Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 183 of 208
Found at i:55907383 original size:51 final size:50
Alignment explanation
Indices: 55907320--55907485 Score: 129
Period size: 57 Copynumber: 3.1 Consensus size: 50
55907310 TTATTAAATC
55907320 ATATATTTTAATTAAAATATATTTAATAATAATTAT-TTCAAATTATATTTT
1 ATATATTTTAATTAAAAT-TATTTAATAATAATTATATT-AAATTATATTTT
* * * * *
55907371 ATATATTATAATTTTAGTAAATTCATATAAGAAT-ATTGATTATTAAGAATTTTATTAAATC
1 ATATATTTTAA--TTA--AAATT-ATTTAATAATAATT-A-TATT-A-AATTATATT---TT
*
55907432 ATATATTTTAATTAAAATGTATTTAATAATAATTATGTTAAATTATATTTT
1 ATATATTTTAATTAAAAT-TATTTAATAATAATTATATTAAATTATATTTT
55907483 ATA
1 ATA
55907486 GTATCATATA
Statistics
Matches: 89, Mismatches: 12, Indels: 28
0.69 0.09 0.22
Matches are distributed among these distances:
51 14 0.16
53 3 0.03
54 12 0.13
55 14 0.16
56 4 0.04
57 16 0.18
58 12 0.13
59 3 0.03
61 11 0.12
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (50 bp):
ATATATTTTAATTAAAATTATTTAATAATAATTATATTAAATTATATTTT
Found at i:55907522 original size:232 final size:239
Alignment explanation
Indices: 55906990--55907587 Score: 935
Period size: 232 Copynumber: 2.5 Consensus size: 239
55906980 CCACAAAATC
*
55906990 AATTATTTTAGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
1 AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
* *
55907055 TTAATATTAAGAATTTTATTAAATTATATA-TTTATATTAAATTATATTTAATAATAATTATTTT
66 TTAATATTAAGAATTTTATTAAATTATATATTTTA-ATTAAAATATATTTAATAATAATTATTTC
* *
55907119 AGATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTTAATATT
130 AAATTATATTTTATAGTATTATATATTA-GATTTTAGTAAATTCATATAAGAATATTTGAATATT
* * *
55907184 AAGAATTTTATTAAATTATATTTTTTATTAAATTATATTTAATAAT
194 AAGAATTTTATTAAATCATATTTTTAATTAAAATATATTTAATAAT
* * *
55907230 TATTATTTTAAATTATATTTTATACTATTATATATTATAATTTTAGTAAATTCATATAAGAATAT
1 AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
*
55907295 TTAATATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCA
66 TTAATATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCA
*
55907360 AATTATA-TTT-TA-TA-TAT-TA-TA-ATTTTAGTAAATTCATATAAGAATA-TTGATTATTAA
131 AATTATATTTTATAGTATTATATATTAGATTTTAGTAAATTCATATAAGAATATTTGAATATTAA
*
55907417 GAATTTTATTAAATCATATATTTTAATTAAAATGTATTTAATAAT
196 GAATTTTATTAAATCATAT-TTTTAATTAAAATATATTTAATAAT
* * *
55907462 AATTATGTTAAATTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATAT
1 AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
* *
55907527 TGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
66 TTAATATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
55907588 GTTAAAATAT
Statistics
Matches: 333, Mismatches: 23, Indels: 12
0.90 0.06 0.03
Matches are distributed among these distances:
231 27 0.08
232 164 0.49
234 2 0.01
235 2 0.01
236 3 0.01
237 2 0.01
238 2 0.01
239 3 0.01
240 124 0.37
241 4 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (239 bp):
AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATAT
TTAATATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCA
AATTATATTTTATAGTATTATATATTAGATTTTAGTAAATTCATATAAGAATATTTGAATATTAA
GAATTTTATTAAATCATATTTTTAATTAAAATATATTTAATAAT
Found at i:55907567 original size:18 final size:17
Alignment explanation
Indices: 55907539--55907573 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
55907529 ATTATTAAGA
*
55907539 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
55907556 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
55907574 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:55907793 original size:44 final size:45
Alignment explanation
Indices: 55907730--55907826 Score: 126
Period size: 45 Copynumber: 2.2 Consensus size: 45
55907720 CTATTACACC
*
55907730 TCCATTCCATTCAACCAAACACA-AGA-ATACTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACA-ATAGATATACTATTACGCCTCTAT
* * * *
55907774 TCCATTACATTGAACCAAACAATTGATTTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
55907819 TCCATTAC
1 TCCATTAC
55907827 GCCTCTATTC
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
43 1 0.02
44 21 0.46
45 24 0.52
ACGTcount: A:0.33, C:0.29, G:0.06, T:0.32
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGATATACTATTACGCCTCTAT
Found at i:55907827 original size:16 final size:16
Alignment explanation
Indices: 55907806--55907838 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
55907796 TTGATTTGCT
55907806 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
55907822 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
55907838 A
1 A
55907839 ATACAGCGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.21, C:0.36, G:0.06, T:0.36
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:55908487 original size:2 final size:2
Alignment explanation
Indices: 55908480--55908517 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
55908470 CTAAGTACAA
55908480 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
55908518 CAACTAAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55908846 original size:26 final size:26
Alignment explanation
Indices: 55908794--55908848 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
55908784 ATAGTTTGAC
* *
55908794 AATATTTTTGAAAAATGCGGTGGAAA
1 AATATTTTTGAAAAATGCGATGAAAA
* * *
55908820 AATATTTTTGAGAAGTGCTATGAAAA
1 AATATTTTTGAAAAATGCGATGAAAA
55908846 AAT
1 AAT
55908849 TTGGTTTGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.44, C:0.04, G:0.20, T:0.33
Consensus pattern (26 bp):
AATATTTTTGAAAAATGCGATGAAAA
Found at i:55917096 original size:126 final size:125
Alignment explanation
Indices: 55916839--55917405 Score: 726
Period size: 126 Copynumber: 4.5 Consensus size: 125
55916829 GATAAAATCA
* * * * * *
55916839 AAGCAGGATGATTTATCAGAAGGATTTTTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
55916904 AGGTCTTGGAAAAATAATTTTGACTT-ATCGTTTCTAAGCAAATAGTTTAAAAAACGCTTC
66 AGGTCCTGGAAAAATAATTTCGACTTGA-CGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * * * *
55916964 AAGCAGGATGCTTTGTGAGAAGAATTTGTGAAATCGCGCCCTCGTAGACGCACTTTTACTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
55917029 TGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTTTAAAAAACGCTTC
66 AGGTCCTGGAA-AAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* *
55917090 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
55917155 AGGTCCTGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAACAACGCTGC
66 AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAA-AACGCTTC
** * * * * *
55917216 AAGCAACATGCTATT-TGAAAAGAATTTCTGAAATCGTGCTCTCGTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* * * *
55917280 TTGGTCTTGGAAAAATAATTTCAACTTGACGTTTCTGAGCAAATAGTAT-AAAATCGCTTC
65 TAGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* * *
55917340 TAGCAAGATGCTTTATGAGAAGAATTTGTGAAATCGCGGCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
55917405 A
66 A
55917406 ACATGTTTGG
Statistics
Matches: 381, Mismatches: 56, Indels: 11
0.85 0.12 0.02
Matches are distributed among these distances:
123 2 0.01
124 60 0.16
125 104 0.27
126 212 0.56
127 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (125 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
Found at i:55917298 original size:251 final size:250
Alignment explanation
Indices: 55916839--55917405 Score: 798
Period size: 251 Copynumber: 2.3 Consensus size: 250
55916829 GATAAAATCA
* * * * *
55916839 AAGCAGGATGATTTATCAGAAGGATTTTTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
55916904 AGGTCTTGGAAAAATAATTTTGACTTATCGTTTCTAAGCAAATAGTTTAAAAAACGCTTCAAGCA
66 AGGTCCTGAAAAAATAATTTTGACTTATCGTTTCTAAGCAAATAGTATAAAAAACGCTGCAAGCA
** * *
55916969 GGATGCTTTGTGAGAAGAATTTGTGAAATCGCGCCCTCGTAGACGCACTTTTACTACAGTTGGTC
131 ACATGCTTTGTGAAAAGAATTTCTGAAATCGCGCCCTCGTAGACGCACTTTTACTACAGTTGGTC
* * * *
55917034 CTGGAAGAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTTTAAAAAACGCTTC
196 CTGGAAGAAATAATTTCAACTTGACGTTTCTGAGCAAATAGTAT-AAAAACGCTTC
55917090 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
55917155 AGGTCCTGAAAAAATAATTTTGAGTTGA-CGTTTCTGAGCAAATAGTATAAAACAACGCTGCAAG
66 AGGTCCTGAAAAAATAATTTTGACTT-ATCGTTTCTAAGCAAATAGTATAAAA-AACGCTGCAAG
* * * * *
55917219 CAACATGCTATT-TGAAAAGAATTTCTGAAATCGTGCTCTCGTGGACGCGCTTTTGCTACAGTTG
129 CAACATGCT-TTGTGAAAAGAATTTCTGAAATCGCGCCCTCGTAGACGCACTTTTACTACAGTTG
* *
55917283 GTCTTGGAA-AAATAATTTCAACTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTC
193 GTCCTGGAAGAAATAATTTCAACTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
* * * * *
55917340 TAGCAAGATGCTTTATGAGAAGAATTTGTGAAATCGCGGCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
55917405 A
66 A
55917406 ACATGTTTGG
Statistics
Matches: 282, Mismatches: 31, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
250 71 0.25
251 138 0.49
252 71 0.25
253 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (250 bp):
AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTGAAAAAATAATTTTGACTTATCGTTTCTAAGCAAATAGTATAAAAAACGCTGCAAGCA
ACATGCTTTGTGAAAAGAATTTCTGAAATCGCGCCCTCGTAGACGCACTTTTACTACAGTTGGTC
CTGGAAGAAATAATTTCAACTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTC
Found at i:55920199 original size:7 final size:7
Alignment explanation
Indices: 55920189--55920221 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
55920179 TTATATACAT
55920189 AATACTA
1 AATACTA
55920196 AATACTA
1 AATACTA
55920203 AATACTA
1 AATACTA
55920210 AATACTA
1 AATACTA
55920217 AATAC
1 AATAC
55920222 CAATCGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:55920426 original size:20 final size:20
Alignment explanation
Indices: 55920388--55920426 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
55920378 CTTTTATTTT
*
55920388 TAAAATCTACATAATAATTG
1 TAAAATCTACATAAAAATTG
55920408 TAAAATCTA-ATATAAAATT
1 TAAAATCTACATA-AAAATT
55920427 TACCTCATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.36
Consensus pattern (20 bp):
TAAAATCTACATAAAAATTG
Found at i:55921413 original size:51 final size:51
Alignment explanation
Indices: 55921358--55921455 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
55921348 AATTATTTAA
55921358 AAATAGGGATTTAAGAAAAATTTA-AGAGGAACTTGAGAGCAAATTGAAAGT
1 AAATAGGGATTTAAGAAAAATTTAGA-AGGAACTTGAGAGCAAATTGAAAGT
* * * * * *
55921409 AAATATGGATTTGAGAGAAATTTTGAAGGAATTTGAGAGTAAATTGA
1 AAATAGGGATTTAAGAAAAATTTAGAAGGAACTTGAGAGCAAATTGA
55921456 GAGGAAATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
51 39 0.98
52 1 0.03
ACGTcount: A:0.46, C:0.02, G:0.24, T:0.28
Consensus pattern (51 bp):
AAATAGGGATTTAAGAAAAATTTAGAAGGAACTTGAGAGCAAATTGAAAGT
Found at i:55921431 original size:11 final size:11
Alignment explanation
Indices: 55921417--55921489 Score: 64
Period size: 11 Copynumber: 6.5 Consensus size: 11
55921407 GTAAATATGG
55921417 ATTTGAGAGAA
1 ATTTGAGAGAA
*
55921428 ATTTTGA-AGGA
1 A-TTTGAGAGAA
55921439 ATTTGAGAGTAA
1 ATTTGAGAG-AA
55921451 A-TTGAGAGGAA
1 ATTTGAGA-GAA
55921462 ATTT-AGAAGAA
1 ATTTGAG-AGAA
55921473 A-TTGAGAGGAA
1 ATTTGAGA-GAA
55921484 ATTTGA
1 ATTTGA
55921490 TATAGGATTA
Statistics
Matches: 51, Mismatches: 2, Indels: 17
0.73 0.03 0.24
Matches are distributed among these distances:
10 8 0.16
11 28 0.55
12 15 0.29
ACGTcount: A:0.44, C:0.00, G:0.27, T:0.29
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:55921456 original size:33 final size:33
Alignment explanation
Indices: 55921419--55921486 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
55921409 AAATATGGAT
* * *
55921419 TTGAGA-GAAATTTTGAAGGAATTTGAGAGTAAA
1 TTGAGAGGAAATTTAGAA-GAAATTGAGAGGAAA
55921452 TTGAGAGGAAATTTAGAAGAAATTGAGAGGAAA
1 TTGAGAGGAAATTTAGAAGAAATTGAGAGGAAA
55921485 TT
1 TT
55921487 TGATATAGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 21 0.68
34 10 0.32
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (33 bp):
TTGAGAGGAAATTTAGAAGAAATTGAGAGGAAA
Found at i:55921460 original size:22 final size:22
Alignment explanation
Indices: 55921417--55921489 Score: 89
Period size: 22 Copynumber: 3.3 Consensus size: 22
55921407 GTAAATATGG
55921417 ATTTGAGAGAAATTTTGA-AGG-A
1 ATTTGAGAGAAA--TTGAGAGGAA
55921439 ATTTGAGAGTAAATTGAGAGGAA
1 ATTTGAGAG-AAATTGAGAGGAA
55921462 ATTT-AGAAGAAATTGAGAGGAA
1 ATTTGAG-AGAAATTGAGAGGAA
55921484 ATTTGA
1 ATTTGA
55921490 TATAGGATTA
Statistics
Matches: 46, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.09
22 31 0.67
23 11 0.24
ACGTcount: A:0.44, C:0.00, G:0.27, T:0.29
Consensus pattern (22 bp):
ATTTGAGAGAAATTGAGAGGAA
Found at i:55927998 original size:45 final size:44
Alignment explanation
Indices: 55927701--55928201 Score: 396
Period size: 44 Copynumber: 11.0 Consensus size: 44
55927691 GTATGGGAAG
* * ** *
55927701 TGTAGTTTCAATCTACTCCGCTATAACTTCAGAGAGATAAGATT
1 TGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
* * *
55927745 TGTAGCTGT-AATCTGCTTCACTGCAACTTCATGGAGATAAGATTT
1 TGTAGCT-TCAATCTACTCCACTGCAACTTCAGGGAGATAAGA-TT
* * ** * * *
55927790 GTAGGTTTTAGTTTTAATCTGGTCTACTGCAACTTCAGAGAGATAAAATT
1 -T--G---TAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
* * * * * * * * * *
55927840 TGTGGCCTT-AGTTTGCCCCACTGCAATTTTAAGGAAATAAGACT
1 TGTAG-CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
* * * * *
55927884 CGTAGCTTTAATCTGCTCCACTGTAGCTTCAGGGAGATAAGATT
1 TGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
* * * *
55927928 TGTAGCTTCAATCTACTCTATTGCAACTCCAGGAAGATAAGATT
1 TGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
* * *
55927972 TGCTATCTTCAATCTGCTCCAATGCAACTTCAGGGAGATAAGATT
1 TG-TAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
* * *
55928017 CAT-TATCTTCAATCTACTCCACTACAATTTCAGGGAGATAAGATT
1 --TGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
* * * *
55928062 TGTAGCTTTAATCTGCTCCACTACAATTTCAGGGAGATAAGATT
1 TGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
*
55928106 TGTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
1 TGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
* *
55928150 CGCCATGGTAACTTCAATCTACTCCACTGCAACTTCAAGGAGATAAGATT
1 -----T-GTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
55928200 TG
1 TG
55928202 CTATGGAGAC
Statistics
Matches: 367, Mismatches: 69, Indels: 42
0.77 0.14 0.09
Matches are distributed among these distances:
43 4 0.01
44 203 0.55
45 80 0.22
46 1 0.00
47 2 0.01
48 1 0.00
49 2 0.01
50 43 0.12
51 31 0.08
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (44 bp):
TGTAGCTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATT
Found at i:55928104 original size:178 final size:179
Alignment explanation
Indices: 55927857--55928199 Score: 463
Period size: 178 Copynumber: 1.9 Consensus size: 179
55927847 TTAGTTTGCC
* * ** *
55927857 CCACTGCAATTTTAAGGAAATAAGACTCGTAGCTTTAATCTGCTCCACTGTAGCTTCAGGGAGAT
1 CCACTACAATTTCAAGGAAATAAGACTCGTAGCTTTAATCTGCTCCACTACAACTTCAGGGAGAT
* * *
55927922 AAGATTTGTAGCTTCAATCTACTCTATTGCAACTCCAGGAAGATAAGATT-TGCTATCTTCAATC
66 AAGATTTGTAGCTTCAATCTACTCCACTGCAACTCCAGGAAGATAAGATTCTGCTAACTTCAATC
* *
55927986 TGCTCCAATGCAACTTCAGGGAGATAAGATTCATTATCTTCAATCTACT
131 TACTCCAATGCAACTTCAAGGAGATAAGATTCATTATCTTCAATCTACT
* * * * *
55928035 CCACTACAATTTCAGGGAGATAAGATTTGTAGCTTTAATCTGCTCCACTACAATTTCAGGGAGAT
1 CCACTACAATTTCAAGGAAATAAGACTCGTAGCTTTAATCTGCTCCACTACAACTTCAGGGAGAT
* * * *
55928100 AAGATTTGTAGCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTCGCCATGGTAACTTC
66 AAGATTTGTAGCTTCAATCTACTCCACTGCAACTCCAGGAAGATAAGATT---C-TGCTAACTTC
*
55928165 AATCTACTCCACTGCAACTTCAAGGAGATAAGATT
127 AATCTACTCCAATGCAACTTCAAGGAGATAAGATT
55928200 TGCTATGGAG
Statistics
Matches: 140, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
178 100 0.71
183 40 0.29
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (179 bp):
CCACTACAATTTCAAGGAAATAAGACTCGTAGCTTTAATCTGCTCCACTACAACTTCAGGGAGAT
AAGATTTGTAGCTTCAATCTACTCCACTGCAACTCCAGGAAGATAAGATTCTGCTAACTTCAATC
TACTCCAATGCAACTTCAAGGAGATAAGATTCATTATCTTCAATCTACT
Found at i:55959805 original size:5 final size:5
Alignment explanation
Indices: 55959795--55959829 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
55959785 GAATACATTG
55959795 AAATA AAATA AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA
55959830 TTTAAATAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:55965926 original size:9 final size:9
Alignment explanation
Indices: 55965912--55965950 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
55965902 TGCAAATTAA
55965912 AAAAGAAAG
1 AAAAGAAAG
55965921 AAAAGAAA-
1 AAAAGAAAG
55965929 AGAAAGAAAG
1 A-AAAGAAAG
*
55965939 AAAAGAAGG
1 AAAAGAAAG
55965948 AAA
1 AAA
55965951 GAACGCACGG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
8 1 0.04
9 25 0.93
10 1 0.04
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:55965940 original size:13 final size:13
Alignment explanation
Indices: 55965912--55965953 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
55965902 TGCAAATTAA
55965912 AAAAGAAAGAAAAG
1 AAAAGAAAG-AAAG
55965926 AAAAGAAAGAAAG
1 AAAAGAAAGAAAG
*
55965939 AAAAGAAGGAAAG
1 AAAAGAAAGAAAG
55965952 AA
1 AA
55965954 CGCACGGCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
13 18 0.67
14 9 0.33
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AAAAGAAAGAAAG
Found at i:55974503 original size:37 final size:37
Alignment explanation
Indices: 55974435--55974544 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
55974425 TACGTATGAT
* *
55974435 CACTTATCACTTTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
55974471 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
* *
55974508 CACTTATTACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
55974545 TAAAGCTATC
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
36 14 0.20
37 55 0.80
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:55974587 original size:52 final size:52
Alignment explanation
Indices: 55974519--55974776 Score: 393
Period size: 52 Copynumber: 5.1 Consensus size: 52
55974509 ACTTATTACT
* **
55974519 TTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCAC
1 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTCAC
55974571 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC---T---
1 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTCAC
* * *
55974617 TTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCAC
1 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTCAC
*
55974669 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCAC
1 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTCAC
*
55974721 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACCTATCACTTTGTCAC
1 TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT-TCAC
55974774 TTG
1 TTG
55974777 ATCAGAAGTA
Statistics
Matches: 189, Mismatches: 10, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
46 43 0.23
49 1 0.01
52 139 0.74
53 6 0.03
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (52 bp):
TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTTCAC
Found at i:55974677 original size:98 final size:98
Alignment explanation
Indices: 55974508--55974768 Score: 405
Period size: 98 Copynumber: 2.6 Consensus size: 98
55974498 TAAGTGTAGC
* ** *
55974508 CACTTATTACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTT
55974573 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
55974606 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTT
55974671 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
55974704 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACCTATCACTTT
1 CACTTATCAC--T----TTGTCTCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTT
55974769 GTCACTTGAT
Statistics
Matches: 149, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
98 103 0.69
100 1 0.01
104 45 0.30
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (98 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTT
GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:55978800 original size:13 final size:14
Alignment explanation
Indices: 55978774--55978802 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
55978764 TAAAATCAAT
55978774 ATTTAACAAAAATC
1 ATTTAACAAAAATC
55978788 ATTTAAC-AAAATC
1 ATTTAACAAAAATC
55978801 AT
1 AT
55978803 CACACAACAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (14 bp):
ATTTAACAAAAATC
Found at i:55983491 original size:22 final size:22
Alignment explanation
Indices: 55983466--55983535 Score: 131
Period size: 22 Copynumber: 3.2 Consensus size: 22
55983456 AAATTCAATA
55983466 TCAATTTCCTTCAAAAATTCTC
1 TCAATTTCCTTCAAAAATTCTC
*
55983488 TCAATTCCCTTCAAAAATTCTC
1 TCAATTTCCTTCAAAAATTCTC
55983510 TCAATTTCCTTCAAAAATTCTC
1 TCAATTTCCTTCAAAAATTCTC
55983532 TCAA
1 TCAA
55983536 ACTCTCAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.33, C:0.29, G:0.00, T:0.39
Consensus pattern (22 bp):
TCAATTTCCTTCAAAAATTCTC
Found at i:55983542 original size:52 final size:51
Alignment explanation
Indices: 55983485--55983587 Score: 154
Period size: 52 Copynumber: 2.0 Consensus size: 51
55983475 TTCAAAAATT
* *
55983485 CTCTC-AATTCCCTTCAAAAATTCTCTCAATTTCCTTCAAAAATTCTCTCAAA
1 CTCTCAAATT-CCTTCAAAAATCCTCTCAATTTCCTTCAAAAAATCTC-CAAA
*
55983537 CTCTCAAATTCCTTCTAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
1 CTCTCAAATTCCTTCAAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
55983588 TCCATATTAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
51 4 0.09
52 39 0.83
53 4 0.09
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.35
Consensus pattern (51 bp):
CTCTCAAATTCCTTCAAAAATCCTCTCAATTTCCTTCAAAAAATCTCCAAA
Found at i:55983543 original size:30 final size:30
Alignment explanation
Indices: 55983507--55983565 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
55983497 TTCAAAAATT
* *
55983507 CTCTCAATTTCCTTCAAAAATTCTCTCAAA
1 CTCTCAAATTCCTTCAAAAATCCTCTCAAA
*
55983537 CTCTCAAATTCCTTCTAAAATCCTCTCAA
1 CTCTCAAATTCCTTCAAAAATCCTCTCAA
55983566 TTTCCTTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (30 bp):
CTCTCAAATTCCTTCAAAAATCCTCTCAAA
Found at i:55983562 original size:22 final size:22
Alignment explanation
Indices: 55983537--55983578 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
55983527 TTCTCTCAAA
*
55983537 CTCTCAAATTCCTTCTAAAATC
1 CTCTCAAATTCCTTCAAAAATC
*
55983559 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCAAAAA
55983579 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.36
Consensus pattern (22 bp):
CTCTCAAATTCCTTCAAAAATC
Found at i:55983664 original size:29 final size:28
Alignment explanation
Indices: 55983621--55983676 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
55983611 TTAAATTTCA
55983621 TTTTTTAAGAAAATTTTAAAAGTTTTTAT
1 TTTTTTAAGAAAATTTTAAAA-TTTTTAT
55983650 TTTTTTAA-AATAATTTTAAAATTTTTA
1 TTTTTTAAGAA-AATTTTAAAATTTTTA
55983677 ATATTTTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 8 0.31
29 18 0.69
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (28 bp):
TTTTTTAAGAAAATTTTAAAATTTTTAT
Found at i:55983683 original size:29 final size:29
Alignment explanation
Indices: 55983622--55983683 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
55983612 TAAATTTCAT
*
55983622 TTTTTAAGAAAATTTTAAAAGTTTTTATT
1 TTTTTAAGAAAATTTTAAAAGTTTTTATA
55983651 TTTTTAA-AATAATTTTAAAA-TTTTTAATA
1 TTTTTAAGAA-AATTTTAAAAGTTTTT-ATA
55983680 TTTT
1 TTTT
55983684 CAACAATGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 7 0.23
29 23 0.77
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (29 bp):
TTTTTAAGAAAATTTTAAAAGTTTTTATA
Found at i:55983805 original size:14 final size:15
Alignment explanation
Indices: 55983775--55983807 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
55983765 AATTTTAAAA
55983775 TTTATTTAAGATATT
1 TTTATTTAAGATATT
*
55983790 TTTATTTATG-TATT
1 TTTATTTAAGATATT
55983804 TTTA
1 TTTA
55983808 GATATTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (15 bp):
TTTATTTAAGATATT
Found at i:55986045 original size:51 final size:50
Alignment explanation
Indices: 55985958--55986259 Score: 358
Period size: 51 Copynumber: 6.1 Consensus size: 50
55985948 ACATTATTTG
* *
55985958 ATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACTTAACTTA
1 ATTAAAAACCCTAA-CCTAA-TTAATTTAATTAAAAACCCTAACCTAACTTA
*
55986010 ATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCTAA-TTAATTTAATTAAAAACCCTAACCTAACTTA
* *
55986061 ATTAAAAACCCTAACC----TAACTTAATTAAAAACCCTAACCTAATTTAATTTA
1 ATTAAAAACCCTAACCTAATTAATTTAATTAAAAACCCTAACC-----TAACTTA
* *
55986112 ATTAAAAACCCTAACC----TAGTTTAATTAAAAACCCTAGCCTAACTTA
1 ATTAAAAACCCTAACCTAATTAATTTAATTAAAAACCCTAACCTAACTTA
*
55986158 ATTAAAAACCCTAACC----TAATTTAATTAAAAACCTTAACCTAACTTA
1 ATTAAAAACCCTAACCTAATTAATTTAATTAAAAACCCTAACCTAACTTA
*
55986204 ATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCTAATTTA
1 ATTAAAAACCCTAACCTAA-TTAATTTAATTAAAAACCCTAACCTAACTTA
55986255 ATTAA
1 ATTAA
55986260 TGTAAAAACC
Statistics
Matches: 226, Mismatches: 14, Indels: 21
0.87 0.05 0.08
Matches are distributed among these distances:
46 87 0.38
51 125 0.55
52 14 0.06
ACGTcount: A:0.47, C:0.22, G:0.01, T:0.31
Consensus pattern (50 bp):
ATTAAAAACCCTAACCTAATTAATTTAATTAAAAACCCTAACCTAACTTA
Found at i:55986085 original size:74 final size:74
Alignment explanation
Indices: 55985970--55986274 Score: 460
Period size: 74 Copynumber: 4.1 Consensus size: 74
55985960 TAAAAACCCT
*
55985970 AACCCTAACCTAATTTAATTAAAAACCCTAACTTAACTTAATTAAAAACCCTAACCTAATTTAAT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAACCTAATTTAAT
55986035 TTAATTAAA
66 TTAATTAAA
55986044 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAACCTAATTTAAT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAACCTAATTTAAT
55986109 TTAATTAAA
66 TTAATTAAA
* *
55986118 AACCCTAACCTAGTTTAATTAAAAACCCTAGCCTAACTTAATTAAAAACCCTAACC-----TAAT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAACCTAATTTAAT
55986178 TTAATTAAA
66 TTAATTAAA
* * *
55986187 AACCTTAACCTAACTTAATTAAAAACCCTAACCTAATTTAATTTAATTAAAAACCCTAACCTAAT
1 AACCCTAACCTAATTTAATTAAAAACCCTAACC-----TAACTTAATTAAAAACCCTAACCTAAT
55986252 TTAA-TTAATGTAAA
61 TTAATTTAAT-TAAA
55986266 AACCCTAAC
1 AACCCTAAC
55986275 ATAACTCAGC
Statistics
Matches: 211, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
69 42 0.20
74 149 0.71
78 5 0.02
79 15 0.07
ACGTcount: A:0.47, C:0.22, G:0.01, T:0.31
Consensus pattern (74 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATTAAAAACCCTAACCTAATTTAAT
TTAATTAAA
Found at i:55986273 original size:23 final size:23
Alignment explanation
Indices: 55985970--55986259 Score: 373
Period size: 23 Copynumber: 12.0 Consensus size: 23
55985960 TAAAAACCCT
55985970 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
55985993 AACCCTAACTTAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
55986016 AACCCTAACCTAATTTAATTTAATTAAA
1 AACCCTAACC-----TAATTTAATTAAA
55986044 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
55986067 AACCCTAACCTAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
55986090 AACCCTAACCTAATTTAATTTAATTAAA
1 AACCCTAACC-----TAATTTAATTAAA
*
55986118 AACCCTAACCTAGTTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
55986141 AACCCTAGCCTAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
55986164 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
55986187 AACCTTAACCTAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
55986210 AACCCTAACCTAATTTAATTTAATTAAA
1 AACCCTAACC-----TAATTTAATTAAA
55986238 AACCCTAACCTAATTTAATTAA
1 AACCCTAACCTAATTTAATTAA
55986260 TGTAAAAACC
Statistics
Matches: 236, Mismatches: 16, Indels: 30
0.84 0.06 0.11
Matches are distributed among these distances:
23 170 0.72
28 66 0.28
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (23 bp):
AACCCTAACCTAATTTAATTAAA
Found at i:55987327 original size:124 final size:124
Alignment explanation
Indices: 55987107--55987371 Score: 372
Period size: 124 Copynumber: 2.1 Consensus size: 124
55987097 CACGAGGGCC
*
55987107 CGATTTGACACTATTTGCTCAGAAACGTAAAAAAAATTTATTTCCTACATGACCAACTGTAGCGA
1 CGATTTGACACTATTTGCTCAGAAACATAAAAAAAATTTATTTCCTACATGACCAACTGTAGCGA
* * * **
55987172 AATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCATATAGCATCCTCGTATCAG
66 AATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTCGTAGAAG
* * * *
55987231 CGATTTTATACTATTTGCTCAGAAAACATCAAAAAAAA-TTATTTCTTACATGACC-ATTGTAGC
1 CGATTTGACACTATTTGCTCAG-AAACAT-AAAAAAAATTTATTTCCTACATGACCAACTGTAGC
* *
55987294 GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGTATCCTGGTAGAAG
64 GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTCGTAGAAG
**
55987355 CGATTTCCCACTATTTG
1 CGATTTGACACTATTTG
55987372 ACCAGATACG
Statistics
Matches: 124, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
124 95 0.77
125 21 0.17
126 8 0.06
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (124 bp):
CGATTTGACACTATTTGCTCAGAAACATAAAAAAAATTTATTTCCTACATGACCAACTGTAGCGA
AATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTCGTAGAAG
Found at i:55992059 original size:93 final size:94
Alignment explanation
Indices: 55991882--55992105 Score: 236
Period size: 93 Copynumber: 2.4 Consensus size: 94
55991872 TATGATCACG
* * * *
55991882 ATCTTTTACTCACAGGATTTTATGAATCTCGCGGTCCGCTGATTTATGATAACAACCTTTGGCTT
1 ATCTTTTACTTAC-GGATTTTATGAATCTCGCGGTCCGCTGATTTACGATAACAACATTTGACTT
* *
55991947 TTTTACAATGCGCTAATTTACGATCA-TA-
65 TCTTACAATCCGCTAATTTACGATCATTAT
* * * * *
55991975 ATCTTTTACTTACGGTATTTTATGAATCTCGTGGTCTGTTGATTTACGATTACGACATTTGACTT
1 ATCTTTTACTTACGG-ATTTTATGAATCTCGCGGTCCGCTGATTTACGATAACAACATTTGACTT
** * * * *
55992040 TCTTACGGTCCGTTGATTTATGATTATTATT
65 TCTTACAATCCGCTAATTTACGATCATTA-T
*
55992071 ACCTTTTACTTACGAGATTTTATGAATCTCGCGGT
1 ATCTTTTACTTACG-GATTTTATGAATCTCGCGGT
55992106 ATGATCACGA
Statistics
Matches: 107, Mismatches: 19, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
92 2 0.02
93 71 0.66
94 2 0.02
96 31 0.29
97 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.43
Consensus pattern (94 bp):
ATCTTTTACTTACGGATTTTATGAATCTCGCGGTCCGCTGATTTACGATAACAACATTTGACTTT
CTTACAATCCGCTAATTTACGATCATTAT
Found at i:55992198 original size:38 final size:39
Alignment explanation
Indices: 55992147--55992251 Score: 131
Period size: 38 Copynumber: 2.7 Consensus size: 39
55992137 AGAATCTCGT
* *
55992147 GGTCCACTGATTTACGATCACAACTTTTGGCTTTCT-AC
1 GGTCCGCTAATTTACGATCACAACTTTTGGCTTTCTCAC
* * *
55992185 GGTCTGCTAATTTACGATCACGACCTTTGGCTTTCTCAC
1 GGTCCGCTAATTTACGATCACAACTTTTGGCTTTCTCAC
* * *
55992224 GGTCCGTTGATTTACGATCGCAACTTTT
1 GGTCCGCTAATTTACGATCACAACTTTT
55992252 TACTTACAAG
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
38 31 0.56
39 24 0.44
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.37
Consensus pattern (39 bp):
GGTCCGCTAATTTACGATCACAACTTTTGGCTTTCTCAC
Found at i:55993380 original size:15 final size:15
Alignment explanation
Indices: 55993360--55993406 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
55993350 AATTTTATAA
55993360 TATAAATTCTATATT
1 TATAAATTCTATATT
*
55993375 TATAAATTTCTATA-C
1 TATAAA-TTCTATATT
* *
55993390 TAAAAATTCAATATT
1 TATAAATTCTATATT
55993405 TA
1 TA
55993407 ATTTTTCATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 6 0.23
15 13 0.50
16 7 0.27
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.47
Consensus pattern (15 bp):
TATAAATTCTATATT
Found at i:55997042 original size:94 final size:94
Alignment explanation
Indices: 55996918--55997412 Score: 548
Period size: 94 Copynumber: 5.3 Consensus size: 94
55996908 GTGTTATAGT
* * * * * * * * * *
55996918 TTCATCTTACTCCATTGCAACTTCAAGGAGATAAAATTTGTTGTTGTAGTTTCAATCCGACCCAC
1 TTCATCTTGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATAGTAGATTCAATCCGACCCAC
* *
55996983 TGTAACTTCAGGGGTATATGATTTGTAGC
66 TGCAACTTCAGGGGTATAGGATTTGTAGC
* * * ** *
55997012 TTCATCTTTCTCCACTACAACTTTAGGGAGATAAGACTCGCTATAGTAGATTCAATCCGACTTAT
1 TTCATCTTGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATAGTAGATTCAATCCGACCCAC
* *
55997077 TACAACTTCAGGGGTATAAGATTTGTAGC
66 TGCAACTTCAGGGGTATAGGATTTGTAGC
* * * *
55997106 TTTATCTTGCTCCACTACAACTTCAGGGAGATAAGA-CCTGCTATAATAGATTCAACCCGACCCA
1 TTCATCTTGCTCCACTACAACTTCAGGGAGATAAGATTC-GCTATAGTAGATTCAATCCGACCCA
*
55997170 CTGCAACTTTAGGGGTATAGGATTTGTAGC
65 CTGCAACTTCAGGGGTATAGGATTTGTAGC
* ** * *
55997200 TTCATCTTACTCCACTACAACTTCAGGGAGATAAGATTCATTATGGTA-ACTTCAATCCAACCCA
1 TTCATCTTGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATAGTAGA-TTCAATCCGACCCA
* * * *
55997264 TTGCAACTTCAAGGGTATAGAATTGGTAGC
65 CTGCAACTTCAGGGGTATAGGATTTGTAGC
* * * *
55997294 TTCATCTTGCTCCACTGCAACTTCTA-GGAGATAATATTCGCTATGGTA-ACTTCAATCCGACCT
1 TTCATCTTGCTCCACTACAACTTC-AGGGAGATAAGATTCGCTATAGTAGA-TTCAATCCGACCC
* * *
55997357 ACTGCAACTTCAAGAGTATAGGATTTATAGC
64 ACTGCAACTTCAGGGGTATAGGATTTGTAGC
*
55997388 TTCATCTTGCTCCACTGCAACTTCA
1 TTCATCTTGCTCCACTACAACTTCA
55997413 AGAGTATGGG
Statistics
Matches: 341, Mismatches: 56, Indels: 9
0.84 0.14 0.02
Matches are distributed among these distances:
93 3 0.01
94 336 0.99
95 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (94 bp):
TTCATCTTGCTCCACTACAACTTCAGGGAGATAAGATTCGCTATAGTAGATTCAATCCGACCCAC
TGCAACTTCAGGGGTATAGGATTTGTAGC
Found at i:55997443 original size:138 final size:138
Alignment explanation
Indices: 55997265--55997548 Score: 417
Period size: 138 Copynumber: 2.1 Consensus size: 138
55997255 TCCAACCCAT
* * *
55997265 TGCAACTTCAAGGGTATAGAATTGGTAGCTTCATCTTGCTCCACTGCAACTTCTA-GGAGATAAT
1 TGCAACTTCAAGAGTATAGAATTGATAGCTTCATCTTGCTCCACTGCAACTTC-AGGGAGATAAG
* * *
55997329 ATTCGCTATGGTAACTTCAATCCGACCTACTGCAACTTCAAGAGTATAGGATTTATAGCTTCATC
65 ATTCACTATGGTAAATTCAATCCGACCTACTGCAACTTCAAGAGTATAAGATTTATAGCTTCATC
55997394 TTGCTCCAC
130 TTGCTCCAC
* * *
55997403 TGCAACTTCAAGAGTATGGGATTTATAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGA
1 TGCAACTTCAAGAGTATAGAATTGATAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGA
* * * * *
55997468 TTCACTATGGTAAATTCAATCCGACTTACTGCAACTTTAGGGGTATAAGATTTGTAGCTTCATCT
66 TTCACTATGGTAAATTCAATCCGACCTACTGCAACTTCAAGAGTATAAGATTTATAGCTTCATCT
*
55997533 TGCTCTAC
131 TGCTCCAC
55997541 TGCAACTT
1 TGCAACTT
55997549 TAGGGAGATA
Statistics
Matches: 130, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
137 1 0.01
138 129 0.99
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (138 bp):
TGCAACTTCAAGAGTATAGAATTGATAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGATAAGA
TTCACTATGGTAAATTCAATCCGACCTACTGCAACTTCAAGAGTATAAGATTTATAGCTTCATCT
TGCTCCAC
Found at i:55997488 original size:232 final size:232
Alignment explanation
Indices: 55997167--55997639 Score: 655
Period size: 232 Copynumber: 2.0 Consensus size: 232
55997157 TCAACCCGAC
* * * *
55997167 CCACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTACAACTTCAGGGAGAT
1 CCACTGCAACTTCAAGAGTATAGGATTTATAGCTTCATCTTACTCCACTACAACTTCAGGGAGAT
* * *
55997232 AAGATTCATTATGGTAACTTCAATCCAACCCATTGCAACTTCAAGGGTAT-AGAATTGGTAGCTT
66 AAGATTCACTATGGTAAATTCAATCCAACCCACTGCAACTTCAAGGGTATAAG-ATTGGTAGCTT
* * *
55997296 CATCTTGCTCCACTGCAACTTCTA-GGAGATAATATTCGCTATGGTAACTTCAATCCGAC-CTAC
130 CATCTTGCTCCACTGCAACTT-TAGGGAGATAAGATTCGCTATGATAACTTCAATCCAACTC-AC
* *
55997359 TGCAACTTCAAGAGTATAGGATTTATAGCTTCATCTTGCT
193 TACAACTTCAAGAGTATAGGATTTATAGCTTCATCTTACT
* * *
55997399 CCACTGCAACTTCAAGAGTATGGGATTTATAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGAT
1 CCACTGCAACTTCAAGAGTATAGGATTTATAGCTTCATCTTACTCCACTACAACTTCAGGGAGAT
* ** * * *
55997464 AAGATTCACTATGGTAAATTCAATCCGACTTACTGCAACTTTAGGGGTATAAGATTTGTAGCTTC
66 AAGATTCACTATGGTAAATTCAATCCAACCCACTGCAACTTCAAGGGTATAAGATTGGTAGCTTC
* *
55997529 ATCTTGCTCTACTGCAACTTTAGGGAGATAAGATTCGCTATGATAACTTTAATCCAACTCACTAC
131 ATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTCGCTATGATAACTTCAATCCAACTCACTAC
* * * *
55997594 AACTTCAGGGGTATAGGATTTGTAGCTTTATCTTACT
196 AACTTCAAGAGTATAGGATTTATAGCTTCATCTTACT
55997631 CCACTGCAA
1 CCACTGCAA
55997640 TTTTAGGGAG
Statistics
Matches: 211, Mismatches: 27, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
231 2 0.01
232 206 0.98
233 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.32
Consensus pattern (232 bp):
CCACTGCAACTTCAAGAGTATAGGATTTATAGCTTCATCTTACTCCACTACAACTTCAGGGAGAT
AAGATTCACTATGGTAAATTCAATCCAACCCACTGCAACTTCAAGGGTATAAGATTGGTAGCTTC
ATCTTGCTCCACTGCAACTTTAGGGAGATAAGATTCGCTATGATAACTTCAATCCAACTCACTAC
AACTTCAAGAGTATAGGATTTATAGCTTCATCTTACT
Found at i:55997499 original size:94 final size:94
Alignment explanation
Indices: 55997399--55998692 Score: 1387
Period size: 94 Copynumber: 13.8 Consensus size: 94
55997389 TCATCTTGCT
* * * *
55997399 CCACTGCAACTTCAAGAGTATGGGATTTATAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGAT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGAT
* *
55997464 AAGATTCACTATGGTAAATTCAATCCGAC
66 AAGATTCGCTATGGTAACTTCAATCCGAC
** * * * *
55997493 TTACTGCAACTTTAGGGGTATAAGATTTGTAGCTTCATCTTGCTCTACTGCAACTTTAGGGAGAT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGAT
* * *
55997558 AAGATTCGCTATGATAACTTTAATCCAAC
66 AAGATTCGCTATGGTAACTTCAATCCGAC
* * * * * *
55997587 TCACTACAACTTCAGGGGTATAGGATTTGTAGCTTTATCTTACTCCACTGCAATTTTAGGGAGAT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGAT
* * * *
55997652 AAGACTCACTATGATAGA-TTCAATCTGA-
66 AAGATTCGCTATGGTA-ACTTCAATCCGAC
* * * *
55997680 CCACTACAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTACAACTTCAGGAAAAT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGAT
* * *
55997745 AAGACTCGCTATAGTAGA-TTCAATCCAAC
66 AAGATTCGCTATGGTA-ACTTCAATCCGAC
* * * * *
55997774 CCAGTGCAACTTCAGAGGTATAGGATTTGTAGCTTTATCTTGCTCCACTGCAATTTTAGGGAGAT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGAT
**
55997839 AAGATTCGCTATGGTAACTTCAATTTGAC
66 AAGATTCGCTATGGTAACTTCAATCCGAC
* * * * * * *
55997868 CCACTACAACTTCAGGGGTA-CGAGATTTGTAGCTTTATATTGCTCTACTACAACTTTAGGGAGA
1 CCACTGCAACTTCAGGGGTATAG-GATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGA
* *
55997932 TAAGATTTGCTATGGTAACTTCAATCTGAC
65 TAAGATTCGCTATGGTAACTTCAATCCGAC
* * * * * * * * *
55997962 CCA-TGGTAACTTCAGGGGTACAAGATTTGAAGTTTTATCTTGCTCTACTGTAAATTCAGGGAGA
1 CCACT-GCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGA
*
55998026 TAAGTTTCGCTATGGTAACTTCAATCCGAC
65 TAAGATTCGCTATGGTAACTTCAATCCGAC
* * * * * * * * * * * *
55998056 CCACCGTAACTTCAGGGGTACAAGATTTGAAGTTTTATCTTGCTCTATTGTAAATTCAGGGGGAT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGAT
* *
55998121 AAGTTTCGCTATGGCAACTTCAATCCGAC
66 AAGATTCGCTATGGTAACTTCAATCCGAC
* * *
55998150 CCACTGCAACTTCAGGGGTATAGGATTTGTACCTTCATCTTGCTCCACTACAACTTCTGGGAGAT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGAT
*
55998215 AAGATTCGCTATGGTAACTTCAATCCGAT
66 AAGATTCGCTATGGTAACTTCAATCCGAC
* * ** * *
55998244 CCACTGCAACTTCAGGGGTATAGAATTTGTAGCTTCATCTTGCTCTACTATAAATTTAGGGAGAT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGAT
* * * * ** * **
55998309 GATACTCGTTATAATAGA-TTTAATCTAAC
66 AAGATTCGCTATGGTA-ACTTCAATCCGAC
* * * * * *
55998338 CTAGTGCAATTTCAAGGGTAT-GAGATTTGTAACTTCATCTTACTCCACTGCAACTTCAGGGAGA
1 CCACTGCAACTTCAGGGGTATAG-GATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGA
*
55998402 TAAAATTCGCTATGGTAACTTCAATCCGAC
65 TAAGATTCGCTATGGTAACTTCAATCCGAC
* * * * * *
55998432 CTAGTGCAACTTCAGGGGTATAGGATTTGTAACTTTATCTTGCTCCACTACAACTTCAGAGAGAT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGAT
* * *
55998497 AAGATTTGCTATGGTAACTTTAATCTGAC
66 AAGATTCGCTATGGTAACTTCAATCCGAC
* * * *
55998526 CCACTGCAACTTCAGGGGTATAGGATTTGTAACTTCATCTTGCTCCACTACAACATCAAGGAGAT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGAT
* * * * * *
55998591 ACGATTTGTTATTGTAGCTTCAATCCAAC
66 AAGATTCGCTATGGTAACTTCAATCCGAC
* * * * *
55998620 CCACTACAACTTCAGGGGTATAGGATTTGTAGTTTCATCTTACTCCACTGAAATTTCAGGGAGAT
1 CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGAT
55998685 AAGATTCG
66 AAGATTCG
55998693 AGGTTTCACT
Statistics
Matches: 1016, Mismatches: 173, Indels: 22
0.84 0.14 0.02
Matches are distributed among these distances:
93 85 0.08
94 928 0.91
95 3 0.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (94 bp):
CCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCATCTTGCTCCACTGCAACTTCAGGGAGAT
AAGATTCGCTATGGTAACTTCAATCCGAC
Found at i:55998204 original size:44 final size:44
Alignment explanation
Indices: 55998150--55998293 Score: 112
Period size: 44 Copynumber: 3.1 Consensus size: 44
55998140 TCAATCCGAC
* *
55998150 CCACTGCAACTTCAGGGGTATAGGATTTGTACCTTCATCTTGCT
1 CCACTACAACTTCAGGGGTATAGGATTTGTAACTTCATCTTGCT
* * * *
55998194 CCACTACAACTTCTGGGAG-ATAAGATTCGCTATGGTAACTTCAATC-CGAT
1 CCACTACAACTTCAGGG-GTATAGGA-T---T-T-GTAACTTC-ATCTTGCT
* * *
55998244 CCACTGCAACTTCAGGGGTATAGAATTTGTAGCTTCATCTTGCT
1 CCACTACAACTTCAGGGGTATAGGATTTGTAACTTCATCTTGCT
*
55998288 CTACTA
1 CCACTA
55998294 TAAATTTAGG
Statistics
Matches: 75, Mismatches: 15, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
43 3 0.04
44 33 0.44
45 3 0.04
46 1 0.01
48 1 0.01
49 3 0.04
50 28 0.37
51 3 0.04
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (44 bp):
CCACTACAACTTCAGGGGTATAGGATTTGTAACTTCATCTTGCT
Found at i:55998486 original size:44 final size:44
Alignment explanation
Indices: 55998438--55998579 Score: 146
Period size: 44 Copynumber: 3.1 Consensus size: 44
55998428 CGACCTAGTG
55998438 CAACTTCAGGGGTATAGGATTTGTAACTTTATCTTGCTCCACTA
1 CAACTTCAGGGGTATAGGATTTGTAACTTTATCTTGCTCCACTA
* * *
55998482 CAACTTCAGAGAG-ATAAGATTTGCTATGGTAACTTTAATC-TGAC-CCACTG
1 CAACTTCAG-GGGTATAGGA--T--T-T-GTAACTTT-ATCTTG-CTCCACTA
*
55998532 CAACTTCAGGGGTATAGGATTTGTAACTTCATCTTGCTCCACTA
1 CAACTTCAGGGGTATAGGATTTGTAACTTTATCTTGCTCCACTA
55998576 CAAC
1 CAAC
55998580 ATCAAGGAGA
Statistics
Matches: 79, Mismatches: 7, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
43 4 0.05
44 32 0.41
45 3 0.04
46 2 0.03
48 2 0.03
49 3 0.04
50 29 0.37
51 4 0.05
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (44 bp):
CAACTTCAGGGGTATAGGATTTGTAACTTTATCTTGCTCCACTA
Found at i:55998553 original size:50 final size:49
Alignment explanation
Indices: 55998382--55998554 Score: 146
Period size: 50 Copynumber: 3.6 Consensus size: 49
55998372 TCATCTTACT
* * * *
55998382 CCACTGCAACTTCAGGGAGATAAAATTCGCTATGGTAACTTCAATCCGAC
1 CCACTGCAACTTCAGGG-GATAAGATTTGCTATGGTAACTTTAATCTGAC
* * *
55998432 CTAGTGCAACTTCAGGGGTATAGGA--T--T-T-GTAACTTT-ATCTTG-C
1 CCACTGCAACTTCAGGGG-ATAAGATTTGCTATGGTAACTTTAATC-TGAC
* *
55998475 TCCACTACAACTTCAGAGAGATAAGATTTGCTATGGTAACTTTAATCTGAC
1 -CCACTGCAACTTCAG-GGGATAAGATTTGCTATGGTAACTTTAATCTGAC
*
55998526 CCACTGCAACTTCAGGGGTATAGGATTTG
1 CCACTGCAACTTCAGGGG-ATAAGATTTG
55998555 TAACTTCATC
Statistics
Matches: 95, Mismatches: 15, Indels: 26
0.70 0.11 0.19
Matches are distributed among these distances:
43 4 0.04
44 25 0.26
45 3 0.03
46 2 0.02
48 1 0.01
49 4 0.04
50 52 0.55
51 4 0.04
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (49 bp):
CCACTGCAACTTCAGGGGATAAGATTTGCTATGGTAACTTTAATCTGAC
Found at i:55998647 original size:50 final size:47
Alignment explanation
Indices: 55998476--55998649 Score: 124
Period size: 50 Copynumber: 3.6 Consensus size: 47
55998466 TTATCTTGCT
* * * *
55998476 CCACTACAACTTCAGAGAGATAAGATTTGCTATGGTAACTTTAATCTGAC
1 CCACTACAACTTCAG-GAGATAGGATTTGTTAT-GT-ACTTCAATCTAAC
* * **
55998526 CCACTGCAACTTCAGGGGTATAGGATTTG-TA---ACTTC-ATCTTGC
1 CCACTACAACTTCAGGAG-ATAGGATTTGTTATGTACTTCAATCTAAC
* * *
55998569 TCCACTACAACATCAAGGAGATACGATTTGTTATTGTAGCTTCAATCCAAC
1 -CCACTACAACTTC-AGGAGATAGGATTTGTTA-TGTA-CTTCAATCTAAC
*
55998620 CCACTACAACTTCAGGGGTATAGGATTTGT
1 CCACTACAACTTCAGGAG-ATAGGATTTGT
55998650 AGTTTCATCT
Statistics
Matches: 97, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
43 5 0.05
44 24 0.25
45 6 0.06
49 9 0.09
50 49 0.51
51 4 0.04
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (47 bp):
CCACTACAACTTCAGGAGATAGGATTTGTTATGTACTTCAATCTAAC
Found at i:56006585 original size:32 final size:31
Alignment explanation
Indices: 56006544--56006679 Score: 106
Period size: 32 Copynumber: 4.4 Consensus size: 31
56006534 TATGATAATA
56006544 ATGATAATAATAGTGAAATAATATAAAAATGT
1 ATGATAATAATAGT-AAATAATATAAAAATGT
*
56006576 ATGATAATAATA-TAATTACATA-AAATAATG-
1 ATGATAATAATAGTAAATA-ATATAAA-AATGT
* * * * *
56006606 AT-ATTCAACTAATAAT-ACT-ATATGATAAT-A
1 ATGA-T-AA-TAATAGTAAATAATATAAAAATGT
56006636 ATGATAATAATAGTGAAATAATATAAAAATGT
1 ATGATAATAATAGT-AAATAATATAAAAATGT
56006668 ATGATAATAATA
1 ATGATAATAATA
56006680 TAATTACATA
Statistics
Matches: 82, Mismatches: 9, Indels: 26
0.70 0.08 0.22
Matches are distributed among these distances:
28 6 0.07
29 3 0.04
30 21 0.26
31 20 0.24
32 31 0.38
33 1 0.01
ACGTcount: A:0.55, C:0.03, G:0.09, T:0.33
Consensus pattern (31 bp):
ATGATAATAATAGTAAATAATATAAAAATGT
Found at i:56006586 original size:21 final size:19
Alignment explanation
Indices: 56006533--56006590 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 19
56006523 TAATAATACT
*
56006533 ATATGATAATAATGATAATA
1 ATATGATAATAAT-ATAAAA
56006553 ATAGTGA-AATAATATAAAA
1 ATA-TGATAATAATATAAAA
56006572 ATGTATGATAATAATATAA
1 A--TATGATAATAATATAA
56006591 TTACATAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
19 6 0.18
20 12 0.36
21 15 0.45
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (19 bp):
ATATGATAATAATATAAAA
Found at i:56006615 original size:92 final size:92
Alignment explanation
Indices: 56006502--56006702 Score: 384
Period size: 92 Copynumber: 2.2 Consensus size: 92
56006492 ATAAGAAATA
*
56006502 ATAACAATAATAATATTCAACTAATAATACTATATGATAATAATGATAATAATAGTGAAATAATA
1 ATAA-AATAATGATATTCAACTAATAATACTATATGATAATAATGATAATAATAGTGAAATAATA
56006567 TAAAAATGTATGATAATAATATAATTAC
65 TAAAAATGTATGATAATAATATAATTAC
56006595 ATAAAATAATGATATTCAACTAATAATACTATATGATAATAATGATAATAATAGTGAAATAATAT
1 ATAAAATAATGATATTCAACTAATAATACTATATGATAATAATGATAATAATAGTGAAATAATAT
56006660 AAAAATGTATGATAATAATATAATTAC
66 AAAAATGTATGATAATAATATAATTAC
56006687 ATAAAATAATGATATT
1 ATAAAATAATGATATT
56006703 TGAGCAAATT
Statistics
Matches: 107, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
92 103 0.96
93 4 0.04
ACGTcount: A:0.55, C:0.04, G:0.07, T:0.34
Consensus pattern (92 bp):
ATAAAATAATGATATTCAACTAATAATACTATATGATAATAATGATAATAATAGTGAAATAATAT
AAAAATGTATGATAATAATATAATTAC
Found at i:56006658 original size:3 final size:3
Alignment explanation
Indices: 56006488--56006647 Score: 58
Period size: 3 Copynumber: 51.3 Consensus size: 3
56006478 TAATAAATAC
* * * *
56006488 AAT AAT AAGA AAT AAT AAC AAT AAT AAT ATT CAACT AAT AAT ACT ATAT
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT -AA-T AAT AAT AAT A-AT
* * * * * * *
56006537 GAT AAT AAT GAT AAT AAT AGT GA- AAT AAT -AT AAA AAT GTAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
* * *
56006581 AAT AAT -AT AATT ACAT AA- AAT AAT GAT ATT CAACT AAT AAT ACT ATAT
1 AAT AAT AAT AA-T A-AT AAT AAT AAT AAT AAT -AA-T AAT AAT AAT A-AT
* *
56006629 GAT AAT AAT GAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
56006648 GTGAAATAAT
Statistics
Matches: 112, Mismatches: 31, Indels: 28
0.65 0.18 0.16
Matches are distributed among these distances:
2 7 0.06
3 86 0.77
4 16 0.14
5 3 0.03
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:56006678 original size:21 final size:19
Alignment explanation
Indices: 56006625--56006682 Score: 64
Period size: 21 Copynumber: 2.9 Consensus size: 19
56006615 TAATAATACT
*
56006625 ATATGATAATAATGATAATA
1 ATATGATAATAAT-ATAAAA
56006645 ATAGTGA-AATAATATAAAA
1 ATA-TGATAATAATATAAAA
56006664 ATGTATGATAATAATATAA
1 A--TATGATAATAATATAA
56006683 TTACATAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
19 6 0.18
20 12 0.36
21 15 0.45
ACGTcount: A:0.57, C:0.00, G:0.10, T:0.33
Consensus pattern (19 bp):
ATATGATAATAATATAAAA
Found at i:56006870 original size:23 final size:24
Alignment explanation
Indices: 56006835--56006900 Score: 98
Period size: 23 Copynumber: 2.8 Consensus size: 24
56006825 AGAAAAAATT
56006835 ATAAATGGGCTAAATTTAAAAAAA
1 ATAAATGGGCTAAATTTAAAAAAA
* *
56006859 ATAAA-GGACTAAATTTAAAATAA
1 ATAAATGGGCTAAATTTAAAAAAA
*
56006882 ATAAATGGGCTAACTTTAA
1 ATAAATGGGCTAAATTTAA
56006901 TGAATTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
23 21 0.57
24 16 0.43
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.27
Consensus pattern (24 bp):
ATAAATGGGCTAAATTTAAAAAAA
Found at i:56007320 original size:11 final size:12
Alignment explanation
Indices: 56007290--56007320 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
56007280 TCTATATAAG
56007290 TTTAAAAAATCA
1 TTTAAAAAATCA
56007302 TTTAAAAAATCA
1 TTTAAAAAATCA
56007314 TTTAAAA
1 TTTAAAA
56007321 CTTGTTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (12 bp):
TTTAAAAAATCA
Found at i:56008855 original size:21 final size:21
Alignment explanation
Indices: 56008817--56008856 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
56008807 ATTAGTTTGA
*
56008817 TTAATTGATTGGCTATCGAAG
1 TTAATTGATTGGCGATCGAAG
56008838 TTAATTTGATTGG-GATCGA
1 TTAA-TTGATTGGCGATCGA
56008857 TTAAAAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.28, C:0.07, G:0.25, T:0.40
Consensus pattern (21 bp):
TTAATTGATTGGCGATCGAAG
Found at i:56026758 original size:23 final size:23
Alignment explanation
Indices: 56026730--56026774 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
56026720 AATTAGGAGC
56026730 CAACTAGTCATAGGAAATTAAGT
1 CAACTAGTCATAGGAAATTAAGT
56026753 CAACTAGTCATAGGAAATTAAG
1 CAACTAGTCATAGGAAATTAAG
56026775 GAAAAATACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.24
Consensus pattern (23 bp):
CAACTAGTCATAGGAAATTAAGT
Found at i:56027765 original size:20 final size:21
Alignment explanation
Indices: 56027719--56027766 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
56027709 AATAATATAG
**
56027719 ATTTAATAAATGCAGAAAAATC
1 ATTTAATAAAT-CAGAAAAAAA
*
56027741 TTTTAATAAAT-AGAAAAAAA
1 ATTTAATAAATCAGAAAAAAA
56027761 ATTTAA
1 ATTTAA
56027767 ACTGTTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 12 0.55
22 10 0.45
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.31
Consensus pattern (21 bp):
ATTTAATAAATCAGAAAAAAA
Found at i:56032845 original size:289 final size:287
Alignment explanation
Indices: 56032326--56032909 Score: 837
Period size: 289 Copynumber: 2.0 Consensus size: 287
56032316 AGATCCTGTT
* * * *
56032326 TTTAGAATAAAAGTTAACAATTTTAATAAATCTTTGGGAGTTCCAATCTGATTGATTGATTACCC
1 TTTAGAATAAAAGTTAACAATTTCAATAAATCTTTGAGAGTTCCAATCTGATTGATTAACTACCC
* *
56032391 TTTCTGTTCTTTTCCTTTTTCTGATTCTTCTCATCTTCTTAGGAATTATAAAACATCTCCTTGAA
66 TTTCTATTCTTTTCCTTTTTCTGATTCTTCCCATCTTCTTAGGAATTATAAAACATCTCCTTGAA
*
56032456 ATGTTCCAACAAAATAGCTTAAAAATTTCTTTTGACCACATCTTACTGTTAACAAATATAGTCAT
131 ATGTTCCAAC--AATAGCTTAAAAATTTCTTTCGACCACATCTTACTGTTAACAAATATAGTCAT
* * *
56032521 AAATTGCGTCCAATCATCTATGATTTTTTCATAGTCTGCTATAAGAGTATTAACTAAATCTAAAT
194 AAACTGCGCCCAATCATCTATGATTTTTTCATAGTCTGCTATAAGAATATTAACTAAATCTAAAT
* * *
56032586 ATATTCTTACTTGAGCAACATTTCTTTTG
259 ATATTCCTACTTGAACAACATTGCTTTTG
** * *
56032615 TTTAGAATAAAAGTTAACCCTTTCAATAAATCTTTGAGAGTTCCAATTTGATTGATTAACTGCCC
1 TTTAGAATAAAAGTTAACAATTTCAATAAATCTTTGAGAGTTCCAATCTGATTGATTAACTACCC
* ** *
56032680 TTTTTATTCTTTCTTTTTTTTCTGATTCTTCCCATCTTCTTAGGAATTGTAAAACATCTCCTTGA
66 TTTCTATTCTTT-TCCTTTTTCTGATTCTTCCCATCTTCTTAGGAATTATAAAACATCTCCTTGA
* * * * *
56032745 AATGTTCTAAC-ATAGTTTAAAAGTTTTTCTTTCGACCACATGTTATTGTTAACAAATATAGTCA
130 AATGTTCCAACAATAGCTTAAAA--ATTTCTTTCGACCACATCTTACTGTTAACAAATATAGTCA
* * **
56032809 TAGACTGTGCCCAATCATCTATGATTTTTTCATAGTCTGCTATAAGAATATTAGTTAAATCTAAA
193 TAAACTGCGCCCAATCATCTATGATTTTTTCATAGTCTGCTATAAGAATATTAACTAAATCTAAA
*
56032874 TATATTCCTCCTTGAACAACATTGCTTTTG
258 TATATTCCTACTTGAACAACATTGCTTTTG
56032904 TTTAGA
1 TTTAGA
56032910 TATCTATTCT
Statistics
Matches: 261, Mismatches: 31, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
287 10 0.04
289 193 0.74
290 58 0.22
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.42
Consensus pattern (287 bp):
TTTAGAATAAAAGTTAACAATTTCAATAAATCTTTGAGAGTTCCAATCTGATTGATTAACTACCC
TTTCTATTCTTTTCCTTTTTCTGATTCTTCCCATCTTCTTAGGAATTATAAAACATCTCCTTGAA
ATGTTCCAACAATAGCTTAAAAATTTCTTTCGACCACATCTTACTGTTAACAAATATAGTCATAA
ACTGCGCCCAATCATCTATGATTTTTTCATAGTCTGCTATAAGAATATTAACTAAATCTAAATAT
ATTCCTACTTGAACAACATTGCTTTTG
Found at i:56038443 original size:40 final size:40
Alignment explanation
Indices: 56038343--56038555 Score: 381
Period size: 40 Copynumber: 5.2 Consensus size: 40
56038333 AGTAAATATA
56038343 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTGAT
1 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTG-T
*
56038384 TGCAAAACACTCATCTCACCAATGTCAATATGCACATCTGT
1 TGC-AAACACTCATCTCACCAATGTCAATATGCATATCTGT
56038425 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTGT
1 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTGT
56038465 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTGT
1 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTGT
56038505 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTGAT
1 TGCAAACACTCATCTCACCAATGTCAATATGCATATCTG-T
*
56038546 AGCAAACACT
1 TGCAAACACT
56038556 AGAGTTATGT
Statistics
Matches: 167, Mismatches: 3, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
40 115 0.69
41 17 0.10
42 35 0.21
ACGTcount: A:0.34, C:0.28, G:0.10, T:0.28
Consensus pattern (40 bp):
TGCAAACACTCATCTCACCAATGTCAATATGCATATCTGT
Found at i:56042957 original size:16 final size:16
Alignment explanation
Indices: 56042933--56042963 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
56042923 TTTGTTGAGT
*
56042933 ATTGTCAAGACAAGAC
1 ATTGACAAGACAAGAC
56042949 ATTGACAAGACAAGA
1 ATTGACAAGACAAGA
56042964 GACTAGTACA
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:0.48, C:0.16, G:0.19, T:0.16
Consensus pattern (16 bp):
ATTGACAAGACAAGAC
Found at i:56044716 original size:20 final size:20
Alignment explanation
Indices: 56044687--56044728 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
56044677 AAGGGACTGA
56044687 CACTACAGCACCACAATGGG
1 CACTACAGCACCACAATGGG
* **
56044707 CACTATAGCACTGCAATGGG
1 CACTACAGCACCACAATGGG
56044727 CA
1 CA
56044729 TTGTTGCACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.31, G:0.21, T:0.14
Consensus pattern (20 bp):
CACTACAGCACCACAATGGG
Found at i:56049875 original size:2 final size:2
Alignment explanation
Indices: 56049868--56049896 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
56049858 CGTGCCATTT
56049868 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
56049897 TTGCGATAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:56054240 original size:78 final size:79
Alignment explanation
Indices: 56054101--56054252 Score: 177
Period size: 78 Copynumber: 1.9 Consensus size: 79
56054091 ACACACTAGT
* * * * *
56054101 TTGGCACCCAGTGCCTCATCAGATAATTCGAAGTAATAATTTGACACATAGTGTCCCATCGACT-
1 TTGGCACCCAATACCTCATCAGATAATCCGAAGTAATAAATTGACACATAATGTCCCATCGACTC
56054165 AAA-TCGAAGTAAA
66 AAAGTCGAAGTAAA
* **
56054178 TTGGCACCCAATACCTCATC-GAATTAATCCGAAGTAGTAAATTGACAC-TCAATGTCTTATCGA
1 TTGGCACCCAATACCTCATCAG-A-TAATCCGAAGTAATAAATTGACACAT-AATGTCCCATCGA
56054241 CTCAAAGTCGAA
63 CTCAAAGTCGAA
56054253 AAAATCTCTG
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
76 1 0.02
77 20 0.32
78 33 0.53
79 3 0.05
80 5 0.08
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (79 bp):
TTGGCACCCAATACCTCATCAGATAATCCGAAGTAATAAATTGACACATAATGTCCCATCGACTC
AAAGTCGAAGTAAA
Found at i:56055156 original size:13 final size:13
Alignment explanation
Indices: 56055140--56055181 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
56055130 TTTGTTTTAT
56055140 TATATTAATATAA
1 TATATTAATATAA
56055153 TATATT-AT-T-A
1 TATATTAATATAA
*
56055163 TATAATAATATAA
1 TATATTAATATAA
56055176 TATATT
1 TATATT
56055182 TACTTAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
10 6 0.25
11 3 0.12
12 3 0.12
13 12 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TATATTAATATAA
Found at i:56055171 original size:23 final size:21
Alignment explanation
Indices: 56055136--56055181 Score: 74
Period size: 23 Copynumber: 2.1 Consensus size: 21
56055126 TTTATTTGTT
56055136 TTATTATATTAATATAATATA
1 TTATTATATTAATATAATATA
56055157 TTATTATATAATAATATAATATA
1 TTATTATAT--TAATATAATATA
56055180 TT
1 TT
56055182 TACTTAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 9 0.39
23 14 0.61
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTATTATATTAATATAATATA
Found at i:56065076 original size:21 final size:21
Alignment explanation
Indices: 56065037--56065076 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
56065027 TCTTTCACAC
*
56065037 GAGATTTTTTCTTTCACAAGG
1 GAGATTTTTTCTTTAACAAGG
56065058 GAGATTTGTTT-TTTAACAA
1 GAGATTT-TTTCTTTAACAA
56065077 AGCATCATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.45
Consensus pattern (21 bp):
GAGATTTTTTCTTTAACAAGG
Found at i:56067003 original size:22 final size:22
Alignment explanation
Indices: 56066956--56067000 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
56066946 AATTTAATCC
56066956 TTAAATTTCTATTTTTAGAAAT
1 TTAAATTTCTATTTTTAGAAAT
* *
56066978 TTAATTTTTTATTTTTA-AAAT
1 TTAAATTTCTATTTTTAGAAAT
56066999 TT
1 TT
56067001 TAAAATTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (22 bp):
TTAAATTTCTATTTTTAGAAAT
Found at i:56067768 original size:24 final size:26
Alignment explanation
Indices: 56067722--56067770 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
56067712 CTAAATTTAT
* *
56067722 TATTATGTGTAATTAAAATTCATTAA
1 TATTATGTGTAATCAAAAGTCATTAA
56067748 TATTATGT-T-ATCAAAAGTCATTA
1 TATTATGTGTAATCAAAAGTCATTA
56067771 TGTTTTTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 1 0.05
26 8 0.38
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (26 bp):
TATTATGTGTAATCAAAAGTCATTAA
Found at i:56071380 original size:28 final size:28
Alignment explanation
Indices: 56071340--56071395 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
56071330 TTCAGTATGA
56071340 ATAAAGACTTAAGTTTCACTACCCTTCC
1 ATAAAGACTTAAGTTTCACTACCCTTCC
*
56071368 ATAAAGACTTAAGTTTTACTACCCTTCC
1 ATAAAGACTTAAGTTTCACTACCCTTCC
56071396 TTTTATGCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (28 bp):
ATAAAGACTTAAGTTTCACTACCCTTCC
Found at i:56075972 original size:29 final size:29
Alignment explanation
Indices: 56075939--56076002 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
56075929 TAATCCACCA
56075939 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
56075968 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
56075998 CCCAA
1 CCCAA
56076003 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:56075976 original size:30 final size:30
Alignment explanation
Indices: 56075946--56076002 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
56075936 CCACCCAACT
56075946 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
56075975 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
56076003 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:56083676 original size:7 final size:7
Alignment explanation
Indices: 56083664--56083690 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
56083654 ATAAACTTGA
56083664 TAAATTT
1 TAAATTT
56083671 TAAATTT
1 TAAATTT
56083678 TAAATTT
1 TAAATTT
56083685 TAAATT
1 TAAATT
56083691 ATTGTTCTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TAAATTT
Found at i:56085464 original size:25 final size:26
Alignment explanation
Indices: 56085436--56085484 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
56085426 CATAAGAAAG
*
56085436 TTAAAATAAACAATATA-TAAATACA
1 TTAAAATAAACAAAATATTAAATACA
*
56085461 TTAAAATACACAAAATATTAAATA
1 TTAAAATAAACAAAATATTAAATA
56085485 TGAAGCAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 15 0.71
26 6 0.29
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (26 bp):
TTAAAATAAACAAAATATTAAATACA
Found at i:56092116 original size:43 final size:42
Alignment explanation
Indices: 56092037--56092137 Score: 123
Period size: 43 Copynumber: 2.4 Consensus size: 42
56092027 TGCTCCGGTA
* *
56092037 TCGCACTCTTAGTGCCCGTTATTCAATATCTCCATTTTAATT
1 TCGCACACTTAGTGCCCGTTATTCAACATCTCCATTTTAATT
* * *
56092079 TCGCACACTTAGTGCCCTTTTATTCAACCTCAT-CATTTTAGTT
1 TCGCACACTTAGTGCCC-GTTATTCAACATC-TCCATTTTAATT
*
56092122 CCGCACACTTAGTGCC
1 TCGCACACTTAGTGCC
56092138 GTTTATATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
42 16 0.31
43 34 0.67
44 1 0.02
ACGTcount: A:0.21, C:0.30, G:0.11, T:0.39
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCGTTATTCAACATCTCCATTTTAATT
Found at i:56099183 original size:17 final size:18
Alignment explanation
Indices: 56099163--56099197 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
56099153 ATACACACTT
*
56099163 TATTCAATATATA-TATA
1 TATTCAAAATATAGTATA
56099180 TATTCAAAATATAGTATA
1 TATTCAAAATATAGTATA
56099198 GCCTATACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (18 bp):
TATTCAAAATATAGTATA
Found at i:56099776 original size:43 final size:42
Alignment explanation
Indices: 56099697--56099797 Score: 123
Period size: 43 Copynumber: 2.4 Consensus size: 42
56099687 TGCTCCGGTA
* *
56099697 TCGCACTCTTAGTGCCCGTTATTCAATATCTCCATTTTAATT
1 TCGCACACTTAGTGCCCGTTATTCAACATCTCCATTTTAATT
* * *
56099739 TCGCACACTTAGTGCCCTTTTATTCAACCTCAT-CATTTTAGTT
1 TCGCACACTTAGTGCCC-GTTATTCAACATC-TCCATTTTAATT
*
56099782 CCGCACACTTAGTGCC
1 TCGCACACTTAGTGCC
56099798 GTTTATATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
42 16 0.31
43 34 0.67
44 1 0.02
ACGTcount: A:0.21, C:0.30, G:0.11, T:0.39
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCGTTATTCAACATCTCCATTTTAATT
Found at i:56102938 original size:7 final size:7
Alignment explanation
Indices: 56102928--56102990 Score: 56
Period size: 7 Copynumber: 8.4 Consensus size: 7
56102918 GCATGAGAGC
56102928 TGAGGGA
1 TGAGGGA
56102935 TGA-GGA
1 TGAGGGA
56102941 TGAGAGAGA
1 TGAG-G-GA
56102950 TGAGAGGA
1 TGAG-GGA
*
56102958 TGAGAGA
1 TGAGGGA
56102965 TGAGAGGGA
1 T--GAGGGA
*
56102974 TGAGAGA
1 TGAGGGA
56102981 TGAGGGA
1 TGAGGGA
56102988 TGA
1 TGA
56102991 TTGAAAAAGT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
6 6 0.13
7 20 0.43
8 7 0.15
9 14 0.30
ACGTcount: A:0.37, C:0.00, G:0.49, T:0.14
Consensus pattern (7 bp):
TGAGGGA
Found at i:56102953 original size:9 final size:9
Alignment explanation
Indices: 56102939--56102980 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
56102929 GAGGGATGAG
56102939 GATGAGAGA
1 GATGAGAGA
56102948 GATGAGAG-
1 GATGAGAGA
56102956 GAT--GAGA
1 GATGAGAGA
*
56102963 GATGAGAGG
1 GATGAGAGA
56102972 GATGAGAGA
1 GATGAGAGA
56102981 TGAGGGATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
6 3 0.11
7 3 0.11
8 3 0.11
9 19 0.68
ACGTcount: A:0.40, C:0.00, G:0.48, T:0.12
Consensus pattern (9 bp):
GATGAGAGA
Found at i:56102953 original size:15 final size:16
Alignment explanation
Indices: 56102933--56102983 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 16
56102923 AGAGCTGAGG
56102933 GATGAGGATGAGAGA-
1 GATGAGGATGAGAGAT
56102948 GATGAGAGGATGAGAGAT
1 GAT--GAGGATGAGAGAT
56102966 GA-GAGGGATGAGAGAT
1 GATGA-GGATGAGAGAT
56102982 GA
1 GA
56102984 GGGATGATTG
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
15 5 0.16
16 13 0.41
17 12 0.38
18 2 0.06
ACGTcount: A:0.39, C:0.00, G:0.47, T:0.14
Consensus pattern (16 bp):
GATGAGGATGAGAGAT
Found at i:56102956 original size:24 final size:25
Alignment explanation
Indices: 56102929--56102979 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
56102919 CATGAGAGCT
56102929 GAGGGATGAG-GATGAGAGAGATGA
1 GAGGGATGAGAGATGAGAGAGATGA
*
56102953 GA-GGATGAGAGATGAGAGGGATGA
1 GAGGGATGAGAGATGAGAGAGATGA
56102977 GAG
1 GAG
56102980 ATGAGGGATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 7 0.29
24 17 0.71
ACGTcount: A:0.37, C:0.00, G:0.51, T:0.12
Consensus pattern (25 bp):
GAGGGATGAGAGATGAGAGAGATGA
Found at i:56102976 original size:16 final size:15
Alignment explanation
Indices: 56102944--56102990 Score: 78
Period size: 16 Copynumber: 3.1 Consensus size: 15
56102934 ATGAGGATGA
56102944 GAGAGATGAGAGGAT
1 GAGAGATGAGAGGAT
56102959 GAGAGATGAGAGGGAT
1 GAGAGATGAGA-GGAT
56102975 GAGAGATGAG-GGAT
1 GAGAGATGAGAGGAT
56102989 GA
1 GA
56102991 TTGAAAAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
14 6 0.19
15 11 0.35
16 14 0.45
ACGTcount: A:0.38, C:0.00, G:0.49, T:0.13
Consensus pattern (15 bp):
GAGAGATGAGAGGAT
Found at i:56103535 original size:17 final size:18
Alignment explanation
Indices: 56103513--56103548 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
56103503 CCACTTCATA
56103513 GCTTAAA-AATATAAAAT
1 GCTTAAATAATATAAAAT
56103530 GCTTAAATTAATATAAAAT
1 GCTTAAA-TAATATAAAAT
56103549 AAGCCATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
19 10 0.59
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.33
Consensus pattern (18 bp):
GCTTAAATAATATAAAAT
Found at i:56106982 original size:20 final size:20
Alignment explanation
Indices: 56106957--56106994 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
56106947 ATCCCCTTTA
56106957 TTAACATAAA-AATTTAAAAT
1 TTAACA-AAATAATTTAAAAT
56106977 TTAACAAAATAATTTAAA
1 TTAACAAAATAATTTAAA
56106995 CTAGAAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
TTAACAAAATAATTTAAAAT
Found at i:56113800 original size:16 final size:15
Alignment explanation
Indices: 56113771--56113808 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
56113761 TAAGAGAGTT
56113771 GAGA-AAGAGGATGA
1 GAGATAAGAGGATGA
56113785 GAGATAAGAGGGATGA
1 GAGATAAGA-GGATGA
*
56113801 GGGATAAG
1 GAGATAAG
56113809 GGAAGAGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.19
15 4 0.19
16 13 0.62
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.11
Consensus pattern (15 bp):
GAGATAAGAGGATGA
Found at i:56114366 original size:17 final size:18
Alignment explanation
Indices: 56114344--56114379 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
56114334 CCACTTCATA
56114344 GCTTAAA-AATATAAAAT
1 GCTTAAATAATATAAAAT
56114361 GCTTAAATTAATATAAAAT
1 GCTTAAA-TAATATAAAAT
56114380 AAGCCATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
19 10 0.59
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.33
Consensus pattern (18 bp):
GCTTAAATAATATAAAAT
Found at i:56119013 original size:12 final size:12
Alignment explanation
Indices: 56118992--56119022 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
56118982 TCAGACTGTT
*
56118992 ACACGGCCTAGC
1 ACACGACCTAGC
56119004 ACACGACCTAGC
1 ACACGACCTAGC
56119016 ACACGAC
1 ACACGAC
56119023 GTGTGGGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.32, C:0.42, G:0.19, T:0.06
Consensus pattern (12 bp):
ACACGACCTAGC
Found at i:56119071 original size:41 final size:41
Alignment explanation
Indices: 56119014--56119111 Score: 187
Period size: 41 Copynumber: 2.4 Consensus size: 41
56119004 ACACGACCTA
56119014 GCACACGACGTGTGGGGTTATTTCAAAGGGTACACAGCCTG
1 GCACACGACGTGTGGGGTTATTTCAAAGGGTACACAGCCTG
56119055 GCACACGACGTGTGGGGTTATTTCAAAGGGTACACAGCCTG
1 GCACACGACGTGTGGGGTTATTTCAAAGGGTACACAGCCTG
56119096 GCACACGAGCGTGTGG
1 GCACACGA-CGTGTGG
56119112 CTTGGTCGTG
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
41 49 0.88
42 7 0.12
ACGTcount: A:0.23, C:0.22, G:0.34, T:0.20
Consensus pattern (41 bp):
GCACACGACGTGTGGGGTTATTTCAAAGGGTACACAGCCTG
Found at i:56136434 original size:21 final size:21
Alignment explanation
Indices: 56136410--56136449 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
56136400 ACCTTTTCTA
56136410 AAGTTAAAA-GTCAAAACTATT
1 AAGTTAAAAGGT-AAAACTATT
56136431 AAGTTAAAAGGTAAAACTA
1 AAGTTAAAAGGTAAAACTA
56136450 CGTCATTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.25
Consensus pattern (21 bp):
AAGTTAAAAGGTAAAACTATT
Found at i:56138135 original size:26 final size:25
Alignment explanation
Indices: 56138088--56138136 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
56138078 AAATATAATT
* * *
56138088 TTTTTAAAAATATAATTTTAAATAA
1 TTTTAAAAAATATAAATATAAATAA
56138113 TTTTAAAAATATATAAATATAAAT
1 TTTTAAAAA-ATATAAATATAAAT
56138137 TAAAAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 8 0.40
26 12 0.60
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
TTTTAAAAAATATAAATATAAATAA
Found at i:56138301 original size:19 final size:19
Alignment explanation
Indices: 56138265--56138314 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
56138255 ATAGAAATTC
*
56138265 AAAAAAA-TAGAAATTTGAA
1 AAAAAAATTA-AAAATTGAA
56138284 AAAAAAATTAAAAATTGAA
1 AAAAAAATTAAAAATTGAA
* *
56138303 TAAATAATTAAA
1 AAAAAAATTAAA
56138315 TTCTAAAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 25 0.93
20 2 0.07
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (19 bp):
AAAAAAATTAAAAATTGAA
Found at i:56139536 original size:20 final size:20
Alignment explanation
Indices: 56139511--56139549 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
56139501 ATAACTTTAG
*
56139511 ATACCAATATAAAAAAATAA
1 ATACCAAGATAAAAAAATAA
56139531 ATACCAAGATAAAAAAATA
1 ATACCAAGATAAAAAAATA
56139550 GTATAATTTG
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:0.69, C:0.10, G:0.03, T:0.18
Consensus pattern (20 bp):
ATACCAAGATAAAAAAATAA
Found at i:56140040 original size:31 final size:32
Alignment explanation
Indices: 56140005--56140069 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
56139995 AATAAATATT
* *
56140005 ATTTTAAAATATGTG-AATAGTTAAACTAAAA
1 ATTTTAAAATATGAGAAATAATTAAACTAAAA
56140036 ATTTTAAAATATGAGAAATAATTAAACTAAAA
1 ATTTTAAAATATGAGAAATAATTAAACTAAAA
56140068 AT
1 AT
56140070 AATCAAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 14 0.45
32 17 0.55
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (32 bp):
ATTTTAAAATATGAGAAATAATTAAACTAAAA
Found at i:56140486 original size:9 final size:9
Alignment explanation
Indices: 56140472--56140502 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
56140462 GTTAAATGAA
56140472 TCGAGTTAT
1 TCGAGTTAT
*
56140481 TCGAGTTAA
1 TCGAGTTAT
56140490 TCGAGTTAT
1 TCGAGTTAT
56140499 TCGA
1 TCGA
56140503 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:56140572 original size:9 final size:9
Alignment explanation
Indices: 56140555--56140591 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
56140545 TGAGTTTTCG
56140555 AATTCGAAT
1 AATTCGAAT
*
56140564 AACTCGAAT
1 AATTCGAAT
56140573 AATTCGAAT
1 AATTCGAAT
56140582 AATTCGAAT
1 AATTCGAAT
56140591 A
1 A
56140592 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:56141540 original size:5 final size:5
Alignment explanation
Indices: 56141530--56141560 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
56141520 GAACAAATAT
56141530 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG ATTCG A
56141561 ATTCCATCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (5 bp):
ATTCG
Found at i:56146042 original size:5 final size:5
Alignment explanation
Indices: 56146032--56146057 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
56146022 TGAGCATTCG
56146032 ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA A
56146058 AATTTTCGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:56146845 original size:31 final size:30
Alignment explanation
Indices: 56146810--56146869 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
56146800 GGAGGTGGGA
*
56146810 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
56146841 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
56146870 TAAAAAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:56156531 original size:50 final size:51
Alignment explanation
Indices: 56156425--56156626 Score: 336
Period size: 51 Copynumber: 4.0 Consensus size: 51
56156415 ATCACATTTA
*
56156425 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
1 TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
* * *
56156476 TCACTTGTCACCGATCATATAAGTGTAGCT-AAGCTACCACTTATCACTTG
1 TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
* *
56156526 TCACTTATCACTGATCAGATAAGTGCAGCTAAAGCTACCACTTATCACTAG
1 TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
56156577 TCACTTATCACTGATCAGATAAGTGTAGCTAAA-CTACCACTTATCACTTG
1 TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
56156627 CCATTGATCA
Statistics
Matches: 141, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
50 62 0.44
51 79 0.56
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (51 bp):
TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
Found at i:56156540 original size:101 final size:101
Alignment explanation
Indices: 56156425--56156626 Score: 341
Period size: 101 Copynumber: 2.0 Consensus size: 101
56156415 ATCACATTTA
* * * *
56156425 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTGTCACCGA
1 TCACTTATCACTGATCAGATAAGTGCAGCTAAAGCTACCACTTATCACTAGTCACTTATCACCGA
* *
56156490 TCATATAAGTGTAGCTAAGCTACCACTTATCACTTG
66 TCAGATAAGTGTAGCTAAACTACCACTTATCACTTG
*
56156526 TCACTTATCACTGATCAGATAAGTGCAGCTAAAGCTACCACTTATCACTAGTCACTTATCACTGA
1 TCACTTATCACTGATCAGATAAGTGCAGCTAAAGCTACCACTTATCACTAGTCACTTATCACCGA
56156591 TCAGATAAGTGTAGCTAAACTACCACTTATCACTTG
66 TCAGATAAGTGTAGCTAAACTACCACTTATCACTTG
56156627 CCATTGATCA
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 94 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (101 bp):
TCACTTATCACTGATCAGATAAGTGCAGCTAAAGCTACCACTTATCACTAGTCACTTATCACCGA
TCAGATAAGTGTAGCTAAACTACCACTTATCACTTG
Found at i:56156732 original size:17 final size:17
Alignment explanation
Indices: 56156710--56156742 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
56156700 TATTCTCAAT
56156710 TCATCA-ACAAATATATC
1 TCATCATAC-AATATATC
56156727 TCATCATACAATATAT
1 TCATCATACAATATAT
56156743 AATTCATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
TCATCATACAATATATC
Found at i:56168432 original size:22 final size:22
Alignment explanation
Indices: 56168394--56168455 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
56168384 AAAAGTACAT
56168394 AAAT-ATTTTAAATAATATATAA
1 AAATAATTTT-AATAATATATAA
* *
56168416 TAATAAATTTTAA-AATATGTAA
1 AAAT-AATTTTAATAATATATAA
*
56168438 AAATAATTTTATTAATAT
1 AAATAATTTTAATAATAT
56168456 TGAATAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 7 0.21
22 19 0.58
23 2 0.06
24 5 0.15
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
AAATAATTTTAATAATATATAA
Found at i:56169671 original size:2 final size:2
Alignment explanation
Indices: 56169664--56169689 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
56169654 TAAATTATTG
56169664 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
56169690 GATGTACGGA
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):
AT
Found at i:56170750 original size:29 final size:27
Alignment explanation
Indices: 56170701--56170756 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 27
56170691 AATTAGGGGT
56170701 TAAATTGTGAAATATGAAAATTGTATGG
1 TAAATTGTGAAATATGAAAA-TGTATGG
*
56170729 TAAATGTGTGAAATTCTG-AAATGTATGG
1 TAAAT-TGTGAAA-TATGAAAATGTATGG
56170757 ACTGCTATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 12 0.48
29 10 0.40
30 3 0.12
ACGTcount: A:0.39, C:0.02, G:0.23, T:0.36
Consensus pattern (27 bp):
TAAATTGTGAAATATGAAAATGTATGG
Found at i:56182508 original size:9 final size:9
Alignment explanation
Indices: 56182496--56182761 Score: 86
Period size: 9 Copynumber: 28.6 Consensus size: 9
56182486 TAAAATCAGA
56182496 AAAAATTAT
1 AAAAATTAT
56182505 AAAAATTAT
1 AAAAATTAT
* *
56182514 AAAAATAAA
1 AAAAATTAT
56182523 AAAAATAATAT
1 AAAAAT--TAT
56182534 AAATAA-TATT
1 AAA-AATTA-T
*
56182544 AAATATTA-
1 AAAAATTAT
**
56182552 AAACCTT-T
1 AAAAATTAT
56182560 AAAACCA-T-T
1 AAAA--ATTAT
*
56182569 AAAATTTAT
1 AAAAATTAT
* *
56182578 ATGAACTTAT
1 A-AAAATTAT
*
56182588 TAAAATTAT
1 AAAAATTAT
*
56182597 AAAAAAAATAT
1 --AAAAATTAT
56182608 AAAAACTTAT
1 AAAAA-TTAT
*
56182618 AAATATTAT
1 AAAAATTAT
*
56182627 AAAAATATAA
1 AAAAAT-TAT
56182637 AAAAATCTA-
1 AAAAAT-TAT
*
56182646 ATAAATTAT
1 AAAAATTAT
*
56182655 AAAAAATAAT
1 -AAAAATTAT
56182665 AAAAATTATTT
1 AAAAATTA--T
56182676 AAAATATT-T
1 AAAA-ATTAT
*
56182685 AAAATTTA-
1 AAAAATTAT
*
56182693 AAAAAGTATT
1 AAAAATTA-T
* *
56182703 AGAATTATTAA
1 A-AA-AATTAT
56182714 AAAAATTA-
1 AAAAATTAT
56182722 AAAAA-T-T
1 AAAAATTAT
*
56182729 AAAATTTAT
1 AAAAATTAT
* *
56182738 ATAGACTTAT
1 A-AAAATTAT
56182748 AAAAATTAT
1 AAAAATTAT
56182757 AAAAA
1 AAAAA
56182762 AATCATAAAA
Statistics
Matches: 190, Mismatches: 38, Indels: 58
0.66 0.13 0.20
Matches are distributed among these distances:
7 5 0.03
8 25 0.13
9 87 0.46
10 46 0.24
11 19 0.10
12 8 0.04
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.33
Consensus pattern (9 bp):
AAAAATTAT
Found at i:56182617 original size:30 final size:30
Alignment explanation
Indices: 56182581--56182725 Score: 105
Period size: 29 Copynumber: 5.1 Consensus size: 30
56182571 AATTTATATG
*
56182581 AACTTATTAAAATTATAAAAAAAATATAAA
1 AACTTATTAAAATTATAAAAAATATATAAA
56182611 AACTTA-TAAATATTAT-AAAAATATA-AAA
1 AACTTATTAAA-ATTATAAAAAATATATAAA
* *
56182639 AAATCTAAT-AAATTATAAAAAATA-ATAAA
1 AACT-TATTAAAATTATAAAAAATATATAAA
**
56182668 AA-TTATTTAAAA-TATTTAAAAT-T-TAAA
1 AACTTA-TTAAAATTATAAAAAATATATAAA
** *
56182695 AAAGTATTAGAATTATTAAAAAA-AT-TAAA
1 AACTTATTAAAATTA-TAAAAAATATATAAA
56182724 AA
1 AA
56182726 ATTAAAATTT
Statistics
Matches: 94, Mismatches: 9, Indels: 25
0.73 0.07 0.20
Matches are distributed among these distances:
27 13 0.14
28 26 0.28
29 43 0.46
30 12 0.13
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.32
Consensus pattern (30 bp):
AACTTATTAAAATTATAAAAAATATATAAA
Found at i:56183207 original size:20 final size:21
Alignment explanation
Indices: 56183182--56183228 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
56183172 TTTTTTATAA
56183182 TTTTATA-TCAATTTAAATAT-
1 TTTTATAGT-AATTTAAATATG
*
56183202 TTTTATAGTATTTTAAATATG
1 TTTTATAGTAATTTAAATATG
56183223 TTTTAT
1 TTTTAT
56183229 TAATGTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (21 bp):
TTTTATAGTAATTTAAATATG
Found at i:56183800 original size:16 final size:17
Alignment explanation
Indices: 56183774--56183806 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
56183764 TATTATAATC
56183774 TATATTATAATAATAGT
1 TATATTATAATAATAGT
*
56183791 TATA-TATAATAGTAGT
1 TATATTATAATAATAGT
56183807 ACATTATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (17 bp):
TATATTATAATAATAGT
Found at i:56184069 original size:250 final size:247
Alignment explanation
Indices: 56183574--56184028 Score: 623
Period size: 250 Copynumber: 1.8 Consensus size: 247
56183564 CATATAAGCC
*
56183574 TATATATTATTGTTTGTTATTATACTGATTAAAAAATGCTCTAAATCCCTATATTTTTAGTAAAT
1 TATATATTATTGTTTATTATTATACTGATTAAAAAATGCTCTAAATCCCTATATTTTTAGTAAAT
* * **
56183639 TTGAAAGTTAGCTCTCTTACTATATTATATAATGCTATATCATATCATATAGTATATAATATATT
66 TTGAAAGTTAGCCCTCCTACTATATTATATAATGCTATATCATATCATATAGTATATAATATAGC
*
56183704 AATAGTTTATATATATGTGCATAAAAGACTAAACATTATAATATCATGTACTATAACTATTATTA
131 AATAGTTTATATATATATGCATAAAAGACTAAACATTATAATATCATG----ATAACTATTATTA
56183769 TAATCTATATTATAATAATAGTTATATATAATAGTAGTACATTATATATTACTTAT
192 TAATCTATATTATAATAATAGTTATATATAATAGTAGTACATTATATATTACTTAT
** * * * ** * *
56183825 TATATATTATTGTTTATTATTATACT-AGTTGGAATATTCTCTAAGTCTTTATATTTTT-TTACA
1 TATATATTATTGTTTATTATTATACTGA-TTAAAAAATGCTCTAAATCCCTATATTTTTAGTAAA
* *
56183888 TTTGGAAGTTAGCCCTCCTATTATATTATATAATGCTATATCATATCATATAGTATATAATATAG
65 TTTGAAAGTTAGCCCTCCTACTATATTATATAATGCTATATCATATCATATAGTATATAATATAG
** * * *
56183953 CAATAG-TTATATATATATGCATTGATGATTAAACATTATAATATCATG-T-AGTATTATTATAA
130 CAATAGTTTATATATATATGCATAAAAGACTAAACATTATAATATCATGATAACTATTATTATAA
*
56184015 TTTATATTATAATA
195 TCTATATTATAATA
56184029 GTTGTATATG
Statistics
Matches: 180, Mismatches: 23, Indels: 10
0.85 0.11 0.05
Matches are distributed among these distances:
243 25 0.14
244 1 0.01
249 37 0.21
250 69 0.38
251 48 0.27
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.45
Consensus pattern (247 bp):
TATATATTATTGTTTATTATTATACTGATTAAAAAATGCTCTAAATCCCTATATTTTTAGTAAAT
TTGAAAGTTAGCCCTCCTACTATATTATATAATGCTATATCATATCATATAGTATATAATATAGC
AATAGTTTATATATATATGCATAAAAGACTAAACATTATAATATCATGATAACTATTATTATAAT
CTATATTATAATAATAGTTATATATAATAGTAGTACATTATATATTACTTAT
Found at i:56184073 original size:28 final size:28
Alignment explanation
Indices: 56184007--56184079 Score: 69
Period size: 30 Copynumber: 2.6 Consensus size: 28
56183997 CATGTAGTAT
* * *
56184007 TATTATAATTTATATTATAATAGTTGTA
1 TATTATAATATATATTATAATAGCTATA
*
56184035 TATGTATTAATATGT-TTAGTAATAGCTATA
1 TAT-TA-TAATATATATTA-TAATAGCTATA
56184065 TATTATAATAT-TATT
1 TATTATAATATATATT
56184080 TTATGTACTA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
27 1 0.03
28 11 0.30
29 7 0.19
30 18 0.49
ACGTcount: A:0.38, C:0.01, G:0.08, T:0.52
Consensus pattern (28 bp):
TATTATAATATATATTATAATAGCTATA
Found at i:56184209 original size:16 final size:17
Alignment explanation
Indices: 56184190--56184222 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
56184180 TAATTTATAG
56184190 ATTTTA-ATAATTATTA
1 ATTTTATATAATTATTA
*
56184206 ATTTTATATATTTATTA
1 ATTTTATATAATTATTA
56184223 TACATGTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
ATTTTATATAATTATTA
Found at i:56201004 original size:43 final size:43
Alignment explanation
Indices: 56200835--56201005 Score: 154
Period size: 43 Copynumber: 4.0 Consensus size: 43
56200825 ACATAGGATT
* *
56200835 TCGATATGTGTTTTCGTGTAAGACCACGTCTGGGATGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGCA
* * * * **
56200878 TCGACT-CGTGTTTACGCGTAAGACCATGTCTGGGACATTGGCA
1 TCGA-TATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGCA
* * * *
56200921 TCG-TATTTGATT-TGTGTAAGACC-CTGTCTAGGACAG-TGGCA
1 TCGATATGTGATTACGTGTAAGACCAC-GTCTGGGA-TGTTGGCA
* *
56200962 TCGATATGTGATTACATGTAAGATCACGTCTGGGATGTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGCA
56201005 T
1 T
56201006 TGTACGAGTC
Statistics
Matches: 99, Mismatches: 21, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
41 25 0.25
42 13 0.13
43 59 0.60
44 2 0.02
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.33
Consensus pattern (43 bp):
TCGATATGTGATTACGTGTAAGACCACGTCTGGGATGTTGGCA
Found at i:56208792 original size:109 final size:106
Alignment explanation
Indices: 56208592--56208792 Score: 303
Period size: 109 Copynumber: 1.9 Consensus size: 106
56208582 AAAATTCAAG
*
56208592 AGGATATTTGGCTATTTGGTTAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTCCTCGAA
1 AGGATATTTGGCTATTTGCTTAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTCCTCGAA
56208657 TTACCAAACGCGAAACATTGCCTTATTTTGAAATTTTTGAA
66 TTACCAAACGCGAAACATTGCCTTATTTTGAAATTTTTGAA
* *
56208698 AGGATATTTGGCTATTTGCTTGAACGAGAAAAATCGAAACCCAGCACATTAGGGCACATTTCCTC
1 AGGATATTTGGCTATTTGCTTAAACGAG--AAATCGAAACCCAGCACATTAGGGCAC-GTTCCTC
* * ** *
56208763 GAATTTCCAAATGTTAAATATTGCCTTATT
63 GAATTACCAAACGCGAAACATTGCCTTATT
56208793 ATTTTTTAGA
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
106 26 0.31
108 27 0.32
109 31 0.37
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (106 bp):
AGGATATTTGGCTATTTGCTTAAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTCCTCGAA
TTACCAAACGCGAAACATTGCCTTATTTTGAAATTTTTGAA
Found at i:56222379 original size:6 final size:6
Alignment explanation
Indices: 56222368--56222394 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
56222358 GAAATGCACC
56222368 AGATTG AGATTG AGATTG AGATTG AGA
1 AGATTG AGATTG AGATTG AGATTG AGA
56222395 GTGGAAGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.30
Consensus pattern (6 bp):
AGATTG
Found at i:56234046 original size:3 final size:3
Alignment explanation
Indices: 56234038--56234066 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
56234028 AAATTAGTTA
56234038 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
56234067 AGAAAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:56262740 original size:25 final size:26
Alignment explanation
Indices: 56262712--56262768 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
56262702 CTATATATAA
56262712 AAATTT-AATAAATAAAAAATATTTT
1 AAATTTAAATAAATAAAAAATATTTT
* * *
56262737 AAATTTAAATAATTTAAATATATTTT
1 AAATTTAAATAAATAAAAAATATTTT
*
56262763 TAATTT
1 AAATTT
56262769 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 6 0.22
26 21 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
AAATTTAAATAAATAAAAAATATTTT
Found at i:56269743 original size:40 final size:39
Alignment explanation
Indices: 56269621--56269753 Score: 92
Period size: 40 Copynumber: 3.4 Consensus size: 39
56269611 ACTTCGAGTC
* * * * * *
56269621 GATGAAACACTAGGTGTCAATTTACTACTTCAAATATATTT
1 GATGAGACACTGGGT-TCAAATTATTACTTCGAAT-TATCT
* * * **
56269662 GATGAGGCACTGGGTGCCAA-T-TTACTTCGGTTTAGTC-
1 GATGAGACACTGGGTTCAAATTATTACTTCGAATTA-TCT
56269699 GATGAGACACTGGGTATCAAATTATTACTTCGAATTATCT
1 GATGAGACACTGGGT-TCAAATTATTACTTCGAATTATCT
* *
56269739 GATGAGGCATTGGGT
1 GATGAGACACTGGGT
56269754 GCCAAACTGG
Statistics
Matches: 69, Mismatches: 18, Indels: 11
0.70 0.18 0.11
Matches are distributed among these distances:
37 16 0.23
38 11 0.16
39 4 0.06
40 26 0.38
41 12 0.17
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.34
Consensus pattern (39 bp):
GATGAGACACTGGGTTCAAATTATTACTTCGAATTATCT
Found at i:56272030 original size:18 final size:18
Alignment explanation
Indices: 56272004--56272038 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
56271994 ATATTTTGTT
*
56272004 ATTAGATATCGATACCAA
1 ATTAAATATCGATACCAA
56272022 ATTAAATATCGATACCA
1 ATTAAATATCGATACCA
56272039 TTTTGACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.17, G:0.09, T:0.29
Consensus pattern (18 bp):
ATTAAATATCGATACCAA
Found at i:56275413 original size:2 final size:2
Alignment explanation
Indices: 56275401--56275432 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
56275391 AAAAATTAAT
56275401 TA TA TA GTA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA T
56275433 GTTAAGTGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:56283726 original size:2 final size:2
Alignment explanation
Indices: 56283714--56283743 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
56283704 TTTCCATCCT
*
56283714 TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
56283744 AGCATGGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
TC
Found at i:56286189 original size:20 final size:19
Alignment explanation
Indices: 56286173--56286222 Score: 68
Period size: 18 Copynumber: 2.6 Consensus size: 19
56286163 ACCAAAAATT
56286173 TATTTTAAAAATTAAAAAAA
1 TATTTTAAAAATT-AAAAAA
56286193 GTATTTT-AAAATT-AAAAA
1 -TATTTTAAAAATTAAAAAA
56286211 TATTTTAAAAAT
1 TATTTTAAAAAT
56286223 ATTTTAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
17 6 0.21
18 10 0.36
20 6 0.21
21 6 0.21
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (19 bp):
TATTTTAAAAATTAAAAAA
Found at i:56286232 original size:10 final size:11
Alignment explanation
Indices: 56286204--56286231 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
56286194 TATTTTAAAA
56286204 TTAAAAATATT
1 TTAAAAATATT
56286215 TTAAAAATATT
1 TTAAAAATATT
56286226 TTAAAA
1 TTAAAA
56286232 TTAAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (11 bp):
TTAAAAATATT
Done.