Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 65 of 210
Found at i:23010281 original size:20 final size:19
Alignment explanation
Indices: 23010253--23010305 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
23010243 AATTTCAGTA
*
23010253 TTTTATATTTTTAGAATTAT
1 TTTTCTATTTTTA-AATTAT
* *
23010273 TTTTCTA-TTTTATATTTT
1 TTTTCTATTTTTAAATTAT
23010291 TTTCTCTATTTTTAA
1 TTT-TCTATTTTTAA
23010306 TAATTTATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 7 0.26
19 9 0.33
20 11 0.41
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTCTATTTTTAAATTAT
Found at i:23010283 original size:19 final size:19
Alignment explanation
Indices: 23010261--23010302 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
23010251 TATTTTATAT
23010261 TTTTAGAATTATTTT-TCTA
1 TTTTA-AATTATTTTCTCTA
* *
23010280 TTTTATATTTTTTTCTCTA
1 TTTTAAATTATTTTCTCTA
23010299 TTTT
1 TTTT
23010303 TAATAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTAAATTATTTTCTCTA
Found at i:23010901 original size:27 final size:27
Alignment explanation
Indices: 23010863--23010917 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
23010853 GATCAAGGAA
* **
23010863 TGTGTTGAATTTTTATCTTTTAATCCC
1 TGTGTCGAATTTTTATCTTCCAATCCC
23010890 TGTGTCGAATTTTTATCTTCCAATCCC
1 TGTGTCGAATTTTTATCTTCCAATCCC
23010917 T
1 T
23010918 ATTAGGATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.18, C:0.20, G:0.11, T:0.51
Consensus pattern (27 bp):
TGTGTCGAATTTTTATCTTCCAATCCC
Found at i:23019268 original size:306 final size:306
Alignment explanation
Indices: 23018715--23019329 Score: 1194
Period size: 306 Copynumber: 2.0 Consensus size: 306
23018705 TTAGTCAGAG
23018715 ACTTAGTTGCATAAAGAGTTTATAATCTTTTCCACAATGCGGATGAAGTTTTCTCCATCAATACC
1 ACTTAGTTGCATAAAGAGTTTATAATCTTTTCCACAATGCGGATGAAGTTTTCTCCATCAATACC
*
23018780 TTCTGCAATACCCTATTCGCAAGGCACCACTGGATTGTAGATAGGGCATTTTCATCAAGCTCTTC
66 TTCTGCAATACCCTATTCGCAAAGCACCACTGGATTGTAGATAGGGCATTTTCATCAAGCTCTTC
* *
23018845 TCATTTTGTTTAGATTCTCAAGTTTTTTTTATCGATAACAACATTTTTCAATCTGGTCTGAACTA
131 TCATTTTGTCTAGATTCTCAAGTTTTTTTTATCGATAACAACAATTTTCAATCTGGTCTGAACTA
23018910 GAATTGTCATCATTCAAACTTGTCACAGATTGAAATTTGTGACACCATCAAACTTCTCAATATCA
196 GAATTGTCATCATTCAAACTTGTCACAGATTGAAATTTGTGACACCATCAAACTTCTCAATATCA
23018975 AACCTTATTGTTGTCATCTCAGAACGGACTGCTCTACGAAATTTGA
261 AACCTTATTGTTGTCATCTCAGAACGGACTGCTCTACGAAATTTGA
23019021 ACTTAGTTGCATAAAGAGTTTATAATCTTTTCCACAATGCGGATGAAGTTTTCTCCATCAATACC
1 ACTTAGTTGCATAAAGAGTTTATAATCTTTTCCACAATGCGGATGAAGTTTTCTCCATCAATACC
23019086 TTCTGCAATACCCTATTCGCAAAGCACCACTGGATTGTAGATAGGGCATTTTCATCAAGCTCTTC
66 TTCTGCAATACCCTATTCGCAAAGCACCACTGGATTGTAGATAGGGCATTTTCATCAAGCTCTTC
23019151 TCATTTTGTCTAGATTCTCAAGTTTTTTTTATCGATAACAACAATTTTCAATCTGGTCTGAACTA
131 TCATTTTGTCTAGATTCTCAAGTTTTTTTTATCGATAACAACAATTTTCAATCTGGTCTGAACTA
23019216 GAATTGTCATCATTCAAACTTGTCACAGATTGAAATTTGTGACACCATCAAACTTCTCAATATCA
196 GAATTGTCATCATTCAAACTTGTCACAGATTGAAATTTGTGACACCATCAAACTTCTCAATATCA
*
23019281 AACCTTATTGTTGTCATCTCTGAACGGACTGCTCTACGAAATTTGA
261 AACCTTATTGTTGTCATCTCAGAACGGACTGCTCTACGAAATTTGA
23019327 ACT
1 ACT
23019330 AGCTCTAATA
Statistics
Matches: 305, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
306 305 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (306 bp):
ACTTAGTTGCATAAAGAGTTTATAATCTTTTCCACAATGCGGATGAAGTTTTCTCCATCAATACC
TTCTGCAATACCCTATTCGCAAAGCACCACTGGATTGTAGATAGGGCATTTTCATCAAGCTCTTC
TCATTTTGTCTAGATTCTCAAGTTTTTTTTATCGATAACAACAATTTTCAATCTGGTCTGAACTA
GAATTGTCATCATTCAAACTTGTCACAGATTGAAATTTGTGACACCATCAAACTTCTCAATATCA
AACCTTATTGTTGTCATCTCAGAACGGACTGCTCTACGAAATTTGA
Found at i:23019767 original size:45 final size:45
Alignment explanation
Indices: 23019701--23019791 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
23019691 TTCTAGAAAG
23019701 AAAACATATTTTGTTTAATTTAACTTGCAAGCAATCTCTTATTTT
1 AAAACATATTTTGTTTAATTTAACTTGCAAGCAATCTCTTATTTT
* *
23019746 AAAACATATTTTGTTTGATTTAACTTGCAAGTAATCTCTTATTTT
1 AAAACATATTTTGTTTAATTTAACTTGCAAGCAATCTCTTATTTT
23019791 A
1 A
23019792 TCTAATAAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (45 bp):
AAAACATATTTTGTTTAATTTAACTTGCAAGCAATCTCTTATTTT
Found at i:23020570 original size:30 final size:31
Alignment explanation
Indices: 23020516--23020575 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
23020506 AAACCTTTTA
**
23020516 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACGTTTACTCCCTTCCCAC
* *
23020546 TTTTCCCCTAAAACGTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACGTTTACTCCCTTCCCA
23020576 TCCCACCTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.20, C:0.40, G:0.02, T:0.38
Consensus pattern (31 bp):
TTTTCCCCCAAAACGTTTACTCCCTTCCCAC
Found at i:23044119 original size:28 final size:27
Alignment explanation
Indices: 23044087--23044148 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 27
23044077 TAAAATTAAA
23044087 AAAAAT-ATATAAGAATTATTCTAAAAATT
1 AAAAATCAT-TAA-AATTATT-TAAAAATT
23044116 AAAAATCATTAAAATTATTTAAAAATT
1 AAAAATCATTAAAATTATTTAAAAATT
23044143 ATAAAA
1 A-AAAA
23044149 AATATTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
27 9 0.29
28 11 0.35
29 9 0.29
30 2 0.06
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (27 bp):
AAAAATCATTAAAATTATTTAAAAATT
Found at i:23044150 original size:21 final size:20
Alignment explanation
Indices: 23044070--23044169 Score: 64
Period size: 20 Copynumber: 5.2 Consensus size: 20
23044060 ATTAATTTTT
*
23044070 AAAAT-TTT-AAAATTAAAA
1 AAAATATTTAAAAATTATAA
* * **
23044088 AAAATATATAAGAATTATTCT
1 AAAATATTTAAAAATTA-TAA
* *
23044109 AAAA-A-TTAAAAATCATTA
1 AAAATATTTAAAAATTATAA
*
23044127 AAATTATTTAAAAATTATAA
1 AAAATATTTAAAAATTATAA
** *
23044147 AAAATATTTTTAAATTTTAA
1 AAAATATTTAAAAATTATAA
23044167 AAA
1 AAA
23044170 TAATTAAATG
Statistics
Matches: 60, Mismatches: 17, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
18 9 0.15
19 10 0.17
20 37 0.62
21 4 0.07
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (20 bp):
AAAATATTTAAAAATTATAA
Found at i:23046520 original size:21 final size:21
Alignment explanation
Indices: 23046496--23046539 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
23046486 GCAAAGTCTA
23046496 AGAAGAA-TG-GAAGCCAAGAGG
1 AGAAGAAGTGAGAAG-CAA-AGG
23046517 AGAAGAAGTGAGAAGCAAAGG
1 AGAAGAAGTGAGAAGCAAAGG
23046538 AG
1 AG
23046540 TTCGAGAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 12 0.57
22 5 0.24
23 4 0.19
ACGTcount: A:0.50, C:0.07, G:0.39, T:0.05
Consensus pattern (21 bp):
AGAAGAAGTGAGAAGCAAAGG
Found at i:23052657 original size:28 final size:29
Alignment explanation
Indices: 23052594--23052675 Score: 96
Period size: 28 Copynumber: 2.7 Consensus size: 29
23052584 TAGGATAAAC
23052594 TACATTTTTAATCATTTAATTATTAACAAATT
1 TACA-TTTTAATCA-TTAATTA-TAACAAATT
23052626 TACATTTTAATCATATAATTATAA-AAA-T
1 TACATTTTAATCAT-TAATTATAACAAATT
*
23052654 TACAATTTAATCACTTAATTAT
1 TACATTTTAATCA-TTAATTAT
23052676 TTGAAATTGG
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
28 20 0.43
29 4 0.09
30 4 0.09
31 15 0.32
32 4 0.09
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (29 bp):
TACATTTTAATCATTAATTATAACAAATT
Found at i:23054457 original size:123 final size:123
Alignment explanation
Indices: 23054313--23054560 Score: 464
Period size: 123 Copynumber: 2.0 Consensus size: 123
23054303 TCAAATTGAA
23054313 ATGATGAAATATGATTAAGGTAAAAAAAAATTAAATGTATAAACAAATTCATTAAAAATGTATAG
1 ATGATGAAATATGATTAAGGTAAAAAAAAATTAAATGTATAAACAAATTCATTAAAAATGTATAG
23054378 AATAATCACTTATATATTATTTATAATAATATTTATTA-T-TGTAATAATTAAGAAATTT
66 AATAATCACTTATATATTATTTATAATAATATTTATTATTGTGTAATAATT-A-AAATTT
23054436 ATGATGAAATATGATTAAGGTAAAAAAAAATTAAATGTATAAACAAATTCATTAAAAATGTATAG
1 ATGATGAAATATGATTAAGGTAAAAAAAAATTAAATGTATAAACAAATTCATTAAAAATGTATAG
23054501 AATAATCACTTATATATTATTTATAATAATATTTATTATTGTGTAATAATTAAAATTT
66 AATAATCACTTATATATTATTTATAATAATATTTATTATTGTGTAATAATTAAAATTT
23054559 AT
1 AT
23054561 TTTTATTTTC
Statistics
Matches: 123, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
123 111 0.90
124 2 0.02
125 10 0.08
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (123 bp):
ATGATGAAATATGATTAAGGTAAAAAAAAATTAAATGTATAAACAAATTCATTAAAAATGTATAG
AATAATCACTTATATATTATTTATAATAATATTTATTATTGTGTAATAATTAAAATTT
Found at i:23056290 original size:6 final size:6
Alignment explanation
Indices: 23056242--23056276 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
23056232 TGTGTCTATG
23056242 TATGTA TATGTA TATGTA TATGTA TATGTA TATGT
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGT
23056277 GTGTATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.51
Consensus pattern (6 bp):
TATGTA
Found at i:23056644 original size:48 final size:48
Alignment explanation
Indices: 23056570--23056665 Score: 133
Period size: 48 Copynumber: 2.0 Consensus size: 48
23056560 AGAGGCCAAG
* *
23056570 GGCTTTTCTTGTTGTTTCTGCTGCACTTCTTCTTTCT-TCGAAACATTA
1 GGCTTTTCTTGTAGTTTCTGCTGCACTTCTTCTTCCTCT-GAAACATTA
*
23056618 GGCTTTTCTTGTAGTTTCTG-TCGCACTTTTTCTTCCTCTGAAACATTA
1 GGCTTTTCTTGTAGTTTCTGCT-GCACTTCTTCTTCCTCTGAAACATTA
23056666 CTTTCATCTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
47 1 0.02
48 41 0.95
49 1 0.02
ACGTcount: A:0.14, C:0.23, G:0.15, T:0.49
Consensus pattern (48 bp):
GGCTTTTCTTGTAGTTTCTGCTGCACTTCTTCTTCCTCTGAAACATTA
Found at i:23057425 original size:48 final size:48
Alignment explanation
Indices: 23057354--23057448 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
23057344 GAGGCCAAGG
* * * *
23057354 GCTTTTCTTGTTGTTTCTGCTGCACTTCTTCTTTCTTTGAAACATTAA
1 GCTTTTCTTGTAGTTTCTCCTGCACTTCTTCTTCCTCTGAAACATTAA
*
23057402 GCTTTTCTTGTAGTTTCTCCTGCACTTTTTCTTCCTCTGAAACATTA
1 GCTTTTCTTGTAGTTTCTCCTGCACTTCTTCTTCCTCTGAAACATTA
23057449 CTTTCATCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.15, C:0.23, G:0.12, T:0.51
Consensus pattern (48 bp):
GCTTTTCTTGTAGTTTCTCCTGCACTTCTTCTTCCTCTGAAACATTAA
Found at i:23058036 original size:781 final size:782
Alignment explanation
Indices: 23056525--23058578 Score: 3836
Period size: 781 Copynumber: 2.6 Consensus size: 782
23056515 GAACCAAGAG
23056525 CAACAGTTGCTGCAAGCTGATTTCGATTTCAATGCAGAGGCCAAGGGCTTTTCTTGTTGTTTCTG
1 CAACAGTTGCTGCAAGCTGATTTCGATTTCAATGCAGAGGCCAAGGGCTTTTCTTGTTGTTTCTG
* *
23056590 CTGCACTTCTTCTTTCTTCGAAACATTAGGCTTTTCTTGTAGTTTCT-GTCGCACTTTTTCTTCC
66 CTGCACTTCTTCTTTCTTTGAAACATTAGGCTTTTCTTGTAGTTTCTCCT-GCACTTTTTCTTCC
23056654 TCTGAAACATTACTTTCATCTTCCGAACTGCAATGATACCAATATAACTTAAGCTGAAAAGTTCC
130 TCTGAAACATTACTTTCATCTTCCGAACTGCAATGATACCAATATAACTTAAGCTGAAAAGTTCC
*
23056719 CACAAGATCTCGAATTTCTTGTAGATTGTATATGAAATCCCAAATATAAGCATCGTAAGCATAAT
195 CACAAGATCTCGAATTTCTTGTAGATTGTATATGAAACCCCAAATATAAGCATCGTAAGCATAAT
23056784 ATGCAGCCCATGTTACTTGGATGTGAGTATTGGATACAGACATGTGATTGAGTATGCTTGATTTC
260 ATGCAGCCCATGTTACTTGGA-GTGAGTATTGGATACAGACATGTGATTGAGTATGCTTGATTTC
23056849 TTCTCAGTTTTATCATATATTTAGAGCATTATTGGAAACAAATACCGGATATCAAACTTTTAAAA
324 TTCTCAGTTTTATCATATATTTAGAGCATTATTGGAAACAAATACCGGATATCAAACTTTTAAAA
23056914 GAAAGTTTTTCTTTCCCAAAGATATGCTATATCTAATATTTGATAGAGGTGGGGGAAAAGAGAAG
389 GAAAGTTTTTCTTTCCCAAAGATATGCTATATCTAATATTTGATAGAGGTGGGGGAAAAGAGAAG
23056979 TCTACACTGAAGAAAACTGCATACAATAACCCAAATATATGCATCATAAGTGCAGCCTATGTTAA
454 TCTACACTGAAGAAAACTGCATACAATAACCCAAATATATGCATCATAAGTGCAGCCTATGTTAA
23057044 TTGGACATGAGTGAGTGTCAGATATGGAGATGCGATTGAGTATGCTCGATTCTTCTTAGTTTTTT
519 TTGGACATGAGTGAGTGTCAGATATGGAGATGCGATTGAGTATGCTCGATTCTTCTTAGTTTTTT
* *
23057109 CATTTACTTGGAGCATCATATTCGTACCTCTATACTCTCTATACTCATTTCCGAATATTGACATC
584 CATTTACTTGGAGCATCATATTCATACCTCTATACTCTCTATACTCATTTCCAAATATTGACATC
* *
23057174 AATCTTTTAAAAGAAAGTCTTTCTTGCCCAAAGATCTACTTGTATCTAATTTTTGATACAGTAGC
649 AATCCTTTAAAAGAAAGTCTTTCTTGCCCAAAGATCTACTTATATCTAATTTTTGATACAGTAGC
*
23057239 ATAGATGTAGGGAGAAAAAGAGAAACATACTCTGAACAACAACAGCAGAATCTTTTCAAGCTGCA
714 ATAGATGTAGGGAGAAAAAGAGAAACATACTCTGAACAACAACAGAAGAATCTTTTCAAGCTGCA
23057304 GTTC
779 GTTC
*
23057308 CAACAGCTGCTGCAAGCTGATTTCGATTTCAATGCAGAGGCCAAGGGCTTTTCTTGTTGTTTCTG
1 CAACAGTTGCTGCAAGCTGATTTCGATTTCAATGCAGAGGCCAAGGGCTTTTCTTGTTGTTTCTG
*
23057373 CTGCACTTCTTCTTTCTTTGAAACATTAAGCTTTTCTTGTAGTTTCTCCTGCACTTTTTCTTCCT
66 CTGCACTTCTTCTTTCTTTGAAACATTAGGCTTTTCTTGTAGTTTCTCCTGCACTTTTTCTTCCT
*
23057438 CTGAAACATTACTTTCATCTTCCGAACTGCAATGATACCGATATAACTTAAGCTGAAAAGTTCCC
131 CTGAAACATTACTTTCATCTTCCGAACTGCAATGATACCAATATAACTTAAGCTGAAAAGTTCCC
23057503 ACAAGATCTCGAATTTCTTGTAGATTGTATATGAAACCCCAAATATAAGCATCGTAAGCATAATA
196 ACAAGATCTCGAATTTCTTGTAGATTGTATATGAAACCCCAAATATAAGCATCGTAAGCATAATA
*
23057568 TGCAGCCCATGTTACTTGGA-TGAGTATTGGATACGGACATGTGATTGAGTATGCTTGATTTCTT
261 TGCAGCCCATGTTACTTGGAGTGAGTATTGGATACAGACATGTGATTGAGTATGCTTGATTTCTT
*
23057632 CTCAGTTTTATCATATATTTAGAGCATTATCGGAAACAAATACCGGATATCAAACTTTTAAAAGA
326 CTCAGTTTTATCATATATTTAGAGCATTATTGGAAACAAATACCGGATATCAAACTTTTAAAAGA
23057697 AAGTTTTTCTTTCCCAAAGATATGCTATATCTAATATTTGATAGAGGTGGGGGAAAAGAGAAGTC
391 AAGTTTTTCTTTCCCAAAGATATGCTATATCTAATATTTGATAGAGGTGGGGGAAAAGAGAAGTC
23057762 TACACTGAAGAAAACTGCATACAATAACCCAAATATATGCATCATAAGTGCAGCCTATGTTAATT
456 TACACTGAAGAAAACTGCATACAATAACCCAAATATATGCATCATAAGTGCAGCCTATGTTAATT
23057827 GGACATGAGTGAGTGTCAGATATGGAGATGCGATTGAGTATGCTCGATTCTTCTTAGTTTTTTCA
521 GGACATGAGTGAGTGTCAGATATGGAGATGCGATTGAGTATGCTCGATTCTTCTTAGTTTTTTCA
23057892 TTTACTTGGAGCATCATATTCATACCTCTATACTCTCTATACTCATTTCCAAATATTGACATCAA
586 TTTACTTGGAGCATCATATTCATACCTCTATACTCTCTATACTCATTTCCAAATATTGACATCAA
*
23057957 TCCTTTAAAAGAAAGTCTTTCTTGCCCAAAGATCTACTTATATCTAATTTTTGATATAGTAGCAT
651 TCCTTTAAAAGAAAGTCTTTCTTGCCCAAAGATCTACTTATATCTAATTTTTGATACAGTAGCAT
23058022 AGATGTAGGGAGAAAAAGAGAAACATACTCTGAACAACAACAGAAGAATCTTTTCAAGCTGCAGT
716 AGATGTAGGGAGAAAAAGAGAAACATACTCTGAACAACAACAGAAGAATCTTTTCAAGCTGCAGT
23058087 TC
781 TC
23058089 CAACAGTTGCTGCAAGCTGATTTCGATTTCAATGCAGAGGCCAAAGGGCTTTTC-TGTTTGTTTC
1 CAACAGTTGCTGCAAGCTGATTTCGATTTCAATGCAGAGGCC-AAGGGCTTTTCTTG-TTGTTTC
*
23058153 T-CTGCACTTTTTCTTTCTTTGAAACATTAGGCTTTTCTTGTAGTTTCTGCC-GCACTTTTTCTT
64 TGCTGCACTTCTTCTTTCTTTGAAACATTAGGCTTTTCTTGTAGTTTCT-CCTGCACTTTTTCTT
23058216 CCTCTGAAACATTACTTTCATCTTCCGAACTGCAATGATACCAATATAACTTAAGCTGAAAAGTT
128 CCTCTGAAACATTACTTTCATCTTCCGAACTGCAATGATACCAATATAACTTAAGCTGAAAAGTT
23058281 CCCACAAGATCTCGAATTTCTTGTAGATTGTATATG-AACCCCAAATATAAGCATCGTAAGCATA
193 CCCACAAGATCTCGAATTTCTTGTAGATTGTATATGAAACCCCAAATATAAGCATCGTAAGCATA
23058345 ATATGCAGCCCATGTTACTTGGATGTGAGTATTGGATACAGACATGTGATTGAGTATGCTTGATT
258 ATATGCAGCCCATGTTACTTGGA-GTGAGTATTGGATACAGACATGTGATTGAGTATGCTTGATT
23058410 TCTTCTCAGTTTTATCATATATTTAGAGCATTATTGGAAACAAATACCGGATATCAAACTTTT-A
322 TCTTCTCAGTTTTATCATATATTTAGAGCATTATTGGAAACAAATACCGGATATCAAACTTTTAA
* *
23058474 AAGAAAGTTTTTCTTTCCCAAAGATATGCTATATGTAATATTTGATAGAGG-AGGGGAAAAGAGA
387 AAGAAAGTTTTTCTTTCCCAAAGATATGCTATATCTAATATTTGATAGAGGTGGGGGAAAAGAGA
*
23058538 AGTCTACACTGAAGAAAACTGCATACAACAACCCAAATATA
452 AGTCTACACTGAAGAAAACTGCATACAATAACCCAAATATA
23058579 AGAAAGTTTT
Statistics
Matches: 1242, Mismatches: 23, Indels: 15
0.97 0.02 0.01
Matches are distributed among these distances:
780 103 0.08
781 744 0.60
782 122 0.10
783 272 0.22
784 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (782 bp):
CAACAGTTGCTGCAAGCTGATTTCGATTTCAATGCAGAGGCCAAGGGCTTTTCTTGTTGTTTCTG
CTGCACTTCTTCTTTCTTTGAAACATTAGGCTTTTCTTGTAGTTTCTCCTGCACTTTTTCTTCCT
CTGAAACATTACTTTCATCTTCCGAACTGCAATGATACCAATATAACTTAAGCTGAAAAGTTCCC
ACAAGATCTCGAATTTCTTGTAGATTGTATATGAAACCCCAAATATAAGCATCGTAAGCATAATA
TGCAGCCCATGTTACTTGGAGTGAGTATTGGATACAGACATGTGATTGAGTATGCTTGATTTCTT
CTCAGTTTTATCATATATTTAGAGCATTATTGGAAACAAATACCGGATATCAAACTTTTAAAAGA
AAGTTTTTCTTTCCCAAAGATATGCTATATCTAATATTTGATAGAGGTGGGGGAAAAGAGAAGTC
TACACTGAAGAAAACTGCATACAATAACCCAAATATATGCATCATAAGTGCAGCCTATGTTAATT
GGACATGAGTGAGTGTCAGATATGGAGATGCGATTGAGTATGCTCGATTCTTCTTAGTTTTTTCA
TTTACTTGGAGCATCATATTCATACCTCTATACTCTCTATACTCATTTCCAAATATTGACATCAA
TCCTTTAAAAGAAAGTCTTTCTTGCCCAAAGATCTACTTATATCTAATTTTTGATACAGTAGCAT
AGATGTAGGGAGAAAAAGAGAAACATACTCTGAACAACAACAGAAGAATCTTTTCAAGCTGCAGT
TC
Found at i:23058224 original size:48 final size:47
Alignment explanation
Indices: 23058135--23058229 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 47
23058125 GAGGCCAAAG
* * * *
23058135 GGCTTTTCTGTTTGTTTCTCTGCACTTTTTCTTTCTTTGAAACATTA
1 GGCTTTTCTGTTAGTTTCTCCGCACTTTTTCTTCCTCTGAAACATTA
23058182 GGCTTTTCT-TGTAGTTTCTGCCGCACTTTTTCTTCCTCTGAAACATTA
1 GGCTTTTCTGT-TAGTTTCT-CCGCACTTTTTCTTCCTCTGAAACATTA
23058230 CTTTCATCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
46 1 0.02
47 16 0.38
48 25 0.60
ACGTcount: A:0.14, C:0.22, G:0.14, T:0.51
Consensus pattern (47 bp):
GGCTTTTCTGTTAGTTTCTCCGCACTTTTTCTTCCTCTGAAACATTA
Found at i:23058682 original size:105 final size:104
Alignment explanation
Indices: 23058474--23058683 Score: 393
Period size: 105 Copynumber: 2.0 Consensus size: 104
23058464 CAAACTTTTA
23058474 AAGAAAGTTTTTCTTTCCCAAAGATATGCTATATGTAATATTTGATAGAGGAGGGGAAAAGAGAA
1 AAGAAAGTTTTTCTTTCCCAAAGATATGCTATATGTAATATTTGATAGAGGAGGGGAAAAGAGAA
23058539 GTCTACACTGAAGAAAACTGCATACAACAACCCAAATAT
66 GTCTACACTGAAGAAAACTGCATACAACAACCCAAATAT
* *
23058578 AAGAAAGTTTTTCTTTCCCAAAGATATGCTATATGTAATATTTGATAGAGGTGGGGGAAAAGATA
1 AAGAAAGTTTTTCTTTCCCAAAGATATGCTATATGTAATATTTGATAGAGG-AGGGGAAAAGAGA
23058643 AGTCTACACTGAAGAAAACTGCATACAACAACCCAAATAT
65 AGTCTACACTGAAGAAAACTGCATACAACAACCCAAATAT
23058683 A
1 A
23058684 TGCATCATAA
Statistics
Matches: 103, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
104 51 0.50
105 52 0.50
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (104 bp):
AAGAAAGTTTTTCTTTCCCAAAGATATGCTATATGTAATATTTGATAGAGGAGGGGAAAAGAGAA
GTCTACACTGAAGAAAACTGCATACAACAACCCAAATAT
Found at i:23059193 original size:6 final size:6
Alignment explanation
Indices: 23059145--23059179 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
23059135 NNNNNNNNNN
23059145 TATGTA TATGTA TATGTA TATGTA TATGTA TATGT
1 TATGTA TATGTA TATGTA TATGTA TATGTA TATGT
23059180 GTGTATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.51
Consensus pattern (6 bp):
TATGTA
Found at i:23059547 original size:48 final size:48
Alignment explanation
Indices: 23059473--23059568 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 48
23059463 AGAGGCCAAG
* * * *
23059473 GGCTTTTCTTGTTGTTTCTGCTGCACTTTTTCTTTCTTTGAAACATTA
1 GGCTTTTCTTGTAGTTTCTGCCGCACTTTTTCTTCCTCTGAAACATTA
23059521 GGCTTTTCTTGTAGTTTCTGCCGCACTTTTTCTTCCTCTGAAACATTA
1 GGCTTTTCTTGTAGTTTCTGCCGCACTTTTTCTTCCTCTGAAACATTA
23059569 CTTTCATCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.14, C:0.22, G:0.15, T:0.50
Consensus pattern (48 bp):
GGCTTTTCTTGTAGTTTCTGCCGCACTTTTTCTTCCTCTGAAACATTA
Found at i:23060269 original size:30 final size:30
Alignment explanation
Indices: 23060207--23060276 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
23060197 CTGCAGTTCC
* * * **
23060207 AACAGTAGCACAACGCGCAGCTATAATTAG
1 AACAGTAGCACAAAGCCCAGCTACAACCAG
*
23060237 AACAGTAGCAGAAAGCCCAGCTACAACCAG
1 AACAGTAGCACAAAGCCCAGCTACAACCAG
*
23060267 AACAGGAGCA
1 AACAGTAGCA
23060277 TGATGGCCAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.43, C:0.26, G:0.21, T:0.10
Consensus pattern (30 bp):
AACAGTAGCACAAAGCCCAGCTACAACCAG
Found at i:23068751 original size:18 final size:18
Alignment explanation
Indices: 23068728--23068762 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23068718 ATATATTTTA
23068728 TTTTCTTCTATCAATAAG
1 TTTTCTTCTATCAATAAG
* *
23068746 TTTTCTTTTATTAATAA
1 TTTTCTTCTATCAATAA
23068763 TAATAGCGCA
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:0.29, C:0.11, G:0.03, T:0.57
Consensus pattern (18 bp):
TTTTCTTCTATCAATAAG
Found at i:23075804 original size:8 final size:8
Alignment explanation
Indices: 23075793--23075821 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
23075783 CGTTTTCGTC
23075793 TTTTT-TT
1 TTTTTGTT
23075800 TTTTTGTT
1 TTTTTGTT
23075808 TTTTTGTT
1 TTTTTGTT
23075816 TTTTTG
1 TTTTTG
23075822 AATGATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 5 0.24
8 16 0.76
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (8 bp):
TTTTTGTT
Found at i:23078109 original size:52 final size:52
Alignment explanation
Indices: 23078046--23078147 Score: 159
Period size: 52 Copynumber: 2.0 Consensus size: 52
23078036 ATCCAATAAA
23078046 GCCAAATGTGTCTTTGTGATAATACAAGTTCTGGTCTTATAGAAAAAAGGAG
1 GCCAAATGTGTCTTTGTGATAATACAAGTTCTGGTCTTATAGAAAAAAGGAG
* * ***
23078098 GCCAAGTGTGTCTTTGTGATACTATTTGTTCTGGTCTTATAGAAAAAAGG
1 GCCAAATGTGTCTTTGTGATAATACAAGTTCTGGTCTTATAGAAAAAAGG
23078148 TTAGGGTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.30, C:0.12, G:0.24, T:0.34
Consensus pattern (52 bp):
GCCAAATGTGTCTTTGTGATAATACAAGTTCTGGTCTTATAGAAAAAAGGAG
Found at i:23081472 original size:521 final size:521
Alignment explanation
Indices: 23080491--23081532 Score: 2084
Period size: 521 Copynumber: 2.0 Consensus size: 521
23080481 CCTTCCCATC
23080491 ACTGCTCTTCTTGTATTCAAACAGCAGGTTGGAATGATCGAAAGCGGTAAGTTTTATAAATCCAT
1 ACTGCTCTTCTTGTATTCAAACAGCAGGTTGGAATGATCGAAAGCGGTAAGTTTTATAAATCCAT
23080556 AATCATAATCTCTAAATAAACTCCATTTGGTCTTGAGAGTGGTGAATGGTGAAAGGCTTGCTCCT
66 AATCATAATCTCTAAATAAACTCCATTTGGTCTTGAGAGTGGTGAATGGTGAAAGGCTTGCTCCT
23080621 GCCCCACCCGCAACAACATGTATTGTTCCCTTCAGTGTGCCCTTATAGTATCGTTTCTCATTGTC
131 GCCCCACCCGCAACAACATGTATTGTTCCCTTCAGTGTGCCCTTATAGTATCGTTTCTCATTGTC
23080686 GGTGCATTGATTCTGTACCATGGGCCATTTCCAAAAATCAATTGTTTGCTAGGAATAAGAGAAAA
196 GGTGCATTGATTCTGTACCATGGGCCATTTCCAAAAATCAATTGTTTGCTAGGAATAAGAGAAAA
23080751 TGTTGAGATTCGAATCTCAAATATATAGCTCTGGGTTTGTTTATCCTTGAGTGAGTTTAATCTTA
261 TGTTGAGATTCGAATCTCAAATATATAGCTCTGGGTTTGTTTATCCTTGAGTGAGTTTAATCTTA
23080816 ATCTTAGCAACACAAAGTTTGCTGCCTTAAATATTGCAAAAAAGTTTTAGGGGTACCTCGTATAT
326 ATCTTAGCAACACAAAGTTTGCTGCCTTAAATATTGCAAAAAAGTTTTAGGGGTACCTCGTATAT
23080881 AGGACATGTCCTTTCATAATTATGCGCATGACCATAGATGGCAATGTCAACCTTGTATTTCTGCC
391 AGGACATGTCCTTTCATAATTATGCGCATGACCATAGATGGCAATGTCAACCTTGTATTTCTGCC
23080946 AGAGTTTTTGAAGGTTTTCCTTTGCCATTGGTTCTCCAAATGATCCTTCAACGGCATAACTGAGG
456 AGAGTTTTTGAAGGTTTTCCTTTGCCATTGGTTCTCCAAATGATCCTTCAACGGCATAACTGAGG
23081011 T
521 T
23081012 ACTGCTCTTCTTGTATTCAAACAGCAGGTTGGAATGATCGAAAGCGGTAAGTTTTATAAATCCAT
1 ACTGCTCTTCTTGTATTCAAACAGCAGGTTGGAATGATCGAAAGCGGTAAGTTTTATAAATCCAT
23081077 AATCATAATCTCTAAATAAACTCCATTTGGTCTTGAGAGTGGTGAATGGTGAAAGGCTTGCTCCT
66 AATCATAATCTCTAAATAAACTCCATTTGGTCTTGAGAGTGGTGAATGGTGAAAGGCTTGCTCCT
23081142 GCCCCACCCGCAACAACATGTATTGTTCCCTTCAGTGTGCCCTTATAGTATCGTTTCTCATTGTC
131 GCCCCACCCGCAACAACATGTATTGTTCCCTTCAGTGTGCCCTTATAGTATCGTTTCTCATTGTC
23081207 GGTGCATTGATTCTGTACCATGGGCCATTTCCAAAAATCAATTGTTTGCTAGGAATAAGAGAAAA
196 GGTGCATTGATTCTGTACCATGGGCCATTTCCAAAAATCAATTGTTTGCTAGGAATAAGAGAAAA
23081272 TGTTGAGATTCGAATCTCAAATATATAGCTCTGGGTTTGTTTATCCTTGAGTGAGTTTAATCTTA
261 TGTTGAGATTCGAATCTCAAATATATAGCTCTGGGTTTGTTTATCCTTGAGTGAGTTTAATCTTA
23081337 ATCTTAGCAACACAAAGTTTGCTGCCTTAAATATTGCAAAAAAGTTTTAGGGGTACCTCGTATAT
326 ATCTTAGCAACACAAAGTTTGCTGCCTTAAATATTGCAAAAAAGTTTTAGGGGTACCTCGTATAT
23081402 AGGACATGTCCTTTCATAATTATGCGCATGACCATAGATGGCAATGTCAACCTTGTATTTCTGCC
391 AGGACATGTCCTTTCATAATTATGCGCATGACCATAGATGGCAATGTCAACCTTGTATTTCTGCC
23081467 AGAGTTTTTGAAGGTTTTCCTTTGCCATTGGTTCTCCAAATGATCCTTCAACGGCATAACTGAGG
456 AGAGTTTTTGAAGGTTTTCCTTTGCCATTGGTTCTCCAAATGATCCTTCAACGGCATAACTGAGG
23081532 T
521 T
23081533 CAGAAGAGTA
Statistics
Matches: 521, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
521 521 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.34
Consensus pattern (521 bp):
ACTGCTCTTCTTGTATTCAAACAGCAGGTTGGAATGATCGAAAGCGGTAAGTTTTATAAATCCAT
AATCATAATCTCTAAATAAACTCCATTTGGTCTTGAGAGTGGTGAATGGTGAAAGGCTTGCTCCT
GCCCCACCCGCAACAACATGTATTGTTCCCTTCAGTGTGCCCTTATAGTATCGTTTCTCATTGTC
GGTGCATTGATTCTGTACCATGGGCCATTTCCAAAAATCAATTGTTTGCTAGGAATAAGAGAAAA
TGTTGAGATTCGAATCTCAAATATATAGCTCTGGGTTTGTTTATCCTTGAGTGAGTTTAATCTTA
ATCTTAGCAACACAAAGTTTGCTGCCTTAAATATTGCAAAAAAGTTTTAGGGGTACCTCGTATAT
AGGACATGTCCTTTCATAATTATGCGCATGACCATAGATGGCAATGTCAACCTTGTATTTCTGCC
AGAGTTTTTGAAGGTTTTCCTTTGCCATTGGTTCTCCAAATGATCCTTCAACGGCATAACTGAGG
T
Found at i:23087705 original size:41 final size:41
Alignment explanation
Indices: 23087660--23087790 Score: 190
Period size: 41 Copynumber: 3.2 Consensus size: 41
23087650 TTGTATATAA
* ** * * *
23087660 CACCGGCATAAAGCCTGCTAGGCACCAAGCCCGATACATTT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
* *
23087701 CACCGGCACAAAGCCTGCTAGACATAAAGTCTGATATAATT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
23087742 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
23087783 CACCGGCA
1 CACCGGCA
23087791 NNNNNNNNNN
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 80 1.00
ACGTcount: A:0.33, C:0.30, G:0.19, T:0.18
Consensus pattern (41 bp):
CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
Found at i:23091188 original size:27 final size:27
Alignment explanation
Indices: 23091158--23091211 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
23091148 GATCTTTCCA
23091158 GTTTTATATTT-TTT-TTCTTAAAAAATT
1 GTTTT-TATTTCTTTATT-TTAAAAAATT
*
23091185 GTTTTTCTTTCTTTATTTTAAAAAATT
1 GTTTTTATTTCTTTATTTTAAAAAATT
23091212 AACTTATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 4 0.17
27 18 0.75
28 2 0.08
ACGTcount: A:0.28, C:0.06, G:0.04, T:0.63
Consensus pattern (27 bp):
GTTTTTATTTCTTTATTTTAAAAAATT
Found at i:23099797 original size:20 final size:22
Alignment explanation
Indices: 23099772--23099836 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 22
23099762 TTACTTTTCC
23099772 AATTATAATATTTTTAA-AAA-
1 AATTATAATATTTTTAATAAAT
23099792 AATTATAAT-TTTTTAATAAAT
1 AATTATAATATTTTTAATAAAT
* * *
23099813 AAATAAAATATATTTTAATTAAT
1 AATTATAATAT-TTTTAATAAAT
23099836 A
1 A
23099837 TATACCATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
19 7 0.18
20 12 0.32
21 7 0.18
22 1 0.03
23 11 0.29
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
AATTATAATATTTTTAATAAAT
Found at i:23100464 original size:20 final size:21
Alignment explanation
Indices: 23100441--23100492 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
23100431 CTTATTTTCA
*
23100441 ATTTATTAATTTTATAAAA-T
1 ATTTATTAATTTTAGAAAATT
23100461 ATTT-TTAATGTTTAGAAAATT
1 ATTTATTAAT-TTTAGAAAATT
*
23100482 ATTTAGTAATT
1 ATTTATTAATT
23100493 GATTTAAGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 5 0.19
20 12 0.44
21 6 0.22
22 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (21 bp):
ATTTATTAATTTTAGAAAATT
Found at i:23101235 original size:27 final size:27
Alignment explanation
Indices: 23101202--23101258 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
23101192 AACGATCACT
* *
23101202 TTTTCTTTAACCCAAACGGAATTTCTC
1 TTTTCTTTAACCCAAACGGAACTTCCC
*
23101229 TTTTCTTTAATCCAAACGGAACTTCCC
1 TTTTCTTTAACCCAAACGGAACTTCCC
23101256 TTT
1 TTT
23101259 AAATTTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.26, G:0.07, T:0.42
Consensus pattern (27 bp):
TTTTCTTTAACCCAAACGGAACTTCCC
Found at i:23106093 original size:23 final size:23
Alignment explanation
Indices: 23106063--23106110 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
23106053 GGCACTCTGG
23106063 ATGGCCCCTACAGATCAGAATGA
1 ATGGCCCCTACAGATCAGAATGA
23106086 ATGGCCCCTACAGATCAGAATGA
1 ATGGCCCCTACAGATCAGAATGA
23106109 AT
1 AT
23106111 ATACTCCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.19
Consensus pattern (23 bp):
ATGGCCCCTACAGATCAGAATGA
Found at i:23120060 original size:27 final size:27
Alignment explanation
Indices: 23120025--23120089 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
23120015 CCTATTAAGT
* * *
23120025 AGGCTCCAATGAAGGTGCCTCATATAG
1 AGGCGCCAATGAAGGCGCCTCATAGAG
*
23120052 AGGTGCCAATGAAGGCGCCTCATAGAG
1 AGGCGCCAATGAAGGCGCCTCATAGAG
23120079 AGGCGCCAATG
1 AGGCGCCAATG
23120090 GTGGCCTTCT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.29, C:0.23, G:0.31, T:0.17
Consensus pattern (27 bp):
AGGCGCCAATGAAGGCGCCTCATAGAG
Found at i:23120234 original size:17 final size:18
Alignment explanation
Indices: 23120200--23120259 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 18
23120190 TGGGGACGGT
23120200 AGAGAAA-AA-AA-AAAG
1 AGAGAAAGAAGAAGAAAG
*
23120215 AGAGAAAGGAGAAG-AAG
1 AGAGAAAGAAGAAGAAAG
23120232 AGA-AGAAGAAGAAGAAAG
1 AGAGA-AAGAAGAAGAAAG
*
23120250 AAAGAAAGAA
1 AGAGAAAGAA
23120260 AGGTAATGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
15 7 0.19
16 2 0.06
17 16 0.44
18 10 0.28
19 1 0.03
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (18 bp):
AGAGAAAGAAGAAGAAAG
Found at i:23120255 original size:14 final size:13
Alignment explanation
Indices: 23120212--23120251 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
23120202 AGAAAAAAAA
*
23120212 AAGAGAGAAAGGAG
1 AAGA-AGAAAGAAG
23120226 AAGAAGAGAAGAAG
1 AAGAAGA-AAGAAG
23120240 AAGAAGAAAGAA
1 AAGAAGAAAGAA
23120252 AGAAAGAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 8 0.33
14 16 0.67
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAGAAG
Found at i:23120429 original size:19 final size:19
Alignment explanation
Indices: 23120405--23120468 Score: 83
Period size: 19 Copynumber: 3.2 Consensus size: 19
23120395 TTTGGATTAG
*
23120405 AATTTTGTATGAATATTCT
1 AATTTTGTATGAATATTGT
23120424 AATTTTTTTGTATGAATATTGT
1 AA---TTTTGTATGAATATTGT
*
23120446 AATTTTTTATGAATATTGT
1 AATTTTGTATGAATATTGT
23120465 AATT
1 AATT
23120469 ATTTTATAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
19 22 0.55
22 18 0.45
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.56
Consensus pattern (19 bp):
AATTTTGTATGAATATTGT
Found at i:23120434 original size:22 final size:22
Alignment explanation
Indices: 23120407--23120473 Score: 95
Period size: 22 Copynumber: 3.2 Consensus size: 22
23120397 TGGATTAGAA
*
23120407 TTTTGTATGAATATTCTAATTT
1 TTTTGTATGAATATTGTAATTT
23120429 TTTTGTATGAATATTGTAA--T
1 TTTTGTATGAATATTGTAATTT
*
23120449 TTTT-TATGAATATTGTAATTA
1 TTTTGTATGAATATTGTAATTT
23120470 TTTT
1 TTTT
23120474 ATAATTAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
19 14 0.34
20 5 0.12
21 4 0.10
22 18 0.44
ACGTcount: A:0.28, C:0.01, G:0.10, T:0.60
Consensus pattern (22 bp):
TTTTGTATGAATATTGTAATTT
Found at i:23124206 original size:27 final size:27
Alignment explanation
Indices: 23124176--23124237 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
23124166 CTCAGTATGA
23124176 CACCAATAATGGCGCCTCCCAGATAGG
1 CACCAATAATGGCGCCTCCCAGATAGG
** *
23124203 CACCACCATTGGCGCCTCCCAGATAGG
1 CACCAATAATGGCGCCTCCCAGATAGG
*
23124230 CGCCAATA
1 CACCAATA
23124238 CTATATATTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.27, C:0.37, G:0.21, T:0.15
Consensus pattern (27 bp):
CACCAATAATGGCGCCTCCCAGATAGG
Found at i:23125946 original size:17 final size:17
Alignment explanation
Indices: 23125901--23125946 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
23125891 AAACTATAAC
23125901 AAAATTATTT--TTTAA
1 AAAATTATTTAATTTAA
*
23125916 AATATT-TTTAAATTTAA
1 AAAATTATTT-AATTTAA
23125933 AAAATTATTTAATT
1 AAAATTATTTAATT
23125947 ATTAATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
14 3 0.12
15 5 0.20
17 14 0.56
18 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AAAATTATTTAATTTAA
Found at i:23128603 original size:21 final size:21
Alignment explanation
Indices: 23128559--23128607 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
23128549 CTGATAAAAT
* *
23128559 AAATAAATTAATTTATTAGCA
1 AAATAAATTAATTTATCAACA
* *
23128580 AAATAAATTTATTTATCAATA
1 AAATAAATTAATTTATCAACA
23128601 AAATAAA
1 AAATAAA
23128608 AATACTGTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (21 bp):
AAATAAATTAATTTATCAACA
Found at i:23131342 original size:39 final size:39
Alignment explanation
Indices: 23131299--23131393 Score: 172
Period size: 39 Copynumber: 2.4 Consensus size: 39
23131289 CCCGGTGCTT
23131299 GTCCCTGTTGTCGGTGTCCCCGTTGTTGGTGTGGTAGGA
1 GTCCCTGTTGTCGGTGTCCCCGTTGTTGGTGTGGTAGGA
23131338 GTCCCTGTTGTCGGTGTCCCCGTTGTTGGTGTGGTAGGA
1 GTCCCTGTTGTCGGTGTCCCCGTTGTTGGTGTGGTAGGA
* *
23131377 GTCCCTGTGGTTGGTGT
1 GTCCCTGTTGTCGGTGT
23131394 TGAGGTAGGC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.04, C:0.20, G:0.39, T:0.37
Consensus pattern (39 bp):
GTCCCTGTTGTCGGTGTCCCCGTTGTTGGTGTGGTAGGA
Found at i:23131389 original size:24 final size:24
Alignment explanation
Indices: 23131353--23131444 Score: 94
Period size: 24 Copynumber: 3.7 Consensus size: 24
23131343 TGTTGTCGGT
* *
23131353 GTCCCCGTTGTTGGTGTGGTAGGA
1 GTCCCTGTGGTTGGTGTGGTAGGA
*
23131377 GTCCCTGTGGTTGGTGTTGAGGTAGGC
1 GTCCCTGTGGTTGGTG-T--GGTAGGA
* * *
23131404 GTCCCTGTGGTCGGTGTCGTCGGA
1 GTCCCTGTGGTTGGTGTGGTAGGA
*
23131428 GTCCCTGTGGATGGTGT
1 GTCCCTGTGGTTGGTGT
23131445 TGTGCTTGTA
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
24 33 0.59
25 1 0.02
26 1 0.02
27 21 0.38
ACGTcount: A:0.07, C:0.18, G:0.42, T:0.33
Consensus pattern (24 bp):
GTCCCTGTGGTTGGTGTGGTAGGA
Found at i:23139597 original size:39 final size:38
Alignment explanation
Indices: 23139549--23139737 Score: 118
Period size: 39 Copynumber: 4.8 Consensus size: 38
23139539 GTTTAGTTAT
*
23139549 TAATAATTATTGTTACTTAGTATTATTATTAGTAAAAAAC
1 TAAT-ATTATTGTTAGTTAGTATTATTATTAGT-AAAAAC
* * **
23139589 TAATATTATTATCATGGTTAGTTATTAGGATTAGTAAAAACCC
1 TAATATTATTGT--TAGTTAG-TATTATTATTAGTAAAAA--C
* * ****
23139632 TAATTATTATT-TTAGTTAGTATGATTGTTAGTTTTTAC
1 TAA-TATTATTGTTAGTTAGTATTATTATTAGTAAAAAC
*
23139670 ATTATATTATTGTTAGTTAGTATTATT-TTGAGT-AAAAC
1 -TAATATTATTGTTAGTTAGTATTATTATT-AGTAAAAAC
* *
23139708 TATTATTATTGTTA-TT-GTGTTAGTTATTAG
1 TAATATTATTGTTAGTTAGTATTA-TTATTAG
23139738 GATTAGTGGT
Statistics
Matches: 116, Mismatches: 22, Indels: 26
0.71 0.13 0.16
Matches are distributed among these distances:
35 5 0.04
36 6 0.05
37 14 0.12
38 12 0.10
39 26 0.22
40 14 0.12
41 16 0.14
42 11 0.09
43 5 0.04
44 7 0.06
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (38 bp):
TAATATTATTGTTAGTTAGTATTATTATTAGTAAAAAC
Found at i:23142133 original size:43 final size:42
Alignment explanation
Indices: 23142072--23142236 Score: 171
Period size: 43 Copynumber: 3.9 Consensus size: 42
23142062 ATTTCCAATA
23142072 TGTG-TTATCGTGTAAGACCACGTCTGGGACGTTGGCATCGACT
1 TGTGTTTA-CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-T
* *
23142115 TGTGTTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
1 TGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCG-AT
23142158 T-TGATTT--GTGTAAGACC-CTGTCTGGGACAG-TGGCATCGAT
1 TGTG-TTTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT
* * * *
23142198 ATGTGATTACATGTAAGACCAGGTCTAGGACGTTGGCAT
1 -TGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCAT
23142237 TGTACGAGTC
Statistics
Matches: 103, Mismatches: 8, Indels: 22
0.77 0.06 0.17
Matches are distributed among these distances:
40 2 0.02
41 30 0.29
42 5 0.05
43 62 0.60
44 4 0.04
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.32
Consensus pattern (42 bp):
TGTGTTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
Found at i:23142234 original size:84 final size:84
Alignment explanation
Indices: 23142081--23142236 Score: 219
Period size: 84 Copynumber: 1.9 Consensus size: 84
23142071 ATGTGTTATC
* * * *
23142081 GTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGTTTACGTGTAAGACCATGTCTGGGACA
1 GTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTACATGTAAGACCAGGTCTAGGACA
23142146 TTGGCATCGTATTTGATTT
66 TTGGCATCGTATTTGATTT
23142165 GTGTAAGACC-CTGTCTGGGACAG-TGGCATCGA-TATGTGATTACATGTAAGACCAGGTCTAGG
1 GTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TGTGATTACATGTAAGACCAGGTCTAGG
*
23142227 ACGTTGGCAT
63 ACATTGGCAT
23142237 TGTACGAGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
83 2 0.03
84 61 0.95
85 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.30
Consensus pattern (84 bp):
GTGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTACATGTAAGACCAGGTCTAGGACA
TTGGCATCGTATTTGATTT
Found at i:23145171 original size:136 final size:137
Alignment explanation
Indices: 23144914--23145188 Score: 507
Period size: 136 Copynumber: 2.0 Consensus size: 137
23144904 ATTGCGTCAA
23144914 ACTTCCATTGTAACACCCCTAACCCGTATCCGTCGCTGAATTAGGGTTATGAGGCATTACCGAAC
1 ACTTCCATTGT-ACACCCCTAACCCGTATCCGTCGCTGAATTAGGGTTATGAGGCATTACCGAAC
*
23144979 AAACACAACCATTTTTTTTAAAAACCAAACTAATCACAAACATGAAGATTAAATCATTTTCGCAT
65 AAACACAACCATTTTTTTTAAAAACCAAAATAATCACAAACATGAAGATTAAATCATTTTCGCAT
23145044 AGCTATTT
130 AGCTATTT
23145052 ACTTCCATTGT-CACCCCTAACCCGTATCCGTCGCTGAATTAGGGTTATGAGGCATTACCGAACA
1 ACTTCCATTGTACACCCCTAACCCGTATCCGTCGCTGAATTAGGGTTATGAGGCATTACCGAACA
**
23145116 AACACAACCATTTTTTTTAAAAACCAAAATCTTCACAAACATGAAGATTAAATCATTTTCGCATA
66 AACACAACCATTTTTTTTAAAAACCAAAATAATCACAAACATGAAGATTAAATCATTTTCGCATA
23145181 GCTATTT
131 GCTATTT
23145188 A
1 A
23145189 TAATTTACAA
Statistics
Matches: 134, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
136 123 0.92
138 11 0.08
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (137 bp):
ACTTCCATTGTACACCCCTAACCCGTATCCGTCGCTGAATTAGGGTTATGAGGCATTACCGAACA
AACACAACCATTTTTTTTAAAAACCAAAATAATCACAAACATGAAGATTAAATCATTTTCGCATA
GCTATTT
Found at i:23152652 original size:10 final size:10
Alignment explanation
Indices: 23152609--23152671 Score: 56
Period size: 10 Copynumber: 5.8 Consensus size: 10
23152599 CTGGTGGGGT
23152609 GAGAAGAAAAG
1 GAGAAG-AAAG
23152620 GAGAAGAAAG
1 GAGAAGAAAG
*
23152630 AAAGAAAATGAAAG
1 ---GAGAA-GAAAG
23152644 GAGAAGAAAG
1 GAGAAGAAAG
23152654 GA-AAGGAAAG
1 GAGAA-GAAAG
23152664 GAGAAGAA
1 GAGAAGAA
23152672 GAAAAGGGAA
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
9 2 0.05
10 21 0.48
11 12 0.27
13 4 0.09
14 5 0.11
ACGTcount: A:0.63, C:0.00, G:0.35, T:0.02
Consensus pattern (10 bp):
GAGAAGAAAG
Found at i:23152652 original size:20 final size:20
Alignment explanation
Indices: 23152612--23152697 Score: 97
Period size: 20 Copynumber: 4.3 Consensus size: 20
23152602 GTGGGGTGAG
23152612 AAGAAAAGGAGAA-GA-AAGA
1 AAGAAAAGGA-AAGGAGAAGA
*
23152631 AAGAAAATGAAAGGAGAAGA
1 AAGAAAAGGAAAGGAGAAGA
*
23152651 AAGGAAAGGAAAGGAGAAG-
1 AAGAAAAGGAAAGGAGAAGA
* *
23152670 AAGAAAAGGGAAGGAAAAAGA
1 AAGAAAAGGAAAGG-AGAAGA
23152691 AAGAAAA
1 AAGAAAA
23152698 AAAAGTGAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
18 2 0.04
19 23 0.40
20 25 0.44
21 7 0.12
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (20 bp):
AAGAAAAGGAAAGGAGAAGA
Found at i:23152694 original size:24 final size:24
Alignment explanation
Indices: 23152645--23152700 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
23152635 AAATGAAAGG
*
23152645 AGAAG-AAAGGAAAGGAAAGGAGA
1 AGAAGAAAAGGAAAGGAAAAGAGA
*
23152668 AGAAGAAAAGGGAAGGAAAA-AGAA
1 AGAAGAAAAGGAAAGGAAAAGAG-A
*
23152692 AGAAAAAAA
1 AGAAGAAAA
23152701 AGTGAAGGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 7 0.25
24 21 0.75
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (24 bp):
AGAAGAAAAGGAAAGGAAAAGAGA
Found at i:23153384 original size:304 final size:301
Alignment explanation
Indices: 23153018--23153885 Score: 1343
Period size: 304 Copynumber: 2.9 Consensus size: 301
23153008 TAAAATCTGA
* * *
23153018 AAAAAAATATAAAATAACAAAATA-AAAAAT-ATATATTTTTATTGAAAGTAATAAAATTCGGG-
1 AAAATAATGTAAAATAATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGA
** *
23153080 AAAAAATACGAACAAAGGGCCGAAATAAGGGTTATTTTTTGAAATTTATTTAACAAACACATTAA
66 AAAAAATACGAGTAAAGGGCCGAAATAAGGGTTATTTTTT-AAATTTATTTAA-AAACACACTAA
*
23153145 ATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAAAAAATAGTATAT
129 ATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATAT
23153210 TTTTTAAAAGTAATAAAATTC-GGAAAAAATACGAACAAAGGGCCGAAATAAGGGTATTTTACTA
194 TTTTT-AAAGTAATAAAATTCGGGAAAAAATACGAACAAAGGGCCGAAATAAGGGT-TTTTACTA
23153274 ATTAACAAAAACAGAATTAATTAATACATTTCAAACATAATGTACT
257 ATTAA-AAAAACAGAATTAATTAATACATTTCAAACATAATGTACT
* *
23153320 AAAATAATGTAAAATAATAAAATACGAAAATAATATATTTTTATTAAAAGTAATAAAATTCGGGA
1 AAAATAATGTAAAATAATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGA
*
23153385 AAAAAATACTAGTAAAGGGCCGAAATAAGGG-T-TTTTTTAAATTTATTTAAAAAACACACTAAA
66 AAAAAATACGAGTAAAGGGCCGAAATAAGGGTTATTTTTTAAATTTATTT-AAAAACACACTAAA
* * * *
23153448 GTAATAAATTTAAAACATAATGTACTAAAATAATGTAAAATAATAAAAATAGAAAATAATATATT
130 TTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATA-T
*
23153513 TTTTTAAAGTAATAAAATTCGGGGAAAAAATACGAACAAAGTGCCGAAATAAGGGTTTTTTACTA
194 TTTTTAAAGTAATAAAATTC-GGGAAAAAATACGAACAAAGGGCCGAAATAAGGG-TTTTTACT-
23153578 AATTAAAAAAACAGAATTAATTAATACATTTCAAACATAATGTACT
256 AATTAAAAAAACAGAATTAATTAATACATTTCAAACATAATGTACT
* *
23153624 AAAATAATGTAAAATAATAAAATACAAAAATAAAATATTTTAATTGAAAGTAATAAAATTCGGGA
1 AAAATAATGTAAAATAATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGA
*
23153689 AAAAAATACGAGTAAAGGGCCAAAATAAGGGTTATTTTTCTAAATTTATTTAAAACACACACTAA
66 AAAAAATACGAGTAAAGGGCCGAAATAAGGGTTATTTTT-TAAATTTATTTAAAA-ACACACTAA
* * *
23153754 ATTAATGAATTTCAAACATAATGTACTAAAATAATGTAAAATTAGAAAATTAGAAAATAGTATAT
129 ATTAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATAT
* * *
23153819 TATTTAAAGTAATAAAATCCGGGGAAAAAAATACGAACAAATGGCCGAAATAAGGGTTTCTTACT
194 TTTTTAAAGTAATAAAATTC-GGG-AAAAAATACGAACAAAGGGCCGAAATAAGGGTTT-TTACT
23153884 AA
256 AA
23153886 ATTTTTTTTG
Statistics
Matches: 519, Mismatches: 32, Indels: 26
0.90 0.06 0.05
Matches are distributed among these distances:
302 115 0.22
303 19 0.04
304 201 0.39
305 36 0.07
306 37 0.07
307 111 0.21
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.29
Consensus pattern (301 bp):
AAAATAATGTAAAATAATAAAATACAAAAATAATATATTTTTATTGAAAGTAATAAAATTCGGGA
AAAAAATACGAGTAAAGGGCCGAAATAAGGGTTATTTTTTAAATTTATTTAAAAACACACTAAAT
TAATAAATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTT
TTTAAAGTAATAAAATTCGGGAAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTACTAATTA
AAAAAACAGAATTAATTAATACATTTCAAACATAATGTACT
Found at i:23153683 original size:152 final size:152
Alignment explanation
Indices: 23153018--23153889 Score: 1058
Period size: 152 Copynumber: 5.7 Consensus size: 152
23153008 TAAAATCTGA
* * * *
23153018 AAAAAAATATAAAATAACAAAATAAAAAAT-ATATATTTTTATTGAAAGTAATAAAATTC-GGGA
1 AAAATAATGTAAAATAATAAAATAAAAAATAATATA-TTTTATTAAAAGTAATAAAATTCGGGGA
* *
23153081 AAAAATACGAACAAAGGGCCGAAATAAGGGTTATTTT-TTGAAATTTATTTAACAAACAC-ATTA
65 AAAAATACGAACAAAGGGCCGAAATAAGGGTT-TTTTACT-AAATTTA--TAAAAAACACAATT-
23153144 AATTAATAAATTTCAAACATAATGTACT
125 AATTAATAAATTTCAAACATAATGTACT
*
23153172 AAAATAATGTAAAATAATAAAATTAAAAAATAGTATATTTT-TTAAAAGTAATAAAATTC--GGA
1 AAAATAATGTAAAATAATAAAA-TAAAAAATAATATATTTTATTAAAAGTAATAAAATTCGGGGA
* *
23153234 AAAAATACGAACAAAGGGCCGAAATAAGGGTATTTTACT-AA-TTA-ACAAAAACAGAATTAATT
65 AAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTACTAAATTTATA-AAAAACACAATTAATT
*
23153296 AATACATTTCAAACATAATGTACT
129 AATAAATTTCAAACATAATGTACT
* *
23153320 AAAATAATGTAAAATAATAAAATACGAAAATAATATATTTTTATTAAAAGTAATAAAATTCGGGA
1 AAAATAATGTAAAATAATAAAATA-AAAAATAATATA-TTTTATTAAAAGTAATAAAATTCGGGG
* ** * *
23153385 AAAAAATACTAGTAAAGGGCCGAAATAAGGGTTTTTT--TAAATTTATTTAAAAAACACACTAAA
64 AAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTACTAAATTTA--TAAAAAACACAATTAA
* *
23153448 GTAATAAATTTAAAACATAATGTACT
127 TTAATAAATTTCAAACATAATGTACT
* *
23153474 AAAATAATGTAAAATAATAAAAATAGAAAATAATATATTTT-TTTAAAGTAATAAAATTCGGGGA
1 AAAATAATGTAAAATAAT-AAAATAAAAAATAATATATTTTATTAAAAGTAATAAAATTCGGGGA
* *
23153538 AAAAATACGAACAAAGTGCCGAAATAAGGGTTTTTTACTAAA-TTA-AAAAAACAGAATTAATTA
65 AAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTACTAAATTTATAAAAAACACAATTAATTA
*
23153601 ATACATTTCAAACATAATGTACT
130 ATAAATTTCAAACATAATGTACT
* * *
23153624 AAAATAATGTAAAATAATAAAATACAAAAATAAAATATTTTAATTGAAAGTAATAAAATTCGGGA
1 AAAATAATGTAAAATAATAAAATA-AAAAATAATATATTTT-ATTAAAAGTAATAAAATTCGGGG
** * * * * *
23153689 AAAAAATACGAGTAAAGGGCCAAAATAAGGGTTATTTTTCTAAATTTATTTAAAACACACACTAA
64 AAAAAATACGAACAAAGGGCCGAAATAAGGGTT-TTTTACTAAATTTA--TAAAAAACACAATTA
*
23153754 ATTAATGAATTTCAAACATAATGTACT
126 ATTAATAAATTTCAAACATAATGTACT
* * * * * *
23153781 AAAATAATGTAAAATTAGAAAATTAGAAAATAGTATA--TTATTTAAAGTAATAAAATCCGGGGA
1 AAAATAATGTAAAATAATAAAA-TAAAAAATAATATATTTTATTAAAAGTAATAAAATTCGGGG-
* *
23153844 AAAAAATACGAACAAATGGCCGAAATAAGGGTTTCTTACTAAATTT
64 AAAAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTACTAAATTT
23153890 TTTTTGAAGT
Statistics
Matches: 626, Mismatches: 64, Indels: 56
0.84 0.09 0.08
Matches are distributed among these distances:
147 3 0.00
148 65 0.10
149 13 0.02
150 89 0.14
151 4 0.01
152 143 0.23
153 51 0.08
154 138 0.22
155 50 0.08
156 4 0.01
157 64 0.10
158 2 0.00
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.29
Consensus pattern (152 bp):
AAAATAATGTAAAATAATAAAATAAAAAATAATATATTTTATTAAAAGTAATAAAATTCGGGGAA
AAAATACGAACAAAGGGCCGAAATAAGGGTTTTTTACTAAATTTATAAAAAACACAATTAATTAA
TAAATTTCAAACATAATGTACT
Found at i:23154685 original size:8 final size:8
Alignment explanation
Indices: 23154671--23154718 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
23154661 GGGTGTTAAA
23154671 ACAACATT
1 ACAACATT
*
23154679 GCAACATT
1 ACAACATT
23154687 ACAACATT
1 ACAACATT
*
23154695 AC-ACATA
1 ACAACATT
**
23154702 ACAATTTT
1 ACAACATT
23154710 ACAACATT
1 ACAACATT
23154718 A
1 A
23154719 GCTTAATTCC
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
7 6 0.19
8 25 0.81
ACGTcount: A:0.48, C:0.23, G:0.02, T:0.27
Consensus pattern (8 bp):
ACAACATT
Found at i:23157538 original size:37 final size:37
Alignment explanation
Indices: 23157496--23157699 Score: 118
Period size: 37 Copynumber: 5.4 Consensus size: 37
23157486 ACTAACACAA
*
23157496 TAACAATAATAA-T-A-GTTTTACTCAAAATAATACTAAC
1 TAACAATAATAATTAAGGTTTTACT--AAA-AATAATAAC
23157533 TAACAATAATAATTAAGGTTTTACTAAAAATAATAAC
1 TAACAATAATAATTAAGGTTTTACTAAAAATAATAAC
* *** *
23157570 TAACAATAAT-A-TAATGTAAAAACTAACAATCATACTAAC
1 TAACAATAATAATTAAGGT-TTTACTAA-AA--ATAATAAC
***
23157609 TAA-AATAATAATT-AGGATTTTTACTAATCCTAATAAC
1 TAACAATAATAATTAAGG--TTTTACTAAAAATAATAAC
* * * *
23157646 TAACCATAATAATATTAGTTTTTTACTAATAATAAT-AC
1 TAACAATAATAAT-TAAG-GTTTTACTAAAAATAATAAC
*
23157684 TAAGCAACAATAATTA
1 TAA-CAATAATAATTA
23157700 TTAATAACTA
Statistics
Matches: 130, Mismatches: 21, Indels: 31
0.71 0.12 0.17
Matches are distributed among these distances:
35 5 0.04
36 6 0.05
37 41 0.32
38 24 0.18
39 37 0.28
40 16 0.12
41 1 0.01
ACGTcount: A:0.51, C:0.12, G:0.04, T:0.33
Consensus pattern (37 bp):
TAACAATAATAATTAAGGTTTTACTAAAAATAATAAC
Found at i:23157612 original size:23 final size:23
Alignment explanation
Indices: 23157567--23157613 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
23157557 TAAAAATAAT
*
23157567 AACTAACAATAATATAATGTAAA
1 AACTAACAATAATATAATCTAAA
*
23157590 AACTAACAATCATACTAA-CTAAA
1 AACTAACAATAATA-TAATCTAAA
23157613 A
1 A
23157614 TAATAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (23 bp):
AACTAACAATAATATAATCTAAA
Found at i:23158303 original size:12 final size:12
Alignment explanation
Indices: 23158283--23158336 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
23158273 GGCCAGTACA
*
23158283 AATAACAAAAAC
1 AATAGCAAAAAC
*
23158295 AATAGCAAAAAT
1 AATAGCAAAAAC
*
23158307 AATAACAAAAAC
1 AATAGCAAAAAC
* *
23158319 AACAG-AAAAAT
1 AATAGCAAAAAC
23158330 AATAGCA
1 AATAGCA
23158337 CCAAAACACT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.70, C:0.13, G:0.06, T:0.11
Consensus pattern (12 bp):
AATAGCAAAAAC
Found at i:23158312 original size:24 final size:23
Alignment explanation
Indices: 23158283--23158333 Score: 84
Period size: 24 Copynumber: 2.2 Consensus size: 23
23158273 GGCCAGTACA
*
23158283 AATAACAAAAACAATAGCAAAAAT
1 AATAACAAAAACAACAG-AAAAAT
23158307 AATAACAAAAACAACAGAAAAAT
1 AATAACAAAAACAACAGAAAAAT
23158330 AATA
1 AATA
23158334 GCACCAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.73, C:0.12, G:0.04, T:0.12
Consensus pattern (23 bp):
AATAACAAAAACAACAGAAAAAT
Found at i:23161414 original size:18 final size:17
Alignment explanation
Indices: 23161388--23161421 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
23161378 TCTTTTCCTG
*
23161388 ATTTTTTTATTTGTTTTT
1 ATTTATTTATTT-TTTTT
23161406 ATTTATTTATTTTTTT
1 ATTTATTTATTTTTTT
23161422 CTGATTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (17 bp):
ATTTATTTATTTTTTTT
Found at i:23161771 original size:22 final size:23
Alignment explanation
Indices: 23161745--23161789 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
23161735 NNNNNNNNAG
*
23161745 TATATTTAAAA-ATTTTAAAATA
1 TATATTTAAAATATTATAAAATA
23161767 TATATTTAAAATATTATAAAATA
1 TATATTTAAAATATTATAAAATA
23161790 AATAAAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TATATTTAAAATATTATAAAATA
Found at i:23161827 original size:23 final size:23
Alignment explanation
Indices: 23161785--23161828 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
23161775 AAATATTATA
* **
23161785 AAATAAATAAAAACTGAAAAAGT
1 AAATAAAGAAAAACAAAAAAAGT
23161808 AAATAAAGAAAAACAAAAAAA
1 AAATAAAGAAAAACAAAAAAA
23161829 ATGAAAAAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.77, C:0.05, G:0.07, T:0.11
Consensus pattern (23 bp):
AAATAAAGAAAAACAAAAAAAGT
Found at i:23170181 original size:14 final size:15
Alignment explanation
Indices: 23170162--23170190 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
23170152 GCATAAGTAA
23170162 AAAATATTA-TAAAT
1 AAAATATTAGTAAAT
23170176 AAAATATTAGTAAAT
1 AAAATATTAGTAAAT
23170191 GGTTGATAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (15 bp):
AAAATATTAGTAAAT
Found at i:23175956 original size:22 final size:22
Alignment explanation
Indices: 23175930--23175972 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
23175920 AAAAACGTTT
*
23175930 GTTGTTTTTTTACTGTTTTGTC
1 GTTGTTTTTTCACTGTTTTGTC
*
23175952 GTTGTTTTTTCATTGTTTTGT
1 GTTGTTTTTTCACTGTTTTGT
23175973 TATCATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.05, C:0.07, G:0.19, T:0.70
Consensus pattern (22 bp):
GTTGTTTTTTCACTGTTTTGTC
Found at i:23176133 original size:11 final size:11
Alignment explanation
Indices: 23176113--23176150 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
23176103 AGTATAATTT
23176113 TAAAAA-AATA
1 TAAAAATAATA
23176123 TAAAAATAATA
1 TAAAAATAATA
* *
23176134 AAAAAATTATA
1 TAAAAATAATA
23176145 TAAAAA
1 TAAAAA
23176151 ATTATTCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
10 6 0.25
11 18 0.75
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:23177408 original size:44 final size:44
Alignment explanation
Indices: 23177345--23177438 Score: 152
Period size: 44 Copynumber: 2.1 Consensus size: 44
23177335 AGATAGAAAG
* * *
23177345 AAAGTTTATATAGGATGATGATGTTAATGTATTGTTGTCCCTTA
1 AAAGTTTATACAGGATGATGATGTTAATGTATTGCTATCCCTTA
*
23177389 AAAGTTTATACAGGATGATGATGTTAATGTATTGCTATCCCTTC
1 AAAGTTTATACAGGATGATGATGTTAATGTATTGCTATCCCTTA
23177433 AAAGTT
1 AAAGTT
23177439 AAGTTATGAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (44 bp):
AAAGTTTATACAGGATGATGATGTTAATGTATTGCTATCCCTTA
Found at i:23179638 original size:43 final size:43
Alignment explanation
Indices: 23179591--23179672 Score: 123
Period size: 43 Copynumber: 1.9 Consensus size: 43
23179581 TAATCACAGA
23179591 TCGATGCC-ACTGTCCCAGACAG-GATCTTACACGAAAACATAAT
1 TCGATGCCAAC-GTCCCAGAC-GTGATCTTACACGAAAACATAAT
*
23179634 TCGATGCCAACGTCCCAGACGTGGTCTTACACGAAAACA
1 TCGATGCCAACGTCCCAGACGTGATCTTACACGAAAACA
23179673 CAAATTGGAG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
42 1 0.03
43 33 0.92
44 2 0.06
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (43 bp):
TCGATGCCAACGTCCCAGACGTGATCTTACACGAAAACATAAT
Found at i:23185534 original size:25 final size:27
Alignment explanation
Indices: 23185482--23185536 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 27
23185472 TAAATGTCTA
23185482 TTTTCGTAATTAATCGATTTTCCCTATAT
1 TTTTCGTAATTAATCGATTTT--CTATAT
*
23185511 TTTTCGTAATTAAT-TATTTT-TATAT
1 TTTTCGTAATTAATCGATTTTCTATAT
23185536 T
1 T
23185537 ATTTAGGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 6 0.24
28 5 0.20
29 14 0.56
ACGTcount: A:0.25, C:0.11, G:0.05, T:0.58
Consensus pattern (27 bp):
TTTTCGTAATTAATCGATTTTCTATAT
Found at i:23196630 original size:2 final size:2
Alignment explanation
Indices: 23196623--23196660 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
23196613 AATAGTACTA
23196623 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23196661 CTTTGTCTCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23198198 original size:18 final size:17
Alignment explanation
Indices: 23198173--23198210 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
23198163 AAATTTTAAA
23198173 TTTTTTTTAAAATACTTT
1 TTTTTTTTAAAATA-TTT
23198191 TTTATTTTTAAAATATTT
1 TTT-TTTTTAAAATATTT
23198209 TT
1 TT
23198211 AAAATATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTTTTAAAATATTT
Found at i:23198223 original size:30 final size:30
Alignment explanation
Indices: 23198139--23198230 Score: 105
Period size: 30 Copynumber: 3.0 Consensus size: 30
23198129 AAAATGAGGC
* * *
23198139 TAAAATACTTTTTTAAA-ATTTTTTAAATTT
1 TAAAATA-TTTTTAAAATATTTTTTTATTTT
* * *
23198169 TAAATTTTTTTTAAAATACTTTTTTATTTT
1 TAAAATATTTTTAAAATATTTTTTTATTTT
23198199 TAAAATATTTTTAAAATATTTTTTTAATTTT
1 TAAAATATTTTTAAAATATTTTTTT-ATTTT
23198230 T
1 T
23198231 GTTTTAATTT
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
29 8 0.16
30 37 0.73
31 6 0.12
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (30 bp):
TAAAATATTTTTAAAATATTTTTTTATTTT
Found at i:23198225 original size:13 final size:11
Alignment explanation
Indices: 23198193--23198221 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
23198183 AATACTTTTT
23198193 TATTTTTAAAA
1 TATTTTTAAAA
23198204 TATTTTTAAAA
1 TATTTTTAAAA
23198215 TATTTTT
1 TATTTTT
23198222 TTAATTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTTTTAAAA
Found at i:23211159 original size:25 final size:25
Alignment explanation
Indices: 23211118--23211174 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
23211108 ACAATCCATG
** * *
23211118 TAAATCATGTATTTCATGTAACTTT
1 TAAATCATGTAAATCATATAACATT
23211143 TAAATCATGTAAATCATATAACATT
1 TAAATCATGTAAATCATATAACATT
*
23211168 TATATCA
1 TAAATCA
23211175 ATTTTTTTTC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (25 bp):
TAAATCATGTAAATCATATAACATT
Found at i:23211465 original size:23 final size:23
Alignment explanation
Indices: 23211438--23211506 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
23211428 CGAGCTAAAT
* *
23211438 AAACGGTAAGCTCTATTGAGCTG
1 AAACGGTAAGCTCCATAGAGCTG
*
23211461 AAACGGTAAGCTCCGTAGAGCTG
1 AAACGGTAAGCTCCATAGAGCTG
23211484 AAACGGTAAGCT-CATACGAGCTG
1 AAACGGTAAGCTCCATA-GAGCTG
23211507 TGGTGAGTCC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
22 3 0.07
23 38 0.93
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.20
Consensus pattern (23 bp):
AAACGGTAAGCTCCATAGAGCTG
Found at i:23218518 original size:25 final size:25
Alignment explanation
Indices: 23218490--23218541 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
23218480 AACAACAATC
* *
23218490 CATGTAAATCATGTAACTTTTAAAT
1 CATGTAAATCATATAACATTTAAAT
*
23218515 CATGTAAATCATATAACATTTATAT
1 CATGTAAATCATATAACATTTAAAT
23218540 CA
1 CA
23218542 AAATTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.38
Consensus pattern (25 bp):
CATGTAAATCATATAACATTTAAAT
Found at i:23218836 original size:23 final size:23
Alignment explanation
Indices: 23218806--23218874 Score: 95
Period size: 23 Copynumber: 3.0 Consensus size: 23
23218796 CGAGCTGAAT
* *
23218806 AAACGGTAAGCTCTATTGAGCTG
1 AAACGGTAAGCTCCATAGAGCTG
*
23218829 AAACGGTAAGCTCCGTAGAGCTG
1 AAACGGTAAGCTCCATAGAGCTG
23218852 AAACGGTAAGCT-CATACGAGCTG
1 AAACGGTAAGCTCCATA-GAGCTG
23218875 TGGTGAGTCC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
22 3 0.07
23 38 0.93
ACGTcount: A:0.32, C:0.20, G:0.28, T:0.20
Consensus pattern (23 bp):
AAACGGTAAGCTCCATAGAGCTG
Found at i:23224532 original size:25 final size:25
Alignment explanation
Indices: 23224493--23224564 Score: 108
Period size: 25 Copynumber: 2.9 Consensus size: 25
23224483 TAGGCCCATT
* *
23224493 TTCACAGCTCGTGTGAGCATACTAA
1 TTCACAGCTCATGTGAGCATACCAA
* *
23224518 TTTACAGCTCATGTGAGCATACCGA
1 TTCACAGCTCATGTGAGCATACCAA
23224543 TTCACAGCTCATGTGAGCATAC
1 TTCACAGCTCATGTGAGCATAC
23224565 ATGTACAGGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (25 bp):
TTCACAGCTCATGTGAGCATACCAA
Found at i:23232244 original size:98 final size:99
Alignment explanation
Indices: 23232064--23232322 Score: 299
Period size: 98 Copynumber: 2.6 Consensus size: 99
23232054 TAACTCGTAA
*** * * * * * *
23232064 CTTTAATCTGTTTAACTGTGATGTCGAGGAAGCAAGATTCGCTATTGTAGCTTCAATCTATTCCA
1 CTTTAATCT-TTTAACTACAATGTCGAGGAAGCAAGATTTGCCATTGTGGCTTTAATCTGTACCA
*
23232129 CTACACCGCCTGAGAAATAAGATTCGCTGTTGTAG
65 CTACACCGCCAGAGAAATAAGATTCGCTGTTGTAG
*
23232164 CTTTAATC-TTTAACTACAATTTCGAGGAAGCAAGATTTGCCATTGTGGCTTTAATCTGTACCAC
1 CTTTAATCTTTTAACTACAATGTCGAGGAAGCAAGATTTGCCATTGTGGCTTTAATCTGTACCAC
* * *
23232228 TGCAGCGCCAGGGAAATAAGATTCGCTGTTGTAG
66 TACACCGCCAGAGAAATAAGATTCGCTGTTGTAG
* * * *
23232262 CTTTAATCTTTTTAACTGCAATGTCGGGGAACCAAGATTCAT-CGA-TGTGGCTTTAATCTGT
1 CTTTAATC-TTTTAACTACAATGTCGAGGAAGCAAGATT--TGCCATTGTGGCTTTAATCTGT
23232323 TCCATCAGTC
Statistics
Matches: 136, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
98 84 0.62
100 49 0.36
101 2 0.01
102 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (99 bp):
CTTTAATCTTTTAACTACAATGTCGAGGAAGCAAGATTTGCCATTGTGGCTTTAATCTGTACCAC
TACACCGCCAGAGAAATAAGATTCGCTGTTGTAG
Found at i:23232292 original size:50 final size:50
Alignment explanation
Indices: 23232064--23232323 Score: 157
Period size: 50 Copynumber: 5.2 Consensus size: 50
23232054 TAACTCGTAA
** * *
23232064 CTTTAATCTGTTTAACTGTGATGTCGAGGAAGCAAGATTCGCTATTGTAG
1 CTTTAATCTGTTTAACTGCAATGTCGGGGAAACAAGATTCGCTATTGTAG
* * ** * ** * * * * *
23232114 CTTCAATCTATTCCACTACACCGCCTGAGAAATAAGATTCGCTGTTGTAG
1 CTTTAATCTGTTTAACTGCAATGTCGGGGAAACAAGATTCGCTATTGTAG
* * * * * * *
23232164 CTTTAATC--TTTAACTACAATTTCGAGGAAGCAAGATTTGCCATTGTGG
1 CTTTAATCTGTTTAACTGCAATGTCGGGGAAACAAGATTCGCTATTGTAG
*** ** * * * *
23232212 CTTTAATCTGTACCACTGCAGCGCCAGGGAAATAAGATTCGCTGTTGTAG
1 CTTTAATCTGTTTAACTGCAATGTCGGGGAAACAAGATTCGCTATTGTAG
* * * * *
23232262 CTTTAATCTTTTTAACTGCAATGTCGGGGAACCAAGATTCATCGA-TGTGG
1 CTTTAATCTGTTTAACTGCAATGTCGGGGAAACAAGATTC-GCTATTGTAG
23232312 CTTTAATCTGTT
1 CTTTAATCTGTT
23232324 CCATCAGTCT
Statistics
Matches: 144, Mismatches: 63, Indels: 6
0.68 0.30 0.03
Matches are distributed among these distances:
48 33 0.23
50 110 0.76
51 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (50 bp):
CTTTAATCTGTTTAACTGCAATGTCGGGGAAACAAGATTCGCTATTGTAG
Found at i:23232502 original size:44 final size:44
Alignment explanation
Indices: 23232454--23233135 Score: 321
Period size: 44 Copynumber: 15.7 Consensus size: 44
23232444 TCGGCTTCAA
*
23232454 TCTGCTCCACTGCAACCTCTGGGAGATAAGATTTGCTTACTTAG
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCTTACTTAG
* * *** * * *
23232498 TCTGCTCCGCTGCAACCTCAGGGAGATAGGACCCG-ATGC-GA-
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCTTACTTAG
** * * * * * * *
23232539 TCCACTCTACTGCAACTTCAGAGAGATAAGGTCT-ATTACTTTAA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCTTAC-TTAG
* * * * *
23232583 TCTGCTCCACTACAACTTCAGGGAGATAGGATTAT-C-GACTTCAA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATT-TGCTTACTT-AG
* * * *
23232627 TCTGCTCCA-TGTAACCTCAGGGAGATAAGGTTTGCTTTCTTCG
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCTTACTTAG
* * ** *
23232670 ATCTGCCCCACTGCAACCTCAGGGGGATAAGACCTGCTTACTCAG
1 -TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCTTACTTAG
* * * *
23232715 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTG-ATGC-GA-
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCTTACTTAG
** * * ** * * *
23232756 TCCACTCTACTGCAACTTCAGATAGATAAGATCT-ATTACTTTAA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCTTAC-TTAG
* * * * *
23232800 TCCT-CTCCACTACAACTTCAGGGAGATAGGATTAT-C-GACTTCAA
1 T-CTGCTCCACTGCAACCTCAGGGAGATAAGATT-TGCTTACTT-AG
* * *
23232844 TCTGCTCC-CTGCAACCTCAGGGAGACAAGATTTGCTTTCTTCG
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCTTACTTAG
* * * *
23232887 ATCTGCCCCACTGCAACCTCAGGGGGATAAGACTTGCTTACTCAG
1 -TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCTTACTTAG
* * * *
23232932 TCTGCTCCACTGCAACCTCAGGGAGATAAGACTTG-ATGC-GA-
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCTTACTTAG
*** * * * * *
23232973 TCCATTCTACTGCAACTTC-GGAGAGATAAGATCT-ATTACTTTAA
1 TCTGCTCCACTGCAACCTCAGG-GAGATAAGATTTGCTTAC-TTAG
* * * * * *
23233017 TCCGCTCCACTACAACTTCAGGGAGATAGGATTAT-C-GACTTTAA
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATT-TGCTTAC-TTAG
* * * * *
23233061 TCTGCTCC-CTACAACCTCAGAGAGACAAGATTTGCTTTCTTCG
1 TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCTTACTTAG
* * * *
23233104 ATCTGCCCCACTGTAACTTCAGGGGGATAAGA
1 -TCTGCTCCACTGCAACCTCAGGGAGATAAGA
23233136 CATGTTTGAT
Statistics
Matches: 475, Mismatches: 130, Indels: 65
0.71 0.19 0.10
Matches are distributed among these distances:
40 2 0.00
41 80 0.17
42 6 0.01
43 78 0.16
44 232 0.49
45 77 0.16
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (44 bp):
TCTGCTCCACTGCAACCTCAGGGAGATAAGATTTGCTTACTTAG
Found at i:23232565 original size:85 final size:85
Alignment explanation
Indices: 23232331--23232613 Score: 286
Period size: 85 Copynumber: 3.4 Consensus size: 85
23232321 GTTCCATCAG
* * * *
23232331 TCTGCTCCGCTACAACTTCAGGGAGATAAGACCTGATGCGGTCCACTCTACTGCAACTTCAGAGA
1 TCTGCTCCACTACAACTTCAGGGAGATAGGACCCGATGCGATCCACTCTACTGCAACTTCAGAGA
23232396 GATAAGATCTATTACTTTAA
66 GATAAGATCTATTACTTTAA
* * ** * * * * * * ** * * * *
23232416 TCCGTTCCACTACAACTTCA-TAAGAT--TATCGGCTTCAATCTGCTCCACTGCAACCTCTGGGA
1 TCTGCTCCACTACAACTTCAGGGAGATAGGACCCGATGCGATCCACTCTACTGCAACTTCAGAGA
* * *
23232478 GATAAGATTTGCTTAC-TTAG
66 GATAAGATCT-ATTACTTTAA
* * *
23232498 TCTGCTCCGCTGCAACCTCAGGGAGATAGGACCCGATGCGATCCACTCTACTGCAACTTCAGAGA
1 TCTGCTCCACTACAACTTCAGGGAGATAGGACCCGATGCGATCCACTCTACTGCAACTTCAGAGA
*
23232563 GATAAGGTCTATTACTTTAA
66 GATAAGATCTATTACTTTAA
23232583 TCTGCTCCACTACAACTTCAGGGAGATAGGA
1 TCTGCTCCACTACAACTTCAGGGAGATAGGA
23232614 TTATCGACTT
Statistics
Matches: 146, Mismatches: 47, Indels: 10
0.72 0.23 0.05
Matches are distributed among these distances:
82 50 0.34
83 8 0.05
84 8 0.05
85 80 0.55
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (85 bp):
TCTGCTCCACTACAACTTCAGGGAGATAGGACCCGATGCGATCCACTCTACTGCAACTTCAGAGA
GATAAGATCTATTACTTTAA
Found at i:23232722 original size:217 final size:217
Alignment explanation
Indices: 23232448--23233136 Score: 1137
Period size: 217 Copynumber: 3.2 Consensus size: 217
23232438 AGATTATCGG
* * * * * * *
23232448 CTTCAATCTGCTCCACTGCAACCTCTGGGAGATAAGATTTGCTTACTTAGTCTGCTCCGCTGCAA
1 CTTCGATCTGCCCCACTGCAACCTCAGGGGGATAAGACTTGCTTACTCAGTCTGCTCCACTGCAA
* ** *
23232513 CCTCAGGGAGATAGGACCCGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGGTCTATTAC
66 CCTCAGGGAGATAAGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTAC
* *
23232578 TTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCCATGTAACC
131 TTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCCCTGCAACC
* *
23232643 TCAGGGAGATAAGGTTTGCTTT
196 TCAGGGAGACAAGATTTGCTTT
*
23232665 CTTCGATCTGCCCCACTGCAACCTCAGGGGGATAAGACCTGCTTACTCAGTCTGCTCCACTGCAA
1 CTTCGATCTGCCCCACTGCAACCTCAGGGGGATAAGACTTGCTTACTCAGTCTGCTCCACTGCAA
*
23232730 CCTCAGGGAGATAAGACTTGATGCGATCCACTCTACTGCAACTTCAGATAGATAAGATCTATTAC
66 CCTCAGGGAGATAAGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTAC
23232795 TTTAATCCT-CTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCCCTGCAAC
131 TTTAAT-CTGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCCCTGCAAC
23232859 CTCAGGGAGACAAGATTTGCTTT
195 CTCAGGGAGACAAGATTTGCTTT
23232882 CTTCGATCTGCCCCACTGCAACCTCAGGGGGATAAGACTTGCTTACTCAGTCTGCTCCACTGCAA
1 CTTCGATCTGCCCCACTGCAACCTCAGGGGGATAAGACTTGCTTACTCAGTCTGCTCCACTGCAA
* *
23232947 CCTCAGGGAGATAAGACTTGATGCGATCCATTCTACTGCAACTTCGGAGAGATAAGATCTATTAC
66 CCTCAGGGAGATAAGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTAC
* * *
23233012 TTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTTAATCTGCTCCCTACAACC
131 TTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCCCTGCAACC
*
23233077 TCAGAGAGACAAGATTTGCTTT
196 TCAGGGAGACAAGATTTGCTTT
* *
23233099 CTTCGATCTGCCCCACTGTAACTTCAGGGGGATAAGAC
1 CTTCGATCTGCCCCACTGCAACCTCAGGGGGATAAGAC
23233137 ATGTTTGATA
Statistics
Matches: 443, Mismatches: 27, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
216 1 0.00
217 440 0.99
218 2 0.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (217 bp):
CTTCGATCTGCCCCACTGCAACCTCAGGGGGATAAGACTTGCTTACTCAGTCTGCTCCACTGCAA
CCTCAGGGAGATAAGACTTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTAC
TTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTCAATCTGCTCCCTGCAACC
TCAGGGAGACAAGATTTGCTTT
Found at i:23232774 original size:173 final size:173
Alignment explanation
Indices: 23232595--23232922 Score: 373
Period size: 173 Copynumber: 1.9 Consensus size: 173
23232585 TGCTCCACTA
* * **
23232595 CAACTTCAGGGAGATAGGAT-TATCGACTTCAAT-CTGCTCCA-TGTAACCTCAGGGAGATAAGG
1 CAACTTCAGAGAGATAAGATCTAT-GACTTCAATCCT-CTCCACTACAACCTCAGGGAGAT-AGG
** * * *
23232657 -TT-TGCTTTCTTCGATCTGCCCCACTGCAACCTCAGGGGGATAAGACCTGCTTAC-TC-AGTCT
63 ATTAT-C-GACTTCAATCTGCCCC-CTGCAACCTCAGGGAGACAAGACCTGCTTACTTCGA-TCT
*
23232718 GCTCCACTGCAACCTCAGGGAGATAAGACTTGATGCGATCCACTCTACTG
124 GCCCCACTGCAACCTCAGGGAGATAAGACTTGATGCGATCCACTCTACTG
* * * *
23232768 CAACTTCAGATAGATAAGATCTATTACTTTAATCCTCTCCACTACAACTTCAGGGAGATAGGATT
1 CAACTTCAGAGAGATAAGATCTATGACTTCAATCCTCTCCACTACAACCTCAGGGAGATAGGATT
* ** *
23232833 ATCGACTTCAATCTGCTCCCTGCAACCTCAGGGAGACAAGATTTGCTTTCTTCGATCTGCCCCAC
66 ATCGACTTCAATCTGCCCCCTGCAACCTCAGGGAGACAAGACCTGCTTACTTCGATCTGCCCCAC
*
23232898 TGCAACCTCAGGGGGATAAGACTTG
131 TGCAACCTCAGGGAGATAAGACTTG
23232923 CTTACTCAGT
Statistics
Matches: 129, Mismatches: 19, Indels: 14
0.80 0.12 0.09
Matches are distributed among these distances:
172 26 0.20
173 79 0.61
174 23 0.18
175 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (173 bp):
CAACTTCAGAGAGATAAGATCTATGACTTCAATCCTCTCCACTACAACCTCAGGGAGATAGGATT
ATCGACTTCAATCTGCCCCCTGCAACCTCAGGGAGACAAGACCTGCTTACTTCGATCTGCCCCAC
TGCAACCTCAGGGAGATAAGACTTGATGCGATCCACTCTACTG
Found at i:23233074 original size:43 final size:44
Alignment explanation
Indices: 23232334--23233091 Score: 214
Period size: 44 Copynumber: 17.7 Consensus size: 44
23232324 CCATCAGTCT
* * **
23232334 GCTCCGCTACAACTTCAGGGAGATAAGACCTGATG-C---GGTCC
1 GCTCCACTACAACTTCAGGGAGATAAGATCT-ATGACTTTAATCC
* * * * *
23232375 ACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCC
1 GCTCCACTACAACTTCAGGGAGATAAGATCTATGACTTTAATCC
* * * *
23232419 GTTCCACTACAACTTC------ATAAGAT-TATCGGCTTCAATCT
1 GCTCCACTACAACTTCAGGGAGATAAGATCTAT-GACTTTAATCC
* * * * * * * *
23232457 GCTCCACTGCAACCTCTGGGAGATAAGATTTGCTTAC-TTAGTCT
1 GCTCCACTACAACTTCAGGGAGATAAGATCT-ATGACTTTAATCC
* * * * * * *
23232501 GCTCCGCTGCAACCTCAGGGAGATAGGACCCGATG-C---GATCC
1 GCTCCACTACAACTTCAGGGAGATAAGA-TCTATGACTTTAATCC
* * * * * * *
23232542 ACTCTACTGCAACTTCAGAGAGATAAGGTCTATTACTTTAATCT
1 GCTCCACTACAACTTCAGGGAGATAAGATCTATGACTTTAATCC
* * *
23232586 GCTCCACTACAACTTCAGGGAGATAGGAT-TATCGACTTCAATCT
1 GCTCCACTACAACTTCAGGGAGATAAGATCTAT-GACTTTAATCC
** * * * * ** ** *
23232630 GCTCCA-TGTAACCTCAGGGAGATAAGGTTTGCTTTCTTCGATCT
1 GCTCCACTACAACTTCAGGGAGATAAGATCT-ATGACTTTAATCC
* * * * * * * * * *
23232674 GCCCCACTGCAACCTCAGGGGGATAAGACCTGCTTAC-TCAGTCT
1 GCTCCACTACAACTTCAGGGAGATAAGATCT-ATGACTTTAATCC
* * ***
23232718 GCTCCACTGCAACCTCAGGGAGATAAGA-CT-TGA-TGCGATCC
1 GCTCCACTACAACTTCAGGGAGATAAGATCTATGACTTTAATCC
* * * ** *
23232759 ACTCTACTGCAACTTCAGATAGATAAGATCTATTACTTTAATCC
1 GCTCCACTACAACTTCAGGGAGATAAGATCTATGACTTTAATCC
* * * *
23232803 TCTCCACTACAACTTCAGGGAGATAGGAT-TATCGACTTCAATCT
1 GCTCCACTACAACTTCAGGGAGATAAGATCTAT-GACTTTAATCC
* * * * * ** ** *
23232847 GCTCC-CTGCAACCTCAGGGAGACAAGATTTGCTTTCTTCGATCT
1 GCTCCACTACAACTTCAGGGAGATAAGATCT-ATGACTTTAATCC
* * * * * *
23232891 GCCCCACTGCAACCTCAGGGGGATAAGA-CT-TG-CTTACTCAGTCT
1 GCTCCACTACAACTTCAGGGAGATAAGATCTATGACTT--T-AATCC
* * ***
23232935 GCTCCACTGCAACCTCAGGGAGATAAGA-CT-TGA-TGCGATCC
1 GCTCCACTACAACTTCAGGGAGATAAGATCTATGACTTTAATCC
** * * *
23232976 ATTCTACTGCAACTTC-GGAGAGATAAGATCTATTACTTTAATCC
1 GCTCCACTACAACTTCAGG-GAGATAAGATCTATGACTTTAATCC
* *
23233020 GCTCCACTACAACTTCAGGGAGATAGGAT-TATCGACTTTAATCT
1 GCTCCACTACAACTTCAGGGAGATAAGATCTAT-GACTTTAATCC
* * *
23233064 GCTCC-CTACAACCTCAGAGAGACAAGAT
1 GCTCCACTACAACTTCAGGGAGATAAGAT
23233092 TTGCTTTCTT
Statistics
Matches: 535, Mismatches: 142, Indels: 78
0.71 0.19 0.10
Matches are distributed among these distances:
37 3 0.01
38 27 0.05
40 7 0.01
41 104 0.19
42 5 0.01
43 71 0.13
44 267 0.50
45 50 0.09
46 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (44 bp):
GCTCCACTACAACTTCAGGGAGATAAGATCTATGACTTTAATCC
Found at i:23249574 original size:14 final size:15
Alignment explanation
Indices: 23249553--23249595 Score: 63
Period size: 14 Copynumber: 3.0 Consensus size: 15
23249543 AAAAAAAGGG
*
23249553 TCTAGTTGAACCGCA
1 TCTAGTTGAACCGAA
23249568 T-TAGTTGAACCGAA
1 TCTAGTTGAACCGAA
23249582 TCTAG-TGAACCGAA
1 TCTAGTTGAACCGAA
23249596 CCAGCCACCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 22 0.85
15 4 0.15
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (15 bp):
TCTAGTTGAACCGAA
Found at i:23253261 original size:12 final size:12
Alignment explanation
Indices: 23253235--23253267 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
23253225 TAGTTTAGGT
23253235 TTAG-TTTTC-C
1 TTAGCTTTTCTC
23253245 TTAGCTTTTCTC
1 TTAGCTTTTCTC
23253257 TTAGCTTTTCT
1 TTAGCTTTTCT
23253268 TCCTCTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 4 0.19
11 5 0.24
12 12 0.57
ACGTcount: A:0.09, C:0.21, G:0.09, T:0.61
Consensus pattern (12 bp):
TTAGCTTTTCTC
Found at i:23255824 original size:23 final size:23
Alignment explanation
Indices: 23255780--23255824 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
23255770 GATTTAATCA
*
23255780 CAATATAATCACATATTAACATT
1 CAATATAATCACAAATTAACATT
*
23255803 CAATTTAATCA-AAATTATACAT
1 CAATATAATCACAAATTA-ACAT
23255825 AATACAGTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (23 bp):
CAATATAATCACAAATTAACATT
Found at i:23255910 original size:17 final size:16
Alignment explanation
Indices: 23255881--23255915 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
23255871 AGTTCAGGGG
23255881 CATTTTTATAATTTTC
1 CATTTTTATAATTTTC
*
23255897 CATTTTTCTCAATTTTC
1 CATTTTTAT-AATTTTC
23255914 CA
1 CA
23255916 CCTGATCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (16 bp):
CATTTTTATAATTTTC
Found at i:23259321 original size:3 final size:3
Alignment explanation
Indices: 23259313--23259343 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
23259303 ATTTTTAATA
23259313 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
23259344 GTAAGATCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:23259547 original size:23 final size:23
Alignment explanation
Indices: 23259501--23259549 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
23259491 GAAATAAAAT
*
23259501 ACCTAACCCGAAATACTAACTAA
1 ACCTAACCCGAAATACCAACTAA
* * *
23259524 ACCTAACCCGAATTACCCATTAA
1 ACCTAACCCGAAATACCAACTAA
23259547 ACC
1 ACC
23259550 CTAGCCCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.35, G:0.04, T:0.18
Consensus pattern (23 bp):
ACCTAACCCGAAATACCAACTAA
Found at i:23262596 original size:5 final size:5
Alignment explanation
Indices: 23262586--23262611 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
23262576 GTAAGCTAAA
23262586 CGCAC CGCAC CGCAC CGCAC CGCAC C
1 CGCAC CGCAC CGCAC CGCAC CGCAC C
23262612 CAATTGTCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.62, G:0.19, T:0.00
Consensus pattern (5 bp):
CGCAC
Found at i:23265986 original size:89 final size:88
Alignment explanation
Indices: 23265835--23266008 Score: 312
Period size: 89 Copynumber: 2.0 Consensus size: 88
23265825 TAGCTCTTGA
* *
23265835 TCAAAAATGAATTGTAATAGAGAGTATTTATAACTTATTGGCTTGATGCGTACAACACGTAAATT
1 TCAAAAATGAATTATAATAGAGAGTATTTATAACTTATTGGCTTGATGCATACAACACGTAAATT
23265900 AACATAATTTCATGTTGAAAAAGG
66 AACATAATTTCATGTT-AAAAAGG
*
23265924 TCAAAAATGAATTATAATGGAGAGTATTTATAACTTATTGGCTTGATGCATACAACACGTAAATT
1 TCAAAAATGAATTATAATAGAGAGTATTTATAACTTATTGGCTTGATGCATACAACACGTAAATT
23265989 AACATAATTTCATGTTAAAA
66 AACATAATTTCATGTTAAAA
23266009 GAGGAAGTTT
Statistics
Matches: 82, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
88 4 0.05
89 78 0.95
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.33
Consensus pattern (88 bp):
TCAAAAATGAATTATAATAGAGAGTATTTATAACTTATTGGCTTGATGCATACAACACGTAAATT
AACATAATTTCATGTTAAAAAGG
Found at i:23272521 original size:740 final size:740
Alignment explanation
Indices: 23271102--23272581 Score: 2942
Period size: 740 Copynumber: 2.0 Consensus size: 740
23271092 ACTCTAATCC
23271102 TATATATTTATGTCGTCTTATTTCTAAGATTGCATGCAACTCCACTCAATTATGTTAGATCTACT
1 TATATATTTATGTCGTCTTATTTCTAAGATTGCATGCAACTCCACTCAATTATGTTAGATCTACT
23271167 CTTAAAAAGACTCTATTCTTCATTTGATTTAAGCACATCAAACATAATGACAGAATCTATCATAG
66 CTTAAAAAGACTCTATTCTTCATTTGATTTAAGCACATCAAACATAATGACAGAATCTATCATAG
23271232 GGTTCATCTCCTCTAGGTATTTAGAAAATTAGTTCATGCTTGAAAATAAAAACACCTTAGAGACA
131 GGTTCATCTCCTCTAGGTATTTAGAAAATTAGTTCATGCTTGAAAATAAAAACACCTTAGAGACA
23271297 GTATAACCGAAAGAAATAAAGAAACTCATGATAATCTCTTGAGAAATCAACTAGGACTCTTCAAT
196 GTATAACCGAAAGAAATAAAGAAACTCATGATAATCTCTTGAGAAATCAACTAGGACTCTTCAAT
23271362 CTTGACGAAATCTGCTTCAGATCGGTTTCAATGGTGTTTTTCAAGTTTTTTTCTTGAATATTCTA
261 CTTGACGAAATCTGCTTCAGATCGGTTTCAATGGTGTTTTTCAAGTTTTTTTCTTGAATATTCTA
23271427 TGACGACTCTCTCTATCTTCTTATTTTTGTCATATATACGTCTTAGAATGCCTAAAAACTTAAAA
326 TGACGACTCTCTCTATCTTCTTATTTTTGTCATATATACGTCTTAGAATGCCTAAAAACTTAAAA
23271492 ACTGCGTTTTCCTACAGTTTAGGGTCCAAATTCGTGAAATCGACATGGCCTACCACATGGTCGTG
391 ACTGCGTTTTCCTACAGTTTAGGGTCCAAATTCGTGAAATCGACATGGCCTACCACATGGTCGTG
23271557 TGGCAACCAGTGTGGCTCACACGATTGTTTGGAAGGGGTCAGCTCGTGTGGCTCCTGTAACTCAC
456 TGGCAACCAGTGTGGCTCACACGATTGTTTGGAAGGGGTCAGCTCGTGTGGCTCCTGTAACTCAC
23271622 TTCGATTTTTTTATTTTCGCTTGTTTTTCGCTCCCAAATGCTCTCCTAAGTATAAAAACATGAAT
521 TTCGATTTTTTTATTTTCGCTTGTTTTTCGCTCCCAAATGCTCTCCTAAGTATAAAAACATGAAT
23271687 TTAAAGGATTAGGAGCATAAAATTCACCATTAACATCGAATAATCACCCAAAAACACATTAAGAA
586 TTAAAGGATTAGGAGCATAAAATTCACCATTAACATCGAATAATCACCCAAAAACACATTAAGAA
23271752 TGAGATTAAAACATGTTACTTTTAGCACCTATCAAATATCCCCACACTTAAGCGTTTGCTTGTCC
651 TGAGATTAAAACATGTTACTTTTAGCACCTATCAAATATCCCCACACTTAAGCGTTTGCTTGTCC
23271817 TCAAGCAAAATCCTCAACCCACAAT
716 TCAAGCAAAATCCTCAACCCACAAT
23271842 TATATATTTATGTCGTCTTATTTCTAAGATTGCATGCAACTCCACTCAATTATGTTAGATCTACT
1 TATATATTTATGTCGTCTTATTTCTAAGATTGCATGCAACTCCACTCAATTATGTTAGATCTACT
23271907 CTTAAAAAGACTCTATTCTTCATTTGATTTAAGCACATCAAACATAATGACAGAATCTATCATAG
66 CTTAAAAAGACTCTATTCTTCATTTGATTTAAGCACATCAAACATAATGACAGAATCTATCATAG
23271972 GGTTCATCTCCTCTAGGTATTTAGAAAATTAGTTCATGCTTGAAAATAAAAACACCTTAGAGACA
131 GGTTCATCTCCTCTAGGTATTTAGAAAATTAGTTCATGCTTGAAAATAAAAACACCTTAGAGACA
23272037 GTATAACCGAAAGAAATAAAGAAACTCATGATAATCTCTTGAGAAATCAACTAGGACTCTTCAAT
196 GTATAACCGAAAGAAATAAAGAAACTCATGATAATCTCTTGAGAAATCAACTAGGACTCTTCAAT
23272102 CTTGACGAAATCTGCTTCAGATCGGTTTCAATGGTGTTTTTCAAGTTTTTTTCTTGAATATTCTA
261 CTTGACGAAATCTGCTTCAGATCGGTTTCAATGGTGTTTTTCAAGTTTTTTTCTTGAATATTCTA
23272167 TGACGACTCTCTCTATCTTCTTATTTTTGTCATATATACGTCTTAGAATGCCTAAAAACTTAAAA
326 TGACGACTCTCTCTATCTTCTTATTTTTGTCATATATACGTCTTAGAATGCCTAAAAACTTAAAA
* *
23272232 ACTGCGTTTTCCTACAGTTTAGGGTCCAAATTCGTGAAATTGACATGGCCTACTACATGGTCGTG
391 ACTGCGTTTTCCTACAGTTTAGGGTCCAAATTCGTGAAATCGACATGGCCTACCACATGGTCGTG
23272297 TGGCAACCAGTGTGGCTCACACGATTGTTTGGAAGGGGTCAGCTCGTGTGGCTCCTGTAACTCAC
456 TGGCAACCAGTGTGGCTCACACGATTGTTTGGAAGGGGTCAGCTCGTGTGGCTCCTGTAACTCAC
23272362 TTCGATTTTTTTATTTTCGCTTGTTTTTCGCTCCCAAATGCTCTCCTAAGTATAAAAACATGAAT
521 TTCGATTTTTTTATTTTCGCTTGTTTTTCGCTCCCAAATGCTCTCCTAAGTATAAAAACATGAAT
23272427 TTAAAGGATTAGGAGCATAAAATTCACCATTAACATCGAATAATCACCCAAAAACACATTAAGAA
586 TTAAAGGATTAGGAGCATAAAATTCACCATTAACATCGAATAATCACCCAAAAACACATTAAGAA
23272492 TGAGATTAAAACATGTTACTTTTAGCACCTATCAAATATCCCCACACTTAAGCGTTTGCTTGTCC
651 TGAGATTAAAACATGTTACTTTTAGCACCTATCAAATATCCCCACACTTAAGCGTTTGCTTGTCC
23272557 TCAAGCAAAATCCTCAACCCACAAT
716 TCAAGCAAAATCCTCAACCCACAAT
23272582 CAAGTTAAGT
Statistics
Matches: 738, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
740 738 1.00
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.33
Consensus pattern (740 bp):
TATATATTTATGTCGTCTTATTTCTAAGATTGCATGCAACTCCACTCAATTATGTTAGATCTACT
CTTAAAAAGACTCTATTCTTCATTTGATTTAAGCACATCAAACATAATGACAGAATCTATCATAG
GGTTCATCTCCTCTAGGTATTTAGAAAATTAGTTCATGCTTGAAAATAAAAACACCTTAGAGACA
GTATAACCGAAAGAAATAAAGAAACTCATGATAATCTCTTGAGAAATCAACTAGGACTCTTCAAT
CTTGACGAAATCTGCTTCAGATCGGTTTCAATGGTGTTTTTCAAGTTTTTTTCTTGAATATTCTA
TGACGACTCTCTCTATCTTCTTATTTTTGTCATATATACGTCTTAGAATGCCTAAAAACTTAAAA
ACTGCGTTTTCCTACAGTTTAGGGTCCAAATTCGTGAAATCGACATGGCCTACCACATGGTCGTG
TGGCAACCAGTGTGGCTCACACGATTGTTTGGAAGGGGTCAGCTCGTGTGGCTCCTGTAACTCAC
TTCGATTTTTTTATTTTCGCTTGTTTTTCGCTCCCAAATGCTCTCCTAAGTATAAAAACATGAAT
TTAAAGGATTAGGAGCATAAAATTCACCATTAACATCGAATAATCACCCAAAAACACATTAAGAA
TGAGATTAAAACATGTTACTTTTAGCACCTATCAAATATCCCCACACTTAAGCGTTTGCTTGTCC
TCAAGCAAAATCCTCAACCCACAAT
Found at i:23274943 original size:19 final size:18
Alignment explanation
Indices: 23274912--23274964 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
23274902 ATATAAGTCT
23274912 AAAAAAT-AAAATAAAAC
1 AAAAAATGAAAATAAAAC
** *
23274929 AACTAATGAAAAATAAAAG
1 AAAAAATG-AAAATAAAAC
23274948 AAAAAATGAAAATAAAA
1 AAAAAATGAAAATAAAA
23274965 ATAAAATAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
17 5 0.17
18 9 0.31
19 15 0.52
ACGTcount: A:0.77, C:0.04, G:0.06, T:0.13
Consensus pattern (18 bp):
AAAAAATGAAAATAAAAC
Found at i:23274965 original size:19 final size:19
Alignment explanation
Indices: 23274912--23274970 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
23274902 ATATAAGTCT
23274912 AAAAAAT-AAAAT-AAAAC
1 AAAAAATGAAAATAAAAAC
** *
23274929 AACTAATGAAAA-ATAAAAG
1 AAAAAATGAAAATA-AAAAC
*
23274948 AAAAAATGAAAATAAAAAT
1 AAAAAATGAAAATAAAAAC
23274967 AAAA
1 AAAA
23274971 TAATTAAAAC
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
17 5 0.16
18 4 0.12
19 22 0.69
20 1 0.03
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.14
Consensus pattern (19 bp):
AAAAAATGAAAATAAAAAC
Found at i:23276981 original size:25 final size:27
Alignment explanation
Indices: 23276926--23276982 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
23276916 TTGGAAGAGG
23276926 AAAATTTGGAGAAGAACATCAAAAATA
1 AAAATTTGGAGAAGAACATCAAAAATA
23276953 AAAATTTGGAGAGAGAA-A-C-AAAATA
1 AAAATTTGGAGA-AGAACATCAAAAATA
23276978 AAAAT
1 AAAAT
23276983 AAAAATTAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 11 0.38
26 1 0.03
27 13 0.45
28 4 0.14
ACGTcount: A:0.61, C:0.05, G:0.16, T:0.18
Consensus pattern (27 bp):
AAAATTTGGAGAAGAACATCAAAAATA
Found at i:23284005 original size:6 final size:6
Alignment explanation
Indices: 23283982--23284025 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
23283972 AAATTGAATG
* *
23283982 TAAAAA TTAAAT TAAAAA TAAAAA TATTAAAA TAAAAA TAAAAA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA--AAAA TAAAAA TAAAAA
23284026 AATTGCCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
6 26 0.81
8 6 0.19
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (6 bp):
TAAAAA
Found at i:23284012 original size:20 final size:19
Alignment explanation
Indices: 23283983--23284026 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
23283973 AATTGAATGT
*
23283983 AAAAATTAAATTAAAAATA
1 AAAAATTAAAATAAAAATA
23284002 AAAATATTAAAATAAAAATA
1 AAAA-ATTAAAATAAAAATA
23284022 AAAAA
1 AAAAA
23284027 ATTGCCAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAAATTAAAATAAAAATA
Found at i:23284027 original size:14 final size:14
Alignment explanation
Indices: 23283995--23284028 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
23283985 AAATTAAATT
*
23283995 AAAAATAAAAATAT
1 AAAAATAAAAATAA
*
23284009 TAAAATAAAAATAA
1 AAAAATAAAAATAA
23284023 AAAAAT
1 AAAAAT
23284029 TGCCAAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAAATAAAAATAA
Found at i:23287695 original size:24 final size:24
Alignment explanation
Indices: 23287674--23287723 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
23287664 AATCAATGTC
*
23287674 AAATATATTATGCTAACAAATGCT
1 AAATATATTATACTAACAAATGCT
* *
23287698 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAACAAATGCT
23287722 AA
1 AA
23287724 TTCTTCTAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.34
Consensus pattern (24 bp):
AAATATATTATACTAACAAATGCT
Found at i:23296753 original size:14 final size:13
Alignment explanation
Indices: 23296723--23296761 Score: 53
Period size: 14 Copynumber: 3.0 Consensus size: 13
23296713 ATGAAGAGCT
*
23296723 TAATAATAACA-A
1 TAATAATAATACA
23296735 TAATAATATATACA
1 TAATAATA-ATACA
23296749 TAATAATAATACA
1 TAATAATAATACA
23296762 AAAAGGTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 8 0.33
13 7 0.29
14 9 0.38
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TAATAATAATACA
Found at i:23298752 original size:12 final size:12
Alignment explanation
Indices: 23298735--23298759 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23298725 GGTGTTCATT
23298735 CGGTTAACCGAC
1 CGGTTAACCGAC
23298747 CGGTTAACCGAC
1 CGGTTAACCGAC
23298759 C
1 C
23298760 CGAAATAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:23299494 original size:33 final size:35
Alignment explanation
Indices: 23299439--23299506 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 35
23299429 ATTCTATAGT
* *
23299439 TTTTAATTATGTCTTGATCATTAAGTG-TTTGCATC
1 TTTTAATTATGACATGA-CATTAAGTGTTTTGCATC
*
23299474 TTTTAATTATGACATG-CATTATGTGTTTTGCAT
1 TTTTAATTATGACATGACATTAAGTGTTTTGCAT
23299507 TAAATAAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
33 8 0.28
34 7 0.24
35 14 0.48
ACGTcount: A:0.24, C:0.10, G:0.15, T:0.51
Consensus pattern (35 bp):
TTTTAATTATGACATGACATTAAGTGTTTTGCATC
Found at i:23299657 original size:49 final size:52
Alignment explanation
Indices: 23299590--23299696 Score: 148
Period size: 50 Copynumber: 2.1 Consensus size: 52
23299580 TGTTAGTTAA
* *
23299590 AGTTTGCATCATTAAATTAAGTCATGCA-TTAAGTAACTTATTTGTTCATTT
1 AGTTTACATCATTAAATTAAGTCATGCATTTAAGCAACTTATTTGTTCATTT
* * *
23299641 AGTTTACATC-TT-AATTAAGTCTTGCATTTAAGCATCTTGTTTGTTCATTT
1 AGTTTACATCATTAAATTAAGTCATGCATTTAAGCAACTTATTTGTTCATTT
23299691 AGTTTA
1 AGTTTA
23299697 AAGCATGAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
49 13 0.26
50 28 0.56
51 9 0.18
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.48
Consensus pattern (52 bp):
AGTTTACATCATTAAATTAAGTCATGCATTTAAGCAACTTATTTGTTCATTT
Found at i:23304432 original size:18 final size:18
Alignment explanation
Indices: 23304409--23304446 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
23304399 CTAGACTTAA
*
23304409 TATAGCTGAACTTTGTTT
1 TATAGCTCAACTTTGTTT
23304427 TATAGCTCAACTTTGTTT
1 TATAGCTCAACTTTGTTT
23304445 TA
1 TA
23304447 CTTGCTCTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.13, G:0.13, T:0.50
Consensus pattern (18 bp):
TATAGCTCAACTTTGTTT
Found at i:23308725 original size:6 final size:6
Alignment explanation
Indices: 23308709--23308763 Score: 92
Period size: 6 Copynumber: 9.0 Consensus size: 6
23308699 CTAGAGATTG
*
23308709 AAAACT AAAAACT AAAACT AAAACT AAAACT AAAACT AAAATT AAAACT
1 AAAACT -AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT AAAACT
23308758 AAAACT
1 AAAACT
23308764 GCAATTGCTT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
6 40 0.87
7 6 0.13
ACGTcount: A:0.67, C:0.15, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAACT
Found at i:23315628 original size:1 final size:1
Alignment explanation
Indices: 23315622--23315649 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
23315612 ACCTGATTTC
23315622 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
23315650 TCTGACCCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:23317466 original size:952 final size:950
Alignment explanation
Indices: 23315622--23317467 Score: 3665
Period size: 952 Copynumber: 1.9 Consensus size: 950
23315612 ACCTGATTTC
23315622 AAAAAAAAAAAAAAAAAAAAAAAAAAAATCTGACCCTAAAGGATCAGGTTGGGTCGGAACATCTT
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAATCTGACCCTAAAGGATCAGGTTGGGTCGGAACATCTT
23315687 AAATGCAAGGTTCAGCTGCTTCATCATATATCTTGATCTATGTTATGAGAGTTTATTAGTGATAA
66 AAATGCAAGGTTCAGCTGCTTCATCATATATCTTGATCTATGTTATGAGAGTTTATTAGTGATAA
23315752 TGGATTCAGTGAATGCATCCTTGCTTGCATTACTTGCGTGATATTGTTTAAAATGGTTTACTTTC
131 TGGATTCAGTGAATGCATCCTTGCTTGCATTACTTGCGTGATATTGTTTAAAATGGTTTACTTTC
23315817 TCCATATATTATCACTGCAATGATAGTTACAATTAAGGCTCCTTTACCCAATGTAAAATCTCAAG
196 TCCATATATTATCACTGCAATGATAGTTACAATTAAGGCTCCTTTACCCAATGTAAAATCTCAAG
23315882 CAACCGACTGCAATCAAGGTATAGCTTTGTTCATGTGATATTTTTCTTGGCACACCATTTTTTGG
261 CAACCGACTGCAATCAAGGTATAGCTTTGTTCATGTGATATTTTTCTTGGCACACCATTTTTTGG
23315947 GACTTAATCCGGACTTTTGTCAATACACATGCGTTGAACAGCTTTTTATGCATGCTTTTATGGTT
326 GACTTAATCCGGACTTTTGTCAATACACATGCGTTGAACAGCTTTTTATGCATGCTTTTATGGTT
23316012 CTCACATCACTACAAGCTTCTCTTTTGGGGCATAATTATTTATTTTGTTTGTAGCACCTGGAACG
391 CTCACATCACTACAAGCTTCTCTTTTGGGGCATAATTATTTATTTTGTTTGTAGCACCTGGAACG
23316077 GTGCTTGTGTTTTGGTTCCTAGACGTATATATAACTCATTTTCATGGAACATGAATGATTTTGAA
456 GTGCTTGTGTTTTGGTTCCTAGACGTATATATAACTCATTTTCATGGAACATGAATGATTTTGAA
23316142 AACTAGAGAATACCTGTTTTTCTGGTTGAATACTGATCTTTCTTTTTCTTTCTACAGATAGCCCG
521 AACTAGAGAATACCTGTTTTTCTGGTTGAATACTGATCTTTCTTTTTCTTTCTACAGATAGCCCG
23316207 CAATATAACAACAAATGAAATGGCCAATGTGATGCGCTATAGCTACCTCAGGAGTGCTACTGGGC
586 CAATATAACAACAAATGAAATGGCCAATGTGATGCGCTATAGCTACCTCAGGAGTGCTACTGGGC
23316272 GATTTAGAAACCCATATGATCACGGATGCCGTAAGAACTGCTCAGATTTCCTGATCAATGGCTAC
651 GATTTAGAAACCCATATGATCACGGATGCCGTAAGAACTGCTCAGATTTCCTGATCAATGGCTAC
23316337 AATGAAGATGTGCAAATTAGTGAAGAACCAGCACATTTTGAAGGAATTGGGATGGTACAAATGGG
716 AATGAAGATGTGCAAATTAGTGAAGAACCAGCACATTTTGAAGGAATTGGGATGGTACAAATGGG
23316402 GAGGGATTTGAACTTGGAAAATGGTGATTTGGAAACTGCGGCAAACAGAAATGGCCATATTGCTA
781 GAGGGATTTGAACTTGGAAAATGGTGATTTGGAAACTGCGGCAAACAGAAATGGCCATATTGCTA
23316467 TAAATGTGAATTCTAGTGATGCCAATGCACATCATCATGGCCATGGCCAAACCCCCAGACACAGC
846 TAAATGTGAATTCTAGTGATGCCAATGCACATCATCATGGCCATGGCCAAACCCCCAGACACAGC
23316532 AGTTATGTCACAATTCAGACAGGTCAGCACTCAGCAGATG
911 AGTTATGTCACAATTCAGACAGGTCAGCACTCAGCAGATG
*
23316572 AAAAAAAAAAAAAAAAAAGAAAAGAAAAGATCTGACCCTAAAGGATCAGGTTGGGTCGGAACATC
1 AAAAAAAAAAAAAAAAAA-AAAA-AAAAAATCTGACCCTAAAGGATCAGGTTGGGTCGGAACATC
23316637 TTAAATGCAAGGTTCAGCTGCTTCATCATATATCTTGATCTATGTTATGAGAGTTTATTAGTGAT
64 TTAAATGCAAGGTTCAGCTGCTTCATCATATATCTTGATCTATGTTATGAGAGTTTATTAGTGAT
23316702 AATGGATTCAGTGAATGCATCCTTGCTTGCATTACTTGCGTGATATTGTTTAAAATGGTTTACTT
129 AATGGATTCAGTGAATGCATCCTTGCTTGCATTACTTGCGTGATATTGTTTAAAATGGTTTACTT
23316767 TCTCCATATATTATCACTGCAATGATAGTTACAATTAAGGCTCCTTTACCCAATGTAAAATCTCA
194 TCTCCATATATTATCACTGCAATGATAGTTACAATTAAGGCTCCTTTACCCAATGTAAAATCTCA
23316832 AGCAACCGACTGCAATCAAGGTATAGCTTTGTTCATGTGATATTTTTCTTGGCACACCATTTTTT
259 AGCAACCGACTGCAATCAAGGTATAGCTTTGTTCATGTGATATTTTTCTTGGCACACCATTTTTT
23316897 GGGACTTAATCCGGACTTTTGTCAATACACATGCGTTGAACAGCTTTTTATGCATGCTTTTATGG
324 GGGACTTAATCCGGACTTTTGTCAATACACATGCGTTGAACAGCTTTTTATGCATGCTTTTATGG
23316962 TTCTCACATCACTACAAGCTTCTCTTTTGGGGCATAATTATTTATTTTGTTTGTAGCACCTGGAA
389 TTCTCACATCACTACAAGCTTCTCTTTTGGGGCATAATTATTTATTTTGTTTGTAGCACCTGGAA
23317027 CGGTGCTTGTGTTTTGGTTCCTAGACGTATATATAACTCATTTTCATGGAACATGAATGATTTTG
454 CGGTGCTTGTGTTTTGGTTCCTAGACGTATATATAACTCATTTTCATGGAACATGAATGATTTTG
23317092 AAAACTAGAGAATACCTGTTTTTCTGGTTGAATACTGATCTTTCTTTTTCTTTCTACAGATAGCC
519 AAAACTAGAGAATACCTGTTTTTCTGGTTGAATACTGATCTTTCTTTTTCTTTCTACAGATAGCC
23317157 CGCAATATAACAACAAATGAAATGGCCAATGTGATGCGCTATAGCTACCTCAGGAGTGCTACTGG
584 CGCAATATAACAACAAATGAAATGGCCAATGTGATGCGCTATAGCTACCTCAGGAGTGCTACTGG
23317222 GCGATTTAGAAACCCATATGATCACGGATGCCGTAAGAACTGCTCAGATTTCCTGATCAATGGCT
649 GCGATTTAGAAACCCATATGATCACGGATGCCGTAAGAACTGCTCAGATTTCCTGATCAATGGCT
23317287 ACAATGAAGATGTGCAAATTAGTGAAGAACCAGCACATTTTGAAGGAATTGGGATGGTACAAATG
714 ACAATGAAGATGTGCAAATTAGTGAAGAACCAGCACATTTTGAAGGAATTGGGATGGTACAAATG
23317352 GGGAGGGATTTGAACTTGGAAAATGGTGATTTGGAAACTGCGGCAAACAGAAATGGCCATATTGC
779 GGGAGGGATTTGAACTTGGAAAATGGTGATTTGGAAACTGCGGCAAACAGAAATGGCCATATTGC
23317417 TATAAATGTGAATTCTAGTGATGCCAATGCACATCATCATGGCCATGGCCA
844 TATAAATGTGAATTCTAGTGATGCCAATGCACATCATCATGGCCATGGCCA
23317468 CAGCCACAGC
Statistics
Matches: 893, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
950 18 0.02
951 4 0.00
952 871 0.98
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.32
Consensus pattern (950 bp):
AAAAAAAAAAAAAAAAAAAAAAAAAAAATCTGACCCTAAAGGATCAGGTTGGGTCGGAACATCTT
AAATGCAAGGTTCAGCTGCTTCATCATATATCTTGATCTATGTTATGAGAGTTTATTAGTGATAA
TGGATTCAGTGAATGCATCCTTGCTTGCATTACTTGCGTGATATTGTTTAAAATGGTTTACTTTC
TCCATATATTATCACTGCAATGATAGTTACAATTAAGGCTCCTTTACCCAATGTAAAATCTCAAG
CAACCGACTGCAATCAAGGTATAGCTTTGTTCATGTGATATTTTTCTTGGCACACCATTTTTTGG
GACTTAATCCGGACTTTTGTCAATACACATGCGTTGAACAGCTTTTTATGCATGCTTTTATGGTT
CTCACATCACTACAAGCTTCTCTTTTGGGGCATAATTATTTATTTTGTTTGTAGCACCTGGAACG
GTGCTTGTGTTTTGGTTCCTAGACGTATATATAACTCATTTTCATGGAACATGAATGATTTTGAA
AACTAGAGAATACCTGTTTTTCTGGTTGAATACTGATCTTTCTTTTTCTTTCTACAGATAGCCCG
CAATATAACAACAAATGAAATGGCCAATGTGATGCGCTATAGCTACCTCAGGAGTGCTACTGGGC
GATTTAGAAACCCATATGATCACGGATGCCGTAAGAACTGCTCAGATTTCCTGATCAATGGCTAC
AATGAAGATGTGCAAATTAGTGAAGAACCAGCACATTTTGAAGGAATTGGGATGGTACAAATGGG
GAGGGATTTGAACTTGGAAAATGGTGATTTGGAAACTGCGGCAAACAGAAATGGCCATATTGCTA
TAAATGTGAATTCTAGTGATGCCAATGCACATCATCATGGCCATGGCCAAACCCCCAGACACAGC
AGTTATGTCACAATTCAGACAGGTCAGCACTCAGCAGATG
Found at i:23317473 original size:6 final size:6
Alignment explanation
Indices: 23317464--23317500 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
23317454 CATGGCCATG
*
23317464 GCCACA GCCACA GCCACA GCCACA GCCACG GCCACA G
1 GCCACA GCCACA GCCACA GCCACA GCCACA GCCACA G
23317501 TCGTGGCCAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.30, C:0.49, G:0.22, T:0.00
Consensus pattern (6 bp):
GCCACA
Found at i:23319436 original size:172 final size:172
Alignment explanation
Indices: 23319027--23319505 Score: 683
Period size: 172 Copynumber: 2.8 Consensus size: 172
23319017 ATTTCGAAGT
* ** * *
23319027 GGTCGTTTGCTACAAATTGGTAGGGTGTTCCATTTTTGTAATTTATTATGTTTTTTGGATTATTG
1 GGTCGTTTGTTACAAATTGGTAGGGTGACCCATTTTGGTATTTTATTATGTTTTTTGGATTATTG
* * * **
23319092 GGGTAAAAAGGTCAAGAAACAGTGTATGGTACAACATTTTTACCTAGGTAATATTAAAAAAATAA
66 GGGTAAATAGGTCAAGAAACGGTGTATGGTACAACAATTTTACCTAAATAATA-T-AAAAAATAA
** * * *
23319157 TTAAATACGGAAATGGGTAACCTTACAAATTAAGTACTGAAATG
129 TTAAATACAAAAATGGGCAACCGTACAAATTAAGTACCGAAATG
* * *
23319201 GATCGTTTGTTACAAATTGGTA-GGTGACCCATTTTGGTATTTTATTATTATTTTTTAGATTATT
1 GGTCGTTTGTTACAAATTGGTAGGGTGACCCATTTTGGTATTTTATTA-TGTTTTTTGGATTATT
*
23319265 GGGGTAAATAGGTCAAGAAACGGTGTATGGTACAATAATTTTACCTAAATAATATAAAAAATAAT
65 GGGGTAAATAGGTCAAGAAACGGTGTATGGTACAACAATTTTACCTAAATAATATAAAAAATAAT
*
23319330 TAAATACAAAAATGGGCAACCGTACAGATTAAGTACCGAAATG
130 TAAATACAAAAATGGGCAACCGTACAAATTAAGTACCGAAATG
*
23319373 GGTCATTTGTTACAAATTGGTAGGGTGACCCATTTTGGTATTTTATTATGTTTTTTGGATTATTG
1 GGTCGTTTGTTACAAATTGGTAGGGTGACCCATTTTGGTATTTTATTATGTTTTTTGGATTATTG
* * * * *
23319438 GGGTAAATAGGTCAAGACACGATATATGATACAACAATTTTACTTAAATAATATAAAAAA-AATT
66 GGGTAAATAGGTCAAGAAACGGTGTATGGTACAACAATTTTACCTAAATAATATAAAAAATAATT
23319502 AAAT
131 AAAT
23319506 GGACGACATT
Statistics
Matches: 273, Mismatches: 30, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
171 8 0.03
172 136 0.50
173 47 0.17
174 82 0.30
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (172 bp):
GGTCGTTTGTTACAAATTGGTAGGGTGACCCATTTTGGTATTTTATTATGTTTTTTGGATTATTG
GGGTAAATAGGTCAAGAAACGGTGTATGGTACAACAATTTTACCTAAATAATATAAAAAATAATT
AAATACAAAAATGGGCAACCGTACAAATTAAGTACCGAAATG
Found at i:23322172 original size:74 final size:73
Alignment explanation
Indices: 23322011--23322173 Score: 263
Period size: 74 Copynumber: 2.2 Consensus size: 73
23322001 AATAATATAA
23322011 AAAAACCCTAAAATTAATAACTGAAATGACAAAAAAGTCATTACATAAATACAAACTTGACTATT
1 AAAAACCCTAAAATTAATAACTGAAATGACAAAAAAGTCATTACATAAATACAAACTTGACTATT
23322076 TAAATTGC
66 TAAATTGC
** * * *
23322084 AAAAACCCTAAAAATTAATAACTGAAATGGGAAAAAAGTCATTATATAACTACAAAGTTGACTAT
1 AAAAACCCT-AAAATTAATAACTGAAATGACAAAAAAGTCATTACATAAATACAAACTTGACTAT
23322149 TTAAATTGC
65 TTAAATTGC
23322158 AAAAACCCCTAAAATT
1 AAAAA-CCCTAAAATT
23322174 GATGGTTTAA
Statistics
Matches: 83, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
73 9 0.11
74 70 0.84
75 4 0.05
ACGTcount: A:0.52, C:0.15, G:0.08, T:0.26
Consensus pattern (73 bp):
AAAAACCCTAAAATTAATAACTGAAATGACAAAAAAGTCATTACATAAATACAAACTTGACTATT
TAAATTGC
Found at i:23322366 original size:33 final size:33
Alignment explanation
Indices: 23322322--23322391 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
23322312 ATGCCATTGA
* * *
23322322 TACTGCGGTGGATATGGGCCGGGAGAAGTGGAG
1 TACTGCAGTGGATACGAGCCGGGAGAAGTGGAG
* *
23322355 TACTGCAGTGGATACGAGCCGGTAGGAGTGGAG
1 TACTGCAGTGGATACGAGCCGGGAGAAGTGGAG
23322388 TACT
1 TACT
23322392 AAGGTGGTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.23, C:0.14, G:0.43, T:0.20
Consensus pattern (33 bp):
TACTGCAGTGGATACGAGCCGGGAGAAGTGGAG
Found at i:23326597 original size:15 final size:14
Alignment explanation
Indices: 23326563--23326603 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
23326553 ACATTTCAAT
23326563 AAATC-AATAAAAA
1 AAATCAAATAAAAA
*
23326576 AATTCAAATAAATAA
1 AAATCAAATAAA-AA
23326591 AAATCAAATAAAA
1 AAATCAAATAAAA
23326604 TTACATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 4 0.17
14 7 0.29
15 13 0.54
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (14 bp):
AAATCAAATAAAAA
Found at i:23326618 original size:15 final size:16
Alignment explanation
Indices: 23326600--23326634 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
23326590 AAAATCAAAT
23326600 AAAATTACATTA-TAA
1 AAAATTACATTACTAA
23326615 AAAATTACATTACTAA
1 AAAATTACATTACTAA
23326631 AAAA
1 AAAA
23326635 ATCACAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAATTACATTACTAA
Found at i:23326787 original size:108 final size:102
Alignment explanation
Indices: 23326609--23327124 Score: 554
Period size: 108 Copynumber: 4.9 Consensus size: 102
23326599 TAAAATTACA
*
23326609 TTATAAAAAATTACATTACTAAAAAAATCACAAAAATACTAAACTAAACACTAACAATTTATAAC
1 TTATAAAAATTTACATTACTAAAAAAATCAC-AAAATACTAAACTAAACACTAACAATTTATAAC
* *
23326674 TTAATCATAAATTACAAACAAAATAACTATAATT-TTT
65 CTAATCATAAATTACTAACAAAATAACTATAATTATTT
* * *
23326711 TTAAAAAAAAATAAAAATTTACATTACT-AAAAAATTACAAAACACTAAACTAAACACTAACAGT
1 TT--------ATAAAAATTTACATTACTAAAAAAATCACAAAATACTAAACTAAACACTAACAAT
* *
23326775 TTGTAACCTAATCATAAATTACTAACAAAACAACTATAAAATTATTT
58 TTATAACCTAATCATAAATTACTAACAAAATAACTAT--AATTATTT
* * * *
23326822 TTTTTAAAATTTACATTACTAAAAAAAATCAAAAAATACTAAACTAAACACTAAAAATTTTATAA
1 TTATAAAAATTTACATTACT-AAAAAAATCACAAAATACTAAACTAAACACTAACAA-TTTATAA
23326887 CCTAATCATAAATTACTAACAAAATAACTATAAAATTATTT
64 CCTAATCATAAATTACTAACAAAATAACTAT--AATTATTT
* * * ** ** * *
23326928 TTTTAAAAAATTACATTACT-AAAAAATTACAAAACCCTATGCTAAACCCTAACAATTTGTAACC
1 TTATAAAAATTTACATTACTAAAAAAATCACAAAATACTAAACTAAACACTAACAATTTATAACC
23326992 TAATCCCATAAATTACTAACAAAATAAATAACTATAAATTATTT
66 TAAT--CATAAATTACTAAC---A-AAATAACTAT-AATTATTT
** * * ** *
23327036 AAAAAAAAAATTACATTACT-AAAAAATCACAAAGCACTAAACTAAAAACTAACAATTTATAACC
1 TTATAAAAATTTACATTACTAAAAAAATCACAAAATACTAAACTAAACACTAACAATTTATAACC
23327100 TAATCATAAATTACTAACAAAATAA
66 TAATCATAAATTACTAACAAAATAA
23327125 TTTTACATTA
Statistics
Matches: 354, Mismatches: 40, Indels: 40
0.82 0.09 0.09
Matches are distributed among these distances:
102 8 0.02
103 29 0.08
104 27 0.08
105 44 0.12
106 78 0.22
108 123 0.35
109 19 0.05
110 21 0.06
111 5 0.01
ACGTcount: A:0.55, C:0.15, G:0.01, T:0.29
Consensus pattern (102 bp):
TTATAAAAATTTACATTACTAAAAAAATCACAAAATACTAAACTAAACACTAACAATTTATAACC
TAATCATAAATTACTAACAAAATAACTATAATTATTT
Found at i:23327141 original size:80 final size:80
Alignment explanation
Indices: 23327046--23327209 Score: 265
Period size: 80 Copynumber: 2.0 Consensus size: 80
23327036 AAAAAAAAAA
* * *
23327046 TTACATTACTAAAAAATCACAAAGCACTAAACTAAAAACTAACAATTTATAACCTAATCATAAAT
1 TTACATTAATAAAAAATCACAAAACACTAAACTAAAAAC-AACAATTTATAACATAATCATAAAT
23327111 TACTAACAAAATAATT
65 TACTAACAAAATAATT
* * *
23327127 TTACATTAATAAAAAATCACAAAACACTAAACTGAACACAACAATTTATAACATAATCCTAAATT
1 TTACATTAATAAAAAATCACAAAACACTAAACTAAAAACAACAATTTATAACATAATCATAAATT
23327192 ACTAACAAAATAATT
66 ACTAACAAAATAATT
23327207 TTA
1 TTA
23327210 AAATAATTAT
Statistics
Matches: 77, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
80 42 0.55
81 35 0.45
ACGTcount: A:0.54, C:0.17, G:0.01, T:0.27
Consensus pattern (80 bp):
TTACATTAATAAAAAATCACAAAACACTAAACTAAAAACAACAATTTATAACATAATCATAAATT
ACTAACAAAATAATT
Found at i:23327274 original size:182 final size:186
Alignment explanation
Indices: 23326938--23327275 Score: 395
Period size: 182 Copynumber: 1.8 Consensus size: 186
23326928 TTTTAAAAAA
* * * ** * * *
23326938 TTACATTACTAAAAAATTACAAAACCCTATGCTAAACCCTAACAATTTGTAACCTAATCCCATAA
1 TTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACATAATCCCATAA
* *
23327003 ATTACTAACAAAATAAATAACTATAAATTATTTAAAAAAAAAATTACATTACTAAAAAATCACAA
66 ATTACTAACAAAATAAAT-A-TATAAAATAATTAAAAAAAAAATTACATTACTAAAAAAT-ACAA
* *
23327068 AGCACTAAACTAAAAACTAACAATTTATAACCTAATCATAAATTACTAACAAAATAATT
128 ACCACTAAACTAAAAACAAACAATTTATAACCTAATCATAAATTACTAACAAAATAATT
*
23327127 TTACATTAATAAAAAATCACAAAACACTAAACTGAACAC-AACAATTTATAACATAAT-CC-TAA
1 TTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACATAATCCCATAA
* * * *
23327189 ATTACTAACAAAAT-AAT-TTTAAAATAATTATAAAAAAATTTACATT-CATAAAAAAGT-TAAA
66 ATTACTAACAAAATAAATATATAAAATAATTAAAAAAAAAATTACATTAC-TAAAAAA-TACAAA
*
23327250 CCA-TAAACACTAAACACAAACAATTT
129 CCACT-AA-ACTAAAAACAAACAATTT
23327276 GTAGATAATA
Statistics
Matches: 127, Mismatches: 18, Indels: 15
0.79 0.11 0.09
Matches are distributed among these distances:
180 1 0.01
181 8 0.06
182 47 0.37
183 1 0.01
185 3 0.02
186 17 0.13
187 2 0.02
188 16 0.13
189 32 0.25
ACGTcount: A:0.55, C:0.17, G:0.01, T:0.27
Consensus pattern (186 bp):
TTACATTAATAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACATAATCCCATAA
ATTACTAACAAAATAAATATATAAAATAATTAAAAAAAAAATTACATTACTAAAAAATACAAACC
ACTAAACTAAAAACAAACAATTTATAACCTAATCATAAATTACTAACAAAATAATT
Found at i:23327399 original size:14 final size:14
Alignment explanation
Indices: 23327365--23327408 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
23327355 AATACATACC
23327365 TTTTTT-TTCTTCCT
1 TTTTTTCTTCTT-CT
*
23327379 TTCTTTCTTCTTCT
1 TTTTTTCTTCTTCT
*
23327393 TTTTTTCTTCTCCT
1 TTTTTTCTTCTTCT
23327407 TT
1 TT
23327409 CTCTCCTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 21 0.81
15 5 0.19
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTTTCTTCTTCT
Found at i:23327417 original size:23 final size:26
Alignment explanation
Indices: 23327366--23327422 Score: 66
Period size: 23 Copynumber: 2.3 Consensus size: 26
23327356 ATACATACCT
* *
23327366 TTTTTTTCTTCCTTTCTTTCTTCTTC
1 TTTTTTTCTTCCTTCCTTTCTTCTCC
23327392 TTTTTTTCTT-C-TCCTTTC-TCTCC
1 TTTTTTTCTTCCTTCCTTTCTTCTCC
*
23327415 TTTCTTTC
1 TTTTTTTC
23327423 CCTCTTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 11 0.39
24 6 0.21
25 1 0.04
26 10 0.36
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (26 bp):
TTTTTTTCTTCCTTCCTTTCTTCTCC
Found at i:23327443 original size:37 final size:35
Alignment explanation
Indices: 23327370--23327437 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
23327360 ATACCTTTTT
*
23327370 TTTCTTCCTTTCTTTCTTCTTCTTTTTTTCTTCTCC
1 TTTCTTCCTTTCTTTC-TCCTCTTTTTTTCTTCTCC
23327406 TTTCTCTCCTTTCTTTC-CCTCTTTTTTTCTTC
1 TTTCT-TCCTTTCTTTCTCCTCTTTTTTTCTTC
23327438 ACTCCTGTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
35 14 0.47
36 5 0.17
37 11 0.37
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (35 bp):
TTTCTTCCTTTCTTTCTCCTCTTTTTTTCTTCTCC
Found at i:23328578 original size:20 final size:19
Alignment explanation
Indices: 23328537--23328617 Score: 57
Period size: 19 Copynumber: 4.4 Consensus size: 19
23328527 AAAAGAGGGA
*
23328537 AAGAAAGGAGAGAAAAGAG
1 AAGAAAAGAGAGAAAAGAG
23328556 AAGAAAAGA-AGAAGAAGAGG
1 AAGAAAAGAGAGAA-AAGA-G
*
23328576 AAGAAGAA-AGAAAGAAAGA-
1 AAGAA-AAGAGAGA-AAAGAG
*
23328595 AAG-AAAGAAAG-AAAGA-
1 AAGAAAAGAGAGAAAAGAG
23328611 AAGAAAA
1 AAGAAAA
23328618 AATGTATGCA
Statistics
Matches: 51, Mismatches: 4, Indels: 16
0.72 0.06 0.23
Matches are distributed among these distances:
16 8 0.16
17 5 0.10
18 7 0.14
19 15 0.29
20 7 0.14
21 8 0.16
22 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AAGAAAAGAGAGAAAAGAG
Found at i:23328588 original size:4 final size:4
Alignment explanation
Indices: 23328535--23328616 Score: 80
Period size: 4 Copynumber: 20.0 Consensus size: 4
23328525 AAAAAAGAGG
* *
23328535 GAAA GAAA GGAGA GAAAA GAGAA GAAA -AGAA G-AA GAAGA GGAA G-AA
1 GAAA GAAA -GAAA G-AAA GA-AA GAAA GA-AA GAAA GAA-A GAAA GAAA
23328581 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
23328617 AAATGTATGC
Statistics
Matches: 67, Mismatches: 3, Indels: 16
0.78 0.03 0.19
Matches are distributed among these distances:
3 7 0.10
4 47 0.70
5 13 0.19
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:23328877 original size:12 final size:12
Alignment explanation
Indices: 23328860--23328884 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23328850 ATTAATGTAA
23328860 AATTATTTTGTT
1 AATTATTTTGTT
23328872 AATTATTTTGTT
1 AATTATTTTGTT
23328884 A
1 A
23328885 GTAATTTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (12 bp):
AATTATTTTGTT
Found at i:23328952 original size:94 final size:94
Alignment explanation
Indices: 23328779--23329050 Score: 460
Period size: 94 Copynumber: 2.9 Consensus size: 94
23328769 ATTATTTTAA
* * ** *
23328779 AATTATTCTGTTAGTAATTTGA-GATTATATTATAAATTGTT-GGGTTTAGTTTAGTGTTTTGTG
1 AATTATTTTGTTAGTAATTT-ATGGTTAGGTTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTG
23328842 ATTTTTTTATTAATGTAAAATTATTTTGTT
65 ATTTTTTTATTAATGTAAAATTATTTTGTT
23328872 AATTATTTTGTTAGTAATTTATGGTTAGGTTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
1 AATTATTTTGTTAGTAATTTATGGTTAGGTTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
23328937 TTTTTTTATTAATGTAAAATTATTTTGTT
66 TTTTTTTATTAATGTAAAATTATTTTGTT
23328966 AATTATTTTGTTAGTAATTTATGGTTAGGTTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
1 AATTATTTTGTTAGTAATTTATGGTTAGGTTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
*
23329031 -TTTTTTAGTAATGTAAAATT
66 TTTTTTTATTAATGTAAAATT
23329051 TTTATAATGT
Statistics
Matches: 171, Mismatches: 6, Indels: 4
0.94 0.03 0.02
Matches are distributed among these distances:
92 1 0.01
93 54 0.32
94 116 0.68
ACGTcount: A:0.26, C:0.00, G:0.17, T:0.56
Consensus pattern (94 bp):
AATTATTTTGTTAGTAATTTATGGTTAGGTTATAAATTGTTAGTGTTTAGTTTAGTGTTTTGTGA
TTTTTTTATTAATGTAAAATTATTTTGTT
Found at i:23328971 original size:12 final size:12
Alignment explanation
Indices: 23328954--23328978 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23328944 ATTAATGTAA
23328954 AATTATTTTGTT
1 AATTATTTTGTT
23328966 AATTATTTTGTT
1 AATTATTTTGTT
23328978 A
1 A
23328979 GTAATTTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (12 bp):
AATTATTTTGTT
Done.