Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 89 of 320
Found at i:28382092 original size:40 final size:40
Alignment explanation
Indices: 28382025--28382112 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
28382015 CGTTTGGTTA
* *
28382025 AAAAACGCCTCCATATATCGAGCATTAGCGACGCTTTCTG
1 AAAAACGCCGCCATAGATCGAGCATTAGCGACGCTTTCTG
* * * * *
28382065 AAAAACGCCGCTATAGATTGAGTATTAGCGATGCTTTTTG
1 AAAAACGCCGCCATAGATCGAGCATTAGCGACGCTTTCTG
*
28382105 ATAAACGC
1 AAAAACGC
28382113 TGCAAAAAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (40 bp):
AAAAACGCCGCCATAGATCGAGCATTAGCGACGCTTTCTG
Found at i:28383270 original size:28 final size:28
Alignment explanation
Indices: 28383214--28383279 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 28
28383204 TTTTAGCCCT
* * *
28383214 TAAACCCTAAACTCTAAAGCCTAATCCC
1 TAAACCCTAAAATCTAAAGCCAAACCCC
* *
28383242 TAAACCTTAAAATCTAAAGGCAAACCCC
1 TAAACCCTAAAATCTAAAGCCAAACCCC
*
28383270 TAAATCCTAA
1 TAAACCCTAA
28383280 CCCATGAACT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.44, C:0.30, G:0.05, T:0.21
Consensus pattern (28 bp):
TAAACCCTAAAATCTAAAGCCAAACCCC
Found at i:28383330 original size:15 final size:14
Alignment explanation
Indices: 28383312--28383399 Score: 63
Period size: 15 Copynumber: 5.9 Consensus size: 14
28383302 TTTAAACCCC
28383312 AAACCATAAACCCTA
1 AAACC-TAAACCCTA
*
28383327 AAACCTTAAACTCTA
1 AAACC-TAAACCCTA
* *
28383342 GAAA-CTAAATCCTT
1 -AAACCTAAACCCTA
*
28383356 AAACCTTTAAACCC-C
1 AAACC--TAAACCCTA
28383371 AAACCATAAACCCTA
1 AAACC-TAAACCCTA
28383386 AAACTCTAAACCCT
1 AAAC-CTAAACCCT
28383400 GATAATAAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
13 3 0.05
14 14 0.24
15 31 0.53
16 10 0.17
ACGTcount: A:0.47, C:0.32, G:0.01, T:0.20
Consensus pattern (14 bp):
AAACCTAAACCCTA
Found at i:28384202 original size:148 final size:148
Alignment explanation
Indices: 28383934--28384235 Score: 362
Period size: 148 Copynumber: 2.0 Consensus size: 148
28383924 AACAAAAATG
* * * *
28383934 CCGCAAACATGTGTTAAGTGTTAGCAAAATGACGTCATTTTATGCTTTGTTTTTAGTGGCGCTTC
1 CCGCAAACATATGTTAAGTGTTACCAAAATGACGCCATTTTATGCTTTGTATTTAGTGGCGCTTC
* * *
28383999 GTTAAAAATGCCGCAAATATGTATTAGGAGTTCTCGAAACGACATCGTTTAGCCTTGTTATTAGT
66 GATAAAAATGCCACAAATATGTATTAAGAGTTCTCGAAACGACATCGTTTAGCCTTGTTATTAGT
*
28384064 GACATTTTGCCCAAAACA
131 GACATTTTGCACAAAACA
* * *
28384082 CCGCAAATATATGTTAAGTGTTTCCAAAATTG-CGCCGTTTTATGCTTTGTATTTAGTGGCGCTT
1 CCGCAAACATATGTTAAGTGTTACCAAAA-TGACGCCATTTTATGCTTTGTATTTAGTGGCGCTT
* * *
28384146 AC-AT-AAAATGCCACAAGTATGTATTAAGA-TT-TCGGAAAACGTCGTCGTTTTAGCCTTGTTA
65 -CGATAAAAATGCCACAAATATGTATTAAGAGTTCTC-G-AAACGACATCG-TTTAGCCTTGTTA
* * *
28384207 TTAGTGGCGTTTTGTACAAAACA
126 TTAGTGACATTTTGCACAAAACA
*
28384230 CTGCAA
1 CCGCAA
28384236 TGGACTATGC
Statistics
Matches: 131, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
145 2 0.02
146 3 0.02
147 31 0.24
148 92 0.70
149 3 0.02
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (148 bp):
CCGCAAACATATGTTAAGTGTTACCAAAATGACGCCATTTTATGCTTTGTATTTAGTGGCGCTTC
GATAAAAATGCCACAAATATGTATTAAGAGTTCTCGAAACGACATCGTTTAGCCTTGTTATTAGT
GACATTTTGCACAAAACA
Found at i:28384471 original size:19 final size:20
Alignment explanation
Indices: 28384447--28384497 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
28384437 CTTAACAAAA
28384447 TTTCCCCAAATCCCT-AACT
1 TTTCCCCAAATCCCTAAACT
* *
28384466 TTTCCCCTAATCCCTAAATT
1 TTTCCCCAAATCCCTAAACT
28384486 TTTCCCCAAATC
1 TTTCCCCAAATC
28384498 AAAGTTGAAA
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:0.25, C:0.39, G:0.00, T:0.35
Consensus pattern (20 bp):
TTTCCCCAAATCCCTAAACT
Found at i:28385501 original size:9 final size:9
Alignment explanation
Indices: 28385487--28385757 Score: 328
Period size: 9 Copynumber: 29.9 Consensus size: 9
28385477 GTTGATTCAA
*
28385487 ATAACTCAC
1 ATAACTTAC
*
28385496 ATAACTCAC
1 ATAACTTAC
*
28385505 AGAACTTAC
1 ATAACTTAC
28385514 ATAACTTAC
1 ATAACTTAC
*
28385523 ATGACTTA-
1 ATAACTTAC
*
28385531 ATAACTTAT
1 ATAACTTAC
*
28385540 ATATATCATATC
1 ATA-A-CTTA-C
28385552 ATAACTTAC
1 ATAACTTAC
28385561 ATAACTTAC
1 ATAACTTAC
28385570 ATAACTTAC
1 ATAACTTAC
*
28385579 ATACCTTAC
1 ATAACTTAC
28385588 ATAACTTAC
1 ATAACTTAC
*
28385597 ATAACTCAC
1 ATAACTTAC
28385606 ATAACTTAC
1 ATAACTTAC
*
28385615 ACAACTTAC
1 ATAACTTAC
* *
28385624 ATACCTCAC
1 ATAACTTAC
*
28385633 ATAACTCAC
1 ATAACTTAC
*
28385642 ATAACTCAC
1 ATAACTTAC
28385651 ATAACTTAC
1 ATAACTTAC
*
28385660 ATACCTTAC
1 ATAACTTAC
28385669 ATAACTTAC
1 ATAACTTAC
*
28385678 ATAACTCAC
1 ATAACTTAC
28385687 ATAACTTAC
1 ATAACTTAC
*
28385696 ACAACTTAC
1 ATAACTTAC
* *
28385705 ATACCTCAC
1 ATAACTTAC
*
28385714 ATAACTCAC
1 ATAACTTAC
*
28385723 ATAACTCAC
1 ATAACTTAC
28385732 ATAACTTAC
1 ATAACTTAC
28385741 ATAACTTAC
1 ATAACTTAC
28385750 ATAACTTA
1 ATAACTTA
28385758 ATTATACTTA
Statistics
Matches: 230, Mismatches: 28, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
8 7 0.03
9 212 0.92
10 4 0.02
11 4 0.02
12 3 0.01
ACGTcount: A:0.43, C:0.27, G:0.01, T:0.30
Consensus pattern (9 bp):
ATAACTTAC
Found at i:28386140 original size:72 final size:72
Alignment explanation
Indices: 28386023--28386171 Score: 289
Period size: 72 Copynumber: 2.1 Consensus size: 72
28386013 TATTCGGGGG
28386023 TATAAAAAATGGATTTTCCATGGAGAGTGTACACCTAGTAGAACCTCTTCAATGATTAATCTGGT
1 TATAAAAAATGGATTTTCCATGGAGAGTGTACACCTAGTAGAACCTCTTCAATGATTAATCTGGT
28386088 TTATCCT
66 TTATCCT
*
28386095 TATAAAAAATGGATTTTCCATGGATAGTGTACACCTAGTAGAACCTCTTCAATGATTAATCTGGT
1 TATAAAAAATGGATTTTCCATGGAGAGTGTACACCTAGTAGAACCTCTTCAATGATTAATCTGGT
28386160 TTATCCT
66 TTATCCT
28386167 TATAA
1 TATAA
28386172 TGCTTACCAT
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 76 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (72 bp):
TATAAAAAATGGATTTTCCATGGAGAGTGTACACCTAGTAGAACCTCTTCAATGATTAATCTGGT
TTATCCT
Found at i:28386722 original size:12 final size:12
Alignment explanation
Indices: 28386707--28386748 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
28386697 GAAGATGTGA
28386707 ATGAGGATGAAT
1 ATGAGGATGAAT
* *
28386719 ATGAAGATGTGA-
1 ATGAGGATG-AAT
28386731 ATGAGGATGAAT
1 ATGAGGATGAAT
28386743 ATGAGG
1 ATGAGG
28386749 CACAGTCAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 1 0.04
12 22 0.92
13 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.36, T:0.24
Consensus pattern (12 bp):
ATGAGGATGAAT
Found at i:28386728 original size:24 final size:24
Alignment explanation
Indices: 28386692--28386746 Score: 101
Period size: 24 Copynumber: 2.2 Consensus size: 24
28386682 ATGAATAGAC
28386692 ATATAGAAGATGTGAATGAGGATGA
1 ATAT-GAAGATGTGAATGAGGATGA
28386717 ATATGAAGATGTGAATGAGGATGA
1 ATATGAAGATGTGAATGAGGATGA
28386741 ATATGA
1 ATATGA
28386747 GGCACAGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 26 0.87
25 4 0.13
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.25
Consensus pattern (24 bp):
ATATGAAGATGTGAATGAGGATGA
Found at i:28390852 original size:14 final size:13
Alignment explanation
Indices: 28390810--28390852 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
28390800 TTTTAAATAT
28390810 TTATAATGTTTAA
1 TTATAATGTTTAA
*
28390823 TCATAATAGTTTAA
1 TTATAAT-GTTTAA
28390837 TTATAATGGTTTAA
1 TTATAAT-GTTTAA
28390851 TT
1 TT
28390853 CATTGTTAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 6 0.23
14 20 0.77
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.51
Consensus pattern (13 bp):
TTATAATGTTTAA
Found at i:28391630 original size:43 final size:43
Alignment explanation
Indices: 28391561--28391762 Score: 278
Period size: 43 Copynumber: 4.7 Consensus size: 43
28391551 GTGTTTGTAA
* *
28391561 GAAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTTTGA
1 GAAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTGT
* * * * * *
28391604 GAGAAGCGCCACTAAAAGTCATGTTCTTTAGCAGTGTTTGTGT
1 GAAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTGT
* *
28391647 GAAAAGCGCCGTTAAAGGTCACGTTCTTTAGCGGCATTTGTGT
1 GAAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTGT
* * *
28391690 GAAAAGCACCGCTAAAGGTCATGTTCTTTAGCGGCGTTTATGT
1 GAAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTGT
*
28391733 GAAAAGCGCTGCTAAAGGTCACGTTCTTTA
1 GAAAAGCGCCGCTAAAGGTCACGTTCTTTA
28391763 ACGCCACTAA
Statistics
Matches: 135, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 135 1.00
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
GAAAAGCGCCGCTAAAGGTCACGTTCTTTAGCGGCGTTTGTGT
Found at i:28394623 original size:16 final size:16
Alignment explanation
Indices: 28394602--28394635 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
28394592 AAGTCTGTCA
*
28394602 AACCTTAGAGTTCGCC
1 AACCTTAAAGTTCGCC
*
28394618 AACCTTAAAGTTCTCC
1 AACCTTAAAGTTCGCC
28394634 AA
1 AA
28394636 ATGGTAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.26
Consensus pattern (16 bp):
AACCTTAAAGTTCGCC
Found at i:28397314 original size:20 final size:20
Alignment explanation
Indices: 28397291--28397354 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 20
28397281 ATTATTGGCA
*
28397291 GCTTGTCTGCATTACTGGTG
1 GCTTATCTGCATTACTGGTG
** ** **
28397311 GCTTATCCACATTTTTGGCA
1 GCTTATCTGCATTACTGGTG
28397331 GCTTATCTGCATTACTGGTG
1 GCTTATCTGCATTACTGGTG
28397351 GCTT
1 GCTT
28397355 GTCCACAAAC
Statistics
Matches: 31, Mismatches: 13, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.14, C:0.22, G:0.23, T:0.41
Consensus pattern (20 bp):
GCTTATCTGCATTACTGGTG
Found at i:28397320 original size:40 final size:40
Alignment explanation
Indices: 28397223--28397361 Score: 152
Period size: 40 Copynumber: 3.5 Consensus size: 40
28397213 TTGTCCATAA
* * * * * * *
28397223 TACTGGTAGCTTTTCTACATTACTGGCAGTTTATTTGCAC
1 TACTGGTGGCTTATCCACATTATTGGCAGCTTATCTGCAT
* ** * *
28397263 TACTAGTCTCTTCTCCACATTATTGGCAGCTTGTCTGCAT
1 TACTGGTGGCTTATCCACATTATTGGCAGCTTATCTGCAT
*
28397303 TACTGGTGGCTTATCCACATTTTTGGCAGCTTATCTGCAT
1 TACTGGTGGCTTATCCACATTATTGGCAGCTTATCTGCAT
*
28397343 TACTGGTGGCTTGTCCACA
1 TACTGGTGGCTTATCCACA
28397362 AACTGGTGTG
Statistics
Matches: 82, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 82 1.00
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.40
Consensus pattern (40 bp):
TACTGGTGGCTTATCCACATTATTGGCAGCTTATCTGCAT
Found at i:28399918 original size:12 final size:12
Alignment explanation
Indices: 28399901--28399928 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
28399891 CACACAACCA
28399901 TGTGCTAGGTCG
1 TGTGCTAGGTCG
28399913 TGTGCTAGGTCG
1 TGTGCTAGGTCG
28399925 TGTG
1 TGTG
28399929 ACAACCTGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.14, G:0.43, T:0.36
Consensus pattern (12 bp):
TGTGCTAGGTCG
Found at i:28401074 original size:30 final size:30
Alignment explanation
Indices: 28401040--28401170 Score: 124
Period size: 30 Copynumber: 4.4 Consensus size: 30
28401030 AAGCTATCTT
* * *
28401040 TTTTCATAATTTGATCGTCGTCACCAACCC
1 TTTTCATAATTCGATGGTCGTCACCATCCC
** *
28401070 TTTTCATTGTTCAATGGTCGTCACCATCCC
1 TTTTCATAATTCGATGGTCGTCACCATCCC
* * *
28401100 TTTTCATAATTTC-ATAG-C-TGAAGCCATTCC
1 TTTTCATAA-TTCGATGGTCGT-CA-CCATCCC
*
28401130 TTTTCATAGTTCGATGGTCGTCACCATCCC
1 TTTTCATAATTCGATGGTCGTCACCATCCC
28401160 TTTTCATAATT
1 TTTTCATAATT
28401171 GATAGCCAAA
Statistics
Matches: 79, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
28 1 0.01
29 5 0.06
30 67 0.85
31 5 0.06
32 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.11, T:0.40
Consensus pattern (30 bp):
TTTTCATAATTCGATGGTCGTCACCATCCC
Found at i:28403199 original size:24 final size:23
Alignment explanation
Indices: 28403139--28403200 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 23
28403129 TCCGAGTTGT
28403139 ATAACGGGAAGCTCATAAGAGCC
1 ATAACGGGAAGCTCATAAGAGCC
* *
28403162 ATAATCAGGAAGCTCATACGAGCC
1 ATAA-CGGGAAGCTCATAAGAGCC
*
28403186 AATAACGGGTAGCTC
1 -ATAACGGGAAGCTC
28403201 CGTAAAGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 4 0.12
24 25 0.76
25 4 0.12
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.16
Consensus pattern (23 bp):
ATAACGGGAAGCTCATAAGAGCC
Found at i:28403350 original size:26 final size:26
Alignment explanation
Indices: 28403287--28403351 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
28403277 AGACCCATTA
28403287 ATCAGGAAGCTCACAAAGAGCCAATC
1 ATCAGGAAGCTCACAAAGAGCCAATC
* *
28403313 AAC-GAGAAGCTCACAAAGAGTCATAT-
1 ATCAG-GAAGCTCACAAAGAGCCA-ATC
*
28403339 ATCAGGACGCTCA
1 ATCAGGAAGCTCA
28403352 TAAGAGTTGC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
25 1 0.03
26 28 0.88
27 3 0.09
ACGTcount: A:0.42, C:0.25, G:0.20, T:0.14
Consensus pattern (26 bp):
ATCAGGAAGCTCACAAAGAGCCAATC
Found at i:28403436 original size:24 final size:25
Alignment explanation
Indices: 28403409--28403456 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
28403399 GGATGCTCCG
*
28403409 AAGAGCGAT-TAACGGGAAGCTCGC
1 AAGAACGATATAACGGGAAGCTCGC
**
28403433 AAGAATTATATAACGGGAAGCTCG
1 AAGAACGATATAACGGGAAGCTCG
28403457 AGAGGCTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.38, C:0.17, G:0.29, T:0.17
Consensus pattern (25 bp):
AAGAACGATATAACGGGAAGCTCGC
Found at i:28411686 original size:67 final size:67
Alignment explanation
Indices: 28411604--28411736 Score: 257
Period size: 67 Copynumber: 2.0 Consensus size: 67
28411594 TATATTATAA
*
28411604 CACATAAAATAATACTAAAATAATTTTCTCTGGCCTCGAAATAGTGGTCCCGAAACCACTTTTCC
1 CACATAAAATAATACTAAAATAATTTTCTCTGGCCTCGAAATAGTGGTCCCGAAACCACTGTTCC
28411669 GG
66 GG
28411671 CACATAAAATAATACTAAAATAATTTTCTCTGGCCTCGAAATAGTGGTCCCGAAACCACTGTTCC
1 CACATAAAATAATACTAAAATAATTTTCTCTGGCCTCGAAATAGTGGTCCCGAAACCACTGTTCC
28411736 G
66 G
28411737 ACTAGGCCCA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 65 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.28
Consensus pattern (67 bp):
CACATAAAATAATACTAAAATAATTTTCTCTGGCCTCGAAATAGTGGTCCCGAAACCACTGTTCC
GG
Found at i:28420415 original size:6 final size:6
Alignment explanation
Indices: 28420406--28420430 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
28420396 TTTAATTTTC
28420406 TTGAAT TTGAAT TTGAAT TTGAAT T
1 TTGAAT TTGAAT TTGAAT TTGAAT T
28420431 GATGGAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (6 bp):
TTGAAT
Found at i:28420989 original size:19 final size:18
Alignment explanation
Indices: 28420930--28420983 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
28420920 GTACAGGTTT
*
28420930 ATGCGCTTGTGTGCCAGG
1 ATGCGCTTGTGTGCCAAG
**
28420948 ATGCAATTTGTGTGCCAAG
1 ATGC-GCTTGTGTGCCAAG
28420967 ATGCGCTTCGTGTGCCA
1 ATGCGCTT-GTGTGCCA
28420984 CTATGCACTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
18 6 0.21
19 23 0.79
ACGTcount: A:0.17, C:0.22, G:0.31, T:0.30
Consensus pattern (18 bp):
ATGCGCTTGTGTGCCAAG
Found at i:28423343 original size:40 final size:40
Alignment explanation
Indices: 28423262--28423478 Score: 303
Period size: 40 Copynumber: 5.5 Consensus size: 40
28423252 AAACCAAGTA
** ** * *
28423262 CCTTCGGGGTTTAG-CCGGATATAGCCACTCACTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
28423301 CCTTCGGGACTTAGCCCGGTTATAGTAACTCACACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
28423341 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
28423381 CCTTCGGGACTTGGCCCAGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
28423421 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
28423461 CCTTCGGG-CTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
28423479 TTATCAATCC
Statistics
Matches: 161, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
39 22 0.14
40 139 0.86
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:28434034 original size:46 final size:46
Alignment explanation
Indices: 28433981--28434071 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
28433971 ATACTGATGG
28433981 AGAATGGATTTTTGACCCTGAGGTTCTTAAGACGAAAATGGTTAAT
1 AGAATGGATTTTTGACCCTGAGGTTCTTAAGACGAAAATGGTTAAT
28434027 AGAATGGATTTTTGACCCTGAGGTTCTTAAGACGAAAATGGTTAA
1 AGAATGGATTTTTGACCCTGAGGTTCTTAAGACGAAAATGGTTAA
28434072 CTTTTTCCAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (46 bp):
AGAATGGATTTTTGACCCTGAGGTTCTTAAGACGAAAATGGTTAAT
Found at i:28442555 original size:34 final size:35
Alignment explanation
Indices: 28442511--28442577 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
28442501 CTGTAAAATG
28442511 TTTTCCGTAAAATGAATT-CTGGAAAATATTTTAC
1 TTTTCCGTAAAATGAATTACTGGAAAATATTTTAC
* *
28442545 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGAATTACTGGAAAATATTTT
28442578 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 16 0.53
35 14 0.47
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.43
Consensus pattern (35 bp):
TTTTCCGTAAAATGAATTACTGGAAAATATTTTAC
Found at i:28443952 original size:27 final size:27
Alignment explanation
Indices: 28443922--28443991 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
28443912 AATAATCAAT
*
28443922 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* *
28443949 TCAATATCTAACCAATTCAAGACATATA
1 TCAATATCCAA-CAATTCAAAACATATA
*
28443977 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
28443992 CTAAAATCTG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.50, C:0.21, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:28455899 original size:281 final size:281
Alignment explanation
Indices: 28455378--28455936 Score: 673
Period size: 281 Copynumber: 2.0 Consensus size: 281
28455368 GAGGCCTCAA
* * * *
28455378 TGTATCCCTTAATATCGAACATGATGCCTTTGTATGCCCTGGATTTCTACAGTACCCTCATAACC
1 TGTATCCCTCAATATCGAACATGATGCCTTCGTATGCCCTGGATTTCTACAGTACCCTAAAAACC
* * *
28455443 TTTGTTGATTGTCTCTCTCTCGAATATCCATATTAGTATGTATCCAAGTGAAAGTCAGACGACCT
66 TCTATTGATTGTCTCTCTCTCGAACATCCATATTAGTATGTATCCAAGTGAAAGTCAGACGACCT
* * * *
28455508 TTCGGGACGCGGCACAAGTTTATGTTCGGGGCCAACTCGAATGGAGCGCTGGACACTAGCAACCA
131 TTCGGGACACGACACAAGTTCATATTCGGGGCCAACTCGAATGGAGCGCTGGACACTAGCAACCA
* * *
28455573 CATACTTTCATCTGGGATGGGTCGGAATTCAGATATTCATACATTGTGCATGCCTTCTAGTTTTT
196 CATACTCTCATCTGGGATAGGTCGGAATTCAGATATTCATACATTGTGCATGCCTTCTAGTTTGT
*
28455638 ACG-CATCGTTAATATAAGACG
261 A-GACATAGTTAATATAAGACG
* * * * *
28455659 TGTATCCCTCAATATGGAACATGTTGCCTTCGTATGCTCTGGGTTTCTACAGTA-CTTGAAAAAC
1 TGTATCCCTCAATATCGAACATGATGCCTTCGTATGCCCTGGATTTCTACAGTACCCT-AAAAAC
* * * * *** ** *
28455723 CTCTATTGATTGTCTCTTTC-CTGAACATCCATTTTGGTGTGTATTTGAGTGAAAGTTGGATGAC
65 CTCTATTGATTGTCTCTCTCTC-GAACATCCATATTAGTATGTATCCAAGTGAAAGTCAGACGAC
** * * *
28455787 CTTTCGGGACACGATGCAAGTTCATATTCGGGGCTAACTTGAACTGGA-CGCTGGACACTAGCAG
129 CTTTCGGGACACGACACAAGTTCATATTCGGGGCCAACTCGAA-TGGAGCGCTGGACACTAGCAA
* *
28455851 CC-CAATACTCTCATCTGGGATAGGT-GAGAATTTAGATA-TCTGTACATTGTGCATGCCTTCTA
193 CCAC-ATACTCTCATCTGGGATAGGTCG-GAATTCAGATATTC-ATACATTGTGCATGCCTTCTA
28455913 GTTTGTAGACATAGTTAATATAAG
255 GTTTGTAGACATAGTTAATATAAG
28455937 GTGTACTCAA
Statistics
Matches: 234, Mismatches: 37, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
280 8 0.03
281 222 0.95
282 4 0.02
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (281 bp):
TGTATCCCTCAATATCGAACATGATGCCTTCGTATGCCCTGGATTTCTACAGTACCCTAAAAACC
TCTATTGATTGTCTCTCTCTCGAACATCCATATTAGTATGTATCCAAGTGAAAGTCAGACGACCT
TTCGGGACACGACACAAGTTCATATTCGGGGCCAACTCGAATGGAGCGCTGGACACTAGCAACCA
CATACTCTCATCTGGGATAGGTCGGAATTCAGATATTCATACATTGTGCATGCCTTCTAGTTTGT
AGACATAGTTAATATAAGACG
Found at i:28459330 original size:143 final size:144
Alignment explanation
Indices: 28459028--28459365 Score: 376
Period size: 143 Copynumber: 2.4 Consensus size: 144
28459018 GAAGCTTTGT
* * * ** * *
28459028 TCCTAGTTAATAAACACCAATATAACTCGCAAACCTGCGTTCCCAGCTGATGTTTAAAGGTTATC
1 TCCTAGTTGATAAACTCCAACATAACTCGTGAACCTACGTTCCCAGCTGATGTTTAAAGGTTAGC
* * ** *
28459093 TGAGTTATGTTCACAAATTTTATTTATTCGAGTTAGCTGAGTTAAGCTCGCAACTCTAAGACAGC
66 TGAGTTATGCTCACAAACTCCATTTATTCGAGTTAGCTGAGTTAAGCTCGCAACTCCAAGACAGC
* *
28459158 TCGCAGACGTACAT
131 TCGCAGACCTACAC
*
28459172 TCCCAGTTGATAAACTCCAACATAACTCGTGAACCTACGTTCCCAGCTGATGTTTAAAGGTTAGC
1 TCCTAGTTGATAAACTCCAACATAACTCGTGAACCTACGTTCCCAGCTGATGTTTAAAGGTTAGC
* * * * * *
28459237 TGAG-TATGCTCACAACCTCCATTTACTT-GAGTTAGTTGAGTTAAGCTTGCAATTCCATGATAG
66 TGAGTTATGCTCACAAACTCCATTTA-TTCGAGTTAGCTGAGTTAAGCTCGCAACTCCAAGACAG
*
28459300 CTCGC-GAACCTACGC
130 CTCGCAG-ACCTACAC
* *** * * *
28459315 TCCTAGCTGATAAACTCTGGCATAGCTCGTGGACCTATGTTCCCAGCTGAT
1 TCCTAGTTGATAAACTCCAACATAACTCGTGAACCTACGTTCCCAGCTGAT
28459366 AAACTCCAAC
Statistics
Matches: 162, Mismatches: 30, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
142 1 0.01
143 98 0.60
144 63 0.39
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (144 bp):
TCCTAGTTGATAAACTCCAACATAACTCGTGAACCTACGTTCCCAGCTGATGTTTAAAGGTTAGC
TGAGTTATGCTCACAAACTCCATTTATTCGAGTTAGCTGAGTTAAGCTCGCAACTCCAAGACAGC
TCGCAGACCTACAC
Found at i:28459351 original size:40 final size:40
Alignment explanation
Indices: 28459296--28459399 Score: 109
Period size: 40 Copynumber: 2.6 Consensus size: 40
28459286 CAATTCCATG
*
28459296 ATAGCTCGCGAACCTACGCTCCTAGCTGATAAACTCTGGC
1 ATAGCTCGCGAACCTACGCTCCCAGCTGATAAACTCTGGC
* * * * ***
28459336 ATAGCTCGTGGACCTATGTTCCCAGCTGATAAACTCCAAC
1 ATAGCTCGCGAACCTACGCTCCCAGCTGATAAACTCTGGC
* * *
28459376 ACAGCTCGCGGACCTACGTTCCCA
1 ATAGCTCGCGAACCTACGCTCCCA
28459400 ACTAATGTTT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 53 1.00
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.22
Consensus pattern (40 bp):
ATAGCTCGCGAACCTACGCTCCCAGCTGATAAACTCTGGC
Found at i:28459665 original size:103 final size:103
Alignment explanation
Indices: 28459474--28459737 Score: 312
Period size: 103 Copynumber: 2.6 Consensus size: 103
28459464 CTAGCTGATG
* * *
28459474 TTTAAAGGTTAGCTGAGTTAAGCTCTCAACCTAAATATTTTTGAGTTAGCTGAGTCAAGCTTGCA
1 TTTAAAGGTTAGCTGAGTTAAGCTCACAACCTGAAT-TTTTTGAGTTAGCTGAGTTAAGCTTGCA
* *
28459539 AGTCCAAAACAGCTCGCGGACCTACGTTCCCAACTAACA
65 AATCCAAAACAGCTCGCGAACCTACGTTCCCAACTAACA
* * * * * *
28459578 TTTAAAGGTTAGCTAAGTTAAACTCGCAACCTGAATTTTTTTAGTTAGTTGAGTTAAGCTTGGAA
1 TTTAAAGGTTAGCTGAGTTAAGCTCACAACCTGAATTTTTTGAGTTAGCTGAGTTAAGCTTGCAA
** * * * * * **
28459643 ATCTGAAATAGCTCGTGAACCTATGTTCCCAGCTTATG
66 ATCCAAAACAGCTCGCGAACCTACGTTCCCAACTAACA
* * *
28459681 CTTAAAGGTTAGTTGAGTTAAGCTCACAACTTGAATTTTTTGAGTTAGCTGAGTTAA
1 TTTAAAGGTTAGCTGAGTTAAGCTCACAACCTGAATTTTTTGAGTTAGCTGAGTTAA
28459738 ATTAAGACTA
Statistics
Matches: 133, Mismatches: 27, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
103 101 0.76
104 32 0.24
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (103 bp):
TTTAAAGGTTAGCTGAGTTAAGCTCACAACCTGAATTTTTTGAGTTAGCTGAGTTAAGCTTGCAA
ATCCAAAACAGCTCGCGAACCTACGTTCCCAACTAACA
Found at i:28465926 original size:24 final size:23
Alignment explanation
Indices: 28465889--28465937 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
28465879 ATAATTATTT
*
28465889 TAAAATTCTTATAAATAAATAAA
1 TAAAATTATTATAAATAAATAAA
* *
28465912 TAAAATTATTAATAATTGAATAAA
1 TAAAATTATT-ATAAATAAATAAA
28465936 TA
1 TA
28465938 CTAATATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (23 bp):
TAAAATTATTATAAATAAATAAA
Found at i:28472216 original size:18 final size:17
Alignment explanation
Indices: 28472179--28472226 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 17
28472169 CGTTCAGAAC
*
28472179 TCTTCTTCTTTACCTTTTT
1 TCTTCTT-TTTA-TTTTTT
28472198 TCTTTCTTTTTATTTTTT
1 TC-TTCTTTTTATTTTTT
28472216 TCTTCTTTTTA
1 TCTTCTTTTTA
28472227 CTCCTTCGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 9 0.33
18 7 0.26
19 6 0.22
20 5 0.19
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (17 bp):
TCTTCTTTTTATTTTTT
Found at i:28475098 original size:19 final size:19
Alignment explanation
Indices: 28475074--28475116 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
28475064 AAAAGCAACG
28475074 CAACATCA-ACCTAAATAAA
1 CAACATCATACC-AAATAAA
* *
28475093 CAACATGATTCCAAATAAA
1 CAACATCATACCAAATAAA
28475112 CAACA
1 CAACA
28475117 AAAATAATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.56, C:0.26, G:0.02, T:0.16
Consensus pattern (19 bp):
CAACATCATACCAAATAAA
Found at i:28477879 original size:91 final size:91
Alignment explanation
Indices: 28477765--28477954 Score: 310
Period size: 91 Copynumber: 2.1 Consensus size: 91
28477755 AATAGTACAG
* * *
28477765 GTACAACAGCATAAATTAAACAAAAAAAAAGTATGTTAAACTACATTTTAAACTTTAAAGTTAGT
1 GTACAATAGCATAAATTAAACAAAAAAAAAGTATGTTAAACTACAGTTTAAAATTTAAAGTTAGT
28477830 TAATTGAAGCCTAAATTAATATAATA
66 TAATTGAAGCCTAAATTAATATAATA
* * *
28477856 GTACAATAGCATAAATTAAACAAAAAAAAAGTTTGTTAAGCTACCGTTTAAAATTTAAAGTTAGT
1 GTACAATAGCATAAATTAAACAAAAAAAAAGTATGTTAAACTACAGTTTAAAATTTAAAGTTAGT
28477921 TAATTGAAGCCTAAATTAATATAATA
66 TAATTGAAGCCTAAATTAATATAATA
*
28477947 -TATAATAG
1 GTACAATAG
28477955 TACAAATACA
Statistics
Matches: 92, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
90 7 0.08
91 85 0.92
ACGTcount: A:0.49, C:0.09, G:0.10, T:0.32
Consensus pattern (91 bp):
GTACAATAGCATAAATTAAACAAAAAAAAAGTATGTTAAACTACAGTTTAAAATTTAAAGTTAGT
TAATTGAAGCCTAAATTAATATAATA
Found at i:28478280 original size:17 final size:17
Alignment explanation
Indices: 28478253--28478295 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
28478243 TATCAATTTT
*
28478253 TTATCTACTAATATTACG
1 TTAT-TACTAATATTACA
28478271 TTATTACTAATATTACA
1 TTATTACTAATATTACA
28478288 TTATTACT
1 TTATTACT
28478296 TTGGAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.35, C:0.14, G:0.02, T:0.49
Consensus pattern (17 bp):
TTATTACTAATATTACA
Found at i:28480556 original size:42 final size:42
Alignment explanation
Indices: 28480510--28480630 Score: 147
Period size: 42 Copynumber: 2.9 Consensus size: 42
28480500 GACCTAAACA
* * * *
28480510 GAAACCCATAAGGGTTGAACAGAAGTTC-GTAAGAGCTGAACG
1 GAAACCCATAAGGGTTAAACAGAAGCTCAAT-AGAGCTGAAAG
28480552 GAAACCCATAAGGGTTAAACAGAAGCTCAATAGAGCTGAAAG
1 GAAACCCATAAGGGTTAAACAGAAGCTCAATAGAGCTGAAAG
* * *
28480594 GAAACTCATATGAGTTAAACAGAAGCTC-ATGAGAGCT
1 GAAACCCATAAGGGTTAAACAGAAGCTCAAT-AGAGCT
28480631 AAACAGAAAG
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
41 2 0.03
42 67 0.96
43 1 0.01
ACGTcount: A:0.41, C:0.17, G:0.25, T:0.17
Consensus pattern (42 bp):
GAAACCCATAAGGGTTAAACAGAAGCTCAATAGAGCTGAAAG
Found at i:28480633 original size:21 final size:21
Alignment explanation
Indices: 28480487--28480638 Score: 92
Period size: 21 Copynumber: 7.2 Consensus size: 21
28480477 GAAAGATGAT
* *
28480487 CAGAAGCTCATGAGACCTAAA
1 CAGAAGCTCATAAGAGCTAAA
* * * * *
28480508 CAGAAACCCATAAGGGTTGAA
1 CAGAAGCTCATAAGAGCTAAA
* * *
28480529 CAGAAGTTCGTAAGAGCTGAA
1 CAGAAGCTCATAAGAGCTAAA
* * * * *
28480550 CGGAAACCCATAAGGGTTAAA
1 CAGAAGCTCATAAGAGCTAAA
28480571 CAGAAGCTCA-ATAGAGCTGAAA
1 CAGAAGCTCATA-AGAGCT-AAA
* * * *
28480593 -GGAAACTCATATGAGTTAAA
1 CAGAAGCTCATAAGAGCTAAA
*
28480613 CAGAAGCTCATGAGAGCTAAA
1 CAGAAGCTCATAAGAGCTAAA
28480634 CAGAA
1 CAGAA
28480639 AGTAAACATG
Statistics
Matches: 92, Mismatches: 35, Indels: 8
0.68 0.26 0.06
Matches are distributed among these distances:
20 4 0.04
21 84 0.91
22 4 0.04
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (21 bp):
CAGAAGCTCATAAGAGCTAAA
Found at i:28484350 original size:21 final size:21
Alignment explanation
Indices: 28484323--28484374 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
28484313 ATAAATAATT
28484323 TAAAAATTAAAATTAAAA-TTCA
1 TAAAAATTAAAA--AAAAGTTCA
28484345 -AAAAATATAAAAAAAAGTTCA
1 TAAAAAT-TAAAAAAAAGTTCA
28484366 TAAAAATTA
1 TAAAAATTA
28484375 GTATGGAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
20 4 0.15
21 12 0.44
22 11 0.41
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (21 bp):
TAAAAATTAAAAAAAAGTTCA
Found at i:28485148 original size:16 final size:16
Alignment explanation
Indices: 28485127--28485157 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
28485117 CTTTTATTTT
*
28485127 TTTTTAGGTTTTAAGA
1 TTTTTAGGGTTTAAGA
28485143 TTTTTAGGGTTTAAG
1 TTTTTAGGGTTTAAG
28485158 GTATTTTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.55
Consensus pattern (16 bp):
TTTTTAGGGTTTAAGA
Found at i:28488059 original size:40 final size:40
Alignment explanation
Indices: 28488015--28488092 Score: 147
Period size: 40 Copynumber: 1.9 Consensus size: 40
28488005 TACTAAAAGG
28488015 GATGCGTCATTTTTCGGTAACATCGGTTGTTAAAGAGATA
1 GATGCGTCATTTTTCGGTAACATCGGTTGTTAAAGAGATA
*
28488055 GATGCGTCATTTTTTGGTAACATCGGTTGTTAAAGAGA
1 GATGCGTCATTTTTCGGTAACATCGGTTGTTAAAGAGA
28488093 CATACTTTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.27, C:0.12, G:0.26, T:0.36
Consensus pattern (40 bp):
GATGCGTCATTTTTCGGTAACATCGGTTGTTAAAGAGATA
Found at i:28490439 original size:17 final size:17
Alignment explanation
Indices: 28490408--28490440 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
28490398 TGTATAACAC
28490408 TTGTTTTATTGTTAAAT
1 TTGTTTTATTGTTAAAT
28490425 TTGTTATTATT-TTAAA
1 TTGTT-TTATTGTTAAA
28490441 GACATTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (17 bp):
TTGTTTTATTGTTAAAT
Found at i:28491547 original size:16 final size:16
Alignment explanation
Indices: 28491526--28491580 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
28491516 TGATCTGAAC
*
28491526 AATTAAAATACAATAT
1 AATTAAAATAAAATAT
28491542 AATTAAAA-AATAATAT
1 AATTAAAATAA-AATAT
*
28491558 -TTTAAAATGAAAATAT
1 AATTAAAAT-AAAATAT
*
28491574 AAATAAA
1 AATTAAA
28491581 TATTGAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
15 7 0.23
16 18 0.58
17 6 0.19
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (16 bp):
AATTAAAATAAAATAT
Found at i:28495940 original size:6 final size:6
Alignment explanation
Indices: 28495929--28495953 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
28495919 CGAAGAAAAG
28495929 AAAGAA AAAGAA AAAGAA AAAGAA A
1 AAAGAA AAAGAA AAAGAA AAAGAA A
28495954 TAAAGGAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:28501010 original size:6 final size:6
Alignment explanation
Indices: 28500999--28501026 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
28500989 CCAGCAGAGT
28500999 GGGAGA GGGAGA GGGAGA GGGAGA GGGA
1 GGGAGA GGGAGA GGGAGA GGGAGA GGGA
28501027 CGGTGGTAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
GGGAGA
Found at i:28503314 original size:30 final size:30
Alignment explanation
Indices: 28503280--28503339 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
28503270 ATCTAATACG
*
28503280 AACTTTTGCAAAATTACATTTTTGCCCCTA
1 AACTTTTGCAAAATTACACTTTTGCCCCTA
*
28503310 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTGCAAAATTACACTTTTGCCCCTA
28503340 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTTGCAAAATTACACTTTTGCCCCTA
Found at i:28521609 original size:39 final size:40
Alignment explanation
Indices: 28521505--28521689 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
28521495 TTGAATGATG
* * * * *
28521505 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
28521545 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
28521585 TCCGGGCTAAG-CCTGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
28521624 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
28521665 -CCGGGCTATGTCCCAAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
28521690 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
39 33 0.27
40 78 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:28521711 original size:79 final size:79
Alignment explanation
Indices: 28521558--28521722 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
28521548 GGACTAAGAT
* * ** **
28521558 CCGAAGGTATTTGTGCGAGATACTAATTCCGGGCTAAGCCTGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTTACTAA
*
28521623 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
28521637 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCAAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCAAAGGCATTTGAACGAGTTA-C
* *
28521700 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
28521716 CCGAAGG
1 CCGAAGG
28521723 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.65
80 23 0.32
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCAAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:28529573 original size:79 final size:80
Alignment explanation
Indices: 28529437--28529656 Score: 218
Period size: 79 Copynumber: 2.8 Consensus size: 80
28529427 TTGAATGATG
* * * * **
28529437 TCTGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGTATT
1 TCTGGGCTAAGTCACGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAG-TCCGAAGGTATT
*
28529501 TGTGCGAGATACTA-AT
64 TGTGCGAGATACTATAA
* *
28529517 TCTGGGCTAAG-CACGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCTGGGCTAAGTCACGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGT-CCGAAGGTATTT
*
28529581 GTGCGAGTTACTATAA
65 GTGCGAGATACTATAA
* * ** *
28529597 TC-GGGCTATGTCTCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGGTA
1 TCTGGGCTAAGTCACGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTT-AAGTCCGAAGGTA
28529657 CGTGATTTGG
Statistics
Matches: 117, Mismatches: 17, Indels: 13
0.80 0.12 0.09
Matches are distributed among these distances:
78 1 0.01
79 68 0.58
80 48 0.41
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (80 bp):
TCTGGGCTAAGTCACGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGTCCGAAGGTATTTG
TGCGAGATACTATAA
Found at i:28529628 original size:40 final size:40
Alignment explanation
Indices: 28529440--28529621 Score: 192
Period size: 40 Copynumber: 4.6 Consensus size: 40
28529430 AATGATGTCT
* * * *
28529440 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCC
* * * * *
28529480 GGACTAAGAT-CCGAAGGTATTTGTGCGAGATACTAATTCT
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
28529520 GGGCTAAG-CACGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
28529559 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAT-C
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
* *
28529599 GGGCTATGTCTCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
28529622 AACGAGTAGC
Statistics
Matches: 117, Mismatches: 20, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
39 32 0.27
40 74 0.63
41 11 0.09
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:28531773 original size:17 final size:18
Alignment explanation
Indices: 28531751--28531793 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
28531741 AATTCGCGTG
28531751 AGGCCCACGA-GCCCAT-T
1 AGGCCCAC-ACGCCCATCT
28531768 AGGCCCACACGGCCCATCT
1 AGGCCCACAC-GCCCATCT
28531787 AGGCCCA
1 AGGCCCA
28531794 ACGTGGCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 1 0.04
17 8 0.35
18 6 0.26
19 8 0.35
ACGTcount: A:0.23, C:0.44, G:0.23, T:0.09
Consensus pattern (18 bp):
AGGCCCACACGCCCATCT
Found at i:28531789 original size:19 final size:19
Alignment explanation
Indices: 28531756--28531793 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
28531746 GCGTGAGGCC
28531756 CACGAGCCCATTAGGCCCA
1 CACGAGCCCATTAGGCCCA
28531775 CACG-GCCCATCTAGGCCCA
1 CACGAGCCCAT-TAGGCCCA
28531794 ACGTGGCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.24, C:0.45, G:0.21, T:0.11
Consensus pattern (19 bp):
CACGAGCCCATTAGGCCCA
Found at i:28537315 original size:33 final size:33
Alignment explanation
Indices: 28537273--28537344 Score: 144
Period size: 33 Copynumber: 2.2 Consensus size: 33
28537263 TCTAAGAAGT
28537273 TGTGAAGTTCATACATAAGATTATGATTGAAAA
1 TGTGAAGTTCATACATAAGATTATGATTGAAAA
28537306 TGTGAAGTTCATACATAAGATTATGATTGAAAA
1 TGTGAAGTTCATACATAAGATTATGATTGAAAA
28537339 TGTGAA
1 TGTGAA
28537345 CTGTTAGTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.42, C:0.06, G:0.19, T:0.33
Consensus pattern (33 bp):
TGTGAAGTTCATACATAAGATTATGATTGAAAA
Found at i:28542873 original size:28 final size:28
Alignment explanation
Indices: 28542833--28542890 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
28542823 TTGTAACATT
28542833 TATTGGGCATATTTTCAAATTTATAATG
1 TATTGGGCATATTTTCAAATTTATAATG
*
28542861 TATTGGGCATATTTTCAATTTTATAATG
1 TATTGGGCATATTTTCAAATTTATAATG
28542889 TA
1 TA
28542891 ATTTATTTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.31, C:0.07, G:0.14, T:0.48
Consensus pattern (28 bp):
TATTGGGCATATTTTCAAATTTATAATG
Found at i:28547775 original size:27 final size:27
Alignment explanation
Indices: 28547733--28547784 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
28547723 TAGTTAACAA
*
28547733 GGTGGTAATGCCATACAGATTTTGTAC
1 GGTGGTAATGCCATACAAATTTTGTAC
*
28547760 GGTGGTAATGCTATACAAATTTTGT
1 GGTGGTAATGCCATACAAATTTTGT
28547785 CAAGTTTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.37
Consensus pattern (27 bp):
GGTGGTAATGCCATACAAATTTTGTAC
Found at i:28548783 original size:27 final size:27
Alignment explanation
Indices: 28548727--28548923 Score: 123
Period size: 27 Copynumber: 7.3 Consensus size: 27
28548717 TTGGGTCGTT
* *
28548727 AATACCCCTAATTTGTAAAATTA-CTAA
1 AATACCCCCAATTTGTAAAATTATC-GA
***
28548754 AATACCCCCGGGTTGTAAAATTATCGA
1 AATACCCCCAATTTGTAAAATTATCGA
* * * *
28548781 AATACCCCTAATTTGTGAAATTTTCAA
1 AATACCCCCAATTTGTAAAATTATCGA
** * *
28548808 AATACCCTTAATTTGTGAAATTATCAA
1 AATACCCCCAATTTGTAAAATTATCGA
* *
28548835 AATACCCCCGACTTGTAAAATTA-CTGA
1 AATACCCCCAATTTGTAAAATTATC-GA
** *
28548862 AATACCTTCAGTTTGTAAAATTA-CTGA
1 AATACCCCCAATTTGTAAAATTATC-GA
* *** *
28548889 AATA-ACCTTGTAGTGTAAAATTATCGA
1 AATACCCCCAAT-TTGTAAAATTATCGA
28548916 AATACCCC
1 AATACCCC
28548924 TATAAGGTAA
Statistics
Matches: 133, Mismatches: 32, Indels: 9
0.76 0.18 0.05
Matches are distributed among these distances:
26 3 0.02
27 126 0.95
28 4 0.03
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AATACCCCCAATTTGTAAAATTATCGA
Found at i:28548892 original size:54 final size:54
Alignment explanation
Indices: 28548727--28548892 Score: 149
Period size: 54 Copynumber: 3.1 Consensus size: 54
28548717 TTGGGTCGTT
* * ** * *
28548727 AATACCCCTAATTTGTAAAATTACTAAAATACCCCCGGGTTGTAAAATTATCGA
1 AATACCCCCAACTTGTAAAATTACTAAAATACCTTCAGTTTGTAAAATTATCGA
* * * * * * *
28548781 AATACCCCTAATTTGTGAAATT-TTCAAAATACCCTT-AATTTGTGAAATTATCAA
1 AATACCCCCAACTTGTAAAATTACT-AAAATA-CCTTCAGTTTGTAAAATTATCGA
* *
28548835 AATACCCCCGACTTGTAAAATTACTGAAATACCTTCAGTTTGTAAAATTA-CTGA
1 AATACCCCCAACTTGTAAAATTACTAAAATACCTTCAGTTTGTAAAATTATC-GA
28548889 AATA
1 AATA
28548893 ACCTTGTAGT
Statistics
Matches: 89, Mismatches: 18, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
53 6 0.07
54 80 0.90
55 3 0.03
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.33
Consensus pattern (54 bp):
AATACCCCCAACTTGTAAAATTACTAAAATACCTTCAGTTTGTAAAATTATCGA
Found at i:28548892 original size:81 final size:81
Alignment explanation
Indices: 28548727--28548923 Score: 197
Period size: 81 Copynumber: 2.4 Consensus size: 81
28548717 TTGGGTCGTT
* **
28548727 AATACCCCTAATTTGTAAAATTA-CTAAAATACCCCCGGGTTGTAAAATTATCGAAATACCCCTA
1 AATACCCTTAATTTGTAAAATTATC-AAAATACCCCCGACTTGTAAAATTATCGAAATACCCCTA
* *
28548791 ATTTGTGAAATTTTCAA
65 ATTTGTAAAATTCTCAA
* *
28548808 AATACCCTTAATTTGTGAAATTATCAAAATACCCCCGACTTGTAAAATTA-CTGAAATA-CCTTC
1 AATACCCTTAATTTGTAAAATTATCAAAATACCCCCGACTTGTAAAATTATC-GAAATACCCCT-
* *
28548871 AGTTTGTAAAATTACT-GA
64 AATTTGTAAAATT-CTCAA
* * * *
28548889 AATAACCTT-GTAGTGTAAAATTATCGAAATACCCC
1 AATACCCTTAAT-TTGTAAAATTATCAAAATACCCC
28548924 TATAAGGTAA
Statistics
Matches: 97, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
80 5 0.05
81 90 0.93
82 2 0.02
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (81 bp):
AATACCCTTAATTTGTAAAATTATCAAAATACCCCCGACTTGTAAAATTATCGAAATACCCCTAA
TTTGTAAAATTCTCAA
Found at i:28553016 original size:22 final size:22
Alignment explanation
Indices: 28552975--28553016 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
28552965 ATAGTCAAGA
**
28552975 TGGCACAGAGCCATTTTTAGGT
1 TGGCACAGAGCCATACTTAGGT
28552997 TGGCACAGAGCCATACTTAG
1 TGGCACAGAGCCATACTTAG
28553017 ATTTTGCGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (22 bp):
TGGCACAGAGCCATACTTAGGT
Found at i:28553411 original size:27 final size:27
Alignment explanation
Indices: 28553355--28553412 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
28553345 TACCCTACAA
*
28553355 GGGTATTTCGATAATTTCACAAATTAG
1 GGGTATTTCGATAATTTCACAAATCAG
* * * *
28553382 GGGTATTTCGGTCATTTTACAAATCGG
1 GGGTATTTCGATAATTTCACAAATCAG
28553409 GGGT
1 GGGT
28553413 CTTAACAACC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.36
Consensus pattern (27 bp):
GGGTATTTCGATAATTTCACAAATCAG
Found at i:28557128 original size:27 final size:26
Alignment explanation
Indices: 28557098--28557274 Score: 158
Period size: 27 Copynumber: 6.5 Consensus size: 26
28557088 AAATTGTACA
* *
28557098 GCACTAAGTGTGCGATTCGACTTTGTT
1 GCACTAAGTGTGCGATT-GACTATGTG
* *
28557125 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCG-ATTGACTATG-TG
* *
28557152 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCG-ATTGACTATGTG
*
28557179 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-T-TGACTATGTG
* *
28557207 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGA-TTGACTATGTG
* * *
28557234 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGA-TTGACTATGTG
*
28557261 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
28557275 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
26 1 0.01
27 99 0.79
28 26 0.21
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
GCACTAAGTGTGCGATTGACTATGTG
Found at i:28557221 original size:82 final size:81
Alignment explanation
Indices: 28557098--28557253 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
28557088 AAATTGTACA
* * * *
28557098 GCACTAAGTGTGCGATTCGACTTTGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
28557162 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
28557179 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
28557244 TGCGAGTTGA
65 TGCGAATTGA
28557254 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:28557265 original size:82 final size:81
Alignment explanation
Indices: 28557094--28557274 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
28557084 GATTAAATTG
* * * *
28557094 TACAGCACTAAGTGTGCGATTCGACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
28557159 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
28557175 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
28557239 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
28557257 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
28557275 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 20 0.24
82 62 0.76
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:28571365 original size:44 final size:43
Alignment explanation
Indices: 28571285--28571367 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
28571275 GTTACTTTTT
* *
28571285 TTTTCTTTATTTTACTGTTTTTAAAATCGTCTATATCAAAAAA
1 TTTTCTTTATTTTACTGTTTTTAAAATCATATATATCAAAAAA
* *
28571328 TTTTCTTTATTTTCCTTTTGTTTAAAAAT-ATATATATCAA
1 TTTTCTTTATTTTACTGTT-TTT-AAAATCATATATATCAA
28571368 GTATATATAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
43 17 0.50
44 12 0.35
45 5 0.15
ACGTcount: A:0.31, C:0.11, G:0.04, T:0.54
Consensus pattern (43 bp):
TTTTCTTTATTTTACTGTTTTTAAAATCATATATATCAAAAAA
Found at i:28571984 original size:3 final size:3
Alignment explanation
Indices: 28571976--28572128 Score: 75
Period size: 3 Copynumber: 50.3 Consensus size: 3
28571966 TAATTTAATA
* * *
28571976 TAT TAT TAT TAC TAT TAT TAT TAT T-T TAA TAT TAT TAT CTAA TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT
* * * * * *
28572020 TAT TAT TTT TTT TAC TAT TAT TACT TA- TAT TCGT TAG TAT CAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT T-AT TAT TAT TAT TAT
* * * *
28572066 TAAT T-T TAT CT-T TAT T-T TCTT TAC TAT TAT TTT TAT TAT CAT TAAT
1 T-AT TAT TAT -TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT T-AT
28572112 TATT TAT TAT TAT TAT T
1 TA-T TAT TAT TAT TAT T
28572129 TCTTATTTTG
Statistics
Matches: 114, Mismatches: 22, Indels: 28
0.70 0.13 0.17
Matches are distributed among these distances:
2 11 0.10
3 84 0.74
4 19 0.17
ACGTcount: A:0.29, C:0.07, G:0.01, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:28572007 original size:29 final size:29
Alignment explanation
Indices: 28571975--28572050 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 29
28571965 CTAATTTAAT
28571975 ATATTATTATTACTATTATTA-TTATTTTA
1 ATATTATTATTA-TATTATTATTTATTTTA
*
28572004 ATATTATTATCTA-ATATATTATTTTTTTTA
1 ATATTATTAT-TATAT-TATTATTTATTTTA
*
28572034 CTATTATTACTTATATT
1 ATATTATTA-TTATATT
28572051 CGTTAGTATC
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
28 2 0.05
29 15 0.38
30 20 0.50
31 3 0.08
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (29 bp):
ATATTATTATTATATTATTATTTATTTTA
Found at i:28572023 original size:26 final size:26
Alignment explanation
Indices: 28571979--28572028 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
28571969 TTTAATATAT
*
28571979 TATTATTACTATTATTATTATTTTAA
1 TATTATTACTAATATTATTATTTTAA
28572005 TATTATTATCTAATA-TATTATTTT
1 TATTATTA-CTAATATTATTATTTT
28572029 TTTTACTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (26 bp):
TATTATTACTAATATTATTATTTTAA
Found at i:28572134 original size:20 final size:19
Alignment explanation
Indices: 28572091--28572158 Score: 61
Period size: 20 Copynumber: 3.6 Consensus size: 19
28572081 TTTCTTTACT
28572091 ATTATTTTTATTATCATTA
1 ATTATTTTTATTATCATTA
* *
28572110 ATTATTTATTATTATTATTT
1 ATTATTT-TTATTATCATTA
* *
28572130 CTTA-TTTTGTT-TCATTTA
1 ATTATTTTTATTATCA-TTA
28572148 A-TATTTTTATT
1 ATTATTTTTATT
28572159 TGCTTATTGT
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
17 4 0.11
18 12 0.32
19 9 0.24
20 13 0.34
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.68
Consensus pattern (19 bp):
ATTATTTTTATTATCATTA
Found at i:28572197 original size:12 final size:12
Alignment explanation
Indices: 28572176--28572208 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
28572166 TGTTTTTGCC
*
28572176 TATTTCATTTTT
1 TATTTTATTTTT
28572188 TATTTTATTTTT
1 TATTTTATTTTT
28572200 TA-TTTATTT
1 TATTTTATTT
28572209 AAACTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (12 bp):
TATTTTATTTTT
Found at i:28579361 original size:42 final size:42
Alignment explanation
Indices: 28579306--28579498 Score: 156
Period size: 44 Copynumber: 4.5 Consensus size: 42
28579296 GTAGATATTG
*
28579306 TCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATATAAGCCACCATCCTA
* * * * * * *
28579348 TCTCCCTAAGCAGTAGTGGAGTAAGCTGAAAATTG-TA-GATCTTG
1 TCTCCCTAAGCAGTAGTGGAG-CAGAT-ATAA--GCCACCATCCTA
* * * ** ** * *
28579392 TCTCCCTAGGCAGTAGTAGAGCAGATAGAAGATGGAAAATCTTG
1 TCTCCCTAAGCAGTAGTGGAGCAGATATAAG--CCACCATCCTA
*
28579436 TCTCCCTAAGCAGTAGTGGAGCAGATTTAAGCCACCATCCTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATATAAGCCACCATCCTA
28579478 TCTCCCTAAGCAGTAGTGGAG
1 TCTCCCTAAGCAGTAGTGGAG
28579499 TAGCCTAAAA
Statistics
Matches: 118, Mismatches: 25, Indels: 16
0.74 0.16 0.10
Matches are distributed among these distances:
40 1 0.01
42 50 0.42
43 7 0.06
44 58 0.49
45 1 0.01
46 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (42 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATATAAGCCACCATCCTA
Found at i:28579383 original size:86 final size:87
Alignment explanation
Indices: 28579230--28579417 Score: 245
Period size: 86 Copynumber: 2.2 Consensus size: 87
28579220 TTCCTGAGGT
* * * * * *
28579230 AGTAG-AGAAGCAGATTTAAGCCACTAGTCTTATCTCATTGAGCAGCAGTGGAGCAAGCTGGATA
1 AGTAGTAG-AGCAGATTTAAGCCACCAGTCCTATCTCACTAAGCAGCAGTGGAGCAAGCTGAAAA
28579294 TTGTAGATATTGTCTCCCTAAGC
65 TTGTAGATATTGTCTCCCTAAGC
* * * *
28579317 AGTAGTGGAGCAGATTTAAGCCACCA-TCCTATCTCCCTAAGCAGTAGTGGAGTAAGCTGAAAAT
1 AGTAGTAGAGCAGATTTAAGCCACCAGTCCTATCTCACTAAGCAGCAGTGGAGCAAGCTGAAAAT
* *
28579381 TGTAGATCTTGTCTCCCTAGGC
66 TGTAGATATTGTCTCCCTAAGC
28579403 AGTAGTAGAGCAGAT
1 AGTAGTAGAGCAGAT
28579418 AGAAGATGGA
Statistics
Matches: 87, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
86 64 0.74
87 22 0.25
88 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (87 bp):
AGTAGTAGAGCAGATTTAAGCCACCAGTCCTATCTCACTAAGCAGCAGTGGAGCAAGCTGAAAAT
TGTAGATATTGTCTCCCTAAGC
Found at i:28579575 original size:45 final size:45
Alignment explanation
Indices: 28579520--28580142 Score: 287
Period size: 45 Copynumber: 13.8 Consensus size: 45
28579510 TTGTAGATCC
* *
28579520 TATCTCCCTGAAGTTGCAGTGAAACAGATTGAAGATAGCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCT
* * * * * *
28579565 TATTTCCCTGAAGTTACAGTGGAACATATTGAAGCTATAAATTACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--A--GCAAATCT
* * * * *
28579616 TATCTCTCTGAAGTCGCAGTAGAGCAGA-TCAA-A-A-CAAACCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCT
* * * * *
28579657 TATCTCTCC-AAAGTTGTAGTGGAGCAGGTTGTAA-TTA-CAAGTCT
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGATTG-AAGATAGCAAATCT
* *
28579701 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCT
* * * * * * *
28579746 TATTTTCCTAAAGTTGCAGTGGAACAAATTGAAGCTATAAATTACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT--A--GCAAATCT
* * * * * *
28579797 TATCTCTCTGAAGTTGCAGTAGAACAGA-T---CATAGAAAACCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCT
* * *
28579838 TATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAA-ATTA-CAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TAGCAAATCT
* * * * * *
28579882 TATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGAAAGCTAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCT
* * * *
28579927 TATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAAT-GACGAGTCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAG-CAAATCT
* * ** * *
28579971 TATAC-CTCTGAAGTTGCAGTAGGTCAGATCAAATCT-ACCATGGTAAATCT
1 TAT-CTCCCTGAAGTTGCAGT-GG--AG--CAGAT-TGAAGATAGCAAATCT
* *** *
28580021 TATCTCCCTGAAGTTGCAGTGGAGCAAATT-AATCCA-CAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCT
* * * * * * * * *
28580064 TATCTCCCTAAAGTTACGGCGGAGTAGACTGAAGACAGCTAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCT
* *
28580109 TATCTTCCTGAAGTTGTAGTGGAGCAGATT-AAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA
28580143 CGAAAAGTGT
Statistics
Matches: 429, Mismatches: 111, Indels: 77
0.70 0.18 0.12
Matches are distributed among these distances:
41 54 0.13
42 3 0.01
43 36 0.08
44 102 0.24
45 133 0.31
47 9 0.02
49 9 0.02
50 28 0.07
51 55 0.13
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (45 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCT
Found at i:28579627 original size:96 final size:95
Alignment explanation
Indices: 28579514--28579825 Score: 317
Period size: 96 Copynumber: 3.4 Consensus size: 95
28579504 TAAAAATTGT
* *
28579514 AGATCCTATCTCCCTGAAGTTGCAGT-GAAACAGATTGAAGATAGCAAATCTTATTTCCCTGAAG
1 AGATCTTATCTCCCTGAAGTTGCAGTAG-AACAGATTGAAGATAGCAAATCTTATTTCCCTAAAG
*
28579578 TTACAGTGGAACATATTGAAGCTATAAATTAC
65 TTGCAGTGGAACA-ATTGAAGCTATAAATTAC
* * * * * *
28579610 AGATCTTATCTCTCTGAAGTCGCAGTAGAGCAGA-TCAA-A-A-CAAACCTTATCTCTCC-AAAG
1 AGATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGATAGCAAATCTTATTTC-CCTAAAG
* * * *
28579670 TTGTAGTGGAGC-A--G--GTTGT-AATTAC
65 TTGCAGTGGAACAATTGAAGCTATAAATTAC
* * * * *
28579695 A-AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTTCCTAAAG
1 AGA-TCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGATAGCAAATCTTATTTCCCTAAAG
28579759 TTGCAGTGGAACAAATTGAAGCTATAAATTAC
65 TTGCAGTGGAAC-AATTGAAGCTATAAATTAC
*
28579791 AGATCTTATCTCTCTGAAGTTGCAGTAGAACAGAT
1 AGATCTTATCTCCCTGAAGTTGCAGTAGAACAGAT
28579826 CATAGAAAAC
Statistics
Matches: 171, Mismatches: 29, Indels: 32
0.74 0.12 0.14
Matches are distributed among these distances:
84 1 0.01
85 35 0.20
86 6 0.04
87 1 0.01
88 4 0.02
89 23 0.13
90 1 0.01
91 1 0.01
92 23 0.13
93 4 0.02
94 1 0.01
95 6 0.04
96 63 0.37
97 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (95 bp):
AGATCTTATCTCCCTGAAGTTGCAGTAGAACAGATTGAAGATAGCAAATCTTATTTCCCTAAAGT
TGCAGTGGAACAATTGAAGCTATAAATTAC
Found at i:28579827 original size:181 final size:181
Alignment explanation
Indices: 28579520--28579949 Score: 655
Period size: 181 Copynumber: 2.4 Consensus size: 181
28579510 TTGTAGATCC
* * * *
28579520 TATCTCCCTGAAGTTGCAGTGAAACAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTTACAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGT
* *
28579585 GGAACATATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTCGCAGTAGAGCAGATCA-AA
66 GGAACAAATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTCGCAGTAGAACAGATCATAA
* *
28579649 ACAAACCTTATCTCTCCAAAGTTGTAGTGGAGCAGGTTGTAATTACAAGTCT
131 A-AAACCTTATCTCTCCAAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCT
* * *
28579701 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATTTTCCTAAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGT
* *
28579766 GGAACAAATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAACAGATCATAG
66 GGAACAAATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTCGCAGTAGAACAGATCATAA
**
28579831 AAAACCTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCT
131 AAAACCTTATCTCTCCAAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCT
* * * * * *
28579882 TATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGAAAGCTAATCCTATCTCCCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGT
28579947 GGA
66 GGA
28579950 GCAGATTAAA
Statistics
Matches: 225, Mismatches: 23, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
181 223 0.99
182 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (181 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTGCAGT
GGAACAAATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAGTCGCAGTAGAACAGATCATAA
AAAACCTTATCTCTCCAAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCT
Found at i:28579899 original size:44 final size:45
Alignment explanation
Indices: 28579836--28579954 Score: 136
Period size: 44 Copynumber: 2.7 Consensus size: 45
28579826 CATAGAAAAC
* ** *
28579836 CTTATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAA-ATTA-C-AAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA-AAGCTAA-T
* *
28579880 CTTATCTCCCTAAAGTTGCAGCGGAGCAGACTGAAGAAAGCTAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCTAAT
*
28579925 CCTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGA
28579955 TTAAAATGAC
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
44 31 0.49
45 30 0.48
46 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAAGCTAAT
Found at i:28579989 original size:89 final size:89
Alignment explanation
Indices: 28579838--28580140 Score: 285
Period size: 89 Copynumber: 3.4 Consensus size: 89
28579828 TAGAAAACCT
* * * *
28579838 TATCTCTCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTAAAGTTGCAGCG
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAAGTCTTATCTCCCTAAAGTTGCAGCG
28579903 GAGCAGACTGAAGAAAGCTAATCC
66 GAGCAGACTGAAGAAAGCTAATCC
* * * * *
28579927 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATGACGAGTCCTATAC-CTCTGAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAAGTCTTAT-CTCCCTAAAGTTGCAG-
* * * * *
28579991 AGG-TCAGA-TCAA-ATCTACCATGGTAAATCT
64 CGGAGCAGACTGAAGA---A--A-GCT-AATCC
* * *
28580021 TATCTCCCTGAAGTTGCAGTGGAGCAAATT--AATCCACAAGTCTTATCTCCCTAAAGTTACGGC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAT-CACAAGTCTTATCTCCCTAAAGTTGCAGC
* *
28580084 GGAGTAGACTGAAGACAGCTAATCC
65 GGAGCAGACTGAAGAAAGCTAATCC
* *
28580109 TATCTTCCTGAAGTTGTAGTGGAGCAGATTAA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAA
28580141 GACGAAAAGT
Statistics
Matches: 167, Mismatches: 31, Indels: 31
0.73 0.14 0.14
Matches are distributed among these distances:
87 1 0.01
88 34 0.20
89 59 0.35
90 5 0.03
92 7 0.04
93 24 0.14
94 36 0.22
95 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (89 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCACAAGTCTTATCTCCCTAAAGTTGCAGCG
GAGCAGACTGAAGAAAGCTAATCC
Found at i:28592570 original size:79 final size:82
Alignment explanation
Indices: 28592459--28592643 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
28592449 GCTACTCGTT
* * *
28592459 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
28592522 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
28592539 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
28592602 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
*
28592619 CAAA-GCCTTCGGGACTTAGGCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
28592644 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.60
80 33 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:28592643 original size:40 final size:40
Alignment explanation
Indices: 28592440--28592643 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
28592430 CGGAATTTAA
** *
28592440 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
28592480 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
28592520 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
28592559 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
28592599 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGG
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
28592639 CCGGA
1 CCGGA
28592644 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:28600535 original size:79 final size:82
Alignment explanation
Indices: 28600424--28600608 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
28600414 GCTACTCGTT
* * *
28600424 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
28600487 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
28600504 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
28600567 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
*
28600584 CAAA-GCCTTCGGGACTTAGGCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
28600609 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.60
80 33 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:28600608 original size:40 final size:40
Alignment explanation
Indices: 28600405--28600608 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
28600395 CGGAATTTAA
** *
28600405 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
28600445 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
28600485 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
28600524 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
28600564 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGG
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
28600604 CCGGA
1 CCGGA
28600609 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:28603380 original size:13 final size:13
Alignment explanation
Indices: 28603362--28603403 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
28603352 ACCTTAGCTT
28603362 TTTCTCCTTTTTC
1 TTTCTCCTTTTTC
28603375 TTTCT-CTTTTTC
1 TTTCTCCTTTTTC
* *
28603387 CTTCTCTTTTTTTC
1 TTTCTC-CTTTTTC
28603401 TTT
1 TTT
28603404 GGTTTTACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
12 11 0.46
13 5 0.21
14 8 0.33
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTCTCCTTTTTC
Found at i:28603385 original size:12 final size:12
Alignment explanation
Indices: 28603362--28603397 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
28603352 ACCTTAGCTT
28603362 TTTCTCCTTTTTC
1 TTTCT-CTTTTTC
28603375 TTTCTCTTTTTC
1 TTTCTCTTTTTC
*
28603387 CTTCTCTTTTT
1 TTTCTCTTTTT
28603398 TTCTTTGGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 17 0.77
13 5 0.23
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTCTCTTTTTC
Found at i:28603477 original size:5 final size:5
Alignment explanation
Indices: 28603469--28603618 Score: 300
Period size: 5 Copynumber: 30.0 Consensus size: 5
28603459 TTTATTATTT
28603469 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
28603519 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
28603569 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
28603619 AGTATTACAT
Statistics
Matches: 145, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 145 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:28605259 original size:40 final size:39
Alignment explanation
Indices: 28605228--28605437 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
28605218 GGACTAAGAT
* *
28605228 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
28605268 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
28605308 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
28605348 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
28605388 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
28605427 CCGAAGGCATT
1 CCGAAGGCATT
28605438 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:28605391 original size:120 final size:120
Alignment explanation
Indices: 28605175--28605437 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
28605165 TTGAATGCTG
* *
28605175 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
28605239 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
28605295 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
28605358 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
28605414 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
28605438 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:28605457 original size:79 final size:80
Alignment explanation
Indices: 28605228--28605472 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
28605218 GGACTAAGAT
* * * * * * * ** *
28605228 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
28605291 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
28605308 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
28605373 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
28605388 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
28605452 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
28605466 CCGAAGG
1 CCGAAGG
28605473 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:28609759 original size:42 final size:42
Alignment explanation
Indices: 28609708--28609816 Score: 114
Period size: 44 Copynumber: 2.5 Consensus size: 42
28609698 CAATGCCTTT
* * *
28609708 GTCCTAGACAGGGTCTTACACGAAA-TCAGATACGATGCC-GAA
1 GTCCCAGACATGGTCTTACACGAAACTCA-ATACGAGGCCTG-A
* * *
28609750 GTCCCAGACATGGTCTTATACGTAAATCTCAATTCGAGGCCTGT
1 GTCCCAGACATGGTCTTACACG-AAA-CTCAATACGAGGCCTGA
28609794 GTCCCAGACATGGTCTTACACGA
1 GTCCCAGACATGGTCTTACACGA
28609817 TGTTACAGAC
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
42 19 0.34
43 4 0.07
44 29 0.52
45 4 0.07
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGAAACTCAATACGAGGCCTGA
Found at i:28616107 original size:21 final size:20
Alignment explanation
Indices: 28616083--28616121 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
28616073 ATGTTTTTTG
28616083 ATGTTTGATGATAGATTATGA
1 ATGTTTGATGATAG-TTATGA
28616104 ATGTTTGATGATAGTTAT
1 ATGTTTGATGATAGTTAT
28616122 ACAAGAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (20 bp):
ATGTTTGATGATAGTTATGA
Found at i:28621520 original size:46 final size:47
Alignment explanation
Indices: 28621204--28621517 Score: 186
Period size: 46 Copynumber: 6.7 Consensus size: 47
28621194 AAAATCGAGT
* * * *
28621204 CCGACGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCTGTG
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATA-ATGTG-G
** * *
28621254 CCGATGCCATGTCATAGAC-TGGTCTTGCACT-GTCACCTC-TATATGT-G
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTAG-C-TCTCATA-ATGTGG
* * * ** *
28621301 CCGATGCCATGTCCCAGACATGGTCTTACACTTG-ACACATCTTGTTG
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATGTGG
* * *
28621348 CTGATG-CATGTCCCAGACATGTCTTACACTAGCT-TACAT-CTCGAGG
1 CCGATGCCATGTCCCAGACATGTCTTACACTAGCTCT-CATAAT-GTGG
* * *
28621394 CCGATG-CATGTCCCAGAAATGTATTACACTAGCTCTCGTCTCAATGT--
1 CCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTC--AT-AATGTGG
* * * *
28621441 -CAATGCCATATCCCAGTCATGATCTTACACTGGCTCTCATAATGTGG
1 CCGATGCCATGTCCCAGACATG-TCTTACACTAGCTCTCATAATGTGG
*
28621488 CCAATG-CATGTCCCAGACATGTCTTACACT
1 CCGATGCCATGTCCCAGACATGTCTTACACT
28621518 GGCACACAAA
Statistics
Matches: 210, Mismatches: 35, Indels: 42
0.73 0.12 0.15
Matches are distributed among these distances:
45 17 0.08
46 70 0.33
47 51 0.24
48 32 0.15
49 19 0.09
50 21 0.10
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.29
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTGG
Found at i:28621882 original size:50 final size:48
Alignment explanation
Indices: 28621814--28621987 Score: 155
Period size: 47 Copynumber: 3.7 Consensus size: 48
28621804 AAAATCGAGT
* * *
28621814 CCGACGCCATGTCCTAGACATGGTCTTACACTAGCTCTCAC-ATATCTGTG
1 CCGATGCCATGTCCTAGACATGGTCTTACACT-G-TCAC-CTATATATGTG
* * *
28621864 CCGATGCCATGTCATAGAC-TGGTCTTGCACTGTCACCTCTATATGTG
1 CCGATGCCATGTCCTAGACATGGTCTTACACTGTCACCTATATATGTG
* * *
28621911 CCGATGCCATGTCCCAGACATGGTCTTACACT-TGACAC-ATCT-TGTTG
1 CCGATGCCATGTCCTAGACATGGTCTTACACTGTCAC-CTATATATG-TG
* *
28621958 CTGATG-CATGTCCCAGACAT-GTCTTACACT
1 CCGATGCCATGTCCTAGACATGGTCTTACACT
28621988 AGCTTACATC
Statistics
Matches: 107, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
45 10 0.09
46 17 0.16
47 39 0.36
48 13 0.12
49 11 0.10
50 17 0.16
ACGTcount: A:0.21, C:0.30, G:0.19, T:0.30
Consensus pattern (48 bp):
CCGATGCCATGTCCTAGACATGGTCTTACACTGTCACCTATATATGTG
Found at i:28622130 original size:46 final size:47
Alignment explanation
Indices: 28621814--28622127 Score: 186
Period size: 46 Copynumber: 6.7 Consensus size: 47
28621804 AAAATCGAGT
* * * *
28621814 CCGACGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCTGTG
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATA-ATGTG-G
** * *
28621864 CCGATGCCATGTCATAGAC-TGGTCTTGCACT-GTCACCTC-TATATGT-G
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTAG-C-TCTCATA-ATGTGG
* * * ** *
28621911 CCGATGCCATGTCCCAGACATGGTCTTACACTTG-ACACATCTTGTTG
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATGTGG
* * *
28621958 CTGATG-CATGTCCCAGACATGTCTTACACTAGCT-TACAT-CTCGAGG
1 CCGATGCCATGTCCCAGACATGTCTTACACTAGCTCT-CATAAT-GTGG
* * *
28622004 CCGATG-CATGTCCCAGAAATGTATTACACTAGCTCTCGTCTCAATGT--
1 CCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTC--AT-AATGTGG
* * * *
28622051 -CAATGCCATATCCCAGTCATGATCTTACACTGGCTCTCATAATGTGG
1 CCGATGCCATGTCCCAGACATG-TCTTACACTAGCTCTCATAATGTGG
*
28622098 CCAATG-CATGTCCCAGACATGTCTTACACT
1 CCGATGCCATGTCCCAGACATGTCTTACACT
28622128 GGCACACAAA
Statistics
Matches: 210, Mismatches: 35, Indels: 42
0.73 0.12 0.15
Matches are distributed among these distances:
45 17 0.08
46 70 0.33
47 51 0.24
48 32 0.15
49 19 0.09
50 21 0.10
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.29
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTGG
Found at i:28622340 original size:610 final size:610
Alignment explanation
Indices: 28621181--28623615 Score: 4780
Period size: 610 Copynumber: 4.0 Consensus size: 610
28621171 AACATGGTCA
28621181 TACACTGACTACAAAAATCGAGTCCGACGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACA
1 TACACTGACTACAAAAATCGAGTCCGACGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACA
28621246 TATCTGTGCCGATGCCATGTCATAGACTGGTCTTGCACTGTCACCTCTATATGTGCCGATGCCAT
66 TATCTGTGCCGATGCCATGTCATAGACTGGTCTTGCACTGTCACCTCTATATGTGCCGATGCCAT
28621311 GTCCCAGACATGGTCTTACACTTGACACATCTTGTTGCTGATGCATGTCCCAGACATGTCTTACA
131 GTCCCAGACATGGTCTTACACTTGACACATCTTGTTGCTGATGCATGTCCCAGACATGTCTTACA
28621376 CTAGCTTACATCTCGAGGCCGATGCATGTCCCAGAAATGTATTACACTAGCTCTCGTCTCAATGT
196 CTAGCTTACATCTCGAGGCCGATGCATGTCCCAGAAATGTATTACACTAGCTCTCGTCTCAATGT
28621441 CAATGCCATATCCCAGTCATGATCTTACACTGGCTCTCATAATGTGGCCAATGCATGTCCCAGAC
261 CAATGCCATATCCCAGTCATGATCTTACACTGGCTCTCATAATGTGGCCAATGCATGTCCCAGAC
28621506 ATGTCTTACACTGGCACACAAATAACCCAAATATCATGGCATGAATATTCGATTTATTTCCTAAG
326 ATGTCTTACACTGGCACACAAATAACCCAAATATCATGGCATGAATATTCGATTTATTTCCTAAG
28621571 GTTCAAACGGGGTTCTAATATCTCAATATTCATCATACATCATCATTTCCACAATCAAGAAACTT
391 GTTCAAACGGGGTTCTAATATCTCAATATTCATCATACATCATCATTTCCACAATCAAGAAACTT
*
28621636 ATATTATAACAATTTAAACACATATAATACTATGTAGTTATATTATTTACATACAACTTACCTCG
456 ATATTATAACAATTCAAACACATATAATACTATGTAGTTATATTATTTACATACAACTTACCTCG
*
28621701 GTAATAAAAAATGTAGGTGGCTAGTCGATTTTAGTCCGCTAGCTTTGATTTTTCCTCGGTCTAGG
521 GTAATAAAAAATGTAGGTGGCTAGTCGATTTTAGTCCGCTAGCTTTGATTTTTCCCCGGTCTAGG
28621766 CTTGGATTGTGTAATTCTTGGATTG
586 CTTGGATTGTGTAATTCTTGGATTG
28621791 TACACTGACTACAAAAATCGAGTCCGACGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACA
1 TACACTGACTACAAAAATCGAGTCCGACGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACA
28621856 TATCTGTGCCGATGCCATGTCATAGACTGGTCTTGCACTGTCACCTCTATATGTGCCGATGCCAT
66 TATCTGTGCCGATGCCATGTCATAGACTGGTCTTGCACTGTCACCTCTATATGTGCCGATGCCAT
28621921 GTCCCAGACATGGTCTTACACTTGACACATCTTGTTGCTGATGCATGTCCCAGACATGTCTTACA
131 GTCCCAGACATGGTCTTACACTTGACACATCTTGTTGCTGATGCATGTCCCAGACATGTCTTACA
28621986 CTAGCTTACATCTCGAGGCCGATGCATGTCCCAGAAATGTATTACACTAGCTCTCGTCTCAATGT
196 CTAGCTTACATCTCGAGGCCGATGCATGTCCCAGAAATGTATTACACTAGCTCTCGTCTCAATGT
28622051 CAATGCCATATCCCAGTCATGATCTTACACTGGCTCTCATAATGTGGCCAATGCATGTCCCAGAC
261 CAATGCCATATCCCAGTCATGATCTTACACTGGCTCTCATAATGTGGCCAATGCATGTCCCAGAC
28622116 ATGTCTTACACTGGCACACAAATAACCCAAATATCATGGCATGAATATTCGATTTATTTCCTAAG
326 ATGTCTTACACTGGCACACAAATAACCCAAATATCATGGCATGAATATTCGATTTATTTCCTAAG
28622181 GTTCAAACGGGGTTCTAATATCTCAATATTCATCATACATCATCATTTCCACAATCAAGAAACTT
391 GTTCAAACGGGGTTCTAATATCTCAATATTCATCATACATCATCATTTCCACAATCAAGAAACTT
*
28622246 ATATTATAACAATTTAAACACATATAATACTATGTAGTTATATTATTTACATACAACTTACCTCG
456 ATATTATAACAATTCAAACACATATAATACTATGTAGTTATATTATTTACATACAACTTACCTCG
*
28622311 GTAATAAAAAATGTAGGTGGCTAGTCGATTTTAGTCCGCTAGCTTTGATTTTTCCTCGGTCTAGG
521 GTAATAAAAAATGTAGGTGGCTAGTCGATTTTAGTCCGCTAGCTTTGATTTTTCCCCGGTCTAGG
28622376 CTTGGATTGTGTAATTCTTGGATTG
586 CTTGGATTGTGTAATTCTTGGATTG
28622401 TACACTGACTACAAAAATCGAGTCCGACGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACA
1 TACACTGACTACAAAAATCGAGTCCGACGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACA
28622466 TATCTGTGCCGATGCCATGTCATAGACTGGTCTTGCACTGTCACCTCTATATGTGCCGATGCCAT
66 TATCTGTGCCGATGCCATGTCATAGACTGGTCTTGCACTGTCACCTCTATATGTGCCGATGCCAT
28622531 GTCCCAGACATGGTCTTACACTTGACACATCTTGTTGCTGATGCATGTCCCAGACATGTCTTACA
131 GTCCCAGACATGGTCTTACACTTGACACATCTTGTTGCTGATGCATGTCCCAGACATGTCTTACA
28622596 CTAGCTTACATCTCGAGGCCGATGCATGTCCCAGAAATGTATTACACTAGCTCTCGTCTCAATGT
196 CTAGCTTACATCTCGAGGCCGATGCATGTCCCAGAAATGTATTACACTAGCTCTCGTCTCAATGT
28622661 CAATGCCATATCCCAGTCATGATCTTACACTGGCTCTCATAATGTGGCCAATGCATGTCCCAGAC
261 CAATGCCATATCCCAGTCATGATCTTACACTGGCTCTCATAATGTGGCCAATGCATGTCCCAGAC
28622726 ATGTCTTACACTGGCACACAAATAACCCAAATATCATGGCATGAATATTCGATTTATTTCCTAAG
326 ATGTCTTACACTGGCACACAAATAACCCAAATATCATGGCATGAATATTCGATTTATTTCCTAAG
28622791 GTTCAAACGGGGTTCTAATATCTCAATATTCATCATACATCATCATTTCCACAATCAAGAAACTT
391 GTTCAAACGGGGTTCTAATATCTCAATATTCATCATACATCATCATTTCCACAATCAAGAAACTT
*
28622856 ATATTATAACAATTCAAACACATATAATACTATGTAGTTGTATTATTTACATACAACTTACCTCG
456 ATATTATAACAATTCAAACACATATAATACTATGTAGTTATATTATTTACATACAACTTACCTCG
28622921 GTAATAAAAAATGTAGGTGGCTAGTCGATTTTAGTCCGCTAGCTTTGATTTTTCCCCGGTCTAGG
521 GTAATAAAAAATGTAGGTGGCTAGTCGATTTTAGTCCGCTAGCTTTGATTTTTCCCCGGTCTAGG
28622986 CTTGGATTGTGTAATTCTTGGATTG
586 CTTGGATTGTGTAATTCTTGGATTG
* *
28623011 TACACTGACTACAAAAATCGAGTCCGACGCCATGTCCCAGTCATGGTCTTACACTAGCTCTCACA
1 TACACTGACTACAAAAATCGAGTCCGACGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACA
28623076 TATCTGTGCCGATGCCATGTCATAGACTGGTCTTGCACTGTCACCTCTATATGTGCCGATGCCAT
66 TATCTGTGCCGATGCCATGTCATAGACTGGTCTTGCACTGTCACCTCTATATGTGCCGATGCCAT
28623141 GTCCCAGACATGGTCTTACACTTGACACATCTTGTTGCTGATGCATGTCCCAGACATGTCTTACA
131 GTCCCAGACATGGTCTTACACTTGACACATCTTGTTGCTGATGCATGTCCCAGACATGTCTTACA
*
28623206 CTAGCTTACATCTCGAGGCCGATGCATGTCCCAGAAATGTATTACACTAGCTCTTGTCTCAATGT
196 CTAGCTTACATCTCGAGGCCGATGCATGTCCCAGAAATGTATTACACTAGCTCTCGTCTCAATGT
28623271 CAATGCCATATCCCAGTCATGATCTTACACTGGCTCTCATAATGTGGCCAATGCATGTCCCAGAC
261 CAATGCCATATCCCAGTCATGATCTTACACTGGCTCTCATAATGTGGCCAATGCATGTCCCAGAC
28623336 ATGTCTTACACTGGCACACAAATAACCCAAATATCATGGCATGAATATTCGATTTATTTCCTAAG
326 ATGTCTTACACTGGCACACAAATAACCCAAATATCATGGCATGAATATTCGATTTATTTCCTAAG
28623401 GTTCAAACGGGGTTCTAATATCTCAATATTCATCATACATCATCATTTCCACAATCAAGAAACTT
391 GTTCAAACGGGGTTCTAATATCTCAATATTCATCATACATCATCATTTCCACAATCAAGAAACTT
*
28623466 ATATTATAACAATTCAAACACATATAATACTATGTAGTTGTATTATTTACATACAACTTACCTCG
456 ATATTATAACAATTCAAACACATATAATACTATGTAGTTATATTATTTACATACAACTTACCTCG
28623531 GTAATAAAAAATGTAGGTGGCTAGTCGATTTTAGTCCGCTAGCTTTGATTTTTCCCCGGTCTAGG
521 GTAATAAAAAATGTAGGTGGCTAGTCGATTTTAGTCCGCTAGCTTTGATTTTTCCCCGGTCTAGG
*
28623596 CTTGGATTATGTAATTCTTG
586 CTTGGATTGTGTAATTCTTG
28623616 ATTTAAAATG
Statistics
Matches: 1818, Mismatches: 7, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
610 1818 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (610 bp):
TACACTGACTACAAAAATCGAGTCCGACGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACA
TATCTGTGCCGATGCCATGTCATAGACTGGTCTTGCACTGTCACCTCTATATGTGCCGATGCCAT
GTCCCAGACATGGTCTTACACTTGACACATCTTGTTGCTGATGCATGTCCCAGACATGTCTTACA
CTAGCTTACATCTCGAGGCCGATGCATGTCCCAGAAATGTATTACACTAGCTCTCGTCTCAATGT
CAATGCCATATCCCAGTCATGATCTTACACTGGCTCTCATAATGTGGCCAATGCATGTCCCAGAC
ATGTCTTACACTGGCACACAAATAACCCAAATATCATGGCATGAATATTCGATTTATTTCCTAAG
GTTCAAACGGGGTTCTAATATCTCAATATTCATCATACATCATCATTTCCACAATCAAGAAACTT
ATATTATAACAATTCAAACACATATAATACTATGTAGTTATATTATTTACATACAACTTACCTCG
GTAATAAAAAATGTAGGTGGCTAGTCGATTTTAGTCCGCTAGCTTTGATTTTTCCCCGGTCTAGG
CTTGGATTGTGTAATTCTTGGATTG
Found at i:28622492 original size:50 final size:48
Alignment explanation
Indices: 28622424--28622597 Score: 155
Period size: 47 Copynumber: 3.7 Consensus size: 48
28622414 AAAATCGAGT
* * *
28622424 CCGACGCCATGTCCTAGACATGGTCTTACACTAGCTCTCAC-ATATCTGTG
1 CCGATGCCATGTCCTAGACATGGTCTTACACT-G-TCAC-CTATATATGTG
* * *
28622474 CCGATGCCATGTCATAGAC-TGGTCTTGCACTGTCACCTCTATATGTG
1 CCGATGCCATGTCCTAGACATGGTCTTACACTGTCACCTATATATGTG
* * *
28622521 CCGATGCCATGTCCCAGACATGGTCTTACACT-TGACAC-ATCT-TGTTG
1 CCGATGCCATGTCCTAGACATGGTCTTACACTGTCAC-CTATATATG-TG
* *
28622568 CTGATG-CATGTCCCAGACAT-GTCTTACACT
1 CCGATGCCATGTCCTAGACATGGTCTTACACT
28622598 AGCTTACATC
Statistics
Matches: 107, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
45 10 0.09
46 17 0.16
47 39 0.36
48 13 0.12
49 11 0.10
50 17 0.16
ACGTcount: A:0.21, C:0.30, G:0.19, T:0.30
Consensus pattern (48 bp):
CCGATGCCATGTCCTAGACATGGTCTTACACTGTCACCTATATATGTG
Found at i:28622740 original size:46 final size:47
Alignment explanation
Indices: 28622424--28622737 Score: 186
Period size: 46 Copynumber: 6.7 Consensus size: 47
28622414 AAAATCGAGT
* * * *
28622424 CCGACGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCTGTG
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATA-ATGTG-G
** * *
28622474 CCGATGCCATGTCATAGAC-TGGTCTTGCACT-GTCACCTC-TATATGT-G
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTAG-C-TCTCATA-ATGTGG
* * * ** *
28622521 CCGATGCCATGTCCCAGACATGGTCTTACACTTG-ACACATCTTGTTG
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATGTGG
* * *
28622568 CTGATG-CATGTCCCAGACATGTCTTACACTAGCT-TACAT-CTCGAGG
1 CCGATGCCATGTCCCAGACATGTCTTACACTAGCTCT-CATAAT-GTGG
* * *
28622614 CCGATG-CATGTCCCAGAAATGTATTACACTAGCTCTCGTCTCAATGT--
1 CCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTC--AT-AATGTGG
* * * *
28622661 -CAATGCCATATCCCAGTCATGATCTTACACTGGCTCTCATAATGTGG
1 CCGATGCCATGTCCCAGACATG-TCTTACACTAGCTCTCATAATGTGG
*
28622708 CCAATG-CATGTCCCAGACATGTCTTACACT
1 CCGATGCCATGTCCCAGACATGTCTTACACT
28622738 GGCACACAAA
Statistics
Matches: 210, Mismatches: 35, Indels: 42
0.73 0.12 0.15
Matches are distributed among these distances:
45 17 0.08
46 70 0.33
47 51 0.24
48 32 0.15
49 19 0.09
50 21 0.10
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.29
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTGG
Found at i:28623184 original size:47 final size:48
Alignment explanation
Indices: 28623034--28623207 Score: 162
Period size: 47 Copynumber: 3.7 Consensus size: 48
28623024 AAAATCGAGT
* * * * *
28623034 CCGACGCCATGTCCCAGTCATGGTCTTACACTAGCTCTCA-CATATCTGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTTG-TCACATC-TATGT-TG
** * * *
28623084 CCGATGCCATGTCATAGAC-TGGTCTTGCAC-TGTCACCTCTATATGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTTGTCACATCTATGT-TG
*
28623131 CCGATGCCATGTCCCAGACATGGTCTTACACTTGACACATCT-TGTTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTTGTCACATCTATGTTG
*
28623178 CTGATG-CATGTCCCAGACAT-GTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
28623208 AGCTTACATC
Statistics
Matches: 105, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
45 10 0.10
46 14 0.13
47 34 0.32
48 14 0.13
49 18 0.17
50 15 0.14
ACGTcount: A:0.21, C:0.30, G:0.19, T:0.30
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTTGTCACATCTATGTTG
Found at i:28623350 original size:46 final size:47
Alignment explanation
Indices: 28623034--28623347 Score: 179
Period size: 46 Copynumber: 6.7 Consensus size: 47
28623024 AAAATCGAGT
* * * *
28623034 CCGACGCCATGTCCCAGTCATGGTCTTACACTAGCTCTCACATATCTGTG
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATA-ATGTG-G
** * *
28623084 CCGATGCCATGTCATAGAC-TGGTCTTGCACT-GTCACCTC-TATATGT-G
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTAG-C-TCTCATA-ATGTGG
* * * ** *
28623131 CCGATGCCATGTCCCAGACATGGTCTTACACTTG-ACACATCTTGTTG
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATGTGG
* * *
28623178 CTGATG-CATGTCCCAGACATGTCTTACACTAGCT-TACAT-CTCGAGG
1 CCGATGCCATGTCCCAGACATGTCTTACACTAGCTCT-CATAAT-GTGG
* *
28623224 CCGATG-CATGTCCCAGAAATGTATTACACTAGCTCTTGTC-TCAATGT--
1 CCGATGCCATGTCCCAGACATGTCTTACACTAGCTC---TCAT-AATGTGG
* * * *
28623271 -CAATGCCATATCCCAGTCATGATCTTACACTGGCTCTCATAATGTGG
1 CCGATGCCATGTCCCAGACATG-TCTTACACTAGCTCTCATAATGTGG
*
28623318 CCAATG-CATGTCCCAGACATGTCTTACACT
1 CCGATGCCATGTCCCAGACATGTCTTACACT
28623348 GGCACACAAA
Statistics
Matches: 208, Mismatches: 35, Indels: 46
0.72 0.12 0.16
Matches are distributed among these distances:
45 19 0.09
46 69 0.33
47 50 0.24
48 30 0.14
49 20 0.10
50 20 0.10
ACGTcount: A:0.23, C:0.29, G:0.18, T:0.30
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTGG
Found at i:28630541 original size:25 final size:25
Alignment explanation
Indices: 28630500--28630551 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
28630490 TCCCAAAATC
* **
28630500 ACATCAAATTCATCAAATGGCAATA
1 ACATCAAATTCACCAAAAAGCAATA
28630525 ACATCAAA-TCAGCCAAAAAGCAATA
1 ACATCAAATTCA-CCAAAAAGCAATA
28630550 AC
1 AC
28630552 CCTTTACCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 3 0.13
25 20 0.87
ACGTcount: A:0.52, C:0.23, G:0.08, T:0.17
Consensus pattern (25 bp):
ACATCAAATTCACCAAAAAGCAATA
Found at i:28635012 original size:14 final size:14
Alignment explanation
Indices: 28634993--28635019 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
28634983 CAAAATCAAT
28634993 AAAATTTTCTTATC
1 AAAATTTTCTTATC
28635007 AAAATTTTCTTAT
1 AAAATTTTCTTAT
28635020 GACATTCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (14 bp):
AAAATTTTCTTATC
Found at i:28637033 original size:53 final size:53
Alignment explanation
Indices: 28636970--28637129 Score: 189
Period size: 53 Copynumber: 3.0 Consensus size: 53
28636960 GGCACTGAAG
* *
28636970 AAGACCATATCATGTAAGACTGTAATTGGAGGGTTATGGCATCATATGGAAAA
1 AAGACCATATCATGTAAGACTGTAACTGGTGGGTTATGGCATCATATGGAAAA
* * * * * * *
28637023 AAGATCATATCATATAGGACCGTAACTGGTGGGTGATGACATCATAT-GACAAT
1 AAGACCATATCATGTAAGACTGTAACTGGTGGGTTATGGCATCATATGGA-AAA
* *
28637076 AAGACCATAT-AGTGTAAGATTGTAACTGGTGGGTTATAGCATCATATGGAAAA
1 AAGACCATATCA-TGTAAGACTGTAACTGGTGGGTTATGGCATCATATGGAAAA
28637129 A
1 A
28637130 TTTAAGGAAG
Statistics
Matches: 86, Mismatches: 18, Indels: 6
0.78 0.16 0.05
Matches are distributed among these distances:
52 3 0.03
53 81 0.94
54 2 0.02
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.27
Consensus pattern (53 bp):
AAGACCATATCATGTAAGACTGTAACTGGTGGGTTATGGCATCATATGGAAAA
Found at i:28637475 original size:28 final size:28
Alignment explanation
Indices: 28637415--28637482 Score: 113
Period size: 27 Copynumber: 2.5 Consensus size: 28
28637405 TAGTGGATGT
28637415 AAAGGAAAGCCTTCATGGAAAAACTCTG
1 AAAGGAAAGCCTTCATGGAAAAACTCTG
28637443 -AAGGAAAGCCTTCGA-GGAAAAACTCTG
1 AAAGGAAAGCCTTC-ATGGAAAAACTCTG
28637470 AAAGGAAAGCCTT
1 AAAGGAAAGCCTT
28637483 TTTGGTGAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
27 25 0.66
28 13 0.34
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.16
Consensus pattern (28 bp):
AAAGGAAAGCCTTCATGGAAAAACTCTG
Found at i:28637579 original size:61 final size:61
Alignment explanation
Indices: 28637458--28637722 Score: 185
Period size: 61 Copynumber: 4.3 Consensus size: 61
28637448 AAGCCTTCGA
* * * * * ** *
28637458 GGAAAAACTCTGAA-AGGAAAGCCTTTTTGGTGAGTATTGAACATAAAAGACTGGCC-TTGT
1 GGAAAAACTTTGAACAAGAAAGCCTTTGTGGTGAGTACTAAATGTAAAAGAAT-GCCTTTGT
* * *
28637518 GGCAAAACTCTT-AACAAGAATGCCTTTGTGGTGAGTACTAAATGTAAAGGAATGCCTTTGT
1 GGAAAAACT-TTGAACAAGAAAGCCTTTGTGGTGAGTACTAAATGTAAAAGAATGCCTTTGT
* * * * * * * *
28637579 GGAAAAACTTTGGATAGGAAAACCTTTTTGGTGAGTACTTAATGTAAATGAATGCCGTTGT
1 GGAAAAACTTTGAACAAGAAAGCCTTTGTGGTGAGTACTAAATGTAAAAGAATGCCTTTGT
* * * * * * * ** **
28637640 GAAAAAAAGTTTGGATAGGAAAGCATTTGTGGTGAGTATTGTATGTAAAAGAACACCTTTGT
1 G-GAAAAACTTTGAACAAGAAAGCCTTTGTGGTGAGTACTAAATGTAAAAGAATGCCTTTGT
* * *
28637702 GGCAAAACTCTAAACAAGAAA
1 GGAAAAACTTTGAACAAGAAA
28637723 AGCTATAACA
Statistics
Matches: 159, Mismatches: 41, Indels: 9
0.76 0.20 0.04
Matches are distributed among these distances:
60 15 0.09
61 95 0.60
62 49 0.31
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (61 bp):
GGAAAAACTTTGAACAAGAAAGCCTTTGTGGTGAGTACTAAATGTAAAAGAATGCCTTTGT
Found at i:28637702 original size:62 final size:60
Alignment explanation
Indices: 28637542--28637702 Score: 178
Period size: 62 Copynumber: 2.6 Consensus size: 60
28637532 CAAGAATGCC
* * * *
28637542 TTTGTGGTGAGTACTAAATGTAAAGGAATGCCTTTGTGGAAAAACTTTGGATAGGAAAACC
1 TTTGTGGTGAGTA-TTAATGTAAAAGAATGCCTTTGTGAAAAAACTTTGGATAGGAAAACA
* * * * *
28637603 TTTTTGGTGAGTACTTAATGTAAATGAATGCCGTTGTGAAAAAAAGTTTGGATAGGAAAGCA
1 TTTGTGGTGAGTA-TTAATGTAAAAGAATGCCTTTGTG-AAAAAACTTTGGATAGGAAAACA
* **
28637665 TTTGTGGTGAGTATTGTATGTAAAAGAACACCTTTGTG
1 TTTGTGGTGAGTATT-AATGTAAAAGAATGCCTTTGTG
28637703 GCAAAACTCT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
61 36 0.43
62 48 0.57
ACGTcount: A:0.33, C:0.08, G:0.26, T:0.33
Consensus pattern (60 bp):
TTTGTGGTGAGTATTAATGTAAAAGAATGCCTTTGTGAAAAAACTTTGGATAGGAAAACA
Found at i:28641809 original size:43 final size:43
Alignment explanation
Indices: 28641754--28641970 Score: 251
Period size: 43 Copynumber: 5.0 Consensus size: 43
28641744 ATATCGTACA
* * * ** *
28641754 ATGCCAATGTCCCAGACGTGGCCTTACATGTAACCTTATATCA
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
*
28641797 ATGCC-ACTGTCCCAGACAG-GGTCTTAC-TCGTAAACACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACAT-GTAATCACATATCG
* * * *
28641840 ATGCCAACATCCCAAACATGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
* *
28641883 ATACCAACGTCCCAGACCTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
**
28641926 ATGCCAACGTCCCAGACGTGGTCTTACACATAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
28641969 AT
1 AT
28641971 ATCACATATA
Statistics
Matches: 148, Mismatches: 20, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
42 2 0.01
43 143 0.97
44 3 0.02
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCG
Found at i:28643122 original size:54 final size:54
Alignment explanation
Indices: 28643064--28643176 Score: 127
Period size: 54 Copynumber: 2.1 Consensus size: 54
28643054 TACTGAAATG
** *
28643064 CCCTCAAATTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTA
1 CCCTCAAATTACAAAATTACCAAAGTACCCTCGATTTACAGAATTACCATTTTA
* * **** * *
28643118 CCCTCGACTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTATCGTTTTA
1 CCCTCAAATTACAAAATTACCAAAGTACCCTCGATTTACAGAATTACCATTTTA
28643172 CCCTC
1 CCCTC
28643177 GATTTATAGA
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (54 bp):
CCCTCAAATTACAAAATTACCAAAGTACCCTCGATTTACAGAATTACCATTTTA
Found at i:28643244 original size:81 final size:81
Alignment explanation
Indices: 28643089--28643244 Score: 222
Period size: 81 Copynumber: 1.9 Consensus size: 81
28643079 ATTACCAAAG
*
28643089 TACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCGTTTTACCATCGATT
* *
28643154 TACAGAATTATCGTTT
66 TAAAAAATTATCGTTT
*** * * * *
28643170 TACCCTCGATTTATAGAATTATTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCATCGATT
1 TACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCGTTTTACCATCGATT
28643235 TAAAAAATTA
66 TAAAAAATTA
28643245 CTAAAATACC
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCGTTTTACCATCGATT
TAAAAAATTATCGTTT
Found at i:28643246 original size:27 final size:27
Alignment explanation
Indices: 28643089--28643246 Score: 192
Period size: 27 Copynumber: 5.9 Consensus size: 27
28643079 ATTACCAAAG
* **
28643089 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
28643116 TACCCTCGACTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
28643143 TACCCTCGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
* *
28643170 TACCCTCGATTTATAGAATTATTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
28643197 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
28643224 TACCATCGATTTAAAAAATTACT
1 TACCCTCGATTTACAGAATTACT
28643247 AAAATACCCT
Statistics
Matches: 114, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
27 113 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:28643255 original size:54 final size:54
Alignment explanation
Indices: 28643076--28643272 Score: 171
Period size: 54 Copynumber: 3.6 Consensus size: 54
28643066 CTCAAATTGT
* * ** * *
28643076 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTAC
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTAA
*** *
28643130 AAAATTACCGTTTTACCCTCGATTTACAGAATTA-TCGTTTTACCCTCGATTTAT
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACT-GTTTTACCCTCGATTTAA
* ***** * *
28643184 AGAATTATTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCATCGATTTAA
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTAA
* * * * *
28643238 AAAATTACTAAAATACCCTTGGTTTACAAAATTAC
1 AAAATTACCAAATTACCCTCGATTTACAGAATTAC
28643273 CAAAATACCC
Statistics
Matches: 118, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
54 117 0.99
55 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.38
Consensus pattern (54 bp):
AAAATTACCAAATTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTAA
Found at i:28643255 original size:81 final size:81
Alignment explanation
Indices: 28643076--28643274 Score: 204
Period size: 81 Copynumber: 2.5 Consensus size: 81
28643066 CTCAAATTGT
* *
28643076 AAAATTACCAAAGTACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCGT
1 AAAATTACTAAAATACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCGT
* *
28643141 TTTACCCTCGATTTAC
66 TTTACCATCGATTTAA
* ** *** * * * *
28643157 AGAATTATCGT--TTTACCCTCGATTTATAGAATTATTGTTTTACCCTTGATTTACAGAATTACT
1 AAAATTA-C-TAAAATACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACC
28643220 GTTTTACCATCGATTTAA
64 GTTTTACCATCGATTTAA
* * * *
28643238 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCA
1 AAAATTACTAAAATACCCTCGATTTATAGAATTACCA
28643275 AAATACCCTC
Statistics
Matches: 91, Mismatches: 23, Indels: 8
0.75 0.19 0.07
Matches are distributed among these distances:
79 1 0.01
80 1 0.01
81 88 0.97
82 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.37
Consensus pattern (81 bp):
AAAATTACTAAAATACCCTCGATTTATAGAATTACCATTTTACCCTCGACTTACAAAATTACCGT
TTTACCATCGATTTAA
Found at i:28643341 original size:80 final size:81
Alignment explanation
Indices: 28643238--28643415 Score: 225
Period size: 80 Copynumber: 2.2 Consensus size: 81
28643228 ATCGATTTAA
*
28643238 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAAATTACCA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCC-CGAGTCAGTAAAATTACCA
*
28643302 AAATGCC-CTGGTCTGT
65 AAATACCACTGGTCTGT
* ** * **
28643318 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
*
28643383 AATACCACTGGTTTGT
66 AATACCACTGGTCTGT
* **
28643399 GAAATTACCGAAATACC
1 AAAATTACTAAAATACC
28643416 TTCAATTTGT
Statistics
Matches: 83, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 60 0.72
81 21 0.25
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
AATACCACTGGTCTGT
Found at i:28643437 original size:81 final size:81
Alignment explanation
Indices: 28643238--28643446 Score: 217
Period size: 80 Copynumber: 2.6 Consensus size: 81
28643228 ATCGATTTAA
* * ** ** *
28643238 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGATCAGTAAAATTACCA
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGATCAGTAAAATTACCA
*
28643302 AAATGCCCTGGTCTGT
66 AAATACCCTGGTCTGT
* * ** **
28643318 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACCA
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGATCAGTAAAATTACCA
*
28643382 AAATACCACTGGTTTGT
66 AAATACC-CTGGTCTGT
* * *
28643399 GAAATTACCGAAATA-CCTTCAATTTGTAAAATTACCAAAATACCCCTA
1 AAAATTACCAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTA
28643447 ATTTACAAAG
Statistics
Matches: 110, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
80 60 0.55
81 50 0.45
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.29
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGATCAGTAAAATTACCA
AAATACCCTGGTCTGT
Found at i:28643450 original size:27 final size:27
Alignment explanation
Indices: 28643238--28643445 Score: 215
Period size: 27 Copynumber: 7.7 Consensus size: 27
28643228 ATCGATTTAA
* * **
28643238 AAAATTACTAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCCTGGTTTGT
* **
28643265 AAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
* *
28643292 AAAATTACCAAAAT-GCCCTGGTCTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
28643318 AAAATTGCTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
28643345 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
28643372 AAAATTACCAAAATACCACTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * **
28643399 GAAATTACCGAAATA-CCTTCAATTTGT
1 AAAATTACCAAAATACCCCT-GGTTTGT
28643426 AAAATTACCAAAATACCCCT
1 AAAATTACCAAAATACCCCT
28643446 AATTTACAAA
Statistics
Matches: 149, Mismatches: 27, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
26 22 0.15
27 124 0.83
28 3 0.02
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:28643466 original size:54 final size:54
Alignment explanation
Indices: 28643367--28643469 Score: 127
Period size: 54 Copynumber: 1.9 Consensus size: 54
28643357 ATACCCCTAG
** ** *
28643367 TTTGTAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCTTCAA
1 TTTGTAAAATTACCAAAATACCACTAATTTGACAAATTACAGAAATACCTTCAA
* *
28643421 TTTGTAAAATTACCAAAATACCCCTAATTT-ACAAAGTTATAGAAATACC
1 TTTGTAAAATTACCAAAATACCACTAATTTGACAAA-TTACAGAAATACC
28643470 CTTGACTTTC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
53 3 0.07
54 38 0.93
ACGTcount: A:0.42, C:0.18, G:0.09, T:0.31
Consensus pattern (54 bp):
TTTGTAAAATTACCAAAATACCACTAATTTGACAAATTACAGAAATACCTTCAA
Found at i:28643521 original size:27 final size:27
Alignment explanation
Indices: 28643448--28643533 Score: 86
Period size: 27 Copynumber: 3.1 Consensus size: 27
28643438 ATACCCCTAA
* * *
28643448 TTTACAAAGTTATAGAAATACCCTTGAC
1 TTTACAAAATTATAGAAATACCATTG-G
28643476 TTT-CTAAAAATTATAGAAATACCATTGG
1 TTTAC--AAAATTATAGAAATACCATTGG
*
28643504 TTTACAAAATTACT-GAAATACCCTTGG
1 TTTACAAAATTA-TAGAAATACCATTGG
28643531 TTT
1 TTT
28643534 GTAGATTTAC
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
27 23 0.46
28 7 0.14
29 20 0.40
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTATAGAAATACCATTGG
Found at i:28643608 original size:27 final size:27
Alignment explanation
Indices: 28643587--28643678 Score: 141
Period size: 27 Copynumber: 3.4 Consensus size: 27
28643577 ACCCCTATTA
*
28643587 GGTAAAGTGACTGTAAAGCCCCTGTAG
1 GGTAAAGTGACCGTAAAGCCCCTGTAG
28643614 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAGTGACCGTAAAGCCCCTGTAG
*
28643641 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAGTGACCGTAA-AGCCCCTGTAG
*
28643668 GGTAAAATGAC
1 GGTAAAGTGAC
28643679 GAATATGCCC
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
27 60 0.98
28 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (27 bp):
GGTAAAGTGACCGTAAAGCCCCTGTAG
Found at i:28644569 original size:24 final size:25
Alignment explanation
Indices: 28644487--28644580 Score: 163
Period size: 25 Copynumber: 3.8 Consensus size: 25
28644477 AGGAGGTGCT
*
28644487 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
28644512 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
28644537 AAAAGGGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTACCG
28644561 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
28644581 ATTAAAAGAG
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
24 20 0.30
25 47 0.70
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:28644593 original size:24 final size:24
Alignment explanation
Indices: 28644487--28644616 Score: 136
Period size: 25 Copynumber: 5.2 Consensus size: 24
28644477 AGGAGGTGCT
* *
28644487 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTA-TG
*
28644512 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTA-TG
*
28644537 AAAAGGGCTTTGCCCCAGTTTATC
1 AAAAGGGCTTTGCCCCAGTTTATG
*
28644561 AAAAGGGCTTTGCCCCAG-TTATT
1 AAAAGGGCTTTGCCCCAGTTTATG
**
28644584 AAAAGAGGCTAGGCCTCCAGTTATATG
1 AAAAG-GGCTTTGCC-CCAGTT-TATG
28644611 ATAAAG
1 A-AAAG
28644617 CAGCTATGTT
Statistics
Matches: 93, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
23 9 0.10
24 25 0.27
25 50 0.54
26 1 0.01
27 4 0.04
28 4 0.04
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTATG
Found at i:28644604 original size:49 final size:50
Alignment explanation
Indices: 28644485--28644605 Score: 158
Period size: 49 Copynumber: 2.4 Consensus size: 50
28644475 GGAGGAGGTG
28644485 CTAAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTAC
1 CTAAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTAC
* * *
28644535 CGAAAAGGGCTTTGCCCCAGTTTATC-AAAAGGGCTTTGCCCCAG-TTA-
1 CTAAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTAC
* *
28644582 TTAAAAGAGGCTAGGCCTCCAGTT
1 CTAAAAG-GGCTATGCC-CCAGTT
28644606 ATATGATAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
47 5 0.08
48 10 0.16
49 24 0.39
50 23 0.37
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (50 bp):
CTAAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTAC
Found at i:28644808 original size:43 final size:42
Alignment explanation
Indices: 28644728--28644820 Score: 141
Period size: 43 Copynumber: 2.2 Consensus size: 42
28644718 TAGTCTCCCC
* ** *
28644728 AAATGGGCTTGCATATATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
28644770 AAATGGGCTTGCATACATTCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATT-CATTGACATTACATGTGATATTG
28644813 AAATGGGC
1 AAATGGGC
28644821 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 18 0.39
43 28 0.61
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.37
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:28648778 original size:16 final size:16
Alignment explanation
Indices: 28648759--28648790 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
28648749 AATTGTTTTA
28648759 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
28648775 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
28648791 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:28649055 original size:50 final size:50
Alignment explanation
Indices: 28648994--28649433 Score: 476
Period size: 50 Copynumber: 8.8 Consensus size: 50
28648984 AAGCTCTCTA
* * *
28648994 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTG
* * * *
28649044 GTACACGTAGTAGCCTGCACTTAGTACTACATACGTGACTTAACCATCTG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTG
* ** * *
28649094 ATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA-CGG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAATCTG
*** * *
28649145 GTACGTATAGTAGCCTGCACTTAGCACTACACATGTGACCTATCAATCTG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTG
* * * * *
28649195 GAACACGTAGTAGCCTGTACTTAGTACTACACACGTGACTTAACCATCTG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTG
* ** * *
28649245 ATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA-CGG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAATCTG
* * * **
28649296 GTGCGCATAGTAG-CTGCACTTAGTACTACACATATGACCTATCAATCTG
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTG
* *
28649345 GTACACGTAGTAGCTTGCACTTAGTACTACACATACG-G-CCTATCAATTTG
1 GTACACGTAGTAGCCTGCACTTAGTACTACAC--ACGTGACCTATCAATCTG
*
28649395 GTACACGCAGTAGCCTGCACTTAGTACTACACACGTGAC
1 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGAC
28649434 TCATAATGGA
Statistics
Matches: 316, Mismatches: 63, Indels: 22
0.79 0.16 0.05
Matches are distributed among these distances:
48 6 0.02
49 18 0.06
50 239 0.76
51 50 0.16
52 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (50 bp):
GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAATCTG
Found at i:28649183 original size:101 final size:101
Alignment explanation
Indices: 28649051--28649232 Score: 285
Period size: 101 Copynumber: 1.8 Consensus size: 101
28649041 CTGGTACACG
* * * *
28649051 TAGTAGCCTGCACTTAGTACTACATACGTGACTTAACCATCT-GATACACGTAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGCACTACACACGTGACCTAACAATCTGGA-ACACGTAGTAGCCTGCACT
28649115 TAGTACTACACACGTGATCGAAGTTAACGGGTACGTA
65 TAGTACTACACACGTGATCGAAGTTAACGGGTACGTA
* * *
28649152 TAGTAGCCTGCACTTAGCACTACACATGTGACCTATCAATCTGGAACACGTAGTAGCCTGTACTT
1 TAGTAGCCTGCACTTAGCACTACACACGTGACCTAACAATCTGGAACACGTAGTAGCCTGCACTT
28649217 AGTACTACACACGTGA
66 AGTACTACACACGTGA
28649233 CTTAACCATC
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
101 71 0.97
102 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTGCACTTAGCACTACACACGTGACCTAACAATCTGGAACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATCGAAGTTAACGGGTACGTA
Done.