Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold160
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: 5021213
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 92036 characters in sequence are not A, C, G, or T
File 22 of 30
Found at i:3529954 original size:84 final size:84
Alignment explanation
Indices: 3529740--3530459 Score: 571
Period size: 84 Copynumber: 8.6 Consensus size: 84
3529730 TGCCTGTCAA
* * * *
3529740 CTTTGACCCTAGAGACTTTCTTATCCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTT
1 CTTTGACCTTGGAGACTTTCCTATCCTTCAGTCTGCCTGTCGGCTTTGACCTT-GAGACTGCCTC
* *
3529805 ATCTCAAGT-TTGCCTGTTGG
65 ATCTAAAGTCTT-CCTGTCGG
* * * ** * *
3529825 CTTTGAACC-TGGAGACTTTTCTA-CCCTCAGTTTGTTTGTCCGCTTTGACCTTGAGATTGCCTC
1 CTTTG-ACCTTGGAGACTTTCCTATCCTTCAGTCTGCCTGTCGGCTTTGACCTTGAGACTGCCTC
* *
3529888 ATCTAAAGTCTTCCTATCGA
65 ATCTAAAGTCTTCCTGTCGG
* * *
3529908 CTTTGACCTTGGAGACTTTCCTATCCTTCAGTCTGCCTGTCGGCTTTGACCTTCAAGATTGCCTA
1 CTTTGACCTTGGAGACTTTCCTATCCTTCAGTCTGCCTGTCGGCTTTGACCTT-GAGACTGCCTC
*
3529973 ATCTAAAGTCTGCCTGTCGG
65 ATCTAAAGTCTTCCTGTCGG
* * * *
3529993 CTTTGACCTTGGAGACTTTCCTATCCTTCAGTTTGCCTGTTGGCTTTGACCCTGAAGACTGCCTT
1 CTTTGACCTTGGAGACTTTCCTATCCTTCAGTCTGCCTGTCGGCTTTGACCTTG-AGACTGCCTC
*
3530058 ATCTAAAGT-TTGCCTGTCAG
65 ATCTAAAGTCTT-CCTGTCGG
* * * **
3530078 CTTTGACCTTGGAGACTTTTCTA-CCCTCAGTCTGCCTGTTGGCTTTGACCTTGGAGACT-TTTC
1 CTTTGACCTTGGAGACTTTCCTATCCTTCAGTCTGCCTGTCGGCTTTGACCTT-GAGACTGCCTC
* * * *
3530141 TACCCT-TAGTCTGCCTGTTGG
65 -A-TCTAAAGTCTTCCTGTCGG
* * ** * * ***
3530162 CTTTAACCTTGGAGAC-TACCTTAT-CTAAAGTCTGCCTGTCAGCTTTGACCCTGGAGACTTTTT
1 CTTTGACCTTGGAGACTTTCC-TATCCTTCAGTCTGCCTGTCGGCTTTGA-CCTTGAGACTGCCT
* * *
3530225 TACCCT-CAGT-TTGCCTGTCGG
64 CA-TCTAAAGTCTT-CCTGTCGG
* * * ** * * *
3530246 CTTTGACCCTAGAGAC-TGCCTAAT-CTAAAGTCTGCCTGTCGACTTTGACCCTGAAGACTGTCT
1 CTTTGACCTTGGAGACTTTCCT-ATCCTTCAGTCTGCCTGTCGGCTTTGACCTTG-AGACTGCCT
*
3530309 CATCTAAAGTC-TGC--T-GG
64 CATCTAAAGTCTTCCTGTCGG
* * *
3530326 CTTTGACCTTGGAGACTTTCCT-TCCTTCAGTCTGCTTGTCAGCTTTGACCCTGGAGACTGCCTC
1 CTTTGACCTTGGAGACTTTCCTATCCTTCAGTCTGCCTGTCGGCTTTGA-CCTTGAGACTGCCTC
* *
3530390 ATTTAAAGTCTGTCC-ATCGG
65 ATCTAAAGTCT-TCCTGTCGG
* * * *
3530410 CTTTGACCTTGGAGACTTT-TTCACCCTTAAGTCTGCCTATCGGCTTTGAC
1 CTTTGACCTTGGAGACTTTCCT-ATCCTTCAGTCTGCCTGTCGGCTTTGAC
3530460 TCGGGGACCT
Statistics
Matches: 515, Mismatches: 91, Indels: 59
0.77 0.14 0.09
Matches are distributed among these distances:
79 1 0.00
80 53 0.10
81 8 0.02
82 5 0.01
83 53 0.10
84 223 0.43
85 169 0.33
86 3 0.01
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.36
Consensus pattern (84 bp):
CTTTGACCTTGGAGACTTTCCTATCCTTCAGTCTGCCTGTCGGCTTTGACCTTGAGACTGCCTCA
TCTAAAGTCTTCCTGTCGG
Found at i:3530242 original size:295 final size:293
Alignment explanation
Indices: 3529627--3530304 Score: 837
Period size: 295 Copynumber: 2.3 Consensus size: 293
3529617 GACCATATCA
* * * *
3529627 ACTTTTCTACCCTTCAGTCTGCCTGTCGGCTTTGACCCTAAAGACTACCTTATCTAAAGTTTGTC
1 ACTTTTCTACCC-TCAGTCTGCCTGTCGGCTTTGACCCT-AAGACTGCCTAATCTAAAGTCTGCC
*
3529692 TGTCGGCTTTGACCCTGGAAACTTTCCTTCCTTCAATTTGCCTGTCAACTTTGACCCTAGAGACT
64 TGTCGGCTTTGACCCTGGAGACTTTCCTTCCTTCAATTTGCCTGTCAACTTTGACCCTAGAGACT
** ** * * *
3529757 TTCTTATCCTTCAGTCTGCCTGTCGGCTTTGACCTTGGAGACTGCCTTATCTCAAGTTTGCCTGT
129 GCCTTATCCTAAAGTCTGCCTGTCAGCTTTGACCTTGGAGACTGCCTTACCTCAAGTCTGCCTGT
* ** * * *
3529822 TGGCTTTGAACCTGGAGACTTTTCTACCCTCAGTTTGTTTGTCCGCTTTGACCTTGAGATTGCCT
194 TGGCTTTGAACCTGGAGACTTTTCTACCCTCAGTCTGCCTGTCCGCTTTAACCTTGAGACTACCT
* *
3529887 CATCTAAAGTCTTCCTATCGACTTTGACCTTGGAG
259 CATCTAAAGTCTGCCTATCGACTTTGACCCTGGAG
* * * *
3529922 ACTTTCCTATCCTTCAGTCTGCCTGTCGGCTTTGACCTTCAAGATTGCCTAATCTAAAGTCTGCC
1 ACTTTTCTA-CCCTCAGTCTGCCTGTCGGCTTTGACCCT-AAGACTGCCTAATCTAAAGTCTGCC
* * ***
3529987 TGTCGGCTTTGACCTTGGAGACTTTCCTATCCTTCAGTTTGCCTGTTGGCTTTGACCCT-GAAGA
64 TGTCGGCTTTGACCCTGGAGACTTTCCT-TCCTTCAATTTGCCTGTCAACTTTGACCCTAG-AGA
* **
3530051 CTGCCTTAT-CTAAAGTTTGCCTGTCAGCTTTGACCTTGGAGACT-TTTCTACCCTC-AGTCTGC
127 CTGCCTTATCCTAAAGTCTGCCTGTCAGCTTTGACCTTGGAGACTGCCT-TA-CCTCAAGTCTGC
* **
3530113 CTGTTGGCTTTG-ACCTTGGAGACTTTTCTACCCTTAGTCTGCCTGTTGGCTTTAACCTTGGAGA
190 CTGTTGGCTTTGAACC-TGGAGACTTTTCTACCCTCAGTCTGCCTGTCCGCTTTAACCTT-GAGA
* *
3530177 CTACCTTATCTAAAGTCTGCCTGTC-AGCTTTGACCCTGGAG
253 CTACCTCATCTAAAGTCTGCCTATCGA-CTTTGACCCTGGAG
* *
3530218 ACTTTTTTACCCTCAGTTTGCCTGTCGGCTTTGACCCTAGAGACTGCCTAATCTAAAGTCTGCCT
1 ACTTTTCTACCCTCAGTCTGCCTGTCGGCTTTGACCCTA-AGACTGCCTAATCTAAAGTCTGCCT
* *
3530283 GTCGACTTTGACCCTGAAGACT
65 GTCGGCTTTGACCCTGGAGACT
3530305 GTCTCATCTA
Statistics
Matches: 327, Mismatches: 47, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
294 5 0.02
295 237 0.72
296 85 0.26
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.37
Consensus pattern (293 bp):
ACTTTTCTACCCTCAGTCTGCCTGTCGGCTTTGACCCTAAGACTGCCTAATCTAAAGTCTGCCTG
TCGGCTTTGACCCTGGAGACTTTCCTTCCTTCAATTTGCCTGTCAACTTTGACCCTAGAGACTGC
CTTATCCTAAAGTCTGCCTGTCAGCTTTGACCTTGGAGACTGCCTTACCTCAAGTCTGCCTGTTG
GCTTTGAACCTGGAGACTTTTCTACCCTCAGTCTGCCTGTCCGCTTTAACCTTGAGACTACCTCA
TCTAAAGTCTGCCTATCGACTTTGACCCTGGAG
Found at i:3531424 original size:15 final size:14
Alignment explanation
Indices: 3531398--3531444 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
3531388 GAAAAGTCAT
3531398 AAAATAAAAAATTA
1 AAAATAAAAAATTA
*
3531412 AAAATCAAGAAATTA
1 AAAAT-AAAAAATTA
*
3531427 AAAATAAAAAAATA
1 AAAATAAAAAATTA
3531441 AAAA
1 AAAA
3531445 AATAAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 16 0.55
15 13 0.45
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (14 bp):
AAAATAAAAAATTA
Found at i:3531445 original size:7 final size:7
Alignment explanation
Indices: 3531398--3531452 Score: 56
Period size: 7 Copynumber: 7.4 Consensus size: 7
3531388 GAAAAGTCAT
3531398 AAAATAA
1 AAAATAA
*
3531405 AAAATTA
1 AAAATAA
3531412 AAAATCAA
1 AAAAT-AA
* *
3531420 GAAATTA
1 AAAATAA
3531427 AAAATAAA
1 AAAAT-AA
3531435 AAAATAAA
1 AAAAT-AA
3531443 AAAATAA
1 AAAATAA
3531450 AAA
1 AAA
3531453 TATCAATCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
7 21 0.52
8 19 0.47
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (7 bp):
AAAATAA
Found at i:3531445 original size:15 final size:15
Alignment explanation
Indices: 3531398--3531452 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
3531388 GAAAAGTCAT
3531398 AAAAT-AAAAAATTA
1 AAAATAAAAAAATTA
* *
3531412 AAAATCAAGAAATTA
1 AAAATAAAAAAATTA
*
3531427 AAAATAAAAAAATAAA
1 AAAATAAAAAAAT-TA
3531443 AAAATAAAAA
1 AAAATAAAAA
3531453 TATCAATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
14 5 0.14
15 19 0.54
16 11 0.31
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (15 bp):
AAAATAAAAAAATTA
Found at i:3531453 original size:22 final size:24
Alignment explanation
Indices: 3531398--3531455 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 24
3531388 GAAAAGTCAT
* *
3531398 AAAATAAAAA-ATTAAAAATCAAG
1 AAAATAAAAATATAAAAAATCAAA
*
3531421 AAATTAAAAATA-AAAAAAT-AAA
1 AAAATAAAAATATAAAAAATCAAA
3531443 AAAATAAAAATAT
1 AAAATAAAAATAT
3531456 CAATCAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 13 0.45
23 15 0.52
24 1 0.03
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (24 bp):
AAAATAAAAATATAAAAAATCAAA
Found at i:3532675 original size:51 final size:51
Alignment explanation
Indices: 3532599--3532873 Score: 283
Period size: 51 Copynumber: 5.3 Consensus size: 51
3532589 TGAAAATAAT
* *
3532599 GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAATTAAGGCC
1 GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
*
3532650 GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCC
1 GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
* * * * * *
3532701 GGGGTTGGAGTATCCCC--TCG-GAAATAACGGGGTTGGAGTATCCTTAATGAAAT-AA--C
1 GGGGTTGAAGTATCCCCGATTGTGAGA-AA------T-CAATAT--TTTA-GAAATAAAGCC
* * *
3532757 GGGGTTGGAGTATCTCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCC
1 GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
*
3532808 GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCC
1 GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
*
3532859 GGGGTTGGAGTATCC
1 GGGGTTGAAGTATCC
3532874 ACTCGGAAAT
Statistics
Matches: 185, Mismatches: 22, Indels: 34
0.77 0.09 0.14
Matches are distributed among these distances:
48 8 0.04
49 8 0.04
51 130 0.70
52 1 0.01
55 1 0.01
56 21 0.11
58 8 0.04
59 8 0.04
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (51 bp):
GGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCC
Found at i:3532735 original size:28 final size:29
Alignment explanation
Indices: 3532700--3532770 Score: 101
Period size: 28 Copynumber: 2.5 Consensus size: 29
3532690 GAAATAAAGC
*
3532700 CGGGGTTGGAGTATCCCCT-CGGAAATAA
1 CGGGGTTGGAGTATCCCCTAAGGAAATAA
* *
3532728 CGGGGTTGGAGTAT-CCTTAATGAAATAA
1 CGGGGTTGGAGTATCCCCTAAGGAAATAA
3532756 CGGGGTTGGAGTATC
1 CGGGGTTGGAGTATC
3532771 TCCGATTGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.08
28 35 0.92
ACGTcount: A:0.25, C:0.15, G:0.34, T:0.25
Consensus pattern (29 bp):
CGGGGTTGGAGTATCCCCTAAGGAAATAA
Found at i:3532863 original size:158 final size:158
Alignment explanation
Indices: 3532592--3532901 Score: 566
Period size: 158 Copynumber: 2.0 Consensus size: 158
3532582 ATGCCCGTGA
* *
3532592 AAATAATGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAATTAAGGCCGGGGTTG
1 AAATAACGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCCGGGGTTG
*
3532657 AAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTCGG
66 AAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCACTCGG
3532722 AAATAACGGGGTTGGAGTATCCTTAATG
131 AAATAACGGGGTTGGAGTATCCTTAATG
* *
3532750 AAATAACGGGGTTGGAGTATCTCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCCGGGGTTG
1 AAATAACGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCCGGGGTTG
3532815 AAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCACTCGG
66 AAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCACTCGG
*
3532880 AAATAATGGGGTTGGAGTATCC
131 AAATAACGGGGTTGGAGTATCC
3532902 CCGATTGTGA
Statistics
Matches: 146, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
158 146 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (158 bp):
AAATAACGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCCGGGGTTG
AAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCACTCGG
AAATAACGGGGTTGGAGTATCCTTAATG
Found at i:3532952 original size:51 final size:51
Alignment explanation
Indices: 3532886--3533003 Score: 200
Period size: 51 Copynumber: 2.3 Consensus size: 51
3532876 TCGGAAATAA
* *
3532886 TGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGC
1 TGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGC
* *
3532937 TGGGGTTGAAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGC
1 TGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGC
3532988 TGGGGTTGGAGTATCC
1 TGGGGTTGGAGTATCC
3533004 TTTCGAAAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.30
Consensus pattern (51 bp):
TGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAGC
Found at i:3532964 original size:130 final size:130
Alignment explanation
Indices: 3532728--3533166 Score: 729
Period size: 130 Copynumber: 3.4 Consensus size: 130
3532718 TCGGAAATAA
* *
3532728 CGGGGTTGGAGTATCCTTAAT--GAAATAACGGGGTTGGAGTATCTCCGATTGTGAGAAATCAAT
1 CGGGGTTGGAGTATCC--ACTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAAT
3532791 ATTTTAGAAATAAGGCCGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAA
64 ATTTTAGAAATAAGGCCGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAA
3532856 GC
129 GC
*
3532858 CGGGGTTGGAGTATCCACTCGGAAATAATGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
1 CGGGGTTGGAGTATCCACTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
* *
3532923 TTTAGAAATAAGGCTGGGGTTGAAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGC
66 TTTAGAAATAAGGCCGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGC
* ** *
3532988 TGGGGTTGGAGTATCCTTTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
1 CGGGGTTGGAGTATCCACTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
* *
3533053 TGTAGAAATAAGGCCGGGGTTAAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGC
66 TTTAGAAATAAGGCCGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGC
* *
3533118 TGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCACTCGGAAATAACGGGGTTGGAGTATCCCCGAT
3533167 GAAATAATGG
Statistics
Matches: 290, Mismatches: 17, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
128 2 0.01
130 288 0.99
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (130 bp):
CGGGGTTGGAGTATCCACTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATAT
TTTAGAAATAAGGCCGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGC
Found at i:3533083 original size:51 final size:51
Alignment explanation
Indices: 3533016--3533135 Score: 186
Period size: 51 Copynumber: 2.4 Consensus size: 51
3533006 TCGAAAATAA
*
3533016 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTGTAGAAATAAGGC
1 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTGTAGAAATAAAGC
** * *
3533067 CGGGGTTAAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGC
1 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTGTAGAAATAAAGC
*
3533118 TGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
3533136 TCGGAAATAA
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.27
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTGTAGAAATAAAGC
Found at i:3533154 original size:28 final size:28
Alignment explanation
Indices: 3533119--3533193 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 28
3533109 AAATAAAGCT
**
3533119 GGGGTTGGAGTATCCCCTCGGAAATAAC
1 GGGGTTGGAGTATCCCCGAGGAAATAAC
* *
3533147 GGGGTTGGAGTATCCCCGATGAAATAAT
1 GGGGTTGGAGTATCCCCGAGGAAATAAC
**
3533175 GGGGTTAAAGTATCCCCGA
1 GGGGTTGGAGTATCCCCGA
3533194 TTGTGAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.27, C:0.19, G:0.32, T:0.23
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGAGGAAATAAC
Found at i:3533242 original size:51 final size:51
Alignment explanation
Indices: 3533183--3533293 Score: 195
Period size: 51 Copynumber: 2.2 Consensus size: 51
3533173 ATGGGGTTAA
*
3533183 AGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCGGAGTTGG
1 AGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAATCGGAGTTGG
* *
3533234 AGTATCCCCGATTATGAAGAATTGGTGTTTTAGAAATAAAATCGGGGTTGG
1 AGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAATCGGAGTTGG
3533285 AGTATCCCC
1 AGTATCCCC
3533294 TCGAAAATAA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.31
Consensus pattern (51 bp):
AGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAATCGGAGTTGG
Found at i:3533313 original size:79 final size:79
Alignment explanation
Indices: 3533229--3533524 Score: 438
Period size: 79 Copynumber: 3.8 Consensus size: 79
3533219 TAAAATCGGA
* * *
3533229 GTTGGAGTATCCCCGATTATGAAGAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
3533294 TCGAAAATAACGGG
66 TCGAAAATAACGGG
* * *
3533308 ATTGGAGTATCCCTGATTATGAAAAATTGATATTTTAGAAATAAAATCGGGGCTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
*
3533373 TCGAAAATAATGGG
66 TCGAAAATAACGGG
* * ** *
3533387 GTTTGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAGCCGGGGTTGGATTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
3533452 TCGAAAATAACGGG
66 TCGAAAATAACGGG
*
3533466 GTTGGAGTATCCCCG---ATGAAAAATTGATGTTTT-GAAAATAAAATCGGGGTTGGAGTATC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAG-AAATAAAATCGGGGTTGGAGTATC
3533525 TCGAGATGAA
Statistics
Matches: 194, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
75 1 0.01
76 37 0.19
79 156 0.80
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
TCGAAAATAACGGG
Found at i:3533370 original size:418 final size:417
Alignment explanation
Indices: 3532490--3533372 Score: 1162
Period size: 418 Copynumber: 2.1 Consensus size: 417
3532480 ACCTCTCCCG
* * ** *
3532490 ATGAAAAATTAATATTTTGGAGATAACAACGGGGCTGGAGTATCCCCGATTATGAAAGATCGGTG
1 ATGAAAAATTAATATTTTAGAAATAA-AACGGGGCTGGAGTATCCCCGATTATGAAAGATCAATA
*
3532555 TTCTGAAAATAAAATCAAGATTGGAGTATGCCCGTGAAAATAATGGGGTTGAAGTATCCCCGATT
65 TTCTGAAAATAAAATCAAGATTGGAGTATGCCCGTGAAAATAACGGGGTTGAAGTATCCCCGATT
* * *
3532620 GTGAGAAATCAATATTTTAGAATTAAGGCCGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATA
130 GTGAGAAATCAATATTGTAGAAATAAGGCCGGGGTTAAAGTATCCCCGATTGTGAGAAATCAATA
**
3532685 TTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCTTAATG
195 TTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATG
** * * ** *
3532750 AAATAACGGGGTTGGAGTATCTCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCCGGGGTTG
260 AAATAACGGGGTTAAAGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAACCGGAGTTG
* * * *
3532815 AAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCACTCGG
325 AAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCACTCGA
* *
3532880 AAATAATGGGGTTGGAGTATCCCCGATT
390 AAATAACGGGATTGGAGTATCCCCGATT
* * * ** * *
3532908 GTGAGAAATCAATATTTTAGAAATAAGGCTGGGGTTGAAGTATCCCCGATTATGAGAA-ATCAAT
1 ATGAAAAATTAATATTTTAGAAATAAAAC-GGGGCTGGAGTATCCCCGATTATGA-AAGATCAAT
* * * ** * ** *
3532972 ATTTTGGAAAT-AAAGCTGGGGTTGGAGTAT-CCTTTCGAAAATAACGGGGTTGGAGTATCCCCG
64 ATTCTGAAAATAAAATC-AAGATTGGAGTATGCCCGT-GAAAATAACGGGGTTGAAGTATCCCCG
3533035 ATTGTGAGAAATCAATATTGTAGAAATAAGGCCGGGGTTAAAGTATCCCCGATTGTGAGAAATCA
127 ATTGTGAGAAATCAATATTGTAGAAATAAGGCCGGGGTTAAAGTATCCCCGATTGTGAGAAATCA
* *
3533100 ATATTTTGGAAATAAAGCTGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCG
192 ATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCA
* *** * *
3533165 ATGAAATAATGGGGTTAAAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCGGAG
257 ATGAAATAACGGGGTTAAAGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAACCGGAG
* *** * * *
3533230 TTGGAGTATCCCCGATTATGA-AGAATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
322 TTGAAGTATCCCCGATTATGAGA-AATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCAC
*
3533294 TCGAAAATAACGGGATTGGAGTATCCCTGATT
386 TCGAAAATAACGGGATTGGAGTATCCCCGATT
*
3533326 ATGAAAAATTGATATTTTAGAAATAAAATCGGGGCTGGAGTATCCCC
1 ATGAAAAATTAATATTTTAGAAATAAAA-CGGGGCTGGAGTATCCCC
3533373 TCGAAAATAA
Statistics
Matches: 395, Mismatches: 64, Indels: 12
0.84 0.14 0.03
Matches are distributed among these distances:
417 9 0.02
418 383 0.97
419 3 0.01
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (417 bp):
ATGAAAAATTAATATTTTAGAAATAAAACGGGGCTGGAGTATCCCCGATTATGAAAGATCAATAT
TCTGAAAATAAAATCAAGATTGGAGTATGCCCGTGAAAATAACGGGGTTGAAGTATCCCCGATTG
TGAGAAATCAATATTGTAGAAATAAGGCCGGGGTTAAAGTATCCCCGATTGTGAGAAATCAATAT
TTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATGA
AATAACGGGGTTAAAGTATCCCCGATTGTGAAAAATCAATATTTTAGAAATAAAACCGGAGTTGA
AGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCACTCGAA
AATAACGGGATTGGAGTATCCCCGATT
Found at i:3535851 original size:20 final size:19
Alignment explanation
Indices: 3535826--3535920 Score: 136
Period size: 20 Copynumber: 4.8 Consensus size: 19
3535816 AAAATGCCTG
*
3535826 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
*
3535846 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-A
3535866 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
3535886 AATGTATCGATACAATGAA
1 AATGTATCGATACAATGAA
3535905 CAATGTATCGATACAA
1 -AATGTATCGATACAA
3535921 ATTGTGAAAA
Statistics
Matches: 69, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
19 3 0.04
20 65 0.94
21 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:3535888 original size:40 final size:40
Alignment explanation
Indices: 3535826--3535920 Score: 163
Period size: 40 Copynumber: 2.4 Consensus size: 40
3535816 AAAATGCCTG
* * *
3535826 AATGTATCGATACATTGTAAAATGTATCGATACAATGAGC
1 AATGTATCGATACAATGCAAAATGTATCGATACAATGAAC
3535866 AATGTATCGATACAATGCAAAATGTATCGATACAATGAAC
1 AATGTATCGATACAATGCAAAATGTATCGATACAATGAAC
3535906 AATGTATCGATACAA
1 AATGTATCGATACAA
3535921 ATTGTGAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (40 bp):
AATGTATCGATACAATGCAAAATGTATCGATACAATGAAC
Found at i:3536482 original size:40 final size:40
Alignment explanation
Indices: 3536399--3536499 Score: 107
Period size: 40 Copynumber: 2.5 Consensus size: 40
3536389 GTCCCATTTT
* * *
3536399 TTGAGGACAAAGG-AAAAGAGAATGAAATAGGTCTTGCTCC
1 TTGAGGACAAAGGAAAAAGAAAAGGAAATA-GTCCTGCTCC
* *
3536439 TTGAGCACAAAGGAAAAAGAAAAGGAAAGT-GTCCTGCTTC
1 TTGAGGACAAAGGAAAAAGAAAAGGAAA-TAGTCCTGCTCC
*
3536479 TTGAGGGCAAAGTGAAAAAGA
1 TTGAGGACAAAG-GAAAAAGA
3536500 GTACGTCCTG
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
40 30 0.59
41 20 0.39
42 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.28, T:0.18
Consensus pattern (40 bp):
TTGAGGACAAAGGAAAAAGAAAAGGAAATAGTCCTGCTCC
Found at i:3536564 original size:43 final size:43
Alignment explanation
Indices: 3536505--3536697 Score: 126
Period size: 42 Copynumber: 4.5 Consensus size: 43
3536495 AAAGAGTACG
**
3536505 TCCTGCT-TTTCGAGGATAAAAGAAAAAAGGAAAACGAAA-TGTT
1 TCCTGCTCTTT-GAGGATAAAAGAAAAAAGGAAAAC-AAAGTGCA
* *
3536548 TCTTGCTCTTTGAGGATAAAAG-AAAGAGGAAAACAAAGTGCA
1 TCCTGCTCTTTGAGGATAAAAGAAAAAAGGAAAACAAAGTGCA
* * * * **
3536590 TCCTACTCTTTGAGGACAAAAGAGAAAATAAGG-GAACGAAGTGTG
1 TCCTGCTCTTTGAGGA-TAAA-AGAAAA-AAGGAAAACAAAGTGCA
* * * * * * * *
3536635 TCCTACTCTTTGAGGA-CAAGGGAGAGAGGAAAATAAAGTGCG
1 TCCTGCTCTTTGAGGATAAAAGAAAAAAGGAAAACAAAGTGCA
* *
3536677 TCATGCTCTTTGAGGACAAAA
1 TCCTGCTCTTTGAGGATAAAA
3536698 AAGTGCCACC
Statistics
Matches: 117, Mismatches: 25, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
41 6 0.05
42 52 0.44
43 24 0.21
44 5 0.04
45 27 0.23
46 3 0.03
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (43 bp):
TCCTGCTCTTTGAGGATAAAAGAAAAAAGGAAAACAAAGTGCA
Found at i:3536955 original size:117 final size:117
Alignment explanation
Indices: 3536682--3537012 Score: 480
Period size: 117 Copynumber: 2.9 Consensus size: 117
3536672 GTGCGTCATG
* *
3536682 CTCTTTGAGGAC-AAAAAAGTGCCACCAACTTCTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAG
1 CTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCTTGCTCTTTGAG
* * *
3536746 GATTGGGAAGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCGTCCTG
66 GACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTA
** *
3536792 CTCTTTGAGGACTAAAAAAAAGCCACCAACTTGTGTAGGCTTTGAAAGGCGTCTTGCTCTTTGAG
1 CTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCTTGCTCTTTGAG
* * *
3536857 GACTGGAAAATGCCACCAACTTGTATGGGCTTTGAAAGGAAAAGGTGTCCTA
66 GACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTA
* *
3536909 CTTTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCTTGCTCTTTGAG
1 CTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCTTGCTCTTTGAG
3536974 GACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGG
66 GACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGG
3537013 CGGCTTGCTC
Statistics
Matches: 195, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
110 12 0.06
111 76 0.39
116 4 0.02
117 103 0.53
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (117 bp):
CTCTTTGAGGACTAAAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGTCTTGCTCTTTGAG
GACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTA
Found at i:3537031 original size:55 final size:56
Alignment explanation
Indices: 3536669--3537033 Score: 450
Period size: 55 Copynumber: 6.5 Consensus size: 56
3536659 AGAGGAAAAT
* * *
3536669 AAAGTGCGTCATGCTCTTTGAGGAC-AAAAAAGTGCCACCAACTTCTGTGGGCTTTG
1 AAAG-GCGTCTTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTG
* * ** *
3536725 AAAGGCGTCCTGCTCTTTGAGGA-TTGGGAAGTGCCACCAACTTGTGTGGGCTTTA
1 AAAGGCGTCTTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTG
* * ** *
3536780 AAAGGCGTCCTGCTCTTTGAGGACTAAAAAAAAGCCACCAACTTGTGTAGGCTTTG
1 AAAGGCGTCTTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTG
* *
3536836 AAAGGCGTCTTGCTCTTTGAGGACTGGAAAA-TGCCACCAACTTGTATGGGCTTTGAAAGG
1 AAAGGCGTCTTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-----G
* * * *
3536896 AAAAGGTGTCCTACTTTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTG
1 -AAAGGCGTCTTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTG
*
3536953 AAAGGCGTCTTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTG
1 AAAGGCGTCTTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTG
*
3537008 AAAGGCGGCTTGCTCTTTGAGGACTA
1 AAAGGCGTCTTGCTCTTTGAGGACTA
3537034 AAAGGTGAAA
Statistics
Matches: 266, Mismatches: 33, Indels: 20
0.83 0.10 0.06
Matches are distributed among these distances:
55 139 0.52
56 77 0.29
57 1 0.00
60 1 0.00
61 26 0.10
62 22 0.08
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (56 bp):
AAAGGCGTCTTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTG
Found at i:3537165 original size:100 final size:100
Alignment explanation
Indices: 3536957--3537349 Score: 577
Period size: 100 Copynumber: 4.0 Consensus size: 100
3536947 GCTTTGAAAG
*
3536957 GCGTCTTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCG
1 GCGTCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
* * * *
3537015 GCTTGCTCTTTGAGGACTAAAAGGTGAAAGAAGAGA
65 TCCTGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGA
*
3537051 GCATCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
3537116 CCTGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGA
66 CCTGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGA
*
3537151 GCGTCCTGCCCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
1 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
* *
3537216 CCTACTCTTTAAGGACTAAAGGGTGAAAGGAGAGA
66 CCTGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGA
* * *
3537251 GTGTCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAAGGCA
1 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG-AAAAGGCG
* *
3537316 TCCTGCTCTTTGAGGAATGAAA-AGTGAAAGGAGA
65 TCCTGCTCTTTGAGGACT-AAAGGGTGAAAGGAGA
3537350 AAGTTTAGAT
Statistics
Matches: 272, Mismatches: 18, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
94 46 0.17
95 1 0.00
99 1 0.00
100 188 0.69
101 33 0.12
102 3 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (100 bp):
GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
CCTGCTCTTTGAGGACTAAAGGGTGAAAGGAGAGA
Found at i:3538329 original size:13 final size:12
Alignment explanation
Indices: 3538313--3538359 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 12
3538303 TTCTTTTCCC
3538313 TTTTTTTTTTGCTT
1 TTTTTTTTTTG--T
3538327 TTTTTTTCTTTGT
1 TTTTTTT-TTTGT
3538340 TTTGTTTTTTTGT
1 TTT-TTTTTTTGT
3538353 TTTTTTT
1 TTTTTTT
3538360 AAAAAGAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
12 4 0.13
13 12 0.39
14 11 0.35
15 4 0.13
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.87
Consensus pattern (12 bp):
TTTTTTTTTTGT
Found at i:3541020 original size:37 final size:37
Alignment explanation
Indices: 3540970--3541048 Score: 158
Period size: 37 Copynumber: 2.1 Consensus size: 37
3540960 AGTTTTCGCA
3540970 AATCAGCAATATGTTCACTCTCCTTTAGTGATTTGGC
1 AATCAGCAATATGTTCACTCTCCTTTAGTGATTTGGC
3541007 AATCAGCAATATGTTCACTCTCCTTTAGTGATTTGGC
1 AATCAGCAATATGTTCACTCTCCTTTAGTGATTTGGC
3541044 AATCA
1 AATCA
3541049 TATCATCCAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.37
Consensus pattern (37 bp):
AATCAGCAATATGTTCACTCTCCTTTAGTGATTTGGC
Found at i:3550683 original size:51 final size:51
Alignment explanation
Indices: 3550618--3550893 Score: 288
Period size: 51 Copynumber: 5.3 Consensus size: 51
3550608 GAAAATAATA
* *
3550618 GGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAGGCCG
1 GGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCG
*
3550669 GGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCG
1 GGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCG
*** * *** * **
3550720 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCTCAATGAAAT-AA--CG
1 GGGTTGGAGTAT-CCC-CGATTGTGA-GAAATCA-A-TAT--TTTA-GAAATAAAGCCG
* * *
3550776 GGGTTGGAGTATCTCCGATTGTGAGAAATCAATATTTTAGAAATAAGGTCG
1 GGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCG
* * *
3550827 GGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCTG
1 GGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCG
3550878 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
3550894 TCGGAAATAA
Statistics
Matches: 181, Mismatches: 33, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
48 5 0.03
49 3 0.02
51 124 0.69
52 4 0.02
53 8 0.04
54 8 0.04
55 3 0.02
56 17 0.09
58 4 0.02
59 5 0.03
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCG
Found at i:3550752 original size:28 final size:28
Alignment explanation
Indices: 3550718--3550788 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 28
3550708 GAAATAAAGC
*
3550718 CGGGGTTGGAGTATCCCCTCGA-AAATAA
1 CGGGGTTGGAGTAT-CCCTCAAGAAATAA
*
3550746 CGGGGTTAGAGTAT-CCTCAATGAAATAA
1 CGGGGTTGGAGTATCCCTCAA-GAAATAA
3550774 CGGGGTTGGAGTATC
1 CGGGGTTGGAGTATC
3550789 TCCGATTGTG
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
26 5 0.14
28 32 0.86
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCTCAAGAAATAA
Found at i:3550884 original size:158 final size:158
Alignment explanation
Indices: 3550618--3550919 Score: 541
Period size: 158 Copynumber: 1.9 Consensus size: 158
3550608 GAAAATAATA
3550618 GGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAGGCCGGGGTTGAAGTATCC
1 GGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAGGCCGGGGTTGAAGTATCC
3550683 CCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACG
66 CCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACG
3550748 GGGTTAGAGTATCCTCAATGAAATAACG
131 GGGTTAGAGTATCCTCAATGAAATAACG
* * *
3550776 GGGTTGGAGTATCTCCGATTGTGAGAAATCAATATTTTAGAAATAAGGTCGGGGTTGAAGTATCC
1 GGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAGGCCGGGGTTGAAGTATCC
* * *
3550841 CCGATTGTGAGAAATCAATATTTTGGAAATAAAGCTGGGGTTGGAGTATCCCCTCGGAAATAACG
66 CCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACG
*
3550906 GGGTTGGAGTATCC
131 GGGTTAGAGTATCC
3550920 CCGATTGTGA
Statistics
Matches: 137, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
158 137 1.00
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.27
Consensus pattern (158 bp):
GGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAGAAATAAGGCCGGGGTTGAAGTATCC
CCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACG
GGGTTAGAGTATCCTCAATGAAATAACG
Found at i:3550908 original size:79 final size:79
Alignment explanation
Indices: 3550825--3550972 Score: 251
Period size: 79 Copynumber: 1.9 Consensus size: 79
3550815 GAAATAAGGT
* * *
3550825 CGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCTGGGGTTGGAGTAT
1 CGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGAAGTAT
3550890 CCCCTCGGAAATAA
66 CCCCTCGGAAATAA
* *
3550904 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCCGGGGTTGAAGTAT
1 CGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGAAGTAT
3550969 CCCC
66 CCCC
3550973 GATTGTGAGA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 64 1.00
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.26
Consensus pattern (79 bp):
CGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGGTTGAAGTAT
CCCCTCGGAAATAA
Found at i:3550970 original size:51 final size:51
Alignment explanation
Indices: 3550904--3551021 Score: 200
Period size: 51 Copynumber: 2.3 Consensus size: 51
3550894 TCGGAAATAA
*
3550904 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGC
1 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGC
* *
3550955 CGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGC
1 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGC
*
3551006 CGGGATTGGAGTATCC
1 CGGGGTTGGAGTATCC
3551022 TTTCGAAAGT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGC
Found at i:3550980 original size:130 final size:130
Alignment explanation
Indices: 3550767--3551184 Score: 721
Period size: 130 Copynumber: 3.2 Consensus size: 130
3550757 TATCCTCAAT
* *
3550767 GAAATAACGGGGTTGGAGTATCTCCGATTGTGAGAAATCAATATTTTAGAAATAAGGTCGGGGTT
1 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCCGGGGTT
*
3550832 GAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCTGGGGTTGGAGTATCCCCTCG
66 GAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTCG
3550897 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCCGGGGTT
1 GAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCCGGGGTT
* **
3550962 GAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGATTGGAGTATCCTTTC-
66 GAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTCG
*
3551026 GAAAGTAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAGGGCCGGGGT
1 GAAA-TAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCCGGGGT
* *
3551091 TGAAGTATCCCCAATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTT
65 TGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTC
3551156 G
130 G
* *
3551157 GAAATAATGGGGTTGGAGTATCCTCGAT
1 GAAATAACGGGGTTGGAGTATCCCCGAT
3551185 GAAATATTGG
Statistics
Matches: 272, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
129 4 0.01
130 264 0.97
131 4 0.01
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (130 bp):
GAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAGGCCGGGGTT
GAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATCCCCTCG
Found at i:3551038 original size:79 final size:79
Alignment explanation
Indices: 3550955--3551100 Score: 238
Period size: 79 Copynumber: 1.8 Consensus size: 79
3550945 GAAATAAGGC
* *
3550955 CGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGATTGGAGTAT
1 CGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGATTGAAGTAT
3551020 CCTTTCGAAAGTAA
66 CCTTTCGAAAGTAA
* ** *
3551034 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAGGGCCGGGGTTGAAGTAT
1 CGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGATTGAAGTAT
3551099 CC
66 CC
3551101 CCAATTGTGA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 61 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.27
Consensus pattern (79 bp):
CGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAAAGCCGGGATTGAAGTAT
CCTTTCGAAAGTAA
Found at i:3551110 original size:51 final size:51
Alignment explanation
Indices: 3551034--3551153 Score: 195
Period size: 51 Copynumber: 2.4 Consensus size: 51
3551024 TCGAAAGTAA
* **
3551034 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAATAGGGC
1 CGGGGTTGGAGTATCCCCAATTGTGAGAAATCAATATTTTAGAAATAAAGC
* *
3551085 CGGGGTTGAAGTATCCCCAATTGTGAGAAATCAATATTTTGGAAATAAAGC
1 CGGGGTTGGAGTATCCCCAATTGTGAGAAATCAATATTTTAGAAATAAAGC
3551136 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
3551154 TTGGAAATAA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 63 1.00
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCAATTGTGAGAAATCAATATTTTAGAAATAAAGC
Found at i:3551212 original size:28 final size:29
Alignment explanation
Indices: 3551137--3551212 Score: 102
Period size: 28 Copynumber: 2.7 Consensus size: 29
3551127 AAATAAAGCC
*
3551137 GGGGTTGGAGTATCCCC-TTGGAAATAAT
1 GGGGTTGGAGTATCCCCGATGGAAATAAT
* *
3551165 GGGGTTGGAGTATCCTCGAT-GAAATATT
1 GGGGTTGGAGTATCCCCGATGGAAATAAT
*
3551193 GGGGTTAGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
3551213 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 41 0.98
29 1 0.02
ACGTcount: A:0.24, C:0.14, G:0.33, T:0.29
Consensus pattern (29 bp):
GGGGTTGGAGTATCCCCGATGGAAATAAT
Found at i:3551260 original size:51 final size:51
Alignment explanation
Indices: 3551194--3551311 Score: 184
Period size: 51 Copynumber: 2.3 Consensus size: 51
3551184 TGAAATATTG
* *
3551194 GGGTTAGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATC-
1 GGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCA
* *
3551244 GGAGTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAATCA
1 GG-GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCA
3551296 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
3551312 TCGGAAATAA
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
50 2 0.03
51 58 0.94
52 2 0.03
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.31
Consensus pattern (51 bp):
GGGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTAGAAATAAAATCA
Found at i:3551331 original size:79 final size:79
Alignment explanation
Indices: 3551247--3551545 Score: 390
Period size: 79 Copynumber: 3.8 Consensus size: 79
3551237 TAAAATCGGA
* * * *
3551247 GTTGGAGTATCCCCGATTGTGGAGAATTGGTGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCC
3551312 TCGGAAATAACGGG
66 TCGGAAATAACGGG
* * *
3551326 ATTGGAGTATCCCTGATTATGAAAAATTGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCTCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCC
3551391 TCGGAAATAACGGG
66 TCGGAAATAACGGG
* * * * * ** *
3551405 GTTTGAGTATCCCCGATTATGAGAAATTAATATTTTAAAAATAAAGCCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCC
*
3551470 TCGAAAATAACGGG
66 TCGGAAATAACGGG
* * *
3551484 GTTGGAGTATCTCCG---ATGAAAAATTGATGTTTTGGAAATAAAA-CCGAGGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCAG-GGTTGGAGTATCCC
3551545 C
65 C
3551546 GAGATGAAAA
Statistics
Matches: 191, Mismatches: 28, Indels: 5
0.85 0.12 0.02
Matches are distributed among these distances:
75 2 0.01
76 37 0.19
79 152 0.80
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.29
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAATCAGGGTTGGAGTATCCCC
TCGGAAATAACGGG
Found at i:3554315 original size:72 final size:72
Alignment explanation
Indices: 3554198--3554342 Score: 290
Period size: 72 Copynumber: 2.0 Consensus size: 72
3554188 CAAATACATC
3554198 ATTATTTGTTTATAAGAATAAATATAAGCTTTATTGCTAACAAGATCTTTCAATTCATGCATCAG
1 ATTATTTGTTTATAAGAATAAATATAAGCTTTATTGCTAACAAGATCTTTCAATTCATGCATCAG
3554263 CTAACTT
66 CTAACTT
3554270 ATTATTTGTTTATAAGAATAAATATAAGCTTTATTGCTAACAAGATCTTTCAATTCATGCATCAG
1 ATTATTTGTTTATAAGAATAAATATAAGCTTTATTGCTAACAAGATCTTTCAATTCATGCATCAG
3554335 CTAACTT
66 CTAACTT
3554342 A
1 A
3554343 ACAATACTTG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.40
Consensus pattern (72 bp):
ATTATTTGTTTATAAGAATAAATATAAGCTTTATTGCTAACAAGATCTTTCAATTCATGCATCAG
CTAACTT
Found at i:3659551 original size:14 final size:13
Alignment explanation
Indices: 3659531--3659565 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
3659521 ACCTTTTCTT
3659531 CAAAAAAAAAAAG
1 CAAAAAAAAAAAG
3659544 CAAAAAAAAAAAG
1 CAAAAAAAAAAAG
*
3659557 GAAAAAAAA
1 CAAAAAAAA
3659566 CAAAAAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.86, C:0.06, G:0.09, T:0.00
Consensus pattern (13 bp):
CAAAAAAAAAAAG
Found at i:3659565 original size:23 final size:23
Alignment explanation
Indices: 3659535--3659578 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
3659525 TTTCTTCAAA
3659535 AAAAAAAAGCAAAAAAA-AAAAGG
1 AAAAAAAA-CAAAAAAACAAAAGG
3659558 AAAAAAAACAAAAAAACAAAA
1 AAAAAAAACAAAAAAACAAAA
3659579 CAAAGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.86, C:0.07, G:0.07, T:0.00
Consensus pattern (23 bp):
AAAAAAAACAAAAAAACAAAAGG
Found at i:3659570 original size:35 final size:37
Alignment explanation
Indices: 3659531--3659602 Score: 96
Period size: 35 Copynumber: 2.0 Consensus size: 37
3659521 ACCTTTTCTT
3659531 CAAAAAAA-AAAAGCAAAAAAAAAAAG-GAAAA-AAAA
1 CAAAAAAACAAAA-CAAAAAAAAAAAGAGAAAAGAAAA
* *
3659566 CAAAAAAACAAAACAAAGAAAAAGAGAGAAAAGAAAA
1 CAAAAAAACAAAACAAAAAAAAAAAGAGAAAAGAAAA
3659603 AACCTACTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 19 0.59
36 9 0.28
37 4 0.12
ACGTcount: A:0.82, C:0.07, G:0.11, T:0.00
Consensus pattern (37 bp):
CAAAAAAACAAAACAAAAAAAAAAAGAGAAAAGAAAA
Found at i:3660648 original size:26 final size:26
Alignment explanation
Indices: 3660618--3660703 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
3660608 AAGTTGGTGG
*
3660618 CACCTTTCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
* * * **
3660644 CACCTCTTAAAGCCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCACA-AAG-AGCAGGA
*
3660673 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
3660699 CACCT
1 CACCT
3660704 CTTAAAGCCC
Statistics
Matches: 43, Mismatches: 12, Indels: 10
0.66 0.18 0.15
Matches are distributed among these distances:
25 3 0.07
26 13 0.30
27 8 0.19
28 8 0.19
29 8 0.19
30 3 0.07
ACGTcount: A:0.29, C:0.34, G:0.19, T:0.19
Consensus pattern (26 bp):
CACCTTTCAGTCCACAAAGAGCAGGA
Found at i:3660655 original size:55 final size:55
Alignment explanation
Indices: 3660571--3661028 Score: 685
Period size: 55 Copynumber: 8.3 Consensus size: 55
3660561 TCCGCTTTTT
3660571 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
3660626 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
3660681 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCCTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
3660736 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
3660791 AGTCCTCAAAGAACAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
*
3660846 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCTACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
3660901 A-TTCTCCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCT-CAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* * * * *
3660956 AGTCCTCAAAAAGCAGGACGCCT-TTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* *
3661011 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
3661029 TACAGTTTAT
Statistics
Matches: 374, Mismatches: 22, Indels: 14
0.91 0.05 0.03
Matches are distributed among these distances:
54 9 0.02
55 357 0.95
56 8 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:3661715 original size:19 final size:19
Alignment explanation
Indices: 3661695--3661758 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
3661685 CAACGATTTG
*
3661695 TATCGATACATAAGTTTTG
1 TATCGATACATAAGTTTTA
3661714 TATCGATAC--AA----TA
1 TATCGATACATAAGTTTTA
*
3661727 TATCGATACATAAGTATTA
1 TATCGATACATAAGTTTTA
3661746 TATCGATACATAA
1 TATCGATACATAA
3661759 TTAGCTACTA
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 10 0.26
15 2 0.05
17 2 0.05
19 24 0.63
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (19 bp):
TATCGATACATAAGTTTTA
Found at i:3661731 original size:32 final size:32
Alignment explanation
Indices: 3661695--3661755 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
3661685 CAACGATTTG
* *
3661695 TATCGATACATAAGTTTTGTATCGATACAATA
1 TATCGATACATAAGTATTATATCGATACAATA
3661727 TATCGATACATAAGTATTATATCGATACA
1 TATCGATACATAAGTATTATATCGATACA
3661756 TAATTAGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.36
Consensus pattern (32 bp):
TATCGATACATAAGTATTATATCGATACAATA
Found at i:3661816 original size:13 final size:13
Alignment explanation
Indices: 3661798--3661823 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3661788 CATTTTTCTG
3661798 TGTATCGATACAT
1 TGTATCGATACAT
3661811 TGTATCGATACAT
1 TGTATCGATACAT
3661824 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3661820 original size:33 final size:33
Alignment explanation
Indices: 3661778--3661844 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3661768 ACCAAGGAAA
***
3661778 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
3661811 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
3661844 T
1 T
3661845 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:3664362 original size:28 final size:27
Alignment explanation
Indices: 3664295--3664363 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
3664285 CTTCACAATC
**
3664295 GGGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCAGA
* *
3664322 GGGGATACTCCAACCCCGTTATTTCCGA
1 GGGGATACTCCAACCCCGTTA-ATCAGA
3664350 GGGGATACTCCAAC
1 GGGGATACTCCAAC
3664364 TCCGGTTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.25, C:0.32, G:0.22, T:0.22
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCAGA
Found at i:3664402 original size:107 final size:105
Alignment explanation
Indices: 3664244--3664633 Score: 335
Period size: 107 Copynumber: 3.7 Consensus size: 105
3664234 TATAATCGGA
* *
3664244 GATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAAC
1 GATACTCCAACTCCGGTTTTA-TTCC-AAAAACACCAATTT-TTCACAATCGGGGATACTCCAAC
3664309 CCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGG
63 CCCGTTAATCATCGGGGATACTCCAACCCCGTTA-TTCCGAGGG
* *
3664353 GATACTCCAACTCCGGTTTTA-TCGCTAAAACACTAATTTTTCCACAATCGGGGATACTCCAATC
1 GATACTCCAACTCCGGTTTTATTC-CAAAAACACCAATTTTT-CACAATCGGGGATACTCCAA-C
** * ** * * * ** * *
3664417 CTGGTTTTATTTTC---AAAACGCCAATTTTCCTTTAAT-C--GGG
63 CCCG-TTAATCATCGGGGATACTCCAA--CCCCGTTATTCCGAGGG
* * * *
3664457 GATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGTGGATACTCCAACCT
1 GATACTCCAACTCCGGTTTTA-TTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAACCC
*
3664522 CGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGG
65 CGTTA-ATCATCGGGGATACTCCAACCCCGTTA-TTCCGAGGG
* * * * *** * * *
3664565 GATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCCC
1 GATACTCCAACTCCGGTTTTATTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCC
3664630 GTTA
66 GTTA
3664634 TTTTCGAAGG
Statistics
Matches: 220, Mismatches: 45, Indels: 34
0.74 0.15 0.11
Matches are distributed among these distances:
102 2 0.01
103 7 0.03
104 47 0.21
105 15 0.07
106 20 0.09
107 74 0.34
108 30 0.14
109 25 0.11
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (105 bp):
GATACTCCAACTCCGGTTTTATTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCC
GTTAATCATCGGGGATACTCCAACCCCGTTATTCCGAGGG
Found at i:3664423 original size:52 final size:51
Alignment explanation
Indices: 3664350--3664519 Score: 175
Period size: 52 Copynumber: 3.3 Consensus size: 51
3664340 TTATTTCCGA
*
3664350 GGGGATACTCCAACTCCGGTTTTATCGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACTCCGGTTTTATC-CTAAAACACCAATTTTTCCACAATC
** * **
3664402 GGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAA-TTTTCCTTTAATC
1 GGGGATACTCCAACTCC-GGTTTTATCCT-AAAACACCAATTTTTCC-ACAATC
* * *
3664454 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT-CACAATC
1 GGGGATACTCCAACTCCGGTTTTA--TCCTAAAACACCAATTTTTCCACAATC
*
3664506 GTGGATACTCCAAC
1 GGGGATACTCCAAC
3664520 CTCGTTATTT
Statistics
Matches: 96, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
51 10 0.10
52 69 0.72
53 12 0.12
54 5 0.05
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACTCCGGTTTTATCCTAAAACACCAATTTTTCCACAATC
Found at i:3664503 original size:104 final size:103
Alignment explanation
Indices: 3664183--3664518 Score: 288
Period size: 104 Copynumber: 3.2 Consensus size: 103
3664173 ATCAATTCTC
* * * * * *
3664183 CACAATCGTGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT-CTATAATCGGAGAT
1 CACAATCGGGGATACTCCAA-TCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
*
3664247 ACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
65 ACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTT-TT
* * * ** * * * ** * *
3664288 CACAATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCCAA--CCCCGTTATTTCCGA
1 CACAATCGGGGATACTCCAATCCGGTTTTATTTTC---AAAACACCAATTTTCCTTTA-AT-C--
* * *
3664350 GGGGATACTCCAACTCCGGTTTTA--TCGCTAAAACACTAATTTTT
59 GGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAATTTTT
*
3664394 CCACAATCGGGGATACTCCAATCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGA
1 -CACAATCGGGGATACTCCAATCC-GGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
*
3664459 TACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
64 TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
*
3664499 CACAATCGTGGATACTCCAA
1 CACAATCGGGGATACTCCAA
3664519 CCTCGTTATT
Statistics
Matches: 176, Mismatches: 39, Indels: 33
0.71 0.16 0.13
Matches are distributed among these distances:
103 6 0.03
104 44 0.25
105 35 0.20
106 19 0.11
107 38 0.22
108 7 0.04
109 27 0.15
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (103 bp):
CACAATCGGGGATACTCCAATCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
Found at i:3664539 original size:28 final size:28
Alignment explanation
Indices: 3664503--3664579 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
3664493 ATTTTTCACA
* * *
3664503 ATCGTGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
3664531 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
3664559 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
3664580 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.22, C:0.34, G:0.19, T:0.25
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:3664548 original size:212 final size:212
Alignment explanation
Indices: 3664181--3664586 Score: 629
Period size: 212 Copynumber: 1.9 Consensus size: 212
3664171 TTATCAATTC
* * *
3664181 TCCACAATCGTGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGAGA
1 TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGAGA
*
3664246 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
* * *
3664311 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACTCCGGTTTTATC
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
3664376 GCTAAAACACTAATTTT
196 GCTAAAACACTAATTTT
* * * *
3664393 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGGGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGA
* *
3664457 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGTGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAAC
* *
3664520 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
129 CCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
3664585 AT
193 AT
3664587 TCCCAAAATA
Statistics
Matches: 176, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
211 31 0.18
212 111 0.63
213 34 0.19
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (212 bp):
TCCACAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGAGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
GCTAAAACACTAATTTT
Found at i:3664682 original size:79 final size:79
Alignment explanation
Indices: 3664534--3664735 Score: 228
Period size: 79 Copynumber: 2.6 Consensus size: 79
3664524 TTATTTCATC
* * * * *
3664534 GGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATT
1 GGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAATATC
* *
3664599 GATTTCTCATAATT
66 GATTTCTCACAACT
* * * ** *
3664613 GGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAATCCCGATTTTTTTTTC-TAATCAT
1 GGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAAT-AT
*
3664677 CGATTTCTCACCACT
65 CGATTTCTCACAACT
* *
3664692 GGGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAACCC
1 GGGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCC
3664736 TGTTATTATC
Statistics
Matches: 104, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
78 8 0.08
79 96 0.92
ACGTcount: A:0.24, C:0.30, G:0.16, T:0.30
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAATATC
GATTTCTCACAACT
Found at i:3671875 original size:79 final size:78
Alignment explanation
Indices: 3671784--3672073 Score: 307
Period size: 79 Copynumber: 3.7 Consensus size: 78
3671774 AGTACATTCT
** * *
3671784 CCGATGGTGAAAAATTGATGGTTTGAAAATAAAACTGGGGTGGGAGTATCCCCTCAAAAATAATG
1 CCGATGGTGAAAAATTGATGGTTTGAAAATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAA-G
*
3671849 GAGTTGAAGTATCC
65 GAGTTGGAGTATCC
* * * *
3671863 CCGATTGTGAAAAATTGAT-GTTTTAGAAATAAAACCAAGGTTGGAGTATCCCCTCGAAAATAAC
1 CCGATGGTGAAAAATTGATGGTTTGA-AAATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAAG
3671927 GAGATTGGAGTATCC
65 GAG-TTGGAGTATCC
* * * * * * * * * *
3671942 CCAATTGTGAAAAATCGATGTTTTAAAAATAAAGCCAGGGTTAGAGCATTCTCTCGAAAATAACA
1 CCGATGGTGAAAAATTGATGGTTTGAAAATAAAACCAGGGTTGGAGTATCCCCTCGAAAAT-A-A
3672007 GG-GTTGGAGTATCC
64 GGAGTTGGAGTATCC
* * *
3672021 CCGATGGTG-AAAATTCAATGTTTTGGAAATAAAACCAGGGTTGGAGTATCCCC
1 CCGATGGTGAAAAATT-GATGGTTTGAAAATAAAACCAGGGTTGGAGTATCCCC
3672074 GATGGTGGAA
Statistics
Matches: 174, Mismatches: 31, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
78 13 0.07
79 153 0.88
80 6 0.03
81 2 0.01
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (78 bp):
CCGATGGTGAAAAATTGATGGTTTGAAAATAAAACCAGGGTTGGAGTATCCCCTCGAAAATAAGG
AGTTGGAGTATCC
Found at i:3672072 original size:51 final size:51
Alignment explanation
Indices: 3672005--3672105 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
3671995 TCGAAAATAA
3672005 CAGGGTTGGAGTATCCCCGATGGT-GAAAATTCAATGTTTTGGAAATAAAAC
1 CAGGGTTGGAGTATCCCCGATGGTGGAAAA-TCAATGTTTTGGAAATAAAAC
3672056 CAGGGTTGGAGTATCCCCGATGGTGGAAAATCAATGTTTTGGAAATAAAA
1 CAGGGTTGGAGTATCCCCGATGGTGGAAAATCAATGTTTTGGAAATAAAA
3672106 TTATGATTAG
Statistics
Matches: 49, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
51 44 0.90
52 5 0.10
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.27
Consensus pattern (51 bp):
CAGGGTTGGAGTATCCCCGATGGTGGAAAATCAATGTTTTGGAAATAAAAC
Found at i:3672094 original size:130 final size:131
Alignment explanation
Indices: 3671931--3672165 Score: 337
Period size: 130 Copynumber: 1.8 Consensus size: 131
3671921 AATAACGAGA
* * * * *
3671931 TTGGAGTATCCCCAATTGTGAAAAATCGATGTTTTAAAAATAAAGCCAGGGTTAGAGCATTCTCT
1 TTGGAGTATCCCCAATGGTGAAAAATCAATGTTTTAAAAATAAAACCAGGATTAGAGCATTCCCT
3671996 CGAAAATAACAGGGTTGGAGTATCCCCGATGGT-GAAAATTCAATGTTTTGGAAATAAAACCAGG
66 CGAAAATAACAGGGTTGGAGTATCCCCGATGGTAGAAAATTCAATGTTTTGGAAATAAAACCAGG
3672060 G
131 G
* * ** ** * *
3672061 TTGGAGTATCCCCGATGGTGGAAAATCAATGTTTTGGAAATAAAATTATGATTAGAGTATTCCCT
1 TTGGAGTATCCCCAATGGTGAAAAATCAATGTTTTAAAAATAAAACCAGGATTAGAGCATTCCCT
*
3672126 CGGAAATAACAGGGTTGGAGTATCCCCGATGGTAGAAAAT
66 CGAAAATAACAGGGTTGGAGTATCCCCGATGGTAGAAAAT
3672166 CAGTACTTTA
Statistics
Matches: 90, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
130 84 0.93
131 6 0.07
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (131 bp):
TTGGAGTATCCCCAATGGTGAAAAATCAATGTTTTAAAAATAAAACCAGGATTAGAGCATTCCCT
CGAAAATAACAGGGTTGGAGTATCCCCGATGGTAGAAAATTCAATGTTTTGGAAATAAAACCAGG
G
Found at i:3672119 original size:51 final size:51
Alignment explanation
Indices: 3672013--3672120 Score: 155
Period size: 51 Copynumber: 2.1 Consensus size: 51
3672003 AACAGGGTTG
* *
3672013 GAGTATCCCCGATGGTGAAAATTCAATGTTTTGGAAATAAAACCAGGGTTG
1 GAGTATCCCCGATGGTGAAAATTCAATGTTTTGGAAATAAAACCAGGATTA
** *
3672064 GAGTATCCCCGATGGTGGAAAA-TCAATGTTTTGGAAATAAAATTATGATTA
1 GAGTATCCCCGATGGT-GAAAATTCAATGTTTTGGAAATAAAACCAGGATTA
3672115 GAGTAT
1 GAGTAT
3672121 TCCCTCGGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 46 0.90
52 5 0.10
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (51 bp):
GAGTATCCCCGATGGTGAAAATTCAATGTTTTGGAAATAAAACCAGGATTA
Found at i:3675560 original size:34 final size:35
Alignment explanation
Indices: 3675522--3675588 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
3675512 CCTTACAACA
3675522 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
3675556 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
3675589 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:3676085 original size:13 final size:13
Alignment explanation
Indices: 3676067--3676092 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3676057 CTATTTATGA
3676067 TGTATCGATACAC
1 TGTATCGATACAC
3676080 TGTATCGATACAC
1 TGTATCGATACAC
3676093 ACAAATATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:3676212 original size:21 final size:22
Alignment explanation
Indices: 3676182--3676235 Score: 92
Period size: 21 Copynumber: 2.5 Consensus size: 22
3676172 ACAGTGACCT
3676182 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
*
3676204 TTGAA-AGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
3676225 ATGAACAGTGA
1 ATGAACAGTGA
3676236 AAAATGAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 20 0.69
22 9 0.31
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.28
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:3676376 original size:20 final size:20
Alignment explanation
Indices: 3676313--3676383 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
3676303 GCCAATGACC
**
3676313 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
3676333 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATAT-TAATG
3676353 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
3676373 TGTATCGATAC
1 TGTATCGATAC
3676384 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:3676449 original size:21 final size:21
Alignment explanation
Indices: 3676423--3676463 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3676413 GTCAACCTTG
3676423 TGTATTAATACCAAT-AGTATA
1 TGTATTAATA-CAATAAGTATA
*
3676444 TGTATTGATACAATAAGTAT
1 TGTATTAATACAATAAGTAT
3676464 TTTTACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATAAGTATA
Found at i:3690643 original size:20 final size:20
Alignment explanation
Indices: 3690618--3690683 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
3690608 AGAATATATC
3690618 GATACATTGAAAAATGTATT
1 GATACATTGAAAAATGTATT
* * * *
3690638 GATACATTCATACATGTATC
1 GATACATTGAAAAATGTATT
3690658 GATACATTGAAAAATGTA-T
1 GATACATTGAAAAATGTATT
3690677 GATACAT
1 GATACAT
3690684 CTGGGTAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 7 0.18
20 31 0.82
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (20 bp):
GATACATTGAAAAATGTATT
Found at i:3696307 original size:34 final size:34
Alignment explanation
Indices: 3696269--3696363 Score: 172
Period size: 34 Copynumber: 2.8 Consensus size: 34
3696259 TAAAGGGGAG
3696269 AAGTATGAGTTCTAAAAAGGGGGAGAATTTATTA
1 AAGTATGAGTTCTAAAAAGGGGGAGAATTTATTA
* *
3696303 AAGTATGAGTGCTAAAAAGAGGGAGAATTTATTA
1 AAGTATGAGTTCTAAAAAGGGGGAGAATTTATTA
3696337 AAGTATGAGTTCTAAAAAGGGGGAGAA
1 AAGTATGAGTTCTAAAAAGGGGGAGAA
3696364 AAGTTGTTAA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 57 1.00
ACGTcount: A:0.43, C:0.03, G:0.28, T:0.25
Consensus pattern (34 bp):
AAGTATGAGTTCTAAAAAGGGGGAGAATTTATTA
Found at i:3700358 original size:2 final size:2
Alignment explanation
Indices: 3700351--3700378 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3700341 ACTAAAAGGA
3700351 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
3700379 CAAGTGAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3707613 original size:3 final size:3
Alignment explanation
Indices: 3707599--3707633 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
3707589 CGAGTCAACC
* *
3707599 TCA TCA TTA TCA TCA TCA TCA TCA TCT TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
3707634 TTTGACGGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.29, C:0.31, G:0.00, T:0.40
Consensus pattern (3 bp):
TCA
Found at i:3709266 original size:20 final size:20
Alignment explanation
Indices: 3709213--3709269 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
3709203 GTTGGGTATG
* *
3709213 ATGTATCGATACAATTCTTC
1 ATGTATCGATACATTTCTCC
3709233 ATGTATCGATACATTGTC-CC
1 ATGTATCGATACATT-TCTCC
3709253 ATGTATCGATACATTTC
1 ATGTATCGATACATTTC
3709270 ACTTAGGGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 2 0.06
20 30 0.88
21 2 0.06
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTCTCC
Found at i:3711852 original size:13 final size:13
Alignment explanation
Indices: 3711834--3711858 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3711824 CATTATGCTT
3711834 TGTATCGATACAA
1 TGTATCGATACAA
3711847 TGTATCGATACA
1 TGTATCGATACA
3711859 TGTTCATTGT
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:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3711855 original size:33 final size:32
Alignment explanation
Indices: 3711813--3711877 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
3711803 GAACCCTTGT
*
3711813 ATGTATCGATACAT-TATGCTTTGTATCGATACA
1 ATGTATCGATACATGT-T-CATTGTATCGATACA
3711846 ATGTATCGATACATGTTCATTGTATCGATACA
1 ATGTATCGATACATGTTCATTGTATCGATACA
3711878 TGAAACTGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.47
33 15 0.50
34 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (32 bp):
ATGTATCGATACATGTTCATTGTATCGATACA
Found at i:3718148 original size:20 final size:20
Alignment explanation
Indices: 3718123--3718187 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
3718113 AAAACCCAAA
3718123 TGTATCGATACAATGTTCTT
1 TGTATCGATACAATGTTCTT
3718143 TGTATCGATAC-A------T
1 TGTATCGATACAATGTTCTT
3718156 TGTATCGATACAATGTTCTT
1 TGTATCGATACAATGTTCTT
3718176 TGTATCGATACA
1 TGTATCGATACA
3718188 TGGGTTACTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 12 0.32
14 1 0.03
19 1 0.03
20 24 0.63
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
TGTATCGATACAATGTTCTT
Found at i:3718160 original size:13 final size:13
Alignment explanation
Indices: 3718142--3718167 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3718132 ACAATGTTCT
3718142 TTGTATCGATACA
1 TTGTATCGATACA
3718155 TTGTATCGATACA
1 TTGTATCGATACA
3718168 ATGTTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3718165 original size:33 final size:33
Alignment explanation
Indices: 3718123--3718188 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
3718113 AAAACCCAAA
3718123 TGTATCGATACAATGTTCTTTGTATCGATACAT
1 TGTATCGATACAATGTTCTTTGTATCGATACAT
3718156 TGTATCGATACAATGTTCTTTGTATCGATACAT
1 TGTATCGATACAATGTTCTTTGTATCGATACAT
3718189 GGGTTACTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATGTTCTTTGTATCGATACAT
Found at i:3719729 original size:33 final size:33
Alignment explanation
Indices: 3719665--3719731 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
3719655 CGAGAGTCGA
* *
3719665 TCACTTCACTTTCGCAGCAGATGAATGAGCACT
1 TCACTTCACTCTCGCAGCAGATGAATAAGCACT
* *
3719698 TCACTTTACTCTCGCAGC-GCATGGATAAGCACT
1 TCACTTCACTCTCGCAGCAG-ATGAATAAGCACT
3719731 T
1 T
3719732 TAGTTCTCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 1 0.03
33 28 0.97
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (33 bp):
TCACTTCACTCTCGCAGCAGATGAATAAGCACT
Found at i:3720051 original size:23 final size:24
Alignment explanation
Indices: 3720025--3720083 Score: 93
Period size: 23 Copynumber: 2.5 Consensus size: 24
3720015 GAGAGCTTTT
3720025 GAAAATAAATTCTTGACAAAG-GG
1 GAAAATAAATTCTTGACAAAGTGG
*
3720048 GAAAATAAATTCTTGATAAAGTGG
1 GAAAATAAATTCTTGACAAAGTGG
3720072 GAGAAATAAATT
1 GA-AAATAAATT
3720084 TTTAAGGGGG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
23 20 0.61
24 4 0.12
25 9 0.27
ACGTcount: A:0.49, C:0.05, G:0.20, T:0.25
Consensus pattern (24 bp):
GAAAATAAATTCTTGACAAAGTGG
Found at i:3720791 original size:13 final size:13
Alignment explanation
Indices: 3720773--3720801 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
3720763 GATACATGGC
3720773 ACAATGTATCGAT
1 ACAATGTATCGAT
3720786 ACAATGTATCGAT
1 ACAATGTATCGAT
3720799 ACA
1 ACA
3720802 TGAAGAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
ACAATGTATCGAT
Found at i:3720814 original size:33 final size:33
Alignment explanation
Indices: 3720757--3720821 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
3720747 TACCACTATT
* *
3720757 TGTATCGATACATGGCACAATGTATCGATACAA
1 TGTATCGATACATGGAACAATGTATAGATACAA
*
3720790 TGTATCGATACAT-GAAGAATTGTATAGATACA
1 TGTATCGATACATGGAACAA-TGTATAGATACA
3720822 TTGCCTCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 4 0.14
33 24 0.86
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.29
Consensus pattern (33 bp):
TGTATCGATACATGGAACAATGTATAGATACAA
Found at i:3725248 original size:20 final size:20
Alignment explanation
Indices: 3725223--3725318 Score: 140
Period size: 20 Copynumber: 4.8 Consensus size: 20
3725213 AAAAATATAA
3725223 AATGTATCGATACATTAAAG
1 AATGTATCGATACATTAAAG
3725243 AATGTATCGATACATTAAAG
1 AATGTATCGATACATTAAAG
*
3725263 AATGTATCGATACATTCATA-
1 AATGTATCGATACATT-AAAG
* *
3725283 TATGTATCGATACATTAAAA
1 AATGTATCGATACATTAAAG
*
3725303 AATGTATTGATACATT
1 AATGTATCGATACATT
3725319 TGAGTAAAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
19 2 0.03
20 65 0.94
21 2 0.03
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.34
Consensus pattern (20 bp):
AATGTATCGATACATTAAAG
Found at i:3725308 original size:111 final size:111
Alignment explanation
Indices: 3725173--3725388 Score: 274
Period size: 111 Copynumber: 1.9 Consensus size: 111
3725163 TTTTAACTAG
* * * * * *
3725173 ATGTATCGATAAAATGAATAATGTATCGATACATCTGGGTAAAAATATAAAATGTATCGATACAT
1 ATGTATCGATAAAATAAAAAATGTATCGATACATCTGAGTAAAAAGACAAAATGCATCGATACAT
3725238 T-AAAGAATGTATCGATACATT-AAAGAATGTATCGATACATTCATAT
66 TCAAA-AATGTATCGATACATTGAAA-AATGTATCGATACATTCATAT
* * * * *
3725284 ATGTATCGATACATTAAAAAATGTATTGATACATTTGAGTAAAAAGACAGAATGCATCGATACAT
1 ATGTATCGATAAAATAAAAAATGTATCGATACATCTGAGTAAAAAGACAAAATGCATCGATACAT
* * *
3725349 TCATACATGTATTGATACATTGAAAAATGTATCGATACAT
66 TCAAAAATGTATCGATACATTGAAAAATGTATCGATACAT
3725389 CTGGGTAAAA
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
111 84 0.94
112 5 0.06
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (111 bp):
ATGTATCGATAAAATAAAAAATGTATCGATACATCTGAGTAAAAAGACAAAATGCATCGATACAT
TCAAAAATGTATCGATACATTGAAAAATGTATCGATACATTCATAT
Found at i:3725336 original size:71 final size:71
Alignment explanation
Indices: 3725261--3725399 Score: 215
Period size: 71 Copynumber: 2.0 Consensus size: 71
3725251 GATACATTAA
* * * *
3725261 AGAATGTATCGATACATTCATATATGTATCGATACATTAAAAAATGTATTGATACATTTGAGTAA
1 AGAATGCATCGATACATTCATACATGTATCGATACATTAAAAAATGTATCGATACATCTGAGTAA
3725326 AAAGAC
66 AAAGAC
* * *
3725332 AGAATGCATCGATACATTCATACATGTATTGATACATTGAAAAATGTATCGATACATCTGGGTAA
1 AGAATGCATCGATACATTCATACATGTATCGATACATTAAAAAATGTATCGATACATCTGAGTAA
3725397 AAA
66 AAA
3725400 TGTTATTTTT
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (71 bp):
AGAATGCATCGATACATTCATACATGTATCGATACATTAAAAAATGTATCGATACATCTGAGTAA
AAAGAC
Found at i:3725367 original size:20 final size:20
Alignment explanation
Indices: 3725334--3725388 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
3725324 AAAAAGACAG
* *
3725334 AATGCATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * *
3725354 CATGTATTGATACATTGAAA
1 AATGTATCGATACATTCAAA
3725374 AATGTATCGATACAT
1 AATGTATCGATACAT
3725389 CTGGGTAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:3726429 original size:15 final size:14
Alignment explanation
Indices: 3726418--3726461 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
3726408 AACTAAAGAT
3726418 TATATTCTTAAAAAA
1 TATATT-TTAAAAAA
3726433 TATATTTTAAAAAA
1 TATATTTTAAAAAA
**
3726447 -ATAAATTAAAAAA
1 TATATTTTAAAAAA
3726460 TA
1 TA
3726462 GACTAGCTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 11 0.42
14 9 0.35
15 6 0.23
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (14 bp):
TATATTTTAAAAAA
Found at i:3726444 original size:13 final size:15
Alignment explanation
Indices: 3726418--3726446 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3726408 AACTAAAGAT
3726418 TATATTCTTAAAAAA
1 TATATTCTTAAAAAA
3726433 TATATT-TTAAAAAA
1 TATATTCTTAAAAAA
3726447 ATAAATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (15 bp):
TATATTCTTAAAAAA
Found at i:3726625 original size:2 final size:2
Alignment explanation
Indices: 3726618--3726642 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3726608 GAACACTTCT
3726618 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
3726643 TTATTGTCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3733754 original size:2 final size:2
Alignment explanation
Indices: 3733747--3733774 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3733737 ACCACTGTCC
3733747 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
3733775 TTTGTGGTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3734774 original size:14 final size:14
Alignment explanation
Indices: 3734754--3734791 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
3734744 ATAATAATTT
3734754 TAAATATAAAATAAA
1 TAAATATAAAA-AAA
3734769 -AAATATAAAAAAA
1 TAAATATAAAAAAA
3734782 TTAAATATAA
1 -TAAATATAA
3734792 TATGATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.14
14 10 0.48
15 8 0.38
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
TAAATATAAAAAAA
Found at i:3734848 original size:25 final size:27
Alignment explanation
Indices: 3734797--3734866 Score: 90
Period size: 25 Copynumber: 2.6 Consensus size: 27
3734787 TATAATATGA
* * *
3734797 TATATTAATACATGAATATATTTAAATT
1 TATATTAATATAT-AACATATTAAAATT
3734825 TATA-TAATATA-AACATATTAAAATT
1 TATATTAATATATAACATATTAAAATT
3734850 TATATTAATATATAACA
1 TATATTAATATATAACA
3734867 CTTTTAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
25 16 0.43
26 7 0.19
27 10 0.27
28 4 0.11
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.43
Consensus pattern (27 bp):
TATATTAATATATAACATATTAAAATT
Found at i:3736690 original size:24 final size:25
Alignment explanation
Indices: 3736653--3736707 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 25
3736643 ATTTAAATTA
3736653 TTATTTAATAATAATAAAT-TA-TTT
1 TTATTTAATAATAA-AAATATATTTT
3736677 TTATTTAA-ATATAAAAATATATTTT
1 TTATTTAATA-ATAAAAATATATTTT
3736702 TTATTT
1 TTATTT
3736708 TTTATTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
23 5 0.18
24 14 0.50
25 9 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TTATTTAATAATAAAAATATATTTT
Found at i:3737891 original size:57 final size:57
Alignment explanation
Indices: 3737821--3737935 Score: 178
Period size: 57 Copynumber: 2.0 Consensus size: 57
3737811 AGATGAGTAA
* *
3737821 TATATTAAGTGTGTTAAGTGGTGTGTTAAGTAAACATATT-GGATGTGTTAGGTGAAC
1 TATATTAAGTGTGTTAAGTGGTGTGTTAAGGAAACATATTAGG-TGTATTAGGTGAAC
* *
3737878 TATATTAATTGTGTTAGGTGGTGTGTTAAGGAAACATATTAGGTGTATTAGGTGAAC
1 TATATTAAGTGTGTTAAGTGGTGTGTTAAGGAAACATATTAGGTGTATTAGGTGAAC
3737935 T
1 T
3737936 TATCTTGTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
57 51 0.96
58 2 0.04
ACGTcount: A:0.30, C:0.03, G:0.28, T:0.39
Consensus pattern (57 bp):
TATATTAAGTGTGTTAAGTGGTGTGTTAAGGAAACATATTAGGTGTATTAGGTGAAC
Found at i:3745436 original size:52 final size:52
Alignment explanation
Indices: 3745355--3745475 Score: 188
Period size: 52 Copynumber: 2.3 Consensus size: 52
3745345 GAAAATTTAT
* *
3745355 CTGCATGTATCGATACCTTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* * * *
3745407 TTGCATGTATCGATATATTTTATAATGTATCGATACATCTGGGCAAATTTTC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
3745459 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
3745476 AAGATCGGTG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.37
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:3745488 original size:52 final size:52
Alignment explanation
Indices: 3745355--3745491 Score: 152
Period size: 52 Copynumber: 2.6 Consensus size: 52
3745345 GAAAATTTAT
* *
3745355 CTGCATGTATCGATACCTTTA-ATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATA-CATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
* * *** * *
3745407 TTGCATGTATCGATATATTTTATAATGTATCGATACATCTGGGCAAATTTTC
1 CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
*
3745459 CTGCATGTATCGATACA-AAGATCGGTGTATCGA
1 CTGCATGTATCGATACATAAGAT-AGTGTATCGA
3745492 AACAATGTAT
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
51 4 0.06
52 66 0.94
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:3745569 original size:13 final size:13
Alignment explanation
Indices: 3745551--3745575 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3745541 CAAAAAAATA
3745551 TGTATCGATACAT
1 TGTATCGATACAT
3745564 TGTATCGATACA
1 TGTATCGATACA
3745576 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3745571 original size:33 final size:33
Alignment explanation
Indices: 3745529--3745595 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3745519 AGTAGCTTAA
3745529 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
3745562 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
3745595 A
1 A
3745596 AATCGTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:3746143 original size:23 final size:22
Alignment explanation
Indices: 3746078--3746156 Score: 88
Period size: 21 Copynumber: 3.6 Consensus size: 22
3746068 AAAATCTTTT
* * *
3746078 TTAAGTGTGCTAGGTAAACATA
1 TTAAGTGTGTTAGATAAATATA
3746100 TTAAGTGTGTT-GATAAATATA
1 TTAAGTGTGTTAGATAAATATA
* *
3746121 TTAGGTGTGTTAGATGAACTATA
1 TTAAGTGTGTTAGAT-AAATATA
*
3746144 TTAAGTGTATTAG
1 TTAAGTGTGTTAG
3746157 GTGGTGTGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
21 18 0.38
22 13 0.27
23 17 0.35
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.39
Consensus pattern (22 bp):
TTAAGTGTGTTAGATAAATATA
Found at i:3746184 original size:34 final size:35
Alignment explanation
Indices: 3746124--3746190 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
3746114 AAATATATTA
*
3746124 GGTGTGTTAGATGAACTATATTAAGTGTATTAGGT
1 GGTGTGTTAGATAAACTATATTAAGTGTATTAGGT
* *
3746159 GGTGTGTTAGTTAAAC-ATATTAAGTGTGTTAG
1 GGTGTGTTAGATAAACTATATTAAGTGTATTAG
3746191 TGAACTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 15 0.52
35 14 0.48
ACGTcount: A:0.28, C:0.03, G:0.28, T:0.40
Consensus pattern (35 bp):
GGTGTGTTAGATAAACTATATTAAGTGTATTAGGT
Found at i:3746492 original size:15 final size:17
Alignment explanation
Indices: 3746472--3746505 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
3746462 AAAAAATATG
3746472 AATAAAA-ATA-TTAAA
1 AATAAAACATAGTTAAA
3746487 AATAAAACATAGTTAAA
1 AATAAAACATAGTTAAA
3746504 AA
1 AA
3746506 ACGTTAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 3 0.18
17 7 0.41
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (17 bp):
AATAAAACATAGTTAAA
Found at i:3746855 original size:19 final size:19
Alignment explanation
Indices: 3746831--3746871 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
3746821 AAGTCATATT
3746831 ATTTTAAATATTATTTAAA
1 ATTTTAAATATTATTTAAA
*
3746850 ATTTTAAATGTTATTTAAA
1 ATTTTAAATATTATTTAAA
3746869 ATT
1 ATT
3746872 ACTCAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
ATTTTAAATATTATTTAAA
Found at i:3747096 original size:2 final size:2
Alignment explanation
Indices: 3747089--3747166 Score: 95
Period size: 2 Copynumber: 39.5 Consensus size: 2
3747079 TTGACGATTG
* * * *
3747089 AT AT AT AT -T AT AC AT AT AC AT AT AC AT AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
3747130 AT AT AT AT AT AT AC AT AT AC AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3747167 ACTGTCATTT
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
1 1 0.02
2 62 0.98
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:3752352 original size:16 final size:16
Alignment explanation
Indices: 3752312--3752354 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
3752302 ATAGCCTTTG
* *
3752312 TTTAGAACAATTTTTA
1 TTTAGAATAACTTTTA
* *
3752328 TTCAAAATAACTTTTA
1 TTTAGAATAACTTTTA
3752344 TTTAGAATAAC
1 TTTAGAATAAC
3752355 ATGTTTATGG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (16 bp):
TTTAGAATAACTTTTA
Found at i:3755330 original size:20 final size:21
Alignment explanation
Indices: 3755300--3755358 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
3755290 ACGTAAACTC
*
3755300 TGCATATTGTATTGATACAAT
1 TGCATATTGTATTAATACAAT
3755321 TGCA-ATTGTATTAATACAA-
1 TGCATATTGTATTAATACAAT
* * *
3755340 TACATGTTGTATCAATACA
1 TGCATATTGTATTAATACA
3755359 TCCTCATGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 3 0.09
20 26 0.79
21 4 0.12
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (21 bp):
TGCATATTGTATTAATACAAT
Found at i:3756732 original size:10 final size:9
Alignment explanation
Indices: 3756701--3756742 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
3756691 AATTAAGGAC
3756701 TTTTTGTCA
1 TTTTTGTCA
3756710 TTTCTTG-CA
1 TTT-TTGTCA
3756719 TTTTATGTCA
1 TTTT-TGTCA
*
3756729 TTTTAGTCA
1 TTTTTGTCA
3756738 TTTTT
1 TTTTT
3756743 CATGACTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
8 1 0.04
9 18 0.64
10 9 0.32
ACGTcount: A:0.14, C:0.12, G:0.10, T:0.64
Consensus pattern (9 bp):
TTTTTGTCA
Found at i:3756776 original size:57 final size:57
Alignment explanation
Indices: 3756698--3757011 Score: 286
Period size: 58 Copynumber: 5.5 Consensus size: 57
3756688 GTAAATTAAG
*
3756698 GACTTTT-TGTCATTTCTTGCATTTTATGTCATTTTAGTCATTTTTCATGACTTAGA
1 GACTTTTATGTCATTTCATGCATTTTATGTCATTTTAGTCATTTTTCATGACTTAGA
* * * *
3756754 GACTTTTATGTTAATTCATGCATTTTTATGTCATTTTAGTCATTTTTCATAAGTTATGA
1 GACTTTTATGTCATTTCATGCA-TTTTATGTCATTTTAGTCATTTTTCATGACTTA-GA
* *
3756813 G-TTTTTATGTTATTTCATGCATTTTATGTCATTTTAGTCA-TTTTCTATGAACTTAG-
1 GACTTTTATGTCATTTCATGCATTTTATGTCATTTTAGTCATTTTTC-ATG-ACTTAGA
* * * * * *
3756869 GCATTTTTATGTCATTTCATGCATTTTAACAG-CATCTTAATCATTTTT-ATGCCTTAGG
1 G-ACTTTTATGTCATTTCATGCATTTT-A-TGTCATTTTAGTCATTTTTCATGACTTAGA
* * * * *
3756927 GACTTTTATCTCATTTGATGCATTTTAAAGTCATTTTAATGCA-TTTTCATGATTTAG-
1 GACTTTTATGTCATTTCATGCATTTT-ATGTCATTTTAGT-CATTTTTCATGACTTAGA
* *
3756984 GACCATTTATG-CATTTTCATACATTTTA
1 GA-CTTTTATGTCA-TTTCATGCATTTTA
3757012 GGGTTATTCT
Statistics
Matches: 218, Mismatches: 24, Indels: 31
0.80 0.09 0.11
Matches are distributed among these distances:
56 15 0.07
57 79 0.36
58 106 0.49
59 13 0.06
60 5 0.02
ACGTcount: A:0.24, C:0.13, G:0.12, T:0.51
Consensus pattern (57 bp):
GACTTTTATGTCATTTCATGCATTTTATGTCATTTTAGTCATTTTTCATGACTTAGA
Found at i:3756852 original size:9 final size:10
Alignment explanation
Indices: 3756815--3756856 Score: 52
Period size: 9 Copynumber: 4.4 Consensus size: 10
3756805 AGTTATGAGT
*
3756815 TTTTATGTTA
1 TTTTATGTCA
*
3756825 TTTCATG-CA
1 TTTTATGTCA
3756834 TTTTATGTCA
1 TTTTATGTCA
3756844 TTTTA-GTCA
1 TTTTATGTCA
3756853 TTTT
1 TTTT
3756857 CTATGAACTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 15 0.54
10 13 0.46
ACGTcount: A:0.19, C:0.10, G:0.10, T:0.62
Consensus pattern (10 bp):
TTTTATGTCA
Found at i:3756934 original size:115 final size:115
Alignment explanation
Indices: 3756696--3756978 Score: 292
Period size: 115 Copynumber: 2.5 Consensus size: 115
3756686 TTGTAAATTA
*
3756696 AGGACTTTT-TGTCATTTCTTGCATTTTATGTCATTTTAGTCATTTT-TCATG-ACTTAGAGACT
1 AGGACTTTTATGTCATTTCATGCATTTTATGTCATTTTAGTCATTTTCT-ATGAACTTAGAGACT
* * * * * *
3756758 TTTATGTTAATTCATGCATTTTTATGTCATTTTAGTCATTTTTCATAAGTT
65 TTTATGTCAATTCATGCATTTTAAAGTCATCTTAATCATTTTTCATAACTT
* * * *
3756809 ATGAGTTTTTATGTTATTTCATGCATTTTATGTCATTTTAGTCATTTTCTATGAACTTAG-GCAT
1 AGGA-CTTTTATGTCATTTCATGCATTTTATGTCATTTTAGTCATTTTCTATGAACTTAGAG-AC
* **
3756873 TTTTATGTCATTTCATGCATTTTAACAG-CATCTTAATCATTTTT-ATGCCTT
64 TTTTATGTCAATTCATGCATTTTAA-AGTCATCTTAATCATTTTTCATAACTT
* * * *
3756924 AGGGACTTTTATCTCATTTGATGCATTTTAAAGTCATTTTAATGCATTTTC-ATGA
1 A-GGACTTTTATGTCATTTCATGCATTTT-ATGTCATTTTAGT-CATTTTCTATGA
3756979 TTTAGGACCA
Statistics
Matches: 140, Mismatches: 21, Indels: 15
0.80 0.12 0.09
Matches are distributed among these distances:
113 3 0.02
114 4 0.03
115 64 0.46
116 61 0.44
117 8 0.06
ACGTcount: A:0.24, C:0.13, G:0.12, T:0.51
Consensus pattern (115 bp):
AGGACTTTTATGTCATTTCATGCATTTTATGTCATTTTAGTCATTTTCTATGAACTTAGAGACTT
TTATGTCAATTCATGCATTTTAAAGTCATCTTAATCATTTTTCATAACTT
Found at i:3757360 original size:79 final size:77
Alignment explanation
Indices: 3757196--3757501 Score: 303
Period size: 78 Copynumber: 3.9 Consensus size: 77
3757186 GGTTATAAAG
* * * *
3757196 AAACTTTCATGTCAAAACATGTCTATTAAAGGTATTAACGTAAAAGTACCTTAAAATCG-GTTTT
1 AAACTTTCATGTCAAAACATGTCCATAAAAGGTATTTAGGTAAAAGTACCTTAAAATCGAGTTTT
3757260 TAGGATCATGTA
66 TAGGATCATGTA
* * *
3757272 AGAATTTTCATGTCAAAACATGTCCATAAAAAGATATTTAGGTAATAGTACCTTAAAA-CTGAGT
1 A-AACTTTCATGTCAAAACATGTCCAT-AAAAGGTATTTAGGTAAAAGTACCTTAAAATC-GAGT
3757336 TTTTAGGATCATGTGA
63 TTTTAGGATCATGT-A
** * * ** * * * *
3757352 AAACTTTCATGTTTATATATGTTTATTAAAA-GTATTTAGATAAAAATATCTTAAAACCGAGTTT
1 AAACTTTCATGTCAAAACATGTCCA-TAAAAGGTATTTAGGTAAAAGTACCTTAAAATCGAGTTT
* *
3757416 TTAGGATCGTATAA
65 TTAGGATCATGT-A
* * ** * *
3757430 AAACTTTCATGTAAAAAACTTGTCCATAAGTGGTATTTAGGTAATAGTACCTTAAAATCGAGTCT
1 AAACTTTCATGT-CAAAACATGTCCATAAAAGGTATTTAGGTAAAAGTACCTTAAAATCGAGTTT
3757495 TTAGGAT
65 TTAGGAT
3757502 TATTTGGGAT
Statistics
Matches: 184, Mismatches: 37, Indels: 15
0.78 0.16 0.06
Matches are distributed among these distances:
76 1 0.01
77 24 0.13
78 78 0.42
79 78 0.42
80 3 0.02
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (77 bp):
AAACTTTCATGTCAAAACATGTCCATAAAAGGTATTTAGGTAAAAGTACCTTAAAATCGAGTTTT
TAGGATCATGTA
Found at i:3757423 original size:78 final size:76
Alignment explanation
Indices: 3757196--3757501 Score: 283
Period size: 79 Copynumber: 3.9 Consensus size: 76
3757186 GGTTATAAAG
* * *
3757196 AAACTTTCATGTCAAAACATGTCTATTAAAGGTATTAACGTAAAAGTACCTTAAAATCG-GTTTT
1 AAACTTTCATGTCAAAACATGTCTATTAAAAGTATTTA-GTAAAAGTACCTTAAAACCGAGTTTT
3757260 TAGGATCATGTA
65 TAGGATCATGTA
* * * * *
3757272 AGAATTTTCATGTCAAAACATGTCCATAAAAAGATATTTAGGTAATAGTACCTTAAAACTGAGTT
1 A-AACTTTCATGTCAAAACATGTCTATTAAAAG-TATTTA-GTAAAAGTACCTTAAAACCGAGTT
3757337 TTTAGGATCATGTGA
63 TTTAGGATCATGT-A
** * * * * *
3757352 AAACTTTCATGTTTATATATGTTTATTAAAAGTATTTAGATAAAAATATCTTAAAACCGAGTTTT
1 AAACTTTCATGTCAAAACATGTCTATTAAAAGTATTTAG-TAAAAGTACCTTAAAACCGAGTTTT
* *
3757417 TAGGATCGTATAA
65 TAGGATCATGT-A
* * * ** * * *
3757430 AAACTTTCATGTAAAAAACTTGTCCA-TAAGTGGTATTTAGGTAATAGTACCTTAAAATCGAGTC
1 AAACTTTCATGT-CAAAACATGTCTATTAA-AAGTATTTA-GTAAAAGTACCTTAAAACCGAGTT
3757494 TTTAGGAT
63 TTTAGGAT
3757502 TATTTGGGAT
Statistics
Matches: 184, Mismatches: 38, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
76 1 0.01
77 28 0.15
78 74 0.40
79 78 0.42
80 3 0.02
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (76 bp):
AAACTTTCATGTCAAAACATGTCTATTAAAAGTATTTAGTAAAAGTACCTTAAAACCGAGTTTTT
AGGATCATGTA
Found at i:3757518 original size:157 final size:156
Alignment explanation
Indices: 3757196--3757501 Score: 375
Period size: 157 Copynumber: 2.0 Consensus size: 156
3757186 GGTTATAAAG
** * * * * *
3757196 AAACTTTCATGTCAAAACATGTCTATTAAAGGTATTAACGTAAAAGTACCTTAAAATCGGTTTTT
1 AAACTTTCATGTTTATATATGTCTATTAAAAGTATTAACGTAAAAATACCTTAAAACCGGTTTTT
* * * *
3757261 AGGATCATGTAAGAATTTTCATGTCAAAACATGTCCATAAAAAGATATTTAGGTAATAGTACCTT
66 AGGATCATATAAAAACTTTCATGTAAAAACATGTCCATAAAAAGATATTTAGGTAATAGTACCTT
*
3757326 AAAACTGAGTTTTTAGGATCATGTGA
131 AAAACTGAGTCTTTAGGATCATGTGA
* * *
3757352 AAACTTTCATGTTTATATATGTTTATTAAAAGTATTTA-GATAAAAATATCTTAAAACCGAGTTT
1 AAACTTTCATGTTTATATATGTCTATTAAAAGTATTAACG-TAAAAATACCTTAAAACCG-GTTT
* * ** *
3757416 TTAGGATCGTATAAAAACTTTCATGTAAAAAACTTGTCCAT-AAGTGGTATTTAGGTAATAGTAC
64 TTAGGATCATATAAAAACTTTCATGT-AAAAACATGTCCATAAAAAGATATTTAGGTAATAGTAC
3757480 CTTAAAA-TCGAGTCTTTAGGAT
128 CTTAAAACT-GAGTCTTTAGGAT
3757502 TATTTGGGAT
Statistics
Matches: 126, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
155 1 0.01
156 48 0.38
157 65 0.52
158 12 0.10
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (156 bp):
AAACTTTCATGTTTATATATGTCTATTAAAAGTATTAACGTAAAAATACCTTAAAACCGGTTTTT
AGGATCATATAAAAACTTTCATGTAAAAACATGTCCATAAAAAGATATTTAGGTAATAGTACCTT
AAAACTGAGTCTTTAGGATCATGTGA
Found at i:3757650 original size:78 final size:78
Alignment explanation
Indices: 3757528--3757709 Score: 196
Period size: 78 Copynumber: 2.3 Consensus size: 78
3757518 TATCCAAAAT
* ** *
3757528 GGGTATTTAAGTAATACTACCTTAAAATCAAGTTTTTAGTATCATGTAGGA-ACCTTT-GTGTCA
1 GGGTATTTAGGTAATACTACCTTAAAATCAAGTACTTAGTATCA--TAGGATAACTTTCGTGTCA
*
3757591 AAACAT-TTTCGTTAG
64 AAACATATCT-GTTAG
* *
3757606 GGGTATTTAGGTAATACTACCTTAAAATTTAA-TACTTACG-ATCATATGATAACTTTCGTGTCA
1 GGGTATTTAGGTAATACTACCTTAAAA-TCAAGTACTTA-GTATCATAGGATAACTTTCGTGTCA
3757669 AAACATATCTGTTAG
64 AAACATATCTGTTAG
**
3757684 AAGTATTTAGGTAATA-TACCTTAAAA
1 GGGTATTTAGGTAATACTACCTTAAAA
3757710 CCGGGTCTAT
Statistics
Matches: 90, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
76 4 0.04
77 15 0.17
78 65 0.72
79 6 0.07
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (78 bp):
GGGTATTTAGGTAATACTACCTTAAAATCAAGTACTTAGTATCATAGGATAACTTTCGTGTCAAA
ACATATCTGTTAG
Found at i:3759227 original size:21 final size:20
Alignment explanation
Indices: 3759180--3759245 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
3759170 TGTATTTTTG
* *
3759180 ATGATT-TGAGTTAAAATCT
1 ATGATTATGAGTTGAAATTT
3759199 ATGCATTATGAGTTGAAATTT
1 ATG-ATTATGAGTTGAAATTT
3759220 AATGATTATTGA--TGAAATTTT
1 -ATGATTA-TGAGTTGAAA-TTT
3759241 ATGAT
1 ATGAT
3759246 GTTAATGTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
19 3 0.08
20 13 0.32
21 18 0.45
22 6 0.15
ACGTcount: A:0.36, C:0.03, G:0.17, T:0.44
Consensus pattern (20 bp):
ATGATTATGAGTTGAAATTT
Found at i:3762216 original size:19 final size:19
Alignment explanation
Indices: 3762166--3762222 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
3762156 CTGCCAGTTT
**
3762166 CATGTATTGATACAATTGTG
1 CATGTATTGATACAA-TGAA
*
3762186 CATGTATCGATACAATGAA
1 CATGTATTGATACAATGAA
* *
3762205 CTTGTATTGATATAATGA
1 CATGTATTGATACAATGA
3762223 TCGATACAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.37
Consensus pattern (19 bp):
CATGTATTGATACAATGAA
Found at i:3763193 original size:33 final size:33
Alignment explanation
Indices: 3763139--3763205 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
3763129 AAGTGCATTA
* *
3763139 AAGTGCTCATCCATGCGCTGCGAGAGTAAAGTG
1 AAGTGCTCATCCATGCACTGCGAAAGTAAAGTG
* *
3763172 AAGTGCTCA-CTCATGTACTGCGAAAGTGAAGTG
1 AAGTGCTCATC-CATGCACTGCGAAAGTAAAGTG
3763205 A
1 A
3763206 TCAACTCTCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 1 0.03
33 28 0.97
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.22
Consensus pattern (33 bp):
AAGTGCTCATCCATGCACTGCGAAAGTAAAGTG
Found at i:3764768 original size:20 final size:21
Alignment explanation
Indices: 3764737--3764776 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
3764727 ATCTAGGTTT
3764737 TTTTAGATGTATCAATACATC
1 TTTTAGATGTATCAATACATC
*
3764758 TTTTA-ATGTATCGATACAT
1 TTTTAGATGTATCAATACAT
3764777 TTTGAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.45
Consensus pattern (21 bp):
TTTTAGATGTATCAATACATC
Found at i:3770976 original size:19 final size:19
Alignment explanation
Indices: 3770932--3770987 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
3770922 TTACCAGTTT
**
3770932 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
*
3770952 CATGTATTGATACAATGAA
1 CATGTATCGATACAATGAA
3770971 CATGTATCGATACAATG
1 CATGTATCGATACAATG
3770988 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:3770990 original size:13 final size:13
Alignment explanation
Indices: 3770972--3770998 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3770962 TACAATGAAC
3770972 ATGTATCGATACA
1 ATGTATCGATACA
3770985 ATGTATCGATACA
1 ATGTATCGATACA
3770998 A
1 A
3770999 AACATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3780380 original size:19 final size:20
Alignment explanation
Indices: 3780356--3780406 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
3780346 CCCTAAAAAT
*
3780356 TATCGATACATGCTC-CTTG
1 TATCGATACATGCTCAATTG
*
3780375 TATCGATACATACTCAATTG
1 TATCGATACATGCTCAATTG
3780395 TATCGATACATG
1 TATCGATACATG
3780407 AAATTGACAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (20 bp):
TATCGATACATGCTCAATTG
Found at i:3780965 original size:13 final size:13
Alignment explanation
Indices: 3780947--3780973 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3780937 CTACCACTGT
3780947 TTGTATCGATACA
1 TTGTATCGATACA
3780960 TTGTATCGATACA
1 TTGTATCGATACA
3780973 T
1 T
3780974 AGTGAAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:3782060 original size:18 final size:19
Alignment explanation
Indices: 3782025--3782062 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
3782015 ATTAAAAATA
*
3782025 TCAAAAAATACATCAATTT
1 TCAAAAAATACATAAATTT
*
3782044 TCAAAAATTAC-TAAATTT
1 TCAAAAAATACATAAATTT
3782062 T
1 T
3782063 TTGTCAACCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (19 bp):
TCAAAAAATACATAAATTT
Found at i:3787861 original size:13 final size:13
Alignment explanation
Indices: 3787843--3787868 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3787833 CAATTTTTTG
3787843 TGTATCGATACAT
1 TGTATCGATACAT
3787856 TGTATCGATACAT
1 TGTATCGATACAT
3787869 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3787885 original size:32 final size:33
Alignment explanation
Indices: 3787823--3787886 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
3787813 TACAAGCCAA
**
3787823 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTTGTGTATCGATACAT
*
3787856 TGTATCGATAC-ATACTTTGTGTATTGATACA
1 TGTATCGATACAATACTTTGTGTATCGATACA
3787887 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATACTTTGTGTATCGATACAT
Found at i:3790637 original size:13 final size:13
Alignment explanation
Indices: 3790619--3790644 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3790609 CAATTTTTTG
3790619 TGTATCGATACAT
1 TGTATCGATACAT
3790632 TGTATCGATACAT
1 TGTATCGATACAT
3790645 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3790729 original size:20 final size:20
Alignment explanation
Indices: 3790704--3790776 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
3790694 CAACTTTTTT
3790704 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
3790724 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
3790745 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
3790765 ATGTATCGATAC
1 ATGTATCGATAC
3790777 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Done.