Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 149 of 190
Found at i:24131868 original size:62 final size:62
Alignment explanation
Indices: 24131792--24131917 Score: 243
Period size: 62 Copynumber: 2.0 Consensus size: 62
24131782 TCATTTAAAG
*
24131792 TTGATTTCCTTGTTCTTTCCTTAAAATATTCAATGACTAAGCCGTGAAAGATTCATCCCTCT
1 TTGATTTCCTTGTTCTTTCCTTAAAATATTCAATGACTAAGCCATGAAAGATTCATCCCTCT
24131854 TTGATTTCCTTGTTCTTTCCTTAAAATATTCAATGACTAAGCCATGAAAGATTCATCCCTCT
1 TTGATTTCCTTGTTCTTTCCTTAAAATATTCAATGACTAAGCCATGAAAGATTCATCCCTCT
24131916 TT
1 TT
24131918 ATGTATGTTA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.26, C:0.22, G:0.10, T:0.41
Consensus pattern (62 bp):
TTGATTTCCTTGTTCTTTCCTTAAAATATTCAATGACTAAGCCATGAAAGATTCATCCCTCT
Found at i:24132113 original size:3 final size:3
Alignment explanation
Indices: 24132098--24132135 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
24132088 ATTTATTTAT
*
24132098 TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
24132136 TTGGTTGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:24132566 original size:19 final size:19
Alignment explanation
Indices: 24132544--24132580 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
24132534 GATTGCGATG
24132544 GAATTTTTTAGTGACTTTT
1 GAATTTTTTAGTGACTTTT
*
24132563 GAATTTTTTGGTGACTTT
1 GAATTTTTTAGTGACTTT
24132581 CCATTGAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.19, C:0.05, G:0.19, T:0.57
Consensus pattern (19 bp):
GAATTTTTTAGTGACTTTT
Found at i:24133055 original size:21 final size:21
Alignment explanation
Indices: 24133031--24133072 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24133021 AGCCAAGCCA
* *
24133031 ATTTTGCTATTTTATTTATTT
1 ATTTGGCTATTATATTTATTT
*
24133052 ATTTGGTTATTATATTTATTT
1 ATTTGGCTATTATATTTATTT
24133073 TATAAGATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.02, G:0.07, T:0.69
Consensus pattern (21 bp):
ATTTGGCTATTATATTTATTT
Found at i:24133409 original size:25 final size:25
Alignment explanation
Indices: 24133381--24133429 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
24133371 CTAATTATCC
24133381 AATGATAAGATTCTTAA-AAATTTCA
1 AATGATAA-ATTCTTAAGAAATTTCA
* *
24133406 AATGGTAAATTTTTAAGAAATTTC
1 AATGATAAATTCTTAAGAAATTTC
24133430 TATGAGAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.39
Consensus pattern (25 bp):
AATGATAAATTCTTAAGAAATTTCA
Found at i:24134135 original size:18 final size:18
Alignment explanation
Indices: 24134112--24134148 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
24134102 TTTAGATGGG
24134112 CATGTAAGGGTGCTATAA
1 CATGTAAGGGTGCTATAA
24134130 CATGTAAGGGTGCTATAA
1 CATGTAAGGGTGCTATAA
24134148 C
1 C
24134149 CTTCCTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (18 bp):
CATGTAAGGGTGCTATAA
Found at i:24135689 original size:27 final size:28
Alignment explanation
Indices: 24135636--24135687 Score: 81
Period size: 26 Copynumber: 1.9 Consensus size: 28
24135626 ACAAATTATG
*
24135636 TTCAATATATTATATAATAAATAAAATC
1 TTCAATATATTACATAATAAATAAAATC
24135664 TTCAATA-ATTACATAA-AAATAAAA
1 TTCAATATATTACATAATAAATAAAA
24135688 ATAAATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 8 0.35
27 8 0.35
28 7 0.30
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.35
Consensus pattern (28 bp):
TTCAATATATTACATAATAAATAAAATC
Found at i:24136479 original size:616 final size:609
Alignment explanation
Indices: 24134822--24137256 Score: 3368
Period size: 616 Copynumber: 4.0 Consensus size: 609
24134812 GAAACTCTTC
* * * * * *
24134822 ACATGGTGGCATACTTGCTATTTTGTGTAAAAATAAAATAAACTTATATTTAGTAGTATTAATGT
1 ACATGATGGCATACTTGCTATTTTGTATAAAAACAAAATAAATTTATATTTAGAAATATTAATGT
* * * *
24134887 TACTTATTACATCATTAAAAATTGAATCTATGTTAAATTTTTTATTTTTTAGTTTTTAATCTTAA
66 TACTTATTCCATCATTAAAAATTGAATCTACGTTAAATTTTTTAATTTTTAATTTTTAATCTTAA
* *
24134952 AAGTAATAGCTCAT-AAA-ATGCTAAATTTATTAAGTAA-TGTAATCTTTTTTATACACTAATTA
131 AAGTAATAGATCATCAAACAT--TAAATTTATTAAGTAACT-TAATCTTTTTTATACACTAATTG
24135014 ATGT-AAAAAAATTTTATCACAAATTACTTTCAATATATTATATAATAAATAGAATCTTCAATAA
193 ATGTAAAAAAAATTTTATCACAAATTACTTTCAATATATTATATAATAAATAGAATCTTCAATAA
* * *
24135078 TTATAC-AAAATAAAAATAAATTAATAAGAATTAATTTAATAGTAAAATAATTGACAACAATATA
258 TTACACAAAAATAAAAATAAATTAATAAGAATTAATTTAATAGCAAAAGAATTGACAACAATATA
*
24135142 AATACCAAAACAACAAAAAAATTATTAAATTTCAAATACCAAATTATAAATTAATAAATAACAAA
323 AATACCAAAACAACAAAAAAATTATTAAATTTCAAATA-TAAATTATAAATTAATAAATAACAAA
*
24135207 ATCAAAATACAACATTTAATTTTAATTATTTTTCATCTAACTTATAC-----------AAA----
387 ATCAAAATATAACATTTAATTTTAATTATTTTTCATCTAACTTATACAAAAATTATTAAAATTTT
* *
24135257 -ATCTAAAATCCCTATAAATATCATATTAAATTATT-ATCTCTTAATTTTTTTTCAATTATAAAT
452 TATCTAAAATCCCTATATATATCATATTAAATTATTAATCTCTTAA-TTTTTTTCAATTATAAAC
*
24135320 TTTCAATCCCTCTAACTAAATTTTATCT-AAAAAATTTTAAAAATTA-AAATTTTTTAAATTTAT
516 TTTCAATCCCTCTAACTAAATTTTATCTAAAAAAATTTT-AAAATTACAAA-ATTTTAAATTTAT
24135383 ATTTTAATAAAATTAATTACAAAATTAAATA
579 ATTTTAATAAAATTAATTACAAAATTAAATA
* * * *
24135414 ACATGGTGGCATGCTTGCTATTTTGTAAAAATAAAATAAAATAAACTTT-TATTTAGAAATATTA
1 ACATGATGGCATACTTGCTATTTTGT--ATA-AAAACAAAATAAA-TTTATATTTAGAAATATTA
* * *
24135478 ATGTTACTTATTCCATCATTAAAAATTGAATCTATGTTAGATCTTTTAATTTTTAATTTTTAATC
62 ATGTTACTTATTCCATCATTAAAAATTGAATCTACGTTAAATTTTTTAATTTTTAATTTTTAATC
* * * * * * *
24135543 TTAAGAGTAATAGATTATAAAATACTAAATTTATTAAGTAACTTAATATTTTTGATACACTAATT
127 TTAAAAGTAATAGATCATCAAACATTAAATTTATTAAGTAACTTAATCTTTTTTATACACTAATT
* *
24135608 GATGTAAAAAAAA--CTATCACAAATTA-TGTTCAATATATTATATAATAAATAAAATCTTCAAT
192 GATGTAAAAAAAATTTTATCACAAATTACT-TTCAATATATTATATAATAAATAGAATCTTCAAT
* *
24135670 AATTACATAAAAATAAAAATAAATTAATAAGAATTAATTTAATAGCAAAAGAACTGACAACAATA
256 AATTACACAAAAATAAAAATAAATTAATAAGAATTAATTTAATAGCAAAAGAATTGACAACAATA
*
24135735 TAAATACCAAAACAACAAAAAAATTATTAAATTTCAAATATAAAATTATAAATTAGTAAATAACA
321 TAAATACCAAAACAACAAAAAAATTATTAAATTTCAAATAT-AAATTATAAATTAATAAATAACA
* * *
24135800 AAGTCAAAATATAACATTTAATTTTAATTATTTTTTA-CTTAACTTATTCAAAAGAAATTATTAA
385 AAATCAAAATATAACATTTAATTTTAATTATTTTTCATC-TAACTTA-T-ACAA-AAATTATTAA
* *
24135864 AATTTTTTATCTAAAATCCCTATATATATATGATATTTAATTATTAATC-CTTTAATTTTTTTCA
446 AA-TTTTTATCTAAAATCCC--TATATATATCATATTAAATTATTAATCTC-TTAATTTTTTTCA
24135928 ATTATAAACTTTCAATCCCTCTAACTAAATTTTATCTAAAAAAATTTT-AAATTACAAAATTTTA
507 ATTATAAACTTTCAATCCCTCTAACTAAATTTTATCTAAAAAAATTTTAAAATTACAAAATTTTA
24135992 AATTTATATTTTAATAAAATTAATTACAAAATTAAATA
572 AATTTATATTTTAATAAAATTAATTACAAAATTAAATA
* * * *
24136030 ACGTGATGGCATACTTGTTATTTTGTATAAAAACAAAATAAATTTATATTTAAAAATATTAATAT
1 ACATGATGGCATACTTGCTATTTTGTATAAAAACAAAATAAATTTATATTTAGAAATATTAATGT
24136095 TACTTATTCCA-CTATTAAAAATTGAATCTACGTTAAATTTTTTAATTTTTAATTTTTAATCTTA
66 TACTTATTCCATC-ATTAAAAATTGAATCTACGTTAAATTTTTTAATTTTTAATTTTTAATCTTA
* **
24136159 AGAGTAATAGATCATCAAACATTAAATTTATTAAGTAACTTAATCTTTTTTATATGCTAATTGAT
130 AAAGTAATAGATCATCAAACATTAAATTTATTAAGTAACTTAATCTTTTTTATACACTAATTGAT
* * *
24136224 GTAAAAAAAATTTTATCACAAATTATTTTTAATATATTATATAATAAATCGAATCTTCAATAATT
195 GTAAAAAAAATTTTATCACAAATTACTTTCAATATATTATATAATAAATAGAATCTTCAATAATT
* ** * *
24136289 ACACAAAAATAAAAATAACTTAATAAGAATTAATTTAATATAAAAAGAATTCATAACAATATAAA
260 ACACAAAAATAAAAATAAATTAATAAGAATTAATTTAATAGCAAAAGAATTGACAACAATATAAA
24136354 TACCAAAACAACAAAAAAATTTATTAAATTTCAAATATAACATTATAAATTAATAAATAACAAAA
325 TACCAAAACAACAAAAAAA-TTATTAAATTTCAAATATAA-ATTATAAATTAATAAATAACAAAA
* *
24136419 TCAAAATATAACATTTAATTTTAATTATTTTTTATCTAACTTATACAAGAAATTTTATTAAAGTT
388 TCAAAATATAACATTTAATTTTAATTATTTTTCATCTAACTTATACAA-AAA--TTATTAAA-AT
* * *
24136484 TTTTATTTAAAATCCCTATATACATCATATTAAATTATTAATCTCTTATTTTTTTTCAATTAT-A
449 TTTTATCTAAAATCCCTATATATATCATATTAAATTATTAATCTCTTAATTTTTTTCAATTATAA
* * *
24136548 ACTTCTCAATCCCTTTAACTAAATTTTATCTTTAAAAAATTTTAAAAATTAC-AAATTTTTAATT
514 ACTT-TCAATCCCTCTAACTAAATTTTATC-TAAAAAAATTTT-AAAATTACAAAATTTTAAATT
24136612 TATATTTTAATAAAATTAATTACAAAATTAAATA
576 TATATTTTAATAAAATTAATTACAAAATTAAATA
* *
24136646 ACAT-AGTGGCATGCTTGCTATTTTGTATAAAAACAAAATAAATTTATATATAGAAATATTAATG
1 ACATGA-TGGCATACTTGCTATTTTGTATAAAAACAAAATAAATTTATATTTAGAAATATTAATG
* *
24136710 TTA-TCTATTTCATCATTAAAAATTAAATCTACGTTAAATTTTTTAATTTTTAATTTTTAATCTT
65 TTACT-TATTCCATCATTAAAAATTGAATCTACGTTAAATTTTTTAATTTTTAATTTTTAATCTT
* * * * *
24136774 AAAAGTAATAGACCA-CAAAACGTTAAATTTA-TAAGTAATTTAATCTTTTTAATATACTAATTG
129 AAAAGTAATAGATCATC-AAACATTAAATTTATTAAGTAACTTAATCTTTTTTATACACTAATTG
* * *
24136837 ATATAAAAAAAAAAATTTATCACAAATTGCTTTCAATATATTATATAATAAATAGAATCTTCAAT
193 ATGT--AAAAAAAATTTTATCACAAATTACTTTCAATATATTATATAATAAATAGAATCTTCAAT
* *
24136902 AATTAGACAAAAATAAAAATAAATTAATAAGAATTAATTTAATAGCAAAAGAGTTGACAACAATA
256 AATTACACAAAAATAAAAATAAATTAATAAGAATTAATTTAATAGCAAAAGAATTGACAACAATA
*
24136967 TAAATACCAAAACAAC--AAAAATTATTAAATTTTAAATATAAAGTTATAAATTAATAAATAACA
321 TAAATACCAAAACAACAAAAAAATTATTAAATTTCAAATATAAA-TTATAAATTAATAAATAACA
* *
24137030 AAATCAAAATATAATATTTAATTTCAATTATTTTTCATCTAACTTATACAAACAAATTTATTAAA
385 AAATCAAAATATAACATTTAATTTTAATTATTTTTCATCTAACTTATAC-AA-AAA-TTATTAAA
* *
24137095 AGTTTTATCTAAAATCCCTATATATATCATATTAAATTATTAATCTTTTAATTTTTTTCAATTAT
447 ATTTTTATCTAAAATCCCTATATATATCATATTAAATTATTAATCTCTTAATTTTTTTCAATTAT
* * * * * * *
24137160 AAAATCTT-AATCCTTCTAACAAAATTTTATCTAAAACAATTTTAAAATTATAAATTTTTATATT
512 AAACT-TTCAATCCCTCTAACTAAATTTTATCTAAAAAAATTTTAAAATTACAAAATTTTAAATT
*
24137224 TATATTTTAATAAAATTAATTATAAAATTAAAT
576 TATATTTTAATAAAATTAATTACAAAATTAAAT
24137257 GAAAACCACC
Statistics
Matches: 1651, Mismatches: 127, Indels: 110
0.87 0.07 0.06
Matches are distributed among these distances:
592 25 0.02
593 1 0.00
594 53 0.03
595 297 0.18
596 14 0.01
597 2 0.00
609 3 0.00
611 7 0.00
612 55 0.03
613 240 0.15
614 172 0.10
615 197 0.12
616 362 0.22
617 206 0.12
618 17 0.01
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (609 bp):
ACATGATGGCATACTTGCTATTTTGTATAAAAACAAAATAAATTTATATTTAGAAATATTAATGT
TACTTATTCCATCATTAAAAATTGAATCTACGTTAAATTTTTTAATTTTTAATTTTTAATCTTAA
AAGTAATAGATCATCAAACATTAAATTTATTAAGTAACTTAATCTTTTTTATACACTAATTGATG
TAAAAAAAATTTTATCACAAATTACTTTCAATATATTATATAATAAATAGAATCTTCAATAATTA
CACAAAAATAAAAATAAATTAATAAGAATTAATTTAATAGCAAAAGAATTGACAACAATATAAAT
ACCAAAACAACAAAAAAATTATTAAATTTCAAATATAAATTATAAATTAATAAATAACAAAATCA
AAATATAACATTTAATTTTAATTATTTTTCATCTAACTTATACAAAAATTATTAAAATTTTTATC
TAAAATCCCTATATATATCATATTAAATTATTAATCTCTTAATTTTTTTCAATTATAAACTTTCA
ATCCCTCTAACTAAATTTTATCTAAAAAAATTTTAAAATTACAAAATTTTAAATTTATATTTTAA
TAAAATTAATTACAAAATTAAATA
Found at i:24137302 original size:25 final size:25
Alignment explanation
Indices: 24137268--24137319 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
24137258 AAAACCACCT
24137268 ACCCTCCCCTACCCCACCCCTCCCC
1 ACCCTCCCCTACCCCACCCCTCCCC
24137293 ACCCTCCCCTACCCCACCCCTCCCC
1 ACCCTCCCCTACCCCACCCCTCCCC
24137318 AC
1 AC
24137320 TCTTAGACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.13, C:0.75, G:0.00, T:0.12
Consensus pattern (25 bp):
ACCCTCCCCTACCCCACCCCTCCCC
Found at i:24144469 original size:11 final size:11
Alignment explanation
Indices: 24144440--24144470 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
24144430 GCAATATTTG
*
24144440 ACAAATCCCAA
1 ACAAATCTCAA
24144451 ACAAATCTCAA
1 ACAAATCTCAA
24144462 ACAAATCTC
1 ACAAATCTC
24144471 TTATGGGATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:24144762 original size:25 final size:25
Alignment explanation
Indices: 24144688--24144768 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
24144678 TAAGCTTATT
* *
24144688 TCTTCCCATGTCTCAAACCA-AG-C
1 TCTTCCCATGTCTCGAACCATCGAC
* * *** *
24144711 TCTTCTCATATCTCGAATTGTCAAC
1 TCTTCCCATGTCTCGAACCATCGAC
24144736 TCTTCCCATGTCTCGAACCATCGAC
1 TCTTCCCATGTCTCGAACCATCGAC
24144761 TCTTCCCA
1 TCTTCCCA
24144769 CATCTTGAAT
Statistics
Matches: 42, Mismatches: 14, Indels: 2
0.72 0.24 0.03
Matches are distributed among these distances:
23 14 0.33
25 28 0.67
ACGTcount: A:0.22, C:0.37, G:0.09, T:0.32
Consensus pattern (25 bp):
TCTTCCCATGTCTCGAACCATCGAC
Found at i:24144842 original size:31 final size:31
Alignment explanation
Indices: 24144807--24144891 Score: 125
Period size: 31 Copynumber: 2.7 Consensus size: 31
24144797 TTCGAACCTT
* *
24144807 CAGCTCTGATACTACTTGTTGGGGAACACCA
1 CAGCTCTGATACCATTTGTTGGGGAACACCA
* * *
24144838 CAGCTCTGATACCATTTATTGAGGAATACCA
1 CAGCTCTGATACCATTTGTTGGGGAACACCA
24144869 CAGCTCTGATACCATTTGTTGGG
1 CAGCTCTGATACCATTTGTTGGG
24144892 CTAAAAGCCT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (31 bp):
CAGCTCTGATACCATTTGTTGGGGAACACCA
Found at i:24147342 original size:182 final size:182
Alignment explanation
Indices: 24147010--24147376 Score: 664
Period size: 182 Copynumber: 2.0 Consensus size: 182
24147000 ATTTTGATTT
24147010 TTTCGAATTTTTTTTCAACCTTAAAGTTAGGCCATTACTTCAAGGCTTCACTACCCATGTGTTTT
1 TTTCGAATTTTTTTTCAACCTTAAAGTTAGGCCATTACTTCAAGGCTTCACTACCCATGTGTTTT
24147075 TATCTTAAGCTTGATAAATGATGTTAGTGATAATCTAGTACACTTGCCTTTCATACATGCTTACA
66 TATCTTAAGCTTGATAAATGATGTTAGTGATAATCTAGTACACTTGCCTTTCATACATGCTTACA
24147140 TGCACATTTCTTTAATGTTTTTTAAATTTAATTAAAGTTTAAATTTCATGCA
131 TGCACATTTCTTTAATGTTTTTTAAATTTAATTAAAGTTTAAATTTCATGCA
*
24147192 TTTCG-ATTTTTTTCTCAGCCTTAAAGTTAGGCCATTACTTCAAGGCTTCACTACCCATGTGTTT
1 TTTCGAATTTTTTT-TCAACCTTAAAGTTAGGCCATTACTTCAAGGCTTCACTACCCATGTGTTT
* * *
24147256 TTATCTTAAGCTTGATAAATGATGTTAGTGATAGTCTAGTACACTTGTCTTTCATATATGCTTAC
65 TTATCTTAAGCTTGATAAATGATGTTAGTGATAATCTAGTACACTTGCCTTTCATACATGCTTAC
* *
24147321 ATGCACATTTCTTTCATGTTTTTTAAATTTAATTGAAGTTTAAATTTCATGCA
130 ATGCACATTTCTTTAATGTTTTTTAAATTTAATTAAAGTTTAAATTTCATGCA
24147374 TTT
1 TTT
24147377 TAATCTTTTT
Statistics
Matches: 178, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
181 8 0.04
182 170 0.96
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.44
Consensus pattern (182 bp):
TTTCGAATTTTTTTTCAACCTTAAAGTTAGGCCATTACTTCAAGGCTTCACTACCCATGTGTTTT
TATCTTAAGCTTGATAAATGATGTTAGTGATAATCTAGTACACTTGCCTTTCATACATGCTTACA
TGCACATTTCTTTAATGTTTTTTAAATTTAATTAAAGTTTAAATTTCATGCA
Found at i:24147623 original size:7 final size:7
Alignment explanation
Indices: 24147613--24147654 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
24147603 GGTAATTATT
24147613 AATAATA
1 AATAATA
24147620 AATAATAA
1 AATAAT-A
24147628 TAATAATA
1 -AATAATA
24147636 AATAATA
1 AATAATA
*
24147643 AACAATA
1 AATAATA
24147650 AATAA
1 AATAA
24147655 ATAGTAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 23 0.74
8 2 0.06
9 6 0.19
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (7 bp):
AATAATA
Found at i:24147625 original size:10 final size:10
Alignment explanation
Indices: 24147612--24147665 Score: 54
Period size: 10 Copynumber: 5.0 Consensus size: 10
24147602 AGGTAATTAT
24147612 TAATAATAAA
1 TAATAATAAA
24147622 TAATAATAATAA
1 TAATAAT-A-AA
24147634 TAAATAATAAA
1 T-AATAATAAA
*
24147645 CAATAAATAAA
1 TAAT-AATAAA
*
24147656 TAGTAATAAA
1 TAATAATAAA
24147666 AATTTAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 16 0.43
11 11 0.30
12 4 0.11
13 6 0.16
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (10 bp):
TAATAATAAA
Found at i:24151346 original size:30 final size:28
Alignment explanation
Indices: 24151307--24151382 Score: 80
Period size: 30 Copynumber: 2.6 Consensus size: 28
24151297 TAAGGTTTAA
* *
24151307 AGGGTTTTGATTTTAGGATCTGGATATTTT
1 AGGGATTTGATTTTAGG-TCTGGA-AGTTT
*
24151337 AGGGATTTGATTTTAAGGTCTTGAAGTTT
1 AGGGATTTGATTTT-AGGTCTGGAAGTTT
* *
24151366 AGGGGTTGGATTTTAGG
1 AGGGATTTGATTTTAGG
24151383 GTTTAAAGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
28 3 0.08
29 16 0.40
30 18 0.45
31 3 0.08
ACGTcount: A:0.21, C:0.03, G:0.32, T:0.45
Consensus pattern (28 bp):
AGGGATTTGATTTTAGGTCTGGAAGTTT
Found at i:24152871 original size:12 final size:12
Alignment explanation
Indices: 24152849--24152987 Score: 52
Period size: 12 Copynumber: 10.8 Consensus size: 12
24152839 GGTAAGCCTA
24152849 TTTTATTTTATT
1 TTTTATTTTATT
24152861 TTATT-TTTTATT
1 TT-TTATTTTATT
*
24152873 TTGTATTTTGCA-T
1 TTTTATTTT--ATT
*
24152886 TTGTATTTGTATTT
1 TTTTATTT-TA-TT
*
24152900 TTTGTATCTTATT
1 TTT-TATTTTATT
24152913 TATTTATTATTCATT
1 T-TTTATT-TT-ATT
24152928 TATTTA-TTTATT
1 T-TTTATTTTATT
* *
24152940 TATTATTACTATT
1 TTTTATT-TTATT
* *
24152953 ATTATT-TATTAATA
1 -TT-TTAT-TTTATT
24152967 TTTTATTTTATT
1 TTTTATTTTATT
*
24152979 TTTTCTTTT
1 TTTTATTTT
24152988 TCTAATTATT
Statistics
Matches: 97, Mismatches: 13, Indels: 34
0.67 0.09 0.24
Matches are distributed among these distances:
11 4 0.04
12 35 0.36
13 26 0.27
14 16 0.16
15 16 0.16
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.72
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:24152935 original size:23 final size:23
Alignment explanation
Indices: 24152908--24152962 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
24152898 TTTTTGTATC
24152908 TTATTTATTTATTATT-C-ATTTA
1 TTATTTATTTATTATTACTA-TTA
24152930 TTTATTTATTTATTATTACTATTA
1 -TTATTTATTTATTATTACTATTA
24152954 TTATTTATT
1 TTATTTATT
24152963 AATATTTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
23 25 0.83
24 4 0.13
25 1 0.03
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (23 bp):
TTATTTATTTATTATTACTATTA
Found at i:24152962 original size:4 final size:4
Alignment explanation
Indices: 24152908--24152943 Score: 56
Period size: 4 Copynumber: 9.2 Consensus size: 4
24152898 TTTTTGTATC
*
24152908 TTAT TTAT TTA- TTAT TCAT TTAT TTAT TTAT TTAT T
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT T
24152944 ATTACTATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 3 0.10
4 26 0.90
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (4 bp):
TTAT
Found at i:24152978 original size:16 final size:16
Alignment explanation
Indices: 24152908--24152974 Score: 63
Period size: 16 Copynumber: 4.4 Consensus size: 16
24152898 TTTTTGTATC
24152908 TTATTTATT--TATTA
1 TTATTTATTAATATTA
*
24152922 TTCATTTATTTAT-TTA
1 TT-ATTTATTAATATTA
*
24152938 TT-TATTATTACTATTA
1 TTAT-TTATTAATATTA
24152954 TTATTTATTAATATT-
1 TTATTTATTAATATTA
24152969 TTATTT
1 TTATTT
24152975 TATTTTTTCT
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
14 3 0.07
15 19 0.43
16 20 0.45
17 2 0.05
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
TTATTTATTAATATTA
Found at i:24153943 original size:6 final size:6
Alignment explanation
Indices: 24153903--24154051 Score: 51
Period size: 6 Copynumber: 24.7 Consensus size: 6
24153893 CGTTCCAAGG
* * *
24153903 TTTTT- TTTTTC TTTTTCA TTTAT- TTTTTA TTTTTA TTTTTA TTATTA
1 TTTTTA TTTTTA TTTTT-A TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
* * * ** *** *
24153950 TTATTA CTATTTA TTGATTA -GATTA GAATTA TTTAGTA TTTCTTA TTTTTTTA
1 TTTTTA -TTTTTA TT-TTTA TTTTTA TTTTTA TTT-TTA TTT-TTA -TTT-TTA
* *
24154003 TTTTT- TATTTTA TCTTTA TTTTTA TTTTTA -TCTTA -TTTTA TTTTT-
1 TTTTTA T-TTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
24154048 TTTT
1 TTTT
24154052 CTTTAAATAA
Statistics
Matches: 112, Mismatches: 21, Indels: 22
0.72 0.14 0.14
Matches are distributed among these distances:
5 26 0.23
6 58 0.52
7 22 0.20
8 6 0.05
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.74
Consensus pattern (6 bp):
TTTTTA
Found at i:24154013 original size:5 final size:5
Alignment explanation
Indices: 24153992--24154050 Score: 50
Period size: 5 Copynumber: 11.4 Consensus size: 5
24153982 TTAGTATTTC
* *
24153992 TTATT TT-TT TATTTT TTATT TTATCT TTATTT TTATTT TTATC TTATT
1 TTATT TTATT T-TATT TTATT TTAT-T TTA-TT TTA-TT TTATT TTATT
24154040 TTATT TT-TT TT
1 TTATT TTATT TT
24154051 TCTTTAAATA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
4 7 0.15
5 22 0.47
6 17 0.36
7 1 0.02
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:24154047 original size:17 final size:17
Alignment explanation
Indices: 24153999--24154048 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 17
24153989 TTCTTATTTT
24153999 TTTATTTTTTATTTTATC
1 TTTATTTTTT-TTTTATC
24154017 TTTATTTTTATTTTTATC
1 TTTATTTTT-TTTTTATC
24154035 -TTATTTTATTTTTT
1 TTTATTTT-TTTTTT
24154049 TTTCTTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 12 0.40
18 17 0.57
19 1 0.03
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTATTTTTTTTTTATC
Found at i:24154048 original size:18 final size:17
Alignment explanation
Indices: 24154000--24154054 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
24153990 TCTTATTTTT
*
24154000 TTATTTTTTATTTTATC
1 TTATTTTTTTTTTTATC
*
24154017 TTTATTTTTATTTTTATC
1 -TTATTTTTTTTTTTATC
*
24154035 TTATTTTATTTTTTTTTC
1 TTATTTT-TTTTTTTATC
24154053 TT
1 TT
24154055 TAAATAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 7 0.22
18 25 0.78
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (17 bp):
TTATTTTTTTTTTTATC
Found at i:24154140 original size:15 final size:16
Alignment explanation
Indices: 24154103--24154140 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
24154093 TGAAAGTATC
*
24154103 AATTTTTCTTAAAAAT
1 AATTTTTCTAAAAAAT
*
24154119 AAGTTTTCTAAAAAAT
1 AATTTTTCTAAAAAAT
24154135 -ATTTTT
1 AATTTTT
24154141 AAGAAAAAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (16 bp):
AATTTTTCTAAAAAAT
Found at i:24154140 original size:58 final size:60
Alignment explanation
Indices: 24154047--24154289 Score: 304
Period size: 58 Copynumber: 4.2 Consensus size: 60
24154037 ATTTTATTTT
* * * *
24154047 TTTTTCTT-TAAATAAAATTTCAAAAAATATATTTTT-GGGAAAAAGTTGAAAGTATCAA
1 TTTTTCTTGAAAATAAATTTTCTAAAAATATATTTTTAAGGAAAAAGTTGAAAGTATCAA
* *
24154105 TTTTTCTTAAAAATAAGTTTTCTAAAAA-ATATTTTTAA-GAAAAAGTTGAAAGTATCAA
1 TTTTTCTTGAAAATAAATTTTCTAAAAATATATTTTTAAGGAAAAAGTTGAAAGTATCAA
* * *
24154163 TTTTTCTTGAAAATAAATTTTTTAAAAA-ATATTTTT-AGGGAAAAGTTGAAAATATCAA
1 TTTTTCTTGAAAATAAATTTTCTAAAAATATATTTTTAAGGAAAAAGTTGAAAGTATCAA
* * *
24154221 -TTTTCTTTGAAAAT-AATTTTCTAAAAATGGTTTTTTTAAGGAAAAAGTTAAAAGTATCAA
1 TTTTTC-TTGAAAATAAATTTTCTAAAAAT-ATATTTTTAAGGAAAAAGTTGAAAGTATCAA
24154281 TTTTTCTTG
1 TTTTTCTTG
24154290 TACAAAAGCA
Statistics
Matches: 161, Mismatches: 16, Indels: 14
0.84 0.08 0.07
Matches are distributed among these distances:
57 18 0.11
58 95 0.59
59 21 0.13
60 22 0.14
61 5 0.03
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.42
Consensus pattern (60 bp):
TTTTTCTTGAAAATAAATTTTCTAAAAATATATTTTTAAGGAAAAAGTTGAAAGTATCAA
Found at i:24164748 original size:14 final size:13
Alignment explanation
Indices: 24164729--24164775 Score: 60
Period size: 14 Copynumber: 3.5 Consensus size: 13
24164719 AAAAAAAGAG
24164729 AAAAAATGAAATAA
1 AAAAAATGAAA-AA
24164743 AAAAAATGAAAAA
1 AAAAAATGAAAAA
24164756 AAAAAGA-GAAAAA
1 AAAAA-ATGAAAAA
24164769 AGAAAAA
1 A-AAAAA
24164776 AAAGTGAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 15 0.48
14 16 0.52
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (13 bp):
AAAAAATGAAAAA
Found at i:24164767 original size:7 final size:7
Alignment explanation
Indices: 24164721--24164776 Score: 53
Period size: 7 Copynumber: 7.9 Consensus size: 7
24164711 ATGCTTGAAA
24164721 AAAAAGAG
1 AAAAA-AG
24164729 AAAAAATG
1 AAAAAA-G
24164737 AAATAAA-
1 AAA-AAAG
*
24164744 AAAAATG
1 AAAAAAG
24164751 AAAAAA-
1 AAAAAAG
*
24164757 AAAAGAG
1 AAAAAAG
24164764 AAAAAAG
1 AAAAAAG
24164771 AAAAAA
1 AAAAAA
24164777 AAGTGAATAA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
6 7 0.17
7 21 0.52
8 9 0.22
9 3 0.08
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.05
Consensus pattern (7 bp):
AAAAAAG
Found at i:24165915 original size:86 final size:84
Alignment explanation
Indices: 24165823--24166181 Score: 293
Period size: 86 Copynumber: 4.2 Consensus size: 84
24165813 TTAAGTCGTT
*
24165823 GAGCCTCTGCTTAGAGGAGTTTTATTTATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTT
1 GAGCCTCTACTTAGAGGAG-TTTATTTATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTT
* *
24165888 ATTTATTTTTCCAAAGTTGTG
65 GTTTATTTTT-CAAAGTTGTC
* * * *
24165909 GAGCCTCTACTTAGAGGAGCTTTATTTATTTTTCCAAAGTCGTAGAGCCTCTACTTAGAGAAGCT
1 GAGCCTCTACTTAGAGGAG-TTTATTTATTTTT--AAAGTTGTTGAGCCTCTGCTTAGAGGAGCT
*
24165974 TTGTTTATATTTTCAAAGTTGTT
63 TTGTTTAT-TTTTCAAAGTTGTC
* * * * ** *
24165997 GAGCCTTTACTTAAAGGAG-CTATTTATTGTTCAAAAG-TCATGAAGCCTTTGCTTAGAGGAGCT
1 GAGCCTCTACTTAGAGGAGTTTATTTATT-TT-TAAAGTTGTTG-AGCCTCTGCTTAGAGGAGCT
* *
24166060 CTGTTTATTTTTCAAAGTCGTC
63 TTGTTTATTTTTCAAAGTTGTC
* ** * * * * *
24166082 GAGCCTCTGA-TTAGATGAG-CCATTCATTTTCAAGGTCATG-T-AGCCTCTGTTTAGAGGAACT
1 GAGCCTCT-ACTTAGAGGAGTTTATTTATTTTTAAAGT--TGTTGAGCCTCTGCTTAGAGGAGCT
** *
24166143 TTACTTATTTTT-AAAGTCGT-
63 TTGTTTATTTTTCAAAGTTGTC
*
24166163 TAGCCTCTACTTAGAGGAG
1 GAGCCTCTACTTAGAGGAG
24166182 CTTTGATCAA
Statistics
Matches: 224, Mismatches: 38, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
80 1 0.00
81 15 0.07
82 8 0.04
83 29 0.13
84 2 0.01
85 35 0.16
86 69 0.31
87 2 0.01
88 59 0.26
89 4 0.02
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (84 bp):
GAGCCTCTACTTAGAGGAGTTTATTTATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTG
TTTATTTTTCAAAGTTGTC
Found at i:24165922 original size:44 final size:43
Alignment explanation
Indices: 24165815--24166185 Score: 337
Period size: 44 Copynumber: 8.7 Consensus size: 43
24165805 CTCATTTTTT
* * *
24165815 AAGTCGTTGAGCCTCTGCTTAGAGGAGTTTTATTTATTTTT-A
1 AAGTCGTGGAGCCTCTACTTAGAGGAGCTTTATTTATTTTTCA
* * *
24165857 AAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTATTTATTTTTCCA
1 AAGTCGTGGAGCCTCTACTTAGAGGAGCTTTATTTATTTTT-CA
*
24165901 AAGTTGTGGAGCCTCTACTTAGAGGAGCTTTATTTATTTTTCCA
1 AAGTCGTGGAGCCTCTACTTAGAGGAGCTTTATTTATTTTT-CA
* * *
24165945 AAGTCGTAGAGCCTCTACTTAGAGAAGCTTTGTTTATATTTTCA
1 AAGTCGTGGAGCCTCTACTTAGAGGAGCTTTATTTAT-TTTTCA
* * * * *
24165989 AAGTTGTTGAGCCTTTACTTAAAGGAGC--TATTTATTGTTCAA
1 AAGTCGTGGAGCCTCTACTTAGAGGAGCTTTATTTATTTTTC-A
* * * * * *
24166031 AAGTCATGAAGCCTTTGCTTAGAGGAGCTCTGTTTATTTTTCA
1 AAGTCGTGGAGCCTCTACTTAGAGGAGCTTTATTTATTTTTCA
* * * *
24166074 AAGTCGTCGAGCCTCTGA-TTAGATGAGC--CATTCA-TTTTCA
1 AAGTCGTGGAGCCTCT-ACTTAGAGGAGCTTTATTTATTTTTCA
* * * ** * *
24166114 AGGTCATGTAGCCTCTGTTTAGAGGAACTTTACTTATTTTT-A
1 AAGTCGTGGAGCCTCTACTTAGAGGAGCTTTATTTATTTTTCA
*
24166156 AAGTCGT-TAGCCTCTACTTAGAGGAGCTTT
1 AAGTCGTGGAGCCTCTACTTAGAGGAGCTTT
24166186 GATCAAAATT
Statistics
Matches: 271, Mismatches: 47, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
40 26 0.10
41 27 0.10
42 77 0.28
43 26 0.10
44 111 0.41
45 4 0.01
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (43 bp):
AAGTCGTGGAGCCTCTACTTAGAGGAGCTTTATTTATTTTTCA
Found at i:24166021 original size:130 final size:128
Alignment explanation
Indices: 24165815--24166089 Score: 345
Period size: 130 Copynumber: 2.1 Consensus size: 128
24165805 CTCATTTTTT
* * * * * *
24165815 AAGTCGTTGAGCCTCTGCTTAGAGGAGTTTTATTTATTTTTAAAGTTGTTGAGCCTCTGCTTAGA
1 AAGTCGTAGAGCCTCTACTTAGAGAAGCTTTATTTATTTTTAAAGTTGTTGAGCCTCTACTTAAA
* * ** * *
24165880 GGAGCTTTATTTATTTTTCCAAAGTTGTGGAGCCTCTACTTAGAGGAGCTTTATTTATTTTTCCA
66 GGAGC-TTATTTATTGTTCAAAAGTCATGAAGCCTCTACTTAGAGGAGCTCTATTTATTTTT-CA
* *
24165945 AAGTCGTAGAGCCTCTACTTAGAGAAGCTTTGTTTATATTTTCAAAGTTGTTGAGCCTTTACTTA
1 AAGTCGTAGAGCCTCTACTTAGAGAAGCTTTATTTAT-TTTT-AAAGTTGTTGAGCCTCTACTTA
* * *
24166010 AAGGAGC-TATTTATTGTTCAAAAGTCATGAAGCCTTTGCTTAGAGGAGCTCTGTTTATTTTTCA
64 AAGGAGCTTATTTATTGTTCAAAAGTCATGAAGCCTCTACTTAGAGGAGCTCTATTTATTTTTCA
*
24166074 AAGTCGTCGAGCCTCT
1 AAGTCGTAGAGCCTCT
24166090 GATTAGATGA
Statistics
Matches: 125, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
129 17 0.14
130 78 0.62
131 4 0.03
132 26 0.21
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (128 bp):
AAGTCGTAGAGCCTCTACTTAGAGAAGCTTTATTTATTTTTAAAGTTGTTGAGCCTCTACTTAAA
GGAGCTTATTTATTGTTCAAAAGTCATGAAGCCTCTACTTAGAGGAGCTCTATTTATTTTTCA
Found at i:24166358 original size:5 final size:5
Alignment explanation
Indices: 24166348--24166481 Score: 89
Period size: 5 Copynumber: 26.0 Consensus size: 5
24166338 GGGTAAGCCC
* *
24166348 ATTTT ATTTT ATTTT ATTTT ATTTT ACTTT ATTTT ATTTT -TTATT -TTGT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATT-TT ATTTT
* * *
24166397 ATTTTGT ATTTT TTTTGT ATCTT A-TTT A-TTT A-TTT ATTATT ACTATT
1 A-TTT-T ATTTT ATTT-T ATTTT ATTTT ATTTT ATTTT ATT-TT A-TTTT
* *
24166444 ATTATTT ATTAAT ATATT ATTTT ATTTT ATTTT ATTTT
1 A-T-TTT ATT-TT ATTTT ATTTT ATTTT ATTTT ATTTT
24166482 TTCTTTTTCT
Statistics
Matches: 104, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
4 14 0.13
5 65 0.62
6 19 0.18
7 6 0.06
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (5 bp):
ATTTT
Found at i:24166448 original size:27 final size:25
Alignment explanation
Indices: 24166418--24166480 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 25
24166408 TTTTTGTATC
*
24166418 TTATTTATTTATTTATTATTACTATT
1 TTATTTATTTATATATTATT-CTATT
* *
24166444 ATTATTTATTAATATATTATTTTATT
1 -TTATTTATTTATATATTATTCTATT
24166470 TTATTTTATTT
1 TTA-TTTATTT
24166481 TTTCTTTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 3 0.10
26 10 0.32
27 18 0.58
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.70
Consensus pattern (25 bp):
TTATTTATTTATATATTATTCTATT
Found at i:24166450 original size:19 final size:18
Alignment explanation
Indices: 24166426--24166464 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
24166416 TCTTATTTAT
*
24166426 TTATTTATTATTACTATTA
1 TTATTTATTAATA-TATTA
24166445 TTATTTATTAATATATTA
1 TTATTTATTAATATATTA
24166463 TT
1 TT
24166465 TTATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
TTATTTATTAATATATTA
Found at i:24166562 original size:22 final size:22
Alignment explanation
Indices: 24166494--24166594 Score: 89
Period size: 22 Copynumber: 4.4 Consensus size: 22
24166484 CTTTTTCTCA
*
24166494 ATTATTTATCTATTAACTCATTTT
1 ATTATTTATCTATTAA-T-ATATT
* *
24166518 GTTATTTATCTGTTAATATATATATT
1 ATTATTTATC---TATTA-ATATATT
*
24166544 ATTATTTATCTATTCATATATT
1 ATTATTTATCTATTAATATATT
*
24166566 ACTATTTATCTATTAATATA-T
1 ATTATTTATCTATTAATATATT
24166587 ATT-TTTAT
1 ATTATTTAT
24166595 TTTTTATTTT
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
20 5 0.08
21 3 0.05
22 25 0.39
23 3 0.05
24 9 0.14
26 13 0.20
27 5 0.08
28 1 0.02
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTATTTATCTATTAATATATT
Found at i:24166595 original size:24 final size:24
Alignment explanation
Indices: 24166495--24166596 Score: 95
Period size: 24 Copynumber: 4.2 Consensus size: 24
24166485 TTTTTCTCAA
*
24166495 TTATTTATCTATTAACTCAT-T-TTG
1 TTATTTATCTATTAA-T-ATATATTT
*
24166519 TTATTTATCTGTTAATATATATATT
1 TTATTTATCTATTAATATATAT-TT
* *
24166544 ATTATTTATCTATT--CATATATTA
1 -TTATTTATCTATTAATATATATTT
*
24166567 CTATTTATCTATTAATATATATTT
1 TTATTTATCTATTAATATATATTT
24166591 TTATTT
1 TTATTT
24166597 TTTATTTTTT
Statistics
Matches: 63, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
22 14 0.22
23 3 0.05
24 33 0.52
25 1 0.02
26 12 0.19
ACGTcount: A:0.30, C:0.08, G:0.02, T:0.60
Consensus pattern (24 bp):
TTATTTATCTATTAATATATATTT
Found at i:24167461 original size:4 final size:4
Alignment explanation
Indices: 24167454--24167480 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
24167444 TTTTAAATTT
24167454 TTAA TTAA TTAA TTAA TTAA TTAA TTA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTA
24167481 TTATTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TTAA
Found at i:24167549 original size:5 final size:5
Alignment explanation
Indices: 24167539--24167591 Score: 54
Period size: 5 Copynumber: 10.4 Consensus size: 5
24167529 TTAGTATTTC
* * *
24167539 TTATT TTATT TTATT TT-TT TAATTT TTTTT TTATTT TTATC TTATT TTATT
1 TTATT TTATT TTATT TTATT TTA-TT TTATT TTA-TT TTATT TTATT TTATT
24167590 TT
1 TT
24167592 TTGATTTTCT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
4 3 0.08
5 28 0.72
6 8 0.21
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:24167568 original size:13 final size:13
Alignment explanation
Indices: 24167542--24167599 Score: 59
Period size: 13 Copynumber: 4.7 Consensus size: 13
24167532 GTATTTCTTA
24167542 TTTTATTTTATTT
1 TTTTATTTTATTT
*
24167555 TTTTAATTT-TTT
1 TTTTATTTTATTT
*
24167567 TTTTA-TTT-TTA
1 TTTTATTTTATTT
*
24167578 TCTTATTTTATTT
1 TTTTATTTTATTT
*
24167591 TTTGATTTT
1 TTTTATTTT
24167600 CTTTAAATAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
11 9 0.24
12 11 0.30
13 17 0.46
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.81
Consensus pattern (13 bp):
TTTTATTTTATTT
Found at i:24168605 original size:22 final size:22
Alignment explanation
Indices: 24168580--24168623 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
24168570 ACCGTGAATT
* * *
24168580 GAAATTATGCCCAGAGGTCTTA
1 GAAATCATGCCCAAAGATCTTA
24168602 GAAATCATGCCCAAAGATCTTA
1 GAAATCATGCCCAAAGATCTTA
24168624 CAGAATCGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (22 bp):
GAAATCATGCCCAAAGATCTTA
Found at i:24168743 original size:23 final size:22
Alignment explanation
Indices: 24168702--24168784 Score: 89
Period size: 22 Copynumber: 3.7 Consensus size: 22
24168692 ACTATGTCCG
*
24168702 GAAGTCTTAGA-AATCATGCCC
1 GAAGTCTTACAGAATCATGCCC
*
24168723 GAAAGTCTTACAGAATCATGCCT
1 G-AAGTCTTACAGAATCATGCCC
*
24168746 GGAGATCTTA-AGAATCATGCCC
1 GAAG-TCTTACAGAATCATGCCC
*
24168768 GGAAGTCTGACAGAATC
1 -GAAGTCTTACAGAATC
24168785 GACTGGAACA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
21 1 0.02
22 26 0.51
23 24 0.47
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.23
Consensus pattern (22 bp):
GAAGTCTTACAGAATCATGCCC
Found at i:24168856 original size:36 final size:36
Alignment explanation
Indices: 24168790--24168883 Score: 102
Period size: 36 Copynumber: 2.6 Consensus size: 36
24168780 GAATCGACTG
* * * *
24168790 GAACAACATCGTAAGTCGAGAA-TAATAAATCGATCG
1 GAACAACACCGTAAGTC-AAAATTAAAAAATCGATCA
*
24168826 GGACAACACCGTAAGTCAAAATTAAAAAATCGATCA
1 GAACAACACCGTAAGTCAAAATTAAAAAATCGATCA
*
24168862 GAATAACACCGTGAA-TCAAAAT
1 GAACAACACCGT-AAGTCAAAAT
24168884 CATGCTCGGA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
35 3 0.06
36 44 0.90
37 2 0.04
ACGTcount: A:0.48, C:0.18, G:0.16, T:0.18
Consensus pattern (36 bp):
GAACAACACCGTAAGTCAAAATTAAAAAATCGATCA
Found at i:24169100 original size:87 final size:87
Alignment explanation
Indices: 24168917--24169455 Score: 545
Period size: 87 Copynumber: 6.2 Consensus size: 87
24168907 TCATGCCTAT
* * * * *
24168917 AGGTCTTACAGAATCGACTGAGATAACACCGTAAGTC-AAAATTAAAAAAAAATCAATTGGGATA
1 AGGTCTTACAGAATCGACTGGGATAACACCGTAAGTCGAGAATT---AAAGAATCGATCGGGATA
* *
24168981 ACACCGCGAATCGAAATTATGCTCG
63 ACACCGCGAATCAAAATTATGCCCG
* * * *
24169006 AAAGTCTTACAGAATCGACTGGGATAACACCATAAGTCGAGAA-TAATGAATCAATCGGGATAAC
1 -AGGTCTTACAGAATCGACTGGGATAACACCGTAAGTCGAGAATTAAAGAATCGATCGGGATAAC
*
24169070 ACCGCAAATCAAAATTATGCCCAG
65 ACCGCGAATCAAAATTATGCCC-G
* * * ** * * *
24169094 AGGTCTTACATAATCGACTGAGATAACATCACAAATCGAGAA-TAATGAATCGATCAGGATAACA
1 AGGTCTTACAGAATCGACTGGGATAACACCGTAAGTCGAGAATTAAAGAATCGATCGGGATAACA
* **
24169158 CCGTGAATTGAAATTATGCCCG
66 CCGCGAATCAAAATTATGCCCG
* * *
24169180 AAGGTCTTACAGAATCGATTGGGACAACACCGTAAGTCGA-AATTAAAGAATCGATCAGGATAAC
1 -AGGTCTTACAGAATCGACTGGGATAACACCGTAAGTCGAGAATTAAAGAATCGATCGGGATAAC
*
24169244 ACCGCGAATCAAAATCATGCCCAG
65 ACCGCGAATCAAAATTATGCCC-G
* * * * * *
24169268 TGGTCTTACAGAATTGACTAGAATAACATCGCAAGTCGAGAA-TAATA-AATCGATCGGGATAAC
1 AGGTCTTACAGAATCGACTGGGATAACACCGTAAGTCGAGAATTAA-AGAATCGATCGGGATAAC
* * * *
24169331 ATCACAAATCGAAATTATGCCCGG
65 ACCGCGAATCAAAATTATGCCC-G
* * *
24169355 AGGTCCTACAGAATCGACTAGGATAACACCGTAAGTC-AAAATTAAAGAATCGATCGGGATAACA
1 AGGTCTTACAGAATCGACTGGGATAACACCGTAAGTCGAGAATTAAAGAATCGATCGGGATAACA
* * *
24169419 TCACGAATCAAAATTATACCCG
66 CCGCGAATCAAAATTATGCCCG
24169441 AAGGTCTTACA-AATC
1 -AGGTCTTACAGAATC
24169456 TCAAAATCTT
Statistics
Matches: 378, Mismatches: 61, Indels: 24
0.82 0.13 0.05
Matches are distributed among these distances:
86 12 0.03
87 323 0.85
88 5 0.01
90 35 0.09
91 3 0.01
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.21
Consensus pattern (87 bp):
AGGTCTTACAGAATCGACTGGGATAACACCGTAAGTCGAGAATTAAAGAATCGATCGGGATAACA
CCGCGAATCAAAATTATGCCCG
Found at i:24169218 original size:174 final size:173
Alignment explanation
Indices: 24168976--24169455 Score: 642
Period size: 174 Copynumber: 2.8 Consensus size: 173
24168966 AAATCAATTG
* * *
24168976 GGATAACACCGCGAATCGAAATTATGCTCGAAAGTCTTACAGAATCGACTGGGATAACACCATAA
1 GGATAACACCGCGAATCGAAATTATGCCCGAAGGTCTTACAGAATCGACTGGGATAACACCGTAA
* * *
24169041 GTCGAGAA-TAATGAATCAATCGGGATAACACCGCAAATCAAAATTATGCCCAGAGGTCTTACAT
66 GTCGA-AATTAAAGAATCGATCGGGATAACACCGCGAATCAAAATTATGCCCAGAGGTCTTACA-
*
24169105 AATCGACT-GAGATAACATCACAAATCGAGAATAATGAATCGATCA
129 AATCGACTAGA-ATAACATCACAAATCGAGAATAATAAATCGATCA
* * * *
24169150 GGATAACACCGTGAATTGAAATTATGCCCGAAGGTCTTACAGAATCGATTGGGACAACACCGTAA
1 GGATAACACCGCGAATCGAAATTATGCCCGAAGGTCTTACAGAATCGACTGGGATAACACCGTAA
* * *
24169215 GTCGAAATTAAAGAATCGATCAGGATAACACCGCGAATCAAAATCATGCCCAGTGGTCTTACAGA
66 GTCGAAATTAAAGAATCGATCGGGATAACACCGCGAATCAAAATTATGCCCAGAGGTCTTACA-A
* * * *
24169280 ATTGACTAGAATAACATCGCAAGTCGAGAATAATAAATCGATCG
130 ATCGACTAGAATAACATCACAAATCGAGAATAATAAATCGATCA
* * * * * *
24169324 GGATAACATCACAAATCGAAATTATGCCCGGAGGTCCTACAGAATCGACTAGGATAACACCGTAA
1 GGATAACACCGCGAATCGAAATTATGCCCGAAGGTCTTACAGAATCGACTGGGATAACACCGTAA
* * * *
24169389 GTCAAAATTAAAGAATCGATCGGGATAACATCACGAATCAAAATTATACCC-GAAGGTCTTACAA
66 GTCGAAATTAAAGAATCGATCGGGATAACACCGCGAATCAAAATTATGCCCAG-AGGTCTTACAA
24169453 ATC
130 ATC
24169456 TCAAAATCTT
Statistics
Matches: 266, Mismatches: 37, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
173 6 0.02
174 258 0.97
175 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.19, T:0.21
Consensus pattern (173 bp):
GGATAACACCGCGAATCGAAATTATGCCCGAAGGTCTTACAGAATCGACTGGGATAACACCGTAA
GTCGAAATTAAAGAATCGATCGGGATAACACCGCGAATCAAAATTATGCCCAGAGGTCTTACAAA
TCGACTAGAATAACATCACAAATCGAGAATAATAAATCGATCA
Found at i:24169407 original size:261 final size:262
Alignment explanation
Indices: 24168917--24169455 Score: 638
Period size: 261 Copynumber: 2.1 Consensus size: 262
24168907 TCATGCCTAT
* **
24168917 AGGTCTTACAGAATCGACTGAGATAACACCGTAAGTCAAAATTAAAAAAAAATCAATTGGGATAA
1 AGGTCTTACAGAATCGACTGAGACAACACCGTAAGTCAAAATT--AAAAAAATCAATCAGGATAA
* * * * * *
24168982 CACCGCGAATCGAAATTATGCTCGAAAGTCTTACAGAATCGACTGGGATAACACCATAAGTCGAG
64 CACCGCGAATCAAAATCATGCCCGAAAGTCTTACAGAATCGACTAGAATAACACCACAAGTCGAG
* * * *
24169047 AATAATGAATCAATCGGGATAACACCGCAAATCAAAATTATGCCCAGAGGTCTTACATAATCGAC
129 AATAATAAATCAATCGGGATAACACCACAAATCAAAATTATGCCCAGAGGTCCTACAGAATCGAC
* * * ** ** *
24169112 TGAGATAACATCACAAATCGAGAATAATGAATCGATCAGGATAACACCGTGAATTGAAATTATGC
194 TGAGATAACACCACAAATCGAAAATAAAGAATCGATCAGGATAACACCACGAATCAAAATTATAC
24169177 CCGA
259 CCGA
* * * * *
24169181 AGGTCTTACAGAATCGATTGGGACAACACCGTAAGTCGAAATT-AAAGAATCGATCAGGATAACA
1 AGGTCTTACAGAATCGACTGAGACAACACCGTAAGTCAAAATTAAAAAAATCAATCAGGATAACA
** * * *
24169245 CCGCGAATCAAAATCATGCCC-AGTGGTCTTACAGAATTGACTAGAATAACATCGCAAGTCGAGA
66 CCGCGAATCAAAATCATGCCCGA-AAGTCTTACAGAATCGACTAGAATAACACCACAAGTCGAGA
* * * *
24169309 ATAATAAATCGATCGGGATAACATCACAAATCGAAATTATGCCCGGAGGTCCTACAGAATCGACT
130 ATAATAAATCAATCGGGATAACACCACAAATCAAAATTATGCCCAGAGGTCCTACAGAATCGACT
** * * *
24169374 -AGGATAACACCGTAAGTC-AAAATTAAAGAATCGATCGGGATAACATCACGAATCAAAATTATA
195 GA-GATAACACCACAAATCGAAAA-TAAAGAATCGATCAGGATAACACCACGAATCAAAATTATA
24169437 CCCGA
258 CCCGA
24169442 AGGTCTTACA-AATC
1 AGGTCTTACAGAATC
24169456 TCAAAATCTT
Statistics
Matches: 232, Mismatches: 40, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
260 9 0.04
261 184 0.79
264 39 0.17
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.21
Consensus pattern (262 bp):
AGGTCTTACAGAATCGACTGAGACAACACCGTAAGTCAAAATTAAAAAAATCAATCAGGATAACA
CCGCGAATCAAAATCATGCCCGAAAGTCTTACAGAATCGACTAGAATAACACCACAAGTCGAGAA
TAATAAATCAATCGGGATAACACCACAAATCAAAATTATGCCCAGAGGTCCTACAGAATCGACTG
AGATAACACCACAAATCGAAAATAAAGAATCGATCAGGATAACACCACGAATCAAAATTATACCC
GA
Found at i:24169624 original size:41 final size:42
Alignment explanation
Indices: 24169579--24169671 Score: 122
Period size: 41 Copynumber: 2.3 Consensus size: 42
24169569 ATCTGAAGAA
* *
24169579 GGTTCCTTC-TAAATAGAA-GCTTTGAAATCTTAATTGAAATT
1 GGTTCCTTCTTAAATA-AAGGCTTTGAAATCTTAATTAAAAAT
*
24169620 GGTTCC-TCTTAAATAAAGGCTTTGAAATCTTGATTAAAAAT
1 GGTTCCTTCTTAAATAAAGGCTTTGAAATCTTAATTAAAAAT
24169661 GGTTCC-TCTTA
1 GGTTCCTTCTTA
24169672 TACAAGACTT
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
40 4 0.09
41 43 0.91
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (42 bp):
GGTTCCTTCTTAAATAAAGGCTTTGAAATCTTAATTAAAAAT
Found at i:24169785 original size:18 final size:18
Alignment explanation
Indices: 24169762--24169796 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
24169752 TCTCATCAAA
*
24169762 TGATGCTAATGGAAATGT
1 TGATGCAAATGGAAATGT
*
24169780 TGATGCAAATGTAAATG
1 TGATGCAAATGGAAATG
24169797 CCAATGCAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (18 bp):
TGATGCAAATGGAAATGT
Found at i:24170051 original size:41 final size:41
Alignment explanation
Indices: 24169980--24170069 Score: 101
Period size: 41 Copynumber: 2.2 Consensus size: 41
24169970 CAAATGTGAA
* * * * **
24169980 TGATGCAAATGCAAATGTCTTTTTCGTGATGCAGATGCAAG
1 TGATGCAAATGCAAATATCCTTTTCATGATGCACAAACAAG
*
24170021 TGATGCAAATGTAAATATCCCTTTT-ATGATGCACAAACAAG
1 TGATGCAAATGCAAATAT-CCTTTTCATGATGCACAAACAAG
24170062 TGATGCAA
1 TGATGCAA
24170070 CTATGAATGT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
41 36 0.88
42 5 0.12
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (41 bp):
TGATGCAAATGCAAATATCCTTTTCATGATGCACAAACAAG
Found at i:24171048 original size:1 final size:1
Alignment explanation
Indices: 24171033--24171077 Score: 54
Period size: 1 Copynumber: 45.0 Consensus size: 1
24171023 AAGGTACATA
* * * *
24171033 TTTTTTGTTTATTTTTGTTTTTTTTTTTTTGTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
24171078 GAATTCTAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.02, C:0.00, G:0.07, T:0.91
Consensus pattern (1 bp):
T
Found at i:24171049 original size:10 final size:10
Alignment explanation
Indices: 24171033--24171078 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
24171023 AAGGTACATA
24171033 TTTTTTGTTT
1 TTTTTTGTTT
*
24171043 ATTTTTGTTT
1 TTTTTTGTTT
24171053 TTTTTT-TTT
1 TTTTTTGTTT
24171062 TGTTTTT-TTT
1 T-TTTTTGTTT
24171072 TTTTTTG
1 TTTTTTG
24171079 AATTCTAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 9 0.28
10 23 0.72
ACGTcount: A:0.02, C:0.00, G:0.09, T:0.89
Consensus pattern (10 bp):
TTTTTTGTTT
Found at i:24171062 original size:24 final size:22
Alignment explanation
Indices: 24171033--24171077 Score: 72
Period size: 24 Copynumber: 2.0 Consensus size: 22
24171023 AAGGTACATA
24171033 TTTTTTGTTTATTTTTGTTTTTTT
1 TTTTTTGTTT-TTTTT-TTTTTTT
24171057 TTTTTTGTTTTTTTTTTTTTT
1 TTTTTTGTTTTTTTTTTTTTT
24171078 GAATTCTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.29
23 5 0.24
24 10 0.48
ACGTcount: A:0.02, C:0.00, G:0.07, T:0.91
Consensus pattern (22 bp):
TTTTTTGTTTTTTTTTTTTTTT
Found at i:24171067 original size:13 final size:14
Alignment explanation
Indices: 24171034--24171076 Score: 68
Period size: 14 Copynumber: 2.9 Consensus size: 14
24171024 AGGTACATAT
24171034 TTTTTGTTTATTTTTG
1 TTTTT-TTT-TTTTTG
24171050 TTTTTTTTTTTTTG
1 TTTTTTTTTTTTTG
24171064 TTTTTTTTTTTTT
1 TTTTTTTTTTTTT
24171077 TGAATTCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 19 0.70
15 3 0.11
16 5 0.19
ACGTcount: A:0.02, C:0.00, G:0.07, T:0.91
Consensus pattern (14 bp):
TTTTTTTTTTTTTG
Found at i:24171496 original size:9 final size:9
Alignment explanation
Indices: 24171484--24171518 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
24171474 GTTTTATTTA
24171484 TTTTTTTCT
1 TTTTTTTCT
24171493 TTTTTTTCTT
1 TTTTTTTC-T
24171503 ATTTTTTTCT
1 -TTTTTTTCT
24171513 TTTTTT
1 TTTTTT
24171519 GTTTATTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 14 0.58
10 2 0.08
11 8 0.33
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:24171507 original size:19 final size:20
Alignment explanation
Indices: 24171475--24171540 Score: 91
Period size: 20 Copynumber: 3.4 Consensus size: 20
24171465 AAGATGTCTG
*
24171475 TTTTATTTATTTTTTTCTTT
1 TTTTGTTTATTTTTTTCTTT
24171495 TTTT-TCTTATTTTTTTCTTT
1 TTTTGT-TTATTTTTTTCTTT
*
24171515 TTTTGTTTATTTTTTT-TAT
1 TTTTGTTTATTTTTTTCTTT
24171534 TTTTGTT
1 TTTTGTT
24171541 GTGATGCTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
19 10 0.23
20 32 0.74
21 1 0.02
ACGTcount: A:0.08, C:0.05, G:0.03, T:0.85
Consensus pattern (20 bp):
TTTTGTTTATTTTTTTCTTT
Found at i:24171537 original size:9 final size:9
Alignment explanation
Indices: 24171475--24171537 Score: 63
Period size: 10 Copynumber: 6.6 Consensus size: 9
24171465 AAGATGTCTG
*
24171475 TTTTATTTA
1 TTTTTTTTA
*
24171484 TTTTTTTCTT
1 TTTTTTT-TA
24171494 TTTTTTCTTA
1 TTTTTT-TTA
*
24171504 TTTTTTTCTT
1 TTTTTTT-TA
24171514 TTTTTGTTTA
1 TTTTT-TTTA
24171524 TTTTTTTTA
1 TTTTTTTTA
24171533 TTTTT
1 TTTTT
24171538 GTTGTGATGC
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
9 16 0.36
10 26 0.58
11 3 0.07
ACGTcount: A:0.08, C:0.05, G:0.02, T:0.86
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:24172119 original size:12 final size:11
Alignment explanation
Indices: 24172102--24172130 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
24172092 AAAAGAAAAC
24172102 TTTTTTTCTTT
1 TTTTTTTCTTT
24172113 TTTTTTTCTTT
1 TTTTTTTCTTT
24172124 TTTTTTT
1 TTTTTTT
24172131 AAAGTTACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:24173854 original size:28 final size:30
Alignment explanation
Indices: 24173818--24173876 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
24173808 CCCTATGTGT
**
24173818 TTCAATAAC-TCT-TTTTTCTTTTGTCAAC
1 TTCAATAACATCTATTTTAATTTTGTCAAC
*
24173846 TTCACTAACATCTATTTTAATTTTGTCAAC
1 TTCAATAACATCTATTTTAATTTTGTCAAC
24173876 T
1 T
24173877 GTCTGTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 8 0.31
29 3 0.12
30 15 0.58
ACGTcount: A:0.25, C:0.20, G:0.03, T:0.51
Consensus pattern (30 bp):
TTCAATAACATCTATTTTAATTTTGTCAAC
Found at i:24178321 original size:14 final size:13
Alignment explanation
Indices: 24178304--24178358 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 13
24178294 AAGGGTTTTA
24178304 ATTTTAGGGATTTG
1 ATTTTAGGG-TTTG
24178318 ATTTTAGGGTCTTG
1 ATTTTAGGGT-TTG
*
24178332 AGGTTTAGGGTTTGG
1 A-TTTTAGGGTTT-G
24178347 ATTTTAGGGTTT
1 ATTTTAGGGTTT
24178359 AAAGAAAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
13 1 0.03
14 25 0.69
15 10 0.28
ACGTcount: A:0.16, C:0.02, G:0.33, T:0.49
Consensus pattern (13 bp):
ATTTTAGGGTTTG
Found at i:24189833 original size:40 final size:41
Alignment explanation
Indices: 24189778--24189859 Score: 157
Period size: 40 Copynumber: 2.0 Consensus size: 41
24189768 CTATTACATG
24189778 TTTCTATTTCTTTGTTTATAAATAAGAC-TACTAGTTTATT
1 TTTCTATTTCTTTGTTTATAAATAAGACTTACTAGTTTATT
24189818 TTTCTATTTCTTTGTTTATAAATAAGACTTACTAGTTTATT
1 TTTCTATTTCTTTGTTTATAAATAAGACTTACTAGTTTATT
24189859 T
1 T
24189860 AAATATATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 28 0.68
41 13 0.32
ACGTcount: A:0.27, C:0.10, G:0.07, T:0.56
Consensus pattern (41 bp):
TTTCTATTTCTTTGTTTATAAATAAGACTTACTAGTTTATT
Found at i:24189879 original size:41 final size:40
Alignment explanation
Indices: 24189794--24189880 Score: 93
Period size: 41 Copynumber: 2.1 Consensus size: 40
24189784 TTTCTTTGTT
*** * * * * *
24189794 TATAAATAAGACTACTAGTTTATTTTTCTATTTCTTTGTT
1 TATAAATAAGACTACTAGTTTATTTAAATATATATATATA
24189834 TATAAATAAGACTTACTAGTTTATTTAAATATATATATATA
1 TATAAATAAGAC-TACTAGTTTATTTAAATATATATATATA
24189875 TATAAA
1 TATAAA
24189881 CAAATAAATG
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 12 0.32
41 26 0.68
ACGTcount: A:0.39, C:0.07, G:0.06, T:0.48
Consensus pattern (40 bp):
TATAAATAAGACTACTAGTTTATTTAAATATATATATATA
Found at i:24190038 original size:21 final size:21
Alignment explanation
Indices: 24189980--24190044 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
24189970 TAATTTTGAA
*
24189980 TTTTATAATTTTTTATATAAT
1 TTTTATAATTTTGTATATAAT
** *
24190001 TCGGTA-AA-TTCGTATATAAT
1 T-TTTATAATTTTGTATATAAT
24190021 TTTTATAATTTTGTATATAAT
1 TTTTATAATTTTGTATATAAT
24190042 TTT
1 TTT
24190045 AACTTTGATA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
19 2 0.06
20 13 0.38
21 17 0.50
22 2 0.06
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.58
Consensus pattern (21 bp):
TTTTATAATTTTGTATATAAT
Found at i:24190045 original size:20 final size:20
Alignment explanation
Indices: 24189978--24190045 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
24189968 TATAATTTTG
*
24189978 AATTTTATAATTTTTTATAT
1 AATTTTATAATTTTGTATAT
*** * *
24189998 AATTCGGTAAATTCGTATAT
1 AATTTTATAATTTTGTATAT
24190018 AATTTTTATAATTTTGTATAT
1 AA-TTTTATAATTTTGTATAT
24190039 AATTTTA
1 AATTTTA
24190046 ACTTTGATAA
Statistics
Matches: 36, Mismatches: 11, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
20 21 0.58
21 15 0.42
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (20 bp):
AATTTTATAATTTTGTATAT
Found at i:24190174 original size:21 final size:21
Alignment explanation
Indices: 24190150--24190214 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 21
24190140 TAGATAAAAG
24190150 TTTGGTAATCTATGATATGAT
1 TTTGGTAATCTATGATATGAT
* * **
24190171 TTT-GTAAACTTTGGGATGAT
1 TTTGGTAATCTATGATATGAT
* * *
24190191 TTTGATAATTTATGATATAAT
1 TTTGGTAATCTATGATATGAT
24190212 TTT
1 TTT
24190215 AATAATTATT
Statistics
Matches: 32, Mismatches: 11, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.51
Consensus pattern (21 bp):
TTTGGTAATCTATGATATGAT
Found at i:24190219 original size:21 final size:22
Alignment explanation
Indices: 24190189--24190241 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
24190179 CTTTGGGATG
* *
24190189 ATTTTGATAATTTA-TGATATA
1 ATTTTAATAATTTATTGATACA
*
24190210 ATTTTAATAA-TTATTTATACA
1 ATTTTAATAATTTATTGATACA
24190231 ATTTTAATAAT
1 ATTTTAATAAT
24190242 GGTTAACAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.11
21 24 0.89
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (22 bp):
ATTTTAATAATTTATTGATACA
Found at i:24190358 original size:20 final size:20
Alignment explanation
Indices: 24190330--24190367 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
24190320 TTGATAATTA
24190330 TTGAAACAAATTTGGTAATC
1 TTGAAACAAATTTGGTAATC
* *
24190350 TTGATACAATTTTGGTAA
1 TTGAAACAAATTTGGTAA
24190368 GTTTTAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (20 bp):
TTGAAACAAATTTGGTAATC
Found at i:24190383 original size:21 final size:20
Alignment explanation
Indices: 24190335--24190383 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
24190325 AATTATTGAA
* *
24190335 ACAAATTTGGTAATCTTGAT
1 ACAATTTTGGTAATCTTAAT
*
24190355 ACAATTTTGGTAAGTTTTAAT
1 ACAATTTTGGTAA-TCTTAAT
*
24190376 ATAATTTT
1 ACAATTTT
24190384 AATTTTAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (20 bp):
ACAATTTTGGTAATCTTAAT
Found at i:24190528 original size:17 final size:17
Alignment explanation
Indices: 24190502--24190535 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
24190492 TTGATTTTAA
24190502 ATATCATTGATATAATT
1 ATATCATTGATATAATT
*
24190519 ATATCTTTGATATAATT
1 ATATCATTGATATAATT
24190536 TAGTAATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (17 bp):
ATATCATTGATATAATT
Found at i:24190658 original size:11 final size:11
Alignment explanation
Indices: 24190642--24190712 Score: 56
Period size: 11 Copynumber: 6.5 Consensus size: 11
24190632 AAACCGTTAA
24190642 TTGATATAATT
1 TTGATATAATT
*
24190653 TTGATAAAATT
1 TTGATATAATT
* *
24190664 TTGGTA-ATATG
1 TTGATATA-ATT
24190675 TTGATATAATT
1 TTGATATAATT
* *
24190686 TTGACA-ACTT
1 TTGATATAATT
* *
24190696 TTAATATCATT
1 TTGATATAATT
24190707 TTGATA
1 TTGATA
24190713 ACTTATAATT
Statistics
Matches: 45, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
10 8 0.18
11 36 0.80
12 1 0.02
ACGTcount: A:0.35, C:0.04, G:0.11, T:0.49
Consensus pattern (11 bp):
TTGATATAATT
Found at i:24190780 original size:21 final size:20
Alignment explanation
Indices: 24190647--24191770 Score: 193
Period size: 21 Copynumber: 53.0 Consensus size: 20
24190637 GTTAATTGAT
* *
24190647 ATAATTTTGATAAAATTTTG
1 ATAACTTTGATATAATTTTG
* *
24190667 GTAATATGTTGATATAATTTTG
1 ATAA-CT-TTGATATAATTTTG
* * *
24190689 ACAACTTTTAATATCATTTTG
1 ATAAC-TTTGATATAATTTTG
*
24190710 ATAAC--T--TATAATTTGG
1 ATAACTTTGATATAATTTTG
* *
24190726 ATAATCATTGATTTAATTTTG
1 ATAA-CTTTGATATAATTTTG
*
24190747 GTAACCTTTGATATAATTTTG
1 ATAA-CTTTGATATAATTTTG
*
24190768 ATAACTTTGGATA-AATTTTT
1 ATAACTTT-GATATAATTTTG
* *
24190788 ATAACCTTTGACACAATTTT-
1 ATAA-CTTTGATATAATTTTG
* *
24190808 AGTAATTTTTCATATAATTTTG
1 A-TAA-CTTTGATATAATTTTG
** *
24190830 ATTTTAATAACTTTTGATAT-GGTATG
1 ------ATAAC-TTTGATATAATTTTG
* * * * *
24190856 GTAATTTTTATTAGAAATTTG
1 ATAACTTTGA-TATAATTTTG
* *
24190877 ATAACCTTTGATAAAAGTTTG
1 ATAA-CTTTGATATAATTTTG
* * *
24190898 GTAACTTTTAATACAATTTTG
1 ATAAC-TTTGATATAATTTTG
* *
24190919 ATAGCATTTGATATTATTTT-
1 ATAAC-TTTGATATAATTTTG
*
24190939 AGTAATTTATGATATAATTTT-
1 A-TAACTT-TGATATAATTTTG
*
24190960 AGTAACATTTGATA-AATTTTT
1 A-TAAC-TTTGATATAATTTTG
* *
24190981 AGTAAATTTGATATAATTTAG
1 A-TAACTTTGATATAATTTTG
* * * *
24191002 GTAATCTTTAATACAATTATG
1 ATAA-CTTTGATATAATTTTG
* * * *
24191023 ATCACTTATGATATGAGTTTA
1 ATAACTT-TGATATAATTTTG
* *
24191044 ATAA-TTATTAGTACAATTTTG
1 ATAACTT-TGA-TATAATTTTG
* * * *
24191065 GTGAACATAGATATAGTTTTG
1 AT-AACTTTGATATAATTTTG
* ** *
24191086 GTAACTTTTTTTATAATTTTAATTTA
1 ATAAC-TTTGATATAA---T--TTTG
*
24191112 ATAATCTTTAATATAA-TTTG
1 ATAA-CTTTGATATAATTTTG
* ** * *
24191132 GTAACCTTAAACAAAATTTTG
1 ATAA-CTTTGATATAATTTTG
24191153 ATAACCTTT-AGTATAATTTTG
1 ATAA-CTTTGA-TATAATTTTG
* * * * *
24191174 GTAATTTATAAAATATATTTTT
1 ATAACTT-TGATATA-ATTTTG
24191196 ATAACTTTTGATATAATTTTG
1 ATAAC-TTTGATATAATTTTG
* * * *
24191217 ATTTTGAATGTCTTTAAGA-AAATCTG
1 A---T-AA---CTTTGATATAATTTTG
* * *
24191243 ATAATTTTTTATAAAATTTT-
1 ATAA-CTTTGATATAATTTTG
*
24191263 AGTAATCTTTGATACAATTTTG
1 A-TAA-CTTTGATATAATTTTG
* *
24191285 ATGACTTTTGATATTATTTTG
1 ATAAC-TTTGATATAATTTTG
* *
24191306 GTAATTTATGATATAATTTTG
1 ATAACTT-TGATATAATTTTG
* * *
24191327 GTAAGCACTT-ATACAATTTTG
1 ATAA-C-TTTGATATAATTTTG
* *
24191348 ATAATTTATCTATATAATTTTG
1 ATAACTT-T-GATATAATTTTG
* * *
24191370 GTAAGTTATAATAT-ATTTTG
1 ATAACTT-TGATATAATTTTG
* * *
24191390 ATAATCATTGATACAATTTTA
1 ATAA-CTTTGATATAATTTTG
* *
24191411 ATAACCTTTGATTTAATTTTT
1 ATAA-CTTTGATATAATTTTG
*
24191432 ATAAGCTTTAATATAATTTTGATGTTG
1 ATAA-CTTTGATATAA---T--T-TTG
* *
24191459 ATAACTTTTGATTTAGTTTTG
1 ATAAC-TTTGATATAATTTTG
* * *
24191480 -TAACTTTTGTTAGAAGTTTG
1 ATAAC-TTTGATATAATTTTG
* * * *
24191500 ATAACCTTTGGTACAAGTATG
1 ATAA-CTTTGATATAATTTTG
* * *
24191521 GTAAATTTTGATACAATTTTG
1 AT-AACTTTGATATAATTTTG
* *
24191542 GTAACATTTGATATTATTTTG
1 ATAAC-TTTGATATAATTTTG
* * *
24191563 ATAGCTTATAATAAAATTTTG
1 ATAACTT-TGATATAATTTTG
* * *
24191584 GTAACTATTAATACAATTTTG
1 ATAACT-TTGATATAATTTTG
* * *
24191605 ATAACCTTTAACA-ATATTTTA
1 ATAA-CTTTGATATA-ATTTTG
*
24191626 ATAACCTTGATATAATTTTG
1 ATAACTTTGATATAATTTTG
* * *
24191646 TTAACATTTAATATAATTGTG
1 ATAAC-TTTGATATAATTTTG
* *
24191667 ATAACTTATGATAT-GTGTTTC
1 ATAACTT-TGATATAAT-TTTG
24191688 ATAACTATTGATATAATTTTG
1 ATAACT-TTGATATAATTTTG
** *
24191709 GCAACCTTGAATATAATTTTTG
1 ATAACTTTG-ATATAA-TTTTG
* *
24191731 -TAAGTTTTGATATAGTTTTG
1 ATAA-CTTTGATATAATTTTG
* *
24191751 TTAACATTTGGTATAATTTT
1 ATAAC-TTTGATATAATTTT
24191771 AATTGGTAAA
Statistics
Matches: 800, Mismatches: 212, Indels: 183
0.67 0.18 0.15
Matches are distributed among these distances:
16 12 0.01
17 1 0.00
18 1 0.00
19 6 0.01
20 143 0.18
21 493 0.62
22 77 0.10
23 5 0.01
24 4 0.00
25 2 0.00
26 25 0.03
27 29 0.04
28 2 0.00
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.48
Consensus pattern (20 bp):
ATAACTTTGATATAATTTTG
Found at i:24190807 original size:20 final size:19
Alignment explanation
Indices: 24190748--24190808 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 19
24190738 TTAATTTTGG
24190748 TAACCTTTGATATAATTTTGA
1 TAACCTTTGATA-AATTTT-A
24190769 TAA-CTTTGGATAAATTTTTA
1 TAACCTTT-GATAAA-TTTTA
*
24190789 TAACCTTTGACACAATTTTA
1 TAACCTTTGATA-AATTTTA
24190809 GTAATTTTTC
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
20 18 0.51
21 17 0.49
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.46
Consensus pattern (19 bp):
TAACCTTTGATAAATTTTA
Found at i:24191361 original size:22 final size:20
Alignment explanation
Indices: 24191335--24191394 Score: 57
Period size: 22 Copynumber: 2.9 Consensus size: 20
24191325 TGGTAAGCAC
24191335 TTATACAATTTTGATAATTTA
1 TTATA-AATTTTGATAATTTA
* *
24191356 TCTATATAATTTTGGTAAGTTA
1 T-TATA-AATTTTGATAATTTA
* *
24191378 TAATATATTTTGATAAT
1 TTATAAATTTTGATAAT
24191395 CATTGATACA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 9 0.29
21 4 0.13
22 18 0.58
ACGTcount: A:0.37, C:0.03, G:0.08, T:0.52
Consensus pattern (20 bp):
TTATAAATTTTGATAATTTA
Found at i:24193126 original size:21 final size:21
Alignment explanation
Indices: 24193096--24193136 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24193086 TCATTCATCT
*
24193096 ATTTTGGTAATATTT-GATAAA
1 ATTTTAGTAAT-TTTGGATAAA
24193117 ATTTTAGTAATTTTGGATAA
1 ATTTTAGTAATTTTGGATAA
24193137 TTTTTTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.49
Consensus pattern (21 bp):
ATTTTAGTAATTTTGGATAAA
Found at i:24193183 original size:21 final size:21
Alignment explanation
Indices: 24193108--24193183 Score: 52
Period size: 21 Copynumber: 3.7 Consensus size: 21
24193098 TTTGGTAATA
* *
24193108 TTTGATAAAATTTTAGTAA-T
1 TTTGATATAATTTTTGTAACT
* *
24193128 TTTGGATA-ATTTTTTATAACT
1 TTT-GATATAATTTTTGTAACT
*
24193149 TGTT-ATACT-TTTTTTGTAACT
1 T-TTGATA-TAATTTTTGTAACT
24193170 TTTGATATAATTTT
1 TTTGATATAATTTT
24193184 GCTATATGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 13
0.71 0.08 0.21
Matches are distributed among these distances:
20 17 0.39
21 25 0.57
22 2 0.05
ACGTcount: A:0.29, C:0.04, G:0.09, T:0.58
Consensus pattern (21 bp):
TTTGATATAATTTTTGTAACT
Found at i:24207421 original size:2 final size:2
Alignment explanation
Indices: 24207414--24207440 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
24207404 GTCCTATACA
24207414 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
24207441 CACACTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:24211895 original size:25 final size:25
Alignment explanation
Indices: 24211864--24211914 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
24211854 ACTCAAAGAT
*
24211864 TGAATTTAATCCATTCAATTGGCAG
1 TGAATTTAATCCACTCAATTGGCAG
24211889 TGAATTTAATCCACTCAATTGGCAG
1 TGAATTTAATCCACTCAATTGGCAG
24211914 T
1 T
24211915 ACTAGTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (25 bp):
TGAATTTAATCCACTCAATTGGCAG
Found at i:24212003 original size:14 final size:14
Alignment explanation
Indices: 24211984--24212020 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
24211974 CTCAATTTCT
24211984 TTTTTA-TTTATTTA
1 TTTTTATTTTA-TTA
24211998 TTTTTATTTTATTA
1 TTTTTATTTTATTA
24212012 TTTTT-TTTT
1 TTTTTATTTT
24212021 TTTTCATATC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.18
14 14 0.64
15 4 0.18
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTATTTTATTA
Found at i:24212022 original size:15 final size:15
Alignment explanation
Indices: 24211978--24212021 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
24211968 AGTTTCCTCA
* *
24211978 ATTTCTTTTTTATTT
1 ATTTATTTTTTTTTT
*
24211993 ATTTATTTTTATTTT
1 ATTTATTTTTTTTTT
24212008 A-TTATTTTTTTTTT
1 ATTTATTTTTTTTTT
24212022 TTTCATATCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 12 0.48
15 13 0.52
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (15 bp):
ATTTATTTTTTTTTT
Found at i:24212023 original size:22 final size:21
Alignment explanation
Indices: 24211983--24212024 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
24211973 CCTCAATTTC
24211983 TTTTTTATTTATTTATTTTTA
1 TTTTTTATTTATTTATTTTTA
* *
24212004 TTTTATTATTTTTTTTTTTTT
1 TTTT-TTATTTATTTATTTTT
24212025 CATATCAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (21 bp):
TTTTTTATTTATTTATTTTTA
Found at i:24216097 original size:42 final size:42
Alignment explanation
Indices: 24216015--24216102 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 42
24216005 TCTCCTATAT
* *
24216015 TTCATGCCATTTGTCTTCCATCTTTTCTCTTTTCTGTAATAC
1 TTCATGCCATTTGTCTTCCATCCTTTCTCTTTTCTCTAATAC
* * * *
24216057 TTCATGCCATTTG-CTTTTCATCCTTTCTTTTTTTTCTAATAT
1 TTCATGCCATTTGTC-TTCCATCCTTTCTCTTTTCTCTAATAC
24216099 TTCA
1 TTCA
24216103 CATCATCTGC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
41 1 0.03
42 38 0.97
ACGTcount: A:0.15, C:0.24, G:0.06, T:0.56
Consensus pattern (42 bp):
TTCATGCCATTTGTCTTCCATCCTTTCTCTTTTCTCTAATAC
Found at i:24218150 original size:2 final size:2
Alignment explanation
Indices: 24218145--24218169 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
24218135 TATATAAGTG
24218145 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
24218170 TCTAGTTTGA
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:24230799 original size:11 final size:11
Alignment explanation
Indices: 24230783--24230824 Score: 68
Period size: 11 Copynumber: 3.8 Consensus size: 11
24230773 TCTCATAAGA
24230783 GAGATTTGTTT
1 GAGATTTGTTT
24230794 GAGATTTG-TT
1 GAGATTTGTTT
24230804 GAAGATTTGTTT
1 G-AGATTTGTTT
24230816 GAGATTTGT
1 GAGATTTGT
24230825 CAGATATTGC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.10
11 23 0.79
12 3 0.10
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:24230918 original size:52 final size:52
Alignment explanation
Indices: 24230850--24231003 Score: 179
Period size: 52 Copynumber: 3.0 Consensus size: 52
24230840 GAACAAGAAG
* *
24230850 ACTTGCAAAAGAAGAATTCTAAGA-GAAAGAGGATTCTTAATA-GTAAAGTTTA
1 ACTTACAAGAGAAGAATTCTAAGAGGAAAGA-GATTCTTAATAGGT-AAGTTTA
* *
24230902 ACTTACAAGAGAAGAATTCTAAAAGGAAATGA-ATTCTTAATAGGTAAGTTTG
1 ACTTACAAGAGAAGAATTCTAAGAGGAAA-GAGATTCTTAATAGGTAAGTTTA
* * * * *
24230954 ACTTACAGGAGAAGAATTTTAAGATGAGAGAGATTCTTAATGGGTAAGTT
1 ACTTACAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGTAAGTT
24231004 ATATGGTTAT
Statistics
Matches: 88, Mismatches: 10, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
51 2 0.02
52 78 0.89
53 6 0.07
54 2 0.02
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (52 bp):
ACTTACAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGTAAGTTTA
Found at i:24231661 original size:25 final size:25
Alignment explanation
Indices: 24231556--24231663 Score: 80
Period size: 25 Copynumber: 4.4 Consensus size: 25
24231546 GTTCAAACTG
24231556 TGAGAAGAGTTGAAGATTCAAGATA
1 TGAGAAGAGTTGAAGATTCAAGATA
* ** *
24231581 TGAAAAGAGTCAAAGGTTC--GATA
1 TGAGAAGAGTTGAAGATTCAAGATA
* * * *
24231604 CGTGA-AAAAGCTGAAGGTTCGAA-ATG
1 --TGAGAAGAGTTGAAGATTC-AAGATA
24231630 TGAGAAGAGTTGAAGATTCAAGATA
1 TGAGAAGAGTTGAAGATTCAAGATA
*
24231655 TGGGAAGAG
1 TGAGAAGAG
24231664 CTTGGTTTGA
Statistics
Matches: 62, Mismatches: 14, Indels: 14
0.69 0.16 0.16
Matches are distributed among these distances:
23 4 0.06
24 16 0.26
25 40 0.65
26 2 0.03
ACGTcount: A:0.42, C:0.06, G:0.31, T:0.21
Consensus pattern (25 bp):
TGAGAAGAGTTGAAGATTCAAGATA
Found at i:24232036 original size:52 final size:51
Alignment explanation
Indices: 24231948--24232103 Score: 204
Period size: 52 Copynumber: 3.0 Consensus size: 51
24231938 GAACAAGAAG
* * *
24231948 ACTTGCAAAAGAAGAATTCTAAGAGAAAGAAGATTCTTAATAGGTAAGTTTA
1 ACTTACAAGAGAAGAATTCTAAGAGAAA-AAAATTCTTAATAGGTAAGTTTA
* *
24232000 ACTTACAAGAGAAGAATTCTAAAAGGAAAAAAATTCTTAATAGGTAAGTTTG
1 ACTTACAAGAGAAGAATTCTAAGA-GAAAAAAATTCTTAATAGGTAAGTTTA
* * * *
24232052 ACTTACAGGAGAAGAATTCTAAGATAAGAGAAATTCTTAATGGGTAAGTTTA
1 ACTTACAAGAGAAGAATTCTAAGAGAA-AAAAATTCTTAATAGGTAAGTTTA
24232104 TATGATTATA
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.93
53 4 0.04
ACGTcount: A:0.46, C:0.08, G:0.19, T:0.28
Consensus pattern (51 bp):
ACTTACAAGAGAAGAATTCTAAGAGAAAAAAATTCTTAATAGGTAAGTTTA
Found at i:24234543 original size:28 final size:26
Alignment explanation
Indices: 24234498--24234560 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 26
24234488 AATAAGATTT
* *
24234498 AATTTAATTTTTTTAAATATT-ATATA
1 AATTTAAATTTTTAAAAT-TTGATATA
24234524 ATATTATAAATTTTTAAAATTTGATATA
1 A-ATT-TAAATTTTTAAAATTTGATATA
24234552 AATTTAAAT
1 AATTTAAAT
24234561 GAAATTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
26 6 0.19
27 8 0.25
28 18 0.56
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
AATTTAAATTTTTAAAATTTGATATA
Found at i:24235415 original size:19 final size:19
Alignment explanation
Indices: 24235391--24235427 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
24235381 AGTAACTCTT
*
24235391 ATTTATGATATTTAAATTA
1 ATTTATGATAATTAAATTA
24235410 ATTTATGATAATTAAATT
1 ATTTATGATAATTAAATT
24235428 TTTTGTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
ATTTATGATAATTAAATTA
Found at i:24242119 original size:31 final size:31
Alignment explanation
Indices: 24242054--24242119 Score: 73
Period size: 31 Copynumber: 2.1 Consensus size: 31
24242044 TCTATAAAAA
**
24242054 TAATAAATAAATTTGGTATAAAATTTTGGAAC
1 TAATAAATAAA-TTGGTATAAAATAATGGAAC
24242086 TAATAGAATAAA-TGGTATAAAA-AATGGACAC
1 TAATA-AATAAATTGGTATAAAATAATGGA-AC
24242117 TAA
1 TAA
24242120 ATGAGTTCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
30 4 0.13
31 15 0.50
32 5 0.17
33 6 0.20
ACGTcount: A:0.52, C:0.05, G:0.14, T:0.30
Consensus pattern (31 bp):
TAATAAATAAATTGGTATAAAATAATGGAAC
Found at i:24242665 original size:12 final size:12
Alignment explanation
Indices: 24242648--24242678 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
24242638 AATCATCATC
24242648 AATTTTGGACAA
1 AATTTTGGACAA
*
24242660 AATTTTGGATAA
1 AATTTTGGACAA
24242672 AATTTTG
1 AATTTTG
24242679 AATTGAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.39, C:0.03, G:0.16, T:0.42
Consensus pattern (12 bp):
AATTTTGGACAA
Found at i:24247624 original size:21 final size:22
Alignment explanation
Indices: 24247598--24247639 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
24247588 TCTCTTTCTC
*
24247598 TCTACTTTCTTCT-CTATTTTT
1 TCTACTATCTTCTACTATTTTT
*
24247619 TCTACTATCTTTTACTATTTT
1 TCTACTATCTTCTACTATTTT
24247640 CTTTTTGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.14, C:0.21, G:0.00, T:0.64
Consensus pattern (22 bp):
TCTACTATCTTCTACTATTTTT
Found at i:24250623 original size:9 final size:10
Alignment explanation
Indices: 24250586--24250620 Score: 70
Period size: 10 Copynumber: 3.5 Consensus size: 10
24250576 GGTAAAGAAA
24250586 GAAAAAGATT
1 GAAAAAGATT
24250596 GAAAAAGATT
1 GAAAAAGATT
24250606 GAAAAAGATT
1 GAAAAAGATT
24250616 GAAAA
1 GAAAA
24250621 GATGAATTAA
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:0.63, C:0.00, G:0.20, T:0.17
Consensus pattern (10 bp):
GAAAAAGATT
Found at i:24258016 original size:12 final size:12
Alignment explanation
Indices: 24257995--24258024 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
24257985 ATATTTTATT
*
24257995 TTTTTAGTTTAA
1 TTTTTGGTTTAA
24258007 TTTTTGGTTTAA
1 TTTTTGGTTTAA
24258019 TTTTTG
1 TTTTTG
24258025 TTTTCTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.13, T:0.70
Consensus pattern (12 bp):
TTTTTGGTTTAA
Found at i:24258739 original size:25 final size:24
Alignment explanation
Indices: 24258697--24258830 Score: 125
Period size: 25 Copynumber: 5.6 Consensus size: 24
24258687 TTGCCTAATA
* * *
24258697 TATTTGTTTGCATGATTAATACATT
1 TATTTGTATG-ATTATTAATATATT
*
24258722 TATTTGTGTGATTTATTAATATATT
1 TATTTGTATGA-TTATTAATATATT
*
24258747 TATTTGTATGATTA-T-ATTTAATT
1 TATTTGTATGATTATTAATAT-ATT
*
24258770 TGA-TTGCATGATTATTAATATATT
1 T-ATTTGTATGATTATTAATATATT
*
24258794 TAATT-T-TGATTATTAATATATT
1 TATTTGTATGATTATTAATATATT
*
24258816 TATTTGCATGATTAT
1 TATTTGTATGATTAT
24258831 GTATCTAATT
Statistics
Matches: 91, Mismatches: 10, Indels: 17
0.77 0.08 0.14
Matches are distributed among these distances:
22 23 0.25
23 16 0.18
24 19 0.21
25 33 0.36
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.56
Consensus pattern (24 bp):
TATTTGTATGATTATTAATATATT
Found at i:24258777 original size:69 final size:67
Alignment explanation
Indices: 24258698--24258830 Score: 178
Period size: 69 Copynumber: 1.9 Consensus size: 67
24258688 TGCCTAATAT
* * *
24258698 ATTTGTTTGCATG-ATTAATACATTTATTTGTGTGATTTATTAATATATTTATTTGTATGATTAT
1 ATTTGATTGCATGTATTAATACATTTAATT-T-TGA-TTATTAATATATTTATTTGCATGATTAT
24258762 ATTTA
63 ATTTA
*
24258767 ATTTGATTGCATGATTATTAATATATTTAATTTTGATTATTAATATATTTATTTGCATGATTAT
1 ATTTGATTGCATG--TATTAATACATTTAATTTTGATTATTAATATATTTATTTGCATGATTAT
24258831 GTATCTAATT
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
69 39 0.68
70 3 0.05
71 1 0.02
72 14 0.25
ACGTcount: A:0.31, C:0.03, G:0.11, T:0.56
Consensus pattern (67 bp):
ATTTGATTGCATGTATTAATACATTTAATTTTGATTATTAATATATTTATTTGCATGATTATATT
TA
Found at i:24258850 original size:32 final size:32
Alignment explanation
Indices: 24258814--24258880 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
24258804 TATTAATATA
* *
24258814 TTTATTTGCATGATTATGTATCTAATTGCATG
1 TTTATTTGAATGATTATATATCTAATTGCATG
*
24258846 TTTATTTGAATGATTATATATTTAATTGCATG
1 TTTATTTGAATGATTATATATCTAATTGCATG
24258878 TTT
1 TTT
24258881 TGCATGGTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.27, C:0.06, G:0.13, T:0.54
Consensus pattern (32 bp):
TTTATTTGAATGATTATATATCTAATTGCATG
Found at i:24258899 original size:115 final size:117
Alignment explanation
Indices: 24258805--24259015 Score: 313
Period size: 115 Copynumber: 1.8 Consensus size: 117
24258795 AATTTTGATT
* *
24258805 ATTAATATA-T-TTATTTGCATGATTATGTATCTAATTGCATGTTTATTTGAATGATTATATATT
1 ATTAATATATTATTATTTGCATGATTATATATCTAATTGCATGTTTATTTGAATGATTATATAGT
* *
24258868 TAATTGC-ATGT-TTTGCATGGTTTATATATTATTATTTACATGATTGCATG
66 TAATTGCAATGTATTTGCATGGTTTATATATTATTATATACATAATTGCATG
* * *
24258918 ATTTATATATTATTATTTGCATGATTATATATTTAATTGCATGTTTATTTGCATGATTATATAGT
1 ATTAATATATTATTATTTGCATGATTATATATCTAATTGCATGTTTATTTGAATGATTATATAGT
*
24258983 TAATTGCATATTTATTTGCATGGTTTATATATT
66 TAATTGCA-ATGTATTTGCATGGTTTATATATT
24259016 TTTCTTTACA
Statistics
Matches: 87, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
113 8 0.09
114 1 0.01
115 56 0.64
117 3 0.03
118 19 0.22
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (117 bp):
ATTAATATATTATTATTTGCATGATTATATATCTAATTGCATGTTTATTTGAATGATTATATAGT
TAATTGCAATGTATTTGCATGGTTTATATATTATTATATACATAATTGCATG
Found at i:24258923 original size:31 final size:31
Alignment explanation
Indices: 24258880--24258943 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
24258870 ATTGCATGTT
*
24258880 TTGCATGGTTTATATATTATTATTTACATGA
1 TTGCATGATTTATATATTATTATTTACATGA
*
24258911 TTGCATGATTTATATATTATTATTTGCATGA
1 TTGCATGATTTATATATTATTATTTACATGA
24258942 TT
1 TT
24258944 ATATATTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.53
Consensus pattern (31 bp):
TTGCATGATTTATATATTATTATTTACATGA
Found at i:24258968 original size:32 final size:32
Alignment explanation
Indices: 24258930--24259219 Score: 178
Period size: 32 Copynumber: 8.9 Consensus size: 32
24258920 TTATATATTA
*
24258930 TTATTTGCATGATTATATATTTAATTGCATGT
1 TTATTTGCATGATTATATATTTAATTGCATAT
*
24258962 TTATTTGCATGATTATATAGTTAATTGCATAT
1 TTATTTGCATGATTATATATTTAATTGCATAT
*
24258994 TTATTTGCATGGTTTATATATTT--TT-C---T
1 TTATTTGCAT-GATTATATATTTAATTGCATAT
*
24259021 TTA----CATGATTATATATTTAATTGCATGT
1 TTATTTGCATGATTATATATTTAATTGCATAT
* *
24259049 TTATTTGCTTGATTATTAATATTATTACTTGCATGATT
1 TTATTTGCATGATTA-T-ATA-T-TTAATTGCAT-A-T
*
24259087 ATATATTCAATTGCATGATTAT-TAATTT-ATT-TAT-T
1 -T-TA-T---TTGCATGATTATAT-ATTTAATTGCATAT
* * *
24259122 TCTGTGATTGCATTATTATATATTTAATTGTATAT
1 T-TAT--TTGCATGATTATATATTTAATTGCATAT
* * *
24259157 TTATTTGAATGGTTTATATATTTAATTGCATGT
1 TTATTTGCAT-GATTATATATTTAATTGCATAT
*
24259190 TTATTTGCATGATTACAT-TGTTAATTGCAT
1 TTATTTGCATGATTATATAT-TTAATTGCAT
24259220 GATTATATAT
Statistics
Matches: 204, Mismatches: 24, Indels: 60
0.71 0.08 0.21
Matches are distributed among these distances:
22 11 0.05
23 3 0.01
24 2 0.01
25 1 0.00
27 4 0.02
28 4 0.02
30 1 0.00
31 3 0.01
32 84 0.41
33 43 0.21
34 10 0.05
35 4 0.02
36 9 0.04
38 3 0.01
39 3 0.01
40 4 0.02
41 3 0.01
42 1 0.00
43 1 0.00
44 10 0.05
ACGTcount: A:0.28, C:0.07, G:0.11, T:0.54
Consensus pattern (32 bp):
TTATTTGCATGATTATATATTTAATTGCATAT
Found at i:24259037 original size:87 final size:84
Alignment explanation
Indices: 24258847--24259093 Score: 266
Period size: 87 Copynumber: 3.0 Consensus size: 84
24258837 AATTGCATGT
*
24258847 TTATTTGA-ATGATTATATATTTAATTGCATG--T-TTTGCATGGTTTATATATTATTATTTACA
1 TTATTT-ACATGATTATATATTTAATTGCATGTTTATTTGCAT-GATTATATATTATTATTTACA
24258908 TGATTGCATGATTTATATATTA
64 T-ATTGCATGATTTATATATTA
*
24258930 TTATTTGCATGATTATATATTTAATTGCATGTTTATTTGCATGATTATATAGTTAATTGCATATT
1 TTATTTACATGATTATATATTTAATTGCATGTTTATTTGCATGATTATATA-TT-ATT--AT-TT
* * *
24258995 -TAT-TTGCATGGTTTATATATTT
61 ACATATTGCATGATTTATATATTA
* * *
24259017 TTCTTTACATGATTATATATTTAATTGCATGTTTATTTGCTTGATTAT-TAATATTA-TTAC---
1 TTATTTACATGATTATATATTTAATTGCATGTTTATTTGCATGATTATATATTATTATTTACATA
24259077 TTGCATGA-TTATATATT
66 TTGCATGATTTATATATT
24259094 CAATTGCATG
Statistics
Matches: 143, Mismatches: 11, Indels: 25
0.80 0.06 0.14
Matches are distributed among these distances:
78 9 0.06
79 7 0.05
80 2 0.01
82 1 0.01
83 29 0.20
84 3 0.02
85 10 0.07
86 11 0.08
87 65 0.45
89 4 0.03
90 2 0.01
ACGTcount: A:0.29, C:0.06, G:0.11, T:0.54
Consensus pattern (84 bp):
TTATTTACATGATTATATATTTAATTGCATGTTTATTTGCATGATTATATATTATTATTTACATA
TTGCATGATTTATATATTA
Found at i:24259177 original size:21 final size:20
Alignment explanation
Indices: 24259152--24259193 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
24259142 TATTTAATTG
*
24259152 TATATTTATTTGAATGGTTTA
1 TATATTTAATTGAAT-GTTTA
*
24259173 TATATTTAATTGCATGTTTA
1 TATATTTAATTGAATGTTTA
24259193 T
1 T
24259194 TTGCATGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (20 bp):
TATATTTAATTGAATGTTTA
Found at i:24259248 original size:137 final size:141
Alignment explanation
Indices: 24259029--24259288 Score: 402
Period size: 137 Copynumber: 1.8 Consensus size: 141
24259019 CTTTACATGA
* * *
24259029 TTATATATTTAATTGCATGTTTATTTGCTTGATTATTAATATTATTACTTGCATGATTATATATT
1 TTATATATTTAATTGCATGTTTATTTGC-T-ATGATTAACATTATTAATTGCATGATTATATATT
24259094 CAATTGCATGATTATTAATTTATTTATTTCTGTGATTG-CATTATT-ATATATTTAATTGTATAT
64 CAATTGCATGATTATTAATTTATTTATTTCTGTGATTGTCATTATTAATATATTTAATTGTATAT
24259157 TTATTTGAATGGT
129 TTATTTGAATGGT
* *
24259170 TTATATATTTAATTGCATGTTTATTTGC-ATGATT-ACATTGTTAATTGCATGATTATATATTTA
1 TTATATATTTAATTGCATGTTTATTTGCTATGATTAACATTATTAATTGCATGATTATATATTCA
*
24259233 ATTGCATGATTATTAATTTATTTATTTTTGTGATTGTATCATTATTAATATATTTA
66 ATTGCATGATTATTAATTTATTTATTTCTGTGATTG--TCATTATTAATATATTTA
24259289 CTTGCATAGT
Statistics
Matches: 109, Mismatches: 6, Indels: 8
0.89 0.05 0.07
Matches are distributed among these distances:
137 60 0.55
138 5 0.05
140 7 0.06
141 37 0.34
ACGTcount: A:0.30, C:0.05, G:0.10, T:0.55
Consensus pattern (141 bp):
TTATATATTTAATTGCATGTTTATTTGCTATGATTAACATTATTAATTGCATGATTATATATTCA
ATTGCATGATTATTAATTTATTTATTTCTGTGATTGTCATTATTAATATATTTAATTGTATATTT
ATTTGAATGGT
Found at i:24259252 original size:20 final size:20
Alignment explanation
Indices: 24258910--24259245 Score: 85
Period size: 20 Copynumber: 18.6 Consensus size: 20
24258900 TATTTACATG
24258910 ATTGCATGATTTATATATTATTA
1 ATTGCATGA-TTATATA-T-TTA
*
24258933 TTTGCATGATTATATATTTA
1 ATTGCATGATTATATATTTA
24258953 ATTGCATG--T-T-TA--T-
1 ATTGCATGATTATATATTTA
*
24258966 -TTGCATGATTATATAGTTA
1 ATTGCATGATTATATATTTA
**
24258985 ATTGCAT-ATT-TAT-TTGC
1 ATTGCATGATTATATATTTA
** * * *
24259002 A-TGGTTTA-TATATTTTTC
1 ATTGCATGATTATATATTTA
* *
24259020 TTTACATGATTATATATTTA
1 ATTGCATGATTATATATTTA
*
24259040 ATTGCATG--T-T-TATTTG
1 ATTGCATGATTATATATTTA
* *
24259056 CTTG-ATTATTA-ATATTATTA
1 ATTGCATGATTATATA-T-TTA
* *
24259076 CTTGCATGATTATATATTCA
1 ATTGCATGATTATATATTTA
24259096 ATTGCATGATTAT-TAATTT-
1 ATTGCATGATTATAT-ATTTA
* * *
24259115 ATT---T-A-T-T-TCTGTG
1 ATTGCATGATTATATATTTA
*
24259128 ATTGCATTATTATATATTTA
1 ATTGCATGATTATATATTTA
* *
24259148 ATTGTAT-ATT-TAT-TTGA
1 ATTGCATGATTATATATTTA
*
24259165 A-TG---GTTTATATATTTA
1 ATTGCATGATTATATATTTA
24259181 ATTGCATG--T-T-TA--T-
1 ATTGCATGATTATATATTTA
*
24259194 -TTGCATGATTACAT-TGTTA
1 ATTGCATGATTATATAT-TTA
24259213 ATTGCATGATTATATATTTA
1 ATTGCATGATTATATATTTA
24259233 ATTGCATGATTAT
1 ATTGCATGATTAT
24259246 TAATTTATTT
Statistics
Matches: 230, Mismatches: 36, Indels: 97
0.63 0.10 0.27
Matches are distributed among these distances:
12 16 0.07
13 5 0.02
14 7 0.03
15 7 0.03
16 27 0.12
17 17 0.07
18 17 0.07
19 15 0.07
20 92 0.40
21 9 0.04
22 10 0.04
23 8 0.03
ACGTcount: A:0.29, C:0.06, G:0.11, T:0.53
Consensus pattern (20 bp):
ATTGCATGATTATATATTTA
Found at i:24259345 original size:24 final size:24
Alignment explanation
Indices: 24259318--24259379 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
24259308 TTATTATTGG
* *
24259318 ATAATTTTATATTTATTGTATGAT
1 ATAATATTATATTTATTGCATGAT
24259342 ATAATATTATATATTATTGCATGAT
1 ATAATATTATAT-TTATTGCATGAT
24259367 -TAATATTATATTT
1 ATAATATTATATTT
24259380 GAATGATATT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
23 2 0.06
24 22 0.63
25 11 0.31
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (24 bp):
ATAATATTATATTTATTGCATGAT
Found at i:24259501 original size:20 final size:18
Alignment explanation
Indices: 24259478--24259573 Score: 52
Period size: 18 Copynumber: 5.2 Consensus size: 18
24259468 ATTTACATGA
*
24259478 ATGGTTATTAATATATTTGT
1 ATGGTT-TT-ATATATTTGC
*
24259498 ATGGTTTTTTATATTTGC
1 ATGGTTTTATATATTTGC
* * * *
24259516 ATGGTATAACATATTTAC
1 ATGGTTTTATATATTTGC
*
24259534 ATGATTGTTAT-TA-TTGC
1 ATGGTT-TTATATATTTGC
* *
24259551 ATGATAATTAATATATTTGC
1 ATGGT--TTTATATATTTGC
24259571 ATG
1 ATG
24259574 ACATTTTGCA
Statistics
Matches: 58, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
17 8 0.14
18 30 0.52
19 7 0.12
20 13 0.22
ACGTcount: A:0.30, C:0.05, G:0.15, T:0.50
Consensus pattern (18 bp):
ATGGTTTTATATATTTGC
Found at i:24264820 original size:34 final size:34
Alignment explanation
Indices: 24264782--24264893 Score: 91
Period size: 34 Copynumber: 3.3 Consensus size: 34
24264772 GCTTCCAAAA
* *
24264782 ATGCAAATCCGAAAGCTTTTAGAAGTTTTTGAAC
1 ATGCAAATCCGAAAGCTTTTAAAAGTTTTTGAAT
* ** * * *
24264816 ATGCATATTTGGAAA-CTTTTAAAAGCTTTAGGAT
1 ATGCA-AATCCGAAAGCTTTTAAAAGTTTTTGAAT
* * * * *
24264850 TTGCATATTCGGAAGCTTTTATAAGTTTTTGAAT
1 ATGCAAATCCGAAAGCTTTTAAAAGTTTTTGAAT
24264884 ATGCAAATCC
1 ATGCAAATCC
24264894 AAAACTATAA
Statistics
Matches: 56, Mismatches: 20, Indels: 4
0.70 0.25 0.05
Matches are distributed among these distances:
33 5 0.09
34 45 0.80
35 6 0.11
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (34 bp):
ATGCAAATCCGAAAGCTTTTAAAAGTTTTTGAAT
Found at i:24269107 original size:32 final size:32
Alignment explanation
Indices: 24269068--24269131 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
24269058 ATTATTTAAT
* *
24269068 ATTATTTTTAATGTATTTAAATATATAAAATA
1 ATTATTTTTAATGTATATAAATATAAAAAATA
* *
24269100 ATTATTTTTAGTGTATATAAATTTAAAAAATA
1 ATTATTTTTAATGTATATAAATATAAAAAATA
24269132 TATAATTTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (32 bp):
ATTATTTTTAATGTATATAAATATAAAAAATA
Found at i:24271635 original size:9 final size:8
Alignment explanation
Indices: 24271620--24271644 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
24271610 TAACAAACGT
24271620 GAAAAAAA
1 GAAAAAAA
24271628 GAAAAAAA
1 GAAAAAAA
24271636 GAAAAAAA
1 GAAAAAAA
24271644 G
1 G
24271645 GTTTTTCCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (8 bp):
GAAAAAAA
Found at i:24273172 original size:21 final size:19
Alignment explanation
Indices: 24273117--24273172 Score: 51
Period size: 21 Copynumber: 2.8 Consensus size: 19
24273107 ATAAAATTTC
*
24273117 TTTTTCTTACATTTTGCTAA
1 TTTTTCTTAC-TTTTACTAA
*
24273137 TTTTT-TTATTATTTACAATAA
1 TTTTTCTTACT-TTTAC--TAA
24273158 TTTTTCTTACTTTTA
1 TTTTTCTTACTTTTA
24273173 ATTTTTAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 1 0.03
19 7 0.24
20 5 0.17
21 12 0.41
22 4 0.14
ACGTcount: A:0.23, C:0.11, G:0.02, T:0.64
Consensus pattern (19 bp):
TTTTTCTTACTTTTACTAA
Found at i:24279024 original size:15 final size:15
Alignment explanation
Indices: 24279004--24279050 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
24278994 AATGAATATT
24279004 AATAATAACATAAAA
1 AATAATAACATAAAA
24279019 AATAAT-A-ATAATAA
1 AATAATAACATAA-AA
*
24279033 CAATAATATCATAAAA
1 -AATAATAACATAAAA
24279049 AA
1 AA
24279051 CCAACAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
13 4 0.15
14 3 0.11
15 14 0.52
16 2 0.07
17 4 0.15
ACGTcount: A:0.70, C:0.06, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAATAACATAAAA
Found at i:24280470 original size:42 final size:43
Alignment explanation
Indices: 24280376--24280564 Score: 175
Period size: 43 Copynumber: 4.4 Consensus size: 43
24280366 TCGGTAATTT
* * * *
24280376 TTTTGAAAATTTGAAAGGCTCCTTTAAGTAAAAGCTCAACAAC
1 TTTTAAAAATTTAAAAGGCTCTTTTAAGTAAAGGCTCAACAAC
* * *
24280419 TTTTGAAAATTTAAAAGGCT-TTTTAAGTAAAGGCTCGATAAC
1 TTTTAAAAATTTAAAAGGCTCTTTTAAGTAAAGGCTCAACAAC
* * * ** *
24280461 TCTTAAAAATTTAAAAGGCTCATTTAATTAGAA-GCTTGATAAC
1 TTTTAAAAATTTAAAAGGCTCTTTTAAGTA-AAGGCTCAACAAC
* * * * *
24280504 TTTTAAAAAAATTTGAAAGGATCTTCTAAGCAAAGGGTCAACAAC
1 TTTT--AAAAATTTAAAAGGCTCTTTTAAGTAAAGGCTCAACAAC
24280549 TTTTAAAAATTTAAAA
1 TTTTAAAAATTTAAAA
24280565 AGACTTCTTT
Statistics
Matches: 119, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
42 36 0.30
43 49 0.41
44 4 0.03
45 30 0.25
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (43 bp):
TTTTAAAAATTTAAAAGGCTCTTTTAAGTAAAGGCTCAACAAC
Found at i:24280667 original size:21 final size:21
Alignment explanation
Indices: 24280641--24280703 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
24280631 AAGAAAGCTC
24280641 TTTTAACTAGACACTATGACA
1 TTTTAACTAGACACTATGACA
*
24280662 TTTTAA--AGA-A--A-G-CTC
1 TTTTAACTAGACACTATGAC-A
24280677 TTTTAACTAGACACTATGACA
1 TTTTAACTAGACACTATGACA
24280698 TTTTAA
1 TTTTAA
24280704 AGAAAGCTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 16
0.64 0.04 0.32
Matches are distributed among these distances:
14 1 0.03
15 7 0.22
16 1 0.03
17 3 0.09
18 2 0.06
19 3 0.09
20 1 0.03
21 13 0.41
22 1 0.03
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.37
Consensus pattern (21 bp):
TTTTAACTAGACACTATGACA
Found at i:24280731 original size:36 final size:36
Alignment explanation
Indices: 24280618--24280711 Score: 179
Period size: 36 Copynumber: 2.6 Consensus size: 36
24280608 TGGCCAAAGG
*
24280618 CTATGACACTTTAAAGAAAGCTCTTTTAACTAGACA
1 CTATGACATTTTAAAGAAAGCTCTTTTAACTAGACA
24280654 CTATGACATTTTAAAGAAAGCTCTTTTAACTAGACA
1 CTATGACATTTTAAAGAAAGCTCTTTTAACTAGACA
24280690 CTATGACATTTTAAAGAAAGCT
1 CTATGACATTTTAAAGAAAGCT
24280712 ACTCTAATTA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 57 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (36 bp):
CTATGACATTTTAAAGAAAGCTCTTTTAACTAGACA
Found at i:24280912 original size:34 final size:34
Alignment explanation
Indices: 24280872--24280939 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
24280862 CTTTGAAACG
* * *
24280872 AGCTCCTCTAACTAGAGGCAATGAAATTTTAAAT
1 AGCTCCTCTAACCAAAGGCAATGAAACTTTAAAT
* *
24280906 AGCTCCTCTCACCAAAGGTAATGAAACTTTAAAT
1 AGCTCCTCTAACCAAAGGCAATGAAACTTTAAAT
24280940 TAAAAATATA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.38, C:0.21, G:0.13, T:0.28
Consensus pattern (34 bp):
AGCTCCTCTAACCAAAGGCAATGAAACTTTAAAT
Found at i:24281365 original size:38 final size:38
Alignment explanation
Indices: 24281323--24281397 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
24281313 CTCACCTCAA
24281323 GAGTATGCAAGAAAAACTACTATTTCACTTACAGAGGT
1 GAGTATGCAAGAAAAACTACTATTTCACTTACAGAGGT
*
24281361 GAGTATGCAAGAAAAACTACTATTTCACTTGCAGAGG
1 GAGTATGCAAGAAAAACTACTATTTCACTTACAGAGG
24281398 CTCCGTCGTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.39, C:0.16, G:0.20, T:0.25
Consensus pattern (38 bp):
GAGTATGCAAGAAAAACTACTATTTCACTTACAGAGGT
Found at i:24281588 original size:59 final size:59
Alignment explanation
Indices: 24281481--24281878 Score: 536
Period size: 59 Copynumber: 6.7 Consensus size: 59
24281471 TTGCGTAGGA
* * * *
24281481 AAAATTGATACTTTCAACTTTTCCCCAAAAATATATTTTTT-TAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTCTTTTTTGAAAATTTATTTTTAAGG
24281539 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTCTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTCTTTTTTGAAAATTTATTTTTAAGG
* * * *
24281598 AAAATTGATACTTTCAACTTTTCC-CTAAAAATAT-TTTTTTGAAATTTTGATTTTCAAGA
1 AAAATTGATACTTTCAACTTTTCCTC-AAAAATCTCTTTTTTGAAAATTT-ATTTTTAAGG
* *
24281657 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATC---TCTTTTTTGAAAATTTATTTTTAAGG
* * * * * *
24281719 AAAATTGATACTTTCAACTTTTTCTTAAAAATATATTTTTTTGAAACTTTGATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATCT-CTTTTTTGAAAATTT-ATTTTTAAGG
24281780 AAAATTGATACTTTCAACTTTTCCTCAAAAATC-CTTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTC-TTTTTTGAAAATTTATTTTTAAGG
*
24281839 AAAATTGATACTTTCAACCTTTCCTCAAAAATC-CTTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTCTTTTTT
24281879 TGCTTTTTAT
Statistics
Matches: 305, Mismatches: 24, Indels: 22
0.87 0.07 0.06
Matches are distributed among these distances:
58 58 0.19
59 128 0.42
60 28 0.09
61 38 0.12
62 40 0.13
63 13 0.04
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.46
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATCTCTTTTTTGAAAATTTATTTTTAAGG
Found at i:24281850 original size:182 final size:178
Alignment explanation
Indices: 24281479--24281879 Score: 576
Period size: 182 Copynumber: 2.2 Consensus size: 178
24281469 TCTTGCGTAG
* * * *
24281479 GAAAAATTGATACTTTCAACTTTTCCCCAAAAA--TATATTTTTTTAAATTTATTTTTAAGGAAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTTTAAATTTATTTTTAAGAAAA
* *
24281542 ATTGATACTTTCAACTTTTCCTCAAAAATCTCTTTTTTGAAAATTTATTTTTAAGGAAAATTGAT
66 ATTGATACTTTCAACTTTTCCTCAAAAATATCTTTTTTGAAAATTTATTTTCAAGGAAAATTGAT
*
24281607 ACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTTGATTTTCAA
131 ACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTGATTTTCAA
24281655 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTTTGAAAATTTATTTTTAAGAA
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTTT--AAATTTATTTTTAAGAA
* * * *
24281720 AAATTGATACTTTCAACTTTTTCTTAAAAATATATTTTTTTGAAACTTTGATTTTCAAGGAAAAT
64 AAATTGATACTTTCAACTTTTCCTCAAAAATAT-CTTTTTTGAAAATTT-ATTTTCAAGGAAAAT
* *
24281785 TGATACTTTCAACTTTT-CCTCAAAAATCCTTTTTTTGAAAATTT-ATTTTTAA
127 TGATACTTTCAACTTTTCCCT-AAAAAT-ATTTTTTTGAAAATTTGATTTTCAA
* * *
24281837 GGAAAATTGATACTTTCAACCTTTCCTCAAAAATCCTTTTTTT
1 GAAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTT
24281880 GCTTTTTATT
Statistics
Matches: 201, Mismatches: 16, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
176 32 0.16
178 9 0.04
180 46 0.23
181 16 0.08
182 84 0.42
183 14 0.07
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.46
Consensus pattern (178 bp):
GAAAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTTTTTTAAATTTATTTTTAAGAAAA
ATTGATACTTTCAACTTTTCCTCAAAAATATCTTTTTTGAAAATTTATTTTCAAGGAAAATTGAT
ACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAAATTTGATTTTCAA
Found at i:24281919 original size:22 final size:22
Alignment explanation
Indices: 24281894--24281935 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
24281884 TTTATTTAAA
24281894 GAAAATAGAATAAA-ATAAAAGT
1 GAAAATA-AATAAAGATAAAAGT
24281916 GAAAATAAATAAAGATAAAA
1 GAAAATAAATAAAGATAAAA
24281936 AATAAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.17
Consensus pattern (22 bp):
GAAAATAAATAAAGATAAAAGT
Found at i:24281937 original size:17 final size:16
Alignment explanation
Indices: 24281917--24282029 Score: 52
Period size: 17 Copynumber: 6.8 Consensus size: 16
24281907 AATAAAAGTG
24281917 AAAATAAATAAAGATAA
1 AAAATAAATAAA-ATAA
*
24281934 AAAATAAAGAAAAGTAA
1 AAAATAAATAAAA-TAA
*
24281951 AACAA-AAATAAAA-AT
1 AA-AATAAATAAAATAA
* *
24281966 AAGATAAAGATAAA-AA
1 AAAATAAATA-AAATAA
* * **
24281982 ATATTAAATGAATCTAA
1 AAAATAAAT-AAAATAA
**
24281999 CCTAATAAATAAAATAA
1 -AAAATAAATAAAATAA
24282016 ATAAATAAATAAAA
1 A-AAATAAATAAAA
24282030 ATTCTAAAAA
Statistics
Matches: 70, Mismatches: 18, Indels: 16
0.67 0.17 0.15
Matches are distributed among these distances:
14 1 0.01
15 7 0.10
16 11 0.16
17 42 0.60
18 9 0.13
ACGTcount: A:0.72, C:0.04, G:0.05, T:0.19
Consensus pattern (16 bp):
AAAATAAATAAAATAA
Found at i:24281980 original size:22 final size:21
Alignment explanation
Indices: 24281895--24281980 Score: 54
Period size: 21 Copynumber: 3.9 Consensus size: 21
24281885 TTATTTAAAG
*
24281895 AAAAT-AGAATAAAATAAAAGTG
1 AAAATAAG-ATAAAATAAAA-TA
24281917 AAAATAA-ATAAAGATAAAAAATA
1 AAAATAAGATAAA-AT--AAAATA
*
24281940 AAGAA-AAG-TAAAACAAAAATA
1 AA-AATAAGATAAAA-TAAAATA
24281961 AAAATAAGATAAAGATAAAA
1 AAAATAAGATAAA-ATAAAA
24281981 AATATTAAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 20
0.69 0.04 0.27
Matches are distributed among these distances:
20 2 0.04
21 16 0.31
22 16 0.31
23 11 0.22
24 6 0.12
ACGTcount: A:0.74, C:0.01, G:0.09, T:0.15
Consensus pattern (21 bp):
AAAATAAGATAAAATAAAATA
Found at i:24282399 original size:19 final size:19
Alignment explanation
Indices: 24282375--24282411 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24282365 AGTTAGAGAT
* *
24282375 TCACCGGATTCTGGGTTTG
1 TCACCGGAATCTGAGTTTG
24282394 TCACCGGAATCTGAGTTT
1 TCACCGGAATCTGAGTTT
24282412 TTTTACCAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.22, G:0.27, T:0.35
Consensus pattern (19 bp):
TCACCGGAATCTGAGTTTG
Found at i:24282990 original size:28 final size:28
Alignment explanation
Indices: 24282959--24283067 Score: 96
Period size: 28 Copynumber: 3.8 Consensus size: 28
24282949 ATTTTATAGG
*
24282959 ATAAAATA-AAAAAAATAATAACAAATAT
1 ATAAAATATAAAAAAATAATAA-AAATAA
* * *
24282987 ATAATTAGATAAATAACAAT-ACAAAAATAA
1 ATAA-AATATAAA-AA-AATAATAAAAATAA
* *
24283017 ATAAAATATAAAATAATAATAATAATAA
1 ATAAAATATAAAAAAATAATAAAAATAA
* *
24283045 ATAAATTATAATAAAATAATAAA
1 ATAAAATATAAAAAAATAATAAA
24283068 TATATAACTA
Statistics
Matches: 63, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
27 3 0.05
28 32 0.51
29 8 0.13
30 12 0.19
31 5 0.08
32 3 0.05
ACGTcount: A:0.71, C:0.03, G:0.01, T:0.26
Consensus pattern (28 bp):
ATAAAATATAAAAAAATAATAAAAATAA
Done.