Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 332 of 333
Found at i:107908502 original size:48 final size:48
Alignment explanation
Indices: 107908440--107908532 Score: 111
Period size: 46 Copynumber: 1.9 Consensus size: 48
107908430 AAAAAATAAA
* * *
107908440 ATTGAATAGTTGAGTGTCACCATTTTGTAACTTTT-CATAA-AAGAAATTT
1 ATTGAATAATTGAGTG--ACAATTTTATAA-TTTTCCATAATAAGAAATTT
107908489 ATTG-ATAATTGAGTGACAATTTTATAATTTTCCATAATAAGAAA
1 ATTGAATAATTGAGTGACAATTTTATAATTTTCCATAATAAGAAA
107908533 AACAAAACTA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
45 4 0.10
46 15 0.38
47 6 0.15
48 10 0.26
49 4 0.10
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.40
Consensus pattern (48 bp):
ATTGAATAATTGAGTGACAATTTTATAATTTTCCATAATAAGAAATTT
Found at i:107933410 original size:19 final size:21
Alignment explanation
Indices: 107933375--107933413 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
107933365 TTTTTAAGTG
107933375 ATGTCATGGTACAATCTAAGA
1 ATGTCATGGTACAATCTAAGA
107933396 ATGTCAT-GT-CAATCTAAG
1 ATGTCATGGTACAATCTAAG
107933414 CTCATGGATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 2 0.11
21 7 0.39
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (21 bp):
ATGTCATGGTACAATCTAAGA
Found at i:107934943 original size:15 final size:15
Alignment explanation
Indices: 107934923--107934953 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
107934913 CTTTATTTTA
*
107934923 TGATTTATGTATATT
1 TGATTTAGGTATATT
107934938 TGATTTAGGTATATT
1 TGATTTAGGTATATT
107934953 T
1 T
107934954 AAATAGGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.16, T:0.58
Consensus pattern (15 bp):
TGATTTAGGTATATT
Found at i:107947583 original size:21 final size:20
Alignment explanation
Indices: 107947557--107947604 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 20
107947547 AACTTATAAT
* *
107947557 AAATAATACATAGAATACTAA
1 AAATAATAAATAGAATA-AAA
107947578 AAATAAATAAATAGAATAAAA
1 AAAT-AATAAATAGAATAAAA
107947599 AAATAA
1 AAATAA
107947605 AAAAACAGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 10 0.42
22 12 0.50
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (20 bp):
AAATAATAAATAGAATAAAA
Found at i:107947605 original size:21 final size:22
Alignment explanation
Indices: 107947557--107947605 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
107947547 AACTTATAAT
* *
107947557 AAAT-AATACATAGAATACTAA
1 AAATAAATAAATAGAATACAAA
107947578 AAATAAATAAATAGAATA-AAA
1 AAATAAATAAATAGAATACAAA
107947599 AAATAAA
1 AAATAAA
107947606 AAAACAGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 13 0.52
22 12 0.48
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.20
Consensus pattern (22 bp):
AAATAAATAAATAGAATACAAA
Found at i:107955129 original size:125 final size:126
Alignment explanation
Indices: 107954940--107955707 Score: 1073
Period size: 125 Copynumber: 6.1 Consensus size: 126
107954930 ACTTTTTATT
*
107954940 TTTTTCTACAATAGTATCTAAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCGAAA
1 TTTTTCTACAGTAGTATCTAAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCGAAA
* * * * * *
107955005 ATGCTTCAAGTAGGATGTACTGTCAGCAAAATTACTGAAAAAAGCTCCTATGTGAACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* *
107955066 TTTTTCTACAATAGTATCT-AAAAAATAATTTTGAGAAGACGTTTTTGAACAAATAGTGTCGAAA
1 TTTTTCTACAGTAGTATCTAAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCGAAA
* *
107955130 ACGCTTCAAGCAGGATGCGCTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACACTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
*
107955191 TTTTTCTACAGTAGTATCTGAAAAAAATAATTTTGAG--GACGTTTTTGAACAAATAGTG-CGCA
1 TTTTTCTACAGTAGTATCT-AAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCG-A
* * * * * *
107955253 AAAGGCTTCAAGCAGGATGTACTATCAGCAAAATTACTGGAAAAAGCTCCCATGTGGACGATC
64 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * *
107955316 TTTTTCTAGAGTAGTATCT-TAAAAATAATTTTGAGAAGACGTTTCTGAACAATTAGTGTCCAAA
1 TTTTTCTACAGTAGTATCTAAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCGAAA
* * * * *
107955380 ACGCTTCAAGCTGGATGCAATGTCAGCAAAATTACTGAAAAAAGCTCTCACGTGGATGCTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * * * * * *
107955441 TTTTTCTATAGTAGTATCT-GAAAAATAATTTTGAAAAGACATTTATAAATAAATAATGTTC-AA
1 TTTTTCTACAGTAGTATCTAAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTG-TCGAA
* *
107955504 AATGCTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* *
107955566 TTTTTCTACAGTAGTATCTGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
1 TTTTTCTACAGTAGTATCTAAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCGAAA
* * *
107955631 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCTCAATGTGGACGGTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTC-CCACGTGGACGCTC
107955693 TTTTTCTACAGTAGT
1 TTTTTCTACAGTAGT
107955708 TCCTATTTGG
Statistics
Matches: 569, Mismatches: 63, Indels: 19
0.87 0.10 0.03
Matches are distributed among these distances:
123 15 0.03
124 2 0.00
125 408 0.72
126 102 0.18
127 42 0.07
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (126 bp):
TTTTTCTACAGTAGTATCTAAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCGAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:107958677 original size:9 final size:9
Alignment explanation
Indices: 107958654--107958683 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
107958644 ATTTATATTT
107958654 TATTAAAAA
1 TATTAAAAA
107958663 TA-TAAAAA
1 TATTAAAAA
107958671 TATTAAAAA
1 TATTAAAAA
107958680 TATT
1 TATT
107958684 GCCTTATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TATTAAAAA
Found at i:107958841 original size:136 final size:138
Alignment explanation
Indices: 107958665--107958945 Score: 467
Period size: 136 Copynumber: 2.0 Consensus size: 138
107958655 ATTAAAAATA
*
107958665 TAAAAATATTAAAAATATTGCCTTATTCAAAAAAACTTTTATTTTATTAAAAATATAAAATGTAA
1 TAAAAATATTAAAAATATTACCTTATTCAAAAAAACTTTTATTTTATTAAAAATATAAAATGTAA
** *
107958730 ATTACAATTAAAATATTAAAAGTAACTTTTATTTTATTAAATGAAACAATATAAAAA-AATGTAC
66 ATTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAATATAAAAACAATATAC
107958794 AAATATAT
131 AAATATAT
*
107958802 TAAAAATA-TAAAAATATTACCTTATTCAGAAAAACTTTTATTTTATTAAAAATATAAAATGTAA
1 TAAAAATATTAAAAATATTACCTTATTCAAAAAAACTTTTATTTTATTAAAAATATAAAATGTAA
* **
107958866 ATTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAATAATATAAAAACGTTTATA
66 ATTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAATATAAAAAC-AATATA
107958931 CAAATATAT
130 CAAATATAT
107958940 TAAAAA
1 TAAAAA
107958946 AATCAATGTT
Statistics
Matches: 134, Mismatches: 8, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
136 108 0.81
137 8 0.06
138 18 0.13
ACGTcount: A:0.54, C:0.06, G:0.03, T:0.37
Consensus pattern (138 bp):
TAAAAATATTAAAAATATTACCTTATTCAAAAAAACTTTTATTTTATTAAAAATATAAAATGTAA
ATTACAATTAAAATATTAAAAACAACTTTTATTTTATTAAATGAAACAATATAAAAACAATATAC
AAATATAT
Found at i:107959371 original size:18 final size:18
Alignment explanation
Indices: 107959329--107959372 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
107959319 GACTAGAAAA
* * *
107959329 AGGAAACATATAAGGGTT
1 AGGATACATATAAGAGCT
*
107959347 AGAATACATATAAGAGCT
1 AGGATACATATAAGAGCT
107959365 AGGATACA
1 AGGATACA
107959373 CACCTGGCAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.48, C:0.09, G:0.23, T:0.20
Consensus pattern (18 bp):
AGGATACATATAAGAGCT
Found at i:107961655 original size:49 final size:49
Alignment explanation
Indices: 107961602--107961699 Score: 160
Period size: 49 Copynumber: 2.0 Consensus size: 49
107961592 CACATTTGAC
* *
107961602 ATGTGGGCGGCTATCCAATAATTATTTTAATGGTAAATTATTATTTGTT
1 ATGTGGGCCGCTATCCAATAATTATTTTAATGGTAAATTACTATTTGTT
**
107961651 ATGTGGGCCGCTATCCAATAATTATTTTTGTGGTAAATTACTATTTGTT
1 ATGTGGGCCGCTATCCAATAATTATTTTAATGGTAAATTACTATTTGTT
107961700 GGACACATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.45
Consensus pattern (49 bp):
ATGTGGGCCGCTATCCAATAATTATTTTAATGGTAAATTACTATTTGTT
Found at i:107961740 original size:63 final size:64
Alignment explanation
Indices: 107961668--107961817 Score: 225
Period size: 63 Copynumber: 2.4 Consensus size: 64
107961658 CCGCTATCCA
* *
107961668 ATAATTATTTTTGTGGTAAATTACTATTTGTTGGACACATTTGACACAT-AGTGGCTATTCAAT
1 ATAATTATTTTAGTGGTAAATTACTACTTGTTGGACACATTTGACACATGAGTGGCTATTCAAT
*
107961731 ATAATTATTTTAGTGGTAAATTACTACTTGTTGGACACATTTGACACATGGGTGGCTATTC-A-
1 ATAATTATTTTAGTGGTAAATTACTACTTGTTGGACACATTTGACACATGAGTGGCTATTCAAT
* * *
107961793 ATAATTATTATAGAGGTAACTTACT
1 ATAATTATTTTAGTGGTAAATTACT
107961818 TTTTGCTCTT
Statistics
Matches: 80, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
62 22 0.28
63 48 0.60
64 10 0.12
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (64 bp):
ATAATTATTTTAGTGGTAAATTACTACTTGTTGGACACATTTGACACATGAGTGGCTATTCAAT
Found at i:107992719 original size:16 final size:18
Alignment explanation
Indices: 107992700--107992739 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
107992690 ATTTTTTTGA
*
107992700 ATTTA-AATTTTTTAA-T
1 ATTTATAATTTTTAAATT
107992716 ATTTATAATTTTTAAATT
1 ATTTATAATTTTTAAATT
107992734 ATTTAT
1 ATTTAT
107992740 TGATGTGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.24
17 9 0.43
18 7 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTATAATTTTTAAATT
Found at i:107999033 original size:13 final size:14
Alignment explanation
Indices: 107999017--107999052 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
107999007 CAATCTCATA
107999017 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
107999030 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
107999043 TCTC-ATTTCA
1 TCTCAATTTCA
107999053 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:107999042 original size:18 final size:19
Alignment explanation
Indices: 107999004--107999044 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
107998994 TGGTTCATGT
107999004 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
107999023 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
107999041 TTTC
1 TTTC
107999045 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:107999567 original size:18 final size:19
Alignment explanation
Indices: 107999541--107999579 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
107999531 TTTCAATTCA
107999541 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
107999560 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
107999578 AT
1 AT
107999580 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:108000911 original size:5 final size:5
Alignment explanation
Indices: 108000901--108000957 Score: 62
Period size: 5 Copynumber: 11.0 Consensus size: 5
108000891 TTACTTATTT
* *
108000901 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
108000949 ATAT- ATATA
1 ATATA ATATA
108000958 TTTTAACACA
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 7 0.16
7 4 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:108000917 original size:12 final size:12
Alignment explanation
Indices: 108000900--108000955 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
108000890 TTTACTTATT
108000900 TATATAATATAA
1 TATATAATATAA
108000912 TATATAATATAATA
1 TATATAATAT-A-A
108000926 TACTATAATATAA
1 TA-TATAATATAA
*
108000939 TA-ATAATTTAA
1 TATATAATATAA
108000950 TATATA
1 TATATA
108000956 TATTTTAACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:108000970 original size:26 final size:26
Alignment explanation
Indices: 108000902--108000957 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
108000892 TACTTATTTA
*
108000902 TATAATATAATATATAATATAATATAC
1 TATAATATAACA-ATAATATAATATAC
* *
108000929 TATAATATAATAATAATTTAATATA-
1 TATAATATAACAATAATATAATATAC
108000954 TATA
1 TATA
108000958 TTTTAACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
25 4 0.14
26 12 0.43
27 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (26 bp):
TATAATATAACAATAATATAATATAC
Found at i:108005040 original size:188 final size:189
Alignment explanation
Indices: 108004711--108005079 Score: 530
Period size: 188 Copynumber: 2.0 Consensus size: 189
108004701 TCCCGAACCG
* * ** *
108004711 TGGAACTGGAATGTGTATTTGTTTCCTCTTTGGTGGTGTGGTGTGGTAATCCGATACTTGATTTT
1 TGGAACTGAAATGTGTATTTGCTTCCTCTCCGGTGGTGTGGTGTGGTAACCCGATACTTGATTTT
*
108004776 ATTCCCTGTGAGGTTAGCTATTGAACTTCTCGAAAGTAACATTGAATTGTTTGATGCATGATGGT
66 ATTCCCTGTGAGGTTAGCCATTGAACTTCTCGAAAGTAACATTGAATTGTTTGATGCATGATGGT
* **
108004841 TAATGTTTGAATGAAAGTTTTACTTTATGTTAGTTTTTGAGGTTAGTTAGGTATTGTATTA
131 TAATCTTTGAATGAAAG-TTTACTTTATGTTAG-TTTCAAGGTTAGTTAGGTATTGTATTA
**
108004902 TGGAACTGAAATGTGTATTTGCTTCCTCTCCGGT-GT-T-GTGTGGTAACCCTTTACTTGATTTT
1 TGGAACTGAAATGTGTATTTGCTTCCTCTCCGGTGGTGTGGTGTGGTAACCCGATACTTGATTTT
* * * *
108004964 ATTCCCTGTGAGGTTAGCCATTGAACTTTTC-ATAAGTAACATTGCATTTTTTGATGCATGTTGG
66 ATTCCCTGTGAGGTTAGCCATTGAACTTCTCGA-AAGTAACATTGAATTGTTTGATGCATGATGG
* *
108005028 TTCATCTTTGAATGAAAGTTTACTTTATGTTTGTTTCAAGGTTAGTTAGGTA
130 TTAATCTTTGAATGAAAGTTTACTTTATGTTAGTTTCAAGGTTAGTTAGGTA
108005080 GTATCTCATA
Statistics
Matches: 160, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
186 17 0.11
187 15 0.09
188 95 0.59
189 1 0.01
190 2 0.01
191 30 0.19
ACGTcount: A:0.22, C:0.11, G:0.23, T:0.44
Consensus pattern (189 bp):
TGGAACTGAAATGTGTATTTGCTTCCTCTCCGGTGGTGTGGTGTGGTAACCCGATACTTGATTTT
ATTCCCTGTGAGGTTAGCCATTGAACTTCTCGAAAGTAACATTGAATTGTTTGATGCATGATGGT
TAATCTTTGAATGAAAGTTTACTTTATGTTAGTTTCAAGGTTAGTTAGGTATTGTATTA
Found at i:108005247 original size:158 final size:158
Alignment explanation
Indices: 108004939--108005252 Score: 452
Period size: 158 Copynumber: 2.0 Consensus size: 158
108004929 CTCCGGTGTT
** * * *
108004939 GTGTGGTAACCCTTTACTTGATTTTATTCCCTGTGAGGTTAGCCATTGAACTTTTCATAAGTAAC
1 GTGTGGTAACCCGGTACTTGATTTTATTCCCTGTGAGGTCAGCCATTGAACTTCTCAAAAGTAAC
* * **
108005004 ATTGCATTTTTTGATGCATGTTGGTTCATCTTTGAATGAAAGTTTACTTTATGTTTGTTTCAAGG
66 ATTGCATTTTTTAATGCATGATGGTTCATCTTTGAATGAAAGTTTACTTTATGTTCATTTCAAGG
*
108005069 TTAGTTAGGTAGTATCTCATA-GTTGTG
131 TTAGTTAGGTAGTATATCATATGTTGTG
* *
108005096 GTGTGGTAATCCGGTACTTGATTTTATTCTCTGTGAGGGTCAGCCATTGAACTTCTCAAAAGTAA
1 GTGTGGTAACCCGGTACTTGATTTTATTCCCTGTGA-GGTCAGCCATTGAACTTCTCAAAAGTAA
* * *
108005161 CATTGCATTTTTTAATGCATGATGTTTCATGTTTGAATG-AAGTTTACTTTATGTTCATTTTAGA
65 CATTGCATTTTTTAATGCATGATGGTTCATCTTTGAATGAAAGTTTACTTTATGTTCATTTCA-A
*
108005225 GGTTAGTTAGGTAGTGTATCATATGTTG
129 GGTTAGTTAGGTAGTATATCATATGTTG
108005253 AAATACTCAT
Statistics
Matches: 138, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
157 52 0.38
158 82 0.59
159 4 0.03
ACGTcount: A:0.23, C:0.12, G:0.21, T:0.44
Consensus pattern (158 bp):
GTGTGGTAACCCGGTACTTGATTTTATTCCCTGTGAGGTCAGCCATTGAACTTCTCAAAAGTAAC
ATTGCATTTTTTAATGCATGATGGTTCATCTTTGAATGAAAGTTTACTTTATGTTCATTTCAAGG
TTAGTTAGGTAGTATATCATATGTTGTG
Found at i:108011975 original size:31 final size:31
Alignment explanation
Indices: 108011917--108012000 Score: 127
Period size: 31 Copynumber: 2.8 Consensus size: 31
108011907 AAGTTGTGGA
*
108011917 TTTAGTCTTTGTAC-TTT-AATTTGGTCAAT
1 TTTAGTCTTTGTACTTTTCAAATTGGTCAAT
*
108011946 TTTAATCTTTGTACTTTTCAAATTGGTCAAT
1 TTTAGTCTTTGTACTTTTCAAATTGGTCAAT
*
108011977 TTTAGTCATTGTACTTTTCAAATT
1 TTTAGTCTTTGTACTTTTCAAATT
108012001 CGTTTAGTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 13 0.27
30 3 0.06
31 33 0.67
ACGTcount: A:0.24, C:0.12, G:0.11, T:0.54
Consensus pattern (31 bp):
TTTAGTCTTTGTACTTTTCAAATTGGTCAAT
Found at i:108017310 original size:16 final size:17
Alignment explanation
Indices: 108017289--108017320 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
108017279 TTCTTTGTTC
108017289 TTTTTTT-CTTC-ATCT
1 TTTTTTTGCTTCTATCT
108017304 TTTTTTTGCTTCTATCT
1 TTTTTTTGCTTCTATCT
108017321 GGTTTCATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.06, C:0.19, G:0.03, T:0.72
Consensus pattern (17 bp):
TTTTTTTGCTTCTATCT
Found at i:108020672 original size:9 final size:9
Alignment explanation
Indices: 108020654--108020730 Score: 100
Period size: 9 Copynumber: 8.2 Consensus size: 9
108020644 AGTATAAAAG
108020654 TAACCGAAT
1 TAACCGAAT
*
108020663 TAATCGAAT
1 TAACCGAAT
108020672 TAACCGAAT
1 TAACCGAAT
108020681 TAACCGAAT
1 TAACCGAAT
*
108020690 TAATCGAAT
1 TAACCGAAT
108020699 TAACCGCCGAAT
1 TAA---CCGAAT
*
108020711 TACCCGAAT
1 TAACCGAAT
108020720 TAACCGAAT
1 TAACCGAAT
108020729 TA
1 TA
108020731 TTTGTATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
9 52 0.88
12 7 0.12
ACGTcount: A:0.42, C:0.22, G:0.12, T:0.25
Consensus pattern (9 bp):
TAACCGAAT
Found at i:108020773 original size:20 final size:20
Alignment explanation
Indices: 108020742--108020804 Score: 74
Period size: 20 Copynumber: 3.0 Consensus size: 20
108020732 TTGTATAAAA
*
108020742 TTATATTTTTTATATTTT-TAT
1 TTATA-TTTTTAT-TTTTACAT
108020763 TTATATTTTTATTTTTACAT
1 TTATATTTTTATTTTTACAT
*
108020783 TTTTATTTTTATTTATTACAT
1 TTATATTTTTATTT-TTACAT
108020804 T
1 T
108020805 ATTTGTAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.11
20 22 0.58
21 12 0.32
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (20 bp):
TTATATTTTTATTTTTACAT
Found at i:108020777 original size:6 final size:6
Alignment explanation
Indices: 108020749--108020796 Score: 60
Period size: 6 Copynumber: 7.5 Consensus size: 6
108020739 AAATTATATT
*
108020749 TTTTATA TTTTTA TTTATA TTTTTA TTTTTACA TTTTTA TTTTTA TTT
1 TTTT-TA TTTTTA TTTTTA TTTTTA TTTTT--A TTTTTA TTTTTA TTT
108020797 ATTACATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
6 27 0.73
7 4 0.11
8 6 0.16
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:108020784 original size:14 final size:14
Alignment explanation
Indices: 108020748--108020794 Score: 71
Period size: 14 Copynumber: 3.5 Consensus size: 14
108020738 AAAATTATAT
108020748 TTTTTATATTTTTA
1 TTTTTATATTTTTA
108020762 --TTTATATTTTTA
1 TTTTTATATTTTTA
*
108020774 TTTTTACATTTTTA
1 TTTTTATATTTTTA
108020788 TTTTTAT
1 TTTTTAT
108020795 TTATTACATT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 12 0.41
14 17 0.59
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTATATTTTTA
Found at i:108020807 original size:32 final size:31
Alignment explanation
Indices: 108020749--108020819 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 31
108020739 AAATTATATT
** *
108020749 TTTTATATTTTTATTTATATTTTTATTTTTACA
1 TTTT-TATTTTTATTTATATCATTATTTGTA-A
108020782 TTTTTATTTTTATTTAT-TACATTATTTGTAA
1 TTTTTATTTTTATTTATAT-CATTATTTGTAA
108020813 TTTTTAT
1 TTTTTAT
108020820 GATTAGGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 9 0.26
32 21 0.62
33 4 0.12
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (31 bp):
TTTTTATTTTTATTTATATCATTATTTGTAA
Found at i:108022524 original size:53 final size:54
Alignment explanation
Indices: 108022463--108022575 Score: 203
Period size: 54 Copynumber: 2.1 Consensus size: 54
108022453 TAGAAAAAAA
*
108022463 AAAT-TTCTTTATGATTTTTTT-GGGTTTATTTTTTAATCTTTGGTATTTAGAG
1 AAATATTCTTGATGATTTTTTTGGGGTTTATTTTTTAATCTTTGGTATTTAGAG
108022515 AAATATTCTTGATGATTTTTTTGGGGTTTATTTTTTAATCTTTGGTATTTAGAG
1 AAATATTCTTGATGATTTTTTTGGGGTTTATTTTTTAATCTTTGGTATTTAGAG
108022569 AAATATT
1 AAATATT
108022576 GAAAACGGTG
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
52 4 0.07
53 16 0.28
54 38 0.66
ACGTcount: A:0.24, C:0.04, G:0.16, T:0.57
Consensus pattern (54 bp):
AAATATTCTTGATGATTTTTTTGGGGTTTATTTTTTAATCTTTGGTATTTAGAG
Found at i:108025844 original size:7 final size:7
Alignment explanation
Indices: 108025832--108025861 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
108025822 CATGTTATTT
108025832 TTTTGAA
1 TTTTGAA
108025839 TTTTGAA
1 TTTTGAA
108025846 TTTTGAA
1 TTTTGAA
108025853 TTTTTGAA
1 -TTTTGAA
108025861 T
1 T
108025862 ATTTATCATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (7 bp):
TTTTGAA
Found at i:108025851 original size:14 final size:15
Alignment explanation
Indices: 108025832--108025861 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
108025822 CATGTTATTT
108025832 TTTTGAA-TTTTGAA
1 TTTTGAATTTTTGAA
108025846 TTTTGAATTTTTGAA
1 TTTTGAATTTTTGAA
108025861 T
1 T
108025862 ATTTATCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (15 bp):
TTTTGAATTTTTGAA
Found at i:108028613 original size:16 final size:16
Alignment explanation
Indices: 108028594--108028628 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
108028584 TTTATCTTTG
* *
108028594 ATTGATATAGTCTTCA
1 ATTGAAATAATCTTCA
108028610 ATTGAAATAATCTTCA
1 ATTGAAATAATCTTCA
108028626 ATT
1 ATT
108028629 CTGAATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (16 bp):
ATTGAAATAATCTTCA
Found at i:108042842 original size:106 final size:106
Alignment explanation
Indices: 108042657--108043031 Score: 412
Period size: 106 Copynumber: 3.5 Consensus size: 106
108042647 CGTTTACCAT
*
108042657 ATGAGACATTGTAACATTGTAGTATGCACTCTGCATATTGAATTTTAGGACATGTTTTTATCGAT
1 ATGAGACATTGTAACATTGTAGCATGCACTCTGCATATTGAATTTTAGGACATGTTTTTATCGAT
* * *
108042722 AAAAGTTCTCGAACCCAACCGAAGCAATCGGAATGAACATC
66 AAAAGTCCTCGAACCGAACCGAAACAATCGGAATGAACATC
* * * *
108042763 ATGAGACATTGTAACATTGTAGTATGCACTTTGCATATTGAATTTTAGGGCATGTTTTTATTGAT
1 ATGAGACATTGTAACATTGTAGCATGCACTCTGCATATTGAATTTTAGGACATGTTTTTATCGAT
* * ** *
108042828 AGAAGTCCTGGAACCGAAAGGAAACAATCGGAATAAAC-TGC
66 AAAAGTCCTCGAACCGAACCGAAACAATCGGAATGAACAT-C
** * * * * * * * * *
108042869 ATGATTCATCGTAACATCGAAGCATGCACTCTGCATATTG-ATTTTGGGATATCTTTTCATCCAC
1 ATGAGACATTGTAACATTGTAGCATGCACTCTGCATATTGAATTTTAGGACATGTTTTTATCGAT
* * * * *
108042933 AAAAGTCCTCGAACGGAACCGAAACAATAGTAAAGCACATC
66 AAAAGTCCTCGAACCGAACCGAAACAATCGGAATGAACATC
* * ** * *
108042974 ATGAGTCATAGTAACATTACAGCCTGCAATCTGCATATTGAATTTTAGGACATGTTTT
1 ATGAGACATTGTAACATTGTAGCATGCACTCTGCATATTGAATTTTAGGACATGTTTT
108043032 GGATTCTGTA
Statistics
Matches: 220, Mismatches: 46, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
105 79 0.36
106 141 0.64
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (106 bp):
ATGAGACATTGTAACATTGTAGCATGCACTCTGCATATTGAATTTTAGGACATGTTTTTATCGAT
AAAAGTCCTCGAACCGAACCGAAACAATCGGAATGAACATC
Found at i:108053074 original size:31 final size:31
Alignment explanation
Indices: 108053034--108053116 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 31
108053024 ATAAATATCA
* *
108053034 AATTT-ATACATAAACTTTGATCTATTTTAT
1 AATTTGATACATGAACTTTGATCTAATTTAT
*
108053064 AATTTGATACATGAACTTTGATCTAATTTGT
1 AATTTGATACATGAACTTTGATCTAATTTAT
108053095 AATTTGATACATGAACTTTGAT
1 AATTTGATACATGAACTTTGAT
108053117 TTGGTACAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.46
Consensus pattern (31 bp):
AATTTGATACATGAACTTTGATCTAATTTAT
Found at i:108055860 original size:29 final size:31
Alignment explanation
Indices: 108055802--108055860 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
108055792 TACATCTCTA
* *
108055802 AATTATTAACATTATATTAATTAAGTCATTC
1 AATTATTAACAATATATTAATTAAGCCATTC
108055833 AATTATTAA-AAT-TATTAATTTAA-CCATT
1 AATTATTAACAATATATTAA-TTAAGCCATT
108055861 AAATGAAACG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 10 0.40
30 6 0.24
31 9 0.36
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (31 bp):
AATTATTAACAATATATTAATTAAGCCATTC
Found at i:108079267 original size:19 final size:18
Alignment explanation
Indices: 108079236--108079272 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
108079226 TAAAATCACG
*
108079236 AAATTTAATATAAATTTA
1 AAATATAATATAAATTTA
108079254 AAATATAATGATAAATTTA
1 AAATATAAT-ATAAATTTA
108079273 TCTCTAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
AAATATAATATAAATTTA
Found at i:108107128 original size:25 final size:25
Alignment explanation
Indices: 108107091--108107138 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
108107081 GTACACGCCA
*
108107091 GTTTTTAACTATACAAATAGATGGC
1 GTTTTTAAATATACAAATAGATGGC
*
108107116 GTTTTTAAATATACAAATGGATG
1 GTTTTTAAATATACAAATAGATG
108107139 AAAGTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (25 bp):
GTTTTTAAATATACAAATAGATGGC
Found at i:108107145 original size:26 final size:25
Alignment explanation
Indices: 108107090--108107146 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
108107080 CGTACACGCC
* *
108107090 AGTTTTTAACTATACAAATAGATGG
1 AGTTTTTAAATATACAAATAGATGA
* *
108107115 CGTTTTTAAATATACAAATGGATGAA
1 AGTTTTTAAATATACAAATAGATG-A
108107141 AGTTTT
1 AGTTTT
108107147 AATAGAAAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.39
Consensus pattern (25 bp):
AGTTTTTAAATATACAAATAGATGA
Found at i:108109735 original size:13 final size:13
Alignment explanation
Indices: 108109717--108109746 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
108109707 ATAAAAGGAA
*
108109717 AAATTTAGATACC
1 AAATTTAAATACC
108109730 AAATTTAAATACC
1 AAATTTAAATACC
108109743 AAAT
1 AAAT
108109747 GATATAGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.13, G:0.03, T:0.30
Consensus pattern (13 bp):
AAATTTAAATACC
Found at i:108126673 original size:4 final size:4
Alignment explanation
Indices: 108126666--108126713 Score: 69
Period size: 4 Copynumber: 12.0 Consensus size: 4
108126656 CAGTCAGTCA
* * *
108126666 GTAT GTAT GTAT GTAT GTAT GTAT GTAT ATAT GCAT GTAC GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
108126714 TACCTTGTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 38 1.00
ACGTcount: A:0.27, C:0.04, G:0.23, T:0.46
Consensus pattern (4 bp):
GTAT
Found at i:108130910 original size:15 final size:15
Alignment explanation
Indices: 108130892--108130935 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
108130882 CATCAAAATA
*
108130892 ATCATCATCATCTCC
1 ATCATCATCACCTCC
108130907 ATCATCATCACCTCC
1 ATCATCATCACCTCC
108130922 ATC-TC--CACCTCC
1 ATCATCATCACCTCC
108130934 AT
1 AT
108130936 GATTAATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 9 0.32
14 2 0.07
15 17 0.61
ACGTcount: A:0.25, C:0.45, G:0.00, T:0.30
Consensus pattern (15 bp):
ATCATCATCACCTCC
Found at i:108133492 original size:21 final size:21
Alignment explanation
Indices: 108133468--108133509 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
108133458 CCATTTAAAA
108133468 AACTGCAATTTCACTAAATTT
1 AACTGCAATTTCACTAAATTT
108133489 AACTGCAATTTCACTAAATTT
1 AACTGCAATTTCACTAAATTT
108133510 TGGAAATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (21 bp):
AACTGCAATTTCACTAAATTT
Found at i:108141088 original size:30 final size:29
Alignment explanation
Indices: 108141052--108141111 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 29
108141042 AATACATTAA
* *
108141052 ACTATTTAAAATTTTTATTTAAGTCAATAG
1 ACTATTTAAAATTTGTATATAAGTC-ATAG
*
108141082 ACTATTTGAAATTTGTATATAAGTCATAG
1 ACTATTTAAAATTTGTATATAAGTCATAG
108141111 A
1 A
108141112 GTTGTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (29 bp):
ACTATTTAAAATTTGTATATAAGTCATAG
Found at i:108141752 original size:25 final size:24
Alignment explanation
Indices: 108141708--108141763 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
108141698 ATTTAATTCT
*
108141708 AATTATAATTAATGGTGTAATTATA
1 AATTATAATTAATGGAGTAATT-TA
**
108141733 AATTATAATTCTTGGAGTAATTTA
1 AATTATAATTAATGGAGTAATTTA
*
108141757 TATTATA
1 AATTATA
108141764 CACATCCAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 8 0.30
25 19 0.70
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.46
Consensus pattern (24 bp):
AATTATAATTAATGGAGTAATTTA
Found at i:108148936 original size:109 final size:109
Alignment explanation
Indices: 108148800--108149061 Score: 463
Period size: 109 Copynumber: 2.4 Consensus size: 109
108148790 GGAATTAGTG
*
108148800 GCCGACCAATATGCATGGATTAATGACTTGAATTATTTATTATGTTTTATGGCATTATGGTATAC
1 GCCGACCAATATGCATGGATTAATGACTTGAATTATTTATTATATTTTATGGCATTATGGTATAC
* *
108148865 TTTAATATATGTTAATATATTATATTTAATAAAAGATGAAAGTA
66 TTTAATATATATTAATATATTATAATTAATAAAAGATGAAAGTA
*
108148909 GCCGACCAATATGCATAGATTAATGACTTGAATTATTTATTATATTTTATGGCATTATGGTATAC
1 GCCGACCAATATGCATGGATTAATGACTTGAATTATTTATTATATTTTATGGCATTATGGTATAC
108148974 TTTAATATATATTAATATATTATAATTAATAAAAGATGAAAGTA
66 TTTAATATATATTAATATATTATAATTAATAAAAGATGAAAGTA
* *
108149018 GCCGA-GAATATGCATGGATTAATGACTTGAATTGTTTATTATAT
1 GCCGACCAATATGCATGGATTAATGACTTGAATTATTTATTATAT
108149062 ATGTTAATAT
Statistics
Matches: 146, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
108 36 0.25
109 110 0.75
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (109 bp):
GCCGACCAATATGCATGGATTAATGACTTGAATTATTTATTATATTTTATGGCATTATGGTATAC
TTTAATATATATTAATATATTATAATTAATAAAAGATGAAAGTA
Found at i:108151053 original size:16 final size:16
Alignment explanation
Indices: 108151032--108151105 Score: 78
Period size: 16 Copynumber: 4.6 Consensus size: 16
108151022 GTTTGGTTCA
108151032 CTGTAATAGAATA-AGG
1 CTGTAATAGAATAGA-G
*
108151048 CTGTAATTGAATAGAG
1 CTGTAATAGAATAGAG
* * *
108151064 TTGTAATATAATAGAA
1 CTGTAATAGAATAGAG
108151080 CTGTAATAGAATAGATG
1 CTGTAATAGAATAGA-G
*
108151097 TTGTAATAG
1 CTGTAATAG
108151106 CATAACAAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
16 38 0.81
17 9 0.19
ACGTcount: A:0.42, C:0.04, G:0.22, T:0.32
Consensus pattern (16 bp):
CTGTAATAGAATAGAG
Found at i:108151069 original size:32 final size:34
Alignment explanation
Indices: 108151033--108151110 Score: 99
Period size: 32 Copynumber: 2.4 Consensus size: 34
108151023 TTTGGTTCAC
* *
108151033 TGTAATAGAATAAG-GCTGTAATTGAATAGA-GT
1 TGTAATAGAATAAGAACTGTAATAGAATAGATGT
*
108151065 TGTAATATAAT-AGAACTGTAATAGAATAGATGT
1 TGTAATAGAATAAGAACTGTAATAGAATAGATGT
*
108151098 TGTAATAGCATAA
1 TGTAATAGAATAA
108151111 CAAAAAATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
31 2 0.05
32 24 0.63
33 11 0.29
34 1 0.03
ACGTcount: A:0.44, C:0.04, G:0.21, T:0.32
Consensus pattern (34 bp):
TGTAATAGAATAAGAACTGTAATAGAATAGATGT
Found at i:108151346 original size:23 final size:21
Alignment explanation
Indices: 108151320--108151363 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
108151310 TATTATATGA
108151320 ATTAAAAAATCATAATATATAAT
1 ATTAAAAAA--ATAATATATAAT
*
108151343 ATTATAAAAATAATATATAAT
1 ATTAAAAAAATAATATATAAT
108151364 CTACTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 12 0.60
23 8 0.40
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
ATTAAAAAAATAATATATAAT
Found at i:108158449 original size:30 final size:27
Alignment explanation
Indices: 108158415--108158474 Score: 75
Period size: 30 Copynumber: 2.1 Consensus size: 27
108158405 TATGAACTAT
*
108158415 AATTAAAATTTAATGTATATAATTATATCA
1 AATTAAAA-TTAATGT-TATAATT-TATAA
*
108158445 AATTAAAATTATTGTTATAATTTATAA
1 AATTAAAATTAATGTTATAATTTATAA
108158472 AAT
1 AAT
108158475 GAAGGTTGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 7 0.25
28 7 0.25
29 6 0.21
30 8 0.29
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (27 bp):
AATTAAAATTAATGTTATAATTTATAA
Found at i:108159100 original size:31 final size:31
Alignment explanation
Indices: 108159047--108159109 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
108159037 GACAATTTGA
* * *
108159047 TTTTTTTGAAAGATTGATAGTTAAATATAAC
1 TTTTTTTAAAAGATCGAGAGTTAAATATAAC
* *
108159078 TTTTTTTAAAATATCGAGAGTTAAATTTAAC
1 TTTTTTTAAAAGATCGAGAGTTAAATATAAC
108159109 T
1 T
108159110 AAAAAGAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.46
Consensus pattern (31 bp):
TTTTTTTAAAAGATCGAGAGTTAAATATAAC
Found at i:108166508 original size:42 final size:42
Alignment explanation
Indices: 108166445--108166608 Score: 195
Period size: 42 Copynumber: 3.7 Consensus size: 42
108166435 CTTCGTTTTC
** *
108166445 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACAT-A
* *
108166488 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
108166529 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT--C-T-TCACATA
*
108166578 TCGATGCCATAGCCCAGCTATGGTCGTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
108166609 GAATCACATA
Statistics
Matches: 105, Mismatches: 8, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
41 2 0.02
42 63 0.60
43 1 0.01
45 2 0.02
48 1 0.01
49 36 0.34
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
Found at i:108166588 original size:49 final size:49
Alignment explanation
Indices: 108166515--108166698 Score: 182
Period size: 49 Copynumber: 3.8 Consensus size: 49
108166505 TATGGTCTTA
* *
108166515 CACATATTCATATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGATATGGTCTTACACGTAAT
* *
108166565 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCGTACACG-AAT
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACACGTAAT
* * * * * *
108166613 CACATATCTCAT-T-GATGTCATATCCTAGATATGGTCTTATACAGT-AG
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACAC-GTAAT
* * * *
108166660 CATATATCAC--ACCGATGCCATATCCCAAATATGGTCTTA
1 CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTA
108166699 TACGGAAATC
Statistics
Matches: 114, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
46 23 0.20
47 34 0.30
48 14 0.12
49 37 0.32
50 6 0.05
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (49 bp):
CACATATCACATATCGATGCCATAGCCCAGATATGGTCTTACACGTAAT
Found at i:108166763 original size:31 final size:31
Alignment explanation
Indices: 108166720--108166868 Score: 217
Period size: 31 Copynumber: 4.8 Consensus size: 31
108166710 CTTGTCACTT
* *
108166720 GTAGCCGAAGCTACCACTATTCACGGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
108166751 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * * *
108166782 GTAACCGGAGCTACCACTTTTCACTGATTAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
108166813 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
108166844 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
108166869 TGTCATTTGT
Statistics
Matches: 104, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 104 1.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:108166953 original size:50 final size:51
Alignment explanation
Indices: 108166848--108166972 Score: 198
Period size: 50 Copynumber: 2.5 Consensus size: 51
108166838 GATCAGGTAG
* * * *
108166848 CCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGTGTAG
1 CCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGTGTAA
*
108166899 CCGAAGCTATCACTTATCACTT-TCACTTGTCTTTGATCAGATAAGTGTAA
1 CCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGTGTAA
108166949 CCGAAGCTATCACTTATCACTTGT
1 CCGAAGCTATCACTTATCACTTGT
108166973 GCCATGGTCC
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
50 47 0.69
51 21 0.31
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (51 bp):
CCGAAGCTATCACTTATCACTTGTCACTTGTCCTTGATCAGATAAGTGTAA
Found at i:108170506 original size:12 final size:12
Alignment explanation
Indices: 108170485--108170512 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
108170475 TTTTTTAACA
108170485 TTTAATTTATCT
1 TTTAATTTATCT
108170497 TTTAATTTATCT
1 TTTAATTTATCT
108170509 TTTA
1 TTTA
108170513 TTTTTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTAATTTATCT
Found at i:108172123 original size:20 final size:20
Alignment explanation
Indices: 108172098--108172137 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
108172088 GTACAAAACA
* *
108172098 TATTTTCAATTTAATCCATG
1 TATTTTAAATATAATCCATG
*
108172118 TATTTTAAATATAATTCATG
1 TATTTTAAATATAATCCATG
108172138 CTAGATTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (20 bp):
TATTTTAAATATAATCCATG
Found at i:108179214 original size:12 final size:12
Alignment explanation
Indices: 108179193--108179238 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
108179183 TTGCTGTATA
*
108179193 TACATACATAGG
1 TACATACATACG
*
108179205 TACGTACATACG
1 TACATACATACG
*
108179217 TACATACATACA
1 TACATACATACG
*
108179229 TATATACATA
1 TACATACATA
108179239 TGTGTCTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.28
Consensus pattern (12 bp):
TACATACATACG
Found at i:108189328 original size:21 final size:20
Alignment explanation
Indices: 108189304--108189355 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
108189294 TTATGCCACA
*
108189304 TCAGTATTCTTTTCCTAAATT
1 TCAGTATT-TTATCCTAAATT
* *
108189325 TCAGAATTTTATCCTCAATT
1 TCAGTATTTTATCCTAAATT
108189345 TCAGTATTTTA
1 TCAGTATTTTA
108189356 ATTTAGATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 20 0.74
21 7 0.26
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.50
Consensus pattern (20 bp):
TCAGTATTTTATCCTAAATT
Found at i:108190126 original size:15 final size:14
Alignment explanation
Indices: 108190080--108190126 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
108190070 TGGTATAATA
108190080 TTAT-ATTTAATTT
1 TTATCATTTAATTT
*
108190093 TTAACATTTATATTT
1 TTATCATTTA-ATTT
*
108190108 TTATCAATTTAATTC
1 TTATC-ATTTAATTT
108190123 TTAT
1 TTAT
108190127 TTTCTTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 3 0.11
14 5 0.18
15 15 0.54
16 5 0.18
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (14 bp):
TTATCATTTAATTT
Found at i:108196948 original size:32 final size:32
Alignment explanation
Indices: 108196912--108196976 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
108196902 ATACAACATA
108196912 AAAAAAAAGTGTTTTAATTCAAAGATTTGTAC
1 AAAAAAAAGTGTTTTAATTCAAAGATTTGTAC
*
108196944 AAAAAAAAGTGTTTTAATTCAAAGATTTTTAC
1 AAAAAAAAGTGTTTTAATTCAAAGATTTGTAC
108196976 A
1 A
108196977 TCTTTATTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.35
Consensus pattern (32 bp):
AAAAAAAAGTGTTTTAATTCAAAGATTTGTAC
Found at i:108203355 original size:54 final size:53
Alignment explanation
Indices: 108203260--108203372 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 53
108203250 TTTCTTTTTC
* * *
108203260 TTTTTTGGTCATCTAATTATGAAAAGCTATAAAATAGTCACTTAATTATTAATA
1 TTTTTTGGTCATCTAATTATAAAAAGCTATAAAATAGTCACTCAACTATTAA-A
* * *
108203314 TTTTTTTGTCA-CTCAATTATAAAAAGTTATAAAATTA-TCACTCAACTATTCAA
1 TTTTTTGGTCATCT-AATTATAAAAAGCTATAAAA-TAGTCACTCAACTATTAAA
108203367 TTTTTT
1 TTTTTT
108203373 CTTTTGCCAC
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
53 9 0.18
54 40 0.78
55 2 0.04
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (53 bp):
TTTTTTGGTCATCTAATTATAAAAAGCTATAAAATAGTCACTCAACTATTAAA
Found at i:108218329 original size:357 final size:357
Alignment explanation
Indices: 108217674--108218395 Score: 1417
Period size: 357 Copynumber: 2.0 Consensus size: 357
108217664 TGCGGTGGAG
*
108217674 TTTTCTTTCATTGTCTTACTCATCACTTTAGCAACCTGCATCATCATGAACAGACATTAGAAAAA
1 TTTTCTTTCATTGTCTTACTCATCACTTTAGCAACCTGCATCATCATGAACAGACACTAGAAAAA
108217739 CCAGAAAGATATATTACACAACAAACAAAGGATATAACTTTACAAACAAGCTACCTTTTGAATGT
66 CCAGAAAGATATATTACACAACAAACAAAGGATATAACTTTACAAACAAGCTACCTTTTGAATGT
108217804 TTTTATGAGTCTCATTCGTCAACTTGCCCGTGTCACAATCCAATTTTCTACAATAAATTTTGGTG
131 TTTTATGAGTCTCATTCGTCAACTTGCCCGTGTCACAATCCAATTTTCTACAATAAATTTTGGTG
108217869 CAAATTCAACGGTAAATGCAAGTGAATAATAAATAAACAAAAGTATGAACAAACATGTCATGAAT
196 CAAATTCAACGGTAAATGCAAGTGAATAATAAATAAACAAAAGTATGAACAAACATGTCATGAAT
108217934 TCCATACCTGTTTTCATCAGAAGCTGCATAATTTTCCTTGTTATTGTCAATTTCCATGACTTTGC
261 TCCATACCTGTTTTCATCAGAAGCTGCATAATTTTCCTTGTTATTGTCAATTTCCATGACTTTGC
108217999 TTTCACTTACTCTGATATTAGATGCCATAGCA
326 TTTCACTTACTCTGATATTAGATGCCATAGCA
108218031 TTTTCTTTCATTGTCTTACTCATCACTTTAGCAACCTGCATCATCATGAACAGACACTAGAAAAA
1 TTTTCTTTCATTGTCTTACTCATCACTTTAGCAACCTGCATCATCATGAACAGACACTAGAAAAA
* *
108218096 CCAGAAAGATATATTACACAACAAACGAAGGATATAACTTTATAAACAAGCTACCTTTTGAATGT
66 CCAGAAAGATATATTACACAACAAACAAAGGATATAACTTTACAAACAAGCTACCTTTTGAATGT
108218161 TTTTATGAGTCTCATTCGTCAACTTGCCCGTGTCACAATCCAATTTTCTACAATAAATTTTGGTG
131 TTTTATGAGTCTCATTCGTCAACTTGCCCGTGTCACAATCCAATTTTCTACAATAAATTTTGGTG
108218226 CAAATTCAACGGTAAATGCAAGTGAATAATAAATAAACAAAAGTATGAACAAACATGTCATGAAT
196 CAAATTCAACGGTAAATGCAAGTGAATAATAAATAAACAAAAGTATGAACAAACATGTCATGAAT
108218291 TCCATACCTGTTTTCATCAGAAGCTGCATAATTTTCCTTGTTATTGTCAATTTCCATGACTTTGC
261 TCCATACCTGTTTTCATCAGAAGCTGCATAATTTTCCTTGTTATTGTCAATTTCCATGACTTTGC
108218356 TTTCACTTACTCTGATATTAGATGCCATAGCA
326 TTTCACTTACTCTGATATTAGATGCCATAGCA
108218388 TTTTCTTT
1 TTTTCTTT
108218396 GTCGTCGTCG
Statistics
Matches: 362, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
357 362 1.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (357 bp):
TTTTCTTTCATTGTCTTACTCATCACTTTAGCAACCTGCATCATCATGAACAGACACTAGAAAAA
CCAGAAAGATATATTACACAACAAACAAAGGATATAACTTTACAAACAAGCTACCTTTTGAATGT
TTTTATGAGTCTCATTCGTCAACTTGCCCGTGTCACAATCCAATTTTCTACAATAAATTTTGGTG
CAAATTCAACGGTAAATGCAAGTGAATAATAAATAAACAAAAGTATGAACAAACATGTCATGAAT
TCCATACCTGTTTTCATCAGAAGCTGCATAATTTTCCTTGTTATTGTCAATTTCCATGACTTTGC
TTTCACTTACTCTGATATTAGATGCCATAGCA
Found at i:108236111 original size:20 final size:20
Alignment explanation
Indices: 108236087--108236126 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
108236077 ATCAATTCAA
*
108236087 TTTTTATTAAGTTTTTAATAT
1 TTTTTA-TAAATTTTTAATAT
108236108 TTTTTATAAATTTTTAATA
1 TTTTTATAAATTTTTAATA
108236127 ATTATTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (20 bp):
TTTTTATAAATTTTTAATAT
Found at i:108236127 original size:11 final size:11
Alignment explanation
Indices: 108236085--108236142 Score: 50
Period size: 11 Copynumber: 5.4 Consensus size: 11
108236075 AAATCAATTC
*
108236085 AATTTTTATTA
1 AATTTTTAATA
*
108236096 AGTTTTTAAT-
1 AATTTTTAATA
*
108236106 -ATTTTTTATA
1 AATTTTTAATA
108236116 AATTTTTAAT-
1 AATTTTTAATA
108236126 AATTATTTAATTA
1 AATT-TTTAA-TA
108236139 AATT
1 AATT
108236143 AGATAAACCG
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
9 7 0.19
10 4 0.11
11 21 0.57
12 1 0.03
13 4 0.11
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (11 bp):
AATTTTTAATA
Found at i:108240067 original size:99 final size:99
Alignment explanation
Indices: 108239896--108240086 Score: 373
Period size: 99 Copynumber: 1.9 Consensus size: 99
108239886 TCGTGTTATG
*
108239896 TGTTGGGATCTTCGGCCATTGTTATTACGTCCATAAGATCCTTGCCCCAAGGGGCAATGAGGCCC
1 TGTTGGGATCTTCGGCCATTGTTATTACGTCCATAAGATCCTTGCCCCAAGGGACAATGAGGCCC
108239961 ATGCACTAACAAACCTTTGAGTTTTTTAACACGA
66 ATGCACTAACAAACCTTTGAGTTTTTTAACACGA
108239995 TGTTGGGATCTTCGGCCATTGTTATTACGTCCATAAGATCCTTGCCCCAAGGGACAATGAGGCCC
1 TGTTGGGATCTTCGGCCATTGTTATTACGTCCATAAGATCCTTGCCCCAAGGGACAATGAGGCCC
108240060 ATGCACTAACAAACCTTTGAGTTTTTT
66 ATGCACTAACAAACCTTTGAGTTTTTT
108240087 TTATAGCTTC
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 91 1.00
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (99 bp):
TGTTGGGATCTTCGGCCATTGTTATTACGTCCATAAGATCCTTGCCCCAAGGGACAATGAGGCCC
ATGCACTAACAAACCTTTGAGTTTTTTAACACGA
Found at i:108244717 original size:33 final size:33
Alignment explanation
Indices: 108244680--108244792 Score: 113
Period size: 33 Copynumber: 3.4 Consensus size: 33
108244670 AGGAGCAAAA
* * *
108244680 AAACACGTAGAAGAGGA-ACGGGTAGAAGGAAGC
1 AAACACGAAGAAGAGGAGA-AGGAAGAAGGAAGC
* *
108244713 AAACATGAAGAAGAGGAGAAGGAAGAAGGAAGT
1 AAACACGAAGAAGAGGAGAAGGAAGAAGGAAGC
** *
108244746 AAACACGAAGAAGAGGAGGAA-GAAGAAACAAAC
1 AAACACGAAGAAGAGGA-GAAGGAAGAAGGAAGC
*
108244779 AAACATGAAGAAGA
1 AAACACGAAGAAGA
108244793 TGAAGAGGCT
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
33 63 0.94
34 4 0.06
ACGTcount: A:0.55, C:0.09, G:0.32, T:0.04
Consensus pattern (33 bp):
AAACACGAAGAAGAGGAGAAGGAAGAAGGAAGC
Found at i:108250171 original size:18 final size:18
Alignment explanation
Indices: 108250125--108250174 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
108250115 AACCCGAAAT
* *
108250125 CTGATCCTGATCCGGATC
1 CTGATCCTGACCCGGAAC
* *
108250143 CTGGTCTTGACCCGGAAC
1 CTGATCCTGACCCGGAAC
*
108250161 GTGATCCTGACCCG
1 CTGATCCTGACCCG
108250175 AAATCACCAC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.16, C:0.34, G:0.26, T:0.24
Consensus pattern (18 bp):
CTGATCCTGACCCGGAAC
Found at i:108253178 original size:49 final size:49
Alignment explanation
Indices: 108253124--108253221 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 49
108253114 CTTCTTCCTC
* *
108253124 TGTTTTATTCCCTTCTCCATAATTTTTAATTAGTTTTTCTATGTTTTCT
1 TGTTTTATTCCCTTCTCCATAACTTTTAATTAGTTTTTCTATATTTTCT
* * * *
108253173 TGTTTTCTTCCTTTCTCCGTCACTTTTAATTAGTTTTTCTATATTTTCT
1 TGTTTTATTCCCTTCTCCATAACTTTTAATTAGTTTTTCTATATTTTCT
108253222 ATTTGTTAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.14, C:0.18, G:0.06, T:0.61
Consensus pattern (49 bp):
TGTTTTATTCCCTTCTCCATAACTTTTAATTAGTTTTTCTATATTTTCT
Found at i:108260185 original size:16 final size:15
Alignment explanation
Indices: 108260152--108260181 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
108260142 TATAGATCAC
*
108260152 ATTTTTATTGGTTAG
1 ATTTTTATTAGTTAG
108260167 ATTTTTATTAGTTAG
1 ATTTTTATTAGTTAG
108260182 GATTGTGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (15 bp):
ATTTTTATTAGTTAG
Found at i:108264492 original size:31 final size:31
Alignment explanation
Indices: 108264457--108264518 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
108264447 TTAACATAAT
*
108264457 ATGCAAATTAATCCTTTTATATTTGATAAAA
1 ATGCAAATCAATCCTTTTATATTTGATAAAA
108264488 ATGCAAATCAATCCTTTTATATTTGATAAAA
1 ATGCAAATCAATCCTTTTATATTTGATAAAA
108264519 TTTTCATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.40
Consensus pattern (31 bp):
ATGCAAATCAATCCTTTTATATTTGATAAAA
Found at i:108268752 original size:21 final size:22
Alignment explanation
Indices: 108268712--108268758 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
108268702 CTCTGCTCAA
*
108268712 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
*
108268733 ACTCCACCTGCTGTGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
108268755 ACTC
1 ACTC
108268759 ACTCCTTCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.23
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:108272673 original size:13 final size:12
Alignment explanation
Indices: 108272655--108272692 Score: 60
Period size: 13 Copynumber: 3.2 Consensus size: 12
108272645 TTTAAAATTT
108272655 AAAATTTATAAA
1 AAAATTTATAAA
108272667 CAAAATTTATAAA
1 -AAAATTTATAAA
108272680 AAAA-TTATAAA
1 AAAATTTATAAA
108272691 AA
1 AA
108272693 TTTTAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 9 0.36
12 4 0.16
13 12 0.48
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (12 bp):
AAAATTTATAAA
Found at i:108275802 original size:26 final size:26
Alignment explanation
Indices: 108275782--108275831 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
108275772 AAAAATTAAG
108275782 TTCAAGTA-TCAAATTAAAAAAAAAGA
1 TTCAAGTACT-AAATTAAAAAAAAAGA
*
108275808 TTTAAGTACTAAATTAAAAAAAAA
1 TTCAAGTACTAAATTAAAAAAAAA
108275832 TCAAATCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.26
Consensus pattern (26 bp):
TTCAAGTACTAAATTAAAAAAAAAGA
Found at i:108276479 original size:20 final size:21
Alignment explanation
Indices: 108276454--108276493 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
108276444 TTACACTTAT
108276454 TAAAGA-AAAATTAATTTTTA
1 TAAAGAGAAAATTAATTTTTA
* *
108276474 TAAAGAGTAAATTAGTTTTT
1 TAAAGAGAAAATTAATTTTT
108276494 TTGTTAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.42
Consensus pattern (21 bp):
TAAAGAGAAAATTAATTTTTA
Found at i:108285366 original size:21 final size:20
Alignment explanation
Indices: 108285336--108285375 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
108285326 GAAATGATAT
*
108285336 ATTAAATATTTTTTATCGAA
1 ATTAAATATTTATTATCGAA
108285356 ATTAAGATATTTATTATCGA
1 ATTAA-ATATTTATTATCGA
108285376 TAATAATGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (20 bp):
ATTAAATATTTATTATCGAA
Found at i:108287559 original size:23 final size:21
Alignment explanation
Indices: 108287519--108287562 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
108287509 TATATAATAA
108287519 ATATTTTTATAATATATTATT
1 ATATTTTTATAATATATTATT
*
108287540 ATATTTTTTTAATAAGTATTATT
1 ATATTTTTATAAT-A-TATTATT
108287563 TTGTGATTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 12 0.60
22 1 0.05
23 7 0.35
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
ATATTTTTATAATATATTATT
Found at i:108294520 original size:35 final size:35
Alignment explanation
Indices: 108294474--108294543 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
108294464 ATGGCCCAAG
108294474 TTGCAGTCTAGCAGATATATTTTTATAGTGAGCTA
1 TTGCAGTCTAGCAGATATATTTTTATAGTGAGCTA
108294509 TTGCAGTCTAGCAGATATATTTTTATAGTGAGCTA
1 TTGCAGTCTAGCAGATATATTTTTATAGTGAGCTA
108294544 AGCTTTTAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (35 bp):
TTGCAGTCTAGCAGATATATTTTTATAGTGAGCTA
Found at i:108302196 original size:35 final size:35
Alignment explanation
Indices: 108302157--108302229 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
108302147 ACATATTCTT
* *
108302157 TATTCTCGTCAGATCAATCTCACATAAATAATATA
1 TATTCTCGTCAAATAAATCTCACATAAATAATATA
108302192 TATTCTCGTCAAATAAATCTCACATAAATAATATA
1 TATTCTCGTCAAATAAATCTCACATAAATAATATA
108302227 TAT
1 TAT
108302230 CACATACCTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.42, C:0.18, G:0.04, T:0.36
Consensus pattern (35 bp):
TATTCTCGTCAAATAAATCTCACATAAATAATATA
Found at i:108306664 original size:79 final size:79
Alignment explanation
Indices: 108306571--108306723 Score: 252
Period size: 79 Copynumber: 1.9 Consensus size: 79
108306561 GCAGTTGAAC
* * *
108306571 TTTTTTTAAACATATTTTTATGTTAGAAAAATTACATTTTCCCCAAAGAGCTCAGTTAGGAATGA
1 TTTTTTTAAACATATTTTTATGTTAGAAAAATTACATTTTCCCAAAAGAGCTCAATTAAGAATGA
108306636 ATTTAATTGTTGAG
66 ATTTAATTGTTGAG
* * *
108306650 TTTTTTTTAACATATTTTTATGTTAGAAAAATTACATTTTCCCAAAAGAGGTTAATTAAGAATGA
1 TTTTTTTAAACATATTTTTATGTTAGAAAAATTACATTTTCCCAAAAGAGCTCAATTAAGAATGA
108306715 ATTTAATTG
66 ATTTAATTG
108306724 AGTTCAAGTA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 68 1.00
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.43
Consensus pattern (79 bp):
TTTTTTTAAACATATTTTTATGTTAGAAAAATTACATTTTCCCAAAAGAGCTCAATTAAGAATGA
ATTTAATTGTTGAG
Found at i:108307165 original size:19 final size:19
Alignment explanation
Indices: 108307121--108307166 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
108307111 TTAGGTTCAT
* *
108307121 ATATAAATTATTTTTTGTT
1 ATATAAATTATTTTGTGTG
108307140 A-ACTAAATTATTTTGTGTG
1 ATA-TAAATTATTTTGTGTG
108307159 ATATAAAT
1 ATATAAAT
108307167 ATAAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 1 0.04
19 21 0.91
20 1 0.04
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.52
Consensus pattern (19 bp):
ATATAAATTATTTTGTGTG
Found at i:108311234 original size:21 final size:21
Alignment explanation
Indices: 108311208--108311248 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
108311198 ATCTGCTCAA
* *
108311208 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
108311229 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
108311249 TTACTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:108315245 original size:200 final size:200
Alignment explanation
Indices: 108314902--108316560 Score: 2799
Period size: 200 Copynumber: 8.4 Consensus size: 200
108314892 GAGAAGTAGG
* * *
108314902 AGAAGAAGATTGGCGAGGTTGAAAGCGGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
1 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
*
108314967 AGAAGGGCAAAGGCAAGTTAGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGCA
66 AGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGCA
108315032 AAGTAATCCGGCAAAGGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCT
131 AAGTAATCCGGCAAAGGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCT
108315097 CGAGA
196 CGAGA
*
108315102 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCACAAAAGCATAAA
1 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
*
108315167 AGAAGGGAAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGCA
66 AGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGCA
108315232 AAGTAATCCGGCAAAGGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCT
131 AAGTAATCCGGCAAAGGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCT
108315297 CGAGA
196 CGAGA
108315302 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
1 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
108315367 AGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGCA
66 AGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGCA
*
108315432 AAGTTATCCGGCAAAGGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCT
131 AAGTAATCCGGCAAAGGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCT
108315497 CGAGA
196 CGAGA
* * *
108315502 ATAAGAAGTTTAGCGAGGTTGAATGTAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
1 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
*
108315567 AGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAACA
66 AGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGCA
* *
108315632 AAGTAATCCGGTAAACGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCT
131 AAGTAATCCGGCAAAGGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCT
108315697 CGAGA
196 CGAGA
*
108315702 AGAAGAAGTTTGGCGAGGTTGAATGCAAAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
1 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
108315767 AGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGCA
66 AGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGCA
* * *
108315832 AAGTAATCCGGCAAACGGCTGTTACTCAAATCCGGTTGGCTTTCATGTTCAACATCGTCAAGTCT
131 AAGTAATCCGGCAAAGGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCT
108315897 CGAGA
196 CGAGA
108315902 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGC-AAAAAGCATAAA
1 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
* *
108315966 AGAAGGGCAAAGGCAAGTTCGTAAAAGAATGGAAGCCATA---G--G--T--GAAGAA-T-----
66 AGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGCA
*
108316016 -AGTAATCCGGCAAAGGGCTGTGACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCT
131 AAGTAATCCGGCAAAGGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCT
108316080 CGAGA
196 CGAGA
*
108316085 AGAAGAAGTTTGGCGAGGTTGAATGCAGAAATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
1 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
108316150 AGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGCA
66 AGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGCA
* * *
108316215 AAGTAATCCGGCAAACGGCTGTTACTCAAATCCGGTTGGCTTTCATGTTCAACATCGTCAAGTCT
131 AAGTAATCCGGCAAAGGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCT
108316280 CGAGA
196 CGAGA
108316285 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
1 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
*
108316350 AGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATA---G--G--T--GAAGAA-T-----
66 AGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGCA
* *
108316400 -AGTAATCCGGCAAAGGGCTGTGACTCAAATCCGGTTGGCTATCATGTTCAACATCCTCAAGGCT
131 AAGTAATCCGGCAAAGGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCT
*
108316464 TGAGA
196 CGAGA
* *
108316469 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAACAGATAAAGAAAGAGCAAAAAAGCATAAA
1 AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
108316534 AGAAGGGCAAAGGCAAGATTCAGAAAA
66 AGAAGGGCAAAGGCAAG-TTC-GAAAA
108316561 TATCGAACCT
Statistics
Matches: 1392, Mismatches: 48, Indels: 52
0.93 0.03 0.03
Matches are distributed among these distances:
183 116 0.08
184 194 0.14
185 3 0.00
186 5 0.00
187 1 0.00
189 2 0.00
190 6 0.00
191 6 0.00
192 1 0.00
193 6 0.00
194 2 0.00
195 1 0.00
196 1 0.00
197 1 0.00
199 51 0.04
200 996 0.72
ACGTcount: A:0.41, C:0.15, G:0.28, T:0.16
Consensus pattern (200 bp):
AGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCATAAA
AGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTCAGCA
AAGTAATCCGGCAAAGGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCT
CGAGA
Found at i:108315642 original size:400 final size:384
Alignment explanation
Indices: 108315233--108316560 Score: 2289
Period size: 383 Copynumber: 3.4 Consensus size: 384
108315223 AACTCAGCAA
*
108315233 AGTAATCCGGCAAAGGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCTC
1 AGTAATCCGGCAAAGGGCTGTGACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCTC
108315298 GAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCA
66 GAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCA
108315363 TAAAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTC
131 TAAAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTC
* *
108315428 AGCAAAGTTATCCGGCAAAGGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAA
196 AGCAAAGTAATCCGGCAAACGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAA
* * *
108315493 GGCTCGAGAATAAGAAGTTTAGCGAGGTTGAATGTAGAGATGGAAGAGATAAGGAAAGAGCAAAA
261 GGCTCGAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAA
108315558 AAGCATAAAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAAC
326 AAGCATAAAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATA---G--G--T--GAAC
108315623 AACT
382 AA-T
* * *
108315627 CAACAAAGTAATCCGGTAAACGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCA
1 ------AGTAATCCGGCAAAGGGCTGTGACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCA
*
108315692 AGGCTCGAGAAGAAGAAGTTTGGCGAGGTTGAATGCAAAGATGGAAGAGATAAGGAAAGAGCAAA
60 AGGCTCGAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAA
108315757 AAAGCATAAAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAA
125 AAAGCATAAAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAA
*
108315822 CAACTCAGCAAAGTAATCCGGCAAACGGCTGTTACTCAAATCCGGTTGGCTTTCATGTTCAACAT
190 CAACTCAGCAAAGTAATCCGGCAAACGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACAT
*
108315887 CGTCAAGTCTCGAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGA
255 CGTCAAGGCTCGAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGA
* *
108315952 GC-AAAAAGCATAAAAGAAGGGCAAAGGCAAGTTCGTAAAAGAATGGAAGCCATAGGTGAAGAAT
320 GCAAAAAAGCATAAAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGTGAACAAT
108316016 AGTAATCCGGCAAAGGGCTGTGACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCTC
1 AGTAATCCGGCAAAGGGCTGTGACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCTC
*
108316081 GAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAAATGGAAGAGATAAGGAAAGAGCAAAAAAGCA
66 GAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCA
108316146 TAAAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTC
131 TAAAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTC
*
108316211 AGCAAAGTAATCCGGCAAACGGCTGTTACTCAAATCCGGTTGGCTTTCATGTTCAACATCGTCAA
196 AGCAAAGTAATCCGGCAAACGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAA
*
108316276 GTCTCGAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAA
261 GGCTCGAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAA
*
108316341 AAGCATAAAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGTGAAGAAT
326 AAGCATAAAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGTGAACAAT
* *
108316400 AGTAATCCGGCAAAGGGCTGTGACTCAAATCCGGTTGGCTATCATGTTCAACATCCTCAAGGCTT
1 AGTAATCCGGCAAAGGGCTGTGACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCTC
* *
108316465 GAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAACAGATAAAGAAAGAGCAAAAAAGCA
66 GAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCA
108316530 TAAAAGAAGGGCAAAGGCAAGATTCAGAAAA
131 TAAAAGAAGGGCAAAGGCAAG-TTC-GAAAA
108316561 TATCGAACCT
Statistics
Matches: 902, Mismatches: 23, Indels: 20
0.95 0.02 0.02
Matches are distributed among these distances:
383 316 0.35
384 207 0.23
385 3 0.00
386 5 0.01
389 1 0.00
390 5 0.01
392 1 0.00
394 1 0.00
396 1 0.00
399 51 0.06
400 311 0.34
ACGTcount: A:0.40, C:0.15, G:0.28, T:0.17
Consensus pattern (384 bp):
AGTAATCCGGCAAAGGGCTGTGACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAAGGCTC
GAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCA
TAAAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGCGAAGAATGCGAACAACTC
AGCAAAGTAATCCGGCAAACGGCTGTTACTCAAATCCGGTTGGCTATCATGTTCAACATCGTCAA
GGCTCGAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAA
AAGCATAAAAGAAGGGCAAAGGCAAGTTCGAAAAAGAATGGAAGCCATAGGTGAACAAT
Found at i:108316525 original size:184 final size:186
Alignment explanation
Indices: 108316216--108316560 Score: 604
Period size: 184 Copynumber: 1.9 Consensus size: 186
108316206 AACTCAGCAA
* * * *
108316216 AGTAATCCGGCAAACGGCTGTTACTCAAATCCGGTTGGCTTTCATGTTCAACATCGTCAAGTCTC
1 AGTAATCCGGCAAACGGCTGTGACTCAAATCCGGTTGGCTATCATGTTCAACATCCTCAAGGCTC
* *
108316281 GAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAAGAGATAAGGAAAGAGCAAAAAAGCA
66 GAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAACAGATAAAGAAAGAGCAAAAAAGCA
108316346 TAAAAGAAGGGCAAAGGCAAG-TTC-GAAAAAGAATGGAAGCCATAGGTGAAGAAT
131 TAAAAGAAGGGCAAAGGCAAGATTCAGAAAAAGAATGGAAGCCATAGGTGAAGAAT
* *
108316400 AGTAATCCGGCAAAGGGCTGTGACTCAAATCCGGTTGGCTATCATGTTCAACATCCTCAAGGCTT
1 AGTAATCCGGCAAACGGCTGTGACTCAAATCCGGTTGGCTATCATGTTCAACATCCTCAAGGCTC
108316465 GAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAACAGATAAAGAAAGAGCAAAAAAGCA
66 GAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAACAGATAAAGAAAGAGCAAAAAAGCA
108316530 TAAAAGAAGGGCAAAGGCAAGATTCAGAAAA
131 TAAAAGAAGGGCAAAGGCAAGATTCAGAAAA
108316561 TATCGAACCT
Statistics
Matches: 151, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
184 143 0.95
185 3 0.02
186 5 0.03
ACGTcount: A:0.40, C:0.14, G:0.28, T:0.18
Consensus pattern (186 bp):
AGTAATCCGGCAAACGGCTGTGACTCAAATCCGGTTGGCTATCATGTTCAACATCCTCAAGGCTC
GAGAAGAAGAAGTTTGGCGAGGTTGAATGCAGAGATGGAACAGATAAAGAAAGAGCAAAAAAGCA
TAAAAGAAGGGCAAAGGCAAGATTCAGAAAAAGAATGGAAGCCATAGGTGAAGAAT
Found at i:108321037 original size:15 final size:15
Alignment explanation
Indices: 108321017--108321047 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
108321007 CTATCATCTT
108321017 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
108321032 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
108321047 T
1 T
108321048 TACAACGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.23
Consensus pattern (15 bp):
TAACTGCTAACAGAC
Found at i:108321081 original size:20 final size:20
Alignment explanation
Indices: 108321056--108321097 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
108321046 CTTACAACGG
*
108321056 TACAACGGTTTTGACTATAT
1 TACAACGGCTTTGACTATAT
*
108321076 TACAACTGCTTTGACTATAT
1 TACAACGGCTTTGACTATAT
108321096 TA
1 TA
108321098 ACTCTAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (20 bp):
TACAACGGCTTTGACTATAT
Found at i:108324496 original size:18 final size:18
Alignment explanation
Indices: 108324463--108324497 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
108324453 ACCAGCAGAT
* *
108324463 GGCATACTGACTTGTTGG
1 GGCATACTAACCTGTTGG
108324481 GGCATACTAACCTGTTG
1 GGCATACTAACCTGTTG
108324498 TGGAGAGCTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (18 bp):
GGCATACTAACCTGTTGG
Found at i:108325760 original size:15 final size:15
Alignment explanation
Indices: 108325740--108325770 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
108325730 CTATCATCTT
108325740 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
108325755 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
108325770 T
1 T
108325771 TACAACGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.23
Consensus pattern (15 bp):
TAACTGCTAACAGAC
Found at i:108325804 original size:20 final size:20
Alignment explanation
Indices: 108325779--108325820 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
108325769 CTTACAACGG
*
108325779 TACAACGGTTTTGACTATAT
1 TACAACGGCTTTGACTATAT
*
108325799 TACAACTGCTTTGACTATAT
1 TACAACGGCTTTGACTATAT
108325819 TA
1 TA
108325821 ACTCTAACAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (20 bp):
TACAACGGCTTTGACTATAT
Found at i:108326270 original size:16 final size:15
Alignment explanation
Indices: 108326239--108326267 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
108326229 AATCAATGAA
108326239 TAAAAAAAGTCAAAT
1 TAAAAAAAGTCAAAT
108326254 TAAAAAAAGTCAAA
1 TAAAAAAAGTCAAA
108326268 ATTTACTTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.17
Consensus pattern (15 bp):
TAAAAAAAGTCAAAT
Found at i:108330971 original size:29 final size:28
Alignment explanation
Indices: 108330929--108330994 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 28
108330919 AAATAAGAGT
108330929 TTAACTAAAATTAAGA-GTTAGTGGCAAAA
1 TTAA-TAAAATTAA-ATGTTAGTGGCAAAA
* *
108330958 TTAATAAAATTTAAATTTTAGTGGTAAAA
1 TTAATAAAA-TTAAATGTTAGTGGCAAAA
108330987 TTCAATAA
1 TT-AATAA
108330995 CATAAAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
28 6 0.19
29 21 0.66
30 5 0.16
ACGTcount: A:0.48, C:0.05, G:0.12, T:0.35
Consensus pattern (28 bp):
TTAATAAAATTAAATGTTAGTGGCAAAA
Found at i:108331004 original size:30 final size:29
Alignment explanation
Indices: 108330946--108331004 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
108330936 AAATTAAGAG
**
108330946 TTAGTGGCAAAATTAATAAAATTTAAATT
1 TTAGTGGCAAAATTAATAAAATAAAAATT
* *
108330975 TTAGTGGTAAAATTCAATAACATAAAAATT
1 TTAGTGGCAAAATT-AATAAAATAAAAATT
108331005 AAGTTACAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.36
Consensus pattern (29 bp):
TTAGTGGCAAAATTAATAAAATAAAAATT
Found at i:108331170 original size:59 final size:56
Alignment explanation
Indices: 108331106--108331291 Score: 144
Period size: 59 Copynumber: 3.1 Consensus size: 56
108331096 ATGATAAATT
*
108331106 ATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATT
1 ATATATTTTTATTAA--TATATTTAATAATAATTAT-TTAAATTATATTTTATAGTATC
* * * * * *
108331165 ATATATTATGATT-TTAAAAAATTCATATAAGAA-TATTTAATATTAAGAATTTTATTA-AATC
1 ATATATT-T--TTATTAATATATTTA-ATAATAATTATTTAA-ATT-A-TATTTTA-TAGTATC
* *
108331226 ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTATC
1 ATATATTTTTATT--AATATATTTAATAATAATTATTT-AAATTATATTTTATAGTATC
108331285 ATATATT
1 ATATATT
108331292 ATGATTTGAG
Statistics
Matches: 98, Mismatches: 15, Indels: 28
0.70 0.11 0.20
Matches are distributed among these distances:
58 7 0.07
59 36 0.37
60 15 0.15
61 34 0.35
62 6 0.06
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (56 bp):
ATATATTTTTATTAATATATTTAATAATAATTATTTAAATTATATTTTATAGTATC
Found at i:108331217 original size:61 final size:61
Alignment explanation
Indices: 108331152--108331339 Score: 165
Period size: 61 Copynumber: 3.1 Consensus size: 61
108331142 GTTAAATTAT
*
108331152 ATTTTATAGTATTATATATTATGATTTTAAAAAATTCATATAAGAATATTTAATATTAAGA
1 ATTTTATAGTATCATATATTATGATTTTAAAAAATTCATATAAGAATATTTAATATTAAGA
* * * * * *
108331213 ATTTTATTA-AATCATATATT-TTA-ATTAAAATATATTTAATATTA-ATTATTTCAA-ATT-A-
1 ATTTTA-TAGTATCATATATTATGATTTTAAAA-A-A-TTCATATAAGAATATTT-AATATTAAG
*
108331271 T
61 A
* ** * *
108331272 ATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGA
1 ATTTTATAGTATCATATATTATGATTTTAAAAAATTCATATAAGAATATTTAATATTAAGA
108331333 ATTTTAT
1 ATTTTAT
108331340 TATAAATTAT
Statistics
Matches: 95, Mismatches: 20, Indels: 24
0.68 0.14 0.17
Matches are distributed among these distances:
58 10 0.11
59 31 0.33
60 8 0.08
61 35 0.37
62 11 0.12
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (61 bp):
ATTTTATAGTATCATATATTATGATTTTAAAAAATTCATATAAGAATATTTAATATTAAGA
Found at i:108331313 original size:120 final size:122
Alignment explanation
Indices: 108331099--108331389 Score: 453
Period size: 120 Copynumber: 2.4 Consensus size: 122
108331089 TAGTATGATG
* **
108331099 ATAAATTATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
* * *
108331164 TATATATTATGATTTTAAAAAATTCATATAAGAATATTTAATATTAAGAATTTTA-T
66 CATATATTATGATTTGAAAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
* *
108331220 -TAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAGTA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTA
** *
108331283 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATT
65 TCATATATTATGATTTGAAAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
108331341 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
108331390 ATATGATTAA
Statistics
Matches: 153, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
119 2 0.01
120 105 0.69
121 1 0.01
122 43 0.28
123 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (122 bp):
ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
CATATATTATGATTTGAAAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
Found at i:108331368 original size:18 final size:19
Alignment explanation
Indices: 108331333--108331369 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
108331323 ATTATTAAGA
108331333 ATTTTATTATAAATTATAT
1 ATTTTATTATAAATTATAT
108331352 ATTTTAATTA-AAA-TATAT
1 ATTTT-ATTATAAATTATAT
108331370 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTATTATAAATTATAT
Found at i:108331599 original size:44 final size:45
Alignment explanation
Indices: 108331534--108331624 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
108331524 ACCTCTATTC
* * *
108331534 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
108331578 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
108331623 CA
1 CA
108331625 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:108331626 original size:16 final size:16
Alignment explanation
Indices: 108331605--108331673 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
108331595 GATTAGCTAT
108331605 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
108331621 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
108331638 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
108331654 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
108331670 TACA
1 TACA
108331674 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:108331647 original size:33 final size:32
Alignment explanation
Indices: 108331605--108331673 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
108331595 GATTAGCTAT
108331605 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
108331638 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
108331670 TACA
1 TACA
108331674 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:108332764 original size:19 final size:20
Alignment explanation
Indices: 108332730--108332768 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
108332720 AATGATGACG
108332730 GAATGTTTCTATTTATATTAT
1 GAATGTTTCTATTTAT-TTAT
108332751 GAAT-TTTC-ATTTATTTAT
1 GAATGTTTCTATTTATTTAT
108332769 TTGATTGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 6 0.33
20 4 0.22
21 4 0.22
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.59
Consensus pattern (20 bp):
GAATGTTTCTATTTATTTAT
Found at i:108335461 original size:25 final size:24
Alignment explanation
Indices: 108335425--108335474 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
108335415 AGTTTTTAAT
108335425 ATTTTTTATTTT-TTAAAAATTATA
1 ATTTTTTATTTTATTAAAAA-TATA
*
108335449 ATTTTTTATTTTTATTTAAAATATA
1 ATTTTTTA-TTTTATTAAAAATATA
108335474 A
1 A
108335475 AAAAATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 8 0.35
25 9 0.39
26 6 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
ATTTTTTATTTTATTAAAAATATA
Found at i:108335743 original size:17 final size:20
Alignment explanation
Indices: 108335705--108335744 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
108335695 AGTTTATAAT
108335705 AAACGAATTGATGTGTTAAA
1 AAACGAATTGATGTGTTAAA
108335725 AAAC-AATTGATGTG-TAAA
1 AAACGAATTGATGTGTTAAA
108335743 AA
1 AA
108335745 TTTGAAGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 6 0.30
19 10 0.50
20 4 0.20
ACGTcount: A:0.50, C:0.05, G:0.17, T:0.28
Consensus pattern (20 bp):
AAACGAATTGATGTGTTAAA
Found at i:108348595 original size:18 final size:18
Alignment explanation
Indices: 108348572--108348628 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
108348562 CCCAACTACT
*
108348572 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
108348590 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
108348608 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
108348626 GTA
1 GTA
108348629 AACGGTCGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:108350590 original size:15 final size:16
Alignment explanation
Indices: 108350565--108350595 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
108350555 ATGTCAGTCC
108350565 AATATATTAATTAATT
1 AATATATTAATTAATT
108350581 AATA-ATTAATTAATT
1 AATATATTAATTAATT
108350596 TTCCAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATATATTAATTAATT
Found at i:108364716 original size:107 final size:108
Alignment explanation
Indices: 108364604--108364818 Score: 414
Period size: 107 Copynumber: 2.0 Consensus size: 108
108364594 TTAAACAAAA
108364604 TATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACA
1 TATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACA
108364669 AAATTGTATTAAAATTTTTGTTAATTACTCT-ATAAAATTTTT
66 AAATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTT
*
108364711 TATTAGTTTAACAAAACAATGATATGTTAAGTTGGAATAAGTTTTAAATAATAAAATTTCTAACA
1 TATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACA
108364776 AAATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTT
66 AAATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTT
108364819 GACGTGTTTT
Statistics
Matches: 106, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
107 95 0.90
108 11 0.10
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (108 bp):
TATTAGTTTAACAAAACAATGATATGTTAAGTTAGAATAAGTTTTAAATAATAAAATTTCTAACA
AAATTGTATTAAAATTTTTGTTAATTACTCTGATAAAATTTTT
Found at i:108371500 original size:52 final size:52
Alignment explanation
Indices: 108371422--108371564 Score: 268
Period size: 52 Copynumber: 2.8 Consensus size: 52
108371412 CATTTAGAAG
108371422 GAAAATTGTCTAGATCGATGTGCATAATATCTCGATTCTCGCGTACAAACAT
1 GAAAATTGTCTAGATCGATGTGCATAATATCTCGATTCTCGCGTACAAACAT
108371474 GAAAATTGTCTAGATCGATGTGCATAATATCTCGATTCTCGCGTACAAACAT
1 GAAAATTGTCTAGATCGATGTGCATAATATCTCGATTCTCGCGTACAAACAT
* *
108371526 GAAAATTGTCTCGATCGGTGTGCATAATATCTCGATTCT
1 GAAAATTGTCTAGATCGATGTGCATAATATCTCGATTCT
108371565 TGGTGTGCAT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 89 1.00
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (52 bp):
GAAAATTGTCTAGATCGATGTGCATAATATCTCGATTCTCGCGTACAAACAT
Found at i:108371559 original size:21 final size:23
Alignment explanation
Indices: 108371534--108371579 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
108371524 ATGAAAATTG
108371534 TCTCGA-TC-GGTGTGCATAATA
1 TCTCGATTCTGGTGTGCATAATA
108371555 TCTCGATTCTTGGTGTGCATAATA
1 TCTCGATTC-TGGTGTGCATAATA
108371579 T
1 T
108371580 TGCTCATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.27
22 2 0.09
24 14 0.64
ACGTcount: A:0.22, C:0.17, G:0.22, T:0.39
Consensus pattern (23 bp):
TCTCGATTCTGGTGTGCATAATA
Found at i:108372075 original size:5 final size:5
Alignment explanation
Indices: 108372065--108372120 Score: 112
Period size: 5 Copynumber: 11.2 Consensus size: 5
108372055 ATATTTCTCT
108372065 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
108372115 TTATA T
1 TTATA T
108372121 CATGCATGCA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 51 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:108379993 original size:18 final size:18
Alignment explanation
Indices: 108379970--108380026 Score: 105
Period size: 18 Copynumber: 3.2 Consensus size: 18
108379960 CCCAACTACT
*
108379970 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
108379988 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
108380006 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
108380024 GTA
1 GTA
108380027 AACGGTCGTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.26
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:108384485 original size:20 final size:20
Alignment explanation
Indices: 108384456--108384518 Score: 53
Period size: 20 Copynumber: 3.4 Consensus size: 20
108384446 ACTTCATTAG
*
108384456 AGACAGTTAACATTAATGGA
1 AGACAATTAACATTAATGGA
*
108384476 AGACAATT-A-A-TAATGGT
1 AGACAATTAACATTAATGGA
* * *
108384493 TG-CCATTAACATTAATGGG
1 AGACAATTAACATTAATGGA
108384512 AGACAAT
1 AGACAAT
108384519 CAATAATGAC
Statistics
Matches: 32, Mismatches: 7, Indels: 8
0.68 0.15 0.17
Matches are distributed among these distances:
16 4 0.12
17 8 0.25
18 2 0.06
19 8 0.25
20 10 0.31
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.27
Consensus pattern (20 bp):
AGACAATTAACATTAATGGA
Found at i:108387332 original size:21 final size:21
Alignment explanation
Indices: 108387298--108387338 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
108387288 AGACGAGCAA
* * *
108387298 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTCGAGTG
108387319 TACTCCAAAACAGGTCGAGT
1 TACTCCAAAACAGGTCGAGT
108387339 TTGAGCAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.27, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTCGAGTG
Found at i:108409159 original size:21 final size:21
Alignment explanation
Indices: 108409133--108409173 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
108409123 ATCTGCTCAA
* *
108409133 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
108409154 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
108409174 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:108413269 original size:13 final size:13
Alignment explanation
Indices: 108413251--108413276 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
108413241 ATATAAAGAA
108413251 ATATGTATTTATT
1 ATATGTATTTATT
108413264 ATATGTATTTATT
1 ATATGTATTTATT
108413277 TAATTATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
ATATGTATTTATT
Found at i:108415398 original size:3 final size:3
Alignment explanation
Indices: 108415390--108415416 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
108415380 TAATGTATAT
108415390 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
108415417 CTACTACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:108417297 original size:18 final size:18
Alignment explanation
Indices: 108417274--108417366 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
108417264 TACGACCGTT
108417274 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
108417292 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
* *
108417310 TACAGTACTATTTACGTA
1 TACGGTACTATTCACGTA
**
108417328 TACGCCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
108417346 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
108417364 TAC
1 TAC
108417367 AGTAGTTGGG
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:108425363 original size:65 final size:65
Alignment explanation
Indices: 108425259--108425389 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
108425249 GGTAGCTCAT
108425259 ATTGCAGCGGCTAATACACTTTGCCTTTTAGCTAATGAGGACAGTGAAGGAACTATTATGAAGGA
1 ATTGCAGCGGCTAATACACTTTGCCTTTTAGCTAATGAGGACAGTGAAGGAACTATTATGAAGGA
108425324 ATTGCAGCGGCTAATACACTTTGCCTTTTAGCTAATGAGGACAGTGAAGGAACTATTATGAAGGA
1 ATTGCAGCGGCTAATACACTTTGCCTTTTAGCTAATGAGGACAGTGAAGGAACTATTATGAAGGA
108425389 A
1 A
108425390 ATGATTTCCA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (65 bp):
ATTGCAGCGGCTAATACACTTTGCCTTTTAGCTAATGAGGACAGTGAAGGAACTATTATGAAGGA
Found at i:108427907 original size:14 final size:17
Alignment explanation
Indices: 108427870--108427904 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
108427860 TAAAATTATT
108427870 TTATA-AAAAAAATGAA
1 TTATAGAAAAAAATGAA
108427886 TTATAGAAAAAAA-GAA
1 TTATAGAAAAAAATGAA
108427902 TTA
1 TTA
108427905 GAAGTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (17 bp):
TTATAGAAAAAAATGAA
Found at i:108434524 original size:26 final size:26
Alignment explanation
Indices: 108434488--108434542 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
108434478 TTGAAAAAAA
108434488 TAATGTTCAAGATATAATACAGGGAC
1 TAATGTTCAAGATATAATACAGGGAC
108434514 TAATGTTCAAGATATAATACAGGGAC
1 TAATGTTCAAGATATAATACAGGGAC
108434540 TAA
1 TAA
108434543 ATTGAGCCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.44, C:0.11, G:0.18, T:0.27
Consensus pattern (26 bp):
TAATGTTCAAGATATAATACAGGGAC
Found at i:108442594 original size:186 final size:187
Alignment explanation
Indices: 108442242--108442615 Score: 741
Period size: 186 Copynumber: 2.0 Consensus size: 187
108442232 ACATTTTTTA
108442242 ACACATCTTAATCACAAGATTTATTATCTTAATATACTACATTCTACTATTAAAAATAATAGAAA
1 ACACATCTTAATCACAAGATTTATTATCTTAATATACTACATTCTACTATTAAAAATAATAGAAA
108442307 CTATTGTTATATTTAAAAAAAAAGTTTTAATCAAAACATAAACCATATATCGTATCATTAATCCA
66 CTATTGTTATATTTAAAAAAAAAGTTTTAATCAAAACATAAACCATATATCGTATCATTAATCCA
108442372 TTTCTTAGGCAATAAACAACTCATGCCACACCTTTAAATGTATTGATTAGTAAAATC
131 TTTCTTAGGCAATAAACAACTCATGCCACACCTTTAAATGTATTGATTAGTAAAATC
108442429 ACACATCTTAATCACAAGATTTATTATCTTAATATACTACATTCTACTATTAAAAATAATAGAAA
1 ACACATCTTAATCACAAGATTTATTATCTTAATATACTACATTCTACTATTAAAAATAATAGAAA
108442494 CTATTGTTATATTT-AAAAAAAAGTTTTAATCAAAACATAAACCATATATCGTATCATTAATCCA
66 CTATTGTTATATTTAAAAAAAAAGTTTTAATCAAAACATAAACCATATATCGTATCATTAATCCA
108442558 TTTCTTAGGCAATAAACAACTCATGCCACACCTTTAAATGTATTGATTAGTAAAATC
131 TTTCTTAGGCAATAAACAACTCATGCCACACCTTTAAATGTATTGATTAGTAAAATC
108442615 A
1 A
108442616 ACAATAATTT
Statistics
Matches: 187, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
186 108 0.58
187 79 0.42
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.35
Consensus pattern (187 bp):
ACACATCTTAATCACAAGATTTATTATCTTAATATACTACATTCTACTATTAAAAATAATAGAAA
CTATTGTTATATTTAAAAAAAAAGTTTTAATCAAAACATAAACCATATATCGTATCATTAATCCA
TTTCTTAGGCAATAAACAACTCATGCCACACCTTTAAATGTATTGATTAGTAAAATC
Found at i:108446608 original size:39 final size:40
Alignment explanation
Indices: 108446554--108446633 Score: 144
Period size: 39 Copynumber: 2.0 Consensus size: 40
108446544 TCAAAAAACA
108446554 TGAGAATTCATATTATACACGTAAATGGC-TCAGAGAGGT
1 TGAGAATTCATATTATACACGTAAATGGCATCAGAGAGGT
*
108446593 TGAGAATTCATATTATACATGTAAATGGCATCAGAGAGGT
1 TGAGAATTCATATTATACACGTAAATGGCATCAGAGAGGT
108446633 T
1 T
108446634 TAAATATGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
39 28 0.72
40 11 0.28
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (40 bp):
TGAGAATTCATATTATACACGTAAATGGCATCAGAGAGGT
Found at i:108449363 original size:39 final size:40
Alignment explanation
Indices: 108449309--108449386 Score: 124
Period size: 41 Copynumber: 1.9 Consensus size: 40
108449299 GAGAAACACG
108449309 TAACATTCAGAAAAAC-AGATTACACAA-CTACAATCAACA
1 TAACATTCAGAAAAACAAGATTACACAATC-ACAATCAACA
108449348 TAACATTCAGAAAAACAAAGATTACACAATCACAATCAA
1 TAACATTCAGAAAAAC-AAGATTACACAATCACAATCAA
108449387 TCCAGGTCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
39 16 0.44
41 19 0.53
42 1 0.03
ACGTcount: A:0.55, C:0.22, G:0.05, T:0.18
Consensus pattern (40 bp):
TAACATTCAGAAAAACAAGATTACACAATCACAATCAACA
Done.