGACTGTTACTATTTACTGCATGC
111709493 CATGTT
1 CATGTT
111709499 ATTATTATCT
Statistics
Matches: 54, Mismatches: 8, Indels: 18
0.68 0.10 0.22
Matches are distributed among these distances:
29 6 0.11
30 16 0.30
31 4 0.07
32 4 0.07
33 4 0.07
34 4 0.07
35 10 0.19
36 6 0.11
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.44
Consensus pattern (30 bp):
CATGTTTGACTGTTACTATTTACTGCATGC
Found at i:111709467 original size:35 final size:35
Alignment explanation
Indices: 111709363--111709468 Score: 91
Period size: 35 Copynumber: 3.2 Consensus size: 35
111709353 TACTGCATGT
* *
111709363 CATGTTATTATTATCTGATAAGGTTGACTTGAATG
1 CATGTTATTATTATCTGATAAGGTTTACCTGAATG
* * * *
111709398 CATGTT-TGACTGT-T-ACT-A--TTTA-CTGCATG
1 CATGTTATTATTATCTGA-TAAGGTTTACCTGAATG
111709427 CCATGTTATTATTATCTGATAAGGTTTACCTGAATG
1 -CATGTTATTATTATCTGATAAGGTTTACCTGAATG
111709463 CATGTT
1 CATGTT
111709469 TGACTGTTAC
Statistics
Matches: 52, Mismatches: 10, Indels: 18
0.65 0.12 0.22
Matches are distributed among these distances:
29 5 0.10
30 9 0.17
31 4 0.08
32 4 0.08
33 4 0.08
34 4 0.08
35 16 0.31
36 6 0.12
ACGTcount: A:0.25, C:0.13, G:0.18, T:0.43
Consensus pattern (35 bp):
CATGTTATTATTATCTGATAAGGTTTACCTGAATG
Found at i:111719807 original size:3 final size:3
Alignment explanation
Indices: 111719799--111719868 Score: 140
Period size: 3 Copynumber: 23.3 Consensus size: 3
111719789 GCTTTTTTAC
111719799 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
111719847 TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT T
111719869 TACTTTGTCA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:111724202 original size:46 final size:46
Alignment explanation
Indices: 111724135--111724227 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
111724125 ATAAGTTTTT
*
111724135 CCAACATAAAACATCGACATTAGAAAGTTGAAATTAAAAATACTCA
1 CCAACATAAAACATCGACATTAGAAAGTTGAAATTAAAAACACTCA
*
111724181 CCAACATAGAACATCGACATTAGAAAGTTGAAATTAAAAACACTCA
1 CCAACATAAAACATCGACATTAGAAAGTTGAAATTAAAAACACTCA
111724227 C
1 C
111724228 AGAATTTCGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.51, C:0.19, G:0.10, T:0.20
Consensus pattern (46 bp):
CCAACATAAAACATCGACATTAGAAAGTTGAAATTAAAAACACTCA
Found at i:111725725 original size:40 final size:40
Alignment explanation
Indices: 111725681--111725872 Score: 203
Period size: 40 Copynumber: 4.8 Consensus size: 40
111725671 GGATATAGCT
* *
111725681 ACTCGCTCAAATGCCTTCGGGACATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
111725721 ACTCGCACAAATGCCTTCGGGACTCAACCCGGATT-TAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTATAGTA
* *
111725761 ACTCGCACCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* * * * *
111725800 ACTCACACAAATGCCTTC-AGATCTTAGTCCGGATATAGTC
1 ACTCGCACAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTA
* *
111725840 ACTTAGCACAAAAGCCTTCGGGACTTAGCCCGG
1 AC-TCGCACAAATGCCTTCGGGACTTAGCCCGG
111725873 ATATCATTCA
Statistics
Matches: 125, Mismatches: 19, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
38 1 0.01
39 29 0.23
40 68 0.54
41 25 0.20
42 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:111725832 original size:79 final size:81
Alignment explanation
Indices: 111725669--111725873 Score: 231
Period size: 79 Copynumber: 2.6 Consensus size: 81
111725659 CGGAATTTAA
* * * *
111725669 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAA
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAA
*
111725732 TGCCTTCGGGACTCAAC
65 TGCCTTCGAGACTCAAC
* *
111725749 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCACACAAAT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAAT
* **
111725812 GCCTTC-AGATCTTAGT
66 GCCTTCGAGA-CTCAAC
* * *
111725828 CCGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
111725874 TATCATTCAA
Statistics
Matches: 105, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.02
79 47 0.45
80 45 0.43
81 11 0.10
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (81 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCACACAAAT
GCCTTCGAGACTCAAC
Found at i:111735103 original size:40 final size:39
Alignment explanation
Indices: 111735058--111735265 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
111735048 CGGAATACAA
*
111735058 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
111735098 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
111735138 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
111735178 CCGGATTTAGTCACTAGCATAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
* * * * *
111735218 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
111735258 CCGGATAT
1 CCGGATAT
111735266 CATTTAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:111735205 original size:80 final size:81
Alignment explanation
Indices: 111735058--111735263 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
111735048 CGGAATACAA
* * * *
111735058 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
111735122 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
111735138 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAG-TC-ACTAGCATAAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGA-TTAGAACGACTAGCACAAA
*
111735201 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
* * ** * *
111735218 CCGGATTTAACTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
111735264 ATCATTTAAT
Statistics
Matches: 109, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.01
80 104 0.95
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (81 bp):
CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:111738022 original size:40 final size:40
Alignment explanation
Indices: 111737961--111738144 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 40
111737951 TATTCGAATG
*
111737961 ATATCCGGGCTAAG-TCTCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGATC-CGAAGGCATTTATGCTAGTGACT
* * * *
111738001 ATATCCGGACTGAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * * *
111738041 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
* *
111738081 ATATTCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* *
111738121 ATATCCTGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
111738145 GTTGTGCGAG
Statistics
Matches: 119, Mismatches: 20, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
39 1 0.01
40 114 0.96
41 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:111738101 original size:80 final size:79
Alignment explanation
Indices: 111737961--111738180 Score: 230
Period size: 80 Copynumber: 2.8 Consensus size: 79
111737951 TATTCGAATG
* * * * * * *
111737961 ATATCCGGGCTAAGTCTCGAAGGCTTTTATGCTAGTGACTATATCCGGACTGAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATTCGGGCTAAG-TCCCGAAGGC
* *
111738025 ATTTGTGCGAGTTG-CT
64 ATTTATGCGAG-TGACC
*
111738041 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATTCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATTCGGGCTAAGTCCCGAAGGCA
*
111738106 TTTATGCTAGTGACC
65 TTTATGCGAGTGACC
* * * * * *
111738121 ATATCCTGGCTAAGACCCGAAGGCGTTGTGCGAGTGGTTATA-TCCGGCTAAATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATTCGGGCTAAGTCCCGAAG
111738181 ATACTTGGGT
Statistics
Matches: 119, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
78 16 0.13
79 17 0.14
80 86 0.72
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATTCGGGCTAAGTCCCGAAGGCAT
TTATGCGAGTGACC
Done.