Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 57 of 208
Found at i:16187168 original size:19 final size:18
Alignment explanation
Indices: 16187127--16187165 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
16187117 TCAAGTAAAG
16187127 AAAGACAAAAACGCAAAT
1 AAAGACAAAAACGCAAAT
16187145 AAAGACAAAAACGCAAAT
1 AAAGACAAAAACGCAAAT
16187163 AAA
1 AAA
16187166 AGATGACCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.69, C:0.15, G:0.10, T:0.05
Consensus pattern (18 bp):
AAAGACAAAAACGCAAAT
Found at i:16192161 original size:20 final size:18
Alignment explanation
Indices: 16192062--16192162 Score: 61
Period size: 20 Copynumber: 5.6 Consensus size: 18
16192052 AAGGCTCTTT
16192062 TTAAACTTAATCACTTTAATA
1 TTAAA-TTAAT-A-TTTAATA
16192083 TTAAATTAATA--TAATA
1 TTAAATTAATATTTAATA
* * * * *
16192099 TT-TATCAAGA-TAAACA
1 TTAAATTAATATTTAATA
16192115 TTAAATTAA-ATTTAATA
1 TTAAATTAATATTTAATA
16192132 TTAAGA-TAATCACTTTAATA
1 TTAA-ATTAAT-A-TTTAATA
16192152 TTAAATTAATA
1 TTAAATTAATA
16192163 AAATACTATT
Statistics
Matches: 63, Mismatches: 9, Indels: 18
0.70 0.10 0.20
Matches are distributed among these distances:
15 5 0.08
16 13 0.21
17 15 0.24
18 1 0.02
19 4 0.06
20 20 0.32
21 5 0.08
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.42
Consensus pattern (18 bp):
TTAAATTAATATTTAATA
Found at i:16192202 original size:68 final size:69
Alignment explanation
Indices: 16192069--16192203 Score: 200
Period size: 68 Copynumber: 2.0 Consensus size: 69
16192059 TTTTTAAACT
* *
16192069 TAATCACTTTAATATTAAATTAATATAATATTTATCAAGATAAACATTAAATTAAATTTAATATT
1 TAATCACTTTAATATTAAATTAATAAAATATCTATCAAGATAAACATTAAATTAAATTTAATATT
16192134 AAGA
66 AAGA
* * ** *
16192138 TAATCACTTTAATATTAAATTAATAAAATA-CTATTAGGATAAGTATTAAATTAAATTTCATATT
1 TAATCACTTTAATATTAAATTAATAAAATATCTATCAAGATAAACATTAAATTAAATTTAATATT
16192202 AA
66 AA
16192204 ACTATTAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
68 30 0.51
69 29 0.49
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.41
Consensus pattern (69 bp):
TAATCACTTTAATATTAAATTAATAAAATATCTATCAAGATAAACATTAAATTAAATTTAATATT
AAGA
Found at i:16198906 original size:24 final size:24
Alignment explanation
Indices: 16198879--16198933 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
16198869 ATATATCACA
*
16198879 ATTATAAC-ATTACATAATATAAAT
1 ATTATAACAATTACATAA-AAAAAT
*
16198903 ATTATAGACAATTATATAAAAAAAT
1 ATTATA-ACAATTACATAAAAAAAT
16198928 A-TATAA
1 ATTATAA
16198934 TGAGATGGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.04
24 10 0.37
25 8 0.30
26 8 0.30
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (24 bp):
ATTATAACAATTACATAAAAAAAT
Found at i:16200602 original size:3 final size:3
Alignment explanation
Indices: 16200594--16200663 Score: 113
Period size: 3 Copynumber: 23.3 Consensus size: 3
16200584 CTTAGCTTTC
* *
16200594 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AAA AGA AGA AGA ACA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
*
16200642 AGA AGA AGA AGA ATA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA A
16200664 AGCCAATTTC
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.69, C:0.01, G:0.29, T:0.01
Consensus pattern (3 bp):
AGA
Found at i:16201385 original size:3 final size:3
Alignment explanation
Indices: 16201377--16201409 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
16201367 TCTCCATTTC
16201377 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
16201410 ACTACTACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:16201414 original size:3 final size:3
Alignment explanation
Indices: 16201408--16201437 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
16201398 TCTTCTTCTT
16201408 CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA
1 CTA CTA CTA CTA CTA CTA CTA CTA CTA CTA
16201438 TTTTGTTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CTA
Found at i:16202050 original size:3 final size:3
Alignment explanation
Indices: 16202038--16202079 Score: 68
Period size: 3 Copynumber: 14.3 Consensus size: 3
16202028 GCATCTCTAT
*
16202038 TTC TTC -TC TTC TTC TTC TTC TTT TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
16202080 ACTACTACTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:16202270 original size:30 final size:31
Alignment explanation
Indices: 16202204--16202270 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
16202194 ATGTTAGTGG
16202204 GTGACTAATTTGTTACTTTTCGATAACGTTA
1 GTGACTAATTTGTTACTTTTCGATAACGTTA
* *
16202235 GTGACTAATTTGTTATTTTTTGA-AA-GTTAA
1 GTGACTAATTTGTTACTTTTCGATAACGTT-A
16202265 GTGACT
1 GTGACT
16202271 GAGTTGAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 3 0.09
30 9 0.27
31 21 0.64
ACGTcount: A:0.27, C:0.09, G:0.18, T:0.46
Consensus pattern (31 bp):
GTGACTAATTTGTTACTTTTCGATAACGTTA
Found at i:16202892 original size:31 final size:30
Alignment explanation
Indices: 16202850--16202918 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
16202840 ATGTTAGTGG
*
16202850 GTGACTAATTTGTCACTTTTCGATAACGTT-A
1 GTGACTGATTTGTCACTTTTCGA-AA-GTTAA
* * *
16202881 GTGACTGATTTGTTATTTTTTGAAAGTTAA
1 GTGACTGATTTGTCACTTTTCGAAAGTTAA
16202911 GTGACTGA
1 GTGACTGA
16202919 GTTGAAAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 3 0.09
30 11 0.33
31 19 0.58
ACGTcount: A:0.26, C:0.10, G:0.20, T:0.43
Consensus pattern (30 bp):
GTGACTGATTTGTCACTTTTCGAAAGTTAA
Found at i:16203277 original size:638 final size:641
Alignment explanation
Indices: 16201426--16203776 Score: 3953
Period size: 638 Copynumber: 3.7 Consensus size: 641
16201416 ACTACTACTA
16201426 CTACTACTACTATTTTGTTTGGTTTTTATTTTGGGTTTCCATTGTGGCAAGTTAATTGGCCACGT
1 CTACTACTACTATTTTGTTTGGTTTTTATTTTGGGTTTCCATTGTGGCAAGTTAATTGGCCACGT
16201491 CAGCTAGTTAACTGGCCACGTCACCTGTCCCGTTAGGCCTGTAATGAAAAATGTTAGTGGGTGAC
66 CAGCTAGTTAACTGGCCACGTCACCTGTCCCGTTAGGCCTGTAATGAAAAATGTTAGTGGGTGAC
* *
16201556 TAATTTGTCACTTTTCAATAACGTTAGTGACTGATTTGTTATTTTTTGAAAGTTAAGTGGCTGAG
131 TAATTTGTCACTTTTCGATAACGTTAGTGACTGATTTGTTATTTTTTGAAAGTTAAGTGACTGAG
*
16201621 TTG-AA-A-G-TTGTTTTGTTATTGAGATCAAATTTGAGTGACTGTTGGTGAAATTTACCCATTG
196 TTGAAAGAGGATTGTTTTGTTATTGAGATCAAATTTGAGTGACTGTTGGTGCAATTTACCCATTG
* *
16201682 CTAAAATATAAACCAAAATCTGCCTAAAATACACTACAATAAAAGTATCATTCAAATCCAAATAA
261 CTGAAATATAAACCAAATTCTGCCTAAAATACACTACAATAAAAGTATCATTCAAATCCAAATAA
16201747 AATGCAATTCTAAACAATAATCTAAAGTTCCTATTGCTTCAATTTTTACTGAATGACCATTGCCT
326 AATGCAATTCTAAACAATAATCTAAAGTTCCTATTGCTTCAATTTTTACTGAATGACCATTGCCT
16201812 ATATAGATGTATCTTTCACCATAATTTGGTGAAATCTATAAAATTGATGCTAATTCATAGACGAA
391 ATATAGATGTATCTTTCACCATAATTTGGTGAAATCTATAAAATTGATGCTAATTCATAGACGAA
* **
16201877 ACATCGTTAAGAAAATCTATAAAATCATTAAGGTAATTTACAGATCGATTGGAAGCTCTTCTGCA
456 ACATCGTTAAGAAAATCTATAAAATCATTAAGGAAATTTACAGATCGATTGGAAGCTCTTCTTTA
16201942 CCGGGTTAAGTGATAGGAAGTTGGGAGGGGGTGAATAAACGGTGAGGAAGGAAAAGTTTGGATCT
521 CCGGGTTAAGTGATAGGAAGTTGGGAGGGGGTGAATAAACGGTGAGGAAGGAAAAGTTTGGATCT
* *
16202007 CTGATGGTTTTTCTGGTTTCAGCATCTCTATTTCTTCTCTTCTTCTTCTTCTTTTTCTTCTTCTT
586 CTGATGGTTTTTCTTGTTTCAG-----C-A--TC-TC-CAT-TTCTTCTTC----TCTTCTTCTT
16202072 CTTCTT
636 CTTCTT
* * *
16202078 CTACTACTACTATTTTGTTTTGTTTTTATTTTGGGTTTCCATTGTGGCAAGTTAATTAGCCATGT
1 CTACTACTACTATTTTGTTTGGTTTTTATTTTGGGTTTCCATTGTGGCAAGTTAATTGGCCACGT
* *
16202143 CAGCTAGTTAACTGGCCACGTCACCTGTCTCGCTAGGCCTGTAATGAAAAAATGTTAGTGGGTGA
66 CAGCTAGTTAACTGGCCACGTCACCTGTCCCGTTAGGCCTGTAATG-AAAAATGTTAGTGGGTGA
* *
16202208 CTAATTTGTTACTTTTCGATAACGTTAGTGACTAATTTGTTATTTTTTGAAAGTTAAGTGACTGA
130 CTAATTTGTCACTTTTCGATAACGTTAGTGACTGATTTGTTATTTTTTGAAAGTTAAGTGACTGA
*
16202273 GTTGAAAGTTGAGTGATTGTTTTGTTATTGAGATCAAATTTGAGTGACTGTTGGTGCAATTTAGC
195 GTTGAAA---GAG-GATTGTTTTGTTATTGAGATCAAATTTGAGTGACTGTTGGTGCAATTTACC
*
16202338 CATTGCTGAAATATAAACCAAATTTTGCCTAAAATACACTACAATAAAAGTATCATTCAAATCCA
256 CATTGCTGAAATATAAACCAAATTCTGCCTAAAATACACTACAATAAAAGTATCATTCAAATCCA
16202403 AATAAAATGCAATTCTAAACAATAATCTAAAGTTCCTATTGCTTCAATTTTTACTGAATGACCAT
321 AATAAAATGCAATTCTAAACAATAATCTAAAGTTCCTATTGCTTCAATTTTTACTGAATGACCAT
* *
16202468 TACCTATATAGATGTATCTGTCACCATAATTTGGTGAAATCTATAAAATTGATGCTAATTCATAG
386 TGCCTATATAGATGTATCTTTCACCATAATTTGGTGAAATCTATAAAATTGATGCTAATTCATAG
*
16202533 ATGAAACATCGTTAAGAAAATCTATAAAATCATTAAGGAAATTTACAGATCGATTGGAAGCTCTT
451 ACGAAACATCGTTAAGAAAATCTATAAAATCATTAAGGAAATTTACAGATCGATTGGAAGCTCTT
* *
16202598 CTTTACCAGGTTAAGTGATAGGAAGTTAGGAGGGGGTGAATAAACGGTGAGGAAGGAAAAGTTTG
516 CTTTACCGGGTTAAGTGATAGGAAGTTGGGAGGGGGTGAATAAACGGTGAGGAAGGAAAAGTTTG
*
16202663 GATCTCTAATGGTTTTTCTTGTTTCAGCATCTCCATTTCTTCTTCTCTTCTTCTTCTTCTT
581 GATCTCTGATGGTTTTTCTTGTTTCAGCATCTCCATTTCTTCTTCTCTTCTTCTTCTTCTT
*
16202724 CTACTACTACTATTTTTTTTGGTTTTTATTTTGGGTTTCCATTGTGGCAAGTTAATTGGCCACGT
1 CTACTACTACTATTTTGTTTGGTTTTTATTTTGGGTTTCCATTGTGGCAAGTTAATTGGCCACGT
16202789 CAGCTAGTTAACTGGCCACGTCACCTGTCCCGTTAGGCCTGTAATGAAAAAATGTTAGTGGGTGA
66 CAGCTAGTTAACTGGCCACGTCACCTGTCCCGTTAGGCCTGTAATG-AAAAATGTTAGTGGGTGA
16202854 CTAATTTGTCACTTTTCGATAACGTTAGTGACTGATTTGTTATTTTTTGAAAGTTAAGTGACTGA
130 CTAATTTGTCACTTTTCGATAACGTTAGTGACTGATTTGTTATTTTTTGAAAGTTAAGTGACTGA
* *
16202919 GTTG-AA-A-G-TTGTTTTGTTATTAAGATCAAATTTGAGTGACTGTTGGTGCAATTTACCTATT
195 GTTGAAAGAGGATTGTTTTGTTATTGAGATCAAATTTGAGTGACTGTTGGTGCAATTTACCCATT
* *
16202980 GTTGAAATATAAACCAAATTCTGCCTAAAATAGACTACAATAAAAGTATCATTCAAATCCAAATA
260 GCTGAAATATAAACCAAATTCTGCCTAAAATACACTACAATAAAAGTATCATTCAAATCCAAATA
*
16203045 AAATGCAATTCTAAACAATAATCTAAAGTTCCTATTGCTTCAATTTTTACTGAATAACCATTGCC
325 AAATGCAATTCTAAACAATAATCTAAAGTTCCTATTGCTTCAATTTTTACTGAATGACCATTGCC
16203110 TATATAGATGTATCTTTCACCATAATTTGGTGAAATCTATAAAATTGATGCTAATTCATAGACGA
390 TATATAGATGTATCTTTCACCATAATTTGGTGAAATCTATAAAATTGATGCTAATTCATAGACGA
*
16203175 AACATCGTTAAGAAAATCTATAAAATCATTAAGGAAATTTACAGATTGATTGGAAGCTCTTCTTT
455 AACATCGTTAAGAAAATCTATAAAATCATTAAGGAAATTTACAGATCGATTGGAAGCTCTTCTTT
*
16203240 ACCGGGTTAAGTGATAGGAAGTTGGGAGGGGGTGAATAAACGATGAGGAAGGAAAAGTTTGGATC
520 ACCGGGTTAAGTGATAGGAAGTTGGGAGGGGGTGAATAAACGGTGAGGAAGGAAAAGTTTGGATC
*
16203305 TCTGATGGTTTTTCTTGTTTTAGCATCTCCATTTC-T-TT-TC-T-TT-TTCTTC-T
585 TCTGATGGTTTTTCTTGTTTCAGCATCTCCATTTCTTCTTCTCTTCTTCTTCTTCTT
16203355 -T-CTACTACTATTTTGTTTGGTTTTTATTTTGGGTTTCCATTGTGGCAAGTTAATTGGCCACGT
1 CTACTACTACTATTTTGTTTGGTTTTTATTTTGGGTTTCCATTGTGGCAAGTTAATTGGCCACGT
* * * *
16203418 CAGCTAGTTAACCGGCCACGTCACCTATCTCGTTAGGTCTGTAATGAAAAATGTTAGTGGGTGAC
66 CAGCTAGTTAACTGGCCACGTCACCTGTCCCGTTAGGCCTGTAATGAAAAATGTTAGTGGGTGAC
*
16203483 TAATTTGTTACTTTTCGATAACGTTAGTGACTGATTTGTTATTTTTTGAAAGTTAAGTGACTGAG
131 TAATTTGTCACTTTTCGATAACGTTAGTGACTGATTTGTTATTTTTTGAAAGTTAAGTGACTGAG
16203548 TTGAAAGTTGAGTGATTGTTTTGTTATTGAGATCAAATTTGAGTGACTGTTGGTGCAATTTACCC
196 TTGAAA---GAG-GATTGTTTTGTTATTGAGATCAAATTTGAGTGACTGTTGGTGCAATTTACCC
* * *
16203613 ATTGCTGAAATATAAATCAAATTCTACCTAAAATATACTACAATAAAAGTATCATTCAAATCCAA
257 ATTGCTGAAATATAAACCAAATTCTGCCTAAAATACACTACAATAAAAGTATCATTCAAATCCAA
* *
16203678 ATAAAATGCAATTCTAAACAATAATCTAAAGTTCCTATTGCTTCAATTTCTATTGAATGACCATT
322 ATAAAATGCAATTCTAAACAATAATCTAAAGTTCCTATTGCTTCAATTTTTACTGAATGACCATT
*
16203743 GCCTATATAGATGTATCTTTTACCATAATTTGGT
387 GCCTATATAGATGTATCTTTCACCATAATTTGGT
16203777 CTTTGCAATT
Statistics
Matches: 1617, Mismatches: 65, Indels: 50
0.93 0.04 0.03
Matches are distributed among these distances:
628 86 0.05
629 105 0.06
630 1 0.00
631 1 0.00
632 6 0.00
633 3 0.00
634 1 0.00
635 3 0.00
636 206 0.13
637 1 0.00
638 397 0.25
639 1 0.00
641 1 0.00
645 2 0.00
646 207 0.13
650 9 0.01
651 2 0.00
652 108 0.07
653 85 0.05
654 2 0.00
655 1 0.00
656 1 0.00
658 1 0.00
660 1 0.00
661 386 0.24
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (641 bp):
CTACTACTACTATTTTGTTTGGTTTTTATTTTGGGTTTCCATTGTGGCAAGTTAATTGGCCACGT
CAGCTAGTTAACTGGCCACGTCACCTGTCCCGTTAGGCCTGTAATGAAAAATGTTAGTGGGTGAC
TAATTTGTCACTTTTCGATAACGTTAGTGACTGATTTGTTATTTTTTGAAAGTTAAGTGACTGAG
TTGAAAGAGGATTGTTTTGTTATTGAGATCAAATTTGAGTGACTGTTGGTGCAATTTACCCATTG
CTGAAATATAAACCAAATTCTGCCTAAAATACACTACAATAAAAGTATCATTCAAATCCAAATAA
AATGCAATTCTAAACAATAATCTAAAGTTCCTATTGCTTCAATTTTTACTGAATGACCATTGCCT
ATATAGATGTATCTTTCACCATAATTTGGTGAAATCTATAAAATTGATGCTAATTCATAGACGAA
ACATCGTTAAGAAAATCTATAAAATCATTAAGGAAATTTACAGATCGATTGGAAGCTCTTCTTTA
CCGGGTTAAGTGATAGGAAGTTGGGAGGGGGTGAATAAACGGTGAGGAAGGAAAAGTTTGGATCT
CTGATGGTTTTTCTTGTTTCAGCATCTCCATTTCTTCTTCTCTTCTTCTTCTTCTT
Found at i:16203544 original size:30 final size:31
Alignment explanation
Indices: 16203478--16203546 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
16203468 ATGTTAGTGG
*
16203478 GTGACTAATTTGTTACTTTTCGATAACGTTA
1 GTGACTGATTTGTTACTTTTCGATAACGTTA
* *
16203509 GTGACTGATTTGTTATTTTTTGA-AA-GTTAA
1 GTGACTGATTTGTTACTTTTCGATAACGTT-A
16203539 GTGACTGA
1 GTGACTGA
16203547 GTTGAAAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 11 0.32
31 20 0.59
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.45
Consensus pattern (31 bp):
GTGACTGATTTGTTACTTTTCGATAACGTTA
Found at i:16206489 original size:7 final size:7
Alignment explanation
Indices: 16206468--16206526 Score: 52
Period size: 6 Copynumber: 8.4 Consensus size: 7
16206458 AAAAATATTT
16206468 TTTAATA
1 TTTAATA
16206475 TTTAAATA
1 TTT-AATA
16206483 TTTAATA
1 TTTAATA
*
16206490 TTATAATTT
1 TT-TAA-TA
16206499 TTTAA-A
1 TTTAATA
16206505 TTTAA-A
1 TTTAATA
16206511 TTTAA-A
1 TTTAATA
*
16206517 TTTAAAA
1 TTTAATA
16206524 TTT
1 TTT
16206527 TAAATAAACC
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
6 17 0.37
7 13 0.28
8 13 0.28
9 3 0.07
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TTTAATA
Found at i:16218296 original size:26 final size:26
Alignment explanation
Indices: 16218231--16218284 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
16218221 GAATTTCATA
* *
16218231 TTTTTCTATTGCTTTTGGACTATTTT
1 TTTTTCTGTTGATTTTGGACTATTTT
*
16218257 TTTTTCTGTTGATTTTGGACTGTTTT
1 TTTTTCTGTTGATTTTGGACTATTTT
16218283 TT
1 TT
16218285 CTTTTTTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.09, C:0.09, G:0.15, T:0.67
Consensus pattern (26 bp):
TTTTTCTGTTGATTTTGGACTATTTT
Found at i:16221019 original size:95 final size:95
Alignment explanation
Indices: 16220856--16221048 Score: 359
Period size: 95 Copynumber: 2.0 Consensus size: 95
16220846 ATGTCCGTGT
16220856 TTGGCGAATTGTTAGGAGCCCCCTTTACTATTATCAAAAGTGTTCCCTCAAGTTCCCAAGGGTTC
1 TTGGCGAATTGTTAGGAGCCCCCTTTACTATTATCAAAAGTGTTCCCTCAAGTTCCCAAGGGTTC
16220921 TCCCCATGCCTAAAGTAAAGGTCTGACAAA
66 TCCCCATGCCTAAAGTAAAGGTCTGACAAA
* *
16220951 TTGGCGAATTGTTAGGAGCCCCTTTTACTATTATCAGAAGTGTTCCCTCAAGTTCCCAAGGGTTC
1 TTGGCGAATTGTTAGGAGCCCCCTTTACTATTATCAAAAGTGTTCCCTCAAGTTCCCAAGGGTTC
*
16221016 TCCCTATGCCTAAAGTAAAGGTCTGACAAA
66 TCCCCATGCCTAAAGTAAAGGTCTGACAAA
16221046 TTG
1 TTG
16221049 TAAAAATAAA
Statistics
Matches: 95, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (95 bp):
TTGGCGAATTGTTAGGAGCCCCCTTTACTATTATCAAAAGTGTTCCCTCAAGTTCCCAAGGGTTC
TCCCCATGCCTAAAGTAAAGGTCTGACAAA
Found at i:16226803 original size:27 final size:27
Alignment explanation
Indices: 16226773--16226857 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 27
16226763 CGGAGAGTCA
16226773 TTAATTAGGAAGCTCATGAAAGAGCCT
1 TTAATTAGGAAGCTCATGAAAGAGCCT
* *
16226800 TTAATTGGGAAGCTCCA-G--AGAGCCA
1 TTAATTAGGAAGCT-CATGAAAGAGCCT
* *
16226825 TTAATCAGGAAGCTCATAAAAGAGCCT
1 TTAATTAGGAAGCTCATGAAAGAGCCT
16226852 TTAATT
1 TTAATT
16226858 GAGAACCTCT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
24 2 0.04
25 18 0.38
27 25 0.53
28 2 0.04
ACGTcount: A:0.36, C:0.16, G:0.21, T:0.26
Consensus pattern (27 bp):
TTAATTAGGAAGCTCATGAAAGAGCCT
Found at i:16226827 original size:52 final size:52
Alignment explanation
Indices: 16226765--16226895 Score: 174
Period size: 52 Copynumber: 2.5 Consensus size: 52
16226755 AAAAGCTGCG
* * * * *
16226765 GAGAGTCATTAATTAGGAAGCTCATGAAAGAGCCTTTAATTGGGAAGCTCCA
1 GAGAGCCATTAATCAGGAAGCTCATAAAAGAGCCTTTAATTGAGAACCTCCA
**
16226817 GAGAGCCATTAATCAGGAAGCTCATAAAAGAGCCTTTAATTGAGAACCTCTG
1 GAGAGCCATTAATCAGGAAGCTCATAAAAGAGCCTTTAATTGAGAACCTCCA
*
16226869 GAGAGCCA-TATATCAGGACGCTCATAA
1 GAGAGCCATTA-ATCAGGAAGCTCATAA
16226896 GAGCTGTGGT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
51 2 0.03
52 68 0.97
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (52 bp):
GAGAGCCATTAATCAGGAAGCTCATAAAAGAGCCTTTAATTGAGAACCTCCA
Found at i:16226828 original size:25 final size:26
Alignment explanation
Indices: 16226765--16226839 Score: 82
Period size: 25 Copynumber: 2.9 Consensus size: 26
16226755 AAAAGCTGCG
*
16226765 GAGAGTCATTAATTAGGAAGCT-CAT
1 GAGAGCCATTAATTAGGAAGCTCCAT
* *
16226790 GAAAGAGCCTTTAATTGGGAAGCTCCA-
1 G--AGAGCCATTAATTAGGAAGCTCCAT
*
16226817 GAGAGCCATTAATCAGGAAGCTC
1 GAGAGCCATTAATTAGGAAGCTC
16226840 ATAAAAGAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
25 20 0.49
27 19 0.46
28 2 0.05
ACGTcount: A:0.35, C:0.17, G:0.25, T:0.23
Consensus pattern (26 bp):
GAGAGCCATTAATTAGGAAGCTCCAT
Found at i:16227040 original size:24 final size:24
Alignment explanation
Indices: 16226994--16227040 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
16226984 TATCATGAAG
*
16226994 CTCAAGAGAGCCAATATCAGGATA
1 CTCAAGAGAGCCAATAACAGGATA
* * *
16227018 CTCATGAGAGCTAATAACGGGAT
1 CTCAAGAGAGCCAATAACAGGAT
16227041 GTTCTTATGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.19
Consensus pattern (24 bp):
CTCAAGAGAGCCAATAACAGGATA
Found at i:16227087 original size:153 final size:153
Alignment explanation
Indices: 16226896--16227242 Score: 640
Period size: 153 Copynumber: 2.3 Consensus size: 153
16226886 ACGCTCATAA
*
16226896 GAGCTGTGGTGTGTCCACAACACATATAGGATTACAACCAATCAGGATACTCAGAAGAGCTATTA
1 GAGCTGTGGTGTGTCCACAACACATACAGGATTACAACCAATCAGGATACTCAGAAGAGCTATTA
*
16226961 ATGGGAAGCTCGTGAGAGCCATTTATCATGAAGCTCAAGAGAGCCAATATCAGGATACTCATGAG
66 ATGGGAAGCTCGTGAGAGCCATTTATCAGGAAGCTCAAGAGAGCCAATATCAGGATACTCATGAG
16227026 AGCTAATAACGGGATGTTCTTAT
131 AGCTAATAACGGGATGTTCTTAT
16227049 GAGCTGTGGTGTGTCCACAACACATACAGGATTACAACCAATCAGGATACTCAGAAGAGCTATTA
1 GAGCTGTGGTGTGTCCACAACACATACAGGATTACAACCAATCAGGATACTCAGAAGAGCTATTA
*
16227114 ATGGGAAGCTCGTGAGAGCCATTTATCAGGAAGCTCAAGAGAGCCAATATCAGGATGCTCATGAG
66 ATGGGAAGCTCGTGAGAGCCATTTATCAGGAAGCTCAAGAGAGCCAATATCAGGATACTCATGAG
16227179 AGCTAATAACGGGATGTTCTTAT
131 AGCTAATAACGGGATGTTCTTAT
* * *
16227202 GAGCTGTGGTGTGTCCGCAACACATGCAGGACTACAACCAA
1 GAGCTGTGGTGTGTCCACAACACATACAGGATTACAACCAA
16227243 ATCGGGGCCC
Statistics
Matches: 188, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
153 188 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (153 bp):
GAGCTGTGGTGTGTCCACAACACATACAGGATTACAACCAATCAGGATACTCAGAAGAGCTATTA
ATGGGAAGCTCGTGAGAGCCATTTATCAGGAAGCTCAAGAGAGCCAATATCAGGATACTCATGAG
AGCTAATAACGGGATGTTCTTAT
Found at i:16227146 original size:25 final size:24
Alignment explanation
Indices: 16227117--16227186 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 24
16227107 GCTATTAATG
* *
16227117 GGAAGCTCGTGAGAGCCATTTATCA
1 GGAAGCTCATGAGAGCCA-ATATCA
*
16227142 GGAAGCTCAAGAGAGCCAATATCA
1 GGAAGCTCATGAGAGCCAATATCA
* *
16227166 GGATGCTCATGAGAGCTAATA
1 GGAAGCTCATGAGAGCCAATA
16227187 ACGGGATGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
24 23 0.59
25 16 0.41
ACGTcount: A:0.34, C:0.19, G:0.27, T:0.20
Consensus pattern (24 bp):
GGAAGCTCATGAGAGCCAATATCA
Found at i:16227193 original size:24 final size:24
Alignment explanation
Indices: 16227140--16227194 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
16227130 AGCCATTTAT
* *
16227140 CAGGAAGCTCAAGAGAGCCAATAT
1 CAGGATGCTCAAGAGAGCCAATAA
* *
16227164 CAGGATGCTCATGAGAGCTAATAA
1 CAGGATGCTCAAGAGAGCCAATAA
*
16227188 CGGGATG
1 CAGGATG
16227195 TTCTTATGAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.18, G:0.29, T:0.16
Consensus pattern (24 bp):
CAGGATGCTCAAGAGAGCCAATAA
Found at i:16234537 original size:25 final size:25
Alignment explanation
Indices: 16234483--16234554 Score: 83
Period size: 25 Copynumber: 2.9 Consensus size: 25
16234473 TCTCTCTCTC
**
16234483 GAGCCATATAACGGGAAGCTCATTT
1 GAGCCATATAACGGGAAGCTCATAA
* *
16234508 CAGCCATGTAACGGGAAGCTCATAA
1 GAGCCATATAACGGGAAGCTCATAA
* *
16234533 GAGCCATA-ATCGGAAAGCTCAT
1 GAGCCATATAACGGGAAGCTCAT
16234555 GCGAGCCAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 12 0.31
25 27 0.69
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATAA
Found at i:16234574 original size:24 final size:25
Alignment explanation
Indices: 16234522--16234603 Score: 71
Period size: 24 Copynumber: 3.4 Consensus size: 25
16234512 CATGTAACGG
* *
16234522 GAAGCTCATAAGAGCC-ATAATC-G
1 GAAGCTCATGAGAGCCAATAATCAA
*
16234545 GAAAGCTCATGCGAGCCAAT-ATCAA
1 G-AAGCTCATGAGAGCCAATAATCAA
** * *
16234570 GAAGCTCCGGAGAGCCATTAATCAG
1 GAAGCTCATGAGAGCCAATAATCAA
16234595 GAAGCTCAT
1 GAAGCTCAT
16234604 AAAAGATCCT
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
23 1 0.02
24 30 0.67
25 14 0.31
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (25 bp):
GAAGCTCATGAGAGCCAATAATCAA
Found at i:16235908 original size:15 final size:16
Alignment explanation
Indices: 16235858--16235925 Score: 70
Period size: 15 Copynumber: 4.2 Consensus size: 16
16235848 AACGAGCAAG
16235858 ATAAA-AAATAATATAA
1 ATAAACAAATAA-ATAA
*
16235874 ATGAAA-ACATAAATAA
1 AT-AAACAAATAAATAA
16235890 ATAAACAAATAAA-AA
1 ATAAACAAATAAATAA
*
16235905 ATAAACAAAAAATATAA
1 ATAAACAAATAA-ATAA
16235922 ATAA
1 ATAA
16235926 TAAAAGGTAC
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
15 16 0.36
16 15 0.33
17 14 0.31
ACGTcount: A:0.75, C:0.04, G:0.01, T:0.19
Consensus pattern (16 bp):
ATAAACAAATAAATAA
Found at i:16235988 original size:13 final size:15
Alignment explanation
Indices: 16235972--16236005 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
16235962 AATACACATG
16235972 AATTTAGA-TAT-AA
1 AATTTAGATTATAAA
16235985 AATTTAGATTATAAA
1 AATTTAGATTATAAA
16236000 AATTTA
1 AATTTA
16236006 TATAAACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
14 3 0.16
15 8 0.42
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (15 bp):
AATTTAGATTATAAA
Found at i:16237549 original size:18 final size:18
Alignment explanation
Indices: 16237526--16237560 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16237516 TTTTGGGCCG
* *
16237526 CGTTTGTAATTGGGCCAC
1 CGTTTGAAATCGGGCCAC
16237544 CGTTTGAAATCGGGCCA
1 CGTTTGAAATCGGGCCA
16237561 TGTATTTTGT
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:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (18 bp):
CGTTTGAAATCGGGCCAC
Found at i:16238132 original size:44 final size:44
Alignment explanation
Indices: 16238083--16238887 Score: 638
Period size: 44 Copynumber: 18.6 Consensus size: 44
16238073 TGCCTCACTG
* * * * *
16238083 CCAATATAAGAAGACAGGATCTGCTATTTTCGATCCACTTCACG
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACA
* * * *
16238127 CCAATACATGAAGACAACATCTGCTTTCTTCGATCTACTTCACCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA-CA
* *
16238172 CCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-A
* * **
16238215 CCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCATG
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACA
* * * *
16238259 CCAATACATGAAGACAAGATCAGCTTTCTTCGATCTACTGGT-A-A
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACT--TCACA
* * * * *
16238303 CCAATATGGGAAGATAAGATCTG--GTCTTTGATCCACTTC-CTA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-A
*
16238345 CCAATATAGGAAGACAGGATCTGCTA---TC--T-T-C-T----
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACA
* * * * *
16238377 CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACGTCGCCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACA
* *
16238422 CCAATATGGGAAGACAAGA--T-CTAGTCTTCGATCCACTTC-CTA
1 CCAATATAGGAAGACAAGATCTGCTA-TCTTCGATCTACTTCAC-A
* * *
16238464 CCAATATAGGAAGACAGGATTTGCTATCTTCGATCTACTTCACG
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACA
* * * * *
16238508 CCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTC-ACA
* * *
16238553 CCAGTATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-A
* ***
16238596 CCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCGTG
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACA
* * * *
16238640 CCAATACATGAAGACAAGATCTACTTTCTTCGATCTACTTCACCA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCA-CA
* * * * *
16238685 CCAGTATGGGAAGACAATATCTGC-ATCTTCGATCCACTTCGCTA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-A
* * *
16238729 CCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTCACG
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACA
* * * * * * * *
16238773 CTAGTACATGAAGACAAAATTTGC-ATCTTCGATCCACTTCGCTA
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCAC-A
* * * *
16238817 CCAATATAGGAAGACAGGATCTGTTATCTTTGATCTACTTCACG
1 CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACA
* * *
16238861 CCAATACATGAAGACAAGATCTACTAT
1 CCAATATAGGAAGACAAGATCTGCTAT
16238888 TTTTTAGCAT
Statistics
Matches: 593, Mismatches: 129, Indels: 78
0.74 0.16 0.10
Matches are distributed among these distances:
32 22 0.04
35 2 0.00
36 1 0.00
37 2 0.00
38 1 0.00
39 2 0.00
40 2 0.00
41 2 0.00
42 54 0.09
43 75 0.13
44 317 0.53
45 112 0.19
46 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (44 bp):
CCAATATAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACA
Found at i:16238390 original size:32 final size:32
Alignment explanation
Indices: 16238345--16238407 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
16238335 CCACTTCCTA
* *
16238345 CCAATATAGGAAGACAGGATCTGCTATCTTCT
1 CCAATACAGGAAGACAAGATCTGCTATCTTCT
* *
16238377 CCAATACATGAAGACAAGATCTGCTTTCTTC
1 CCAATACAGGAAGACAAGATCTGCTATCTTC
16238408 GATCTACGTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (32 bp):
CCAATACAGGAAGACAAGATCTGCTATCTTCT
Found at i:16238644 original size:132 final size:132
Alignment explanation
Indices: 16238377--16238857 Score: 707
Period size: 132 Copynumber: 3.6 Consensus size: 132
16238367 GCTATCTTCT
*
16238377 CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACGTCGCCACCAATATGGGAAGACAAGAT
1 CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGAT
*
16238442 CT--AGTCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATTTGCTATCTTCGATCTACTTC
66 CTGCA-TCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTC
16238505 ACG
130 ACG
* *
16238508 CCAATACATGAAGACAAGATCTGCTTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGAT
1 CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGAT
*
16238573 CTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCG
66 CTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCA
*
16238638 TG
131 CG
* * * *
16238640 CCAATACATGAAGACAAGATCTACTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAATAT
1 CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGAT
*
16238705 CTGCATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGATCTGTTATCTTCGATCTACTTC
66 CTGCATCTTCGATCCACTTC-CTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTC
16238770 ACG
130 ACG
* * * * * * * * *
16238773 CTAGTACATGAAGACAAAATTTGC-ATCTTCGATCCACTTCGCTACCAATATAGGAAGACAGGAT
1 CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGAT
* * *
16238837 CTGTTATCTTTGATCTACTTC
66 CTG-CATCTTCGATCCACTTC
16238858 ACGCCAATAC
Statistics
Matches: 317, Mismatches: 29, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
131 64 0.20
132 175 0.55
133 78 0.25
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (132 bp):
CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGAT
CTGCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCA
CG
Found at i:16253029 original size:25 final size:24
Alignment explanation
Indices: 16252974--16253096 Score: 86
Period size: 25 Copynumber: 5.0 Consensus size: 24
16252964 GCTCTCTCTC
**
16252974 GAGCCATATAACGGGAAGCTCATTT
1 GAGCCAT-TAACGGGAAGCTCATAA
**
16252999 CTGCCATGTAACGGGAAGCTCATAA
1 GAGCCAT-TAACGGGAAGCTCATAA
**
16253024 GAGCCA-TAATCGGGAAGCTCATGC
1 GAGCCATTAA-CGGGAAGCTCATAA
* * * ***
16253048 GAGCCAATATCAGGAAGCTCCGGA
1 GAGCCATTAACGGGAAGCTCATAA
*
16253072 GAGCCATTAATCAGGAAGCTCATAA
1 GAGCCATTAA-CGGGAAGCTCATAA
16253097 AAGAGCCTTT
Statistics
Matches: 76, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
23 3 0.04
24 36 0.47
25 37 0.49
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (24 bp):
GAGCCATTAACGGGAAGCTCATAA
Found at i:16253042 original size:24 final size:24
Alignment explanation
Indices: 16253012--16253096 Score: 91
Period size: 24 Copynumber: 3.5 Consensus size: 24
16253002 CCATGTAACG
*
16253012 GGAAGCTCATAAGAGCCATAATCG
1 GGAAGCTCATAAGAGCCATAATCA
**
16253036 GGAAGCTCATGCGAGCCA-ATATCA
1 GGAAGCTCATAAGAGCCATA-ATCA
***
16253060 GGAAGCTCCGGAGAGCCATTAATCA
1 GGAAGCTCATAAGAGCCA-TAATCA
16253085 GGAAGCTCATAA
1 GGAAGCTCATAA
16253097 AAGAGCCTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
23 1 0.02
24 34 0.69
25 13 0.27
26 1 0.02
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.16
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCATAATCA
Found at i:16254368 original size:23 final size:23
Alignment explanation
Indices: 16254343--16254396 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 23
16254333 CAAGCAAGAT
*
16254343 AAAAATAATATAAATAAAAACATAA
1 AAAAATAA-A-AAATAAAAAAATAA
16254368 AAAAATAAAAAATAAAAAAATAA
1 AAAAATAAAAAATAAAAAAATAA
16254391 ACAAAA
1 A-AAAA
16254397 AATATAAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 14 0.52
24 5 0.19
25 8 0.30
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (23 bp):
AAAAATAAAAAATAAAAAAATAA
Found at i:16254369 original size:8 final size:8
Alignment explanation
Indices: 16254343--16254396 Score: 65
Period size: 8 Copynumber: 6.6 Consensus size: 8
16254333 CAAGCAAGAT
16254343 AAAAATAA
1 AAAAATAA
*
16254351 TATAAATAA
1 -AAAAATAA
*
16254360 AAACATAA
1 AAAAATAA
16254368 AAAAAT-A
1 AAAAATAA
16254375 AAAAATAA
1 AAAAATAA
16254383 AAAAATAA
1 AAAAATAA
16254391 ACAAAA
1 A-AAAA
16254397 AATATAAAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 21 0.54
9 11 0.28
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.15
Consensus pattern (8 bp):
AAAAATAA
Found at i:16254377 original size:15 final size:15
Alignment explanation
Indices: 16254341--16254404 Score: 62
Period size: 15 Copynumber: 4.3 Consensus size: 15
16254331 AACAAGCAAG
*
16254341 ATAAAA-ATAATATAA
1 ATAAAACATAA-AAAA
16254356 ATAAAAACATAAAAAA
1 AT-AAAACATAAAAAA
*
16254372 ATAAAAAATAAAAAA
1 ATAAAACATAAAAAA
*
16254387 AT-AAACA-AAAAAT
1 ATAAAACATAAAAAA
16254400 ATAAA
1 ATAAA
16254405 GAATAAAAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
13 7 0.17
14 6 0.14
15 16 0.38
16 9 0.21
17 4 0.10
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (15 bp):
ATAAAACATAAAAAA
Found at i:16254409 original size:20 final size:19
Alignment explanation
Indices: 16254374--16254411 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
16254364 ATAAAAAAAT
16254374 AAAAAATAAAAAAATAAAC
1 AAAAAATAAAAAAATAAAC
*
16254393 AAAAAATATAAAGAATAAA
1 AAAAAATA-AAAAAATAAA
16254412 AGGTACATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.13
Consensus pattern (19 bp):
AAAAAATAAAAAAATAAAC
Found at i:16256054 original size:18 final size:18
Alignment explanation
Indices: 16256031--16256065 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16256021 TTTTGGGCCG
* *
16256031 CGTTTGTAATTGGGCCAC
1 CGTTTGAAATCGGGCCAC
16256049 CGTTTGAAATCGGGCCA
1 CGTTTGAAATCGGGCCA
16256066 TGTAATTTGT
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:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (18 bp):
CGTTTGAAATCGGGCCAC
Found at i:16262706 original size:24 final size:25
Alignment explanation
Indices: 16262679--16262744 Score: 80
Period size: 25 Copynumber: 2.7 Consensus size: 25
16262669 TCATATGATT
*
16262679 TTACCGATTT-TAGCTCATGAGAGC
1 TTACCGATTTACAGCTCATGAGAGC
* *
16262703 TTACTGATTTACAGCTCGTGAGAGC
1 TTACCGATTTACAGCTCATGAGAGC
* *
16262728 ATACCGATTCACAGCTC
1 TTACCGATTTACAGCTC
16262745 GTATGAGCAT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
24 9 0.26
25 26 0.74
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (25 bp):
TTACCGATTTACAGCTCATGAGAGC
Found at i:16262724 original size:25 final size:25
Alignment explanation
Indices: 16262690--16262756 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
16262680 TACCGATTTT
* * * *
16262690 AGCTCATGAGAGCTTACTGATTTAC
1 AGCTCGTGAGAGCATACCGATTCAC
16262715 AGCTCGTGAGAGCATACCGATTCAC
1 AGCTCGTGAGAGCATACCGATTCAC
16262740 AGCTCGT-ATGAGCATAC
1 AGCTCGTGA-GAGCATAC
16262757 ATGTACAGGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
24 1 0.03
25 36 0.97
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.25
Consensus pattern (25 bp):
AGCTCGTGAGAGCATACCGATTCAC
Found at i:16267244 original size:20 final size:20
Alignment explanation
Indices: 16267219--16267262 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
16267209 TTCATAGTAT
16267219 TTTATTAACTTAATATTAAA
1 TTTATTAACTTAATATTAAA
* *
16267239 TTTATTATCTTAATATTAGA
1 TTTATTAACTTAATATTAAA
16267259 TTTA
1 TTTA
16267263 ATTTAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (20 bp):
TTTATTAACTTAATATTAAA
Found at i:16277248 original size:74 final size:75
Alignment explanation
Indices: 16277123--16277268 Score: 267
Period size: 74 Copynumber: 2.0 Consensus size: 75
16277113 CTGAGTGTGC
*
16277123 AGTATGAATTAGAATCAGATCGGGGGCAAGAGTTAGCTGTGTTACTGAGGAAGATTAGAATGCTG
1 AGTATGAATTAGAATCAGATCGGGAGCAAGAGTTAGCTGTGTTACTGAGGAAGATTAGAATGCTG
16277188 AGCAATAGGG
66 AGCAATAGGG
*
16277198 AGTATGAATTAGAATCAGATC-GGAGCAAGAGTTAGCTGTGTTACTTAGGAAGATTAGAATGCTG
1 AGTATGAATTAGAATCAGATCGGGAGCAAGAGTTAGCTGTGTTACTGAGGAAGATTAGAATGCTG
16277262 AGCAATA
66 AGCAATA
16277269 AGGCAAAGCT
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
74 48 0.70
75 21 0.30
ACGTcount: A:0.35, C:0.10, G:0.30, T:0.25
Consensus pattern (75 bp):
AGTATGAATTAGAATCAGATCGGGAGCAAGAGTTAGCTGTGTTACTGAGGAAGATTAGAATGCTG
AGCAATAGGG
Found at i:16277559 original size:24 final size:24
Alignment explanation
Indices: 16277532--16277577 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
16277522 AGAATAGTCC
* *
16277532 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
16277556 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
16277578 AAAAAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:16285906 original size:45 final size:44
Alignment explanation
Indices: 16285810--16285917 Score: 132
Period size: 45 Copynumber: 2.4 Consensus size: 44
16285800 ATCGCATCTA
*
16285810 GAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCT
1 GAAGTTGCAGTGGAGCAGACTAAGTAAGCAAATCTTATCCTCCT
*
16285854 GAAGTTGCAGT-GAGGCAGACTGAAG-ATGGCAAATCTTAT-CTCCCT
1 GAAGTTGCAGTGGA-GCAGACT-AAGTA-AGCAAATCTTATCCT-CCT
*
16285899 GAAGTTGCAGTGGAACAGA
1 GAAGTTGCAGTGGAGCAGA
16285918 TTAAAGCCGA
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
43 2 0.04
44 21 0.38
45 31 0.55
46 2 0.04
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.23
Consensus pattern (44 bp):
GAAGTTGCAGTGGAGCAGACTAAGTAAGCAAATCTTATCCTCCT
Found at i:16286047 original size:128 final size:126
Alignment explanation
Indices: 16285885--16286120 Score: 384
Period size: 128 Copynumber: 1.9 Consensus size: 126
16285875 GAAGATGGCA
*
16285885 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTG
16285950 CAGTGGAGTGGATTAAAAACACAGATCTTATCT-CTCTGAAGTTGCAGAGAGCAGATTGCATCT
66 CAGTGGAGTGGATTAAAAACA-A-ATCTTATCTAC-CTGAAGTTGCAGAGAGCAGATTGCATCT
** * *
16286013 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTGATAATCCTATCTCCTTGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTG
*
16286078 CAGTGGAGTGGATTAAAATCAAATCTTATCTACCTGAAGTTGC
66 CAGTGGAGTGGATTAAAAACAAATCTTATCTACCTGAAGTTGC
16286121 CGCGGAGTAG
Statistics
Matches: 101, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
126 19 0.19
127 2 0.02
128 80 0.79
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (126 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTG
CAGTGGAGTGGATTAAAAACAAATCTTATCTACCTGAAGTTGCAGAGAGCAGATTGCATCT
Found at i:16286128 original size:86 final size:87
Alignment explanation
Indices: 16285885--16286210 Score: 295
Period size: 86 Copynumber: 3.8 Consensus size: 87
16285875 GAAGATGGCA
* * * * ** * * * *
16285885 AATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTT
1 AATCCTATCTCCCAGAAGTTGCAGTGGAGCGGATTAAAATC-ACAATCTTATCTACCTGAAGTTG
* * ** *
16285950 CAGTGGAGTGGATTAAAAAC-AC
65 CAGCGGAGTAGATTAAAGCCGAT
* * * * * ** * *
16285972 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATT-GCATC-TAATCTTATCTCCCTGAAGTTG
1 A-ATCCTATCTCCCAGAAGTTGCAGTGGAGCGGATTAAAATCACAATCTTATCTACCTGAAGTTG
* *
16286034 CAGTGGAGTAGATTAAAGCTGAT
65 CAGCGGAGTAGATTAAAGCCGAT
** *
16286057 AATCCTATCTCCTTGAAGTTGCAGTGGAGTGGATTAAAATCA-AATCTTATCTACCTGAAGTTGC
1 AATCCTATCTCCCAGAAGTTGCAGTGGAGCGGATTAAAATCACAATCTTATCTACCTGAAGTTGC
*
16286121 CGCGGAGTAGATTAAAGCCGAT
66 AGCGGAGTAGATTAAAGCCGAT
*
16286143 AATCCTATCTCCCAGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTAT-TTCTCTGAAGTT
1 AATCCTATCTCCCAGAAGTTGCAGTGGAGCGGATTAAAATCACA-ATCTTATCTAC-CTGAAGTT
16286207 GCAG
64 GCAG
16286211 AGAGCAGATC
Statistics
Matches: 200, Mismatches: 31, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
84 56 0.28
85 9 0.05
86 83 0.41
87 12 0.06
88 40 0.20
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (87 bp):
AATCCTATCTCCCAGAAGTTGCAGTGGAGCGGATTAAAATCACAATCTTATCTACCTGAAGTTGC
AGCGGAGTAGATTAAAGCCGAT
Found at i:16286189 original size:214 final size:214
Alignment explanation
Indices: 16285883--16286309 Score: 674
Period size: 214 Copynumber: 2.0 Consensus size: 214
16285873 CTGAAGATGG
* * *
16285883 CAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCGATAATCCTATCTCCCTGAAGT
1 CAAATCTTATCTACCTGAAGTTGCAGCGGAACAGATTAAAGCCGATAATCCTATCTCCCAGAAGT
* * *
16285948 TTCAGTGGAGTGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATTGCATCT
66 TGCAGTGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
* * * *
16286013 AATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCTGATAATCCTATCTCCTTGAAGTTG
131 AATCTCATCTCCCTGAAGTTGCAGGGGAGCAGATTAAAGCTGATAATCCTATCTCCCTGAAGTTG
* *
16286078 CAGTGGAGTGGATTAAAAT
196 CAGTAGAGCGGATTAAAAT
* **
16286097 CAAATCTTATCTACCTGAAGTTGCCGCGGAGTAGATTAAAGCCGATAATCCTATCTCCCAGAAGT
1 CAAATCTTATCTACCTGAAGTTGCAGCGGAACAGATTAAAGCCGATAATCCTATCTCCCAGAAGT
* *
16286162 TGCAGTGGAGCGGATTAAAATCACAGATCTTATTTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
66 TGCAGTGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
* * *
16286227 AATCTCATCTCCCTGAAGTTGCAGGGGAGCAGATTAAAGTTGATAATCCTGTCTCCCTGAATTTG
131 AATCTCATCTCCCTGAAGTTGCAGGGGAGCAGATTAAAGCTGATAATCCTATCTCCCTGAAGTTG
16286292 CAGTAGAGCGGATTAAAA
196 CAGTAGAGCGGATTAAAA
16286310 CCTTGGATCT
Statistics
Matches: 193, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
214 193 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.29
Consensus pattern (214 bp):
CAAATCTTATCTACCTGAAGTTGCAGCGGAACAGATTAAAGCCGATAATCCTATCTCCCAGAAGT
TGCAGTGGAGCGGATTAAAAACACAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
AATCTCATCTCCCTGAAGTTGCAGGGGAGCAGATTAAAGCTGATAATCCTATCTCCCTGAAGTTG
CAGTAGAGCGGATTAAAAT
Found at i:16286282 original size:44 final size:43
Alignment explanation
Indices: 16285851--16286309 Score: 299
Period size: 44 Copynumber: 10.7 Consensus size: 43
16285841 GTCTTATCCT
* * *
16285851 CCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA-AATCTTATCTC
1 CCTGAAGTTGCAGTGGA-GCAGA-TTAAAAT-G-ATAATCCTATCTC
* **
16285896 CCTGAAGTTGCAGTGGAACAGATTAAAGCCGATAATCCTATCTC
1 CCTGAAGTTGCAGTGGAGCAGATTAAA-ATGATAATCCTATCTC
* ** ** * *
16285940 CCTGAAGTTTCAGTGGAGTGGATTAAAAACACAGATCTTATCTC
1 CCTGAAGTTGCAGTGGAGCAGATTAAAATGATA-ATCCTATCTC
* * ** * *
16285984 TCTGAAGTTGCAG-AGAGCAGATT-GCAT-CTAATCTTATCTC
1 CCTGAAGTTGCAGTGGAGCAGATTAAAATGATAATCCTATCTC
* *
16286024 CCTGAAGTTGCAGTGGAGTAGATTAAAGCTGATAATCCTATCTC
1 CCTGAAGTTGCAGTGGAGCAGATTAAA-ATGATAATCCTATCTC
* ** * * *
16286068 CTTGAAGTTGCAGTGGAGTGGATTAAAATCA-AATCTTATCTA
1 CCTGAAGTTGCAGTGGAGCAGATTAAAATGATAATCCTATCTC
* * * **
16286110 CCTGAAGTTGCCGCGGAGTAGATTAAAGCCGATAATCCTATCTC
1 CCTGAAGTTGCAGTGGAGCAGATTAAA-ATGATAATCCTATCTC
* * * * * *
16286154 CCAGAAGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATTTC
1 CCTGAAGTTGCAGTGGAGCAGATTAAAATGATA-ATCCTATCTC
* * *** *
16286198 TCTGAAGTTGCAG-AGAGCAGA-TCGCAT-CTAAT-CTCATCTC
1 CCTGAAGTTGCAGTGGAGCAGATTAAAATGATAATCCT-ATCTC
* * *
16286238 CCTGAAGTTGCAGGGGAGCAGATTAAAGTTGATAATCCTGTCTC
1 CCTGAAGTTGCAGTGGAGCAGATTAAA-ATGATAATCCTATCTC
* * *
16286282 CCTGAATTTGCAGTAGAGCGGATTAAAA
1 CCTGAAGTTGCAGTGGAGCAGATTAAAA
16286310 CCTTGGATCT
Statistics
Matches: 314, Mismatches: 83, Indels: 36
0.73 0.19 0.08
Matches are distributed among these distances:
39 1 0.00
40 40 0.13
41 17 0.05
42 37 0.12
43 23 0.07
44 174 0.55
45 20 0.06
46 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (43 bp):
CCTGAAGTTGCAGTGGAGCAGATTAAAATGATAATCCTATCTC
Found at i:16286293 original size:128 final size:128
Alignment explanation
Indices: 16286099--16286383 Score: 390
Period size: 128 Copynumber: 2.2 Consensus size: 128
16286089 ATTAAAATCA
* * *
16286099 AATCTTATCTACCTGAAGTTGCCGCGGAGTAGATTAAAGCCGATAATCCTATCTCCCAGAAGTTG
1 AATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTAAAGCCGATAATCCTATCTCCCAGAAGTTG
* * * *
16286164 CAGTGGAGCGGATTAAAATCACAGATCTTATTTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
66 CAGTAGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCT
* * ** * * *
16286227 AATCTCATCTCCCTGAAGTTGCAGGGGAGCAGATTAAAGTTGATAATCCTGTCTCCCTGAATTTG
1 AATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTAAAGCCGATAATCCTATCTCCCAGAAGTTG
*** *
16286292 CAGTAGAGCGGATTAAAACCTTGGATCTTATCTCTCTAAAGTTGCAGAGAGTAGATCGCATCT
66 CAGTAGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCT
* *
16286355 AGTCTTATCTCCCTGAAGTTGCAGTGGAG
1 AATCTTATCTCCCTGAAGTTGCAGCGGAG
16286384 TAGACCCCAG
Statistics
Matches: 136, Mismatches: 21, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
128 136 1.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (128 bp):
AATCTTATCTCCCTGAAGTTGCAGCGGAGCAGATTAAAGCCGATAATCCTATCTCCCAGAAGTTG
CAGTAGAGCGGATTAAAACCACAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCT
Found at i:16288006 original size:22 final size:25
Alignment explanation
Indices: 16287981--16288029 Score: 68
Period size: 22 Copynumber: 2.1 Consensus size: 25
16287971 TTAAAACAAA
*
16287981 TATTTTT-ATA-TGTACTTA-TATT
1 TATTTTTAATATTGTAATTATTATT
16288003 TATTTTTAATATTGTAATTATTATT
1 TATTTTTAATATTGTAATTATTATT
16288028 TA
1 TA
16288030 ATATTTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 7 0.30
23 3 0.13
24 7 0.30
25 6 0.26
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (25 bp):
TATTTTTAATATTGTAATTATTATT
Found at i:16290308 original size:26 final size:26
Alignment explanation
Indices: 16290272--16290323 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
16290262 AGACAAAAAA
16290272 TTCAAAGATGAAGTTTAGGGGTTTTT
1 TTCAAAGATGAAGTTTAGGGGTTTTT
16290298 TTCAAAGATGAAGTTTAGGGGTTTTT
1 TTCAAAGATGAAGTTTAGGGGTTTTT
16290324 CTCTCTAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.04, G:0.27, T:0.42
Consensus pattern (26 bp):
TTCAAAGATGAAGTTTAGGGGTTTTT
Found at i:16296011 original size:12 final size:12
Alignment explanation
Indices: 16295996--16296024 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
16295986 TTACTTACTC
16295996 ACTTACTTGTTT
1 ACTTACTTGTTT
16296008 ACTTACTTGTTT
1 ACTTACTTGTTT
16296020 ACTTA
1 ACTTA
16296025 AATATCTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.21, C:0.17, G:0.07, T:0.55
Consensus pattern (12 bp):
ACTTACTTGTTT
Found at i:16296348 original size:50 final size:50
Alignment explanation
Indices: 16296273--16296512 Score: 239
Period size: 50 Copynumber: 4.7 Consensus size: 50
16296263 TTTTCTGCAC
* * * **
16296273 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * ** * *
16296323 TGCCCATGACATGTCCCAGACATGGTCTTACGGGGGAACTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
16296373 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-ATCGG
* * *
16296424 -GCCAACGCCATGTCCCGGACATGGTCGTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* *
16296479 TGCCAATGCCATGTCCTAGACATGGTCTTACATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATG
16296513 AGATCTCATT
Statistics
Matches: 156, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
50 122 0.78
51 3 0.02
52 1 0.01
55 1 0.01
56 29 0.19
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:16301476 original size:24 final size:24
Alignment explanation
Indices: 16301444--16301489 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
16301434 ATCTTCTACC
16301444 TCTGTTTCGGCTAGAATACCTGCT
1 TCTGTTTCGGCTAGAATACCTGCT
16301468 TCTGTTTCGGCTAGAATACCTG
1 TCTGTTTCGGCTAGAATACCTG
16301490 GTTGAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.24, G:0.22, T:0.37
Consensus pattern (24 bp):
TCTGTTTCGGCTAGAATACCTGCT
Found at i:16303579 original size:12 final size:12
Alignment explanation
Indices: 16303564--16303592 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
16303554 TTACTTACTC
16303564 ACTTACTTGTTT
1 ACTTACTTGTTT
16303576 ACTTACTTGTTT
1 ACTTACTTGTTT
16303588 ACTTA
1 ACTTA
16303593 AATATCTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.21, C:0.17, G:0.07, T:0.55
Consensus pattern (12 bp):
ACTTACTTGTTT
Found at i:16303917 original size:50 final size:50
Alignment explanation
Indices: 16303841--16304080 Score: 255
Period size: 50 Copynumber: 4.7 Consensus size: 50
16303831 TTTTCTGTAC
* * * **
16303841 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
16303891 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * *
16303941 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * * * *
16303991 TGCCAACGCTATGTCTCGGACATGGTCGTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
*
16304047 TGCTAATGCCATGTCCCAGACATGGTCTTACATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATG
16304081 AGATCTCATT
Statistics
Matches: 157, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
50 127 0.81
53 1 0.01
56 29 0.18
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:16304069 original size:56 final size:50
Alignment explanation
Indices: 16303791--16304080 Score: 235
Period size: 50 Copynumber: 5.7 Consensus size: 50
16303781 CTGATAATAC
* * * * **
16303791 ATGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGA--TGTTTTC-TG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
* * * * ** * *
16303838 TACTGCCAATGCCATATCCTAGATATGGTCTTACATGGGAGTTCTCATATCG
1 -A-TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
* * * ** *
16303890 GTGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
*
16303940 GTGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
* * * * *
16303990 GTGCCAACGCTATGTCTCGGACATGGTCGTACATGGGACCTCTCATAATCTCAATG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCT---TG
* *
16304046 ATGCTAATGCCATGTCCCAGACATGGTCTTACATG
1 ATGCCAACGCCATGTCCCAGACATGGTCTTACATG
16304081 AGATCTCATT
Statistics
Matches: 195, Mismatches: 37, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
48 1 0.01
49 31 0.16
50 125 0.64
51 3 0.02
52 1 0.01
53 4 0.02
56 30 0.15
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.28
Consensus pattern (50 bp):
ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTG
Found at i:16305641 original size:140 final size:139
Alignment explanation
Indices: 16305389--16305898 Score: 624
Period size: 140 Copynumber: 3.6 Consensus size: 139
16305379 GTTCTAAGAT
* * * * * * *
16305389 GACACTTTTGTGCCAAAACTTTTCTAAGTGTTGGGATAGACTTGTCAACATACACTTTGGTCAAC
1 GACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGACATATACTTTGGCCAAC
* *
16305454 TCTTTATATAAGGGTTGGGATATGTATGCTTAAGGCAATGCTTAAATAAGAGTAAGCTTTGTCCA
66 TCTTTATATAAGGGTTGGGATATGCATGCTTAAGGCAACGCTTAAATAAGAGT-AGCTTTGTCCA
16305519 ACACTATGCC
130 ACACTATGCC
* * * *
16305529 GACACTTTTGGGCCGACACTTTCCTAAGTGTTGGAATGGACTTGTTGACATATACTTTGGGCAAC
1 GACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGACATATACTTTGGCCAAC
* ** * * * *
16305594 TCTTTGTATAAGGGTTGGGATATGCATGCTTAAAACAACACTTAAATAAAAGTCGGCTTTTTCCA
66 TCTTTATATAAGGGTTGGGATATGCATGCTTAAGGCAACGCTTAAATAAGAGT-AGCTTTGTCCA
*
16305659 ACACTATACC
130 ACACTATGCC
* * * * *
16305669 AACACTTTTGGGTCGACACTTTCCTAAGTGTTGGGATAAACTTGTCGACATATGCTTTGACCAAC
1 GACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGACATATACTTTGGCCAAC
* * * * *
16305734 TCTTTATATAAGGGTTGGGATATGTATACTTAAGGCGACGCTTAAATAAGAGTCGATTTTGTCCA
66 TCTTTATATAAGGGTTGGGATATGCATGCTTAAGGCAACGCTTAAATAAGAGTAG-CTTTGTCCA
* * **
16305799 ACATTACGGG
130 ACACTATGCC
* * * * *
16305809 GACCCTTTTGGGCCGACACTTTCCTAAATGTTGGGATAGACTTGTCGACATATGCTTTAGCCGAC
1 GACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGACATATACTTTGGCCAAC
*
16305874 TCTTTGTATAAGGGTTGGGATATGC
66 TCTTTATATAAGGGTTGGGATATGC
16305899 CTTTTCTAAC
Statistics
Matches: 313, Mismatches: 56, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
139 1 0.00
140 312 1.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (139 bp):
GACACTTTTGGGCCGACACTTTCCTAAGTGTTGGGATAGACTTGTCGACATATACTTTGGCCAAC
TCTTTATATAAGGGTTGGGATATGCATGCTTAAGGCAACGCTTAAATAAGAGTAGCTTTGTCCAA
CACTATGCC
Found at i:16307487 original size:5 final size:5
Alignment explanation
Indices: 16307471--16307507 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
16307461 AGATTTTTTT
*
16307471 GGCCC GGGCCC GGCCC GGCCC GGCCC TGCCC GGCCC G
1 GGCCC -GGCCC GGCCC GGCCC GGCCC GGCCC GGCCC G
16307508 AAAAATATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.00, C:0.57, G:0.41, T:0.03
Consensus pattern (5 bp):
GGCCC
Found at i:16307704 original size:86 final size:85
Alignment explanation
Indices: 16307607--16307778 Score: 226
Period size: 86 Copynumber: 2.0 Consensus size: 85
16307597 TTAATACAAT
* *
16307607 TAACAATTAATAATTTGATGTAATTTG-ATAATTTTACTAATAATTAAT-ACAATT-A-ACAATT
1 TAACAATTAATAA-TT-A-ATAATTTGAATAATTTGA-TAAT-ATTAATAACAATTAATACAATT
16307668 AATAATTTTACTAACAAAATGTTAG
61 AATAATTTTACTAACAAAATGTTAG
* *
16307693 TAACAATTAATAATTAATAATTTGATATAATTTGATAATTTTAGTAACAATTAATACAATTAATA
1 TAACAATTAATAATTAATAATTTGA-ATAATTTGATAATATTAATAACAATTAATACAATTAATA
16307758 ATTTTACTAACAAAATGTTAG
65 ATTTTACTAACAAAATGTTAG
16307779 ATTTTACAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
83 11 0.14
84 11 0.14
85 11 0.14
86 44 0.57
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (85 bp):
TAACAATTAATAATTAATAATTTGAATAATTTGATAATATTAATAACAATTAATACAATTAATAA
TTTTACTAACAAAATGTTAG
Found at i:16307803 original size:17 final size:17
Alignment explanation
Indices: 16307767--16307806 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
16307757 AATTTTACTA
*
16307767 ACAAAATGTTAGATTTT
1 ACAAAATGTTAGATTGT
16307784 ACAAAATGTT-GATTGGT
1 ACAAAATGTTAGATT-GT
16307801 ACAAAA
1 ACAAAA
16307807 AATATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.45, C:0.07, G:0.15, T:0.33
Consensus pattern (17 bp):
ACAAAATGTTAGATTGT
Found at i:16307843 original size:16 final size:16
Alignment explanation
Indices: 16307824--16307880 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
16307814 AATTTGATAC
*
16307824 AATTTTAATAATAATT
1 AATTTTAATAACAATT
*
16307840 AATTTTGATAACAATT
1 AATTTTAATAACAATT
16307856 AATTTTAATAACAATT
1 AATTTTAATAACAATT
*
16307872 AGTTTTAAT
1 AATTTTAAT
16307881 TTTAATTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.47
Consensus pattern (16 bp):
AATTTTAATAACAATT
Found at i:16309565 original size:35 final size:34
Alignment explanation
Indices: 16309517--16309750 Score: 177
Period size: 35 Copynumber: 6.5 Consensus size: 34
16309507 TGGATGTGTC
*
16309517 TATCCCAACCTTTTTAAGGTTGTCTTAGACGGGTT
1 TATCCTAACCTTTTTAAGGTTG-CTTAGACGGGTT
* *
16309552 TATCCTAATCTTTTTAAGGTTGCATTAGACAGGTT
1 TATCCTAACCTTTTTAAGGTTGC-TTAGACGGGTT
16309587 TAT-CTCAACCTTTTTTAAGGTTGCCTTAGACGGGTCT
1 TATCCT-AACC-TTTTTAAGGTTG-CTTAGACGGGT-T
* * *
16309624 GT-TCC-AACTTTTTTTAAAGGTTGCCTTAGTCGGGTC
1 -TATCCTAAC-CTTTTT-AAGGTTG-CTTAGACGGGTT
* * * *
16309660 TATCCCAACCTTTTTAGGGTTGCTTTATACGGTTT
1 TATCCTAACCTTTTTAAGGTTGC-TTAGACGGGTT
**
16309695 TATCCTAACCTTTTTTTAAAGGTTGCCTTAGATAAGGTT
1 TATCCTAACC--TTTTT-AAGGTTG-CTTAGA-CGGGTT
* *
16309734 TATCCCAACTTTTTTAA
1 TATCCTAACCTTTTTAA
16309751 AAGGTTGCCT
Statistics
Matches: 160, Mismatches: 22, Indels: 33
0.74 0.10 0.15
Matches are distributed among these distances:
34 4 0.03
35 59 0.37
36 39 0.24
37 34 0.21
38 12 0.08
39 12 0.08
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.43
Consensus pattern (34 bp):
TATCCTAACCTTTTTAAGGTTGCTTAGACGGGTT
Found at i:16309647 original size:37 final size:35
Alignment explanation
Indices: 16309527--16309817 Score: 155
Period size: 37 Copynumber: 7.9 Consensus size: 35
16309517 TATCCCAACC
* * *
16309527 TTTTTAAGGTTGTCTTAGACGGGTT-TATCCTAA-TC
1 TTTTTAAGGTTGCCTTAGACAGGTTAT-TCC-AACTT
* *
16309562 TTTTTAAGGTTGCATTAGACAGGTT-TATCTCAACCT
1 TTTTTAAGGTTGCCTTAGACAGGTTAT-TC-CAACTT
* *
16309598 TTTTTAAGGTTGCCTTAGACGGGTCTGTTCCAACTT
1 TTTTTAAGGTTGCCTTAGACAGGT-TATTCCAACTT
* * * *
16309634 TTTTTAAAGGTTGCCTTAGTCGGGTCTATCCCAAC-C
1 TTTTT-AAGGTTGCCTTAGACAGGT-TATTCCAACTT
* * * *
16309670 TTTTTAGGGTTGCTTTATAC-GGTTTTATCCTAACCTT
1 TTTTTAAGGTTGCCTTAGACAGGTTAT-TCC-AA-CTT
* *
16309707 TTTTTAAAGGTTGCCTTAGATAAGGTTTATCCCAACTT
1 TTTTT-AAGGTTGCCTTAGA-CAGG-TTATTCCAACTT
* **
16309745 TTTTAAAAGGTTGCCTTCA-ATTGGTTTATTCCAACCTT
1 TTTT-TAAGGTTGCCTT-AGACAGG-TTATTCCAA-CTT
* *
16309783 TTTTAAAGGTTGACCTT-GACTAGGTCTTTTCCAAC
1 TTTTTAAGGTTG-CCTTAGAC-AGGT-TATTCCAAC
16309818 CCTTCAATAA
Statistics
Matches: 204, Mismatches: 32, Indels: 38
0.74 0.12 0.14
Matches are distributed among these distances:
33 2 0.01
34 5 0.02
35 41 0.20
36 39 0.19
37 56 0.27
38 51 0.25
39 3 0.01
40 4 0.02
41 3 0.01
ACGTcount: A:0.21, C:0.18, G:0.18, T:0.43
Consensus pattern (35 bp):
TTTTTAAGGTTGCCTTAGACAGGTTATTCCAACTT
Found at i:16309708 original size:73 final size:72
Alignment explanation
Indices: 16309514--16309750 Score: 259
Period size: 73 Copynumber: 3.3 Consensus size: 72
16309504 CTTTGGATGT
* * *
16309514 GTCTATCCCAACCTTTTTAAGGTTG-TCTTAGACGGGTTTATCCTAA-TCTTTTT-AAGGTTGCA
1 GTCTATCCCAACCTTTTTAAGGTTGCT-TTAGACGGTTTTATCCTAACTTTTTTTAAAGGTTGCC
*
16309576 TTAGACAG
65 TTAGTCAG
* * * *
16309584 GTTTATCTCAACCTTTTTTAAGGTTGCCTTAGACGGGTCTGT-TCC-AACTTTTTTTAAAGGTTG
1 GTCTATCCCAACC-TTTTTAAGGTTGCTTTAGAC-GGT-TTTATCCTAACTTTTTTTAAAGGTTG
*
16309647 CCTTAGTCGG
63 CCTTAGTCAG
* *
16309657 GTCTATCCCAACCTTTTTAGGGTTGCTTTATACGGTTTTATCCTAACCTTTTTTTAAAGGTTGCC
1 GTCTATCCCAACCTTTTTAAGGTTGCTTTAGACGGTTTTATCCTAA-CTTTTTTTAAAGGTTGCC
*
16309722 TTAGATAAG
65 TTAG-TCAG
* *
16309731 GTTTATCCCAACTTTTTTAA
1 GTCTATCCCAACCTTTTTAA
16309751 AAGGTTGCCT
Statistics
Matches: 137, Mismatches: 20, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
70 13 0.09
71 26 0.19
72 30 0.22
73 49 0.36
74 19 0.14
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.43
Consensus pattern (72 bp):
GTCTATCCCAACCTTTTTAAGGTTGCTTTAGACGGTTTTATCCTAACTTTTTTTAAAGGTTGCCT
TAGTCAG
Found at i:16314747 original size:9 final size:9
Alignment explanation
Indices: 16314733--16314787 Score: 74
Period size: 9 Copynumber: 5.9 Consensus size: 9
16314723 ATTCACATCC
16314733 TTCTCTCAA
1 TTCTCTCAA
16314742 TTCTCTCAA
1 TTCTCTCAA
16314751 TTCTCTCAAA
1 TTCTCTC-AA
16314761 TTCTCTCAAA
1 TTCTCTC-AA
*
16314771 CTCTCTCAA
1 TTCTCTCAA
*
16314780 GTCTCTCA
1 TTCTCTCA
16314788 TTTTTAATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
9 25 0.58
10 18 0.42
ACGTcount: A:0.24, C:0.35, G:0.02, T:0.40
Consensus pattern (9 bp):
TTCTCTCAA
Found at i:16314764 original size:10 final size:10
Alignment explanation
Indices: 16314733--16314779 Score: 71
Period size: 10 Copynumber: 4.9 Consensus size: 10
16314723 ATTCACATCC
16314733 TTCTCTC-AA
1 TTCTCTCAAA
16314742 TTCTCTC-AA
1 TTCTCTCAAA
16314751 TTCTCTCAAA
1 TTCTCTCAAA
16314761 TTCTCTCAAA
1 TTCTCTCAAA
*
16314771 CTCTCTCAA
1 TTCTCTCAA
16314780 GTCTCTCATT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
9 16 0.44
10 20 0.56
ACGTcount: A:0.26, C:0.34, G:0.00, T:0.40
Consensus pattern (10 bp):
TTCTCTCAAA
Found at i:16314764 original size:19 final size:19
Alignment explanation
Indices: 16314733--16314787 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
16314723 ATTCACATCC
16314733 TTCTCTCAATTCTCTC-AA
1 TTCTCTCAATTCTCTCAAA
16314751 TTCTCTCAAATTCTCTCAAA
1 TTCTCTC-AATTCTCTCAAA
* *
16314771 CTCTCTCAAGTCTCTCA
1 TTCTCTCAATTCTCTCA
16314788 TTTTTAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 7 0.21
19 18 0.55
20 8 0.24
ACGTcount: A:0.24, C:0.35, G:0.02, T:0.40
Consensus pattern (19 bp):
TTCTCTCAATTCTCTCAAA
Found at i:16315951 original size:51 final size:51
Alignment explanation
Indices: 16315875--16315978 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
16315865 CTAGAATATG
16315875 TTAGGCTATTATTAGATCAAAGCTCGGAAGCTGAGGTTAGTTACCTATTTT
1 TTAGGCTATTATTAGATCAAAGCTCGGAAGCTGAGGTTAGTTACCTATTTT
16315926 TTAGGCTATTATTAGATCAAAGCTCGGAAGCTGAGGTTAGTTACCTATTTT
1 TTAGGCTATTATTAGATCAAAGCTCGGAAGCTGAGGTTAGTTACCTATTTT
16315977 TT
1 TT
16315979 CAAACCTATA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.38
Consensus pattern (51 bp):
TTAGGCTATTATTAGATCAAAGCTCGGAAGCTGAGGTTAGTTACCTATTTT
Found at i:16320469 original size:232 final size:232
Alignment explanation
Indices: 16320063--16320525 Score: 793
Period size: 232 Copynumber: 2.0 Consensus size: 232
16320053 GAACTCCTGA
* * *
16320063 CCGCATAACGACCGTTACCTGGCCTCCCGGTTATACTTGAACTTGTGACTACATCACTGCCGTTG
1 CCGCATAACGACCGTCACCTGGCCTCCCGGTAATACTTGAACTTGTGACTACATCACTGCCGTCG
* * *
16320128 AGTGGGACCTTCACGTTGAATTCAACCCCTGATTGTATCAAACATTATTACCCTGAAACCGGATT
66 AATGAGACCTTCACGTTGAATTCAACCCCTGATTGTATCAAACATTATTACCCTGAAACCAGATT
16320193 TCCTCACGATGGGTTTCTAAGGTCATGGGTTTCCCTTCAAAACTACCTAAGAATTTCTGTCGTTT
131 TCCTCACGATGGGTTTCTAAGGTCATGGGTTTCCCTTCAAAACTACCTAAGAATTTCTGTCGTTT
* * * *
16320258 CAGTTGAAAACCTTGATCACTTTCAAAATACCCTAAG
196 CAGTCGAAAACCCTAAACACTTTCAAAATACCCTAAG
* *
16320295 CCGCATAACGACCGTCACCTGGCCTCCCGGTAATACTTGAACTTGTGACTGCATCA-TAGTCGTC
1 CCGCATAACGACCGTCACCTGGCCTCCCGGTAATACTTGAACTTGTGACTACATCACT-GCCGTC
*
16320359 GAATGAGACCTTCACGTTGAATTCAACCCCTGATTGTATCAAACATTATTACCGTGAAACCAGAT
65 GAATGAGACCTTCACGTTGAATTCAACCCCTGATTGTATCAAACATTATTACCCTGAAACCAGAT
16320424 TTCCTCACGATGGGTTTCTAAGGTCATGGGTTTCCCTTCAAAACTACCTAAGAATTTCTGTCGTT
130 TTCCTCACGATGGGTTTCTAAGGTCATGGGTTTCCCTTCAAAACTACCTAAGAATTTCTGTCGTT
16320489 TCAGTCGAAAACCCTAAACACTTTCAAAATACCCTAA
195 TCAGTCGAAAACCCTAAACACTTTCAAAATACCCTAA
16320526 ACCCTAACTC
Statistics
Matches: 217, Mismatches: 13, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
231 1 0.00
232 216 1.00
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.30
Consensus pattern (232 bp):
CCGCATAACGACCGTCACCTGGCCTCCCGGTAATACTTGAACTTGTGACTACATCACTGCCGTCG
AATGAGACCTTCACGTTGAATTCAACCCCTGATTGTATCAAACATTATTACCCTGAAACCAGATT
TCCTCACGATGGGTTTCTAAGGTCATGGGTTTCCCTTCAAAACTACCTAAGAATTTCTGTCGTTT
CAGTCGAAAACCCTAAACACTTTCAAAATACCCTAAG
Found at i:16321069 original size:28 final size:28
Alignment explanation
Indices: 16321016--16321069 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
16321006 GATAGAATAC
*
16321016 AAATTTAGGAACCAACTAAATCCAAAAA
1 AAATTTAGGAACCAACTAAATACAAAAA
* * *
16321044 AAATTTAGGAATCAATTAGATACAAA
1 AAATTTAGGAACCAACTAAATACAAA
16321070 TAGATAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.56, C:0.13, G:0.09, T:0.22
Consensus pattern (28 bp):
AAATTTAGGAACCAACTAAATACAAAAA
Found at i:16328035 original size:16 final size:15
Alignment explanation
Indices: 16327995--16328026 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
16327985 ACTTAGTCCA
16327995 ATAAATTAGTAACAC
1 ATAAATTAGTAACAC
16328010 ATAAATTAGTAACAC
1 ATAAATTAGTAACAC
16328025 AT
1 AT
16328027 TGAATTAGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.28
Consensus pattern (15 bp):
ATAAATTAGTAACAC
Found at i:16337316 original size:5 final size:5
Alignment explanation
Indices: 16337306--16337332 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
16337296 AAAAAAAGAT
16337306 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
16337333 ACGAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:16344306 original size:43 final size:43
Alignment explanation
Indices: 16344259--16344439 Score: 272
Period size: 43 Copynumber: 4.2 Consensus size: 43
16344249 GTCTTGCATG
* * *
16344259 GAAATCTCATACCGATGCCAAAAGGCCAGCTATGGTCTTACAC
1 GAAATCTCAAACCGATGCCAATAGCCCAGCTATGGTCTTACAC
* **
16344302 GAAATCTTAAATTGATGCCAATAGCCCAGCTATGGTCTTACAC
1 GAAATCTCAAACCGATGCCAATAGCCCAGCTATGGTCTTACAC
* * *
16344345 GAAATCTCAAATCGATGCCAATAGCCCAGCTATGGTTTTACAT
1 GAAATCTCAAACCGATGCCAATAGCCCAGCTATGGTCTTACAC
*
16344388 GAAATCTCAAACCGATGCCAATAGCCCAGCTATGGTCTTAAAC
1 GAAATCTCAAACCGATGCCAATAGCCCAGCTATGGTCTTACAC
16344431 GAAATCTCA
1 GAAATCTCA
16344440 CCTCGGAAGT
Statistics
Matches: 124, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 124 1.00
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (43 bp):
GAAATCTCAAACCGATGCCAATAGCCCAGCTATGGTCTTACAC
Found at i:16344621 original size:31 final size:30
Alignment explanation
Indices: 16344555--16344636 Score: 92
Period size: 31 Copynumber: 2.7 Consensus size: 30
16344545 TCCAATACTA
** *
16344555 AAATCAATTCGGCAATATATATCCATGTAT
1 AAATCAATTCGGCAATATATATCCACATAC
* *
16344585 GAATCAAATTCGGCAATATATATCTACATAC
1 AAATC-AATTCGGCAATATATATCCACATAC
* *
16344616 AAATCAATTCAGCAATGTATA
1 AAATCAATTCGGCAATATATA
16344637 AAACATATAC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
30 18 0.42
31 25 0.58
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (30 bp):
AAATCAATTCGGCAATATATATCCACATAC
Found at i:16347548 original size:18 final size:18
Alignment explanation
Indices: 16347525--16347560 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
16347515 ATTTAATTTG
16347525 ACAGAGTTAAAATTTACA
1 ACAGAGTTAAAATTTACA
16347543 ACAGAGTTAAAATTTACA
1 ACAGAGTTAAAATTTACA
16347561 CATAATAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.11, T:0.28
Consensus pattern (18 bp):
ACAGAGTTAAAATTTACA
Found at i:16350884 original size:110 final size:110
Alignment explanation
Indices: 16350753--16350977 Score: 441
Period size: 110 Copynumber: 2.0 Consensus size: 110
16350743 TGTTTAGTTG
*
16350753 AATGCTTAGATGTTTATTTTGTTATGTATGAGTTGGTTGTTTTGCTACCATTTTGATGATGGTTA
1 AATGGTTAGATGTTTATTTTGTTATGTATGAGTTGGTTGTTTTGCTACCATTTTGATGATGGTTA
16350818 AATTGTATCAAATAGGTGCATATGTTGCATGAATTGTTTGGCTCA
66 AATTGTATCAAATAGGTGCATATGTTGCATGAATTGTTTGGCTCA
16350863 AATGGTTAGATGTTTATTTTGTTATGTATGAGTTGGTTGTTTTGCTACCATTTTGATGATGGTTA
1 AATGGTTAGATGTTTATTTTGTTATGTATGAGTTGGTTGTTTTGCTACCATTTTGATGATGGTTA
16350928 AATTGTATCAAATAGGTGCATATGTTGCATGAATTGTTTGGCTCA
66 AATTGTATCAAATAGGTGCATATGTTGCATGAATTGTTTGGCTCA
16350973 AATGG
1 AATGG
16350978 CAAGTTTATG
Statistics
Matches: 114, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
110 114 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.45
Consensus pattern (110 bp):
AATGGTTAGATGTTTATTTTGTTATGTATGAGTTGGTTGTTTTGCTACCATTTTGATGATGGTTA
AATTGTATCAAATAGGTGCATATGTTGCATGAATTGTTTGGCTCA
Found at i:16357429 original size:15 final size:15
Alignment explanation
Indices: 16357411--16357441 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16357401 ATTAGATACG
*
16357411 ACACGATTTGATTAT
1 ACACGATTTAATTAT
16357426 ACACGATTTAATTAT
1 ACACGATTTAATTAT
16357441 A
1 A
16357442 TCGGTATGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (15 bp):
ACACGATTTAATTAT
Found at i:16360282 original size:25 final size:25
Alignment explanation
Indices: 16360238--16360285 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
16360228 AGCATTTTTT
*
16360238 TTTGAGAAGTGCTATAGAAAAGTGA
1 TTTGAGAAGTACTATAGAAAAGTGA
* *
16360263 TTTGAGAAGTACTTTTGAAAAGT
1 TTTGAGAAGTACTATAGAAAAGT
16360286 TTGGTTTAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.38, C:0.04, G:0.25, T:0.33
Consensus pattern (25 bp):
TTTGAGAAGTACTATAGAAAAGTGA
Found at i:16360401 original size:13 final size:13
Alignment explanation
Indices: 16360383--16360407 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16360373 AGCTAATATG
16360383 CATTTAAATAATA
1 CATTTAAATAATA
16360396 CATTTAAATAAT
1 CATTTAAATAAT
16360408 TTACTATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (13 bp):
CATTTAAATAATA
Found at i:16361417 original size:102 final size:102
Alignment explanation
Indices: 16361241--16361449 Score: 346
Period size: 102 Copynumber: 2.0 Consensus size: 102
16361231 ACCATTCCAT
* * * *
16361241 AATTTTACAACAACTTATTAATCCAACCTAACAAAATTGAACTTGTTTTATCATGTTTTTAAGCT
1 AATTTGACAACAACTTATTAATCCAACCTAACAAAATTCAACTTGTTTCATCATGCTTTTAAGCT
*
16361306 ATTCCATACCCTCATATACCATATCACTTGATCAAGC
66 ATTCCATACCCTCATATACCATATCACTTGATCAAGA
* *
16361343 AATTTGACAACAACTTATTAATCCAACCTAACCAAATTCAGCTTGTTTCATCATGCTTTTAAGCT
1 AATTTGACAACAACTTATTAATCCAACCTAACAAAATTCAACTTGTTTCATCATGCTTTTAAGCT
*
16361408 ATTCCATACCCTCATATACTATATCACTTGATCAAGA
66 ATTCCATACCCTCATATACCATATCACTTGATCAAGA
16361445 AATTT
1 AATTT
16361450 TTCATTCATG
Statistics
Matches: 99, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 99 1.00
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.36
Consensus pattern (102 bp):
AATTTGACAACAACTTATTAATCCAACCTAACAAAATTCAACTTGTTTCATCATGCTTTTAAGCT
ATTCCATACCCTCATATACCATATCACTTGATCAAGA
Found at i:16364946 original size:30 final size:30
Alignment explanation
Indices: 16364912--16364968 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
16364902 ATATATTTTC
16364912 GGGTTCTAAGTGTAAAACTGGGAATTTATG
1 GGGTTCTAAGTGTAAAACTGGGAATTTATG
*
16364942 GGGTTCTAAGTGTAAAATTGGGAATTT
1 GGGTTCTAAGTGTAAAACTGGGAATTT
16364969 TTAGGGTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (30 bp):
GGGTTCTAAGTGTAAAACTGGGAATTTATG
Found at i:16364976 original size:30 final size:30
Alignment explanation
Indices: 16364907--16364976 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
16364897 CGGGTATATA
*
16364907 TTTTCGGGTTCTAAGTGTAAAACTGGGAAT
1 TTTTAGGGTTCTAAGTGTAAAACTGGGAAT
* * *
16364937 TTATGGGGTTCTAAGTGTAAAATTGGGAAT
1 TTTTAGGGTTCTAAGTGTAAAACTGGGAAT
16364967 TTTTAGGGTT
1 TTTTAGGGTT
16364977 TCTAGTAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.26, C:0.06, G:0.29, T:0.40
Consensus pattern (30 bp):
TTTTAGGGTTCTAAGTGTAAAACTGGGAAT
Found at i:16368761 original size:15 final size:16
Alignment explanation
Indices: 16368732--16368761 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16368722 CAAACAAGCT
16368732 TTAACACATTATCAAA
1 TTAACACATTATCAAA
16368748 TTAACACA-TATCAA
1 TTAACACATTATCAA
16368762 CAAGGGACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:16370967 original size:25 final size:25
Alignment explanation
Indices: 16370923--16370971 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
16370913 GCTATGTTCC
*
16370923 AATCTACAACTCATGTGAGCATACT
1 AATCTACAACTCATGAGAGCATACT
* *
16370948 AATCTACAGCTCGTGAGAGCATAC
1 AATCTACAACTCATGAGAGCATAC
16370972 CGATTTATAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.24
Consensus pattern (25 bp):
AATCTACAACTCATGAGAGCATACT
Found at i:16370983 original size:25 final size:25
Alignment explanation
Indices: 16370953--16371021 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 25
16370943 ATACTAATCT
*
16370953 ACAGCTCGTGAGAGCATACCGATTT
1 ACAGCTCGTGAGAGCATACCGATTC
* * * * *
16370978 ATAGCTAGAGTGAGCATACTGATTC
1 ACAGCTCGTGAGAGCATACCGATTC
16371003 ACAGCTCGT-ATGAGCATAC
1 ACAGCTCGTGA-GAGCATAC
16371022 ATGTACGCAG
Statistics
Matches: 33, Mismatches: 10, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.25
Consensus pattern (25 bp):
ACAGCTCGTGAGAGCATACCGATTC
Found at i:16380812 original size:22 final size:22
Alignment explanation
Indices: 16380787--16380842 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
16380777 GTAAGAGGAT
*
16380787 AGCATTGAAGTGCTAAGCAGAA
1 AGCATCGAAGTGCTAAGCAGAA
* *
16380809 AGCACCGAAGTGCTAAGCAGAG
1 AGCATCGAAGTGCTAAGCAGAA
*
16380831 AGCATCAAAGTG
1 AGCATCGAAGTG
16380843 TTTAATAGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.39, C:0.18, G:0.29, T:0.14
Consensus pattern (22 bp):
AGCATCGAAGTGCTAAGCAGAA
Found at i:16389355 original size:15 final size:15
Alignment explanation
Indices: 16389335--16389383 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
16389325 GCAAGAACAC
16389335 CCTTGGGAACAACTA
1 CCTTGGGAACAACTA
*
16389350 CCTTGGAGAACATC-A
1 CCTTGG-GAACAACTA
**
16389365 TGTTGGGAACAACTA
1 CCTTGGGAACAACTA
16389380 CCTT
1 CCTT
16389384 TTGGAATAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
14 6 0.23
15 14 0.54
16 6 0.23
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (15 bp):
CCTTGGGAACAACTA
Found at i:16390095 original size:21 final size:22
Alignment explanation
Indices: 16390064--16390105 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
16390054 ATATTTCTCC
*
16390064 TCTTGAATTATGTTATTTATGT
1 TCTTGAATTATATTATTTATGT
16390086 TCTT-AATTATATTATTTATG
1 TCTTGAATTATATTATTTATG
16390106 CTTATATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.26, C:0.05, G:0.10, T:0.60
Consensus pattern (22 bp):
TCTTGAATTATATTATTTATGT
Found at i:16391185 original size:14 final size:14
Alignment explanation
Indices: 16391166--16391193 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16391156 ATAAAATTAT
16391166 AATTGATATTTAAA
1 AATTGATATTTAAA
16391180 AATTGATATTTAAA
1 AATTGATATTTAAA
16391194 GATACAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (14 bp):
AATTGATATTTAAA
Found at i:16393814 original size:10 final size:10
Alignment explanation
Indices: 16393799--16393823 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
16393789 ATTAATTATG
16393799 TAAAAAAATA
1 TAAAAAAATA
16393809 TAAAAAAATA
1 TAAAAAAATA
16393819 TAAAA
1 TAAAA
16393824 TATTTTAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
TAAAAAAATA
Found at i:16395823 original size:21 final size:22
Alignment explanation
Indices: 16395807--16395848 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
16395797 ACTTAAGTAT
16395807 TTAA-TTGA-ATTAATTAATAG
1 TTAACTTGACATTAATTAATAG
16395827 TTAACTTGACATTAATTTAATA
1 TTAACTTGACATTAA-TTAATA
16395849 AATTTGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 4 0.21
22 5 0.26
23 6 0.32
ACGTcount: A:0.43, C:0.05, G:0.07, T:0.45
Consensus pattern (22 bp):
TTAACTTGACATTAATTAATAG
Found at i:16397878 original size:30 final size:30
Alignment explanation
Indices: 16397844--16397908 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
16397834 CTGGGCATTT
* * *
16397844 CCACACGGGTAGGACACACGCCCATTTGTG
1 CCACACAGGCAGGACACACGCCCATGTGTG
*
16397874 CCACACAGGCAGGACACATGCCCATGTGTG
1 CCACACAGGCAGGACACACGCCCATGTGTG
*
16397904 TCACA
1 CCACA
16397909 TGGACTGGAC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.26, C:0.34, G:0.25, T:0.15
Consensus pattern (30 bp):
CCACACAGGCAGGACACACGCCCATGTGTG
Found at i:16402876 original size:14 final size:13
Alignment explanation
Indices: 16402855--16402896 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
16402845 TTTTTATTTA
16402855 TTTATTTTT-TAT
1 TTTATTTTTCTAT
16402867 TCTTATTTTTCTAT
1 T-TTATTTTTCTAT
*
16402881 TTTATTATTCTTAT
1 TTTATTTTTC-TAT
16402895 TT
1 TT
16402897 GTTTTATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
12 1 0.04
13 16 0.62
14 9 0.35
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATTTTTCTAT
Found at i:16402891 original size:22 final size:21
Alignment explanation
Indices: 16402848--16402896 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
16402838 TTTACCCTTT
16402848 TTATTTATTTATTTTTTATTC
1 TTATTTATTTATTTTTTATTC
16402869 TTATTT-TTCTATTTTATTATTC
1 TTATTTATT-TATTTT-TTATTC
16402891 TTATTT
1 TTATTT
16402897 GTTTTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.08
21 12 0.46
22 12 0.46
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (21 bp):
TTATTTATTTATTTTTTATTC
Found at i:16404262 original size:12 final size:12
Alignment explanation
Indices: 16404245--16404273 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
16404235 GAATTTATTT
16404245 GTTTTCTTTGTA
1 GTTTTCTTTGTA
16404257 GTTTTCTTTGTA
1 GTTTTCTTTGTA
16404269 GTTTT
1 GTTTT
16404274 TATTTATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.07, G:0.17, T:0.69
Consensus pattern (12 bp):
GTTTTCTTTGTA
Found at i:16424069 original size:24 final size:24
Alignment explanation
Indices: 16424037--16424098 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
16424027 ATTAAGGTTT
*
16424037 TATTTATTATTAAATTAT-AAAGTA
1 TATTAATTATTAAATTATGAAA-TA
*
16424061 TATTAATTATTATATTATGAAATA
1 TATTAATTATTAAATTATGAAATA
*
16424085 AATTAATTAATTAA
1 TATTAATT-ATTAA
16424099 GACATAACAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 25 0.78
25 7 0.22
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (24 bp):
TATTAATTATTAAATTATGAAATA
Found at i:16424671 original size:18 final size:18
Alignment explanation
Indices: 16424641--16424701 Score: 79
Period size: 18 Copynumber: 3.3 Consensus size: 18
16424631 TAAATAAAAT
*
16424641 AAAGTAAGTAAAAGAAACT
1 AAAG-AAGTAAAAGAAACA
*
16424660 AAAGAA-TGAAAAGAAAGA
1 AAAGAAGT-AAAAGAAACA
16424678 AAAGAAGTAAAAGAAACA
1 AAAGAAGTAAAAGAAACA
16424696 AAAGAA
1 AAAGAA
16424702 CAACAGAAGC
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.03
18 31 0.84
19 5 0.14
ACGTcount: A:0.70, C:0.03, G:0.18, T:0.08
Consensus pattern (18 bp):
AAAGAAGTAAAAGAAACA
Found at i:16424698 original size:9 final size:9
Alignment explanation
Indices: 16424650--16424701 Score: 50
Period size: 9 Copynumber: 5.8 Consensus size: 9
16424640 TAAAGTAAGT
16424650 AAAAGAAAC
1 AAAAGAAAC
* **
16424659 TAAAGAATG
1 AAAAGAAAC
*
16424668 AAAAGAAAG
1 AAAAGAAAC
**
16424677 AAAAGAAGT
1 AAAAGAAAC
16424686 AAAAGAAAC
1 AAAAGAAAC
16424695 AAAAGAA
1 AAAAGAA
16424702 CAACAGAAGC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.73, C:0.04, G:0.17, T:0.06
Consensus pattern (9 bp):
AAAAGAAAC
Found at i:16426030 original size:2 final size:2
Alignment explanation
Indices: 16426023--16426059 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
16426013 TTGGGCTACT
*
16426023 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TT TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
16426060 ATTTTTCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
TC
Found at i:16432126 original size:40 final size:40
Alignment explanation
Indices: 16432081--16432161 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
16432071 CCAGGTATAC
16432081 TCTTTGTCTTCTATGCTTAATAACATAATTGTTAATGGTT
1 TCTTTGTCTTCTATGCTTAATAACATAATTGTTAATGGTT
16432121 TCTTTGTCTTCTATGCTTAATAACATAATTGTTAATGGTT
1 TCTTTGTCTTCTATGCTTAATAACATAATTGTTAATGGTT
16432161 T
1 T
16432162 TAATGGTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.51
Consensus pattern (40 bp):
TCTTTGTCTTCTATGCTTAATAACATAATTGTTAATGGTT
Found at i:16436486 original size:17 final size:17
Alignment explanation
Indices: 16436464--16436497 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
16436454 CACTAATAGT
*
16436464 AAAATGTAATGACAATG
1 AAAATGCAATGACAATG
16436481 AAAATGCAATGACAATG
1 AAAATGCAATGACAATG
16436498 TATACTTATC
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:0.53, C:0.09, G:0.18, T:0.21
Consensus pattern (17 bp):
AAAATGCAATGACAATG
Found at i:16441493 original size:14 final size:14
Alignment explanation
Indices: 16441465--16441493 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
16441455 GCTTAGTGGC
16441465 TTTTGACTTGATTT
1 TTTTGACTTGATTT
16441479 TTTTG-CTTGATTT
1 TTTTGACTTGATTT
16441492 TT
1 TT
16441494 AAGCAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.10, C:0.07, G:0.14, T:0.69
Consensus pattern (14 bp):
TTTTGACTTGATTT
Found at i:16448309 original size:15 final size:16
Alignment explanation
Indices: 16448291--16448322 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
16448281 GAAAATATAG
16448291 AAAGAAA-AAAAAAGA
1 AAAGAAAGAAAAAAGA
16448306 AAAGAAAGAAAAAAGA
1 AAAGAAAGAAAAAAGA
16448322 A
1 A
16448323 CATATGTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAGAAAGAAAAAAGA
Found at i:16449604 original size:46 final size:46
Alignment explanation
Indices: 16449537--16449625 Score: 178
Period size: 46 Copynumber: 1.9 Consensus size: 46
16449527 GGAGTGGTTG
16449537 CTATTTATTTTCTATTTTTAGTAGCCATTACCACCAATAAATAATC
1 CTATTTATTTTCTATTTTTAGTAGCCATTACCACCAATAAATAATC
16449583 CTATTTATTTTCTATTTTTAGTAGCCATTACCACCAATAAATA
1 CTATTTATTTTCTATTTTTAGTAGCCATTACCACCAATAAATA
16449626 CCCCTATTCC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.33, C:0.19, G:0.04, T:0.44
Consensus pattern (46 bp):
CTATTTATTTTCTATTTTTAGTAGCCATTACCACCAATAAATAATC
Found at i:16454039 original size:28 final size:27
Alignment explanation
Indices: 16453991--16454050 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
16453981 ACTGTAATGA
* *
16453991 TACTGTATTGGGTTAAAGCCCACACTG
1 TACTGAATTGGGCTAAAGCCCACACTG
* *
16454018 CTACTGAATTGGGCTAAGGCCCTCACTG
1 -TACTGAATTGGGCTAAAGCCCACACTG
16454046 TACTG
1 TACTG
16454051 TCACTAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.28
Consensus pattern (27 bp):
TACTGAATTGGGCTAAAGCCCACACTG
Found at i:16455706 original size:12 final size:12
Alignment explanation
Indices: 16455689--16455714 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16455679 TGTATACTTG
16455689 ATTATATCATGT
1 ATTATATCATGT
16455701 ATTATATCATGT
1 ATTATATCATGT
16455713 AT
1 AT
16455715 AAGACTTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.50
Consensus pattern (12 bp):
ATTATATCATGT
Found at i:16463798 original size:21 final size:21
Alignment explanation
Indices: 16463774--16463823 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
16463764 TAATCCCCAA
16463774 ACTTTAAAATGACTTAAAATC
1 ACTTTAAAATGACTTAAAATC
* * *
16463795 ACTTCAAAATTACTTAAAATT
1 ACTTTAAAATGACTTAAAATC
16463816 AC-TTAAAA
1 ACTTTAAAA
16463824 CCGTCCATCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.34
Consensus pattern (21 bp):
ACTTTAAAATGACTTAAAATC
Found at i:16463803 original size:11 final size:10
Alignment explanation
Indices: 16463777--16463823 Score: 67
Period size: 10 Copynumber: 4.6 Consensus size: 10
16463767 TCCCCAAACT
*
16463777 TTAAAATGAC
1 TTAAAATTAC
*
16463787 TTAAAATCAC
1 TTAAAATTAC
16463797 TTCAAAATTAC
1 TT-AAAATTAC
16463808 TTAAAATTAC
1 TTAAAATTAC
16463818 TTAAAA
1 TTAAAA
16463824 CCGTCCATCC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
10 25 0.74
11 9 0.26
ACGTcount: A:0.51, C:0.13, G:0.02, T:0.34
Consensus pattern (10 bp):
TTAAAATTAC
Found at i:16473911 original size:27 final size:27
Alignment explanation
Indices: 16473880--16474859 Score: 851
Period size: 27 Copynumber: 36.4 Consensus size: 27
16473870 CCCAAAATAA
* *
16473880 GTAAAATGACCAAAATACCACTGA-AGG
1 GTAAAATGACCGAAATACC-CTCATAGG
* *
16473907 GTAAAATGACCAAAATACCCTTAATA-G
1 GTAAAATGACCGAAATACCC-TCATAGG
* **
16473934 ATGAAAATGATTGAAATACCC-CATAGG
1 GT-AAAATGACCGAAATACCCTCATAGG
16473961 GTAAAATGATCC-AAATACCCTCATAGG
1 GTAAAATGA-CCGAAATACCCTCATAGG
*
16473988 GTAAAATGACTGAAATACCCTCATAGG
1 GTAAAATGACCGAAATACCCTCATAGG
*
16474015 GTAAAATGACCGAAATACCCCCATAGG
1 GTAAAATGACCGAAATACCCTCATAGG
*
16474042 GTAAAATGATCGAAATACCCTCATAGG
1 GTAAAATGACCGAAATACCCTCATAGG
* *
16474069 ATAAAATGACTGAAATACCC-CTATAGG
1 GTAAAATGACCGAAATACCCTC-ATAGG
** * *
16474096 GTAAAATGATAGAAGTACCCTTAATA-G
1 GTAAAATGACCGAAATACCC-TCATAGG
* * *
16474123 ATGAAAATGACCAAAATACCCTTAATA-G
1 GT-AAAATGACCGAAATACCC-TCATAGG
* ** **
16474151 ATAAAAAATGACTAAAATATTC-CATAGG
1 GT--AAAATGACCGAAATACCCTCATAGG
**
16474179 GTAAAATGATTGAAATACCCTCATAGG
1 GTAAAATGACCGAAATACCCTCATAGG
* * *
16474206 GTAAAATAACCAAAATACCCCCATAGG
1 GTAAAATGACCGAAATACCCTCATAGG
16474233 GTAAAATGACCGAAATACCC-CATAGG
1 GTAAAATGACCGAAATACCCTCATAGG
*
16474259 GTAAAATGACCGAAATAACCC-CATAAG
1 GTAAAATGACCGAAAT-ACCCTCATAGG
*
16474286 GTAAAATGATCGAAATACCGCT-ATAGG
1 GTAAAATGACCGAAATACC-CTCATAGG
* * *
16474313 GAAAAATGACCGAAATACCCCCATAAG
1 GTAAAATGACCGAAATACCCTCATAGG
* * *
16474340 GTTACATGATCGAAATACCC-CTATAGG
1 GTAAAATGACCGAAATACCCTC-ATAGG
***
16474367 GTAAAATGATAAAAATACCC-CTATAGG
1 GTAAAATGACCGAAATACCCTC-ATAGG
* *
16474394 GTAAAATGACCAAAATACCCTTAATA-G
1 GTAAAATGACCGAAATACCC-TCATAGG
* * * * *
16474421 ATGAAAATTACTGAAATTCCCCCATAGG
1 GT-AAAATGACCGAAATACCCTCATAGG
** *
16474449 GTAAAATGACTAAAATACCCCCATAGG
1 GTAAAATGACCGAAATACCCTCATAGG
*
16474476 GTAAAATGA-C--TAT-CCCT-ATAGG
1 GTAAAATGACCGAAATACCCTCATAGG
* *
16474498 GTAAAATGATCGAAATACCCCCATAGG
1 GTAAAATGACCGAAATACCCTCATAGG
* *
16474525 GTAAAATGATCGAAATACCCCCATAGG
1 GTAAAATGACCGAAATACCCTCATAGG
* *
16474552 ATAAAATGACCGAAATACCCTCGTAGG
1 GTAAAATGACCGAAATACCCTCATAGG
* *
16474579 GTAAAATGATCGAAATACCCCCTATAGG
1 GTAAAATGACCGAAATACCCTC-ATAGG
**
16474607 GTAAAATGACTAAAATACCC-CTATAGG
1 GTAAAATGACCGAAATACCCTC-ATAGG
*
16474634 GTAAAATGATCGAAATACCC-CTATAGG
1 GTAAAATGACCGAAATACCCTC-ATAGG
*
16474661 GTAAAATGATCGAAATACCC-CTATAGG
1 GTAAAATGACCGAAATACCCTC-ATAGG
* **
16474688 GTAAAATGATCGAAATACCCTTGTAGG
1 GTAAAATGACCGAAATACCCTCATAGG
* *
16474715 GTAAAATGACTGAGATACCC-CGATAGG
1 GTAAAATGACCGAAATACCCTC-ATAGG
* * * *
16474742 TTAGAATGACCAAAATACCCCCATAGG
1 GTAAAATGACCGAAATACCCTCATAGG
** *
16474769 GTAAAATGACTAAAATA-CTTCCATAGG
1 GTAAAATGACCGAAATACCCT-CATAGG
**
16474796 GTAAAATGATAGAAATACCC-CTATAGG
1 GTAAAATGACCGAAATACCCTC-ATAGG
* *
16474823 ATAAAATGATCGAAATACTCCT-ATAGG
1 GTAAAATGACCGAAATAC-CCTCATAGG
16474850 GTAAAATGAC
1 GTAAAATGAC
16474860 TGTTATGGTC
Statistics
Matches: 798, Mismatches: 118, Indels: 74
0.81 0.12 0.07
Matches are distributed among these distances:
22 14 0.02
23 4 0.01
24 2 0.00
25 2 0.00
26 67 0.08
27 606 0.76
28 88 0.11
29 15 0.02
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (27 bp):
GTAAAATGACCGAAATACCCTCATAGG
Found at i:16474037 original size:81 final size:80
Alignment explanation
Indices: 16473880--16474858 Score: 963
Period size: 81 Copynumber: 12.1 Consensus size: 80
16473870 CCCAAAATAA
* * ** * *
16473880 GTAAAATGACCAAAATACCACTGA-AGGGTAAAATGACCAAAATACCCTTAATA-GATGAAAATG
1 GTAAAATGATCAAAATACC-CTCATAGGGTAAAATGACTGAAATACCC--CATAGGGT-AAAATG
*
16473943 ATTGAAATA-CCCCATAGG
62 ATCGAAATACCCCCATAGG
* *
16473961 GTAAAATGATCCAAATACCCTCATAGGGTAAAATGACTGAAATACCCTCATAGGGTAAAATGACC
1 GTAAAATGATCAAAATACCCTCATAGGGTAAAATGACTGAAATACCC-CATAGGGTAAAATGATC
16474026 GAAATACCCCCATAGG
65 GAAATACCCCCATAGG
* * *
16474042 GTAAAATGATCGAAATACCCTCATAGGATAAAATGACTGAAATACCCCTATAGGGTAAAATGATA
1 GTAAAATGATCAAAATACCCTCATAGGGTAAAATGACTGAAATACCCC-ATAGGGTAAAATGATC
* **
16474107 GAAGTACCCTTAATA-G
65 GAAATACCC-CCATAGG
* * * * * **
16474123 ATGAAAATGACCAAAATACCCTTAATA-GATAAAAAATGACTAAAATATTCCATAGGGTAAAATG
1 GT-AAAATGATCAAAATACCC-TCATAGGGT--AAAATGACTGAAATACCCCATAGGGTAAAATG
* *
16474187 ATTGAAATACCCTCATAGG
62 ATCGAAATACCCCCATAGG
* * * * *
16474206 GTAAAATAACCAAAATACCCCCATAGGGTAAAATGACCGAAATACCCCATAGGGTAAAATGACCG
1 GTAAAATGATCAAAATACCCTCATAGGGTAAAATGACTGAAATACCCCATAGGGTAAAATGATCG
* *
16474271 AAATAACCCCATAAG
66 AAATACCCCCATAGG
* * * * * *
16474286 GTAAAATGATCGAAATACCGCT-ATAGGGAAAAATGACCGAAATACCCCCATAAGGTTACATGAT
1 GTAAAATGATCAAAATACC-CTCATAGGGTAAAATGACTGAAATA-CCCCATAGGGTAAAATGAT
*
16474350 CGAAATACCCCTATAGG
64 CGAAATACCCCCATAGG
* ** * * *
16474367 GTAAAATGATAAAAATACCC-CTATAGGGTAAAATGACCAAAATACCCTTAATA-GATGAAAATT
1 GTAAAATGATCAAAATACCCTC-ATAGGGTAAAATGACTGAAATACCC--CATAGGGT-AAAATG
*
16474430 A-CTGAAATTCCCCCATAGG
62 ATC-GAAATACCCCCATAGG
* *
16474449 GTAAAATGA-CTAAAATACCCCCATAGGGTAAAATGACT---AT-CCCTATAGGGTAAAATGATC
1 GTAAAATGATC-AAAATACCCTCATAGGGTAAAATGACTGAAATACCCCATAGGGTAAAATGATC
16474509 GAAATACCCCCATAGG
65 GAAATACCCCCATAGG
* * * * *
16474525 GTAAAATGATCGAAATACCCCCATAGGATAAAATGACCGAAATACCCTCGTAGGGTAAAATGATC
1 GTAAAATGATCAAAATACCCTCATAGGGTAAAATGACTGAAATACCC-CATAGGGTAAAATGATC
16474590 GAAATACCCCCTATAGG
65 GAAATACCCCC-ATAGG
16474607 GTAAAATGA-CTAAAATACCC-CTATAGGGTAAAATGA-TCGAAATACCCCTATAGGGTAAAATG
1 GTAAAATGATC-AAAATACCCTC-ATAGGGTAAAATGACT-GAAATACCCC-ATAGGGTAAAATG
*
16474669 ATCGAAATACCCCTATAGG
62 ATCGAAATACCCCCATAGG
* ** * * * *
16474688 GTAAAATGATCGAAATACCCTTGTAGGGTAAAATGACTGAGATACCCCGATAGGTTAGAATGACC
1 GTAAAATGATCAAAATACCCTCATAGGGTAAAATGACTGAAATACCCC-ATAGGGTAAAATGATC
*
16474753 AAAATACCCCCATAGG
65 GAAATACCCCCATAGG
* *
16474769 GTAAAATGA-CTAAAATA-CTTCCATAGGGTAAAATGA-TAGAAATACCCCTATAGGATAAAATG
1 GTAAAATGATC-AAAATACCCT-CATAGGGTAAAATGACT-GAAATACCCC-ATAGGGTAAAATG
* *
16474831 ATCGAAATACTCCTATAGG
62 ATCGAAATACCCCCATAGG
16474850 GTAAAATGA
1 GTAAAATGA
16474859 CTGTTATGGT
Statistics
Matches: 757, Mismatches: 101, Indels: 80
0.81 0.11 0.09
Matches are distributed among these distances:
76 57 0.08
77 4 0.01
78 3 0.00
79 4 0.01
80 111 0.15
81 362 0.48
82 170 0.22
83 30 0.04
84 16 0.02
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.21
Consensus pattern (80 bp):
GTAAAATGATCAAAATACCCTCATAGGGTAAAATGACTGAAATACCCCATAGGGTAAAATGATCG
AAATACCCCCATAGG
Found at i:16475290 original size:28 final size:29
Alignment explanation
Indices: 16475247--16475420 Score: 243
Period size: 28 Copynumber: 6.2 Consensus size: 29
16475237 TTACTGCACT
* *
16475247 ACACT-ATTACTATATTGGGCTAAGGCCT
1 ACACTGATTACTGTATTGGGCTAAGGCCC
16475275 ACACTGATT-CTGTATTGGGCTAAGGCCC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
16475303 ACACTG-TTACTGTATTGGGCTAAGGCCC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
*
16475331 ACACTGATT-CTGTATTGGGTTAAGGCCC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
* * *
16475359 ATACTAATT-CTGTATTAGGCTAAGGCCC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
*
16475387 ACACTG-TTACTGTATTGGGCTAAGGTCC
1 ACACTGATTACTGTATTGGGCTAAGGCCC
16475415 ACACTG
1 ACACTG
16475421 TACTGTCACT
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
27 4 0.03
28 122 0.93
29 5 0.04
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.30
Consensus pattern (29 bp):
ACACTGATTACTGTATTGGGCTAAGGCCC
Found at i:16475388 original size:84 final size:84
Alignment explanation
Indices: 16475259--16475420 Score: 270
Period size: 84 Copynumber: 1.9 Consensus size: 84
16475249 ACTATTACTA
* * *
16475259 TATTGGGCTAAGGCCTACACTGATTCTGTATTGGGCTAAGGCCCACACTGTTACTGTATTGGGCT
1 TATTGGGCTAAGGCCCACACTAATTCTGTATTAGGCTAAGGCCCACACTGTTACTGTATTGGGCT
16475324 AAGGCCCACACTGATTCTG
66 AAGGCCCACACTGATTCTG
* *
16475343 TATTGGGTTAAGGCCCATACTAATTCTGTATTAGGCTAAGGCCCACACTGTTACTGTATTGGGCT
1 TATTGGGCTAAGGCCCACACTAATTCTGTATTAGGCTAAGGCCCACACTGTTACTGTATTGGGCT
*
16475408 AAGGTCCACACTG
66 AAGGCCCACACTG
16475421 TACTGTCACT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
84 72 1.00
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.30
Consensus pattern (84 bp):
TATTGGGCTAAGGCCCACACTAATTCTGTATTAGGCTAAGGCCCACACTGTTACTGTATTGGGCT
AAGGCCCACACTGATTCTG
Found at i:16475456 original size:33 final size:33
Alignment explanation
Indices: 16475419--16475481 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
16475409 AGGTCCACAC
16475419 TGTACTGTCACTAAATAAGGCTCAGGCCCATAA
1 TGTACTGTCACTAAATAAGGCTCAGGCCCATAA
*
16475452 TGTACTGTCATTAAATAAGGCTCAGGCCCA
1 TGTACTGTCACTAAATAAGGCTCAGGCCCA
16475482 GACTGTTACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (33 bp):
TGTACTGTCACTAAATAAGGCTCAGGCCCATAA
Found at i:16478680 original size:45 final size:45
Alignment explanation
Indices: 16478607--16478717 Score: 150
Period size: 45 Copynumber: 2.5 Consensus size: 45
16478597 GAAGGACCAG
* *
16478607 ACACTTATATATTATATTTGTCGATTTCACCGACTAGTGCTGGGC
1 ACACTTATATATTATATTTGTCGATTTCACCGACCAATGCTGGGC
* * * *
16478652 ACACATATATATTGTATTTGTTGGTTTCACCGACCAATGCTGGGC
1 ACACTTATATATTATATTTGTCGATTTCACCGACCAATGCTGGGC
* *
16478697 GCACTTATATATTATAGTTGT
1 ACACTTATATATTATATTTGT
16478718 AGGGAACACA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.39
Consensus pattern (45 bp):
ACACTTATATATTATATTTGTCGATTTCACCGACCAATGCTGGGC
Found at i:16481094 original size:36 final size:36
Alignment explanation
Indices: 16481053--16481123 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
16481043 TTTTCAATAG
*
16481053 GCATGCTTTACATGCAAATCAGATTTTCGTA-ATATA
1 GCATGCTTAACATGCAAATCAGA-TTTCGTATATATA
**
16481089 GCATGCTTAACATGCGGATCAGATTTCGTATATAT
1 GCATGCTTAACATGCAAATCAGATTTCGTATATAT
16481124 TTTATCAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 7 0.23
36 24 0.77
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (36 bp):
GCATGCTTAACATGCAAATCAGATTTCGTATATATA
Found at i:16484329 original size:16 final size:15
Alignment explanation
Indices: 16484304--16484333 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
16484294 ATTAAATTAA
16484304 TTAACTAAATGCAAG
1 TTAACTAAATGCAAG
16484319 TTAACCTAAATGCAA
1 TTAA-CTAAATGCAA
16484334 TGCAAGGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.27
Consensus pattern (15 bp):
TTAACTAAATGCAAG
Found at i:16506422 original size:33 final size:33
Alignment explanation
Indices: 16506385--16506450 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
16506375 TCCCATCGAG
16506385 TAAGCATGTGGAACACAAAATGAATTTCCCAAA
1 TAAGCATGTGGAACACAAAATGAATTTCCCAAA
*
16506418 TAAGCATGTGGAAGACAAAATGAATTTCCCAAA
1 TAAGCATGTGGAACACAAAATGAATTTCCCAAA
16506451 GGGCTATAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.45, C:0.17, G:0.17, T:0.21
Consensus pattern (33 bp):
TAAGCATGTGGAACACAAAATGAATTTCCCAAA
Found at i:16507850 original size:43 final size:41
Alignment explanation
Indices: 16507762--16507989 Score: 219
Period size: 43 Copynumber: 5.4 Consensus size: 41
16507752 CTCGGTGGAT
** *
16507762 TCAGCACTTAGCAACCACC-TTA-AATTCAGTGATATAGGGAA
1 TCAGCACTTAGCAACC-CCTTTACAA-TCAAAGATACAGGGAA
* *
16507803 TCAGCACATAGCAACCCCTTTCACAATCAAAGATACGGAGGAA
1 TCAGCACTTAGCAACCCCTTT-ACAATCAAAGATACAG-GGAA
*** **
16507846 TCAGCACTTAGCAACCACCTTTATTTTCAGTGATACAGGGAA
1 TCAGCACTTAGCAACC-CCTTTACAATCAAAGATACAGGGAA
* *
16507888 TCAGCACATAGCAACCCCTTTCACAATCAAATATACAGTGGAA
1 TCAGCACTTAGCAACCCCTTT-ACAATCAAAGATACAG-GGAA
* * *
16507931 TCAGCACTTAGCAACCACCTTTAGAATCAATA-ATTCGGGGAA
1 TCAGCACTTAGCAACC-CCTTTACAATCAA-AGATACAGGGAA
16507973 TCAGCACTTAGCAACCC
1 TCAGCACTTAGCAACCC
16507990 TTCGGGGAAT
Statistics
Matches: 155, Mismatches: 23, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
40 2 0.01
41 23 0.15
42 58 0.37
43 61 0.39
44 11 0.07
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.22
Consensus pattern (41 bp):
TCAGCACTTAGCAACCCCTTTACAATCAAAGATACAGGGAA
Found at i:16507900 original size:42 final size:43
Alignment explanation
Indices: 16507762--16507988 Score: 227
Period size: 42 Copynumber: 5.4 Consensus size: 43
16507752 CTCGGTGGAT
* *
16507762 TCAGCACTTAGCAACCACC-TTA-AATTCAGTGATATAG-GGAA
1 TCAGCACTTAGCAACCACCTTTACAA-TCAATGATACAGAGGAA
* * *
16507803 TCAGCACATAGCAACC-CCTTTCACAATCAAAGATACGGAGGAA
1 TCAGCACTTAGCAACCACCTTT-ACAATCAATGATACAGAGGAA
*** *
16507846 TCAGCACTTAGCAACCACCTTTATTTTCAGTGATACAG-GGAA
1 TCAGCACTTAGCAACCACCTTTACAATCAATGATACAGAGGAA
* *
16507888 TCAGCACATAGCAACC-CCTTTCACAATCAAAT-ATACAGTGGAA
1 TCAGCACTTAGCAACCACCTTT-ACAATC-AATGATACAGAGGAA
* * * *
16507931 TCAGCACTTAGCAACCACCTTTAGAATCAATAATTC-GGGGAA
1 TCAGCACTTAGCAACCACCTTTACAATCAATGATACAGAGGAA
16507973 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
16507989 CTTCGGGGAA
Statistics
Matches: 155, Mismatches: 21, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
40 2 0.01
41 22 0.14
42 61 0.39
43 60 0.39
44 10 0.06
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.22
Consensus pattern (43 bp):
TCAGCACTTAGCAACCACCTTTACAATCAATGATACAGAGGAA
Found at i:16507904 original size:85 final size:85
Alignment explanation
Indices: 16507762--16507989 Score: 334
Period size: 85 Copynumber: 2.7 Consensus size: 85
16507752 CTCGGTGGAT
*
16507762 TCAGCACTTAGCAACCACC-TTAAATTCAGTGATATAGGGAATCAGCACATAGCAACCCCTTTCA
1 TCAGCACTTAGCAACCACCTTTAAATTCAGTGATACAGGGAATCAGCACATAGCAACCCCTTTCA
*
16507826 CAATCAAAGATACGGAGGAA
66 CAATCAAAGATACAGAGGAA
**
16507846 TCAGCACTTAGCAACCACCTTTATTTTCAGTGATACAGGGAATCAGCACATAGCAACCCCTTTCA
1 TCAGCACTTAGCAACCACCTTTAAATTCAGTGATACAGGGAATCAGCACATAGCAACCCCTTTCA
* *
16507911 CAATCAAATATACAGTGGAA
66 CAATCAAAGATACAGAGGAA
* * * * *
16507931 TCAGCACTTAGCAACCACCTTTAGAA-TCAATAATTCGGGGAATCAGCACTTAGCAACCC
1 TCAGCACTTAGCAACCACCTTTA-AATTCAGTGATACAGGGAATCAGCACATAGCAACCC
16507990 TTCGGGGAAT
Statistics
Matches: 129, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
84 19 0.15
85 110 0.85
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.22
Consensus pattern (85 bp):
TCAGCACTTAGCAACCACCTTTAAATTCAGTGATACAGGGAATCAGCACATAGCAACCCCTTTCA
CAATCAAAGATACAGAGGAA
Done.