Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 69 of 325
Found at i:21482485 original size:26 final size:26
Alignment explanation
Indices: 21482454--21482561 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
21482444 TGAAATGCCC
* *
21482454 ATCATGGAACATTTACCTAAACCATT
1 ATCACGGAACATTTACCTAACCCATT
*
21482480 ATCATGGAACATTTACCTAACCCATT
1 ATCACGGAACATTTACCTAACCCATT
* * *
21482506 ATCACGGAATATTTACCTAATCTATT
1 ATCACGGAACATTTACCTAACCCATT
21482532 ATCACGGAACATTTACCTAACCCATT
1 ATCACGGAACATTTACCTAACCCATT
21482558 ATCA
1 ATCA
21482562 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCACGGAACATTTACCTAACCCATT
Found at i:21489486 original size:26 final size:26
Alignment explanation
Indices: 21489455--21489562 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
21489445 TGAAATGCCC
*
21489455 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
21489481 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
21489507 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
21489533 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
21489559 ATCA
1 ATCA
21489563 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:21493597 original size:40 final size:40
Alignment explanation
Indices: 21493518--21493723 Score: 308
Period size: 40 Copynumber: 5.2 Consensus size: 40
21493508 AACCCAAGTA
* * * *
21493518 CCTTCGGAATTTAG-CCGGATATAG-CAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
21493557 CCTTCGGGACTTAGCCCGGACATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
21493597 CCTTTGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
21493637 CCTTCGGAACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
21493677 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
21493717 CCTTCGG
1 CCTTCGG
21493724 ATCTTAGTCC
Statistics
Matches: 154, Mismatches: 11, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 12 0.08
40 141 0.92
41 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:21507797 original size:40 final size:40
Alignment explanation
Indices: 21507718--21507923 Score: 299
Period size: 40 Copynumber: 5.2 Consensus size: 40
21507708 AACCCAAGTA
* * * *
21507718 CCTTCGGAATTTAG-CCGGATATAG-CAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
21507757 CCTTCGGGACTTAGCCCGGACATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
21507797 CCTTTGGGACTAAGCCCAGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
21507837 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
21507877 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
21507917 CCTTCGG
1 CCTTCGG
21507924 ATCTTAGTCC
Statistics
Matches: 152, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 12 0.08
40 139 0.91
41 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:21513877 original size:26 final size:26
Alignment explanation
Indices: 21513846--21513953 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
21513836 TGAAATGTCC
*
21513846 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
21513872 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
21513898 ATCATAGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
21513924 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
21513950 ATCA
1 ATCA
21513954 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:21516692 original size:46 final size:46
Alignment explanation
Indices: 21516636--21516754 Score: 150
Period size: 46 Copynumber: 2.6 Consensus size: 46
21516626 TATTGTCTGG
* ** *
21516636 TCACTCATTAAGGTTGAACCTACATGAATCGGATAACAGTGTCTAT
1 TCACCCATTAAGGTTGAACCTACACAAATCGGATAACAGTGCCTAT
* *
21516682 TCACCCATTAAAGTTGAACCTACACAAATCGGATAATAGTGCCTAT
1 TCACCCATTAAGGTTGAACCTACACAAATCGGATAACAGTGCCTAT
* * *
21516728 TCA-CCGTTAGGGTTGAACTTACACAAA
1 TCACCCATTAAGGTTGAACCTACACAAA
21516755 AAATAGCCTA
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
45 20 0.32
46 43 0.68
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (46 bp):
TCACCCATTAAGGTTGAACCTACACAAATCGGATAACAGTGCCTAT
Found at i:21520700 original size:6 final size:6
Alignment explanation
Indices: 21520689--21520715 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
21520679 AAACTCAATG
21520689 TCCATA TCCATA TCCATA TCCATA TCC
1 TCCATA TCCATA TCCATA TCCATA TCC
21520716 GCACACTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.30, C:0.37, G:0.00, T:0.33
Consensus pattern (6 bp):
TCCATA
Found at i:21520788 original size:3 final size:3
Alignment explanation
Indices: 21520780--21520810 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
21520770 ATGCTTTCTA
21520780 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
21520811 GTTAACAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:21524229 original size:3 final size:3
Alignment explanation
Indices: 21524216--21524266 Score: 93
Period size: 3 Copynumber: 16.7 Consensus size: 3
21524206 AATTTTATGC
21524216 AAT ATAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
21524262 AAT AA
1 AAT AA
21524267 AACATTAATT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:21527842 original size:43 final size:41
Alignment explanation
Indices: 21527742--21527881 Score: 149
Period size: 43 Copynumber: 3.3 Consensus size: 41
21527732 TATGGGATGT
*
21527742 TGGCATCG-ATTTGAGATTTACGTGTAAGACCATGTCTGGAACA
1 TGGCATCGTATTT--GA-TTACGTGTAAGACCATGTCTGGGACA
**
21527785 TCGGCATCGTATTTGATTTTGTGTAAGA-CACTGTCTGGGACA
1 T-GGCATCGTATTTGATTACGTGTAAGACCA-TGTCTGGGACA
*
21527827 GTGGCATCGATATTTGATTACATGTAAGACCATGTCTGGGACA
1 -TGGCATCG-TATTTGATTACGTGTAAGACCATGTCTGGGACA
*
21527870 TTGGCATTGTAT
1 -TGGCATCGTAT
21527882 GAGCTTTCCG
Statistics
Matches: 83, Mismatches: 8, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
41 2 0.02
42 30 0.36
43 38 0.46
44 9 0.11
45 4 0.05
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.34
Consensus pattern (41 bp):
TGGCATCGTATTTGATTACGTGTAAGACCATGTCTGGGACA
Found at i:21534358 original size:32 final size:32
Alignment explanation
Indices: 21534321--21534387 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
21534311 GCTTTGTGAT
21534321 GATAGTTGATGAAAAATGAAAGATATGTGTTA
1 GATAGTTGATGAAAAATGAAAGATATGTGTTA
21534353 GATAGTTGATGAAAAATGAAAGATATGTGTTA
1 GATAGTTGATGAAAAATGAAAGATATGTGTTA
21534385 GAT
1 GAT
21534388 TACTATGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.43, C:0.00, G:0.25, T:0.31
Consensus pattern (32 bp):
GATAGTTGATGAAAAATGAAAGATATGTGTTA
Found at i:21535076 original size:42 final size:43
Alignment explanation
Indices: 21534963--21535101 Score: 151
Period size: 42 Copynumber: 3.2 Consensus size: 43
21534953 TAGGATTCCT
* * * *
21534963 ATATGTGATTTCATGTAAGACCACGTTTGGAAC-GTTGGCATCG
1 ATATTTGATTTCGTGTAAGACCATGTTTGGGACAG-TGGCATCG
* *
21535006 AT-TTGAGATTTATGTGTAAGACCATGTTTGGGACA-TCGGCATC-
1 ATATT-TGATTT-CGTGTAAGACCATGTTTGGGACAGT-GGCATCG
*
21535049 ATATTTGATTTCGTGTAAGACCCTGTTTGGGACAGTGGCATCG
1 ATATTTGATTTCGTGTAAGACCATGTTTGGGACAGTGGCATCG
21535092 ATATTTGATT
1 ATATTTGATT
21535102 ACATATAAGA
Statistics
Matches: 80, Mismatches: 9, Indels: 14
0.78 0.09 0.14
Matches are distributed among these distances:
42 28 0.35
43 26 0.32
44 26 0.32
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.36
Consensus pattern (43 bp):
ATATTTGATTTCGTGTAAGACCATGTTTGGGACAGTGGCATCG
Found at i:21535111 original size:43 final size:42
Alignment explanation
Indices: 21535022--21535114 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 42
21535012 GATTTATGTG
* * *
21535022 TAAGACCATGTTTGGGACATCGGCATCATATTTGATTTCGTG
1 TAAGACCATGTTTGGGACATCGGCATCATATTTGATTACATA
*
21535064 TAAGACCCTGTTTGGGACAGT-GGCATCGATATTTGATTACATA
1 TAAGACCATGTTTGGGACA-TCGGCATC-ATATTTGATTACATA
21535107 TAAGACCA
1 TAAGACCA
21535115 CGTCTTGGAC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
42 24 0.55
43 20 0.45
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (42 bp):
TAAGACCATGTTTGGGACATCGGCATCATATTTGATTACATA
Found at i:21535131 original size:43 final size:43
Alignment explanation
Indices: 21534963--21535132 Score: 150
Period size: 43 Copynumber: 4.0 Consensus size: 43
21534953 TAGGATTCCT
* * * *
21534963 ATATGTGATTTCATGTAAGACCACGTTTGGAACGTTGGCATCG
1 ATATTTGATTACATGTAAGACCACGTTTGGGACATTGGCATCG
* ** * *
21535006 AT-TTGAGATTTATGTGTAAGACCATGTTTGGGACATCGGCATC-
1 ATATT-TGA-TTACATGTAAGACCACGTTTGGGACATTGGCATCG
* * *
21535049 ATATTTGATTTCGTGTAAGACC-CTGTTTGGGACAGTGGCATCG
1 ATATTTGATTACATGTAAGACCAC-GTTTGGGACATTGGCATCG
* *
21535092 ATATTTGATTACATATAAGACCACGTCTT-GGACTTTGGCAT
1 ATATTTGATTACATGTAAGACCACGT-TTGGGACATTGGCAT
21535133 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
42 29 0.29
43 39 0.39
44 32 0.32
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.35
Consensus pattern (43 bp):
ATATTTGATTACATGTAAGACCACGTTTGGGACATTGGCATCG
Found at i:21537827 original size:28 final size:28
Alignment explanation
Indices: 21537794--21537857 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
21537784 GCCATTGGCT
21537794 CGTGTCCCTCACACGGCCACGACACGCC
1 CGTGTCCCTCACACGGCCACGACACGCC
*
21537822 CGTGTCCCTCACACGGCCACGACACGCT
1 CGTGTCCCTCACACGGCCACGACACGCC
21537850 CGTG-CCCT
1 CGTGTCCCT
21537858 AGCCCGTGTC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 4 0.11
28 31 0.89
ACGTcount: A:0.16, C:0.48, G:0.22, T:0.14
Consensus pattern (28 bp):
CGTGTCCCTCACACGGCCACGACACGCC
Found at i:21538818 original size:47 final size:45
Alignment explanation
Indices: 21538749--21539018 Score: 197
Period size: 47 Copynumber: 5.8 Consensus size: 45
21538739 GGTAAGGTGA
* *
21538749 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCATATCTCAAGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCATATCTCAAGC
* * * *
21538796 CGATGCCATGTCCTAGACATGGTCTTACAGTGACT-ATCATCTCGTAGC
1 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCAT-ATCTC-AAGC
* * ** *
21538844 CGATGCATGTCCCAGACATGTCTTACACTAGCTTACGTCTCGAGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCATATCTC-AAGC
* * * *
21538890 CAATGCATGTCCCAAACATGTCTTACACTAGCTC-TCATTTCAATGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCAT-ATCTCAA-GC
* * * ** *
21538936 CGATGCCATGTCCTAGACATGATTTTATACTGGCTCCCA--TAAAGTTAC
1 CGATG-CATGTCCCAGACATG-TCTTACACTGGCTCATATCTCAAG---C
21538984 CGATGCATGTCCCAGACATGTCTTACACTGGCTCA
1 CGATGCATGTCCCAGACATGTCTTACACTGGCTCA
21539019 CATAAGTGAC
Statistics
Matches: 181, Mismatches: 31, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
45 2 0.01
46 75 0.41
47 79 0.44
48 25 0.14
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.29
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCTCATATCTCAAGC
Found at i:21560038 original size:62 final size:59
Alignment explanation
Indices: 21559969--21560085 Score: 153
Period size: 62 Copynumber: 1.9 Consensus size: 59
21559959 AATGATTATC
** * * *
21559969 TTAATATTAAATTTAATTTAATTTTTATCTTGTAGATAAATATTCTATTATTTTAATACGAT
1 TTAATATTAAATTTAATCAAATATTTATC---TAGATAAATATTATATTAATTTAATACGAT
*
21560031 TTAATATTAAATTTAATCAAATATTTATCTCGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCAAATATTTATCTAGATAAATATTATATTAATTTAATA
21560086 TTAAAATTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 23 0.47
62 26 0.53
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTTAATCAAATATTTATCTAGATAAATATTATATTAATTTAATACGAT
Found at i:21564651 original size:35 final size:34
Alignment explanation
Indices: 21564612--21564756 Score: 137
Period size: 35 Copynumber: 4.1 Consensus size: 34
21564602 TAGGTATGTA
*
21564612 CATATGTGATGTTATATCTAACTTGTATATTCGGC
1 CATATGTGATGATATAT-TAACTTGTATATTCGGC
* * **
21564647 CATATGTGATGATATATTGAATTTGTAAATTTAGC
1 CATATGTGATGATATATT-AACTTGTATATTCGGC
* * * * *
21564682 TACATGTGATGTTCTATCTAACTTGTATATTCGTC
1 CATATGTGATGATATAT-TAACTTGTATATTCGGC
* *
21564717 CATATGTGATGATATAATGAACCTTGTATATTTGGC
1 CATATGTGATGATAT-ATTAA-CTTGTATATTCGGC
21564753 CATA
1 CATA
21564757 CATGTAAGTA
Statistics
Matches: 85, Mismatches: 21, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
34 1 0.01
35 65 0.76
36 19 0.22
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (34 bp):
CATATGTGATGATATATTAACTTGTATATTCGGC
Found at i:21564814 original size:50 final size:50
Alignment explanation
Indices: 21564719--21564847 Score: 132
Period size: 50 Copynumber: 2.5 Consensus size: 50
21564709 TATTCGTCCA
* * * * *
21564719 TATGTGATGATATAATGAACCTTGTATATTTGGCCATACATGTAAGTATT
1 TATGTGATGATATATTGGACCTTGTGTATTCGGCCATACAGGTAAGTATT
* ** *
21564769 TATGAGATGATATATTGGACCTTGTGTATTCGGTTATATAGGTAAGTATT
1 TATGTGATGATATATTGGACCTTGTGTATTCGGCCATACAGGTAAGTATT
* * *
21564819 TAAGTGGTGTTATATATTGGACTTTGTGT
1 TATGTGATG--ATATATTGGACCTTGTGT
21564848 TAAAGTATAA
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
50 47 0.73
52 17 0.27
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (50 bp):
TATGTGATGATATATTGGACCTTGTGTATTCGGCCATACAGGTAAGTATT
Found at i:21572035 original size:122 final size:120
Alignment explanation
Indices: 21571820--21572044 Score: 378
Period size: 122 Copynumber: 1.9 Consensus size: 120
21571810 CCAAAATAAC
*
21571820 CATGAGAATAAGAATAGTAATGTAATGGGTATGAGGTTTTCCTAATCTCGATTGAACACGAAATG
1 CATGAGAATAAGAATAGTAATGTAATGGGTATGAGGTTTCCCTAATCTCGATTGAACACGAAATG
21571885 TATGATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAG
66 TATGATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAG
* * * *
21571940 CATGAGAATAAGCATAGTAATGTCATGGGTTTGAGGTTTCCCTAATAACTCGATTTAACACGAAA
1 CATGAGAATAAGAATAGTAATGTAATGGGTATGAGGTTTCCCTAAT--CTCGATTGAACACGAAA
*
21572005 TGTGTGATAACTAACCTAAGAATGCAAATTAAATGATAGA
64 TGTATGATAACTAACCTAAGAATGCAAATTAAATGATAGA
21572045 ATAATGAGCA
Statistics
Matches: 97, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
120 42 0.43
122 55 0.57
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (120 bp):
CATGAGAATAAGAATAGTAATGTAATGGGTATGAGGTTTCCCTAATCTCGATTGAACACGAAATG
TATGATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAG
Found at i:21577268 original size:20 final size:20
Alignment explanation
Indices: 21577240--21577280 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
21577230 AAAATAAGAT
*
21577240 ACACAAGGTCGATTTGATCA
1 ACACAAGGTCAATTTGATCA
*
21577260 ACACGAGGTCAATTTGATCA
1 ACACAAGGTCAATTTGATCA
21577280 A
1 A
21577281 ATAAATCGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (20 bp):
ACACAAGGTCAATTTGATCA
Found at i:21579304 original size:35 final size:35
Alignment explanation
Indices: 21579176--21579320 Score: 121
Period size: 35 Copynumber: 4.1 Consensus size: 35
21579166 TAGGTATGTA
* * * *
21579176 CATATGTGATGTTATATCTAACTTGTATTTTCGAC
1 CATATGTGATGATATATCGAACTTGTATATTCGGC
* * * *
21579211 CATATGTGATGATATATTGAATTTGTAAATTTGGC
1 CATATGTGATGATATATCGAACTTGTATATTCGGC
* * * * * *
21579246 TACATGTGATGTTCTCTCTAACTTGTATATTCGGC
1 CATATGTGATGATATATCGAACTTGTATATTCGGC
* *
21579281 CATATGTGATGATATAAT-GAACTTTGTGTATTCGTC
1 CATATGTGATGATAT-ATCGAAC-TTGTATATTCGGC
21579317 CATA
1 CATA
21579321 CATGTAAGTA
Statistics
Matches: 82, Mismatches: 26, Indels: 3
0.74 0.23 0.03
Matches are distributed among these distances:
35 66 0.80
36 16 0.20
ACGTcount: A:0.27, C:0.13, G:0.17, T:0.43
Consensus pattern (35 bp):
CATATGTGATGATATATCGAACTTGTATATTCGGC
Found at i:21586995 original size:20 final size:20
Alignment explanation
Indices: 21586970--21587032 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
21586960 TGATGATTGG
21586970 GTTAGTTGACGTGGATTTAT
1 GTTAGTTGACGTGGATTTAT
* *
21586990 GTTAGTT-A--TTG-TTAAT
1 GTTAGTTGACGTGGATTTAT
*
21587006 TTTAGTTGACGTGGATTTAT
1 GTTAGTTGACGTGGATTTAT
21587026 GTTAGTT
1 GTTAGTT
21587033 ATTGTTAATT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 10 0.30
17 3 0.09
19 3 0.09
20 17 0.52
ACGTcount: A:0.21, C:0.03, G:0.25, T:0.51
Consensus pattern (20 bp):
GTTAGTTGACGTGGATTTAT
Found at i:21587018 original size:36 final size:36
Alignment explanation
Indices: 21586971--21587042 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
21586961 GATGATTGGG
21586971 TTAGTTGACGTGGATTTATGTTAGTTATTGTTAATT
1 TTAGTTGACGTGGATTTATGTTAGTTATTGTTAATT
21587007 TTAGTTGACGTGGATTTATGTTAGTTATTGTTAATT
1 TTAGTTGACGTGGATTTATGTTAGTTATTGTTAATT
21587043 CATAAGTCTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.03, G:0.22, T:0.53
Consensus pattern (36 bp):
TTAGTTGACGTGGATTTATGTTAGTTATTGTTAATT
Found at i:21587703 original size:29 final size:30
Alignment explanation
Indices: 21587659--21587715 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
21587649 CTTGCTGTAA
* *
21587659 TCTGGTGGCTTCGCCAC-ATATATATATGT
1 TCTGGTGGCCTAGCCACAATATATATATGT
*
21587688 TCTGGTGGCCTAGCCACAATATCTATAT
1 TCTGGTGGCCTAGCCACAATATATATAT
21587716 CTGGTGACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (30 bp):
TCTGGTGGCCTAGCCACAATATATATATGT
Found at i:21607793 original size:57 final size:58
Alignment explanation
Indices: 21607732--21607840 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 58
21607722 TCTTGTTTCC
* * *
21607732 AACATATGCTCATA-AGAGCTTA-ATCAGGATTACCCGTCTGGGCTAAATCCTATCCAT
1 AACATATACTCA-AGAGAGCTTATATCAGGATTACCAGTCTAGGCTAAATCCTATCCAT
* *
21607789 AACATATACTCAAGAGGGCTTATATTAGGATTACCAGTCTAGGCTAAATCCT
1 AACATATACTCAAGAGAGCTTATATCAGGATTACCAGTCTAGGCTAAATCCT
21607841 TTCTGTAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
56 1 0.02
57 18 0.40
58 26 0.58
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (58 bp):
AACATATACTCAAGAGAGCTTATATCAGGATTACCAGTCTAGGCTAAATCCTATCCAT
Found at i:21610809 original size:20 final size:19
Alignment explanation
Indices: 21610781--21610821 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
21610771 AGTTTAATTA
*
21610781 AACTTAATTAATCTAGTTT
1 AACTTAATTAATCAAGTTT
21610800 AACTTAAATTAATCAAGTTT
1 AACTT-AATTAATCAAGTTT
21610820 AA
1 AA
21610822 TTATGATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (19 bp):
AACTTAATTAATCAAGTTT
Found at i:21614280 original size:40 final size:40
Alignment explanation
Indices: 21614187--21614330 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
21614177 TACTCGAATG
*
21614187 ATAT-CGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
21614227 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
21614267 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
21614307 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
21614331 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 1 0.01
40 65 0.71
41 24 0.26
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:21622291 original size:40 final size:39
Alignment explanation
Indices: 21622168--21622310 Score: 164
Period size: 40 Copynumber: 3.6 Consensus size: 39
21622158 TACTCGAATG
*
21622168 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTT-TGCT-AGCGACT
* * *
21622209 ACATCCAGACTAAGAT-CCGAAGGCA-TTTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTTGCTAGCGACT
* *
21622247 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTT-TGCTAGCGACT
* *
21622287 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
21622311 CTTGTGCGAG
Statistics
Matches: 87, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
37 1 0.01
38 27 0.31
39 6 0.07
40 33 0.38
41 19 0.22
42 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTTGCTAGCGACT
Found at i:21622329 original size:79 final size:79
Alignment explanation
Indices: 21622168--21622346 Score: 191
Period size: 79 Copynumber: 2.3 Consensus size: 79
21622158 TACTCGAATG
* * * *
21622168 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACTACATCCAGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAAGCGACCACATCCAGACTAAGACCCGAAGGC
*
21622233 ATTTGCTAGCGACT
66 ATTTGCGAGCGACT
* * * **
21622247 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCT-AGTGACCATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAAGCGACCACATCCAGACTAAGACCCGAAGGC
* * **
21622311 CTTGTGCGAGTGGTT
66 ATT-TGCGAGCGACT
**
21622326 ATATCC-GGCTAAACCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
21622347 ATGCTTGATT
Statistics
Matches: 83, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
78 39 0.47
79 44 0.53
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (79 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAAGCGACCACATCCAGACTAAGACCCGAAGGC
ATTTGCGAGCGACT
Found at i:21624932 original size:42 final size:42
Alignment explanation
Indices: 21624852--21624935 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
21624842 CTTTTTTTTC
*
21624852 ATATCGACATAAGATATTTTCCTATTTGAGGCTAATTTTAAT
1 ATATCGACATAAGATATTTTCCTATCTGAGGCTAATTTTAAT
* * *
21624894 ATATCGACATAAGATATTTTCCTATCTGTGGTTGATTTTAAT
1 ATATCGACATAAGATATTTTCCTATCTGAGGCTAATTTTAAT
21624936 CTTCCTCTGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.31, C:0.12, G:0.13, T:0.44
Consensus pattern (42 bp):
ATATCGACATAAGATATTTTCCTATCTGAGGCTAATTTTAAT
Found at i:21629455 original size:32 final size:32
Alignment explanation
Indices: 21629414--21629478 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
21629404 AAATTTAATG
21629414 TAAGTGTAAAGATAAAAATGATTAAACCTTCC
1 TAAGTGTAAAGATAAAAATGATTAAACCTTCC
21629446 TAAGTGTAAAGATAAAAATGATTAAACCTTCC
1 TAAGTGTAAAGATAAAAATGATTAAACCTTCC
21629478 T
1 T
21629479 TGGTGCTAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.46, C:0.12, G:0.12, T:0.29
Consensus pattern (32 bp):
TAAGTGTAAAGATAAAAATGATTAAACCTTCC
Found at i:21637253 original size:23 final size:23
Alignment explanation
Indices: 21637227--21637271 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
21637217 TGGGTATGTG
*
21637227 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
21637250 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
21637272 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:21638685 original size:13 final size:13
Alignment explanation
Indices: 21638669--21638708 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
21638659 GTAAAAGTTA
21638669 CAAAAGTAAGTCT
1 CAAAAGTAAGTCT
21638682 CAAAAGTAAGTCT
1 CAAAAGTAAGTCT
21638695 CAAAAGTAAGTCT
1 CAAAAGTAAGTCT
21638708 C
1 C
21638709 TATTAGTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (13 bp):
CAAAAGTAAGTCT
Found at i:21642737 original size:22 final size:23
Alignment explanation
Indices: 21642698--21642740 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
21642688 GAAGTCCTAC
*
21642698 CCATCCATCCTCTACACTCCACT
1 CCATCCAGCCTCTACACTCCACT
21642721 CCATCCAGCC-CTACACTCCA
1 CCATCCAGCCTCTACACTCCA
21642741 TGTGGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.23, C:0.53, G:0.02, T:0.21
Consensus pattern (23 bp):
CCATCCAGCCTCTACACTCCACT
Found at i:21644835 original size:46 final size:45
Alignment explanation
Indices: 21644763--21644938 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 45
21644753 TATTTGGGCA
21644763 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
21644809 TCCGAACTCGTTGAGTTGAGTTCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
21644856 TCC-AAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACG
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
21644902 CCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21644939 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 65 0.62
47 29 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:21644918 original size:93 final size:93
Alignment explanation
Indices: 21644759--21644930 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
21644749 AGGATATTTG
* * * *
21644759 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
*
21644824 TTGAGTTCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
*
21644852 GGCATCC-AAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGA
1 GGCATCCGAA-CTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCATTGA
21644916 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
21644931 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:21647763 original size:14 final size:15
Alignment explanation
Indices: 21647687--21647765 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
21647677 GTATCTTGGG
*
21647687 TTTCTTTATGCTGGA
1 TTTCTTTATTCTGGA
*
21647702 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
21647717 TTTCTTTATTCTGGG
1 TTTCTTTATTCTGGA
*
21647732 TTTC--TCTTCTTGGA
1 TTTCTTTATTC-TGGA
*
21647746 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
21647760 TTTCTT
1 TTTCTT
21647766 ATTATATTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
13 4 0.08
14 15 0.28
15 30 0.57
16 4 0.08
ACGTcount: A:0.09, C:0.16, G:0.15, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:21650207 original size:46 final size:45
Alignment explanation
Indices: 21650148--21650320 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 45
21650138 TATTTGGGCA
21650148 TCCGAAC-CTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTC-GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * *
21650194 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGA--GAGTGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTA-TG-GA-T-GCGAAG
* *
21650240 TCCGAGCT--TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA-AG
* *
21650284 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21650321 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 9, Indels: 26
0.75 0.06 0.19
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 2 0.02
44 28 0.27
45 2 0.02
46 63 0.60
47 3 0.03
48 3 0.03
49 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:21650311 original size:90 final size:92
Alignment explanation
Indices: 21650144--21650312 Score: 279
Period size: 90 Copynumber: 1.9 Consensus size: 92
21650134 AGGATATTTG
* *
21650144 GGCATCCGAACCTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACCTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
21650209 TTGAGTCCGAGTTCGAGAGTGTAACTA
66 TTGAGTCCGAGTTCGAGAGTGTAACTA
* * *
21650236 GGCATCCG-AGCT-TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGCCCGAGCTCGTTGAG
1 GGCATCCGAACCTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
21650299 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
21650313 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
90 61 0.85
91 3 0.04
92 8 0.11
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (92 bp):
GGCATCCGAACCTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGTGTAACTA
Found at i:21654225 original size:40 final size:40
Alignment explanation
Indices: 21654169--21654303 Score: 159
Period size: 40 Copynumber: 3.4 Consensus size: 40
21654159 ATGGTAACCA
* *
21654169 GGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTA-ATTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATA-TCCG
*
21654209 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCG
* * *
21654249 AGCTAATTCCCGAAGGCATTTGAGCGAGT-AGCTATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGA-CTATATCCG
* *
21654288 GGCTAAATCTCGAAGG
1 GGCTAAGTCCCGAAGG
21654304 TACTTGGTTT
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 14 0.17
40 69 0.82
41 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCG
Found at i:21658149 original size:30 final size:30
Alignment explanation
Indices: 21658115--21658179 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
21658105 ACCCCTCCAC
* *
21658115 AAAACGTCTGTAATACCCTGCCAAACCCAA
1 AAAACGTCTATAATACCCTACCAAACCCAA
*
21658145 AAAACGTCTATAATACCCTACCAAACCCAG
1 AAAACGTCTATAATACCCTACCAAACCCAA
21658175 AAAAC
1 AAAAC
21658180 TTTGAATCTC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.45, C:0.32, G:0.08, T:0.15
Consensus pattern (30 bp):
AAAACGTCTATAATACCCTACCAAACCCAA
Found at i:21661378 original size:6 final size:6
Alignment explanation
Indices: 21661367--21661391 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
21661357 CCCATTACAA
21661367 TATCAG TATCAG TATCAG TATCAG T
1 TATCAG TATCAG TATCAG TATCAG T
21661392 GATGGGCCTT
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:0.16, G:0.16, T:0.36
Consensus pattern (6 bp):
TATCAG
Found at i:21667335 original size:40 final size:40
Alignment explanation
Indices: 21667280--21667457 Score: 288
Period size: 40 Copynumber: 4.5 Consensus size: 40
21667270 CGAATGATAA
21667280 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
21667320 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
21667360 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
21667400 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
21667440 CC-AGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
21667458 TACTTGGTTT
Statistics
Matches: 131, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 16 0.12
40 115 0.88
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:21671597 original size:23 final size:22
Alignment explanation
Indices: 21671545--21671597 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
21671535 TCCACGTCTT
*
21671545 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
21671567 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
21671590 TTTCTTTT
1 TTTCTTTT
21671598 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:21676606 original size:29 final size:30
Alignment explanation
Indices: 21676573--21676629 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
21676563 TCAAGCCTAG
*
21676573 GGGCAAAA-TGTAATTCTGCAAAGGTTTAA
1 GGGCAAAATTGTAATTCTGCAAAAGTTTAA
*
21676602 GGGCAAAATTGTAATTTTGCAAAAGTTT
1 GGGCAAAATTGTAATTCTGCAAAAGTTT
21676630 GAGTTAGGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.32
Consensus pattern (30 bp):
GGGCAAAATTGTAATTCTGCAAAAGTTTAA
Found at i:21677517 original size:54 final size:53
Alignment explanation
Indices: 21677442--21677650 Score: 204
Period size: 53 Copynumber: 3.9 Consensus size: 53
21677432 TTGGTAAGAT
* *
21677442 AAGGATATCATGTAAGACCATGCCAAGGCATGGCAATGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGATAAGTTC-ATAAGGC
* * * * * * *
21677496 AAGGAAATCATGTAAGCCCATGTCAAGACATGGCATTGATGAGTTACAATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGATAAGTT-C-ATAAGG-C
* * * * * *
21677552 AAGG-TCCCATGTAAGACCATGCCAAGGCTTGGCATTGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGATAAGTTCATAAGGC
* ** *
21677604 AAGGATACCACGTAAGACCATATCAAGACATGGCAATGGTAAGTTCA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGATAAGTTCA
21677651 AAAAGGAAAA
Statistics
Matches: 127, Mismatches: 25, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
52 4 0.03
53 40 0.31
54 40 0.31
55 39 0.31
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGATAAGTTCATAAGGC
Found at i:21677565 original size:55 final size:54
Alignment explanation
Indices: 21677450--21677663 Score: 191
Period size: 55 Copynumber: 4.0 Consensus size: 54
21677440 ATAAGGATAT
* * * * * * * * *
21677450 CATGTAAGACCATGCCAAGGCATGGCAATGATAAGTTCTATAAGG-CAAGGAAAT
1 CATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTCAATAAGGAAAAGG-TAC
* * *
21677504 CATGTAAGCCCATGTCAAGACATGGCATTGATGAGTTACAATAAGGAAAAGGTCC
1 CATGTAAGACCATGTCAAGACATGGCATTGGTGAGTT-CAATAAGGAAAAGGTAC
* * * *
21677559 CATGTAAGACCATGCCAAGGCTTGGCATTGGTGAGTTC-ATAAGG-CAAGGATAC
1 CATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTCAATAAGGAAAAGG-TAC
* * * * *
21677612 CACGTAAGACCATATCAAGACATGGCAATGGTAAGTTCAAAAAGGAAAAGGT
1 CATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTCAATAAGGAAAAGGT
21677664 TCCCGAGTAA
Statistics
Matches: 129, Mismatches: 26, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
52 4 0.03
53 39 0.30
54 39 0.30
55 43 0.33
56 4 0.03
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (54 bp):
CATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTCAATAAGGAAAAGGTAC
Found at i:21683268 original size:30 final size:31
Alignment explanation
Indices: 21683227--21683284 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
21683217 TTTTCGAGCC
21683227 TAGGGGAAAAATTGTAATTCTG-CAAAGGTT
1 TAGGGGAAAAATTGTAATTCTGCCAAAGGTT
* *
21683257 TAGGGGCAAAATTGTAATTTTGCCAAAG
1 TAGGGGAAAAATTGTAATTCTGCCAAAG
21683285 TTTGGGTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.36, C:0.09, G:0.26, T:0.29
Consensus pattern (31 bp):
TAGGGGAAAAATTGTAATTCTGCCAAAGGTT
Found at i:21684216 original size:55 final size:53
Alignment explanation
Indices: 21684087--21684283 Score: 216
Period size: 54 Copynumber: 3.7 Consensus size: 53
21684077 TTGGTAAGAT
* * * * * * *
21684087 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTACAAAGT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTC-ATAAGGC
* * *
21684141 AAGGAAATCATGTAAGACCATGTCAATACATGGCATTGATGAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTT-C-ATAAGGC
* * * *
21684196 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCATAAGGC
*
21684249 AAGGATACCACGTAAGACCATGTCAAGACATGGCA
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCA
21684284 ATGGTAAGTT
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
52 4 0.03
53 33 0.27
54 41 0.34
55 39 0.32
56 4 0.03
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTCATAAGGC
Found at i:21700132 original size:20 final size:20
Alignment explanation
Indices: 21700109--21700146 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
21700099 AAATAGTAGC
21700109 TCATCCACATAAACAGTACT
1 TCATCCACATAAACAGTACT
*
21700129 TCATCCATATAAACAGTA
1 TCATCCACATAAACAGTA
21700147 TTTATGCCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.26, G:0.05, T:0.26
Consensus pattern (20 bp):
TCATCCACATAAACAGTACT
Found at i:21700337 original size:24 final size:24
Alignment explanation
Indices: 21700299--21700395 Score: 99
Period size: 24 Copynumber: 4.1 Consensus size: 24
21700289 AAGCTCTATT
* * *
21700299 GAGCT-AAAACGGTAAACTCTGAC
1 GAGCTGAAAACAGTAAGCTCTTAC
*
21700322 GAGCTGAAAACAGTAAGCTCTTAT
1 GAGCTGAAAACAGTAAGCTCTTAC
* * * **
21700346 AAGCAG-AAATAGTAAGCTCCAAC
1 GAGCTGAAAACAGTAAGCTCTTAC
21700369 GAGCTGAAAACAGTAAGCTCTTAC
1 GAGCTGAAAACAGTAAGCTCTTAC
21700393 GAG
1 GAG
21700396 ATGATATATC
Statistics
Matches: 57, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
23 22 0.39
24 35 0.61
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.19
Consensus pattern (24 bp):
GAGCTGAAAACAGTAAGCTCTTAC
Found at i:21705903 original size:12 final size:12
Alignment explanation
Indices: 21705886--21705910 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21705876 CCATTCCGAA
21705886 ATATATATACAT
1 ATATATATACAT
21705898 ATATATATACAT
1 ATATATATACAT
21705910 A
1 A
21705911 AGTATGCCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATATATATACAT
Found at i:21706396 original size:28 final size:28
Alignment explanation
Indices: 21706356--21706438 Score: 93
Period size: 28 Copynumber: 3.0 Consensus size: 28
21706346 ATCATGAGAT
21706356 TGGCACTAAGTGTGCGAGGTTGATTATA
1 TGGCACTAAGTGTGCGAGGTTGATTATA
*
21706384 TGGCACTAAGTGTGCGA-GTTCGACTAT-
1 TGGCACTAAGTGTGCGAGGTT-GATTATA
*
21706411 TAAGCACTAAGTGTGC-AGGCTT-ATTATA
1 T-GGCACTAAGTGTGCGAGG-TTGATTATA
21706439 CATTCTCTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
27 9 0.19
28 36 0.77
29 2 0.04
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGGTTGATTATA
Found at i:21707928 original size:19 final size:19
Alignment explanation
Indices: 21707904--21707952 Score: 63
Period size: 14 Copynumber: 2.8 Consensus size: 19
21707894 TCACCTATCA
21707904 TGTTTTGTAAGTATGCAAT
1 TGTTTTGTAAGTATGCAAT
21707923 TG-TTT-T--GTA-GCAAT
1 TGTTTTGTAAGTATGCAAT
21707937 TGTTTTGTAAGTATGC
1 TGTTTTGTAAGTATGC
21707953 GATTATATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
14 7 0.28
15 6 0.24
16 1 0.04
17 1 0.04
18 6 0.24
19 4 0.16
ACGTcount: A:0.22, C:0.06, G:0.22, T:0.49
Consensus pattern (19 bp):
TGTTTTGTAAGTATGCAAT
Found at i:21711651 original size:27 final size:27
Alignment explanation
Indices: 21711581--21711653 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 27
21711571 TCTCATCCCT
* *
21711581 ATTTTATCCCT-ATCAAAATTTTGACG
1 ATTTTACCCCTGATCAAATTTTTGACG
*
21711607 ATTTTACCCTTGAT-AAATTTTTGACG
1 ATTTTACCCCTGATCAAATTTTTGACG
*
21711633 ATTTTACCCCTGGTCAAATTT
1 ATTTTACCCCTGATCAAATTT
21711654 CAAGAAAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
26 32 0.80
27 8 0.20
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.44
Consensus pattern (27 bp):
ATTTTACCCCTGATCAAATTTTTGACG
Found at i:21713565 original size:31 final size:31
Alignment explanation
Indices: 21713507--21713566 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
21713497 AATAAATTTA
* * *
21713507 TAAAAACACATATTAAAAATTTTAATAATAT
1 TAAAAACACATATAAAAAAATTCAATAATAT
21713538 TAAAAA-ACATATAAAAAGAATTCAATAAT
1 TAAAAACACATATAAAAA-AATTCAATAAT
21713567 GTTTCTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.30
Consensus pattern (31 bp):
TAAAAACACATATAAAAAAATTCAATAATAT
Found at i:21714408 original size:18 final size:19
Alignment explanation
Indices: 21714375--21714412 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
21714365 GAAATTTCTT
*
21714375 ATTCGAGTTGACTCAAATA
1 ATTCGAGTTAACTCAAATA
21714394 ATTCGAG-TAACTCAAATA
1 ATTCGAGTTAACTCAAATA
21714412 A
1 A
21714413 CTCAATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (19 bp):
ATTCGAGTTAACTCAAATA
Found at i:21724645 original size:91 final size:90
Alignment explanation
Indices: 21724483--21724647 Score: 206
Period size: 91 Copynumber: 1.8 Consensus size: 90
21724473 ACACTCCAGT
* * * * **
21724483 TTGTGGATAAACCACCAGAATTGGAGGTTAATACGTTGCCAGCAATTGTGAATACACAATGGATT
1 TTGTGGATAAACCACAAGAATTGCAAGTTAATACGCTGCCAGCAATTGTGAATACACAATCAATT
21724548 TACAGATAATAGCTGCCAGTATAAG
66 TACAGATAATAGCTGCCAGTATAAG
** * *
21724573 TTGTGGATAAACCACAAGTGTTTGCAAGTTAATATGCTGCCAGTAATTGTGAATACACAA-CAAC
1 TTGTGGATAAACCACAAG-AATTGCAAGTTAATACGCTGCCAGCAATTGTGAATACACAATCAA-
*
21724637 TTTGCAGATAA
64 TTTACAGATAA
21724648 AATGTAACAG
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
90 18 0.29
91 44 0.71
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.28
Consensus pattern (90 bp):
TTGTGGATAAACCACAAGAATTGCAAGTTAATACGCTGCCAGCAATTGTGAATACACAATCAATT
TACAGATAATAGCTGCCAGTATAAG
Found at i:21725150 original size:30 final size:31
Alignment explanation
Indices: 21725115--21725181 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
21725105 GATATAGGGG
*
21725115 ACACACGA-CCGTGTCACCTGGCCGTATGTC
1 ACACACGAGCCGTGTCACCTAGCCGTATGTC
* * * *
21725145 ACACAC-AGCTGTGTCACTTAGCCGTGTGTG
1 ACACACGAGCCGTGTCACCTAGCCGTATGTC
21725175 ACACACG
1 ACACACG
21725182 GCTGAGATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
29 1 0.03
30 29 0.97
ACGTcount: A:0.22, C:0.33, G:0.24, T:0.21
Consensus pattern (31 bp):
ACACACGAGCCGTGTCACCTAGCCGTATGTC
Found at i:21726371 original size:25 final size:25
Alignment explanation
Indices: 21726343--21726406 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
21726333 ATGAGCTATA
* *
21726343 AACGGTAAGCTCTTCCAAGTTAAAT
1 AACGGTAAGCTCATCCAAGCTAAAT
**
21726368 AACGGTAAGCTCATCTGAGCTAAAT
1 AACGGTAAGCTCATCCAAGCTAAAT
*
21726393 AACGGAAAGCTCAT
1 AACGGTAAGCTCAT
21726407 AAGAGCTGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (25 bp):
AACGGTAAGCTCATCCAAGCTAAAT
Found at i:21726412 original size:25 final size:25
Alignment explanation
Indices: 21726363--21726418 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
21726353 TCTTCCAAGT
* **
21726363 TAAATAACGGTAAGCTCATCTGAGC
1 TAAATAACGGAAAGCTCATAAGAGC
21726388 TAAATAACGGAAAGCTCATAAGAGC
1 TAAATAACGGAAAGCTCATAAGAGC
21726413 TGAAAT
1 T-AAAT
21726419 CGATATCCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.21
Consensus pattern (25 bp):
TAAATAACGGAAAGCTCATAAGAGC
Found at i:21734249 original size:14 final size:14
Alignment explanation
Indices: 21734230--21734279 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
21734220 TATACGTGGC
21734230 ATTATTTATAATAT
1 ATTATTTATAATAT
* *
21734244 ATTATTTTTAA-AC
1 ATTATTTATAATAT
*
21734257 ATATATTTATATTAT
1 AT-TATTTATAATAT
21734272 A-TATTTAT
1 ATTATTTAT
21734280 GATTTCCACA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
13 10 0.34
14 17 0.59
15 2 0.07
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTATTTATAATAT
Found at i:21734749 original size:28 final size:29
Alignment explanation
Indices: 21734717--21734784 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 29
21734707 ATTTATTTGT
21734717 TTAGGATTTAGGAA-TTTTAAAAAATAAA
1 TTAGGATTTAGGAATTTTTAAAAAATAAA
* *
21734745 TTAGGGGTTTA-AAATTTTTTAAAAAATAAA
1 TTA-GGATTTAGGAA-TTTTTAAAAAATAAA
21734775 TTA--ATTTAGG
1 TTAGGATTTAGG
21734785 TTTTAGCAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
27 4 0.12
28 5 0.16
29 6 0.19
30 17 0.53
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.40
Consensus pattern (29 bp):
TTAGGATTTAGGAATTTTTAAAAAATAAA
Found at i:21735071 original size:34 final size:34
Alignment explanation
Indices: 21735028--21735107 Score: 115
Period size: 34 Copynumber: 2.4 Consensus size: 34
21735018 GCCCCTGGGT
*
21735028 TTTAGGGTTTTTAAGTAAATTAATTAAATTAAGG
1 TTTAGGGTTTTTAAGAAAATTAATTAAATTAAGG
* *
21735062 TTTATGGTTTTTAAGAAAATTAATTAAATTAGGG
1 TTTAGGGTTTTTAAGAAAATTAATTAAATTAAGG
* *
21735096 CTTAGAGTTTTT
1 TTTAGGGTTTTT
21735108 TAAATATGAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.35, C:0.01, G:0.17, T:0.46
Consensus pattern (34 bp):
TTTAGGGTTTTTAAGAAAATTAATTAAATTAAGG
Found at i:21735525 original size:126 final size:127
Alignment explanation
Indices: 21735204--21735597 Score: 507
Period size: 126 Copynumber: 3.1 Consensus size: 127
21735194 TTTGTTTGTT
* * * * *
21735204 TTTTTTTATAGTAGTTTCTGAAAAAATAATTTTGAGAAA-ACGGTTCTAAAAAAATAATGTCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAACATGGTTCTGAAAAAATAATGTCAAA
* * * * *
21735268 AACGCTTCAAGCAGTATGCACTGTCAGC-AAA-TACTGAAAAAAGCTCTCATGTAGATGCTC
66 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCTCACGTGGACGCTC
* * * *
21735328 TTTTTCTACTGTAATTCTTG-AAAAA-AATTTTGAGAAGAC-T-GTTCTGAAAAAATAATGTAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAA-ACATGGTTCTGAAAAAATAATGTCAA
* *
21735389 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCCC
65 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCTCACGTGGACGCTC
* *
21735452 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGA-AAACATGGTTTTGAAAAAATAGTGTCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAACATGGTTCTGAAAAAATAATGTCAAA
* * * *
21735516 AACGCTTCAAGCAGGGTGCACTATTAGTAAAATTACTGAAAAAAAGCTCTCACGTGGACGCTC
66 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AAAAAAAGCTCTCACGTGGACGCTC
*
21735579 TTTTTCTATAGTAGTTCCT
1 TTTTTCTACAGTAGTTCCT
21735598 ACTTGGCCTT
Statistics
Matches: 232, Mismatches: 29, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
122 58 0.25
123 9 0.04
124 56 0.24
125 8 0.03
126 60 0.26
127 41 0.18
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (127 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAACATGGTTCTGAAAAAATAATGTCAAA
AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCTCACGTGGACGCTC
Found at i:21742114 original size:11 final size:10
Alignment explanation
Indices: 21742083--21742130 Score: 51
Period size: 11 Copynumber: 4.6 Consensus size: 10
21742073 CACAAATTGG
21742083 TTTTTTTCTT
1 TTTTTTTCTT
*
21742093 TTTTTAGTCTT
1 TTTTT-TTCTT
21742104 TTTTGTTTCTT
1 TTTT-TTTCTT
* *
21742115 TTTTTCTGTT
1 TTTTTTTCTT
21742125 TTTTTT
1 TTTTTT
21742131 CTATCAGAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
10 14 0.45
11 16 0.52
12 1 0.03
ACGTcount: A:0.02, C:0.08, G:0.06, T:0.83
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:21743006 original size:11 final size:11
Alignment explanation
Indices: 21742990--21743014 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
21742980 ATATCTAGAA
21742990 TTCTCTTCATT
1 TTCTCTTCATT
21743001 TTCTCTTCATT
1 TTCTCTTCATT
21743012 TTC
1 TTC
21743015 ATCAGCTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.28, G:0.00, T:0.64
Consensus pattern (11 bp):
TTCTCTTCATT
Found at i:21748335 original size:86 final size:86
Alignment explanation
Indices: 21748190--21748357 Score: 302
Period size: 86 Copynumber: 2.0 Consensus size: 86
21748180 ACGGATACGG
*
21748190 ATTCAAGCGCGTTGAAATGAATTTATTCTCCTATTTAAAGATTTAAAAAGAATTATCAATAATAC
1 ATTCAAGCGCATTGAAATGAATTTATTCTCCTATTTAAAGATTTAAAAAGAATTATCAATAATAC
21748255 TAGACATTATATTAAAAATGA
66 TAGACATTATATTAAAAATGA
*
21748276 ATTCAAGCGCATTGAAATTG-ATTTATTTTCCTATTTAAAGATTTAAAAAGAATTATCAATAATA
1 ATTCAAGCGCATTGAAA-TGAATTTATTCTCCTATTTAAAGATTTAAAAAGAATTATCAATAATA
21748340 CTAGACATTATATTAAAA
65 CTAGACATTATATTAAAA
21748358 TAATAATAAA
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
86 77 0.97
87 2 0.03
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.36
Consensus pattern (86 bp):
ATTCAAGCGCATTGAAATGAATTTATTCTCCTATTTAAAGATTTAAAAAGAATTATCAATAATAC
TAGACATTATATTAAAAATGA
Found at i:21749883 original size:20 final size:20
Alignment explanation
Indices: 21749855--21749893 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21749845 AGGCCAAAAT
21749855 AAAAATTGACATACATTTTC
1 AAAAATTGACATACATTTTC
* *
21749875 AAAATTTGACATTCATTTT
1 AAAAATTGACATACATTTT
21749894 TACTTTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.41
Consensus pattern (20 bp):
AAAAATTGACATACATTTTC
Found at i:21756222 original size:35 final size:35
Alignment explanation
Indices: 21756176--21756336 Score: 197
Period size: 35 Copynumber: 4.7 Consensus size: 35
21756166 GATTTTTCTC
* * *
21756176 ATGGAAAATACCATACGTATGTTTCATAACACAGT
1 ATGGAAAATACCATACCTACGTTTCATAACTCAGT
* *
21756211 ATGGAAAATACCATACCTACGTTTCACAACTCGGT
1 ATGGAAAATACCATACCTACGTTTCATAACTCAGT
* *
21756246 ATGGAAAATACCATACCTACGTATCATAGCTCAGT
1 ATGGAAAATACCATACCTACGTTTCATAACTCAGT
* * *
21756281 ATGGAAGATACCATACCTA----TCATAGCTGAGT
1 ATGGAAAATACCATACCTACGTTTCATAACTCAGT
21756312 ATGG-AAATACCATACCTACGTTTCA
1 ATGGAAAATACCATACCTACGTTTCA
21756337 CATTTTTCCA
Statistics
Matches: 110, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
30 13 0.12
31 15 0.14
34 3 0.03
35 79 0.72
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.27
Consensus pattern (35 bp):
ATGGAAAATACCATACCTACGTTTCATAACTCAGT
Found at i:21766343 original size:6 final size:6
Alignment explanation
Indices: 21766334--21766360 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
21766324 CATCATTTCG
21766334 TCAGTA TCAGTA TCAGTA TCAGTA TCA
1 TCAGTA TCAGTA TCAGTA TCAGTA TCA
21766361 AATTAAAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (6 bp):
TCAGTA
Found at i:21777457 original size:264 final size:264
Alignment explanation
Indices: 21776750--21777537 Score: 1158
Period size: 264 Copynumber: 3.0 Consensus size: 264
21776740 GTTGGTCGAC
* * * *
21776750 TGTCTCCTAGGATAAAACAACGAGACAAGCA-TGATAATAGCACAGCTATAGTGATCAACGAACT
1 TGTCTCCTAGGATACAACAACGAGACGAGCACAG-TAGTAGCACAGCTATAGTGATCAACGAACT
* * * *
21776814 ATAGCCTAGCTTTCTTCTATCACCGAAAATAGGTTCGAAATATGTAAGGAAAATATCT-AGAAAT
65 GTAGCCTAGCTTTCTTCTATCACCGAAAACAGGTTTGAAATATGTAGGGAAAATATCTCA-AAAT
* * * ** *
21776878 TTTTACAGGAAAAATAGAGAAAAATCCAGTGTGTA--TTCTCCTGCAAATTATTTC-GATTTAAA
129 ATTTGCAGGAAAAATAGAGAAAAGTCCTCTGTGTATTTTCTCCTGCAGATTATTTCAG-TTTAAA
*
21776940 TAAAATATTCAAAATGAAGGAACTTTTGGAAAATTTGACTAATAGAGCCATTAACGTCTGTGAAT
193 TAAAATATTCAAAATGAAGGAACTTTTGGAAATTTTGACTAATAGAGCCATTAACGTCTGTGAAT
*
21777005 TAAGGAG
258 TAAGGAA
* * * **
21777012 TGTCTCCCAGGATACAACAATGAGACGAGCACAGTAGTAGCA-TGCTGCAGTGATCAACGAACTG
1 TGTCTCCTAGGATACAACAACGAGACGAGCACAGTAGTAGCACAGCTATAGTGATCAACGAACTG
* * * *
21777076 TAGCCCAGCTTTTTTCTATCACCGAAAACAGGTTTGAAATATGCAGGGAAAAGATCTCAAAATAT
66 TAGCCTAGCTTTCTTCTATCACCGAAAACAGGTTTGAAATATGTAGGGAAAATATCTCAAAATAT
* * *
21777141 TTGCAGGAAAAATAGAG-AAAGATCCTCTGTGTATTTTCACATGTAGATTATTTCAGTTTAAATA
131 TTGCAGGAAAAATAGAGAAAAG-TCCTCTGTGTATTTTCTCCTGCAGATTATTTCAGTTTAAATA
* * **
21777205 AAATATTCAAAATGAAAGAACTTTTGGAAATTTTGACTAATGGAGCCATTAATTTCTGTGAATTA
195 AAATATTCAAAATGAAGGAACTTTTGGAAATTTTGACTAATAGAGCCATTAACGTCTGTGAATTA
21777270 AGGAA
260 AGGAA
* *
21777275 TGTCTCCTAGGATACAACAACGAGACGAGCACAGCAGTAGCACGGCTATAGTGATCAACGAACTG
1 TGTCTCCTAGGATACAACAACGAGACGAGCACAGTAGTAGCACAGCTATAGTGATCAACGAACTG
*
21777340 TAGCCTAGCTTTCTTCTATCACCAAAAACAGGTTTGAAATATGTAGGGAAAATATCTCAAAATAT
66 TAGCCTAGCTTTCTTCTATCACCGAAAACAGGTTTGAAATATGTAGGGAAAATATCTCAAAATAT
21777405 TTGCAGGAAAAATAGAGAAAAGTCCTCTGTGTATTTTCTCCTGCAGATTATTTCAGTTTAAATAA
131 TTGCAGGAAAAATAGAGAAAAGTCCTCTGTGTATTTTCTCCTGCAGATTATTTCAGTTTAAATAA
* *
21777470 AATATTCAAAATGGAGGAACTTTTGGAAATTTTGACTAATAGAGCCATTAACGTCAGTGAATTAA
196 AATATTCAAAATGAAGGAACTTTTGGAAATTTTGACTAATAGAGCCATTAACGTCTGTGAATTAA
21777535 GGA
261 GGA
21777538 GCCATTAAAA
Statistics
Matches: 466, Mismatches: 52, Indels: 14
0.88 0.10 0.03
Matches are distributed among these distances:
260 3 0.01
261 98 0.21
262 35 0.08
263 127 0.27
264 199 0.43
265 4 0.01
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.28
Consensus pattern (264 bp):
TGTCTCCTAGGATACAACAACGAGACGAGCACAGTAGTAGCACAGCTATAGTGATCAACGAACTG
TAGCCTAGCTTTCTTCTATCACCGAAAACAGGTTTGAAATATGTAGGGAAAATATCTCAAAATAT
TTGCAGGAAAAATAGAGAAAAGTCCTCTGTGTATTTTCTCCTGCAGATTATTTCAGTTTAAATAA
AATATTCAAAATGAAGGAACTTTTGGAAATTTTGACTAATAGAGCCATTAACGTCTGTGAATTAA
GGAA
Found at i:21780920 original size:27 final size:27
Alignment explanation
Indices: 21780872--21780976 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 27
21780862 GCGAGGCTGC
** * *
21780872 CAGATATTGTTACAAAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
*
21780899 CAGATATTGTGGCAGAGCCACCAG-GA
1 CAGATATTGTGGCAGAGCCACCAGATA
21780925 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
21780952 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
21780977 GACGCTTCCT
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
26 8 0.12
27 58 0.85
28 2 0.03
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:21784099 original size:58 final size:56
Alignment explanation
Indices: 21784037--21784215 Score: 223
Period size: 57 Copynumber: 3.1 Consensus size: 56
21784027 AGAAATGGTG
* *
21784037 AAAATGGAGAAATGGGAAACATTTGGAAATGATTATGGTTTTCTCAAAAATGAAAATA
1 AAAATGGAGAAAT--GAAACATTTGGAAATGATTATGATTTTCTCCAAAATGAAAATA
* * * *
21784095 AAAATAGATAAATGAAATCATTTGGAAATGATTATGATTTTCTCCAACATGAAAATG
1 AAAATGGAGAAATGAAA-CATTTGGAAATGATTATGATTTTCTCCAAAATGAAAATA
* * *
21784152 AAAATGGAGAAATTGAATCATTTGGAAATGAATGTGATTTTCCTCCAAAATGAAAATGA
1 AAAATGGAGAAA-TGAAACATTTGGAAATGATTATGATTTT-CTCCAAAATGAAAAT-A
21784211 AAAAT
1 AAAAT
21784216 AAAAATTACC
Statistics
Matches: 104, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
56 4 0.04
57 66 0.63
58 29 0.28
59 5 0.05
ACGTcount: A:0.46, C:0.07, G:0.17, T:0.29
Consensus pattern (56 bp):
AAAATGGAGAAATGAAACATTTGGAAATGATTATGATTTTCTCCAAAATGAAAATA
Found at i:21785887 original size:62 final size:62
Alignment explanation
Indices: 21785790--21785913 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
21785780 AAAAACTGGA
21785790 AAGTCAATGTCTCCAGTTATTGTTAGTAGTTTATAATGTTGATAGTAACAATATTTTATTAT
1 AAGTCAATGTCTCCAGTTATTGTTAGTAGTTTATAATGTTGATAGTAACAATATTTTATTAT
*
21785852 AAGTCAATGTCTCCAGTTATTGTTAGTAGTTTATAATGTTGATAGTAACAATATTTTGTTAT
1 AAGTCAATGTCTCCAGTTATTGTTAGTAGTTTATAATGTTGATAGTAACAATATTTTATTAT
21785914 GTAGAAAAGT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.45
Consensus pattern (62 bp):
AAGTCAATGTCTCCAGTTATTGTTAGTAGTTTATAATGTTGATAGTAACAATATTTTATTAT
Found at i:21785944 original size:62 final size:61
Alignment explanation
Indices: 21785806--21785944 Score: 147
Period size: 62 Copynumber: 2.2 Consensus size: 61
21785796 ATGTCTCCAG
* * * * *
21785806 TTATTGTTAGTAGTTTATAATGTTGATAGTAACAATATTTTATTATAAGTCAATGTCTCCAG
1 TTATTGTAAATAGTTTATAATGTTGATAGTAACAATATTTTATTATAAGTAAAAGTCT-CAA
* * * *
21785868 TTATTGTTAGTAGTTTATAATGTTGATAGTAACAATATTTTGTTATGTAG-AAAAGTCT-AA
1 TTATTGTAAATAGTTTATAATGTTGATAGTAACAATATTTTATTAT-AAGTAAAAGTCTCAA
21785928 TTATTGATCAAATAGTT
1 TTATTG-T-AAATAGTT
21785945 GTGTTGTAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
60 7 0.10
61 1 0.01
62 57 0.85
63 2 0.03
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.45
Consensus pattern (61 bp):
TTATTGTAAATAGTTTATAATGTTGATAGTAACAATATTTTATTATAAGTAAAAGTCTCAA
Found at i:21792540 original size:15 final size:16
Alignment explanation
Indices: 21792499--21792543 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
21792489 ATTATCTTAA
21792499 ATTATGAATATGTGTGT
1 ATTATG-ATATGTGTGT
* *
21792516 ATTGTGATATGTGTTT
1 ATTATGATATGTGTGT
21792532 A-TATGATATGTG
1 ATTATGATATGTG
21792544 ACCATTATGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 10 0.40
16 10 0.40
17 5 0.20
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (16 bp):
ATTATGATATGTGTGT
Found at i:21792655 original size:39 final size:39
Alignment explanation
Indices: 21792576--21792718 Score: 139
Period size: 39 Copynumber: 3.6 Consensus size: 39
21792566 AAGATGTTTT
* * *
21792576 TGAGTATTGCAATATCCATGCTTGAATGTTATGTGATTATA
1 TGAGTATTGCGATAT--ATGCTTAAACGTTATGTGATTATA
*
21792617 TGAGTATTGCGATATATACTTAAACGTTATG-GAGTTATA
1 TGAGTATTGCGATATATGCTTAAACGTTATGTGA-TTATA
* * * *
21792656 TGAGTATTGTGATATATGCTTAAATGTTGTGTAATTATA
1 TGAGTATTGCGATATATGCTTAAACGTTATGTGATTATA
*
21792695 TGTA-TAATGTC-ATATATGCTTAAA
1 TG-AGTATTG-CGATATATGCTTAAA
21792719 AGTGAATATG
Statistics
Matches: 87, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
38 2 0.02
39 69 0.79
40 2 0.02
41 14 0.16
ACGTcount: A:0.32, C:0.07, G:0.19, T:0.42
Consensus pattern (39 bp):
TGAGTATTGCGATATATGCTTAAACGTTATGTGATTATA
Found at i:21803358 original size:52 final size:51
Alignment explanation
Indices: 21803282--21803389 Score: 128
Period size: 53 Copynumber: 2.1 Consensus size: 51
21803272 ACCAACACAC
* * * * *
21803282 CAGTACGGCACATAGTGCCTCATCGG-CCGAAGCCGGAACAGTAAAAGTAA
1 CAGTACGGCACAGAGTACCTCATCGGAACAAAGCCGAAACAGTAAAAGTAA
* *
21803332 CAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGAAACAGTAACAGTAA
1 CAGTACGG--CACAGAGTACCTCATCGGAACAAAGCCGAAACAGTAAAAGTAA
21803385 CAGTA
1 CAGTA
21803390 ATGGTAACAG
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
50 8 0.17
52 16 0.33
53 24 0.50
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (51 bp):
CAGTACGGCACAGAGTACCTCATCGGAACAAAGCCGAAACAGTAAAAGTAA
Found at i:21805457 original size:27 final size:26
Alignment explanation
Indices: 21805419--21805469 Score: 93
Period size: 27 Copynumber: 1.9 Consensus size: 26
21805409 ATGAATAACT
21805419 AAGTTCTCCAATTTTGAATAGAAAACC
1 AAGTTCTCCAATTTTGAATA-AAAACC
21805446 AAGTTCTCCAATTTTGAATAAAAA
1 AAGTTCTCCAATTTTGAATAAAAA
21805470 GACAAATGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (26 bp):
AAGTTCTCCAATTTTGAATAAAAACC
Found at i:21813174 original size:17 final size:18
Alignment explanation
Indices: 21813146--21813191 Score: 78
Period size: 16 Copynumber: 2.7 Consensus size: 18
21813136 TTACTCGATT
21813146 CTTTTCTTTTCTTTCTTC
1 CTTTTCTTTTCTTTCTTC
21813164 CTTTT-TTTTC-TTCTTC
1 CTTTTCTTTTCTTTCTTC
21813180 CTTTTCTTTTCT
1 CTTTTCTTTTCT
21813192 GTAAATTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 11 0.42
17 10 0.38
18 5 0.19
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (18 bp):
CTTTTCTTTTCTTTCTTC
Found at i:21822489 original size:48 final size:48
Alignment explanation
Indices: 21822436--21822527 Score: 184
Period size: 48 Copynumber: 1.9 Consensus size: 48
21822426 AAAATAGAAA
21822436 GTAATTTAGAGAAGAAGGTTTTTATTCATATCCCACTTGTCAAAAAAT
1 GTAATTTAGAGAAGAAGGTTTTTATTCATATCCCACTTGTCAAAAAAT
21822484 GTAATTTAGAGAAGAAGGTTTTTATTCATATCCCACTTGTCAAA
1 GTAATTTAGAGAAGAAGGTTTTTATTCATATCCCACTTGTCAAA
21822528 CAATACCAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (48 bp):
GTAATTTAGAGAAGAAGGTTTTTATTCATATCCCACTTGTCAAAAAAT
Found at i:21825761 original size:28 final size:28
Alignment explanation
Indices: 21825698--21825847 Score: 221
Period size: 28 Copynumber: 5.4 Consensus size: 28
21825688 ATATTAAGTC
*
21825698 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
21825725 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
21825753 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
21825781 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
21825809 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
21825838 CGCACACTTA
1 CGCACACTTA
21825848 TCGCCAATCT
Statistics
Matches: 114, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
27 22 0.19
28 77 0.68
29 15 0.13
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:21831398 original size:16 final size:16
Alignment explanation
Indices: 21831377--21831417 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
21831367 AAAATATGGA
21831377 AAAAGAAATTTTATTG
1 AAAAGAAATTTTATTG
21831393 AAAAGAAATTTTATTG
1 AAAAGAAATTTTATTG
21831409 AAAAGAAAT
1 AAAAGAAAT
21831418 ATGAAAGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (16 bp):
AAAAGAAATTTTATTG
Found at i:21834191 original size:16 final size:17
Alignment explanation
Indices: 21834170--21834207 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
21834160 TTAGAATAAA
21834170 TTTTTTTGACATA-ATT-
1 TTTTTTTGA-ATATATTG
21834186 TTTTTTTGAATATATTG
1 TTTTTTTGAATATATTG
21834203 TTTTT
1 TTTTT
21834208 CACTTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 3 0.15
16 12 0.60
17 5 0.25
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.68
Consensus pattern (17 bp):
TTTTTTTGAATATATTG
Found at i:21838677 original size:25 final size:25
Alignment explanation
Indices: 21838647--21838696 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
21838637 ATTCATAAGA
21838647 CATATACCTAGGCATATTAGGAGTT
1 CATATACCTAGGCATATTAGGAGTT
*
21838672 CATATATCTAGGCATATTAGGAGTT
1 CATATACCTAGGCATATTAGGAGTT
21838697 TACTTTGAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (25 bp):
CATATACCTAGGCATATTAGGAGTT
Found at i:21840932 original size:67 final size:70
Alignment explanation
Indices: 21840824--21841009 Score: 207
Period size: 67 Copynumber: 2.6 Consensus size: 70
21840814 AAAAAACTCC
* * * * *
21840824 TAAAATTAATAAGTGAAATAGTGAAAACGTCATTACATAAATACAAAG-TCGACTATTTAAATTG
1 TAAAATTAATAACTAAAATGGTAAAAAAGTCATTACATAAATACAAAGCTCGACTATTTAAATTG
21840888 C-A-A
66 CAACA
* *
21840891 TAAAATTAATAACTAAAATGGTAAAAAAGTCATTACATAAATACAAAGCTTGACTATTTTAATTG
1 TAAAATTAATAACTAAAATGGTAAAAAAGTCATTACATAAATACAAAGCTCGACTATTTAAATTG
21840956 CAAAAAAACCA
66 C-----AA-CA
* * *
21840967 TAAAATTAATAACTTAAATGGCAAAAAAGTCATTATATAAATA
1 TAAAATTAATAACTAAAATGGTAAAAAAGTCATTACATAAATA
21841010 TGAAGTTATT
Statistics
Matches: 100, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
67 43 0.43
68 15 0.15
74 1 0.01
76 41 0.41
ACGTcount: A:0.52, C:0.10, G:0.09, T:0.28
Consensus pattern (70 bp):
TAAAATTAATAACTAAAATGGTAAAAAAGTCATTACATAAATACAAAGCTCGACTATTTAAATTG
CAACA
Found at i:21841277 original size:33 final size:33
Alignment explanation
Indices: 21841207--21841281 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 33
21841197 GAGTCGGGAG
* *
21841207 GAGTGGAGTAGGGCTATGGATACGGACCGAGAG
1 GAGTGGAGTACGGCTATGGATACGGACCGAGAA
21841240 GAGTGGAGTACGGCGT-TGGATAC-GAGCCTG-GAA
1 GAGTGGAGTACGGC-TATGGATACGGA-CC-GAGAA
21841273 GAGTGGAGT
1 GAGTGGAGT
21841282 CATTACAGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
32 2 0.05
33 33 0.89
34 2 0.05
ACGTcount: A:0.25, C:0.12, G:0.45, T:0.17
Consensus pattern (33 bp):
GAGTGGAGTACGGCTATGGATACGGACCGAGAA
Found at i:21841463 original size:41 final size:41
Alignment explanation
Indices: 21841372--21841603 Score: 279
Period size: 41 Copynumber: 5.6 Consensus size: 41
21841362 GCTAATAGGT
* * * *
21841372 AAACGCTGCAAAAGGTTAGAGC-TATAGTGGCATTTATGATAA
1 AAACGCCGCAAAAGGTCA-AGCAT-TAGCGGCGTTTATGATAA
* *
21841414 AAACGCCGCAAAAGGTCAAGAATTAGCGGCGTTTACGATAA
1 AAACGCCGCAAAAGGTCAAGCATTAGCGGCGTTTATGATAA
* *
21841455 AAATGCCGCAAAAGGTCAAGCATTAGCGGCGTTTATGAAAAA
1 AAACGCCGCAAAAGGTCAAGCATTAGCGGCGTTTATG-ATAA
** * * *
21841497 AAACGATGC-AAAGGTCAAGCATTAGCGGCATTTATTAGAA
1 AAACGCCGCAAAAGGTCAAGCATTAGCGGCGTTTATGATAA
* *
21841537 AAACGCGGCAAAAGATCAAGCATTAGCGGCGTTTATGATAA
1 AAACGCCGCAAAAGGTCAAGCATTAGCGGCGTTTATGATAA
*
21841578 AAACGCCGCAAAAGATCAAGCATTAG
1 AAACGCCGCAAAAGGTCAAGCATTAG
21841604 TGACCTCAAA
Statistics
Matches: 164, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
40 10 0.06
41 128 0.78
42 26 0.16
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (41 bp):
AAACGCCGCAAAAGGTCAAGCATTAGCGGCGTTTATGATAA
Found at i:21842780 original size:236 final size:234
Alignment explanation
Indices: 21842471--21843006 Score: 553
Period size: 236 Copynumber: 2.3 Consensus size: 234
21842461 TTAATGCTTT
* * * ** *
21842471 GTGGAATTAGCAGCGCTA-GCTAATAAACGCTGCAATAGATA-AGAATTAGCGGCTCTATTT-AA
1 GTGGAATTAG-GGCGCTATG-TTATAAACACTGCAATAGA-ACATCATTAGCGGCACT-TTTGAA
* ** * ***
21842533 AAAATGCCACAAAAATATTTTTAATTGAATGGAAACGTTGTTGTTTTAATGCTTT-GTGGAATTA
62 AAAACGCCACAAAAA-A-AATTAATTGAATGAAAACGGCATTGTTTTAATGCTTTAGTGGAATTA
* * ****
21842597 GCGGCGCTAGCTAATAAAAGCCGCAATAGATAAGAATTAGCGGCGCGTTTTGAAAAATGTTGCAG
125 GCGACGCTAGCAAATAAAAGCCGCAATAGATAAGAATTAGCGGCGC-TTTTGAAAAA-ACACCAG
***** *
21842662 AATTTTTTTTAATTGAATGGAAATGTTGT-TTT-AGTTGTGGGTTTA
188 AAAAAAATTTAATTGAATGGAAATGTTGTCTTTAAGGTGTGGGTTTA
*
21842707 GTGGAATTAGTGGCGCTATGTTATAAACACTGCAATAGAACATCATTAGCGGCGCTTTTGAAAAA
1 GTGGAATTAG-GGCGCTATGTTATAAACACTGCAATAGAACATCATTAGCGGCACTTTTGAAAAA
* *
21842772 ACGCCACAAAAAAAATTAATTGAATGAAAATGGCATTGTTTTAATGCTTTAAGTGGAGTTAGCGA
65 ACGCCACAAAAAAAATTAATTGAATGAAAACGGCATTGTTTTAATGCTTT-AGTGGAATTAGCGA
* * * ** *
21842837 CGCTAGCAAATAAACGCTGCAATAGATTAGCTTTAGCGGCGCTTTTTAAAAAACACCAGAAAAAA
129 CGCTAGCAAATAAAAGCCGCAATAGATAAGAATTAGCGGCGCTTTTGAAAAAACACCAGAAAAAA
**
21842902 ATTTAATTGAATTTAAATGTTGTCGTTTCAAGGTGTGGGTTTA
194 ATTTAATTGAATGGAAATGTTGTC-TTT-AAGGTGTGGGTTTA
* * * *
21842945 GTGCAATTAGGGACACTTTGTTATAAACACCGCAATAGAACATCATTAGCGGCACTTTTGAA
1 GTGGAATTAGGG-CGCTATGTTATAAACACTGCAATAGAACATCATTAGCGGCACTTTTGAA
21843007 GAATCGCCTC
Statistics
Matches: 249, Mismatches: 41, Indels: 18
0.81 0.13 0.06
Matches are distributed among these distances:
234 55 0.22
235 14 0.06
236 111 0.45
237 3 0.01
238 66 0.27
ACGTcount: A:0.35, C:0.13, G:0.21, T:0.31
Consensus pattern (234 bp):
GTGGAATTAGGGCGCTATGTTATAAACACTGCAATAGAACATCATTAGCGGCACTTTTGAAAAAA
CGCCACAAAAAAAATTAATTGAATGAAAACGGCATTGTTTTAATGCTTTAGTGGAATTAGCGACG
CTAGCAAATAAAAGCCGCAATAGATAAGAATTAGCGGCGCTTTTGAAAAAACACCAGAAAAAAAT
TTAATTGAATGGAAATGTTGTCTTTAAGGTGTGGGTTTA
Found at i:21842890 original size:117 final size:116
Alignment explanation
Indices: 21842277--21842913 Score: 522
Period size: 117 Copynumber: 5.4 Consensus size: 116
21842267 TATCAAAGGT
* * *
21842277 ATTAGCGGCG-TTTTCAACTAAAACGCCACAACAAAATTTCAATTGAATGGAAATGACGTCGTTT
1 ATTAGCGGCGCTTTTTAA--AAAACGCCACAAAAAAATTT-AATTGAATGGAAATGACGTTGTTT
* * * * *
21842341 TAAGTGCGGGTTTAGTGGAATTAGCGGCGCTAGATTATAAAC-ATCGAAATAGATTAGC
63 TAA-TGC---TTTAGTGGAATTAGCGGCGCTAGCTAATAAACGCT-GCAATAGATAAGC
* * * * *
21842399 ATTAGCGGCACTTTTTGTAAAAA-GTCGCA-AAAAAAATTTAATTGAATGAAAACGACGCTGTTT
1 ATTAGCGGCGCTTTTT-AAAAAACG-C-CACAAAAAAATTTAATTGAATGGAAATGACGTTGTTT
* *
21842462 TAATGCTTT-GTGGAATTAGCAGCGCTAGCTAATAAACGCTGCAATAGATAAGA
63 TAATGCTTTAGTGGAATTAGCGGCGCTAGCTAATAAACGCTGCAATAGATAAGC
* * * * * **
21842515 ATTAGCGGCTCTATTTAAAAAATGCCACAAAAATATTTTTAATTGAATGGAAACGTTGTTGTTTT
1 ATTAGCGGCGCTTTTTAAAAAACGCCACAAAAA-A-ATTTAATTGAATGGAAATGACGTTGTTTT
* * *
21842580 AATGCTTT-GTGGAATTAGCGGCGCTAGCTAATAAAAGCCGCAATAGATAAGA
64 AATGCTTTAGTGGAATTAGCGGCGCTAGCTAATAAACGCTGCAATAGATAAGC
* * * * * *****
21842632 ATTAGCGGCGCGTTTTGAAAAATGTTGCAGAATTTTTTTTAATTGAATGGAAAT---GTTGTTTT
1 ATTAGCGGCGCTTTTTAAAAAACG--CCACAAAAAAATTTAATTGAATGGAAATGACGTTGTTTT
* * * * * *
21842694 AGTTGTGGGTTTAGTGGAATTAGTGGCGCTATG-TTATAAACACTGCAATAGA-ACATC
64 A---AT-GCTTTAGTGGAATTAGCGGCGCTA-GCTAATAAACGCTGCAATAGATA-AGC
* * * * *
21842751 ATTAGCGGCGCTTTTGAAAAAACGCCACAAAAAAAATTAATTGAATGAAAATGGCATTGTTTTAA
1 ATTAGCGGCGCTTTTTAAAAAACGCCACAAAAAAATTTAATTGAATGGAAATGACGTTGTTTTAA
* * * *
21842816 TGCTTTAAGTGGAGTTAGCGACGCTAGCAAATAAACGCTGCAATAGATTAGC
66 TGCTTT-AGTGGAATTAGCGGCGCTAGCTAATAAACGCTGCAATAGATAAGC
* * *
21842868 TTTAGCGGCGCTTTTTAAAAAACACCAGAAAAAAATTTAATTGAAT
1 ATTAGCGGCGCTTTTTAAAAAACGCCACAAAAAAATTTAATTGAAT
21842914 TTAAATGTTG
Statistics
Matches: 416, Mismatches: 75, Indels: 53
0.76 0.14 0.10
Matches are distributed among these distances:
114 11 0.03
115 11 0.03
116 56 0.13
117 210 0.50
118 5 0.01
119 57 0.14
120 12 0.03
121 24 0.06
122 23 0.06
123 6 0.01
124 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (116 bp):
ATTAGCGGCGCTTTTTAAAAAACGCCACAAAAAAATTTAATTGAATGGAAATGACGTTGTTTTAA
TGCTTTAGTGGAATTAGCGGCGCTAGCTAATAAACGCTGCAATAGATAAGC
Found at i:21844899 original size:47 final size:48
Alignment explanation
Indices: 21844742--21845054 Score: 189
Period size: 47 Copynumber: 6.7 Consensus size: 48
21844732 ATATATTGTT
* * * **** *
21844742 GATGCCATGTCCCAAACATGGTCTTACACTGGCTTTCATATACGCGTGCT
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCTATCATCTGTAAG-GCC
* * * * * *
21844792 GATGCATGTTCCAGACAT-GTCTTACACTAGC-A-CAACTCTTA-GTC
1 GATGCATGTCCCAGACATGGTCTTACACTGGCTATCATCTGTAAGGCC
* * *
21844836 GATGCGTGTCCTAGACA-CGTCTTACACTGGCTATC-TCTGTCAAGGCC
1 GATGCATGTCCCAGACATGGTCTTACACTGGCTATCATCTGT-AAGGCC
* * *
21844883 GATGCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGTATGGCT
1 GATGCATGTCCCAGACATGGTCTTACACTGGCTATCATCTGTAAGGCC
* * * ** * * *
21844930 GATGCATATCCGAGACAT-GTCTTACACTAGCCCTCGTCTG-GATGCC
1 GATGCATGTCCCAGACATGGTCTTACACTGGCTATCATCTGTAAGGCC
* ** ** * *
21844976 GATGCCATGTCACAGACATGGTCTTACACTGGCTCCCAT-AATATGGCT
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCTATCATCTGTAAGGCC
*
21845024 GAAGCATGTCCCAGACAT-GTCTTACACTGGC
1 GATGCATGTCCCAGACATGGTCTTACACTGGC
21845055 GCACAAATCA
Statistics
Matches: 200, Mismatches: 52, Indels: 26
0.72 0.19 0.09
Matches are distributed among these distances:
44 27 0.14
45 4 0.02
46 39 0.19
47 62 0.31
48 51 0.25
49 13 0.06
50 4 0.02
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (48 bp):
GATGCATGTCCCAGACATGGTCTTACACTGGCTATCATCTGTAAGGCC
Found at i:21844985 original size:94 final size:93
Alignment explanation
Indices: 21844880--21845051 Score: 272
Period size: 94 Copynumber: 1.8 Consensus size: 93
21844870 CTCTGTCAAG
* * * * *
21844880 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATATCCGAGA
1 GCCGATGCATGTCACAGACATGGTCTTACACTGGCTACCATAATATGGCTGAAGCATATCCCAGA
21844945 CATGTCTTACACTAGCCCTCGTCTGGAT
66 CATGTCTTACACTAGCCCTCGTCTGGAT
* *
21844973 GCCGATGCCATGTCACAGACATGGTCTTACACTGGCTCCCATAATATGGCTGAAGCATGTCCCAG
1 GCCGATG-CATGTCACAGACATGGTCTTACACTGGCTACCATAATATGGCTGAAGCATATCCCAG
21845038 ACATGTCTTACACT
65 ACATGTCTTACACT
21845052 GGCGCACAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
93 7 0.10
94 64 0.90
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.27
Consensus pattern (93 bp):
GCCGATGCATGTCACAGACATGGTCTTACACTGGCTACCATAATATGGCTGAAGCATATCCCAGA
CATGTCTTACACTAGCCCTCGTCTGGAT
Found at i:21849720 original size:23 final size:24
Alignment explanation
Indices: 21849694--21849740 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
21849684 TTCCCCCTCT
*
21849694 TCTTCCATA-ATACTCTTT-CTTTC
1 TCTT-CATATATAATCTTTACTTTC
21849717 TCTTCATATATAATCTTTACTTTC
1 TCTTCATATATAATCTTTACTTTC
21849741 AAACACCCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 12 0.57
24 5 0.24
ACGTcount: A:0.21, C:0.26, G:0.00, T:0.53
Consensus pattern (24 bp):
TCTTCATATATAATCTTTACTTTC
Found at i:21851398 original size:9 final size:9
Alignment explanation
Indices: 21851340--21851552 Score: 188
Period size: 9 Copynumber: 23.9 Consensus size: 9
21851330 TTCTTTAAAA
21851340 TTACATAAC
1 TTACATAAC
21851349 TTACA-AACC
1 TTACATAA-C
21851358 TTACATAA-
1 TTACATAAC
* *
21851366 ATACATATC
1 TTACATAAC
* *
21851375 GTATTATAAC
1 TTA-CATAAC
*
21851385 TTACATACC
1 TTACATAAC
21851394 TTACATAAC
1 TTACATAAC
*
21851403 ATACATAAC
1 TTACATAAC
21851412 TTACATAAC
1 TTACATAAC
21851421 TTACATAA-
1 TTACATAAC
21851429 -TACATAA-
1 TTACATAAC
* * *
21851436 ATATATATC
1 TTACATAAC
21851445 ATGT-CATAAC
1 -T-TACATAAC
21851455 TTACATAAC
1 TTACATAAC
*
21851464 TTACATAAT
1 TTACATAAC
21851473 TTACATAAC
1 TTACATAAC
*
21851482 TTACATAAT
1 TTACATAAC
*
21851491 TTACATAAT
1 TTACATAAC
21851500 TTACATAAC
1 TTACATAAC
*
21851509 TTACATAAT
1 TTACATAAC
*
21851518 TTTCATAAC
1 TTACATAAC
*
21851527 TTACATTA-
1 TTACATAAC
21851535 TTAACATAAC
1 TT-ACATAAC
*
21851545 TGACATAA
1 TTACATAA
21851553 ATAAATATCA
Statistics
Matches: 166, Mismatches: 27, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
7 7 0.04
8 16 0.10
9 129 0.78
10 13 0.08
11 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.01, T:0.36
Consensus pattern (9 bp):
TTACATAAC
Found at i:21851444 original size:70 final size:70
Alignment explanation
Indices: 21851340--21851499 Score: 214
Period size: 70 Copynumber: 2.3 Consensus size: 70
21851330 TTCTTTAAAA
* * *
21851340 TTACATAACTTACA-AACCTTACATAAATACATATCGTATTATAACTTACATACCTTACATAACA
1 TTACATAACTTACATAA---TACATAAATACATATCATATCATAACTTACATAACTTACATAACA
21851404 TACATAAC
63 TACATAAC
* * **
21851412 TTACATAACTTACATAATACATAAATATATATCATGTCATAACTTACATAACTTACATAATTTAC
1 TTACATAACTTACATAATACATAAATACATATCATATCATAACTTACATAACTTACATAACATAC
21851477 ATAAC
66 ATAAC
*
21851482 TTACATAATTTACATAAT
1 TTACATAACTTACATAAT
21851500 TTACATAACT
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
70 63 0.80
72 14 0.18
73 2 0.03
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.35
Consensus pattern (70 bp):
TTACATAACTTACATAATACATAAATACATATCATATCATAACTTACATAACTTACATAACATAC
ATAAC
Found at i:21857190 original size:26 final size:26
Alignment explanation
Indices: 21857161--21857211 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
21857151 GATCGGTGAA
21857161 CTCCTCCTGAGCTGATAAACGGTAAT
1 CTCCTCCTGAGCTGATAAACGGTAAT
**
21857187 CTCCTCCTGAGCTGATGGACGGTAA
1 CTCCTCCTGAGCTGATAAACGGTAA
21857212 GCTTTATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (26 bp):
CTCCTCCTGAGCTGATAAACGGTAAT
Found at i:21857247 original size:23 final size:23
Alignment explanation
Indices: 21857221--21857280 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
21857211 AGCTTTATTA
* *
21857221 AGCTGGAACGGTAAACTCTGACG
1 AGCTGAAACGGTAAAATCTGACG
*
21857244 AGCTGAAATGGTAAAATCTGACG
1 AGCTGAAACGGTAAAATCTGACG
* *
21857267 AGCTAAAACAGTAA
1 AGCTGAAACGGTAA
21857281 GCTCATATGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (23 bp):
AGCTGAAACGGTAAAATCTGACG
Found at i:21859920 original size:21 final size:21
Alignment explanation
Indices: 21859894--21859943 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
21859884 CTACAACTTA
*
21859894 AAGTAGAGGCAGTAGCGAGGG
1 AAGTAGAGGCAGCAGCGAGGG
21859915 AAGTAGAGGCAGCAGCGAGGG
1 AAGTAGAGGCAGCAGCGAGGG
*
21859936 AAGCAGAG
1 AAGTAGAG
21859944 CAAAGCAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.36, C:0.12, G:0.46, T:0.06
Consensus pattern (21 bp):
AAGTAGAGGCAGCAGCGAGGG
Found at i:21860296 original size:43 final size:43
Alignment explanation
Indices: 21860235--21860450 Score: 236
Period size: 43 Copynumber: 5.0 Consensus size: 43
21860225 TCTGCCAAAG
* *
21860235 TTAGCGGCGTTTGTGATAAAACCGCCGCTAAAGGTCATGTTCT
1 TTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCT
* *
21860278 TTAGCGGCGTTTGTGATAAAAGTGCCGCTAAAGGTCATGTTCT
1 TTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCT
** * *
21860321 TTAGCGGCATTTGCAATAAAAAGCGCCGCTAAAGATAATGTTCT
1 TTAGCGGCATTTGTGAT-AAAAGCGCCGCTAAAGGTCATGTTCT
* * ** * * *
21860365 CTT-GCAGCATTTGCGACGAAATCGCCGTTAAAAGTCATGTTCT
1 -TTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCT
* * * *
21860408 TTAGCAGCATTTTTGATAAAAGCGCCACTAAATGTCATGTTCT
1 TTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCT
21860451 ATAGAGGCGT
Statistics
Matches: 145, Mismatches: 25, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
42 2 0.01
43 107 0.74
44 34 0.23
45 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Consensus pattern (43 bp):
TTAGCGGCATTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCT
Found at i:21860660 original size:32 final size:33
Alignment explanation
Indices: 21860598--21860661 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
21860588 TTTCTGTAGT
*
21860598 GAGTATGGCGATGGATACGAGCTGGGAGAAGTA
1 GAGTATGGCGATGGATACGAGCTGGAAGAAGTA
21860631 GAGTA-GGACGATGGATACG-GCTGGAAGAAGT
1 GAGTATGG-CGATGGATACGAGCTGGAAGAAGT
21860662 GAAGTATTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.45
33 16 0.55
ACGTcount: A:0.31, C:0.09, G:0.42, T:0.17
Consensus pattern (33 bp):
GAGTATGGCGATGGATACGAGCTGGAAGAAGTA
Found at i:21862538 original size:49 final size:49
Alignment explanation
Indices: 21862445--21862538 Score: 120
Period size: 48 Copynumber: 1.9 Consensus size: 49
21862435 AGCTACCTGA
* * *
21862445 AGCTTCTTGTTTAATGGCTCTTCAGAGCTACTCGTTATTGGCTCGCATG
1 AGCTTCTTGATTAATGGCTCTTCAGAGCTACCCGTTATTAGCTCGCATG
*
21862494 AGCTTCTTGATT-ATGGCTCTT-ATGAGCTTCCCGTTATATAGCTCG
1 AGCTTCTTGATTAATGGCTCTTCA-GAGCTACCCGTTAT-TAGCTCG
21862539 GATAAACTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
47 1 0.03
48 21 0.54
49 17 0.44
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.39
Consensus pattern (49 bp):
AGCTTCTTGATTAATGGCTCTTCAGAGCTACCCGTTATTAGCTCGCATG
Found at i:21862573 original size:25 final size:25
Alignment explanation
Indices: 21862515--21862574 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 25
21862505 TATGGCTCTT
* * **
21862515 ATGAGCTTCCCGTTATATAGCTCGG
1 ATGAGCTTCCCGTTATACAACTCAC
* *
21862540 ATAAACTTCCCGTTATACAACTCAC
1 ATGAGCTTCCCGTTATACAACTCAC
21862565 ATGAGCTTCC
1 ATGAGCTTCC
21862575 TATTATATGG
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATACAACTCAC
Found at i:21865308 original size:102 final size:100
Alignment explanation
Indices: 21865143--21865574 Score: 397
Period size: 106 Copynumber: 4.3 Consensus size: 100
21865133 TTACATTATA
* *
21865143 TAAAAATTACATTA--AAAAAATCACAAAACACTAAAC-AAACACTAAAAATTTATATAAGCTAA
1 TAAAAA-TACATTACCAAAAAATCACAAAACACTAAACTAAACACTAACAA-TT-TATAACCTAA
*
21865205 TCATAAATTACTGACAAAATAAATATAAATTATTTTTT
63 TCATAAATTACTAACAAAATAAATATAAATTATTTTTT
*
21865243 TAAAAATACATTACCAAAAAATCACAAAACACTAAACTAAATACTAACAATTTATATAACCTAAT
1 TAAAAATACATTACCAAAAAATCACAAAACACTAAACTAAACACTAACAA-TT-TATAACCTAAT
* *
21865308 CATAAATTACAAACAAAATAACTATAAAATTATTTTTTTT
64 CATAAATTACTAACAAAATAAATAT-AAATTA--TTTTTT
* * * * *
21865348 TAAAATTGCATTACTGAAAAATTCACAAAACCCTAAACTAAACACTAACAATTTATAACCTAATC
1 TAAAAATACATTAC-CAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAAT-
* *
21865413 ACATAAATTACTAAAAAAATAAATAACTATAA-CATTTTTT
64 -CATAAATTACTAACAAAATAAAT-A-TA-AATTATTTTTT
* * * ** * * *
21865453 AAAAAAGAAATTA-C-ATTACT-A-AAAA-A-T-AACAAAACACTAACAATTTATAATCTAATCA
1 TAAAAATACATTACCAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCA
* *
21865511 TAAACTACTAACAAAATAACTAT-AATT-TTTTTT
66 TAAATTACTAACAAAATAAATATAAATTATTTTTT
* * * *
21865544 T-AAATTACATTACTAAAAACTTACAAAACAC
1 TAAAAATACATTACCAAAAAATCACAAAACAC
21865575 AACAATTTAA
Statistics
Matches: 274, Mismatches: 39, Indels: 42
0.77 0.11 0.12
Matches are distributed among these distances:
90 8 0.03
91 8 0.03
92 4 0.01
93 2 0.01
94 5 0.02
95 21 0.08
97 27 0.10
98 1 0.00
99 7 0.03
100 10 0.04
101 23 0.08
102 49 0.18
103 6 0.02
104 11 0.04
105 34 0.12
106 52 0.19
107 3 0.01
108 3 0.01
ACGTcount: A:0.54, C:0.15, G:0.01, T:0.30
Consensus pattern (100 bp):
TAAAAATACATTACCAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCA
TAAATTACTAACAAAATAAATATAAATTATTTTTT
Found at i:21865584 original size:38 final size:38
Alignment explanation
Indices: 21865542--21865669 Score: 97
Period size: 38 Copynumber: 3.5 Consensus size: 38
21865532 ATAATTTTTT
*
21865542 TTTAAATTACATTACTAAAAACTTACAAAACACAACAA
1 TTTAAATTAAATTACTAAAAACTTACAAAACACAACAA
* * * *** * *
21865580 TTTAAAATAAATTGCTAACAAA-ATATTTAACAAAATAA
1 TTTAAATTAAATTACTAA-AAACTTACAAAACACAACAA
* *
21865618 -TT---TTACATTACTAAAAACTCACAAAACACAACAA
1 TTTAAATTAAATTACTAAAAACTTACAAAACACAACAA
21865652 TTTATAA-TAAATTACTAA
1 TTTA-AATTAAATTACTAA
21865670 CAAAATATTT
Statistics
Matches: 63, Mismatches: 20, Indels: 14
0.65 0.21 0.14
Matches are distributed among these distances:
33 3 0.05
34 18 0.29
35 2 0.03
37 2 0.03
38 35 0.56
39 3 0.05
ACGTcount: A:0.55, C:0.15, G:0.01, T:0.30
Consensus pattern (38 bp):
TTTAAATTAAATTACTAAAAACTTACAAAACACAACAA
Found at i:21865642 original size:72 final size:72
Alignment explanation
Indices: 21865548--21865716 Score: 284
Period size: 72 Copynumber: 2.3 Consensus size: 72
21865538 TTTTTTTAAA
* *
21865548 TTACATTACTAAAAACTTACAAAACACAACAATTTAAAATAAATTGCTAACAAAATATTTAACAA
1 TTACATTACTAAAAACTCACAAAACACAACAATTTAAAATAAATTACTAACAAAATATTTAACAA
21865613 AATAATT
66 AATAATT
*
21865620 TTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACAA
1 TTACATTACTAAAAACTCACAAAACACAACAATTTAAAATAAATTACTAACAAAATATTTAACAA
21865685 AATAATT
66 AATAATT
* *
21865692 TTATATTACTAAAAAATCACCAAAA
1 TTACATTACTAAAAACTCA-CAAAA
21865717 TACTAAACTA
Statistics
Matches: 91, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
72 86 0.95
73 5 0.05
ACGTcount: A:0.56, C:0.15, G:0.01, T:0.29
Consensus pattern (72 bp):
TTACATTACTAAAAACTCACAAAACACAACAATTTAAAATAAATTACTAACAAAATATTTAACAA
AATAATT
Found at i:21865692 original size:38 final size:38
Alignment explanation
Indices: 21865578--21865692 Score: 105
Period size: 38 Copynumber: 3.1 Consensus size: 38
21865568 AAAACACAAC
* *
21865578 AATTTAAAATAAATTGCTAACAAAATATTTAACAAAAT
1 AATTTATAATAAATTACTAACAAAATATTTAACAAAAT
* * *** * *
21865616 AA-TT-T--TACATTACTAA-AAACTCACAAAACACAAC
1 AATTTATAATAAATTACTAACAAAAT-ATTTAACAAAAT
21865650 AATTTATAATAAATTACTAACAAAATATTTAACAAAAT
1 AATTTATAATAAATTACTAACAAAATATTTAACAAAAT
21865688 AATTT
1 AATTT
21865693 TATATTACTA
Statistics
Matches: 55, Mismatches: 16, Indels: 12
0.66 0.19 0.14
Matches are distributed among these distances:
33 4 0.07
34 18 0.33
35 2 0.04
36 1 0.02
37 2 0.04
38 24 0.44
39 4 0.07
ACGTcount: A:0.56, C:0.12, G:0.01, T:0.31
Consensus pattern (38 bp):
AATTTATAATAAATTACTAACAAAATATTTAACAAAAT
Found at i:21869000 original size:53 final size:53
Alignment explanation
Indices: 21868919--21869069 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
21868909 CTTACACGGT
* *
21868919 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
21868974 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
21869027 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
21869070 GCACACTTAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:21871169 original size:20 final size:20
Alignment explanation
Indices: 21871141--21871183 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
21871131 TTTAAAATAA
* *
21871141 TTTTTAAGATTATATTTGTG
1 TTTTGAAGATTAGATTTGTG
21871161 TTTTGAAGATTAGATTTGTG
1 TTTTGAAGATTAGATTTGTG
21871181 TTT
1 TTT
21871184 AAGTTGCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (20 bp):
TTTTGAAGATTAGATTTGTG
Found at i:21879414 original size:144 final size:144
Alignment explanation
Indices: 21879135--21879571 Score: 739
Period size: 144 Copynumber: 3.0 Consensus size: 144
21879125 ATCTCTATTC
* * *
21879135 TGTATTCTTTGCATGTCTGTGGAATTTGTTGGAATATAATTTGTCTATTAACCAGTGATTGAATA
1 TGTATTCTTTGCATGTC--TGGAATTTGTTGGAATCTAAGTTGTCTATTAACCAGTGATAGAATA
* *
21879200 TAAAAACAATACAATTTCTATTAGACATTAAATTTTGTACATAACCACGAGTATTAAGCTGACCA
64 TAAAAACAATGCAATTTCTATTAGACATGAAATTTTGTACATAACCACGAGTATTAAGCTGACCA
21879265 ACAAGAAACGGGAAAT
129 ACAAGAAACGGGAAAT
21879281 TGTATTCTTTGCATGTCTGGAATTTGTTGGAATCTAAGTTGTCTATTAACCAGTGATAGAATATA
1 TGTATTCTTTGCATGTCTGGAATTTGTTGGAATCTAAGTTGTCTATTAACCAGTGATAGAATATA
* * *
21879346 AAAACAATGCAATGTCTTTTAGGCATGAAATTTTGTACATAACCACGAGTATTAAGCTGACCAAC
66 AAAACAATGCAATTTCTATTAGACATGAAATTTTGTACATAACCACGAGTATTAAGCTGACCAAC
21879411 AAGAAACGGGAAAT
131 AAGAAACGGGAAAT
* *
21879425 TGTTTTCTTTGCATGTCTGGAATTTGTTGGAATCTAAGTTTTCTATTAACCAGTGATAGAATATA
1 TGTATTCTTTGCATGTCTGGAATTTGTTGGAATCTAAGTTGTCTATTAACCAGTGATAGAATATA
* *
21879490 AAAACAATGCAATTTCTATTAGACATGGAATTTTGTACATAACCATGAGTATTAAGCTGACCAAC
66 AAAACAATGCAATTTCTATTAGACATGAAATTTTGTACATAACCACGAGTATTAAGCTGACCAAC
*
21879555 AAGAAACGGTAAAT
131 AAGAAACGGGAAAT
21879569 TGT
1 TGT
21879572 GTTTTTGAGC
Statistics
Matches: 275, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
144 258 0.94
146 17 0.06
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (144 bp):
TGTATTCTTTGCATGTCTGGAATTTGTTGGAATCTAAGTTGTCTATTAACCAGTGATAGAATATA
AAAACAATGCAATTTCTATTAGACATGAAATTTTGTACATAACCACGAGTATTAAGCTGACCAAC
AAGAAACGGGAAAT
Found at i:21881829 original size:20 final size:19
Alignment explanation
Indices: 21881804--21881850 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
21881794 TGAGCAATTG
21881804 AATCAATTGGATTAAAATCA
1 AATCAATT-GATTAAAATCA
*
21881824 AATCAAATTGATTAGAATCA
1 AATC-AATTGATTAAAATCA
21881844 AAT-AATT
1 AATCAATT
21881851 CACGATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 4 0.16
20 17 0.68
21 4 0.16
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.32
Consensus pattern (19 bp):
AATCAATTGATTAAAATCA
Found at i:21882219 original size:63 final size:63
Alignment explanation
Indices: 21882120--21882247 Score: 247
Period size: 63 Copynumber: 2.0 Consensus size: 63
21882110 CCAATGTGGG
*
21882120 ATCTAAGCTTTTCTTTTCCTTAACAAATATTTCCAAGTAACTTACTTTGAGAATCAATTTCTC
1 ATCTAAGCTTTTCTTTTCCTCAACAAATATTTCCAAGTAACTTACTTTGAGAATCAATTTCTC
21882183 ATCTAAGCTTTTCTTTTCCTCAACAAATATTTCCAAGTAACTTACTTTGAGAATCAATTTCTC
1 ATCTAAGCTTTTCTTTTCCTCAACAAATATTTCCAAGTAACTTACTTTGAGAATCAATTTCTC
21882246 AT
1 AT
21882248 TCATCACTCA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 64 1.00
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.42
Consensus pattern (63 bp):
ATCTAAGCTTTTCTTTTCCTCAACAAATATTTCCAAGTAACTTACTTTGAGAATCAATTTCTC
Found at i:21885410 original size:88 final size:88
Alignment explanation
Indices: 21885257--21885426 Score: 213
Period size: 88 Copynumber: 1.9 Consensus size: 88
21885247 AAATTATATC
* * *
21885257 AAAATAAAATCTGTTAAACGGCGAGAATAAATCCCAAAACAAAATTATTTGATTACGTCTTTA-T
1 AAAATAAAATCTGTTAAACGGCGAGAATAAATCCCAAAACAAAATTATTTAATTACATCTCTATT
21885321 TTGGAAACAAAATAAAACAAAAT
66 TTGGAAACAAAATAAAACAAAAT
* * **
21885344 AAAATAAAATCTTGTTAAACGGCG-GAAATAAATCCTAGAACATATTTTATTTAATTTA-AT-TC
1 AAAATAAAATC-TGTTAAACGGCGAG-AATAAATCCCAAAACA-AAATTATTTAA-TTACATCTC
21885406 TATTTTGGAAACAAAATAAAA
62 TATTTTGGAAACAAAATAAAA
21885427 TGAGATAAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
87 12 0.17
88 29 0.41
89 27 0.38
90 3 0.04
ACGTcount: A:0.49, C:0.11, G:0.10, T:0.30
Consensus pattern (88 bp):
AAAATAAAATCTGTTAAACGGCGAGAATAAATCCCAAAACAAAATTATTTAATTACATCTCTATT
TTGGAAACAAAATAAAACAAAAT
Found at i:21885435 original size:89 final size:86
Alignment explanation
Indices: 21885257--21885515 Score: 233
Period size: 89 Copynumber: 3.0 Consensus size: 86
21885247 AAATTATATC
* ** * **
21885257 AAAATAAAATC-TGTTAAACGGC-GAGAATAAATCCCAAAACAAAATTATTTGA-TTACGTCTTT
1 AAAATAAAATCTTGTTAAACGGCGGA-AATAAATCCTAAAACAATTTTATTTAATTTAATTCTTT
21885319 ATTTGGAAACAAAATAAAACAAAA
65 -TTTGGAAACAAAATAAAAC-AAA
* *
21885343 TAAAATAAAATCTTGTTAAACGGCGGAAATAAATCCTAGAACATATTTTATTTAATTTAATTCTA
1 -AAAATAAAATCTTGTTAAACGGCGGAAATAAATCCTAAAACA-ATTTTATTTAATTTAATTCTT
*
21885408 TTTTGGAAACAAAAT--AA-AAT
64 TTTTGGAAACAAAATAAAACAAA
* * * * * * *
21885428 GAGATAAAATCTTATTAAATGGTGGGAATAAATCCTAAAATAAATTTTTATTTAATTTTAATTTC
1 AAAATAAAATCTTGTTAAACGGCGGAAATAAATCCTAAAA-CAA-TTTTATTTAA-TTTAA--T-
21885493 TCTTTTTTGGAAACAAAATAAAA
60 TCTTTTTTGGAAACAAAATAAAA
21885516 ATTTGGAATA
Statistics
Matches: 142, Mismatches: 18, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
84 34 0.24
85 13 0.09
86 5 0.04
87 13 0.09
88 26 0.18
89 42 0.30
90 7 0.05
91 2 0.01
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.34
Consensus pattern (86 bp):
AAAATAAAATCTTGTTAAACGGCGGAAATAAATCCTAAAACAATTTTATTTAATTTAATTCTTTT
TTGGAAACAAAATAAAACAAA
Found at i:21885459 original size:84 final size:88
Alignment explanation
Indices: 21885347--21885515 Score: 229
Period size: 84 Copynumber: 2.0 Consensus size: 88
21885337 ACAAAATAAA
* * *
21885347 ATAAAATCTTGTTAAACGGCGGAAATAAATCCTAGAACATA-TTTTATTTAA-TTTAA-T-TCTA
1 ATAAAATCTTATTAAACGGCGGAAATAAATCCTAAAACAAATTTTTATTTAATTTTAATTCTCTA
21885408 TTTTGGAAACAAAATAAAATGAG
66 TTTTGGAAACAAAATAAAATGAG
* * * *
21885431 ATAAAATCTTATTAAATGGTGGGAATAAATCCTAAAATAAATTTTTATTTAATTTTAATTTCTCT
1 ATAAAATCTTATTAAACGGCGGAAATAAATCCTAAAACAAATTTTTATTTAATTTTAA-TTCTCT
*
21885496 TTTTTGGAAACAAAATAAAA
65 ATTTTGGAAACAAAATAAAA
21885516 ATTTGGAATA
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
84 34 0.47
85 10 0.14
86 5 0.07
88 1 0.01
89 22 0.31
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (88 bp):
ATAAAATCTTATTAAACGGCGGAAATAAATCCTAAAACAAATTTTTATTTAATTTTAATTCTCTA
TTTTGGAAACAAAATAAAATGAG
Found at i:21890665 original size:121 final size:120
Alignment explanation
Indices: 21890447--21890666 Score: 397
Period size: 121 Copynumber: 1.8 Consensus size: 120
21890437 AATAACTATG
21890447 AGAATGAGAATAGTAATGTCATGGGTATGAGGTTTTCCTAATCTCGATTTAACACAGAATGTATG
1 AGAATGAGAATAGTAATGTCATGGGTATGAGGTTTTCCTAATCTCGATTTAACACAGAATGTATG
21890512 ATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGCATA
66 ATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGCATA
*
21890567 AGAATGAGCATAGTAATGTCATGGGTATGAGGTTTTCCTAATGACTCGATTTAACAC-GAATGTA
1 AGAATGAGAATAGTAATGTCATGGGTATGAGGTTTTCCTAAT--CTCGATTTAACACAGAATGTA
*
21890631 TGATAAGTAACCTAAGAATGCAAATTAAATGATAGA
64 TGATAACTAACCTAAGAATGCAAATTAAATGATAGA
21890667 ATAATGAGCA
Statistics
Matches: 96, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
120 41 0.43
121 42 0.44
122 13 0.14
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.29
Consensus pattern (120 bp):
AGAATGAGAATAGTAATGTCATGGGTATGAGGTTTTCCTAATCTCGATTTAACACAGAATGTATG
ATAACTAACCTAAGAATGCAAATTAAATGATAGACATTGGCATGGTAATAGCATA
Found at i:21896155 original size:27 final size:27
Alignment explanation
Indices: 21896107--21896211 Score: 126
Period size: 27 Copynumber: 3.9 Consensus size: 27
21896097 GCGAGGCTAC
* *
21896107 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
21896134 CAAATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
21896160 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
21896187 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
21896212 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
26 7 0.10
27 59 0.86
28 3 0.04
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:21896379 original size:28 final size:26
Alignment explanation
Indices: 21896317--21896390 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 26
21896307 AAATTAACCC
** * *
21896317 TAGGGGTATAACGGTAATTTTGTACC
1 TAGGGGTATAATAGTAATTTTATACA
21896343 TAGGGGTATAATAGTAATTTTCCATACA
1 TAGGGGTATAATAGTAATTTT--ATACA
*
21896371 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAATAGTAATTT
21896391 AGCTGCTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 19 0.46
28 22 0.54
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (26 bp):
TAGGGGTATAATAGTAATTTTATACA
Found at i:21897856 original size:26 final size:26
Alignment explanation
Indices: 21897825--21897932 Score: 164
Period size: 26 Copynumber: 4.2 Consensus size: 26
21897815 TGAAATGCCC
*
21897825 ATCATGGAATATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
21897851 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
21897877 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
21897903 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
21897929 ATCA
1 ATCA
21897933 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
25 3 0.04
26 72 0.96
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Done.