Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 279 of 295
Found at i:88765351 original size:15 final size:14
Alignment explanation
Indices: 88765307--88765347 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
88765297 ATCTTTGTAC
88765307 TTTAATTTGATTAA
1 TTTAATTTGATTAA
88765321 TTT--TTT-A-TAA
1 TTTAATTTGATTAA
88765331 TTTAATTTGATTAA
1 TTTAATTTGATTAA
88765345 TTT
1 TTT
88765348 TAATCCTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
10 6 0.26
11 1 0.04
12 6 0.26
13 1 0.04
14 9 0.39
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (14 bp):
TTTAATTTGATTAA
Found at i:88766366 original size:21 final size:21
Alignment explanation
Indices: 88766323--88766362 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
88766313 ATAATATCAA
88766323 ATAAATCTGAATTTTCATTAT
1 ATAAATCTGAATTTTCATTAT
88766344 ATAAA-CTGAATTTTCATTA
1 ATAAATCTGAATTTTCATTA
88766363 ATATCCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (21 bp):
ATAAATCTGAATTTTCATTAT
Found at i:88771888 original size:3 final size:3
Alignment explanation
Indices: 88771880--88771907 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
88771870 GCATATGAGA
88771880 CTG CTG CTG CTG CTG CTG CTG CTG CTG C
1 CTG CTG CTG CTG CTG CTG CTG CTG CTG C
88771908 CTCTGCCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.36, G:0.32, T:0.32
Consensus pattern (3 bp):
CTG
Found at i:88778479 original size:25 final size:25
Alignment explanation
Indices: 88778445--88778494 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
88778435 TTCCAAAGAC
88778445 CATATGCATTTAGATTTAAACTTTA
1 CATATGCATTTAGATTTAAACTTTA
*
88778470 CATATGCATTTAGATTTAAATTTTA
1 CATATGCATTTAGATTTAAACTTTA
88778495 ACTTATAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (25 bp):
CATATGCATTTAGATTTAAACTTTA
Found at i:88786997 original size:22 final size:22
Alignment explanation
Indices: 88786972--88787022 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
88786962 TGTTGTTTTA
88786972 AATTTTTATAAAATTACATATT
1 AATTTTTATAAAATTACATATT
* * ** *
88786994 AATTATAATAAAATTGTATTTT
1 AATTTTTATAAAATTACATATT
88787016 AATTTTT
1 AATTTTT
88787023 CAATAATTTA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
AATTTTTATAAAATTACATATT
Found at i:88789770 original size:15 final size:15
Alignment explanation
Indices: 88789750--88789781 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
88789740 GACATGAATG
*
88789750 ACAACAAAAATATTA
1 ACAACAAAAACATTA
88789765 ACAACAAAAACATTA
1 ACAACAAAAACATTA
88789780 AC
1 AC
88789782 GCGTATTCGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.19, G:0.00, T:0.16
Consensus pattern (15 bp):
ACAACAAAAACATTA
Found at i:88794359 original size:12 final size:12
Alignment explanation
Indices: 88794342--88794368 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
88794332 AAATATACTA
88794342 TTTTTATATTAT
1 TTTTTATATTAT
88794354 TTTTTATATTAT
1 TTTTTATATTAT
88794366 TTT
1 TTT
88794369 AGTGCATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTTATATTAT
Found at i:88794369 original size:10 final size:11
Alignment explanation
Indices: 88794335--88794368 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
88794325 TTTTTTAAAA
*
88794335 TATACTATTTT
1 TATATTATTTT
88794346 TATATTATTTTT
1 TATATTA-TTTT
88794358 TATATTATTTT
1 TATATTATTTT
88794369 AGTGCATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (11 bp):
TATATTATTTT
Found at i:88794548 original size:150 final size:149
Alignment explanation
Indices: 88794301--88794610 Score: 498
Period size: 150 Copynumber: 2.1 Consensus size: 149
88794291 TATATTTTGG
*
88794301 TATTTATTTTATTTTCTGATTTTATTTTTTAAAATATACTATTTTTATATTATTTTTTATATTAT
1 TATTTATTTTATTTTCTGATTTTATTTATTAAAATATACTATTTTTATATTATTTTTTATATTAT
* *
88794366 TTTAGTGCATAATTTTTCAAATGTATTATTTTAGTATTTTTTATATTAATTTAGTAAAAAACTCT
66 TTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTATATTAATTTAGTAAAAAACTCT
88794431 GATTTTGGCCCTTTTTTAT
131 GATTTTGGCCCTTTTTTAT
*
88794450 TATTTATTTTATTTT-TGGATTTTATTTATTAAAATATACTATTTTCGTATTTTA-TTTTTATAT
1 TATTTATTTTATTTTCT-GATTTTATTTATTAAAATATACTATTTT--TATATTATTTTTTATAT
* *
88794513 TATTTTAGTATATAATGTTTCAAATGTATTATTTTAGTGTTTTTTATATTAATTTAGTAAAAAAC
63 TATTTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTATATTAATTTAGTAAAAAAC
* *
88794578 TCTGGTTTTGGCCCTTTTTTCT
128 TCTGATTTTGGCCCTTTTTTAT
88794600 TATTTTATTTT
1 TA-TTTATTTT
88794611 TTAAAATAAA
Statistics
Matches: 149, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
148 1 0.01
149 42 0.28
150 92 0.62
151 14 0.09
ACGTcount: A:0.27, C:0.06, G:0.07, T:0.60
Consensus pattern (149 bp):
TATTTATTTTATTTTCTGATTTTATTTATTAAAATATACTATTTTTATATTATTTTTTATATTAT
TTTAGTACATAATGTTTCAAATGTATTATTTTAGTATTTTTTATATTAATTTAGTAAAAAACTCT
GATTTTGGCCCTTTTTTAT
Found at i:88797668 original size:35 final size:37
Alignment explanation
Indices: 88797622--88797691 Score: 108
Period size: 35 Copynumber: 1.9 Consensus size: 37
88797612 ATAATCTTTA
88797622 ATGATATGCAATATTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATATTAGATATGATAGCAATCTTAGAT
*
88797658 ATGAT-TGCAATCTTAGATATGATATGCAATCTTA
1 ATGATATGCAATATTAGATATGATA-GCAATCTTA
88797692 AAATATATGA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
35 18 0.58
36 5 0.16
37 8 0.26
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (37 bp):
ATGATATGCAATATTAGATATGATAGCAATCTTAGAT
Found at i:88797688 original size:19 final size:19
Alignment explanation
Indices: 88797622--88797691 Score: 110
Period size: 18 Copynumber: 3.8 Consensus size: 19
88797612 ATAATCTTTA
*
88797622 ATGATATGCAATATTAGAT
1 ATGATATGCAATCTTAGAT
88797641 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
88797658 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
88797676 ATGATATGCAATCTTA
1 ATGATATGCAATCTTA
88797692 AAATATATGA
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
17 15 0.32
18 16 0.34
19 16 0.34
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:88800262 original size:29 final size:29
Alignment explanation
Indices: 88800229--88800287 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
88800219 TTACTTATTC
88800229 TTTCGAACCTATATTAATTACGTAATGAT
1 TTTCGAACCTATATTAATTACGTAATGAT
88800258 TTTCGAACCTATATTAATTACGTAATGAT
1 TTTCGAACCTATATTAATTACGTAATGAT
88800287 T
1 T
88800288 CGTAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.14, G:0.10, T:0.42
Consensus pattern (29 bp):
TTTCGAACCTATATTAATTACGTAATGAT
Found at i:88809131 original size:22 final size:24
Alignment explanation
Indices: 88809106--88809151 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
88809096 AATATATATT
88809106 TAAAT-AATTAAAAA-AAAGAATG
1 TAAATAAATTAAAAACAAAGAATG
88809128 TAAATAAATTAAAAACTAAAGAAT
1 TAAATAAATTAAAAAC-AAAGAAT
88809152 TATACCTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.24
23 9 0.43
25 7 0.33
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (24 bp):
TAAATAAATTAAAAACAAAGAATG
Found at i:88810498 original size:17 final size:17
Alignment explanation
Indices: 88810473--88810512 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
88810463 GTTATTGGAT
* *
88810473 TAATAATTTAATATATA
1 TAATTATTTAACATATA
88810490 TAATTATTTAACATATA
1 TAATTATTTAACATATA
88810507 TAATTA
1 TAATTA
88810513 ATATAATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATTATTTAACATATA
Found at i:88810514 original size:21 final size:18
Alignment explanation
Indices: 88810471--88810521 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
88810461 TTGTTATTGG
88810471 ATTAATAATTTAATATAT
1 ATTAATAATTTAATATAT
* *
88810489 A-TAATTATTTAACATAT
1 ATTAATAATTTAATATAT
*
88810506 A-TAATTAATATAATAT
1 ATTAA-TAATTTAATAT
88810522 TTTTTATAAC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 18 0.67
18 9 0.33
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTAATAATTTAATATAT
Found at i:88817467 original size:15 final size:16
Alignment explanation
Indices: 88817449--88817478 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
88817439 TAATTCACTA
88817449 TAATA-TTAAAAATAT
1 TAATATTTAAAAATAT
88817464 TAATATTTAAAAATA
1 TAATATTTAAAAATA
88817479 ATTTAGCTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATATTTAAAAATAT
Found at i:88820837 original size:15 final size:15
Alignment explanation
Indices: 88820793--88820839 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
88820783 CACGTTAACT
88820793 TAAGTAACTAAAATA
1 TAAGTAACTAAAATA
* ** *
88820808 TAA-CATTTCAAATA
1 TAAGTAACTAAAATA
88820822 TAAGTAACTAAAATA
1 TAAGTAACTAAAATA
88820837 TAA
1 TAA
88820840 TCTGAGAGAG
Statistics
Matches: 23, Mismatches: 8, Indels: 2
0.70 0.24 0.06
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (15 bp):
TAAGTAACTAAAATA
Found at i:88820920 original size:7 final size:7
Alignment explanation
Indices: 88820908--88820947 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
88820898 AATCAACCTC
88820908 AAATTAG
1 AAATTAG
88820915 AAATTAG
1 AAATTAG
88820922 AAATTAG
1 AAATTAG
88820929 AAATTAG
1 AAATTAG
88820936 AAATTAG
1 AAATTAG
88820943 AAATT
1 AAATT
88820948 TTAAATAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (7 bp):
AAATTAG
Found at i:88820960 original size:21 final size:21
Alignment explanation
Indices: 88820915--88820960 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
88820905 CTCAAATTAG
* *
88820915 AAATTAGAAATTAGAAATTAG
1 AAATTAGAAATTAGAAATAAA
**
88820936 AAATTAGAAATTTTAAATAAA
1 AAATTAGAAATTAGAAATAAA
88820957 AAAT
1 AAAT
88820961 AAGATTTAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (21 bp):
AAATTAGAAATTAGAAATAAA
Found at i:88828591 original size:22 final size:21
Alignment explanation
Indices: 88828565--88828610 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
88828555 ATTATTGAAA
*
88828565 TAAAACAT-TATTATCAAAGAAT
1 TAAAACATCCATTAT-AAA-AAT
88828587 TAAAACATCCATTATAAAAAT
1 TAAAACATCCATTATAAAAAT
88828608 TAA
1 TAA
88828611 TTACTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 11 0.50
23 5 0.23
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (21 bp):
TAAAACATCCATTATAAAAAT
Found at i:88828974 original size:27 final size:28
Alignment explanation
Indices: 88828935--88828995 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
88828925 GCAATGTTGA
* * *
88828935 TTTTTGTAGATTCACGTTGG-AGTTTTT
1 TTTTTGTAAATTCACGGTGGAAATTTTT
88828962 TTTTTGTAAATTCACGGTGGAAATTTTT
1 TTTTTGTAAATTCACGGTGGAAATTTTT
88828990 TTTTTG
1 TTTTTG
88828996 AGATTTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 18 0.60
28 12 0.40
ACGTcount: A:0.18, C:0.07, G:0.20, T:0.56
Consensus pattern (28 bp):
TTTTTGTAAATTCACGGTGGAAATTTTT
Found at i:88831057 original size:18 final size:17
Alignment explanation
Indices: 88831025--88831058 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
88831015 GAGTCCTTAC
88831025 ATAATATCTAAATACAA
1 ATAATATCTAAATACAA
*
88831042 ATAATGTCTCAAATACA
1 ATAATATCT-AAATACA
88831059 TCATAAATGT
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:0.53, C:0.15, G:0.03, T:0.29
Consensus pattern (17 bp):
ATAATATCTAAATACAA
Found at i:88850832 original size:28 final size:29
Alignment explanation
Indices: 88850762--88850824 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
88850752 TGATGCGGCG
* *
88850762 AATTTTCGACAAAAATAGTCTAAATCCCT
1 AATTTTCAACTAAAATAGTCTAAATCCCT
*
88850791 AATTTTCAACTAAAATTGTCTAAATCCCT
1 AATTTTCAACTAAAATAGTCTAAATCCCT
88850820 -ATTTT
1 AATTTT
88850825 GTTTTAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
28 5 0.16
29 26 0.84
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (29 bp):
AATTTTCAACTAAAATAGTCTAAATCCCT
Found at i:88856339 original size:20 final size:20
Alignment explanation
Indices: 88856314--88856352 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
88856304 TGGAGCAGGA
*
88856314 ATATCGATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
88856334 ATATCGATACCTTAAGAAA
1 ATATCGATACCTTAAGAAA
88856353 AGGATTGATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:88859056 original size:27 final size:27
Alignment explanation
Indices: 88859006--88859061 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
88858996 GAAGTAACGA
* *
88859006 TATTCTGAATTATTATTAAATTATGAT
1 TATTCTGAATTATGATTAAATTATAAT
*
88859033 TATTCTGAATTCTGA-TAAATTTATAAT
1 TATTCTGAATTATGATTAAA-TTATAAT
88859060 TA
1 TA
88859062 AGTATTTACG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 4 0.16
27 21 0.84
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (27 bp):
TATTCTGAATTATGATTAAATTATAAT
Found at i:88859424 original size:44 final size:44
Alignment explanation
Indices: 88859361--88859448 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
88859351 GGCATGGAGC
88859361 TTAGTTTACAGTATTTACTTAGGCATGCATGACATTTAAATTAT
1 TTAGTTTACAGTATTTACTTAGGCATGCATGACATTTAAATTAT
*
88859405 TTAGTTTACGGTATTTACTTAGGCATGCATGACATTTAAATTAT
1 TTAGTTTACAGTATTTACTTAGGCATGCATGACATTTAAATTAT
88859449 ATAGGATATA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.43
Consensus pattern (44 bp):
TTAGTTTACAGTATTTACTTAGGCATGCATGACATTTAAATTAT
Found at i:88862111 original size:16 final size:17
Alignment explanation
Indices: 88862090--88862123 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
88862080 TCATATTATA
88862090 TATTATAA-AATTATTT
1 TATTATAAGAATTATTT
*
88862106 TATTATAAGTATTATTT
1 TATTATAAGAATTATTT
88862123 T
1 T
88862124 TAATATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TATTATAAGAATTATTT
Found at i:88874532 original size:117 final size:114
Alignment explanation
Indices: 88874305--88874639 Score: 506
Period size: 117 Copynumber: 2.9 Consensus size: 114
88874295 AATTGAAGAC
*
88874305 AGCAGATCTAGA-CTTCAGACATTTATGCTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTT
1 AGCAGATCTA-ACCTTCAG--ATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTT
88874369 TACAAGAAACAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATA
63 TACAAG-AACAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATA
88874422 TAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGAT-CAAGATGATTTGGTATTCTTGTGTT
1 -AGCAGATCTAACCTTCAGA--TTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTT
88874486 TACAAGGAACAAATCGAGGACATAGCAGA-TTGACTCTCAGACGTTCTCAAATA
63 TACAA-GAAC-AATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATA
88874539 A-CA-ATCTAACCTTCAGATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTAC
1 AGCAGATCTAACCTTCAGATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTAC
* *
88874602 AA-AACAATCGA-GACATAGTAGATTTTACTCTCA-ACGTT
66 AAGAACAATCGAGGACATAGCAGATTTGACTCTCAGACGTT
88874640 TCTATTAGCA
Statistics
Matches: 207, Mismatches: 3, Indels: 23
0.89 0.01 0.10
Matches are distributed among these distances:
109 15 0.07
110 15 0.07
111 3 0.01
112 17 0.08
113 30 0.14
114 14 0.07
115 2 0.01
116 2 0.01
117 58 0.28
118 51 0.25
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (114 bp):
AGCAGATCTAACCTTCAGATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTAC
AAGAACAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATA
Found at i:88885669 original size:119 final size:119
Alignment explanation
Indices: 88885458--88885930 Score: 768
Period size: 119 Copynumber: 4.0 Consensus size: 119
88885448 AATTGAAGAC
* * *
88885458 AGCAGATCTAGA-CTTCAGACATTTATGCTGAAACAGATCCAAGATGATTTGGTATTCTTGTGTT
1 AGCAGATCTA-ACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTT
* *
88885522 TACAAGAAACGAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
65 TACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAATAT
*
88885577 AGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATTCAAGATGATTTGGTATTCTTGTGTTT
1 AGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
* * *
88885642 ATAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
66 ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAATAT
*
88885696 AGCAAATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
1 AGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
* *
88885761 ACAAGAAACAAATCGAGGACATAGTAGATTTAACTCTCAAACGTTCTCAAATAT
66 ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAATAT
* *
88885815 AGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTC
1 AGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
* * * *
88885880 ACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAA
66 ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAA
88885931 CAGACTCAAG
Statistics
Matches: 330, Mismatches: 23, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
118 1 0.00
119 329 1.00
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.30
Consensus pattern (119 bp):
AGCAGATCTAACCTTCAGATATTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAATAT
Found at i:88886089 original size:84 final size:83
Alignment explanation
Indices: 88885871--88886123 Score: 391
Period size: 83 Copynumber: 3.0 Consensus size: 83
88885861 ATTTGGTATT
88885871 CTTGTG-TTCACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAACAGA
1 CTTGTGCTT-ACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAACAGA
** *
88885935 CTCAAGACAGTTTGGCATC
65 CTCAAGATGGTTTGACATC
*
88885954 CTTGTGCTTACAAGGAACAAATCAAGGACATTGCAGATATGACTCTCAAATGTTCTCAAACAGAC
1 CTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAACAGAC
*
88886019 TCAAGATGGTTTAAACATC
66 TCAAGATGGTTT-GACATC
* * * *
88886038 CTTGTGCTTACAAGGAACAAGTCGAGGACCTTGTAGATATGACTCTCAAATGATCTCAAACAGAC
1 CTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAACAGAC
*
88886103 TCAAGATGATTTGACATC
66 TCAAGATGGTTTGACATC
88886121 CTT
1 CTT
88886124 ACAAATCGAA
Statistics
Matches: 156, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
83 79 0.51
84 77 0.49
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (83 bp):
CTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAACAGAC
TCAAGATGGTTTGACATC
Found at i:88887664 original size:16 final size:17
Alignment explanation
Indices: 88887643--88887676 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
88887633 TCATATTATA
88887643 TATTATAA-AATTATTT
1 TATTATAAGAATTATTT
*
88887659 TATTATAAGTATTATTT
1 TATTATAAGAATTATTT
88887676 T
1 T
88887677 TAATATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TATTATAAGAATTATTT
Found at i:88890402 original size:47 final size:48
Alignment explanation
Indices: 88890328--88890556 Score: 188
Period size: 47 Copynumber: 4.9 Consensus size: 48
88890318 TGGGTAAGGT
* *
88890328 GTCGATGCCATGTCCTAGGCATGGTCTTACACTGGCTCAT-ATCTCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA
* * *
88890375 GTCGGTGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGTA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTC-AA
* * * * * *
88890423 GTCAATG-CATGTCCTAGGCAT-GTCTTACACTGGCTTAT-GTCTCGA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA
* * * * * *
88890468 GACCGATG-CATGTTCCAGAC-TTGTCTTACAGTAGCTC-TCGTCTCAA
1 G-TCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA
* * *
88890514 TGCCGATGCCATGTCCCAGAAATGGTGTTACACTGGCTC-TCAT
1 -GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAT
88890557 AATGTGGCTG
Statistics
Matches: 145, Mismatches: 28, Indels: 17
0.76 0.15 0.09
Matches are distributed among these distances:
45 4 0.03
46 56 0.39
47 63 0.43
48 22 0.15
ACGTcount: A:0.21, C:0.28, G:0.21, T:0.30
Consensus pattern (48 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA
Found at i:88890527 original size:93 final size:95
Alignment explanation
Indices: 88890330--88890552 Score: 224
Period size: 93 Copynumber: 2.4 Consensus size: 95
88890320 GGTAAGGTGT
* *
88890330 CGATGCCATGTCCTAGGCATGGTCTTACACTGGCTCATATCTCAAGTCGGTGCCATGTCCCAGAC
1 CGATGCCATGTCCTAGGCATGGTCTTACACTGGCTCATATCTCAAGCCGATGCCATGTCCCAGAC
* *
88890395 ATGGTCTTACACTGACTATCATCTCGTAGT
66 ATGGTCTTACACTGACTATCATCTCATAGC
* * * * *
88890425 CAATG-CATGTCCTAGGCAT-GTCTTACACTGGCTTATGTCTCGAGACCGATG-CATGTTCCAGA
1 CGATGCCATGTCCTAGGCATGGTCTTACACTGGCTCATATCTCAAG-CCGATGCCATGTCCCAGA
* * * *
88890487 C-TTGTCTTACAGT-AGCTCTCGTCTCA-ATGC
65 CATGGTCTTACACTGA-CTATCATCTCATA-GC
* ** *
88890517 CGATGCCATGTCCCAGAAATGGTGTTACACTGGCTC
1 CGATGCCATGTCCTAGGCATGGTCTTACACTGGCTC
88890553 TCATAATGTG
Statistics
Matches: 104, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
91 2 0.02
92 23 0.22
93 44 0.42
94 31 0.30
95 4 0.04
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.30
Consensus pattern (95 bp):
CGATGCCATGTCCTAGGCATGGTCTTACACTGGCTCATATCTCAAGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTGACTATCATCTCATAGC
Found at i:88893313 original size:2 final size:2
Alignment explanation
Indices: 88893306--88893330 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
88893296 ATATGTTTTA
88893306 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
88893331 AAATTCATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:88893556 original size:24 final size:24
Alignment explanation
Indices: 88893512--88893557 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
88893502 TTAATCTTAA
*
88893512 AATTTAATAAAATAATAAAAATAT
1 AATTTAATAAAAAAATAAAAATAT
*
88893536 AATTT-ATAGAAAAAATTAAAAT
1 AATTTAATA-AAAAAATAAAAAT
88893558 GTGAACATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 3 0.16
24 16 0.84
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
AATTTAATAAAAAAATAAAAATAT
Found at i:88894168 original size:12 final size:13
Alignment explanation
Indices: 88894144--88894172 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
88894134 CTTTGCGCCT
88894144 AAAAATCAGTAGA
1 AAAAATCAGTAGA
88894157 AAAAATCA-TAGA
1 AAAAATCAGTAGA
88894169 AAAA
1 AAAA
88894173 TAGAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.69, C:0.07, G:0.10, T:0.14
Consensus pattern (13 bp):
AAAAATCAGTAGA
Found at i:88895003 original size:11 final size:11
Alignment explanation
Indices: 88894987--88895026 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
88894977 TATTTACCAG
88894987 AAAAATAAGAT
1 AAAAATAAGAT
*
88894998 AAAAATAACA-
1 AAAAATAAGAT
*
88895008 AAAGATAAGAT
1 AAAAATAAGAT
88895019 AAAAATAA
1 AAAAATAA
88895027 CCAAAATATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.15
Consensus pattern (11 bp):
AAAAATAAGAT
Found at i:88895044 original size:22 final size:21
Alignment explanation
Indices: 88894987--88895037 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
88894977 TATTTACCAG
88894987 AAAA-ATAAGATAAAAATAAC
1 AAAAGATAAGATAAAAATAAC
88895007 AAAAGATAAGATAAAAATAACC
1 AAAAGATAAGATAAAAATAA-C
*
88895029 AAAATATAA
1 AAAAGATAA
88895038 CTCAAAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
20 4 0.14
21 15 0.54
22 9 0.32
ACGTcount: A:0.73, C:0.06, G:0.06, T:0.16
Consensus pattern (21 bp):
AAAAGATAAGATAAAAATAAC
Found at i:88903933 original size:34 final size:37
Alignment explanation
Indices: 88903892--88903964 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 37
88903882 TGAATCAAAG
88903892 TTAATTGGT-TCATGTAA-C-AAA-AAAAAAGAGTTAA
1 TTAATTGGTCT-ATGTAACCAAAAGAAAAAAGAGTTAA
88903926 TTAATTGGTCTATGTAACCAAAAAGAAAAAAGAGTTAA
1 TTAATTGGTCTATGTAACC-AAAAGAAAAAAGAGTTAA
88903964 T
1 T
88903965 GGTTTCAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
34 15 0.44
35 2 0.06
37 3 0.09
38 14 0.41
ACGTcount: A:0.49, C:0.07, G:0.15, T:0.29
Consensus pattern (37 bp):
TTAATTGGTCTATGTAACCAAAAGAAAAAAGAGTTAA
Found at i:88906462 original size:38 final size:40
Alignment explanation
Indices: 88906373--88906462 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 40
88906363 TCACACATTA
*
88906373 AAAATATCTATATTAAAAAAAAACTACCATAAATATGATAAAT
1 AAAATAT-TATATTAAAAAAAAAC-A-CATAAATATAATAAAT
** *
88906416 AATTTATTATATTAAAAACAAA-A-ATAAATATAATAAAT
1 AAAATATTATATTAAAAAAAAACACATAAATATAATAAAT
88906454 AAAATATTA
1 AAAATATTA
88906463 AAAAAAATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
38 21 0.51
40 1 0.02
42 14 0.34
43 5 0.12
ACGTcount: A:0.62, C:0.06, G:0.01, T:0.31
Consensus pattern (40 bp):
AAAATATTATATTAAAAAAAAACACATAAATATAATAAAT
Found at i:88907284 original size:12 final size:11
Alignment explanation
Indices: 88907262--88907300 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
88907252 AAAATTATTT
88907262 AATTT-TTTTG
1 AATTTATTTTG
88907272 AAATTTATTTTG
1 -AATTTATTTTG
88907284 AATTTATTTTG
1 AATTTATTTTG
88907295 TAATTT
1 -AATTT
88907301 TTGATGAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (11 bp):
AATTTATTTTG
Found at i:88907466 original size:14 final size:14
Alignment explanation
Indices: 88907447--88907474 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
88907437 CTGACTTGAA
88907447 TAATTCGATTAACT
1 TAATTCGATTAACT
88907461 TAATTCGATTAACT
1 TAATTCGATTAACT
88907475 CGAAATTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (14 bp):
TAATTCGATTAACT
Found at i:88908892 original size:12 final size:12
Alignment explanation
Indices: 88908875--88908901 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
88908865 ATAAAATGAT
88908875 ATTATGTTAATA
1 ATTATGTTAATA
88908887 ATTATGTTAATA
1 ATTATGTTAATA
88908899 ATT
1 ATT
88908902 TACAAGAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
ATTATGTTAATA
Found at i:88911651 original size:16 final size:18
Alignment explanation
Indices: 88911617--88911653 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
88911607 CGATTTAATT
88911617 TAAAATATAAAATTATTA
1 TAAAATATAAAATTATTA
*
88911635 TAAAATA-ATAATT-TTA
1 TAAAATATAAAATTATTA
88911651 TAA
1 TAA
88911654 TATTAACCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 5 0.28
18 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAAATATAAAATTATTA
Found at i:88912863 original size:15 final size:15
Alignment explanation
Indices: 88912835--88912866 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
88912825 TAGACTCTTT
88912835 TACAACATTAAAAAA
1 TACAACATTAAAAAA
88912850 TACACACATTAAAAAA
1 TACA-ACATTAAAAAA
88912866 T
1 T
88912867 TAGAACTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.62, C:0.16, G:0.00, T:0.22
Consensus pattern (15 bp):
TACAACATTAAAAAA
Found at i:88922126 original size:24 final size:24
Alignment explanation
Indices: 88922098--88922145 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
88922088 TAAAAGATTG
* *
88922098 AGTATTTATTAGTATAATATATTT
1 AGTATTCATTAGCATAATATATTT
*
88922122 AGTATTCATTAGCATAATTTATTT
1 AGTATTCATTAGCATAATATATTT
88922146 GACCTACGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.52
Consensus pattern (24 bp):
AGTATTCATTAGCATAATATATTT
Found at i:88930965 original size:20 final size:22
Alignment explanation
Indices: 88930936--88930977 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
88930926 GAGCAGCCCA
88930936 CCGGAGAAG-CCCATTGACCAC
1 CCGGAGAAGCCCCATTGACCAC
*
88930957 CCGGA-AAGCCCCTTTGACCAC
1 CCGGAGAAGCCCCATTGACCAC
88930978 TACTTTAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.26, C:0.40, G:0.21, T:0.12
Consensus pattern (22 bp):
CCGGAGAAGCCCCATTGACCAC
Found at i:88935571 original size:19 final size:19
Alignment explanation
Indices: 88935544--88935587 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
88935534 TTTCTCGTTG
*
88935544 TTAGCGAGAAAAGGATTTA
1 TTAGTGAGAAAAGGATTTA
88935563 TTAGTGAGAAAAGGATTTA
1 TTAGTGAGAAAAGGATTTA
88935582 TTAGTG
1 TTAGTG
88935588 GTGTATTCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.39, C:0.02, G:0.27, T:0.32
Consensus pattern (19 bp):
TTAGTGAGAAAAGGATTTA
Found at i:88938697 original size:6 final size:6
Alignment explanation
Indices: 88938686--88938729 Score: 79
Period size: 6 Copynumber: 7.3 Consensus size: 6
88938676 TTTTACATCA
*
88938686 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATATAT AT
1 ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT AT
88938730 TTTTTTGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
ATAAAT
Found at i:88944307 original size:3 final size:3
Alignment explanation
Indices: 88944299--88944348 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
88944289 TCTAAGAATT
88944299 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
88944347 AG
1 AG
88944349 CAGCAGCAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:88948612 original size:12 final size:12
Alignment explanation
Indices: 88948595--88948621 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
88948585 TGGATACTCG
88948595 ATTTTTTTATTA
1 ATTTTTTTATTA
88948607 ATTTTTTTATTA
1 ATTTTTTTATTA
88948619 ATT
1 ATT
88948622 GAATTGGTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
ATTTTTTTATTA
Found at i:88949118 original size:91 final size:90
Alignment explanation
Indices: 88948952--88949118 Score: 192
Period size: 91 Copynumber: 1.8 Consensus size: 90
88948942 TTTTACATTC
* * * * * * **
88948952 AATTGGGTATTTGAATTTTTAAAATGCATAAAAAACACCCTCAAACTTTTTCAAAAAAACAATAA
1 AATTGGATACTTGAATTGTCAAAATGCATAAAAAAAAACCTCAAAAATTTTCAAAAAAACAAT-A
* **
88949017 TTAAGTCCCTTCATTTTTTTCCACCT
65 TAAACCCCCTTCATTTTTTTCCACCT
*
88949043 AATTGGATACTTGAATTGTCAAAATGCATAAAAAAAAGACCTTAAAAATTTTCAAAAAAAGCAAT
1 AATTGGATACTTGAATTGTCAAAATGCATAAAAAAAA-ACCTCAAAAATTTTCAAAAAAA-CAAT
88949108 -TAAACCCCCTT
64 ATAAACCCCCTT
88949119 TTTATTTGCA
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
91 40 0.65
92 18 0.29
93 4 0.06
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (90 bp):
AATTGGATACTTGAATTGTCAAAATGCATAAAAAAAAACCTCAAAAATTTTCAAAAAAACAATAT
AAACCCCCTTCATTTTTTTCCACCT
Found at i:88949273 original size:9 final size:9
Alignment explanation
Indices: 88949259--88949370 Score: 56
Period size: 10 Copynumber: 12.3 Consensus size: 9
88949249 ACATGTGACA
88949259 AAAAATTAT
1 AAAAATTAT
88949268 -AAAA--AT
1 AAAAATTAT
*
88949274 AAAAATCAAT
1 AAAAAT-TAT
88949284 AAAAATTAT
1 AAAAATTAT
* *
88949293 TAAATTTCAAT
1 AAAAATT--AT
88949304 AAAAA-TAT
1 AAAAATTAT
88949312 AAAATATT-T
1 AAAA-ATTAT
*
88949321 AAAATTTACT
1 AAAAATTA-T
* *
88949331 AAAAAATAG
1 AAAAATTAT
88949340 AAAAA-TAT
1 AAAAATTAT
*
88949348 AAAAATCAT
1 AAAAATTAT
88949357 AAAATAATTAT
1 -AAA-AATTAT
88949368 AAA
1 AAA
88949371 TTTGTCAAAT
Statistics
Matches: 78, Mismatches: 12, Indels: 25
0.68 0.10 0.22
Matches are distributed among these distances:
6 2 0.03
7 4 0.05
8 19 0.24
9 20 0.26
10 23 0.29
11 10 0.13
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:88949314 original size:28 final size:26
Alignment explanation
Indices: 88949271--88949351 Score: 72
Period size: 28 Copynumber: 2.9 Consensus size: 26
88949261 AAATTATAAA
*
88949271 AATAAAAATCAATAAAAATTATTAAATTT
1 AATAAAAAT--ATAAAAATT-TAAAATTT
88949300 CAATAAAAATATAAAATATTTAAAATTT
1 -AATAAAAATATAAAA-ATTTAAAATTT
* * *
88949328 ACTAAAAAATAGAAAAATATAAAA
1 AAT-AAAAATATAAAAATTTAAAA
88949352 ATCATAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
27 9 0.20
28 24 0.53
29 3 0.07
30 9 0.20
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.30
Consensus pattern (26 bp):
AATAAAAATATAAAAATTTAAAATTT
Found at i:88953141 original size:23 final size:22
Alignment explanation
Indices: 88953098--88953143 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
88953088 ACAAATTGAT
*
88953098 ATTAGTGAGTCAAAAGTAAAAA
1 ATTAGTGAGTCAAAAATAAAAA
88953120 ATTAGTGA-TCCAAAAATAAAAA
1 ATTAGTGAGT-CAAAAATAAAAA
88953142 AT
1 AT
88953144 CAGTAACCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.57, C:0.07, G:0.13, T:0.24
Consensus pattern (22 bp):
ATTAGTGAGTCAAAAATAAAAA
Found at i:88953153 original size:21 final size:22
Alignment explanation
Indices: 88953108--88953154 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
88953098 ATTAGTGAGT
* * *
88953108 CAAAAGTAAAAAATTAGTGATC
1 CAAAAATAAAAAATCAGTGAAC
88953130 CAAAAATAAAAAATCAGT-AAC
1 CAAAAATAAAAAATCAGTGAAC
88953151 CAAA
1 CAAA
88953155 CACTTCGAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.62, C:0.13, G:0.09, T:0.17
Consensus pattern (22 bp):
CAAAAATAAAAAATCAGTGAAC
Found at i:88953543 original size:7 final size:7
Alignment explanation
Indices: 88953533--88953566 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
88953523 CTTAAAACAT
88953533 AAAAATA
1 AAAAATA
88953540 AAAAATA
1 AAAAATA
*
88953547 GAAAATA
1 AAAAATA
88953554 AAAAATA
1 AAAAATA
88953561 AAAAAT
1 AAAAAT
88953567 CTGAGTTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (7 bp):
AAAAATA
Found at i:88953551 original size:14 final size:13
Alignment explanation
Indices: 88953525--88953564 Score: 62
Period size: 14 Copynumber: 3.0 Consensus size: 13
88953515 ATTTCATGCT
*
88953525 TAAAACATAAAAA
1 TAAAAAATAAAAA
88953538 TAAAAAATAGAAAA
1 TAAAAAATA-AAAA
88953552 TAAAAAATAAAAA
1 TAAAAAATAAAAA
88953565 ATCTGAGTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.15
Consensus pattern (13 bp):
TAAAAAATAAAAA
Found at i:88953740 original size:19 final size:20
Alignment explanation
Indices: 88953708--88953751 Score: 72
Period size: 19 Copynumber: 2.2 Consensus size: 20
88953698 CGGAAAATGA
*
88953708 TTTCTAGAAAATGATTTATT
1 TTTCTAGAAAATGATTTACT
88953728 TTTCTAG-AAATGATTTACT
1 TTTCTAGAAAATGATTTACT
88953747 TTTCT
1 TTTCT
88953752 GGTGTTTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (20 bp):
TTTCTAGAAAATGATTTACT
Found at i:88953817 original size:17 final size:17
Alignment explanation
Indices: 88953795--88953828 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
88953785 ATTGTTTGAC
88953795 AGATTTCCTGAAAATAT
1 AGATTTCCTGAAAATAT
88953812 AGATTTCCTGAAAATAT
1 AGATTTCCTGAAAATAT
88953829 TTTCCGGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (17 bp):
AGATTTCCTGAAAATAT
Found at i:88954117 original size:30 final size:30
Alignment explanation
Indices: 88954081--88954140 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
88954071 ATTTTTGGAC
*
88954081 TAAAGTTCATACCAGACAATAATATACAAA
1 TAAAGTTCAGACCAGACAATAATATACAAA
88954111 TAAAGTTCAGACCAGACAATAATATACAAA
1 TAAAGTTCAGACCAGACAATAATATACAAA
88954141 GAATGAAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.53, C:0.17, G:0.08, T:0.22
Consensus pattern (30 bp):
TAAAGTTCAGACCAGACAATAATATACAAA
Found at i:88960053 original size:30 final size:30
Alignment explanation
Indices: 88959972--88960057 Score: 100
Period size: 36 Copynumber: 2.7 Consensus size: 30
88959962 TAAAATATCA
88959972 ATAATATCGATAGGTTGATATTTATGGTTG
1 ATAATATCGATAGGTTGATATTTATGGTTG
* *
88960002 ATAAAAAAATGAACTATAGGTTGATATTTATGGTTG
1 AT-----AAT-ATCGATAGGTTGATATTTATGGTTG
88960038 ATAATATCGATAGGTTGATA
1 ATAATATCGATAGGTTGATA
88960058 AAATGAACGA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
30 15 0.33
31 3 0.07
35 3 0.07
36 25 0.54
ACGTcount: A:0.37, C:0.03, G:0.21, T:0.38
Consensus pattern (30 bp):
ATAATATCGATAGGTTGATATTTATGGTTG
Found at i:88964632 original size:23 final size:23
Alignment explanation
Indices: 88964606--88964664 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
88964596 ACTTAATAGT
*
88964606 AATCATATAACCAGAATGACACA
1 AATCATATAACCAGAACGACACA
*
88964629 AATCACATAACCAGAACGACACA
1 AATCATATAACCAGAACGACACA
*
88964652 AATCGTATAACCA
1 AATCATATAACCA
88964665 AAAGAGAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.51, C:0.25, G:0.08, T:0.15
Consensus pattern (23 bp):
AATCATATAACCAGAACGACACA
Found at i:88966630 original size:12 final size:12
Alignment explanation
Indices: 88966613--88966646 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
88966603 ACAGACCTAT
88966613 AAAAAAGAAAAG
1 AAAAAAGAAAAG
88966625 AAAAAAGAAAAG
1 AAAAAAGAAAAG
*
88966637 AAAAAGGAAA
1 AAAAAAGAAA
88966647 GAGGAGGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:88966640 original size:11 final size:11
Alignment explanation
Indices: 88966614--88966648 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
88966604 CAGACCTATA
88966614 AAAAAGAAAAG
1 AAAAAGAAAAG
88966625 AAAAAAGAAAAG
1 -AAAAAGAAAAG
*
88966637 AAAAAGGAAAG
1 AAAAAGAAAAG
88966648 A
1 A
88966649 GGAGGGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:88967715 original size:6 final size:6
Alignment explanation
Indices: 88967700--88967736 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
88967690 TTTAAAATTC
*
88967700 AATA-A AATATA AATATA AATATA AGTATA AATATA AA
1 AATATA AATATA AATATA AATATA AATATA AATATA AA
88967737 CAAAAAATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
5 4 0.14
6 25 0.86
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (6 bp):
AATATA
Found at i:88969196 original size:10 final size:10
Alignment explanation
Indices: 88969167--88969198 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
88969157 TAATTTATGG
*
88969167 TACAAATTGG
1 TACAAATTGA
88969177 TACAAATTGA
1 TACAAATTGA
88969187 TACAAATTGA
1 TACAAATTGA
88969197 TA
1 TA
88969199 ATAGGTTAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.31
Consensus pattern (10 bp):
TACAAATTGA
Found at i:88969232 original size:26 final size:26
Alignment explanation
Indices: 88969194--88969277 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
88969184 TGATACAAAT
* *
88969194 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
88969220 TCATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
88969246 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
88969272 TGATAA
1 TGATAA
88969278 GAATTTCATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:88972809 original size:7 final size:7
Alignment explanation
Indices: 88972797--88972821 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
88972787 TTGGACAAAT
88972797 TTTTATA
1 TTTTATA
88972804 TTTTATA
1 TTTTATA
88972811 TTTTATA
1 TTTTATA
88972818 TTTT
1 TTTT
88972822 TTTAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTATA
Found at i:88976749 original size:93 final size:93
Alignment explanation
Indices: 88976590--88976776 Score: 374
Period size: 93 Copynumber: 2.0 Consensus size: 93
88976580 TAGCTAAATT
88976590 TAACTATTAATCTTTCAAAAATAATCAAATTATTTTTTTAATAGAAATGTATATTTTAACAATAT
1 TAACTATTAATCTTTCAAAAATAATCAAATTATTTTTTTAATAGAAATGTATATTTTAACAATAT
88976655 TGGAGTGCAAACTATCATGTACTTCATG
66 TGGAGTGCAAACTATCATGTACTTCATG
88976683 TAACTATTAATCTTTCAAAAATAATCAAATTATTTTTTTAATAGAAATGTATATTTTAACAATAT
1 TAACTATTAATCTTTCAAAAATAATCAAATTATTTTTTTAATAGAAATGTATATTTTAACAATAT
88976748 TGGAGTGCAAACTATCATGTACTTCATG
66 TGGAGTGCAAACTATCATGTACTTCATG
88976776 T
1 T
88976777 TAACATGACA
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 94 1.00
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.41
Consensus pattern (93 bp):
TAACTATTAATCTTTCAAAAATAATCAAATTATTTTTTTAATAGAAATGTATATTTTAACAATAT
TGGAGTGCAAACTATCATGTACTTCATG
Found at i:88977904 original size:26 final size:27
Alignment explanation
Indices: 88977856--88977910 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
88977846 CTTAATATTT
* *
88977856 AAGTAAATATATATAATATAATAA-TA
1 AAGTAAATATATATAAAAAAATAAGTA
88977882 AAGTAAATATA-ATAAAACAAATAAGTA
1 AAGTAAATATATATAAAA-AAATAAGTA
88977909 AA
1 AA
88977911 TGAAATAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.20
26 16 0.64
27 4 0.16
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.27
Consensus pattern (27 bp):
AAGTAAATATATATAAAAAAATAAGTA
Found at i:88977907 original size:22 final size:23
Alignment explanation
Indices: 88977855--88977919 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 23
88977845 ACTTAATATT
88977855 TAAGTAAATATATATAATATAATAA
1 TAAGTAAATATA-ATAA-ATAATAA
88977880 TAAAGTAAATATAATAAA-ACA-AA
1 T-AAGTAAATATAATAAATA-ATAA
88977903 TAAGTAAATGA-AATAAA
1 TAAGTAAAT-ATAATAAA
88977920 GAAAGACAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
22 14 0.38
23 5 0.14
24 2 0.05
25 5 0.14
26 11 0.30
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.28
Consensus pattern (23 bp):
TAAGTAAATATAATAAATAATAA
Found at i:88978657 original size:5 final size:5
Alignment explanation
Indices: 88978629--88978675 Score: 60
Period size: 5 Copynumber: 9.4 Consensus size: 5
88978619 CACTTTGATT
* *
88978629 ATTGA ATTGA TTTAA AGTTG- ATTGA ATTGA ATTGA ATTGA ATTGA AT
1 ATTGA ATTGA ATTGA A-TTGA ATTGA ATTGA ATTGA ATTGA ATTGA AT
88978676 ATATGTGTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
4 3 0.08
5 31 0.86
6 2 0.06
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.43
Consensus pattern (5 bp):
ATTGA
Found at i:88995449 original size:44 final size:44
Alignment explanation
Indices: 88995385--88995878 Score: 792
Period size: 44 Copynumber: 11.2 Consensus size: 44
88995375 GGTAAATCTT
* * *
88995385 GCAGATTTGGCATCTCTGTATTGGTGGAGAGCAGATCAAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
*
88995429 ACAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* * *
88995473 GCAGATTCGGCGTCTCTGTATTGGCAGAGAGCAGATCGAAGGTA
1 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* *
88995517 GCAGATTTGGCGTCTCTGTAGTGGCGAAGAGCAGATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
*
88995561 GCAGATTTGGCGTTTCTGTATTGGCGG-GAAGCAGATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCGGAG-AGCAGATCGAAGATA
* *
88995605 GCAGATTTGGTGTCTCTGTATTGGCAGAGAGCAGATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
*
88995649 GTAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
*
88995693 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAAATA
1 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
88995737 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* *
88995781 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAAATCAAAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* * *
88995825 GCAGATTTGGCGTCTATGTATTGGCGGAGAGCAAATCGCAGATA
1 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
*
88995869 GCAAATTTGG
1 GCAGATTTGG
88995879 TGTTCCTGAG
Statistics
Matches: 417, Mismatches: 31, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
43 1 0.00
44 415 1.00
45 1 0.00
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (44 bp):
GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATA
Found at i:88996598 original size:17 final size:17
Alignment explanation
Indices: 88996566--88996599 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
88996556 AAAAATGGAT
88996566 TTTTATTTTTTCTTTTC
1 TTTTATTTTTTCTTTTC
88996583 TTTT-TTTTTTCATTTTC
1 TTTTATTTTTTC-TTTTC
88996600 GGATATAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTATTTTTTCTTTTC
Found at i:89004793 original size:26 final size:26
Alignment explanation
Indices: 89004759--89004813 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
89004749 GTAATGCCTC
89004759 GTACCCTATTCCGGCAATGAATACGG
1 GTACCCTATTCCGGCAATGAATACGG
89004785 GTACCCTATTCCGGCAATGAATACGG
1 GTACCCTATTCCGGCAATGAATACGG
89004811 GTA
1 GTA
89004814 GGGGTATTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (26 bp):
GTACCCTATTCCGGCAATGAATACGG
Found at i:89008210 original size:16 final size:16
Alignment explanation
Indices: 89008189--89008219 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
89008179 AAATAAAGGA
89008189 ATTTATGTGTATGAAT
1 ATTTATGTGTATGAAT
*
89008205 ATTTATGTTTATGAA
1 ATTTATGTGTATGAA
89008220 ATCCTTCATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (16 bp):
ATTTATGTGTATGAAT
Found at i:89009020 original size:18 final size:17
Alignment explanation
Indices: 89008997--89009030 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
89008987 ATAACTTTTA
89008997 AAAGTAAAAACTAAAAAC
1 AAAGT-AAAACTAAAAAC
*
89009015 AAAGTAATACTAAAAA
1 AAAGTAAAACTAAAAA
89009031 AATCAACAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.71, C:0.09, G:0.06, T:0.15
Consensus pattern (17 bp):
AAAGTAAAACTAAAAAC
Found at i:89015469 original size:18 final size:18
Alignment explanation
Indices: 89015445--89015537 Score: 141
Period size: 18 Copynumber: 5.2 Consensus size: 18
89015435 CCCAACTACT
*
89015445 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* *
89015463 ATATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
89015481 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
*
89015499 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
89015517 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
89015535 GTA
1 GTA
89015538 AACGGTCGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:89025708 original size:72 final size:72
Alignment explanation
Indices: 89025591--89025738 Score: 278
Period size: 72 Copynumber: 2.1 Consensus size: 72
89025581 AAAACAAAAG
89025591 AAATCACTTCAGTAACATTTAACTTGTTGAAACATGATCTAAGAGCAAGCACCATAAATATGAGA
1 AAATCACTTCAGTAACATTTAACTTGTTGAAACATGATCTAAGAGCAAGCACCATAAATATGAGA
89025656 AACATGA
66 AACATGA
*
89025663 AAATCACTTCAGTAACATTTAACTTGTTGAAACATGATCTAAGAGCAAGCACCATATATATGAGA
1 AAATCACTTCAGTAACATTTAACTTGTTGAAACATGATCTAAGAGCAAGCACCATAAATATGAGA
*
89025728 AATATGA
66 AACATGA
89025735 AAAT
1 AAAT
89025739 ATATAGCCTA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 74 1.00
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.26
Consensus pattern (72 bp):
AAATCACTTCAGTAACATTTAACTTGTTGAAACATGATCTAAGAGCAAGCACCATAAATATGAGA
AACATGA
Found at i:89028535 original size:30 final size:28
Alignment explanation
Indices: 89028456--89028535 Score: 74
Period size: 29 Copynumber: 2.7 Consensus size: 28
89028446 TTTATTACAT
* *
89028456 TTTTAATAAAAATATAAGAAATGTTTAAT
1 TTTT-ATAAAAATATAAAAAATGTTTAAA
89028485 TTTTATTAAAAAT-TAGAAAAAT-TTGTAAAA
1 TTTTA-TAAAAATATA-AAAAATGTT-T-AAA
89028515 TTTTATAAAAATCATAAAAAA
1 TTTTATAAAAAT-ATAAAAAA
89028536 ATTATAAATT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
28 5 0.12
29 24 0.56
30 12 0.28
31 2 0.05
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (28 bp):
TTTTATAAAAATATAAAAAATGTTTAAA
Found at i:89028641 original size:21 final size:20
Alignment explanation
Indices: 89028581--89028641 Score: 56
Period size: 19 Copynumber: 3.0 Consensus size: 20
89028571 TTTTATAAAG
*
89028581 TTGTAAAA-AATATAAAAAAA
1 TTGTAAAAGAATAT-AAAAAT
*
89028601 TTG-CAAAGAA-ATATAAAAT
1 TTGTAAAAGAATATA-AAAAT
89028620 TTGTAAAAGAATTATAAAAAT
1 TTGTAAAAGAA-TATAAAAAT
89028641 T
1 T
89028642 ATCATATCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
18 1 0.03
19 12 0.36
20 11 0.33
21 6 0.18
22 3 0.09
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.30
Consensus pattern (20 bp):
TTGTAAAAGAATATAAAAAT
Found at i:89028870 original size:9 final size:9
Alignment explanation
Indices: 89028858--89028928 Score: 56
Period size: 9 Copynumber: 7.6 Consensus size: 9
89028848 TTTTTACATT
89028858 TTTTTTATA
1 TTTTTTATA
89028867 TTTTTGTATGA
1 TTTTT-TAT-A
89028878 -TTTTTATA
1 TTTTTTATA
89028886 TTTTTCTA-A
1 TTTTT-TATA
*
89028895 TTTTTAGTAAA
1 TTTTT--TATA
**
89028906 TTTTAAATA
1 TTTTTTATA
89028915 TTTTTTATA
1 TTTTTTATA
89028924 TTTTT
1 TTTTT
89028929 ATTGAAGTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
8 1 0.02
9 32 0.64
10 11 0.22
11 6 0.12
ACGTcount: A:0.25, C:0.01, G:0.04, T:0.69
Consensus pattern (9 bp):
TTTTTTATA
Found at i:89028889 original size:29 final size:28
Alignment explanation
Indices: 89028848--89028929 Score: 78
Period size: 29 Copynumber: 2.9 Consensus size: 28
89028838 ATTTATAATT
*
89028848 TTTTTACATTTTTTTTATATTTTT-GTATGA
1 TTTTTA-AATTTTTTTATATTTTTAGTA--A
* *
89028878 TTTTTATATTTTTCTA-ATTTTTAGTAA
1 TTTTTAAATTTTTTTATATTTTTAGTAA
*
89028905 ATTTTAAATATTTTTTATATTTTTA
1 TTTTTAAAT-TTTTTTATATTTTTA
89028930 TTGAAGTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
27 8 0.19
28 12 0.28
29 17 0.40
30 6 0.14
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (28 bp):
TTTTTAAATTTTTTTATATTTTTAGTAA
Found at i:89028942 original size:28 final size:28
Alignment explanation
Indices: 89028849--89028955 Score: 92
Period size: 28 Copynumber: 3.8 Consensus size: 28
89028839 TTTATAATTT
* *
89028849 TTTTACATTTTTTTTATATTTTTGTATG-A
1 TTTTA-ATATTTTTTATATTTTTAT-TGAA
* * *
89028878 TTTTTATATTTTTCTA-ATTTTTAGTAAA
1 TTTTAATATTTTT-TATATTTTTATTGAA
89028906 TTTTAAATATTTTTTATATTTTTATTGAA
1 TTTT-AATATTTTTTATATTTTTATTGAA
* * *
89028935 GTTTAATATTTTATAAATTTT
1 TTTTAATATTTTTTATATTTT
89028956 ATTTTTTTAT
Statistics
Matches: 63, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
27 1 0.02
28 35 0.56
29 27 0.43
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (28 bp):
TTTTAATATTTTTTATATTTTTATTGAA
Found at i:89032315 original size:24 final size:24
Alignment explanation
Indices: 89032288--89032333 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
89032278 CGCAAGAGCG
*
89032288 TCCCGTTATTAGCTCTCATAAGCA
1 TCCCGATATTAGCTCTCATAAGCA
* *
89032312 TCCCGATATTGGCTCTCTTAAG
1 TCCCGATATTAGCTCTCATAAG
89032334 TTACCCGATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (24 bp):
TCCCGATATTAGCTCTCATAAGCA
Found at i:89032508 original size:49 final size:51
Alignment explanation
Indices: 89032430--89032568 Score: 144
Period size: 49 Copynumber: 2.8 Consensus size: 51
89032420 ACACACCGCA
* * ** *
89032430 GCTCT-TATGAGCGTCCCGAT-ATATGGCTCTCTGGAGCTTCCCG-TTTATG
1 GCTCTCTATGAGCTTCCCAATAAT-TGGCTCTCTGGAGCTTCCCGATAAAAG
* * *
89032479 GCT-TGTATGAGCTTCCCAATAATTGGCTCTCTAGAGCTTCTCGATAAAAG
1 GCTCTCTATGAGCTTCCCAATAATTGGCTCTCTGGAGCTTCCCGATAAAAG
89032529 GCTCTCTCATGAGCTTCCCAATTAA-TGGCTCTCTGGAGCT
1 GCTCTCT-ATGAGCTTCCCAA-TAATTGGCTCTCTGGAGCT
89032569 ACCCAATATT
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
48 1 0.01
49 34 0.45
50 8 0.11
51 2 0.03
52 27 0.36
53 3 0.04
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (51 bp):
GCTCTCTATGAGCTTCCCAATAATTGGCTCTCTGGAGCTTCCCGATAAAAG
Found at i:89032515 original size:25 final size:24
Alignment explanation
Indices: 89032430--89032583 Score: 105
Period size: 25 Copynumber: 6.2 Consensus size: 24
89032420 ACACACCGCA
* *
89032430 GCTCT-TATGAGCGTCCCGATATATG
1 GCTCTCTA-GAGCTTCCCAATA-ATG
* ** *
89032455 GCTCTCTGGAGCTTCCCGTTTATG
1 GCTCTCTAGAGCTTCCCAATAATG
*
89032479 GCT-TGTATGAGCTTCCCAATAATTG
1 GCTCTCTA-GAGCTTCCCAATAA-TG
* * *
89032504 GCTCTCTAGAGCTTCTCGATAAAAG
1 GCTCTCTAGAGCTTCCCAAT-AATG
89032529 GCTCTCTCATGAGCTTCCCAATTAATG
1 GCTCTCT-A-GAGCTTCCCAA-TAATG
* * *
89032556 GCTCTCTGGAGCTACCCAATATTG
1 GCTCTCTAGAGCTTCCCAATAATG
89032580 GCTC
1 GCTC
89032584 ACATGAGCTT
Statistics
Matches: 102, Mismatches: 19, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
23 2 0.02
24 25 0.25
25 48 0.47
26 7 0.07
27 19 0.19
28 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.32
Consensus pattern (24 bp):
GCTCTCTAGAGCTTCCCAATAATG
Found at i:89032591 original size:24 final size:25
Alignment explanation
Indices: 89032536--89032592 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
89032526 AAGGCTCTCT
* *
89032536 CATGAGCTTCCCAATTAATGGCTCT
1 CATGAGCTACCCAATTAATGGCTCA
*
89032561 C-TGGAGCTACCCAA-TATTGGCTCA
1 CAT-GAGCTACCCAATTAATGGCTCA
89032585 CATGAGCT
1 CATGAGCT
89032593 TCTTGTCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
24 15 0.56
25 12 0.44
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (25 bp):
CATGAGCTACCCAATTAATGGCTCA
Found at i:89032607 original size:25 final size:25
Alignment explanation
Indices: 89032578--89032633 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
89032568 TACCCAATAT
*
89032578 TGGCTCACATGAGCTTCTTGTCATA
1 TGGCTCACATGAGCTTCTTATCATA
*
89032603 TGGCTCACATGAGCTTCTTATTATA
1 TGGCTCACATGAGCTTCTTATCATA
89032628 TGGCTC
1 TGGCTC
89032634 GAAAGGGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.38
Consensus pattern (25 bp):
TGGCTCACATGAGCTTCTTATCATA
Found at i:89041928 original size:76 final size:77
Alignment explanation
Indices: 89041836--89042022 Score: 216
Period size: 76 Copynumber: 2.4 Consensus size: 77
89041826 ACAAGTAACT
* ** * *
89041836 CGAGAATCTACAACAAGGCTAGATCTCATTATATTACCTGAGAATTTGCAATA-AGGCTAGACCT
1 CGAGAATCTAAAACAAGGCTAGATCTCATTATATTACAGGAGAATCTACAATATAGGCTAGACCT
*
89041900 CGTTATATTACC
66 CGTTACATTACC
* * * * *
89041912 CGAGAATCTAAAACAAGGCTAGACCTTATTATATTATAGGAGAATCTACAATATATGCTAGATCT
1 CGAGAATCTAAAACAAGGCTAGATCTCATTATATTACAGGAGAATCTACAATATAGGCTAGACCT
89041977 CGTTACATTACC
66 CGTTACATTACC
* * *
89041989 CAAGAATCTACAATA-AATGCTAGATCTCGTTATA
1 CGAGAATCTA-AA-ACAAGGCTAGATCTCATTATA
89042023 ATCTATACAA
Statistics
Matches: 92, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
76 45 0.49
77 29 0.32
78 17 0.18
79 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.29
Consensus pattern (77 bp):
CGAGAATCTAAAACAAGGCTAGATCTCATTATATTACAGGAGAATCTACAATATAGGCTAGACCT
CGTTACATTACC
Found at i:89041995 original size:39 final size:38
Alignment explanation
Indices: 89041836--89042022 Score: 194
Period size: 38 Copynumber: 4.9 Consensus size: 38
89041826 ACAAGTAACT
* *
89041836 CGAGAATCTACAACAAGGCTAGATCTCATTATATTACC
1 CGAGAATCTACAATAAGGCTAGATCTCGTTATATTACC
* * * *
89041874 TGAGAATTTGCAATAAGGCTAGACCTCGTTATATTACC
1 CGAGAATCTACAATAAGGCTAGATCTCGTTATATTACC
* * * ** **
89041912 CGAGAATCTAAAACAAGGCTAGACCTTATTATATTATA
1 CGAGAATCTACAATAAGGCTAGATCTCGTTATATTACC
* * *
89041950 GGAGAATCTACAATATATGCTAGATCTCGTTACATTACC
1 CGAGAATCTACAATA-AGGCTAGATCTCGTTATATTACC
* *
89041989 CAAGAATCTACAATAAATGCTAGATCTCGTTATA
1 CGAGAATCTACAAT-AAGGCTAGATCTCGTTATA
89042023 ATCTATACAA
Statistics
Matches: 119, Mismatches: 28, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
38 73 0.61
39 45 0.38
40 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.29
Consensus pattern (38 bp):
CGAGAATCTACAATAAGGCTAGATCTCGTTATATTACC
Found at i:89051969 original size:17 final size:19
Alignment explanation
Indices: 89051921--89051969 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
89051911 TTAATTAAAT
89051921 AAATTATTAAAAATCACAAA
1 AAATTATTAAAAA-CACAAA
**
89051941 AAATTAAGAAAAA-ACAAA
1 AAATTATTAAAAACACAAA
89051959 AAA-TATTAAAA
1 AAATTATTAAAA
89051970 TTTATAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 6 0.24
18 8 0.32
20 11 0.44
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.20
Consensus pattern (19 bp):
AAATTATTAAAAACACAAA
Found at i:89054757 original size:14 final size:14
Alignment explanation
Indices: 89054738--89054784 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
89054728 TTTTGTATAA
89054738 ATTTTTAATTTAAT
1 ATTTTTAATTTAAT
*
89054752 ATTTTTATTTTAAT
1 ATTTTTAATTTAAT
* *
89054766 -TTAATTAATTTTAT
1 ATT-TTTAATTTAAT
89054780 ATTTT
1 ATTTT
89054785 ATATTTTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
13 2 0.08
14 22 0.85
15 2 0.08
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTTTTAATTTAAT
Found at i:89055607 original size:15 final size:15
Alignment explanation
Indices: 89055587--89055622 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
89055577 AAATTTAAGA
89055587 AAAAATGAATGTTGT
1 AAAAATGAATGTTGT
* *
89055602 AAAAATGGATGTTTT
1 AAAAATGAATGTTGT
89055617 AAAAAT
1 AAAAAT
89055623 ATTAGTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (15 bp):
AAAAATGAATGTTGT
Found at i:89056090 original size:4 final size:4
Alignment explanation
Indices: 89056083--89056112 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
89056073 ACTACTATAT
89056083 ATAG ATAG ATAG ATAG ATAG ATAG AT-G ATA
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATA
89056113 TAATAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (4 bp):
ATAG
Found at i:89058394 original size:14 final size:16
Alignment explanation
Indices: 89058366--89058403 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
89058356 TTTTGGGTTA
89058366 ATATAATTACATAAAT
1 ATATAATTACATAAAT
89058382 ATATAATT-C-TAAAT
1 ATATAATTACATAAAT
*
89058396 AAATAATT
1 ATATAATT
89058404 TTGTGAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 12 0.57
15 1 0.05
16 8 0.38
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (16 bp):
ATATAATTACATAAAT
Found at i:89061471 original size:16 final size:17
Alignment explanation
Indices: 89061429--89061489 Score: 51
Period size: 16 Copynumber: 3.8 Consensus size: 17
89061419 GATTAATTAT
89061429 TTAATATAA-ATATAAA
1 TTAATATAATATATAAA
89061445 -T-ATA-AATATATATAA
1 TTAATATAATATATA-AA
* **
89061460 TTAATATAATATTTCCA
1 TTAATATAATATATAAA
89061477 -TAATATAATATAT
1 TTAATATAATATAT
89061490 TCGAACCGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
13 2 0.06
14 8 0.22
15 3 0.08
16 13 0.36
17 4 0.11
18 6 0.17
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAATATAATATATAAA
Found at i:89061959 original size:49 final size:49
Alignment explanation
Indices: 89061899--89061993 Score: 154
Period size: 49 Copynumber: 1.9 Consensus size: 49
89061889 GTGATAGGCA
* *
89061899 GAATTATGTGAATAATTGTGAGATCAATTCACTCCGCAAAAGAAAAGCG
1 GAATTACGTGAATAATTGTGAGATCAATTCACTCCACAAAAGAAAAGCG
* *
89061948 GAATTACGTGAATGATTGTGAGGTCAATTCACTCCACAAAAGAAAA
1 GAATTACGTGAATAATTGTGAGATCAATTCACTCCACAAAAGAAAA
89061994 AGAAAAATAG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (49 bp):
GAATTACGTGAATAATTGTGAGATCAATTCACTCCACAAAAGAAAAGCG
Found at i:89062329 original size:94 final size:91
Alignment explanation
Indices: 89062141--89062379 Score: 290
Period size: 94 Copynumber: 2.6 Consensus size: 91
89062131 TTGTATTAAT
* * * * * *
89062141 TTGGGTATTTGAACTTTTAAAATATATCAAAAA-AGCCCTCAAAC-CTTT--GAAAAAAACAATT
1 TTGGGTAATTGAATTTTTAAAATACATCAAAAAGA-CCCTCAAACATTTTCAAAAAAAAAAAATT
89062202 AAGCCCCTACTTTTTTTTTGCACTCAA
65 AAGCCCCTACTTTTTTTTTGCACTCAA
* * *
89062229 TTGGGTAATTGAATTTTTAAAATGCATGAAAAAGACTCTCAAA-ATTTTTCAAAAAAAAAAAATT
1 TTGGGTAATTGAATTTTTAAAATACATCAAAAAGACCCTCAAACA-TTTTCAAAAAAAAAAAATT
* *
89062293 AAGCTCCTGCTTACTTTTTTTGGCACTCAA
65 AAGCCCCTACTT--TTTTTTT-GCACTCAA
*
89062323 TTGGGTACTTGAATTTTTAAAATACATCAAAAAGACCCTCAAACATTTTCAAAAAAA
1 TTGGGTAATTGAATTTTTAAAATACATCAAAAAGACCCTCAAACATTTTCAAAAAAA
89062380 GTAATAAAGC
Statistics
Matches: 127, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
88 35 0.28
89 4 0.03
91 21 0.17
93 7 0.06
94 59 0.46
95 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.33
Consensus pattern (91 bp):
TTGGGTAATTGAATTTTTAAAATACATCAAAAAGACCCTCAAACATTTTCAAAAAAAAAAAATTA
AGCCCCTACTTTTTTTTTGCACTCAA
Found at i:89062516 original size:22 final size:22
Alignment explanation
Indices: 89062465--89062520 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
89062455 AATAAAAATT
89062465 AAAATAT-TAAAAATTAGGAAA
1 AAAATATATAAAAATTAGGAAA
* *
89062486 AAAAT-TATAAAAA-TCGTAAA
1 AAAATATATAAAAATTAGGAAA
89062506 AGAAATATATAAAAA
1 A-AAATATATAAAAA
89062521 ATTGTCAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 7 0.23
21 15 0.50
22 8 0.27
ACGTcount: A:0.68, C:0.02, G:0.07, T:0.23
Consensus pattern (22 bp):
AAAATATATAAAAATTAGGAAA
Found at i:89062588 original size:21 final size:21
Alignment explanation
Indices: 89062564--89062608 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
89062554 AAAAATTTAT
* *
89062564 AAAATTTTATAAAATCGT-AAG
1 AAAATTATACAAAAT-GTAAAG
89062585 AAAATTATACAAAATGTAAAG
1 AAAATTATACAAAATGTAAAG
89062606 AAA
1 AAA
89062609 TATAAATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.10
21 19 0.90
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.27
Consensus pattern (21 bp):
AAAATTATACAAAATGTAAAG
Found at i:89062805 original size:19 final size:20
Alignment explanation
Indices: 89062777--89062815 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
89062767 GTAATTAATT
*
89062777 TTTTATGATTTTTA-AAAAA
1 TTTTACGATTTTTATAAAAA
89062796 TTTTACGATTTTTATAAAAA
1 TTTTACGATTTTTATAAAAA
89062816 AATTCTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (20 bp):
TTTTACGATTTTTATAAAAA
Found at i:89063728 original size:17 final size:19
Alignment explanation
Indices: 89063691--89063732 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
89063681 TTTTATAAAA
89063691 TTATAACAAAAATTGACTT
1 TTATAACAAAAATTGACTT
*
89063710 TTATAA-AAAAATT-AGTT
1 TTATAACAAAAATTGACTT
89063727 TTATAA
1 TTATAA
89063733 TTTTTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.41
18 7 0.32
19 6 0.27
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (19 bp):
TTATAACAAAAATTGACTT
Found at i:89063826 original size:20 final size:20
Alignment explanation
Indices: 89063779--89063826 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
89063769 ATTATGAAAA
89063779 TTAT-AAACAAACTTGATTT
1 TTATGAAACAAACTTGATTT
*
89063798 TAATG-AACAAACTTGATTT
1 TTATGAAACAAACTTGATTT
89063817 TTATGAAACA
1 TTATGAAACA
89063827 TTATAAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (20 bp):
TTATGAAACAAACTTGATTT
Found at i:89063887 original size:6 final size:6
Alignment explanation
Indices: 89063876--89063916 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
89063866 TTAATATATA
*
89063876 TTTTAT TTTTAT TTATAAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TT-TTAT TTTTAT TTTTAT TTTTAT TTTT
89063917 TATGATAGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:89063891 original size:25 final size:25
Alignment explanation
Indices: 89063867--89063914 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
89063857 TTTGAATTAT
89063867 TAATATATA-TTTTATTTTTATTTA
1 TAATATATATTTTTATTTTTATTTA
* *
89063891 TAATTTTTATTTTTATTTTTATTT
1 TAATATATATTTTTATTTTTATTT
89063915 TTTATGATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (25 bp):
TAATATATATTTTTATTTTTATTTA
Found at i:89063898 original size:19 final size:19
Alignment explanation
Indices: 89063876--89063919 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
89063866 TTAATATATA
89063876 TTTTATTTTTATTTATAAT
1 TTTTATTTTTATTTATAAT
* *
89063895 TTTTATTTTTATTTTTATT
1 TTTTATTTTTATTTATAAT
89063914 TTTTAT
1 TTTTAT
89063920 GATAGCATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (19 bp):
TTTTATTTTTATTTATAAT
Found at i:89063916 original size:13 final size:13
Alignment explanation
Indices: 89063876--89063919 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
89063866 TTAATATATA
89063876 TTTTATTTTTATT
1 TTTTATTTTTATT
* *
89063889 TATAATTTTTA-T
1 TTTTATTTTTATT
89063901 TTTTATTTTTATT
1 TTTTATTTTTATT
89063914 TTTTAT
1 TTTTAT
89063920 GATAGCATCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTATTTTTATT
Found at i:89063933 original size:14 final size:14
Alignment explanation
Indices: 89063916--89063945 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
89063906 TTTTTATTTT
89063916 TTATGATAGCATCA
1 TTATGATAGCATCA
*
89063930 TTATGATATCATCA
1 TTATGATAGCATCA
89063944 TT
1 TT
89063946 GTCACGTGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.43
Consensus pattern (14 bp):
TTATGATAGCATCA
Found at i:89066154 original size:21 final size:21
Alignment explanation
Indices: 89066130--89066176 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
89066120 AAATTAGACT
*
89066130 TAAAATTTTAAATCTAAAAA-A
1 TAAAATTTTAAA-ATAAAAATA
89066151 TAAAATTTTAAAATAAAAATA
1 TAAAATTTTAAAATAAAAATA
89066172 TAAAA
1 TAAAA
89066177 ACTAAATTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAAATTTTAAAATAAAAATA
Found at i:89066919 original size:16 final size:15
Alignment explanation
Indices: 89066890--89066923 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
89066880 TTACATGTTA
89066890 AAACATATAAATTTG
1 AAACATATAAATTTG
*
89066905 AAACTATATATATTTG
1 AAAC-ATATAAATTTG
89066921 AAA
1 AAA
89066924 ACATTTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (15 bp):
AAACATATAAATTTG
Found at i:89067099 original size:19 final size:18
Alignment explanation
Indices: 89067058--89067106 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
89067048 AAAAATATAA
*
89067058 ATTTTGAAATTTTTATAAAT
1 ATTTTG-AA-TTTTAAAAAT
89067078 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTAAAAA-T
*
89067097 ATTTTAAATT
1 ATTTTGAATT
89067107 ATTTTATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 8 0.31
19 12 0.46
20 6 0.23
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (18 bp):
ATTTTGAATTTTAAAAAT
Found at i:89067230 original size:23 final size:23
Alignment explanation
Indices: 89067203--89067256 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
89067193 TTGAACTCAA
* *
89067203 AACTCAAATTACT-TATTTGAGTT
1 AACTCAAATAACTCGATTTGA-TT
* *
89067226 GACTCGAATAACTCGATTTGATT
1 AACTCAAATAACTCGATTTGATT
89067249 AACTCAAA
1 AACTCAAA
89067257 ATTTGAATTT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (23 bp):
AACTCAAATAACTCGATTTGATT
Found at i:89070502 original size:21 final size:19
Alignment explanation
Indices: 89070469--89070539 Score: 81
Period size: 19 Copynumber: 3.6 Consensus size: 19
89070459 ATTATAAGAA
*
89070469 TATTAAAAATATAAAAAAT
1 TATTAAAATTATAAAAAAT
*
89070488 TATTCAAGAATTATAAGAAAT
1 TATT-AA-AATTATAAAAAAT
89070509 TATTAAAATTA-ATAAAAAT
1 TATTAAAATTATA-AAAAAT
89070528 TATTTAAAATTA
1 TA-TTAAAATTA
89070540 CAATAAGTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
18 1 0.02
19 16 0.36
20 13 0.29
21 15 0.33
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (19 bp):
TATTAAAATTATAAAAAAT
Found at i:89070534 original size:20 final size:20
Alignment explanation
Indices: 89070482--89070539 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 20
89070472 TAAAAATATA
*
89070482 AAAAATTATTCAAGAATT-AT
1 AAAAATTATTTAA-AATTAAT
89070502 AAGAAATTA-TTAAAATTAAT
1 AA-AAATTATTTAAAATTAAT
89070522 AAAAATTATTTAAAATTA
1 AAAAATTATTTAAAATTA
89070540 CAATAAGTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
19 10 0.29
20 18 0.53
21 6 0.18
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (20 bp):
AAAAATTATTTAAAATTAAT
Found at i:89070963 original size:18 final size:18
Alignment explanation
Indices: 89070936--89070970 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
89070926 GTTTTAAATA
*
89070936 ATTTTAATAATTTTTTAT
1 ATTTTAATAATTATTTAT
*
89070954 ATTTTTATAATTATTTA
1 ATTTTAATAATTATTTA
89070971 AAAAAATCAC
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTTAATAATTATTTAT
Found at i:89071114 original size:95 final size:95
Alignment explanation
Indices: 89071008--89071251 Score: 259
Period size: 90 Copynumber: 2.6 Consensus size: 95
89070998 CTTAACGGTG
* * *
89071008 TAAAAAAGCCCTCAAACTTTTTTAATAAAAGCAATTAAGCTCTTGCTTTTTTTTTTTTTTGCACT
1 TAAAAAGGCCCTCAAACTTTTTTAAAAAAAGCAATTAAGCTCTTGCTTTTTTTTTTTTTGGCACT
** * *
89071073 CAATTG-GATACTTAAACTTTCAATATGCAT
66 CAATTGAG-TACTTAAACTGCCAAAATGCAA
* *
89071103 TAAAAAGGCCCTCAAACTTTTTCAAAAAAAGCAATTAGGCTAC-TGC-----TTTTTTTTGGCAC
1 TAAAAAGGCCCTCAAACTTTTTTAAAAAAAGCAATTAAGCT-CTTGCTTTTTTTTTTTTTGGCAC
*
89071162 TCAATTGAGTACTTGAACTGCCAAAATGCAA
65 TCAATTGAGTACTTAAACTGCCAAAATGCAA
* *
89071193 CAAAAAGGCCCTCAAACTTTATTTTTTAAAAAAAGCAATTAAGTCTCTGTTCTTTTTTT
1 TAAAAAGGCCCTCAAAC----TTTTTTAAAAAAAGCAATTAAG-CTCT-TGCTTTTTTT
89071252 GCACAAATTA
Statistics
Matches: 121, Mismatches: 14, Indels: 22
0.77 0.09 0.14
Matches are distributed among these distances:
90 52 0.43
91 1 0.01
94 21 0.17
95 42 0.35
96 3 0.02
101 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (95 bp):
TAAAAAGGCCCTCAAACTTTTTTAAAAAAAGCAATTAAGCTCTTGCTTTTTTTTTTTTTGGCACT
CAATTGAGTACTTAAACTGCCAAAATGCAA
Found at i:89071292 original size:94 final size:90
Alignment explanation
Indices: 89071104--89071271 Score: 200
Period size: 94 Copynumber: 1.8 Consensus size: 90
89071094 AATATGCATT
*
89071104 AAAAAGGCCCTCAAACTTTTTCAAAAAAAGCAATTAGGCTACTGCTTTTTTTTGGCACTCAATTG
1 AAAAAGGCCCTCAAACTTTTTCAAAAAAAGCAATTAGGCTACTGCTTTTTTTTGGCACTAAATTG
*
89071169 AGTACTTGAACTGCCAAAATGCAAC
66 AGTACTTGAACTGCCAAAATACAAC
* * *
89071194 AAAAAGGCCCTCAAACTTTATTTTTTAAAAAAAGCAATTAAGTCT-CTG-TTCTTTTTTTGCAC-
1 AAAAAGGCCCTCAAAC----TTTTTCAAAAAAAGCAATT-AGGCTACTGCTT-TTTTTTGGCACT
89071256 AAATT-ATGTACTTGAA
60 AAATTGA-GTACTTGAA
89071272 TATCCGAAAT
Statistics
Matches: 67, Mismatches: 4, Indels: 11
0.82 0.05 0.13
Matches are distributed among these distances:
90 16 0.24
92 1 0.01
93 15 0.22
94 31 0.46
95 4 0.06
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.33
Consensus pattern (90 bp):
AAAAAGGCCCTCAAACTTTTTCAAAAAAAGCAATTAGGCTACTGCTTTTTTTTGGCACTAAATTG
AGTACTTGAACTGCCAAAATACAAC
Found at i:89077800 original size:20 final size:22
Alignment explanation
Indices: 89077775--89077816 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
89077765 ATTCATTGGA
89077775 AAATG-AGAAAAAAAT-TTATC
1 AAATGAAGAAAAAAATATTATC
*
89077795 AAATGAAGAAAATAATATTATC
1 AAATGAAGAAAAAAATATTATC
89077817 CTAAATCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 9 0.47
22 5 0.26
ACGTcount: A:0.60, C:0.05, G:0.10, T:0.26
Consensus pattern (22 bp):
AAATGAAGAAAAAAATATTATC
Done.