Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 430 of 433
Found at i:131610050 original size:26 final size:26
Alignment explanation
Indices: 131610021--131610073 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
131610011 TTTACAGTTT
131610021 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
131610047 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
131610073 T
1 T
131610074 GCATGTTTGA
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:131610567 original size:137 final size:137
Alignment explanation
Indices: 131610320--131610606 Score: 529
Period size: 137 Copynumber: 2.1 Consensus size: 137
131610310 GAATAGTCTC
131610320 CCCAAATGGGCTTGCATATGTTTACTCATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTCATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
131610385 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTCATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTCATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
131610450 ACTGTTA
131 ACTGTTA
*
131610457 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTCATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
131610522 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTCATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
131610587 ACTGTTA
131 ACTGTTA
**
131610594 CCTGAATGGGCTT
1 CCCAAATGGGCTT
131610607 AGGCCCAATG
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 145 1.00
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTCATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTCATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:131611567 original size:132 final size:132
Alignment explanation
Indices: 131611326--131612421 Score: 1356
Period size: 132 Copynumber: 8.3 Consensus size: 132
131611316 GGGTGCTACA
* * * * * *
131611326 ATTGTAGATCTTGTCTCCCTAAAGTGGTAGTGGAGCAGATCAAAGACAGCGAATCTTGTCTTCCT
1 ATTGTAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTTCCT
* ** ** *
131611391 AAAGTTGCAGTGAAATAGATTTAAGCCACCATCCTATCTCCCTAAAAAGTAGTGGAGTAGACTGA
66 GAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGA
131611456 AG
131 AG
* * *
131611458 ATTGTAGATCTTGCCTCCCTGAAGTTGCACTGGAGCAGATCGAAGACGGCGAATCTTGTCTTCCT
1 ATTGTAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTTCCT
* * * *
131611523 GGAGTTGTAGTGAAGCAGATTTAAGCCACCATCCTATCTTCCTAAGCAGTAGCGGAGTAGGCT-A
66 GAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGA
131611587 GAG
131 -AG
* * *
131611590 ATTGTAGATCTTGTCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACTGTGGATCTTGTCTTCCT
1 ATTGTAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTTCCT
* *
131611655 GAAGTTGCAGTGAAACAGATTTAAGCCACCATCCTATCTCCCTAAGAAGTAGTGGAGTAGGCTGA
66 GAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGA
131611720 AG
131 AG
* * *
131611722 ATTGTAAATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAAACGGTGAATCTTGTCGTCCT
1 ATTGTAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTTCCT
* * ** * *
131611787 GAAGTTGTAGCGAAGCAGATTTAAGCCATTATCCTATCTTCCTAAGCAGTAGTAGAGTAGGCTGA
66 GAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGA
131611852 AG
131 AG
* * *
131611854 ATTGTAGAACTTGTCTCCCTGAAGTGGCAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTTCTT
1 ATTGTAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTTCCT
**
131611919 GAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGATTGA
66 GAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGA
131611984 AG
131 AG
** * * * *
131611986 ATTGTAGATCTTACCTCCCTAAAGTTGCAGTGGAGCAGATCGAAGGCAGCGAATCTTGTCTTCCT
1 ATTGTAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTTCCT
* * * *
131612051 GGAGTTGCAATGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGG
66 GAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGA
131612116 AG
131 AG
* *
131612118 ATTGTAGATCTTGTCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTTCTT
1 ATTGTAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTTCCT
** * * * *
131612183 GAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCTTTAAGCAATAGTGGAGCAGACTAA
66 GAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGA
131612248 AG
131 AG
*** * * * ** ** * * *
131612250 ATACCA-ATTTTATCTCCCTAAAGTTGCAGTGGAGCAGATCGAATCCACT-AACCTTATCTCCCT
1 ATTGTAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTTCCT
* * ** * * * * *
131612313 GAAGTTGCAGTGGAGCA-AGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTA-CAGTGGAGTAGA
66 GAAGTTGCAGTGAAGCAGA-TTTAAGCCACCA-TCCTATCTCCCT-AAG-CAGTAGTGGAGTAGG
*
131612376 CTGAAA
127 CTGAAG
* * * * *
131612382 ATAGCAGATCTTATCTCCTTGAAGTTGCAATGGAGCAGAT
1 ATTGTAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGAT
131612422 TAAGCTACGA
Statistics
Matches: 836, Mismatches: 121, Indels: 13
0.86 0.12 0.01
Matches are distributed among these distances:
129 1 0.00
130 34 0.04
131 45 0.05
132 725 0.87
133 31 0.04
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (132 bp):
ATTGTAGATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACGGTGAATCTTGTCTTCCT
GAAGTTGCAGTGAAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGA
AG
Found at i:131611777 original size:45 final size:45
Alignment explanation
Indices: 131611597--131612202 Score: 224
Period size: 45 Copynumber: 13.7 Consensus size: 45
131611587 GAGATTGTAG
* *
131611597 ATCTTGTCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACTGTGG
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACTGTGA
* * * ** ****
131611642 ATCTTGTCTTCCTGAAGTTGCAGTGAAACAGATTTAAG-C-CACC
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACTGTGA
* * ** * * * * *
131611685 ATCCTATCTCCCT-AAGAAGTAGTGGAGTAG-GCTGAAGATTGTAA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATC-GAAGACTGTGA
* *
131611729 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAAACGGTGA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACTGTGA
* * * ** *
131611774 ATCTTGTCGT-CCTGAAGTTGTAGCGAAGCAGATTTAAGCCAT-T--
1 ATCTTGTC-TCCCTGAAGTTGCAGTGGAGCAGATCGAAGAC-TGTGA
* * * ** * * * * *
131611817 ATCCTATCTTCCT-AAGCAGTAGTAGAGTAG-GCTGAAGATTGTAGA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATC-GAAGACTGT-GA
* *
131611862 A-CTTGTCTCCCTGAAGTGGCAGTGGAGCAGATCGAAGACGGTGA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACTGTGA
* * * ** ****
131611906 ATCTTGTCTTCTTGAAGTTGCAGTGAAGCAGATTTAAG-C-CACC
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACTGTGA
* * ** * * * *
131611949 ATCCTATCTCCCT-AAGCAGTAGTGGAGTAGATTGAAGATTGT-A
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACTGTGA
** * * * *
131611992 GATCTTACCTCCCTAAAGTTGCAGTGGAGCAGATCGAAGGCAGCGA
1 -ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACTGTGA
* * * * ** ****
131612038 ATCTTGTCTTCCTGGAGTTGCAATGAAGCAGATTTAAG-C-CACC
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACTGTGA
* * ** * * * * * *
131612081 ATCCTATCTCCCT-AAGCAGTAGTGGAGTAGGTTGGAGATTGT-A
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACTGTGA
* *
131612124 GATCTTGTCTCCCTGAAGTTACAGTGGAGCAGATCGAAGACGGTGA
1 -ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACTGTGA
* * *
131612170 ATCTTGTCTTCTTGAAGTTGCAGTGAAGCAGAT
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGAT
131612203 TTAAGCCACC
Statistics
Matches: 384, Mismatches: 151, Indels: 52
0.65 0.26 0.09
Matches are distributed among these distances:
41 1 0.00
42 62 0.16
43 38 0.10
44 47 0.12
45 231 0.60
46 5 0.01
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (45 bp):
ATCTTGTCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGACTGTGA
Found at i:131612282 original size:44 final size:43
Alignment explanation
Indices: 131612233--131612420 Score: 157
Period size: 44 Copynumber: 4.3 Consensus size: 43
131612223 TTTAAGCAAT
* *
131612233 AGTGGAGCAGACTAAAGATACCAATTTTATCTCCCTAAAGTTGC
1 AGTGGAGCAGACTAAA-ATACCAATCTTATCTCCCTGAAGTTGC
** * *
131612277 AGTGGAGCAGA-TCGAATCCACTAACCTTATCTCCCTGAAGTTGC
1 AGTGGAGCAGACTAAAAT--ACCAATCTTATCTCCCTGAAGTTGC
* ** *
131612321 AGTGGAGCA-AGTTGAAGTTA-CAAGTCTTATCTCCCTGAAGTTAC
1 AGTGGAGCAGA-CT-AAAATACCAA-TCTTATCTCCCTGAAGTTGC
* * *
131612365 AGTGGAGTAGACTGAAAATAGCAGATCTTATCTCCTTGAAGTTGC
1 AGTGGAGCAGACT-AAAATACCA-ATCTTATCTCCCTGAAGTTGC
*
131612410 AATGGAGCAGA
1 AGTGGAGCAGA
131612421 TTAAGCTACG
Statistics
Matches: 114, Mismatches: 21, Indels: 17
0.75 0.14 0.11
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
44 74 0.65
45 31 0.27
46 2 0.02
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (43 bp):
AGTGGAGCAGACTAAAATACCAATCTTATCTCCCTGAAGTTGC
Found at i:131614337 original size:28 final size:26
Alignment explanation
Indices: 131614299--131614350 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
131614289 TTTATTTTGA
131614299 ATTTTCTATACTGTACTTATTTTAAAAT
1 ATTTTCTATAC--TACTTATTTTAAAAT
* *
131614327 ATTTTTTATACTCCTTATTTTAAA
1 ATTTTCTATACTACTTATTTTAAA
131614351 CTTATATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
28 10 0.45
ACGTcount: A:0.31, C:0.12, G:0.02, T:0.56
Consensus pattern (26 bp):
ATTTTCTATACTACTTATTTTAAAAT
Found at i:131614454 original size:15 final size:13
Alignment explanation
Indices: 131614416--131614458 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
131614406 GTTTTTGTAT
131614416 ATTATTTATTTTA
1 ATTATTTATTTTA
*
131614429 ATTTTTTTATTTATA
1 A-TTATTTATTT-TA
131614444 CATTATTTATTTTA
1 -ATTATTTATTTTA
131614458 A
1 A
131614459 GCTCTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 2 0.08
14 11 0.44
15 11 0.44
16 1 0.04
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTATTTATTTTA
Found at i:131614592 original size:26 final size:27
Alignment explanation
Indices: 131614533--131614584 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
131614523 TATTTAACAT
* *
131614533 ATTATTTATTTGAAATTTGCTTTATAA
1 ATTATTTATTTCAAATTTGATTTATAA
*
131614560 ACTATTTATTTCAAA-TTGATTTATA
1 ATTATTTATTTCAAATTTGATTTATA
131614585 CTTTATTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 9 0.41
27 13 0.59
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.54
Consensus pattern (27 bp):
ATTATTTATTTCAAATTTGATTTATAA
Found at i:131614648 original size:25 final size:27
Alignment explanation
Indices: 131614620--131614676 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 27
131614610 GCTTATTCTG
131614620 AACC-GTTTCATATATTA-TTATTTTA
1 AACCTGTTTCATATATTATTTATTTTA
* *
131614645 AACCTTTTTTTTATATATTATTTATTTTA
1 AACC--TGTTTCATATATTATTTATTTTA
131614674 AAC
1 AAC
131614677 TTTTTATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 4 0.15
28 11 0.42
29 11 0.42
ACGTcount: A:0.32, C:0.11, G:0.02, T:0.56
Consensus pattern (27 bp):
AACCTGTTTCATATATTATTTATTTTA
Found at i:131614660 original size:28 final size:30
Alignment explanation
Indices: 131614629--131614689 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
131614619 GAACCGTTTC
131614629 ATATATTA-TTATTTTAAACCTTTT-TTTT
1 ATATATTATTTATTTTAAACCTTTTATTTT
*
131614657 ATATATTATTTATTTTAAACTTTTTATTTT
1 ATATATTATTTATTTTAAACCTTTTATTTT
131614687 ATA
1 ATA
131614690 CTTTAATTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 8 0.27
29 15 0.50
30 7 0.23
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (30 bp):
ATATATTATTTATTTTAAACCTTTTATTTT
Found at i:131614684 original size:14 final size:14
Alignment explanation
Indices: 131614637--131614693 Score: 55
Period size: 14 Copynumber: 4.0 Consensus size: 14
131614627 TCATATATTA
131614637 TTATTTTAAACCTTT
1 TTATTTTAAA-CTTT
*
131614652 TT-TTTATATA-TTAT
1 TTATTT-TAAACTT-T
131614666 TTATTTTAAACTTT
1 TTATTTTAAACTTT
*
131614680 TTATTTTATACTTT
1 TTATTTTAAACTTT
131614694 AATTGGTTTC
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
13 2 0.06
14 23 0.66
15 10 0.29
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (14 bp):
TTATTTTAAACTTT
Found at i:131616360 original size:31 final size:31
Alignment explanation
Indices: 131616317--131616382 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
131616307 CTCTTAAAGT
131616317 AGCAATGAATATCATTCACTATGAAGATGAA
1 AGCAATGAATATCATTCACTATGAAGATGAA
*
131616348 AGCAATGGATATCATTCACTATGAAGATGAA
1 AGCAATGAATATCATTCACTATGAAGATGAA
131616379 AGCA
1 AGCA
131616383 GTCGCTATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.44, C:0.14, G:0.18, T:0.24
Consensus pattern (31 bp):
AGCAATGAATATCATTCACTATGAAGATGAA
Found at i:131616737 original size:12 final size:12
Alignment explanation
Indices: 131616720--131616746 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
131616710 GTATGCTCTC
131616720 TTTTTTTTTCTT
1 TTTTTTTTTCTT
131616732 TTTTTTTTTCTT
1 TTTTTTTTTCTT
131616744 TTT
1 TTT
131616747 CAATATTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (12 bp):
TTTTTTTTTCTT
Found at i:131617738 original size:18 final size:18
Alignment explanation
Indices: 131617701--131617738 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
131617691 AGAGTGAAAT
*
131617701 ATGTGTAACAAAATTGAA
1 ATGTGTAACAAAATTAAA
131617719 ATGTGTAA-AAACATTAAA
1 ATGTGTAACAAA-ATTAAA
131617737 AT
1 AT
131617739 AAAAATTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.53, C:0.05, G:0.13, T:0.29
Consensus pattern (18 bp):
ATGTGTAACAAAATTAAA
Found at i:131618763 original size:26 final size:26
Alignment explanation
Indices: 131618734--131618842 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
131618724 TGATACAAAT
131618734 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
131618760 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
131618786 TGATAATGGGTTAGGTAAATGTT-TA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
131618811 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
131618837 TGATAA
1 TGATAA
131618843 GAAATTCATG
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
25 23 0.31
26 52 0.69
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:131618839 original size:51 final size:52
Alignment explanation
Indices: 131618734--131618842 Score: 175
Period size: 51 Copynumber: 2.1 Consensus size: 52
131618724 TGATACAAAT
131618734 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* * * *
131618786 TGATAATGGGTTAGGTAAATGTT-TATGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
131618837 TGATAA
1 TGATAA
131618843 GAAATTCATG
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
51 30 0.57
52 23 0.43
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.38
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:131622228 original size:31 final size:29
Alignment explanation
Indices: 131622158--131622231 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
131622148 ACCTTAAGTT
* *
131622158 ACATTTTAGTCACTTATGTTTGAAATGTT
1 ACATTTTAGTCACTTACGTTTGAAATGTA
* * *
131622187 ACGTTTTAGTCACTTACGTTATTATATTGTA
1 ACATTTTAGTCACTTACGTT-TGA-AATGTA
131622218 ACATTTTAGTCACT
1 ACATTTTAGTCACT
131622232 GAGCTATTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 18 0.49
30 2 0.05
31 17 0.46
ACGTcount: A:0.27, C:0.14, G:0.12, T:0.47
Consensus pattern (29 bp):
ACATTTTAGTCACTTACGTTTGAAATGTA
Found at i:131624313 original size:137 final size:137
Alignment explanation
Indices: 131624067--131624353 Score: 529
Period size: 137 Copynumber: 2.1 Consensus size: 137
131624057 CATTGGGCCT
** *
131624067 AAGCCCATTAAGGTAACAGTGGTACTAGGCCAGAGCCATTTTTAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCATTTTCAGATTACAATAAACTGGGCCTT
131624132 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
131624197 CATATGC
131 CATATGC
* *
131624204 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCATTTTCAGATTACAATAAACTGGGCCTT
131624269 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
131624334 CATATGC
131 CATATGC
131624341 AAGCCCATTTGGG
1 AAGCCCATTTGGG
131624354 GAGACTGCTC
Statistics
Matches: 145, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 145 1.00
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTAGGCCAGAGCCATTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
CATATGC
Found at i:131624583 original size:22 final size:21
Alignment explanation
Indices: 131624549--131624589 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
131624539 CCAATCCCAT
*
131624549 GCATCAGATAATAACAACATG
1 GCATCAGAAAATAACAACATG
131624570 GCATGCAGAAAATAACAACA
1 GCAT-CAGAAAATAACAACA
131624590 GTCAAACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.51, C:0.20, G:0.15, T:0.15
Consensus pattern (21 bp):
GCATCAGAAAATAACAACATG
Found at i:131626172 original size:26 final size:26
Alignment explanation
Indices: 131626141--131626248 Score: 155
Period size: 26 Copynumber: 4.2 Consensus size: 26
131626131 TGAAATGCCC
131626141 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
131626167 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* * *
131626193 ATCATTGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
*
131626219 ATCATGAAACATTTACCT-AACACATT
1 ATCATGGAACATTTACCTAAAC-CATT
131626245 ATCA
1 ATCA
131626249 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
25 2 0.03
26 71 0.97
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:131626218 original size:52 final size:52
Alignment explanation
Indices: 131626141--131626248 Score: 171
Period size: 52 Copynumber: 2.1 Consensus size: 52
131626131 TGAAATGCCC
* *
131626141 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACACATT
* * *
131626193 ATCATTGAATATTTACCTAATCCATTATCATGAAACATTTACCTAACACATT
1 ATCATGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACACATT
131626245 ATCA
1 ATCA
131626249 ATTTGTACCA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAAACCATTATCATGAAACATTTACCTAACACATT
Found at i:131628950 original size:31 final size:27
Alignment explanation
Indices: 131628914--131628974 Score: 68
Period size: 31 Copynumber: 2.1 Consensus size: 27
131628904 AATTTTAAAA
*
131628914 AAATTATATCTTAGACCCTTAAACTTTTCTT
1 AAATTACATCTTA-ACCC-TAAA-TTTT-TT
*
131628945 AAATTACATTTTAACCCTAAATTTTTT
1 AAATTACATCTTAACCCTAAATTTTTT
131628972 AAA
1 AAA
131628975 AATTACATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.18
28 4 0.14
29 4 0.14
30 4 0.14
31 11 0.39
ACGTcount: A:0.38, C:0.16, G:0.02, T:0.44
Consensus pattern (27 bp):
AAATTACATCTTAACCCTAAATTTTTT
Found at i:131628970 original size:29 final size:31
Alignment explanation
Indices: 131628912--131628984 Score: 80
Period size: 29 Copynumber: 2.4 Consensus size: 31
131628902 AAAATTTTAA
* *
131628912 AAAAATTATATCTTAGACCCTTAAACTTTTCT
1 AAAAATTACATTTTAGACCCTTAAACTTTT-T
* *
131628944 -TAAATTACATTTTA-ACCC-TAAATTTTTT
1 AAAAATTACATTTTAGACCCTTAAACTTTTT
131628972 AAAAATTACATTT
1 AAAAATTACATTT
131628985 AGCCCCAGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
28 1 0.03
29 19 0.54
30 4 0.11
31 11 0.31
ACGTcount: A:0.40, C:0.15, G:0.01, T:0.44
Consensus pattern (31 bp):
AAAAATTACATTTTAGACCCTTAAACTTTTT
Found at i:131633767 original size:26 final size:26
Alignment explanation
Indices: 131633736--131633843 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
131633726 ATGAAATTCC
*
131633736 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
131633762 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
131633788 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
131633814 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
131633840 ATCA
1 ATCA
131633844 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:131638944 original size:26 final size:26
Alignment explanation
Indices: 131638915--131638967 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
131638905 TCAAACATGC
131638915 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGG-CAATTTAACTCCTAGGGGT
* *
131638941 ATTTCGGCAATTTATCTCCTAGGGGT
1 ATTTAGGCAATTTAACTCCTAGGGGT
131638967 A
1 A
131638968 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.36
Consensus pattern (26 bp):
ATTTAGGCAATTTAACTCCTAGGGGT
Found at i:131640484 original size:26 final size:26
Alignment explanation
Indices: 131640453--131640560 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
131640443 TGAAATTCCC
*
131640453 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
131640479 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
131640505 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
131640531 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
131640557 ATCA
1 ATCA
131640561 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:131652410 original size:93 final size:93
Alignment explanation
Indices: 131652298--131652469 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
131652288 GCCCATAAGT
* *
131652298 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
131652363 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
131652391 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
131652456 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
131652470 CAAATATCCA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:131652465 original size:46 final size:46
Alignment explanation
Indices: 131652290--131652465 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
131652280 TGTAACCCGC
* * *
131652290 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
131652336 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
131652386 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
131652429 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
131652466 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:131654892 original size:30 final size:30
Alignment explanation
Indices: 131654848--131654936 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
131654838 CAAAGATAAC
131654848 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
131654877 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
131654907 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
131654937 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:131654896 original size:15 final size:15
Alignment explanation
Indices: 131654848--131654927 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
131654838 CAAAGATAAC
*
131654848 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
131654862 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
131654877 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
131654892 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
131654907 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
131654922 AAGAAA
1 AAGAAA
131654928 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:131654936 original size:15 final size:15
Alignment explanation
Indices: 131654859--131654936 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
131654849 AGAAAACCGA
131654859 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
131654874 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
131654888 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
131654903 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
131654919 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
131654934 ATA
1 ATA
131654937 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:131658003 original size:93 final size:93
Alignment explanation
Indices: 131657891--131658062 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
131657881 GCCCATAAGT
* *
131657891 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
131657956 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
131657984 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
131658049 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
131658063 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:131658058 original size:46 final size:46
Alignment explanation
Indices: 131657883--131658058 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
131657873 TGTAACCCGC
* * *
131657883 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
131657929 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
131657979 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
131658022 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
131658059 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:131660680 original size:17 final size:16
Alignment explanation
Indices: 131660649--131660682 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
131660639 TAATTTCAAT
131660649 TCTTGTTTTTCAAAAA
1 TCTTGTTTTTCAAAAA
131660665 TCTTGTTTTTCAAAAA
1 TCTTGTTTTTCAAAAA
131660681 TC
1 TC
131660683 AACTCATAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.15, G:0.06, T:0.50
Consensus pattern (16 bp):
TCTTGTTTTTCAAAAA
Found at i:131660811 original size:75 final size:75
Alignment explanation
Indices: 131660725--131661405 Score: 846
Period size: 75 Copynumber: 8.7 Consensus size: 75
131660715 CACGCCGAGA
* *
131660725 TATTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
1 TATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
131660790 CACGTTGAGG
66 CACGTTGAGG
* **
131660800 TATTTTCAATTTCTGTTCAATTTATGTCTTTCAAAAAAATCAACTCATATTGCAAGAAATGAGTT
1 TATTTTCAA----T-TTC------TGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
131660865 GAGCCTCAAGACACGTTGAGG
55 GAGCCTCAAGACACGTTGAGG
* **
131660886 TATTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
1 TATTTTCAATTTCTGTCTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
131660951 GACACGTTGAGG
64 GACACGTTGAGG
*
131660963 TATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGA
1 TATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
131661028 CACGTTGAGG
66 CACGTTGAGG
* * *
131661038 TATTTTCAATTTCTGTCTTTAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGT
1 TATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
131661103 CACGTTGAGG
66 CACGTTGAGG
* **
131661113 TATTTTCAATTTCTGTCTTTAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA
1 TATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
131661178 CACGTTGAGG
66 CACGTTGAGG
*
131661188 TATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGT
1 TATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG-
* *
131661252 TCACATGCTGAGG
65 --ACACGTTGAGG
* * * *
131661265 TATTTTTAATTTCT-ACTTTTCAAAAAAATCAATCAACTCATATTGCAAGAGGTGAGTTGAACCT
1 TATTTTCAATTTCTGTC-TTTC--AAAAA--AATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
*
131661329 CAA-ATCACGCCCTGAGG
61 CAAGA-CACG--TTGAGG
* *
131661346 TATTTTCAATTTCTATTTTTCAAAAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTT
1 TATTTTCAATTTCTGTCTTTC------AAAAAAATCAACTCATATTGCGAGAGGTGAGTT
131661406 AAACCTTAGG
Statistics
Matches: 541, Mismatches: 35, Indels: 52
0.86 0.06 0.08
Matches are distributed among these distances:
74 1 0.00
75 267 0.49
76 1 0.00
77 99 0.18
78 1 0.00
79 9 0.02
80 3 0.01
81 59 0.11
82 1 0.00
83 27 0.05
85 7 0.01
86 66 0.12
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (75 bp):
TATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
CACGTTGAGG
Found at i:131661771 original size:29 final size:31
Alignment explanation
Indices: 131661713--131661785 Score: 89
Period size: 29 Copynumber: 2.4 Consensus size: 31
131661703 AAATTTCGAA
*
131661713 AAAAATTACATCTTAGACCCCTAAACTTTCCT
1 AAAAATTACATTTTAGACCCCTAAACTTT-CT
* *
131661745 -TAAATTACATTTTA-A-CCCTAAATTTTCT
1 AAAAATTACATTTTAGACCCCTAAACTTTCT
131661773 AAAAATTACATTT
1 AAAAATTACATTT
131661786 AGCCCCAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 2 0.06
29 21 0.58
30 1 0.03
31 12 0.33
ACGTcount: A:0.40, C:0.21, G:0.01, T:0.38
Consensus pattern (31 bp):
AAAAATTACATTTTAGACCCCTAAACTTTCT
Found at i:131662016 original size:14 final size:14
Alignment explanation
Indices: 131661999--131662035 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
131661989 CAAAAAAAAG
*
131661999 AGCAAAAAAATTCC
1 AGCAAAAAAAATCC
131662013 AGCAAAAAAAATCC
1 AGCAAAAAAAATCC
131662027 A--AAAAAAAA
1 AGCAAAAAAAA
131662036 AACATTAGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 8 0.36
14 14 0.64
ACGTcount: A:0.70, C:0.16, G:0.05, T:0.08
Consensus pattern (14 bp):
AGCAAAAAAAATCC
Found at i:131662279 original size:18 final size:18
Alignment explanation
Indices: 131662243--131662282 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
131662233 TGTTTTCATA
* *
131662243 TTTTCTTTCCTTGGTTTT
1 TTTTCTTTCCTTAGATTT
*
131662261 TTTTCTTTCTTTAGATTT
1 TTTTCTTTCCTTAGATTT
131662279 TTTT
1 TTTT
131662283 ATTTTATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.12, G:0.07, T:0.75
Consensus pattern (18 bp):
TTTTCTTTCCTTAGATTT
Found at i:131666316 original size:27 final size:26
Alignment explanation
Indices: 131666279--131666393 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
131666269 AGCATGGCTG
* *
131666279 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
131666305 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
131666333 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
131666360 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
131666387 CGAGAAC
1 CCAGAAC
131666394 GCTTCCTCCA
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
26 5 0.06
27 57 0.72
28 17 0.22
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:131666338 original size:54 final size:54
Alignment explanation
Indices: 131666279--131666393 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
131666269 AGCATGGCTG
*
131666279 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
131666333 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
*
131666387 CGAGAAC
1 CCAGAAC
131666394 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:131671673 original size:54 final size:54
Alignment explanation
Indices: 131671614--131671726 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
131671604 CATGGCTGCT
*
131671614 AGAACAGATA-ATATGACAGAGTCACCAAATACAGATAATCGTGGCAGAGCCACC
1 AGAACAGATATATATGACAGAGCCACCAAAT-CAGATAATCGTGGCAGAGCCACC
* * * * * *
131671668 AGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCACC
1 AGAACAGATATATATGACAGAGCCACCAAATCAGATAATCGTGGCAGAGCCACC
131671722 AGAAC
1 AGAAC
131671727 GCTTCCTCCA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 35 0.69
55 16 0.31
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (54 bp):
AGAACAGATATATATGACAGAGCCACCAAATCAGATAATCGTGGCAGAGCCACC
Found at i:131671674 original size:27 final size:26
Alignment explanation
Indices: 131671614--131671726 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
131671604 CATGGCTGCT
* * *
131671614 AGAACAGATAATATGACAGAGTCACC
1 AGAACAGATAATGTGGCAGAGCCACC
*
131671640 AAATACAGATAATCGTGGCAGAGCCACC
1 AGA-ACAGATAAT-GTGGCAGAGCCACC
131671668 AGAACAGATATATGTGGCAGAGCCACC
1 AGAACAGATA-ATGTGGCAGAGCCACC
* * *
131671695 AGATCAGATATTTGTGGCATAGCCACC
1 AGAACAGATA-ATGTGGCAGAGCCACC
131671722 AGAAC
1 AGAAC
131671727 GCTTCCTCCA
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 2 0.03
27 58 0.77
28 15 0.20
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (26 bp):
AGAACAGATAATGTGGCAGAGCCACC
Found at i:131671884 original size:26 final size:24
Alignment explanation
Indices: 131671829--131671900 Score: 72
Period size: 26 Copynumber: 2.8 Consensus size: 24
131671819 AAATTAACCC
*
131671829 TAGGGGTATAACGGTAATTTTACACC
1 TAGGGGTATAA--GTAATTTTACACA
*
131671855 TAGGGGTATAAGTAATTTTCCATACA
1 TAGGGGTATAAGTAATTTT--ACACA
131671881 TAGGGGTATTATAGTAATTT
1 TAGGGGTA-TA-AGTAATTT
131671901 AGCTACTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
24 8 0.20
26 22 0.55
27 2 0.05
28 8 0.20
ACGTcount: A:0.32, C:0.10, G:0.22, T:0.36
Consensus pattern (24 bp):
TAGGGGTATAAGTAATTTTACACA
Found at i:131673368 original size:26 final size:26
Alignment explanation
Indices: 131673332--131673467 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
131673322 ACATGAATTC
131673332 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
131673358 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
131673384 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
131673410 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
131673436 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
131673462 TTATCA
1 TTATCA
131673468 ATTGTATCAA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:131674014 original size:31 final size:31
Alignment explanation
Indices: 131673969--131674029 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
131673959 AAAGTAAAAA
* * **
131673969 TAATAGTAATAATAATGGTAATAATAAATAG
1 TAATAATAACAATAATGCAAATAATAAATAG
*
131674000 TAATAATAACAATAATTCAAATAATAAATA
1 TAATAATAACAATAATGCAAATAATAAATA
131674030 ATCTAAAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.31
Consensus pattern (31 bp):
TAATAATAACAATAATGCAAATAATAAATAG
Found at i:131674026 original size:3 final size:3
Alignment explanation
Indices: 131673797--131674015 Score: 135
Period size: 3 Copynumber: 74.0 Consensus size: 3
131673787 GGGGCGTTAC
* * * * *
131673797 AAT AAT AAT ATT GAC AAT AAT AAT AAT AAT AAT AGT AGT AA- AA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * *
131673843 AAT AAT ACT AAT GAT AAT AAT AAT AGT AAT AAT AAG AAT ATT AAT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * *
131673891 AGT ATT AGT ATT AAT AAT AAT GAT AAT AGT AAT AGAA AAT AA- AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
* * * *
131673935 AAT AAT AAT -AT AGT AAT AGT AAT AA- AAGT AAA AAT AAT AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT
** * *
131673979 AAT AAT GGT AAT AAT AAAT AGT AAT AAT AAC AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT
131674016 TCAAATAATA
Statistics
Matches: 163, Mismatches: 46, Indels: 14
0.73 0.21 0.06
Matches are distributed among these distances:
2 12 0.07
3 144 0.88
4 7 0.04
ACGTcount: A:0.59, C:0.01, G:0.08, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:131674226 original size:3 final size:3
Alignment explanation
Indices: 131674220--131674343 Score: 73
Period size: 3 Copynumber: 42.7 Consensus size: 3
131674210 ATAACAACAG
* * *
131674220 TAA TAA T-A CAA TAG TAA TAA TAA TAA AAA GGTAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA --TAA TAA TAA TAA TAA
* * *
131674266 T-A TAT TAGA TAA TAA -AA -AA TAA TAA TAA TAA CAG TAA TAA -AA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
131674308 TGA TAA TAG TGA TAA -AA TAA -GA TGA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
131674344 TTAAATATAG
Statistics
Matches: 92, Mismatches: 20, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
2 12 0.13
3 76 0.83
4 2 0.02
5 2 0.02
ACGTcount: A:0.61, C:0.02, G:0.08, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:131674243 original size:20 final size:18
Alignment explanation
Indices: 131674220--131674296 Score: 72
Period size: 17 Copynumber: 4.3 Consensus size: 18
131674210 ATAACAACAG
131674220 TAATAATACAATAGTAATAA
1 TAATAATA-AA-AGTAATAA
*
131674240 TAATAA-AAAGGTAATAA
1 TAATAATAAAAGTAATAA
* *
131674257 TAATAATAATA-TATTAGA
1 TAATAATAAAAGTAATA-A
131674275 TAATAA-AAAA-TAATAA
1 TAATAATAAAAGTAATAA
131674291 TAATAA
1 TAATAA
131674297 CAGTAATAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
16 7 0.14
17 24 0.49
18 11 0.22
19 1 0.02
20 6 0.12
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (18 bp):
TAATAATAAAAGTAATAA
Found at i:131674811 original size:26 final size:26
Alignment explanation
Indices: 131674775--131674858 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
131674765 TAATACAAAT
131674775 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
131674801 TGATAATAGGTTAGGTAAATGTTCTA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
131674827 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
131674853 TGATAA
1 TGATAA
131674859 GAATTTCATG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:131676371 original size:26 final size:26
Alignment explanation
Indices: 131676342--131676394 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
131676332 TTTACAGTTT
131676342 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
131676368 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
131676394 T
1 T
131676395 GCATGTTTGA
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:131679219 original size:22 final size:22
Alignment explanation
Indices: 131679163--131679219 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 22
131679153 AGATGAAATC
131679163 TAATGTTAGTTTGCATTTCATCT
1 TAATGTTAG-TTGCATTTCATCT
131679186 TAATGTTAGTTGCATTTCATCT
1 TAATGTTAGTTGCATTTCATCT
131679208 TAATGTTAGTTG
1 TAATGTTAGTTG
131679220 TATCTAGCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 25 0.74
23 9 0.26
ACGTcount: A:0.23, C:0.11, G:0.16, T:0.51
Consensus pattern (22 bp):
TAATGTTAGTTGCATTTCATCT
Found at i:131681836 original size:19 final size:19
Alignment explanation
Indices: 131681809--131681845 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
131681799 CTCTCACAAA
*
131681809 AAAAGAATTTTAAAAATTT
1 AAAAGAATTATAAAAATTT
*
131681828 AAAATAATTATAAAAATT
1 AAAAGAATTATAAAAATT
131681846 CCAAAATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (19 bp):
AAAAGAATTATAAAAATTT
Found at i:131682904 original size:26 final size:26
Alignment explanation
Indices: 131682841--131682949 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
131682831 TGATACAAAT
131682841 TGATAATAGGTTAGGTAAATGTT-CA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
131682866 TAATAATAGGTTAGGTAAGTGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
131682892 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
131682918 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
131682944 TGATAA
1 TGATAA
131682950 GAATTTCATG
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
25 21 0.27
26 57 0.73
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:131684976 original size:136 final size:136
Alignment explanation
Indices: 131684731--131685152 Score: 799
Period size: 136 Copynumber: 3.1 Consensus size: 136
131684721 GAGTAGTCTC
*
131684731 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
131684796 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCCAGTACC
65 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCCAGTACC
131684861 ACTGTTA
130 ACTGTTA
131684868 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
131684933 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCTAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCCAGTACCA
131684998 CTGTTA
131 CTGTTA
131685004 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
131685069 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCCAGTACCA
131685134 CTGTTA
131 CTGTTA
*
131685140 CCTAAATGGGCTT
1 CCCAAATGGGCTT
131685153 AGGCCCAATG
Statistics
Matches: 280, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
136 260 0.93
137 20 0.07
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATTTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:131686476 original size:25 final size:25
Alignment explanation
Indices: 131686448--131686513 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
131686438 TAATAATAAG
131686448 GATAATATATAAAAAAAATAT-ACAT
1 GATAATATATAAAAAAAATATAAC-T
*
131686473 GAT-ATAGTATAAAAAATATATAACT
1 GATAATA-TATAAAAAAAATATAACT
*
131686498 AATAATAT-TAAAAAAA
1 GATAATATATAAAAAAA
131686514 TATGATATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
24 10 0.29
25 20 0.57
26 5 0.14
ACGTcount: A:0.64, C:0.03, G:0.05, T:0.29
Consensus pattern (25 bp):
GATAATATATAAAAAAAATATAACT
Found at i:131686724 original size:16 final size:15
Alignment explanation
Indices: 131686696--131686733 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
131686686 TAATAACAGC
131686696 AATAATATATAAAAT
1 AATAATATATAAAAT
*
131686711 AATAATATGGTAAAAT
1 AATAATAT-ATAAAAT
131686727 AATAATA
1 AATAATA
131686734 ATGTATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (15 bp):
AATAATATATAAAAT
Found at i:131686844 original size:12 final size:13
Alignment explanation
Indices: 131686812--131686844 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
131686802 AAAGAAATAG
131686812 TAATAATA-ATAA
1 TAATAATATATAA
131686824 TAATAATATA-AA
1 TAATAATATATAA
131686836 TAATAATAT
1 TAATAATAT
131686845 TGAGATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 19 0.95
13 1 0.05
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TAATAATATATAA
Found at i:131686933 original size:23 final size:23
Alignment explanation
Indices: 131686917--131686994 Score: 80
Period size: 21 Copynumber: 3.6 Consensus size: 23
131686907 ATATATATAT
131686917 ATACATACATAA-AATATACACTA
1 ATACATA-ATAATAATATACACTA
131686940 ATACATAATAATAATAATA-A-TA
1 ATACATAATAATAAT-ATACACTA
131686962 ATA-ATAATAATAATAATA-A-TA
1 ATACATAATAATAAT-ATACACTA
131686983 ATA-ATAATAATA
1 ATACATAATAATA
131686995 TTTATTATTA
Statistics
Matches: 53, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
21 30 0.57
22 9 0.17
23 11 0.21
24 3 0.06
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (23 bp):
ATACATAATAATAATATACACTA
Found at i:131686952 original size:3 final size:3
Alignment explanation
Indices: 131686938--131686994 Score: 105
Period size: 3 Copynumber: 18.7 Consensus size: 3
131686928 AAATATACAC
131686938 TAA TACA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
131686984 TAA TAA TAA TA
1 TAA TAA TAA TA
131686995 TTTATTATTA
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 50 0.94
4 3 0.06
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:131687002 original size:3 final size:3
Alignment explanation
Indices: 131686996--131687051 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
131686986 ATAATAATAT
131686996 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
131687044 TTA TTA TT
1 TTA TTA TT
131687052 CAAGAGGAGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:131688898 original size:14 final size:14
Alignment explanation
Indices: 131688879--131688913 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
131688869 AGTTGCTCTT
* *
131688879 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
131688893 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
131688907 TTGAAAA
1 TTGAAAA
131688914 TTCCTCAGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.63, C:0.03, G:0.11, T:0.23
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:131688921 original size:90 final size:91
Alignment explanation
Indices: 131688759--131688990 Score: 269
Period size: 90 Copynumber: 2.6 Consensus size: 91
131688749 TTGATCTTGA
** * * *
131688759 GCTCAACTCATTTCTCGCAATATCAATTGACTC-TTT---AAACAGACATT-AAAAACAAAAATT
1 GCTCAACTCACCTCTCGCAATATGAGTTGACTCTTTTGAAAAACAGAAATTGAAAAACAAAAATT
*
131688819 GAAAATAGCTCAGCACGTGAGCCAAG
66 GAAAATACCTCAGCACGTGAGCCAAG
* * * *
131688845 GCTCAACTCACCTCTCGTAATATGAGTTG-CTCTTTTGAAAAATATAAATTGAAAAACAGAAATT
1 GCTCAACTCACCTCTCGCAATATGAGTTGACTCTTTTGAAAAACAGAAATTGAAAAACAAAAATT
* * **
131688909 GAAAATTCCTCAGCATGTGAGCCGGG
66 GAAAATACCTCAGCACGTGAGCCAAG
* * *
131688935 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGACTCTTTTGAAAAACAGAAATTGAAAA
131688991 TTCCTCAGCG
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
85 3 0.03
86 27 0.22
89 8 0.07
90 61 0.51
91 21 0.17
ACGTcount: A:0.38, C:0.20, G:0.16, T:0.27
Consensus pattern (91 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGACTCTTTTGAAAAACAGAAATTGAAAAACAAAAATT
GAAAATACCTCAGCACGTGAGCCAAG
Found at i:131689084 original size:73 final size:73
Alignment explanation
Indices: 131688934--131689210 Score: 339
Period size: 76 Copynumber: 3.7 Consensus size: 73
131688924 TGTGAGCCGG
131688934 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAATT-CCTCA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAA-CAGAAATTG-AAATTACCTCA
* * *
131688998 GCGTGCCATGA
63 GAGTGTCTTGA
* * *
131689009 GGCTCAACTCATCTCTTGCAATATGAGTTGA-TTTTTGATAAACAGAAGTTGAAATTACCTCAGA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAACAGAAATTGAAATTACCTCAGA
131689073 GTGTCTTGA
65 GTGTCTTGA
* *
131689082 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGATAGAAATTGAAAATACCTCA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAA-ACAGAAATTGAAATTACCTCA
131689147 -ACGTGTCTTGA
63 GA-GTGTCTTGA
* * *
131689158 GGCTCAACTCACCTCTAGCAATATGAATT-A-TTTTTGAACAACATAAATTGAAA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAA-AACAGAAATTGAAA
131689211 AAAAAAATAG
Statistics
Matches: 179, Mismatches: 15, Indels: 19
0.84 0.07 0.09
Matches are distributed among these distances:
72 24 0.13
73 58 0.32
74 3 0.02
75 33 0.18
76 61 0.34
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (73 bp):
GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAATTACCTCAGAG
TGTCTTGA
Found at i:131689161 original size:76 final size:74
Alignment explanation
Indices: 131688934--131689211 Score: 352
Period size: 73 Copynumber: 3.8 Consensus size: 74
131688924 TGTGAGCCGG
* *
131688934 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAATTCCTCAG
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA-CAGAAATTGAAAATACCTCAA
* *
131688999 CGTGCCATGA
65 CGTGTCTTGA
* * * *
131689009 GGCTCAACTCATCTCTTGCAATATGAGTTGA--TTTTTGATAAACAGAAGTTGAAATTACCTCAG
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AAACAGAAATTGAAAATACCTCA-
131689072 A-GTGTCTTGA
64 ACGTGTCTTGA
*
131689082 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAGATAGAAATTGAAAATACCTCA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAA-ACAGAAATTGAAAATACCTCA
131689147 ACGTGTCTTGA
64 ACGTGTCTTGA
* * *
131689158 GGCTCAACTCACCTCTAGCAATATGAATT-A--TTTTTGAACAACATAAATTGAAAA
1 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA-AACAGAAATTGAAAA
131689212 AAAAAATAGA
Statistics
Matches: 178, Mismatches: 17, Indels: 19
0.83 0.08 0.09
Matches are distributed among these distances:
72 20 0.11
73 61 0.34
74 3 0.02
75 33 0.19
76 61 0.34
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.32
Consensus pattern (74 bp):
GGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAAC
GTGTCTTGA
Found at i:131689338 original size:74 final size:72
Alignment explanation
Indices: 131689214--131689370 Score: 224
Period size: 74 Copynumber: 2.2 Consensus size: 72
131689204 ATTGAAAAAA
* * * * *
131689214 AAAATAGAAGTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAAATAGAAATTGAAAATACCTCAACGTGTCCTAAGGCTCAACTCACCTCTAGCAATATGAATTG
131689279 ATTTTTTG
66 A-TTTTTG
* *
131689287 AAAGATAGAAATTGAAAATACCTCAACGTGTCTTAAGGTTCAACTCACCTCTAGCAATATGAATT
1 AAA-ATAGAAATTGAAAATACCTCAACGTGTCCTAAGGCTCAACTCACCTCTAGCAATATGAATT
131689352 GATTTTTG
65 GATTTTTG
*
131689360 AAAACAGAAAT
1 AAAATAGAAAT
131689371 AAAAGTATCA
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
72 7 0.09
73 12 0.16
74 56 0.75
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (72 bp):
AAAATAGAAATTGAAAATACCTCAACGTGTCCTAAGGCTCAACTCACCTCTAGCAATATGAATTG
ATTTTTG
Found at i:131689343 original size:165 final size:166
Alignment explanation
Indices: 131689052--131689370 Score: 552
Period size: 165 Copynumber: 1.9 Consensus size: 166
131689042 TTTGATAAAC
* *
131689052 AGAAGTTGAAATTACCTCAGAGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGAAGTTGAAAATACCTCAGAGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
*
131689117 TTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTAGCAATAT
65 TTTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTAAGGCTCAACTCACCTCTAGCAATAT
*
131689182 GAATT-ATTTTTGAACAACATAAATTGAAAAAAAAAAT
130 GAATTGATTTTTGAA-AACAGAAATTGAAAAAAAAAAT
*
131689219 AGAAGTTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
1 AGAAGTTGAAAATACCTCAGAGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
131689283 TTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTAAGGTTCAACTCACCTCTAGCAATATG
66 TTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTAAGGCTCAACTCACCTCTAGCAATATG
131689348 AATTGATTTTTGAAAACAGAAAT
131 AATTGATTTTTGAAAACAGAAAT
131689371 AAAAGTATCA
Statistics
Matches: 145, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
165 78 0.54
166 9 0.06
167 58 0.40
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (166 bp):
AGAAGTTGAAAATACCTCAGAGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TTTGAAAGATAGAAATTGAAAATACCTCAACGTGTCTTAAGGCTCAACTCACCTCTAGCAATATG
AATTGATTTTTGAAAACAGAAATTGAAAAAAAAAAT
Found at i:131690210 original size:44 final size:44
Alignment explanation
Indices: 131690151--131690260 Score: 145
Period size: 45 Copynumber: 2.5 Consensus size: 44
131690141 TCATTAGAAT
*
131690151 GCCCTTTT-GGGTTTTCATCC-TAAT-CTTTTGTGTTAATCAAGAC
1 GCCCTTTTCGGGTTTTCA-CCTTAATCCTTTTGTATT-ATCAAGAC
* *
131690194 GCCCTTTTCGGGTTTTCACCTTGATCCCTTTTTTATTATCAAGAC
1 GCCCTTTTCGGGTTTTCACCTTAAT-CCTTTTGTATTATCAAGAC
131690239 GCCCTTTTCGGGTTTTCACCTT
1 GCCCTTTTCGGGTTTTCACCTT
131690261 GATTTCCCCT
Statistics
Matches: 60, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
43 10 0.17
44 12 0.20
45 30 0.50
46 8 0.13
ACGTcount: A:0.15, C:0.25, G:0.15, T:0.45
Consensus pattern (44 bp):
GCCCTTTTCGGGTTTTCACCTTAATCCTTTTGTATTATCAAGAC
Found at i:131701409 original size:2 final size:2
Alignment explanation
Indices: 131701404--131701434 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
131701394 TACGTAATAG
131701404 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
131701435 AATAGTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:131701980 original size:16 final size:15
Alignment explanation
Indices: 131701952--131701989 Score: 58
Period size: 16 Copynumber: 2.5 Consensus size: 15
131701942 TAATAACAGC
131701952 AATAATATATAAAAT
1 AATAATATATAAAAT
*
131701967 AATAATATGGTAAAAT
1 AATAATAT-ATAAAAT
131701983 AATAATA
1 AATAATA
131701990 ATGTATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (15 bp):
AATAATATATAAAAT
Found at i:131702162 original size:2 final size:2
Alignment explanation
Indices: 131702155--131702193 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
131702145 ACATCACTTC
131702155 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
131702194 CACGTACATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:131702228 original size:3 final size:3
Alignment explanation
Indices: 131702214--131702265 Score: 95
Period size: 3 Copynumber: 17.0 Consensus size: 3
131702204 AAATATACAC
131702214 TAA TACA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
131702260 TAA TAA
1 TAA TAA
131702266 AGAGTAACGA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:131702829 original size:2 final size:2
Alignment explanation
Indices: 131702824--131702872 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
131702814 TATATATATA
131702824 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
131702866 TG TG TG T
1 TG TG TG T
131702873 TGTTTCTAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:131708726 original size:17 final size:18
Alignment explanation
Indices: 131708706--131708740 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
131708696 AAGTGAATTG
131708706 AAATTGCA-AAATTAAAT
1 AAATTGCAGAAATTAAAT
131708723 AAATTGCAGAAATTAAAT
1 AAATTGCAGAAATTAAAT
131708741 GAGGAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.29
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:131709512 original size:27 final size:26
Alignment explanation
Indices: 131709482--131709544 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
131709472 AGATAACTAA
131709482 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
131709509 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
131709536 AATATAAAT
1 AATA-AAAT
131709545 AAAATGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:131709531 original size:15 final size:15
Alignment explanation
Indices: 131709511--131709540 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
131709501 ATAATCCTAA
*
131709511 TAATTATCTTAATAT
1 TAATTATCCTAATAT
131709526 TAATTATCCTAATAT
1 TAATTATCCTAATAT
131709541 AAATAAAATG
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:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:131711091 original size:27 final size:26
Alignment explanation
Indices: 131711054--131711168 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 26
131711044 AGCATGGGTG
* *
131711054 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
131711080 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
131711108 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
** * *
131711135 CCAGATTAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
131711162 CCAGAAC
1 CCAGAAC
131711169 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
26 5 0.06
27 56 0.72
28 17 0.22
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:131711113 original size:54 final size:54
Alignment explanation
Indices: 131711054--131711168 Score: 160
Period size: 54 Copynumber: 2.1 Consensus size: 54
131711044 AGCATGGGTG
*
131711054 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * * *
131711108 CCAGAACAGATATATGTGGCAGAGCCACCAGATTAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
131711162 CCAGAAC
1 CCAGAAC
131711169 GCTTCCTCCA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 36 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:131712825 original size:26 final size:25
Alignment explanation
Indices: 131712789--131712898 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 25
131712779 CATGAAATTC
131712789 TTATCATGAAACATTTACCTAAACCA
1 TTATCATGAAACATTTACCT-AACCA
*
131712815 TTATCATGAAATATTTACCTAACTCA
1 TTATCATGAAACATTTACCTAAC-CA
131712841 TTATCATGAAACATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAA-CCA
*
131712867 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACC-A
131712893 TTATCA
1 TTATCA
131712899 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
25 5 0.06
26 72 0.92
27 1 0.01
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (25 bp):
TTATCATGAAACATTTACCTAACCA
Found at i:131713428 original size:99 final size:99
Alignment explanation
Indices: 131713252--131713430 Score: 304
Period size: 99 Copynumber: 1.8 Consensus size: 99
131713242 TACTTTCACT
* * *
131713252 TAGGAATATATTGTACCTTTTGACGCGAAGAGAGATGACAACCCAAGCACCCCACCCCGGTTACT
1 TAGGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAACCCAAGCACCCCACCCCGGTTACT
* *
131713317 CAGCCTAGCACATTCCTAATTTTTTTATTATTCC
66 CAGCCCAACACATTCCTAATTTTTTTATTATTCC
*
131713351 TAGGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAACCCAAGCACCTCACCCCGGTTACT
1 TAGGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAACCCAAGCACCCCACCCCGGTTACT
131713416 CAGCCCAACACATTC
66 CAGCCCAACACATTC
131713431 TTAGAAATTA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
99 74 1.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (99 bp):
TAGGAACATATCGAACCTTTTGACGCGAAGAGAGATGACAACCCAAGCACCCCACCCCGGTTACT
CAGCCCAACACATTCCTAATTTTTTTATTATTCC
Found at i:131717313 original size:18 final size:18
Alignment explanation
Indices: 131717292--131717345 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
131717282 TAGTTAGAAG
*
131717292 CAGATACAGTTCCAGATT
1 CAGATACAGATCCAGATT
131717310 CAGA-ATCAGATCCAGATT
1 CAGATA-CAGATCCAGATT
*
131717328 CAGATTACAGATACAGAT
1 CAGA-TACAGATCCAGAT
131717346 AAGCATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 1 0.03
18 19 0.61
19 10 0.32
20 1 0.03
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (18 bp):
CAGATACAGATCCAGATT
Found at i:131729248 original size:2 final size:2
Alignment explanation
Indices: 131729241--131729272 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
131729231 CTACAAATGC
131729241 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
131729273 TATTTATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:131729544 original size:2 final size:2
Alignment explanation
Indices: 131729539--131729563 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
131729529 ATATATTTGT
131729539 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 T
131729564 TATTGTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:131731431 original size:16 final size:16
Alignment explanation
Indices: 131731410--131731440 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
131731400 TAAAGAGTAA
131731410 ATTAGTCCTTTCTGTG
1 ATTAGTCCTTTCTGTG
131731426 ATTAGTCCTTTCTGT
1 ATTAGTCCTTTCTGT
131731441 TAAAAATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.19, G:0.16, T:0.52
Consensus pattern (16 bp):
ATTAGTCCTTTCTGTG
Found at i:131733415 original size:12 final size:13
Alignment explanation
Indices: 131733400--131733439 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
131733390 TAAAAAAAGA
131733400 AATAA-AATAGAT
1 AATAACAATAGAT
131733412 AATAACAAT-GAT
1 AATAACAATAGAT
*
131733424 AATAATAATA-AT
1 AATAACAATAGAT
131733436 AATA
1 AATA
131733440 TTAGTGACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 22 0.88
13 3 0.12
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.28
Consensus pattern (13 bp):
AATAACAATAGAT
Found at i:131733627 original size:3 final size:3
Alignment explanation
Indices: 131733619--131733703 Score: 170
Period size: 3 Copynumber: 28.3 Consensus size: 3
131733609 AAAATACATA
131733619 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
131733667 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
131733704 GTTAGGAAAA
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 82 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:131734871 original size:21 final size:21
Alignment explanation
Indices: 131734833--131734874 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
131734823 AAATTATCTA
*
131734833 TCCCACTCTCACATTCTTTTC
1 TCCCACTCTCACACTCTTTTC
* *
131734854 TCCCACTCTCCCCCTCTTTTC
1 TCCCACTCTCACACTCTTTTC
131734875 CATTTTTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.50, G:0.00, T:0.40
Consensus pattern (21 bp):
TCCCACTCTCACACTCTTTTC
Found at i:131735266 original size:49 final size:49
Alignment explanation
Indices: 131735206--131735301 Score: 120
Period size: 49 Copynumber: 2.0 Consensus size: 49
131735196 CACTACACAA
* *
131735206 TCGTCTGAAATCATACAAACAGTGTGGGTAGATCGTGTAGACCACACGG
1 TCGTCTGAAATCATACAAACAGTATGGGTAGACCGTGTAGACCACACGG
* * ** * *
131735255 TCGTGTGAAATCATGCAGGCTGTATGGGTAGACCGTGTGGACCACAC
1 TCGTCTGAAATCATACAAACAGTATGGGTAGACCGTGTAGACCACAC
131735302 AGAGGTATGA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 39 1.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (49 bp):
TCGTCTGAAATCATACAAACAGTATGGGTAGACCGTGTAGACCACACGG
Found at i:131736886 original size:32 final size:34
Alignment explanation
Indices: 131736850--131736914 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
131736840 TAACAGTGGT
*
131736850 ACTGGGCCAGAG-CCCTT-TTCAGATTACAATAA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
**
131736882 ACTGGGCCTTAGCCCCTTATTCAGATAACAATA
1 ACTGGGCCAGAGCCCCTTATTCAGATAACAATA
131736915 TGGCCCATAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 10 0.36
33 5 0.18
34 13 0.46
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (34 bp):
ACTGGGCCAGAGCCCCTTATTCAGATAACAATAA
Found at i:131738783 original size:26 final size:26
Alignment explanation
Indices: 131738745--131738827 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
131738735 CATGAAATTC
* *
131738745 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
131738771 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
131738797 TTATCAT-GAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
131738822 TTATCA
1 TTATCA
131738828 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
25 24 0.44
26 31 0.56
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:131738831 original size:20 final size:22
Alignment explanation
Indices: 131738754--131738828 Score: 78
Period size: 25 Copynumber: 3.1 Consensus size: 22
131738744 CTTATCATGA
*
131738754 AACATTTACCTAACCCATTATC
1 AACATTTACCTAACCTATTATC
131738776 ATGGAACATTTACCTAACCTATTATC
1 ----AACATTTACCTAACCTATTATC
131738802 ATGAACATTTACCTAACCTATTATC
1 ---AACATTTACCTAACCTATTATC
131738827 AA
1 AA
131738829 TTTGTATCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
22 2 0.04
25 23 0.50
26 21 0.46
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.33
Consensus pattern (22 bp):
AACATTTACCTAACCTATTATC
Found at i:131744572 original size:26 final size:26
Alignment explanation
Indices: 131744503--131744585 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
131744493 CATGAAATTC
* *
131744503 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
131744529 TTATCAT-GAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
131744554 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
131744580 TTATCA
1 TTATCA
131744586 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
25 23 0.43
26 31 0.57
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:131750301 original size:26 final size:26
Alignment explanation
Indices: 131750263--131750345 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
131750253 CATGAAATTC
* *
131750263 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
131750289 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
131750315 TTATCAT-GAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
131750340 TTATCA
1 TTATCA
131750346 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
25 24 0.44
26 31 0.56
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:131750349 original size:20 final size:22
Alignment explanation
Indices: 131750272--131750346 Score: 78
Period size: 25 Copynumber: 3.1 Consensus size: 22
131750262 CTTATCATGA
*
131750272 AACATTTACCTAACCCATTATC
1 AACATTTACCTAACCTATTATC
131750294 ATGGAACATTTACCTAACCTATTATC
1 ----AACATTTACCTAACCTATTATC
131750320 ATGAACATTTACCTAACCTATTATC
1 ---AACATTTACCTAACCTATTATC
131750345 AA
1 AA
131750347 TTTGTATCAA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
22 2 0.04
25 23 0.50
26 21 0.46
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.33
Consensus pattern (22 bp):
AACATTTACCTAACCTATTATC
Found at i:131753740 original size:26 final size:26
Alignment explanation
Indices: 131753703--131753812 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
131753693 TGATACAAAT
131753703 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
131753729 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
131753755 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
131753781 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
131753807 TGATAA
1 TGATAA
131753813 GAATTTCATA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:131753760 original size:52 final size:52
Alignment explanation
Indices: 131753703--131753812 Score: 220
Period size: 52 Copynumber: 2.1 Consensus size: 52
131753693 TGATACAAAT
131753703 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
131753755 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
131753807 TGATAA
1 TGATAA
131753813 GAATTTCATA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 58 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
Found at i:131755348 original size:26 final size:26
Alignment explanation
Indices: 131755296--131755348 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
131755286 TTTACAATTT
*
131755296 TACCCCTAGGAGATAAATTATCGAAA
1 TACCCCTAGGAGATAAATTACCGAAA
* *
131755322 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGAGATAAATT-ACCGAAA
131755348 T
1 T
131755349 GCATGTTTGA
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:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGAGATAAATTACCGAAA
Found at i:131757666 original size:21 final size:23
Alignment explanation
Indices: 131757608--131757666 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
131757598 AATTTATATT
*
131757608 TATA-ATAAAATAA-TTATATAA
1 TATATATAAAATAAGTTATAGAA
131757629 TATATATAAATATAAGTT-TAGAA
1 TATATATAAA-ATAAGTTATAGAA
131757652 TA-ATATAAAATAAGT
1 TATATATAAAATAAGT
131757667 AATTAATGAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
21 10 0.29
22 12 0.35
23 10 0.29
24 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (23 bp):
TATATATAAAATAAGTTATAGAA
Found at i:131757843 original size:18 final size:17
Alignment explanation
Indices: 131757810--131757875 Score: 59
Period size: 18 Copynumber: 3.9 Consensus size: 17
131757800 TAATGATGAT
*
131757810 AATATAT-AGATA-AAA
1 AATATATAATATATAAA
131757825 AATATATAATAGTATAAA
1 AATATATAATA-TATAAA
*
131757843 AATAACATAATATA-AAA
1 AAT-ATATAATATATAAA
131757860 TAAT-TATAATATATAA
1 -AATATATAATATATAA
131757876 TATGAAAGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
15 7 0.17
16 10 0.24
17 7 0.17
18 11 0.26
19 7 0.17
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.32
Consensus pattern (17 bp):
AATATATAATATATAAA
Found at i:131757858 original size:16 final size:17
Alignment explanation
Indices: 131757822--131757872 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 17
131757812 TATATAGATA
* *
131757822 AAAAATATATAATAGTAT
1 AAAAATA-ATCATAATAT
131757840 AAAAATAA-CATAATAT
1 AAAAATAATCATAATAT
*
131757856 -AAAATAATTATAATAT
1 AAAAATAATCATAATAT
131757872 A
1 A
131757873 TAATATGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
15 7 0.25
16 13 0.46
17 1 0.04
18 7 0.25
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (17 bp):
AAAAATAATCATAATAT
Found at i:131757927 original size:11 final size:12
Alignment explanation
Indices: 131757897--131757937 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
131757887 ATATGTAAAA
*
131757897 ATAATATATAAT
1 ATAATAAATAAT
131757909 ATATATAAATAAT
1 ATA-ATAAATAAT
131757922 -TAATAAAT-AT
1 ATAATAAATAAT
131757932 ATAATA
1 ATAATA
131757938 CAAGTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
10 2 0.08
11 11 0.42
12 5 0.19
13 8 0.31
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
ATAATAAATAAT
Found at i:131757954 original size:28 final size:28
Alignment explanation
Indices: 131757894--131757987 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 28
131757884 TATATATGTA
*
131757894 AAAAT-AATATATAATATATA-TAAATAAT
1 AAAATAAATATATAATACA-AGTAAA-AAT
*
131757922 -TAATAAATATATAATACAAGTAAAAAT
1 AAAATAAATATATAATACAAGTAAAAAT
131757949 AAAATAATGATATATGAATAACAATGT-AAAAT
1 AAAATAA--ATATAT-AAT-ACAA-GTAAAAAT
131757981 AATAATA
1 AA-AATA
131757988 TTTTGTGAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
27 7 0.13
28 21 0.39
30 6 0.11
31 3 0.06
32 11 0.20
33 6 0.11
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (28 bp):
AAAATAAATATATAATACAAGTAAAAAT
Found at i:131758035 original size:23 final size:23
Alignment explanation
Indices: 131757808--131758157 Score: 116
Period size: 23 Copynumber: 14.4 Consensus size: 23
131757798 TTTAATGATG
* *
131757808 ATAATATATAGATAAAAAATATATA
1 ATAATATATAAAT-AATAATATA-A
* *
131757833 ATAGTATAAAAATAACATAATATAAA
1 ATAATATATAAAT-A-ATAATAT-AA
131757859 ATAAT-TAT-AATATATAATATGAA
1 ATAATATATAAATA-ATAATAT-AA
*
131757882 AGTATATATGTAAA-AATAATATATA
1 A-TA-ATATATAAATAATAATATA-A
*
131757907 AT-ATATATAAATAATTA-ATAA
1 ATAATATATAAATAATAATATAA
*
131757928 AT-ATATAATACAAGTAAAAATA-AA
1 ATAATAT-ATA-AA-TAATAATATAA
* *
131757952 ATAATGATATATGAATAACAATGTAAA
1 ATAAT-ATATA--AATAATAATAT-AA
** ** *
131757979 ATAATA-ATATTTTGTGAAAAGT-A
1 ATAATATATAAATAAT-AATA-TAA
131758002 AT-ATATAATAAATAATAATATAA
1 ATAATAT-ATAAATAATAATATAA
* *
131758025 ATAATATATAATAAAATAAT-TAT
1 ATAATATATAA-ATAATAATATAA
*
131758048 ATAATATATAATAAAATAATTATATA
1 ATAATATATAA-ATAATAA-TATA-A
131758074 ATATATAATATAAA-AATAAGGT-TAA
1 ATA-AT-ATATAAATAATAA--TATAA
* *
131758099 A-AATAAACAAATAATAATAATAAA
1 ATAATATATAAATAATAAT-AT-AA
* * *
131758123 ATTTATATATATATAATAATAGAA
1 A-TAATATATAAATAATAATATAA
131758147 ATAAATATATA
1 AT-AATATATA
131758158 GGGTTAGATT
Statistics
Matches: 248, Mismatches: 40, Indels: 75
0.68 0.11 0.21
Matches are distributed among these distances:
21 8 0.03
22 23 0.09
23 61 0.25
24 48 0.19
25 46 0.19
26 42 0.17
27 14 0.06
28 6 0.02
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (23 bp):
ATAATATATAAATAATAATATAA
Found at i:131764408 original size:136 final size:137
Alignment explanation
Indices: 131764164--131764449 Score: 511
Period size: 136 Copynumber: 2.1 Consensus size: 137
131764154 CATTGGGCCT
** * *
131764164 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
131764229 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAAT-AA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
131764293 CATATGC
131 CATATGC
131764300 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
131764365 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGGAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
131764430 CATATGC
131 CATATGC
131764437 AAGCCCATTTGGG
1 AAGCCCATTTGGG
131764450 GAGACTACTC
Statistics
Matches: 143, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
136 121 0.85
137 22 0.15
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGATACTGGGCCAAAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAA
CATATGC
Found at i:131766274 original size:26 final size:26
Alignment explanation
Indices: 131766238--131766373 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
131766228 CATGATATTC
131766238 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
131766264 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
131766290 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
131766316 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
131766342 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
131766368 TTATCA
1 TTATCA
131766374 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:131767354 original size:15 final size:15
Alignment explanation
Indices: 131767336--131767364 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
131767326 ATATTTATAA
131767336 AATTATTATTATTAT
1 AATTATTATTATTAT
131767351 AATTATTATTATTA
1 AATTATTATTATTA
131767365 GATAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTATTATTATTAT
Found at i:131772451 original size:30 final size:30
Alignment explanation
Indices: 131772376--131772451 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
131772366 ATGTTGGTGA
* *
131772376 TATTTTATAATTATTTAATTAGAAAAATAT
1 TATTTTATTATTATTTAATAAGAAAAATAT
* * **
131772406 TATTTTATTAATATTTAATAAGATATTTAT
1 TATTTTATTATTATTTAATAAGAAAAATAT
131772436 TATTATT-TTATTATTT
1 TATT-TTATTATTATTT
131772452 TATTTAGTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
30 36 0.95
31 2 0.05
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (30 bp):
TATTTTATTATTATTTAATAAGAAAAATAT
Found at i:131776975 original size:120 final size:120
Alignment explanation
Indices: 131776824--131777064 Score: 430
Period size: 120 Copynumber: 2.0 Consensus size: 120
131776814 TATTACCAAA
* *
131776824 TCACTCTTTCATACACCTATCTTGCATGCATGTTATTTAAACATGTATATCACCAATCAATCATC
1 TCACTCTTTCA-ACACATACCTTGCATGCATGTTATTTAAACATGTATATCACCAATCAATCATC
131776889 ACATATCTATGATTTTTACTTAAGTATAATCTCCATTTCATCATTTTAAAGCACAAC
65 ACATATCTATGA-TTTTACTTAAGTATAATCTCCATTTCATCATTTTAAAGCACAAC
*
131776946 TCACTCTTTC-ACACATACCTTGCATGCATGTTATTTGAACATGTATATCACCAATCAATCATCA
1 TCACTCTTTCAACACATACCTTGCATGCATGTTATTTAAACATGTATATCACCAATCAATCATCA
131777010 CATATCTATGATTTTACTTAAGTATAATCTCCATTTCATCATTTTAAAGCACAAC
66 CATATCTATGATTTTACTTAAGTATAATCTCCATTTCATCATTTTAAAGCACAAC
131777065 ATGTTAGCTG
Statistics
Matches: 116, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
119 44 0.38
120 62 0.53
122 10 0.09
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (120 bp):
TCACTCTTTCAACACATACCTTGCATGCATGTTATTTAAACATGTATATCACCAATCAATCATCA
CATATCTATGATTTTACTTAAGTATAATCTCCATTTCATCATTTTAAAGCACAAC
Found at i:131777518 original size:26 final size:26
Alignment explanation
Indices: 131777482--131777643 Score: 261
Period size: 26 Copynumber: 6.2 Consensus size: 26
131777472 CATGAAATTC
*
131777482 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
131777508 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
131777534 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* *
131777560 TTATCATGGAATATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* **
131777586 TTATCATGGAACACGTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
131777612 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
131777638 TTATCA
1 TTATCA
131777644 ATTTGTATCA
Statistics
Matches: 127, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 127 1.00
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:131778875 original size:24 final size:24
Alignment explanation
Indices: 131778828--131778875 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
131778818 GGATTTTGGC
*
131778828 CAATTGCTCTTGCATTTGTGTTTG
1 CAATTGCTCTTGCATTTCTGTTTG
*
131778852 CAATTGCTCTTGCATTTCTTTTTG
1 CAATTGCTCTTGCATTTCTGTTTG
131778876 GAGCTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.12, C:0.19, G:0.17, T:0.52
Consensus pattern (24 bp):
CAATTGCTCTTGCATTTCTGTTTG
Found at i:131779043 original size:19 final size:19
Alignment explanation
Indices: 131779019--131779064 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
131779009 TATGAAATCT
*
131779019 AATGCATATG-ATGCGATG
1 AATGCAAATGCATGCGATG
*
131779037 CAATGCAAATGCATGGGATG
1 -AATGCAAATGCATGCGATG
131779057 AATGCAAA
1 AATGCAAA
131779065 AAGATACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.22
Consensus pattern (19 bp):
AATGCAAATGCATGCGATG
Found at i:131782777 original size:17 final size:17
Alignment explanation
Indices: 131782742--131782779 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
131782732 TTAGGTTTTG
*
131782742 TGGGCTAGGGTTTAGTT
1 TGGGCTAGGGTTTAATT
131782759 TGGGCCTAGGG-TTAATT
1 TGGG-CTAGGGTTTAATT
131782776 TGGG
1 TGGG
131782780 TTAATTTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.13, C:0.08, G:0.42, T:0.37
Consensus pattern (17 bp):
TGGGCTAGGGTTTAATT
Found at i:131786730 original size:43 final size:43
Alignment explanation
Indices: 131786633--131786947 Score: 300
Period size: 43 Copynumber: 7.3 Consensus size: 43
131786623 GTTTTTTAGA
* * * *
131786633 AAAAAACGCCGCCAAAGACCAGGACCTTTAGTGGCG--TTTTT
1 AAAAAACGCCGCTAAAGACCTGTACCTTTAGCGGCGCTTTTTT
** * *
131786674 ATAAAAGTGCCGCTAAAGACCAGGACCTTTAGCGGCGCTTTTTT
1 A-AAAAACGCCGCTAAAGACCTGTACCTTTAGCGGCGCTTTTTT
* * * * *
131786718 AAAAAACGCCGCTATAGACCAAG-AACTTTAGCAGCGCTTTTAT
1 AAAAAACGCCGCTAAAGACC-TGTACCTTTAGCGGCGCTTTTTT
* * *
131786761 AAAAAACGCCGCTATAGACCTGTACTTTTCGCGGCGCTTTTTT
1 AAAAAACGCCGCTAAAGACCTGTACCTTTAGCGGCGCTTTTTT
* * * * *
131786804 AAAAAAACGCCTCTATAGACCTGTACTTTTAGCAGCGCTTTTAT
1 -AAAAAACGCCGCTAAAGACCTGTACCTTTAGCGGCGCTTTTTT
* *
131786848 AAAAAACGCCGCTATAA-ACCTGTA-CTTTAGCGGCACTTTTGTA
1 AAAAAACGCCGCTA-AAGACCTGTACCTTTAGCGGCGCTTTT-TT
* * * *
131786891 AAAAAACGCCGCTATAGACCTGTA-TTTTAGTGGCGTTTTTTT
1 AAAAAACGCCGCTAAAGACCTGTACCTTTAGCGGCGCTTTTTT
131786933 AAAAAACGCCGCTAA
1 AAAAAACGCCGCTAA
131786948 TTTGCCCAAT
Statistics
Matches: 231, Mismatches: 34, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
41 1 0.00
42 61 0.26
43 121 0.52
44 48 0.21
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGACCTGTACCTTTAGCGGCGCTTTTTT
Found at i:131786842 original size:87 final size:86
Alignment explanation
Indices: 131786618--131786946 Score: 362
Period size: 86 Copynumber: 3.8 Consensus size: 86
131786608 ACAAAAGTTC
* * * * ** * *
131786618 GCGGCG-TTTTTTAGAAAAAAACGCCGCCAAAGACCAGGACCTTTAGTGGCGTTTTTAT-AAAAG
1 GCGGCGCTTTTTT--AAAAAAACGCCGCTATAGACCAGTACTTTTAGCAGCGCTTTTATAAAAAA
* * * *
131786681 TGCCGCTAAAGACCAGGACCTTTA
64 CGCCGCTATAGACCTGTA-CTTTA
*
131786705 GCGGCGCTTTTTT-AAAAAACGCCGCTATAGACCAAGAAC-TTTAGCAGCGCTTTTATAAAAAAC
1 GCGGCGCTTTTTTAAAAAAACGCCGCTATAGACC-AGTACTTTTAGCAGCGCTTTTATAAAAAAC
*
131786768 GCCGCTATAGACCTGTACTTTTC
65 GCCGCTATAGACCTGTAC-TTTA
* *
131786791 GCGGCGCTTTTTTAAAAAAACGCCTCTATAGACCTGTACTTTTAGCAGCGCTTTTATAAAAAACG
1 GCGGCGCTTTTTTAAAAAAACGCCGCTATAGACCAGTACTTTTAGCAGCGCTTTTATAAAAAACG
*
131786856 CCGCTATAAACCTGTACTTTA
66 CCGCTATAGACCTGTACTTTA
* * * ** * *
131786877 GCGGCACTTTTGTAAAAAAACGCCGCTATAGACCTGTA-TTTTAGTGGCGTTTTTTTAAAAAACG
1 GCGGCGCTTTTTTAAAAAAACGCCGCTATAGACCAGTACTTTTAGCAGCGCTTTTATAAAAAACG
131786941 CCGCTA
66 CCGCTA
131786947 ATTTGCCCAA
Statistics
Matches: 212, Mismatches: 24, Indels: 14
0.85 0.10 0.06
Matches are distributed among these distances:
85 61 0.29
86 79 0.37
87 66 0.31
88 6 0.03
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (86 bp):
GCGGCGCTTTTTTAAAAAAACGCCGCTATAGACCAGTACTTTTAGCAGCGCTTTTATAAAAAACG
CCGCTATAGACCTGTACTTTA
Found at i:131787840 original size:18 final size:18
Alignment explanation
Indices: 131787808--131787845 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
131787798 TACAATATAG
131787808 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
131787827 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
131787844 TA
1 TA
131787846 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:131791019 original size:87 final size:87
Alignment explanation
Indices: 131790873--131791043 Score: 315
Period size: 87 Copynumber: 2.0 Consensus size: 87
131790863 TATGTGATGC
*
131790873 TTGTAACACCCTAAATTTGGGCCTAGAAGTATTGGGCCTTGAGTGTGGGTTCGTAAGGAGGTTTT
1 TTGTAACACCCTAAATTTGGGCCTAGAAGTATTGGGCCTCGAGTGTGGGTTCGTAAGGAGGTTTT
131790938 ATATAGGTATTTAATTGTGTCA
66 ATATAGGTATTTAATTGTGTCA
* *
131790960 TTGTAACACCCTGAATTTGGGCCTAGAAGTATTGGGCCTCGAGTGTGGGTTTGTAAGGAGGTTTT
1 TTGTAACACCCTAAATTTGGGCCTAGAAGTATTGGGCCTCGAGTGTGGGTTCGTAAGGAGGTTTT
131791025 ATATAGGTATTTAATTGTG
66 ATATAGGTATTTAATTGTG
131791044 CAATGAAAGG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 81 1.00
ACGTcount: A:0.23, C:0.11, G:0.29, T:0.37
Consensus pattern (87 bp):
TTGTAACACCCTAAATTTGGGCCTAGAAGTATTGGGCCTCGAGTGTGGGTTCGTAAGGAGGTTTT
ATATAGGTATTTAATTGTGTCA
Found at i:131791981 original size:28 final size:27
Alignment explanation
Indices: 131791942--131792001 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
131791932 CCCTGTTTAG
*
131791942 AATA-CTTTAGTTTACTAAAATTACCGA
1 AATACCTTTAGTTT-CTAAAAATACCGA
* *
131791969 AATACCTTTAGTTTGTAAAAATACTGA
1 AATACCTTTAGTTTCTAAAAATACCGA
131791996 AATACC
1 AATACC
131792002 CTCGATTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 20 0.69
28 9 0.31
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (27 bp):
AATACCTTTAGTTTCTAAAAATACCGA
Found at i:131791987 original size:27 final size:27
Alignment explanation
Indices: 131791957--131792055 Score: 103
Period size: 27 Copynumber: 3.7 Consensus size: 27
131791947 TTTAGTTTAC
131791957 TAAAATTACCGAAATACCTTTAG-TTTG
1 TAAAATTACCGAAATACC-TTAGATTTG
* * * *
131791984 TAAAAATACTGAAATACCCTCGATTTG
1 TAAAATTACCGAAATACCTTAGATTTG
* * *
131792011 TAAATTTACCGAAATACCTTCGACTTG
1 TAAAATTACCGAAATACCTTAGATTTG
131792038 TAAAATTACC-AAAGTACC
1 TAAAATTACCGAAA-TACC
131792056 CCCAATTTAC
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 5 0.08
27 55 0.92
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
TAAAATTACCGAAATACCTTAGATTTG
Found at i:131792209 original size:27 final size:27
Alignment explanation
Indices: 131792060--131792209 Score: 176
Period size: 27 Copynumber: 5.6 Consensus size: 27
131792050 AGTACCCCCA
* *
131792060 ATTTACATAATTA-TCGTTTTACCCCCG
1 ATTTACAGAATTACT-GTTTTACCCTCG
* **
131792087 ACTTACAGAATTACCATTTTACCCTCG
1 ATTTACAGAATTACTGTTTTACCCTCG
* * *
131792114 ATTTACTGAATTACTGTTTCACCCTTG
1 ATTTACAGAATTACTGTTTTACCCTCG
* * *
131792141 ATTTATAGAATTACTATTTTACCCTTG
1 ATTTACAGAATTACTGTTTTACCCTCG
131792168 ATTTACAGAATTACTGTTTTACCCTCG
1 ATTTACAGAATTACTGTTTTACCCTCG
*
131792195 ATTTACAAAATTACT
1 ATTTACAGAATTACT
131792210 AAAATACCCT
Statistics
Matches: 103, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
27 103 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
ATTTACAGAATTACTGTTTTACCCTCG
Found at i:131792217 original size:27 final size:27
Alignment explanation
Indices: 131792134--131792381 Score: 142
Period size: 27 Copynumber: 9.1 Consensus size: 27
131792124 TTACTGTTTC
* * ***
131792134 ACCCTTGATTTATAGAATTACTATTTT
1 ACCCTTGATTTACAAAATTACTAAAAT
* ****
131792161 ACCCTTGATTTACAGAATTACTGTTTT
1 ACCCTTGATTTACAAAATTACTAAAAT
*
131792188 ACCCTCGATTTACAAAATTACTAAAAT
1 ACCCTTGATTTACAAAATTACTAAAAT
* ** *
131792215 ACCCTTGGTTTGTAAAATTACCAAAAT
1 ACCCTTGATTTACAAAATTACTAAAAT
* *** **
131792242 ACCCTTGGTTTGTGAAATTACCGAAAT
1 ACCCTTGATTTACAAAATTACTAAAAT
** ** *
131792269 ACCCTCAATTTGTAAAATTACCAAAAT
1 ACCCTTGATTTACAAAATTACTAAAAT
* *
131792296 ACCCCTGATTTACAAAGTTA-TAGAAAT
1 ACCCTTGATTTACAAAATTACTA-AAAT
*
131792323 ACCCTTGACTTT-CTAAAAATTA-TAGAAGT
1 ACCCTTGA-TTTAC--AAAATTACTA-AAAT
* * *
131792352 ACCATTGGTTTACAAAATTACTGAAAT
1 ACCCTTGATTTACAAAATTACTAAAAT
131792379 ACC
1 ACC
131792382 TTTGGTTTGT
Statistics
Matches: 181, Mismatches: 34, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.01
27 154 0.85
28 7 0.04
29 19 0.10
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.35
Consensus pattern (27 bp):
ACCCTTGATTTACAAAATTACTAAAAT
Found at i:131792221 original size:54 final size:54
Alignment explanation
Indices: 131792060--131792210 Score: 196
Period size: 54 Copynumber: 2.8 Consensus size: 54
131792050 AGTACCCCCA
* * * * *
131792060 ATTTACATAATTA-TCGTTTTACCCCCGACTTACAGAATTACCATTTTACCCTCG
1 ATTTACAGAATTACT-GTTTTACCCTCGATTTACAGAATTACTATTTTACCCTTG
* * * *
131792114 ATTTACTGAATTACTGTTTCACCCTTGATTTATAGAATTACTATTTTACCCTTG
1 ATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTTG
*
131792168 ATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTACTA
1 ATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACTA
131792211 AAATACCCTT
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 81 0.99
55 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (54 bp):
ATTTACAGAATTACTGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTTG
Done.