Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 269 of 311
Found at i:88916135 original size:58 final size:58
Alignment explanation
Indices: 88916065--88916177 Score: 226
Period size: 58 Copynumber: 1.9 Consensus size: 58
88916055 TTCACATGTA
88916065 AATTGTTTTAAATCCTTTTATTATTGTAAATCTTTGGATTATTATATATTTTAAGGTT
1 AATTGTTTTAAATCCTTTTATTATTGTAAATCTTTGGATTATTATATATTTTAAGGTT
88916123 AATTGTTTTAAATCCTTTTATTATTGTAAATCTTTGGATTATTATATATTTTAAG
1 AATTGTTTTAAATCCTTTTATTATTGTAAATCTTTGGATTATTATATATTTTAAG
88916178 CTTTCATATA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.55
Consensus pattern (58 bp):
AATTGTTTTAAATCCTTTTATTATTGTAAATCTTTGGATTATTATATATTTTAAGGTT
Found at i:88923885 original size:13 final size:13
Alignment explanation
Indices: 88923869--88923894 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88923859 ATAGTAATAC
88923869 ATAATATATTATT
1 ATAATATATTATT
88923882 ATAATATATTATT
1 ATAATATATTATT
88923895 TTTATTATTA
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATAATATATTATT
Found at i:88932995 original size:21 final size:21
Alignment explanation
Indices: 88932971--88933026 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
88932961 AACAGCGGTG
* *
88932971 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACAGTA
88932992 GCGGTGAGATTAGATACAGTA
1 GCGGTGAGATTAGATACAGTA
88933013 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
88933027 AACAACGGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.29, C:0.09, G:0.36, T:0.27
Consensus pattern (21 bp):
GCGGTGAGATTAGATACAGTA
Found at i:88935043 original size:32 final size:32
Alignment explanation
Indices: 88935004--88935163 Score: 248
Period size: 32 Copynumber: 5.0 Consensus size: 32
88934994 CATAAAAAAT
*
88935004 ATCATACATTAGGTTTACATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
*
88935036 ATCATACATTAGTTTTGCATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* * *
88935068 ATCATACATTAGGTTCACATATAAAAAAGTAT
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
* *
88935100 ATCATACATTAGTTTTGCATATGAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
*
88935132 ATCATACATTAGTTTTATATATAAAAAAGTAG
1 ATCATACATTAGTTTTACATATAAAAAAGTAG
88935164 CATAGTTATA
Statistics
Matches: 114, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 114 1.00
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (32 bp):
ATCATACATTAGTTTTACATATAAAAAAGTAG
Found at i:88935077 original size:64 final size:64
Alignment explanation
Indices: 88935004--88935163 Score: 275
Period size: 64 Copynumber: 2.5 Consensus size: 64
88934994 CATAAAAAAT
88935004 ATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGTAG
1 ATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGTAG
* * *
88935068 ATCATACATTAGGTTCACATATAAAAAAGTATATCATACATTAGTTTTGCATATGAAAAAGTAG
1 ATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGTAG
* *
88935132 ATCATACATTAGTTTTATATATAAAAAAGTAG
1 ATCATACATTAGGTTTACATATAAAAAAGTAG
88935164 CATAGTTATA
Statistics
Matches: 89, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 89 1.00
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (64 bp):
ATCATACATTAGGTTTACATATAAAAAAGTAGATCATACATTAGTTTTGCATATAAAAAAGTAG
Found at i:88940393 original size:20 final size:20
Alignment explanation
Indices: 88940345--88940393 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
88940335 TATATATATC
* * *
88940345 AAAAAATATAATAAAATAAT
1 AAAAAAAATAACAAAAAAAT
* *
88940365 AGAATAAATAACAAAAAAAT
1 AAAAAAAATAACAAAAAAAT
88940385 AAAAAAAAT
1 AAAAAAAAT
88940394 TTACCACGCG
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (20 bp):
AAAAAAAATAACAAAAAAAT
Found at i:88940983 original size:3 final size:3
Alignment explanation
Indices: 88940959--88941029 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
88940949 AATATCCTTG
* * * *
88940959 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
88941006 TGTA TTA GTA TATA TTT TTA TTA T
1 T-TA TTA TTA T-TA TTA TTA TTA T
88941030 GTACGTGTAT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:88941026 original size:23 final size:22
Alignment explanation
Indices: 88940971--88941032 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
88940961 ATTTTTATAT
*
88940971 TATTAGTATTATTA-GTATTAC
1 TATTATTATTATTATGTATTAC
*
88940992 TATTATTATTATTATGTATTAG
1 TATTATTATTATTATGTATTAC
*
88941014 TATATATTTTTATTATGTA
1 TAT-TATTATTATTATGTA
88941033 CGTGTATACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 13 0.36
22 9 0.25
23 14 0.39
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (22 bp):
TATTATTATTATTATGTATTAC
Found at i:88941039 original size:23 final size:23
Alignment explanation
Indices: 88940966--88941040 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
88940956 TTGTTATTTT
* *
88940966 TATATTATTAGTATTAT-TAGTAT
1 TATA-TATTATTATTATGTAGTAG
*
88940989 TACTATTATTATTATTATGTATTAG
1 TA-TA-TATTATTATTATGTAGTAG
*
88941014 TATATATTTTTATTATGTACGT-G
1 TATATATTATTATTATGTA-GTAG
88941037 TATA
1 TATA
88941041 CATATATATA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
23 21 0.48
24 17 0.39
25 6 0.14
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (23 bp):
TATATATTATTATTATGTAGTAG
Found at i:88941142 original size:3 final size:3
Alignment explanation
Indices: 88941129--88941167 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
88941119 TATTCCAATG
*
88941129 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
88941168 GTTTATGCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:88941454 original size:22 final size:23
Alignment explanation
Indices: 88941426--88941469 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
88941416 CTTTTATATA
88941426 TATTATCA-TGTATATAT-TTTAG
1 TATTATCAGT-TATATATCTTTAG
88941448 TATTATCAGTTATATATCTTTA
1 TATTATCAGTTATATATCTTTA
88941470 TACTATATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.55
Consensus pattern (23 bp):
TATTATCAGTTATATATCTTTAG
Found at i:88947733 original size:22 final size:22
Alignment explanation
Indices: 88947708--88947753 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
88947698 TCCATGGTAT
*
88947708 TGAGGGGCATGACATTCAATCC
1 TGAGGGGCACGACATTCAATCC
88947730 TGAGGGGCACGACATTCAATCC
1 TGAGGGGCACGACATTCAATCC
88947752 TG
1 TG
88947754 CGAAGAGTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (22 bp):
TGAGGGGCACGACATTCAATCC
Found at i:88954202 original size:74 final size:73
Alignment explanation
Indices: 88954106--88954308 Score: 250
Period size: 74 Copynumber: 2.7 Consensus size: 73
88954096 TGTTCCAAAG
** * * * *
88954106 ATCAACTCATAGGGCGAAAGGTGAGTTGAGCCTCAGGACATGCTAAGGTATTTTCAAATTC-TT-
1 ATCAACTCATA-TTCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC-AA-TCGTTG
88954169 TTT-TCAAAAAA
63 TTTGTC-AAAAA
* *
88954180 ATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGGCACGGTGAGGTATTTTCAATCGTTGTT
1 ATCAACTCATATT-CGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATCGTTGTT
88954245 TGTCAAAAA
65 TGTCAAAAA
*
88954254 ATCAACTCATACTTCCAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
1 ATCAACTCATA-TTCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTC
88954309 GATTTCCGCT
Statistics
Matches: 113, Mismatches: 11, Indels: 10
0.84 0.08 0.07
Matches are distributed among these distances:
72 2 0.02
73 4 0.04
74 103 0.91
75 4 0.04
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (73 bp):
ATCAACTCATATTCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCAATCGTTGTTT
GTCAAAAA
Found at i:88954489 original size:14 final size:14
Alignment explanation
Indices: 88954470--88954498 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
88954460 AGCTGAGGTC
88954470 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
88954484 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
88954498 T
1 T
88954499 CGTCAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:88954521 original size:164 final size:161
Alignment explanation
Indices: 88954172--88954571 Score: 511
Period size: 164 Copynumber: 2.4 Consensus size: 161
88954162 AATTCTTTTT
* * *
88954172 TCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGGCACGGTGAGGTATTTTCAA
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGCACGCTGAGGTATTTTCAA
*
88954237 TCGT-TGTTTGTCAAAAAATCAACTCATACTTCCAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
65 T-TTCTGTTTGTCAAAAAATCAACTCATAC-TCCAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
* *
88954301 GTATTTTCGATTTCCGCTTTCCAATTTCTGCTCT
128 GTATTTTCAATTTCCGCTTTCCAATTTCTGCTCG
* *
88954335 TCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTC
1 TC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACGCTGAGGTATTTTC
* *
88954400 CATTTCTGTTTGTC-AAAAATCAACTCATA-TCGCGAGAGGTGAGTTGAGCCTC-GGCTCACAAG
63 AATTTCTGTTTGTCAAAAAATCAACTCATACTC-C-AGAGGTGAGTTGAGCCTCAGG-GCAC--G
* * * * *
88954462 CTGAGGTCTTTTCAATTTCTGTTTTTCAATTTCTGTTCG
123 CTGAGGTATTTTCAATTTCCGCTTTCCAATTTCTGCTCG
* *
88954501 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCATGCTGAGGTATTTTCGA
1 TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGGCACGCTGAGGTATTTTCAA
88954566 TTTCTG
65 TTTCTG
88954572 CTTTCCAATT
Statistics
Matches: 209, Mismatches: 18, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
162 2 0.01
163 5 0.02
164 100 0.48
165 67 0.32
166 35 0.17
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (161 bp):
TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACGCTGAGGTATTTTCAAT
TTCTGTTTGTCAAAAAATCAACTCATACTCCAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTA
TTTTCAATTTCCGCTTTCCAATTTCTGCTCG
Found at i:88954569 original size:89 final size:89
Alignment explanation
Indices: 88954396--88954664 Score: 348
Period size: 91 Copynumber: 3.0 Consensus size: 89
88954386 GTTGAGGTAA
* * *
88954396 TTTCCATTTCTGTTTGTC--AAAAATCAACTCATATCGCGAGAGGTGAGTTGAGCCTC--GGCTC
1 TTTCAATTTCTGTTCGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGG---
88954457 ACAAGCTGAGGTCTTTTCAATTTCTGTT
63 -CAAGCTGAGGTCTTTTCAATTTCTGTT
*
88954485 TTTCAATTTCTGTTCGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCAT
1 TTTCAATTTCTGTTCGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCAA
* * *
88954550 GCTGAGGTATTTTCGATTTCTGCT
66 GCTGAGGTCTTTTCAATTTCTGTT
* * * *
88954574 TTCCAATTTCTGCTCTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
1 TTTCAATTTCTGTTCGTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGC
*
88954639 ACGCTGAGGTCTTTTCAATTTCTGTT
64 AAGCTGAGGTCTTTTCAATTTCTGTT
88954665 CGTCAAATCA
Statistics
Matches: 159, Mismatches: 15, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
89 54 0.34
91 103 0.65
93 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (89 bp):
TTTCAATTTCTGTTCGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGGCAA
GCTGAGGTCTTTTCAATTTCTGTT
Found at i:88954699 original size:71 final size:71
Alignment explanation
Indices: 88954598--88954729 Score: 210
Period size: 71 Copynumber: 1.9 Consensus size: 71
88954588 CTTCAAAAAA
* * *
88954598 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTCTTTTCAATTTCTG
1 AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTCTCAATTTCTG
88954663 TTCGTC
66 TTCGTC
* * *
88954669 AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGAGGCACGTTGAGGTATTCTCAATT
1 AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTCTCAATT
88954730 AATGTTTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 55 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (71 bp):
AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTCTCAATTTCTG
TTCGTC
Found at i:88955398 original size:53 final size:53
Alignment explanation
Indices: 88955318--88955426 Score: 200
Period size: 53 Copynumber: 2.1 Consensus size: 53
88955308 AAGACCAGGA
*
88955318 AAAATTGGCCTCTCTTTATGTCTTTGCTCTATTCCCGTTATACGATAATGAGC
1 AAAATTGACCTCTCTTTATGTCTTTGCTCTATTCCCGTTATACGATAATGAGC
*
88955371 AAAATTGACCTCTCTTTATGTCTTTGCTCTATTCTCGTTATACGATAATGAGC
1 AAAATTGACCTCTCTTTATGTCTTTGCTCTATTCCCGTTATACGATAATGAGC
88955424 AAA
1 AAA
88955427 GAGGGGCAGC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (53 bp):
AAAATTGACCTCTCTTTATGTCTTTGCTCTATTCCCGTTATACGATAATGAGC
Found at i:88956685 original size:3 final size:3
Alignment explanation
Indices: 88956661--88956731 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
88956651 AATATCCTTG
* * * *
88956661 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
88956708 TGTA TTA GTA TATA TTT TTA TTA T
1 T-TA TTA TTA T-TA TTA TTA TTA T
88956732 GTACGTGTAT
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.31, C:0.01, G:0.06, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:88956728 original size:23 final size:22
Alignment explanation
Indices: 88956673--88956734 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 22
88956663 ATTTTTATAT
*
88956673 TATTAGTATTATTA-GTATTAC
1 TATTATTATTATTATGTATTAC
*
88956694 TATTATTATTATTATGTATTAG
1 TATTATTATTATTATGTATTAC
*
88956716 TATATATTTTTATTATGTA
1 TAT-TATTATTATTATGTA
88956735 CGTGTATACA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 13 0.36
22 9 0.25
23 14 0.39
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.58
Consensus pattern (22 bp):
TATTATTATTATTATGTATTAC
Found at i:88956741 original size:23 final size:23
Alignment explanation
Indices: 88956668--88956742 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
88956658 TTGTTATTTT
* *
88956668 TATATTATTAGTATTAT-TAGTAT
1 TATA-TATTATTATTATGTAGTAG
*
88956691 TACTATTATTATTATTATGTATTAG
1 TA-TA-TATTATTATTATGTAGTAG
*
88956716 TATATATTTTTATTATGTACGT-G
1 TATATATTATTATTATGTA-GTAG
88956739 TATA
1 TATA
88956743 CATATATATA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
23 21 0.48
24 17 0.39
25 6 0.14
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.56
Consensus pattern (23 bp):
TATATATTATTATTATGTAGTAG
Found at i:88956878 original size:8 final size:8
Alignment explanation
Indices: 88956867--88956918 Score: 50
Period size: 8 Copynumber: 6.0 Consensus size: 8
88956857 TTATGCTTTG
88956867 TTATATAT
1 TTATATAT
88956875 TTATATAT
1 TTATATAT
88956883 TTATAATACGT
1 TTAT-ATA--T
*
88956894 ATATATAT
1 TTATATAT
88956902 TTGATATAT
1 TT-ATATAT
*
88956911 TTGTATAT
1 TTATATAT
88956919 ACCTAGGTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
8 19 0.51
9 11 0.30
10 3 0.08
11 4 0.11
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.56
Consensus pattern (8 bp):
TTATATAT
Found at i:88957140 original size:22 final size:23
Alignment explanation
Indices: 88957112--88957155 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
88957102 CTTTTATATA
88957112 TATTATCA-TGTATATAT-TTTAG
1 TATTATCAGT-TATATATCTTTAG
88957134 TATTATCAGTTATATATCTTTA
1 TATTATCAGTTATATATCTTTA
88957156 TACTATATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.55
Consensus pattern (23 bp):
TATTATCAGTTATATATCTTTAG
Found at i:88959449 original size:19 final size:19
Alignment explanation
Indices: 88959425--88959463 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
88959415 TCATTTACAT
88959425 ACATTTGGGTGCCTACCAA
1 ACATTTGGGTGCCTACCAA
*
88959444 ACATTTGGGTGCCTATCAA
1 ACATTTGGGTGCCTACCAA
88959463 A
1 A
88959464 GGTTGAACCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (19 bp):
ACATTTGGGTGCCTACCAA
Found at i:88959564 original size:25 final size:25
Alignment explanation
Indices: 88959526--88959583 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
88959516 TACAAACTGT
* *
88959526 GAATATGGTCGCAAGAAGAACCAGA
1 GAATATGGTAGCAAGAAGAAACAGA
*
88959551 GAATATGGTAGCAATAAGAAACAGA
1 GAATATGGTAGCAAGAAGAAACAGA
88959576 GAATATGG
1 GAATATGG
88959584 GAATAAAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.47, C:0.10, G:0.28, T:0.16
Consensus pattern (25 bp):
GAATATGGTAGCAAGAAGAAACAGA
Found at i:88959594 original size:25 final size:25
Alignment explanation
Indices: 88959541--88959596 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
88959531 TGGTCGCAAG
* * * *
88959541 AAGAACCAGAGAATATGGTAGCAAT
1 AAGAAACAGAGAATATGGGAACAAA
*
88959566 AAGAAACAGAGAATATGGGAATAAA
1 AAGAAACAGAGAATATGGGAACAAA
88959591 AAGAAA
1 AAGAAA
88959597 TTACTTACAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.57, C:0.07, G:0.23, T:0.12
Consensus pattern (25 bp):
AAGAAACAGAGAATATGGGAACAAA
Found at i:88960263 original size:18 final size:18
Alignment explanation
Indices: 88960240--88960275 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
88960230 ACCGAAGGGT
88960240 AAGGTTAAACCCACAACC
1 AAGGTTAAACCCACAACC
88960258 AAGGTTAAACCCACAACC
1 AAGGTTAAACCCACAACC
88960276 GACTGCCATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.33, G:0.11, T:0.11
Consensus pattern (18 bp):
AAGGTTAAACCCACAACC
Found at i:88964268 original size:13 final size:14
Alignment explanation
Indices: 88964244--88964276 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
88964234 ATGGGGATAG
*
88964244 GATTCTGTATATCT
1 GATTCTGCATATCT
88964258 G-TTCTGCATATCT
1 GATTCTGCATATCT
88964271 GATTCT
1 GATTCT
88964277 ATTATCTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (14 bp):
GATTCTGCATATCT
Found at i:88974387 original size:43 final size:43
Alignment explanation
Indices: 88974323--88974410 Score: 133
Period size: 43 Copynumber: 2.0 Consensus size: 43
88974313 GTGTTAAATT
88974323 AAATTGCACAAGCCCTGCTTTGTGCAACAATACTAGAAGAATG
1 AAATTGCACAAGCCCTGCTTTGTGCAACAATACTAGAAGAATG
* * *
88974366 AAATTGC-CGAAGTCCTTCTTTGTGCACCAATACTAGAAGAATG
1 AAATTGCAC-AAGCCCTGCTTTGTGCAACAATACTAGAAGAATG
88974409 AA
1 AA
88974411 GGCTCTCCCT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
42 1 0.02
43 40 0.98
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (43 bp):
AAATTGCACAAGCCCTGCTTTGTGCAACAATACTAGAAGAATG
Found at i:88977458 original size:28 final size:28
Alignment explanation
Indices: 88977417--88977470 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
88977407 TTAGAAAAAG
88977417 TTAAATAATTTTTTATTAAAAATATTAA
1 TTAAATAATTTTTTATTAAAAATATTAA
* *
88977445 TTAAA-AATTATTTTTTTAATAATATT
1 TTAAATAATT-TTTTATTAAAAATATT
88977471 CGCGTAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (28 bp):
TTAAATAATTTTTTATTAAAAATATTAA
Found at i:88982723 original size:13 final size:13
Alignment explanation
Indices: 88982701--88982725 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88982691 CGAAATAATT
88982701 TTTTGAAAATTTA
1 TTTTGAAAATTTA
88982714 TTTTGAAAATTT
1 TTTTGAAAATTT
88982726 TGACGTTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
TTTTGAAAATTTA
Found at i:88984025 original size:42 final size:42
Alignment explanation
Indices: 88983946--88984025 Score: 106
Period size: 42 Copynumber: 1.9 Consensus size: 42
88983936 ATCGGTATCA
* * *
88983946 ATATGTGATTTCATGTAAGACCGTATCTAGGATATGGCGTTG
1 ATATGAGATTTCATGTAAGACCATATCTAGGACATGGCGTTG
* * *
88983988 ATATGAGATTTCATGTAAGACCATGTTTGGGACATGGC
1 ATATGAGATTTCATGTAAGACCATATCTAGGACATGGC
88984026 ATCGATATAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (42 bp):
ATATGAGATTTCATGTAAGACCATATCTAGGACATGGCGTTG
Found at i:88984131 original size:48 final size:48
Alignment explanation
Indices: 88983914--88984180 Score: 150
Period size: 48 Copynumber: 5.8 Consensus size: 48
88983904 TGCCAGTGTA
* * * * * *
88983914 AAGACCATATCTGAGATATGGCATCGGTATCAATATGTGATTTCATGT
1 AAGACCATATCTGGGATATGGCATTGGCATCAGTATGAGACTTCATGT
* * * *
88983962 AAGACCGTATCTAGGATATGGCGTT-G----A-TATGAGATTTCATGT
1 AAGACCATATCTGGGATATGGCATTGGCATCAGTATGAGACTTCATGT
* * * * * * * *
88984004 AAGACCATGTTTGGGACATGGCA-TCG-AT-A-TATG-GTC-CCGTAT
1 AAGACCATATCTGGGATATGGCATTGGCATCAGTATGAGACTTCATGT
* * * * * * *
88984046 AAGACCATGTCTGTGACATGGCATCGACA-CCGTTATGAGACTTCGTGT
1 AAGACCATATCTGGGATATGGCATTGGCATCAG-TATGAGACTTCATGT
*
88984094 AAGACCATATCTGGGATATGGCATTGGCATCAGTATGAGA-TCCCATGT
1 AAGACCATATCTGGGATATGGCATTGGCATCAGTATGAGACT-TCATGT
* *
88984142 AAGCCCATATCTGGGATATGGCATTAGCATC-GATATGAG
1 AAGACCATATCTGGGATATGGCATTGGCATCAG-TATGAG
88984181 GTCCCGTATA
Statistics
Matches: 170, Mismatches: 36, Indels: 26
0.73 0.16 0.11
Matches are distributed among these distances:
41 1 0.01
42 56 0.33
43 2 0.01
44 6 0.04
46 4 0.02
47 5 0.03
48 94 0.55
49 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (48 bp):
AAGACCATATCTGGGATATGGCATTGGCATCAGTATGAGACTTCATGT
Found at i:88984203 original size:48 final size:48
Alignment explanation
Indices: 88984024--88984213 Score: 163
Period size: 48 Copynumber: 4.0 Consensus size: 48
88984014 TTGGGACATG
* * *
88984024 GCATCGATAT-ATGGTCCCGTATAAGACCATGTCTGTGACATGGCA-TC
1 GCATCGATATGA-GGTCCCGTATAAGACCATATCTGGGACATGGCATTA
* * * * * * *
88984071 GACACCGTTATGA-GACTTCGTGTAAGACCATATCTGGGATATGGCATTG
1 G-CATCGATATGAGGTC-CCGTATAAGACCATATCTGGGACATGGCATTA
* * * * *
88984120 GCATC-AGTATGAGATCCCATGTAAGCCCATATCTGGGATATGGCATTA
1 GCATCGA-TATGAGGTCCCGTATAAGACCATATCTGGGACATGGCATTA
* *
88984168 GCATCGATATGAGGTCCCGTATAAGGCCATGTCTGGGACATGGCAT
1 GCATCGATATGAGGTCCCGTATAAGACCATATCTGGGACATGGCAT
88984214 CGGCACCGTT
Statistics
Matches: 113, Mismatches: 23, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
47 3 0.03
48 105 0.93
49 5 0.04
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (48 bp):
GCATCGATATGAGGTCCCGTATAAGACCATATCTGGGACATGGCATTA
Found at i:88993261 original size:53 final size:53
Alignment explanation
Indices: 88993191--88993330 Score: 201
Period size: 53 Copynumber: 2.6 Consensus size: 53
88993181 CACATATCAT
* * *
88993191 ACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTATCACATTAT
1 ACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTATCACATTAC
* * *
88993244 ATCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTATCACATTGC
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTATCACATTAC
*
88993297 ACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 ACCGATGCCATAGCCCAGCTATGGTCTTATACGG
88993331 GCGCACTTAT
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
52 1 0.01
53 77 0.99
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (53 bp):
ACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTATCACATTAC
Found at i:89000714 original size:53 final size:53
Alignment explanation
Indices: 89000633--89000783 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
89000623 CTTACACGGT
* *
89000633 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
89000688 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** * *
89000741 TCACATTGCACTGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
89000784 GCGCACTTAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
52 1 0.01
53 80 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:89016928 original size:10 final size:9
Alignment explanation
Indices: 89016917--89016971 Score: 53
Period size: 10 Copynumber: 6.0 Consensus size: 9
89016907 TTTCAATTTA
89016917 ATAATTTTT
1 ATAATTTTT
89016926 AATATATTTTT
1 -ATA-ATTTTT
89016937 AT-A-TTTT
1 ATAATTTTT
89016944 AT-ATTTTGT
1 ATAATTTT-T
89016953 ATAATATTTT
1 ATAAT-TTTT
89016963 ATAATTTTT
1 ATAATTTTT
89016972 TGTTTTATAA
Statistics
Matches: 40, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
7 7 0.17
8 4 0.10
9 7 0.17
10 13 0.32
11 9 0.22
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (9 bp):
ATAATTTTT
Found at i:89022096 original size:20 final size:21
Alignment explanation
Indices: 89022071--89022109 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
89022061 TAAATTTTCC
89022071 TTTTCTT-TTTCTTTCCCTTT
1 TTTTCTTATTTCTTTCCCTTT
89022091 TTTTCTTATTTCTTTCCCT
1 TTTTCTTATTTCTTTCCCT
89022110 GCTATTCCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.72
Consensus pattern (21 bp):
TTTTCTTATTTCTTTCCCTTT
Found at i:89022825 original size:12 final size:12
Alignment explanation
Indices: 89022808--89022832 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
89022798 TAATTGAGAT
89022808 AAACTTTAAAAC
1 AAACTTTAAAAC
89022820 AAACTTTAAAAC
1 AAACTTTAAAAC
89022832 A
1 A
89022833 TTATAATGAT
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:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (12 bp):
AAACTTTAAAAC
Found at i:89023135 original size:29 final size:28
Alignment explanation
Indices: 89023073--89023135 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 28
89023063 CCAGCCTGAA
89023073 TATATTATATTATAAAAATTAAATATAT
1 TATATTATATTATAAAAATTAAATATAT
* * *
89023101 TA-ATTATA-TATTTAAAATTATATCTATT
1 TATATTATATTA-TAAAAATTAAATATA-T
89023129 TATATTA
1 TATATTA
89023136 AATCACTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 2 0.07
27 18 0.62
28 5 0.17
29 4 0.14
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (28 bp):
TATATTATATTATAAAAATTAAATATAT
Found at i:89034323 original size:3 final size:3
Alignment explanation
Indices: 89034315--89034442 Score: 68
Period size: 3 Copynumber: 43.0 Consensus size: 3
89034305 TTTTATTAAT
* * *
89034315 TTA TTA TTA TTA TGT- TTG TTA ATA TT- TTT TGTA TTA TTA TT- TCTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T-TA
* * * * *
89034360 TTA TTA CTA TCA CTA TTA TT- TTAA TTA GTA TTG TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
* * * * *
89034405 GTA GTA TTA CTA CTA TTA TTA TTA TTA TCA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
89034443 AATTAATTAG
Statistics
Matches: 96, Mismatches: 20, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
2 7 0.07
3 83 0.86
4 6 0.06
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:89036277 original size:36 final size:36
Alignment explanation
Indices: 89036231--89036302 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
89036221 AGGCTGATAG
*
89036231 TTCATGGAGGAAAATAAGACTTTACCTGAGGATTCA
1 TTCATAGAGGAAAATAAGACTTTACCTGAGGATTCA
89036267 TTCATAGAGGAAAATAAGACTTTACCTGAGGATTCA
1 TTCATAGAGGAAAATAAGACTTTACCTGAGGATTCA
89036303 AGTCGATAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (36 bp):
TTCATAGAGGAAAATAAGACTTTACCTGAGGATTCA
Found at i:89036627 original size:19 final size:19
Alignment explanation
Indices: 89036586--89036627 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
89036576 TACTTTTTTT
*
89036586 TGCATTCATTCCATGCATT
1 TGCATTCATTCCATGCATG
*
89036605 TGCATTGCATTGCAT-CATG
1 TGCATT-CATTCCATGCATG
89036624 TGCA
1 TGCA
89036628 CTAAACTTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (19 bp):
TGCATTCATTCCATGCATG
Found at i:89041321 original size:44 final size:43
Alignment explanation
Indices: 89041268--89041412 Score: 134
Period size: 44 Copynumber: 3.3 Consensus size: 43
89041258 CACCCTATCT
*
89041268 CCCTAAGCAGTAGTGGAGTAGGTTGAAGACGGTGAGCCTTAACC
1 CCCTAAGCAGTAGTGGAGTAGGTAGAA-ACGGTGAGCCTTAACC
* *** * * *
89041312 CCCTAAGCAGTAG-GGAAATAGGCTAGAAATCACAGA-TCTTATCT
1 CCCTAAGCAGTAGTGG-AGTAGG-TAGAAA-CGGTGAGCCTTAACC
*
89041356 CCCTAAGCAGTAGTGGAGTAGATCA-AATACGGTGAGCCTTAACC
1 CCCTAAGCAGTAGTGGAGTAGGT-AGAA-ACGGTGAGCCTTAACC
89041400 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
89041413 GGCAACAGGC
Statistics
Matches: 78, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
43 8 0.10
44 61 0.78
45 9 0.12
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.21
Consensus pattern (43 bp):
CCCTAAGCAGTAGTGGAGTAGGTAGAAACGGTGAGCCTTAACC
Found at i:89041394 original size:88 final size:88
Alignment explanation
Indices: 89041211--89042260 Score: 1366
Period size: 88 Copynumber: 11.9 Consensus size: 88
89041201 TGAATTCACT
* * * * * *
89041211 AGCCTTATCCCCCTAAGTAGTAGGGAAACAGGCTAAAAATGACAGACCACCCTATCTCCCTAAGC
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAG---ATCTTATCTCCCTAAGC
* * ** *
89041276 AGTAGTGGAGTAGGTTGAAGACGGTG
63 AGTAGTGGAGCAGATCAAATACGGTG
* *
89041302 AGCCTTAACCCCCTAAGCAGTAGGGAAATAGGCTAGAAATCACAGATCTTATCTCCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTTATCTCCCTAAGCAGT
*
89041367 AGTGGAGTAGATCAAATACGGTG
66 AGTGGAGCAGATCAAATACGGTG
*
89041390 AGCCTTAACCCCCTAAGCAGTAGGGCAACAGGCTAGAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTTATCTCCCTAAGCAGT
* *
89041455 AGTGGAGCAGATCGAAGACGGTG
66 AGTGGAGCAGATCAAATACGGTG
* * * * * *
89041478 AGCCTTAACCGCCTAAGTACTAGAGAAACAGGCTAGAAATCACAGATCTTATCTCTCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTTATCTCCCTAAGCAGT
* *
89041543 AGTGAAGTAGATCAAATACGGTG
66 AGTGGAGCAGATCAAATACGGTG
* * *
89041566 AGCCTTAACCCCTTAAGCAGTAGAGCAACAGGCTAGAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTTATCTCCCTAAGCAGT
* *
89041631 AGTGGAGCAAATCAAAGACGGTG
66 AGTGGAGCAGATCAAATACGGTG
* *
89041654 AACCTTAACCCCCTAAGCAGTAGGGAAACAGGCT-GAAAATTACAGATCTTATCTCCCTAAGTAG
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAG-AAATTACAGATCTTATCTCCCTAAGCAG
*
89041718 TAGTGGAGTAGATCAAATACGGTG
65 TAGTGGAGCAGATCAAATACGGTG
* * * * * * **
89041742 AGCTTTAACCCCCTAAGCAGTAGGGCAACATGCTAAAAATTATAGATTTTATCTCTTTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTTATCTCCCTAAGCAGT
* *
89041807 AGTGGAGCAGATCGAATACAGTG
66 AGTGGAGCAGATCAAATACGGTG
* * **
89041830 AGCCTTAACCCCC-AAGCAATAGGGAAACAGGCTAGAAATCACAGATCTTATCTCCCTAAATAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTTATCTCCCTAAGCAGT
*
89041894 AGTGGAGTAGATCAAATACGGTG
66 AGTGGAGCAGATCAAATACGGTG
* * * * *
89041917 AGCCTTAACCCCCTAAGCAGTATGGCAACAGGCTGGAAATTACAAATCTTATCTCCCTAAACAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTTATCTCCCTAAGCAGT
* *
89041982 AGTGGAGCAGATCGAAGACGGTG
66 AGTGGAGCAGATCAAATACGGTG
* * * * *
89042005 AGCCTTAACCCTCTAAGCAGTAGGGCAACAGGCTAAAAATTACAGATTTTATCTCCCTAAGCAAT
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTTATCTCCCTAAGCAGT
* *
89042070 AGTGGAGCAGATCGAATATGGTG
66 AGTGGAGCAGATCAAATACGGTG
* * * * * *
89042093 AACCTGAACCCTCTAAGCAGTAAGGAAATAGGCTGGAAATTACAGATCTTATCTCCCTAAGCAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTTATCTCCCTAAGCAGT
* * *
89042158 GGTGGAGCAGATCGAAGACGGTG
66 AGTGGAGCAGATCAAATACGGTG
* * * *
89042181 AGCCTTATCCCCCTAAGCAGTAGGGAAATAGGCTAGAAATTACAAATCTTATCTCCCTAAGTAGT
1 AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTTATCTCCCTAAGCAGT
*
89042246 AATGGAGCAGATCAA
66 AGTGGAGCAGATCAA
89042261 GGACAGTAAG
Statistics
Matches: 838, Mismatches: 118, Indels: 9
0.87 0.12 0.01
Matches are distributed among these distances:
87 74 0.09
88 724 0.86
91 40 0.05
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (88 bp):
AGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTTATCTCCCTAAGCAGT
AGTGGAGCAGATCAAATACGGTG
Found at i:89041448 original size:44 final size:43
Alignment explanation
Indices: 89041312--89042246 Score: 153
Period size: 44 Copynumber: 21.3 Consensus size: 43
89041302 AGCCTTAACC
* *
89041312 CCCTAAGCAGTAGGGAAATAGGCTAGAAATCACAGATCTTATCT
1 CCCTAAGCAGTAGGG-AACAGGCTAGAAATTACAGATCTTATCT
** * * * * * *
89041356 CCCTAAGCAGTAGTGGAGTA-GAT-CAAA-TACGGTGAGCCTTAACC
1 CCCTAAGCAGTAG-GGAACAGGCTAGAAATTAC--AGA-TCTTATCT
89041400 CCCTAAGCAGTAGGGCAACAGGCTAGAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGGG-AACAGGCTAGAAATTACAGATCTTATCT
* * * * * * *
89041444 CCCTAAGCAGTAGTGGAGCA-GATCG-AA-GACGGTGAGCCTTAAC-
1 CCCTAAGCAGTAG-GGAACAGGCTAGAAATTAC--AGA-TCTTATCT
* * * *
89041487 CGCCTAAGTACTAGAGAAACAGGCTAGAAATCACAGATCTTATCT
1 C-CCTAAGCAGTAG-GGAACAGGCTAGAAATTACAGATCTTATCT
* * * * * *
89041532 CTCTAAGCAGTAGTG-A-A-G-TAGATCAAATACGGTGAGCCTTAAC-
1 CCCTAAGCAGTAGGGAACAGGCTAGA--AATTAC--AGA-TCTTATCT
*
89041575 CCCTTAAGCAGTAGAGCAACAGGCTAGAAATTACAGATCTTATCT
1 CCC-TAAGCAGTAG-GGAACAGGCTAGAAATTACAGATCTTATCT
* ** * * * * * *
89041620 CCCTAAGCAGTAGTGGAGCA-AAT-CAAA-GACGGTGAACCTTAACC
1 CCCTAAGCAGTAG-GGAACAGGCTAGAAATTAC--AG-ATCTTATCT
89041664 CCCTAAGCAGTAGGGAAACAGGCT-GAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGGG-AACAGGCTAG-AAATTACAGATCTTATCT
* ** * * * * * *
89041708 CCCTAAGTAGTAGTGGAGTA-GAT-CAAA-TACGGTGAGCTTTAACC
1 CCCTAAGCAGTAG-GGAACAGGCTAGAAATTAC--AGATC-TTATCT
* * * *
89041752 CCCTAAGCAGTAGGGCAACATGCTAAAAATTATAGATTTTATCT
1 CCCTAAGCAGTAGGG-AACAGGCTAGAAATTACAGATCTTATCT
** * * * * *
89041796 CTTTAAGCAGTAGTGGAGCA-GATCG-AA-TACAGTGAGCCTTAAC-
1 CCCTAAGCAGTAG-GGAACAGGCTAGAAATTACA--GA-TCTTATCT
* * *
89041839 CCCCAAGCAATAGGGAAACAGGCTAGAAATCACAGATCTTATCT
1 CCCTAAGCAGTAGGG-AACAGGCTAGAAATTACAGATCTTATCT
** ** * * * * * *
89041883 CCCTAAATAGTAGTGGAGTA-GAT-CAAA-TACGGTGAGCCTTAACC
1 CCCTAAGCAGTAG-GGAACAGGCTAGAAATTAC--AGA-TCTTATCT
* * *
89041927 CCCTAAGCAGTATGGCAACAGGCTGGAAATTACAAATCTTATCT
1 CCCTAAGCAGTA-GGGAACAGGCTAGAAATTACAGATCTTATCT
* * * * * * * *
89041971 CCCTAAACAGTAGTGGAGCA-GATCG-AA-GACGGTGAGCCTTAAC-
1 CCCTAAGCAGTAG-GGAACAGGCTAGAAATTAC--AGA-TCTTATCT
* *
89042014 CCTCTAAGCAGTAGGGCAACAGGCTAAAAATTACAGATTTTATCT
1 CC-CTAAGCAGTAGGG-AACAGGCTAGAAATTACAGATCTTATCT
* * * * * * * *
89042059 CCCTAAGCAATAGTGGAGCA-GATCGAATATGGT-GA-ACCTGAAC-
1 CCCTAAGCAGTAG-GGAACAGGCTAGAA-AT--TACAGATCTTATCT
* * *
89042102 CCTCTAAGCAGTAAGGAAATAGGCTGGAAATTACAGATCTTATCT
1 CC-CTAAGCAGT-AGGGAACAGGCTAGAAATTACAGATCTTATCT
* * * * * * * *
89042147 CCCTAAGCAGTGGTGGAGCA-GATCG-AA-GACGGTGAGCCTTATCC
1 CCCTAAGCAGTAG-GGAACAGGCTAGAAATTAC--AGA-TCTTATCT
* *
89042191 CCCTAAGCAGTAGGGAAATAGGCTAGAAATTACAAATCTTATCT
1 CCCTAAGCAGTAGGG-AACAGGCTAGAAATTACAGATCTTATCT
*
89042235 CCCTAAGTAGTA
1 CCCTAAGCAGTA
89042247 ATGGAGCAGA
Statistics
Matches: 605, Mismatches: 197, Indels: 178
0.62 0.20 0.18
Matches are distributed among these distances:
39 4 0.01
40 1 0.00
41 23 0.04
42 24 0.04
43 76 0.13
44 368 0.61
45 59 0.10
46 23 0.04
47 22 0.04
48 1 0.00
49 4 0.01
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.22
Consensus pattern (43 bp):
CCCTAAGCAGTAGGGAACAGGCTAGAAATTACAGATCTTATCT
Found at i:89043664 original size:3 final size:3
Alignment explanation
Indices: 89043656--89043782 Score: 50
Period size: 3 Copynumber: 43.0 Consensus size: 3
89043646 TTTTATTAAT
* *
89043656 TTA TTA TTA TTA TGT- TTG TTA TTA TT- TTT TGTA TTA TTA TT- TCTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T-TA
* * * * * *
89043701 TTA TTA CTA TCA CTA TTA TT- TTAA TTA GTA TTG TTA TTA TTA GTA
1 TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
* * * * * *
89043746 GTA GTA -TA CTA CTA CTA TTA TTA TTA TCA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
89043783 AATTAATTAG
Statistics
Matches: 98, Mismatches: 16, Indels: 20
0.73 0.12 0.15
Matches are distributed among these distances:
2 9 0.09
3 83 0.85
4 6 0.06
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:89043679 original size:15 final size:14
Alignment explanation
Indices: 89043632--89043697 Score: 64
Period size: 15 Copynumber: 4.7 Consensus size: 14
89043622 GGTGAACTTC
*
89043632 ATTATTACTTATGTT
1 ATTATTA-TTTTGTT
* * *
89043647 TTTATTAATTTATT
1 ATTATTATTTTGTT
89043661 ATTATTATGTTTGTT
1 ATTATTAT-TTTGTT
89043676 ATTATT-TTTTG-T
1 ATTATTATTTTGTT
89043688 ATTATTATTT
1 ATTATTATTT
89043698 CTATTATTAC
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
12 7 0.17
13 7 0.17
14 11 0.26
15 17 0.40
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.68
Consensus pattern (14 bp):
ATTATTATTTTGTT
Found at i:89043705 original size:15 final size:14
Alignment explanation
Indices: 89043648--89043706 Score: 59
Period size: 15 Copynumber: 4.2 Consensus size: 14
89043638 ACTTATGTTT
*
89043648 TTATTAATTTATTA
1 TTATTATTTTATTA
*
89043662 TTATTATGTTTGTTA
1 TTATTAT-TTTATTA
*
89043677 TTATT-TTTT-GTA
1 TTATTATTTTATTA
89043689 TTATTATTTCTATTA
1 TTATTATTT-TATTA
89043704 TTA
1 TTA
89043707 CTATCACTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
12 7 0.19
13 6 0.16
14 8 0.22
15 16 0.43
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (14 bp):
TTATTATTTTATTA
Found at i:89045989 original size:29 final size:27
Alignment explanation
Indices: 89045933--89045994 Score: 63
Period size: 27 Copynumber: 2.2 Consensus size: 27
89045923 ATAATTTGAG
*
89045933 ATTTTTTTTATATTTTGTGGTTATAGA
1 ATTTTTTTTATATTTTGTGGTTAAAGA
*
89045960 ATTTTTTTTCGTA-TTTGTGCGTATAAAGA
1 ATTTTTTTT-ATATTTTGTG-GT-TAAAGA
*
89045989 AGTTTT
1 ATTTTT
89045995 ATGATAATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 15 0.52
28 4 0.14
29 10 0.34
ACGTcount: A:0.23, C:0.03, G:0.16, T:0.58
Consensus pattern (27 bp):
ATTTTTTTTATATTTTGTGGTTAAAGA
Found at i:89064908 original size:12 final size:12
Alignment explanation
Indices: 89064893--89065014 Score: 59
Period size: 12 Copynumber: 10.6 Consensus size: 12
89064883 TTTATCAAAA
89064893 TAAATATTAAAT
1 TAAATATTAAAT
89064905 TAAAT-TTAACAT
1 TAAATATTAA-AT
*
89064917 TAAATCTT--AT
1 TAAATATTAAAT
89064927 T-AA-ATT-AAT
1 TAAATATTAAAT
* *
89064936 AAAATATT-TAT
1 TAAATATTAAAT
* *
89064947 CTACAAGATAAACAT
1 -TA-AATATTAA-AT
89064962 TAAA--TTAAAT
1 TAAATATTAAAT
89064972 TAAATATTAAGA-
1 TAAATATTAA-AT
*
89064984 TAAGTATTAAAT
1 TAAATATTAAAT
89064996 TAAAT-TTAATAT
1 TAAATATTAA-AT
89065008 TAAATAT
1 TAAATAT
89065015 ATCAAAATAA
Statistics
Matches: 85, Mismatches: 10, Indels: 29
0.69 0.08 0.23
Matches are distributed among these distances:
8 2 0.02
9 4 0.05
10 11 0.13
11 17 0.20
12 37 0.44
13 10 0.12
14 2 0.02
15 2 0.02
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (12 bp):
TAAATATTAAAT
Found at i:89064981 original size:62 final size:59
Alignment explanation
Indices: 89064866--89064981 Score: 169
Period size: 62 Copynumber: 1.9 Consensus size: 59
89064856 TCACTTAAAC
* * *
89064866 ATTAAATTAATATAATATTTATCAAAATAAATATTAAATTAAATTTAACATTAAATCTT
1 ATTAAATTAATAAAATATTTATCAAAATAAACATTAAATTAAATTAAACATTAAATCTT
*
89064925 ATTAAATTAATAAAATATTTATCTACAAGATAAACATTAAATTAAATTAAATATTAA
1 ATTAAATTAATAAAATATTTATC-A-AA-ATAAACATTAAATTAAATTAAACATTAA
89064982 GATAAGTATT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 22 0.44
60 1 0.02
61 2 0.04
62 25 0.50
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (59 bp):
ATTAAATTAATAAAATATTTATCAAAATAAACATTAAATTAAATTAAACATTAAATCTT
Found at i:89064984 original size:29 final size:29
Alignment explanation
Indices: 89064951--89065010 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
89064941 ATTTATCTAC
89064951 AAGATAAACATTAAATTAAATTAAATATT
1 AAGATAAACATTAAATTAAATTAAATATT
** *
89064980 AAGATAAGTATTAAATTAAATTTAATATT
1 AAGATAAACATTAAATTAAATTAAATATT
89065009 AA
1 AA
89065011 ATATATCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (29 bp):
AAGATAAACATTAAATTAAATTAAATATT
Found at i:89066792 original size:11 final size:11
Alignment explanation
Indices: 89066773--89066801 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
89066763 TATTTTGTGA
89066773 AAAAT-AAAAT
1 AAAATAAAAAT
89066783 AAAATAAAAAT
1 AAAATAAAAAT
89066794 AAAATAAA
1 AAAATAAA
89066802 GAACACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:89068661 original size:88 final size:88
Alignment explanation
Indices: 89068512--89069485 Score: 1369
Period size: 88 Copynumber: 11.1 Consensus size: 88
89068502 TAACAACTGG
* *
89068512 AGATCAAATACGGTGAGCCTTAACCCCCTAAGCAGTAGGGAAATAGGCTAGAAATCACAGATCTT
1 AGATCAAATACGGTGAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTT
*
89068577 ATCTCCCTAAGCAGTAGTGGAGT
66 ATCTCCCTAAGCAGTAGTGGAGC
*
89068600 AGATCAAATACGGTGAGCCTTAACCCCCTAAGCAGTAGGGCAACAGGCTAGAAATTACAGATCTT
1 AGATCAAATACGGTGAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTT
89068665 ATCTCCCTAAGCAGTAGTGGAGC
66 ATCTCCCTAAGCAGTAGTGGAGC
* * * * * *
89068688 AGATCGAAGACGGTGAGCCTTAACCGCCTAAGTACTAGGGAAACAGGCTAGAAATCACAGATCTT
1 AGATCAAATACGGTGAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTT
* * *
89068753 ATCTCTCTAAGCAGTAGTGAAGT
66 ATCTCCCTAAGCAGTAGTGGAGC
* * *
89068776 AGATCAAATACGGTGAGCCTTAACCCCTTAAGCAGTAGAGCAACAGGCTAGAAATTACAGATCTT
1 AGATCAAATACGGTGAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTT
89068841 ATCTCCCTAAGCAGTAGTGGAGC
66 ATCTCCCTAAGCAGTAGTGGAGC
* ** * *
89068864 AAATTGAAGACGGTGAACCTTAACCCCCTAAGCAGTAGGGAAACAGGCT-GAAAATTACAGATCT
1 AGATCAAATACGGTGAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAG-AAATTACAGATCT
* *
89068928 TATCTCCCTAAGTAGTAGTGGAGT
65 TATCTCCCTAAGCAGTAGTGGAGC
* * * * *
89068952 AGATCAAATACGGTGAGCTTTAACCCCCTAAGCAGTAGGGCAACATGCT-GAAAATTATAGATTT
1 AGATCAAATACGGTGAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAG-AAATTACAGATCT
*
89069016 TATCTCCTTAAGCAGTAGTGGAGC
65 TATCTCCCTAAGCAGTAGTGGAGC
* * *
89069040 AGATCGAATACAGTGAGCCTTAACCCCC-AAGCAGTAGGGAAACAGGCTAGAAATCACAGATCTT
1 AGATCAAATACGGTGAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTT
** *
89069104 ATCTCCCTAAATAGTAGTGGAGT
66 ATCTCCCTAAGCAGTAGTGGAGC
* * *
89069127 AGATCAAATACGGTGAGCCTTAACCCCCTAAGCAGTAGGGCAACAGGCTGGAAATTACAAATCTT
1 AGATCAAATACGGTGAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTT
89069192 ATCTCCCTAAGCAGTAGTGGAGC
66 ATCTCCCTAAGCAGTAGTGGAGC
* * * * * *
89069215 AGATCGAAGACGGTGAGCCTTAACCCTCTAAGCAGTAGGGCAACAGGCTAAAAATTACAGATTTT
1 AGATCAAATACGGTGAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTT
*
89069280 ATCTCCCTAAGCAATAGTGGAGC
66 ATCTCCCTAAGCAGTAGTGGAGC
* * * * * * *
89069303 AGATCGAATATGGTGAACCTGAACCCCCTAAGCAGTAAGGAAATAGGCTGGAAATTACAGATCTT
1 AGATCAAATACGGTGAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTT
*
89069368 ATCTCCCTAAGCAGTGGTGGAGC
66 ATCTCCCTAAGCAGTAGTGGAGC
* * * * *
89069391 AGATCGAAGACGGTGAGCCTTATCCCCCTAAGCAGTAGGGAAATAGGCTAGAAATTACAAATCTT
1 AGATCAAATACGGTGAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTT
* *
89069456 ATCTCCCTAAGTAGTAATGGAGC
66 ATCTCCCTAAGCAGTAGTGGAGC
89069479 AGATCAA
1 AGATCAA
89069486 GGACAGTAAG
Statistics
Matches: 780, Mismatches: 103, Indels: 6
0.88 0.12 0.01
Matches are distributed among these distances:
87 75 0.10
88 705 0.90
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (88 bp):
AGATCAAATACGGTGAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAGAAATTACAGATCTT
ATCTCCCTAAGCAGTAGTGGAGC
Found at i:89070687 original size:3 final size:3
Alignment explanation
Indices: 89070659--89070728 Score: 54
Period size: 3 Copynumber: 23.7 Consensus size: 3
89070649 TTTCAATCAC
* * * * * *
89070659 TAT TAT T-T TAAT TAG TAT TGT TAT TAT TAT TAG TAG TAT TAC TAC
1 TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
89070704 TAT TAT TAT TAT TAT CA- TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
89070729 AATTAATTAG
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
2 3 0.06
3 49 0.91
4 2 0.04
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.57
Consensus pattern (3 bp):
TAT
Found at i:89072963 original size:29 final size:27
Alignment explanation
Indices: 89072907--89072968 Score: 63
Period size: 27 Copynumber: 2.2 Consensus size: 27
89072897 ATAATTTGAG
*
89072907 ATTTTTTTTATATTTTGTGGTTATAGA
1 ATTTTTTTTATATTTTGTGGTTAAAGA
*
89072934 ATTTTTTTTCGTA-TTTGTGCGTATAAAGA
1 ATTTTTTTT-ATATTTTGTG-GT-TAAAGA
*
89072963 AGTTTT
1 ATTTTT
89072969 ATGATAATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 15 0.52
28 4 0.14
29 10 0.34
ACGTcount: A:0.23, C:0.03, G:0.16, T:0.58
Consensus pattern (27 bp):
ATTTTTTTTATATTTTGTGGTTAAAGA
Found at i:89091877 original size:12 final size:12
Alignment explanation
Indices: 89091862--89091983 Score: 59
Period size: 12 Copynumber: 10.6 Consensus size: 12
89091852 TTTATCAAAA
89091862 TAAATATTAAAT
1 TAAATATTAAAT
89091874 TAAAT-TTAACAT
1 TAAATATTAA-AT
*
89091886 TAAATCTT--AT
1 TAAATATTAAAT
89091896 T-AA-ATT-AAT
1 TAAATATTAAAT
* *
89091905 AAAATATT-TAT
1 TAAATATTAAAT
* *
89091916 CTACAAGATAAACAT
1 -TA-AATATTAA-AT
89091931 TAAA--TTAAAT
1 TAAATATTAAAT
89091941 TAAATATTAAGA-
1 TAAATATTAA-AT
*
89091953 TAAGTATTAAAT
1 TAAATATTAAAT
89091965 TAAAT-TTAATAT
1 TAAATATTAA-AT
89091977 TAAATAT
1 TAAATAT
89091984 ATCAAAATAA
Statistics
Matches: 85, Mismatches: 10, Indels: 29
0.69 0.08 0.23
Matches are distributed among these distances:
8 2 0.02
9 4 0.05
10 11 0.13
11 17 0.20
12 37 0.44
13 10 0.12
14 2 0.02
15 2 0.02
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (12 bp):
TAAATATTAAAT
Found at i:89091950 original size:62 final size:59
Alignment explanation
Indices: 89091835--89091950 Score: 169
Period size: 62 Copynumber: 1.9 Consensus size: 59
89091825 TCACTTAAAC
* * *
89091835 ATTAAATTAATATAATATTTATCAAAATAAATATTAAATTAAATTTAACATTAAATCTT
1 ATTAAATTAATAAAATATTTATCAAAATAAACATTAAATTAAATTAAACATTAAATCTT
*
89091894 ATTAAATTAATAAAATATTTATCTACAAGATAAACATTAAATTAAATTAAATATTAA
1 ATTAAATTAATAAAATATTTATC-A-AA-ATAAACATTAAATTAAATTAAACATTAA
89091951 GATAAGTATT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 22 0.44
60 1 0.02
61 2 0.04
62 25 0.50
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (59 bp):
ATTAAATTAATAAAATATTTATCAAAATAAACATTAAATTAAATTAAACATTAAATCTT
Found at i:89091953 original size:29 final size:29
Alignment explanation
Indices: 89091920--89091979 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
89091910 ATTTATCTAC
89091920 AAGATAAACATTAAATTAAATTAAATATT
1 AAGATAAACATTAAATTAAATTAAATATT
** *
89091949 AAGATAAGTATTAAATTAAATTTAATATT
1 AAGATAAACATTAAATTAAATTAAATATT
89091978 AA
1 AA
89091980 ATATATCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.37
Consensus pattern (29 bp):
AAGATAAACATTAAATTAAATTAAATATT
Found at i:89093762 original size:11 final size:11
Alignment explanation
Indices: 89093743--89093771 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
89093733 TATTTTGTGA
89093743 AAAAT-AAAAT
1 AAAATAAAAAT
89093753 AAAATAAAAAT
1 AAAATAAAAAT
89093764 AAAATAAA
1 AAAATAAA
89093772 GAACACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:89099918 original size:2 final size:2
Alignment explanation
Indices: 89099875--89099906 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
89099865 GATTGAATGA
89099875 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
89099907 GAAGAGATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:89109927 original size:38 final size:38
Alignment explanation
Indices: 89109832--89109939 Score: 135
Period size: 38 Copynumber: 2.8 Consensus size: 38
89109822 GGCTTAAAGA
** * *
89109832 CCCGCAGGCTTCGTGCTGGTAAAATATCTGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
*
89109870 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAATT
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
* * * *
89109908 CCCGCAGGCCTAGTACTGGTATTATATTCGGG
1 CCCGCAGGCTTCGTGCTGGTATTATATCCGGG
89109940 CCATCGTGCC
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 61 1.00
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.30
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCCGGGATAAAT
Found at i:89113522 original size:46 final size:45
Alignment explanation
Indices: 89113455--89113629 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
89113445 TGTAACCCGC
*
89113455 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * * *
89113501 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-G-GGCTTCGCAT
* *** * **
89113547 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
*
89113594 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
89113630 ATGCCCAAAT
Statistics
Matches: 104, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
45 1 0.01
46 68 0.65
47 33 0.32
48 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:89113574 original size:93 final size:93
Alignment explanation
Indices: 89113462--89113634 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
89113452 CGCCCATAAG
** *
89113462 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
89113527 ACGAGCTCAGATGCCTAGTTACATCTCT
66 ACGAGCTCAGATGCCTAGTTACATCTCT
*
89113555 CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
89113620 ACGAGTTCGGATGCC
66 ACGAGCTCAGATGCC
89113635 CAAATATCCC
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCAGATGCCTAGTTACATCTCT
Found at i:89117434 original size:12 final size:12
Alignment explanation
Indices: 89117398--89117435 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
89117388 GGTCAAATCC
*
89117398 AAAAAAGAAACG
1 AAAAAAGAAAAG
89117410 AAAAAA-AAGAAG
1 AAAAAAGAA-AAG
89117422 AAAAAAGAAAAG
1 AAAAAAGAAAAG
89117434 AA
1 AA
89117436 TCAAAACAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 2 0.09
12 19 0.83
13 2 0.09
ACGTcount: A:0.82, C:0.03, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:89119988 original size:47 final size:47
Alignment explanation
Indices: 89119855--89120061 Score: 184
Period size: 47 Copynumber: 4.3 Consensus size: 47
89119845 ATAGTAAAAC
** * *
89119855 TATGGTCTTGCACA-TAGTCACATATCACATACCGAGGCCATAGCCCAGC
1 TATGGTCTTATACAGTAG-CACATATCAC--ACCGATGCCATAGCCCAGA
* * * * * *
89119904 CATGGTCTTACAC-GGATCACATATCACACTGATGCCATATCCCAGA
1 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
* *
89119950 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCGGA
1 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
* * * *
89119997 TATGGTCTTATACTGAAGCACATATCACATTTCTCCGAAGCCATAGCCCAGC
1 TATGGTCTTATACAGTAGCACATATCACA-----CCGATGCCATAGCCCAGA
89120049 TATGGTCTTATAC
1 TATGGTCTTATAC
89120062 GGAAATCACA
Statistics
Matches: 131, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
46 26 0.20
47 56 0.43
48 10 0.08
49 12 0.09
52 27 0.21
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (47 bp):
TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
Found at i:89122072 original size:44 final size:43
Alignment explanation
Indices: 89121965--89122251 Score: 143
Period size: 44 Copynumber: 6.4 Consensus size: 43
89121955 TTCAACCTGT
* * *
89121965 TCCACTACTGCTTAGGGACACAAGGTTTGTATCTTC-AACTTGC
1 TCCACTACTGCTTAGGGAGATAAGGTTTGTATCTTCGATC-TGC
* * ** *
89122008 T-CTCTGCAACTTCAGAGAGATAAGGTTTGCTATCTTCGATCTGC
1 TCCACTACTGCTT-AGGGAGATAAGGTTTG-TATCTTCGATCTGC
* * * * **
89122052 TCCACTACTGCTTAGGGAGATAAGATCTTGTAATCCTCCAGCCTTT
1 TCCACTACTGCTTAGGGAGATAAGGT-TTGT-ATCTTCGA-TCTGC
*
89122098 TACC-CTACTGCTTAGGGAGTTAAAGCCTGCTTAT-TATCTTCGATCTGC
1 T-CCACTACTGCTTAGGGAGAT-AAG---G-TT-TGTATCTTCGATCTGC
* * * *
89122146 TCCACTGCTGCTTAGGGAGATAAGATCTGTAATCTTC-AGCTTGC
1 TCCACTACTGCTTAGGGAGATAAGGTTTGT-ATCTTCGATC-TGC
* * * ** * *
89122190 TCCACTGCTGCTCAGGGAGATAAAGCTTTCCATTTTCGATCCGC
1 TCCACTACTGCTTAGGGAGAT-AAGGTTTGTATCTTCGATCTGC
* *
89122234 TCCATTATTGCTTAGGGA
1 TCCACTACTGCTTAGGGA
89122252 AATAGGATCT
Statistics
Matches: 181, Mismatches: 43, Indels: 39
0.69 0.16 0.15
Matches are distributed among these distances:
42 8 0.04
43 18 0.10
44 73 0.40
45 25 0.14
46 19 0.10
47 10 0.06
48 18 0.10
49 6 0.03
50 2 0.01
51 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (43 bp):
TCCACTACTGCTTAGGGAGATAAGGTTTGTATCTTCGATCTGC
Found at i:89122249 original size:88 final size:92
Alignment explanation
Indices: 89122039--89122440 Score: 286
Period size: 90 Copynumber: 4.5 Consensus size: 92
89122029 AAGGTTTGCT
*
89122039 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTGTAATCCTCCAGCCTTTTACCCT
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC-TGTAATCCTCCAGCCTTCTACCCT
* * **
89122104 ACTGCTTAGGGAGTTAAAGCCTGCTTATT
65 ACTGCTCAGGGAGATAAAGCCT-CTTACC
* *
89122133 ATCTTCGATCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGTAAT-CTTCAG-CTTGCT-CCAC
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCCTCCAGCCTT-CTACC-C
*
89122195 TGCTGCTCAGGGAGATAAAG-CT-TT-CC
64 TACTGCTCAGGGAGATAAAGCCTCTTACC
* * * * * * * **
89122221 ATTTTCGATCCGCTCCATTATTGCTTAGGGAAATAGGATCTGT--T--TTCAGTCAGT-TACCCT
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCCTCCAG-CCTTCTACCCT
* * * *
89122281 ATTGCTTAGGG-G-TTAAGACTC--ACC
65 ACTGCTCAGGGAGATAAAGCCTCTTACC
* * * ** *
89122305 ATCTTTGATCTGCTCCACTATTGCTTAGGGAGATAAAGATCTGTCATTTTCTC-GCATAT-TACC
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGAT-AAGATCTGTAATCCTC-CAGCCT-TCTACC
* * * * * *
89122368 CTACTACTTAGGG-GGTTAAGGCTC--ATC
63 CTACTGCTCAGGGAGATAAAGCCTCTTACC
*
89122395 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
1 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
89122441 TCTCGATCCA
Statistics
Matches: 255, Mismatches: 37, Indels: 37
0.78 0.11 0.11
Matches are distributed among these distances:
83 4 0.02
84 34 0.13
85 24 0.09
86 3 0.01
87 2 0.01
88 38 0.15
89 32 0.13
90 42 0.16
91 7 0.03
92 24 0.09
93 6 0.02
94 39 0.15
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.34
Consensus pattern (92 bp):
ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCCTCCAGCCTTCTACCCTA
CTGCTCAGGGAGATAAAGCCTCTTACC
Found at i:89122447 original size:44 final size:44
Alignment explanation
Indices: 89122043--89122480 Score: 169
Period size: 44 Copynumber: 9.9 Consensus size: 44
89122033 TTTGCTATCT
*
89122043 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTGTAATCC
1 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATC-TGTAATTC
* * ** * * *
89122088 TCCAGCCTTTTACC-CTACTGCTTAGGGAGTTAA-AGCCTGCTTATTATC
1 TCGA-TCTGCT-CCACTACTGCTTAGGGAGATAAGA-TCTG--TAAT-TC
*
89122136 TTCGATCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGTAA-TC
1 -TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTC
* * * * * * *
89122180 TTC-AGCTTGCTCCACTGCTGCTCAGGGAGATAA-AGCTTTCCATTT
1 -TCGATC-TGCTCCACTACTGCTTAGGGAGATAAGATCTGT-AATTC
* * * * *
89122225 TCGATCCGCTCCATTATTGCTTAGGGAAATAGGATCTGT--TT-
1 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTC
* * * * *
89122266 TC-AGTCAGTTACC-CTATTGCTTAGGG-GTTAAGA-CT-CACCA-TC
1 TCGA-TCTGCT-CCACTACTGCTTAGGGAGATAAGATCTGTA--ATTC
* * *
89122308 TTTGATCTGCTCCACTATTGCTTAGGGAGATAAAGATCTGTCATTTTC
1 -TCGATCTGCTCCACTACTGCTTAGGGAGAT-AAGATCTGT-A-ATTC
* * * * * *
89122356 TCGCATAT--TACC-CTACTACTTAGGGGGTTAAG-GC--TCATCGTC
1 TCG-ATCTGCT-CCACTACTGCTTAGGGAGATAAGATCTGTAAT--TC
89122398 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTC
1 -TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTC
** * *
89122443 TCGATCCACTCCACTATTGCTTAGGGAGATAGGATCTG
1 TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
89122481 CCGATATTTA
Statistics
Matches: 287, Mismatches: 65, Indels: 83
0.66 0.15 0.19
Matches are distributed among these distances:
39 2 0.01
40 6 0.02
41 19 0.07
42 12 0.04
43 29 0.10
44 108 0.38
45 23 0.08
46 40 0.14
47 14 0.05
48 30 0.10
49 4 0.01
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (44 bp):
TCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTC
Found at i:89124083 original size:53 final size:53
Alignment explanation
Indices: 89123927--89124092 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 53
89123917 GACGAAAAAT
* **
89123927 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
89123979 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
89124032 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
89124086 TATGTGA
1 -ATGTGA
89124093 ACCGTGTAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 81 0.79
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:89131591 original size:53 final size:53
Alignment explanation
Indices: 89131435--89131600 Score: 221
Period size: 53 Copynumber: 3.1 Consensus size: 53
89131425 GACGAAAAAT
* **
89131435 ATGTGATAAGTGTG-C-CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATAA-TGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
89131487 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
1 ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
* * *
89131540 ATGTGATAATGTGATTCCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGA
1 ATGTGATAATGTGACTCCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A
89131594 TATGTGA
1 -ATGTGA
89131601 ACCGTGTAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
51 4 0.04
52 11 0.11
53 81 0.79
54 1 0.01
55 6 0.06
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (53 bp):
ATGTGATAATGTGACTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTATA
Found at i:89149278 original size:54 final size:54
Alignment explanation
Indices: 89149215--89149318 Score: 124
Period size: 53 Copynumber: 1.9 Consensus size: 54
89149205 TTACCCCAAG
89149215 CCCCTCAAAAAAAATTTC-TTTTACTTTGCCCCCAAATA-TTTTACTTCCTCCAAAT
1 CCCCTCAAAAAAAATTTCTTTTTA-TTT-CCCCCAAA-ACTTTTACTTCCTCCAAAT
* ** *
89149270 CCCC-CAAAATATTTTTCTTTTTATTTTCCCCAAAACTTTTACTTCCTCC
1 CCCCTCAAAAAAAATTTCTTTTTATTTCCCCCAAAACTTTTACTTCCTCC
89149319 TACACCCCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
52 1 0.02
53 20 0.47
54 13 0.30
55 9 0.21
ACGTcount: A:0.27, C:0.32, G:0.01, T:0.40
Consensus pattern (54 bp):
CCCCTCAAAAAAAATTTCTTTTTATTTCCCCCAAAACTTTTACTTCCTCCAAAT
Found at i:89149378 original size:39 final size:36
Alignment explanation
Indices: 89149335--89149407 Score: 101
Period size: 36 Copynumber: 1.9 Consensus size: 36
89149325 CCAAATTTTT
89149335 TTTCAAATTTATGTCTACTATGTATATTATTGAATTAAA
1 TTTCAAATTT-TG--TACTATGTATATTATTGAATTAAA
* *
89149374 TTTCACATTTTGTACTATTTATATTATTGAATTA
1 TTTCAAATTTTGTACTATGTATATTATTGAATTA
89149408 TTTAATCATG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
36 21 0.66
38 2 0.06
39 9 0.28
ACGTcount: A:0.33, C:0.08, G:0.07, T:0.52
Consensus pattern (36 bp):
TTTCAAATTTTGTACTATGTATATTATTGAATTAAA
Found at i:89149710 original size:19 final size:19
Alignment explanation
Indices: 89149686--89149723 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
89149676 AAAGTTAATA
89149686 ACAAATTTGATTACGGTGG
1 ACAAATTTGATTACGGTGG
*
89149705 ACAAATTTTATTACGGTGG
1 ACAAATTTGATTACGGTGG
89149724 GTGGTAGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.34
Consensus pattern (19 bp):
ACAAATTTGATTACGGTGG
Found at i:89152210 original size:42 final size:45
Alignment explanation
Indices: 89152148--89152310 Score: 156
Period size: 49 Copynumber: 3.6 Consensus size: 45
89152138 TCGTTTTCTT
** *
89152148 GATGCCATAGCCCAAATATGGTCTTACAC-AT-AT-TCATATATC
1 GATGCCATAGCCCAGCTATGGTCTTACACAATCATATCACATATC
*
89152190 GATGCCATAGCCTAGCTATGGTCTTACACGTAATCACATATCACATATC
1 GATGCCATAGCCCAGCTATGGTCTTACAC--AAT--CATATCACATATC
* *
89152239 GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCA-CT-
1 GATGCCATAGCCCAGCTATGGTCTTACAC-AAT--CATATCACATATC
* *
89152285 GATGCCATATCCCAGATATGGTCTTA
1 GATGCCATAGCCCAGCTATGGTCTTA
89152311 TACAGTAGCA
Statistics
Matches: 104, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
42 26 0.25
45 2 0.02
46 24 0.23
47 1 0.01
48 15 0.14
49 36 0.35
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (45 bp):
GATGCCATAGCCCAGCTATGGTCTTACACAATCATATCACATATC
Found at i:89152360 original size:47 final size:46
Alignment explanation
Indices: 89152190--89152357 Score: 201
Period size: 47 Copynumber: 3.6 Consensus size: 46
89152180 TTCATATATC
* * *
89152190 GATGCCATAGCCTAGCTATGGTCTTACACGTAATCACATATCACATAT
1 GATGCCATAGCCCAGATATGGTCTTACACGT-ATCACATATCACA-CT
* * *
89152238 CGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACT
1 -GATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACACT
* * * *
89152285 GATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACACT
1 GATGCCATAGCCCAGATATGGTCTTACAC-GTATCACATATCACACT
*
89152332 GATGCCATATCCCAGATATGGTCTTA
1 GATGCCATAGCCCAGATATGGTCTTA
89152358 TACGGAAATC
Statistics
Matches: 107, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
46 26 0.24
47 40 0.37
48 12 0.11
49 29 0.27
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (46 bp):
GATGCCATAGCCCAGATATGGTCTTACACGTATCACATATCACACT
Found at i:89152377 original size:93 final size:95
Alignment explanation
Indices: 89152148--89152357 Score: 238
Period size: 95 Copynumber: 2.3 Consensus size: 95
89152138 TCGTTTTCTT
* * * * *
89152148 GATGCCATAGCCCAAATATGGTCTTACAC-ATAT-TCATATAT--C-GATGCCATAGCCTAGCTA
1 GATGCCATAGCCCAGATATGGTCTTACACGA-ATCACATATCTCACTGATGCCATAGCCCAGATA
*
89152208 TGGTCTTACACGTAATCACATATCACATATC
65 TGGTCTTACACGTAAGCACATATCACATATC
* *
89152239 GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACTGATGCCATATCCCAGATAT
1 GATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCTCACTGATGCCATAGCCCAGATAT
* * *
89152304 GGTCTTATACAGT-AGCATATATCACA-CT-
66 GGTCTTACAC-GTAAGCACATATCACATATC
*
89152332 GATGCCATATCCCAGATATGGTCTTA
1 GATGCCATAGCCCAGATATGGTCTTA
89152358 TACGGAAATC
Statistics
Matches: 100, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
91 29 0.29
92 7 0.07
93 24 0.24
94 2 0.02
95 36 0.36
96 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (95 bp):
GATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCTCACTGATGCCATAGCCCAGATAT
GGTCTTACACGTAAGCACATATCACATATC
Found at i:89152429 original size:31 final size:31
Alignment explanation
Indices: 89152393--89152534 Score: 214
Period size: 31 Copynumber: 4.6 Consensus size: 31
89152383 CTTATAGACA
89152393 AAGCTACCA-TTATTCACTGATCAGGTAGCCG
1 AAGCTACCACTT-TTCACTGATCAGGTAGCCG
* *
89152424 GAGCTACCATTTTTCACTGATCAGGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGCCG
* * *
89152455 GAGCTACCACTTTTCACTGATCATGTAGCAG
1 AAGCTACCACTTTTCACTGATCAGGTAGCCG
*
89152486 AAGCTACAACTTTTCACTGATCAGGTAGCCG
1 AAGCTACCACTTTTCACTGATCAGGTAGCCG
89152517 AAGCTACCACTTTTCACT
1 AAGCTACCACTTTTCACT
89152535 TGTCATTTGT
Statistics
Matches: 101, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
31 99 0.98
32 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (31 bp):
AAGCTACCACTTTTCACTGATCAGGTAGCCG
Found at i:89152615 original size:50 final size:51
Alignment explanation
Indices: 89152510--89152638 Score: 215
Period size: 50 Copynumber: 2.5 Consensus size: 51
89152500 CACTGATCAG
* * *
89152510 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCATTGATCAGATAAGT
*
89152561 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCATTGATCAGATAAGT
89152611 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
89152639 TGCCATGGTC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
50 48 0.66
51 25 0.34
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTGTCATTGATCAGATAAGT
Found at i:89155786 original size:47 final size:48
Alignment explanation
Indices: 89155725--89155820 Score: 131
Period size: 47 Copynumber: 2.0 Consensus size: 48
89155715 TCATTAGGGA
* * * *
89155725 ATACATTGATTTGGCTTCGGGCCATGATTTTGG-ACTTCGGGTGCGAG
1 ATACATTAAGTTGGCTTCGGGCCATGATATTGGCACTTAGGGTGCGAG
* *
89155772 ATACATTAAGTTGGCTTTGGGCCATTATATTGGCACTTAGGGTGCGAG
1 ATACATTAAGTTGGCTTCGGGCCATGATATTGGCACTTAGGGTGCGAG
89155820 A
1 A
89155821 CTCCCGAGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
47 28 0.67
48 14 0.33
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.33
Consensus pattern (48 bp):
ATACATTAAGTTGGCTTCGGGCCATGATATTGGCACTTAGGGTGCGAG
Found at i:89160341 original size:95 final size:95
Alignment explanation
Indices: 89160178--89160370 Score: 386
Period size: 95 Copynumber: 2.0 Consensus size: 95
89160168 CATACATTGA
89160178 ACTTTATGTCACAAATTCTAGGTCTAAAATACATAGTCATAATGCCGGTGACTTGCGGAGGGCTT
1 ACTTTATGTCACAAATTCTAGGTCTAAAATACATAGTCATAATGCCGGTGACTTGCGGAGGGCTT
89160243 GAATCTTAAAGTGTGAGCGAGCTAGAACGT
66 GAATCTTAAAGTGTGAGCGAGCTAGAACGT
89160273 ACTTTATGTCACAAATTCTAGGTCTAAAATACATAGTCATAATGCCGGTGACTTGCGGAGGGCTT
1 ACTTTATGTCACAAATTCTAGGTCTAAAATACATAGTCATAATGCCGGTGACTTGCGGAGGGCTT
89160338 GAATCTTAAAGTGTGAGCGAGCTAGAACGT
66 GAATCTTAAAGTGTGAGCGAGCTAGAACGT
89160368 ACT
1 ACT
89160371 CCTTTTATTT
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 98 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (95 bp):
ACTTTATGTCACAAATTCTAGGTCTAAAATACATAGTCATAATGCCGGTGACTTGCGGAGGGCTT
GAATCTTAAAGTGTGAGCGAGCTAGAACGT
Found at i:89166228 original size:24 final size:24
Alignment explanation
Indices: 89166180--89166232 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
89166170 CTTGGTGCCA
* **
89166180 CAGGCTTCTTTGGTTGCTAACCAG
1 CAGGCTTCTTTGGATAATAACCAG
*
89166204 CAGGCTTCTTTGGATAATAATCAG
1 CAGGCTTCTTTGGATAATAACCAG
89166228 CAGGC
1 CAGGC
89166233 CTCTAGTAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (24 bp):
CAGGCTTCTTTGGATAATAACCAG
Found at i:89166921 original size:15 final size:16
Alignment explanation
Indices: 89166891--89166929 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
89166881 TGCAATTTTG
89166891 TAAA-TAAATGGAAGT
1 TAAATTAAATGGAAGT
*
89166906 TTAATTAAAT-GAAGT
1 TAAATTAAATGGAAGT
89166921 TAAATTAAA
1 TAAATTAAA
89166930 GAATGAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 16 0.76
16 5 0.24
ACGTcount: A:0.54, C:0.00, G:0.13, T:0.33
Consensus pattern (16 bp):
TAAATTAAATGGAAGT
Found at i:89169653 original size:131 final size:131
Alignment explanation
Indices: 89169203--89169720 Score: 513
Period size: 132 Copynumber: 3.9 Consensus size: 131
89169193 TTTAGAGAGT
* * * * * *
89169203 ATGAGTGAAATTCTAAAGGAATC-TTCGATCATTTTGGACAAAC-AGGAAATTGCAACCTAGCAC
1 ATGAGTGAAATTCCAAAGGGA-CATTCGATTATTTTGAACAAACGA-GAAATTGCAACCCAACAC
* *
89169266 GATAGAGCACGATTCCCCGAATTGCCAAACATCGAAAATTACCTTCGTTTTGAAGAGTTTTTAGA
64 GATAGGGCACGATT-CCCGAATTGCCAAACATCGAAAATTACCTTCGTTTTAAAGAGTTTTTAGA
89169331 AAAC
128 AAAC
* * * * * *
89169335 GTGAGTGAAATTCAAAAGGGACCTTAGATTATTTTGAACCAATGAGAAATTGCAACCCAACACGA
1 ATGAGTGAAATTCCAAAGGGACATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGA
* * * * ** * * *
89169400 TAGGACACGATTTCGCGAATTGCCAAATATCGAACATCGCCTTCG-CTTAAAGAATTTTTA-AAG
66 TAGGGCACGA-TTCCCGAATTGCCAAACATCGAAAATTACCTTCGTTTTAAAGAGTTTTTAGAAA
89169463 AC
130 AC
* * * * * * * * * * *
89169465 ATGGGTGAAATTTCAAAGGAATATTCAATTGTTTTGAACGAATGGGAAATCGCAACCCAGCACGA
1 ATGAGTGAAATTCCAAAGGGACATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGA
* * ** *
89169530 TAGGGCACGATTCTCGAATTACCAAACATCGAGTATTACCTTTGTTTTAAAGAGTTTTTAGAAAA
66 TAGGGCACGATTCCCGAATTGCCAAACATCGAAAATTACCTTCGTTTTAAAGAGTTTTTAGAAAA
89169595 C
131 C
* * * *
89169596 ATGAATGAAGTTCCAAAGGGACATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGT
1 ATGAGTGAAATTCCAAAGGGACATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGA
* * * * ** *
89169661 TAGGGCACGATTCCGCGAATCGTCAAATATCGAACATCGCCTTCGTTTTAAAGAATTTTT
66 TAGGGCACGATTCC-CGAATTGCCAAACATCGAAAATTACCTTCGTTTTAAAGAGTTTTT
89169721 TTAAAAAATA
Statistics
Matches: 307, Mismatches: 73, Indels: 12
0.78 0.19 0.03
Matches are distributed among these distances:
129 26 0.08
130 77 0.25
131 80 0.26
132 121 0.39
133 3 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (131 bp):
ATGAGTGAAATTCCAAAGGGACATTCGATTATTTTGAACAAACGAGAAATTGCAACCCAACACGA
TAGGGCACGATTCCCGAATTGCCAAACATCGAAAATTACCTTCGTTTTAAAGAGTTTTTAGAAAA
C
Found at i:89169653 original size:261 final size:263
Alignment explanation
Indices: 89169247--89169720 Score: 718
Period size: 261 Copynumber: 1.8 Consensus size: 263
89169237 TGGACAAACA
* * *
89169247 GGAAATTGCAACCTAGCACGATAGAGCACGATTCCCCGAATTGCCAAACATCGAAAATTACCTTC
1 GGAAATCGCAACCCAGCACGATAGAGCACGATTCCCCGAATTACCAAACATCGAAAATTACCTTC
* * * * *
89169312 GTTTTGAAGAGTTTTTAGAAAACGTGAGTGAAATTCAAAAGGGACCTTAGATTATTTTGAACCAA
66 GTTTTAAAGAGTTTTTAGAAAACATGAATGAAATTCAAAAGGGACATTAGATTATTTTGAACAAA
* * *
89169377 TGAGAAATTGCAACCCAACACGATAGGACACGATTTCGCGAATTGCCAAATATCGAACATCGCCT
131 CGAGAAATTGCAACCCAACACGATAGGACACGATTCCGCGAATCGCCAAATATCGAACATCGCCT
89169442 TCG-CTTAAAGAATTTTTAAAGACATGGGTGAAATTTCAAAGGAATATTCAATTGTTTTGAACGA
196 TCGTCTTAAAGAATTTTTAAAGACATGGGTGAAATTTCAAAGGAATATTCAATTGTTTTGAACGA
89169506 ATG
261 ATG
* * ** *
89169509 GGAAATCGCAACCCAGCACGATAGGGCACGATT-CTCGAATTACCAAACATCGAGTATTACCTTT
1 GGAAATCGCAACCCAGCACGATAGAGCACGATTCCCCGAATTACCAAACATCGAAAATTACCTTC
* * * *
89169573 GTTTTAAAGAGTTTTTAGAAAACATGAATGAAGTTCCAAAGGGACATTCGATTATTTTGAGCAAA
66 GTTTTAAAGAGTTTTTAGAAAACATGAATGAAATTCAAAAGGGACATTAGATTATTTTGAACAAA
* * *
89169638 CGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATCGTCAAATATCGAACATCGCCT
131 CGAGAAATTGCAACCCAACACGATAGGACACGATTCCGCGAATCGCCAAATATCGAACATCGCCT
*
89169703 TCGTTTTAAAGAATTTTT
196 TCGTCTTAAAGAATTTTT
89169721 TTAAAAAATA
Statistics
Matches: 187, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
261 144 0.77
262 43 0.23
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (263 bp):
GGAAATCGCAACCCAGCACGATAGAGCACGATTCCCCGAATTACCAAACATCGAAAATTACCTTC
GTTTTAAAGAGTTTTTAGAAAACATGAATGAAATTCAAAAGGGACATTAGATTATTTTGAACAAA
CGAGAAATTGCAACCCAACACGATAGGACACGATTCCGCGAATCGCCAAATATCGAACATCGCCT
TCGTCTTAAAGAATTTTTAAAGACATGGGTGAAATTTCAAAGGAATATTCAATTGTTTTGAACGA
ATG
Found at i:89174184 original size:30 final size:30
Alignment explanation
Indices: 89174130--89174198 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
89174120 CACCCTTAAA
* *
89174130 ATATTTTCACTATTAATCATTCAAAATTTTC
1 ATATTTACACTATTAATCACTC-AAATTTTC
* *
89174161 ATATTTACACT-TTAATCCCTCAAATTTTG
1 ATATTTACACTATTAATCACTCAAATTTTC
89174190 AGTATTTAC
1 A-TATTTAC
89174199 TCTTGTGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.24
30 15 0.45
31 10 0.30
ACGTcount: A:0.33, C:0.17, G:0.03, T:0.46
Consensus pattern (30 bp):
ATATTTACACTATTAATCACTCAAATTTTC
Found at i:89179789 original size:411 final size:411
Alignment explanation
Indices: 89179027--89180260 Score: 2288
Period size: 411 Copynumber: 3.0 Consensus size: 411
89179017 TGTGATTAGT
* *
89179027 GTAGATGGTACACTTCTCTCTATACAGATAATGTCTCAAAATCTTCAATGCAAAGACCACTGCAG
1 GTAGATGGTACACTTCTCTCCATACAGATAATGTCTCAAAATCTTTAATGCAAAGACCACTGCAG
*
89179092 CCAGCTCCAAATCATACGTCAAATAATTAGCCTCGTGAGTCTTAAGATGTCGAGACGCATAAGCA
66 CCAGCTCCAAATCATACGTCAAATAATTAGCCTCGTGAGTCTTAAGCTGTCGAGACGCATAAGCA
*
89179157 ACTACTTACCGTCTTACATCAAGACGCAACCCAAACCCACATGTGACGCATCACTGTAAACCACG
131 ACTACTTACCGTCTTGCATCAAGACGCAACCCAAACCCACATGTGACGCATCACTGTAAACCACG
* *
89179222 AAGTCCTTACTAGGCTCAGGCTGTATCAGAACTGGAGCCTGAGCTGTTGATGTACGTAATAATTT
196 AAGTCCTTACCAGGCTCAGGCTGTATCAGAACTGGAGCCTGAGCTGTTGATGTACGTGATAATTT
*
89179287 TTATATTTATGATTGATCGTATTTGAAAGCTAACTATTATCACAATAAAGGTAAGCGCACCTATC
261 TTATATTTATGATTGATCGTATTTGAAAGCTAACTATTATCACAATAAAGGCAAGCGCACCTATC
89179352 AAATAGTAGTATAGCTTATAGCAAGACTGGAATGTCGAACCCACAGGAACTAAAAGTACTAGTAT
326 AAATAGTAGTATAGCTTATAGCAAGACTGGAATGTCGAACCCACAGGAACTAAAAGTACTAGTAT
89179417 TAACCTTCTTTTTATTATCTA
391 TAACCTTCTTTTTATTATCTA
* *
89179438 GTAGATGATACACTTCTCTCCATACAGATAATGTCTCAAAATCTTTGATGCAAAGACCACTGCAG
1 GTAGATGGTACACTTCTCTCCATACAGATAATGTCTCAAAATCTTTAATGCAAAGACCACTGCAG
* *
89179503 CCAGCTCCAAATCATACGTCAAATAATTAGCCTTGTGAGTCTTAAGCTGTTGAGACGCATAAGCA
66 CCAGCTCCAAATCATACGTCAAATAATTAGCCTCGTGAGTCTTAAGCTGTCGAGACGCATAAGCA
*
89179568 ACTACTTACCATCTTGCATCAAGACGCAACCCAAACCCACATGTGACGCATCACTGTAAACCACG
131 ACTACTTACCGTCTTGCATCAAGACGCAACCCAAACCCACATGTGACGCATCACTGTAAACCACG
89179633 AAGTCCTTACCAGGCTCAGGCTGTATCAGAACTGGAGCCTGAGCTGTTGATGTACGTGATAATTT
196 AAGTCCTTACCAGGCTCAGGCTGTATCAGAACTGGAGCCTGAGCTGTTGATGTACGTGATAATTT
89179698 TTATATTTATGATTGATCGTATTTGAAAGCTAACTATTATCACAATAAAGGCAAGCGCACCTATC
261 TTATATTTATGATTGATCGTATTTGAAAGCTAACTATTATCACAATAAAGGCAAGCGCACCTATC
89179763 AAATAGTAGTATAGCTTATAGCAAGACTGGAATGTCGAACCCACAGGAACTAAAAGTACTAGTAT
326 AAATAGTAGTATAGCTTATAGCAAGACTGGAATGTCGAACCCACAGGAACTAAAAGTACTAGTAT
89179828 TAACCTTCTTTTTATTATCTA
391 TAACCTTCTTTTTATTATCTA
89179849 GTAGATGGTACACTTCTCTCCATACAGATAATGTCTCAAAATCTTTAATGCAAAGACCACTGCAG
1 GTAGATGGTACACTTCTCTCCATACAGATAATGTCTCAAAATCTTTAATGCAAAGACCACTGCAG
* * *
89179914 CTAGCTCCAAATCAGACGTCAAATAATTAGCCTCGTGAGTCTTAAGCTGTCAAGACGCATAAGCA
66 CCAGCTCCAAATCATACGTCAAATAATTAGCCTCGTGAGTCTTAAGCTGTCGAGACGCATAAGCA
89179979 ACTACTTACCGTCTTGCATCAAGACGCAACCCAAACCCACATGTGACGCATCACTGTAAACCACG
131 ACTACTTACCGTCTTGCATCAAGACGCAACCCAAACCCACATGTGACGCATCACTGTAAACCACG
89180044 AAGTCCTTACCAGGCTCAGGCTGTATCAGAACTGGAGCCTGAGCTGTTGATGTACGTGATAATTT
196 AAGTCCTTACCAGGCTCAGGCTGTATCAGAACTGGAGCCTGAGCTGTTGATGTACGTGATAATTT
*
89180109 TTATATTTATGATTGATCGTACTTGAAAGCTAACTATTATCACAATAAAGGCAAGCGCACCTATC
261 TTATATTTATGATTGATCGTATTTGAAAGCTAACTATTATCACAATAAAGGCAAGCGCACCTATC
* *
89180174 GAATAGTAGTATAGCTTATAGCAAGACTGGAATGTCGATCCCACAGGAACTAAAAGTACTAGTAT
326 AAATAGTAGTATAGCTTATAGCAAGACTGGAATGTCGAACCCACAGGAACTAAAAGTACTAGTAT
* *
89180239 TAACCTTCTTCTAATTATCTA
391 TAACCTTCTTTTTATTATCTA
89180260 G
1 G
89180261 CCTAAAAATA
Statistics
Matches: 798, Mismatches: 25, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
411 798 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (411 bp):
GTAGATGGTACACTTCTCTCCATACAGATAATGTCTCAAAATCTTTAATGCAAAGACCACTGCAG
CCAGCTCCAAATCATACGTCAAATAATTAGCCTCGTGAGTCTTAAGCTGTCGAGACGCATAAGCA
ACTACTTACCGTCTTGCATCAAGACGCAACCCAAACCCACATGTGACGCATCACTGTAAACCACG
AAGTCCTTACCAGGCTCAGGCTGTATCAGAACTGGAGCCTGAGCTGTTGATGTACGTGATAATTT
TTATATTTATGATTGATCGTATTTGAAAGCTAACTATTATCACAATAAAGGCAAGCGCACCTATC
AAATAGTAGTATAGCTTATAGCAAGACTGGAATGTCGAACCCACAGGAACTAAAAGTACTAGTAT
TAACCTTCTTTTTATTATCTA
Found at i:89186175 original size:33 final size:33
Alignment explanation
Indices: 89186138--89186200 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
89186128 ATGCATATGG
89186138 GAATGATAATATGGAATATGGTGTCGGTAATGA
1 GAATGATAATATGGAATATGGTGTCGGTAATGA
*
89186171 GAATGATAATATGGAATATGGTGTGGGTAA
1 GAATGATAATATGGAATATGGTGTCGGTAA
89186201 GGCATGAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.37, C:0.02, G:0.32, T:0.30
Consensus pattern (33 bp):
GAATGATAATATGGAATATGGTGTCGGTAATGA
Found at i:89189129 original size:30 final size:31
Alignment explanation
Indices: 89189105--89189163 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
89189095 GTAAATACTC
* *
89189105 AAAATTTGAGGGATTAA-AGTGTAAATATAA
1 AAAATTTGAAGGACTAACAGTGTAAATATAA
*
89189135 AAAATTTGAAGGACTAACAGTGCAAATAT
1 AAAATTTGAAGGACTAACAGTGTAAATAT
89189164 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.49, C:0.05, G:0.19, T:0.27
Consensus pattern (31 bp):
AAAATTTGAAGGACTAACAGTGTAAATATAA
Found at i:89189424 original size:29 final size:31
Alignment explanation
Indices: 89189376--89189439 Score: 80
Period size: 29 Copynumber: 2.1 Consensus size: 31
89189366 TTTATAGTTA
*
89189376 TTTAATTAGATAATTATTATT-TATTTAATAT
1 TTTAATAAGATAATTATTATTAT-TTTAATAT
*
89189407 TTTAATAAGAT-ATT-TTATTATTTTATTAT
1 TTTAATAAGATAATTATTATTATTTTAATAT
89189436 TTTA
1 TTTA
89189440 TTTAGTCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.53
30 4 0.13
31 10 0.33
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (31 bp):
TTTAATAAGATAATTATTATTATTTTAATAT
Found at i:89189428 original size:8 final size:8
Alignment explanation
Indices: 89189417--89189441 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
89189407 TTTAATAAGA
89189417 TATTTTAT
1 TATTTTAT
89189425 TATTTTAT
1 TATTTTAT
89189433 TATTTTAT
1 TATTTTAT
89189441 T
1 T
89189442 TAGTCTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:89194831 original size:27 final size:26
Alignment explanation
Indices: 89194793--89194908 Score: 144
Period size: 27 Copynumber: 4.3 Consensus size: 26
89194783 CAGCATGGCT
* *
89194793 ACCAGAACAGATAATGTGACAGAGTC
1 ACCAGAACAGATAATGTGGCAGAGCC
89194819 ACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGA-ACAGATAAT-GTGGCAGAGCC
89194847 ACCAGAACAGATATATGTGGCAGAGCC
1 ACCAGAACAGATA-ATGTGGCAGAGCC
* *
89194874 ACCA-AATCAGATATTTGTGGCATAGCC
1 ACCAGAA-CAGATA-ATGTGGCAGAGCC
89194901 ACCAGAAC
1 ACCAGAAC
89194909 GCTTCCTCCA
Statistics
Matches: 81, Mismatches: 4, Indels: 9
0.86 0.04 0.10
Matches are distributed among these distances:
26 8 0.10
27 54 0.67
28 19 0.23
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.16
Consensus pattern (26 bp):
ACCAGAACAGATAATGTGGCAGAGCC
Found at i:89194852 original size:54 final size:54
Alignment explanation
Indices: 89194793--89194908 Score: 162
Period size: 54 Copynumber: 2.1 Consensus size: 54
89194783 CAGCATGGCT
* *
89194793 ACCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCC
1 ACCAGAACAGATATATGTGACAGAGCCACCAAAT-CAGATAATCGTGGCAGAGCC
* * * *
89194847 ACCAGAACAGATATATGTGGCAGAGCCACCAAATCAGATATTTGTGGCATAGCC
1 ACCAGAACAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGGCAGAGCC
89194901 ACCAGAAC
1 ACCAGAAC
89194909 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 38 0.69
55 17 0.31
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.16
Consensus pattern (54 bp):
ACCAGAACAGATATATGTGACAGAGCCACCAAATCAGATAATCGTGGCAGAGCC
Found at i:89196563 original size:26 final size:26
Alignment explanation
Indices: 89196527--89196636 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
89196517 CATGAAATTC
*
89196527 TTATCATGAAACATTTACTTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
89196553 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
89196579 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
89196605 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
89196631 TTATCA
1 TTATCA
89196637 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
26 78 0.98
27 2 0.03
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:89205241 original size:33 final size:33
Alignment explanation
Indices: 89205204--89205326 Score: 101
Period size: 33 Copynumber: 3.7 Consensus size: 33
89205194 AATATATGTT
*
89205204 TAAGACCATAGCTAGGCTATGGCATCC-TGA-TG
1 TAAGACCATAGCTAGGCTATGGCA-CCACGAGTG
* * *
89205236 ATAAGACCATATCTGGGATATGGCACCACGAGTG
1 -TAAGACCATAGCTAGGCTATGGCACCACGAGTG
* * **
89205270 TAAGACCATGGCTAGGCCATGGCAATAC-ACGTG
1 TAAGACCATAGCTAGGCTATGGCACCACGA-GTG
*
89205303 TAAGACCATAG-TTGGACTATGGCA
1 TAAGACCATAGCTAGG-CTATGGCA
89205327 TCATACCAGA
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
32 6 0.08
33 64 0.89
34 2 0.03
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.22
Consensus pattern (33 bp):
TAAGACCATAGCTAGGCTATGGCACCACGAGTG
Found at i:89205389 original size:45 final size:45
Alignment explanation
Indices: 89205340--89205451 Score: 152
Period size: 45 Copynumber: 2.5 Consensus size: 45
89205330 TACCAGAAAT
*
89205340 GAGTAAGACCATAGTTGAAAGACGCTATGGCATCACGATTCAGAC
1 GAGTAAGACCATAGTTGAAAGACGCTATGGCATCACGATTCAAAC
* * * *
89205385 GAGTAAGACCATAGCTGAAAGATGCTATGGCATCGCGATTCAAAT
1 GAGTAAGACCATAGTTGAAAGACGCTATGGCATCACGATTCAAAC
* * *
89205430 GTGTAAAACCATGGTTGAAAGA
1 GAGTAAGACCATAGTTGAAAGA
89205452 TACCATGGCA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (45 bp):
GAGTAAGACCATAGTTGAAAGACGCTATGGCATCACGATTCAAAC
Found at i:89205452 original size:45 final size:46
Alignment explanation
Indices: 89205336--89205600 Score: 264
Period size: 46 Copynumber: 5.8 Consensus size: 46
89205326 ATCATACCAG
* * ** * *
89205336 AAATGAGTAAGACCATAGTTGAAAGACGCTATGGCATCACGAT-TC
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACACGATATC
* * * * * * * * *
89205381 AGACGAGTAAGACCATAGCTGAAAGATGCTATGGCATCGCGAT-TC
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACACGATATC
* * *
89205426 AAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACACGATATC
* * *
89205472 AAATGTGTAAGACCGTGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACACGATATC
* * * *
89205518 AAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACATGACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACACGATATC
***
89205564 AAATAAATAAGACCATGGTTGAAAGATACCATGGCAA
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
89205601 TATGACGGGG
Statistics
Matches: 193, Mismatches: 26, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
45 72 0.37
46 121 0.63
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACACGATATC
Found at i:89205491 original size:46 final size:46
Alignment explanation
Indices: 89205426--89205697 Score: 303
Period size: 46 Copynumber: 5.9 Consensus size: 46
89205416 ATCGCGATTC
*
89205426 AAATGTGTAAAACCATGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
*
89205472 AAATGTGTAAGACCGTGGTTGAAAGATACCATGGCAACATGATATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* *
89205518 AAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACATGACATG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
*** * ***
89205564 AAATAAATAAGACCATGGTTGAAAGATACCATGGCAATATGACGGGG
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-TATG
*** * * * *
89205611 AAATACATAAGACCATGGGTGAAAGATACTATGGCAACCTGACA-G
1 AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
* ** * * *
89205656 AAAATGAGTAAGACCATATTTGAAAGACACTATGGCATCATG
1 -AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
89205698 TCGAAGATAA
Statistics
Matches: 195, Mismatches: 29, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
45 1 0.01
46 156 0.80
47 38 0.19
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATATG
Found at i:89208434 original size:31 final size:33
Alignment explanation
Indices: 89208399--89208459 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 33
89208389 TTTTATAGTT
*
89208399 TTTTAATTAGATA-ATTATTA-TTTATTTAATA
1 TTTTAATAAGATATATTATTATTTTATTTAATA
*
89208430 TTTTAATAAGATATTTTATTATTTTATTTA
1 TTTTAATAAGATATATTATTATTTTATTTA
89208460 GTCTATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 12 0.46
32 6 0.23
33 8 0.31
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (33 bp):
TTTTAATAAGATATATTATTATTTTATTTAATA
Found at i:89208476 original size:2 final size:2
Alignment explanation
Indices: 89208471--89208510 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
89208461 TCTATATATA
89208471 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
89208511 GAAAAACAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:89233118 original size:29 final size:29
Alignment explanation
Indices: 89233081--89233162 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 29
89233071 TAGAATTTTT
* * * *
89233081 AATTGTAAAAAATAATAGAATTTATTAGA
1 AATTATAAAAAATAATAAAAATTATCAGA
* *
89233110 AATTATAAAATATTATAAAAATTATCAGA
1 AATTATAAAAAATAATAAAAATTATCAGA
* * *
89233139 AATCATAAAAAATTATTAAAATTA
1 AATTATAAAAAATAATAAAAATTA
89233163 AAAAAAGTAA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (29 bp):
AATTATAAAAAATAATAAAAATTATCAGA
Found at i:89233131 original size:19 final size:18
Alignment explanation
Indices: 89233109--89233160 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 18
89233099 AATTTATTAG
89233109 AAATTATAAAAT-ATTATAA
1 AAATTATAAAATCA-TA-AA
89233128 AAATTATCAGAAATCATAAA
1 AAATTAT-A-AAATCATAAA
89233148 AAATTATTAAAAT
1 AAATTA-TAAAAT
89233161 TAAAAAAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 11 0.38
20 10 0.34
21 7 0.24
22 1 0.03
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (18 bp):
AAATTATAAAATCATAAA
Found at i:89236281 original size:30 final size:29
Alignment explanation
Indices: 89236247--89236304 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
89236237 TAACTTAAAT
* *
89236247 AAATAACTAATAACATATTAATAATTTTAA
1 AAATAAATAATAACAAATTAAT-ATTTTAA
* *
89236277 AAATAAATAATTATAAATTAATATTTTA
1 AAATAAATAATAACAAATTAATATTTTA
89236305 TGACATTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (29 bp):
AAATAAATAATAACAAATTAATATTTTAA
Found at i:89240365 original size:22 final size:24
Alignment explanation
Indices: 89240322--89240387 Score: 62
Period size: 25 Copynumber: 2.7 Consensus size: 24
89240312 TTTTCTCATG
89240322 TATTATTTATTTTAAATTGTTTTAT
1 TATTATTTATTTTAAA-TGTTTTAT
* * *
89240347 TATTGTTTATTTTAAGT-TTTTCACA
1 TATTATTTATTTTAAATGTTTT-A-T
*
89240372 TATTATATATTTTAAA
1 TATTATTTATTTTAAA
89240388 CTAATTCAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
23 4 0.12
24 2 0.06
25 27 0.82
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (24 bp):
TATTATTTATTTTAAATGTTTTAT
Found at i:89240614 original size:26 final size:24
Alignment explanation
Indices: 89240585--89240681 Score: 86
Period size: 26 Copynumber: 3.8 Consensus size: 24
89240575 TCATATATTA
* *
89240585 TTAAGTTGTGTTATGTATTATTTGTT
1 TTAA-TTGTTTTATATATTATTT-TT
*
89240611 TTAAATTGTTTTGTATATTATTCTTT
1 TT-AATTGTTTTATATATTATT-TTT
*
89240637 TTAATTGTTTTACATATTATTTATCT
1 TTAATTGTTTTATATATTATTT-T-T
*
89240663 TAAATTGTTTTATACTATT
1 TTAATTGTTTTATA-TATT
89240682 TACTTCAAAC
Statistics
Matches: 59, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
24 1 0.02
25 18 0.31
26 33 0.56
27 7 0.12
ACGTcount: A:0.25, C:0.04, G:0.09, T:0.62
Consensus pattern (24 bp):
TTAATTGTTTTATATATTATTTTT
Found at i:89240643 original size:25 final size:26
Alignment explanation
Indices: 89240600--89240674 Score: 91
Period size: 26 Copynumber: 2.9 Consensus size: 26
89240590 TTGTGTTATG
**
89240600 TATTATTTGTTTTAAATTGTTTTGTA
1 TATTATTTGTTTTAAATTGTTTTACA
89240626 TATTATTCT-TTTT-AATTGTTTTACA
1 TATTATT-TGTTTTAAATTGTTTTACA
* *
89240651 TATTATTTATCTTAAATTGTTTTA
1 TATTATTTGTTTTAAATTGTTTTA
89240675 TACTATTTAC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
24 1 0.02
25 20 0.47
26 21 0.49
27 1 0.02
ACGTcount: A:0.25, C:0.04, G:0.07, T:0.64
Consensus pattern (26 bp):
TATTATTTGTTTTAAATTGTTTTACA
Found at i:89241029 original size:27 final size:27
Alignment explanation
Indices: 89240999--89241081 Score: 150
Period size: 27 Copynumber: 3.1 Consensus size: 27
89240989 AAGTCCAAAA
89240999 CAATAGCCTACCCTTAGCCCAATAACC
1 CAATAGCCTACCCTTAGCCCAATAACC
89241026 CAATAGCCTACCCTTAGCCCAATAACC
1 CAATAGCCTACCCTTAGCCCAATAACC
*
89241053 CAATAGCCTACCCTCAGCCCAA-AACC
1 CAATAGCCTACCCTTAGCCCAATAACC
89241079 CAA
1 CAA
89241082 AACAAAAAAC
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
26 7 0.13
27 48 0.87
ACGTcount: A:0.35, C:0.42, G:0.07, T:0.16
Consensus pattern (27 bp):
CAATAGCCTACCCTTAGCCCAATAACC
Found at i:89255152 original size:44 final size:44
Alignment explanation
Indices: 89255011--89255165 Score: 170
Period size: 44 Copynumber: 3.5 Consensus size: 44
89255001 ATTATACAGG
* * * *
89255011 TCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGAA-GT-AGA
* ** *
89255057 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCAG-AGA
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAG-AAGTAGA
89255101 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTA-A
1 TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGA-AGTAGA
* *
89255145 TCCTATCTCCTTGAGATTACA
1 TCTTATCTCCCTGAGATTACA
89255166 ATGGAGCGGA
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
44 59 0.64
45 1 0.01
46 31 0.34
47 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGAAGTAGA
Found at i:89255360 original size:87 final size:85
Alignment explanation
Indices: 89255269--89255459 Score: 240
Period size: 85 Copynumber: 2.2 Consensus size: 85
89255259 GAGAATTTCA
* * * *
89255269 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCCGAAGTTA
1 GATCTTATCTCTCTGAAG-TTACAACAGAGCAGATCGAA-ACA-GATCCTATCTCCCCGAAGTTA
89255333 CAGTGGAGCGGATTAAAATAAAG
63 CAGTGGAGCGGATTAAAATAAAG
* * * * * *
89255356 GATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGCATCAGGTCCTATCTCCCTGAAGTTACAG
1 GATCTTATCTCTCTGAAGTTACAACAGAGCAGATCGAAACAGATCCTATCTCCCCGAAGTTACAG
89255421 TGGAGCGGATTAAAATAAAG
66 TGGAGCGGATTAAAATAAAG
* *
89255441 AATTTTATCTCTCTGAAGT
1 GATCTTATCTCTCTGAAGT
89255460 GGCAGTAGAG
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
85 58 0.64
86 2 0.02
87 29 0.32
88 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (85 bp):
GATCTTATCTCTCTGAAGTTACAACAGAGCAGATCGAAACAGATCCTATCTCCCCGAAGTTACAG
TGGAGCGGATTAAAATAAAG
Found at i:89255374 original size:44 final size:44
Alignment explanation
Indices: 89255317--89255459 Score: 139
Period size: 44 Copynumber: 3.3 Consensus size: 44
89255307 GACACTATCC
*
89255317 TATCTCCCCGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCT
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCT
* * * ** *** * *
89255361 TATCTCTCTGAAGTTACAATAGAGTAGA-TCGCAT-CAGG-TCC
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCT
* *
89255402 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGAATTT
1 TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCT
*
89255446 TATCTCTCTGAAGT
1 TATCTCCCTGAAGT
89255460 GGCAGTAGAG
Statistics
Matches: 72, Mismatches: 24, Indels: 6
0.71 0.24 0.06
Matches are distributed among these distances:
41 25 0.35
42 6 0.08
43 5 0.07
44 36 0.50
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (44 bp):
TATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCT
Found at i:89255420 original size:174 final size:170
Alignment explanation
Indices: 89255098--89255425 Score: 462
Period size: 174 Copynumber: 1.9 Consensus size: 170
89255088 TTGAAGCCAG
* * **
89255098 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCCGAGATT
* *
89255163 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTAAAGTCACAGTAGAGAAGATCACATCAGGTCT
66 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTAAAGTCACAATAGAGAAGATCACATCAGGTCC
* *
89255228 TATTTCCCTGAGGTTACAGTGGAGTAGGCCGGAGAATTTC
131 TATCTCCCTGAAGTTACAGTGGAGTAGGCCGGAGAATTTC
*
89255268 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACT-ATCCTATCTCCCCGA-AGT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCCGAGA-T
* * * * *
89255331 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAATAGAGTAGATCGCATC
65 TACAATGGAGCGGA-T----TAAAGGATCTTATCTCTCTAAAGTCACAATAGAGAAGATCACATC
89255396 AGGTCCTATCTCCCTGAAGTTACAGTGGAG
125 AGGTCCTATCTCCCTGAAGTTACAGTGGAG
89255426 CGGATTAAAA
Statistics
Matches: 138, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
168 1 0.01
169 27 0.20
170 43 0.31
174 67 0.49
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (170 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCCGAGATT
ACAATGGAGCGGATTAAAGGATCTTATCTCTCTAAAGTCACAATAGAGAAGATCACATCAGGTCC
TATCTCCCTGAAGTTACAGTGGAGTAGGCCGGAGAATTTC
Found at i:89255421 original size:85 final size:85
Alignment explanation
Indices: 89255314--89255474 Score: 268
Period size: 85 Copynumber: 1.9 Consensus size: 85
89255304 GAAGACACTA
* *
89255314 TCCTATCTCCCCGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACA
1 TCCTATCTCCCCGAAGTTACAGTGGAGCGGATTAAAATAAAGAATCTTATCTCTCTGAAGTGACA
89255379 ATAGAGTAGATCGCATCAGG
66 ATAGAGTAGATCGCATCAGG
* * *
89255399 TCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATAAAGAATTTTATCTCTCTGAAGTGGCA
1 TCCTATCTCCCCGAAGTTACAGTGGAGCGGATTAAAATAAAGAATCTTATCTCTCTGAAGTGACA
*
89255464 GTAGAGTAGAT
66 ATAGAGTAGAT
89255475 TACATCCAAG
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 70 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.29
Consensus pattern (85 bp):
TCCTATCTCCCCGAAGTTACAGTGGAGCGGATTAAAATAAAGAATCTTATCTCTCTGAAGTGACA
ATAGAGTAGATCGCATCAGG
Found at i:89255507 original size:85 final size:85
Alignment explanation
Indices: 89255326--89255515 Score: 229
Period size: 85 Copynumber: 2.2 Consensus size: 85
89255316 CTATCTCCCC
* *
89255326 GAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAATAGAGTAGATC
1 GAAGTTACAGTGGAGCGGATTAAAATAAAGAATCTTATCTCTCTGAAGTGACAATAGAGTAGATC
* * ** * *
89255391 GCATCAGGTCCTATCTCCCT
66 ACATCAAGTCAGAACACCCT
* * * *
89255411 GAAGTTACAGTGGAGCGGATTAAAATAAAGAATTTTATCTCTCTGAAGTGGCAGTAGAGTAGATT
1 GAAGTTACAGTGGAGCGGATTAAAATAAAGAATCTTATCTCTCTGAAGTGACAATAGAGTAGATC
*
89255476 ACATCCAAGTCAGAACACTCT
66 ACAT-CAAGTCAGAACACCCT
* *
89255497 GAAG-TGCAGTGGAGTGGAT
1 GAAGTTACAGTGGAGCGGAT
89255516 CGAAGCAACA
Statistics
Matches: 89, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
85 75 0.84
86 14 0.16
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (85 bp):
GAAGTTACAGTGGAGCGGATTAAAATAAAGAATCTTATCTCTCTGAAGTGACAATAGAGTAGATC
ACATCAAGTCAGAACACCCT
Found at i:89255771 original size:27 final size:27
Alignment explanation
Indices: 89255741--89255823 Score: 150
Period size: 27 Copynumber: 3.1 Consensus size: 27
89255731 AAGTCCAAAA
89255741 CAATAGCCTACCCTTAGCCCAATAACC
1 CAATAGCCTACCCTTAGCCCAATAACC
89255768 CAATAGCCTACCCTTAGCCCAATAACC
1 CAATAGCCTACCCTTAGCCCAATAACC
*
89255795 CAATAGCCTACCCTCAGCCCAA-AACC
1 CAATAGCCTACCCTTAGCCCAATAACC
89255821 CAA
1 CAA
89255824 AACAAAAAAC
Statistics
Matches: 55, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
26 7 0.13
27 48 0.87
ACGTcount: A:0.35, C:0.42, G:0.07, T:0.16
Consensus pattern (27 bp):
CAATAGCCTACCCTTAGCCCAATAACC
Found at i:89260017 original size:30 final size:30
Alignment explanation
Indices: 89259983--89260045 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
89259973 ACTTAACAAG
89259983 CAAATG-CTTCTAAAATAATAA-AAAATTTAA
1 CAAATGCCTT-TAAAATAATAAGAAAA-TTAA
89260013 CAAATGCCTTTAAAATAATAAGAAAATTAA
1 CAAATGCCTTTAAAATAATAAGAAAATTAA
89260043 CAA
1 CAA
89260046 TAAAATAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
30 24 0.77
31 7 0.23
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.27
Consensus pattern (30 bp):
CAAATGCCTTTAAAATAATAAGAAAATTAA
Found at i:89262267 original size:13 final size:13
Alignment explanation
Indices: 89262249--89262305 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
89262239 TATTTACAAT
*
89262249 AAATAAATAAGCC
1 AAATAAATAAACC
89262262 AAATAAATAAACC
1 AAATAAATAAACC
* *
89262275 AAATAGAT-TA--
1 AAATAAATAAACC
89262285 AAATAAATAAACC
1 AAATAAATAAACC
89262298 AAAATAAA
1 -AAATAAA
89262306 AAGCCCAACT
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 7 0.20
11 1 0.03
12 1 0.03
13 19 0.54
14 7 0.20
ACGTcount: A:0.68, C:0.11, G:0.04, T:0.18
Consensus pattern (13 bp):
AAATAAATAAACC
Found at i:89271649 original size:35 final size:35
Alignment explanation
Indices: 89271610--89271678 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
89271600 GTAAAAAATG
89271610 TCAATTTTGGATTAAATTGTGAAATGTGAAAATTA
1 TCAATTTTGGATTAAATTGTGAAATGTGAAAATTA
*
89271645 TCAATTTTGGATTAAATTGTGAAATGTGGAAATT
1 TCAATTTTGGATTAAATTGTGAAATGTGAAAATT
89271679 TAGTGGTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.41
Consensus pattern (35 bp):
TCAATTTTGGATTAAATTGTGAAATGTGAAAATTA
Found at i:89272908 original size:43 final size:43
Alignment explanation
Indices: 89272829--89272984 Score: 163
Period size: 43 Copynumber: 3.6 Consensus size: 43
89272819 TTCGGGCCTC
* * * * *
89272829 GGCCTAGCAAGCTTTAA-GCTGGTGAATAATATTATCGGGTTTCG
1 GGCCTAGCAGGCTATAATGCCGGTG-A-AATAATATCGGGATTCG
*
89272873 GGCCTAGCAGGCTATAATGCCGGTGAGATAATATCGGGATTCG
1 GGCCTAGCAGGCTATAATGCCGGTGAAATAATATCGGGATTCG
* * * *
89272916 GGCCTAGCAGGCTATAATGCGGGTGAAATGATATCGGGCTTCA
1 GGCCTAGCAGGCTATAATGCCGGTGAAATAATATCGGGATTCG
* * *
89272959 AGCTTAGCAGGCGA-AATGCCGGTGAA
1 GGCCTAGCAGGCTATAATGCCGGTGAA
89272985 TGAGTTCAGA
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
42 11 0.11
43 63 0.66
44 16 0.17
45 6 0.06
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.24
Consensus pattern (43 bp):
GGCCTAGCAGGCTATAATGCCGGTGAAATAATATCGGGATTCG
Found at i:89297993 original size:27 final size:27
Alignment explanation
Indices: 89297955--89298031 Score: 118
Period size: 27 Copynumber: 2.9 Consensus size: 27
89297945 CTACTAAGCC
*
89297955 GAATGCTTATCTTTTCCAAAATAGGCT
1 GAATGCTCATCTTTTCCAAAATAGGCT
*
89297982 GAATGCTCATCTTTTCCAAAATAGGTT
1 GAATGCTCATCTTTTCCAAAATAGGCT
* *
89298009 GAATGCTCCTCTTTTTCAAAATA
1 GAATGCTCATCTTTTCCAAAATA
89298032 AGTCGAATGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (27 bp):
GAATGCTCATCTTTTCCAAAATAGGCT
Done.