Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 172 of 211
Found at i:53629300 original size:88 final size:89
Alignment explanation
Indices: 53629135--53629316 Score: 260
Period size: 89 Copynumber: 2.1 Consensus size: 89
53629125 GCTTAAAATT
* * * * *
53629135 TTTTTTGATGCATTTTGAAAGTTTAAGTACTCAATTGAGTGCAAAAAAATATAGGGGCTTAATTG
1 TTTTTTGATACATTTTGAAAGTTCAAGTACTCAAATGAATGCAAAAAAATATAGAGGCTTAATTG
* ** *
53629200 CTTTTTTTGAAAAGGTTTGAGGGC
66 CATTTTTTGAAAAACTTTGAGAGC
53629224 TTTTTTGATACATTTTGAAAGTTCAAGTA-TCCAAATGAATGCAAAAAAA-ATAGAGGCTTAATT
1 TTTTTTGATACATTTTGAAAGTTCAAGTACT-CAAATGAATGCAAAAAAATATAGAGGCTTAATT
53629287 GCATTTTTTGAAAAACTTTGAGAGC
65 GCATTTTTTGAAAAACTTTGAGAGC
53629312 TTTTT
1 TTTTT
53629317 GCACCCTTAA
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
88 40 0.48
89 43 0.52
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.39
Consensus pattern (89 bp):
TTTTTTGATACATTTTGAAAGTTCAAGTACTCAAATGAATGCAAAAAAATATAGAGGCTTAATTG
CATTTTTTGAAAAACTTTGAGAGC
Found at i:53630362 original size:9 final size:9
Alignment explanation
Indices: 53630335--53630408 Score: 73
Period size: 9 Copynumber: 8.1 Consensus size: 9
53630325 CAAATATATA
53630335 TATAATTTT
1 TATAATTTT
53630344 T-TACATTTTT
1 TATA-A-TTTT
53630354 TATAATTTT
1 TATAATTTT
*
53630363 TCATAATTTC
1 T-ATAATTTT
53630373 TAT-ATATTT
1 TATAAT-TTT
53630382 TAT-ATTTT
1 TATAATTTT
*
53630390 TATGATTTT
1 TATAATTTT
53630399 TATAATTTT
1 TATAATTTT
53630408 T
1 T
53630409 TGTATTTTTC
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
8 10 0.18
9 30 0.54
10 14 0.25
11 2 0.04
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.66
Consensus pattern (9 bp):
TATAATTTT
Found at i:53630408 original size:18 final size:17
Alignment explanation
Indices: 53630350--53630444 Score: 77
Period size: 18 Copynumber: 5.2 Consensus size: 17
53630340 TTTTTTACAT
53630350 TTTTTATAATTTTTCATAA
1 TTTTTAT-ATTTTT-ATAA
*
53630369 TTTCTATATATTTTAT-A
1 TTTTTATAT-TTTTATAA
53630386 TTTTTATGATTTTTATAA
1 TTTTTAT-ATTTTTATAA
*
53630404 TTTTTTGTATTTTTCA-ATA
1 -TTTTTATATTTTT-ATA-A
*
53630423 TTTTTATATTTGTAGTAA
1 TTTTTATATTTTTA-TAA
53630441 TTTT
1 TTTT
53630445 AACTGAAAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
17 14 0.22
18 30 0.48
19 19 0.30
ACGTcount: A:0.26, C:0.03, G:0.04, T:0.66
Consensus pattern (17 bp):
TTTTTATATTTTTATAA
Found at i:53630445 original size:45 final size:45
Alignment explanation
Indices: 53630351--53630445 Score: 104
Period size: 45 Copynumber: 2.1 Consensus size: 45
53630341 TTTTTACATT
* * *
53630351 TTTTATAATTTTTCATAATTTCTATATATTTTATATTTTTATGAT
1 TTTTATAATTTTTCATAATTTCAATATATTTTATATTTGTATGAA
** *
53630396 TTTTATAATTTTTTGTATTTTTCAATAT-TTTTATATTTGTA-GTAA
1 TTTTATAATTTTTCATA-ATTTCAATATATTTTATATTTGTATG-AA
53630441 TTTTA
1 TTTTA
53630446 ACTGAAAATA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
44 1 0.02
45 33 0.79
46 8 0.19
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.65
Consensus pattern (45 bp):
TTTTATAATTTTTCATAATTTCAATATATTTTATATTTGTATGAA
Found at i:53632092 original size:32 final size:31
Alignment explanation
Indices: 53632054--53632117 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 31
53632044 ACACTTATTT
53632054 TCACCTATGCCGAATGCATACACATAAATATA
1 TCACCTATGCCGAATGCA-ACACATAAATATA
* *
53632086 TCACCTATGCCGAATGCAACATATATATATA
1 TCACCTATGCCGAATGCAACACATAAATATA
53632117 T
1 T
53632118 ACATATCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 12 0.40
32 18 0.60
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.28
Consensus pattern (31 bp):
TCACCTATGCCGAATGCAACACATAAATATA
Found at i:53632377 original size:41 final size:41
Alignment explanation
Indices: 53632332--53632487 Score: 285
Period size: 41 Copynumber: 3.8 Consensus size: 41
53632322 ACCGGCTCTT
*
53632332 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
53632373 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
53632414 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
* *
53632455 AGCCTGCTAGACTTATAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
53632488 TAACGATAAA
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 112 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:53636916 original size:41 final size:41
Alignment explanation
Indices: 53636709--53636905 Score: 308
Period size: 41 Copynumber: 4.8 Consensus size: 41
53636699 TTTATCGTTA
* * * *
53636709 GTGACATAATTCAGACTTTACGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
53636750 GTGA-A-ATTATTCAGACTATAAGTCTAACAGGCTTAATGCCG
1 GTGACACA-T-TTCAGACTATAAGTCTAGCAGGCTTAATGCCG
53636791 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
53636832 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
*
53636873 GTGACACATTTCGGACTATAAGTCTAGCAGGCT
1 GTGACACATTTCAGACTATAAGTCTAGCAGGCT
53636906 AAGAGCCGGT
Statistics
Matches: 146, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 141 0.97
42 2 0.01
43 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (41 bp):
GTGACACATTTCAGACTATAAGTCTAGCAGGCTTAATGCCG
Found at i:53637165 original size:30 final size:32
Alignment explanation
Indices: 53637124--53637185 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
53637114 ATATGTATAT
*
53637124 ATATATATA-TGT-TGCATTCGGCATAGGTGG
1 ATATATATAGTGTATACATTCGGCATAGGTGG
*
53637154 ATATATTTATGTGTATACATTCGGCATAGGTG
1 ATATATATA-GTGTATACATTCGGCATAGGTG
53637186 AAAATAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 8 0.30
32 3 0.11
33 16 0.59
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (32 bp):
ATATATATAGTGTATACATTCGGCATAGGTGG
Found at i:53637202 original size:33 final size:33
Alignment explanation
Indices: 53637128--53637202 Score: 80
Period size: 33 Copynumber: 2.3 Consensus size: 33
53637118 GTATATATAT
* * * *
53637128 ATATATGT-TGCATTCGGCATAGGTGGATATAT
1 ATATATGTATACATTCGGCATAGGTGAAAATAA
* *
53637160 TTATGTGTATACATTCGGCATAGGTGAAAATAA
1 ATATATGTATACATTCGGCATAGGTGAAAATAA
*
53637193 ATGTATGTAT
1 ATATATGTAT
53637203 CTATGCATTC
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
32 6 0.18
33 27 0.82
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.37
Consensus pattern (33 bp):
ATATATGTATACATTCGGCATAGGTGAAAATAA
Found at i:53651931 original size:100 final size:99
Alignment explanation
Indices: 53651753--53651946 Score: 289
Period size: 100 Copynumber: 1.9 Consensus size: 99
53651743 TCTTCTGGAG
* * * * *
53651753 TCATCTTATTCCTCGGGTGCCATGCTTTATCTGCTAAAAACCCTTTGGTTTATGTTTGTTTGAGA
1 TCATCTTATTCCTCGGGTGCCAAGCTTTATCTGCTAAAAACCATTTGCTTAATGTCTGTTTGAGA
* * *
53651818 ATATATTTCTTAAAATTATTCAATACCATGTTCCA
66 AAACATTTATT-AAATTATTCAATACCATGTTCCA
* *
53651853 TCATCTTATTCCTTGGGTGCCAAGCTTTATCTGCTAAAAACCATTTGCTTAATGTCTGTTTGTGA
1 TCATCTTATTCCTCGGGTGCCAAGCTTTATCTGCTAAAAACCATTTGCTTAATGTCTGTTTGAGA
53651918 AAACATTTATTAAATTATTCAATACCATG
66 AAACATTTATTAAATTATTCAATACCATG
53651947 CGTCATTACT
Statistics
Matches: 84, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
99 18 0.21
100 66 0.79
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.42
Consensus pattern (99 bp):
TCATCTTATTCCTCGGGTGCCAAGCTTTATCTGCTAAAAACCATTTGCTTAATGTCTGTTTGAGA
AAACATTTATTAAATTATTCAATACCATGTTCCA
Found at i:53654960 original size:45 final size:45
Alignment explanation
Indices: 53654896--53654985 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
53654886 TGACTGCACT
53654896 CCATCATCTTCTTCCATGGTTCTAGCTGTGATGCTTAGCTTTCCA
1 CCATCATCTTCTTCCATGGTTCTAGCTGTGATGCTTAGCTTTCCA
*
53654941 CCATCATCTTCTTCCATGGTTCTGGCTGTGATGCTTAGCTTTCCA
1 CCATCATCTTCTTCCATGGTTCTAGCTGTGATGCTTAGCTTTCCA
53654986 GTGTAAATTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.14, C:0.29, G:0.17, T:0.40
Consensus pattern (45 bp):
CCATCATCTTCTTCCATGGTTCTAGCTGTGATGCTTAGCTTTCCA
Found at i:53677582 original size:26 final size:23
Alignment explanation
Indices: 53677524--53677569 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
53677514 TAAAAAAATA
53677524 ACCAAAATATTATAAATTTTTTT
1 ACCAAAATATTATAAATTTTTTT
53677547 ACCAAAATATTAT-AATTTTTTT
1 ACCAAAATATTATAAATTTTTTT
53677569 A
1 A
53677570 TTTACCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (23 bp):
ACCAAAATATTATAAATTTTTTT
Found at i:53677661 original size:27 final size:26
Alignment explanation
Indices: 53677631--53677716 Score: 100
Period size: 27 Copynumber: 3.2 Consensus size: 26
53677621 GCCTGATCAG
* * *
53677631 GCCAATCACATTGGCAGCACCAAAGGT
1 GCCAAT-AAATTGGCGGCACCAATGGT
53677658 GCCAATATAATTGGCGGCACCAATGGT
1 GCCAATA-AATTGGCGGCACCAATGGT
**
53677685 GCCAATGTGATTGGCGGCACCAATGGT
1 GCCAAT-AAATTGGCGGCACCAATGGT
53677712 GCCAA
1 GCCAA
53677717 AAGACTAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
26 1 0.02
27 51 0.98
ACGTcount: A:0.29, C:0.26, G:0.27, T:0.19
Consensus pattern (26 bp):
GCCAATAAATTGGCGGCACCAATGGT
Found at i:53678332 original size:18 final size:19
Alignment explanation
Indices: 53678293--53678351 Score: 84
Period size: 19 Copynumber: 3.2 Consensus size: 19
53678283 ATTTTATATT
*
53678293 TTAAATGAAAATAGAGTTA
1 TTAAATGAAAATAGATTTA
*
53678312 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGATTTA
*
53678330 TTAAATTAAAATAGATTTA
1 TTAAATGAAAATAGATTTA
53678349 TTA
1 TTA
53678352 CTTAATTAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 15 0.43
19 20 0.57
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (19 bp):
TTAAATGAAAATAGATTTA
Found at i:53697435 original size:30 final size:30
Alignment explanation
Indices: 53697363--53697435 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 30
53697353 TTGAATTTTT
* *
53697363 TTTTTTCAGATTAAGATCTAAATTTGATAA
1 TTTTTTCATATTAAGATCTAAATTTGACAA
* *
53697393 TTTTTCTCATATT-AGAGTTTAAATTTGGCAA
1 TTTTT-TCATATTAAGA-TCTAAATTTGACAA
53697424 TTTTTTCATATT
1 TTTTTTCATATT
53697436 GGGGACTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 15 0.41
31 22 0.59
ACGTcount: A:0.30, C:0.08, G:0.10, T:0.52
Consensus pattern (30 bp):
TTTTTTCATATTAAGATCTAAATTTGACAA
Found at i:53697638 original size:59 final size:57
Alignment explanation
Indices: 53697575--53697693 Score: 134
Period size: 58 Copynumber: 2.1 Consensus size: 57
53697565 CAAATTTAGG
* * *
53697575 GCCTAACTTGGACTAAAAAAAAGTTTA-GCCCCAATGTGTGAACAATTG-TCAAGTTCAGA
1 GCCTAACTTGAAC--AAAAAAAGTTCAGGCCCCAATGTGGGAACAATTGCT-AAGTTCA-A
* * *
53697634 GCCTAATTTGAACAAAAAAAGTTCAGGCTCCAATGTGGGAAGAATTGCTAAGTTCAA
1 GCCTAACTTGAACAAAAAAAGTTCAGGCCCCAATGTGGGAACAATTGCTAAGTTCAA
53697691 GCC
1 GCC
53697694 CCAAAATATG
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
57 15 0.29
58 25 0.48
59 12 0.23
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.24
Consensus pattern (57 bp):
GCCTAACTTGAACAAAAAAAGTTCAGGCCCCAATGTGGGAACAATTGCTAAGTTCAA
Found at i:53713099 original size:59 final size:58
Alignment explanation
Indices: 53713004--53713185 Score: 161
Period size: 59 Copynumber: 3.1 Consensus size: 58
53712994 TTGGGGCTGA
* * * * **
53713004 TTTTTTTTTTCAAGTTAA-ACTTTGAATTAGACAATTGTTCTCACATTTGGG-TTGAATT
1 TTTTTTTTTTCAAGTTAAGTC-CTGAACTAGACAATTGTTCTCACATTGGGGCTT-AAAC
* * *
53713062 TTTTTTTTGTTCAAGTTAAGTCCTGAACTAGATAATTGTTCTTATATTGGGGCTTAAAC
1 TTTTTTTT-TTCAAGTTAAGTCCTGAACTAGACAATTGTTCTCACATTGGGGCTTAAAC
* * ** * * * *
53713121 TTTTTTTTATCCAAGTTAGGTCCTGAACTTTACAAATGTTCCCACATTGGGACTTGAAC
1 TTTTTTTT-TTCAAGTTAAGTCCTGAACTAGACAATTGTTCTCACATTGGGGCTTAAAC
53713180 TTTTTT
1 TTTTTT
53713186 CATGCAAGTT
Statistics
Matches: 100, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
58 8 0.08
59 89 0.89
60 3 0.03
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.47
Consensus pattern (58 bp):
TTTTTTTTTTCAAGTTAAGTCCTGAACTAGACAATTGTTCTCACATTGGGGCTTAAAC
Found at i:53716192 original size:19 final size:20
Alignment explanation
Indices: 53716170--53716208 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
53716160 TCAAATTTAT
53716170 TTTTTAAACTTA-AATATTC
1 TTTTTAAACTTATAATATTC
* *
53716189 TTTTTACATTTATAATATTC
1 TTTTTAAACTTATAATATTC
53716209 GAATGCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (20 bp):
TTTTTAAACTTATAATATTC
Found at i:53720785 original size:14 final size:14
Alignment explanation
Indices: 53720762--53720796 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
53720752 TATATGTGTT
*
53720762 AGTATCTTTCCTTA
1 AGTATATTTCCTTA
*
53720776 AGTATATTTCCTTC
1 AGTATATTTCCTTA
53720790 AGTATAT
1 AGTATAT
53720797 CCAATGATGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.49
Consensus pattern (14 bp):
AGTATATTTCCTTA
Found at i:53727065 original size:17 final size:17
Alignment explanation
Indices: 53727045--53727141 Score: 59
Period size: 17 Copynumber: 5.4 Consensus size: 17
53727035 ATTTCAAGAT
53727045 TTATGTAATATTTTTAA
1 TTATGTAATATTTTTAA
* ***
53727062 TTATGTAGTGATTCAAAAA
1 TTATGTAAT-ATT-TTTAA
*
53727081 CTTATGTAATGTTTTTAA
1 -TTATGTAATATTTTTAA
* ***
53727099 TTATGTAGTGATTCAAAGA
1 TTATGTAAT-ATTTTTA-A
53727118 TTTATGTAATATTTTTAA
1 -TTATGTAATATTTTTAA
53727136 TTATGT
1 TTATGT
53727142 TGTGATTCAA
Statistics
Matches: 56, Mismatches: 18, Indels: 12
0.65 0.21 0.14
Matches are distributed among these distances:
17 22 0.39
18 9 0.16
19 9 0.16
20 16 0.29
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.51
Consensus pattern (17 bp):
TTATGTAATATTTTTAA
Found at i:53727086 original size:37 final size:37
Alignment explanation
Indices: 53727045--53727151 Score: 178
Period size: 37 Copynumber: 2.9 Consensus size: 37
53727035 ATTTCAAGAT
53727045 TTATGTAATATTTTTAATTATGTAGTGATTCAAAAAC
1 TTATGTAATATTTTTAATTATGTAGTGATTCAAAAAC
* * *
53727082 TTATGTAATGTTTTTAATTATGTAGTGATTCAAAGAT
1 TTATGTAATATTTTTAATTATGTAGTGATTCAAAAAC
*
53727119 TTATGTAATATTTTTAATTATGTTGTGATTCAA
1 TTATGTAATATTTTTAATTATGTAGTGATTCAA
53727152 TTCGGGTAAT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.50
Consensus pattern (37 bp):
TTATGTAATATTTTTAATTATGTAGTGATTCAAAAAC
Found at i:53731575 original size:74 final size:74
Alignment explanation
Indices: 53731452--53731595 Score: 218
Period size: 74 Copynumber: 1.9 Consensus size: 74
53731442 ATGGCCCCCC
* *
53731452 AAGGTTTAAATTTTTTACAATTTAGCCCTTTGTAGAGATACTATGGCCCTCCCAAAAATATAAGT
1 AAGGTTTAAATTTTTTACAATTTACCCCTTTGTAGAGATACTATAGCCCTCCCAAAAATATAAGT
53731517 AGGCCATCA
66 AGGCCATCA
* * * *
53731526 AAGGTTTAAGA-TTTTTGCAATTTTCCCCTTTGTATATATACTATAGCCCTCCCAAAAATATAAG
1 AAGGTTTAA-ATTTTTTACAATTTACCCCTTTGTAGAGATACTATAGCCCTCCCAAAAATATAAG
53731590 TAGGCC
65 TAGGCC
53731596 TCTCCAAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
74 62 0.98
75 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (74 bp):
AAGGTTTAAATTTTTTACAATTTACCCCTTTGTAGAGATACTATAGCCCTCCCAAAAATATAAGT
AGGCCATCA
Found at i:53737185 original size:13 final size:13
Alignment explanation
Indices: 53737167--53737193 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
53737157 TTATTTATTT
53737167 ATTTTGAATTATA
1 ATTTTGAATTATA
53737180 ATTTTGAATTATA
1 ATTTTGAATTATA
53737193 A
1 A
53737194 GAGGAGAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (13 bp):
ATTTTGAATTATA
Found at i:53754843 original size:6 final size:6
Alignment explanation
Indices: 53754820--53754963 Score: 216
Period size: 6 Copynumber: 23.7 Consensus size: 6
53754810 CTCTTGTACT
* * * * * *
53754820 TACATA TACATA TACACA TGCACA TGCACA TGCACA TGCACA TAGACACA
1 TACACA TACACA TACACA TACACA TACACA TACACA TACACA T--ACACA
53754870 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
1 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACACA
53754918 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACA
1 TACACA TACACA TACACA TACACA TACACA TACACA TACACA TACA
53754964 TATATTGTCA
Statistics
Matches: 133, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
6 128 0.96
8 5 0.04
ACGTcount: A:0.47, C:0.31, G:0.03, T:0.18
Consensus pattern (6 bp):
TACACA
Found at i:53789777 original size:107 final size:107
Alignment explanation
Indices: 53789592--53790129 Score: 787
Period size: 108 Copynumber: 5.0 Consensus size: 107
53789582 GATTAAGATA
* *
53789592 TAAAAGGATATTTGGCTATTTGGTCCG-ACG-GGAAATCGAGACCCAACACATTAGGGTACGTTT
1 TAAAAGGATATTTGGCTATTTGGT-CGAACGAGGAAATCGAAACCCAACACATTAGGGCACGTTT
* *
53789655 TCTCAAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAATT
65 TCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAATT
* * *
53789698 TAAAAGGATATTCGGCTATTTGGTCGAACGAGGTAATCGAAACCCAACACATTAGGGCACGTTTC
1 TAAAAGGATATTTGGCTATTTGGTCGAACGAGGAAATCGAAACCCAACACATTAGGGCACGTTTT
*
53789763 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTT
66 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAATT
* * *
53789805 TAAAAGGATATTTAGCTATTTGGTCGAACGAGAAAGATCGAAACCCAACACATTAGGGCACTTTT
1 TAAAAGGATATTTGGCTATTTGGTCGAACGAGGAA-ATCGAAACCCAACACATTAGGGCACGTTT
* *
53789870 TCTCGAATTTCCAAATGCAAAACATTGTCTTATTTTTGAAAATT
65 TCTCGAATTTCCAAACGCAAAACATTGCCTTA-TTTTGAAAATT
* * ** *
53789914 TAAAAGGATATTCGGCTATTTGGTCGAACGAGGTAATCGAAACCCAGTACATTAGGGCACGTTTC
1 TAAAAGGATATTTGGCTATTTGGTCGAACGAGGAAATCGAAACCCAACACATTAGGGCACGTTTT
*
53789979 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTT
66 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAATT
* * *
53790021 TAAAAGGATATTTAGCTATTTGGTCGAACGA-GAAAGTTCGAAACCCAGCACATTAGGGCACATT
1 TAAAAGGATATTTGGCTATTTGGTCGAACGAGGAAA--TCGAAACCCAACACATTAGGGCACGTT
*
53790085 TTCTCGAACTTT-CAAACGCAAAACATTGCCTAATTTTGAAAATT
64 TTCTCGAA-TTTCCAAACGCAAAACATTGCCTTATTTTGAAAATT
53790129 T
1 T
53790130 TTTTAAGGAT
Statistics
Matches: 389, Mismatches: 36, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
105 2 0.01
106 29 0.07
107 139 0.36
108 175 0.45
109 44 0.11
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (107 bp):
TAAAAGGATATTTGGCTATTTGGTCGAACGAGGAAATCGAAACCCAACACATTAGGGCACGTTTT
CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAATT
Found at i:53789968 original size:216 final size:214
Alignment explanation
Indices: 53789592--53790129 Score: 868
Period size: 216 Copynumber: 2.5 Consensus size: 214
53789582 GATTAAGATA
* * * * *
53789592 TAAAAGGATATTTGGCTATTTGGTCCG-ACG-GGAA-ATCGAGACCCAACACATTAGGGTACGTT
1 TAAAAGGATATTTAGCTATTTGGT-CGAACGAGAAAGATCGAAACCCAACACATTAGGGCACATT
* *
53789654 TTCTCAAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAATTTAAAAGGATATTCGGCTATTT
65 TTCTCGAATTTCCAAACGCAAAACATTG-CTTATTTTGAAAATTTAAAAGGATATTCGGCTATTT
53789719 GGTCGAACGAGGTAATCGAAACCCAACACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAA
129 GGTCGAACGAGGTAATCGAAACCCAACACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAA
53789784 CATTGCCTTATTTTGAAATTT
194 CATTGCCTTATTTTGAAATTT
*
53789805 TAAAAGGATATTTAGCTATTTGGTCGAACGAGAAAGATCGAAACCCAACACATTAGGGCACTTTT
1 TAAAAGGATATTTAGCTATTTGGTCGAACGAGAAAGATCGAAACCCAACACATTAGGGCACATTT
*
53789870 TCTCGAATTTCCAAATGCAAAACATTGTCTTATTTTTGAAAATTTAAAAGGATATTCGGCTATTT
66 TCTCGAATTTCCAAACGCAAAACATTG-CTTA-TTTTGAAAATTTAAAAGGATATTCGGCTATTT
**
53789935 GGTCGAACGAGGTAATCGAAACCCAGTACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAA
129 GGTCGAACGAGGTAATCGAAACCCAACACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAA
53790000 CATTGCCTTATTTTGAAATTT
194 CATTGCCTTATTTTGAAATTT
* *
53790021 TAAAAGGATATTTAGCTATTTGGTCGAACGAGAAAGTTCGAAACCCAGCACATTAGGGCACATTT
1 TAAAAGGATATTTAGCTATTTGGTCGAACGAGAAAGATCGAAACCCAACACATTAGGGCACATTT
*
53790086 TCTCGAACTTT-CAAACGCAAAACATTGCCTAATTTTGAAAATTT
66 TCTCGAA-TTTCCAAACGCAAAACATTG-CTTATTTTGAAAATTT
53790130 TTTTAAGGAT
Statistics
Matches: 303, Mismatches: 17, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
212 2 0.01
213 26 0.09
214 3 0.01
215 67 0.22
216 202 0.67
217 3 0.01
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (214 bp):
TAAAAGGATATTTAGCTATTTGGTCGAACGAGAAAGATCGAAACCCAACACATTAGGGCACATTT
TCTCGAATTTCCAAACGCAAAACATTGCTTATTTTGAAAATTTAAAAGGATATTCGGCTATTTGG
TCGAACGAGGTAATCGAAACCCAACACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAACA
TTGCCTTATTTTGAAATTT
Found at i:53790352 original size:4 final size:4
Alignment explanation
Indices: 53790343--53790379 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
53790333 CAATAATGAG
53790343 AATA AATA AATA AATAA AATA AAT- AATA AAT- AATA AA
1 AATA AATA AATA AAT-A AATA AATA AATA AATA AATA AA
53790380 ATCTATGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
3 6 0.20
4 20 0.67
5 4 0.13
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:53790354 original size:17 final size:17
Alignment explanation
Indices: 53790343--53790375 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
53790333 CAATAATGAG
53790343 AATAAATAAATAAATAA
1 AATAAATAAATAAATAA
53790360 AATAAAT-AATAAATAA
1 AATAAATAAATAAATAA
53790376 TAAAATCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AATAAATAAATAAATAA
Found at i:53790372 original size:7 final size:8
Alignment explanation
Indices: 53790343--53790379 Score: 51
Period size: 7 Copynumber: 4.8 Consensus size: 8
53790333 CAATAATGAG
53790343 AATAAATA
1 AATAAATA
53790351 AATAAATAA
1 AATAAAT-A
53790360 AATAAAT-
1 AATAAATA
53790367 AATAAAT-
1 AATAAATA
53790374 AATAAA
1 AATAAA
53790380 ATCTATGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 13 0.46
8 7 0.25
9 8 0.29
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAATA
Found at i:53790531 original size:8 final size:8
Alignment explanation
Indices: 53790518--53790546 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
53790508 TAAAAAAAAG
53790518 AATATATA
1 AATATATA
53790526 AATATATA
1 AATATATA
53790534 AATATATA
1 AATATATA
53790542 AATAT
1 AATAT
53790547 GTATATGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
AATATATA
Found at i:53792252 original size:85 final size:84
Alignment explanation
Indices: 53792162--53792830 Score: 273
Period size: 85 Copynumber: 7.8 Consensus size: 84
53792152 AGTCTGTTCC
* * *
53792162 ACTGCAACTTCAGGGAGATAAGACTGTATGCGATCTGCTCTACTGCAACTTTAGAGAGATAAGAT
1 ACTGCAACTTCAGGGAGATAAGACTGTATTCGATCTGCTCCACTGCAACTTCAGAGAGATAAGAT
53792227 CTATGGTTTTATTCCGCTCT
66 CTATGGTTTTA-TCCGCTCT
* * *
53792247 ACTGCAACTTCAGGGAGATAGGA-TTTATTTCTTTCG-TCTGCTCCACTGCAACTTCAGGGAGAT
1 ACTGCAACTTCAGGGAGATAAGACTGTA-----TTCGATCTGCTCCACTGCAACTTCAGAGAGAT
***
53792310 AAGA-C--TGGATACGATCCGCTCT
61 AAGATCTATGG-TTTTATCCGCTCT
* * * * *
53792332 ACTGCAACTTCAGAGAGATAAGATCTGTGGTTCTAAT-TCGCTCCACTGTAACTTCAGGGAGATA
1 ACTGCAACTTCAGGGAGATAAGA-CTGT-ATTC-GATCT-GCTCCACTGCAACTTCAGAGAGATA
* ** * * *
53792396 GGAT-TGATTTTTTTCGTCTGCTCC
62 AGATCT-ATGGTTTT-ATCCGCTCT
* * * * *
53792420 ACTGTAACTTCAGGAAGATAAGACTAG-ATACGATCTGCTCTACTACAACTTCAGAGAGATAAGA
1 ACTGCAACTTCAGGGAGATAAGACT-GTATTCGATCTGCTCCACTGCAACTTCAGAGAGATAAGA
* *
53792484 TCTGTGGTTTTGATCCACT-T
65 TCTATGGTTTT-ATCCGCTCT
* * * * * * *
53792504 -CATCGCAACTTTAGGGAGATAGGATTGATTTCTTTCG-TCTACTCCATTGCAACTTCAGGGAGA
1 AC-T-GCAACTTCAGGGAGATAAGACTG---T-ATTCGATCTGCTCCACTGCAACTTCAGAGAGA
* * *
53792567 TAAGACTGTAT-G--TGATCTGCTCT
60 TAAGA-TCTATGGTTTTATCCGCTCT
* * * ** *
53792590 ACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTAATCCGCTCCACTGCAACTTCAG-GAAGATA
1 ACTGCAACTTCAGGGAGATAAGA-CTGT--ATTCGATCTGCTCCACTGCAACTTCAGAG-AGATA
* * *
53792654 GGAT-TGAT--TTCT-TCCGTCTGTTCC
62 AGATCT-ATGGTTTTATCCG-C---TCT
* * * * * ** * *
53792678 ATTGCAACTTCAGGAAGATAAGACTGGATACGATCTACTATACTACGACTTCAGAGAGATAAGAT
1 ACTGCAACTTCAGGGAGATAAGACTGTATTCGATCTGCTCCACTGCAACTTCAGAGAGATAAGAT
** * *
53792743 CTATTACTTTAATCTGCTCCT
66 CTA-TGGTTTTATCCGCT-CT
* * * * * *
53792764 -CTACAACTTCAGGGAGATAGGATTATCTG-CTTCAATCTGCTCCACTGCAACCTCAGGGAGATA
1 ACTGCAACTTCAGGGAGATA--A-GA-CTGTATTCGATCTGCTCCACTGCAACTTCAGAGAGATA
53792827 AGAT
62 AGAT
53792831 TTGTACTTTC
Statistics
Matches: 424, Mismatches: 108, Indels: 101
0.67 0.17 0.16
Matches are distributed among these distances:
83 6 0.01
84 16 0.04
85 224 0.53
86 16 0.04
87 10 0.02
88 137 0.32
89 15 0.04
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (84 bp):
ACTGCAACTTCAGGGAGATAAGACTGTATTCGATCTGCTCCACTGCAACTTCAGAGAGATAAGAT
CTATGGTTTTATCCGCTCT
Found at i:53792253 original size:44 final size:44
Alignment explanation
Indices: 53792162--53792653 Score: 213
Period size: 44 Copynumber: 11.5 Consensus size: 44
53792152 AGTCTGTTCC
* *
53792162 ACTGCAACTTCAGGGAGATAAGACTGTATGCG----A-TCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGA-TCTATG-GTTTTATTCCGCTCT
* *
53792203 ACTGCAACTTTAGAGAGATAAGATCTATGGTTTTATTCCGCTCT
1 ACTGCAACTTCAGGGAGATAAGATCTATGGTTTTATTCCGCTCT
* * * ** * *
53792247 ACTGCAACTTCAGGGAGATAGGATTTAT-TTCTTTCGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATCTATGGT-TTTATTCCGCTCT
***
53792291 ACTGCAACTTCAGGGAGATAAGA-C--TGGATACGA-TCCGCTCT
1 ACTGCAACTTCAGGGAGATAAGATCTATGG-TTTTATTCCGCTCT
* * * *
53792332 ACTGCAACTTCAGAGAGATAAGATCTGTGGTTCTAATT-CGCTCC
1 ACTGCAACTTCAGGGAGATAAGATCTATGGTT-TTATTCCGCTCT
* * ** ** * *
53792376 ACTGTAACTTCAGGGAGATAGGAT-TGATTTTTTTCGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATCT-ATGGTTTTATTCCGCTCT
* * * *** *
53792420 ACTGTAACTTCAGGAAGATAAGA-CTA-GATACGA-TCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGATCTATGGTTTTATTCCGCTCT
* * * *
53792461 ACTACAACTTCAGAGAGATAAGATCTGTGGTTTTGA-TCCACT-T
1 ACTGCAACTTCAGGGAGATAAGATCTATGGTTTT-ATTCCGCTCT
* * * ** ** *
53792504 -CATCGCAACTTTAGGGAGATAGGAT-TGAT-TTCTTTCGTCTACTCC
1 AC-T-GCAACTTCAGGGAGATAAGATCT-ATGGT-TTTATTCCGCTCT
* * * *
53792549 ATTGCAACTTCAGGGAGATAAGACTGTAT-G--TGA-TCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGA-TCTATGGTTTTATTCCGCTCT
* * * * *
53792590 ACTGCAACTTCAGAGAGATAAGATTTGTGGTTTTAATCCGCTCC
1 ACTGCAACTTCAGGGAGATAAGATCTATGGTTTTATTCCGCTCT
*
53792634 ACTGCAACTTCAGGAAGATA
1 ACTGCAACTTCAGGGAGATA
53792654 GGATTGATTT
Statistics
Matches: 336, Mismatches: 83, Indels: 61
0.70 0.17 0.13
Matches are distributed among these distances:
39 1 0.00
40 8 0.02
41 104 0.31
42 6 0.02
43 16 0.05
44 195 0.58
45 5 0.01
46 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATCTATGGTTTTATTCCGCTCT
Found at i:53792325 original size:129 final size:129
Alignment explanation
Indices: 53792153--53792829 Score: 869
Period size: 129 Copynumber: 5.2 Consensus size: 129
53792143 TTTTGTTTTA
* * * *
53792153 GTCTGTTCCACTGCAACTTCAGGGAGATAAGACTGTATGCGATCTGCTCTACTGCAACTTTAGAG
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATACGATCTGCTCTACTGCAACTTCAGAG
* * *
53792218 AGATAAGATCTATGGTTTTATTCCGCTCTACTGCAACTTCAGGGAGATAGGATTTATTTCTTTC
66 AGATAAGATCTGTGGTTTTAATCCGCTCTACTGCAACTTCAGGGAGATAGGATTGATTTCTTTC
*
53792282 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATACGATCCGCTCTACTGCAACTTCAGAG
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATACGATCTGCTCTACTGCAACTTCAGAG
* * * * *
53792347 AGATAAGATCTGTGGTTCTAATTCGCTCCACTGTAACTTCAGGGAGATAGGATTGATTTTTTTC
66 AGATAAGATCTGTGGTTTTAATCCGCTCTACTGCAACTTCAGGGAGATAGGATTGATTTCTTTC
* * * *
53792411 GTCTGCTCCACTGTAACTTCAGGAAGATAAGACTAGATACGATCTGCTCTACTACAACTTCAGAG
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATACGATCTGCTCTACTGCAACTTCAGAG
* * *
53792476 AGATAAGATCTGTGGTTTTGATCCACT-T-CATCGCAACTTTAGGGAGATAGGATTGATTTCTTT
66 AGATAAGATCTGTGGTTTTAATCCGCTCTAC-T-GCAACTTCAGGGAGATAGGATTGATTTCTTT
53792539 C
129 C
* * * **
53792540 GTCTACTCCATTGCAACTTCAGGGAGATAAGACTGTATGTGATCTGCTCTACTGCAACTTCAGAG
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATACGATCTGCTCTACTGCAACTTCAGAG
* * * *
53792605 AGATAAGATTTGTGGTTTTAATCCGCTCCACTGCAACTTCAGGAAGATAGGATTGATTTCTTCC
66 AGATAAGATCTGTGGTTTTAATCCGCTCTACTGCAACTTCAGGGAGATAGGATTGATTTCTTTC
* * * * * * *
53792669 GTCTGTTCCATTGCAACTTCAGGAAGATAAGACTGGATACGATCTACTATACTACGACTTCAGAG
1 GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATACGATCTGCTCTACTGCAACTTCAGAG
* *** * * *
53792734 AGATAAGATCTATTACTTTAATCTGCTCCT-CTACAACTTCAGGGAGATAGGATT-ATCTGC-TT
66 AGATAAGATCTGTGGTTTTAATCCGCT-CTACTGCAACTTCAGGGAGATAGGATTGAT-TTCTTT
53792796 C
129 C
* *
53792797 AATCTGCTCCACTGCAACCTCAGGGAGATAAGA
1 -GTCTGCTCCACTGCAACTTCAGGGAGATAAGA
53792830 TTTGTACTTT
Statistics
Matches: 473, Mismatches: 68, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
127 1 0.00
128 5 0.01
129 464 0.98
130 2 0.00
131 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (129 bp):
GTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATACGATCTGCTCTACTGCAACTTCAGAG
AGATAAGATCTGTGGTTTTAATCCGCTCTACTGCAACTTCAGGGAGATAGGATTGATTTCTTTC
Found at i:53792781 original size:44 final size:44
Alignment explanation
Indices: 53792719--53792872 Score: 143
Period size: 44 Copynumber: 3.5 Consensus size: 44
53792709 GATCTACTAT
* * *
53792719 ACTACGACTTCAGAGAGATAAGATCTAT-TACTTTAATCTGCTCC
1 ACTACAACTTCAGGGAGATAAGAT-TATCTACTTCAATCTGCTCC
* * *
53792763 TCTACAACTTCAGGGAGATAGGATTATCTGCTTCAATCTGCTCC
1 ACTACAACTTCAGGGAGATAAGATTATCTACTTCAATCTGCTCC
* * * * * *
53792807 ACTGCAACCTCAGGGAGATAAGATT-TGTACTTTCAATTTTCCCC
1 ACTACAACTTCAGGGAGATAAGATTATCTAC-TTCAATCTGCTCC
* *
53792851 ACTGCATCTTCAGGG-GATAAGA
1 ACTACAACTTCAGGGAGATAAGA
53792873 CTTTGGTTCT
Statistics
Matches: 91, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
43 13 0.14
44 78 0.86
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.31
Consensus pattern (44 bp):
ACTACAACTTCAGGGAGATAAGATTATCTACTTCAATCTGCTCC
Found at i:53793134 original size:50 final size:49
Alignment explanation
Indices: 53793068--53793644 Score: 253
Period size: 50 Copynumber: 11.6 Consensus size: 49
53793058 TAGCTTTAAT
** *
53793068 CAAGATTCACCAATGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAG
1 CAAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTA-GAGAAG
* * * ** **
53793118 CAAGATTCACCGATGTGGTTTTAATCTATTCCACTGCACCGCCTATGAG--G
1 CAAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATG--TA-GAGAAG
* * * * * * *
53793168 TAAGATTCGCTGCTGTAGCTTTAATATTTTTAA-TCGTAATGTCAGAGAAG
1 CAAGATTCACCGTTGTGGCTTTAATCTTTTTAACT-GCAATGT-AGAGAAG
** *
53793218 CAAGATTCACCGTTGTGGCTTTAATCTTTTT-ACTGCACCGCCT-G-GGAG
1 CAAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATG--TAGAGAAG
* * * * * * *
53793266 ATAAGATTCGCTGCTGTAGCTTTAATCTTTTTAACCGCAATGTCAGAGAGG
1 -CAAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGT-AGAGAAG
* * **
53793317 CAAGATTTACCGTTGTGGCTTTAATCTTTTT-ACTACACCGCCTAG-G-AG
1 CAAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATG--TAGAGAAG
* * * * * * * * * *
53793365 ATAAGATTCGCTGCTATAGCTTTAATTTTTTTAACCGCAATGTCAAAGAGG
1 -CAAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGT-AGAGAAG
* ** **
53793416 CAAGATTCACCGTTGTGGCTTTAATCTATTCCACTGCACCGCCT-GAG-AG
1 CAAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATG--TAGAGAAG
* * * * * * *
53793465 ATAAGATTTACTGATGTAGCTTTAATCTTTTTAACCGCAATGTCAGGGAAAG
1 -CAAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGT-AGAG-AAG
** ** * *
53793517 CAAGATTCACCGTTGTGGCTTTAATCTGCTCCACTGCACTGCCT-GGGAAG
1 CAAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATG--TAGAGAAG
* ** * * * *
53793567 TAAGATTTGCTGATT-TAGCTTTAATCTTTTTAACCGAAATGTCAGAGAAAG
1 CAAGATTCACCG-TTGTGGCTTTAATCTTTTTAACTGCAATGT-AGAG-AAG
53793618 CAAGATTCACCGTTGTGGCTTTAATCT
1 CAAGATTCACCGTTGTGGCTTTAATCT
53793645 GCTCCACTGC
Statistics
Matches: 369, Mismatches: 123, Indels: 69
0.66 0.22 0.12
Matches are distributed among these distances:
48 12 0.03
49 64 0.17
50 223 0.60
51 62 0.17
52 7 0.02
53 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (49 bp):
CAAGATTCACCGTTGTGGCTTTAATCTTTTTAACTGCAATGTAGAGAAG
Found at i:53793141 original size:75 final size:75
Alignment explanation
Indices: 53792993--53793143 Score: 171
Period size: 75 Copynumber: 2.0 Consensus size: 75
53792983 GTCGGAGAAA
* * * * * * *
53792993 CAAGATTCACCAATTTGGCTTTAATCTGTTCCACTGCATCGCTTGGGGAGTAAGATTCGCTGTTG
1 CAAGATTCACCAATGTGGCTTTAATCTGTTCAACTGCATCGCTAGGGGAGCAAGATTCACCGATG
53793058 TAGCTTTAAT
66 TAGCTTTAAT
* *
53793068 CAAGATTCACCAATGTGGCTTTAATCTTTTTAACTGCAAT-G-TAGGGGAAGCAAGATTCACCGA
1 CAAGATTCACCAATGTGGCTTTAATCTGTTCAACTGC-ATCGCTAGGGG-AGCAAGATTCACCGA
* *
53793131 TGTGGTTTTAAT
64 TGTAGCTTTAAT
53793143 C
1 C
53793144 TATTCCACTG
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
74 5 0.08
75 56 0.89
76 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (75 bp):
CAAGATTCACCAATGTGGCTTTAATCTGTTCAACTGCATCGCTAGGGGAGCAAGATTCACCGATG
TAGCTTTAAT
Found at i:53793171 original size:125 final size:125
Alignment explanation
Indices: 53792944--53793192 Score: 358
Period size: 125 Copynumber: 2.0 Consensus size: 125
53792934 TTTGGAAAGT
* * * *
53792944 AAGATTCGCCATTGTGGCTTTAATCTTTTTAACTGCAATGTCGGAGAAACAAGATTCACCAATTT
1 AAGATTCACCAATGTGGCTTTAATCTTTTTAACTGCAATGTAGGAGAAACAAGATTCACCAATGT
* * * *
53793009 GGCTTTAATCTGTTCCACTGCATCGCTTGGGGAGTAAGATTCGCTGTTGTAGCTTTAATC
66 GGCTTTAATCTATTCCACTGCACCGCTTGGAGAGTAAGATTCGCTGCTGTAGCTTTAATC
* * *
53793069 AAGATTCACCAATGTGGCTTTAATCTTTTTAACTGCAATGTAGGGGAAGCAAGATTCACCGATGT
1 AAGATTCACCAATGTGGCTTTAATCTTTTTAACTGCAATGTAGGAGAAACAAGATTCACCAATGT
*
53793134 GGTTTTAATCTATTCCACTGCACCGCCTAT-GAG-GTAAGATTCGCTGCTGTAGCTTTAAT
66 GGCTTTAATCTATTCCACTGCACCG-CT-TGGAGAGTAAGATTCGCTGCTGTAGCTTTAAT
53793193 ATTTTTAATC
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
125 105 0.95
126 4 0.04
127 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.34
Consensus pattern (125 bp):
AAGATTCACCAATGTGGCTTTAATCTTTTTAACTGCAATGTAGGAGAAACAAGATTCACCAATGT
GGCTTTAATCTATTCCACTGCACCGCTTGGAGAGTAAGATTCGCTGCTGTAGCTTTAATC
Found at i:53793297 original size:99 final size:100
Alignment explanation
Indices: 53793085--53793665 Score: 756
Period size: 99 Copynumber: 5.8 Consensus size: 100
53793075 CACCAATGTG
* * * *
53793085 GCTTTAATCTTTTTAACTGCAATGT-AGGGGAAGCAAGATTCACCGATGTGGTTTTAATCTATTC
1 GCTTTAATCTTTTTAACCGCAATGTCA-GAGAAGCAAGATTCACCGTTGTGGCTTTAATCTATTC
** *
53793149 CACTGCACCGCCTATGAGGTAAGATTCGCTGCTGTA
65 CACTGCACCGCCTGGGAGATAAGATTCGCTGCTGTA
* * * **
53793185 GCTTTAATATTTTTAATCGTAATGTCAGAGAAGCAAGATTCACCGTTGTGGCTTTAATCT-TTTT
1 GCTTTAATCTTTTTAACCGCAATGTCAGAGAAGCAAGATTCACCGTTGTGGCTTTAATCTATTCC
53793249 ACTGCACCGCCTGGGAGATAAGATTCGCTGCTGTA
66 ACTGCACCGCCTGGGAGATAAGATTCGCTGCTGTA
* * **
53793284 GCTTTAATCTTTTTAACCGCAATGTCAGAGAGGCAAGATTTACCGTTGTGGCTTTAATCT-TTTT
1 GCTTTAATCTTTTTAACCGCAATGTCAGAGAAGCAAGATTCACCGTTGTGGCTTTAATCTATTCC
* * *
53793348 ACTACACCGCCTAGGAGATAAGATTCGCTGCTATA
66 ACTGCACCGCCTGGGAGATAAGATTCGCTGCTGTA
* * *
53793383 GCTTTAATTTTTTTAACCGCAATGTCAAAGAGGCAAGATTCACCGTTGTGGCTTTAATCTATTCC
1 GCTTTAATCTTTTTAACCGCAATGTCAGAGAAGCAAGATTCACCGTTGTGGCTTTAATCTATTCC
* ** *
53793448 ACTGCACCGCCTGAGAGATAAGATTTACTGATGTA
66 ACTGCACCGCCTGGGAGATAAGATTCGCTGCTGTA
* **
53793483 GCTTTAATCTTTTTAACCGCAATGTCAGGGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTC
1 GCTTTAATCTTTTTAACCGCAATGTCAGAG-AAGCAAGATTCACCGTTGTGGCTTTAATCTATTC
* * * *
53793548 CACTGCACTGCCTGGGA-AGTAAGATTTGCTGATTTA
65 CACTGCACCGCCTGGGAGA-TAAGATTCGCTGCTGTA
* **
53793584 GCTTTAATCTTTTTAACCGAAATGTCAGAGAAAGCAAGATTCACCGTTGTGGCTTTAATCTGCTC
1 GCTTTAATCTTTTTAACCGCAATGTCAGAG-AAGCAAGATTCACCGTTGTGGCTTTAATCTATTC
* *
53793649 CACTGCACTGCTTGGGA
65 CACTGCACCGCCTGGGA
53793666 AGTAAGGCTT
Statistics
Matches: 432, Mismatches: 45, Indels: 7
0.89 0.09 0.01
Matches are distributed among these distances:
99 182 0.42
100 109 0.25
101 141 0.33
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (100 bp):
GCTTTAATCTTTTTAACCGCAATGTCAGAGAAGCAAGATTCACCGTTGTGGCTTTAATCTATTCC
ACTGCACCGCCTGGGAGATAAGATTCGCTGCTGTA
Found at i:53794868 original size:42 final size:42
Alignment explanation
Indices: 53794809--53794909 Score: 175
Period size: 42 Copynumber: 2.4 Consensus size: 42
53794799 AAATCACCAT
*
53794809 ATGCCCCAATCTGATCAAAATTTGAATTGCTCTGATTACCTC
1 ATGCCCCATTCTGATCAAAATTTGAATTGCTCTGATTACCTC
*
53794851 ATGCCCCATTCTGATCAAAATTTGAATTTCTCTGATTACCTC
1 ATGCCCCATTCTGATCAAAATTTGAATTGCTCTGATTACCTC
*
53794893 ATGCCCTATTCTGATCA
1 ATGCCCCATTCTGATCA
53794910 TATTTGAGCC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 56 1.00
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.36
Consensus pattern (42 bp):
ATGCCCCATTCTGATCAAAATTTGAATTGCTCTGATTACCTC
Found at i:53795014 original size:14 final size:14
Alignment explanation
Indices: 53794995--53795026 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
53794985 AGCCTCTCCA
53794995 TTTTTCATTTTCAT
1 TTTTTCATTTTCAT
*
53795009 TTTTTCATTTTTAT
1 TTTTTCATTTTCAT
53795023 TTTT
1 TTTT
53795027 CCCCGACTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTTCATTTTCAT
Found at i:53799582 original size:108 final size:107
Alignment explanation
Indices: 53799270--53799804 Score: 754
Period size: 108 Copynumber: 5.0 Consensus size: 107
53799260 GATTAAGATA
* * * * * *
53799270 TAAAAGGATATTTGGCTATTTGGTCCG-ACG-GGAACTCGAGACCCAACACATTAGGGTACGTTT
1 TAAAAGGATATTTAGCTATTTGGT-CGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTT
* *
53799333 TCTCAAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAATT
65 TCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAATT
* * *
53799376 TAAAAGGATATTCAGCTATTTGGTCGAACGAGGTAAA-CAAAACCCAGCACATTAGGGCACGTTT
1 TAAAAGGATATTTAGCTATTTGGTCGAACGA-GAAAATCGAAACCCAGCACATTAGGGCACGTTT
* *
53799440 CCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTT
65 TCTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAATT
* *
53799483 TAAAAGGATATTTAGCTATTTGGTCGAACGAGAAAGATCGAAACCCAACACATTAGGGCACTTTT
1 TAAAAGGATATTTAGCTATTTGGTCGAACGAGAAA-ATCGAAACCCAGCACATTAGGGCACGTTT
*
53799548 TCTCGAATCTCCAAACGCAAAACATTGCCTTATTTTTGAAAATT
65 TCTCGAATTTCCAAACGCAAAACATTGCCTTA-TTTTGAAAATT
** ** * * *
53799592 TAAAAGGATATTCGGCTATTTGGTCGAACGAGGTAATCGAAACCCAGCACATAAAGGCACGTTTC
1 TAAAAGGATATTTAGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTT
*
53799657 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTT
66 CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAATT
* *
53799699 TAAAAGGATATTTAGCTATTTGGTCGAACGAGAAAGTTCGAAACCCAGCACATTAGGGCACATTT
1 TAAAAGGATATTTAGCTATTTGGTCGAACGAGAAA-ATCGAAACCCAGCACATTAGGGCACGTTT
53799764 TCTCGAACTTT-CAAACGCAAAACATTGCCTTATTTTGAAAA
65 TCTCGAA-TTTCCAAACGCAAAACATTGCCTTATTTTGAAAA
53799805 AAATTTTAAC
Statistics
Matches: 380, Mismatches: 41, Indels: 14
0.87 0.09 0.03
Matches are distributed among these distances:
105 2 0.01
106 28 0.07
107 134 0.35
108 172 0.45
109 44 0.12
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (107 bp):
TAAAAGGATATTTAGCTATTTGGTCGAACGAGAAAATCGAAACCCAGCACATTAGGGCACGTTTT
CTCGAATTTCCAAACGCAAAACATTGCCTTATTTTGAAAATT
Found at i:53799641 original size:216 final size:215
Alignment explanation
Indices: 53799270--53799804 Score: 853
Period size: 216 Copynumber: 2.5 Consensus size: 215
53799260 GATTAAGATA
* * * * * *
53799270 TAAAAGGATATTTGGCTATTTGGTCCG-ACG-GGAA-CTCGAGACCCAACACATTAGGGTACGTT
1 TAAAAGGATATTTAGCTATTTGGT-CGAACGAGAAAGATCGAAACCCAACACATTAGGGCACATT
* * *
53799332 TTCTCAAATTTCCAAACGCAAAACATTGCCTTATTTTAAAAATTTAAAAGGATATTCAGCTATTT
65 TTCTCGAATCTCCAAACGCAAAACATTGCCTTATTTTGAAAATTTAAAAGGATATTCAGCTATTT
* *
53799397 GGTCGAACGAGGTAAACAAAACCCAGCACATTAGGGCACGTTTCCTCGAATTTCCAAACGCAAAA
130 GGTCGAACGAGGTAAACAAAACCCAGCACATAAAGGCACGTTTCCTCGAATTTCCAAACGCAAAA
53799462 CATTGCCTTATTTTGAAATTT
195 CATTGCCTTATTTTGAAATTT
*
53799483 TAAAAGGATATTTAGCTATTTGGTCGAACGAGAAAGATCGAAACCCAACACATTAGGGCACTTTT
1 TAAAAGGATATTTAGCTATTTGGTCGAACGAGAAAGATCGAAACCCAACACATTAGGGCACATTT
*
53799548 TCTCGAATCTCCAAACGCAAAACATTGCCTTATTTTTGAAAATTTAAAAGGATATTCGGCTATTT
66 TCTCGAATCTCCAAACGCAAAACATTGCCTTA-TTTTGAAAATTTAAAAGGATATTCAGCTATTT
* *
53799613 GGTCGAACGAGGTAATCGAAACCCAGCACATAAAGGCACGTTTCCTCGAATTTCCAAACGCAAAA
130 GGTCGAACGAGGTAAACAAAACCCAGCACATAAAGGCACGTTTCCTCGAATTTCCAAACGCAAAA
53799678 CATTGCCTTATTTTGAAATTT
195 CATTGCCTTATTTTGAAATTT
* *
53799699 TAAAAGGATATTTAGCTATTTGGTCGAACGAGAAAGTTCGAAACCCAGCACATTAGGGCACATTT
1 TAAAAGGATATTTAGCTATTTGGTCGAACGAGAAAGATCGAAACCCAACACATTAGGGCACATTT
*
53799764 TCTCGAA-CTTTCAAACGCAAAACATTGCCTTATTTTGAAAA
66 TCTCGAATC-TCCAAACGCAAAACATTGCCTTATTTTGAAAA
53799805 AAATTTTAAC
Statistics
Matches: 299, Mismatches: 18, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
212 2 0.01
213 26 0.09
214 3 0.01
215 65 0.22
216 203 0.68
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (215 bp):
TAAAAGGATATTTAGCTATTTGGTCGAACGAGAAAGATCGAAACCCAACACATTAGGGCACATTT
TCTCGAATCTCCAAACGCAAAACATTGCCTTATTTTGAAAATTTAAAAGGATATTCAGCTATTTG
GTCGAACGAGGTAAACAAAACCCAGCACATAAAGGCACGTTTCCTCGAATTTCCAAACGCAAAAC
ATTGCCTTATTTTGAAATTT
Found at i:53800030 original size:4 final size:4
Alignment explanation
Indices: 53800021--53800057 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
53800011 CAATAATGAG
53800021 AATA AATA AATA AATAA AATA AAT- AATA AAT- AATA AA
1 AATA AATA AATA AAT-A AATA AATA AATA AATA AATA AA
53800058 ATCTATGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
3 6 0.20
4 20 0.67
5 4 0.13
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:53800032 original size:17 final size:17
Alignment explanation
Indices: 53800021--53800053 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
53800011 CAATAATGAG
53800021 AATAAATAAATAAATAA
1 AATAAATAAATAAATAA
53800038 AATAAAT-AATAAATAA
1 AATAAATAAATAAATAA
53800054 TAAAATCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AATAAATAAATAAATAA
Found at i:53800050 original size:7 final size:8
Alignment explanation
Indices: 53800021--53800057 Score: 51
Period size: 7 Copynumber: 4.8 Consensus size: 8
53800011 CAATAATGAG
53800021 AATAAATA
1 AATAAATA
53800029 AATAAATAA
1 AATAAAT-A
53800038 AATAAAT-
1 AATAAATA
53800045 AATAAAT-
1 AATAAATA
53800052 AATAAA
1 AATAAA
53800058 ATCTATGTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 13 0.46
8 7 0.25
9 8 0.29
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAATA
Found at i:53800208 original size:8 final size:8
Alignment explanation
Indices: 53800195--53800223 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
53800185 ATAAAAAAAG
53800195 AATATATA
1 AATATATA
53800203 AATATATA
1 AATATATA
53800211 AATATATA
1 AATATATA
53800219 AATAT
1 AATAT
53800224 GTATATGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
AATATATA
Found at i:53804556 original size:21 final size:20
Alignment explanation
Indices: 53804528--53804567 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
53804518 GTCAAAAACC
53804528 AAAAGTTCCCACAAACAGAT
1 AAAAGTTCCCACAAACAGAT
**
53804548 AAAATGTTCTGACAAACAGA
1 AAAA-GTTCCCACAAACAGA
53804568 CATATATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.50, C:0.20, G:0.12, T:0.17
Consensus pattern (20 bp):
AAAAGTTCCCACAAACAGAT
Found at i:53805279 original size:21 final size:21
Alignment explanation
Indices: 53805255--53805345 Score: 139
Period size: 21 Copynumber: 4.3 Consensus size: 21
53805245 GACACACATC
*
53805255 CGTGTGACCAAGTTATAC-GT
1 CGTGTGACCAAGTTACACGGT
* *
53805275 CCGTGTGACTAAGTTACACGAT
1 -CGTGTGACCAAGTTACACGGT
53805297 CGTGTGACCAAGTTACACGGT
1 CGTGTGACCAAGTTACACGGT
53805318 CGTGTGACCAAGTTACACGGT
1 CGTGTGACCAAGTTACACGGT
53805339 CGTGTGA
1 CGTGTGA
53805346 GTAGCCCGTG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
21 63 0.98
22 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (21 bp):
CGTGTGACCAAGTTACACGGT
Found at i:53808832 original size:22 final size:22
Alignment explanation
Indices: 53808807--53808873 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
53808797 CTTATCGTTC
*
53808807 TGCACTTCGATGCCTACTATTT
1 TGCACTTCGATGCATACTATTT
* * *
53808829 TGCACTACGATGCTTAGTGA-TT
1 TGCACTTCGATGCATACT-ATTT
* *
53808851 TGCACTTCGGTGCATACTGTTT
1 TGCACTTCGATGCATACTATTT
53808873 T
1 T
53808874 ATTAGTGCAC
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
22 34 0.97
23 1 0.03
ACGTcount: A:0.18, C:0.22, G:0.19, T:0.40
Consensus pattern (22 bp):
TGCACTTCGATGCATACTATTT
Found at i:53809137 original size:21 final size:21
Alignment explanation
Indices: 53809090--53809137 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
53809080 GTGTAAAGAT
53809090 AAATT-GTGAATGAAATGATA
1 AAATTAGTGAATGAAATGATA
*
53809110 AAGATTAGTG-ATGAAATTATGA
1 AA-ATTAGTGAATGAAATGAT-A
53809132 AAATTA
1 AAATTA
53809138 CATGTATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 2 0.08
21 16 0.67
22 6 0.25
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (21 bp):
AAATTAGTGAATGAAATGATA
Found at i:53820881 original size:725 final size:724
Alignment explanation
Indices: 53819949--53821326 Score: 2297
Period size: 725 Copynumber: 1.9 Consensus size: 724
53819939 ACCGCCCAAG
* * *
53819949 GCCCAAGGCTAGATGGGGCCCAAATTTTATTTTAGTTTTTAATGTGGGGAAAAAATTCAAGCTAA
1 GCCCAAGGCTAGATGAGGCCCAAATTTTATTTTAGTTTTTAATGTGGGGAAAAAAATCAAGATAA
* *
53820014 AATAAATTAATTAAATGCCTATGACGTTCATTTTCTTCACCATAAATGTTTCATCTCTTAAGGCC
66 AATAAATTAATTAAATGCCTAGGACGTTCATTTTCTTCACCATAAATGTTTCATCTCCTAAGGCC
* *
53820079 CCAAAAACTTTTTAGCTTTTATTATATTACATTTTATAATTTTTTTAAAAGGGCCTAATTTATTG
131 CCAAAAACTTTTTAGCTTTTATTATATTACATTTTATAATTTTTTTAAAAGGGCCCAATTTATTA
*
53820144 TTTCGACTAAGGCCCTAAAAATGTCACTAA-GAGGCCTACCATTAAAAATGA-TCTAATTGGTAA
196 TTTCGACTAAGGCCCTAAAAATGTCAATAACGA-GCCTACCATTAAAAATGATTC-AATTGGTAA
* * *
53820207 ACATAGATTAAATCTGTAACTTTATGCATAATATAGGACTAATGACATAATTTAACCAAATAGAT
259 ACATAGATTAAATCTATAACCTTACGCATAATATAGGACTAATGACATAATTTAACCAAATAGAT
* *
53820272 TTAACTGTGATAATTGGATCAGAACTAAAATTTCAAAATTTGAAAAGTATAAGAACAAAAATTAA
324 TAAACTGTGATAATTGGATCAGAACTAAAATTTCAAAATTCGAAAAGTATAAGAACAAAAATTAA
* * *
53820337 TCAAATTAAAATAAATGTACTAAGTCTATAATTTACAGAAAGTACAATGTCTAATAACATAATTT
389 TCAAATTAAAAT-AATGTACTAAATCTATAATTTACAGAAAGTACAAGGTCTAATAACACAATTT
*
53820402 TACCTAATTATCCAACTCCCCACAAGTTAAAGTTTGCTACCTACCTCTTGAATTCTTAATAAATG
453 CACCTAATTATCCAACTCCCCACAAGTTAAAGTTTGCTACCTACCTCTTGAATTCTTAATAAATG
*
53820467 TAACCTTTTTCCCACTTTTGTTGGAATCAGCTGAAGTAAAAGTCAAATTCAACCAAATAACACAA
518 TAACCTTTTTCCCACTTTTGTTGGAATCACCTGAAGTAAAAGTCAAATTCAACCAAATAACACAA
*
53820532 AATCATAATATGAAACCATTAGTGATTATAAACTTTG-TAGGGGTTGATTTAATTTGAATTATGT
583 AATCATAATATGAAACCATTAGTGATTATAAAC--CGAT-GGGGTTGATTTAATTTGAATTATGT
53820596 ATTTGATAATCTTACAAGTTACACATTAAATATTTAATTATAAATTTGTTCGACTTTGGGGGTTG
645 ATTTGATAATCTTACAAGTTACACATTAAATATTTAATTATAAATTTGTTCGACTTTGGGGGTTG
53820661 TTTGAGAGTGTAGTC
710 TTTGAGAGTGTAGTC
* * *
53820676 GCCCAAGGCTGGATGAGGCCCAATTTTTTTTTTTTTAGTTTTTAATGT-GGGAAAAAAATC-AGA
1 GCCCAAGGCTAGATGAGGCCCAA---ATTTTATTTTAGTTTTTAATGTGGGGAAAAAAATCAAG-
53820739 ATAAAATAAATTAATTAAATGCCTAGGACGTTCATTTT-TTCACCATAAATGTTTCATCTCCTAA
62 ATAAAATAAATTAATTAAATGCCTAGGACGTTCATTTTCTTCACCATAAATGTTTCATCTCCTAA
53820803 GGCCCC-AAAACTTTTTAGC-TTT-TTATATTACATTTTATAATTTTTTTAAAAGGGCCCAATTT
127 GGCCCCAAAAACTTTTTAGCTTTTATTATATTACATTTTATAATTTTTTTAAAAGGGCCCAATTT
* * * *
53820865 ATTATTTCGCCTAAGGCCTTAAAAATGTCAATAACGAGCCTACTATTAAGAATGATTCAATTGGT
192 ATTATTTCGACTAAGGCCCTAAAAATGTCAATAACGAGCCTACCATTAAAAATGATTCAATTGGT
53820930 AAACATAGATTAAATCTATAACCTTACGCATAATATAGGACTAATGACATAATTTAACCAAATAG
257 AAACATAGATTAAATCTATAACCTTACGCATAATATAGGACTAATGACATAATTTAACCAAATAG
* * * * *
53820995 ATTAAACTGTGATAATTGGATTAGGATTAAAATTTTAAAATTCGAAAAGTATAAGAACTAAAATT
322 ATTAAACTGTGATAATTGGATCAGAACTAAAATTTCAAAATTCGAAAAGTATAAGAACAAAAATT
*
53821060 AATCAAATTAAAGTAATGTACTAAATCTATAATTTACAGAAAGTACAAGGTCTAATAACACAATT
387 AATCAAATTAAAATAATGTACTAAATCTATAATTTACAGAAAGTACAAGGTCTAATAACACAATT
53821125 TCACCTAATTATCCAACTCCCCACAAGTTAAAGTTTGCTACCTACCTCTTGAATTCTTAATAAAT
452 TCACCTAATTATCCAACTCCCCACAAGTTAAAGTTTGCTACCTACCTCTTGAATTCTTAATAAAT
*
53821190 GTAACCTTTTTCCCACTTTTGTTGGAATCACCTGAGGTAAAAGTCAAATTCAACCAAATAACACA
517 GTAACCTTTTTCCCACTTTTGTTGGAATCACCTGAAGTAAAAGTCAAATTCAACCAAATAACACA
*
53821255 AAATCATAATATGAAACCATTAGTGATTATAAACCGATTGGGTTGATTTAATTTGAATTATGTAT
582 AAATCATAATATGAAACCATTAGTGATTATAAACCGATGGGGTTGATTTAATTTGAATTATGTAT
53821320 TTGATAA
647 TTGATAA
53821327 AATGTTAAAA
Statistics
Matches: 610, Mismatches: 34, Indels: 19
0.92 0.05 0.03
Matches are distributed among these distances:
722 34 0.06
723 1 0.00
724 209 0.34
725 225 0.37
726 7 0.01
727 34 0.06
728 33 0.05
729 47 0.08
730 20 0.03
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.35
Consensus pattern (724 bp):
GCCCAAGGCTAGATGAGGCCCAAATTTTATTTTAGTTTTTAATGTGGGGAAAAAAATCAAGATAA
AATAAATTAATTAAATGCCTAGGACGTTCATTTTCTTCACCATAAATGTTTCATCTCCTAAGGCC
CCAAAAACTTTTTAGCTTTTATTATATTACATTTTATAATTTTTTTAAAAGGGCCCAATTTATTA
TTTCGACTAAGGCCCTAAAAATGTCAATAACGAGCCTACCATTAAAAATGATTCAATTGGTAAAC
ATAGATTAAATCTATAACCTTACGCATAATATAGGACTAATGACATAATTTAACCAAATAGATTA
AACTGTGATAATTGGATCAGAACTAAAATTTCAAAATTCGAAAAGTATAAGAACAAAAATTAATC
AAATTAAAATAATGTACTAAATCTATAATTTACAGAAAGTACAAGGTCTAATAACACAATTTCAC
CTAATTATCCAACTCCCCACAAGTTAAAGTTTGCTACCTACCTCTTGAATTCTTAATAAATGTAA
CCTTTTTCCCACTTTTGTTGGAATCACCTGAAGTAAAAGTCAAATTCAACCAAATAACACAAAAT
CATAATATGAAACCATTAGTGATTATAAACCGATGGGGTTGATTTAATTTGAATTATGTATTTGA
TAATCTTACAAGTTACACATTAAATATTTAATTATAAATTTGTTCGACTTTGGGGGTTGTTTGAG
AGTGTAGTC
Found at i:53830729 original size:19 final size:19
Alignment explanation
Indices: 53830705--53830744 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
53830695 TTCTAAAATG
53830705 ATAAAATATTTATCCTTCA
1 ATAAAATATTTATCCTTCA
53830724 ATAAAATATTTATCCTTCA
1 ATAAAATATTTATCCTTCA
53830743 AT
1 AT
53830745 TCTTATCTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (19 bp):
ATAAAATATTTATCCTTCA
Found at i:53832137 original size:37 final size:38
Alignment explanation
Indices: 53832071--53832143 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 38
53832061 AGTACACTCT
* * *
53832071 ATCGAGCCAAATCTTATTGTTATACTGAATGAAGCTCA
1 ATCGAGCCAAATCATACTGATATACTGAATGAAGCTCA
* *
53832109 ATCGAG-CAAATCATACTGATATATTGAATGGAGCT
1 ATCGAGCCAAATCATACTGATATACTGAATGAAGCT
53832144 TAACTGAGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 24 0.80
38 6 0.20
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (38 bp):
ATCGAGCCAAATCATACTGATATACTGAATGAAGCTCA
Found at i:53835250 original size:24 final size:25
Alignment explanation
Indices: 53835191--53835251 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
53835181 GTGAGCCATG
* **
53835191 TAACAGAAAGCTTATCCGAGCTTAA
1 TAACAGAAAGCTCATAAGAGCTTAA
* *
53835216 TAACAGGAAGCTCATAAGAGTTTAA
1 TAACAGAAAGCTCATAAGAGCTTAA
53835241 -AACAGAAAGCT
1 TAACAGAAAGCT
53835252 AATGTGAGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 10 0.33
25 20 0.67
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.21
Consensus pattern (25 bp):
TAACAGAAAGCTCATAAGAGCTTAA
Found at i:53835264 original size:24 final size:25
Alignment explanation
Indices: 53835191--53835264 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 25
53835181 GTGAGCCATG
* **
53835191 TAACAGAAAGCTTATCCGAGCTTAA
1 TAACAGAAAGCTAATAAGAGCTTAA
* * *
53835216 TAACAGGAAGCTCATAAGAGTTTAA
1 TAACAGAAAGCTAATAAGAGCTTAA
**
53835241 -AACAGAAAGCTAATGTGAGCTTAA
1 TAACAGAAAGCTAATAAGAGCTTAA
53835265 CGGGTAACTC
Statistics
Matches: 39, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
24 19 0.49
25 20 0.51
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.23
Consensus pattern (25 bp):
TAACAGAAAGCTAATAAGAGCTTAA
Found at i:53835479 original size:64 final size:64
Alignment explanation
Indices: 53835363--53835482 Score: 168
Period size: 64 Copynumber: 1.9 Consensus size: 64
53835353 AGCCTGATAT
* * * *
53835363 CAGGACGCTCATAAAGAGCTGCAGTATGTCCTCAATATATACAAGATAAATACCGATCATATAA
1 CAGGACGCTCACAAAGAGCTGCAGTATGTCCGCAACACATACAAGATAAATACCGATCATATAA
* * * *
53835427 CAGGACGCTCACAAAGAGCTGCGGTATGTCCGCAACACATATAGGATCAATACCGA
1 CAGGACGCTCACAAAGAGCTGCAGTATGTCCGCAACACATACAAGATAAATACCGA
53835483 CCGGATGCTC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
64 48 1.00
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (64 bp):
CAGGACGCTCACAAAGAGCTGCAGTATGTCCGCAACACATACAAGATAAATACCGATCATATAA
Found at i:53839627 original size:39 final size:40
Alignment explanation
Indices: 53839525--53839633 Score: 112
Period size: 44 Copynumber: 2.6 Consensus size: 40
53839515 TTCGCTGTAT
*
53839525 TGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGGAATAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
* ***
53839565 TGTAATGTAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TG----G-AATAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
53839609 TGGAATAGAGGTGTAATAGCATAAT
1 TGGAATAGAGGTGTAATAGC-TAAT
53839634 GGAAAAAACT
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
39 15 0.27
40 3 0.05
41 4 0.07
44 20 0.36
45 14 0.25
ACGTcount: A:0.31, C:0.06, G:0.28, T:0.35
Consensus pattern (40 bp):
TGGAATAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:53839796 original size:18 final size:17
Alignment explanation
Indices: 53839775--53839809 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
53839765 TTATTATTAA
*
53839775 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
53839793 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
53839810 TCTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:53839939 original size:14 final size:16
Alignment explanation
Indices: 53839911--53839965 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
53839901 TTAATCATAT
*
53839911 TTAAACATAT-TTTTTA
1 TTAAA-ATATATTTTAA
53839927 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
53839942 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
53839960 -TAAAAT
1 TTAAAAT
53839966 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 4 0.12
15 9 0.26
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:53839946 original size:156 final size:157
Alignment explanation
Indices: 53839662--53839977 Score: 562
Period size: 156 Copynumber: 2.0 Consensus size: 157
53839652 TAGAATACCC
*
53839662 TTAGCATAAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCATAAAATTGTTTTGGCAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
53839727 TTATGAGTAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
53839792 TATATAATTTAATAAAATTCTT-ATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
53839818 TTAGCATAAATTTGTTTTGGCAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCATAAAATTGTTTTGGCAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* *
53839883 TTATCAATAATAAATAATTTAATCATATTTAAACATATTTTTTATTAAATATATTTTAATTAAAA
66 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
53839948 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
53839975 TTA
1 TTA
53839978 ATATTCTTAT
Statistics
Matches: 152, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
156 145 0.95
157 7 0.05
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (157 bp):
TTAGCATAAAATTGTTTTGGCAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:53839958 original size:18 final size:17
Alignment explanation
Indices: 53839931--53839965 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
53839921 TTTTTATTAA
*
53839931 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
53839949 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
53839966 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:53840094 original size:26 final size:24
Alignment explanation
Indices: 53840044--53840095 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 24
53840034 TATATTTTAA
53840044 TTAAAATATATGATTAAATACAAT
1 TTAAAATATATGATTAAATACAAT
* *
53840068 TTAAAATTATTATTATTAAATATAAT
1 TTAAAA-TA-TATGATTAAATACAAT
53840094 TT
1 TT
53840096 CATAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 6 0.25
25 2 0.08
26 16 0.67
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (24 bp):
TTAAAATATATGATTAAATACAAT
Found at i:53845915 original size:13 final size:13
Alignment explanation
Indices: 53845899--53845929 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
53845889 AAAAGGTGCA
53845899 AGAAATCGGGAAG
1 AGAAATCGGGAAG
53845912 AGAAATCGGGAAG
1 AGAAATCGGGAAG
53845925 AGAAA
1 AGAAA
53845930 CAGTGCTCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.52, C:0.06, G:0.35, T:0.06
Consensus pattern (13 bp):
AGAAATCGGGAAG
Found at i:53846723 original size:51 final size:52
Alignment explanation
Indices: 53846648--53846749 Score: 134
Period size: 51 Copynumber: 2.0 Consensus size: 52
53846638 TCTCATTTTT
* *
53846648 CATTTTGGACAAAACCAGATTCATTTCCAAATAATT-TCATTTCTTCATTTA
1 CATTTTGGACAAAACCAGAATCATTTCCAAATAATTCTCATTTCTCCATTTA
* * * **
53846699 CATTTTGGAGAAAACTATAATCATTTCCAAATGTTTCTCATTTCTCCATTT
1 CATTTTGGACAAAACCAGAATCATTTCCAAATAATTCTCATTTCTCCATTT
53846750 TCACCATTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
51 30 0.70
52 13 0.30
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (52 bp):
CATTTTGGACAAAACCAGAATCATTTCCAAATAATTCTCATTTCTCCATTTA
Found at i:53854984 original size:18 final size:18
Alignment explanation
Indices: 53854958--53854992 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
53854948 TTTTTGAATG
*
53854958 GTATTATAAAAAAAATTA
1 GTATGATAAAAAAAATTA
*
53854976 GTATGATAAAAATAATT
1 GTATGATAAAAAAAATT
53854993 TATGAAGAAG
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:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (18 bp):
GTATGATAAAAAAAATTA
Found at i:53857074 original size:16 final size:16
Alignment explanation
Indices: 53857043--53857079 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
53857033 ATGTGAAGAA
53857043 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
53857059 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
53857075 TATTA
1 TATTA
53857080 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:53861907 original size:20 final size:22
Alignment explanation
Indices: 53861867--53861908 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
53861857 CATTATGTAC
*
53861867 CCACGTGGCCTCTTACTTTATT
1 CCACGTGGCATCTTACTTTATT
53861889 CCACGTGGCAT-TT-CTTTATT
1 CCACGTGGCATCTTACTTTATT
53861909 TTTAATGCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 2 0.11
22 10 0.53
ACGTcount: A:0.14, C:0.29, G:0.14, T:0.43
Consensus pattern (22 bp):
CCACGTGGCATCTTACTTTATT
Found at i:53862741 original size:20 final size:19
Alignment explanation
Indices: 53862716--53862753 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
53862706 CAAATTTTTT
*
53862716 AAAATTTTAAATATTTATAA
1 AAAATTTCAAA-ATTTATAA
53862736 AAAATTTCAAAATTTATA
1 AAAATTTCAAAATTTATA
53862754 TACAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAATTTCAAAATTTATAA
Found at i:53869455 original size:16 final size:17
Alignment explanation
Indices: 53869434--53869467 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
53869424 ACATAATTAT
*
53869434 TAGTAA-AAGGTTAATA
1 TAGTAATAAGGTAAATA
53869450 TAGTAATAAGGTAAATA
1 TAGTAATAAGGTAAATA
53869467 T
1 T
53869468 TAAATTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.18, T:0.32
Consensus pattern (17 bp):
TAGTAATAAGGTAAATA
Found at i:53870342 original size:42 final size:42
Alignment explanation
Indices: 53870286--53870385 Score: 155
Period size: 42 Copynumber: 2.4 Consensus size: 42
53870276 CTATATGAAC
* **
53870286 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGGATAATG
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGAATAACA
*
53870328 GGCACTAAGTGTGCGAAATTAAAATGATGATGTTGAATAACA
1 GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGAATAACA
*
53870370 AGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
53870386 TACCGAGAGC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 53 1.00
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (42 bp):
GGCACTAAGTGTGCGAAATTAAAATAATGATGTTGAATAACA
Found at i:53871073 original size:2 final size:2
Alignment explanation
Indices: 53871068--53871093 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
53871058 GAAGTGTGTG
53871068 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
53871094 ATAGGCCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:53874496 original size:15 final size:14
Alignment explanation
Indices: 53874469--53874495 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
53874459 AAGTATAACA
53874469 AAATATTAAAAAAT
1 AAATATTAAAAAAT
53874483 AAATATTAAAAAA
1 AAATATTAAAAAA
53874496 AAAAGATACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATATTAAAAAAT
Found at i:53877407 original size:3 final size:3
Alignment explanation
Indices: 53877399--53877438 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
53877389 CGATTAAAAA
* *
53877399 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATT ATC AAC ATC A
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC A
53877439 AGTACAGTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.38, C:0.30, G:0.00, T:0.33
Consensus pattern (3 bp):
ATC
Found at i:53883529 original size:3 final size:3
Alignment explanation
Indices: 53883521--53883561 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
53883511 ATCCTCATCT
* *
53883521 TCC TCC TCC TCC TCT TCT TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
53883562 TTCTTGTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (3 bp):
TCC
Found at i:53883539 original size:18 final size:18
Alignment explanation
Indices: 53883512--53883552 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
53883502 TTTCATTTCA
53883512 TCCTCATCTTCCTCCTCC
1 TCCTCATCTTCCTCCTCC
*
53883530 TCCTCTTCTTCCTCCTCC
1 TCCTCATCTTCCTCCTCC
53883548 TCCTC
1 TCCTC
53883553 CTCCTCCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.02, C:0.56, G:0.00, T:0.41
Consensus pattern (18 bp):
TCCTCATCTTCCTCCTCC
Found at i:53890584 original size:14 final size:14
Alignment explanation
Indices: 53890565--53890595 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
53890555 ATGTCCATAT
53890565 AAACCGCCTCATGC
1 AAACCGCCTCATGC
*
53890579 AAACCGTCTCATGC
1 AAACCGCCTCATGC
53890593 AAA
1 AAA
53890596 TCACCTTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.35, C:0.35, G:0.13, T:0.16
Consensus pattern (14 bp):
AAACCGCCTCATGC
Found at i:53891468 original size:17 final size:18
Alignment explanation
Indices: 53891436--53891469 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
53891426 AAAAGTTGTG
*
53891436 ATAATTACACATTTAAAA
1 ATAATTACAAATTTAAAA
53891454 ATAATTA-AAATTTAAA
1 ATAATTACAAATTTAAA
53891470 CTACAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAATTACAAATTTAAAA
Found at i:53891876 original size:20 final size:20
Alignment explanation
Indices: 53891847--53891886 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
53891837 CCAATTCAAC
*
53891847 AAATACAAATAAAATAAAAG
1 AAATAAAAATAAAATAAAAG
*
53891867 AAATAAAAATAAATTAAAAG
1 AAATAAAAATAAAATAAAAG
53891887 TCCAATAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (20 bp):
AAATAAAAATAAAATAAAAG
Found at i:53892881 original size:23 final size:24
Alignment explanation
Indices: 53892847--53892900 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
53892837 CGCATTTCAT
*
53892847 TTTAATTCTATTGCG-ATTTTATC
1 TTTAATTCTATTACGAATTTTATC
53892870 TTTAGATT-TATTACGAATTTTA-C
1 TTTA-ATTCTATTACGAATTTTATC
53892893 TTCTAATT
1 TT-TAATT
53892901 TTCATTATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.26, C:0.11, G:0.07, T:0.56
Consensus pattern (24 bp):
TTTAATTCTATTACGAATTTTATC
Found at i:53893438 original size:96 final size:95
Alignment explanation
Indices: 53893296--53893582 Score: 450
Period size: 96 Copynumber: 3.0 Consensus size: 95
53893286 AAATAAGGGT
* * *
53893296 TTAGGGTTTAGGGTTTCTTAATTAAATTAATTATAAATTTTAAAAAAATAGATTAGGGTTTAGTG
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATAGATTAGGGTTTAGTG
*
53893361 TTTATGGTTTTTAAGGAAAAAATTAAATAAA
66 TTTA-GGTTTTTAAGGAAAAAATCAAATAAA
* *
53893392 TTAGGATTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAATTAGATTAGGGTTTAGTG
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATAGATTAGGGTTTAGTG
* *
53893457 TTTAGGGTTTTAAAGAAAAAATCAAATAAA
66 TTTAGGTTTTTAAGGAAAAAATCAAATAAA
*
53893487 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTTAAAAAAATAGATTGGGGTTTAGT
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAA-TTTTAAAAAAATAGATTAGGGTTTAGT
*
53893552 ATTTAGGGTTTTTAAGG-AAAAATCAAATAAA
65 GTTTA-GGTTTTTAAGGAAAAAATCAAATAAA
53893583 ACTAGTTGTT
Statistics
Matches: 175, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
95 59 0.34
96 107 0.61
97 9 0.05
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (95 bp):
TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATAGATTAGGGTTTAGTG
TTTAGGTTTTTAAGGAAAAAATCAAATAAA
Found at i:53895502 original size:50 final size:50
Alignment explanation
Indices: 53895427--53895617 Score: 231
Period size: 50 Copynumber: 3.8 Consensus size: 50
53895417 TTTCTTGTAC
* * * * * ** *
53895427 TGCCAATGCCATATCCCAGATATGGTATTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
53895477 TGCCCATGCCATGTCCTAAACATGGTCTTAC-GGAGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATG-GGACCTCTCATCTCGG
* *
53895527 TGCCTACGCCATGTCCCAAACATGATCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
*
53895577 TGCCAACGCCATGTCCCAAATATGGTCTTACATGGGACCTC
1 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTC
53895618 ATCCTCTTAA
Statistics
Matches: 121, Mismatches: 18, Indels: 4
0.85 0.13 0.03
Matches are distributed among these distances:
49 1 0.01
50 119 0.98
51 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:53897555 original size:26 final size:27
Alignment explanation
Indices: 53897526--53897603 Score: 70
Period size: 26 Copynumber: 3.0 Consensus size: 27
53897516 TTATTTTTAC
53897526 TTGCTTTATAAATTAT-TTATGTTAAG
1 TTGCTTTATAAATTATATTATGTTAAG
* * * *
53897552 TTGCTTTGTATATTATATTATTTTAAA
1 TTGCTTTATAAATTATATTATGTTAAG
** * *
53897579 TTATTTTATATATTA-ATTATTTTAA
1 TTGCTTTATAAATTATATTATGTTAA
53897604 AATTATCCTA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
26 24 0.55
27 20 0.45
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.59
Consensus pattern (27 bp):
TTGCTTTATAAATTATATTATGTTAAG
Found at i:53897615 original size:27 final size:27
Alignment explanation
Indices: 53897560--53897620 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
53897550 AGTTGCTTTG
**
53897560 TATATTATATTATTTTAAATTATTTTA
1 TATATTATATTATTTTAAATTATCCTA
53897587 TATATTA-ATTATTTTAAAATTATCCTA
1 TATATTATATTATTTT-AAATTATCCTA
53897614 TACTATT
1 TA-TATT
53897621 TGCTTTGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 8 0.27
27 18 0.60
28 4 0.13
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (27 bp):
TATATTATATTATTTTAAATTATCCTA
Found at i:53898187 original size:18 final size:17
Alignment explanation
Indices: 53898160--53898204 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
53898150 GATTATTGCT
* *
53898160 CTTATGTGTATTGTATTG
1 CTTATTTGTATT-TATTA
53898178 CTTATTTGTATTTATTA
1 CTTATTTGTATTTATTA
*
53898195 ATTATTTGTA
1 CTTATTTGTA
53898205 GTTCATTAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.22, C:0.04, G:0.13, T:0.60
Consensus pattern (17 bp):
CTTATTTGTATTTATTA
Found at i:53899351 original size:25 final size:24
Alignment explanation
Indices: 53899323--53899372 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
53899313 TATTTTTATC
*
53899323 ATAA-AATTAATATTAATCAATAAAA
1 ATAAGAATT-ATATGAAT-AATAAAA
*
53899348 ATAAGTATTATATGAATAATAAAA
1 ATAAGAATTATATGAATAATAAAA
53899372 A
1 A
53899373 GCTAATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 8 0.36
25 11 0.50
26 3 0.14
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (24 bp):
ATAAGAATTATATGAATAATAAAA
Found at i:53902399 original size:18 final size:18
Alignment explanation
Indices: 53902378--53902427 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
53902368 TTATAACTAT
53902378 TTATATATATATATCATC
1 TTATATATATATATCATC
*
53902396 TTATTATATATTTAT-ATC
1 TTA-TATATATATATCATC
53902414 TTAT-TATATATATC
1 TTATATATATATATC
53902428 TATATATCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 8 0.29
17 1 0.04
18 9 0.32
19 10 0.36
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATATATATATATCATC
Found at i:53902570 original size:30 final size:29
Alignment explanation
Indices: 53902522--53902592 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
53902512 TATATATGTC
*
53902522 TATTTTA-TATAT-ATATACATACTTACA
1 TATTTTATTTTATGATATACATACTTACA
* *
53902549 CTGTTTTATTTTATGATATACATACTTATA
1 -TATTTTATTTTATGATATACATACTTACA
53902579 TATTTTATTTTATG
1 TATTTTATTTTATG
53902593 TAATATATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
28 6 0.16
29 17 0.46
30 14 0.38
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.55
Consensus pattern (29 bp):
TATTTTATTTTATGATATACATACTTACA
Found at i:53907039 original size:19 final size:19
Alignment explanation
Indices: 53907015--53907095 Score: 101
Period size: 20 Copynumber: 4.1 Consensus size: 19
53907005 AAGAATGTTC
53907015 AAAGAAAAAAAATAAAG-AA
1 AAAGAAAAAAAA-AAAGAAA
*
53907034 AAAGAAAAGAAAAAAGAAA
1 AAAGAAAAAAAAAAAGAAA
53907053 AAAGAAAAAAGAAAAAAGAAA
1 AAAG-AAAAA-AAAAAAGAAA
*
53907074 AAAGAAAAGAAAAGAAGAAA
1 AAAGAAAA-AAAAAAAGAAA
53907094 AA
1 AA
53907096 GGAGAGGCCA
Statistics
Matches: 55, Mismatches: 3, Indels: 7
0.85 0.05 0.11
Matches are distributed among these distances:
18 4 0.07
19 17 0.31
20 19 0.35
21 15 0.27
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.01
Consensus pattern (19 bp):
AAAGAAAAAAAAAAAGAAA
Found at i:53907050 original size:7 final size:7
Alignment explanation
Indices: 53907015--53907095 Score: 102
Period size: 7 Copynumber: 12.3 Consensus size: 7
53907005 AAGAATGTTC
53907015 AAAGAAA
1 AAAGAAA
*
53907022 AAA-AAT
1 AAAGAAA
53907028 AAAG-AA
1 AAAGAAA
53907034 AAAG--A
1 AAAGAAA
53907039 AAAGAAA
1 AAAGAAA
53907046 AAAGAAA
1 AAAGAAA
53907053 AAAGAAA
1 AAAGAAA
53907060 AAAGAAA
1 AAAGAAA
53907067 AAAGAAA
1 AAAGAAA
53907074 AAAG--A
1 AAAGAAA
53907079 AAAGAAA
1 AAAGAAA
53907086 AGAAGAAA
1 A-AAGAAA
53907094 AA
1 AA
53907096 GGAGAGGCCA
Statistics
Matches: 66, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
5 10 0.15
6 10 0.15
7 39 0.59
8 7 0.11
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.01
Consensus pattern (7 bp):
AAAGAAA
Found at i:53907096 original size:19 final size:19
Alignment explanation
Indices: 53907015--53907095 Score: 110
Period size: 19 Copynumber: 4.1 Consensus size: 19
53907005 AAGAATGTTC
*
53907015 AAAGAAAAAAAATAAAG-AA
1 AAAGAAAAGAAA-AAAGAAA
53907034 AAAGAAAAGAAAAAAGAAA
1 AAAGAAAAGAAAAAAGAAA
53907053 AAAGAAAAAAGAAAAAAGAAA
1 AAAG--AAAAGAAAAAAGAAA
53907074 AAAGAAAAGAAAAGAAGAAA
1 AAAGAAAAGAAAA-AAGAAA
53907094 AA
1 AA
53907096 GGAGAGGCCA
Statistics
Matches: 57, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
18 4 0.07
19 26 0.46
20 8 0.14
21 19 0.33
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.01
Consensus pattern (19 bp):
AAAGAAAAGAAAAAAGAAA
Found at i:53907548 original size:106 final size:106
Alignment explanation
Indices: 53907361--53907899 Score: 920
Period size: 106 Copynumber: 5.1 Consensus size: 106
53907351 AGGGCACCTA
53907361 TTTTTCATCTTATTCATCTTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAGC
1 TTTTTCATCTTATTCATCTTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAGC
53907426 CTTGTTCTCAATAAAATTTCATCTTATCCATTGTGATAATC
66 CTTGTTCTCAATAAAATTTCATCTTATCCATTGTGATAATC
*
53907467 TCTTTCATCTTATTCATCTTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAGC
1 TTTTTCATCTTATTCATCTTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAGC
* *
53907532 CTTGTTTTCAATAAAATTTCATCTTATTCATTGTGATAATC
66 CTTGTTCTCAATAAAATTTCATCTTATCCATTGTGATAATC
* *
53907573 TCTTTCATCTTATTCATCTTATCTTAGCAAAATTTGCTATCTTGATTGATTTATTCATTTTGAGC
1 TTTTTCATCTTATTCATCTTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAGC
53907638 CTTGTTCTCAATAAAATTTCATCTTATCCATTGTGATAATC
66 CTTGTTCTCAATAAAATTTCATCTTATCCATTGTGATAATC
* *
53907679 TTTTTCATCTTATTCATCTTATCTTAGCAAAATTTTCTATCTTGATTAATTTATTCATTTTGAAC
1 TTTTTCATCTTATTCATCTTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAGC
*
53907744 TTTGTTCTCAATAAAATTTCATCTTATCCATTGTGATAATC
66 CTTGTTCTCAATAAAATTTCATCTTATCCATTGTGATAATC
* * *
53907785 TTTTTCATCTTATTCAGTTCGTT-TCTTAGCAAGATTTGCTATCTTGATTGATTTATTCATTTTA
1 TTTTTCATCTTATTCA--TC-TTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTG
*
53907849 AGCCTTGTTCTCAATAAAATTTCATCTTGTCCATT-TGGATAATC
63 AGCCTTGTTCTCAATAAAATTTCATCTTATCCATTGT-GATAATC
53907893 TTTTTCA
1 TTTTTCA
53907900 AGCATGTTTT
Statistics
Matches: 411, Mismatches: 18, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
106 323 0.79
107 1 0.00
108 85 0.21
109 2 0.00
ACGTcount: A:0.26, C:0.17, G:0.08, T:0.50
Consensus pattern (106 bp):
TTTTTCATCTTATTCATCTTATCTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAGC
CTTGTTCTCAATAAAATTTCATCTTATCCATTGTGATAATC
Found at i:53908872 original size:46 final size:46
Alignment explanation
Indices: 53908811--53909438 Score: 720
Period size: 46 Copynumber: 13.3 Consensus size: 46
53908801 GACTAAAAGC
* *
53908811 AGCAGATCTTATCTTCCTGTATTTGGCAGGGGAG-GAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTG-GATCGAAGAT
* * *
53908857 AGCAGATCTTGTCTTCTTGTATTTGGCAGCGGAAG-AGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGG-AGTGGATCGAAGAT
* * * * *
53908903 AGTAGATCTTATCTTCCTATATTTGGCAGCAGAGTAGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGAT
* *
53908949 AGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATTGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGAT
*
53908995 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGAT
*
53909041 AGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGAT
* * *
53909087 AGCAGATCTTGTCTTCCTATATTTTGCAGCAGAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGAT
* * * *
53909133 AGCAGATCTTGTCTTACTGTATTTGGCAGTGGAGTGGATCGGCAGCAG
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATC-GAAG-AT
** ** * * * * * **
53909181 AGTGGATCGAAGATAGCAGATCTTGTCTTTATGTATTTGGCAGTGGAGTGGATCGAAGAT
1 AGCAGATC-TTG-T--C--TTCCTGTATTT-GGCA-GCGG-AGT-----GGATCGAAGAT
*
53909241 AGCAAATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGAT
53909287 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGAT
* *
53909333 AGCAGATCTTGTCTTCCTGTATTTGGCAACGGAGTGGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGAT
* * *
53909379 AGCAGATCTTGTCTTCTTGTATTTGGCAGCGGAGTAGATCAAAGAT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGAT
* *
53909425 TGCAGATCCTGTCT
1 AGCAGATCTTGTCT
53909439 CCCTAAGCAG
Statistics
Matches: 501, Mismatches: 63, Indels: 36
0.83 0.10 0.06
Matches are distributed among these distances:
45 2 0.00
46 437 0.87
47 5 0.01
48 7 0.01
49 1 0.00
50 1 0.00
51 3 0.01
52 3 0.01
53 2 0.00
54 15 0.03
55 2 0.00
56 4 0.01
57 3 0.01
58 1 0.00
59 1 0.00
60 6 0.01
61 3 0.01
62 5 0.01
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (46 bp):
AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGAT
Found at i:53909064 original size:138 final size:139
Alignment explanation
Indices: 53908811--53909438 Score: 814
Period size: 138 Copynumber: 4.4 Consensus size: 139
53908801 GACTAAAAGC
* * *
53908811 AGCAGATCTTATCTTCCTGTATTTGGCAGGGGAG-GAGATCGAAGATAGCAGATCTTGTCTTCTT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTG-GATCGAAGATAGCAGATCTTGTCTTCCT
* * * * * * *
53908875 GTATTTGGCAGCGGAAG-AGATCAAAGATAGTAGATCTTATCTTCCTATATTTGGCAGCAGAGTA
65 GTATTTGGCAGCAGAAGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTG
53908939 GATCGAAGAT
130 GATCGAAGAT
* *
53908949 AGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATTGAAGATAGCAGATCTTGTCTTCCTG
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTG
53909014 TATTTGGCAGC-GAAGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGG
66 TATTTGGCAGCAGAAGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGG
53909078 ATCGAAGAT
131 ATCGAAGAT
* * * *
53909087 AGCAGATCTTGTCTTCCTATATTTTGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTACTG
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTG
**
53909152 TATTTGGCAGTGGAGTGGATCGGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTTATGTAT
66 TATTTGGC----------A---GCAG-A-AGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTAT
**
53909217 TTGGCAGTGGAGTGGATCGAAGAT
116 TTGGCAGCAGAGTGGATCGAAGAT
*
53909241 AGCAAATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTG
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTG
* * *
53909306 TATTTGGCAGC-GGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAACGGAGTGG
66 TATTTGGCAGCAGAAGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGG
*
53909370 ATCAAAGAT
131 ATCGAAGAT
* * * * *
53909379 AGCAGATCTTGTCTTCTTGTATTTGGCAGCGGAGTAGATCAAAGATTGCAGATCCTGTCT
1 AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGATAGCAGATCTTGTCT
53909439 CCCTAAGCAG
Statistics
Matches: 436, Mismatches: 36, Indels: 36
0.86 0.07 0.07
Matches are distributed among these distances:
137 4 0.01
138 298 0.68
139 1 0.00
140 1 0.00
141 2 0.00
144 1 0.00
148 1 0.00
151 2 0.00
152 1 0.00
153 1 0.00
154 124 0.28
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (139 bp):
AGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTG
TATTTGGCAGCAGAAGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGG
ATCGAAGAT
Found at i:53909187 original size:62 final size:62
Alignment explanation
Indices: 53909112--53909235 Score: 232
Period size: 62 Copynumber: 2.0 Consensus size: 62
53909102 CCTATATTTT
53909112 GCAGCAGAGTGGATCGAAGATAGCAGATCTTGTC-TTACTGTATTTGGCAGTGGAGTGGATCG
1 GCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTTA-TGTATTTGGCAGTGGAGTGGATCG
53909174 GCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTTATGTATTTGGCAGTGGAGTGGATCG
1 GCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTTATGTATTTGGCAGTGGAGTGGATCG
53909236 AAGATAGCAA
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
62 58 0.95
63 3 0.05
ACGTcount: A:0.24, C:0.14, G:0.34, T:0.28
Consensus pattern (62 bp):
GCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTTATGTATTTGGCAGTGGAGTGGATCG
Found at i:53909254 original size:108 final size:108
Alignment explanation
Indices: 53909065--53909281 Score: 353
Period size: 108 Copynumber: 2.0 Consensus size: 108
53909055 TCCTGTATTT
* *
53909065 GGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTATATTTTGCAGCAGAGTGGATCGAA
1 GGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTCATATATTTGGCAGCAGAGTGGATCGAA
* *
53909130 GATAGCAGATCTTGTCTTACTGTATTTGGCAGTGGAGTGGATC
66 GATAGCAAATCTTGTCTTACTGTATTTGGCAGCGGAGTGGATC
* * **
53909173 GGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTTATGTATTTGGCAGTGGAGTGGATCGAA
1 GGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTCATATATTTGGCAGCAGAGTGGATCGAA
*
53909238 GATAGCAAATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATC
66 GATAGCAAATCTTGTCTTACTGTATTTGGCAGCGGAGTGGATC
53909281 G
1 G
53909282 AAGATAGCAG
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
108 100 1.00
ACGTcount: A:0.24, C:0.15, G:0.31, T:0.29
Consensus pattern (108 bp):
GGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTCATATATTTGGCAGCAGAGTGGATCGAA
GATAGCAAATCTTGTCTTACTGTATTTGGCAGCGGAGTGGATC
Found at i:53909299 original size:154 final size:154
Alignment explanation
Indices: 53909019--53909438 Score: 514
Period size: 154 Copynumber: 2.8 Consensus size: 154
53909009 TCCTGTATTT
*
53909019 GGCAGCGAAGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATCGAA
1 GGCAGCGAAGTGGATCGAAGATAGCAGATCTTGTCTTCATGTATTTGGCAGCAGAGTGGATCGAA
* *
53909084 GATAGCAGATCTTGTCTTCCTATATTTTGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTA
66 GATAGCAAATCTTGTCTTCCTATATTTGGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTA
*
53909149 CTGTATTTGGCAGTGGAGTGGATC
131 CTGTATTTGGCAGCGGAGTGGATC
* **
53909173 GGCAGC-AGAGTGGATCGAAGATAGCAGATCTTGTCTTTATGTATTTGGCAGTGGAGTGGATCGA
1 GGCAGCGA-AGTGGATCGAAGATAGCAGATCTTGTCTTCATGTATTTGGCAGCAGAGTGGATCGA
* *
53909237 AGATAGCAAATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGATAGCAGATCTTGTCTT
65 AGATAGCAAATCTTGTCTTCCTATATTTGGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTT
*
53909302 CCTGTATTT-G--GC-------A--
130 ACTGTATTTGGCAGCGGAGTGGATC
* * * *
53909315 -GC-G-G-AGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAACGGAGTGGATCAAA
1 GGCAGCGAAGTGGATCGAAGATAGCAGATCTTGTCTTCATGTATTTGGCAGCAGAGTGGATCGAA
* * * * * * * *
53909376 GATAGCAGATCTTGTCTTCTTGTATTTGGCAGCGGAGTAGATCAAAGATTGCAGATCCTGTCT
66 GATAGCAAATCTTGTCTTCCTATATTTGGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCT
53909439 CCCTAAGCAG
Statistics
Matches: 243, Mismatches: 21, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
138 109 0.45
140 1 0.00
141 2 0.01
144 1 0.00
151 1 0.00
153 2 0.01
154 127 0.52
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (154 bp):
GGCAGCGAAGTGGATCGAAGATAGCAGATCTTGTCTTCATGTATTTGGCAGCAGAGTGGATCGAA
GATAGCAAATCTTGTCTTCCTATATTTGGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTA
CTGTATTTGGCAGCGGAGTGGATC
Found at i:53909324 original size:200 final size:200
Alignment explanation
Indices: 53908973--53909372 Score: 683
Period size: 200 Copynumber: 2.0 Consensus size: 200
53908963 TCCTGTATTT
* *
53908973 GGCAGCAGAGTGGATTGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTGGATCGAA
1 GGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTCATGTATTTGGCAGCGAAGTGGATCGAA
*
53909038 GATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTC
66 GATAGCAAATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTC
* **
53909103 CTATATTTTGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTACTGTATTTGGCAGTGGAGT
131 CTATATTTGGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTACTGTATTTGGCAACGGAGT
53909168 GGATC
196 GGATC
* * *
53909173 GGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTTATGTATTTGGCAGTGGAGTGGATCGAA
1 GGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTCATGTATTTGGCAGCGAAGTGGATCGAA
*
53909238 GATAGCAAATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGATAGCAGATCTTGTCTTC
66 GATAGCAAATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTC
* * *
53909303 CTGTATTTGGCAGCGGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAACGGAGT
131 CTATATTTGGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTACTGTATTTGGCAACGGAGT
53909368 GGATC
196 GGATC
53909373 AAAGATAGCA
Statistics
Matches: 187, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
200 187 1.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (200 bp):
GGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTCATGTATTTGGCAGCGAAGTGGATCGAA
GATAGCAAATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTC
CTATATTTGGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTACTGTATTTGGCAACGGAGT
GGATC
Found at i:53909370 original size:246 final size:246
Alignment explanation
Indices: 53908927--53909418 Score: 824
Period size: 246 Copynumber: 2.0 Consensus size: 246
53908917 TCCTATATTT
* *
53908927 GGCAGCAGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGTGGATTGAA
1 GGCAGCAGAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTTGGCAGCAGAGTGGATCGAA
*
53908992 GATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGTGGATCGAAGATAGCAGATCTTGTCTTC
66 GATAGCAAATCTTGTCTTCCTGTATTTGGCAGCGAAGTGGATCGAAGATAGCAGATCTTGTCTTC
* *
53909057 CTGTATTTGGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTATATTTTGCAGCAGAGT
131 CTGTATTTGGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAACAGAGT
* * *
53909122 GGATCGAAGATAGCAGATCTTGTCTTAC-TGTATTTGGCAGTGGAGTGGATC
196 GGATCAAAGATAGCAGATCTTGTCTT-CTTGTATTTGGCAGCGGAGTAGATC
* * **
53909173 GGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTTATGTATTTGGCAGTGGAGTGGATCGAA
1 GGCAGCAGAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTTGGCAGCAGAGTGGATCGAA
*
53909238 GATAGCAAATCTTGTCTTCCTGTATTTGGCAGCGGAGTGGATCGAAGATAGCAGATCTTGTCTTC
66 GATAGCAAATCTTGTCTTCCTGTATTTGGCAGCGAAGTGGATCGAAGATAGCAGATCTTGTCTTC
* * *
53909303 CTGTATTTGGCAGCGGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAACGGAGT
131 CTGTATTTGGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAACAGAGT
53909368 GGATCAAAGATAGCAGATCTTGTCTTCTTGTATTTGGCAGCGGAGTAGATC
196 GGATCAAAGATAGCAGATCTTGTCTTCTTGTATTTGGCAGCGGAGTAGATC
53909419 AAAGATTGCA
Statistics
Matches: 229, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
245 1 0.00
246 228 1.00
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.30
Consensus pattern (246 bp):
GGCAGCAGAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTTGGCAGCAGAGTGGATCGAA
GATAGCAAATCTTGTCTTCCTGTATTTGGCAGCGAAGTGGATCGAAGATAGCAGATCTTGTCTTC
CTGTATTTGGCAGCAGAGTGGATCGAAGATAGCAGATCTTGTCTTCCTATATTTGGCAACAGAGT
GGATCAAAGATAGCAGATCTTGTCTTCTTGTATTTGGCAGCGGAGTAGATC
Found at i:53910638 original size:17 final size:17
Alignment explanation
Indices: 53910616--53910650 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
53910606 AATATATACA
*
53910616 TTTTTTCTTTCTTTATT
1 TTTTTTCTTTATTTATT
*
53910633 TTTTTTGTTTATTTATT
1 TTTTTTCTTTATTTATT
53910650 T
1 T
53910651 ATATACATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.09, C:0.06, G:0.03, T:0.83
Consensus pattern (17 bp):
TTTTTTCTTTATTTATT
Found at i:53911477 original size:18 final size:18
Alignment explanation
Indices: 53911456--53911505 Score: 68
Period size: 19 Copynumber: 2.8 Consensus size: 18
53911446 TTATAACTAT
53911456 TTATATATATATATCATC
1 TTATATATATATATCATC
*
53911474 TTATTATATATTTAT-ATC
1 TTA-TATATATATATCATC
53911492 TTAT-TATATATATC
1 TTATATATATATATC
53911506 TATATATCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 8 0.29
17 1 0.04
18 9 0.32
19 10 0.36
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATATATATATATCATC
Found at i:53911675 original size:30 final size:29
Alignment explanation
Indices: 53911639--53911697 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
53911629 TTTTATATAT
*
53911639 ATATACATACTTACACTGTTTTATTTTATG
1 ATATACATACTTACA-TCTTTTATTTTATG
*
53911669 ATATACATACTTATATCTTTTATTTTATG
1 ATATACATACTTACATCTTTTATTTTATG
53911698 TAATATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 13 0.48
30 14 0.52
ACGTcount: A:0.31, C:0.12, G:0.05, T:0.53
Consensus pattern (29 bp):
ATATACATACTTACATCTTTTATTTTATG
Found at i:53914119 original size:24 final size:24
Alignment explanation
Indices: 53914071--53914124 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
53914061 ATATTAATAA
*
53914071 TTTATTTTTAAAATTTTAAATATAT
1 TTTATTATTAAAA-TTTAAATATAT
53914096 TTTATTATTAAAA-TTAAATCATAT
1 TTTATTATTAAAATTTAAAT-ATAT
53914120 TTTAT
1 TTTAT
53914125 AAGTGCTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 6 0.22
24 9 0.33
25 12 0.44
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTATTATTAAAATTTAAATATAT
Found at i:53914665 original size:114 final size:112
Alignment explanation
Indices: 53914525--53914935 Score: 414
Period size: 114 Copynumber: 3.6 Consensus size: 112
53914515 AGCACTGCAA
* * * * * * *
53914525 AAACCTCAGCCCAATGACGTCGTTTTCCGCCTATTCGGGGATTTAGCGGCATTTTTTATGAAGCG
1 AAACCTAAGCCCAACGACGCCGTTTTCTGACTATTCGGGGATTTAGCAGCATTTTTGA-GAAGCG
* * * *
53914590 CCGCTAAAGCTCAAGGATTTAGCGGTGTTTTTAAGAATGCGCCGCAAAG
65 CCGCTAATGCTCAAGGCTTTAGCGGCGTTTTTAGGAA-GCGCCGCAAAG
* * * *
53914639 AAACCTAAGCCCAACGACGCCATTTTCTGAGC-ATTCGGTGACTTAGCAGCATTTTTGAGGTAGC
1 AAACCTAAGCCCAACGACGCCGTTTTCTGA-CTATTCGGGGATTTAGCAGCATTTTTGA-GAAGC
* * *
53914703 GCCGCCAATGTTC-AGTGCTTTAGCGGCGTTTCTGAGGAAGCGCCGCAAAG
64 GCCGCTAATGCTCAAG-GCTTTAGCGGCGTTT-TTAGGAAGCGCCGCAAAG
* * *
53914753 AAACCTAAGCCCAACGACGCCGTTCTCTGAATATTCGGGGATTTAGCAGCATTTATGGAGAAGCG
1 AAACCTAAGCCCAACGACGCCGTTTTCTGACTATTCGGGGATTTAGCAGCATTT-TTGAGAAGCG
* * * * *
53914818 CTGCTAATGCTCAGGGCTTTAGCGGCATTTTTGGGAAAGCGCCACAAA-
65 CCGCTAATGCTCAAGGCTTTAGCGGCGTTTTTAGG-AAGCGCCGCAAAG
* * * * * * *
53914866 AAACCTAAGCCCAACGATGTCGTTTTACTGAGTATTGGGGGATTTAGCGGCGTTTTTGAACAAGC
1 AAACCTAAGCCCAACGACGCCGTTTT-CTGACTATTCGGGGATTTAGCAGCATTTTTG-AGAAGC
53914931 GCCGC
64 GCCGC
53914936 AAAATAATTA
Statistics
Matches: 244, Mismatches: 44, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
113 30 0.12
114 204 0.84
115 10 0.04
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (112 bp):
AAACCTAAGCCCAACGACGCCGTTTTCTGACTATTCGGGGATTTAGCAGCATTTTTGAGAAGCGC
CGCTAATGCTCAAGGCTTTAGCGGCGTTTTTAGGAAGCGCCGCAAAG
Found at i:53916485 original size:147 final size:146
Alignment explanation
Indices: 53916310--53916623 Score: 353
Period size: 146 Copynumber: 2.1 Consensus size: 146
53916300 AACGACTTTG
* * * * * *
53916310 TTTGATCTTATATTTAGTGGCGCTTTGCTTAAAAGGCCGTAAAATTGTTCTAACATTTATAGAAA
1 TTTGAT-TTATAGTTAGTGGCACTTTGCTTAAAACGCCGCAAAAATGTTCTAACATTTACAGAAA
** * * ** * * *
53916375 CGCTGCCATTTT-TTAAATGTTATTAGTGGCGATTT-TTTGAAAACGCCACGGGTTTGAGGTAAG
65 CGAGGCCATTTTGCT--ATATTATTAGTGGCG-TTTATTCAAAAACGCCACAGGTGTGAGCTAAG
* *
53916438 TGTTGATGAAGCGACTGCGT
127 TGTTGATGAAACGACTACGT
* * *
53916458 TTTGATTTATAGTTAGTGGCACTTTGCTTAAAACGCCGCAAAAATGTTTTAACATTTACCGATAC
1 TTTGATTTATAGTTAGTGGCACTTTGCTTAAAACGCCGCAAAAATGTTCTAACATTTACAGAAAC
* * **
53916523 GAGGCCGTTTTGCTGTATTATTAGTGGCGTTTATTCAAAAACGCCACAGGTGTGAGCTATTTGTT
66 GAGGCCATTTTGCTATATTATTAGTGGCGTTTATTCAAAAACGCCACAGGTGTGAGCTAAGTGTT
53916588 GATGAAACGACTACGT
131 GATGAAACGACTACGT
*
53916604 TTTGACTTATAGTTAGTGGC
1 TTTGATTTATAGTTAGTGGC
53916624 GCTTATTTAT
Statistics
Matches: 139, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
145 3 0.02
146 71 0.51
147 58 0.42
148 7 0.05
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (146 bp):
TTTGATTTATAGTTAGTGGCACTTTGCTTAAAACGCCGCAAAAATGTTCTAACATTTACAGAAAC
GAGGCCATTTTGCTATATTATTAGTGGCGTTTATTCAAAAACGCCACAGGTGTGAGCTAAGTGTT
GATGAAACGACTACGT
Found at i:53916751 original size:23 final size:23
Alignment explanation
Indices: 53916721--53916766 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
53916711 AGAGATATTT
*
53916721 CTCCATCAGTTATCCCCCAAAAC
1 CTCCATCAATTATCCCCCAAAAC
53916744 CTCCATCAATTATCCCCCAAAAC
1 CTCCATCAATTATCCCCCAAAAC
53916767 TCATTCTCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.43, G:0.02, T:0.22
Consensus pattern (23 bp):
CTCCATCAATTATCCCCCAAAAC
Found at i:53918394 original size:21 final size:21
Alignment explanation
Indices: 53918359--53918429 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
53918349 CTACAACTTA
* * *
53918359 AAGCAAAGGCGGCAGTGAGGG
1 AAGCAGAGGCTGCAGTGAGAG
* *
53918380 AAGCAGCGGCTGCAGCGAGAG
1 AAGCAGAGGCTGCAGTGAGAG
* *
53918401 AAGCAGAGGGTGTAGTGAGAG
1 AAGCAGAGGCTGCAGTGAGAG
53918422 AAGCAGAG
1 AAGCAGAG
53918430 CAGAGCAGAA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.34, C:0.14, G:0.45, T:0.07
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGTGAGAG
Found at i:53918777 original size:43 final size:42
Alignment explanation
Indices: 53918729--53918901 Score: 208
Period size: 42 Copynumber: 4.1 Consensus size: 42
53918719 ATTCCAAAAA
* *
53918729 TAGTGGCGT-TTTTTATAAAAGCGCCGCTAAAGATCAT-TTCTTT
1 TAGTGGCGTCTTTTT-T-AAAGCGCCGCTAAAGAACATGATC-TT
**
53918772 TAGTGGCGT-TTGTGAATAAAGCGCCGCTAAAGAACATGATCTT
1 TAGTGGCGTCTT-T-TTTAAAGCGCCGCTAAAGAACATGATCTT
*
53918815 TAGTGGCGTCTTTTTTGAAGCGCCGCTAAAGAACATGATCTT
1 TAGTGGCGTCTTTTTTAAAGCGCCGCTAAAGAACATGATCTT
* * *
53918857 TAGTGGCGTCTTTTTTGAAGCGCCGCTAAAGATCATGTTCTT
1 TAGTGGCGTCTTTTTTAAAGCGCCGCTAAAGAACATGATCTT
53918899 TAG
1 TAG
53918902 CGTTGCTACA
Statistics
Matches: 117, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
42 69 0.59
43 42 0.36
44 6 0.05
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (42 bp):
TAGTGGCGTCTTTTTTAAAGCGCCGCTAAAGAACATGATCTT
Found at i:53918844 original size:85 final size:85
Alignment explanation
Indices: 53918729--53919032 Score: 221
Period size: 84 Copynumber: 3.6 Consensus size: 85
53918719 ATTCCAAAAA
* *
53918729 TAGTGGCGTTTTTTATAAAAGCGCCGCTAAAGATCAT-TTCTTTTAGTGGCGT-TTGTGAATAAA
1 TAGTGGCGTTTTTTATAAAAGCGCCGCTAAAGAACATGATC-TTTAGTGGCGTCTT-T-AATAAA
53918792 GCGCCGCTAAAGAACATGATCTT
63 GCGCCGCTAAAGAACATGATCTT
* ** *
53918815 TAGTGGCGTCTTTTT-T-GAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTCTTTTTTGAAGC
1 TAGTGGCGT-TTTTTATAAAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTCTTTAATAAAGC
* *
53918878 GCCGCTAAAGATCATGTTCTT
65 GCCGCTAAAGAACATGATCTT
* ** * * * * * * * * *
53918899 TA---GCGTTGCTACAAAAAAACACCGCTAAAGATCATGTTCTTTAGCGGCG-CTTGGAAAAAAA
1 TAGTGGCGTT-TTTTATAAAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTCTT-TAATAAAG
** *
53918960 CGCCGCTAAAGTTCATGTTCTT
64 CGCCGCTAAAGAACATGATCTT
** * * * * *
53918982 TAGCAGCATTTTTTCT-GAAGCGCCGCTAAAGAACATGATTTTTAGCGGCGT
1 TAGTGGCGTTTTTTATAAAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGT
53919033 TTATTTTTGT
Statistics
Matches: 170, Mismatches: 37, Indels: 23
0.74 0.16 0.10
Matches are distributed among these distances:
80 1 0.01
81 5 0.03
82 3 0.02
83 53 0.31
84 54 0.32
85 31 0.18
86 18 0.11
87 5 0.03
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (85 bp):
TAGTGGCGTTTTTTATAAAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTCTTTAATAAAGCG
CCGCTAAAGAACATGATCTT
Found at i:53918970 original size:42 final size:41
Alignment explanation
Indices: 53918745--53918985 Score: 178
Period size: 42 Copynumber: 5.8 Consensus size: 41
53918735 CGTTTTTTAT
* *
53918745 AAAAGCGCCGCTAAAGATCAT-TTCTTTTAGTGGCGTTTGTGAA
1 AAAAGCGCCGCTAAAGATCATGTTC-TTTAGCGGCG-CT-TGAA
* * * * ***
53918788 TAAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTCTTTTT
1 AAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCG-CTTGAA
** * * * ***
53918830 TGAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTCTTTTT
1 AAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCG-CTTGAA
** ** **
53918872 TGAAGCGCCGCTAAAGATCATGTTCTTTAGCGTTGCTACAA
1 AAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGAA
* *
53918913 AAAAACACCGCTAAAGATCATGTTCTTTAGCGGCGCTTGGAA
1 AAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-GAA
* *
53918955 AAAAACGCCGCTAAAGTTCATGTTCTTTAGC
1 AAAAGCGCCGCTAAAGATCATGTTCTTTAGC
53918986 AGCATTTTTT
Statistics
Matches: 169, Mismatches: 27, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
41 33 0.20
42 103 0.61
43 31 0.18
44 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (41 bp):
AAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTGAA
Found at i:53919449 original size:8 final size:8
Alignment explanation
Indices: 53919436--53919462 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
53919426 AATAAAAAAT
53919436 AAAATTAA
1 AAAATTAA
53919444 AAAATTAA
1 AAAATTAA
53919452 AAAATTAA
1 AAAATTAA
53919460 AAA
1 AAA
53919463 TACTAATAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (8 bp):
AAAATTAA
Found at i:53926124 original size:25 final size:24
Alignment explanation
Indices: 53926081--53926133 Score: 70
Period size: 25 Copynumber: 2.2 Consensus size: 24
53926071 TCCAAATTCA
* * *
53926081 TTATAAGTATATTTTTTTAGTTCTT
1 TTATAAGTATATATATTTA-TTATT
53926106 TTATAAGTATATATATTTATTATT
1 TTATAAGTATATATATTTATTATT
53926130 TTAT
1 TTAT
53926134 TATTAAAGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (24 bp):
TTATAAGTATATATATTTATTATT
Found at i:53931467 original size:60 final size:60
Alignment explanation
Indices: 53931371--53931483 Score: 158
Period size: 60 Copynumber: 1.9 Consensus size: 60
53931361 ATACTGCGAG
53931371 CTCCCTTAACTGTCCTCTCGCTGTAAGTCTCATGTGTATCCATCTAGTGGGGTCTGACAA
1 CTCCCTTAACTGTCCTCTCGCTGTAAGTCTCATGTGTATCCATCTAGTGGGGTCTGACAA
* * * *
53931431 CTCCCTTAATTGTCCTCTCGTTGTACA-TCTTC-TGTGTATCCATTTGGTGGGGT
1 CTCCCTTAACTGTCCTCTCGCTGTA-AGTC-TCATGTGTATCCATCTAGTGGGGT
53931484 TTGGTCGGGT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
60 44 0.94
61 3 0.06
ACGTcount: A:0.15, C:0.27, G:0.20, T:0.38
Consensus pattern (60 bp):
CTCCCTTAACTGTCCTCTCGCTGTAAGTCTCATGTGTATCCATCTAGTGGGGTCTGACAA
Found at i:53948282 original size:66 final size:66
Alignment explanation
Indices: 53948200--53948384 Score: 221
Period size: 66 Copynumber: 2.8 Consensus size: 66
53948190 GTCAGTAGCC
* * * *
53948200 TCACATAGCCTAGCACATGGGCGTGTGACTTAGTCGTATGACATAAGTCAGTATACCC-TCTAGT
1 TCACATAGCCTAGCACACGGGCGTGTGACTTGGTCGTGTGACACAAGTCAGTATACCCATC-AGT
53948264 TT
65 TT
* * * * * * *
53948266 TCACACAGCCTAGCACACAGGCGTGTGGCTTGGCCGTGTGTCACAAGTCAGTATGCCCATCATTT
1 TCACATAGCCTAGCACACGGGCGTGTGACTTGGTCGTGTGACACAAGTCAGTATACCCATCAGTT
53948331 T
66 T
* *
53948332 TCACATGGCCTAGCACACGGGCGTGT-AGCTTGGTCGTGTGACCCAAGTCAGTA
1 TCACATAGCCTAGCACACGGGCGTGTGA-CTTGGTCGTGTGACACAAGTCAGTA
53948385 AGCTCACAAG
Statistics
Matches: 99, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
66 97 0.98
67 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (66 bp):
TCACATAGCCTAGCACACGGGCGTGTGACTTGGTCGTGTGACACAAGTCAGTATACCCATCAGTT
T
Found at i:53948404 original size:66 final size:66
Alignment explanation
Indices: 53948201--53948409 Score: 174
Period size: 66 Copynumber: 3.2 Consensus size: 66
53948191 TCAGTAGCCT
* ** * * * *
53948201 CACATAGCCTAGCACATGGGCGTGT-GACTTAGTCGTATGACATAAGTCAGTATA-CCC-TCTAG
1 CACATGGCCTAGCACACAGGCGTGTAG-CTTGGCCGTGTGACACAAGTCAGTA-AGCCCATC-AG
*
53948263 TTTT
63 TTTG
** * * * *
53948267 CACACAGCCTAGCACACAGGCGTGTGGCTTGGCCGTGTGTCACAAGTCAGTATGCCCATCATTTT
1 CACATGGCCTAGCACACAGGCGTGTAGCTTGGCCGTGTGACACAAGTCAGTAAGCCCATCAGTTT
*
53948332 T
66 G
* * * *
53948333 CACATGGCCTAGCACACGGGCGTGTAGCTTGGTCGTGTGACCCAAGTCAGTAAGCTCA-CAAGTT
1 CACATGGCCTAGCACACAGGCGTGTAGCTTGGCCGTGTGACACAAGTCAGTAAGCCCATC-AGTT
53948397 TG
65 TG
*
53948399 GACATGGCCTA
1 CACATGGCCTA
53948410 AGACATGGGC
Statistics
Matches: 117, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
65 1 0.01
66 113 0.97
67 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (66 bp):
CACATGGCCTAGCACACAGGCGTGTAGCTTGGCCGTGTGACACAAGTCAGTAAGCCCATCAGTTT
G
Found at i:53949850 original size:452 final size:453
Alignment explanation
Indices: 53949006--53949913 Score: 1782
Period size: 452 Copynumber: 2.0 Consensus size: 453
53948996 CTTTCACTAG
53949006 TAAACTTGACTTTGATTGCACAAATAACATAACAGAATACGAAGCATGCATCATGGGTATCCGTG
1 TAAACTTGACTTTGATTGCACAAATAACATAACAGAATACGAAGCATGCATCATGGGTATCCGTG
53949071 CAGCCATAGAACGCAAGATCAAGGTACGAGAGGTATATAGAAATTCTACACTAGTGATCTATCAA
66 CAGCCATAGAACGCAAGATCAAGGTACGAGAGGTATATAGAAATTCTACACTAGTGATCTATCAA
53949136 CTCAAAGGTGAATGGGAAAGAAGGGATCCCAAGTTGATCGAGTATGGAAGGCTGGTCTCGGAGTT
131 CTCAAAGGTGAATGGGAAAGAAGGGATCCCAAGTTGATCGAGTATGGAAGGCTGGTCTCGGAGTT
53949201 AGTTAAAGATTTTGATGACATCACCTTCTACTACTTCCCGCGAGATGAAAATAAGATGGTTGACG
196 AGTTAAAGATTTTGATGACATCACCTTCTACTACTTCCCGCGAGATGAAAATAAGATGGTTGACG
53949266 CTTTGGCTACCTTACCTTCCATGGTTAAAGTGAACAAACAAAAGGATGTAAAACCTATTCAGATG
261 CTTTGGCTACCTTACCTTCCATGGTTAAAGTGAACAAACAAAAGGATGTAAAACCTATTCAGATG
53949331 AGTATTTATGAGGCTCCGGCCCATTGTTACAATATCGAAGAAGAAGAAAAGGACGATCACCCTTG
326 AGTATTTATGAGGCTCCGGCCCATTGTTACAATATCGAAGAAGAAGAAAAGGACGATCACCCTTG
53949396 GTACCACGATATACTGTAATATGT-AAGAATCATGAATACCCTGATCAGGAAACTAAGAATGA
391 GTACCACGATATACTGTAATATGTAAAGAATCATGAATACCCTGATCAGGAAACTAAGAATGA
*
53949458 TAAACTTGACTTTGATTGCACAAATAACATGACAGAATACGAAGCATGCATCATGGGTATCCGTG
1 TAAACTTGACTTTGATTGCACAAATAACATAACAGAATACGAAGCATGCATCATGGGTATCCGTG
53949523 CAGCCATAGAACGCAAGATCAAGGTACGAGAGGTATATAGAAATTCTACACTAGTGATCTATCAA
66 CAGCCATAGAACGCAAGATCAAGGTACGAGAGGTATATAGAAATTCTACACTAGTGATCTATCAA
53949588 CTCAAAGGTGAATGGGAAAGAAGGGATCCCAAGTTGATCGAGTATGGAAGGCTGGTCTCGGAGTT
131 CTCAAAGGTGAATGGGAAAGAAGGGATCCCAAGTTGATCGAGTATGGAAGGCTGGTCTCGGAGTT
53949653 AGTTAAAGATTTTGATGACATCACCTTCTACTACTTCCCGCGAGATGAAAATAAGATGGTTGACG
196 AGTTAAAGATTTTGATGACATCACCTTCTACTACTTCCCGCGAGATGAAAATAAGATGGTTGACG
*
53949718 CTTTGGCTACCTTAGCTTCCATGGTTAAAGTGAACAAACAAAAGGATGTAAAACCTATTCAGATG
261 CTTTGGCTACCTTACCTTCCATGGTTAAAGTGAACAAACAAAAGGATGTAAAACCTATTCAGATG
53949783 AGTATTTATGAGGCTCCGGCCCATTGTTACAATATCGAAGAAGAAGAAAAGGACGATCACCCTTG
326 AGTATTTATGAGGCTCCGGCCCATTGTTACAATATCGAAGAAGAAGAAAAGGACGATCACCCTTG
*
53949848 GTACCACGATATACTGTAATATGTAAAGAATCATGAATACCCTGATCAGGAAACTGAGAATGA
391 GTACCACGATATACTGTAATATGTAAAGAATCATGAATACCCTGATCAGGAAACTAAGAATGA
53949911 TAA
1 TAA
53949914 TAGGATGCTG
Statistics
Matches: 452, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
452 412 0.91
453 40 0.09
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.25
Consensus pattern (453 bp):
TAAACTTGACTTTGATTGCACAAATAACATAACAGAATACGAAGCATGCATCATGGGTATCCGTG
CAGCCATAGAACGCAAGATCAAGGTACGAGAGGTATATAGAAATTCTACACTAGTGATCTATCAA
CTCAAAGGTGAATGGGAAAGAAGGGATCCCAAGTTGATCGAGTATGGAAGGCTGGTCTCGGAGTT
AGTTAAAGATTTTGATGACATCACCTTCTACTACTTCCCGCGAGATGAAAATAAGATGGTTGACG
CTTTGGCTACCTTACCTTCCATGGTTAAAGTGAACAAACAAAAGGATGTAAAACCTATTCAGATG
AGTATTTATGAGGCTCCGGCCCATTGTTACAATATCGAAGAAGAAGAAAAGGACGATCACCCTTG
GTACCACGATATACTGTAATATGTAAAGAATCATGAATACCCTGATCAGGAAACTAAGAATGA
Found at i:53951491 original size:44 final size:44
Alignment explanation
Indices: 53951406--53951860 Score: 292
Period size: 44 Copynumber: 10.0 Consensus size: 44
53951396 TGAATATAGA
* * * *
53951406 AAATCTTATCTCCCTAAAGATGCAGTAGAGC-GAAATGAAGCTAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAG-ATTAAAGCTAC
** * * *
53951450 AAATCCAATATCCCTAAAGTTGTAGTGGATCAGATTAAAGCTAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * *
53951494 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTGAAA-CAAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATT-AAAGCTAC
* *
53951538 AAATTTTATCTCCCTAAAGTTGCAGTGAAGCAGATTAAAGCTAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * ** *
53951582 AAATCTTATCTCCCTGAAGTTGTAGCAGAGCAGATTGAAGCTAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * * * * * *
53951626 AAATCTTATCTCGCTGAAGTTACAGTGGAGAAAATTGAAGCAAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * * * *
53951670 AAATCATATACAT--CTGAAGTTGCAGTGG-GTCGGGTTAAATCTACC
1 AAATCTTAT-C-TCCCTAAAGTTGCAGTGGAG-CAGATTAAAGCTA-C
* * * *
53951715 ACAGCGAGTCTTATTTCCCTGAAGTTGCAGTGAAACAGATTAAAGCTACAAACTAC
1 A-A---A-TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAG-------CTAC
* * * * *
53951771 AAATCTTATCTCCCTGAAGTTACAATGGAACAGATTGAAGCTAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTAC
* * * * *
53951815 GAATCTCATCTCCCTGAAGTTGCAGCGGAGTAGATTGAAA-CTAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATT-AAAGCTAC
53951859 AA
1 AA
53951861 TTCCTATACC
Statistics
Matches: 321, Mismatches: 67, Indels: 46
0.74 0.15 0.11
Matches are distributed among these distances:
43 4 0.01
44 239 0.74
45 9 0.03
46 2 0.01
48 1 0.00
49 1 0.00
50 26 0.08
51 32 0.10
52 1 0.00
55 1 0.00
56 2 0.01
57 3 0.01
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (44 bp):
AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCTAC
Found at i:53951562 original size:132 final size:132
Alignment explanation
Indices: 53951406--53951674 Score: 353
Period size: 132 Copynumber: 2.0 Consensus size: 132
53951396 TGAATATAGA
*
53951406 AAATCTTATCTCCCTAAAGATGCAGT-AGAGC-GAAATGAAGCTACAAATCCAATATCCCTAAAG
1 AAATCTTATCTCCCTAAAGATGCAGTGA-AGCAG-AATAAAGCTACAAATCCAATATCCCTAAAG
** * * * *
53951469 TTGTAGTGGATCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCATATTGAAA
64 TTGTAGCAGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGAAAATTGAAA
53951534 CAAC
129 CAAC
* * * ** * *
53951538 AAATTTTATCTCCCTAAAGTTGCAGTGAAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTT
1 AAATCTTATCTCCCTAAAGATGCAGTGAAGCAGAATAAAGCTACAAATCCAATATCCCTAAAGTT
* * *
53951603 GTAGCAGAGCAGATTGAAGCTACAAATCTTATCTCGCTGAAGTTACAGTGGAGAAAATTGAAGCA
66 GTAGCAGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGAAAATTGAAACA
53951668 AC
131 AC
53951670 AAATC
1 AAATC
53951675 ATATACATCT
Statistics
Matches: 117, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
132 115 0.98
133 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (132 bp):
AAATCTTATCTCCCTAAAGATGCAGTGAAGCAGAATAAAGCTACAAATCCAATATCCCTAAAGTT
GTAGCAGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGAAAATTGAAACA
AC
Found at i:53953502 original size:37 final size:37
Alignment explanation
Indices: 53953427--53953503 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 37
53953417 AAATCGGACA
* * **
53953427 ATTAATCAAATTAAATAATATATAATATATTTTTTAT
1 ATTAATCAAAATAAATAATATATAATATATATAATAT
*
53953464 ATTAATCAAAATAAATAATATATATTATATATAATAT
1 ATTAATCAAAATAAATAATATATAATATATATAATAT
53953501 ATT
1 ATT
53953504 TTTTGAACTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (37 bp):
ATTAATCAAAATAAATAATATATAATATATATAATAT
Found at i:53956295 original size:141 final size:139
Alignment explanation
Indices: 53956022--53956311 Score: 327
Period size: 141 Copynumber: 2.1 Consensus size: 139
53956012 GATATAATAA
* * *
53956022 TTGCTCGTTCGAGCTAAACATATAATCGTGTCATGTTACCCGTCCAAGCTAAACCTTTATTGACA
1 TTGCTCG-TCGAGCTAAACATATAATAGTGTCAGGTTACCCGTCCAAGCTAAACCTTTATCGACA
* * * * * *
53956087 CGTCAAATAGCTTGGGCAAAGTTGTAATGTACTGGTCAGGTTATCTGTCTGGGTTGAACCTTTAA
65 CATCAAATAGCTTGGGCAAAGTTGTAA-GTACTGGTAAGGTTATCTGTCCGGGCTAAACCTTGAA
53956152 ACGAC-CTCAGG
129 ACGACAC-CAGG
* * *
53956163 TTGCTCGTCAGAGCTGAACATATATTAGTGTCAGGTTACCCGTCCAGGCTAAACCTTTATCGACA
1 TTGCTCGTC-GAGCTAAACATATAATAGTGTCAGGTTACCCGTCCAAGCTAAACCTTTATCGACA
* * * *
53956228 CATCAAATAGCTTGGTCAAATTTGTACA-TACAT-GTAAGGTT-GCTCGTCCGTGCTAAACCTAT
65 CATCAAATAGCTTGGGCAAAGTTGTA-AGTAC-TGGTAAGGTTATCT-GTCCGGGCTAAACCT-T
53956290 GAAACGACACCAGG
126 GAAACGACACCAGG
*
53956304 TTACTCGT
1 TTGCTCGT
53956312 TCTAGTTAAA
Statistics
Matches: 126, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
139 2 0.02
140 23 0.18
141 99 0.79
142 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (139 bp):
TTGCTCGTCGAGCTAAACATATAATAGTGTCAGGTTACCCGTCCAAGCTAAACCTTTATCGACAC
ATCAAATAGCTTGGGCAAAGTTGTAAGTACTGGTAAGGTTATCTGTCCGGGCTAAACCTTGAAAC
GACACCAGG
Found at i:53970933 original size:54 final size:54
Alignment explanation
Indices: 53970850--53970955 Score: 185
Period size: 54 Copynumber: 2.0 Consensus size: 54
53970840 ACAAATCTCA
*
53970850 ACTTTAAAATTAACCTGAACGACAACGTTTCGTAACTTTGACTAATTGACTTCC
1 ACTTTAAAATTAACCTAAACGACAACGTTTCGTAACTTTGACTAATTGACTTCC
**
53970904 ACTTTAAAATTAACCTAAACGACGGCGTTTCGTAACTTTGACTAATTGACTT
1 ACTTTAAAATTAACCTAAACGACAACGTTTCGTAACTTTGACTAATTGACTT
53970956 GGAATAGTAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (54 bp):
ACTTTAAAATTAACCTAAACGACAACGTTTCGTAACTTTGACTAATTGACTTCC
Done.