Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
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 73 of 143
Found at i:23713292 original size:33 final size:33
Alignment explanation
Indices: 23713255--23713322 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
23713245 TTAACTCGGT
*
23713255 GTAAAATTCCCTCAATGGTTTAAGCTGTCAGTA
1 GTAAAATTCCCTCAACGGTTTAAGCTGTCAGTA
23713288 GTAAAATTCCCTCAACGGTTTAAGCTGTCAGTA
1 GTAAAATTCCCTCAACGGTTTAAGCTGTCAGTA
23713321 GT
1 GT
23713323 GTCTATCGGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (33 bp):
GTAAAATTCCCTCAACGGTTTAAGCTGTCAGTA
Found at i:23719240 original size:24 final size:24
Alignment explanation
Indices: 23719213--23719268 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
23719203 ACGATATGAT
23719213 ATGGAAGACTTGGTGATATCTTTA
1 ATGGAAGACTTGGTGATATCTTTA
*
23719237 ATGGAAGACTTGGTGATTTCTTTA
1 ATGGAAGACTTGGTGATATCTTTA
23719261 ATGGAAGA
1 ATGGAAGA
23719269 GCTTACGTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (24 bp):
ATGGAAGACTTGGTGATATCTTTA
Found at i:23725368 original size:25 final size:25
Alignment explanation
Indices: 23725327--23725583 Score: 205
Period size: 25 Copynumber: 10.4 Consensus size: 25
23725317 AGACGATGAA
* * *
23725327 GATATTCTATCTGGCTCATAAGAGC
1 GATATTCTGTCTAGCTCGTAAGAGC
*
23725352 GATATTTTGTCTAGCTCGTAAGAGC
1 GATATTCTGTCTAGCTCGTAAGAGC
* * * *
23725377 AATATTTTGTCT-GGTTGTAAGAGC
1 GATATTCTGTCTAGCTCGTAAGAGC
* * *
23725401 AATATTCTATCTGGCTCGTAAGAGC
1 GATATTCTGTCTAGCTCGTAAGAGC
*
23725426 TATATTCTGTCTAGCTCGTAAGAGC
1 GATATTCTGTCTAGCTCGTAAGAGC
* * * * *
23725451 GATATTCTATCTACCTCATAATATC
1 GATATTCTGTCTAGCTCGTAAGAGC
* * *
23725476 AATATTTTGT-TGGCTCGTAAGAGC
1 GATATTCTGTCTAGCTCGTAAGAGC
* * * * *
23725500 GATATTATGT-TTGCTTGTGAGAGT
1 GATATTCTGTCTAGCTCGTAAGAGC
*
23725524 GATATTCTGTCTAGCTCATAAGAGC
1 GATATTCTGTCTAGCTCGTAAGAGC
* * * *
23725549 GTTATTCTGTCTGGGCTCATTAGAGC
1 GATATTCTGTCT-AGCTCGTAAGAGC
*
23725575 TATATTCTG
1 GATATTCTG
23725584 GAGATTCGAA
Statistics
Matches: 184, Mismatches: 45, Indels: 5
0.79 0.19 0.02
Matches are distributed among these distances:
24 56 0.30
25 110 0.60
26 18 0.10
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (25 bp):
GATATTCTGTCTAGCTCGTAAGAGC
Found at i:23725406 original size:49 final size:49
Alignment explanation
Indices: 23725336--23725505 Score: 189
Period size: 49 Copynumber: 3.4 Consensus size: 49
23725326 AGATATTCTA
* * *
23725336 TCTGGCTCATAAGAGCGATATTTTGTCTAGCTCGTAAGAGCAATATTTTG
1 TCTGG-TCGTAAGAGCGATATTCTATCTAGCTCGTAAGAGCAATATTTTG
* * * * *
23725386 TCTGGTTGTAAGAGCAATATTCTATCTGGCTCGTAAGAGCTATATTCTG
1 TCTGGTCGTAAGAGCGATATTCTATCTAGCTCGTAAGAGCAATATTTTG
* * * * *
23725435 TCTAGCTCGTAAGAGCGATATTCTATCTACCTCATAATATCAATATTTTG
1 TCT-GGTCGTAAGAGCGATATTCTATCTAGCTCGTAAGAGCAATATTTTG
23725485 T-TGGCTCGTAAGAGCGATATT
1 TCTGG-TCGTAAGAGCGATATT
23725506 ATGTTTGCTT
Statistics
Matches: 99, Mismatches: 19, Indels: 5
0.80 0.15 0.04
Matches are distributed among these distances:
48 1 0.01
49 56 0.57
50 42 0.42
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.36
Consensus pattern (49 bp):
TCTGGTCGTAAGAGCGATATTCTATCTAGCTCGTAAGAGCAATATTTTG
Found at i:23725490 original size:74 final size:75
Alignment explanation
Indices: 23725328--23725580 Score: 251
Period size: 74 Copynumber: 3.4 Consensus size: 75
23725318 GACGATGAAG
* * * * *
23725328 ATATTCTATCTGGCTCATAAGAGCGATATTTTGTCTAGCTCGTAAGAGCAATATTTTGTCT-GGT
1 ATATTCTATCTGGCTCGTAAGAGCGATATTATGTCTAGCTCGTAAGAGCGATATTCTGTCTAGCT
**
23725392 TGTAAGAGCA
66 CATAAGAGCA
* * * *
23725402 ATATTCTATCTGGCTCGTAAGAGCTATATTCTGTCTAGCTCGTAAGAGCGATATTCTATCTACCT
1 ATATTCTATCTGGCTCGTAAGAGCGATATTATGTCTAGCTCGTAAGAGCGATATTCTGTCTAGCT
* *
23725467 CATAATATCA
66 CATAAGAGCA
* * * * * *
23725477 ATATTTTGT-TGGCTCGTAAGAGCGATATTATGT-TTGCTTGTGAGAGTGATATTCTGTCTAGCT
1 ATATTCTATCTGGCTCGTAAGAGCGATATTATGTCTAGCTCGTAAGAGCGATATTCTGTCTAGCT
*
23725540 CATAAGAGCG
66 CATAAGAGCA
* * * * *
23725550 TTATTCTGTCTGGGCTCATTAGAGCTATATT
1 ATATTCTATCT-GGCTCGTAAGAGCGATATT
23725581 CTGGAGATTC
Statistics
Matches: 146, Mismatches: 30, Indels: 5
0.81 0.17 0.03
Matches are distributed among these distances:
73 38 0.26
74 78 0.53
75 30 0.21
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (75 bp):
ATATTCTATCTGGCTCGTAAGAGCGATATTATGTCTAGCTCGTAAGAGCGATATTCTGTCTAGCT
CATAAGAGCA
Found at i:23736818 original size:27 final size:28
Alignment explanation
Indices: 23736765--23736818 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 28
23736755 AGGATCAGTT
** * *
23736765 GAAGGAGAAGGATCAAGAGGAAGAAGAA
1 GAAGGAGAAGGAAAAAGAGAAAAAAGAA
23736793 GAAGGA-AAGGAAAAAGAGAAAAAAGA
1 GAAGGAGAAGGAAAAAGAGAAAAAAGA
23736819 GAAAGAACCT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 16 0.73
28 6 0.27
ACGTcount: A:0.61, C:0.02, G:0.35, T:0.02
Consensus pattern (28 bp):
GAAGGAGAAGGAAAAAGAGAAAAAAGAA
Found at i:23741608 original size:24 final size:24
Alignment explanation
Indices: 23741581--23741636 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
23741571 ACGATATGAT
23741581 ATGGAAGACTTGGAAATATCTTTA
1 ATGGAAGACTTGGAAATATCTTTA
** *
23741605 ATGGAAGACTTGGTGATTTCTTTA
1 ATGGAAGACTTGGAAATATCTTTA
*
23741629 ATAGAAGA
1 ATGGAAGA
23741637 GCTTACGTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.34
Consensus pattern (24 bp):
ATGGAAGACTTGGAAATATCTTTA
Found at i:23746596 original size:25 final size:25
Alignment explanation
Indices: 23746561--23746805 Score: 328
Period size: 25 Copynumber: 9.8 Consensus size: 25
23746551 AGACGATGAA
* *
23746561 GATATTCTGTCTGGCTCATAAGAGC
1 GATATTTTGTCTGGCTCGTAAGAGC
23746586 GATATTTTGTCTGGCTCGTAAGAGC
1 GATATTTTGTCTGGCTCGTAAGAGC
*
23746611 GATATTTTATCTGGCTCGTAAGAGC
1 GATATTTTGTCTGGCTCGTAAGAGC
23746636 GATATTTTGTCTGGCTCGTAAGAGC
1 GATATTTTGTCTGGCTCGTAAGAGC
* * *
23746661 GATATTCTATCTAGCTCGTAAGAGC
1 GATATTTTGTCTGGCTCGTAAGAGC
* * *
23746686 GATATTGTATCTAGCTCGTAAGAGC
1 GATATTTTGTCTGGCTCGTAAGAGC
23746711 GATATTTTGTCTGGCTCGTAAGAGC
1 GATATTTTGTCTGGCTCGTAAGAGC
* *
23746736 GATATTTTTTCTGGCTCGTGAGAGC
1 GATATTTTGTCTGGCTCGTAAGAGC
* * * *
23746761 GATATTCTATCTAGCTTGTAAGAGC
1 GATATTTTGTCTGGCTCGTAAGAGC
* *
23746786 GTTATTCTGTCTGGGCTCGT
1 GATATTTTGTCT-GGCTCGT
23746806 TAAAGCTATA
Statistics
Matches: 197, Mismatches: 22, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
25 192 0.97
26 5 0.03
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (25 bp):
GATATTTTGTCTGGCTCGTAAGAGC
Found at i:23746652 original size:75 final size:75
Alignment explanation
Indices: 23746561--23746805 Score: 364
Period size: 75 Copynumber: 3.3 Consensus size: 75
23746551 AGACGATGAA
* * * *
23746561 GATATTCTGTCTGGCTCATAAGAGCGATATTTTGTCTGGCTCGTAAGAGCGATATTTTATCTGGC
1 GATATTCTGTCTGGCTCGTAAGAGCGATATTTTATCTGGCTCGTAAGAGCGATATTCTATCTAGC
23746626 TCGTAAGAGC
66 TCGTAAGAGC
* * * *
23746636 GATATTTTGTCTGGCTCGTAAGAGCGATATTCTATCTAGCTCGTAAGAGCGATATTGTATCTAGC
1 GATATTCTGTCTGGCTCGTAAGAGCGATATTTTATCTGGCTCGTAAGAGCGATATTCTATCTAGC
23746701 TCGTAAGAGC
66 TCGTAAGAGC
* * *
23746711 GATATTTTGTCTGGCTCGTAAGAGCGATATTTTTTCTGGCTCGTGAGAGCGATATTCTATCTAGC
1 GATATTCTGTCTGGCTCGTAAGAGCGATATTTTATCTGGCTCGTAAGAGCGATATTCTATCTAGC
*
23746776 TTGTAAGAGC
66 TCGTAAGAGC
*
23746786 GTTATTCTGTCTGGGCTCGT
1 GATATTCTGTCT-GGCTCGT
23746806 TAAAGCTATA
Statistics
Matches: 154, Mismatches: 15, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
75 147 0.95
76 7 0.05
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (75 bp):
GATATTCTGTCTGGCTCGTAAGAGCGATATTTTATCTGGCTCGTAAGAGCGATATTCTATCTAGC
TCGTAAGAGC
Found at i:23751720 original size:18 final size:18
Alignment explanation
Indices: 23751693--23751742 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 18
23751683 AAAATGAACA
23751693 AAATAAAAAAAATTAAAATA-
1 AAAT-AAAAAAA-TAAAA-AC
23751713 AAATAAAAAAATAAAAAC
1 AAATAAAAAAATAAAAAC
23751731 AAATAATAAAAA
1 AAATAA-AAAAA
23751743 GGACTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.04
18 11 0.39
19 12 0.43
20 4 0.14
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (18 bp):
AAATAAAAAAATAAAAAC
Found at i:23751734 original size:10 final size:9
Alignment explanation
Indices: 23751681--23751742 Score: 63
Period size: 9 Copynumber: 6.6 Consensus size: 9
23751671 TAAAAGTACT
*
23751681 AAAAAATGA
1 AAAAAATAA
*
23751690 ACAAAATAA
1 AAAAAATAA
23751699 AAAAAATTAA
1 AAAAAA-TAA
23751709 AATAAAAT-A
1 AA-AAAATAA
23751718 AAAAAATAA
1 AAAAAATAA
23751727 AAACAAATAA
1 AAA-AAATAA
23751737 TAAAAA
1 -AAAAA
23751743 GGACTAAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
8 5 0.11
9 19 0.42
10 14 0.31
11 7 0.16
ACGTcount: A:0.81, C:0.03, G:0.02, T:0.15
Consensus pattern (9 bp):
AAAAAATAA
Found at i:23763893 original size:22 final size:22
Alignment explanation
Indices: 23763861--23763902 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
23763851 ATTCTCTGAC
* *
23763861 TTGTATTGTATCGGTAGTTTAA
1 TTGTATGGTATCGATAGTTTAA
23763883 TTGTATGGTATCGATAGTTT
1 TTGTATGGTATCGATAGTTT
23763903 CATGACTTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.05, G:0.24, T:0.50
Consensus pattern (22 bp):
TTGTATGGTATCGATAGTTTAA
Found at i:23777728 original size:17 final size:17
Alignment explanation
Indices: 23777706--23777744 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
23777696 CTCCACCTTG
* * *
23777706 ACAAGAATTCTCTACGA
1 ACAAGAACTCTCAACAA
23777723 ACAAGAACTCTCAACAA
1 ACAAGAACTCTCAACAA
23777740 ACAAG
1 ACAAG
23777745 TTCTTCACCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.49, C:0.26, G:0.10, T:0.15
Consensus pattern (17 bp):
ACAAGAACTCTCAACAA
Found at i:23777836 original size:38 final size:38
Alignment explanation
Indices: 23777785--23777861 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
23777775 GGGAATTATT
23777785 CAATAATGAACACCAACCAAGTCCAAGCAATACTCAAA
1 CAATAATGAACACCAACCAAGTCCAAGCAATACTCAAA
23777823 CAATAATGAACACCAACCAAGTCCAAGCAATACTCAAA
1 CAATAATGAACACCAACCAAGTCCAAGCAATACTCAAA
23777861 C
1 C
23777862 TTGATTATGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.49, C:0.30, G:0.08, T:0.13
Consensus pattern (38 bp):
CAATAATGAACACCAACCAAGTCCAAGCAATACTCAAA
Found at i:23783579 original size:30 final size:30
Alignment explanation
Indices: 23783539--23783598 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
23783529 TGAATAACAC
23783539 AATTTAACAATACAAAACTTAAGAAACTTT
1 AATTTAACAATACAAAACTTAAGAAACTTT
* *
23783569 AATTTCACAATACAAAACTTATGAAACTTT
1 AATTTAACAATACAAAACTTAAGAAACTTT
23783599 GGGCATTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.50, C:0.15, G:0.03, T:0.32
Consensus pattern (30 bp):
AATTTAACAATACAAAACTTAAGAAACTTT
Found at i:23795575 original size:17 final size:17
Alignment explanation
Indices: 23795536--23795646 Score: 82
Period size: 17 Copynumber: 6.4 Consensus size: 17
23795526 TTAAACTCAT
*
23795536 TTTAAGATTTATTTTAAGA
1 TTTAA-ATTGATTTTAA-A
*
23795555 -TTAAATTGATTTTGAA
1 TTTAAATTGATTTTAAA
*
23795571 TTTAAATTTATTTTAAA
1 TTTAAATTGATTTTAAA
*
23795588 TTTATATTTG-TTTTAAAA
1 TTTA-AATTGATTTT-AAA
* *
23795606 TTTAAATTTAATTTAAA
1 TTTAAATTGATTTTAAA
* * *
23795623 TTTAGATTTATATATAAA
1 TTTAAATTGAT-TTTAAA
23795641 TTTAAA
1 TTTAAA
23795647 ACTTATTATA
Statistics
Matches: 74, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
16 1 0.01
17 46 0.62
18 27 0.36
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (17 bp):
TTTAAATTGATTTTAAA
Found at i:23795578 original size:6 final size:6
Alignment explanation
Indices: 23795569--23795646 Score: 63
Period size: 6 Copynumber: 13.3 Consensus size: 6
23795559 ATTGATTTTG
* * **
23795569 AATTTA AATTT- ATTTTA AATTTA TATTT- GTTTTAA AATTTA AATTT-
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTT-A AATTTA AATTTA
* * *
23795615 AATTTA AATTTA GATTTA TATATA AATTTA AA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AA
23795647 ACTTATTATA
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
5 12 0.21
6 41 0.73
7 3 0.05
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (6 bp):
AATTTA
Found at i:23795608 original size:35 final size:34
Alignment explanation
Indices: 23795536--23795646 Score: 111
Period size: 35 Copynumber: 3.2 Consensus size: 34
23795526 TTAAACTCAT
* *
23795536 TTTAAGATTTATTTTAAGA-TTAAATTGATTTTGAA
1 TTTAA-ATTTATTTTAA-ATTTAATTTGATTTTAAA
23795571 TTTAAATTTATTTTAAATTTATATTTG-TTTTAAAA
1 TTTAAATTTATTTTAAATTTA-ATTTGATTTT-AAA
* *
23795606 TTTAAATTTAATTTAAATTTAGATTT-ATATATAAA
1 TTTAAATTTATTTTAAATTTA-ATTTGAT-TTTAAA
23795641 TTTAAA
1 TTTAAA
23795647 ACTTATTATA
Statistics
Matches: 66, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
33 1 0.02
34 18 0.27
35 45 0.68
36 2 0.03
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (34 bp):
TTTAAATTTATTTTAAATTTAATTTGATTTTAAA
Found at i:23796364 original size:3 final size:3
Alignment explanation
Indices: 23796303--23796345 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
23796293 ACCTTTAGTC
* *
23796303 ATA ATA ATA ATA ATA TTG ATA ATAA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA
23796346 TTACTAAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:23796370 original size:9 final size:9
Alignment explanation
Indices: 23796303--23796370 Score: 55
Period size: 9 Copynumber: 7.2 Consensus size: 9
23796293 ACCTTTAGTC
*
23796303 ATAATAATA
1 ATAATATTA
*
23796312 ATAATATTG
1 ATAATATTA
*
23796321 ATAATAAATA
1 ATAAT-ATTA
*
23796331 ATAATAATA
1 ATAATATTA
23796340 ATAATATTA
1 ATAATATTA
* *
23796349 CTAAAACATTA
1 --ATAATATTA
23796360 ATAATATTA
1 ATAATATTA
23796369 AT
1 AT
23796371 GACTGTAATA
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
9 33 0.70
10 7 0.15
11 7 0.15
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (9 bp):
ATAATATTA
Found at i:23797512 original size:58 final size:59
Alignment explanation
Indices: 23797437--23797590 Score: 222
Period size: 58 Copynumber: 2.6 Consensus size: 59
23797427 CAGAAATCAT
* *
23797437 ATTTTTACCCCTGAACTTTCCAAAATTCCATTTTT-GACCCTAAACTTT-TGAAAATTAC
1 ATTTTTACCCCTAAACTTTCCAAAATTCCATTTTTAG-CCCTAAACTTTCTAAAAATTAC
*
23797495 ATTTTTACCCCTAAACTTTCCAAAATTCCATTTTTAGCCCTAATCTTTCTAAAAATTAC
1 ATTTTTACCCCTAAACTTTCCAAAATTCCATTTTTAGCCCTAAACTTTCTAAAAATTAC
* * *
23797554 ATTTTTTACCCCCAAACTTTCCAAACTTTCATTTTTA
1 A-TTTTTACCCCTAAACTTTCCAAAATTCCATTTTTA
23797591 TCCCGATTTT
Statistics
Matches: 87, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
58 44 0.51
59 11 0.13
60 32 0.37
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.42
Consensus pattern (59 bp):
ATTTTTACCCCTAAACTTTCCAAAATTCCATTTTTAGCCCTAAACTTTCTAAAAATTAC
Found at i:23797557 original size:30 final size:29
Alignment explanation
Indices: 23797416--23797590 Score: 181
Period size: 29 Copynumber: 5.9 Consensus size: 29
23797406 TCTAAAGGTG
* * *
23797416 CCTAAACTGTCCAGAAATCATATTTTTACC
1 CCTAAACTTTCCA-AAATTACATTTTTACC
* *
23797446 CCTGAACTTTCCAAAATTCCATTTTTGA-C
1 CCTAAACTTTCCAAAATTACATTTTT-ACC
**
23797475 CCTAAACTTTTGAAAATTACATTTTTACC
1 CCTAAACTTTCCAAAATTACATTTTTACC
* *
23797504 CCTAAACTTTCCAAAATTCCATTTTTAGC
1 CCTAAACTTTCCAAAATTACATTTTTACC
* *
23797533 CCTAATCTTTCTAAAAATTACATTTTTTACC
1 CCTAAACTTTC-CAAAATTACA-TTTTTACC
* * *
23797564 CCCAAACTTTCCAAACTTTCATTTTTA
1 CCTAAACTTTCCAAAATTACATTTTTA
23797591 TCCCGATTTT
Statistics
Matches: 119, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
28 1 0.01
29 75 0.63
30 27 0.23
31 16 0.13
ACGTcount: A:0.31, C:0.26, G:0.03, T:0.39
Consensus pattern (29 bp):
CCTAAACTTTCCAAAATTACATTTTTACC
Found at i:23797617 original size:60 final size:59
Alignment explanation
Indices: 23797437--23797625 Score: 188
Period size: 58 Copynumber: 3.2 Consensus size: 59
23797427 CAGAAATCAT
** * ** *
23797437 ATTTTTACCCCTGAACTTTCCAAAATTCCATTTTT-GACCCTAAACTTT-TGAAAATTAC
1 ATTTTTACCCCCAAACTTTCCAAAATTCCATTTTTAG-CCCTAATCTTTCCAAAAAGTAC
* * *
23797495 ATTTTTACCCCTAAACTTTCCAAAATTCCATTTTTAGCCCTAATCTTTCTAAAAATTAC
1 ATTTTTACCCCCAAACTTTCCAAAATTCCATTTTTAGCCCTAATCTTTCCAAAAAGTAC
* * * * * *
23797554 ATTTTTTACCCCCAAACTTTCCAAACTTTCATTTTTATCCC-GATTTTTCCATAAAGTACC
1 A-TTTTTACCCCCAAACTTTCCAAAATTCCATTTTTAGCCCTAATCTTTCCAAAAAGTA-C
23797614 A-TTTTACCCCCA
1 ATTTTTACCCCCA
23797626 GATGTCTAAA
Statistics
Matches: 115, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
58 55 0.48
59 23 0.20
60 37 0.32
ACGTcount: A:0.30, C:0.27, G:0.03, T:0.40
Consensus pattern (59 bp):
ATTTTTACCCCCAAACTTTCCAAAATTCCATTTTTAGCCCTAATCTTTCCAAAAAGTAC
Found at i:23797676 original size:29 final size:29
Alignment explanation
Indices: 23797437--23797676 Score: 145
Period size: 29 Copynumber: 8.2 Consensus size: 29
23797427 CAGAAATCAT
*
23797437 ATTTTTACCCCTGAACTTTCCAAAATTCC
1 ATTTTTACCCCTCAACTTTCCAAAATTCC
* ** *
23797466 ATTTTTGA-CCCTAAACTTTTGAAAATTAC
1 ATTTTT-ACCCCTCAACTTTCCAAAATTCC
*
23797495 ATTTTTACCCCTAAACTTTCCAAAATTCC
1 ATTTTTACCCCTCAACTTTCCAAAATTCC
* * *
23797524 ATTTTTAGCCCT-AATCTTTCTAAAAATTAC
1 ATTTTTACCCCTCAA-CTTTC-CAAAATTCC
* *
23797554 ATTTTTTACCCC-CAAACTTTCCAAACTTTC
1 A-TTTTTACCCCTC-AACTTTCCAAAATTCC
* * ** *
23797584 ATTTTTATCCC-GATTTTTCCATAAAGTACC
1 ATTTTTACCCCTCAACTTTCCA-AAA-TTCC
* * *
23797614 A-TTTTACCCC-CAGA-TGTCTAAAAATTTC
1 ATTTTTACCCCTCA-ACTTTC-CAAAATTCC
*
23797642 ATTTTTTA-CCCTCAACTTCCCAAAATTACC
1 A-TTTTTACCCCTCAACTTTCCAAAATT-CC
23797672 ATTTT
1 ATTTT
23797677 GCCCCCGAGT
Statistics
Matches: 163, Mismatches: 32, Indels: 32
0.72 0.14 0.14
Matches are distributed among these distances:
28 13 0.08
29 103 0.63
30 31 0.19
31 14 0.09
32 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.03, T:0.40
Consensus pattern (29 bp):
ATTTTTACCCCTCAACTTTCCAAAATTCC
Found at i:23809648 original size:48 final size:48
Alignment explanation
Indices: 23809558--23810184 Score: 642
Period size: 48 Copynumber: 12.9 Consensus size: 48
23809548 GAAACACGAC
* * * * **
23809558 GGGAAAGATCTAAGACTGCAATGGCGGATCTAATACTGCGAAGACACAA
1 GGGAAAGATCTAAG-CCGCAACGGCGGATCCAGTACCACGAAGACACAA
** * *
23809607 GGGAAAGATCTAAGCCGTGATGGCGGATCCAGTACCACGAAGACACAG
1 GGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACACAA
* * *
23809655 GGGAAAGATCTAAGCCGCAATGGCGGATCCAGTACCACGAAAACACGAC
1 GGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACAC-AA
* * * * *
23809704 TGGAAAGATCTAAGACCGCAACGGTGGATCCAATATCGCGAAGACACAA
1 GGGAAAGATCTAAG-CCGCAACGGCGGATCCAGTACCACGAAGACACAA
* * * * * *
23809753 GGAAAAGATCTAAACCGCGATGGTGGATCCAGTACCACGAAGACATGAA
1 GGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACA-CAA
*
23809802 GGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCACGAAGACACAA
1 GGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACACAA
* * * * * *
23809850 AGGAAAGATCTGAGCCACAACGACGGATCCAGTACCACGAAAACACGAC
1 GGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACAC-AA
* * * *
23809899 GGGAAAGATTTAAGACCACAACTGCAGATCCAGTACCACGAAGACACAA
1 GGGAAAGATCTAAG-CCGCAACGGCGGATCCAGTACCACGAAGACACAA
* * * * ** * * *
23809948 GGGAAAAATCTAAGCCACGACGACAAATCTAGTACCACGAAAACATGAA
1 GGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACA-CAA
* ** *
23809997 GGGAAACATCTAAGCCATAACAGCGGATCCAGTACCACGAAGACACAA
1 GGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACACAA
* *
23810045 GGGAAAGGTCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACATGAA
1 GGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACA-CAA
* * * * * *
23810094 AGGAAAGATCTAATCCACGACGACGGATCCAGTACTACGAAGACACAA
1 GGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACACAA
* * * *
23810142 GGGAAAGACCTAAGCCGTAACGGCGGATGCAGTACCACAAAGA
1 GGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGA
23810185 TTTGAAGGGA
Statistics
Matches: 479, Mismatches: 92, Indels: 15
0.82 0.16 0.03
Matches are distributed among these distances:
48 241 0.50
49 184 0.38
50 54 0.11
ACGTcount: A:0.39, C:0.24, G:0.25, T:0.12
Consensus pattern (48 bp):
GGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACACAA
Found at i:23809757 original size:97 final size:97
Alignment explanation
Indices: 23809558--23810179 Score: 679
Period size: 97 Copynumber: 6.4 Consensus size: 97
23809548 GAAACACGAC
* * * * ** *
23809558 GGGAAAGATCTAAGACTGCAATGGCGGATCTAATACTGCGAAGACAC-AAGGGAAAGATCTAAGC
1 GGGAAAGATCTAAG-CCGCAACGGCGGATCCAGTACCACGAAAACACGAAGGGAAAGATCTAAGC
*** * *
23809622 CGTGATGGCGGATCCAGTACCACGAAGACACAG
65 CACAACGGCGGATCCAGTACCACGAAGACACAA
* **
23809655 GGGAAAGATCTAAGCCGCAATGGCGGATCCAGTACCACGAAAACACGACTGGAAAGATCTAAGAC
1 GGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAAACACGAAGGGAAAGATCTAAG-C
* * * * *
23809720 CGCAACGGTGGATCCAATATCGCGAAGACACAA
65 CACAACGGCGGATCCAGTACCACGAAGACACAA
* * * * * * *
23809753 GGAAAAGATCTAAACCGCGATGGTGGATCCAGTACCACGAAGACATGAAGGGAAAGATCTAAGCC
1 GGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAAACACGAAGGGAAAGATCTAAGCC
* *
23809818 GCAACGACGGATCCAGTACCACGAAGACACAA
66 ACAACGGCGGATCCAGTACCACGAAGACACAA
* * * * * *
23809850 AGGAAAGATCTGAGCCACAACGACGGATCCAGTACCACGAAAACACGACGGGAAAGATTTAAGAC
1 GGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAAACACGAAGGGAAAGATCTAAG-C
* *
23809915 CACAACTGCAGATCCAGTACCACGAAGACACAA
65 CACAACGGCGGATCCAGTACCACGAAGACACAA
* * * * ** * * *
23809948 GGGAAAAATCTAAGCCACGACGACAAATCTAGTACCACGAAAACATGAAGGGAAACATCTAAGCC
1 GGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAAACACGAAGGGAAAGATCTAAGCC
* *
23810013 ATAACAGCGGATCCAGTACCACGAAGACACAA
66 ACAACGGCGGATCCAGTACCACGAAGACACAA
* * * * *
23810045 GGGAAAGGTCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACATGAAAGGAAAGATCTAATCC
1 GGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAAACACGAAGGGAAAGATCTAAGCC
* * *
23810110 ACGACGACGGATCCAGTACTACGAAGACACAA
66 ACAACGGCGGATCCAGTACCACGAAGACACAA
* * *
23810142 GGGAAAGACCTAAGCCGTAACGGCGGATGCAGTACCAC
1 GGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCAC
23810180 AAAGATTTGA
Statistics
Matches: 441, Mismatches: 81, Indels: 6
0.84 0.15 0.01
Matches are distributed among these distances:
96 26 0.06
97 252 0.57
98 163 0.37
ACGTcount: A:0.39, C:0.24, G:0.25, T:0.12
Consensus pattern (97 bp):
GGGAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAAACACGAAGGGAAAGATCTAAGCC
ACAACGGCGGATCCAGTACCACGAAGACACAA
Found at i:23809893 original size:195 final size:195
Alignment explanation
Indices: 23809596--23810147 Score: 680
Period size: 195 Copynumber: 2.8 Consensus size: 195
23809586 TCTAATACTG
* * * * *
23809596 CGAAGACA-CAAGGGAAAGATCTAAGCCGTGATGGCGGATCCAGTACCACGAAGACACAGGGGAA
1 CGAAGACATGAAGGGAAAGATCTAAGCCGTAACGACGGATCCAGTACCACGAAGACACAAGGGAA
* * *
23809660 AGATCTAAGCCGCAATGGCGGATCCAGTACCACGAAAACACGACTGGAAAGATCTAAGACCGCAA
66 AGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAAACACGACAGGAAAGATCTAAGACCACAA
** * * * * ****
23809725 CGGTGGATCCAATATCGCGAAGACACAA-GGAAAAGATCTAAACCGCGATGGTGGATCCAGTACC
131 CGGCAGATCCAATACCACGAAGACACAAGGGAAAA-ATCTAAACCACGACGACAAATCCAGTACC
23809789 A
195 A
* *
23809790 CGAAGACATGAAGGGAAAGATCTAAGCCGCAACGACGGATCCAGTACCACGAAGACACAAAGGAA
1 CGAAGACATGAAGGGAAAGATCTAAGCCGTAACGACGGATCCAGTACCACGAAGACACAAGGGAA
* * * * *
23809855 AGATCTGAGCCACAACGACGGATCCAGTACCACGAAAACACGACGGGAAAGATTTAAGACCACAA
66 AGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAAACACGACAGGAAAGATCTAAGACCACAA
* * * *
23809920 CTGCAGATCCAGTACCACGAAGACACAAGGGAAAAATCTAAGCCACGACGACAAATCTAGTACCA
131 CGGCAGATCCAATACCACGAAGACACAAGGGAAAAATCTAAACCACGACGACAAATCCAGTACCA
* * *
23809985 CGAAAACATGAAGGGAAACATCTAAGCCATAAC-AGCGGATCCAGTACCACGAAGACACAAGGGA
1 CGAAGACATGAAGGGAAAGATCTAAGCCGTAACGA-CGGATCCAGTACCACGAAGACACAAGGGA
* * * * * *
23810049 AAGGTCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACATGAAAGGAAAGATCTAA-TCCACG
65 AAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAAACACGACAGGAAAGATCTAAGACCACA
* * * *
23810113 ACGACGGATCCAGTACTACGAAGACACAAGGGAAA
130 ACGGCAGATCCAATACCACGAAGACACAAGGGAAA
23810148 GACCTAAGCC
Statistics
Matches: 307, Mismatches: 48, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
194 44 0.14
195 257 0.84
196 6 0.02
ACGTcount: A:0.40, C:0.24, G:0.24, T:0.11
Consensus pattern (195 bp):
CGAAGACATGAAGGGAAAGATCTAAGCCGTAACGACGGATCCAGTACCACGAAGACACAAGGGAA
AGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAAACACGACAGGAAAGATCTAAGACCACAA
CGGCAGATCCAATACCACGAAGACACAAGGGAAAAATCTAAACCACGACGACAAATCCAGTACCA
Found at i:23810756 original size:6 final size:6
Alignment explanation
Indices: 23810747--23810824 Score: 54
Period size: 6 Copynumber: 13.3 Consensus size: 6
23810737 ATTGATTTTG
* * **
23810747 AATTTA AATTT- ATTTTA AATTTA GATTT- GTTTTAA AATTTA AATTT-
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTT-A AATTTA AATTTA
* * **
23810793 AATTTA AATTTA GATTTA TAGATA AATTTA AA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AA
23810825 ACTTATTATA
Statistics
Matches: 55, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
5 13 0.24
6 39 0.71
7 3 0.05
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (6 bp):
AATTTA
Found at i:23810786 original size:35 final size:35
Alignment explanation
Indices: 23810714--23810809 Score: 117
Period size: 35 Copynumber: 2.7 Consensus size: 35
23810704 TTAAACCCAT
* *
23810714 TTTAAGATTTATTTTAAGA-TTA-AATTGATTTTGAA
1 TTTAA-ATTTATTTTAA-ATTTAGATTTGATTTTAAA
23810749 TTTAAATTTATTTTAAATTTAGATTTG-TTTTAAAA
1 TTTAAATTTATTTTAAATTTAGATTTGATTTT-AAA
*
23810784 TTTAAATTTAATTTAAATTTAGATTT
1 TTTAAATTTATTTTAAATTTAGATTT
23810810 ATAGATAAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
33 1 0.02
34 18 0.33
35 36 0.65
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (35 bp):
TTTAAATTTATTTTAAATTTAGATTTGATTTTAAA
Found at i:23810809 original size:17 final size:17
Alignment explanation
Indices: 23810714--23810811 Score: 108
Period size: 17 Copynumber: 5.6 Consensus size: 17
23810704 TTAAACCCAT
23810714 TTTAAGATTTATTTTAAGA
1 TTTAA-ATTTATTTTAA-A
* *
23810733 -TTAAATTGATTTTGAA
1 TTTAAATTTATTTTAAA
23810749 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
23810766 TTTAGATTTGTTTTAAAA
1 TTTAAATTTATTTT-AAA
*
23810784 TTTAAATTTAATTTAAA
1 TTTAAATTTATTTTAAA
*
23810801 TTTAGATTTAT
1 TTTAAATTTAT
23810812 AGATAAATTT
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
16 1 0.02
17 47 0.71
18 18 0.27
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:23810820 original size:35 final size:35
Alignment explanation
Indices: 23810747--23810824 Score: 104
Period size: 35 Copynumber: 2.2 Consensus size: 35
23810737 ATTGATTTTG
* * **
23810747 AATTTAAATTTATTTTAAATTTAGATTTGTTTTAA
1 AATTTAAATTTAATTTAAATTTAGATTTATGATAA
23810782 AATTTAAATTTAATTTAAATTTAGATTTATAGAT-A
1 AATTTAAATTTAATTTAAATTTAGATTTAT-GATAA
23810817 AATTTAAA
1 AATTTAAA
23810825 ACTTATTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
35 37 0.97
36 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (35 bp):
AATTTAAATTTAATTTAAATTTAGATTTATGATAA
Found at i:23811528 original size:18 final size:18
Alignment explanation
Indices: 23811507--23811546 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
23811497 ATACTACTAC
*
23811507 TAATAACAT-TAATAATAT
1 TAATAAC-TGTAATAATAG
23811525 TAATAACTGTAATAATAG
1 TAATAACTGTAATAATAG
23811543 TAAT
1 TAAT
23811547 TATTAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (18 bp):
TAATAACTGTAATAATAG
Found at i:23812632 original size:29 final size:28
Alignment explanation
Indices: 23812600--23812845 Score: 103
Period size: 29 Copynumber: 8.4 Consensus size: 28
23812590 CCAAAAATAT
23812600 ATTTTTACCCCTGAACTTTCCAAAATTC
1 ATTTTTACCCCTGAACTTTCCAAAATTC
* * *
23812628 GATTTTTGGCTCC-AAACTTTCCAAAATTTC
1 -ATTTTT-ACCCCTGAACTTTCCAAAA-TTC
* * ** *
23812658 ATTTTTGACACC--AAGTTTTTGAAATTTAC
1 ATTTTT-ACCCCTGAA-CTTTCCAAAATT-C
* *
23812687 ATTTTTACTCCTAAACTTTCCAAAATTCC
1 ATTTTTACCCCTGAACTTTCCAAAATT-C
* * *
23812716 ATTTTTGA-CCTTGATCTTTTCGAAAATTAC
1 ATTTTT-ACCCCTGAAC-TTTCCAAAATT-C
* *
23812746 ATTTTTACCCCTAAACTTTACAAAATTC
1 ATTTTTACCCCTGAACTTTCCAAAATTC
* **
23812774 TACTTTTGA-CCCTGATTTTTCCAAAAATTACC
1 -A-TTTTTACCCCTGAACTTTCC-AAAATT--C
23812806 A-TTTTA-CCCTCGAAC-TTCCAAAAATTCC
1 ATTTTTACCCCT-GAACTTTCC-AAAATT-C
23812834 ATTTTTGACCCC
1 ATTTTT-ACCCC
23812846 AATTCTTCCA
Statistics
Matches: 165, Mismatches: 34, Indels: 34
0.71 0.15 0.15
Matches are distributed among these distances:
28 12 0.07
29 103 0.62
30 45 0.27
31 4 0.02
32 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (28 bp):
ATTTTTACCCCTGAACTTTCCAAAATTC
Found at i:23812770 original size:59 final size:58
Alignment explanation
Indices: 23812641--23812844 Score: 220
Period size: 59 Copynumber: 3.5 Consensus size: 58
23812631 TTTTGGCTCC
* * * *
23812641 AAACTTTCCAAAATTTCATTTTTGACACC-AAGTTTTT-GAAATTTACATTTTTACTCCT
1 AAACTTTCCAAAATTCCATTTTTGAC-CCTGA-TTTTTCGAAAATTACATTTTTACCCCT
*
23812699 AAACTTTCCAAAATTCCATTTTTGACCTTGATCTTTTCGAAAATTACATTTTTACCCCT
1 AAACTTTCCAAAATTCCATTTTTGACCCTGAT-TTTTCGAAAATTACATTTTTACCCCT
* * * *
23812758 AAACTTTACAAAATTCTACTTTTGACCCTGATTTTTCCAAAAATTACCA-TTTTA-CCCT
1 AAACTTTCCAAAATTCCATTTTTGACCCTGATTTTT-CGAAAATTA-CATTTTTACCCCT
*
23812816 CGAAC-TTCCAAAAATTCCATTTTTGACCC
1 -AAACTTTCC-AAAATTCCATTTTTGACCC
23812845 CAATTCTTCC
Statistics
Matches: 125, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
57 2 0.02
58 41 0.33
59 80 0.64
60 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.41
Consensus pattern (58 bp):
AAACTTTCCAAAATTCCATTTTTGACCCTGATTTTTCGAAAATTACATTTTTACCCCT
Found at i:23812855 original size:59 final size:59
Alignment explanation
Indices: 23812767--23812935 Score: 182
Period size: 59 Copynumber: 2.8 Consensus size: 59
23812757 TAAACTTTAC
* * * * *
23812767 AAAATTCTACTTTTGACCCTGATTTTTCCAAAAATTACCATTTTACCCTCGAACT-TCCA
1 AAAATTCCATTTTTGACCC-CAATTTTCCAAAAATTACCATTTTACCCTCGAAATGTCCA
* * * *
23812826 AAAATTCCATTTTTGACCCCAATTCTTCCACAAAGTACCATTTTACCC-CCAAATGTCTA
1 AAAATTCCATTTTTGACCCCAATT-TTCCAAAAATTACCATTTTACCCTCGAAATGTCCA
* *
23812885 AAAATTTCATTTTTGACCCCTAACTTTCTC-AAAATTACCATTTTACCCTCG
1 AAAATTCCATTTTTGACCCC-AATTTTC-CAAAAATTACCATTTTACCCTCG
23812936 GGTACTCAAA
Statistics
Matches: 91, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
58 7 0.08
59 79 0.87
60 5 0.05
ACGTcount: A:0.31, C:0.28, G:0.05, T:0.36
Consensus pattern (59 bp):
AAAATTCCATTTTTGACCCCAATTTTCCAAAAATTACCATTTTACCCTCGAAATGTCCA
Found at i:23812876 original size:30 final size:27
Alignment explanation
Indices: 23812792--23812932 Score: 86
Period size: 30 Copynumber: 4.8 Consensus size: 27
23812782 ACCCTGATTT
*
23812792 TTCCAAAAATTACCATTTTACCCTCGAAC
1 TTCCAAAAA-TACCATTTTACCC-CCAAC
*
23812821 TTCCAAAAATTCCATTTTTGA-CCCCAATTC
1 TTCCAAAAATACCA-TTTT-ACCCCCAA--C
* *
23812851 TTCCACAAAGTACCATTTTACCCCCAAA
1 TTCCA-AAAATACCATTTTACCCCCAAC
* ** *
23812879 TGTCTAAAAATTTCATTTTTGACCCCTAAC
1 T-TCCAAAAATACCA-TTTT-ACCCCCAAC
*
23812909 TTTCTCAAAATTACCATTTTACCC
1 -TTC-CAAAAATACCATTTTACCC
23812933 TCGGGTACTC
Statistics
Matches: 86, Mismatches: 15, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
28 14 0.16
29 27 0.31
30 30 0.35
31 15 0.17
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.35
Consensus pattern (27 bp):
TTCCAAAAATACCATTTTACCCCCAAC
Found at i:23812947 original size:59 final size:56
Alignment explanation
Indices: 23812792--23812956 Score: 145
Period size: 59 Copynumber: 2.8 Consensus size: 56
23812782 ACCCTGATTT
* *
23812792 TTCCAAAAATTACCATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCCAATTC
1 TTCC-AAAATTACCATTTTACCCTCGTAC-T-CAAAAATTCCATTTTTGACCCCAACTC
* * ** * *
23812851 TTCCACAAAGTACCATTTTACCCCCAAATGTCTAAAAATTTCATTTTTGACCCCTAACT-
1 TTCCA-AAATTACCATTTTACCCTCGTA-CTC-AAAAATTCCATTTTTGACCCC-AACTC
23812910 TTCTCAAAATTACCATTTTACCCTCGGGTACTCAAAAA-TCACATTTT
1 TTC-CAAAATTACCATTTTACCCTC--GTACTCAAAAATTC-CATTTT
23812957 CAACTCCAAT
Statistics
Matches: 86, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
58 3 0.03
59 75 0.87
60 7 0.08
61 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (56 bp):
TTCCAAAATTACCATTTTACCCTCGTACTCAAAAATTCCATTTTTGACCCCAACTC
Found at i:23819487 original size:23 final size:25
Alignment explanation
Indices: 23819461--23819506 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
23819451 CCAATTAGGA
23819461 AATTAT-TGTTTAG-ATTTAATTCT
1 AATTATCTGTTTAGAATTTAATTCT
*
23819484 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
23819507 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCT
Found at i:23840113 original size:48 final size:48
Alignment explanation
Indices: 23840030--23840558 Score: 569
Period size: 48 Copynumber: 10.9 Consensus size: 48
23840020 AAACACGACA
* * * *
23840030 GGAAAGATCTAAGACCGCAATGGCGGATCTAGTACCGCGAAGACATAAA
1 GGAAAGATCTAAG-CCGCAATGGCGGATCCAGTACCACGAAGACACAAG
* * * *
23840079 GGAAAGATCTAAGCCACGACGGCGGATCCAGTACCACGAAGACACAGG
1 GGAAAGATCTAAGCCGCAATGGCGGATCCAGTACCACGAAGACACAAG
** * *
23840127 GGAAAGATCTAAGCTACAATGGCAGATCCAGTACCAC-AA-AAACAAG
1 GGAAAGATCTAAGCCGCAATGGCGGATCCAGTACCACGAAGACACAAG
* * * *
23840173 ACAGGAAAGATCTAAGACCGCAACGGTGGATCCAGTACCGCGAAGACATAAG
1 ---GGAAAGATCTAAG-CCGCAATGGCGGATCCAGTACCACGAAGACACAAG
* * * * *
23840225 GGAAAGATCTAAGCCGCGACGGTGGATCCAGTACCACGAGGACATGAAG
1 GGAAAGATCTAAGCCGCAATGGCGGATCCAGTACCACGAAGACA-CAAG
* * * * *
23840274 GGAAAGATCTAAGTCGCAACGGCGGATCCAGTACCACGAAAACAAGAAA
1 GGAAAGATCTAAGCCGCAATGGCGGATCCAGTACCACGAAGAC-ACAAG
** * *
23840323 GGAAAGATCTAAGACCATAATTGCGGATCCAGTACCGCGAAGACACAAG
1 GGAAAGATCTAAG-CCGCAATGGCGGATCCAGTACCACGAAGACACAAG
* * *
23840372 GGAAAGATCTAAGTCGCGATGGCGGATCCAGTACCACGAAGACATGAAG
1 GGAAAGATCTAAGCCGCAATGGCGGATCCAGTACCACGAAGACA-CAAG
* * * *
23840421 GGAAAGATCTAAGCCACAATGGCGGATCCAGTACCATGAAAAAACAAG
1 GGAAAGATCTAAGCCGCAATGGCGGATCCAGTACCACGAAGACACAAG
* * * *
23840469 GGAAAGGTCTAAACCGCAACT-GCGAATCCAGTACTACGAAGACACAAG
1 GGAAAGATCTAAGCCGCAA-TGGCGGATCCAGTACCACGAAGACACAAG
*
23840517 GGAAAGATCTAAGCCGCAATGGTGGATCCAGTACCACGAAGA
1 GGAAAGATCTAAGCCGCAATGGCGGATCCAGTACCACGAAGA
23840559 TTTGAAGGGA
Statistics
Matches: 400, Mismatches: 68, Indels: 25
0.81 0.14 0.05
Matches are distributed among these distances:
46 5 0.01
47 3 0.01
48 189 0.47
49 154 0.38
50 42 0.10
51 2 0.00
52 5 0.01
ACGTcount: A:0.39, C:0.22, G:0.26, T:0.12
Consensus pattern (48 bp):
GGAAAGATCTAAGCCGCAATGGCGGATCCAGTACCACGAAGACACAAG
Found at i:23840351 original size:147 final size:146
Alignment explanation
Indices: 23840020--23840571 Score: 723
Period size: 147 Copynumber: 3.8 Consensus size: 146
23840010 TAGCACCATG
* * * * * *
23840020 AAACACGACAGGAAAGATCTAAGACCGCAATGGCGGATCTAGTACCGCGAAGACATAAAGGAAAG
1 AAACAAGAAAGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCGAAGACACAAGGGAAAG
* * *
23840085 ATCTAAGCCACGACGGCGGATCCAGTACCACGAAGACA-CAGGGGAAAGATCTAAGCTACAATGG
66 ATCTAAGCCGCGACGGCGGATCCAGTACCACGAAGACATGAAGGGAAAGATCTAAGC-ACAATGG
* *
23840149 CAGATCCAGTACCACAA
130 CGGATCCAGTACCACGA
* * *
23840166 AAACAAGACAGGAAAGATCTAAGACCGCAACGGTGGATCCAGTACCGCGAAGACATAAGGGAAAG
1 AAACAAGAAAGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCGAAGACACAAGGGAAAG
* * * *
23840231 ATCTAAGCCGCGACGGTGGATCCAGTACCACGAGGACATGAAGGGAAAGATCTAAGTCGCAACGG
66 ATCTAAGCCGCGACGGCGGATCCAGTACCACGAAGACATGAAGGGAAAGATCTAAG-CACAATGG
23840296 CGGATCCAGTACCACGA
130 CGGATCCAGTACCACGA
** **
23840313 AAACAAGAAAGGAAAGATCTAAGACCATAATTGCGGATCCAGTACCGCGAAGACACAAGGGAAAG
1 AAACAAGAAAGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCGAAGACACAAGGGAAAG
* *
23840378 ATCTAAGTCGCGATGGCGGATCCAGTACCACGAAGACATGAAGGGAAAGATCTAAGCCACAATGG
66 ATCTAAGCCGCGACGGCGGATCCAGTACCACGAAGACATGAAGGGAAAGATCTAAG-CACAATGG
*
23840443 CGGATCCAGTACCATGA
130 CGGATCCAGTACCACGA
* * * * * **
23840460 AAA-AACAAGGGAAAGGTCTAA-ACCGCAACTGCGAATCCAGTACTACGAAGACACAAGGGAAAG
1 AAACAAGAAAGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCGAAGACACAAGGGAAAG
* * * **
23840523 ATCTAAGCCGCAATGGTGGATCCAGTACCACGAAGATTTGAAGGGAAAG
66 ATCTAAGCCGCGACGGCGGATCCAGTACCACGAAGACATGAAGGGAAAG
23840572 GTTTAAATCA
Statistics
Matches: 361, Mismatches: 43, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
145 80 0.22
146 110 0.30
147 170 0.47
148 1 0.00
ACGTcount: A:0.39, C:0.22, G:0.26, T:0.12
Consensus pattern (146 bp):
AAACAAGAAAGGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCGCGAAGACACAAGGGAAAG
ATCTAAGCCGCGACGGCGGATCCAGTACCACGAAGACATGAAGGGAAAGATCTAAGCACAATGGC
GGATCCAGTACCACGA
Found at i:23841125 original size:17 final size:17
Alignment explanation
Indices: 23841086--23841163 Score: 70
Period size: 17 Copynumber: 4.5 Consensus size: 17
23841076 TTAAACCCAT
*
23841086 TTTAAGATTTATTTTAAGA
1 TTTAA-ATTGATTTTAA-A
*
23841105 -TTAAATTGATTTTGAA
1 TTTAAATTGATTTTAAA
*
23841121 TTTAAATTTATTTTAAA
1 TTTAAATTGATTTTAAA
*
23841138 TTTAGATTTG-TTTTAAAA
1 TTTA-AATTGATTTT-AAA
23841156 TTTAAATT
1 TTTAAATT
23841164 TAGATTTATA
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
16 1 0.02
17 34 0.69
18 14 0.29
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (17 bp):
TTTAAATTGATTTTAAA
Found at i:23841180 original size:24 final size:24
Alignment explanation
Indices: 23841132--23841185 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
23841122 TTAAATTTAT
* *
23841132 TTTAAATTTAGATTTGTTTTAAAA
1 TTTAAATTTAGATTTATTATAAAA
23841156 TTTAAATTTAGATTTA-TATATAAA
1 TTTAAATTTAGATTTATTATA-AAA
23841180 TTTAAA
1 TTTAAA
23841186 ACTTATTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 3 0.11
24 24 0.89
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.52
Consensus pattern (24 bp):
TTTAAATTTAGATTTATTATAAAA
Found at i:23841893 original size:15 final size:15
Alignment explanation
Indices: 23841835--23841927 Score: 62
Period size: 15 Copynumber: 5.8 Consensus size: 15
23841825 CCTTTAGTCA
*
23841835 TAATAATAAT-ATCT
1 TAATAATAATAATAT
*
23841849 ATAATAAATGATAATAT
1 -TAAT-AATAATAATAT
*
23841866 TAATAGTAATAATAT
1 TAATAATAATAATAT
* *
23841881 TACTAATATTAATAACT
1 TAATAATAATAAT-A-T
*
23841898 GTAATAATAGTAATAAT
1 -TAATAATAATAAT-AT
23841915 TAATAATTAATAA
1 TAATAA-TAATAA
23841928 CAAAAAAAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
15 23 0.37
16 16 0.26
17 10 0.16
18 13 0.21
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.39
Consensus pattern (15 bp):
TAATAATAATAATAT
Found at i:23843135 original size:59 final size:57
Alignment explanation
Indices: 23843025--23843311 Score: 194
Period size: 59 Copynumber: 4.9 Consensus size: 57
23843015 ACTCCTAACT
* * * *
23843025 TTTC-AAAATTTCATTTTTGACACCGAACTTTT-GAAAATT-CCATTTTTACCCCCAAGC
1 TTTCTAAAATTCCATTTTTAAC-CCGATCTTTTCAAAAATTACCA-TTTTACCCCCAA-C
*
23843082 TTTCTAAAATTCCATTTTTAACCTCGATCTTTTCAAAAATTA-CATTTTTACCCCTGAAC
1 TTTCTAAAATTCCATTTTTAACC-CGATCTTTTCAAAAATTACCA-TTTTACCCC-CAAC
** * * * *
23843141 TTTAGAAAATTCTATTTTTGACCCCAAT-TTTTCCAAAAATTACCATTTTACCCTCGAAC
1 TTTCTAAAATTCCATTTTT-AACCCGATCTTTT-CAAAAATTACCATTTTACCC-CCAAC
* * * * *
23843200 TTCCAAAAATTCCATTTTTGATCCCGAT-TCTTTCACAAAGTACCATTTTACCCCCAGA-
1 TTTCTAAAATTCCATTTTT-AACCCGATCT-TTTCAAAAATTACCATTTTACCCCCA-AC
* * * * *
23843258 TGTCTAAAAATTTCATTTTTAACCCCTAACTTTCTC-AAAATTATCATTTTACCC
1 TTTCT-AAAATTCCATTTTTAA-CCCGATCTTT-TCAAAAATTACCATTTTACCC
23843312 TCGGGTACCC
Statistics
Matches: 186, Mismatches: 29, Indels: 28
0.77 0.12 0.12
Matches are distributed among these distances:
57 5 0.03
58 32 0.17
59 135 0.73
60 14 0.08
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.39
Consensus pattern (57 bp):
TTTCTAAAATTCCATTTTTAACCCGATCTTTTCAAAAATTACCATTTTACCCCCAAC
Found at i:23843166 original size:88 final size:89
Alignment explanation
Indices: 23843021--23843220 Score: 232
Period size: 88 Copynumber: 2.3 Consensus size: 89
23843011 TTTGACTCCT
* *
23843021 AACTTTTC-AAAATTTCATTTTTGACACCGAACTTTTGAAAATTCCATTTTTACCCCCAAGCTTT
1 AACTTTTCAAAAATTACATTTTTGACACCGAACTTTAGAAAATTCCATTTTTACCCCCAAGCTTT
*
23843085 -CTAAAATT-CCATTTTTAACCTCG
66 CCAAAAATTACCA-TTTTAACCTCG
* * * **
23843108 ATCTTTTCAAAAATTACATTTTT-ACCCCTGAACTTTAGAAAATTCTATTTTTGA-CCCCAATTT
1 AACTTTTCAAAAATTACATTTTTGACACC-GAACTTTAGAAAATTCCATTTTT-ACCCCCAAGCT
*
23843171 TTCCAAAAATTACCATTTTACCCTCG
64 TTCCAAAAATTACCATTTTAACCTCG
* *
23843197 AAC-TTCCAAAAATTCCATTTTTGA
1 AACTTTTCAAAAATTACATTTTTGA
23843221 TCCCGATTCT
Statistics
Matches: 95, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
87 11 0.12
88 60 0.63
89 21 0.22
90 3 0.03
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (89 bp):
AACTTTTCAAAAATTACATTTTTGACACCGAACTTTAGAAAATTCCATTTTTACCCCCAAGCTTT
CCAAAAATTACCATTTTAACCTCG
Found at i:23843178 original size:29 final size:29
Alignment explanation
Indices: 23842979--23843220 Score: 139
Period size: 29 Copynumber: 8.3 Consensus size: 29
23842969 CAAAAATCAT
*
23842979 ATTTTT-ACCCCTGAAC-TTTCCAAAATTCA
1 ATTTTTGACCCC--AACTTTTCCAAAATTCC
* *
23843008 ATTTTTGACTCCTAACTTTT-CAAAATTTC
1 ATTTTTGAC-CCCAACTTTTCCAAAATTCC
* *
23843037 ATTTTTGACACCGAACTTTT-GAAAATTCC
1 ATTTTTGAC-CCCAACTTTTCCAAAATTCC
*
23843066 ATTTTT-ACCCCCAAGC-TTTCTAAAATTCC
1 ATTTTTGA-CCCCAA-CTTTTCCAAAATTCC
* * * * *
23843095 ATTTTTAACCTCGATCTTTTCAAAAATTAC
1 ATTTTTGACC-CCAACTTTTCCAAAATTCC
** *
23843125 ATTTTT-ACCCCTGAAC-TTTAGAAAATTCT
1 ATTTTTGACCCC--AACTTTTCCAAAATTCC
*
23843154 ATTTTTGACCCCAATTTTTCCAAAAATTACC
1 ATTTTTGACCCCAACTTTTCC-AAAATT-CC
23843185 A-TTTT-ACCCTCGAAC--TTCCAAAAATTCC
1 ATTTTTGACCC-C-AACTTTTCC-AAAATTCC
23843213 ATTTTTGA
1 ATTTTTGA
23843221 TCCCGATTCT
Statistics
Matches: 170, Mismatches: 24, Indels: 37
0.74 0.10 0.16
Matches are distributed among these distances:
28 14 0.08
29 106 0.62
30 44 0.26
31 6 0.04
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (29 bp):
ATTTTTGACCCCAACTTTTCCAAAATTCC
Found at i:23849839 original size:23 final size:25
Alignment explanation
Indices: 23849813--23849858 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
23849803 CCAATTAGGG
23849813 AATTAT-TGTTTAG-ATTTAATTCT
1 AATTATCTGTTTAGAATTTAATTCT
*
23849836 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
23849859 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCT
Found at i:23881496 original size:30 final size:30
Alignment explanation
Indices: 23881460--23881519 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
23881450 TGACTAACAC
23881460 AATTTAACAATACAAAACTTAAGAAACTTT
1 AATTTAACAATACAAAACTTAAGAAACTTT
*
23881490 AATTTAACAATACAAAACTTATGAAACTTT
1 AATTTAACAATACAAAACTTAAGAAACTTT
23881520 GGGCATTACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.32
Consensus pattern (30 bp):
AATTTAACAATACAAAACTTAAGAAACTTT
Found at i:23892524 original size:18 final size:17
Alignment explanation
Indices: 23892498--23892549 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 17
23892488 ATTGATTTTG
23892498 AATTTAAATTTAGATTT
1 AATTTAAATTTAGATTT
** *
23892515 GTTTTAAAATTTAAATTT
1 AATTT-AAATTTAGATTT
23892533 AATTTAAATTTAGATTT
1 AATTTAAATTTAGATTT
23892550 CTATATAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
17 14 0.50
18 14 0.50
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (17 bp):
AATTTAAATTTAGATTT
Found at i:23892544 original size:24 final size:24
Alignment explanation
Indices: 23892498--23892544 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
23892488 ATTGATTTTG
**
23892498 AATTTAAATTTAGATTTGTTTTAA
1 AATTTAAATTTAGATTTAATTTAA
23892522 AATTTAAATTTA-ATTTAAATTTA
1 AATTTAAATTTAGATTT-AATTTA
23892545 GATTTCTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (24 bp):
AATTTAAATTTAGATTTAATTTAA
Found at i:23892558 original size:18 final size:17
Alignment explanation
Indices: 23892499--23892562 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 17
23892489 TTGATTTTGA
23892499 ATTTAAATTTAGATTTGT
1 ATTTAAATTTAGATTT-T
* *
23892517 -TTTAAAATTTAAATTTA
1 ATTT-AAATTTAGATTTT
23892534 ATTTAAATTTAGATTTCT
1 ATTTAAATTTAGATTT-T
*
23892552 ATATAAATTTA
1 ATTTAAATTTA
23892563 AAACTTATTA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
17 14 0.37
18 24 0.63
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.53
Consensus pattern (17 bp):
ATTTAAATTTAGATTTT
Found at i:23892560 original size:35 final size:35
Alignment explanation
Indices: 23892498--23892564 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
23892488 ATTGATTTTG
* *
23892498 AATTTAAATTTAGATTTGTTTTAAAATTTAAATTT
1 AATTTAAATTTAGATTTCTTATAAAATTTAAATTT
23892533 AATTTAAATTTAGATTTC-TATATAAATTTAAA
1 AATTTAAATTTAGATTTCTTATA-AAATTTAAA
23892565 ACTTATTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 3 0.10
35 26 0.90
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (35 bp):
AATTTAAATTTAGATTTCTTATAAAATTTAAATTT
Found at i:23893228 original size:3 final size:3
Alignment explanation
Indices: 23893220--23893319 Score: 51
Period size: 3 Copynumber: 32.3 Consensus size: 3
23893210 ACCTTTAGTC
* * * *
23893220 ATA ATA ATA AT- ATCG ATA GTA AATA ATA ATA ATA ATA ATA TTA CTA
1 ATA ATA ATA ATA AT-A ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
23893266 ATA ACA TTA ATA ATA TTA ATA ACT- GTA ATA ATA GTA ACTA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA A-TA ATA ATA
23893312 ATTA ATA A
1 A-TA ATA A
23893320 CAAAAAAAAG
Statistics
Matches: 72, Mismatches: 18, Indels: 14
0.69 0.17 0.13
Matches are distributed among these distances:
2 3 0.04
3 59 0.82
4 10 0.14
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:23894415 original size:29 final size:30
Alignment explanation
Indices: 23894370--23894540 Score: 176
Period size: 29 Copynumber: 5.9 Consensus size: 30
23894360 TGAACTTTCC
* *
23894370 AATTCCATTTTTAACCCTAAACTTTTTAGA
1 AATTACATTTTTAACCCTAAACTTTCTAGA
*
23894400 AATTACATTTTT-ACCCTTAAACTTTCCA-A
1 AATTACATTTTTAACCC-TAAACTTTCTAGA
* * *
23894429 AATTCCATTTTTCACCCCAAACTTT-T-GA
1 AATTACATTTTTAACCCTAAACTTTCTAGA
* *
23894457 AATTACA-TTTTACCCCTAAACTTTCCAG-
1 AATTACATTTTTAACCCTAAACTTTCTAGA
* * *
23894485 AATTCCATTTTTAACCCTAATCTTTCTAAA
1 AATTACATTTTTAACCCTAAACTTTCTAGA
23894515 AATTACATTTTT-ACCCTTAAACTTTC
1 AATTACATTTTTAACCC-TAAACTTTC
23894541 CAAAATACCT
Statistics
Matches: 115, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
27 14 0.12
28 13 0.11
29 45 0.39
30 43 0.37
ACGTcount: A:0.32, C:0.25, G:0.02, T:0.42
Consensus pattern (30 bp):
AATTACATTTTTAACCCTAAACTTTCTAGA
Found at i:23894452 original size:86 final size:85
Alignment explanation
Indices: 23894327--23894543 Score: 215
Period size: 86 Copynumber: 2.5 Consensus size: 85
23894317 CCCTAAAGGT
* * * * ** *
23894327 CCCTAAACTGTCCAAAAATCATATTTTTACCCTTGAACTTTCCAATTCCATTTTTAACCCTAAAC
1 CCCTAAACTTTCTAAAAATTACATTTTTACCCTCAAACTTTCCAATTACA-TTTTAACCCTAAAC
**
23894392 TTTTTAGAAATTACATTTTT-A
65 TTTCCAG-AATTACATTTTTAA
* * ** *
23894413 CCCTTAAACTTTC-CAAAATTCCATTTTTCACCC-CAAACTTTTGAAATTACATTTTACCCCTAA
1 CCC-TAAACTTTCTAAAAATTACATTTTT-ACCCTCAAAC-TTTCCAATTACATTTTAACCCTAA
*
23894476 ACTTTCCAGAATTCCATTTTTAA
63 ACTTTCCAGAATTACATTTTTAA
* *
23894499 CCCTAATCTTTCTAAAAATTACATTTTTACCCTTAAACTTTCCAA
1 CCCTAAACTTTCTAAAAATTACATTTTTACCCTCAAACTTTCCAA
23894544 AATACCTTGA
Statistics
Matches: 105, Mismatches: 20, Indels: 13
0.76 0.14 0.09
Matches are distributed among these distances:
85 28 0.27
86 56 0.53
87 21 0.20
ACGTcount: A:0.32, C:0.26, G:0.02, T:0.40
Consensus pattern (85 bp):
CCCTAAACTTTCTAAAAATTACATTTTTACCCTCAAACTTTCCAATTACATTTTAACCCTAAACT
TTCCAGAATTACATTTTTAA
Found at i:23894545 original size:29 final size:28
Alignment explanation
Indices: 23894327--23894546 Score: 187
Period size: 30 Copynumber: 7.6 Consensus size: 28
23894317 CCCTAAAGGT
* * *
23894327 CCCTAAACTGTCCAAAAATCATATTTTTA
1 CCCTAAACTTTCC-AAAATTACATTTTTA
* *
23894356 CCCTTGAACTTTCC--AATTCCATTTTTAA
1 CCC-TAAACTTTCCAAAATTACATTTTT-A
**
23894384 CCCTAAACTTTTTAGAAATTACATTTTTA
1 CCCTAAACTTTCCA-AAATTACATTTTTA
*
23894413 CCCTTAAACTTTCCAAAATTCCATTTTTCA
1 CCC-TAAACTTTCCAAAATTACATTTTT-A
* **
23894443 CCCCAAACTTT-TGAAATTACA-TTTTA
1 CCCTAAACTTTCCAAAATTACATTTTTA
* *
23894469 CCCCTAAACTTTCCAGAATTCCATTTTTAA
1 -CCCTAAACTTTCCAAAATTACATTTTT-A
* *
23894499 CCCTAATCTTTCTAAAAATTACATTTTTA
1 CCCTAAACTTTC-CAAAATTACATTTTTA
23894528 CCCTTAAACTTTCCAAAAT
1 CCC-TAAACTTTCCAAAAT
23894547 ACCTTGATCT
Statistics
Matches: 151, Mismatches: 27, Indels: 26
0.74 0.13 0.13
Matches are distributed among these distances:
26 1 0.01
27 30 0.20
28 17 0.11
29 50 0.33
30 53 0.35
ACGTcount: A:0.33, C:0.25, G:0.02, T:0.40
Consensus pattern (28 bp):
CCCTAAACTTTCCAAAATTACATTTTTA
Found at i:23906725 original size:48 final size:48
Alignment explanation
Indices: 23906636--23907065 Score: 500
Period size: 48 Copynumber: 8.9 Consensus size: 48
23906626 AACACGACGA
* * * * *
23906636 GAAAGATCTAAGATCGCAATGGCGGATCTAATACCGCGAAGACACAAGG
1 GAAAGATCTAAG-CCGCAACGGCGGATCCAGTACCACGAAGACACAAGG
* * * *
23906685 GAAAGATCTAAGCCGCGACGGCGGATCTAGTACCATGAAGACACAGGG
1 GAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACACAAGG
* * * * *
23906733 GAAAGATCTAAGCCGCAATGGCGGATCCAGTAGCAAGAAAACACGATGG
1 GAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACAC-AAGG
* * * * * *
23906782 GAAAGATCGAAGACCTCAACGGTGGATCCATTATCGCGAAGACACAAGG
1 GAAAGATCTAAG-CCGCAACGGCGGATCCAGTACCACGAAGACACAAGG
* * * *
23906831 GAAAGATCTAAGCCGCGACGGCGGATCTAGTACCACAAAGACATGAAGG
1 GAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACA-CAAGG
* *
23906880 GAAAGATCTAAGCCGCAACGGCGGATCCAGTACCATGAAAACACAAGG
1 GAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACACAAGG
* * *
23906928 GAAAGGTCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACATGAAAG
1 GAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACA-CAAGG
* * * *
23906977 GAAAGATCTAAGCCGCGACGACGGATCCAGTACTACGAAGACGCAAGG
1 GAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACACAAGG
* *
23907025 GAAAGATCTAAGCCGCAACGACAGATCCAGTACCACGAAGA
1 GAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGA
23907066 TTTGAAGGGA
Statistics
Matches: 322, Mismatches: 55, Indels: 9
0.83 0.14 0.02
Matches are distributed among these distances:
48 175 0.54
49 123 0.38
50 24 0.07
ACGTcount: A:0.37, C:0.23, G:0.27, T:0.12
Consensus pattern (48 bp):
GAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACACAAGG
Found at i:23906930 original size:146 final size:145
Alignment explanation
Indices: 23906625--23907059 Score: 550
Period size: 146 Copynumber: 3.0 Consensus size: 145
23906615 TAGCACCATG
* * * * * * *
23906625 AAACACGACGAGAAAGATCTAAGATCGCAATGGCGGATCTAATACCGCGAAGACACAAGGGAAAG
1 AAACACGAAGGGAAAGATCGAAG-CCGCAACGGCGGATCCAGTACCGCGAAGACACAAGGGAAAG
* * * *
23906690 ATCTAAGCCGCGACGGCGGATCTAGTACCATGAAGACACAGGGGAAAGATCTAAGCCGCAATGGC
65 ATCTAAGCCGCGACGGCGGATCTAGTACCACGAAGACAGAAGGGAAAGATCTAAGCCGCAACGGC
*
23906755 GGATCCAGTAGCAAGA
130 GGATCCAGTACCAAGA
* * * * *
23906771 AAACACGATGGGAAAGATCGAAGACCTCAACGGTGGATCCATTATCGCGAAGACACAAGGGAAAG
1 AAACACGAAGGGAAAGATCGAAG-CCGCAACGGCGGATCCAGTACCGCGAAGACACAAGGGAAAG
*
23906836 ATCTAAGCCGCGACGGCGGATCTAGTACCACAAAGACATGAAGGGAAAGATCTAAGCCGCAACGG
65 ATCTAAGCCGCGACGGCGGATCTAGTACCACGAAGACA-GAAGGGAAAGATCTAAGCCGCAACGG
*
23906901 CGGATCCAGTACCATGA
129 CGGATCCAGTACCAAGA
* * * * *
23906918 AAACAC-AAGGGAAAGGTCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACATGAAAGGAAAG
1 AAACACGAAGGGAAAGATCGAAGCCGCAACGGCGGATCCAGTACCGCGAAGACA-CAAGGGAAAG
* * * *
23906982 ATCTAAGCCGCGACGACGGATCCAGTACTACGAAGAC-GCAAGGGAAAGATCTAAGCCGCAACGA
65 ATCTAAGCCGCGACGGCGGATCTAGTACCACGAAGACAG-AAGGGAAAGATCTAAGCCGCAACGG
*
23907046 CAGATCCAGTACCA
129 CGGATCCAGTACCA
23907060 CGAAGATTTG
Statistics
Matches: 253, Mismatches: 33, Indels: 7
0.86 0.11 0.02
Matches are distributed among these distances:
144 1 0.00
145 63 0.25
146 145 0.57
147 44 0.17
ACGTcount: A:0.38, C:0.23, G:0.27, T:0.12
Consensus pattern (145 bp):
AAACACGAAGGGAAAGATCGAAGCCGCAACGGCGGATCCAGTACCGCGAAGACACAAGGGAAAGA
TCTAAGCCGCGACGGCGGATCTAGTACCACGAAGACAGAAGGGAAAGATCTAAGCCGCAACGGCG
GATCCAGTACCAAGA
Found at i:23907077 original size:97 final size:97
Alignment explanation
Indices: 23906636--23907078 Score: 528
Period size: 97 Copynumber: 4.6 Consensus size: 97
23906626 AACACGACGA
* * * * * *
23906636 GAAAGATCTAAGATCGCAATGGCGGATCTAATACCGCGAAGACA-CAAGGGAAAGATCTAAGCCG
1 GAAAGATCTAAG-CCGCAACGGCGGATCCAGTACCACGAAGACATGAAGGGAAAGATCTAAGCCG
* * * *
23906700 CGACGGCGGATCTAGTACCATGAAGACACAGGG
65 CAACGGCGGATCCAGTACCACGAAGACACAAGG
* * * * * * * *
23906733 GAAAGATCTAAGCCGCAATGGCGGATCCAGTAGCAAGAAAACACGATGGGAAAGATCGAAGACCT
1 GAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACATGAAGGGAAAGATCTAAG-CCG
* * * *
23906798 CAACGGTGGATCCATTATCGCGAAGACACAAGG
65 CAACGGCGGATCCAGTACCACGAAGACACAAGG
* * *
23906831 GAAAGATCTAAGCCGCGACGGCGGATCTAGTACCACAAAGACATGAAGGGAAAGATCTAAGCCGC
1 GAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACATGAAGGGAAAGATCTAAGCCGC
* *
23906896 AACGGCGGATCCAGTACCATGAAAACACAAGG
66 AACGGCGGATCCAGTACCACGAAGACACAAGG
* *
23906928 GAAAGGTCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACATGAAAGGAAAGATCTAAGCCGC
1 GAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACATGAAGGGAAAGATCTAAGCCGC
* * * *
23906993 GACGACGGATCCAGTACTACGAAGACGCAAGG
66 AACGGCGGATCCAGTACCACGAAGACACAAGG
* * **
23907025 GAAAGATCTAAGCCGCAACGACAGATCCAGTACCACGAAGATTTGAAGGGAAAG
1 GAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACATGAAGGGAAAG
23907079 GTTTAAATCG
Statistics
Matches: 291, Mismatches: 53, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
96 24 0.08
97 189 0.65
98 78 0.27
ACGTcount: A:0.37, C:0.23, G:0.28, T:0.12
Consensus pattern (97 bp):
GAAAGATCTAAGCCGCAACGGCGGATCCAGTACCACGAAGACATGAAGGGAAAGATCTAAGCCGC
AACGGCGGATCCAGTACCACGAAGACACAAGG
Found at i:23907633 original size:17 final size:17
Alignment explanation
Indices: 23907594--23907704 Score: 82
Period size: 17 Copynumber: 6.4 Consensus size: 17
23907584 TTAAACCCAT
*
23907594 TTTAAGATTTATTTTAAGA
1 TTTAA-ATTGATTTTAA-A
*
23907613 -TTAAATTGATTTTGAA
1 TTTAAATTGATTTTAAA
*
23907629 TTTAAATTTATTTTAAA
1 TTTAAATTGATTTTAAA
*
23907646 TTTAGATTTG-TTTTAAAA
1 TTTA-AATTGATTTT-AAA
* *
23907664 TTTAAATTTAATTTAAA
1 TTTAAATTGATTTTAAA
* * *
23907681 TTTAGATTTATATATAAA
1 TTTAAATTGAT-TTTAAA
23907699 TTTAAA
1 TTTAAA
23907705 ACTTATTATA
Statistics
Matches: 74, Mismatches: 13, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
16 1 0.01
17 46 0.62
18 27 0.36
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
TTTAAATTGATTTTAAA
Found at i:23907636 original size:6 final size:6
Alignment explanation
Indices: 23907627--23907704 Score: 63
Period size: 6 Copynumber: 13.3 Consensus size: 6
23907617 ATTGATTTTG
* * **
23907627 AATTTA AATTT- ATTTTA AATTTA GATTT- GTTTTAA AATTTA AATTT-
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTT-A AATTTA AATTTA
* * *
23907673 AATTTA AATTTA GATTTA TATATA AATTTA AA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AA
23907705 ACTTATTATA
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
5 13 0.23
6 41 0.72
7 3 0.05
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (6 bp):
AATTTA
Found at i:23907666 original size:35 final size:35
Alignment explanation
Indices: 23907594--23907704 Score: 122
Period size: 35 Copynumber: 3.2 Consensus size: 35
23907584 TTAAACCCAT
* *
23907594 TTTAAGATTTATTTTAAGA-TTA-AATTGATTTTGAA
1 TTTAA-ATTTATTTTAA-ATTTAGATTTGATTTTAAA
23907629 TTTAAATTTATTTTAAATTTAGATTTG-TTTTAAAA
1 TTTAAATTTATTTTAAATTTAGATTTGATTTT-AAA
* *
23907664 TTTAAATTTAATTTAAATTTAGATTT-ATATATAAA
1 TTTAAATTTATTTTAAATTTAGATTTGAT-TTTAAA
23907699 TTTAAA
1 TTTAAA
23907705 ACTTATTATA
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
33 1 0.01
34 18 0.27
35 46 0.69
36 2 0.03
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (35 bp):
TTTAAATTTATTTTAAATTTAGATTTGATTTTAAA
Found at i:23908376 original size:9 final size:9
Alignment explanation
Indices: 23908364--23908412 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
23908354 ATAATAAATG
*
23908364 ATAATAATA
1 ATAATATTA
23908373 ATAATATTA
1 ATAATATTA
* * *
23908382 TTATTACTA
1 ATAATATTA
*
23908391 ATAACATTA
1 ATAATATTA
23908400 ATAATATTA
1 ATAATATTA
23908409 ATAA
1 ATAA
23908413 CTGTAATAAT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (9 bp):
ATAATATTA
Found at i:23908410 original size:18 final size:18
Alignment explanation
Indices: 23908364--23908423 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
23908354 ATAATAAATG
*
23908364 ATAATAATAATAATATTA
1 ATAATAATAATAACATTA
* * *
23908382 TTATTACTAATAACATTA
1 ATAATAATAATAACATTA
*
23908400 ATAATATTAATAAC-TGTA
1 ATAATAATAATAACAT-TA
23908418 ATAATA
1 ATAATA
23908424 GTGATTATTA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
17 1 0.03
18 33 0.97
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (18 bp):
ATAATAATAATAACATTA
Found at i:23909535 original size:29 final size:29
Alignment explanation
Indices: 23909503--23909737 Score: 144
Period size: 29 Copynumber: 8.1 Consensus size: 29
23909493 TTTTACCCCT
*** *
23909503 GAACTTTCCAAAATTTGTTTTTTGACTCC
1 GAACTTTCCAAAATTCCATTTTTGACACC
23909532 GAACTTTCCAAAATTCCATTTTTGACACC
1 GAACTTTCCAAAATTCCATTTTTGACACC
* * *
23909561 AAACTTTCAAAAATTACATTTTT-AC-CC
1 GAACTTTCCAAAATTCCATTTTTGACACC
* * *
23909588 TAAACTTTCTAAAATTCCATTTTTGAC-CTT
1 -GAACTTTCCAAAATTCCATTTTTGACAC-C
* ** * *
23909618 GATCTTTTTGAAAATTACATTTTT-ACCCTC
1 GAAC-TTTCCAAAATTCCATTTTTGACAC-C
*
23909648 GAACTTTACAAAATTCCATTTTTGAC-CC
1 GAACTTTCCAAAATTCCATTTTTGACACC
** *
23909676 TGATTTTTCCAAAAATTACCA-TTTT-ACCCTC
1 -GAACTTTCC-AAAATT-CCATTTTTGACAC-C
* *
23909707 GAAC-TTCAAAAAATTCCATTTTTGACCCC
1 GAACTTTC-CAAAATTCCATTTTTGACACC
23909736 GA
1 GA
23909738 TTCTTCCACA
Statistics
Matches: 166, Mismatches: 26, Indels: 28
0.75 0.12 0.13
Matches are distributed among these distances:
27 2 0.01
28 27 0.16
29 93 0.56
30 40 0.24
31 4 0.02
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.40
Consensus pattern (29 bp):
GAACTTTCCAAAATTCCATTTTTGACACC
Found at i:23909669 original size:59 final size:58
Alignment explanation
Indices: 23909531--23909733 Score: 236
Period size: 59 Copynumber: 3.5 Consensus size: 58
23909521 TTTTTGACTC
* ** *
23909531 CGAACTTTCCAAAATTCCATTTTTGACACCAAAC-TTTCAAAAATTACATTTTTACCCT
1 CGAACTTTACAAAATTCCATTTTTGAC-CTGATCTTTTCAAAAATTACATTTTTACCCT
* **
23909589 -AAACTTT-CTAAAATTCCATTTTTGACCTTGATCTTTTTGAAAATTACATTTTTACCCT
1 CGAACTTTAC-AAAATTCCATTTTTGACC-TGATCTTTTCAAAAATTACATTTTTACCCT
23909647 CGAACTTTACAAAATTCCATTTTTGACCCTGAT-TTTTCCAAAAATTACCA-TTTTACCCT
1 CGAACTTTACAAAATTCCATTTTTGA-CCTGATCTTTT-CAAAAATTA-CATTTTTACCCT
* *
23909706 CGAACTTCAAAAAATTCCATTTTTGACC
1 CGAACTTTACAAAATTCCATTTTTGACC
23909734 CCGATTCTTC
Statistics
Matches: 126, Mismatches: 11, Indels: 16
0.82 0.07 0.10
Matches are distributed among these distances:
56 2 0.02
57 25 0.20
58 28 0.22
59 66 0.52
60 5 0.04
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (58 bp):
CGAACTTTACAAAATTCCATTTTTGACCTGATCTTTTCAAAAATTACATTTTTACCCT
Found at i:23909745 original size:59 final size:59
Alignment explanation
Indices: 23909541--23909763 Score: 215
Period size: 59 Copynumber: 3.8 Consensus size: 59
23909531 CGAACTTTCC
* ** * * *
23909541 AAAATTCCATTTTTGACACC-AAACTTTCAAAAATTACATTTTTACCCT-AAACTTTC-T
1 AAAATTCCATTTTTGACCCCGATTCTTCCAAAAATTACATTTTTACCCTCGAAC-TTCAA
** *** * *
23909598 AAAATTCCATTTTTGACCTTGA-TCTTTTTGAAAATTACATTTTTACCCTCGAACTTTAC
1 AAAATTCCATTTTTGACCCCGATTC-TTCCAAAAATTACATTTTTACCCTCGAACTTCAA
* *
23909657 AAAATTCCATTTTTGACCCTGATTTTTCCAAAAATTACCA-TTTTACCCTCGAACTTCAA
1 AAAATTCCATTTTTGACCCCGATTCTTCCAAAAATTA-CATTTTTACCCTCGAACTTCAA
* *
23909716 AAAATTCCATTTTTGACCCCGATTCTTCCACAAAGTACCA-TTTTACCC
1 AAAATTCCATTTTTGACCCCGATTCTTCCAAAAATTA-CATTTTTACCC
23909764 CCAGATGTCT
Statistics
Matches: 140, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
57 18 0.13
58 25 0.18
59 94 0.67
60 3 0.02
ACGTcount: A:0.32, C:0.25, G:0.05, T:0.39
Consensus pattern (59 bp):
AAAATTCCATTTTTGACCCCGATTCTTCCAAAAATTACATTTTTACCCTCGAACTTCAA
Found at i:23909821 original size:29 final size:30
Alignment explanation
Indices: 23909491--23909817 Score: 134
Period size: 29 Copynumber: 11.2 Consensus size: 30
23909481 CAGATATCAT
**
23909491 ATTTTT-ACCCCTGAACTTTC-CAAAATTTG
1 ATTTTTGACCCCT-AACTTTCTCAAAATTCC
* * *
23909520 TTTTTTGACTCCGAACTTTC-CAAAATTCC
1 ATTTTTGACCCCTAACTTTCTCAAAATTCC
* * * *
23909549 ATTTTTGACACCAAACTTTC-AAAAATTAC
1 ATTTTTGACCCCTAACTTTCTCAAAATTCC
23909578 ATTTTT-A-CCCTAAACTTTCT-AAAATTCC
1 ATTTTTGACCCCT-AACTTTCTCAAAATTCC
* * * * *
23909606 ATTTTTGA-CCTTGATCTTTTTGAAAATTAC
1 ATTTTTGACCCCT-AACTTTCTCAAAATTCC
* *
23909636 ATTTTT-ACCCTCGAACTTT-ACAAAATTCC
1 ATTTTTGACCC-CTAACTTTCTCAAAATTCC
* *
23909665 ATTTTTGA-CCCTGA-TTTTTCCAAAAATTACC
1 ATTTTTGACCCCTAACTTTCT-C-AAAATT-CC
* **
23909696 A-TTTT-ACCCTCGAAC-TTCAAAAAATTCC
1 ATTTTTGACCC-CTAACTTTCTCAAAATTCC
* * * * * *
23909724 ATTTTTGACCCCGATTCTTCCACAAAGTACC
1 ATTTTTGACCCCTA-ACTTTCTCAAAATTCC
* * * *
23909755 A-TTTT-ACCCCCAGA-TGTCTAAAAATTTC
1 ATTTTTGACCCCTA-ACTTTCTCAAAATTCC
*
23909783 A-TTTTAACCCCTAACTTTCTCAAAATTACC
1 ATTTTTGACCCCTAACTTTCTCAAAATT-CC
23909813 ATTTT
1 ATTTT
23909818 ACCCTCGAGT
Statistics
Matches: 224, Mismatches: 51, Indels: 44
0.70 0.16 0.14
Matches are distributed among these distances:
27 5 0.02
28 39 0.17
29 112 0.50
30 48 0.21
31 20 0.09
ACGTcount: A:0.31, C:0.25, G:0.05, T:0.39
Consensus pattern (30 bp):
ATTTTTGACCCCTAACTTTCTCAAAATTCC
Found at i:23916365 original size:23 final size:25
Alignment explanation
Indices: 23916339--23916384 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
23916329 CCAATTAGGG
23916339 AATTAT-TGTTTAG-ATTTAATTCT
1 AATTATCTGTTTAGAATTTAATTCT
*
23916362 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
23916385 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCT
Found at i:23920405 original size:6 final size:5
Alignment explanation
Indices: 23920376--23920417 Score: 57
Period size: 5 Copynumber: 7.8 Consensus size: 5
23920366 AATTAGTATA
23920376 TTTAT TTTCAT TTTAT TTTAT TTTATT TTTAAT TTTAT TTTA
1 TTTAT TTT-AT TTTAT TTTAT TTTA-T TTT-AT TTTAT TTTA
23920418 ATTATGCAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 20 0.59
6 13 0.38
7 1 0.03
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:23920418 original size:11 final size:11
Alignment explanation
Indices: 23920376--23920420 Score: 65
Period size: 11 Copynumber: 4.1 Consensus size: 11
23920366 AATTAGTATA
*
23920376 TTTATTTTCAT
1 TTTATTTTAAT
23920387 TTTATTTT-AT
1 TTTATTTTAAT
23920397 TTTATTTTTAAT
1 TTTA-TTTTAAT
23920409 TTTATTTTAAT
1 TTTATTTTAAT
23920420 T
1 T
23920421 ATGCAATATT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 6 0.19
11 20 0.62
12 6 0.19
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTATTTTAAT
Found at i:23921361 original size:13 final size:12
Alignment explanation
Indices: 23921330--23921368 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
23921320 GAATTTTATT
23921330 ATTTAGAAAAAAA
1 ATTT-GAAAAAAA
*
23921343 AGTTGAAAAGAAA
1 ATTTGAAAA-AAA
23921356 ATTTGAAAAAAA
1 ATTTGAAAAAAA
23921368 A
1 A
23921369 AGAGAGAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 9 0.39
13 14 0.61
ACGTcount: A:0.67, C:0.00, G:0.13, T:0.21
Consensus pattern (12 bp):
ATTTGAAAAAAA
Found at i:23921369 original size:13 final size:13
Alignment explanation
Indices: 23921336--23921370 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
23921326 TATTATTTAG
23921336 AAAAAAAAGTTGA
1 AAAAAAAAGTTGA
* *
23921349 AAAGAAAATTTGA
1 AAAAAAAAGTTGA
23921362 AAAAAAAAG
1 AAAAAAAAG
23921371 AGAGAAGAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (13 bp):
AAAAAAAAGTTGA
Found at i:23922465 original size:25 final size:23
Alignment explanation
Indices: 23922424--23922469 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
23922414 CCAATTAGGG
23922424 AATTATTATTTAGATTTAATTCT
1 AATTATTATTTAGATTTAATTCT
*
23922447 AATTATCTTTTTAGAATTTAATT
1 AATTAT-TATTTAG-ATTTAATT
23922470 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (23 bp):
AATTATTATTTAGATTTAATTCT
Found at i:23933798 original size:33 final size:33
Alignment explanation
Indices: 23933748--23933833 Score: 154
Period size: 33 Copynumber: 2.6 Consensus size: 33
23933738 AAACTAAAAC
*
23933748 TTGTATTTTTTACACCATTTTATGTATAAAAATA
1 TTGTA-TTTATACACCATTTTATGTATAAAAATA
23933782 TTGTATTTATACACCATTTTATGTATAAAAATA
1 TTGTATTTATACACCATTTTATGTATAAAAATA
23933815 TTGTATTTATACACCATTT
1 TTGTATTTATACACCATTT
23933834 GACATATATT
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 46 0.90
34 5 0.10
ACGTcount: A:0.35, C:0.10, G:0.06, T:0.49
Consensus pattern (33 bp):
TTGTATTTATACACCATTTTATGTATAAAAATA
Found at i:23933876 original size:36 final size:36
Alignment explanation
Indices: 23933829--23933898 Score: 140
Period size: 36 Copynumber: 1.9 Consensus size: 36
23933819 ATTTATACAC
23933829 CATTTGACATATATTAGTGTTATAAGCCACATGCAA
1 CATTTGACATATATTAGTGTTATAAGCCACATGCAA
23933865 CATTTGACATATATTAGTGTTATAAGCCACATGC
1 CATTTGACATATATTAGTGTTATAAGCCACATGC
23933899 GTTGCATGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.34
Consensus pattern (36 bp):
CATTTGACATATATTAGTGTTATAAGCCACATGCAA
Found at i:23935010 original size:30 final size:29
Alignment explanation
Indices: 23934857--23935062 Score: 146
Period size: 31 Copynumber: 6.9 Consensus size: 29
23934847 AGGGGGTCAA
* *
23934857 AAAATG-AAGTTTTGGAGAATTTA-GGGTT
1 AAAATGTAA-TTTTGGAAAATTTAGGGGTC
* **
23934885 AAAATGTAATTTTGGAAAAATTAGATGTC
1 AAAATGTAATTTTGGAAAATTTAGGGGTC
**
23934914 AAAATGTAATTTTATAAAAAGTTTAGGGGTC
1 AAAATGTAATTTT-GGAAAA-TTTAGGGGTC
* * ** *
23934945 AAAATATGATTTTAGGAAAATTTAAGGTTTA
1 AAAATGTAATTTT-GGAAAATTT-AGGGGTC
* *
23934976 AAAATGTGATTTTGGAAAACTTTAGGGGTG
1 AAAATGTAATTTTGGAAAA-TTTAGGGGTC
* * *
23935006 AAAATGTAATTTTGAAAAATTTTGAGGGTT
1 AAAATGTAATTTTGGAAAATTTAG-GGGTC
* * *
23935036 AAAATATTATTTTTGGAAAGTTTAGGG
1 AAAAT-GTAATTTTGGAAAATTTAGGG
23935063 ACCTCTTAGG
Statistics
Matches: 140, Mismatches: 30, Indels: 14
0.76 0.16 0.08
Matches are distributed among these distances:
28 18 0.13
29 21 0.15
30 45 0.32
31 56 0.40
ACGTcount: A:0.40, C:0.01, G:0.22, T:0.37
Consensus pattern (29 bp):
AAAATGTAATTTTGGAAAATTTAGGGGTC
Found at i:23935038 original size:61 final size:60
Alignment explanation
Indices: 23934856--23935062 Score: 165
Period size: 61 Copynumber: 3.5 Consensus size: 60
23934846 AAGGGGGTCA
* * * * *
23934856 AAAAATG-AAGTTTTGGAGAATTTA-GGGTTAAAATGTAATTTTGGAAAAATTAGA-TG-T
1 AAAAATGTAA-TTTTGGAAAATTTAGGGGTCAAAATGTAATTTTAGAAAAATTTGAGGGTT
* ** * * * * *
23934913 CAAAATGTAATTTTATAAAAAGTTTAGGGGTCAAAATATGATTTTAGGAAAATTTAAGGTTT
1 AAAAATGTAATTTT-GGAAAA-TTTAGGGGTCAAAATGTAATTTTAGAAAAATTTGAGGGTT
* *
23934975 AAAAATGTGATTTTGGAAAACTTTAGGGGTGAAAATGTAATTTT-GAAAAATTTTGAGGGTT
1 AAAAATGTAATTTTGGAAAA-TTTAGGGGTCAAAATGTAATTTTAGAAAAA-TTTGAGGGTT
* *
23935036 AAAATAT-TATTTTTGGAAAGTTTAGGG
1 AAAA-ATGTAATTTTGGAAAATTTAGGG
23935063 ACCTCTTAGG
Statistics
Matches: 115, Mismatches: 27, Indels: 13
0.74 0.17 0.08
Matches are distributed among these distances:
57 10 0.09
58 5 0.04
59 4 0.03
60 35 0.30
61 46 0.40
62 15 0.13
ACGTcount: A:0.40, C:0.01, G:0.22, T:0.37
Consensus pattern (60 bp):
AAAAATGTAATTTTGGAAAATTTAGGGGTCAAAATGTAATTTTAGAAAAATTTGAGGGTT
Found at i:23937193 original size:85 final size:85
Alignment explanation
Indices: 23937047--23937214 Score: 196
Period size: 85 Copynumber: 2.0 Consensus size: 85
23937037 GGCTTCATCT
* * * * **
23937047 TTTGGTTCACTTCTCTGTATCTTATCAAGAAGATGACTACTTAATTATTTTAATCCACTTCTCTG
1 TTTGGTTCACTTCTCTGCATCTCATCAAGAAGATGACCACTTAATTACTTTAATCCACTTCTCCA
23937112 TATCTCATCAGGAAGATGCA
66 TATCTCATCAGGAAGATGCA
* * * * *
23937132 TTTGGTTTACTTCTCTGCATCTCATCAGGAAGATGACCACTTTAA-TGCTTTGA-CGCTCTTCTC
1 TTTGGTTCACTTCTCTGCATCTCATCAAGAAGATGACCAC-TTAATTACTTTAATC-CACTTCTC
*
23937195 CATATCTTATCAGGAAGATG
64 CATATCTCATCAGGAAGATG
23937215 GGGTTTGAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
84 1 0.01
85 64 0.93
86 4 0.06
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (85 bp):
TTTGGTTCACTTCTCTGCATCTCATCAAGAAGATGACCACTTAATTACTTTAATCCACTTCTCCA
TATCTCATCAGGAAGATGCA
Found at i:23937400 original size:85 final size:85
Alignment explanation
Indices: 23937264--23937421 Score: 208
Period size: 85 Copynumber: 1.9 Consensus size: 85
23937254 GAATTGGTCT
* * * * * *
23937264 ACTTCTCTGTATCTCATCAGGAAGATGACCGCTGCATTATTTTAATCCACTTCTCTGTATCTCAT
1 ACTTCTCTGCATCTCATCAGGAAGATGACCACTGCATTACTTCAACCCACTTCTCTATATCTCAT
23937329 CAAGAAGACAGATTTGGTTC
66 CAAGAAGACAGATTTGGTTC
* ** * *
23937349 ACTTCTCTGCATCTCGTCAGGAAGATGACCACTTTATTGCTTCGACCCACTTCTCTATATCTCAT
1 ACTTCTCTGCATCTCATCAGGAAGATGACCACTGCATTACTTCAACCCACTTCTCTATATCTCAT
*
23937414 CAGGAAGA
66 CAAGAAGA
23937422 TAGGGTTTGG
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
85 61 1.00
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (85 bp):
ACTTCTCTGCATCTCATCAGGAAGATGACCACTGCATTACTTCAACCCACTTCTCTATATCTCAT
CAAGAAGACAGATTTGGTTC
Found at i:23937418 original size:209 final size:208
Alignment explanation
Indices: 23937055--23937710 Score: 854
Period size: 209 Copynumber: 3.1 Consensus size: 208
23937045 CTTTTGGTTC
* ** *
23937055 ACTTCTCTGTATCTTATCAAGAAGATGACTACTTAATTATTTTAATCCACTTCTCTGTATCTCAT
1 ACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTATTTTAATCCACTTCTCTGTATCTCAT
* * * * * *
23937120 CAGGAAGA-TGCATTTGGTTTACTTCTCTGCATCTCATCAGGAAGATGACCACTTTAATGCTTTG
66 CAAGAAGACAG-ATTTGGTTCACTTCTCTGCATCTCGTCAGGAAGATGACCACTTTATTGCTTCG
* * * * * *
23937184 ACGCTCTTCTCCATATCTTATCAGGAAGATGGGGTTTGAAAGTTTCACTCACATTAAGCTTCGCT
130 ACCCACTTCTCTATATCTCATCAGGAAGATGGGGTTTG-AAGTTTCACTCACATTGAGCTTCACT
23937249 TCATTGAATTGGTCT
194 TCATTGAATTGGTCT
* *
23937264 ACTTCTCTGTATCTCATCAGGAAGATGACCGCTGCATTATTTTAATCCACTTCTCTGTATCTCAT
1 ACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTATTTTAATCCACTTCTCTGTATCTCAT
23937329 CAAGAAGACAGATTTGGTTCACTTCTCTGCATCTCGTCAGGAAGATGACCACTTTATTGCTTCGA
66 CAAGAAGACAGATTTGGTTCACTTCTCTGCATCTCGTCAGGAAGATGACCACTTTATTGCTTCGA
*
23937394 CCCACTTCTCTATATCTCATCAGGAAGATAGGGTTTGGAAGTTTCACTCACATTGAGCTTCACTT
131 CCCACTTCTCTATATCTCATCAGGAAGATGGGGTTT-GAAGTTTCACTCACATTGAGCTTCACTT
*
23937459 TATTGAATTGGTCT
195 CATTGAATTGGTCT
* * ** *
23937473 ACTTCTTTGTATCTCATCAGGAAGAT-ATAGCTTCATTGA-TTTAATCCACTTCTATGTATCTCA
1 ACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATT-ATTTTAATCCACTTCTCTGTATCTCA
* * *
23937536 TC-AGAAAGACGGATTTGGTTCACTTCTCTGCATCTCGTTAGGAAGATGATCACTTTATTGCTTC
65 TCAAG-AAGACAGATTTGGTTCACTTCTCTGCATCTCGTCAGGAAGATGACCACTTTATTGCTTC
* * * * * ** **
23937600 GACCTACTTTTTTGTATCTCATCAGGAAGATGGAGTTTCGAAGTTTCACTCGTATTGAGCTTCTT
129 GACCCACTTCTCTATATCTCATCAGGAAGATGGGGTTT-GAAGTTTCACTCACATTGAGCTTCAC
*
23937665 TTCATT-ATTTTGGTCT
193 TTCATTGA-ATTGGTCT
* *
23937681 GCTTCTCTATATCTCATCAAGAAGATGACC
1 ACTTCTCTGTATCTCATCAAGAAGATGACC
23937711 TTTTGAAGTT
Statistics
Matches: 394, Mismatches: 47, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
207 3 0.01
208 177 0.45
209 212 0.54
210 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (208 bp):
ACTTCTCTGTATCTCATCAAGAAGATGACCGCTTCATTATTTTAATCCACTTCTCTGTATCTCAT
CAAGAAGACAGATTTGGTTCACTTCTCTGCATCTCGTCAGGAAGATGACCACTTTATTGCTTCGA
CCCACTTCTCTATATCTCATCAGGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTCACTTC
ATTGAATTGGTCT
Found at i:23949593 original size:30 final size:29
Alignment explanation
Indices: 23949506--23949849 Score: 221
Period size: 30 Copynumber: 11.6 Consensus size: 29
23949496 AAGGGGTCAA
* * *
23949506 AAAATG-AAGTTTTAGAGAATTT-AGGGTT
1 AAAATGTAA-TTTTGGAAAATTTAAGGGTC
* *
23949534 AAAATGTAATTTTGAAAAAATTT-AGGGTT
1 AAAATGTAATTTTG-GAAAATTTAAGGGTC
** * *
23949563 AAAATGTAATTTTAAAAAAGTTTGAGGGTT
1 AAAATGTAATTTTGGAAAA-TTTAAGGGTC
* * * * * *
23949593 AAAATATGATTTTGGGAAGTTTAAAGATC
1 AAAATGTAATTTTGGAAAATTTAAGGGTC
* *
23949622 AAAATATGATTTTGGGAAAATTTAAGGGTC
1 AAAATGTAATTTT-GGAAAATTTAAGGGTC
* *
23949652 AAAATGTGATTTTGGAAAAGTTTAAGGGTG
1 AAAATGTAATTTTGGAAAA-TTTAAGGGTC
* * * *
23949682 AAAATATGATTTTGGGAAAGTTTTAGGGTC
1 AAAATGTAATTTT-GGAAAATTTAAGGGTC
* *
23949712 AAAATGTGAATTTGGGAGAATTTAAGGGTC
1 AAAATGT-AATTTTGGAAAATTTAAGGGTC
* *
23949742 AAAATGTCATTTTGGAAAAGTTT-AGGTGTG
1 AAAATGTAATTTTGGAAAA-TTTAAGG-GTC
* ** * *
23949772 AAAATGTAATTTTGAAAAATTCGAGGATG
1 AAAATGTAATTTTGGAAAATTTAAGGGTC
* *
23949801 AAAATGTAATTTT-GATAAATTTCAGGAGTT
1 AAAATGTAATTTTGGA-AAATTTAAGG-GTC
* *
23949831 AAAATATGATTTTTGGAAA
1 AAAATGT-AATTTTGGAAA
23949850 GTTAGGGACC
Statistics
Matches: 256, Mismatches: 45, Indels: 27
0.78 0.14 0.08
Matches are distributed among these distances:
28 16 0.06
29 92 0.36
30 130 0.51
31 16 0.06
32 2 0.01
ACGTcount: A:0.40, C:0.02, G:0.23, T:0.35
Consensus pattern (29 bp):
AAAATGTAATTTTGGAAAATTTAAGGGTC
Found at i:23949605 original size:59 final size:58
Alignment explanation
Indices: 23949525--23949843 Score: 241
Period size: 59 Copynumber: 5.4 Consensus size: 58
23949515 TTTTAGAGAA
* * **
23949525 TTTAGGGTTAAAATGTAATTTTGAAAAAATTT-AGGGTTAAAATGTAATTTTAAAAAAG
1 TTTAGGGTTAAAATGTGATTTTG-AAAAATTTAAGGGTCAAAATGTAATTTTGGAAAAG
* ** * * * * *
23949583 TTTGAGGGTTAAAATATGATTTTGGGAAGTTTAAAGATCAAAATATGATTTTGGGAAAA-
1 TTT-AGGGTTAAAATGTGATTTTGAAAAATTTAAGGGTCAAAATGTAATTTT-GGAAAAG
* * * * * *
23949642 TTTAAGGGTCAAAATGTGATTTTGGAAAAGTTTAAGGGTGAAAATATGATTTTGGGAAAG
1 TTT-AGGGTTAAAATGTGATTTT-GAAAAATTTAAGGGTCAAAATGTAATTTTGGAAAAG
* * * * *
23949702 TTTTAGGGTCAAAATGTGAATTTGGGAGAATTTAAGGGTCAAAATGTCATTTTGGAAAAG
1 -TTTAGGGTTAAAATGTG-ATTTTGAAAAATTTAAGGGTCAAAATGTAATTTTGGAAAAG
* * ** * *
23949762 TTTAGGTGTGAAAATGTAATTTTGAAAAATTCGAGGATGAAAATGTAATTTT-GATAAA-
1 TTTAGG-GTTAAAATGTGATTTTGAAAAATTTAAGGGTCAAAATGTAATTTTGGA-AAAG
*
23949820 TTTCAGGAGTTAAAATATGATTTT
1 TTT-AGG-GTTAAAATGTGATTTT
23949844 TGGAAAGTTA
Statistics
Matches: 208, Mismatches: 43, Indels: 19
0.77 0.16 0.07
Matches are distributed among these distances:
58 13 0.06
59 108 0.52
60 80 0.38
61 7 0.03
ACGTcount: A:0.39, C:0.02, G:0.23, T:0.36
Consensus pattern (58 bp):
TTTAGGGTTAAAATGTGATTTTGAAAAATTTAAGGGTCAAAATGTAATTTTGGAAAAG
Found at i:23950909 original size:10 final size:10
Alignment explanation
Indices: 23950894--23950928 Score: 70
Period size: 10 Copynumber: 3.5 Consensus size: 10
23950884 CGTTTTTTGA
23950894 AATAAATAAT
1 AATAAATAAT
23950904 AATAAATAAT
1 AATAAATAAT
23950914 AATAAATAAT
1 AATAAATAAT
23950924 AATAA
1 AATAA
23950929 TGATAACGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AATAAATAAT
Found at i:23957410 original size:2 final size:2
Alignment explanation
Indices: 23957403--23957427 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23957393 GTATATTAAT
23957403 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
23957428 CTTGAGTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23957763 original size:25 final size:25
Alignment explanation
Indices: 23957703--23957764 Score: 65
Period size: 25 Copynumber: 2.5 Consensus size: 25
23957693 AGTATTATAA
*
23957703 TTTAAAGTTTAACTATGGAATTATTG
1 TTTAGAGTTTAACTAT-GAATTATTG
* *
23957729 TTTAGA-TTTAATTAT-AATTATCTT
1 TTTAGAGTTTAACTATGAATTAT-TG
23957753 TTTAGAGTTTAA
1 TTTAGAGTTTAA
23957765 ATTGGATCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 6 0.19
24 7 0.23
25 13 0.42
26 5 0.16
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.52
Consensus pattern (25 bp):
TTTAGAGTTTAACTATGAATTATTG
Found at i:23965689 original size:18 final size:18
Alignment explanation
Indices: 23965666--23965728 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
23965656 CATTAATTTA
23965666 CAATGACAAATGAAAATG
1 CAATGACAAATGAAAATG
* *
23965684 CAATGAC-AATGCACATG
1 CAATGACAAATGAAAATG
* * * *
23965701 TAGTGACAATTAAAAATG
1 CAATGACAAATGAAAATG
23965719 CAATGACAAA
1 CAATGACAAA
23965729 AGGAATGTGG
Statistics
Matches: 33, Mismatches: 11, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
17 13 0.39
18 20 0.61
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (18 bp):
CAATGACAAATGAAAATG
Found at i:23965717 original size:35 final size:35
Alignment explanation
Indices: 23965669--23965749 Score: 101
Period size: 35 Copynumber: 2.3 Consensus size: 35
23965659 TAATTTACAA
* * *
23965669 TGACAAATGAAAATGCAATGAC-AATGCACATGTAG
1 TGACAATTAAAAATGCAATGACAAAAGCA-ATGTAG
* *
23965704 TGACAATTAAAAATGCAATGACAAAAGGAATGTGG
1 TGACAATTAAAAATGCAATGACAAAAGCAATGTAG
23965739 TGACAATTAAA
1 TGACAATTAAA
23965750 TTACAACTAC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
35 36 0.90
36 4 0.10
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.21
Consensus pattern (35 bp):
TGACAATTAAAAATGCAATGACAAAAGCAATGTAG
Found at i:23966184 original size:3 final size:3
Alignment explanation
Indices: 23966176--23966221 Score: 58
Period size: 3 Copynumber: 15.3 Consensus size: 3
23966166 CTTCCTCTCT
**
23966176 TTC TTC TTC TT- TTCC TTC TTC TTC TTC TTC TTC TTC CAC TTC TTC
1 TTC TTC TTC TTC TT-C TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
23966221 T
1 T
23966222 ACTCATACAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.89
4 2 0.05
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:23966188 original size:24 final size:24
Alignment explanation
Indices: 23966159--23966210 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
23966149 TGCCTCAACA
23966159 TCTTTTCCTTCCTC-TCTTTCTTCT
1 TCTTTTCCTTCCTCTTC-TTCTTCT
*
23966183 TCTTTTCCTTCTTCTTCTTCTTCT
1 TCTTTTCCTTCCTCTTCTTCTTCT
23966207 TCTT
1 TCTT
23966211 CCACTTCTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (24 bp):
TCTTTTCCTTCCTCTTCTTCTTCT
Found at i:23966193 original size:12 final size:11
Alignment explanation
Indices: 23966159--23966210 Score: 59
Period size: 12 Copynumber: 4.4 Consensus size: 11
23966149 TGCCTCAACA
*
23966159 TCTTTTCCTTCC
1 TCTTTT-CTTCT
23966171 TCTCTTTCTTCT
1 TCT-TTTCTTCT
23966183 TCTTTTCCTTCT
1 TCTTTT-CTTCT
23966195 TCTTCTTCTTCT
1 TCTT-TTCTTCT
23966207 TCTT
1 TCTT
23966211 CCACTTCTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
11 3 0.08
12 28 0.78
13 5 0.14
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (11 bp):
TCTTTTCTTCT
Found at i:23972187 original size:18 final size:17
Alignment explanation
Indices: 23972164--23972199 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
23972154 ACCTCCTTCA
23972164 TTTCCTCATTCAATCTCC
1 TTTCCT-ATTCAATCTCC
*
23972182 TTTCCTGTTCAATCTCC
1 TTTCCTATTCAATCTCC
23972199 T
1 T
23972200 CTAATGTCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.14, C:0.36, G:0.03, T:0.47
Consensus pattern (17 bp):
TTTCCTATTCAATCTCC
Found at i:23985598 original size:23 final size:23
Alignment explanation
Indices: 23985568--23985615 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
23985558 CAGTATTGTT
*
23985568 TGTAAAGAAAAAAGACGGTTCAA
1 TGTAAAGAAAAAAGACAGTTCAA
*
23985591 TGTAAAGAAAAATGACAGTTCAA
1 TGTAAAGAAAAAAGACAGTTCAA
23985614 TG
1 TG
23985616 AGAATGTGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.50, C:0.08, G:0.21, T:0.21
Consensus pattern (23 bp):
TGTAAAGAAAAAAGACAGTTCAA
Found at i:23987230 original size:25 final size:25
Alignment explanation
Indices: 23987196--23987428 Score: 274
Period size: 25 Copynumber: 9.4 Consensus size: 25
23987186 AGACGATGAA
*
23987196 GATATTCTGTCTGGCTCGTAAAAGC
1 GATATTCTGTCTGGCTCGTAAGAGC
23987221 GATATTCTGTCTGGCTCGTAAGAGC
1 GATATTCTGTCTGGCTCGTAAGAGC
*
23987246 GATATTCTGTTTGGCTCGTAAGAGC
1 GATATTCTGTCTGGCTCGTAAGAGC
*
23987271 GATATTTTGTCTGGCTCGTAAGAGC
1 GATATTCTGTCTGGCTCGTAAGAGC
23987296 GATATTCTGTCTGGCTCGTAAGAGC
1 GATATTCTGTCTGGCTCGTAAGAGC
* * *
23987321 GATA-TCTTGTCTAGCTCATAAGAGT
1 GATATTC-TGTCTGGCTCGTAAGAGC
* * *
23987346 GATATT-T-TTTGGCTCGTGAGAGT
1 GATATTCTGTCTGGCTCGTAAGAGC
* *
23987369 GATATTCTATCTGGCTCATAAGAGC
1 GATATTCTGTCTGGCTCGTAAGAGC
* * * * *
23987394 GTTATTCTATTTAGGCTGGTTAGAGC
1 GATATTCTGTCT-GGCTCGTAAGAGC
*
23987420 TATATTCTG
1 GATATTCTG
23987429 GAAGATTCGA
Statistics
Matches: 179, Mismatches: 24, Indels: 9
0.84 0.11 0.04
Matches are distributed among these distances:
23 18 0.10
24 4 0.02
25 140 0.78
26 17 0.09
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.36
Consensus pattern (25 bp):
GATATTCTGTCTGGCTCGTAAGAGC
Found at i:23991758 original size:36 final size:36
Alignment explanation
Indices: 23991684--23991810 Score: 130
Period size: 36 Copynumber: 3.5 Consensus size: 36
23991674 GATTTCTTTA
* * * ***
23991684 ATGGAAGAGCTTACGTCTTGATTAGAGCGTAAGGTT
1 ATGGAAGTGCATACGTCTCGATTAGAGCGTATTATT
* * *
23991720 ATGTG-ATTTCATATGTCTCGATTAGAGCGTATTATT
1 ATG-GAAGTGCATACGTCTCGATTAGAGCGTATTATT
* *
23991756 ATGGAAGTGCTTACGTCTCGGTTAGAGCGTATTATT
1 ATGGAAGTGCATACGTCTCGATTAGAGCGTATTATT
*
23991792 ATGGAAGTGCTTACGTCTC
1 ATGGAAGTGCATACGTCTC
23991811 AGTTGAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
35 1 0.01
36 73 0.97
37 1 0.01
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.36
Consensus pattern (36 bp):
ATGGAAGTGCATACGTCTCGATTAGAGCGTATTATT
Found at i:23998058 original size:303 final size:303
Alignment explanation
Indices: 23997511--23998116 Score: 1176
Period size: 303 Copynumber: 2.0 Consensus size: 303
23997501 TAAATTATAA
*
23997511 TTATCATAATTTCTCTAGTTCTATCCAAGGTACTTGACTACTTACCCATAGAAGCAGAGGTTTCC
1 TTATCATAATTTCTCTAGTTCTATCCAAGGTACTCGACTACTTACCCATAGAAGCAGAGGTTTCC
*
23997576 AAGGCACATAATTTGCAGAAGGGCAATGTGCTTCTGAATCCTCACCTAAATAGACACACAAAGTG
66 AAGGCACATAATTTGCAGAAGGGCAATGTGCTTCTGAATCCTCACCTAAATAGAAACACAAAGTG
*
23997641 ATCAAACCATAGACAATCTCAAACTAATCGACTAACCTAAACAACTACCTCCCTTCCGCATGAAA
131 ATCAAACCATAAACAATCTCAAACTAATCGACTAACCTAAACAACTACCTCCCTTCCGCATGAAA
23997706 TCGAAACAAAACAATCACTGTTTTTAAGAGATCTAAGGGAAGGGAATCGAACACAATACCTTCAA
196 TCGAAACAAAACAATCACTGTTTTTAAGAGATCTAAGGGAAGGGAATCGAACACAATACCTTCAA
23997771 CACACAACCAGACACTTAACCACTGAACCAAATCAATTTACCT
261 CACACAACCAGACACTTAACCACTGAACCAAATCAATTTACCT
23997814 TTATCATAATTTCTCTAGTTCTATCCAAGGTACTCGACTACTTACCCATAGAAGCAGAGGTTTCC
1 TTATCATAATTTCTCTAGTTCTATCCAAGGTACTCGACTACTTACCCATAGAAGCAGAGGTTTCC
23997879 AAGGCACATAATTTGCAGAAGGGCAATGTGCTTCTGAATCCTCACCTAAATAGAAACACAAAGTG
66 AAGGCACATAATTTGCAGAAGGGCAATGTGCTTCTGAATCCTCACCTAAATAGAAACACAAAGTG
23997944 ATCAAACCATAAACAATCTCAAACTAATCGACTAACCTAAACAACTACCTCCCTTCCGCATGAAA
131 ATCAAACCATAAACAATCTCAAACTAATCGACTAACCTAAACAACTACCTCCCTTCCGCATGAAA
23998009 TCGAAACAAAACAATCACTGTTTTTAAGAGATCTAAGGGAAGGGAATCGAACACAATACCTTCAA
196 TCGAAACAAAACAATCACTGTTTTTAAGAGATCTAAGGGAAGGGAATCGAACACAATACCTTCAA
*
23998074 CACACAACCAGACACTTAACCATTGAACCAAATCAATTTACCT
261 CACACAACCAGACACTTAACCACTGAACCAAATCAATTTACCT
23998117 AACACAATTT
Statistics
Matches: 299, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
303 299 1.00
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.24
Consensus pattern (303 bp):
TTATCATAATTTCTCTAGTTCTATCCAAGGTACTCGACTACTTACCCATAGAAGCAGAGGTTTCC
AAGGCACATAATTTGCAGAAGGGCAATGTGCTTCTGAATCCTCACCTAAATAGAAACACAAAGTG
ATCAAACCATAAACAATCTCAAACTAATCGACTAACCTAAACAACTACCTCCCTTCCGCATGAAA
TCGAAACAAAACAATCACTGTTTTTAAGAGATCTAAGGGAAGGGAATCGAACACAATACCTTCAA
CACACAACCAGACACTTAACCACTGAACCAAATCAATTTACCT
Found at i:23998296 original size:24 final size:24
Alignment explanation
Indices: 23998268--23998318 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
23998258 AGAAATAATC
*
23998268 TTTCAGTTAAACTCTGTTTAATTG
1 TTTCAATTAAACTCTGTTTAATTG
* *
23998292 TTTCAATTAAACTTTGTTTATTTG
1 TTTCAATTAAACTCTGTTTAATTG
23998316 TTT
1 TTT
23998319 GAGTCGAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.10, G:0.10, T:0.57
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTAATTG
Found at i:24000322 original size:24 final size:24
Alignment explanation
Indices: 24000236--24000310 Score: 114
Period size: 24 Copynumber: 3.1 Consensus size: 24
24000226 AGAAATAATC
* *
24000236 TTTCAGTTAAACTCTGTTTAATTG
1 TTTCAATTAAACTCTGTTTATTTG
* *
24000260 TTTCAATTAAAATTTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
24000284 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTGTTTATTTG
24000308 TTT
1 TTT
24000311 GAGTCAAACT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.56
Consensus pattern (24 bp):
TTTCAATTAAACTCTGTTTATTTG
Found at i:24027697 original size:22 final size:24
Alignment explanation
Indices: 24027672--24027720 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
24027662 GTTCTTGAAC
24027672 GATAT-GAT-ATGGAAGACTTGGT
1 GATATCGATAATGGAAGACTTGGT
**
24027694 GATATCTTTAATGGAAGACTTGGT
1 GATATCGATAATGGAAGACTTGGT
24027718 GAT
1 GAT
24027721 TTCTTTAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 5 0.22
23 1 0.04
24 17 0.74
ACGTcount: A:0.31, C:0.06, G:0.29, T:0.35
Consensus pattern (24 bp):
GATATCGATAATGGAAGACTTGGT
Found at i:24027708 original size:24 final size:24
Alignment explanation
Indices: 24027680--24027732 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
24027670 ACGATATGAT
24027680 ATGGAAGACTTGGTGATATCTTTA
1 ATGGAAGACTTGGTGATATCTTTA
*
24027704 ATGGAAGACTTGGTGATTTCTTTA
1 ATGGAAGACTTGGTGATATCTTTA
24027728 ATGGA
1 ATGGA
24027733 GGAGTTTACG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.28, C:0.08, G:0.26, T:0.38
Consensus pattern (24 bp):
ATGGAAGACTTGGTGATATCTTTA
Found at i:24029020 original size:15 final size:15
Alignment explanation
Indices: 24028997--24029027 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24028987 TGTGAAGAGT
*
24028997 ATTAGTCTAAATTAA
1 ATTAATCTAAATTAA
24029012 ATTAATCTAAATTAA
1 ATTAATCTAAATTAA
24029027 A
1 A
24029028 ATTGAAAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (15 bp):
ATTAATCTAAATTAA
Found at i:24031713 original size:23 final size:23
Alignment explanation
Indices: 24031687--24031730 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
24031677 AAATACATGG
* *
24031687 ACAATAAATAAATAAACAATAAT
1 ACAACAAATAAATAAAAAATAAT
*
24031710 ACAACAATTAAATAAAAAATA
1 ACAACAAATAAATAAAAAATA
24031731 TAATAAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.20
Consensus pattern (23 bp):
ACAACAAATAAATAAAAAATAAT
Found at i:24031944 original size:26 final size:25
Alignment explanation
Indices: 24031906--24031962 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 25
24031896 AAAGTACTAA
*
24031906 AAAATGAACAAAATAAAATAAAATAAT
1 AAAA-GAACAAAATAAAA-AAAACAAT
24031933 AAAAGAACAAAATAAAAAAAACAAT
1 AAAAGAACAAAATAAAAAAAACAAT
24031958 AAAAG
1 AAAAG
24031963 GGACTGAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 12 0.41
26 13 0.45
27 4 0.14
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.12
Consensus pattern (25 bp):
AAAAGAACAAAATAAAAAAAACAAT
Found at i:24049286 original size:71 final size:71
Alignment explanation
Indices: 24049167--24049323 Score: 253
Period size: 71 Copynumber: 2.2 Consensus size: 71
24049157 ATACCTACCT
*
24049167 GACTTCTACCGATACAACTATGACTTATACCGGTAGAACAAACTCCAGAGAGCAAAGAAGTTGTG
1 GACTTCTACCGATACAACTATGACTTATACCGGTAGAACAAACTCCAGAGAGCAAAGAAGTTATG
24049232 GCCTGC
66 GCCTGC
* * *
24049238 GATTTCTACCGATACAAC-ATTGACTTCTACCGGTAGAACAAACTCCAGAGAGTAAAGAAGTTAT
1 GACTTCTACCGATACAACTA-TGACTTATACCGGTAGAACAAACTCCAGAGAGCAAAGAAGTTAT
*
24049302 GGCCTGG
65 GGCCTGC
24049309 GACTTCTACCGATAC
1 GACTTCTACCGATAC
24049324 CTTGAAGGCT
Statistics
Matches: 79, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
70 1 0.01
71 78 0.99
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (71 bp):
GACTTCTACCGATACAACTATGACTTATACCGGTAGAACAAACTCCAGAGAGCAAAGAAGTTATG
GCCTGC
Found at i:24055150 original size:29 final size:29
Alignment explanation
Indices: 24055117--24055175 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
24055107 TTATACAATT
* *
24055117 TTTATATATAAACAAATTTTATATCTATA
1 TTTATACATAAACAAATTTTATATATATA
* * *
24055146 TTTATACATATACTACTTTTATATATATA
1 TTTATACATAAACAAATTTTATATATATA
24055175 T
1 T
24055176 ATATTTGACT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (29 bp):
TTTATACATAAACAAATTTTATATATATA
Found at i:24082399 original size:24 final size:24
Alignment explanation
Indices: 24082372--24082451 Score: 133
Period size: 24 Copynumber: 3.3 Consensus size: 24
24082362 ACGATATGAT
*
24082372 ATGGAAGACTTGGTGATATCATTA
1 ATGGAAGACTTGGTGATATCTTTA
*
24082396 ATGGAAGACTTAGTGATATCTTTA
1 ATGGAAGACTTGGTGATATCTTTA
*
24082420 ATGGAAGACTTGGTGATTTCTTTA
1 ATGGAAGACTTGGTGATATCTTTA
24082444 ATGGAAGA
1 ATGGAAGA
24082452 GCTTCCGTCT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 52 1.00
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.35
Consensus pattern (24 bp):
ATGGAAGACTTGGTGATATCTTTA
Found at i:24085944 original size:23 final size:22
Alignment explanation
Indices: 24085904--24085977 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 22
24085894 GCAAATTTTG
* **
24085904 AAATAAATACATGGACAATAAAT
1 AAATAAATAAATAAACAAT-AAT
24085927 AAATAAATAAATAAACAATAAT
1 AAATAAATAAATAAACAATAAT
* *
24085949 ACAACAATTAAATAAA-AA-AAT
1 A-AATAAATAAATAAACAATAAT
24085970 ATAATAAA
1 A-AATAAA
24085978 AATGATGATA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
21 8 0.19
22 6 0.14
23 28 0.67
ACGTcount: A:0.69, C:0.07, G:0.03, T:0.22
Consensus pattern (22 bp):
AAATAAATAAATAAACAATAAT
Found at i:24086361 original size:24 final size:24
Alignment explanation
Indices: 24086311--24086363 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
24086301 ATAAGCAAAT
*
24086311 TAAAGGCATAAATTAAAAAAGGGAA
1 TAAAGGCATAAATTAAAAAA-GAAA
*
24086336 TAAAGGCTTAAATTAAAACAA-AAA
1 TAAAGGCATAAATTAAAA-AAGAAA
24086360 TAAA
1 TAAA
24086364 AATGCAGGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.24
25 17 0.68
26 2 0.08
ACGTcount: A:0.62, C:0.06, G:0.13, T:0.19
Consensus pattern (24 bp):
TAAAGGCATAAATTAAAAAAGAAA
Found at i:24088002 original size:18 final size:18
Alignment explanation
Indices: 24087964--24088003 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
24087954 TATCCATACC
* * *
24087964 TTTTAAATTACATATTTT
1 TTTTAAATTAAAAATTAT
24087982 TTTTAAATTAAAAATTAT
1 TTTTAAATTAAAAATTAT
24088000 TTTT
1 TTTT
24088004 TCTTATTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTAAATTAAAAATTAT
Found at i:24088353 original size:32 final size:33
Alignment explanation
Indices: 24088303--24088369 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 33
24088293 CGTTACGGGT
* *
24088303 ACAAAACTCAAAACCATCCCCGCCCCACGACCC
1 ACAAAACTCAAAACCATCCCCACCCCACCACCC
*
24088336 ACAAGACT-AAAACCATCCCCACCCCACCACCC
1 ACAAAACTCAAAACCATCCCCACCCCACCACCC
24088368 AC
1 AC
24088370 GCGGGTCTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 24 0.77
33 7 0.23
ACGTcount: A:0.37, C:0.52, G:0.04, T:0.06
Consensus pattern (33 bp):
ACAAAACTCAAAACCATCCCCACCCCACCACCC
Found at i:24089586 original size:8 final size:8
Alignment explanation
Indices: 24089537--24089567 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
24089527 TTTTAAAGAG
24089537 TTTTTATT
1 TTTTTATT
24089545 TTTTTATT
1 TTTTTATT
24089553 CTTTTTATT
1 -TTTTTATT
24089562 TTTTTA
1 TTTTTA
24089568 AAAAATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTATT
Found at i:24090972 original size:22 final size:20
Alignment explanation
Indices: 24090938--24090977 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
24090928 ATATTGATTA
24090938 TAAATAGGATTAATTAAGGC
1 TAAATAGGATTAATTAAGGC
24090958 TAAATAAGTGATTAATTAAG
1 TAAAT-AG-GATTAATTAAG
24090978 TTAATCATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 11 0.61
ACGTcount: A:0.47, C:0.03, G:0.17, T:0.33
Consensus pattern (20 bp):
TAAATAGGATTAATTAAGGC
Found at i:24098273 original size:22 final size:20
Alignment explanation
Indices: 24098239--24098278 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
24098229 ATATTGATTA
24098239 TAAATAGGATTAATTAAGGC
1 TAAATAGGATTAATTAAGGC
24098259 TAAATAAGTGATTAATTAAG
1 TAAAT-AG-GATTAATTAAG
24098279 TTAATCATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 11 0.61
ACGTcount: A:0.47, C:0.03, G:0.17, T:0.33
Consensus pattern (20 bp):
TAAATAGGATTAATTAAGGC
Found at i:24101534 original size:27 final size:27
Alignment explanation
Indices: 24101474--24101534 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 27
24101464 TATTTCCTTA
* * *
24101474 AATTTAAAAAAAAATGACCTATTTGACC
1 AATTT-AAAAAAAACGACATATATGACC
24101502 AA-TTAAAAAAAACGACATATATG-CAC
1 AATTTAAAAAAAACGACATATATGAC-C
24101528 AATTTAA
1 AATTTAA
24101535 CTGTTATATG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 1 0.04
26 19 0.68
27 6 0.21
28 2 0.07
ACGTcount: A:0.54, C:0.13, G:0.07, T:0.26
Consensus pattern (27 bp):
AATTTAAAAAAAACGACATATATGACC
Found at i:24112122 original size:11 final size:11
Alignment explanation
Indices: 24112106--24112130 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24112096 ACATTATATG
24112106 TTATAAAATTT
1 TTATAAAATTT
24112117 TTATAAAATTT
1 TTATAAAATTT
24112128 TTA
1 TTA
24112131 AAATTTCATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTATAAAATTT
Found at i:24120199 original size:24 final size:25
Alignment explanation
Indices: 24120172--24120223 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
24120162 TTTTTTACTG
*
24120172 TTTGGGTGCTATTTTT-TTGTTATT
1 TTTGGGTGCTATTTTTGTTGCTATT
* *
24120196 TTT-GTTGTTATTTTTGTTGCTATT
1 TTTGGGTGCTATTTTTGTTGCTATT
24120220 TTTG
1 TTTG
24120224 TTGTTTTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.08, C:0.04, G:0.19, T:0.69
Consensus pattern (25 bp):
TTTGGGTGCTATTTTTGTTGCTATT
Found at i:24120203 original size:12 final size:12
Alignment explanation
Indices: 24120181--24120284 Score: 85
Period size: 12 Copynumber: 9.1 Consensus size: 12
24120171 GTTTGGGTGC
24120181 TATTTTT-TTGT
1 TATTTTTGTTGT
24120192 TATTTTTGTTGT
1 TATTTTTGTTGT
*
24120204 TATTTTTGTTGC
1 TATTTTTGTTGT
24120216 TATTTTTGTTG-
1 TATTTTTGTTGT
*
24120227 --TTTTTGTTAT
1 TATTTTTGTTGT
* **
24120237 T-GTTTTGCCGT
1 TATTTTTGTTGT
*
24120248 TATTTTT-TCTGC
1 TATTTTTGT-TGT
*
24120260 TGTTTTTGTTGT
1 TATTTTTGTTGT
*
24120272 TATTTTGGTTGT
1 TATTTTTGTTGT
24120284 T
1 T
24120285 TGGATGTTAT
Statistics
Matches: 73, Mismatches: 14, Indels: 11
0.74 0.14 0.11
Matches are distributed among these distances:
9 8 0.11
11 14 0.19
12 50 0.68
13 1 0.01
ACGTcount: A:0.07, C:0.05, G:0.17, T:0.71
Consensus pattern (12 bp):
TATTTTTGTTGT
Found at i:24120211 original size:21 final size:20
Alignment explanation
Indices: 24120185--24120243 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 20
24120175 GGGTGCTATT
24120185 TTTTTGTTATTTTTGTTGTTA
1 TTTTTGTTATTTTT-TTGTTA
* * *
24120206 TTTTTGTTGCTATTTTTGTTG
1 TTTTTGTT-ATTTTTTTGTTA
*
24120227 TTTTTGTTATTGTTTTG
1 TTTTTGTTATTTTTTTG
24120244 CCGTTATTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
20 6 0.19
21 21 0.68
22 4 0.13
ACGTcount: A:0.07, C:0.02, G:0.17, T:0.75
Consensus pattern (20 bp):
TTTTTGTTATTTTTTTGTTA
Found at i:24120243 original size:44 final size:44
Alignment explanation
Indices: 24120185--24120298 Score: 119
Period size: 44 Copynumber: 2.6 Consensus size: 44
24120175 GGGTGCTATT
*
24120185 TTTTTGTTA-T-TTTTGTTGTTATTTTTGT-TGCTATTTTTGTTG
1 TTTTTGTTATTGTTTTGATGTTATTTTT-TCTGCTATTTTTGTTG
** *
24120227 TTTTTGTTATTGTTTTGCCGTTATTTTTTCTGCTGTTTTTGTTG
1 TTTTTGTTATTGTTTTGATGTTATTTTTTCTGCTATTTTTGTTG
** *
24120271 TTATTT-TGGTTGTTTGGATGTTATTTTT
1 TT-TTTGTTATTGTTTTGATGTTATTTTT
24120299 ATGCGTTTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
42 9 0.15
43 2 0.03
44 46 0.77
45 3 0.05
ACGTcount: A:0.07, C:0.04, G:0.18, T:0.70
Consensus pattern (44 bp):
TTTTTGTTATTGTTTTGATGTTATTTTTTCTGCTATTTTTGTTG
Found at i:24126586 original size:34 final size:32
Alignment explanation
Indices: 24126520--24126591 Score: 85
Period size: 34 Copynumber: 2.2 Consensus size: 32
24126510 CAAAAAATAC
24126520 AAAAAAATATTCAAAATCATTTTCGAAAATTCA
1 AAAAAAATATTCAAAATCATTTTC-AAAATTCA
24126553 AAAAAAATAAATTCAAAAT-ATTTAT-AAATATTCA
1 AAAAAAAT--ATTCAAAATCATTT-TCAAA-ATTCA
24126587 AAAAA
1 AAAAA
24126592 TTATAGTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
33 11 0.31
34 14 0.40
35 10 0.29
ACGTcount: A:0.61, C:0.08, G:0.01, T:0.29
Consensus pattern (32 bp):
AAAAAAATATTCAAAATCATTTTCAAAATTCA
Done.