Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 352 of 362
Found at i:116486257 original size:15 final size:16
Alignment explanation
Indices: 116486239--116486285 Score: 53
Period size: 15 Copynumber: 2.9 Consensus size: 16
116486229 AATATATAAA
116486239 ATAATAATAATATT-G
1 ATAATAATAATATTAG
116486254 ATAATATTAATAATATTAG
1 AT-A-A-TAATAATATTAG
116486273 A-AATAATAATATT
1 ATAATAATAATATT
116486286 TAATAAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 12 0.43
16 2 0.07
17 2 0.07
18 10 0.36
19 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (16 bp):
ATAATAATAATATTAG
Found at i:116488167 original size:20 final size:20
Alignment explanation
Indices: 116488140--116488190 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
116488130 CAAGTCACGT
116488140 AGGTATCGATACTGAAACAA
1 AGGTATCGATACTGAAACAA
* *
116488160 ATGTATCGATATTGAAACAA
1 AGGTATCGATACTGAAACAA
*
116488180 AGGAATCGATA
1 AGGTATCGATA
116488191 TTTCTTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.24
Consensus pattern (20 bp):
AGGTATCGATACTGAAACAA
Found at i:116489146 original size:26 final size:26
Alignment explanation
Indices: 116489110--116489219 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
116489100 TGATACAGAT
116489110 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
116489136 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
116489162 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
116489188 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
116489214 TGATAA
1 TGATAA
116489220 GAATTTCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:116490733 original size:26 final size:26
Alignment explanation
Indices: 116490704--116490756 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
116490694 TTTACAGTTT
116490704 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
116490730 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
116490756 T
1 T
116490757 GTATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:116492797 original size:26 final size:26
Alignment explanation
Indices: 116492751--116492803 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
116492741 TCAAACATGC
*
116492751 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAGGGGT
* *
116492777 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAAC-CCTAGGGGT
116492803 A
1 A
116492804 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAGGGGT
Found at i:116494323 original size:26 final size:26
Alignment explanation
Indices: 116494287--116494394 Score: 207
Period size: 26 Copynumber: 4.2 Consensus size: 26
116494277 TGAAATTCTC
116494287 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
116494313 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
116494339 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
116494365 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
116494391 ATCA
1 ATCA
116494395 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:116494923 original size:14 final size:13
Alignment explanation
Indices: 116494904--116494936 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
116494894 TGAAACTGAG
116494904 AAGAAAAAGAGAGA
1 AAGAAAAAG-GAGA
116494918 AAGAAAAAGGAGA
1 AAGAAAAAGGAGA
116494931 AA-AAAA
1 AAGAAAA
116494937 TTAAGGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.21
13 6 0.32
14 9 0.47
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AAGAAAAAGGAGA
Found at i:116502093 original size:3 final size:3
Alignment explanation
Indices: 116502085--116502171 Score: 61
Period size: 3 Copynumber: 28.0 Consensus size: 3
116502075 TGGGTAAAAT
* *
116502085 ATA ATA ATA ATA AT- ATA ATA GTA GTA ATA ATA ATA AGGTA ATAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA AT-A ATA
** * *
116502132 ATA ACG GTA ATA GTA ATA ATA AT- ATA TATA AGTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA A-TA ATA ATA
116502172 TAAATGGATA
Statistics
Matches: 67, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
2 4 0.06
3 51 0.76
4 9 0.13
5 3 0.04
ACGTcount: A:0.57, C:0.01, G:0.09, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:116502149 original size:18 final size:16
Alignment explanation
Indices: 116502082--116502153 Score: 68
Period size: 14 Copynumber: 4.8 Consensus size: 16
116502072 TAATGGGTAA
116502082 AATATAATAATAA--T
1 AATATAATAATAAGGT
*
116502096 AATATAATAGT-A-GT
1 AATATAATAATAAGGT
116502110 -A-ATAATAATAAGGT
1 AATATAATAATAAGGT
116502124 AATA-AATAATAACGGT
1 AATATAATAATAA-GGT
116502140 AATAGTAATAATAA
1 AATA-TAATAATAA
116502154 TATATATAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
12 7 0.15
13 3 0.06
14 13 0.27
15 9 0.19
16 8 0.17
18 8 0.17
ACGTcount: A:0.58, C:0.01, G:0.10, T:0.31
Consensus pattern (16 bp):
AATATAATAATAAGGT
Found at i:116502174 original size:12 final size:13
Alignment explanation
Indices: 116502085--116502171 Score: 74
Period size: 15 Copynumber: 6.5 Consensus size: 13
116502075 TGGGTAAAAT
116502085 ATAATAATAA-TA
1 ATAATAATAAGTA
116502097 AT-ATAATAGTAGTA
1 ATAATAATA--AGTA
116502111 ATAATAATAAGGTA
1 ATAATAATAA-GTA
116502125 ATAAATAATAACGGTA
1 AT-AATAATAA--GTA
*
116502141 ATAGTAATAA-TA
1 ATAATAATAAGTA
116502153 AT-ATATATAAGTA
1 ATAATA-ATAAGTA
116502166 ATAATA
1 ATAATA
116502172 TAAATGGATA
Statistics
Matches: 63, Mismatches: 2, Indels: 18
0.76 0.02 0.22
Matches are distributed among these distances:
11 8 0.13
12 10 0.16
13 6 0.10
14 12 0.19
15 21 0.33
16 6 0.10
ACGTcount: A:0.57, C:0.01, G:0.09, T:0.32
Consensus pattern (13 bp):
ATAATAATAAGTA
Found at i:116512063 original size:12 final size:12
Alignment explanation
Indices: 116512030--116512063 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
116512020 ATACATGCAC
116512030 ATATATCTATAT
1 ATATATCTATAT
* *
116512042 ATGTAACTATAT
1 ATATATCTATAT
116512054 ATATATCTAT
1 ATATATCTAT
116512064 CTATTTATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.47
Consensus pattern (12 bp):
ATATATCTATAT
Found at i:116513412 original size:131 final size:131
Alignment explanation
Indices: 116513164--116513684 Score: 656
Period size: 131 Copynumber: 4.0 Consensus size: 131
116513154 TAATTATTCA
* * * * *
116513164 TTTAAAAATTCTTTAAGCAAAGGCGATGTTCGATATTTGGCAATTCGCGGAATCGTG-CCTATCG
1 TTTAAAAATTCTTAAAACGAAGGCAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCG
* *
116513228 TGCTGGGTAGCAATTTCTCGTTTGTTCAAAATAATCGAAGGTCCCTTTAGAATTTCACTCATGTC
66 TGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAAGATCCCTTTAGAATTTCACTCATGTC
116513293 T
131 T
* * * *
116513294 TTTAAAAATTCTTTAAACGAAGGCGATGTTCGATATTTGGCAATTCGCGGAATCGTGCCCTATAG
1 TTTAAAAATTCTTAAAACGAAGGCAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCG
* * *
116513359 TGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAAGGTCCCTTTTGAATTTCACTCACGT-
66 TGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAAGATCCCTTTAGAATTTCACTCATGTC
116513423 T
131 T
* * * *
116513424 TTCTAAAAACTCTTCAAAACGAAGGTAATATTCGATGTTTGGCAATTTG-GGAATCGTGCCCTAT
1 TT-TAAAAATTCTT-AAAACGAAGGCAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTAT
* * * * * * *
116513488 CGTGCTGGGTTGCGATTTCTCGTTTGTTCAAAACAATCGAATATTCCATTGGGATTTCACTCATG
64 CGTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAAGATCCCTTTAGAATTTCACTCATG
116513553 -CT
129 TCT
* * * *
116513555 TTTAAAAATTCTCCAAAACGAAGGTAATATTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
1 TTTAAAAATTCT-TAAAACGAAGGCAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATC
* * * * * *
116513620 GTGCTGGGTTGCGATCTC-CTGTTTGTTCAAGATAATCGAATATTCCTTTAGAATTTCATTCATG
65 GTGCTGGGTTGCAATTTCTC-GTTTGTTCAAAATAATCGAAGATCCCTTTAGAATTTCACTCATG
116513684 T
129 T
116513685 TCTCCAAATT
Statistics
Matches: 350, Mismatches: 33, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
130 101 0.29
131 221 0.63
132 28 0.08
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (131 bp):
TTTAAAAATTCTTAAAACGAAGGCAATATTCGATATTTGGCAATTCGCGGAATCGTGCCCTATCG
TGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAAGATCCCTTTAGAATTTCACTCATGTC
T
Found at i:116514504 original size:118 final size:118
Alignment explanation
Indices: 116514341--116514587 Score: 440
Period size: 118 Copynumber: 2.1 Consensus size: 118
116514331 CCAAAGAAAT
116514341 TAATTAGTACATTTTCCAAATACCTTCATTTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
1 TAATTAGTACATTTTCCAAATACCTTCATTTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
*
116514406 GTCCAAAAAATTAGAGTCAAAATCTTAAAAAACGGGAAAAATTAATTTTGTTA
66 GTCCAAAAAATTAGAGTCAAAATATTAAAAAACGGGAAAAATTAATTTTGTTA
*
116514459 TAATTAGTACATTTTCCAAATATCTTCATTTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
1 TAATTAGTACATTTTCCAAATACCTTCATTTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
* * *
116514524 GTCCAAAAAATTAGAGTTAACATATTAAAAAACGGGAAAAATTAATTTTGTTG
66 GTCCAAAAAATTAGAGTCAAAATATTAAAAAACGGGAAAAATTAATTTTGTTA
*
116514577 TAATTAATACA
1 TAATTAGTACA
116514588 ATAAATAGGC
Statistics
Matches: 123, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
118 123 1.00
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.37
Consensus pattern (118 bp):
TAATTAGTACATTTTCCAAATACCTTCATTTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
GTCCAAAAAATTAGAGTCAAAATATTAAAAAACGGGAAAAATTAATTTTGTTA
Found at i:116514716 original size:33 final size:33
Alignment explanation
Indices: 116514679--116514745 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
116514669 AACAAAATTA
116514679 AGTAAGTCCTTCTCACTACACTCTATTATTTGT
1 AGTAAGTCCTTCTCACTACACTCTATTATTTGT
116514712 AGTAAGTCCTTCTCACTACACTCTATTATTTGT
1 AGTAAGTCCTTCTCACTACACTCTATTATTTGT
116514745 A
1 A
116514746 ATTTTATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.25, C:0.24, G:0.09, T:0.42
Consensus pattern (33 bp):
AGTAAGTCCTTCTCACTACACTCTATTATTTGT
Found at i:116515381 original size:13 final size:14
Alignment explanation
Indices: 116515339--116515383 Score: 51
Period size: 13 Copynumber: 3.3 Consensus size: 14
116515329 TATTAATGAT
116515339 TAAAGTATATTATAA
1 TAAAGTA-ATTATAA
116515354 TAATA-TAA-TATAA
1 TAA-AGTAATTATAA
116515367 TAAAGTAATTA-AA
1 TAAAGTAATTATAA
116515380 TAAA
1 TAAA
116515384 ATAAAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 1 0.04
13 17 0.63
14 3 0.11
15 5 0.19
16 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (14 bp):
TAAAGTAATTATAA
Found at i:116515881 original size:21 final size:21
Alignment explanation
Indices: 116515856--116515899 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
116515846 AATTTTAGTA
116515856 AAAGTTACATGGAAATTAAAG
1 AAAGTTACATGGAAATTAAAG
116515877 AAAGTTACATGGAAATTAAAG
1 AAAGTTACATGGAAATTAAAG
116515898 AA
1 AA
116515900 TGTGTTGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.55, C:0.05, G:0.18, T:0.23
Consensus pattern (21 bp):
AAAGTTACATGGAAATTAAAG
Found at i:116517392 original size:20 final size:20
Alignment explanation
Indices: 116517367--116517414 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
116517357 ACGGCTGCAG
* *
116517367 CACACGGGCATGTTCCAGGC
1 CACACGGGCATGTCCCAAGC
*
116517387 CACACGGGCGTGTCCCAAGC
1 CACACGGGCATGTCCCAAGC
116517407 CACACGGG
1 CACACGGG
116517415 TGTATGCCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.21, C:0.38, G:0.31, T:0.10
Consensus pattern (20 bp):
CACACGGGCATGTCCCAAGC
Found at i:116517660 original size:44 final size:44
Alignment explanation
Indices: 116517597--116517687 Score: 139
Period size: 44 Copynumber: 2.1 Consensus size: 44
116517587 GTTTAAGTCT
* *
116517597 GGTAATATCTCGTAGCCCTATTTCAG-TGACGGCGTGGGGTTAGG
1 GGTAATATCTAGTAGCCCTA-TTCAGATGACGGCATGGGGTTAGG
*
116517641 GGTAATATCTAGTAGCCCTATTCCGATGACGGCATGGGGTTAGG
1 GGTAATATCTAGTAGCCCTATTCAGATGACGGCATGGGGTTAGG
116517685 GGT
1 GGT
116517688 TGTTACAAGG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 4 0.09
44 39 0.91
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.29
Consensus pattern (44 bp):
GGTAATATCTAGTAGCCCTATTCAGATGACGGCATGGGGTTAGG
Found at i:116520645 original size:36 final size:36
Alignment explanation
Indices: 116520572--116520648 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 36
116520562 AAATATGTTG
* *
116520572 AATAATAATACTTATATCTTTAATAATAATAATAAT
1 AATAATAATACTTATATATTTAATAATAATAACAAT
*
116520608 AATAATAATACTTATAATATTTAATAATAGT-ACAAT
1 AATAATAATACTTAT-ATATTTAATAATAATAACAAT
116520644 AATAA
1 AATAA
116520649 CATTAATTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
36 24 0.65
37 13 0.35
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.39
Consensus pattern (36 bp):
AATAATAATACTTATATATTTAATAATAATAACAAT
Found at i:116520648 original size:3 final size:3
Alignment explanation
Indices: 116520592--116520636 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
116520582 CTTATATCTT
* * *
116520592 TAA TAA TAA TAA TAA TAA TAA TAA TAC TTA TAA TATT TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TA
116520637 GTACAATAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
3 33 0.94
4 2 0.06
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:116521544 original size:47 final size:47
Alignment explanation
Indices: 116521491--116521584 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
116521481 AAACTACCCA
116521491 GACCCACTAAAAACTGCAAGCCCACTAAATAAGCCCAAACCTAAAAC
1 GACCCACTAAAAACTGCAAGCCCACTAAATAAGCCCAAACCTAAAAC
116521538 GACCCACTAAAAACTGCAAGCCCACTAAATAAGCCCAAACCTAAAAC
1 GACCCACTAAAAACTGCAAGCCCACTAAATAAGCCCAAACCTAAAAC
116521585 CAAAACCCTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.47, C:0.34, G:0.09, T:0.11
Consensus pattern (47 bp):
GACCCACTAAAAACTGCAAGCCCACTAAATAAGCCCAAACCTAAAAC
Found at i:116522638 original size:3 final size:3
Alignment explanation
Indices: 116522623--116522900 Score: 101
Period size: 3 Copynumber: 92.7 Consensus size: 3
116522613 TTTCTAATCA
*
116522623 ATT ATT TTT ATT ATT ACTT -TCT ATT ATT A-T ATTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT A-TT AT-T ATT ATT ATT A-TT ATT ATT ATT ATT
* * * * ** *
116522669 GTT -TT ATT ACT ATT ACT ACT AAC ATA ATAT ATTT ATT -TCT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T A-TT ATT AT-T ATT ATT
* * * * * *
116522715 TTCT ATT ATT GTC ATT ATT AAT ATAT ACT ATT ATT ATT ATT ATT AAT
1 AT-T ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT
* * * * * * *
116522762 A-T GTT GTT ATT ATT ATT ATT ACT ATT ATC ACT GTT ATC ATT -TT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
116522807 ATT ACT GTT ACT ATT ATT ATT ATT -TT -TT ACT ATCT AAT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT
* * * * *
116522850 ATT ATT ACCTT TTT ATT ATT ATT ACT ACT ATT -GT ATT ATT ACT ATT
1 ATT ATT A--TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
116522896 ATT AT
1 ATT AT
116522901 ATTTTCATCT
Statistics
Matches: 204, Mismatches: 51, Indels: 40
0.69 0.17 0.14
Matches are distributed among these distances:
2 18 0.09
3 168 0.82
4 15 0.07
5 3 0.01
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:116522871 original size:20 final size:20
Alignment explanation
Indices: 116522846--116522896 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
116522836 CTATCTAATA
*
116522846 TATTATTATTACCT-TTTTAT
1 TATTATTATTA-CTATTGTAT
*
116522866 TATTATTACTACTATTGTAT
1 TATTATTATTACTATTGTAT
*
116522886 TATTACTATTA
1 TATTATTATTA
116522897 TTATATTTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 2 0.08
20 24 0.92
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.59
Consensus pattern (20 bp):
TATTATTATTACTATTGTAT
Found at i:116522886 original size:17 final size:17
Alignment explanation
Indices: 116522814--116522903 Score: 63
Period size: 17 Copynumber: 4.9 Consensus size: 17
116522804 TTTATTACTG
* *
116522814 TTACTATTATTATTATTTT
1 TTACTACTATTA-TA-TTA
*
116522833 TTACTATCTAATATATTA
1 TTACTA-CTATTATATTA
* *
116522851 TTATTACCTTTTTATTATTA
1 TTACTA-C-TATTA-TATTA
*
116522871 TTACTACTATTGTATTA
1 TTACTACTATTATATTA
*
116522888 TTACTATTATTATATT
1 TTACTACTATTATATT
116522904 TTCATCTATA
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
17 19 0.34
18 11 0.20
19 12 0.21
20 14 0.25
ACGTcount: A:0.30, C:0.09, G:0.01, T:0.60
Consensus pattern (17 bp):
TTACTACTATTATATTA
Found at i:116522932 original size:15 final size:17
Alignment explanation
Indices: 116522891--116522933 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 17
116522881 TGTATTATTA
116522891 CTATTATTATATTTTCAT
1 CTATTATT-TATTTTCAT
116522909 CTA-TATTTATTTTC-T
1 CTATTATTTATTTTCAT
116522924 -TATTATTTAT
1 CTATTATTTAT
116522934 CTAGTTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.08
15 8 0.33
16 7 0.29
17 4 0.17
18 3 0.12
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (17 bp):
CTATTATTTATTTTCAT
Found at i:116522950 original size:17 final size:17
Alignment explanation
Indices: 116522930--116522962 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
116522920 TTCTTATTAT
116522930 TTATCTAGTT-ATATTTC
1 TTATCTA-TTCATATTTC
116522947 TTATCTATTCATATTT
1 TTATCTATTCATATTT
116522963 TGTTGTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.24, C:0.12, G:0.03, T:0.61
Consensus pattern (17 bp):
TTATCTATTCATATTTC
Found at i:116523172 original size:23 final size:23
Alignment explanation
Indices: 116523146--116523191 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
116523136 TTAATGTACT
*
116523146 ATTATTATT-TCCTATTTATTATA
1 ATTATTATTAACCT-TTTATTATA
116523169 ATTATTATTAACCTTTTATTATA
1 ATTATTATTAACCTTTTATTATA
116523192 TTGCTAGTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.59
Consensus pattern (23 bp):
ATTATTATTAACCTTTTATTATA
Found at i:116525049 original size:29 final size:31
Alignment explanation
Indices: 116525017--116525087 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 31
116525007 TAAATTTCAA
*
116525017 ATAATTGAGTGAT-AAAAT-TATAATTT-TTT
1 ATAATTGAGTGATCAAAATATA-AATTTATTG
* * *
116525046 ATAATTAAATAATCAAAATATAAATTTATTG
1 ATAATTGAGTGATCAAAATATAAATTTATTG
116525077 ATAATTGAGTG
1 ATAATTGAGTG
116525088 GTCACGGTTG
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
29 10 0.31
30 10 0.31
31 12 0.38
ACGTcount: A:0.46, C:0.01, G:0.10, T:0.42
Consensus pattern (31 bp):
ATAATTGAGTGATCAAAATATAAATTTATTG
Found at i:116534266 original size:21 final size:21
Alignment explanation
Indices: 116534240--116534280 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
116534230 TGTCCTTCAA
*
116534240 TATCAGCTCCCTTTTT-TTTCT
1 TATCAGC-ACCTTTTTATTTCT
116534261 TATCAGCACCTTTTTATTTC
1 TATCAGCACCTTTTTATTTC
116534281 CCCTATTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.15, C:0.27, G:0.05, T:0.54
Consensus pattern (21 bp):
TATCAGCACCTTTTTATTTCT
Found at i:116572087 original size:18 final size:18
Alignment explanation
Indices: 116572064--116572098 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
116572054 ATCTCTTTAA
*
116572064 TTAAAAATAGTTTATTTT
1 TTAAAAAGAGTTTATTTT
*
116572082 TTAAAAAGATTTTATTT
1 TTAAAAAGAGTTTATTT
116572099 AAAAGTATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (18 bp):
TTAAAAAGAGTTTATTTT
Found at i:116572491 original size:18 final size:19
Alignment explanation
Indices: 116572470--116572517 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
116572460 TAAAAAATAT
116572470 AAATATATAAAT-TATT-TA
1 AAAT-TATAAATATATTATA
*
116572488 AAATTCTAAATATATTATAA
1 AAATTATAAATATATTAT-A
116572508 AAATTATAAA
1 AAATTATAAA
116572518 AAAAATTCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 6 0.24
18 8 0.32
19 1 0.04
20 10 0.40
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (19 bp):
AAATTATAAATATATTATA
Found at i:116572693 original size:31 final size:31
Alignment explanation
Indices: 116572655--116572734 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 31
116572645 TTTTTGATCT
*
116572655 AATTTAGTACCTGAACTTGACACATTTTCCA
1 AATTTAGTACCTAAACTTGACACATTTTCCA
* * **
116572686 AATTTAGTATCTAAACTTGACACTTTTTCTT
1 AATTTAGTACCTAAACTTGACACATTTTCCA
* *
116572717 AAGTTAGTACTTAAACTT
1 AATTTAGTACCTAAACTT
116572735 TTTGGGGTCT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (31 bp):
AATTTAGTACCTAAACTTGACACATTTTCCA
Found at i:116583001 original size:24 final size:25
Alignment explanation
Indices: 116582954--116583042 Score: 76
Period size: 24 Copynumber: 3.6 Consensus size: 25
116582944 TAACACAAAC
*
116582954 ATTAAAATAATATTAAGATAATT-AT
1 ATTAAAATAATA-TAAAATAATTAAT
*
116582979 A-TAAAATATATATAAAATTATTAAAT
1 ATTAAAATA-ATATAAAATAATT-AAT
* *
116583005 ATTAAAATAATATAATATAAAT-AT
1 ATTAAAATAATATAAAATAATTAAT
* *
116583029 TTTAAAAAAATATA
1 ATTAAAATAATATA
116583043 TGGACAATCC
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
24 29 0.55
25 4 0.08
26 13 0.25
27 7 0.13
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (25 bp):
ATTAAAATAATATAAAATAATTAAT
Found at i:116585330 original size:2 final size:2
Alignment explanation
Indices: 116585323--116585354 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
116585313 TAAACTAAAA
*
116585323 AG AG AG AG AG AA AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
116585355 GACCCAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:116588450 original size:21 final size:20
Alignment explanation
Indices: 116588399--116588450 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
116588389 TTTTATGATT
116588399 TTTTATACTTTTTATAATATA
1 TTTTATA-TTTTTATAATATA
*
116588420 TTTGTA-ATTTTTTTAATAATA
1 TTT-TATATTTTTATAAT-ATA
116588441 TTTTATATTT
1 TTTTATATTT
116588451 CCTATAGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 11 0.41
21 14 0.52
22 2 0.07
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTATATTTTTATAATATA
Found at i:116588482 original size:20 final size:19
Alignment explanation
Indices: 116588408--116588482 Score: 57
Period size: 20 Copynumber: 3.8 Consensus size: 19
116588398 TTTTTATACT
*
116588408 TTTTATAATATATTTGTAATT
1 TTTT-TAATATATTT-TAATA
116588429 TTTTTAATAATATTTT-ATA
1 TTTTTAAT-ATATTTTAATA
*
116588448 TTTCCT-ATAGT-TTTTAAATA
1 TTT-TTAATA-TATTTT-AATA
116588468 TTTTTAATATATTTT
1 TTTTTAATATATTTT
116588483 TTAAATTTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 15
0.71 0.05 0.24
Matches are distributed among these distances:
18 5 0.11
19 10 0.23
20 19 0.43
21 10 0.23
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (19 bp):
TTTTTAATATATTTTAATA
Found at i:116588490 original size:20 final size:20
Alignment explanation
Indices: 116588453--116588526 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
116588443 TTATATTTCC
*
116588453 TATAGTTTTTAAATATTTTTAA
1 TATA-TTTTTTAA-ATTTTTAA
116588475 TATATTTTTTAAA--TTT-A
1 TATATTTTTTAAATTTTTAA
*
116588492 TATATTCTTTTAAAATTTATAA
1 TATATT-TTTT-AAATTTTTAA
*
116588514 T-TACTTTTTAAAT
1 TATATTTTTTAAAT
116588527 AAAATTTAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
17 7 0.16
18 7 0.16
19 7 0.16
20 5 0.11
21 12 0.27
22 6 0.14
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.59
Consensus pattern (20 bp):
TATATTTTTTAAATTTTTAA
Found at i:116588496 original size:17 final size:17
Alignment explanation
Indices: 116588474--116588526 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 17
116588464 AATATTTTTA
116588474 ATATATTTTTTAAATTT
1 ATATATTTTTTAAATTT
116588491 ATATATTCTTTTAAAATTT
1 ATATATT-TTTT-AAATTT
*
116588510 ATAATTACTTTTTAAAT
1 AT-A-TATTTTTTAAAT
116588527 AAAATTTAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 7 0.23
18 4 0.13
19 12 0.39
20 5 0.16
21 3 0.10
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (17 bp):
ATATATTTTTTAAATTT
Found at i:116588502 original size:19 final size:19
Alignment explanation
Indices: 116588480--116588526 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
116588470 TTTAATATAT
116588480 TTTTTAAATTTATATATT-C
1 TTTTTAAATTTATA-ATTAC
*
116588499 TTTTAAAATTTATAATTAC
1 TTTTTAAATTTATAATTAC
116588518 TTTTTAAAT
1 TTTTTAAAT
116588527 AAAATTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 3 0.12
19 22 0.88
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTAAATTTATAATTAC
Found at i:116593121 original size:21 final size:21
Alignment explanation
Indices: 116593097--116593138 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
116593087 TAGCTTTAAC
*
116593097 TTTTCCCCCTTTTTTTTGTTT
1 TTTTCCCCCTTTTTTATGTTT
*
116593118 TTTTCTCCCTTTTTTATGTTT
1 TTTTCCCCCTTTTTTATGTTT
116593139 CATATTTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.02, C:0.21, G:0.05, T:0.71
Consensus pattern (21 bp):
TTTTCCCCCTTTTTTATGTTT
Found at i:116601197 original size:19 final size:19
Alignment explanation
Indices: 116601151--116601199 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
116601141 TATCATCCAC
*
116601151 TTGCGAAAATAAATATTTA
1 TTGCAAAAATAAATATTTA
* * * *
116601170 ATGCTAAAATAATTATTTT
1 TTGCAAAAATAAATATTTA
116601189 TTGCAAAAATA
1 TTGCAAAAATA
116601200 CATTTTAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.47, C:0.06, G:0.08, T:0.39
Consensus pattern (19 bp):
TTGCAAAAATAAATATTTA
Found at i:116602638 original size:25 final size:28
Alignment explanation
Indices: 116602582--116602642 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 28
116602572 TAATTAGGGT
*
116602582 ATTAATTATAATTTTTTTATAACTATAA
1 ATTAATTATAATTTTTTTATAAATATAA
*
116602610 ATTAATTAT-ATTTTTTTA-AAATAT-G
1 ATTAATTATAATTTTTTTATAAATATAA
116602635 ATTAATTA
1 ATTAATTA
116602643 ATAAAGTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
25 8 0.26
26 5 0.16
27 9 0.29
28 9 0.29
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (28 bp):
ATTAATTATAATTTTTTTATAAATATAA
Found at i:116603564 original size:3 final size:3
Alignment explanation
Indices: 116603556--116603587 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
116603546 CAATTATAAC
116603556 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
116603588 CTATCCATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:116606017 original size:29 final size:27
Alignment explanation
Indices: 116605967--116606025 Score: 64
Period size: 29 Copynumber: 2.1 Consensus size: 27
116605957 TTTACAACAC
* * *
116605967 TTAAGAATTTATTTCATCTATTTATATTT
1 TTAAAAATTTAATCCATCTATTT-T-TTT
*
116605996 TTAAAAATTTAATCCATTTATTTTTTT
1 TTAAAAATTTAATCCATCTATTTTTTT
116606023 TTA
1 TTA
116606026 TTTTAGAGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
27 6 0.23
28 1 0.04
29 19 0.73
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (27 bp):
TTAAAAATTTAATCCATCTATTTTTTT
Found at i:116606393 original size:8 final size:8
Alignment explanation
Indices: 116606367--116606400 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
116606357 TGTCAGATAT
116606367 TTTTATAA
1 TTTTATAA
*
116606375 TTTTTTGAA
1 TTTTAT-AA
116606384 TTTTATAA
1 TTTTATAA
116606392 TTTTATAA
1 TTTTATAA
116606400 T
1 T
116606401 ATTTTTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (8 bp):
TTTTATAA
Found at i:116606804 original size:21 final size:22
Alignment explanation
Indices: 116606761--116606810 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
116606751 AAATATCAAA
116606761 TATATAATCTTATATTAATATT
1 TATATAATCTTATATTAATATT
*
116606783 TATAT-ATTTTATAATTAA-ATT
1 TATATAATCTTAT-ATTAATATT
*
116606804 TAAATAA
1 TATATAA
116606811 AAATATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TATATAATCTTATATTAATATT
Found at i:116607157 original size:18 final size:18
Alignment explanation
Indices: 116607116--116607151 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
116607106 TAATCATATC
*
116607116 TATTTTTATTATTTTCTA
1 TATTTTTATTATTTCCTA
116607134 TATTTTTATTATCTTCCT
1 TATTTTTATTAT-TTCCT
116607152 TTTTTTGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.69
Consensus pattern (18 bp):
TATTTTTATTATTTCCTA
Found at i:116613115 original size:31 final size:31
Alignment explanation
Indices: 116613079--116613144 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
116613069 GAGTATCATG
*
116613079 AAATAATCCTTTTCATAATGAAGCTAAGTGC
1 AAATAATCCTTTTCATAACGAAGCTAAGTGC
*
116613110 AAATAATCCTTTTTATAACGAAGCTAAGTGC
1 AAATAATCCTTTTCATAACGAAGCTAAGTGC
116613141 AAAT
1 AAAT
116613145 TTATTATAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (31 bp):
AAATAATCCTTTTCATAACGAAGCTAAGTGC
Found at i:116613239 original size:14 final size:14
Alignment explanation
Indices: 116613220--116613249 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
116613210 TTAAAAATAT
*
116613220 TTAGAAATTTATCA
1 TTAGAAATTTACCA
116613234 TTAGAAATTTACCA
1 TTAGAAATTTACCA
116613248 TT
1 TT
116613250 GACTCTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.10, G:0.07, T:0.43
Consensus pattern (14 bp):
TTAGAAATTTACCA
Found at i:116621781 original size:21 final size:22
Alignment explanation
Indices: 116621739--116621794 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
116621729 TATTTTATGA
* * *
116621739 TTAAATTTTAATTAAATTAATT
1 TTAAATTTAAAATAAATCAATT
116621761 TTAAATTTAAAAT-AATCAATT
1 TTAAATTTAAAATAAATCAATT
* *
116621782 TAAAAATTAAAAT
1 TTAAATTTAAAAT
116621795 TTAGATAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TTAAATTTAAAATAAATCAATT
Found at i:116622883 original size:18 final size:19
Alignment explanation
Indices: 116622862--116622899 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
116622852 AATGAAAAAT
116622862 AAACA-AAAA-AAAAGTTAA
1 AAACATAAAAGAAAA-TTAA
116622880 AAACATAAAAGAAAATTAA
1 AAACATAAAAGAAAATTAA
116622899 A
1 A
116622900 TTTCTCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 9 0.50
20 4 0.22
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.13
Consensus pattern (19 bp):
AAACATAAAAGAAAATTAA
Found at i:116623528 original size:20 final size:19
Alignment explanation
Indices: 116623497--116623559 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 19
116623487 TATATATAAA
116623497 TTTTAATT-TTTATAACTTT
1 TTTTAATTATTTATAA-TTT
116623516 TTTTAATTATTTATGAATTT
1 TTTTAATTATTTAT-AATTT
*
116623536 TATTAGATTATATT-TAATTT
1 TTTTA-ATTAT-TTATAATTT
116623556 TTTT
1 TTTT
116623560 GTTCGATTAG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
19 8 0.21
20 20 0.53
21 8 0.21
22 2 0.05
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTTAATTATTTATAATTT
Found at i:116623536 original size:19 final size:18
Alignment explanation
Indices: 116623484--116623558 Score: 57
Period size: 19 Copynumber: 4.0 Consensus size: 18
116623474 TTTGCGCATC
* *
116623484 AATTATATATAA-ATTTT
1 AATTATTTATAATTTTTT
116623501 AATT-TTTATAACTTTTTTT
1 AATTATTTATAA--TTTTTT
116623520 AATTATTTATGAATTTTATT
1 AATTATTTAT-AATTTT-TT
116623540 AGATTATATT-TAATTTTTT
1 A-ATTAT-TTATAATTTTTT
116623559 TGTTCGATTA
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
16 6 0.12
17 4 0.08
19 14 0.29
20 14 0.29
21 8 0.17
22 2 0.04
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (18 bp):
AATTATTTATAATTTTTT
Found at i:116623559 original size:23 final size:22
Alignment explanation
Indices: 116623532--116623594 Score: 56
Period size: 23 Copynumber: 2.9 Consensus size: 22
116623522 TTATTTATGA
*
116623532 ATTTTATTAGATTATATTTAAT
1 ATTTTTTTAGATTATATTTAAT
* * * *
116623554 TTTTTTGTTCGATTAGATTTTAT
1 ATTTTT-TTAGATTATATTTAAT
*
116623577 ATTGTTTTA-ATTATATTT
1 ATTTTTTTAGATTATATTT
116623595 TGTAATTGTT
Statistics
Matches: 31, Mismatches: 9, Indels: 3
0.72 0.21 0.07
Matches are distributed among these distances:
21 8 0.26
22 6 0.19
23 17 0.55
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (22 bp):
ATTTTTTTAGATTATATTTAAT
Found at i:116623594 original size:21 final size:22
Alignment explanation
Indices: 116623565--116623609 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
116623555 TTTTTGTTCG
116623565 ATTAGATTTTAT-ATTGTTTTA
1 ATTAGATTTTATAATTGTTTTA
* *
116623586 ATTATATTTTGTAATTGTTTTA
1 ATTAGATTTTATAATTGTTTTA
116623608 AT
1 AT
116623610 AGGAAAGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (22 bp):
ATTAGATTTTATAATTGTTTTA
Found at i:116625734 original size:40 final size:41
Alignment explanation
Indices: 116625652--116625747 Score: 151
Period size: 40 Copynumber: 2.3 Consensus size: 41
116625642 CATGGTTCAA
116625652 CTATGGTCTTACACATCTTCACATAATGATGCCATAGCCCAG
1 CTATGGTCTTACACA-CTTCACATAATGATGCCATAGCCCAG
*
116625694 CTATGGTCTTACACA-TTCATAT-ATCGATGCCATAGCCCAG
1 CTATGGTCTTACACACTTCACATAAT-GATGCCATAGCCCAG
116625734 CTATGGTCTTACAC
1 CTATGGTCTTACAC
116625748 GTAATCACAT
Statistics
Matches: 52, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
39 2 0.04
40 35 0.67
42 15 0.29
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (41 bp):
CTATGGTCTTACACACTTCACATAATGATGCCATAGCCCAG
Found at i:116625776 original size:49 final size:48
Alignment explanation
Indices: 116625716--116625886 Score: 179
Period size: 47 Copynumber: 3.6 Consensus size: 48
116625706 ACATTCATAT
**
116625716 ATCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACA
1 ATCGATGCCATAGCCCAAATATGGTCTTACACGTAATCACATATCACA
* * *
116625764 TATCGATGCCATAGCCCAACTATGGTCGTACACG-AATCACATATCTCA
1 -ATCGATGCCATAGCCCAAATATGGTCTTACACGTAATCACATATCACA
* * * * * *
116625812 CT-GATGCCATATCCCAGATATGGTCTTATACAGT-AGCATATATCAC-
1 ATCGATGCCATAGCCCAAATATGGTCTTACAC-GTAATCACATATCACA
* *
116625858 ACCGATGCCATATCCCAAATATGGTCTTA
1 ATCGATGCCATAGCCCAAATATGGTCTTA
116625887 TACGGAAATC
Statistics
Matches: 104, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
46 24 0.23
47 36 0.35
48 13 0.12
49 31 0.30
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (48 bp):
ATCGATGCCATAGCCCAAATATGGTCTTACACGTAATCACATATCACA
Found at i:116625855 original size:95 final size:89
Alignment explanation
Indices: 116625670--116625883 Score: 220
Period size: 95 Copynumber: 2.4 Consensus size: 89
116625660 TTACACATCT
* * *
116625670 TCACATAAT-GATGCCATAGCCCAGCTATGGTCTTACACATTCATATATCGATGCCATAGCCCAG
1 TCACAT-ATCGATGCCATAGCCCAACTATGGTCGTACACATACATATATCGATGCCATAGCCCAG
* *
116625734 CTATGGTCTTACACGTAATCACATA
65 ATATGGTCTTACACGTAAGCACATA
* *
116625759 TCACATATCGATGCCATAGCCCAACTATGGTCGTACACGAATCACATATCTCACTGATGCCATAT
1 TCACATATCGATGCCATAGCCCAACTATGGTCGTACAC--AT-ACATATAT--C-GATGCCATAG
* *
116625824 CCCAGATATGGTCTTATACAGT-AGCATATA
60 CCCAGATATGGTCTTACAC-GTAAGCACATA
* * *
116625854 TCAC--ACCGATGCCATATCCCAAATATGGTC
1 TCACATATCGATGCCATAGCCCAACTATGGTC
116625884 TTATACGGAA
Statistics
Matches: 105, Mismatches: 12, Indels: 12
0.81 0.09 0.09
Matches are distributed among these distances:
88 2 0.02
89 33 0.31
91 2 0.02
92 6 0.06
93 23 0.22
94 1 0.01
95 36 0.34
96 2 0.02
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (89 bp):
TCACATATCGATGCCATAGCCCAACTATGGTCGTACACATACATATATCGATGCCATAGCCCAGA
TATGGTCTTACACGTAAGCACATA
Found at i:116625943 original size:31 final size:31
Alignment explanation
Indices: 116625908--116625986 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
116625898 CTTGTCACTT
* *
116625908 GTAGCCGAAGCTACCACCATTCACTGATTAG
1 GTAGCCGGAGCTACCACCATTCACTGATCAG
***
116625939 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGGAGCTACCACCATTCACTGATCAG
*
116625970 GTAACCGGAGCTACCAC
1 GTAGCCGGAGCTACCAC
116625987 TTTTCACTCG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.23
Consensus pattern (31 bp):
GTAGCCGGAGCTACCACCATTCACTGATCAG
Found at i:116625991 original size:31 final size:31
Alignment explanation
Indices: 116625916--116625994 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
116625906 TTGTAGCCGA
** * *
116625916 AGCTACCACCATTCACTGATTAGGTAGCCGG
1 AGCTACCACTTTTCACTGATCAGGTAACCGG
*
116625947 AGCTACCATTTTTCACTGATCAGGTAACCGG
1 AGCTACCACTTTTCACTGATCAGGTAACCGG
116625978 AGCTACCACTTTTCACT
1 AGCTACCACTTTTCACT
116625995 CGTCATTTGT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (31 bp):
AGCTACCACTTTTCACTGATCAGGTAACCGG
Found at i:116626095 original size:50 final size:50
Alignment explanation
Indices: 116625970--116626095 Score: 173
Period size: 50 Copynumber: 2.5 Consensus size: 50
116625960 CACTGATCAG
* * * * *
116625970 GTAACCGGAGCTACCACTTTTCACTCGTCATTTGTCCTTGATCAGATAAGT
1 GTAACCGAAGCTATCACTTATCACT-TTCACTTGTCCTTGATCAGATAAGT
* *
116626021 G-AGCCGAAGCTATCACTTATCACTTTCACTTGTCTTTGATCAGATAAGT
1 GTAACCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
116626070 GTAACCGAAGCTATCACTTATCACTT
1 GTAACCGAAGCTATCACTTATCACTT
116626096 GTTGCCATGG
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
49 23 0.35
50 42 0.64
51 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (50 bp):
GTAACCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
Found at i:116627186 original size:16 final size:18
Alignment explanation
Indices: 116627155--116627189 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
116627145 CAATTAACTC
116627155 CTCAATTAAGATAATTTT
1 CTCAATTAAGATAATTTT
116627173 CTCAATT-A-ATAATTTT
1 CTCAATTAAGATAATTTT
116627189 C
1 C
116627190 CTAGACATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 1 0.06
18 7 0.41
ACGTcount: A:0.37, C:0.14, G:0.03, T:0.46
Consensus pattern (18 bp):
CTCAATTAAGATAATTTT
Found at i:116633138 original size:35 final size:35
Alignment explanation
Indices: 116633089--116633155 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
116633079 TCGTTCTATT
*
116633089 TTTTAAAAATTTTTATAA-ACTTTTGTAATTTTGAA
1 TTTTAAAAATTTTTA-AATACTTTTATAATTTTGAA
*
116633124 TTTTACAAAA-TTTTAAATATTTTTATAATTTT
1 TTTTA-AAAATTTTTAAATACTTTTATAATTTT
116633156 TTAATTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 2 0.07
35 22 0.79
36 4 0.14
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.57
Consensus pattern (35 bp):
TTTTAAAAATTTTTAAATACTTTTATAATTTTGAA
Found at i:116639485 original size:22 final size:23
Alignment explanation
Indices: 116639460--116639502 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
116639450 CTAAAATTTG
*
116639460 AAATT-TGAAAAGTAAAAAAACT
1 AAATTCTGAAAAATAAAAAAACT
*
116639482 AAATTCTTAAAAATAAAAAAA
1 AAATTCTGAAAAATAAAAAAA
116639503 TATGAACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (23 bp):
AAATTCTGAAAAATAAAAAAACT
Found at i:116641281 original size:15 final size:15
Alignment explanation
Indices: 116641261--116641291 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
116641251 CTGCGATCAT
116641261 CGCTTAATTCGAAGC
1 CGCTTAATTCGAAGC
116641276 CGCTTAATTCGAAGC
1 CGCTTAATTCGAAGC
116641291 C
1 C
116641292 TTCGATTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (15 bp):
CGCTTAATTCGAAGC
Found at i:116644636 original size:29 final size:31
Alignment explanation
Indices: 116644576--116644654 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 31
116644566 ATCTCAAAAT
*
116644576 TATATATAAACTTTAATTTAACGTGTAATTA
1 TATATATAAACTTTAATTTAACGTGCAATTA
* *
116644607 TATACATAAACTTTAATTT-A-GTGCAGTTA
1 TATATATAAACTTTAATTTAACGTGCAATTA
*
116644636 TATATATAAAACTCTAATT
1 TATATAT-AAACTTTAATT
116644655 ACGGTTCAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 13 0.31
30 11 0.26
31 18 0.43
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (31 bp):
TATATATAAACTTTAATTTAACGTGCAATTA
Found at i:116644854 original size:30 final size:29
Alignment explanation
Indices: 116644818--116644883 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 29
116644808 TTAATTTACA
116644818 AAAATTGGATC-AAATCAAAATTTCATGTAT
1 AAAATTGGA-CAAAATCAAAA-TTCATGTAT
*
116644848 AAAATTGTACAAAATCAAAATTCATGTAT
1 AAAATTGGACAAAATCAAAATTCATGTAT
*
116644877 ACAATTG
1 AAAATTG
116644884 AACATTAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (29 bp):
AAAATTGGACAAAATCAAAATTCATGTAT
Found at i:116649584 original size:14 final size:14
Alignment explanation
Indices: 116649565--116649593 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
116649555 TACATTTGGA
116649565 CAAGGTTTTTGTCT
1 CAAGGTTTTTGTCT
116649579 CAAGGTTTTTGTCT
1 CAAGGTTTTTGTCT
116649593 C
1 C
116649594 GACTCAACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.17, G:0.21, T:0.48
Consensus pattern (14 bp):
CAAGGTTTTTGTCT
Found at i:116654211 original size:15 final size:15
Alignment explanation
Indices: 116654191--116654220 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
116654181 CCATTGTGAT
116654191 TGGTTTATACAAAGG
1 TGGTTTATACAAAGG
*
116654206 TGGTTTATAGAAAGG
1 TGGTTTATACAAAGG
116654221 AAGTTAACCC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.33
Consensus pattern (15 bp):
TGGTTTATACAAAGG
Found at i:116655962 original size:16 final size:15
Alignment explanation
Indices: 116655943--116655981 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
116655933 TTCTTTATAC
116655943 TTTAATTTGGTTATTT
1 TTTAATTTGG-TATTT
* *
116655959 TTTATTTTTGTATTT
1 TTTAATTTGGTATTT
116655974 TTTAATTT
1 TTTAATTT
116655982 TTAAATTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.74
Consensus pattern (15 bp):
TTTAATTTGGTATTT
Found at i:116655972 original size:15 final size:16
Alignment explanation
Indices: 116655954--116655983 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
116655944 TTAATTTGGT
116655954 TATTTTTT-ATTTTTG
1 TATTTTTTAATTTTTG
116655969 TATTTTTTAATTTTT
1 TATTTTTTAATTTTT
116655984 AAATTTTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (16 bp):
TATTTTTTAATTTTTG
Found at i:116666025 original size:32 final size:32
Alignment explanation
Indices: 116665989--116666050 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
116665979 AGAATAAACT
116665989 TGAACAAATGAGTGTCTAAATTCAAATATATA
1 TGAACAAATGAGTGTCTAAATTCAAATATATA
* *
116666021 TGAACAAATGAGTTTCTATATTCAAATATA
1 TGAACAAATGAGTGTCTAAATTCAAATATA
116666051 ATGGTATAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (32 bp):
TGAACAAATGAGTGTCTAAATTCAAATATATA
Found at i:116666832 original size:14 final size:16
Alignment explanation
Indices: 116666810--116666846 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
116666800 TTTATAAAGA
116666810 TATATTTTA-TTTAAT
1 TATATTTTATTTTAAT
116666825 TA-ATTTTATTTTAAT
1 TATATTTTATTTTAAT
116666840 TATATTT
1 TATATTT
116666847 AAGATTGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 6 0.30
15 10 0.50
16 4 0.20
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATATTTTATTTTAAT
Found at i:116674323 original size:22 final size:20
Alignment explanation
Indices: 116674277--116674325 Score: 53
Period size: 25 Copynumber: 2.2 Consensus size: 20
116674267 ATGATTTAAT
116674277 AAAAAATGTAAATTTAATAACTA
1 AAAAAATGTAAATTTAAT---TA
116674300 AAAAATATGATAAATTTAATTA
1 AAAAA-ATG-TAAATTTAATTA
116674322 AAAA
1 AAAA
116674326 CTAAAATAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 6 0.25
23 5 0.21
24 3 0.12
25 10 0.42
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (20 bp):
AAAAAATGTAAATTTAATTA
Found at i:116683550 original size:19 final size:18
Alignment explanation
Indices: 116683522--116683561 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
116683512 TGCATGCTAG
116683522 TTTTAGTTTTTTATTTTAT
1 TTTTAGTTTTTTATTTT-T
*
116683541 TTTTATTTTTTTATTTTT
1 TTTTAGTTTTTTATTTTT
116683559 TTT
1 TTT
116683562 ATGGCTATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.12, C:0.00, G:0.03, T:0.85
Consensus pattern (18 bp):
TTTTAGTTTTTTATTTTT
Found at i:116688201 original size:3 final size:3
Alignment explanation
Indices: 116688193--116688227 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
116688183 AGCCTTGCCC
116688193 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
116688228 GTGATTGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:116688639 original size:14 final size:15
Alignment explanation
Indices: 116688615--116688644 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
116688605 CAAAAATCAA
116688615 TTAATATATATATTT
1 TTAATATATATATTT
116688630 TTAA-ATATATATTT
1 TTAATATATATATTT
116688644 T
1 T
116688645 AATTGTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTAATATATATATTT
Found at i:116696535 original size:43 final size:43
Alignment explanation
Indices: 116696480--116696703 Score: 317
Period size: 43 Copynumber: 5.2 Consensus size: 43
116696470 GGTTCCTACA
*
116696480 TTATATACTTCAAATTATTATATCTTGTTTATTTTGAAATTAT
1 TTATATACTTCAAATTATTATATCTTATTTATTTTGAAATTAT
* *
116696523 TTATATACTTCAAATTATTATGTCTTATTTATTTTGAAATTAC
1 TTATATACTTCAAATTATTATATCTTATTTATTTTGAAATTAT
*
116696566 TTATATACTTCAAAATATTATATCTTATTTATTTTGAAATTAT
1 TTATATACTTCAAATTATTATATCTTATTTATTTTGAAATTAT
* * *
116696609 TTATATACTTTAAACTTTTATATATATTATTTATTTTGAAATTAT
1 TTATATACTTCAAA-TTAT-TATATCTTATTTATTTTGAAATTAT
* * *
116696654 TTATATACTTTAAACTT-TTATATATTATTTATTTTG-GATTAT
1 TTATATACTTCAAA-TTATTATATCTTATTTATTTTGAAATTAT
116696696 TTATATAC
1 TTATATAC
116696704 ATGTGTTTTT
Statistics
Matches: 168, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
42 13 0.08
43 111 0.66
44 3 0.02
45 41 0.24
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.56
Consensus pattern (43 bp):
TTATATACTTCAAATTATTATATCTTATTTATTTTGAAATTAT
Found at i:116696610 original size:15 final size:15
Alignment explanation
Indices: 116696590--116696657 Score: 52
Period size: 15 Copynumber: 4.5 Consensus size: 15
116696580 ATATTATATC
116696590 TTATTTATTTTGAAA
1 TTATTTATTTTGAAA
*
116696605 TTATTTATATACTTTAAA
1 TTATTTAT-T--TTGAAA
* * *
116696623 CT-TTTA-TAT-ATA
1 TTATTTATTTTGAAA
116696635 TTATTTATTTTGAAA
1 TTATTTATTTTGAAA
116696650 TTATTTAT
1 TTATTTAT
116696658 ATACTTTAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
12 3 0.08
13 5 0.12
14 2 0.05
15 19 0.47
16 1 0.03
17 4 0.10
18 6 0.15
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (15 bp):
TTATTTATTTTGAAA
Found at i:116696682 original size:88 final size:85
Alignment explanation
Indices: 116696480--116696703 Score: 306
Period size: 88 Copynumber: 2.6 Consensus size: 85
116696470 GGTTCCTACA
* *
116696480 TTATATACTTCAAATTATTATATCTTGTTTATTTTGAAATTATTTATATACTTCAAATTATTATG
1 TTATATACTTCAAATT-TTATATCTTATTTATTTTGAAATTATTTATATACTTCAAATTATTATA
*
116696545 TCTTATTTATTTTGAAATTAC
65 TATTATTTATTTTGAAATTAC
* * *
116696566 TTATATACTTCAAAATATTATATCTTATTTATTTTGAAATTATTTATATACTTTAAACTTTTATA
1 TTATATACTTC-AAATTTTATATCTTATTTATTTTGAAATTATTTATATACTTCAAA-TTAT-TA
*
116696631 TATATTATTTATTTTGAAATTAT
63 TATATTATTTATTTTGAAATTAC
* * *
116696654 TTATATACTTTAAACTTTTATATATTATTTATTTTG-GATTATTTATATAC
1 TTATATACTTCAAA-TTTTATATCTTATTTATTTTGAAATTATTTATATAC
116696704 ATGTGTTTTT
Statistics
Matches: 123, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
86 49 0.40
87 23 0.19
88 51 0.41
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.56
Consensus pattern (85 bp):
TTATATACTTCAAATTTTATATCTTATTTATTTTGAAATTATTTATATACTTCAAATTATTATAT
ATTATTTATTTTGAAATTAC
Found at i:116697206 original size:22 final size:24
Alignment explanation
Indices: 116697181--116697236 Score: 71
Period size: 22 Copynumber: 2.4 Consensus size: 24
116697171 TTTTTATGTA
*
116697181 TTATTTATTTAAAATTG-TTT-CG
1 TTATTTATTTAAAATGGCTTTACG
* *
116697203 TTATTTATTTTAAATGGCTTTATG
1 TTATTTATTTAAAATGGCTTTACG
116697227 TTATTTATTT
1 TTATTTATTT
116697237 CATTCTTCTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 15 0.52
23 3 0.10
24 11 0.38
ACGTcount: A:0.25, C:0.04, G:0.09, T:0.62
Consensus pattern (24 bp):
TTATTTATTTAAAATGGCTTTACG
Found at i:116698285 original size:70 final size:70
Alignment explanation
Indices: 116698189--116698329 Score: 237
Period size: 70 Copynumber: 2.0 Consensus size: 70
116698179 TCAGTTCATT
* * *
116698189 AATTTTGACTGTGATTCGACATAGCAAACATCCCTCTTTAAAAAAATAAGTGATGTAATTTGAAA
1 AATTCTGACTGTGATTCGACAGAGCAAACATCCCTCTTTAAAAAAATAAGTGATGCAATTTGAAA
116698254 AACTA
66 AACTA
* *
116698259 AATTCTGACTGTGATTGGACAGAGCAAACATCCCTCTTTAAGAAAATAAGTGATGCAATTTGAAA
1 AATTCTGACTGTGATTCGACAGAGCAAACATCCCTCTTTAAAAAAATAAGTGATGCAATTTGAAA
116698324 AACTA
66 AACTA
116698329 A
1 A
116698330 CTTTCGTTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (70 bp):
AATTCTGACTGTGATTCGACAGAGCAAACATCCCTCTTTAAAAAAATAAGTGATGCAATTTGAAA
AACTA
Found at i:116698796 original size:33 final size:33
Alignment explanation
Indices: 116698754--116698819 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
116698744 AAAAAGTTAA
116698754 CACCTCTTAACTTTATTGATATGTCATAGACAT
1 CACCTCTTAACTTTATTGATATGTCATAGACAT
116698787 CACCTCTTAACTTTATTGATATGTCATAGACAT
1 CACCTCTTAACTTTATTGATATGTCATAGACAT
116698820 GAAGTGATAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.39
Consensus pattern (33 bp):
CACCTCTTAACTTTATTGATATGTCATAGACAT
Found at i:116702659 original size:23 final size:22
Alignment explanation
Indices: 116702625--116702684 Score: 63
Period size: 23 Copynumber: 2.8 Consensus size: 22
116702615 GGGTCTGAAT
116702625 TTAAT-TAT-ATTTTTTATATA
1 TTAATGTATAATTTTTTATATA
*
116702645 TCATAATGTA-AATTTATTATATA
1 T--TAATGTATAATTTTTTATATA
*
116702668 TTAATTTATAATTTTTT
1 TTAATGTATAATTTTTT
116702685 TAATTTTTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
20 1 0.03
21 6 0.19
22 11 0.34
23 14 0.44
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (22 bp):
TTAATGTATAATTTTTTATATA
Found at i:116711919 original size:20 final size:20
Alignment explanation
Indices: 116711894--116711943 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
116711884 ATAAAACAAA
116711894 AGAATAATGAAAATGATACC
1 AGAATAATGAAAATGATACC
*
116711914 AGAATACTGAAAATGATACC
1 AGAATAATGAAAATGATACC
**
116711934 TTAATAATGA
1 AGAATAATGA
116711944 TATGGTAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.52, C:0.10, G:0.14, T:0.24
Consensus pattern (20 bp):
AGAATAATGAAAATGATACC
Found at i:116714046 original size:50 final size:51
Alignment explanation
Indices: 116713968--116714097 Score: 208
Period size: 50 Copynumber: 2.6 Consensus size: 51
116713958 GGACCATGGC
116713968 AACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAAT
1 AACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAAT
* *
116714019 GA-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAAT
1 AACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAAT
* * *
116714069 AACAAGTGAAAAGTGGTAGCCTCGGCTAC
1 AACAAGTGATAAGTGATAGCTTCGGCTAC
116714098 CTGATCAGTG
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
50 48 0.67
51 24 0.33
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.25
Consensus pattern (51 bp):
AACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAAT
Found at i:116714111 original size:31 final size:30
Alignment explanation
Indices: 116714073--116714244 Score: 254
Period size: 31 Copynumber: 5.6 Consensus size: 30
116714063 ACAAATAACA
116714073 AGTGAAAAGTGGTAGCCTCGGCTACCTGATC
1 AGTGAAAAGTGGTAG-CTCGGCTACCTGATC
*
116714104 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGC-TCGGCTACCTGATC
*
116714135 AGTGAAAAGTGGTAGCTCCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCT-CGGCTACCTGATC
*
116714166 AGTGAAAAGTGGAAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCT-CGGCTACCTGATC
*
116714197 AGTGAAAAATGGTAGCTCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTC-GGCTACCTGATC
*
116714228 AGTGAATAGTGGTAGCT
1 AGTGAAAAGTGGTAGCT
116714245 TCGACTACAA
Statistics
Matches: 130, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
30 3 0.02
31 127 0.98
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (30 bp):
AGTGAAAAGTGGTAGCTCGGCTACCTGATC
Found at i:116714188 original size:93 final size:93
Alignment explanation
Indices: 116714073--116714244 Score: 285
Period size: 93 Copynumber: 1.8 Consensus size: 93
116714063 ACAAATAACA
* *
116714073 AGTGAAAAGTGGTAGCCTCGGCTACCTGATCAGTGAAAAGTGGTAGCTTCT-GCTACCTGATCAG
1 AGTGAAAAGTGGAAGCCTCGGCTACCTGATCAGTGAAAAATGGTAGC-TCTGGCTACCTGATCAG
116714137 TGAAAAGTGGTAGCTCCAGCTACCTGATC
65 TGAAAAGTGGTAGCTCCAGCTACCTGATC
116714166 AGTGAAAAGTGGAAG-CTCCGGCTACCTGATCAGTGAAAAATGGTAGCTCTGGCTACCTGATCAG
1 AGTGAAAAGTGGAAGCCT-CGGCTACCTGATCAGTGAAAAATGGTAGCTCTGGCTACCTGATCAG
*
116714230 TGAATAGTGGTAGCT
65 TGAAAAGTGGTAGCT
116714245 TCGACTACAA
Statistics
Matches: 74, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
92 5 0.07
93 69 0.93
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (93 bp):
AGTGAAAAGTGGAAGCCTCGGCTACCTGATCAGTGAAAAATGGTAGCTCTGGCTACCTGATCAGT
GAAAAGTGGTAGCTCCAGCTACCTGATC
Found at i:116714375 original size:49 final size:47
Alignment explanation
Indices: 116714274--116714432 Score: 188
Period size: 49 Copynumber: 3.5 Consensus size: 47
116714264 GATTTCCGTA
** * * *
116714274 TAAGACCATATTTGGGATATGGCATCA-GTGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCATATGTGATATGTGATTCGTG
116714320 TAAGACCATAGCTGGGCTATGGCATCAATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATGTGATT-CGTG
*
116714369 TAAGACCATAGCTGGGCTATGGCATCGATATATGA-A--T-A-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATGTGATTCGTG
116714411 TAAGACCATAGCTGGGCTATGG
1 TAAGACCATAGCTGGGCTATGG
116714433 TGTAACACCC
Statistics
Matches: 103, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
42 25 0.24
44 1 0.01
45 1 0.01
46 24 0.23
47 1 0.01
48 14 0.14
49 37 0.36
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (47 bp):
TAAGACCATAGCTGGGCTATGGCATCATATGTGATATGTGATTCGTG
Found at i:116715252 original size:46 final size:46
Alignment explanation
Indices: 116715182--116715409 Score: 359
Period size: 46 Copynumber: 5.0 Consensus size: 46
116715172 TTTGACATGA
* * * * *
116715182 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTGTCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*
116715228 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCAGGT
116715274 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
116715320 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
116715366 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATTTCAG
1 TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCAG
116715410 AGAGCACACT
Statistics
Matches: 171, Mismatches: 10, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
45 4 0.02
46 167 0.98
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (46 bp):
TGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:116717901 original size:30 final size:30
Alignment explanation
Indices: 116717834--116717901 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
116717824 CACCCTTAAA
* * *
116717834 ATATTTGCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
116717864 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
116717893 AGTATTTAC
1 A-TATTTAC
116717902 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:116718803 original size:23 final size:23
Alignment explanation
Indices: 116718773--116718823 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
116718763 ATGATATTTC
116718773 AAATACTTTGGTGAATAAAGCTT
1 AAATACTTTGGTGAATAAAGCTT
116718796 AAATACTTTGGTGAATAAAGCTT
1 AAATACTTTGGTGAATAAAGCTT
116718819 AAATA
1 AAATA
116718824 TGAAATAGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.43, C:0.08, G:0.16, T:0.33
Consensus pattern (23 bp):
AAATACTTTGGTGAATAAAGCTT
Found at i:116719069 original size:23 final size:23
Alignment explanation
Indices: 116718981--116719076 Score: 92
Period size: 23 Copynumber: 4.3 Consensus size: 23
116718971 ATACATTAAT
*
116718981 AATAATAAT-ATATGTTAATAAC
1 AATAATAATAATATGTTAATAAA
116719003 AATAATAATAATATG-TAA-AAA
1 AATAATAATAATATGTTAATAAA
** *** *
116719024 AAGGGA-AATAATAACATAGTAAA
1 AA-TAATAATAATATGTTAATAAA
116719047 AATAATAATAATATGTTAATAAA
1 AATAATAATAATATGTTAATAAA
116719070 AATAATA
1 AATAATA
116719077 GTAGCAGTAA
Statistics
Matches: 57, Mismatches: 12, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
21 11 0.19
22 16 0.28
23 30 0.53
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (23 bp):
AATAATAATAATATGTTAATAAA
Found at i:116719137 original size:3 final size:3
Alignment explanation
Indices: 116719104--116719371 Score: 122
Period size: 3 Copynumber: 89.3 Consensus size: 3
116719094 AAGGTAATGG
* * * * * *
116719104 TAA TAA AAA TAA AAA TAA AAA TAA TAG TAA TAA TGA TAA TAA TAA TAG
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * ** *
116719152 TAA CAGA AAA AAA GAA -ACA TAA CGA TAA -AA GTAA TAA TAA TAA TTA
1 TAA TA-A TAA TAA TAA TA-A TAA TAA TAA TAA -TAA TAA TAA TAA TAA
* * * *
116719198 TTA TAA TAG TAA TAA T-A TAA -AA TTAA TGA T-A TAA TAA T-G TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
** * * **
116719240 TAA TAA TAA TAA TGC TGA CAA TAGA TAA TAA TAA TAA -AA GGCA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA -TAA TAA
* * * * * *
116719286 TAA TAA TAG TAA TAAA CAA AAA TAG TAA TAA TAA TAA TGAA -AG TAG
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA
*
116719332 TGGA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
116719372 GGCAAAATAG
Statistics
Matches: 201, Mismatches: 46, Indels: 36
0.71 0.16 0.13
Matches are distributed among these distances:
2 14 0.07
3 172 0.86
4 15 0.07
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:116723019 original size:18 final size:18
Alignment explanation
Indices: 116722996--116723031 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
116722986 CTTCTTACAT
116722996 ATATTG-AAATCTATAAAA
1 ATATTGAAAAT-TATAAAA
116723014 ATATTGAAAATTATAAAA
1 ATATTGAAAATTATAAAA
116723032 TAAATAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (18 bp):
ATATTGAAAATTATAAAA
Found at i:116725325 original size:24 final size:24
Alignment explanation
Indices: 116725293--116725340 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
116725283 CAATATTTAC
*
116725293 TTTTCAAATTTAAAATAAATTATT
1 TTTTCAAATCTAAAATAAATTATT
* *
116725317 TTTTTAAATCTATAATAAATTATT
1 TTTTCAAATCTAAAATAAATTATT
116725341 GAATTTCATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (24 bp):
TTTTCAAATCTAAAATAAATTATT
Found at i:116726986 original size:6 final size:6
Alignment explanation
Indices: 116726972--116727011 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
116726962 TTTTCTTCTT
*
116726972 CTTCTC CTTCCC CTTCCC CTTCCC CTTCCC CTTCCC CTTC
1 CTTCCC CTTCCC CTTCCC CTTCCC CTTCCC CTTCCC CTTC
116727012 AGGCTCTCCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (6 bp):
CTTCCC
Found at i:116733311 original size:11 final size:11
Alignment explanation
Indices: 116733297--116733337 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
116733287 TTTTTAATTG
116733297 TTTTGTTATTA
1 TTTTGTTATTA
*
116733308 TTTTGTTATTG
1 TTTTGTTATTA
* *
116733319 TTTTCTCATTA
1 TTTTGTTATTA
116733330 TTTTGTTA
1 TTTTGTTA
116733338 CCATTTCATT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.15, C:0.05, G:0.10, T:0.71
Consensus pattern (11 bp):
TTTTGTTATTA
Found at i:116733311 original size:22 final size:22
Alignment explanation
Indices: 116733293--116733337 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
116733283 GTTTTTTTTA
* *
116733293 ATTGTTTTGTTATTATTTTGTT
1 ATTGTTTTCTCATTATTTTGTT
116733315 ATTGTTTTCTCATTATTTTGTT
1 ATTGTTTTCTCATTATTTTGTT
116733337 A
1 A
116733338 CCATTTCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.16, C:0.04, G:0.11, T:0.69
Consensus pattern (22 bp):
ATTGTTTTCTCATTATTTTGTT
Found at i:116733759 original size:19 final size:17
Alignment explanation
Indices: 116733735--116733773 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
116733725 TTCTTATATG
116733735 AAATATAAATTAATATTTT
1 AAATAT-AATTAAT-TTTT
*
116733754 AAATATATTTAATTTTT
1 AAATATAATTAATTTTT
116733771 AAA
1 AAA
116733774 AACAAAACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 6 0.32
19 6 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATATAATTAATTTTT
Found at i:116734691 original size:20 final size:22
Alignment explanation
Indices: 116734643--116734691 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
116734633 TTATTGTTTG
116734643 ATATAATCACATAAAATTATAT
1 ATATAATCACATAAAATTATAT
*
116734665 ATAATAAT-ACATAATATTATA-
1 AT-ATAATCACATAAAATTATAT
116734686 ATATAA
1 ATATAA
116734692 ATATTAAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 4 0.16
21 2 0.08
22 14 0.56
23 5 0.20
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (22 bp):
ATATAATCACATAAAATTATAT
Found at i:116735027 original size:12 final size:13
Alignment explanation
Indices: 116735000--116735028 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
116734990 TTATTTTCCC
116735000 TATTTTTAAAATA
1 TATTTTTAAAATA
116735013 TATTTTTAAAA-A
1 TATTTTTAAAATA
116735025 TATT
1 TATT
116735029 AATAATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TATTTTTAAAATA
Found at i:116738660 original size:22 final size:22
Alignment explanation
Indices: 116738611--116738660 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
116738601 AAACATTCGT
*
116738611 TCAAAATAATAATGAAAATGAA
1 TCAAAATAATAATGAAAATCAA
116738633 --ATAAATAAATAATG-AAATCAA
1 TCA-AAAT-AATAATGAAAATCAA
116738654 TCAAAAT
1 TCAAAAT
116738661 TCAAAGGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 8
0.72 0.03 0.25
Matches are distributed among these distances:
20 1 0.04
21 10 0.43
22 11 0.48
23 1 0.04
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.24
Consensus pattern (22 bp):
TCAAAATAATAATGAAAATCAA
Found at i:116739177 original size:22 final size:23
Alignment explanation
Indices: 116739151--116739199 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
116739141 TACAAGCATT
*
116739151 TATA-TGATAATA-ATAAGATATA
1 TATATTGAAAATACATAAG-TATA
116739173 TATATTTGAAAATACATAAGTATA
1 TATA-TTGAAAATACATAAGTATA
116739197 TAT
1 TAT
116739200 GAATAGAGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 4 0.17
24 14 0.61
25 5 0.22
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.39
Consensus pattern (23 bp):
TATATTGAAAATACATAAGTATA
Found at i:116739244 original size:3 final size:3
Alignment explanation
Indices: 116739233--116739284 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
116739223 CAATAATACC
* * * *
116739233 AAT ACT AAT AAT AGT AA- AGAT GAT AAT AAT AAT AAT AGT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
116739278 AAT AAT A
1 AAT AAT A
116739285 GTTAACAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 1 0.03
3 38 0.97
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:116739274 original size:15 final size:15
Alignment explanation
Indices: 116739256--116739286 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
116739246 GTAAAGATGA
116739256 TAATAATAATAATAG
1 TAATAATAATAATAG
116739271 TAATAATAATAATAG
1 TAATAATAATAATAG
116739286 T
1 T
116739287 TAACAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.35
Consensus pattern (15 bp):
TAATAATAATAATAG
Found at i:116740618 original size:44 final size:44
Alignment explanation
Indices: 116740529--116740834 Score: 124
Period size: 44 Copynumber: 7.1 Consensus size: 44
116740519 TTTTAACCCA
* * ** * *
116740529 CTCCACTGTAACTTCAGGGAGATAGGAT-AGTGTCTTCGATCTG
1 CTCCACTGTAACTTCAGGGGGATAAGATCTCTGGCTTCAATCTG
* *
116740572 CT-CGCTGTAA-TTCTCGGGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAACTTC-AGGGG-GATAAGATCTCTGGCTTCAATCTG
* ** *
116740616 CTCCACTGTAACTTCAGGGGGATAAGATCTGCAAT-TCTTCGGTCTA
1 CTCCACTGTAACTTCAGGGGGATAAGATCT-C--TGGCTTCAATCTG
** * * *
116740662 CTCCACTGTAA-TCTCAGGAAGATAAGA-C-CT-GATGT-GATCTT
1 CTCCACTGTAACT-TCAGGGGGATAAGATCTCTGGCT-TCAATCTG
* * * *
116740703 CTCTACTGTAACTTCAGAGAGATAAGATC-CT---TT-AATCCG
1 CTCCACTGTAACTTCAGGGGGATAAGATCTCTGGCTTCAATCTG
* * * * ** **
116740742 CTCCATTGTAA-TCTCAAGGAGATAGGAT-TACTATCTTTGATCTG
1 CTCCACTGTAACT-TCAGGGGGATAAGATCT-CTGGCTTCAATCTG
* *
116740786 CTCCGCTGTAA-TCTCAGGGAGATAAGATCTCTGGCTTCAATCTG
1 CTCCACTGTAACT-TCAGGGGGATAAGATCTCTGGCTTCAATCTG
116740830 CTCCA
1 CTCCA
116740835 ATGCAACCGA
Statistics
Matches: 201, Mismatches: 42, Indels: 39
0.71 0.15 0.14
Matches are distributed among these distances:
38 1 0.00
39 25 0.12
40 3 0.01
41 31 0.15
42 15 0.07
43 12 0.06
44 65 0.32
45 15 0.07
46 33 0.16
47 1 0.00
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (44 bp):
CTCCACTGTAACTTCAGGGGGATAAGATCTCTGGCTTCAATCTG
Found at i:116740918 original size:85 final size:87
Alignment explanation
Indices: 116740775--116741073 Score: 304
Period size: 85 Copynumber: 3.5 Consensus size: 87
116740765 AGGATTACTA
* * * ** * * *
116740775 TCTTTGATCTGCTCCGCTG-TAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGCTCCAATG
1 TCTTTGATCTGCTTCGCTGTTAAT-GCAGGAAGGCAAGATCTGCTGTCTTCAACCAGCTCCAATG
116740838 CAACCGATGGAGGCAAGGCTTTG
65 CAACCGATGGAGGCAAGGCTTTG
* * *
116740861 TCTTTGAT-TGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCT-TCTTTAACTAGCTCCACTGC
1 TCTTTGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTGTCTTCAACCAGCTCCAATGC
* *
116740924 AATCGATGGATGCAAGGCTTTG
66 AACCGATGGAGGCAAGGCTTTG
* ** *
116740946 T-TTTCGATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCTTTTGTCTTCAACCAGCT-CTATC
1 TCTTT-GATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTGTCTTCAACCAGCTCCAAT-
* ** *
116741009 ACAACCGAAAGAGGCAAGGTTTGTG
64 GCAACCGATGGAGGCAAGGCTT-TG
* * *
116741034 TCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATC
1 TCTTTGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATC
116741074 CTTTGTCTTC
Statistics
Matches: 175, Mismatches: 30, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
84 3 0.02
85 60 0.34
86 48 0.27
87 27 0.15
88 35 0.20
89 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.31
Consensus pattern (87 bp):
TCTTTGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGCTGTCTTCAACCAGCTCCAATGC
AACCGATGGAGGCAAGGCTTTG
Found at i:116741067 original size:88 final size:88
Alignment explanation
Indices: 116740820--116741084 Score: 290
Period size: 88 Copynumber: 3.1 Consensus size: 88
116740810 AGATCTCTGG
* * * * * *
116740820 CTTCAATCTGCTCCAATGCAACCGATGGAGGCAAGGCTT-TGTCTTTGAT-TGCTTCGCTGTTAA
1 CTTCAACCAGCTCCACTACAACCGATGGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAA
**
116740883 TGCAGGAAGGCAAGATCTGCT-T
66 TGCAGGAAGGCAAGATCTTTTGT
* * * * *
116740905 CTTTAACTAGCTCCACTGCAATCGATGGATGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTA
1 CTTCAACCAGCTCCACTACAACCGATGGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTTA
*
116740968 ATGTAGGAAGGCAAGATCTTTTGT
65 ATGCAGGAAGGCAAGATCTTTTGT
* ** *
116740992 CTTCAACCAGCTCTA-TCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCA
1 CTTCAACCAGCTCCACT-ACAACCGATGGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTA
* *
116741056 ATGCAGAAAGGCAAGATCCTTTGT
65 ATGCAGGAAGGCAAGATCTTTTGT
116741080 CTTCA
1 CTTCA
116741085 TTGATCTGTC
Statistics
Matches: 149, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
85 34 0.23
86 41 0.28
87 29 0.19
88 45 0.30
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (88 bp):
CTTCAACCAGCTCCACTACAACCGATGGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTTAA
TGCAGGAAGGCAAGATCTTTTGT
Found at i:116742323 original size:1 final size:1
Alignment explanation
Indices: 116742317--116742343 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
116742307 CTCTCCAAAG
116742317 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
116742344 AAGGAAGCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:116751259 original size:26 final size:27
Alignment explanation
Indices: 116751222--116751277 Score: 105
Period size: 26 Copynumber: 2.1 Consensus size: 27
116751212 GTGAAGGATT
116751222 TAAGGCCTTGGTTCAAAGCATGATGGA
1 TAAGGCCTTGGTTCAAAGCATGATGGA
116751249 TAAGG-CTTGGTTCAAAGCATGATGGA
1 TAAGGCCTTGGTTCAAAGCATGATGGA
116751275 TAA
1 TAA
116751278 CAAGAGATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 24 0.83
27 5 0.17
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (27 bp):
TAAGGCCTTGGTTCAAAGCATGATGGA
Found at i:116757932 original size:44 final size:43
Alignment explanation
Indices: 116757865--116758288 Score: 212
Period size: 44 Copynumber: 9.8 Consensus size: 43
116757855 AAAGAATTTC
* * *
116757865 AGATCTTATCTCCTTGAGGTTACAGCGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAG
* ** *
116757909 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAG-AT
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAG
* * * *
116757951 AGTAATCCTATCTCCTTGAGATTACAATGGAGCGGATT-AA--AG
1 AG--ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAG
* * * * *
116757993 -GATCTTATCTCTCTGA-AGTTACAGTAGAGAAGA-TCACATCAG
1 AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGA-AGCAG
* * * *** * *
116758035 -G-CCTTATTTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTC
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCA---G
*
116758079 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-CAG
* * * *
116758123 TA-ATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATGAAG
1 -AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATT-GAA-GCAG
* ** * * *
116758168 -GATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCG-TGTCAG
1 AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAG-CAG
* ** * * *
116758210 -G-TCTTATTTCCCTGAGATTACAGTGGAATAGACTGAAGAATTTT
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCA---G
*
116758254 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGAT
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGAT
116758289 CAAAGACACT
Statistics
Matches: 283, Mismatches: 69, Indels: 54
0.70 0.17 0.13
Matches are distributed among these distances:
38 2 0.01
39 24 0.08
40 1 0.00
41 53 0.19
42 14 0.05
43 3 0.01
44 120 0.42
45 7 0.02
46 58 0.20
47 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (43 bp):
AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCAG
Found at i:116758346 original size:87 final size:85
Alignment explanation
Indices: 116757910--116758366 Score: 283
Period size: 87 Copynumber: 5.3 Consensus size: 85
116757900 TGAAGCCAGA
* *
116757910 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATTA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATC-AAGACA-T-ATCCTATCTCCCTGAGATTA
* *
116757975 CAATGGAGCGGA-T----TAAAG
63 CAGTGGAGTGGATTAAAATAAAG
* ** * * *
116757993 GATCTTATCTCTCTGA-AGTTACAGTAGAGAAGATC---ACATCAGGCCTTATTTCCCTGAGATT
1 GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCAAGACAT-A-TCC-TATCTCCCTGAGATT
*** ** **
116758054 ACAGTGGAACAGACCAAAGAATTTCA-
62 ACAGTGGAGTGGA-TTAA-AA-TAAAG
* * * *
116758080 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAGATTA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGA-TCAAGACA-T-ATCCTATCTCCCTGAGATTA
* *
116758145 CAGTGGAGCGGATTAAAATGAAG
63 CAGTGGAGTGGATTAAAATAAAG
* * * ** * ** * *
116758168 GATCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGTGTCAGGTCTTATTTCCCTGAGATTACA
1 GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATCAAGACATATCCTATCTCCCTGAGATTACA
* * * **
116758232 GTGGAATAGACTGAAGAATTTTA-
65 GTGGAGTGGA-TTAA-AA-TAAAG
116758255 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTATCCTATCTCCCTGA-AGTTA
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATC-AAGACA-TATCCTATCTCCCTGAGA-TTA
116758319 CAGTGGAGTGGATTAAAATAAAG
63 CAGTGGAGTGGATTAAAATAAAG
* *
116758342 GATCTTATCTCTCTGAGGTTACAGC
1 GATCTTATCTCCCTGAGATTACAGC
116758367 AGAGTAGGTC
Statistics
Matches: 281, Mismatches: 66, Indels: 50
0.71 0.17 0.13
Matches are distributed among these distances:
78 2 0.01
79 4 0.01
80 23 0.08
82 1 0.00
83 29 0.10
85 26 0.09
86 5 0.02
87 91 0.32
88 42 0.15
89 27 0.10
90 25 0.09
91 4 0.01
92 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (85 bp):
GATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAGACATATCCTATCTCCCTGAGATTACAG
TGGAGTGGATTAAAATAAAG
Found at i:116758366 original size:174 final size:175
Alignment explanation
Indices: 116757909--116758420 Score: 725
Period size: 175 Copynumber: 3.0 Consensus size: 175
116757899 TTGAAGCCAG
* *
116757909 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACAGTAATCCTATCTCCCTGAGATT
* * * *
116757974 ACAATGGAGCGGA-T----TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATCA
66 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
* * **
116758034 GGCCTTATTTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTC
131 GGTCTTATTTCCCTGAGATTACAGTGGAATAGACTGAAGAATTTC
* * ** *
116758079 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACAGTAATCCTATCTCCCTGAGATT
* **
116758144 ACAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTGTCA
66 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
*
116758209 GGTCTTATTTCCCTGAGATTACAGTGGAATAGACTGAAGAATTTT
131 GGTCTTATTTCCCTGAGATTACAGTGGAATAGACTGAAGAATTTC
*
116758254 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACT-ATCCTATCTCCCTGA-AGT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACAGTAATCCTATCTCCCTGAGA-T
* * *
116758317 TACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGGTCGCATC
65 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATC
* *
116758382 AGGTCTTATTTCCCTGAAGA-TGCAGTGGAATAGATTGAA
130 AGGTCTTATTTCCCTG-AGATTACAGTGGAATAGACTGAA
116758421 AACAACGAAT
Statistics
Matches: 302, Mismatches: 33, Indels: 10
0.88 0.10 0.03
Matches are distributed among these distances:
170 70 0.23
171 1 0.00
173 1 0.00
174 108 0.36
175 122 0.40
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (175 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACAGTAATCCTATCTCCCTGAGATT
ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCA
GGTCTTATTTCCCTGAGATTACAGTGGAATAGACTGAAGAATTTC
Found at i:116758465 original size:21 final size:21
Alignment explanation
Indices: 116758441--116758516 Score: 82
Period size: 21 Copynumber: 3.5 Consensus size: 21
116758431 CTTATTCCCC
116758441 TGAAGTTACAACAGAATGGAT
1 TGAAGTTACAACAGAATGGAT
* ***
116758462 TGAAGTTACAAGTCA-TATCTCT
1 TGAAGTTACAA--CAGAATGGAT
116758484 CTGAAGTTACAACAGAATGGAT
1 -TGAAGTTACAACAGAATGGAT
116758506 TGAAGTTACAA
1 TGAAGTTACAA
116758517 GTCATATCTC
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
21 24 0.56
22 6 0.14
23 13 0.30
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (21 bp):
TGAAGTTACAACAGAATGGAT
Found at i:116758490 original size:44 final size:44
Alignment explanation
Indices: 116758440--116758554 Score: 194
Period size: 44 Copynumber: 2.6 Consensus size: 44
116758430 TCTTATTCCC
116758440 CTGAAGTTACAACAGAATGGATTGAAGTTACAAGTCATATCTCT
1 CTGAAGTTACAACAGAATGGATTGAAGTTACAAGTCATATCTCT
116758484 CTGAAGTTACAACAGAATGGATTGAAGTTACAAGTCATATCTCT
1 CTGAAGTTACAACAGAATGGATTGAAGTTACAAGTCATATCTCT
* ** *
116758528 CTGAAGTTGCAATGGAGTGGATTGAAG
1 CTGAAGTTACAACAGAATGGATTGAAG
116758555 CAACATGACA
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 67 1.00
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (44 bp):
CTGAAGTTACAACAGAATGGATTGAAGTTACAAGTCATATCTCT
Found at i:116758490 original size:174 final size:173
Alignment explanation
Indices: 116757909--116758494 Score: 541
Period size: 174 Copynumber: 3.4 Consensus size: 173
116757899 TTGAAGCCAG
* * * * * * *
116757909 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTG-AGAT
1 AGATCTTATCTCCCTGAGATTACAACAGAACAGATCAAAGACA-CAATCATATCTCCCTGAAG-T
* * * *
116757973 TACAATGGAGCGGA-T----TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGAAGATCACATC
64 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATC
* * **
116758033 AGGCCTTATTTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTC-
129 AGGTCTTATTTCCCTGAGATTACAGTGGAATAGACTGAAGAA--TCA
* *** * ** * * *
116758079 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTG-AGAT
1 AGATCTTATCTCCCTGAGATTACAACAGAACAGATCAAAGACA-CAATCATATCTCCCTGAAG-T
* **
116758143 TACAGTGGAGCGGATTAAAATGAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTGTC
64 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATC
**
116758208 AGGTCTTATTTCCCTGAGATTACAGTGGAATAGACTGAAGAATTTT
129 AGGTCTTATTTCCCTGAGATTACAGTGGAATAGACTGAAGAA-TCA
* * * * *
116758254 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTATCCTATCTCCCTGAAGTTA
1 AGATCTTATCTCCCTGAGATTACAACAGAACAGATCAAAGACACAATCATATCTCCCTGAAGTTA
* * *
116758319 CAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGGTCGCATCAG
66 CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAG
* *
116758384 GTCTTATTTCCCTGAAGA-TGCAGTGGAATAGATTGAA-AA-CA
131 GTCTTATTTCCCTG-AGATTACAGTGGAATAGACTGAAGAATCA
** ** ** *
116758425 ACGAATCTTAT-TCCCCTGA-AGTTACAACAGAATGGATTGAAGTTACAAGTCATATCTCTCTGA
1 A-G-ATCTTATCT-CCCTGAGA-TTACAACAGAACAGATCAAAGACACAA-TCATATCTCCCTGA
116758488 AGTTACA
61 AGTTACA
116758495 ACAGAATGGA
Statistics
Matches: 355, Mismatches: 48, Indels: 22
0.84 0.11 0.05
Matches are distributed among these distances:
170 70 0.20
171 2 0.01
172 3 0.01
173 32 0.09
174 128 0.36
175 120 0.34
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (173 bp):
AGATCTTATCTCCCTGAGATTACAACAGAACAGATCAAAGACACAATCATATCTCCCTGAAGTTA
CAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAG
GTCTTATTTCCCTGAGATTACAGTGGAATAGACTGAAGAATCA
Found at i:116758492 original size:23 final size:23
Alignment explanation
Indices: 116758462--116758535 Score: 82
Period size: 23 Copynumber: 3.3 Consensus size: 23
116758452 CAGAATGGAT
116758462 TGAAGTTACAAGTCATATCTCTC
1 TGAAGTTACAAGTCATATCTCTC
* ***
116758485 TGAAGTTACAA--CAGAATGGAT-
1 TGAAGTTACAAGTCA-TATCTCTC
116758506 TGAAGTTACAAGTCATATCTCTC
1 TGAAGTTACAAGTCATATCTCTC
116758529 TGAAGTT
1 TGAAGTT
116758536 GCAATGGAGT
Statistics
Matches: 39, Mismatches: 8, Indels: 8
0.71 0.15 0.15
Matches are distributed among these distances:
21 13 0.33
22 6 0.15
23 20 0.51
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (23 bp):
TGAAGTTACAAGTCATATCTCTC
Found at i:116776613 original size:16 final size:16
Alignment explanation
Indices: 116776592--116776622 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
116776582 CTTGATGGAT
116776592 TAAAGTACAAAAAATC
1 TAAAGTACAAAAAATC
*
116776608 TAAAGTATAAAAAAT
1 TAAAGTACAAAAAAT
116776623 AAAAAAAATT
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:0.65, C:0.06, G:0.06, T:0.23
Consensus pattern (16 bp):
TAAAGTACAAAAAATC
Found at i:116778766 original size:29 final size:30
Alignment explanation
Indices: 116778731--116778787 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
116778721 ACTTAAATCT
116778731 AACTTTT-CAAAATTACAATTTTGCCCCTA
1 AACTTTTGCAAAATTACAATTTTGCCCCTA
* * *
116778760 AACTTTTGCATATTTACACTTTTGCCCC
1 AACTTTTGCAAAATTACAATTTTGCCCC
116778788 AAAGCCCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 7 0.29
30 17 0.71
ACGTcount: A:0.28, C:0.26, G:0.05, T:0.40
Consensus pattern (30 bp):
AACTTTTGCAAAATTACAATTTTGCCCCTA
Done.