Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 69 of 182
Found at i:22061419 original size:15 final size:16
Alignment explanation
Indices: 22061393--22061433 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
22061383 ATTAATAAAT
22061393 AAATAA-ATTTAT-TA
1 AAATAATATTTATATA
* *
22061407 AAATCATATTTATATC
1 AAATAATATTTATATA
22061423 AAATAATATTT
1 AAATAATATTT
22061434 TTATTGAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 5 0.23
15 6 0.27
16 11 0.50
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATAATATTTATATA
Found at i:22062362 original size:79 final size:81
Alignment explanation
Indices: 22062171--22062377 Score: 242
Period size: 81 Copynumber: 2.6 Consensus size: 81
22062161 CTTTTTATTT
* * * * * * * *
22062171 ATTTATTATTTGTTTATTATTTAATTTTTAAAAATTTA-AATATTTTTTGGTGGAGCCATTTTAA
1 ATTTTTTATTTATTTATTATTTAATATTTAAATATATATATTA-TTTTTGGTGAAGCCATATTAA
*
22062235 ATGGCGCCACCTAATTA
65 ATGACGCCACCTAATTA
* *
22062252 ATTTTTTATTTATTTATTATATAATATTTAAATATATATATTATTTTTGGTGAAGCCCTATTAAA
1 ATTTTTTATTTATTTATTATTTAATATTTAAATATATATATTATTTTTGGTGAAGCCATATTAAA
*
22062317 TGACGTCACC-AGATTA
66 TGACGCCACCTA-ATTA
*
22062333 A-TTTTT-TTTATTTATTATTTAATATTTAAATATATAATATAATTT
1 ATTTTTTATTTATTTATTATTTAATATTTAAATATAT-ATATTATTT
22062378 AAATGTATAT
Statistics
Matches: 109, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
79 28 0.26
80 14 0.13
81 64 0.59
82 3 0.03
ACGTcount: A:0.34, C:0.07, G:0.08, T:0.52
Consensus pattern (81 bp):
ATTTTTTATTTATTTATTATTTAATATTTAAATATATATATTATTTTTGGTGAAGCCATATTAAA
TGACGCCACCTAATTA
Found at i:22066351 original size:22 final size:22
Alignment explanation
Indices: 22066323--22066373 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
22066313 ATATATTTAG
*
22066323 TGAAATTATATTACATAACACT
1 TGAAATTATATGACATAACACT
22066345 TGAAATTATATGACATAACACT
1 TGAAATTATATGACATAACACT
*
22066367 TAAAATT
1 TGAAATT
22066374 GGAATGAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (22 bp):
TGAAATTATATGACATAACACT
Found at i:22066700 original size:30 final size:30
Alignment explanation
Indices: 22066639--22066705 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
22066629 GTGTGTTCGG
*
22066639 AGGTTGATCCTCCGGGTCAGGCTCTACCAT
1 AGGTTGATCCTCCGGGTCAGGCTCCACCAT
* * *
22066669 AGGTTGATCCTTCGGGTC-GAGTTCCATCAT
1 AGGTTGATCCTCCGGGTCAG-GCTCCACCAT
22066699 AGGTTGA
1 AGGTTGA
22066706 CTTCCACGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 1 0.03
30 31 0.97
ACGTcount: A:0.18, C:0.24, G:0.28, T:0.30
Consensus pattern (30 bp):
AGGTTGATCCTCCGGGTCAGGCTCCACCAT
Found at i:22068763 original size:22 final size:22
Alignment explanation
Indices: 22068738--22068780 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
22068728 AAGGAGAATT
*
22068738 ATAA-AAATAATTAAATAATAAA
1 ATAACAAA-AATTAAAGAATAAA
*
22068760 ATAACAAACATTAAAGAATAA
1 ATAACAAAAATTAAAGAATAA
22068781 CAAAATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (22 bp):
ATAACAAAAATTAAAGAATAAA
Found at i:22069356 original size:24 final size:24
Alignment explanation
Indices: 22069312--22069363 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
22069302 ATATATATAT
22069312 ATATATATATATTTTATTTTAAAA
1 ATATATATATATTTTATTTTAAAA
*
22069336 ATATATATTTATGTTTA-TTTAAAA
1 ATATATATATAT-TTTATTTTAAAA
22069360 ATAT
1 ATAT
22069364 GATAAAATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 22 0.85
25 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
ATATATATATATTTTATTTTAAAA
Found at i:22078158 original size:52 final size:51
Alignment explanation
Indices: 22078080--22078278 Score: 254
Period size: 52 Copynumber: 3.8 Consensus size: 51
22078070 TAAGTCATAA
*
22078080 ATTAAGAGGTCCGATGACTCTGTGTCATTGTGAGTATATGAATCATTTACGG
1 ATTAAGAGGTCCGATGACTCTGTGTCATCGTGAGTATATGAATC-TTTACGG
* * * *
22078132 ATTAAGAGGTCCAATGACTCTGTGTCATTGTGAGTATCTGAATCCTTTACGA
1 ATTAAGAGGTCCGATGACTCTGTGTCATCGTGAGTATATGAAT-CTTTACGG
* * * *
22078184 ATTTAGAGGTCTGATGACTCTGTGTCATCGTGAGTATATGAATTCCTTACAG
1 ATTAAGAGGTCCGATGACTCTGTGTCATCGTGAGTATATGAA-TCTTTACGG
* * * *
22078236 ATTATGAGGTCCGGTGGCTATGTGTCATCGTGAGTATATGAAT
1 ATTAAGAGGTCCGATGACTCTGTGTCATCGTGAGTATATGAAT
22078279 GGAGAGCAAT
Statistics
Matches: 128, Mismatches: 17, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
51 1 0.01
52 125 0.98
53 2 0.02
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.35
Consensus pattern (51 bp):
ATTAAGAGGTCCGATGACTCTGTGTCATCGTGAGTATATGAATCTTTACGG
Found at i:22084904 original size:22 final size:22
Alignment explanation
Indices: 22084862--22084904 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
22084852 TAGCTAGCCT
**
22084862 ACGAGTTTTCATTCATTTTTGA
1 ACGAGTTTTCATTCAACTTTGA
*
22084884 ACGAGTTTTCTTTCAACTTTG
1 ACGAGTTTTCATTCAACTTTG
22084905 TGACTTTGTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (22 bp):
ACGAGTTTTCATTCAACTTTGA
Found at i:22097769 original size:55 final size:55
Alignment explanation
Indices: 22097701--22097812 Score: 224
Period size: 55 Copynumber: 2.0 Consensus size: 55
22097691 CACAATCTAG
22097701 GACATCAAAACAACAAGCATTATTCACATTTTGACAACATAAATATGTGCATTAA
1 GACATCAAAACAACAAGCATTATTCACATTTTGACAACATAAATATGTGCATTAA
22097756 GACATCAAAACAACAAGCATTATTCACATTTTGACAACATAAATATGTGCATTAA
1 GACATCAAAACAACAAGCATTATTCACATTTTGACAACATAAATATGTGCATTAA
22097811 GA
1 GA
22097813 GACATTATGA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 57 1.00
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.27
Consensus pattern (55 bp):
GACATCAAAACAACAAGCATTATTCACATTTTGACAACATAAATATGTGCATTAA
Found at i:22099368 original size:17 final size:17
Alignment explanation
Indices: 22099337--22099377 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
22099327 AAAGGTGTAA
* *
22099337 TTAATTTAAATTTTTTAT
1 TTAATTAAAATTTTAT-T
22099355 TTAATTAAAATTTTATT
1 TTAATTAAAATTTTATT
22099372 TTAATT
1 TTAATT
22099378 CAAGTTGGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TTAATTAAAATTTTATT
Found at i:22100817 original size:143 final size:143
Alignment explanation
Indices: 22100576--22100838 Score: 382
Period size: 143 Copynumber: 1.8 Consensus size: 143
22100566 ATCTTTACCT
* * * * * *
22100576 TATGGTTTGTATCAAAGGTCAATTTGACCATGCAATCAGTAATTTTATTGTAGTTCCTAAGAATA
1 TATGATTTGTATCAAAGGTCAATTTGAACATGCAATCAGCAATTTTATTGTAATCCCTAAAAATA
** * * * * * *
22100641 TGTTGTAAATCTCAAAGTTTTATATTCGTCAAAATATGATGAATACGTCTAATAAGGTCATTTTA
66 TGTTCCAAATCCCAAAGTCTTATATTCGCCAAAAGATAATAAATACGTCTAATAAGGTCATTTTA
22100706 AACACTTTTAGGC
131 AACACTTTTAGGC
* *
22100719 TATGATTTGTATCAAAGGTCATTTTGAATATGCAATCAGCAATTTTATTGTAATCCCTAAAAATA
1 TATGATTTGTATCAAAGGTCAATTTGAACATGCAATCAGCAATTTTATTGTAATCCCTAAAAATA
22100784 TGTTCCAAATCCCAAAGTCTTATATTCGCCAAAAGATAATAAATACGTCTAATAA
66 TGTTCCAAATCCCAAAGTCTTATATTCGCCAAAAGATAATAAATACGTCTAATAA
22100839 TATCAGAGCT
Statistics
Matches: 104, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
143 104 1.00
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (143 bp):
TATGATTTGTATCAAAGGTCAATTTGAACATGCAATCAGCAATTTTATTGTAATCCCTAAAAATA
TGTTCCAAATCCCAAAGTCTTATATTCGCCAAAAGATAATAAATACGTCTAATAAGGTCATTTTA
AACACTTTTAGGC
Found at i:22101697 original size:20 final size:19
Alignment explanation
Indices: 22101674--22101727 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
22101664 CCACATCAGT
22101674 AAATTATTTTAAAATTATTA
1 AAATTATTTTAAAATTA-TA
22101694 AAATTATTTTTTAAAA-TATA
1 AAATTA--TTTTAAAATTATA
22101714 AAA-TATTTTAAAAT
1 AAATTATTTTAAAAT
22101728 ATTTTTTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 8 0.26
19 2 0.06
20 11 0.35
21 2 0.06
22 8 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
AAATTATTTTAAAATTATA
Found at i:22101708 original size:22 final size:19
Alignment explanation
Indices: 22101680--22101722 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 19
22101670 CAGTAAATTA
22101680 TTTTAAAATTATTAAAATTATT
1 TTTTAAAA-TA-TAAAA-TATT
22101702 TTTTAAAATATAAAATATT
1 TTTTAAAATATAAAATATT
22101721 TT
1 TT
22101723 AAAATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.29
20 5 0.24
21 2 0.10
22 8 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAAAATATAAAATATT
Found at i:22101730 original size:29 final size:29
Alignment explanation
Indices: 22101683--22101753 Score: 108
Period size: 29 Copynumber: 2.4 Consensus size: 29
22101673 TAAATTATTT
22101683 TAAAATTATTAAAATTATTTTTTAAAATA
1 TAAAATTATTAAAATTATTTTTTAAAATA
* *
22101712 TAAAATATTTTAAAA-TATTTTTTCAAATA
1 TAAAAT-TATTAAAATTATTTTTTAAAATA
22101741 TAAAATTATTAAA
1 TAAAATTATTAAA
22101754 TAATTTTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.16
29 25 0.66
30 7 0.18
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (29 bp):
TAAAATTATTAAAATTATTTTTTAAAATA
Found at i:22101896 original size:35 final size:35
Alignment explanation
Indices: 22101807--22101913 Score: 164
Period size: 34 Copynumber: 3.1 Consensus size: 35
22101797 TCCAATTTCA
* *
22101807 TCTTCTTC-CCCATTTTTCCATCTAACATAACTTTT
1 TCTTC-TCACCCATTTTTCCATCTAACATCACTTCT
*
22101842 TCTTCTCA-CCATTTTTCCATCTAACACCACTTCT
1 TCTTCTCACCCATTTTTCCATCTAACATCACTTCT
22101876 TCTTCTCACCCATTTTTCCATCTAACATCACTTCT
1 TCTTCTCACCCATTTTTCCATCTAACATCACTTCT
22101911 TCT
1 TCT
22101914 CACACATTAC
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
34 33 0.50
35 33 0.50
ACGTcount: A:0.20, C:0.36, G:0.00, T:0.45
Consensus pattern (35 bp):
TCTTCTCACCCATTTTTCCATCTAACATCACTTCT
Found at i:22101961 original size:12 final size:12
Alignment explanation
Indices: 22101941--22101982 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
22101931 TCCATGGAAG
22101941 AAAAAAAAGACA
1 AAAAAAAAGACA
*
22101953 AAGAAAAAGACCA
1 AAAAAAAAGA-CA
*
22101966 AAAAAAAAAACA
1 AAAAAAAAGACA
22101978 AAAAA
1 AAAAA
22101983 GACAGATGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.83, C:0.10, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGACA
Found at i:22102472 original size:12 final size:12
Alignment explanation
Indices: 22102455--22102501 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
22102445 ATGGGAAATA
*
22102455 AAGAGGATGGAG
1 AAGAAGATGGAG
*
22102467 AAGAGGATGGAG
1 AAGAAGATGGAG
22102479 AAGAAGATGGAG
1 AAGAAGATGGAG
22102491 AAGAAGATGGA
1 AAGAAGATGGA
22102502 ATAATAGGGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.45, T:0.09
Consensus pattern (12 bp):
AAGAAGATGGAG
Found at i:22102665 original size:11 final size:11
Alignment explanation
Indices: 22102614--22102665 Score: 72
Period size: 11 Copynumber: 4.9 Consensus size: 11
22102604 TTATATTTAA
22102614 AAAATAATTTT
1 AAAATAATTTT
*
22102625 AAATTAATTTT
1 AAAATAATTTT
22102636 AAAATAATTTT
1 AAAATAATTTT
22102647 --AATAATTTT
1 AAAATAATTTT
*
22102656 AAAATCATTT
1 AAAATAATTT
22102666 GTTGACATGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
9 9 0.25
11 27 0.75
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:22108604 original size:24 final size:26
Alignment explanation
Indices: 22108576--22108640 Score: 98
Period size: 24 Copynumber: 2.5 Consensus size: 26
22108566 TTAATATAAT
22108576 ATTTGGTACTTAAACTTTTTT-T-TA
1 ATTTGGTACTTAAACTTTTTTATCTA
22108600 ATTTGGTACTTAAACTTTTTTGATCTA
1 ATTTGGTACTTAAACTTTTTT-ATCTA
*
22108627 ATTTGGTACCTAAA
1 ATTTGGTACTTAAA
22108641 TTTGACACTT
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
24 21 0.57
26 1 0.03
27 15 0.41
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTGGTACTTAAACTTTTTTATCTA
Found at i:22108661 original size:31 final size:31
Alignment explanation
Indices: 22108623--22108704 Score: 121
Period size: 31 Copynumber: 2.7 Consensus size: 31
22108613 ACTTTTTTGA
*
22108623 TCTAATTTGGTACCTAAATTTGACACTTTTT
1 TCTAATTTGGTACCTAAACTTGACACTTTTT
*
22108654 TCTAATTTGGTATCTAAACTTGACACTTTTT
1 TCTAATTTGGTACCTAAACTTGACACTTTTT
* *
22108685 T-TAAGTTGGTACTTAAACTT
1 TCTAATTTGGTACCTAAACTT
22108705 TTTTGGGTTC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 16 0.35
31 30 0.65
ACGTcount: A:0.27, C:0.15, G:0.11, T:0.48
Consensus pattern (31 bp):
TCTAATTTGGTACCTAAACTTGACACTTTTT
Found at i:22109079 original size:119 final size:118
Alignment explanation
Indices: 22108934--22109205 Score: 314
Period size: 119 Copynumber: 2.3 Consensus size: 118
22108924 TAAAAAAGCT
* * * * * * *
22108934 TACCAAATTAAGAAAAAAATGCCAAGTTCAGGTACGAAATTGAGTTC-AACAAAGTTTAGGTACC
1 TACCAAATTAAG-AAAAAATGTCAAGTTTAGGTACCAAATTGAGTCCAAAAAAAATTTAGGTAAC
* * * * *
22108998 AAATTAGGAAAAAAATGTTAAGTTCAAGTA-TCAAATTGAGTCCAAAAAAATTTAGG
65 AAATTAAG-AAAAAATGTCAAGTTCAAATACT-AAATTGAGT-CAAAAAAATGTAAG
* *
22109054 TACCAAATTAAGAAAAAGTGTCAAGTTTAAGTACCAAATTGAGTCCAAAAAAAATTTAGGTAACA
1 TACCAAATTAAGAAAAAATGTCAAGTTTAGGTACCAAATTGAGTCCAAAAAAAATTTAGGTAACA
** * *
22109119 AATTAAGAAAATGTGTCAAGTTCAAATACTAAATTGGGTCAAAAAAGTGTAAG
66 AATTAAGAAAAAATGTCAAGTTCAAATACTAAATTGAGTCAAAAAAATGTAAG
* *
22109172 TATCAAATTAAGAAAAAATATCAAGTTTAGGTAC
1 TACCAAATTAAGAAAAAATGTCAAGTTTAGGTAC
22109206 TAATTATTAT
Statistics
Matches: 128, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
118 41 0.32
119 53 0.41
120 34 0.27
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.26
Consensus pattern (118 bp):
TACCAAATTAAGAAAAAATGTCAAGTTTAGGTACCAAATTGAGTCCAAAAAAAATTTAGGTAACA
AATTAAGAAAAAATGTCAAGTTCAAATACTAAATTGAGTCAAAAAAATGTAAG
Found at i:22109098 original size:59 final size:59
Alignment explanation
Indices: 22108934--22109198 Score: 298
Period size: 60 Copynumber: 4.5 Consensus size: 59
22108924 TAAAAAAGCT
* * * * * *
22108934 TACCAAATTAAGAAAAAAATGCCAAGTTCAGGTACGAAATTGAGTTCAACAAAGTTTAGG
1 TACCAAATTAAG-AAAAAATGTCAAGTTCAAGTACCAAATTGAGTCCAAAAAAATTTAGG
* * *
22108994 TACCAAATTAGGAAAAAAATGTTAAGTTCAAGTATCAAATTGAGTCCAAAAAAATTTAGG
1 TACCAAATTAAG-AAAAAATGTCAAGTTCAAGTACCAAATTGAGTCCAAAAAAATTTAGG
* *
22109054 TACCAAATTAAGAAAAAGTGTCAAGTTTAAGTACCAAATTGAGTCCAAAAAAAATTTAGG
1 TACCAAATTAAGAAAAAATGTCAAGTTCAAGTACCAAATTGAGTCC-AAAAAAATTTAGG
* ** * * * * * *
22109114 TAACAAATTAAGAAAATGTGTCAAGTTCAAATACTAAATTGGGT-CAAAAAAGTGTAAG
1 TACCAAATTAAGAAAAAATGTCAAGTTCAAGTACCAAATTGAGTCCAAAAAAATTTAGG
* *
22109172 TATCAAATTAAGAAAAAATATCAAGTT
1 TACCAAATTAAGAAAAAATGTCAAGTT
22109199 TAGGTACTAA
Statistics
Matches: 177, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
58 33 0.19
59 31 0.18
60 113 0.64
ACGTcount: A:0.48, C:0.11, G:0.15, T:0.26
Consensus pattern (59 bp):
TACCAAATTAAGAAAAAATGTCAAGTTCAAGTACCAAATTGAGTCCAAAAAAATTTAGG
Found at i:22109660 original size:23 final size:23
Alignment explanation
Indices: 22109633--22109676 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
22109623 AATCTAAATT
22109633 TTAAAATTTCAAAAATAAAAAAA
1 TTAAAATTTCAAAAATAAAAAAA
*
22109656 TTAAAATTTTAAAAATAAAAA
1 TTAAAATTTCAAAAATAAAAA
22109677 TAAAAAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (23 bp):
TTAAAATTTCAAAAATAAAAAAA
Found at i:22109684 original size:23 final size:23
Alignment explanation
Indices: 22109635--22109686 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
22109625 TCTAAATTTT
*
22109635 AAAATTTCAAAAATAAAAAAATT
1 AAAATTTCAAAAATAAAAAAATA
*
22109658 AAAATTTTAAAAATAAAAATAA-A
1 AAAATTTCAAAAATAAAAA-AATA
22109681 AAAATT
1 AAAATT
22109687 AAATTTCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 24 0.92
24 2 0.08
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (23 bp):
AAAATTTCAAAAATAAAAAAATA
Found at i:22125438 original size:26 final size:26
Alignment explanation
Indices: 22125409--22125474 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
22125399 GCTGCATGAG
22125409 CATGTCCAAAATTGTCACTACATAAA
1 CATGTCCAAAATTGTCACTACATAAA
* ** * *
22125435 CATGTCCAGAATTGTCACTGTATGAG
1 CATGTCCAAAATTGTCACTACATAAA
22125461 CATGTCCAAAATTG
1 CATGTCCAAAATTG
22125475 CGCCCAGATA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (26 bp):
CATGTCCAAAATTGTCACTACATAAA
Found at i:22129221 original size:17 final size:17
Alignment explanation
Indices: 22129175--22129229 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
22129165 CACACATTCT
* *
22129175 CATTGTCATTACATTTT
1 CATTGTCATTGCATTTC
* * * *
22129192 AATTATCACTGCATTTG
1 CATTGTCATTGCATTTC
22129209 CATTGTCATTGCATTTC
1 CATTGTCATTGCATTTC
22129226 CATT
1 CATT
22129230 TGTTATGGTA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.24, C:0.20, G:0.09, T:0.47
Consensus pattern (17 bp):
CATTGTCATTGCATTTC
Found at i:22130284 original size:26 final size:26
Alignment explanation
Indices: 22130253--22130327 Score: 107
Period size: 26 Copynumber: 2.9 Consensus size: 26
22130243 CTAATGTCGC
* *
22130253 TGCATGAGTATGTCCAAAATTGTCACT
1 TGCATGAGCATGTCCAGAATTGTCA-T
*
22130280 T-CATGAACATGTCCAGAATTGTCAT
1 TGCATGAGCATGTCCAGAATTGTCAT
22130305 TGCATGAGCATGTCCAGAATTGT
1 TGCATGAGCATGTCCAGAATTGT
22130328 GCCTAGATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
25 2 0.05
26 40 0.93
27 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (26 bp):
TGCATGAGCATGTCCAGAATTGTCAT
Found at i:22132045 original size:25 final size:26
Alignment explanation
Indices: 22132016--22132089 Score: 78
Period size: 25 Copynumber: 2.8 Consensus size: 26
22132006 TTATAAGCCA
22132016 AACAAAATTACGCTCTTACGAGAAAG
1 AACAAAATTACGCTCTTACGAGAAAG
* * **
22132042 -ACAAATTTACGCTATTACGAGCCAG
1 AACAAAATTACGCTCTTACGAGAAAG
* *
22132067 AATCAGAATTACACTCTTACGAG
1 AA-CAAAATTACGCTCTTACGAG
22132090 CCAGAATCAT
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
25 21 0.55
26 1 0.03
27 16 0.42
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.23
Consensus pattern (26 bp):
AACAAAATTACGCTCTTACGAGAAAG
Found at i:22152958 original size:16 final size:15
Alignment explanation
Indices: 22152937--22152987 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 15
22152927 TCAGTCACTT
22152937 GAAAAAGAA-AAAATGA
1 GAAAAAGAAGAAAA--A
22152953 GAAAAAGGAAGAAAAA
1 GAAAAA-GAAGAAAAA
22152969 GAAAAAGAAGAAAAA
1 GAAAAAGAAGAAAAA
22152984 -AAAA
1 GAAAA
22152988 TTATGATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
14 4 0.12
15 9 0.27
16 13 0.39
17 3 0.09
18 4 0.12
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (15 bp):
GAAAAAGAAGAAAAA
Found at i:22152973 original size:15 final size:14
Alignment explanation
Indices: 22152954--22152987 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
22152944 AAAAAATGAG
*
22152954 AAAAAGGAAGAAAA
1 AAAAAAGAAGAAAA
22152968 AGAAAAAGAAGAAAA
1 A-AAAAAGAAGAAAA
22152983 AAAAA
1 AAAAA
22152988 TTATGATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (14 bp):
AAAAAAGAAGAAAA
Found at i:22156487 original size:19 final size:19
Alignment explanation
Indices: 22156463--22156501 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
22156453 TGATGATTTC
*
22156463 ATAATTTAA-AAATAAATTA
1 ATAA-TTAATAAAAAAATTA
22156482 ATAATTAATAAAAAAATTA
1 ATAATTAATAAAAAAATTA
22156501 A
1 A
22156502 ATATCATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAATTAATAAAAAAATTA
Found at i:22157310 original size:27 final size:27
Alignment explanation
Indices: 22157272--22157353 Score: 139
Period size: 27 Copynumber: 3.0 Consensus size: 27
22157262 CTATAACAAC
22157272 AACCCATTTGAGAGGTTTGAGCGGTGA
1 AACCCATTTGAGAGGTTTGAGCGGTGA
22157299 AACCCATTTGAGAGGTTTGAGCGGTGA
1 AACCCATTTGAGAGGTTTGAGCGGTGA
*
22157326 AACCCATTTGAG-GGATCTGAGCGGTGA
1 AACCCATTTGAGAGG-TTTGAGCGGTGA
22157353 A
1 A
22157354 GAAGTTCATC
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
26 2 0.04
27 51 0.96
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (27 bp):
AACCCATTTGAGAGGTTTGAGCGGTGA
Found at i:22158606 original size:7 final size:6
Alignment explanation
Indices: 22158589--22158620 Score: 55
Period size: 6 Copynumber: 5.2 Consensus size: 6
22158579 ATTGTTAAGT
22158589 AAAAGA AAAAGAA AAAAGA AAAAGA AAAAGA A
1 AAAAGA AAAAG-A AAAAGA AAAAGA AAAAGA A
22158621 TCTCTCAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:22158607 original size:13 final size:13
Alignment explanation
Indices: 22158589--22158617 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
22158579 ATTGTTAAGT
22158589 AAAAGAAAAAGAA
1 AAAAGAAAAAGAA
22158602 AAAAGAAAAAGAA
1 AAAAGAAAAAGAA
22158615 AAA
1 AAA
22158618 GAATCTCTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAGAA
Found at i:22158657 original size:32 final size:32
Alignment explanation
Indices: 22158616--22158679 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
22158606 GAAAAAGAAA
22158616 AAGAATCTCTCAACAACAAGTTAAACATTGTT
1 AAGAATCTCTCAACAACAAGTTAAACATTGTT
22158648 AAGAATCTCTCAACAACAAGTTAAACATTGTT
1 AAGAATCTCTCAACAACAAGTTAAACATTGTT
22158680 TTTAATTTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.44, C:0.19, G:0.09, T:0.28
Consensus pattern (32 bp):
AAGAATCTCTCAACAACAAGTTAAACATTGTT
Found at i:22160443 original size:22 final size:22
Alignment explanation
Indices: 22160418--22160459 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
22160408 TTAAAAGAAA
* *
22160418 CATAATTATTTAACTAATATCT
1 CATAACTATTCAACTAATATCT
*
22160440 CATAACTATTCAAGTAATAT
1 CATAACTATTCAACTAATAT
22160460 TGCTTGTATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.40
Consensus pattern (22 bp):
CATAACTATTCAACTAATATCT
Found at i:22163047 original size:63 final size:63
Alignment explanation
Indices: 22162948--22163073 Score: 234
Period size: 63 Copynumber: 2.0 Consensus size: 63
22162938 TCAAAACCAA
*
22162948 CCATGAAATTAAATACCTTAACTATACATGAATGCATGAAGCACACGAATAGTCACAAAACTT
1 CCATGAAATTAAATACCTTAACTATACATGAATGCATGAAGCACACAAATAGTCACAAAACTT
*
22163011 CCATGAAGTTAAATACCTTAACTATACATGAATGCATGAAGCACACAAATAGTCACAAAACTT
1 CCATGAAATTAAATACCTTAACTATACATGAATGCATGAAGCACACAAATAGTCACAAAACTT
22163074 TCATCTTGAT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.44, C:0.21, G:0.11, T:0.24
Consensus pattern (63 bp):
CCATGAAATTAAATACCTTAACTATACATGAATGCATGAAGCACACAAATAGTCACAAAACTT
Found at i:22163264 original size:117 final size:117
Alignment explanation
Indices: 22163058--22163295 Score: 334
Period size: 117 Copynumber: 2.0 Consensus size: 117
22163048 GAAGCACACA
** * *
22163058 AATAGTCACAAAACTTTCATCTTGATTGTCGACAATTAAAGGGACTTTGGCTAGTCAAATGGTTA
1 AATAGTCACAAAACTCCCATCTTGATGGTCGACAATTAAAGGGACTTTGGCTAGTCAAATGGTCA
* * * *
22163123 CTTAAGATGAATGTGAACCTTTTGGT-TTTTCGTCCATTAAGCCTGACCAATG
66 CTTAAAATCAATATGAACCTTTTGGTATTTT-GTCCATTAAACCTGACCAATG
* * * * *
22163175 AATAGTCACAAAACTCCCATCTTGGTGGTTGGCAATTAAAGGGTCTTTGGCTAGTCGAATGGTCA
1 AATAGTCACAAAACTCCCATCTTGATGGTCGACAATTAAAGGGACTTTGGCTAGTCAAATGGTCA
*
22163240 CTTAAAATCAATATGAACCTTTTGGTATTTTGTCCATTAAATCTGACCAATG
66 CTTAAAATCAATATGAACCTTTTGGTATTTTGTCCATTAAACCTGACCAATG
22163292 AATA
1 AATA
22163296 TGTGAATTTT
Statistics
Matches: 106, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
117 102 0.96
118 4 0.04
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (117 bp):
AATAGTCACAAAACTCCCATCTTGATGGTCGACAATTAAAGGGACTTTGGCTAGTCAAATGGTCA
CTTAAAATCAATATGAACCTTTTGGTATTTTGTCCATTAAACCTGACCAATG
Found at i:22163646 original size:62 final size:59
Alignment explanation
Indices: 22163537--22163817 Score: 318
Period size: 62 Copynumber: 4.8 Consensus size: 59
22163527 CAAAACAATC
*
22163537 AATGAAGCATAATT-AAAACACCACTTTATTTATGAATGCAACAAAACAAACAATGAAGCAT
1 AATGAAGCATAATTAAAAACACAACTTTATTTATGAA-GCAACAAAACAAACAA-GAA-CAT
22163598 AATGAAGCATAATTAAAAACACAACTTTATTTAT---GCAAC---A-AAAC-A-AAC--
1 AATGAAGCATAATTAAAAACACAACTTTATTTATGAAGCAACAAAACAAACAAGAACAT
* * *
22163646 AATGAATCATAATTAAAAACACCACTTTATTTATGAATGCAACAAAACAAACAATAAAACAT
1 AATGAAGCATAATTAAAAACACAACTTTATTTATGAA-GCAACAAAACAAAC-A-AGAACAT
22163708 AATGAAGCATAATTAAAAACATC-ACTTTATTTATGAATGCAACAAAACAAACAAGAAAACAT
1 AATGAAGCATAATTAAAAACA-CAACTTTATTTATGAA-GCAACAAAACAAACAAG--AACAT
* *
22163770 AATGAAGCATAATTAAAAACACAACTTTATTTATAAATGCAACTAAAC
1 AATGAAGCATAATTAAAAACACAACTTTATTTATGAA-GCAACAAAAC
22163818 TATCAATGAT
Statistics
Matches: 194, Mismatches: 7, Indels: 37
0.82 0.03 0.16
Matches are distributed among these distances:
48 32 0.16
50 1 0.01
51 2 0.01
52 5 0.03
53 1 0.01
54 4 0.02
55 2 0.01
56 4 0.02
58 5 0.03
59 1 0.01
60 4 0.02
61 16 0.08
62 116 0.60
63 1 0.01
ACGTcount: A:0.53, C:0.16, G:0.07, T:0.24
Consensus pattern (59 bp):
AATGAAGCATAATTAAAAACACAACTTTATTTATGAAGCAACAAAACAAACAAGAACAT
Found at i:22163657 original size:48 final size:51
Alignment explanation
Indices: 22163598--22163860 Score: 172
Period size: 52 Copynumber: 4.7 Consensus size: 51
22163588 AATGAAGCAT
*
22163598 AATGAAGCATAATTAAAAACACAACTTTA-TT-T-ATGCAACAAAACAAAC
1 AATGAAACATAATTAAAAACACAACTTTATTTATAATGCAACAAAACAAAC
* *
22163646 AATGAATCATAATTAAAAACACCACTTTATTTATGAATGCAACAAAACAAAC
1 AATGAAACATAATTAAAAACACAACTTTATTTAT-AATGCAACAAAACAAAC
* *
22163698 AATAAAACATAATGAAGCATAATTAAAAACATCACTTTATTTATGAATGCAACAAAACAAACAAG
1 AATGAAACATAAT------TAA--AAACACA--ACTTTATTTAT-AATGCAAC---A-AAAC---
22163763 AAAAC
48 -AAAC
* * * *
22163768 ATAATGAAGCATAATTAAAAACACAACTTTATTTATAAATGCAACTAAACTATC
1 --AATGAAACATAATTAAAAACACAACTTTATTTAT-AATGCAACAAAACAAAC
** * *
22163822 AATGATGCATAAATAAAAACACAACTTTTTTTATGAATG
1 AATGAAACATAATTAAAAACACAACTTTATTTAT-AATG
22163861 TAAATAAGCT
Statistics
Matches: 174, Mismatches: 17, Indels: 44
0.74 0.07 0.19
Matches are distributed among these distances:
48 27 0.16
49 2 0.01
50 1 0.01
52 62 0.36
54 2 0.01
58 7 0.04
60 5 0.03
62 39 0.22
64 6 0.03
65 1 0.01
66 7 0.04
70 4 0.02
72 11 0.06
ACGTcount: A:0.52, C:0.15, G:0.07, T:0.26
Consensus pattern (51 bp):
AATGAAACATAATTAAAAACACAACTTTATTTATAATGCAACAAAACAAAC
Found at i:22163713 original size:110 final size:112
Alignment explanation
Indices: 22163520--22163761 Score: 393
Period size: 110 Copynumber: 2.2 Consensus size: 112
22163510 CCGAAAAATG
*
22163520 AATGCAACAAAACAATCAATGAAGCATAATTAAAACACCACTTTATTTATGAATGCAACAAAACA
1 AATGCAACAAAACAAACAATGAAGCATAATTAAAACACCACTTTATTTATGAATGCAACAAAACA
* *
22163585 AACAATGAAGCATAATGAAGCATAATTAAAAACA-CAACTTTA-TT-T
66 AACAATAAAACATAATGAAGCATAATTAAAAACATC-ACTTTATTTAT
*
22163630 -ATGCAACAAAACAAACAATGAATCATAATTAAAAACACCACTTTATTTATGAATGCAACAAAAC
1 AATGCAACAAAACAAACAATGAAGCATAATT-AAAACACCACTTTATTTATGAATGCAACAAAAC
22163694 AAACAATAAAACATAATGAAGCATAATTAAAAACATCACTTTATTTAT
65 AAACAATAAAACATAATGAAGCATAATTAAAAACATCACTTTATTTAT
22163742 GAATGCAACAAAACAAACAA
1 -AATGCAACAAAACAAACAA
22163762 GAAAACATAA
Statistics
Matches: 122, Mismatches: 4, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
109 28 0.23
110 72 0.59
111 3 0.02
112 1 0.01
114 18 0.15
ACGTcount: A:0.54, C:0.17, G:0.07, T:0.23
Consensus pattern (112 bp):
AATGCAACAAAACAAACAATGAAGCATAATTAAAACACCACTTTATTTATGAATGCAACAAAACA
AACAATAAAACATAATGAAGCATAATTAAAAACATCACTTTATTTAT
Found at i:22163895 original size:17 final size:18
Alignment explanation
Indices: 22163857--22163893 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
22163847 TTTTTTTATG
22163857 AATGTAAATAAGCTTAAA
1 AATGTAAATAAGCTTAAA
*
22163875 AATGTAAATATGCTTAAA
1 AATGTAAATAAGCTTAAA
22163893 A
1 A
22163894 TGCTTATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.05, G:0.11, T:0.30
Consensus pattern (18 bp):
AATGTAAATAAGCTTAAA
Found at i:22164272 original size:35 final size:35
Alignment explanation
Indices: 22164196--22164283 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 35
22164186 TTATACTAAT
* * * *
22164196 TATGATTCGCATGTTAAGCATGCTATTATTTTGAC
1 TATGATTCGCATGTTAAGAATGCCATAATCTTGAC
*
22164231 TATGATTCGCATGTTAAGAATGCCATAAATCTT-AT
1 TATGATTCGCATGTTAAGAATGCCAT-AATCTTGAC
* *
22164266 TTTGATTCACATGTTAAG
1 TATGATTCGCATGTTAAG
22164284 CAGGACATTG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 41 0.91
36 4 0.09
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.41
Consensus pattern (35 bp):
TATGATTCGCATGTTAAGAATGCCATAATCTTGAC
Found at i:22164541 original size:49 final size:49
Alignment explanation
Indices: 22164417--22164546 Score: 120
Period size: 49 Copynumber: 2.6 Consensus size: 49
22164407 GGCAATATAA
* * * * *
22164417 CTGCAAATTTCTAGTGGCTTGTCCACAACATTCTGTATTTGGTAGTATAT
1 CTGC-AATATCTAGTGGCTTGTCCATAATATTCTATATTTGGTAGTAGAT
* * * * *
22164467 CTGCATTAGCTAGTGGCTCGACCATAATATTCTAT-TTCTGGTAGCTCGAT
1 CTGCAATATCTAGTGGCTTGTCCATAATATTCTATATT-TGGTAG-TAGAT
*
22164517 -TGCAATATCTAGTGGCTTGTCCATATTATT
1 CTGCAATATCTAGTGGCTTGTCCATAATATT
22164547 GGTGTGTTAT
Statistics
Matches: 63, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
48 2 0.03
49 54 0.86
50 7 0.11
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.39
Consensus pattern (49 bp):
CTGCAATATCTAGTGGCTTGTCCATAATATTCTATATTTGGTAGTAGAT
Found at i:22170820 original size:19 final size:20
Alignment explanation
Indices: 22170777--22170820 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
22170767 CAAAGAAATC
22170777 CAAAAATGTTGAATGAACTT
1 CAAAAATGTTGAATGAACTT
*
22170797 -GAAAATGTTGAATGAA-TT
1 CAAAAATGTTGAATGAACTT
22170815 CAAAAA
1 CAAAAA
22170821 AGAAAAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.50, C:0.07, G:0.16, T:0.27
Consensus pattern (20 bp):
CAAAAATGTTGAATGAACTT
Found at i:22178062 original size:6 final size:6
Alignment explanation
Indices: 22178054--22178091 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
22178044 ATGTATAATG
* *
22178054 TACATG TACATA TACATA TACATA TACAAA TACATA TA
1 TACATA TACATA TACATA TACATA TACATA TACATA TA
22178092 TATGCCTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.50, C:0.16, G:0.03, T:0.32
Consensus pattern (6 bp):
TACATA
Found at i:22191750 original size:22 final size:22
Alignment explanation
Indices: 22191725--22191768 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
22191715 ATCTTATTAT
22191725 TTTTAATTT-TTTTAAATATTTA
1 TTTTAATTTATTTT-AATATTTA
*
22191747 TTTTACTTTATTTTAATATTTA
1 TTTTAATTTATTTTAATATTTA
22191769 AATATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTTAATTTATTTTAATATTTA
Found at i:22196670 original size:24 final size:25
Alignment explanation
Indices: 22196587--22196694 Score: 91
Period size: 24 Copynumber: 4.4 Consensus size: 25
22196577 ACTGAGTCTT
*
22196587 CCAGA-AATTTAGCTCA-TACGAGC
1 CCAGACAAGTTAGCTCATTACGAGC
* * *
22196610 ACAAACAAAATTAGCTCA-TACGAGC
1 CCAGAC-AAGTTAGCTCATTACGAGC
* * *
22196635 CCATACAGGTTAGTTC-TTACGAGC
1 CCAGACAAGTTAGCTCATTACGAGC
*
22196659 CCAGATAAGTTAGCTCATT-CGAGC
1 CCAGACAAGTTAGCTCATTACGAGC
22196683 CCAGACAGAGTT
1 CCAGACA-AGTT
22196695 TAACCAGTAT
Statistics
Matches: 67, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
23 3 0.04
24 37 0.55
25 27 0.40
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (25 bp):
CCAGACAAGTTAGCTCATTACGAGC
Found at i:22202758 original size:9 final size:9
Alignment explanation
Indices: 22202720--22202765 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
22202710 ATCAACAAAT
*
22202720 AATTTTAAA
1 AATTATAAA
22202729 AGATTATAAA
1 A-ATTATAAA
*
22202739 AA--ATTAA
1 AATTATAAA
22202746 AATTATAAA
1 AATTATAAA
22202755 AATTATAAA
1 AATTATAAA
22202764 AA
1 AA
22202766 ATTTAGAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
7 6 0.19
9 17 0.55
10 8 0.26
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (9 bp):
AATTATAAA
Found at i:22202764 original size:25 final size:26
Alignment explanation
Indices: 22202720--22202768 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
22202710 ATCAACAAAT
*
22202720 AATTTTAAAAGATTATAAAAAATTAA
1 AATTATAAAAGATTATAAAAAATTAA
22202746 AATTATAAAA-ATTATAAAAAATT
1 AATTATAAAAGATTATAAAAAATT
22202769 TAGAAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (26 bp):
AATTATAAAAGATTATAAAAAATTAA
Found at i:22202765 original size:18 final size:18
Alignment explanation
Indices: 22202720--22202765 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 18
22202710 ATCAACAAAT
*
22202720 AATTTTAAAAGATTATAAA
1 AATTATAAAA-ATTATAAA
*
22202739 AA--ATTAAAATTATAAA
1 AATTATAAAAATTATAAA
22202755 AATTATAAAAA
1 AATTATAAAAA
22202766 ATTTAGAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 5
0.73 0.10 0.17
Matches are distributed among these distances:
16 10 0.45
17 4 0.18
18 6 0.27
19 2 0.09
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
AATTATAAAAATTATAAA
Found at i:22203765 original size:20 final size:21
Alignment explanation
Indices: 22203733--22203772 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
22203723 CAAGAAAATA
22203733 AAACAAAATTGG-CCCAAAAC
1 AAACAAAATTGGCCCCAAAAC
22203753 AAACGAAAA-TGGCCCCAAAA
1 AAAC-AAAATTGGCCCCAAAA
22203773 AACCTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.55, C:0.25, G:0.12, T:0.07
Consensus pattern (21 bp):
AAACAAAATTGGCCCCAAAAC
Found at i:22212034 original size:14 final size:14
Alignment explanation
Indices: 22211991--22212034 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
22211981 ACAAGTTAAC
22211991 TTAATATTTAATTTT
1 TTAATA-TTAATTTT
* *
22212006 TTAAAAATAATTTT
1 TTAATATTAATTTT
22212020 TTAATATTAAATTTT
1 TTAATATT-AATTTT
22212035 CTTTTAACTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTAATATTAATTTT
Found at i:22213944 original size:3 final size:3
Alignment explanation
Indices: 22213930--22213972 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
22213920 CATCTCTTCC
*
22213930 TCA TCA TTA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
22213973 TTGAATCTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.33, C:0.30, G:0.00, T:0.37
Consensus pattern (3 bp):
TCA
Found at i:22215619 original size:21 final size:21
Alignment explanation
Indices: 22215593--22215632 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
22215583 GGATGCTGAA
22215593 CTTTCAGGTATCGATAGAAGT
1 CTTTCAGGTATCGATAGAAGT
*
22215614 CTTTCAGGTATCGGTAGAA
1 CTTTCAGGTATCGATAGAA
22215633 CAAAAGTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.33
Consensus pattern (21 bp):
CTTTCAGGTATCGATAGAAGT
Found at i:22216110 original size:15 final size:14
Alignment explanation
Indices: 22216087--22216125 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
22216077 TTGGTATGAG
*
22216087 AAAATAAATGCTTAA
1 AAAATAAATGC-AAA
*
22216102 AATATAAATGCAAA
1 AAAATAAATGCAAA
22216116 AAAATAAATG
1 AAAATAAATG
22216126 ATAAACAGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.64, C:0.05, G:0.08, T:0.23
Consensus pattern (14 bp):
AAAATAAATGCAAA
Found at i:22216122 original size:14 final size:15
Alignment explanation
Indices: 22216087--22216130 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
22216077 TTGGTATGAG
*
22216087 AAAATAAATGCTTAA
1 AAAATAAATGCTAAA
*
22216102 AATATAAATGC-AAA
1 AAAATAAATGCTAAA
*
22216116 AAAATAAATGATAAA
1 AAAATAAATGCTAAA
22216131 CAGTAAATGG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.66, C:0.05, G:0.07, T:0.23
Consensus pattern (15 bp):
AAAATAAATGCTAAA
Found at i:22221788 original size:25 final size:25
Alignment explanation
Indices: 22221760--22221809 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
22221750 TTGTGTTATT
22221760 CTTATTCTTAAAATTGATTAATGCA
1 CTTATTCTTAAAATTGATTAATGCA
*
22221785 CTTATTCTTAATATTGATTAATGCA
1 CTTATTCTTAAAATTGATTAATGCA
22221810 TGCAAAAGTT
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:0.34, C:0.12, G:0.08, T:0.46
Consensus pattern (25 bp):
CTTATTCTTAAAATTGATTAATGCA
Found at i:22221996 original size:14 final size:14
Alignment explanation
Indices: 22221977--22222006 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
22221967 AGTTTAAATT
22221977 TTGAGTTAATTGAA
1 TTGAGTTAATTGAA
*
22221991 TTGAGTTATTTGAA
1 TTGAGTTAATTGAA
22222005 TT
1 TT
22222007 ATTCGAGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (14 bp):
TTGAGTTAATTGAA
Found at i:22222231 original size:19 final size:20
Alignment explanation
Indices: 22222194--22222246 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
22222184 ATTACAAAAA
*
22222194 AAAAAATTCAATATAATTTT
1 AAAAAATTCAAAATAATTTT
22222214 AAAAAATTCAAAAT-ATTTT
1 AAAAAATTCAAAATAATTTT
**
22222233 AAAATTTTCAAAAT
1 AAAAAATTCAAAAT
22222247 TTATATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAAATTCAAAATAATTTT
Found at i:22231197 original size:29 final size:29
Alignment explanation
Indices: 22231157--22231380 Score: 143
Period size: 29 Copynumber: 7.6 Consensus size: 29
22231147 AGAAGCCTCT
* * *
22231157 AAAAATCACATTTTGACCTCAAACTTTTC
1 AAAAATTACATTTTAACCTTAAACTTTTC
* *
22231186 TAAAATTACA-TTTAACCCTTAAACTTTACC
1 AAAAATTACATTTTAA-CCTTAAACTTT-TC
* *
22231216 GAAAATTAAATTTTAACCTTTAAACTTCTT-
1 AAAAATTACATTTTAACC-TTAAACTT-TTC
* *
22231246 AAAAATTTCATTTTGACCCTTAAACTTCTT-
1 AAAAATTACATTTT-AACCTTAAACTT-TTC
* *
22231276 AAAAATTATA-TTTAACCCCTAAACTATTT-
1 AAAAATTACATTTTAA-CCTTAAACT-TTTC
* * * * *
22231305 TAAAATTATATTTTGACCCTAAATTTTTC
1 AAAAATTACATTTTAACCTTAAACTTTTC
* * * * *
22231334 CAAAGTTATATTTTAGCGTTAAACTTTTC
1 AAAAATTACATTTTAACCTTAAACTTTTC
*
22231363 AAAAATTGCATTTTAACC
1 AAAAATTACATTTTAACC
22231381 CCTAAAATTC
Statistics
Matches: 153, Mismatches: 32, Indels: 20
0.75 0.16 0.10
Matches are distributed among these distances:
28 8 0.05
29 82 0.54
30 46 0.30
31 16 0.10
32 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.04, T:0.41
Consensus pattern (29 bp):
AAAAATTACATTTTAACCTTAAACTTTTC
Found at i:22231251 original size:30 final size:30
Alignment explanation
Indices: 22231187--22231391 Score: 133
Period size: 30 Copynumber: 6.9 Consensus size: 30
22231177 AAACTTTTCT
*
22231187 AAAATTACA-TTTAACCCTTAAAC-T-TTA
1 AAAATTATATTTTAACCCTTAAACTTCTTA
* *
22231214 CCGAAAATTAAATTTTAACCTTTAAACTTCTTA
1 ---AAAATTATATTTTAACCCTTAAACTTCTTA
*
22231247 AAAATT-TCATTTTGACCCTTAAACTTCTTA
1 AAAATTAT-ATTTTAACCCTTAAACTTCTTA
* *
22231277 AAAATTATA-TTTAACCCCTAAACTAT-TTT
1 AAAATTATATTTTAACCCTTAAACT-TCTTA
* * *
22231306 AAAATTATATTTTGACCC-TAAA-TTTTTCC
1 AAAATTATATTTTAACCCTTAAACTTCTT-A
* * *
22231335 AAAGTTATATTTT-AGCGTTAAACTT-TTCA
1 AAAATTATATTTTAACCCTTAAACTTCTT-A
** * *
22231364 AAAATTGCATTTTAACCCCTAAAATTCT
1 AAAATTATATTTTAACCCTTAAACTTCT
22231392 ACAAAACTTC
Statistics
Matches: 141, Mismatches: 21, Indels: 25
0.75 0.11 0.13
Matches are distributed among these distances:
27 1 0.01
28 5 0.04
29 57 0.40
30 59 0.42
31 15 0.11
32 1 0.01
33 3 0.02
ACGTcount: A:0.38, C:0.18, G:0.03, T:0.41
Consensus pattern (30 bp):
AAAATTATATTTTAACCCTTAAACTTCTTA
Found at i:22235032 original size:12 final size:12
Alignment explanation
Indices: 22235012--22235046 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
22235002 ATCCAAAGAG
*
22235012 AGATACAAGAAT
1 AGATGCAAGAAT
22235024 AGATGCAAGAAT
1 AGATGCAAGAAT
*
22235036 AGTTGCAAGAA
1 AGATGCAAGAA
22235047 CAAATTGCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.51, C:0.09, G:0.23, T:0.17
Consensus pattern (12 bp):
AGATGCAAGAAT
Found at i:22237411 original size:18 final size:18
Alignment explanation
Indices: 22237388--22237425 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
22237378 CCGATTAACA
22237388 GCTCTTATATGAAAGGAT
1 GCTCTTATATGAAAGGAT
*
22237406 GCTCTTATATGAAGGGAT
1 GCTCTTATATGAAAGGAT
22237424 GC
1 GC
22237426 AATAATATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (18 bp):
GCTCTTATATGAAAGGAT
Found at i:22239029 original size:4 final size:4
Alignment explanation
Indices: 22239020--22239056 Score: 60
Period size: 4 Copynumber: 9.8 Consensus size: 4
22239010 AAATAGGTCA
22239020 AAAG AAAG AAAG AAAG AAAG AAAG AAA- AAA- AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
22239057 AAGAAAAGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 6 0.19
4 26 0.81
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:22239168 original size:19 final size:20
Alignment explanation
Indices: 22239118--22239162 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
22239108 AAAAAATGAA
22239118 AAAAGAAAAAGAAAAGCAAGG
1 AAAAG-AAAAGAAAAGCAAGG
22239139 AAAAGAAAAGAAAAG-AAGG
1 AAAAGAAAAGAAAAGCAAGG
22239158 AAAAG
1 AAAAG
22239163 TCAAGATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 9 0.38
20 10 0.42
21 5 0.21
ACGTcount: A:0.73, C:0.02, G:0.24, T:0.00
Consensus pattern (20 bp):
AAAAGAAAAGAAAAGCAAGG
Found at i:22240017 original size:6 final size:6
Alignment explanation
Indices: 22239985--22240051 Score: 89
Period size: 6 Copynumber: 10.3 Consensus size: 6
22239975 AAAAAGTGAG
22239985 AGAAAA GAGAAGAA ATGAAAA AGGAAAA AGAAAA AGAAAAA AGAAAA AGAAAA
1 AGAAAA -AGAA-AA A-GAAAA A-GAAAA AGAAAA AG-AAAA AGAAAA AGAAAA
22240038 AGAAAA AGAAAA AG
1 AGAAAA AGAAAA AG
22240052 GAGAGGTCAC
Statistics
Matches: 56, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
6 31 0.55
7 20 0.36
8 5 0.09
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (6 bp):
AGAAAA
Found at i:22241162 original size:49 final size:49
Alignment explanation
Indices: 22240895--22241167 Score: 169
Period size: 49 Copynumber: 5.6 Consensus size: 49
22240885 TATACTTTAA
* * * * * **
22240895 AGATGTGAAGGAAAAAATTGAGGCCACAATGGCGAATCTCT-TACCTTAG
1 AGATGTGAAGGGAAAGATTGAGGCCGCAACGGCGAACCT-TATACCCAAG
* * * * *
22240944 -GAATGTGAAGGGAAAGATTGAGGCTGCAACGACGAATCTTGTACCCTAG
1 AG-ATGTGAAGGGAAAGATTGAGGCCGCAACGGCGAACCTTATACCCAAG
* * * * **
22240993 AGATGTGAAGGGAAAGGTTGAGGTCGTAACGGCAAACCTTATACCTTAG
1 AGATGTGAAGGGAAAGATTGAGGCCGCAACGGCGAACCTTATACCCAAG
* ** * ** * * * *
22241042 AAATAAGAAAGCCAA-ATT-AGAGCAGCAACGGTGAATCTTAAACCCTAA-
1 AGATGTGAAGGGAAAGATTGAG-GCCGCAACGGCGAACCTTATACCC-AAG
* * * * *
22241090 AGATGTGAAGAGAAAGGTCGAGGCCGTAACGGTGAACCTTATACCCAAG
1 AGATGTGAAGGGAAAGATTGAGGCCGCAACGGCGAACCTTATACCCAAG
*
22241139 AGATGTGAAGGGAAAGATTGAGGCTGCAA
1 AGATGTGAAGGGAAAGATTGAGGCCGCAA
22241168 AGACGAATTT
Statistics
Matches: 166, Mismatches: 50, Indels: 16
0.72 0.22 0.07
Matches are distributed among these distances:
47 2 0.01
48 30 0.18
49 131 0.79
50 3 0.02
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.19
Consensus pattern (49 bp):
AGATGTGAAGGGAAAGATTGAGGCCGCAACGGCGAACCTTATACCCAAG
Found at i:22241184 original size:97 final size:98
Alignment explanation
Indices: 22240945--22241191 Score: 275
Period size: 97 Copynumber: 2.5 Consensus size: 98
22240935 TTACCTTAGG
* * *
22240945 AATGTGAAGGGAAAGATTGAGGCTGCAACGACGAATCTTGTACCCTAGAGATGTGAAGGGAAAGG
1 AATGTGAAGGGAAAGATTGAGGCTGCAACGACGAATCTTATACCCTAAAGATGTGAAGAGAAAGG
* * **
22241010 TTGAGGTCGTAACGGCAAACCTTATACCTTAGA
66 TCGAGGCCGTAACGGCAAACCTTATACCCAAGA
** * ** * ** *
22241043 AATAAGAAAGCCAA-ATT-AGAGCAGCAACGGTGAATCTTAAACCCTAAAGATGTGAAGAGAAAG
1 AATGTGAAGGGAAAGATTGAG-GCTGCAACGACGAATCTTATACCCTAAAGATGTGAAGAGAAAG
**
22241106 GTCGAGGCCGTAACGGTGAACCTTATACCCAAGA
65 GTCGAGGCCGTAACGGCAAACCTTATACCCAAGA
* * *
22241140 GATGTGAAGGGAAAGATTGAGGCTGCAAAGACGAAT-TTATACCCTGAAGATG
1 AATGTGAAGGGAAAGATTGAGGCTGCAACGACGAATCTTATACCCTAAAGATG
22241192 AAGCAAACTA
Statistics
Matches: 116, Mismatches: 30, Indels: 7
0.76 0.20 0.05
Matches are distributed among these distances:
96 2 0.02
97 89 0.77
98 23 0.20
99 2 0.02
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.19
Consensus pattern (98 bp):
AATGTGAAGGGAAAGATTGAGGCTGCAACGACGAATCTTATACCCTAAAGATGTGAAGAGAAAGG
TCGAGGCCGTAACGGCAAACCTTATACCCAAGA
Found at i:22241646 original size:123 final size:123
Alignment explanation
Indices: 22241428--22242350 Score: 1294
Period size: 123 Copynumber: 7.5 Consensus size: 123
22241418 AAAAAAAATG
* * * * *
22241428 AAGCGATCATCTTCCTAATAAGATATAGAGAAGTAGACCAAAATAATGAAGCGAAGCTCAATGCG
1 AAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAATGAAGCGAAGCTCAATGTG
* * * * *
22241493 ATTGAAACTTCAAAACCTTATCTTCCTGATGAGATACAGAGAAGTGGGTCAGACAA-C
66 AGTGAAACTTCAAACCCTCATCTTCCTGATGAGATACAGAGAAGTGGATCAAACAATC
* * * *
22241550 GAAGCAGTCATTTTCCTGATGAGATACAGAGAAGCA-ATCCAAAATAATGAAGTGAAGCTCAATG
1 -AAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGA-CCAAAATAATGAAGCGAAGCTCAATG
* *
22241614 TGAGTGAAACTTCAAACCCTCATCTTCTTGATGAGATACAGAGAAGTGGATCAAACAACC
64 TGAGTGAAACTTCAAACCCTCATCTTCCTGATGAGATACAGAGAAGTGGATCAAACAATC
* * * * * *
22241674 GAGCGGTCATCTTCCTGATAAGAAACAGAGAAGTTGACCAAAATAATGAAGCGAAACTCAATGTC
1 AAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAATGAAGCGAAGCTCAATGTG
** * *
22241739 AGCAAAACTTCAAACCCTCATCTTCCTGATGAGATACAAAGAAGTGGATCAAACATTC
66 AGTGAAACTTCAAACCCTCATCTTCCTGATGAGATACAGAGAAGTGGATCAAACAATC
* * * *
22241797 AAGCGGTCATCTTCTTGATTAGATACAGAGAAGCAGACCAAAATAATGAAGTGAAGCTCAATGTG
1 AAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAATGAAGCGAAGCTCAATGTG
* *
22241862 AGTGAAACTTCAAACCCCCATCTTCCTGATGAGATACAGAAAAGTGGATCAAACAATC
66 AGTGAAACTTCAAACCCTCATCTTCCTGATGAGATACAGAGAAGTGGATCAAACAATC
* * * * *
22241920 GAGCGGTCTTCTTCCTGATGAGATATAGAGAAGTAGACCAAAATAATGAAGCGAAGTTCAATGTC
1 AAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAATGAAGCGAAGCTCAATGTG
* * * *
22241985 AGTGAAACTTCAAACCCCCATCTTCTTGATGAAATACAGAGAAGTGGATCAAACAGTC
66 AGTGAAACTTCAAACCCTCATCTTCCTGATGAGATACAGAGAAGTGGATCAAACAATC
* * *
22242043 AAGCGATCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAATGAAGCAAAGCCCAATGTG
1 AAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAATGAAGCGAAGCTCAATGTG
*
22242108 AGTGAAACTTCAAACCCCCATCTTCCTGATGAGATACAGAGAAGTGGATCAAACAATC
66 AGTGAAACTTCAAACCCTCATCTTCCTGATGAGATACAGAGAAGTGGATCAAACAATC
* * * * *
22242166 AAGCGGTCATCTTCCTGATGAGATATAGAGAAGTAAACCAAAATAATAAAGTGAAGCTCAATGTC
1 AAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAATGAAGCGAAGCTCAATGTG
* * * *
22242231 AGCGAAACTTCAAACCCTCATCTTCCTAATGA-ATCACAAAGAAGTGGATCAAATAATC
66 AGTGAAACTTCAAACCCTCATCTTCCTGATGAGAT-ACAGAGAAGTGGATCAAACAATC
* *
22242289 AAGTGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAATGAAGCAAAGCTCAAT
1 AAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAATGAAGCGAAGCTCAAT
22242351 AGAAGCGGAT
Statistics
Matches: 707, Mismatches: 89, Indels: 8
0.88 0.11 0.01
Matches are distributed among these distances:
122 3 0.00
123 702 0.99
124 2 0.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (123 bp):
AAGCGGTCATCTTCCTGATGAGATACAGAGAAGTAGACCAAAATAATGAAGCGAAGCTCAATGTG
AGTGAAACTTCAAACCCTCATCTTCCTGATGAGATACAGAGAAGTGGATCAAACAATC
Found at i:22243821 original size:30 final size:29
Alignment explanation
Indices: 22243771--22243977 Score: 143
Period size: 30 Copynumber: 6.9 Consensus size: 29
22243761 TATTTTATCT
*
22243771 AAAAATCACATTTTGACCCTAAACTT-TTCC
1 AAAAAT-ACATTTTAACCCTAAACTTCTT-C
*
22243801 AAAAATACATTTTAATCCCTAAACTT-TACC
1 AAAAATACATTTTAA-CCCTAAACTTCT-TC
* * *
22243831 AAAAATTAAATTTTAACCTTTAAACTTCTTG
1 AAAAA-TACATTTTAACC-CTAAACTTCTTC
* ** *
22243862 AAAATTACATTTTAAACCCTTTACTTCTTG
1 AAAAATACATTTT-AACCCTAAACTTCTTC
** * *
22243892 AAAGTTACATTTTGACCTCTATACTTCTT-
1 AAAAATACATTTTAACC-CTAAACTTCTTC
22243921 AAAAATTACATTTTAACCCCTAAACTT-TTC
1 AAAAA-TACATTTTAA-CCCTAAACTTCTTC
* *
22243951 TAAAATTACATTTTAATCCTCAAACTT
1 -AAAAATACATTTTAACCCT-AAACTT
22243978 ATCTATAATT
Statistics
Matches: 145, Mismatches: 20, Indels: 24
0.77 0.11 0.13
Matches are distributed among these distances:
29 19 0.13
30 95 0.66
31 30 0.21
32 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.39
Consensus pattern (29 bp):
AAAAATACATTTTAACCCTAAACTTCTTC
Found at i:22243866 original size:60 final size:60
Alignment explanation
Indices: 22243771--22243977 Score: 190
Period size: 60 Copynumber: 3.5 Consensus size: 60
22243761 TATTTTATCT
* * *
22243771 AAAAATCACATTTTGACC-CTAAACTT-TTCCAAAAA-TACATTTTAATCCCTAAACTTTACC
1 AAAAATTACATTTTAACCTCTAAACTTCTT--AAAAATTACATTTTAAACCCTAAACTTT-CC
* * * ** *
22243831 AAAAATTAAATTTTAACCTTTAAACTTCTTGAAAATTACATTTTAAACCCTTTAC-TTCTT
1 AAAAATTACATTTTAACCTCTAAACTTCTTAAAAATTACATTTTAAACCCTAAACTTTC-C
* * * * * *
22243891 GAAAGTTACATTTTGACCTCTATACTTCTTAAAAATTACATTTTAACCCCTAAACTTTTC
1 AAAAATTACATTTTAACCTCTAAACTTCTTAAAAATTACATTTTAAACCCTAAACTTTCC
*
22243951 TAAAATTACATTTTAATCCTC-AAACTT
1 AAAAATTACATTTTAA-CCTCTAAACTT
22243978 ATCTATAATT
Statistics
Matches: 116, Mismatches: 25, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
59 1 0.01
60 84 0.72
61 29 0.25
62 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.39
Consensus pattern (60 bp):
AAAAATTACATTTTAACCTCTAAACTTCTTAAAAATTACATTTTAAACCCTAAACTTTCC
Found at i:22247092 original size:21 final size:22
Alignment explanation
Indices: 22247068--22247109 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
22247058 ACATGGATAA
22247068 TAAATAAAAA-TATATAACAAT
1 TAAATAAAAATTATATAACAAT
22247089 TAAATAAAAATTATATAACAA
1 TAAATAAAAATTATATAACAA
22247110 AAATGATGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAATAAAAATTATATAACAAT
Found at i:22247120 original size:3 final size:3
Alignment explanation
Indices: 22247112--22247140 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
22247102 TATAACAAAA
22247112 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
22247141 AATAATGATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:22247145 original size:3 final size:3
Alignment explanation
Indices: 22247139--22247191 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
22247129 GATGATGATG
*
22247139 ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
22247187 ATA AT
1 ATA AT
22247192 TCAATCATGA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:22249503 original size:50 final size:50
Alignment explanation
Indices: 22249449--22249600 Score: 146
Period size: 50 Copynumber: 3.0 Consensus size: 50
22249439 TAATCCAATA
*
22249449 CACTGTAACTTTAGGGATATAAGATTTGATGCCGTAGCTTCATCTTGCTC
1 CACTGTAACTTTAGGGATATAAGATTTGATGTCGTAGCTTCATCTTGCTC
* ** * * * * *
22249499 CACTGCAACTTTAAAGAGATAAGATTTGCTTTCGTAGCTTTAAT-TCGAC-C
1 CACTGTAACTTTAGGGATATAAGATTTGATGTCGTAGC-TTCATCTTG-CTC
* * * * *
22249549 CGCTGTAATTTTAGGGGTATAGGATTTGATGTTGTAGCTTCATCTTGCTC
1 CACTGTAACTTTAGGGATATAAGATTTGATGTCGTAGCTTCATCTTGCTC
22249599 CA
1 CA
22249601 TTGCCTCTTT
Statistics
Matches: 75, Mismatches: 23, Indels: 8
0.71 0.22 0.08
Matches are distributed among these distances:
49 5 0.07
50 65 0.87
51 5 0.07
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.37
Consensus pattern (50 bp):
CACTGTAACTTTAGGGATATAAGATTTGATGTCGTAGCTTCATCTTGCTC
Found at i:22249575 original size:100 final size:100
Alignment explanation
Indices: 22249304--22249880 Score: 422
Period size: 100 Copynumber: 5.8 Consensus size: 100
22249294 ACTTCACCGT
* * * * *
22249304 AACTTCAAAAAGATAGGATTTGCTTCTGTAACTTCAATCCGACCCACTGTAACTTTAGGGGTATA
1 AACTTTAAAGAGATAAGATTTGCTTCTGTAGCTTTAATCCGACCCACTGTAACTTTAGGGGTATA
* * * * * ** **
22249369 AAATTTGGTGTAGCAACTTCATCTTGCTCTGCAAC
66 AGATTTGATGTTGTAGCTTCATCTTGCTCCACTGC
* * * ** *
22249404 AACTTCAGAGAGATAAAGATTTGCTT-TCGTAGCTTTAATCCAATACACTGTAACTTTAGGGATA
1 AACTTTAAAGAGAT-AAGATTTGCTTCT-GTAGCTTTAATCCGACCCACTGTAACTTTAGGGGTA
**
22249468 TAAGATTTGATGCCGTAGCTTCATCTTGCTCCACTGC
64 TAAGATTTGATGTTGTAGCTTCATCTTGCTCCACTGC
* * *
22249505 AACTTTAAAGAGATAAGATTTGCTT-TCGTAGCTTTAATTCGACCCGCTGTAATTTTAGGGGTAT
1 AACTTTAAAGAGATAAGATTTGCTTCT-GTAGCTTTAATCCGACCCACTGTAACTTTAGGGGTAT
* *
22249569 AGGATTTGATGTTGTAGCTTCATCTTGCTCCATTGC
65 AAGATTTGATGTTGTAGCTTCATCTTGCTCCACTGC
** * * * * * **
22249605 CTCTTTAAGGAGATAAGATTTTCTTCTATAGCTTTAATCTGACCCACTGTAAATTTATAGGTATA
1 AACTTTAAAGAGATAAGATTTGCTTCTGTAGCTTTAATCCGACCCACTGTAACTTTAGGGGTATA
* * * *
22249670 GGA-TTCAGTGTTGTAGCCTT-ATCTTGCTCGACTGT
66 AGATTTGA-TGTTGTAG-CTTCATCTTGCTCCACTGC
** * * * * *
22249705 AACTTTAGGGAGATAAGATATGCCAT-TGTAG-TTTCAAT-----CCATTATAA-TTTCAGGGAT
1 AACTTTAAAGAGATAAGATTTG-CTTCTGTAGCTTT-AATCCGACCCACTGTAACTTT-AGGGGT
** * * *
22249762 ATAAGATTTGATGTCATAACTTCATCTTGCTCTATTGC
63 ATAAGATTTGATGTTGTAGCTTCATCTTGCTCCACTGC
* ** * * * * * * *
22249800 ATCTTTAGGGAGATAATATTTGCTTTCTGCAACTTTCATCCGACCCATTGTAACTTCAGGAGTAT
1 AACTTTAAAGAGATAAGATTTGC-TTCTGTAGCTTTAATCCGACCCACTGTAACTTTAGGGGTAT
*
22249865 AAGATTTGGTGTTGTA
65 AAGATTTGATGTTGTA
22249881 TTGATCCCTC
Statistics
Matches: 377, Mismatches: 81, Indels: 37
0.76 0.16 0.07
Matches are distributed among these distances:
94 7 0.02
95 52 0.14
96 8 0.02
97 3 0.01
99 6 0.02
100 187 0.50
101 112 0.30
102 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (100 bp):
AACTTTAAAGAGATAAGATTTGCTTCTGTAGCTTTAATCCGACCCACTGTAACTTTAGGGGTATA
AGATTTGATGTTGTAGCTTCATCTTGCTCCACTGC
Found at i:22257407 original size:20 final size:20
Alignment explanation
Indices: 22257382--22257419 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
22257372 TACGGACAAT
22257382 AAATAA-ATAAATAAAAATAA
1 AAATAATAT-AATAAAAATAA
22257402 AAATAATATAATAAAAAT
1 AAATAATATAATAAAAAT
22257420 GATAATATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (20 bp):
AAATAATATAATAAAAATAA
Found at i:22257611 original size:19 final size:21
Alignment explanation
Indices: 22257589--22257645 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 21
22257579 AAAAAGTAAC
22257589 AAAATAAACA-AAAA-AAATA
1 AAAATAAACATAAAATAAATA
*
22257608 AAAATAAAGATAAAATAAAT-
1 AAAATAAACATAAAATAAATA
22257628 -AAATAAACA-ACAAATAAA
1 AAAATAAACATA-AAATAAA
22257646 AACAACCAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 1 0.03
19 24 0.73
20 4 0.12
21 4 0.12
ACGTcount: A:0.79, C:0.05, G:0.02, T:0.14
Consensus pattern (21 bp):
AAAATAAACATAAAATAAATA
Found at i:22257965 original size:29 final size:30
Alignment explanation
Indices: 22257918--22257992 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
22257908 AAAATATAAA
* ** * *
22257918 AAAATAAAATTAACGGAAAAATACGAAA-T
1 AAAATAAAATAAAATGAAAAAGACAAAATT
*
22257947 AAAATAAAATAAAATGAAAAGGACAAAATT
1 AAAATAAAATAAAATGAAAAAGACAAAATT
22257977 AAAATAAACATAAAAT
1 AAAATAAA-ATAAAAT
22257993 CGGAGGGACT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 22 0.58
30 9 0.24
31 7 0.18
ACGTcount: A:0.69, C:0.05, G:0.08, T:0.17
Consensus pattern (30 bp):
AAAATAAAATAAAATGAAAAAGACAAAATT
Found at i:22280904 original size:46 final size:46
Alignment explanation
Indices: 22280837--22280938 Score: 168
Period size: 46 Copynumber: 2.2 Consensus size: 46
22280827 TATTACAACT
* * *
22280837 TAGTAGTACACCACATGATAACTACAATATTTTCTAAGTGCATAAC
1 TAGTATTACACCACATGATAACTACAATATTGTCCAAGTGCATAAC
22280883 TAGTATTACACCACATGATAACTACAATATTGTCCAAGTGCATAAC
1 TAGTATTACACCACATGATAACTACAATATTGTCCAAGTGCATAAC
*
22280929 TAATATTACA
1 TAGTATTACA
22280939 AATTAGAAGT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (46 bp):
TAGTATTACACCACATGATAACTACAATATTGTCCAAGTGCATAAC
Found at i:22280927 original size:24 final size:24
Alignment explanation
Indices: 22280854--22280930 Score: 63
Period size: 24 Copynumber: 3.3 Consensus size: 24
22280844 ACACCACATG
* *
22280854 ATAACTACAATATTTTCTAAGTGC
1 ATAACTACAATATTCTCCAAGTGC
* *
22280878 ATAACT--AGTATTACACCACA-TG-
1 ATAACTACAATATT-CTCCA-AGTGC
*
22280900 ATAACTACAATATTGTCCAAGTGC
1 ATAACTACAATATTCTCCAAGTGC
22280924 ATAACTA
1 ATAACTA
22280931 ATATTACAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
22 12 0.30
23 9 0.22
24 19 0.47
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.31
Consensus pattern (24 bp):
ATAACTACAATATTCTCCAAGTGC
Found at i:22281045 original size:109 final size:105
Alignment explanation
Indices: 22280824--22281038 Score: 304
Period size: 109 Copynumber: 2.0 Consensus size: 105
22280814 AAACCACAAT
* * * * * *
22280824 TAATATTACAACTTAGTAGTACACCACATGATAACTACAATATTTTCTAAGTGCATAACTAGTAT
1 TAATATTACAAATTAGAAGTACACCACATGATAACTACAATATTTTCCAAGTACATAACTAATAG
*
22280889 TACACCACATGATAACTACAATATTGTCCAAGTGCATAAC
66 TACACCACATGATAACTAAAATATTGTCCAAGTGCATAAC
** *
22280929 TAATATTACAAATTAGAAGTACACCACATGATTGCTACAAATAATATTATCCAAGTACATAATTA
1 TAATATTACAAATTAGAAGTACACCACATGATAACTAC-AAT-AT-TT-TCCAAGTACATAACTA
22280994 ATAGTACACCACATGATAACTAAAATATTGTCCAAGTGCATAAC
62 ATAGTACACCACATGATAACTAAAATATTGTCCAAGTGCATAAC
22281038 T
1 T
22281039 TGTATTAGAC
Statistics
Matches: 96, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
105 34 0.35
106 3 0.03
107 2 0.02
108 2 0.02
109 55 0.57
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (105 bp):
TAATATTACAAATTAGAAGTACACCACATGATAACTACAATATTTTCCAAGTACATAACTAATAG
TACACCACATGATAACTAAAATATTGTCCAAGTGCATAAC
Found at i:22281946 original size:21 final size:21
Alignment explanation
Indices: 22281922--22281963 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
22281912 GAATCAAAGA
22281922 AAAGAAAAAGAAAACTTTGTC
1 AAAGAAAAAGAAAACTTTGTC
22281943 AAAGAAAAAGAAAACTTTGTC
1 AAAGAAAAAGAAAACTTTGTC
22281964 TTCTCTTCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.10, G:0.14, T:0.19
Consensus pattern (21 bp):
AAAGAAAAAGAAAACTTTGTC
Found at i:22282971 original size:82 final size:83
Alignment explanation
Indices: 22282814--22282978 Score: 219
Period size: 82 Copynumber: 2.0 Consensus size: 83
22282804 GTTGTGGTGA
* ** *
22282814 TATAATTCAAGCTTTGACTTAGCAGGCTATGAGCCAGTGATGTATAATCTAAGCTTCGGCTTAGC
1 TATAATCCAAGCTTCAACTTAGCAGGCTATGAGCCAGTGA-GTATAATCTAAGCCTCGGCTTAGC
22282879 AGGCTATGAGCCGGTGATG
65 AGGCTATGAGCCGGTGATG
***
22282898 TATAATCCAAGCTTCAACTTAGCAGGCTATGAGTTGGTGA-TATAAT-TCAAGCCTCGGCTTAGC
1 TATAATCCAAGCTTCAACTTAGCAGGCTATGAGCCAGTGAGTATAATCT-AAGCCTCGGCTTAGC
22282961 AGGC-ATTGAGCCGGTGAT
65 AGGCTA-TGAGCCGGTGAT
22282979 ATAATTCAAG
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
81 2 0.03
82 36 0.50
84 34 0.47
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (83 bp):
TATAATCCAAGCTTCAACTTAGCAGGCTATGAGCCAGTGAGTATAATCTAAGCCTCGGCTTAGCA
GGCTATGAGCCGGTGATG
Found at i:22283011 original size:40 final size:40
Alignment explanation
Indices: 22282809--22283004 Score: 218
Period size: 42 Copynumber: 4.8 Consensus size: 40
22282799 AATGAGTTGT
*
22282809 GGTGATATAATTCAAGCTTTGACTTAGCAGGCTATGAGCC
1 GGTGATATAATTCAAGCTTCGACTTAGCAGGCTATGAGCC
* *
22282849 AGTGATGTATAA-TCTAAGCTTCGGCTTAGCAGGCTATGAGCC
1 GGTGA--TATAATTC-AAGCTTCGACTTAGCAGGCTATGAGCC
* * **
22282891 GGTGATGTATAATCCAAGCTTCAACTTAGCAGGCTATGAGTT
1 GGTGA--TATAATTCAAGCTTCGACTTAGCAGGCTATGAGCC
* *
22282933 GGTGATATAATTCAAGCCTCGGCTTAGCAGGC-ATTGAGCC
1 GGTGATATAATTCAAGCTTCGACTTAGCAGGCTA-TGAGCC
*
22282973 GGTGATATAATTCAAG-TTACGACTTAGTAGGC
1 GGTGATATAATTCAAGCTT-CGACTTAGCAGGC
22283005 CCTGAGCGAG
Statistics
Matches: 132, Mismatches: 18, Indels: 12
0.81 0.11 0.07
Matches are distributed among these distances:
39 2 0.02
40 58 0.44
41 2 0.02
42 69 0.52
43 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.29
Consensus pattern (40 bp):
GGTGATATAATTCAAGCTTCGACTTAGCAGGCTATGAGCC
Found at i:22287536 original size:16 final size:16
Alignment explanation
Indices: 22287515--22287545 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22287505 AAAATCCAAA
*
22287515 CACAATTCTTGAAACC
1 CACAATTCTTAAAACC
22287531 CACAATTCTTAAAAC
1 CACAATTCTTAAAAC
22287546 AAAATTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.29, G:0.03, T:0.26
Consensus pattern (16 bp):
CACAATTCTTAAAACC
Found at i:22287973 original size:22 final size:21
Alignment explanation
Indices: 22287932--22287973 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
22287922 TCTTTAAACC
22287932 TCAAAATGTATTAATTATATT
1 TCAAAATGTATTAATTATATT
22287953 TCAAAAT-TATTGATATTATAT
1 TCAAAATGTATT-A-ATTATAT
22287974 CAATTAGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 8 0.42
22 7 0.37
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (21 bp):
TCAAAATGTATTAATTATATT
Found at i:22297699 original size:55 final size:55
Alignment explanation
Indices: 22297615--22297725 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
22297605 CAACATTAGC
22297615 TTTACCGTGGATGTAATCAATTAGGCAGTCATAATCTTTTAAGAGTTTGACCCAA
1 TTTACCGTGGATGTAATCAATTAGGCAGTCATAATCTTTTAAGAGTTTGACCCAA
22297670 TTTACCGTGGATGTAATCAATTAGGCAGTCATAATCTTTTAAGAGTTTGACCCAA
1 TTTACCGTGGATGTAATCAATTAGGCAGTCATAATCTTTTAAGAGTTTGACCCAA
22297725 T
1 T
22297726 GACATTGTCT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (55 bp):
TTTACCGTGGATGTAATCAATTAGGCAGTCATAATCTTTTAAGAGTTTGACCCAA
Found at i:22301755 original size:26 final size:26
Alignment explanation
Indices: 22301694--22301763 Score: 79
Period size: 26 Copynumber: 2.7 Consensus size: 26
22301684 GTCTTCCAGA
* * * *
22301694 AATTTAGCTCATACGAGCCCAGATAG
1 AATTTATCTCTTACAAGCCCAAATAG
*
22301720 AGTTTATCTCTTACAAGCCCAAATAG
1 AATTTATCTCTTACAAGCCCAAATAG
22301746 AATATT-TCTCTTACAAGC
1 AAT-TTATCTCTTACAAGC
22301764 TAGACAGAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
26 35 0.95
27 2 0.05
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (26 bp):
AATTTATCTCTTACAAGCCCAAATAG
Found at i:22301781 original size:25 final size:25
Alignment explanation
Indices: 22301744--22301834 Score: 103
Period size: 25 Copynumber: 3.6 Consensus size: 25
22301734 AAGCCCAAAT
** *
22301744 AGAATATTTCTCTTACAAGCTAGAC
1 AGAATATCGCTCTTACGAGCTAGAC
* * * *
22301769 AGAATATCACTCTTATGAGCCAAAC
1 AGAATATCGCTCTTACGAGCTAGAC
22301794 AGAA-ATTCGCTCTTACGAGCTAGAC
1 AGAATA-TCGCTCTTACGAGCTAGAC
22301819 AGAATATCGCTCTTAC
1 AGAATATCGCTCTTAC
22301835 TAGCCAGTGT
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
24 1 0.02
25 52 0.96
26 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.27
Consensus pattern (25 bp):
AGAATATCGCTCTTACGAGCTAGAC
Found at i:22301840 original size:50 final size:50
Alignment explanation
Indices: 22301727--22301840 Score: 142
Period size: 50 Copynumber: 2.3 Consensus size: 50
22301717 TAGAGTTTAT
* * *
22301727 CTCTTACAAGCCCAAATAGAATATTTCTCTTACAAGCTAGACAGAATATCA
1 CTCTTACTAG-CCAAACAGAATATTGCTCTTACAAGCTAGACAGAATATCA
* *
22301778 CTCTTA-TGAGCCAAACAGAA-ATTCGCTCTTACGAGCTAGACAGAATATCG
1 CTCTTACT-AGCCAAACAGAATATT-GCTCTTACAAGCTAGACAGAATATCA
22301828 CTCTTACTAGCCA
1 CTCTTACTAGCCA
22301841 GTGTTCAGCA
Statistics
Matches: 55, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
49 3 0.05
50 43 0.78
51 9 0.16
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.26
Consensus pattern (50 bp):
CTCTTACTAGCCAAACAGAATATTGCTCTTACAAGCTAGACAGAATATCA
Found at i:22310269 original size:44 final size:44
Alignment explanation
Indices: 22310207--22310304 Score: 169
Period size: 44 Copynumber: 2.2 Consensus size: 44
22310197 GTGTTGACTT
* * *
22310207 TTCTGTGTTTTAAGGTGTTCTTAGGGGTTTTGGTTTTTTGGCTC
1 TTCTATGTTTTAAAGTGTTCTTAGGGGTTTTGGTTTTTTCGCTC
22310251 TTCTATGTTTTAAAGTGTTCTTAGGGGTTTTGGTTTTTTCGCTC
1 TTCTATGTTTTAAAGTGTTCTTAGGGGTTTTGGTTTTTTCGCTC
22310295 TTCTATGTTT
1 TTCTATGTTT
22310305 CGGTGACTTG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.09, C:0.10, G:0.24, T:0.56
Consensus pattern (44 bp):
TTCTATGTTTTAAAGTGTTCTTAGGGGTTTTGGTTTTTTCGCTC
Found at i:22314200 original size:15 final size:16
Alignment explanation
Indices: 22314182--22314214 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
22314172 TTTAACCAAT
*
22314182 TCAACT-TTTTGCTTC
1 TCAACTCTTTTACTTC
22314197 TCAACTCTTTTACTTC
1 TCAACTCTTTTACTTC
22314213 TC
1 TC
22314215 GAGCCAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.15, C:0.30, G:0.03, T:0.52
Consensus pattern (16 bp):
TCAACTCTTTTACTTC
Found at i:22319909 original size:37 final size:37
Alignment explanation
Indices: 22319858--22319965 Score: 153
Period size: 37 Copynumber: 2.9 Consensus size: 37
22319848 ATTCTTTGGT
* * *
22319858 CACCGGCACAAAGCCTACTAGGCACATATCCCGATTA
1 CACCGGCACGAAGCCTACTAGGCACAAAGCCCGATTA
*
22319895 TACCGGCACGAAGCCTACTAGGCACAAAGCCCGATTA
1 CACCGGCACGAAGCCTACTAGGCACAAAGCCCGATTA
** *
22319932 CACTAGCACGAAGCCTACTATGCACAAAGCCCGA
1 CACCGGCACGAAGCCTACTAGGCACAAAGCCCGA
22319966 ATTTTCAGAT
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.33, C:0.34, G:0.19, T:0.14
Consensus pattern (37 bp):
CACCGGCACGAAGCCTACTAGGCACAAAGCCCGATTA
Found at i:22334562 original size:26 final size:28
Alignment explanation
Indices: 22334510--22334562 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
22334500 AGATGTCCCC
* *
22334510 TTTTTTTCTATTTTGATTACTTTTGTGTT
1 TTTTTTTCTATTAT-ATTACTTATGTGTT
22334539 TTTTTTTCTATTAT-TTA-TTATGTG
1 TTTTTTTCTATTATATTACTTATGTG
22334563 ATTACTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 6 0.27
27 3 0.14
29 13 0.59
ACGTcount: A:0.13, C:0.06, G:0.09, T:0.72
Consensus pattern (28 bp):
TTTTTTTCTATTATATTACTTATGTGTT
Found at i:22346282 original size:19 final size:19
Alignment explanation
Indices: 22346234--22346283 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
22346224 AAAAATGCAT
22346234 AAAAATCAAAAGTAAGAACG
1 AAAAA-CAAAAGTAAGAACG
*
22346254 AGAAGA-AAAAGTACAGAAC-
1 A-AAAACAAAAGTA-AGAACG
22346273 AAAAACAAAAG
1 AAAAACAAAAG
22346284 CATTTTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
18 3 0.12
19 13 0.52
20 6 0.24
21 3 0.12
ACGTcount: A:0.68, C:0.10, G:0.16, T:0.06
Consensus pattern (19 bp):
AAAAACAAAAGTAAGAACG
Found at i:22353114 original size:36 final size:36
Alignment explanation
Indices: 22353069--22353147 Score: 149
Period size: 36 Copynumber: 2.2 Consensus size: 36
22353059 AAGATAATCA
22353069 CCAAGTAAACTAGCATGTTGATCTTGTTTCCTTCACC
1 CCAA-TAAACTAGCATGTTGATCTTGTTTCCTTCACC
22353106 CCAATAAACTAGCATGTTGATCTTGTTTCCTTCACC
1 CCAATAAACTAGCATGTTGATCTTGTTTCCTTCACC
22353142 CCAATA
1 CCAATA
22353148 CTTATTATAC
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 38 0.90
37 4 0.10
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (36 bp):
CCAATAAACTAGCATGTTGATCTTGTTTCCTTCACC
Found at i:22356263 original size:40 final size:40
Alignment explanation
Indices: 22356208--22356291 Score: 168
Period size: 40 Copynumber: 2.1 Consensus size: 40
22356198 TCTGTAAATT
22356208 TTTCCTTCAAAAAATACTCTTGTACAATAGCTTCCCTGAC
1 TTTCCTTCAAAAAATACTCTTGTACAATAGCTTCCCTGAC
22356248 TTTCCTTCAAAAAATACTCTTGTACAATAGCTTCCCTGAC
1 TTTCCTTCAAAAAATACTCTTGTACAATAGCTTCCCTGAC
22356288 TTTC
1 TTTC
22356292 GCTACCGATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.37
Consensus pattern (40 bp):
TTTCCTTCAAAAAATACTCTTGTACAATAGCTTCCCTGAC
Found at i:22360143 original size:24 final size:24
Alignment explanation
Indices: 22360114--22360170 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
22360104 AATTTTCTTG
* **
22360114 TTAAACTCTGTTTATTTGTTTCAA
1 TTAAACTCTATTTATTTAATTCAA
*
22360138 TTAAACTCAATTTATTTAATTCAA
1 TTAAACTCTATTTATTTAATTCAA
22360162 TTAAACTCT
1 TTAAACTCT
22360171 TATTAGTCTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.33, C:0.14, G:0.04, T:0.49
Consensus pattern (24 bp):
TTAAACTCTATTTATTTAATTCAA
Found at i:22361445 original size:18 final size:18
Alignment explanation
Indices: 22361424--22361461 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
22361414 ATATTTTGGG
*
22361424 TTTTTTGAAAAACAATTA
1 TTTTTTGAAAAAAAATTA
*
22361442 TTTTTTTAAAAAAAATTA
1 TTTTTTGAAAAAAAATTA
22361460 TT
1 TT
22361462 AAAATTTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
TTTTTTGAAAAAAAATTA
Found at i:22363191 original size:270 final size:268
Alignment explanation
Indices: 22362767--22364279 Score: 1216
Period size: 270 Copynumber: 5.6 Consensus size: 268
22362757 GTGTACTTCA
* * * ** * ** *
22362767 AAAACAATTGGCCCAAAAGCAGTTTTTCAAATGTTGAAAATTTTAGATTCTCCATAAAAATAATT
1 AAAA-AATTGACCCAAAAGCACTTTTTCAAAAGTTGAAAATTTTACTTTTTCC--CCAAATATTT
* ** * *
22362832 TTTTTTCGAAAAGCACTTTTGAGAAGCATTCTCAAAATTAGATTTTAGTATTATAGAATAAAAAC
63 TTTTTTC-AAAAGCACTTTTGAGAAGCATTC-CTAAATTAGACCTTAGTATTGTAGAACAAAAAC
* * * * * *
22362897 GATTTAAATTTTATATTTTTTGAGTCAGGATTTAGAGTTTGTTTAGCATTATTTCTAAAAAATAT
126 GATTTAAATTCTACATTCTTTGAGTCAGGATTTAG-GTTTGTTTAGTATTACTTCTAAGAAATAT
* * *
22362962 TTATTG-GACAAAAAGTAATTTTGGGATAAAAAT-TTCCTAAATAAGCTGCTTTTTGAGAGAAAA
190 TT-TTGAGAAAAAAAATATTTTTGGGATAAAAATGTTCCTAAATAAGCTGCTTTTTGAGA-AAAA
*
22363025 AGTGTTTCTCTAAAGC
253 AGTGTTTCTCCAAAGC
** ** * * *
22363041 AAAAAATTGGTCCAAAATTACTTTTTCAAAAGTTTAAAATTTTAGTTTTTCTCCAAA-ATTTTTC
1 AAAAAATTGACCCAAAAGCACTTTTTCAAAAGTTGAAAATTTTACTTTTTCCCCAAATATTTTT-
* *
22363105 TTTTCAAAACACACTTTTGAGAA-CAATTCCTAAATTAGCCCTTAGTATTGTAGAACAAAAACGA
65 TTTTCAAAA-GCACTTTTGAGAAGC-ATTCCTAAATTAGACCTTAGTATTGTAGAACAAAAACGA
* * * *
22363169 TTTAAATTTTACATTCTTTGAGTTGAGG-TTTAGGATTTATTTAGTATTACTTCTAAGAAACATT
128 TTTAAATTCTACATTCTTTGAG-TCAGGATTTAGG-TTTGTTTAGTATTACTTCTAAGAAATATT
* * * * ** *
22363233 TTTGAAAAAAAAAATATTTTTGAGATAAAAGTTTTCCTAAATAAATTACTTTTTGA-AATTAAAA
191 TTTGAGAAAAAAAATATTTTTGGGATAAAAATGTTCCTAAATAAGCTGCTTTTTGAGAA--AAAA
22363297 GTGTTTCTTCCAAA--
254 GTGTTTC-TCCAAAGC
* *
22363311 AAAAAGA--GACCCAAAAGCACTTTTT-AAGAAGTTGAAAATTTTAAC-TTCTCCTCAAAAATAT
1 AAAAA-ATTGACCCAAAAGCACTTTTTCAA-AAGTTGAAAATTTT-ACTTTTTCC-C-CAAATAT
* * * * ** *
22363372 TTTTTTTTCAAAAGCACTTTTAAGAACCATTCTTAAATTAGGCCTTAGCGTTGTAGAACAAAAAT
61 TTTTTTTTCAAAAGCACTTTTGAGAAGCATTCCTAAATTAGACCTTAGTATTGTAGAACAAAAAC
* * * *
22363437 GATTTAAATTCTACATTTTTTGAG-CTAGGATTTAGTGTCTGTTTAGTATTGCTTCTAAAAAATA
126 GATTTAAATTCTACATTCTTTGAGTC-AGGATTTAG-GTTTGTTTAGTATTACTTCTAAGAAATA
* * * * *
22363501 CTTTT-AGGACAAAAAAATAGTTTTT-AGAAAAAAAGTGTTCCTAAATAAGCTACTTTTTGATAA
189 TTTTTGA-GA-AAAAAAATA-TTTTTGGGATAAAAA-TGTTCCTAAATAAGCTGCTTTTTGAGAA
* * *
22363564 ATGAACTGTTTCTCCCAAA-A
250 A-AAAGTGTTTCT-CCAAAGC
* * *
22363584 AAAAAATTGACCCAAAAACACTTTTTCAGAAGTTGAAAATTTTAAC-TTCTCCCCATCAATA-TT
1 AAAAAATTGACCCAAAAGCACTTTTTCAAAAGTTGAAAATTTT-ACTTTTTCCCCA--AATATTT
*** * * * ** *
22363647 TTTCCGCAAAAACATTTTTGAGAAGCATTCCTATATTAGGTCTTAG-AGTTGTAGAACAAAAACT
63 TTTTTTCAAAAGCACTTTTGAGAAGCATTCCTAAATTAGACCTTAGTA-TTGTAGAACAAAAACG
* * * * * *
22363711 TTTTAAATTTTACATTCTTTGAGTCAAGATTTATGGTCTAT-TTTAGTAGTGCTTTTAAGAAATA
127 ATTTAAATTCTACATTCTTTGAGTCAGGATTTA-GGT-T-TGTTTAGTATTACTTCTAAGAAATA
* * ** * * * * *
22363775 GTTTTGAGATAAAAAGCATTTTTTGGATAAAAATGTTTCTAAATAAGTTGTTTTTTTAGAGAAAA
189 TTTTTGAGAAAAAAAATATTTTTGGGATAAAAATGTTCCTAAATAAGCTGCTTTTTGAGA-AAAA
**
22363840 AGTGTTTCT-CTTAGC
253 AGTGTTTCTCCAAAGC
* * * *
22363855 AAAAAATTG------GAGCACTATTTCAGAAGTTGAAAATTTTAACTTCTT-CCCAAGATATTTT
1 AAAAAATTGACCCAAAAGCACTTTTTCAAAAGTTGAAAATTTT-ACTTTTTCCCCAA-ATATTTT
* * *
22363913 TTTTCTCAAAAGCACTTTTGAGAAGCATTCTTAAATTATG-CCTTAGTGTTGTAGAACAAAAATG
64 TTTT-TCAAAAGCACTTTTGAGAAGCATTCCTAAATTA-GACCTTAGTATTGTAGAACAAAAACG
* * * * * * *
22363977 ATTTAAATTCAATATT-TTTTAATCGGGATTTAGGATTTGTTTAGTATTACTTCTAAGCAATACT
127 ATTTAAATTCTACATTCTTTGAGTCAGGATTTAGG-TTTGTTTAGTATTACTTCTAAGAAATATT
* * * * *
22364041 TTTGAAAAAAAAAATACTTTTGGGATAAAAGTGTTCCTAAATAAGCTGCTTTTTTAGAATAAAAA
191 TTTGAGAAAAAAAATATTTTTGGGATAAAAATGTTCCTAAATAAGCTGCTTTTTGAGAA-AAAAG
** *
22364106 TACTTCTCCCAAGC
255 TGTTTCTCCAAAGC
* * * ** *
22364120 AAAAAATTGACCCAAAAGCA-TATTTTCAAAAGTTTAAAATTTTAGTTTCTCCCCAAAGGTATTT
1 AAAAAATTGACCCAAAAGCACT-TTTTCAAAAGTTGAAAATTTTACTTTTTCCCCAAATATTTTT
** * * * * * *
22364184 TTCCCAAAAGTATTTTTTAGAAGCATTCCTAAATTAGACTTTAGTGTTGTAGAACAAAAATGATT
65 TTTTCAAAAGCACTTTTGAGAAGCATTCCTAAATTAGACCTTAGTATTGTAGAACAAAAACGATT
* * *
22364249 TAAATTCTAGATTCTTTTAGTCGGGATTTAG
130 TAAATTCTACATTCTTTGAGTCAGGATTTAG
22364280 CTTTAGTGTT
Statistics
Matches: 1002, Mismatches: 175, Indels: 128
0.77 0.13 0.10
Matches are distributed among these distances:
263 3 0.00
264 83 0.08
265 63 0.06
266 61 0.06
267 1 0.00
268 3 0.00
269 105 0.10
270 245 0.24
271 128 0.13
272 88 0.09
273 143 0.14
274 76 0.08
275 3 0.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (268 bp):
AAAAAATTGACCCAAAAGCACTTTTTCAAAAGTTGAAAATTTTACTTTTTCCCCAAATATTTTTT
TTTCAAAAGCACTTTTGAGAAGCATTCCTAAATTAGACCTTAGTATTGTAGAACAAAAACGATTT
AAATTCTACATTCTTTGAGTCAGGATTTAGGTTTGTTTAGTATTACTTCTAAGAAATATTTTTGA
GAAAAAAAATATTTTTGGGATAAAAATGTTCCTAAATAAGCTGCTTTTTGAGAAAAAAGTGTTTC
TCCAAAGC
Found at i:22363533 original size:19 final size:19
Alignment explanation
Indices: 22363493--22363534 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
22363483 TATTGCTTCT
*
22363493 AAAAAATACTTTTAGGACA
1 AAAAAATACTTTTAGGAAA
*
22363512 AAAAAATAGTTTTTA-GAAA
1 AAAAAATA-CTTTTAGGAAA
22363531 AAAA
1 AAAA
22363535 GTGTTCCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.60, C:0.05, G:0.10, T:0.26
Consensus pattern (19 bp):
AAAAAATACTTTTAGGAAA
Found at i:22364201 original size:16 final size:15
Alignment explanation
Indices: 22364171--22364200 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22364161 TTAGTTTCTC
*
22364171 CCCAAAGGTATTTTT
1 CCCAAAAGTATTTTT
22364186 CCCAAAAGTATTTTT
1 CCCAAAAGTATTTTT
22364201 TAGAAGCATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (15 bp):
CCCAAAAGTATTTTT
Found at i:22364312 original size:58 final size:59
Alignment explanation
Indices: 22364217--22364338 Score: 237
Period size: 58 Copynumber: 2.1 Consensus size: 59
22364207 CATTCCTAAA
22364217 TTAGACTTTAGTGTTGTAGAACAAAAATGATTTAAATTCTAGATTCTTTTAGTCGGGAT
1 TTAGACTTTAGTGTTGTAGAACAAAAATGATTTAAATTCTAGATTCTTTTAGTCGGGAT
22364276 TTAG-CTTTAGTGTTGTAGAACAAAAATGATTTAAATTCTAGATTCTTTTAGTCGGGAT
1 TTAGACTTTAGTGTTGTAGAACAAAAATGATTTAAATTCTAGATTCTTTTAGTCGGGAT
22364334 TTAGA
1 TTAGA
22364339 ATTTGTTTAG
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
58 58 0.94
59 4 0.06
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (59 bp):
TTAGACTTTAGTGTTGTAGAACAAAAATGATTTAAATTCTAGATTCTTTTAGTCGGGAT
Found at i:22364642 original size:17 final size:17
Alignment explanation
Indices: 22364614--22364657 Score: 70
Period size: 18 Copynumber: 2.5 Consensus size: 17
22364604 ATTGCTTCTA
*
22364614 AAAAATATTTTTGGGAC
1 AAAAATATTTTTGAGAC
22364631 AAAAAGTATTTTTGAGAC
1 AAAAA-TATTTTTGAGAC
22364649 AAAAATATT
1 AAAAATATT
22364658 CTTAAATAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.48, C:0.05, G:0.14, T:0.34
Consensus pattern (17 bp):
AAAAATATTTTTGAGAC
Found at i:22364874 original size:270 final size:270
Alignment explanation
Indices: 22364368--22364874 Score: 612
Period size: 270 Copynumber: 1.9 Consensus size: 270
22364358 TAAGTAACAC
* * * * *
22364368 TTTTGGGACAAAATTGTTCCTAAATAAGTTGCTTTTTGAGAGAAAATATTTTTCCCAAGCAAAAA
1 TTTTGAGACAAAAATATTCCTAAATAAGCTACTTTTTGAGAGAAAATATTTTTCCCAAGCAAAAA
* * * * *
22364433 ATTGGTAAAAAAAAAAACTATTTCAGAAGTTGGAAATTTTAGTTTCTTCTCAAAAATATTTTTTT
66 ATTGGT-AAAAAAAAAACTATTTCAGAAATTGAAAATTTTAGCTTCTCCCCAAAAATA-TTTTTT
* * * *
22364498 TCCAAAAACACTTTTAGGAAACATGCCTGAATTAGGCCTCAGTGTTGTAGAATAAAAACTATTTA
129 TCCAAAAACACTTTTAGGAAACATGACTAAATTAGGCCTCAGTGTTGTAAAACAAAAACTATTTA
* *
22364563 AATTCTATATTCTTTGACTCGAGATTTAAAGTCTATTTAGTATTGCTTCTAAAAAATATTTTTGG
194 AAATCTATATTCTTTAACTCGAGATTTAAAGTCTATTTAGTATTGCTTCTAAAAAATATTTTTGG
22364628 GACAAAAAGTAT
259 GACAAAAAGTAT
* *
22364640 TTTTGAGACAAAAATATTCTTAAATAAGCTACTTTTTGAGAGAAAAAGTGTTTTTCCCAAGCAAA
1 TTTTGAGACAAAAATATTCCTAAATAAGCTACTTTTTGAGAG-AAAA-TATTTTTCCCAAGCAAA
** * * * *
22364705 AAATTGGT-CCAAAATAACTTTTTTAGAAATTGAAAATTTTAGCTTCTCCCCAAAAGTA-TTTTT
64 AAATTGGTAAAAAAAAAACTATTTCAGAAATTGAAAATTTTAGCTTCTCCCCAAAAATATTTTTT
** ** * *
22364768 TCCAAATGCACTTTT-GAGAAGTATTACTAAATTAGGCCTTAGTGTTGTAAAACAAAAACGT-TT
129 TCCAAAAACACTTTTAG-GAAACATGACTAAATTAGGCCTCAGTGTTGTAAAACAAAAAC-TATT
* *
22364831 TAAAATCTATATTCTTTAAGTC-AGGATTTAGAA-TCTGTTTAGTA
192 TAAAATCTATATTCTTTAACTCGA-GATTTA-AAGTCTATTTAGTA
22364875 ATGTTTTTAA
Statistics
Matches: 197, Mismatches: 32, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
269 2 0.01
270 89 0.45
271 3 0.02
272 75 0.38
273 4 0.02
274 24 0.12
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.37
Consensus pattern (270 bp):
TTTTGAGACAAAAATATTCCTAAATAAGCTACTTTTTGAGAGAAAATATTTTTCCCAAGCAAAAA
ATTGGTAAAAAAAAAACTATTTCAGAAATTGAAAATTTTAGCTTCTCCCCAAAAATATTTTTTTC
CAAAAACACTTTTAGGAAACATGACTAAATTAGGCCTCAGTGTTGTAAAACAAAAACTATTTAAA
ATCTATATTCTTTAACTCGAGATTTAAAGTCTATTTAGTATTGCTTCTAAAAAATATTTTTGGGA
CAAAAAGTAT
Found at i:22365581 original size:270 final size:267
Alignment explanation
Indices: 22365095--22366448 Score: 1132
Period size: 270 Copynumber: 5.1 Consensus size: 267
22365085 CATTTTTGAA
* * *
22365095 AACAAAAACAATTTAAATTCTACT-TTTTTAAGTCGGGATTTAGGGTCTGTTTTGTATTACTTCT
1 AACAAAAACTATTTAAATTCTA-TATTTTTTAGTCGGGATTTAGGGTCTGTTTAGTATTACTTCT
* * * ** * * * * * * *
22365159 AATAAATATTTTTGGGGCAAAAAATATTTTTGAGATAAAA-TTTTCTTAAATAAGTTTCTTTTCG
65 AA-GAACACTTTTGGAACAAAAAACACTTTTGAGATAAAAGTATTCCTAAATAAGCTGCTTTT-T
* * * * * *
22365223 AAAGAAAAAGTATTTTTCTCAAGCAAAAAATTAGCCCAAAAACACCTTTCTAGACGTTT-AAAAT
128 AAAGAAAAAGTATTTCTCCCAAG-AAAAAATT-GCCCAAAAGCACTTTTTTAGA-ATTTAAAAAT
* ** * * *
22365287 TTCAATTTGT-CCCAAAAGTATTTTTTTCCCAAAAGAACTTTTGAGAGGCATTCCTAAATTAGAC
190 TTTAGCTTCTCCCCAAAAGTATTTTTTTTCCAAAAGAACTTTTGAGAAGCATTCCTAAATTAGAC
22365351 CTTAGTGTTGTAG
255 CTTAGTGTTGTAG
* * * *
22365364 AACAAAAATTATTTAAATTCTAGATTCTTTTAGTCGGGATTTAAGGTCTGTTTAGTATTGCTTCT
1 AACAAAAACTATTTAAATTCTATATT-TTTTAGTCGGGATTTAGGGTCTGTTTAGTATTACTTCT
* * * *
22365429 AAGAAACATTTTTGAAACAAAAAACACTTTTGAGATAAAATTATTTCTAAATAAGCTGCTTTTTA
65 AAG-AACACTTTTGGAACAAAAAACACTTTTGAGATAAAAGTATTCCTAAATAAGCTGCTTTTTA
* * * * * *
22365494 AGAGAAAAAGTGTTTGTCCCAA-AAAAAATTGATCTAAATGCACTTTTTTAGAATTTGAAAATTT
129 A-AGAAAAAGTATTTCTCCCAAGAAAAAATTG-CCCAAAAGCACTTTTTTAGAATTTAAAAATTT
* * * * * *
22365558 TAGCTTCTCCCCAAAAATATTTTTTTTTCAAAAGCACTTTTGAGAAACATTCTTAAATTAGGCCT
192 TAGCTTCTCCCCAAAAGTATTTTTTTTCCAAAAGAACTTTTGAGAAGCATTCCTAAATTAGACCT
* *
22365623 TAGTCTTGTAT
257 TAGTGTTGTAG
* * * * ** * *
22365634 AACAAAAACTATTTAAATTATATATTCTTTGACTTGATATTTAGGGTCTGTTTAATATTACTTTT
1 AACAAAAACTATTTAAATTCTATATT-TTTTAGTCGGGATTTAGGGTCTGTTTAGTATTACTTCT
* * * * * * * *
22365699 AAGTAACACTTTTGGGACAAAAAGCACTTTCGGGACAAAAGTGTTCCTAAATAACCTGCTTTTGA
65 AAG-AACACTTTTGGAACAAAAAACACTTTTGAGATAAAAGTATTCCTAAATAAGCTGCTTTTTA
* * * *
22365764 GAGAAAAAGTATTTCTCTCAAGGAAAAAATTGGCCAAAAGCACTTTTTTAGAAGTTAAAAATTTT
129 AAGAAAAAGTATTTCTCCCAA-GAAAAAATTGCCCAAAAGCACTTTTTTAGAATTTAAAAATTTT
* ** * * * * * * *
22365829 AACTTCTCCATAAAATTTTTTTTTTTTTCAAAAGTACTTTTGAAAAGCATTCTTAAATTAGACTT
193 AGCTTCTCCCCAAAA-GTATTTTTTTTCCAAAAGAACTTTTGAGAAGCATTCCTAAATTAGACCT
22365894 TAGTGTTGTAG
257 TAGTGTTGTAG
* * * * * * *
22365905 AACAAAAATTATTTAAATTCTACA-TTTTGAGTTGGGATTTAGGGTCTATTTAGTATTATTTTTA
1 AACAAAAACTATTTAAATTCTATATTTTTTAGTCGGGATTTAGGGTCTGTTTAGTATTACTTCTA
* ** ** * **
22365969 AGAACACTTTTGGAACATAATGCTGTTTTAAGATAAAAGTATTCCTAAATAAGCTATTTTTTAAA
66 AGAACACTTTTGGAACAAAAAACACTTTTGAGATAAAAGTATTCCTAAATAAGCTGCTTTTTAAA
* * * * * *
22366034 GAAAAAATATTTCTCCTAAAGAAAAAAAATTGTCTAAAAG-ACTGTTTTCAGAAGTTTAAAAAAT
131 GAAAAAGTATTTCTCC-CAAG--AAAAAATTGCCCAAAAGCACT-TTTTTAGAA-TTTAAAAATT
*
22366098 TTAGCTTCTCCTCC-AAAGTATTTTTTTTCCAAAA-ACACTTTTGAGAAACATTCCTAAATTA-A
191 TTAGCTTCTCC-CCAAAAGTATTTTTTTTCCAAAAGA-ACTTTTGAGAAGCATTCCTAAATTAGA
* *
22366160 GCATTAGTGATGTAG
254 -CCTTAGTGTTGTAG
* * * * ** *
22366175 AACCAAAACGATTTAAATTCTATATTTTTTGAGTAGAGATTTAGGGTAAGTTTAGTATTGCTTCT
1 AACAAAAACTATTTAAATTCTATATTTTTT-AGTCGGGATTTAGGGTCTGTTTAGTATTACTTCT
*
22366240 AAGACACACTTTTGGGAC---AAA-AC--------------TATTCCTAAATAAG-TAGCTTTTT
65 AAGA-ACACTTTTGGAACAAAAAACACTTTTGAGATAAAAGTATTCCTAAATAAGCT-GCTTTTT
* * * *
22366286 AAAAGAAAAAGTGTTTCTCCAAAGCAAAAAATTGGCCCAAAAGTA-TATTTTTAGAAGTTAAAAA
128 -AAAGAAAAAGTATTTCTCCCAAG-AAAAAATT-GCCCAAAAGCACT-TTTTTAGAATTTAAAAA
* * * * *
22366350 TTTTAGCTTCTCCTCAAAAGTATTTTTTTTCCAAAAGTATTTTTTAGAAGCATTCCTAAATTAGT
189 TTTTAGCTTCTCCCCAAAAGTATTTTTTTTCCAAAAGAACTTTTGAGAAGCATTCCTAAATTAGA
*
22366415 TCTTAGTGTTGTAG
254 CCTTAGTGTTGTAG
*
22366429 AA-AAAAACGATTTAAATTCT
1 AACAAAAACTATTTAAATTCT
22366449 TGAGAAGCAT
Statistics
Matches: 883, Mismatches: 173, Indels: 74
0.78 0.15 0.07
Matches are distributed among these distances:
253 18 0.02
254 83 0.09
255 39 0.04
256 18 0.02
268 67 0.08
269 113 0.13
270 363 0.41
271 140 0.16
272 30 0.03
273 12 0.01
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (267 bp):
AACAAAAACTATTTAAATTCTATATTTTTTAGTCGGGATTTAGGGTCTGTTTAGTATTACTTCTA
AGAACACTTTTGGAACAAAAAACACTTTTGAGATAAAAGTATTCCTAAATAAGCTGCTTTTTAAA
GAAAAAGTATTTCTCCCAAGAAAAAATTGCCCAAAAGCACTTTTTTAGAATTTAAAAATTTTAGC
TTCTCCCCAAAAGTATTTTTTTTCCAAAAGAACTTTTGAGAAGCATTCCTAAATTAGACCTTAGT
GTTGTAG
Found at i:22365925 original size:541 final size:538
Alignment explanation
Indices: 22365216--22366448 Score: 1298
Period size: 541 Copynumber: 2.3 Consensus size: 538
22365206 AAATAAGTTT
* *
22365216 CTTTTCGAAAGAAAAAGTATTTTTCTCAAGCAAAAAATTAGCCCAAAAACACCTTTCTAGACGTT
1 CTTTTCGAAAGAAAAAGTATTTCTCTCAAGCAAAAAATTAGCCCAAAAACACCTTTCTAGAAGTT
* * * * *
22365281 TAAAATTTCAATTTGTCCCAAAAGTATTTTTTTCCCAAAAGAACTTTTGAGAGGCATTCCTAAAT
66 AAAAATTTCAACTTCTCCCAAAAGTATTTTTTTCCCAAAAGAACTTTTGAAAAGCATTCCTAAAT
* *
22365346 TAGACCTTAGTGTTGTAGAACAAAAATTATTTAAATTCTAGATTCTTTTAGTCGGGATTTAAGGT
131 TAGACCTTAGTGTTGTAGAACAAAAATTATTTAAATTCTACA-T-TTTGAGTCGGGATTTAAGGT
* * * * * *
22365411 CTGTTTAGTATTGCTTCTAAGAAACATTTTTGAAACAAAAAACACTTTTGAGATAAAATTATTTC
194 CTATTTAGTATTACTTCTAAG-AACACTTTTGAAACAAAAAACACTTTTAAGATAAAAGTATTCC
* * * * *
22365476 TAAATAAGCTGCTTTTTAAGAGAAAAAGTGTTTGTCC-CAAAAAAAATTGATCTAAATGCACT-T
258 TAAATAAGCTACTTTTTAA-AGAAAAAATATTTCTCCACAAAAAAAATTG-TCTAAAAG-ACTGT
* * * * *
22365539 TTTTAGAA-TTTGAAAATTTTAGCTTCTCC-CCAAAAATATTTTTTTTTCAAAAGCACTTTTGAG
320 TTTCAGAAGTTTAAAAAATTTAGCTTCTCCTCC-AAAATATTTTTTTTCCAAAAACACTTTTGAG
* * * * * *
22365602 AAACATTCTTAAATTAGGCCTTAGTCTTGTATAACAAAAACTATTTAAATTATATATTCTTTGAC
384 AAACATTCCTAAATTAAGCATTAGTCATGTAGAACAAAAACGATTTAAATTATATATTCTTTGAC
* * ** *
22365667 TTGATATTTAGGGTCTGTTTAATATTACTTTTAAGTA-ACACTTTTGGGACAAAAAGCACTTTCG
449 TAGAGATTTAGGGTAAGTTTAATATTACTTCTAAG-ACACACTTTTGGGACAAAAAGCACTTTCG
22365731 GGACAAAAGTGTTCCTAAATAACCTG
513 GGACAAAAGTGTTCCTAAATAACCTG
* * * * * *
22365757 CTTTT-GAGAGAAAAAGTATTTCTCTCAAGGAAAAAATT-GGCCAAAAGCACTTTTTTAGAAGTT
1 CTTTTCGAAAGAAAAAGTATTTCTCTCAAGCAAAAAATTAGCCCAAAAACACCTTTCTAGAAGTT
* * * * ** * *
22365820 AAAAATTTTAACTTCTCCATAAAATTTTTTTTTTTTTCAAAAGTACTTTTGAAAAGCATTCTTAA
66 AAAAATTTCAACTTCTCC-CAAAA-GTATTTTTTTCCCAAAAGAACTTTTGAAAAGCATTCCTAA
* * *
22365885 ATTAGACTTTAGTGTTGTAGAACAAAAATTATTTAAATTCTACATTTTGAGTTGGGATTTAGGGT
129 ATTAGACCTTAGTGTTGTAGAACAAAAATTATTTAAATTCTACATTTTGAGTCGGGATTTAAGGT
* * * * ** **
22365950 CTATTTAGTATTATTTTTAAGAACACTTTTGGAACATAATGCTGTTTTAAGATAAAAGTATTCCT
194 CTATTTAGTATTACTTCTAAGAACACTTTTGAAACAAAAAACACTTTTAAGATAAAAGTATTCCT
* *
22366015 AAATAAGCTATTTTTTAAAGAAAAAATATTTCTCCTAAAGAAAAAAAATTGTCTAAAAGACTGTT
259 AAATAAGCTACTTTTTAAAGAAAAAATATTTCTCC---ACAAAAAAAATTGTCTAAAAGACTGTT
*
22366080 TTCAGAAGTTTAAAAAATTTAGCTTCTCCTCCAAAGTATTTTTTTTCCAAAAACACTTTTGAGAA
321 TTCAGAAGTTTAAAAAATTTAGCTTCTCCTCCAAAATATTTTTTTTCCAAAAACACTTTTGAGAA
* * * * *
22366145 ACATTCCTAAATTAAGCATTAGTGATGTAGAACCAAAACGATTTAAATTCTATATTTTTTGAGTA
386 ACATTCCTAAATTAAGCATTAGTCATGTAGAACAAAAACGATTTAAATTATATATTCTTTGACTA
* *
22366210 GAGATTTAGGGTAAGTTTAGTATTGCTTCTAAGACACACTTTTGGGAC--AAA--AC--T-----
451 GAGATTTAGGGTAAGTTTAATATTACTTCTAAGACACACTTTTGGGACAAAAAGCACTTTCGGGA
*
22366264 ----A---TTCCTAAATAA-GTAG
516 CAAAAGTGTTCCTAAATAACCT-G
** * * ** ** *
22366280 CTTTTTAAAAGAAAAAGTGTTTCTC-CAAAGCAAAAAATTGGCCCAAAAGTATATTTTTAGAAGT
1 CTTTTCGAAAGAAAAAGTATTTCTCTC-AAGCAAAAAATTAGCCCAAAAACACCTTTCTAGAAGT
* * * * * * *
22366344 TAAAAATTTTAGCTTCTCCTCAAAAGTATTTTTTTTCCAAAAGTATTTTTTAGAAGCATTCCTAA
65 TAAAAATTTCAACTTCTCC-CAAAAGTATTTTTTTCCCAAAAGAACTTTTGAAAAGCATTCCTAA
** **
22366409 ATTAGTTCTTAGTGTTGTAGAA-AAAAACGATTTAAATTCT
129 ATTAGACCTTAGTGTTGTAGAACAAAAATTATTTAAATTCT
22366449 TGAGAAGCAT
Statistics
Matches: 583, Mismatches: 95, Indels: 46
0.81 0.13 0.06
Matches are distributed among these distances:
522 1 0.00
523 34 0.06
524 79 0.14
525 42 0.07
526 1 0.00
535 1 0.00
537 16 0.03
538 50 0.09
539 74 0.13
540 51 0.09
541 232 0.40
542 2 0.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (538 bp):
CTTTTCGAAAGAAAAAGTATTTCTCTCAAGCAAAAAATTAGCCCAAAAACACCTTTCTAGAAGTT
AAAAATTTCAACTTCTCCCAAAAGTATTTTTTTCCCAAAAGAACTTTTGAAAAGCATTCCTAAAT
TAGACCTTAGTGTTGTAGAACAAAAATTATTTAAATTCTACATTTTGAGTCGGGATTTAAGGTCT
ATTTAGTATTACTTCTAAGAACACTTTTGAAACAAAAAACACTTTTAAGATAAAAGTATTCCTAA
ATAAGCTACTTTTTAAAGAAAAAATATTTCTCCACAAAAAAAATTGTCTAAAAGACTGTTTTCAG
AAGTTTAAAAAATTTAGCTTCTCCTCCAAAATATTTTTTTTCCAAAAACACTTTTGAGAAACATT
CCTAAATTAAGCATTAGTCATGTAGAACAAAAACGATTTAAATTATATATTCTTTGACTAGAGAT
TTAGGGTAAGTTTAATATTACTTCTAAGACACACTTTTGGGACAAAAAGCACTTTCGGGACAAAA
GTGTTCCTAAATAACCTG
Found at i:22370976 original size:10 final size:9
Alignment explanation
Indices: 22370955--22371003 Score: 57
Period size: 9 Copynumber: 5.4 Consensus size: 9
22370945 GAAAAAAATG
22370955 AAATGAAAA
1 AAATGAAAA
22370964 AAATGATAAA
1 AAATGA-AAA
22370974 AAATGAAAA
1 AAATGAAAA
22370983 AAA-GAAAA
1 AAATGAAAA
*
22370991 GAAA-GAAAG
1 -AAATGAAAA
22371000 AAAT
1 AAAT
22371004 TCTACTCCGC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
8 8 0.22
9 19 0.53
10 9 0.25
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (9 bp):
AAATGAAAA
Found at i:22379474 original size:13 final size:13
Alignment explanation
Indices: 22379456--22379480 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22379446 TTCAACTCCT
22379456 TTTATTTATTTTA
1 TTTATTTATTTTA
22379469 TTTATTTATTTT
1 TTTATTTATTTT
22379481 TTAATTAGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:22396066 original size:48 final size:45
Alignment explanation
Indices: 22395950--22396115 Score: 160
Period size: 45 Copynumber: 3.6 Consensus size: 45
22395940 TGATATAGAG
22395950 GATTATTACTTGGTTGAATATGCTATAT-AAATCAAATAATAAGAT
1 GATTATTACTTGGTTGAATATGCTATATGAAAT-AAATAATAAGAT
* * *
22395995 GATCATTAATTGGTT-AGTGATGCTATATGATAAT-AATAATAAGAT
1 GATTATTACTTGGTTGAAT-ATGCTATATGA-AATAAATAATAAGAT
* * *
22396040 GTTTATTATTACTTGGTTGAATATGCTATATGACATGAACAATAAGATT
1 G---ATTATTACTTGGTTGAATATGCTATATGAAATAAATAATAAGA-T
* * *
22396089 G-TTAGTACTTGATTGATTATGCTATAT
1 GATTATTACTTGGTTGAATATGCTATAT
22396116 AACGTGCATG
Statistics
Matches: 101, Mismatches: 11, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
44 2 0.02
45 57 0.56
46 1 0.01
47 5 0.05
48 32 0.32
49 4 0.04
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (45 bp):
GATTATTACTTGGTTGAATATGCTATATGAAATAAATAATAAGAT
Found at i:22398218 original size:28 final size:27
Alignment explanation
Indices: 22398181--22398245 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 27
22398171 TAAATATTTT
*
22398181 AATTCTCAAAC-AAGAATTTAGAAATCATA
1 AATT-TCAAACTAA-AATTTAGAAATC-CA
*
22398210 AATTTCAAACTAAAATTTTGAAATCCA
1 AATTTCAAACTAAAATTTAGAAATCCA
22398237 AATTTCAAA
1 AATTTCAAA
22398246 TGCTACCTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 10 0.30
28 17 0.52
29 6 0.18
ACGTcount: A:0.51, C:0.14, G:0.05, T:0.31
Consensus pattern (27 bp):
AATTTCAAACTAAAATTTAGAAATCCA
Found at i:22400649 original size:14 final size:14
Alignment explanation
Indices: 22400632--22400665 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
22400622 CCGGAATCTT
22400632 GAATCCCGAACCTC
1 GAATCCCGAACCTC
22400646 GAATCCCGAACCTC
1 GAATCCCGAACCTC
22400660 GAATCC
1 GAATCC
22400666 AAAACTCTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.29, C:0.41, G:0.15, T:0.15
Consensus pattern (14 bp):
GAATCCCGAACCTC
Found at i:22400952 original size:13 final size:13
Alignment explanation
Indices: 22400934--22400969 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
22400924 GGTTTAAGAT
22400934 TTGAGATTTGAGA
1 TTGAGATTTGAGA
*
22400947 TTGAGATTTAAGA
1 TTGAGATTTGAGA
*
22400960 TTAAGATTTG
1 TTGAGATTTG
22400970 GGGTTTGGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.25, T:0.42
Consensus pattern (13 bp):
TTGAGATTTGAGA
Found at i:22404031 original size:11 final size:11
Alignment explanation
Indices: 22404015--22404050 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
22404005 GTATATAAAA
22404015 AATTTAAATTT
1 AATTTAAATTT
22404026 AATTTAAATTT
1 AATTTAAATTT
*
22404037 AATAATAAATTT
1 AAT-TTAAATTT
22404049 AA
1 AA
22404051 AAACAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
AATTTAAATTT
Found at i:22415162 original size:22 final size:22
Alignment explanation
Indices: 22415135--22415206 Score: 101
Period size: 22 Copynumber: 3.3 Consensus size: 22
22415125 GAAATTTAAA
22415135 ACAAAACATTATGAGGAGAGTT
1 ACAAAACATTATGAGGAGAGTT
* *
22415157 ATAAAATATTAT-AGGGAGAGTT
1 ACAAAACATTATGA-GGAGAGTT
*
22415179 ACAAAACATTATGAGGAGAATT
1 ACAAAACATTATGAGGAGAGTT
22415201 ACAAAA
1 ACAAAA
22415207 TAATGTTTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
21 1 0.02
22 41 0.95
23 1 0.02
ACGTcount: A:0.50, C:0.07, G:0.19, T:0.24
Consensus pattern (22 bp):
ACAAAACATTATGAGGAGAGTT
Found at i:22419143 original size:14 final size:15
Alignment explanation
Indices: 22419124--22419154 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
22419114 GATTTGGGTA
22419124 TTTGTAAATGGA-TT
1 TTTGTAAATGGACTT
22419138 TTTGTAAATGGACTT
1 TTTGTAAATGGACTT
22419153 TT
1 TT
22419155 AAATAAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (15 bp):
TTTGTAAATGGACTT
Found at i:22419788 original size:96 final size:98
Alignment explanation
Indices: 22419612--22419872 Score: 258
Period size: 96 Copynumber: 2.7 Consensus size: 98
22419602 GATTCGCCAC
* * * * * * * **
22419612 TGCGGCTTAAATCTTTCACTTCATGCTTTCGAGGTGCAAGGTTCACCGTTATGACTTAAACC-TT
1 TGCGGCTAAAATCTTACCCTTCAT-CTTTTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTT
* * **
22419676 TCCTTTTGCGTATTCGTGGCACTGGATTTGCCGT
65 TCCTTTTGCATATTCGTGGCACTAGATTCACCGT
* * *
22419710 TGCGGCTAAAATCTTACCCTTTAT-TTTTGCGGTACAAGGTTCGCCATTGCGGCTTAAACCTTTT
1 TGCGGCTAAAATCTTACCCTTCATCTTTTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTT
* * *
22419774 CC-TTTGTATCTTCGTGGTACTAGATTCACCGT
66 CCTTTTGCATATTCGTGGCACTAGATTCACCGT
* * ** * *
22419806 TGCGGCTTAAATCTTTCCCTTCATGCTTTTGAGGTATGAGGTTCGTCGTTGCGACTTAAACCTTT
1 TGCGGCTAAAATCTTACCCTTCAT-CTTTTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTT
22419871 TC
65 TC
22419873 TTCCATTATC
Statistics
Matches: 132, Mismatches: 28, Indels: 6
0.80 0.17 0.04
Matches are distributed among these distances:
96 72 0.55
97 5 0.04
98 55 0.42
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (98 bp):
TGCGGCTAAAATCTTACCCTTCATCTTTTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTT
CCTTTTGCATATTCGTGGCACTAGATTCACCGT
Found at i:22424713 original size:18 final size:19
Alignment explanation
Indices: 22424671--22424713 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
22424661 GTCAGTCGTG
22424671 CTTTTCACATTTCTCGCTT
1 CTTTTCACATTTCTCGCTT
* **
22424690 CCTTTCA-ATTTCTTTCTT
1 CTTTTCACATTTCTCGCTT
22424708 CTTTTC
1 CTTTTC
22424714 TTTCATACTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.09, C:0.30, G:0.02, T:0.58
Consensus pattern (19 bp):
CTTTTCACATTTCTCGCTT
Done.