Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 155 of 202
Found at i:48390794 original size:22 final size:22
Alignment explanation
Indices: 48390696--48390791 Score: 75
Period size: 19 Copynumber: 4.7 Consensus size: 22
48390686 AATCTTCAAG
48390696 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
*
48390715 GATATGAAATCTTAG---ATAT
1 GATATGCAATCTTAGAAGATAT
**
48390734 GATATGTTATCTTAG-A--TAT
1 GATATGCAATCTTAGAAGATAT
48390753 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
48390775 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
48390792 GATTTAATTT
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
19 45 0.71
20 1 0.02
22 5 0.08
23 12 0.19
ACGTcount: A:0.36, C:0.07, G:0.17, T:0.40
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:48397822 original size:88 final size:88
Alignment explanation
Indices: 48397673--48398162 Score: 719
Period size: 88 Copynumber: 5.6 Consensus size: 88
48397663 GTGAAGATAA
* * * * * *
48397673 CAGATTTTTCCTTCCTGCACCGATAGCAAAGCAGATCGAGGACACCAACCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
** *
48397738 GTAGCGGAGCAGGCTAAAAATAG
66 ACAGCGGAGCAGGTTAAAAATAG
** * *
48397761 CAGATCTTGCCTTCCTGCACCGACAGCGAAAAATATCGAAGACACTAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
48397826 GCAGCGGAGCAGGTTAAAAATAG
66 ACAGCGGAGCAGGTTAAAAATAG
*
48397849 CAGATCTTGCCTTCCTGCAACGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
48397914 ACAGTGGAGCAGGTTAAAAATAG
66 ACAGCGGAGCAGGTTAAAAATAG
** *
48397937 CAGATCTTGCCTTCCTGCAATGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
48398002 ACAGCGGAGCAGGTTAAAAATAG
66 ACAGCGGAGCAGGTTAAAAATAG
** *
48398025 CAGATCTTGCCTTCCTATACCGACAGCTAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
48398090 ACAGCGAAGCAGGTTAAAAATAG
66 ACAGCGGAGCAGGTTAAAAATAG
** * * * *
48398113 CAGATCTTGCCTTCCTATATCGACAGCGAAGCAAATCGATGACCCCAGCC
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCC
48398163 CTATCTCTCT
Statistics
Matches: 368, Mismatches: 34, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 368 1.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
ACAGCGGAGCAGGTTAAAAATAG
Found at i:48397858 original size:44 final size:44
Alignment explanation
Indices: 48397810--48398124 Score: 177
Period size: 44 Copynumber: 7.2 Consensus size: 44
48397800 AGACACTAGC
*
48397810 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGCAGAT
* **** * ** * * * *
48397854 CTTGCCTTCCTGCAACGACAGCGAAGCAGATCGAAGACACCAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGAAGCAGGTTAAAAATAGCAGAT
* * *
48397898 CTTGCCTCCCTGGGTTACAGTGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGCAGAT
* *** * ** * * * *
48397942 CTTGCCTTCCTGCAATGACAGCGAAGCAGATCGAAGACACCAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGAAGCAGGTTAAAAATAGCAGAT
* * *
48397986 CTTGCCTCCCTAGGTTACAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGCAGAT
* ***** * * ** * * * *
48398030 CTTGCCTTCCTATACCGACAGCTAAGCAGATCGAAGACACCAG-C
1 CTTGCCTCCCTGGGTTG-CAGCGAAGCAGGTTAAAAATAGCAGAT
*
48398074 CTTGCCTCCCTGGGTTACAGCGAAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGCAGAT
48398118 CTTGCCT
1 CTTGCCT
48398125 TCCTATATCG
Statistics
Matches: 179, Mismatches: 86, Indels: 12
0.65 0.31 0.04
Matches are distributed among these distances:
43 53 0.30
44 74 0.41
45 52 0.29
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (44 bp):
CTTGCCTCCCTGGGTTGCAGCGAAGCAGGTTAAAAATAGCAGAT
Found at i:48398231 original size:44 final size:44
Alignment explanation
Indices: 48398164--48398258 Score: 131
Period size: 44 Copynumber: 2.2 Consensus size: 44
48398154 ACCCCAGCCC
* *
48398164 TATCTCTCTGGATAGCAGTGGAATAGGTTGAAGATTGT-AAGTCA
1 TATCTCCCTGGATAGCAATGGAATAGGTTGAAGATTGTGAA-TCA
*
48398208 TATCTCCCTGG-TCAGCAATGGAATAGGTTGAAGATTGTGAATCC
1 TATCTCCCTGGAT-AGCAATGGAATAGGTTGAAGATTGTGAATCA
48398252 TATCTCC
1 TATCTCC
48398259 TTGAGCAACA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 43 0.93
45 2 0.04
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (44 bp):
TATCTCCCTGGATAGCAATGGAATAGGTTGAAGATTGTGAATCA
Found at i:48398279 original size:44 final size:44
Alignment explanation
Indices: 48398179--48398283 Score: 133
Period size: 44 Copynumber: 2.4 Consensus size: 44
48398169 CTCTGGATAG
*
48398179 CAGTGGAATAGGTTGAAGATTGTAAGTCATATCTCCCTGGTCAG
1 CAGTGGAATAGGTTGAAGATTGTAAGTCATATCTCCCTGGTCAA
* * *
48398223 CAATGGAATAGGTTGAAGATTGTGAA-TCCTATCTCCTTGAG-CAA
1 CAGTGGAATAGGTTGAAGATTGT-AAGTCATATCTCCCTG-GTCAA
*
48398267 CAGTGGAGTAGGTTGAA
1 CAGTGGAATAGGTTGAA
48398284 AATAGCAGGT
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
44 50 0.94
45 3 0.06
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.29
Consensus pattern (44 bp):
CAGTGGAATAGGTTGAAGATTGTAAGTCATATCTCCCTGGTCAA
Found at i:48398896 original size:45 final size:44
Alignment explanation
Indices: 48398645--48399154 Score: 227
Period size: 44 Copynumber: 11.7 Consensus size: 44
48398635 CTGAAGATGG
* * *
48398645 CGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAG--AAT
* *** *
48398691 --AATCCTATCTCCCTGAAGTCATAGTGGAGCAGA-TTAA-AAT
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAT
* * * *
48398731 CATAGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-TC--GCAT
1 C-GA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAT
* * * * * * *
48398773 CTAGTCTTATCTCACTGAATTTGCAGTGGATCAGA-TTAAGTAAG
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAG-AAT
* * * *
48398817 C-AAGCCTTATACT-CCTGAAGTTGTAGT-GAGGCAGACTGAAGATGT
1 CGAA-TCTTAT-CTCCCTGAAGTTGCAGTGGA-GCAGACTCAAGA-AT
* *
48398862 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAG--AAT
* * * *
48398908 --AATCCTATCTCCCTAAAGTTGCAGTGGAG-TGTA-TTAA-AAT
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-ACTCAAGAAT
* * ** * *
48398948 CACATATCTTATCTCTCTGAAGTTGCA-AAGAGCATA-TC-A-CAT
1 C-GA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAT
** * *
48398990 CGGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCCAAGAAAA
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAG-AAT
* *
48399035 CGAGTGTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAT
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAG-AAT
* * * * * * * *
48399080 C-AAGTCATATCCCCCTGAAATTGTAGTGGGGCAGACTAAATAAA
1 CGAA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAT
* ** * *
48399124 CAAATCCCATCTCCCTAAAGTTGTAGTGGAG
1 CGAATCTTATCTCCCTGAAGTTGCAGTGGAG
48399155 TGGATTAGAA
Statistics
Matches: 353, Mismatches: 79, Indels: 66
0.71 0.16 0.13
Matches are distributed among these distances:
40 46 0.13
41 15 0.04
42 8 0.02
43 27 0.08
44 143 0.41
45 108 0.31
46 5 0.01
47 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (44 bp):
CGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAT
Found at i:48399016 original size:217 final size:217
Alignment explanation
Indices: 48398632--48399024 Score: 617
Period size: 217 Copynumber: 1.8 Consensus size: 217
48398622 GCAATTTAAA
48398632 AGACTGAAGATGGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
1 AGACTGAAGATGGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
* * * *
48398697 ATCTCCCTGAAGTCATAGTGGAGCAGATTAAAATCATAGATCTTATCTCTCTGAAGTTGCAGAGA
66 ATCTCCCTAAAGTCACAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAAAGA
* * * *
48398762 GCAGATCGCATCTAGTCTTATCTCACTGAATTTGCAGTGGATCAGATTAAGTAAGCAAGCCTTAT
131 GCAGATCACATCGAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGATTAAGTAAGCAAGCCTTAT
48398827 ACTCCTGAAGTTGTAGTGAGGC
196 ACTCCTGAAGTTGTAGTGAGGC
* *
48398849 AGACTGAAGATGTCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
1 AGACTGAAGATGGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
** * *
48398914 ATCTCCCTAAAGTTGCAGTGGAG-TGTATTAAAATCACATATCTTATCTCTCTGAAGTTGCAAAG
66 ATCTCCCTAAAGTCACAGTGGAGCAG-ATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAAAG
* * *
48398978 AGCATATCACATCGGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
130 AGCAGATCACATCGAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGA
48399025 CCCAAGAAAA
Statistics
Matches: 158, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
216 1 0.01
217 157 0.99
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (217 bp):
AGACTGAAGATGGCGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCT
ATCTCCCTAAAGTCACAGTGGAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAAAGA
GCAGATCACATCGAGTCTTATCTCACTGAAGTTGCAGTGGAGCAGATTAAGTAAGCAAGCCTTAT
ACTCCTGAAGTTGTAGTGAGGC
Found at i:48399690 original size:19 final size:20
Alignment explanation
Indices: 48399666--48399712 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 20
48399656 AATCTTCAAG
*
48399666 GATATGTAATCTT-AGATAT
1 GATATGCAATCTTAAGATAT
48399685 GATATGCAATCTTAAAAGATAT
1 GATATGCAATCTT--AAGATAT
48399707 GATATG
1 GATATG
48399713 ATATGATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 12 0.50
22 12 0.50
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.36
Consensus pattern (20 bp):
GATATGCAATCTTAAGATAT
Found at i:48399707 original size:17 final size:17
Alignment explanation
Indices: 48399656--48399707 Score: 50
Period size: 19 Copynumber: 2.9 Consensus size: 17
48399646 ATGGAAACAT
* * *
48399656 AATCTTCAAGGATATGT
1 AATCTTAAAAGATATGC
*
48399673 AATCTTAGATATGATATGC
1 AATCTTA-A-AAGATATGC
48399692 AATCTTAAAAGATATG
1 AATCTTAAAAGATATG
48399708 ATATGATATG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 13 0.45
18 2 0.07
19 14 0.48
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (17 bp):
AATCTTAAAAGATATGC
Found at i:48401605 original size:9 final size:9
Alignment explanation
Indices: 48401591--48401616 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
48401581 CCAAAAACTT
48401591 CATCATCTA
1 CATCATCTA
48401600 CATCATCTA
1 CATCATCTA
48401609 CATCATCT
1 CATCATCT
48401617 TCTCCAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (9 bp):
CATCATCTA
Found at i:48406418 original size:18 final size:18
Alignment explanation
Indices: 48406395--48406429 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
48406385 AATAAACATG
48406395 AAGCATTAAAA-TAGTTTC
1 AAGCA-TAAAAGTAGTTTC
48406413 AAGCATAAAAGTAGTTT
1 AAGCATAAAAGTAGTTT
48406430 GGCACGTCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.31
Consensus pattern (18 bp):
AAGCATAAAAGTAGTTTC
Found at i:48409982 original size:22 final size:22
Alignment explanation
Indices: 48409954--48409997 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
48409944 TATCACACCC
48409954 CTGCACAAATTCGTAAGCATCT
1 CTGCACAAATTCGTAAGCATCT
48409976 CTGCACAAATTCGTAAGCATCT
1 CTGCACAAATTCGTAAGCATCT
48409998 TTGTTCATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (22 bp):
CTGCACAAATTCGTAAGCATCT
Found at i:48422545 original size:40 final size:40
Alignment explanation
Indices: 48422490--48422569 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
48422480 TTGCCCTACG
48422490 AGGAGACTTTTACCAGAGGGATGATACACAGCACAGATCC
1 AGGAGACTTTTACCAGAGGGATGATACACAGCACAGATCC
*
48422530 AGGAGACTTTTACCAGAGGGATGATTCACAGCACAGATCC
1 AGGAGACTTTTACCAGAGGGATGATACACAGCACAGATCC
48422570 CCGGATTCTC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.19
Consensus pattern (40 bp):
AGGAGACTTTTACCAGAGGGATGATACACAGCACAGATCC
Found at i:48428817 original size:18 final size:18
Alignment explanation
Indices: 48428774--48428817 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
48428764 ACTCAATCCA
* *
48428774 AACCCAAGTATCCAACCC
1 AACCCAATTACCCAACCC
48428792 AACCCAATTACCCAACCC
1 AACCCAATTACCCAACCC
48428810 AACCCAAT
1 AACCCAAT
48428818 CATAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.41, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
AACCCAATTACCCAACCC
Found at i:48428867 original size:6 final size:6
Alignment explanation
Indices: 48428858--48428900 Score: 59
Period size: 6 Copynumber: 7.0 Consensus size: 6
48428848 AAATAAAATT
* *
48428858 CTAAAA CTAAAA CTAAAA CTAAAA CTAAAGT CTAAAA GTAAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA-A CTAAAA CTAAAA
48428901 AACATATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
6 28 0.85
7 5 0.15
ACGTcount: A:0.63, C:0.14, G:0.05, T:0.19
Consensus pattern (6 bp):
CTAAAA
Found at i:48428928 original size:9 final size:9
Alignment explanation
Indices: 48428916--48428956 Score: 64
Period size: 9 Copynumber: 4.6 Consensus size: 9
48428906 ATAATTTAGG
*
48428916 TAATTCGGT
1 TAATTCAGT
48428925 TAATTCAGT
1 TAATTCAGT
48428934 TAATTCAGT
1 TAATTCAGT
*
48428943 TAATTCGGT
1 TAATTCAGT
48428952 TAATT
1 TAATT
48428957 TTTAACCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.46
Consensus pattern (9 bp):
TAATTCAGT
Found at i:48429502 original size:59 final size:59
Alignment explanation
Indices: 48429436--48429625 Score: 156
Period size: 59 Copynumber: 3.2 Consensus size: 59
48429426 GAATGACTTG
* *
48429436 GTGGCTATTTAATGT-AAGTAGG-TGCCATT-GTGGCTA-CTTAAAGTTTTGTGGACGCCCTT
1 GTGGCTATCTAA-GTCAAGT-GGATGCC-TTCGTGGCTATC-TAAAGTTGTGTGGACGCCCTT
* * * *
48429495 GTGGCTATCTAAGTCAAGTGGATGTCTTCGTGGCTATCTAATGTTGTGTGGATGCCTTT
1 GTGGCTATCTAAGTCAAGTGGATGCCTTCGTGGCTATCTAAAGTTGTGTGGACGCCCTT
* * * * * * * * *
48429554 GTGGCTATCTGATGTTACA-TGGATGCCTTCATGACTATTTGATGTTATGTGGACGCCTTT
1 GTGGCTATCT-AAGTCA-AGTGGATGCCTTCGTGGCTATCTAAAGTTGTGTGGACGCCCTT
48429614 GTGGCTATCTAA
1 GTGGCTATCTAA
48429626 TATTGTGTGG
Statistics
Matches: 109, Mismatches: 16, Indels: 12
0.80 0.12 0.09
Matches are distributed among these distances:
58 6 0.06
59 53 0.49
60 49 0.45
61 1 0.01
ACGTcount: A:0.19, C:0.16, G:0.27, T:0.38
Consensus pattern (59 bp):
GTGGCTATCTAAGTCAAGTGGATGCCTTCGTGGCTATCTAAAGTTGTGTGGACGCCCTT
Found at i:48429548 original size:30 final size:30
Alignment explanation
Indices: 48429328--48429654 Score: 188
Period size: 30 Copynumber: 10.9 Consensus size: 30
48429318 AAGTCCGTTA
*
48429328 TATGTGGATACCTTTGTGGCTATCTAATGT
1 TATGTGGATGCCTTTGTGGCTATCTAATGT
*
48429358 TATATGAGA-GCCTTTGTGGCTATATCTATATG-
1 TATGTG-GATGCCTTTGTGGC--TATCTA-ATGT
** *
48429390 TATGT--ACACCTTTATGGCTATCT--TGT
1 TATGTGGATGCCTTTGTGGCTATCTAATGT
* * * *
48429416 GTACGTGTTTGAATGACTTGGTGGCTATTTAATG-
1 -TA--TG--TGGATGCCTTTGTGGCTATCTAATGT
* * *
48429450 TAAGTAGG-TGCCATTGTGGCTA-CTTAAAGT
1 TATGT-GGATGCCTTTGTGGCTATC-TAATGT
* * *
48429480 TTTGTGGACGCCCTTGTGGCTATCTAA-GT
1 TATGTGGATGCCTTTGTGGCTATCTAATGT
* * * *
48429509 CAAGTGGATGTCTTCGTGGCTATCTAATGT
1 TATGTGGATGCCTTTGTGGCTATCTAATGT
* *
48429539 TGTGTGGATGCCTTTGTGGCTATCTGATGT
1 TATGTGGATGCCTTTGTGGCTATCTAATGT
** ** * * *
48429569 TACATGGATGCCTTCATGACTATTTGATGT
1 TATGTGGATGCCTTTGTGGCTATCTAATGT
* *
48429599 TATGTGGACGCCTTTGTGGCTATCTAATAT
1 TATGTGGATGCCTTTGTGGCTATCTAATGT
* * *
48429629 TGTGTGGACGCCTTTGTAGCTATCTA
1 TATGTGGATGCCTTTGTGGCTATCTA
48429655 TCTATTGTGC
Statistics
Matches: 223, Mismatches: 53, Indels: 42
0.70 0.17 0.13
Matches are distributed among these distances:
25 2 0.01
27 2 0.01
28 5 0.02
29 43 0.19
30 137 0.61
31 5 0.02
32 10 0.04
33 17 0.08
35 2 0.01
ACGTcount: A:0.20, C:0.15, G:0.25, T:0.40
Consensus pattern (30 bp):
TATGTGGATGCCTTTGTGGCTATCTAATGT
Found at i:48445532 original size:29 final size:28
Alignment explanation
Indices: 48445365--48445800 Score: 315
Period size: 28 Copynumber: 15.6 Consensus size: 28
48445355 TTCAGATTTC
* *
48445365 GCCACAAAGGCGTTCCTTT-CCAAAGATA
1 GCCACAAAGGC-TTCCTTTAACAGAGATA
* * * * *
48445393 GCCACAGAGGTTGTCCTTT--TAGAGTCTC
1 GCCACAAAGGCT-TCCTTTAACAGAG-ATA
* * * *
48445421 GCCACGAAGGCATCCTTTTAACAAAGATT
1 GCCACAAAGGCTTCC-TTTAACAGAGATA
* * *
48445450 TCCAC-AAGGCCTTCATTTAACTGAGATA
1 GCCACAAAGG-CTTCCTTTAACAGAGATA
* * * *
48445478 GCCACAAAGACATCTTTTTAATAGAGATA
1 GCCACAAAGGCTTC-CTTTAACAGAGATA
* *
48445507 GCCACAAAGACTTCGTTATAACAGAGATCA
1 GCCACAAAGGCTTCCTT-TAACAGAGAT-A
*
48445537 -TCACAAAGGCTTCCTTATAACAGAGATCA
1 GCCACAAAGGCTTCCTT-TAACAGAGAT-A
* *
48445566 -CCATAAAGGCTTCCTTATAACAGAGATT
1 GCCACAAAGGCTTCCTT-TAACAGAGATA
* ** *
48445594 GCAACAAAGTTTTCCTTT-ACAGGGATA
1 GCCACAAAGGCTTCCTTTAACAGAGATA
* *
48445621 GCCACAAAGGATT-TTTTAACAGAGATA
1 GCCACAAAGGCTTCCTTTAACAGAGATA
* * *
48445648 GCCACAAAGGCTTCATTTAACAGTGAAA
1 GCCACAAAGGCTTCCTTTAACAGAGATA
* * * *
48445676 GCCATAAAGGCTTACTTTTACAAAGATA
1 GCCACAAAGGCTTCCTTTAACAGAGATA
*
48445704 GCCACGAAA-ACTTCCTTTAACAGAGATA
1 GCCAC-AAAGGCTTCCTTTAACAGAGATA
*
48445732 GCCACAAAGGCTTCCTTT--CAAAGATA
1 GCCACAAAGGCTTCCTTTAACAGAGATA
48445758 GCCACAAAGGCTTCCATTT---AGAGATA
1 GCCACAAAGGCTTCC-TTTAACAGAGATA
48445784 GCCACAAAGGCTTCCTT
1 GCCACAAAGGCTTCCTT
48445801 AGATTGTGCC
Statistics
Matches: 327, Mismatches: 65, Indels: 35
0.77 0.15 0.08
Matches are distributed among these distances:
25 2 0.01
26 46 0.14
27 50 0.15
28 115 0.35
29 110 0.34
30 4 0.01
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (28 bp):
GCCACAAAGGCTTCCTTTAACAGAGATA
Found at i:48445678 original size:28 final size:28
Alignment explanation
Indices: 48445437--48445797 Score: 269
Period size: 29 Copynumber: 13.0 Consensus size: 28
48445427 AAGGCATCCT
* **
48445437 TTTAACAAAGATTTCCAC-AAGGCCTTCA
1 TTTAACAGAGATAGCCACAAAGG-CTTCA
* * * *
48445465 TTTAACTGAGATAGCCACAAAGACATCTT
1 TTTAACAGAGATAGCCACAAAGGCTTC-A
* * *
48445494 TTTAATAGAGATAGCCACAAAGACTTCG
1 TTTAACAGAGATAGCCACAAAGGCTTCA
* *
48445522 TTATAACAGAGATCA-TCACAAAGGCTTCC
1 TT-TAACAGAGAT-AGCCACAAAGGCTTCA
* *
48445551 TTATAACAGAGATCA-CCATAAAGGCTTCC
1 TT-TAACAGAGAT-AGCCACAAAGGCTTCA
* * ** *
48445580 TTATAACAGAGATTGCAACAAAGTTTTCC
1 TT-TAACAGAGATAGCCACAAAGGCTTCA
* * *
48445609 TTT-ACAGGGATAGCCACAAAGGATT-T
1 TTTAACAGAGATAGCCACAAAGGCTTCA
48445635 TTTAACAGAGATAGCCACAAAGGCTTCA
1 TTTAACAGAGATAGCCACAAAGGCTTCA
* * *
48445663 TTTAACAGTGAAAGCCATAAAGGCTT-A
1 TTTAACAGAGATAGCCACAAAGGCTTCA
* * * *
48445690 CTTTTACAAAGATAGCCACGAAA-ACTTCC
1 -TTTAACAGAGATAGCCAC-AAAGGCTTCA
*
48445719 TTTAACAGAGATAGCCACAAAGGCTTCC
1 TTTAACAGAGATAGCCACAAAGGCTTCA
*
48445747 TTT--CAAAGATAGCCACAAAGGCTTCCA
1 TTTAACAGAGATAGCCACAAAGGCTT-CA
48445774 TTT---AGAGATAGCCACAAAGGCTTC
1 TTTAACAGAGATAGCCACAAAGGCTTC
48445798 CTTAGATTGT
Statistics
Matches: 274, Mismatches: 47, Indels: 27
0.79 0.14 0.08
Matches are distributed among these distances:
25 1 0.00
26 42 0.15
27 45 0.16
28 83 0.30
29 102 0.37
30 1 0.00
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (28 bp):
TTTAACAGAGATAGCCACAAAGGCTTCA
Found at i:48445817 original size:24 final size:25
Alignment explanation
Indices: 48445725--48445803 Score: 115
Period size: 26 Copynumber: 3.1 Consensus size: 25
48445715 TTCCTTTAAC
*
48445725 AGAGATAGCCACAAAGGCTTCCTTT
1 AGAGATAGCCACAAAGGCTTCCATT
*
48445750 CAAAGATAGCCACAAAGGCTTCCATTT
1 -AGAGATAGCCACAAAGGCTTCCA-TT
48445777 AGAGATAGCCACAAAGGCTTCC-TT
1 AGAGATAGCCACAAAGGCTTCCATT
48445801 AGA
1 AGA
48445804 TTGTGCCACA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
24 5 0.10
26 42 0.86
27 2 0.04
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (25 bp):
AGAGATAGCCACAAAGGCTTCCATT
Found at i:48456734 original size:23 final size:23
Alignment explanation
Indices: 48456691--48456741 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
48456681 AAAAACATAA
48456691 AAATAAAAGTAAAGTAAAGCAAG
1 AAATAAAAGTAAAGTAAAGCAAG
*
48456714 TAAATAAAA-TAAAG-ACGAGCAAG
1 -AAATAAAAGTAAAGTA-AAGCAAG
48456737 AAATA
1 AAATA
48456742 TTAAACTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 6 0.24
23 11 0.44
24 8 0.32
ACGTcount: A:0.65, C:0.06, G:0.16, T:0.14
Consensus pattern (23 bp):
AAATAAAAGTAAAGTAAAGCAAG
Found at i:48464724 original size:21 final size:21
Alignment explanation
Indices: 48464674--48464724 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
48464664 GGTGAACCGC
*
48464674 TTTTTA-TAAATTTTTTAATA
1 TTTTTATTAAATCTTTTAATA
48464694 TATTTT-TTAAATCTTTT-ATGA
1 T-TTTTATTAAATCTTTTAAT-A
48464715 TTTTTATTAA
1 TTTTTATTAA
48464725 TTTATTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (21 bp):
TTTTTATTAAATCTTTTAATA
Found at i:48465440 original size:18 final size:18
Alignment explanation
Indices: 48465417--48465457 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
48465407 TTACAAAATA
**
48465417 AAAATATATAACCTTTTT
1 AAAATATATAAAATTTTT
48465435 AAAATATATAAAATTTTT
1 AAAATATATAAAATTTTT
48465453 AAAAT
1 AAAAT
48465458 TTTCAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATATATAAAATTTTT
Found at i:48466276 original size:20 final size:20
Alignment explanation
Indices: 48466253--48466316 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
48466243 CAGCTCCTTT
*
48466253 AGCTCGTTTCAGCTCCAA-TC
1 AGCTCATTTCAGCT-CAATTC
*
48466273 AGCTCATTTGAGCTCAATTC
1 AGCTCATTTCAGCTCAATTC
*
48466293 AGCTCA-TTCGAGCTCAATTT
1 AGCTCATTTC-AGCTCAATTC
48466313 AGCT
1 AGCT
48466317 TTCTTTCAGC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
19 5 0.13
20 33 0.87
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (20 bp):
AGCTCATTTCAGCTCAATTC
Found at i:48468625 original size:6 final size:6
Alignment explanation
Indices: 48468616--48468686 Score: 54
Period size: 6 Copynumber: 11.8 Consensus size: 6
48468606 TAATGAAATC
* * * **
48468616 GAAAAA GAAAAC GAAAAA GAAAAA GAAATTA -CAAAA GAAAAA GAAATC
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAA-AA GAAAAA GAAAAA GAAAAA
** *
48468664 GAAAAA GTGAGA GAAAAA GAAAA
1 GAAAAA GAAAAA GAAAAA GAAAA
48468687 TGAAGAAAAG
Statistics
Matches: 47, Mismatches: 16, Indels: 4
0.70 0.24 0.06
Matches are distributed among these distances:
5 1 0.02
6 45 0.96
7 1 0.02
ACGTcount: A:0.72, C:0.04, G:0.18, T:0.06
Consensus pattern (6 bp):
GAAAAA
Found at i:48468630 original size:12 final size:12
Alignment explanation
Indices: 48468610--48468670 Score: 61
Period size: 12 Copynumber: 5.1 Consensus size: 12
48468600 ACATTGTAAT
*
48468610 GAAATCGAAAAA
1 GAAAACGAAAAA
48468622 GAAAACGAAAAA
1 GAAAACGAAAAA
* *
48468634 GAAAAAGAAATTA
1 GAAAACGAAA-AA
*
48468647 CAAAA-GAAAAA
1 GAAAACGAAAAA
*
48468658 GAAATCGAAAAA
1 GAAAACGAAAAA
48468670 G
1 G
48468671 TGAGAGAAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
11 4 0.10
12 31 0.77
13 5 0.12
ACGTcount: A:0.70, C:0.07, G:0.16, T:0.07
Consensus pattern (12 bp):
GAAAACGAAAAA
Found at i:48468637 original size:18 final size:18
Alignment explanation
Indices: 48468616--48468670 Score: 69
Period size: 18 Copynumber: 3.1 Consensus size: 18
48468606 TAATGAAATC
48468616 GAAAAAGAAAACGAAAAA
1 GAAAAAGAAAACGAAAAA
48468634 GAAAAAGAAATTAC--AAAA
1 GAAAAAGAAA--ACGAAAAA
*
48468652 GAAAAAGAAATCGAAAAA
1 GAAAAAGAAAACGAAAAA
48468670 G
1 G
48468671 TGAGAGAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
16 1 0.03
18 29 0.91
20 2 0.06
ACGTcount: A:0.73, C:0.05, G:0.16, T:0.05
Consensus pattern (18 bp):
GAAAAAGAAAACGAAAAA
Found at i:48468730 original size:16 final size:18
Alignment explanation
Indices: 48468709--48468747 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
48468699 ATTGAGATTG
48468709 AGAAAAA-A-ATTGAAAA
1 AGAAAAAGATATTGAAAA
*
48468725 AGAAAAAGATGTTGAAAA
1 AGAAAAAGATATTGAAAA
48468743 AGAAA
1 AGAAA
48468748 CGAGAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 1 0.05
18 12 0.60
ACGTcount: A:0.69, C:0.00, G:0.18, T:0.13
Consensus pattern (18 bp):
AGAAAAAGATATTGAAAA
Found at i:48471341 original size:41 final size:41
Alignment explanation
Indices: 48471182--48471377 Score: 241
Period size: 41 Copynumber: 4.8 Consensus size: 41
48471172 TTTCAGACTT
*
48471182 TAAGTCTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTA
1 TAAGTCTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTA
* *
48471223 TAA-ACGTAGCAGGCTACGTGCCGGTGATCTGAATCAGGTTA
1 TAAGTC-TAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTA
** *
48471264 TAAACCTAGCAGGCTACGTGCCGGTGATCTGAATCATGCTA
1 TAAGTCTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTA
* * * *
48471305 TAAGTTTAGCAGGTTATGTGCCGGTGATCTGAATCATGCTA
1 TAAGTCTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTA
* * * *
48471346 TAAGTTTAGCAGGTTATGTGCCGTTGAATCTG
1 TAAGTCTAGCAGGCTACGTGCCGGTG-ATCTG
48471378 TTTAAATTAA
Statistics
Matches: 142, Mismatches: 10, Indels: 5
0.90 0.06 0.03
Matches are distributed among these distances:
40 1 0.01
41 135 0.95
42 6 0.04
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (41 bp):
TAAGTCTAGCAGGCTACGTGCCGGTGATCTGAATCAGGCTA
Found at i:48482726 original size:18 final size:18
Alignment explanation
Indices: 48482703--48482743 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
48482693 TTACAAAATA
**
48482703 AAAATATATAACCTTTTT
1 AAAATATATAAAATTTTT
48482721 AAAATATATAAAATTTTT
1 AAAATATATAAAATTTTT
48482739 AAAAT
1 AAAAT
48482744 TTTCAATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATATATAAAATTTTT
Found at i:48483562 original size:20 final size:20
Alignment explanation
Indices: 48483539--48483602 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
48483529 CAGCTCCTTT
*
48483539 AGCTCGTTTCAGCTCCAA-TC
1 AGCTCATTTCAGCT-CAATTC
*
48483559 AGCTCATTTGAGCTCAATTC
1 AGCTCATTTCAGCTCAATTC
*
48483579 AGCTCA-TTCGAGCTCAATTT
1 AGCTCATTTC-AGCTCAATTC
48483599 AGCT
1 AGCT
48483603 TTCTTTCAGC
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
19 5 0.13
20 33 0.87
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (20 bp):
AGCTCATTTCAGCTCAATTC
Found at i:48484595 original size:13 final size:13
Alignment explanation
Indices: 48484572--48484605 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
48484562 TCATCCACCT
48484572 TTTTATACCTTTGG
1 TTTT-TACCTTTGG
48484586 TTTTTACCTTTGG
1 TTTTTACCTTTGG
48484599 TTTTTAC
1 TTTTTAC
48484606 TTCTTCATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.12, C:0.15, G:0.12, T:0.62
Consensus pattern (13 bp):
TTTTTACCTTTGG
Found at i:48489436 original size:15 final size:14
Alignment explanation
Indices: 48489415--48489450 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
48489405 ATAATCCTTA
*
48489415 ATAATTATCTTAAT
1 ATAATTATCCTAAT
48489429 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
48489444 ATAATTA
1 ATAATTA
48489451 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:48494151 original size:29 final size:29
Alignment explanation
Indices: 48494118--48494190 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
48494108 ACACAATTCT
*
48494118 AATAATAAAAAAAATATAATACT-AATAA
1 AATAATAAAAAAAATATAATAATAAATAA
*
48494146 CAATAATAAAATAAATATAATAATAAATAA
1 -AATAATAAAAAAAATATAATAATAAATAA
*
48494176 AATAAATAAATAAAA
1 AAT-AATAAAAAAAA
48494191 GGGGAGGATA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 24 0.63
30 14 0.37
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.25
Consensus pattern (29 bp):
AATAATAAAAAAAATATAATAATAAATAA
Found at i:48494153 original size:20 final size:20
Alignment explanation
Indices: 48494120--48494179 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
48494110 ACAATTCTAA
*
48494120 TAATAAAAAAAATATAATAC
1 TAATAAAAAAAATAAAATAC
* *
48494140 TAATAACAATAATAAAATA-
1 TAATAAAAAAAATAAAATAC
48494159 -AATATAATAATAAATAAAATA
1 TAATA-AA-AA-AAATAAAATA
48494180 AATAAATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
18 4 0.12
19 1 0.03
20 18 0.56
21 9 0.28
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (20 bp):
TAATAAAAAAAATAAAATAC
Found at i:48494162 original size:12 final size:12
Alignment explanation
Indices: 48494147--48494188 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
48494137 TACTAATAAC
48494147 AATAATAAAATA
1 AATAATAAAATA
48494159 AAT-ATAATAATA
1 AATAATAA-AATA
*
48494171 AATAAAATAAATA
1 AATAATA-AAATA
48494184 AATAA
1 AATAA
48494189 AAGGGGAGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 4 0.15
12 10 0.38
13 11 0.42
14 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
AATAATAAAATA
Found at i:48494167 original size:17 final size:17
Alignment explanation
Indices: 48494147--48494190 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
48494137 TACTAATAAC
48494147 AATAATAAAAT-AAATA
1 AATAATAAAATAAAATA
48494163 TAATAAT-AAATAAAATA
1 -AATAATAAAATAAAATA
48494180 AATAAATAAAA
1 AAT-AATAAAA
48494191 GGGGAGGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 7 0.29
17 14 0.58
18 3 0.12
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
AATAATAAAATAAAATA
Found at i:48497989 original size:20 final size:20
Alignment explanation
Indices: 48497960--48498003 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
48497950 ATTAAAATGT
* *
48497960 AAAA-ATTAAATTAGAAACA
1 AAAATATTAAAATAAAAACA
*
48497979 AAAATATTAAAATAAAAATA
1 AAAATATTAAAATAAAAACA
48497999 AAAAT
1 AAAAT
48498004 GGCTAAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (20 bp):
AAAATATTAAAATAAAAACA
Found at i:48502928 original size:6 final size:6
Alignment explanation
Indices: 48502905--48502945 Score: 66
Period size: 6 Copynumber: 6.8 Consensus size: 6
48502895 AACAAAAAAT
48502905 TATTATA TATTT- TATTTA TATTTA TATTTA TATTTA TATTT
1 TATT-TA TATTTA TATTTA TATTTA TATTTA TATTTA TATTT
48502946 TCCTTAATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.15
6 24 0.73
7 4 0.12
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATTTA
Found at i:48512447 original size:32 final size:32
Alignment explanation
Indices: 48512411--48512506 Score: 192
Period size: 32 Copynumber: 3.0 Consensus size: 32
48512401 AAACTTTATC
48512411 AATCTATCAACTATCACCCAAATTGAATTCTT
1 AATCTATCAACTATCACCCAAATTGAATTCTT
48512443 AATCTATCAACTATCACCCAAATTGAATTCTT
1 AATCTATCAACTATCACCCAAATTGAATTCTT
48512475 AATCTATCAACTATCACCCAAATTGAATTCTT
1 AATCTATCAACTATCACCCAAATTGAATTCTT
48512507 CTTTCTTGGT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 64 1.00
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.34
Consensus pattern (32 bp):
AATCTATCAACTATCACCCAAATTGAATTCTT
Found at i:48516706 original size:40 final size:42
Alignment explanation
Indices: 48516619--48516732 Score: 119
Period size: 40 Copynumber: 2.8 Consensus size: 42
48516609 CCTTTCGGGT
* *
48516619 CTTTAGCGGCGTTTTTTGAAAAAGCGCCGCTAATGCTGGTAA
1 CTTTAGCGGCGATTTTTGAAAAAGCGCCGCTAATGCTGGGAA
* *
48516661 CTTTAGCGGC-ATTTTTGAGAAAGCG-CGCTAATGCTGGGGGA
1 CTTTAGCGGCGATTTTTGAAAAAGCGCCGCTAATGCT-GGGAA
** * *
48516702 -TTTAGTAGCG-TTTTTGAAAAGGCACCGCTAA
1 CTTTAGCGGCGATTTTTGAAAAAGCGCCGCTAA
48516733 AAATATTTTA
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
40 28 0.47
41 22 0.37
42 10 0.17
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.30
Consensus pattern (42 bp):
CTTTAGCGGCGATTTTTGAAAAAGCGCCGCTAATGCTGGGAA
Found at i:48517095 original size:14 final size:14
Alignment explanation
Indices: 48517076--48517109 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
48517066 ATTTTAAGGT
48517076 TTAGGGAGTATGGA
1 TTAGGGAGTATGGA
* *
48517090 TTAGGGATTATGGT
1 TTAGGGAGTATGGA
48517104 TTAGGG
1 TTAGGG
48517110 GTTGGGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.35
Consensus pattern (14 bp):
TTAGGGAGTATGGA
Found at i:48517142 original size:15 final size:15
Alignment explanation
Indices: 48517122--48517155 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
48517112 TGGGATTTAA
*
48517122 GGTTTAGGGGTTATG
1 GGTTTAGGGGTTAGG
*
48517137 GGTTTATGGGTTAGG
1 GGTTTAGGGGTTAGG
48517152 GGTT
1 GGTT
48517156 AGACATTAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.47, T:0.41
Consensus pattern (15 bp):
GGTTTAGGGGTTAGG
Found at i:48517347 original size:14 final size:14
Alignment explanation
Indices: 48517310--48517340 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
48517300 TTAATTATCA
48517310 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
48517324 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
48517338 TTA
1 TTA
48517341 AGGTTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.52
Consensus pattern (14 bp):
TTATAGTTTAGGGT
Found at i:48517382 original size:15 final size:15
Alignment explanation
Indices: 48517364--48517413 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 15
48517354 GCTATTTTAA
*
48517364 GGTTTATGGATTATG
1 GGTTTAGGGATTATG
48517379 GGTTTAGGGATTATG
1 GGTTTAGGGATTATG
*
48517394 GGTTTAGGGTTTA-G
1 GGTTTAGGGATTATG
48517408 GGTTTA
1 GGTTTA
48517414 TGATTTACGG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
14 7 0.21
15 26 0.79
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.44
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:48517384 original size:22 final size:22
Alignment explanation
Indices: 48517359--48517433 Score: 82
Period size: 22 Copynumber: 3.4 Consensus size: 22
48517349 AAGATGCTAT
*
48517359 TTTAAGGTTTATGGA-TTATGGG
1 TTTAGGGTTTATGGATTTA-GGG
* *
48517381 TTTAGGGATTATGGGTTTAGGG
1 TTTAGGGTTTATGGATTTAGGG
*
48517403 TTTAGGGTTTAT-GATTTACGG
1 TTTAGGGTTTATGGATTTAGGG
48517424 TTTAAGGGTT
1 TTT-AGGGTT
48517434 GGGGNNNNNN
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
21 10 0.22
22 32 0.71
23 3 0.07
ACGTcount: A:0.20, C:0.01, G:0.33, T:0.45
Consensus pattern (22 bp):
TTTAGGGTTTATGGATTTAGGG
Found at i:48517405 original size:7 final size:7
Alignment explanation
Indices: 48517359--48517433 Score: 60
Period size: 7 Copynumber: 10.3 Consensus size: 7
48517349 AAGATGCTAT
*
48517359 TTTAAGG
1 TTTAGGG
*
48517366 TTTATGG
1 TTTAGGG
*
48517373 ATTATGGG
1 TTTA-GGG
48517381 TTTAGGG
1 TTTAGGG
*
48517388 ATTATGGG
1 TTTA-GGG
48517396 TTTAGGG
1 TTTAGGG
48517403 TTTAGGG
1 TTTAGGG
* *
48517410 TTTATGA
1 TTTAGGG
*
48517417 TTTACGG
1 TTTAGGG
48517424 TTTAAGGG
1 TTT-AGGG
48517432 TT
1 TT
48517434 GGGGNNNNNN
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
7 38 0.70
8 16 0.30
ACGTcount: A:0.20, C:0.01, G:0.33, T:0.45
Consensus pattern (7 bp):
TTTAGGG
Found at i:48521803 original size:43 final size:43
Alignment explanation
Indices: 48521572--48521807 Score: 255
Period size: 43 Copynumber: 5.5 Consensus size: 43
48521562 TTTCTGTAAA
* **
48521572 CGCCGCTAAAGGA-CATGATCTTTAGCGGCGTTTAAGATAAAAG
1 CGCCGCTAAA-GATCATGTTCTTTAGCGGCGTTTGTGATAAAAG
* * * * * * *
48521615 CGCCACTAAAGGTAATGATCTTTAGCGGCATTTGTGGGT-AAAC
1 CGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGT-GATAAAAG
* * *
48521658 CGCCGCCAAAGATCATGTTATTTTAG-AGCGTTTGTGATAAAAG
1 CGCCGCTAAAGATCATGTT-CTTTAGCGGCGTTTGTGATAAAAG
* *
48521701 CACCGCTAAAGATCATGTTCTTTAGTGGCGTTTGTGATAAAAG
1 CGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGATAAAAG
*
48521744 CGCCGTTAAATG-TCATGTTCTTTAGCGGCGTTTGTGATAAAAG
1 CGCCGCTAAA-GATCATGTTCTTTAGCGGCGTTTGTGATAAAAG
*
48521787 CGCCGCTAATGATCATGTTCT
1 CGCCGCTAAAGATCATGTTCT
48521808 ATAGTGGCAT
Statistics
Matches: 159, Mismatches: 27, Indels: 14
0.80 0.14 0.07
Matches are distributed among these distances:
42 9 0.06
43 142 0.89
44 8 0.05
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (43 bp):
CGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGATAAAAG
Found at i:48532285 original size:5 final size:5
Alignment explanation
Indices: 48532275--48532334 Score: 50
Period size: 5 Copynumber: 11.8 Consensus size: 5
48532265 AAAGAAACAG
* ** * *
48532275 AGAAA AGAAA ACAAA AGGCA AGAGAA AG-AA AGAAA AGAAA ATAAA ATAAA
1 AGAAA AGAAA AGAAA AGAAA AGA-AA AGAAA AGAAA AGAAA AGAAA AGAAA
48532325 AGAAA TAGAA
1 AGAAA -AGAA
48532335 CGTGAGAAAA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
4 4 0.09
5 33 0.75
6 7 0.16
ACGTcount: A:0.73, C:0.03, G:0.18, T:0.05
Consensus pattern (5 bp):
AGAAA
Found at i:48537094 original size:28 final size:27
Alignment explanation
Indices: 48537055--48537107 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
48537045 AAAATAATTA
*
48537055 AAATTCAATATTTTAATAATTTAAGTGT
1 AAATTCAATATTTT-ATAATTAAAGTGT
48537083 AAATT-AATTATTTTATAATTAAAGT
1 AAATTCAA-TATTTTATAATTAAAGT
48537108 ATGAATTTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.45, C:0.02, G:0.06, T:0.47
Consensus pattern (27 bp):
AAATTCAATATTTTATAATTAAAGTGT
Found at i:48537557 original size:21 final size:21
Alignment explanation
Indices: 48537533--48537580 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
48537523 ACAAGTCACA
*
48537533 TGGATGGTTTGGGCATGCATG
1 TGGATGGTTTAGGCATGCATG
48537554 TGGATGGTTTAGGCATGCATG
1 TGGATGGTTTAGGCATGCATG
48537575 TGGATG
1 TGGATG
48537581 ATTTCGGCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.17, C:0.08, G:0.42, T:0.33
Consensus pattern (21 bp):
TGGATGGTTTAGGCATGCATG
Found at i:48538764 original size:16 final size:18
Alignment explanation
Indices: 48538737--48538769 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
48538727 TAAAATTGGG
48538737 TTGAGAAAATTA-TTTAA
1 TTGAGAAAATTAGTTTAA
48538754 TTGAG-AAATTAGTTTA
1 TTGAGAAAATTAGTTTA
48538770 TTTAAATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAGTTTAA
Found at i:48544942 original size:15 final size:15
Alignment explanation
Indices: 48544922--48544964 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
48544912 TATTTGTTTC
48544922 TTTAATTTATTTTAG
1 TTTAATTTATTTTAG
*
48544937 TTTAATTT-TTTTTG
1 TTTAATTTATTTTAG
*
48544951 TTTTATTTAATTTT
1 TTTAATTT-ATTTT
48544965 TCTCATAACG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 12 0.50
15 8 0.33
16 4 0.17
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (15 bp):
TTTAATTTATTTTAG
Found at i:48548951 original size:27 final size:27
Alignment explanation
Indices: 48548921--48548972 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
48548911 AGGAAATAAA
* * *
48548921 AAAAAGAAAGGGAAAGAAAGAAACTAG
1 AAAAAGAAAAGAAAAGAAAAAAACTAG
48548948 AAAAAGAAAAGAAAAGAAAAAAACT
1 AAAAAGAAAAGAAAAGAAAAAAACT
48548973 GATGTGAGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.73, C:0.04, G:0.19, T:0.04
Consensus pattern (27 bp):
AAAAAGAAAAGAAAAGAAAAAAACTAG
Found at i:48557941 original size:2 final size:2
Alignment explanation
Indices: 48557934--48557960 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
48557924 TTAAGAATTT
48557934 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
48557961 TCTTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48558758 original size:11 final size:11
Alignment explanation
Indices: 48558728--48558769 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
48558718 AATTAATTTA
48558728 AAAATAATATT
1 AAAATAATATT
*
48558739 -AAGTCAATATT
1 AAAAT-AATATT
48558750 AAAATAATATT
1 AAAATAATATT
48558761 AAAAATAAT
1 -AAAATAAT
48558770 GAATTAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 3 0.12
11 12 0.46
12 11 0.42
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (11 bp):
AAAATAATATT
Found at i:48560809 original size:88 final size:88
Alignment explanation
Indices: 48560715--48561076 Score: 206
Period size: 88 Copynumber: 4.1 Consensus size: 88
48560705 ACTGTAACCT
* * * **
48560715 CAGGGAGGTAAAATCCGTCACCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAAT
1 CAGGGAGATAAAATCCGTCATCTTCAATCTACTCCACTACTGCACAGGGAGATAAGATCT-TAAT
*
48560780 CTTCAATCTATTCCACTACTGAC-
65 CTTCAATCTACTCCACTACTGACA
* * ** * * * * **
48560803 CAGGGAGATAGAATTAC-T-GGCTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAATCCGA
1 CAGGGAGATA-AAATCCGTCATCTTCAATCTACTCCACTACT--GCACAGGGAGATAAGATCTTA
*
48560865 CATCTTCAATCTACTCCACTACT-ACT
63 -ATCTTCAATCTACTCCACTACTGACA
* * * * * ** * *
48560891 TAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCACAGGGA-AGT-AGA-ATTACT
1 CAGGGAGATAAAATCCGTCATCTTCAATCTACTCCACTACTGCACAGGGAGA-TAAGATCTTAAT
* * *
48560953 GGCTTCAATGTACTCCACT-GTAACCA
65 --CTTCAATCTACTCCACTACTGA-CA
* * * * ** *
48560979 CAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTACTTAGGGAGATGAGATCTTAAAT
1 CAGGGAGATAAAATCCGTCATCTTCAATCTACTCCACTACTGCACAGGGAGATAAGATCTT-AAT
* *
48561044 CTTCAATCTATTCCACTGCTG-C-
65 CTTCAATCTACTCCACTACTGACA
48561066 CTAGGGAGATA
1 C-AGGGAGATA
48561077 GAATTACTGG
Statistics
Matches: 200, Mismatches: 55, Indels: 38
0.68 0.19 0.13
Matches are distributed among these distances:
85 1 0.00
86 3 0.01
87 41 0.20
88 111 0.56
89 38 0.19
90 4 0.02
91 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (88 bp):
CAGGGAGATAAAATCCGTCATCTTCAATCTACTCCACTACTGCACAGGGAGATAAGATCTTAATC
TTCAATCTACTCCACTACTGACA
Found at i:48561617 original size:132 final size:132
Alignment explanation
Indices: 48560683--48561605 Score: 1359
Period size: 132 Copynumber: 7.0 Consensus size: 132
48560673 GGGGGATAAG
* * * * *
48560683 ATTAGTGGCTTCAATATACTCCACTGTAACCTCAGGGAGGTAAAATCCGTCACCTTCGATCTACT
1 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACT
* *
48560748 CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACTGACCAGGGAGATA
66 CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATA
48560813 GA
131 GA
* * *
48560815 ATTACTGGCTTCAATGTACTCCACTATAACCACAGGGAGGTAAAATCCGACATCTTCAATCTACT
1 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACT
* * *
48560880 CCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCACAGGGA-AGT
66 CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGA-T
48560944 AGA
130 AGA
48560947 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACT
1 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACT
* * *
48561012 CCACTACTACTTAGGGAGATGAGATCT-TAAATCTTCAATCTATTCCACTGCTGCCTAGGGAGAT
66 CCACTACTGCTTAGGGAGATAAGATCTGT-AATCTTCAATCTATTCCACTGCTGCCCAGGGAGAT
48561076 AGA
130 AGA
* * * * * * *
48561079 ATTACTGGCTTCAATGTACTCCATTGTAATCACAGTGAGGTAAAATTCGCCATATTCTATCTGCT
1 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACT
* * *
48561144 CCACTAATGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGA-AGT
66 CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGA-T
48561208 AGA
130 AGA
* * * *
48561211 ATTACTGGCTTCAATGTATTCCACTGTAACCATAGGGAGGTAAAATCTGCCATCGTCGATCTACT
1 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACT
*
48561276 CCACTACTGCTTATGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATA
66 CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATA
48561341 GA
131 GA
* * * *
48561343 ATTATTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCGCCATATTCGATCTGCT
1 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACT
* * *
48561408 CCACTAATGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGA-AGT
66 CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGA-T
48561472 AGA
130 AGA
*** * *
48561475 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTTTCATTTTCGGTCTACT
1 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACT
* * * *
48561540 CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTATCCCACTGCTGACCTGGGAGATA
66 CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATA
48561605 G
131 G
48561606 GACTAGTGGC
Statistics
Matches: 709, Mismatches: 74, Indels: 16
0.89 0.09 0.02
Matches are distributed among these distances:
131 4 0.01
132 702 0.99
133 3 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (132 bp):
ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTACT
CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGGAGATA
GA
Found at i:48561671 original size:396 final size:394
Alignment explanation
Indices: 48560683--48561733 Score: 1366
Period size: 396 Copynumber: 2.7 Consensus size: 394
48560673 GGGGGATAAG
* * * * **
48560683 ATTAGTGGCTTCAATATACTCCACTGTAACCTCAGGGAGGTAAAATCCGTCACCTTCGATCTACT
1 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGTCATATTCGATCTACT
*
48560748 CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTACTGACCAGGGAGATA
66 CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGACCAGGGAGATA
* * * *
48560813 GAATTACTGGCTTCAATGTACTCCACTA-TAACCACAGGGAGGTAAAATCCGACATCTTCAATCT
131 GAATTACTGGCTTCAATGTATTCCACTACT--CC-TAGGGAGGTAAAATTCGCCATCTTCAATCT
* *
48560877 ACTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTTGCACAGGGAA
193 ACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCACAGGGAA
*
48560942 GTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATCTTCGAT
258 GTAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATATTCGAT
* * * *
48561007 CTACTCCACTACTACTTAGGGAGATGAGATCTTAAATCTTCAATCTATTCCACTGCTGCCTAGGG
323 CTACTCCACTAATACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGG
48561072 AGATAGA
388 AGATAGA
* * * * * *
48561079 ATTACTGGCTTCAATGTACTCCATTGTAATCACAGTGAGGTAAAAT-TCGCCATATTCTATCTGC
1 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCT-GTCATATTCGATCTAC
* * * *
48561143 TCCACTAATGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCCAGGGA-AG
65 TCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGACCAGGGAGA-
* * *
48561207 TAGAATTACTGGCTTCAATGTATTCCACTGTAAC-CATAGGGAGGTAAAA-TCTGCCATCGTCGA
129 TAGAATTACTGGCTTCAATGTATTCCAC--T-ACTCCTAGGGAGGTAAAATTC-GCCATCTTCAA
* *
48561270 TCTACTCCACTACTGCTTATGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGG
190 TCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCACAGG
* *
48561335 G-AGATAGAATTATTGGCTTCAATGTACTCCACTGTAATCACAGGGAGGTAAAATCCGCCATATT
255 GAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATATT
* * *
48561399 CGATCTGCTCCACTAATGCTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGTTGCCC
319 CGATCTACTCCACTAATACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCC
48561464 AGGGA-AGTAGA
384 AGGGAGA-TAGA
* * *
48561475 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTTTCATTTTCGGTCTACT
1 ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGTCATATTCGATCTACT
* * *
48561540 CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAACCTATCCCACTGCTGACCTGGGAGATA
66 CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGACCAGGGAGATA
* * * * * ** *
48561605 GGACTAGTGGCTTAAATTTGT-TTCC-CTACTCCTGGGGGAACATAAAATTCGCCTTCTTCAATC
131 GAATTACTGGCTTCAA--TGTATTCCACTACTCCT-AGGG-AGGTAAAATTCGCCATCTTCAATC
* * * * * *
48561668 TACTCCACTACTGCTTAGGGAGATAAGATTTGTAGT-TTCCAACCTATTCTACTGCTACTCAGGG
192 TACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTT-CAATCTATTCCACTGCTGCACAGGG
48561732 AA
256 AA
48561734 ATAAGACTTG
Statistics
Matches: 564, Mismatches: 72, Indels: 37
0.84 0.11 0.05
Matches are distributed among these distances:
393 2 0.00
394 3 0.01
395 10 0.02
396 534 0.95
397 10 0.02
398 4 0.01
399 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (394 bp):
ATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCTGTCATATTCGATCTACT
CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGACCAGGGAGATA
GAATTACTGGCTTCAATGTATTCCACTACTCCTAGGGAGGTAAAATTCGCCATCTTCAATCTACT
CCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCACAGGGAAGTA
GAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCGCCATATTCGATCTA
CTCCACTAATACTTAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAGA
TAGA
Found at i:48561835 original size:131 final size:131
Alignment explanation
Indices: 48561529--48562139 Score: 825
Period size: 131 Copynumber: 4.6 Consensus size: 131
48561519 ATCTTTCATT
* * * * *
48561529 TTCGGTCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTT-CAACCTATCCCACTGCTG
1 TTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAGT-TTCCAACCTATTCCACTGCTG
* * * * * * *
48561593 AC-CTGGGAGATAGGACTAGTGGCTTAAATTTGTTTCCCTACTCCTGGGGGAACATAAAATTCGC
65 -CTCAGGGAAATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCT-GGGGAAGATAAGATTCAC
*
48561657 CTTC
128 CGTC
* * * * * *
48561661 TTCAATCTACTCCACTACTGCTTAGGGAGATAAGATTTGTAGTTTCCAACCTATTCTACTGCTAC
1 TTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTGCTGC
* **
48561726 TCAGGGAAATAAGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTTGCCGT
66 TCAGGGAAATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCACCGT
48561791 C
131 C
* * *
48561792 TTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAGTTTGCAACCTATTCCACTACTGT
1 TTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTGCTGC
48561857 TCAGGGAAATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCACCGT
66 TCAGGGAAATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCACCGT
48561922 C
131 C
* * *
48561923 TTCGATCTGCTCCACTATTGCTTAAGGAGATAAGATATGTAGTTTCCAACCTATCCCACTGCTGC
1 TTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTGCTGC
* * * *
48561988 TCAAGGAAATAAGACTTGTGGCTTAAATCTATTTCCCTACTCC-GGAGGAAGATAGGATTCACCG
66 TCAGGGAAATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGG-GGAAGATAAGATTCACCG
48562052 TC
130 TC
* *
48562054 TTCAATCTGCTCCACTATTGCTTAGAGAGATAAGATCTGTAGTTTCCCAACCTATTCCACTGCTG
1 TTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAGTTT-CCAACCTATTCCACTGCT-
*
48562119 GC-CAGGGATATAGGACTTGTG
64 GCTCAGGGAAATAGGACTTGTG
48562140 ATTTCACCGA
Statistics
Matches: 428, Mismatches: 46, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
130 2 0.00
131 299 0.70
132 125 0.29
133 2 0.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (131 bp):
TTCGATCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAGTTTCCAACCTATTCCACTGCTGC
TCAGGGAAATAGGACTTGTGGCTTAAATCTGTTTCCCTACTCCTGGGGAAGATAAGATTCACCGT
C
Found at i:48564386 original size:38 final size:38
Alignment explanation
Indices: 48564296--48564389 Score: 116
Period size: 38 Copynumber: 2.5 Consensus size: 38
48564286 GTGAATCACG
* * * * * *
48564296 TGTGGCATATTCTAAAATGGCGTATTTGGTGAGGCCCA
1 TGTGGCGTATTCTATAATGGCATATTCGATGAAGCCCA
* *
48564334 TGTGGTGTATTCTATAATGGCATGTTCGATGAAGCCCA
1 TGTGGCGTATTCTATAATGGCATATTCGATGAAGCCCA
48564372 TGTGGCGTATTCTATAAT
1 TGTGGCGTATTCTATAAT
48564390 ATTTGTGTGA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (38 bp):
TGTGGCGTATTCTATAATGGCATATTCGATGAAGCCCA
Found at i:48565633 original size:2 final size:2
Alignment explanation
Indices: 48565626--48565657 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
48565616 ATTTCATTCC
48565626 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
48565658 GTTTAATCAC
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:48565995 original size:25 final size:25
Alignment explanation
Indices: 48565934--48565995 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 25
48565924 CTTATACATC
*
48565934 AATTTGGACAGCA-TTTCTATACCA
1 AATTTGGACAGCATTTTCTACACCA
* *
48565958 AA-CTAGACAGCATTTTC-ACACCAA
1 AATTTGGACAGCATTTTCTACACC-A
48565982 AATTTGGACAGCAT
1 AATTTGGACAGCAT
48565996 ATATACAACA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
23 12 0.40
24 9 0.30
25 9 0.30
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (25 bp):
AATTTGGACAGCATTTTCTACACCA
Found at i:48566016 original size:23 final size:22
Alignment explanation
Indices: 48565982--48566364 Score: 196
Period size: 23 Copynumber: 16.6 Consensus size: 22
48565972 TTCACACCAA
48565982 AATTTGGACAGCATATATACAAC
1 AATTTGG-CAGCATATATACAAC
48566005 AATTTGTGCAGCATATATACAAC
1 AATTTG-GCAGCATATATACAAC
* * * *
48566028 AAATTGTGCAGCATTTTTACACC
1 AATTTG-GCAGCATATATACAAC
*** * * *
48566051 AA--AAACAACATATATATACC
1 AATTTGGCAGCATATATACAAC
* * * *
48566071 AAATTGAGCAACATTTTTACTTCAA-
1 AATTTG-GCAGCA--TATA-TACAAC
*
48566096 AATTTGACAGCATATATACAAC
1 AATTTGGCAGCATATATACAAC
*
48566118 AATTTAGGCAGCATATATATAAC
1 AATTT-GGCAGCATATATACAAC
* * * * *
48566141 AAATTGAGCAACATTTTTACATC
1 AATTTG-GCAGCATATATACAAC
*
48566164 AAAATTGGACAGCATATATACAAC
1 -AATTTGG-CAGCATATATACAAC
* *
48566188 AATTTAGGCAGCATATATATACC
1 AATTT-GGCAGCATATATACAAC
* * * * *
48566211 AAATTGAGCAACATTTTTACATC
1 AATTTG-GCAGCATATATACAAC
* *
48566234 AAACTTGGACAACATATATACAAC
1 -AATTTGG-CAGCATATATACAAC
*
48566258 AATTTAGGCAGCATATATATAAC
1 AATTT-GGCAGCATATATACAAC
* * * *
48566281 AATTTGAGCAACATTTTTACATC
1 AATTTG-GCAGCATATATACAAC
* *
48566304 AAAATTGGACAGCATATATATAAC
1 -AATTTGG-CAGCATATATACAAC
*
48566328 AATTTAGGCAGCATAAATACAAC
1 AATTT-GGCAGCATATATACAAC
*
48566351 GAATTGGGCAGCAT
1 -AATTTGGCAGCAT
48566365 TTAAGCATCA
Statistics
Matches: 272, Mismatches: 66, Indels: 44
0.71 0.17 0.12
Matches are distributed among these distances:
20 13 0.05
21 4 0.01
22 11 0.04
23 170 0.62
24 64 0.24
25 8 0.03
26 2 0.01
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (22 bp):
AATTTGGCAGCATATATACAAC
Found at i:48566330 original size:47 final size:47
Alignment explanation
Indices: 48566096--48566332 Score: 177
Period size: 47 Copynumber: 5.1 Consensus size: 47
48566086 TTTACTTCAA
* * *
48566096 AATTTGA-CAGCATATATACAAC-AATTTAGG-CAGCATATATATAAC
1 AATTTGAGCAACATATATACATCAAAATT-GGACAGCATATATATAAC
* * * *
48566141 AAATTGAGCAACATTTTTACATCAAAATTGGACAGCATATATACAAC
1 AATTTGAGCAACATATATACATCAAAATTGGACAGCATATATATAAC
* * * * * * * *
48566188 AATTT-AGGCAGCATATATATA-CCAAATT-GAGCAACATTTTTACATC
1 AATTTGA-GCAACATATATACATCAAAATTGGA-CAGCATATATATAAC
* * *
48566234 AAACTTG-GACAACATATATACAAC-AATTTAGG-CAGCATATATATAAC
1 -AATTTGAG-CAACATATATACATCAAAATT-GGACAGCATATATATAAC
* *
48566281 AATTTGAGCAACATTTTTACATCAAAATTGGACAGCATATATATAAC
1 AATTTGAGCAACATATATACATCAAAATTGGACAGCATATATATAAC
48566328 AATTT
1 AATTT
48566333 AGGCAGCATA
Statistics
Matches: 147, Mismatches: 31, Indels: 26
0.72 0.15 0.13
Matches are distributed among these distances:
45 8 0.05
46 51 0.35
47 86 0.59
48 1 0.01
49 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (47 bp):
AATTTGAGCAACATATATACATCAAAATTGGACAGCATATATATAAC
Found at i:48566378 original size:70 final size:70
Alignment explanation
Indices: 48566059--48566366 Score: 499
Period size: 70 Copynumber: 4.4 Consensus size: 70
48566049 CCAAAAACAA
* * *
48566059 CATATATATACCAAATTGAGCAACATTTTTACTTCAAAATTTGACAGCATATATACAACAATTTA
1 CATATATATAACAAATTGAGCAACATTTTTACATCAAAATTGGACAGCATATATACAACAATTTA
48566124 GGCAG
66 GGCAG
48566129 CATATATATAACAAATTGAGCAACATTTTTACATCAAAATTGGACAGCATATATACAACAATTTA
1 CATATATATAACAAATTGAGCAACATTTTTACATCAAAATTGGACAGCATATATACAACAATTTA
48566194 GGCAG
66 GGCAG
* * *
48566199 CATATATATACCAAATTGAGCAACATTTTTACATCAAACTTGGACAACATATATACAACAATTTA
1 CATATATATAACAAATTGAGCAACATTTTTACATCAAAATTGGACAGCATATATACAACAATTTA
48566264 GGCAG
66 GGCAG
* *
48566269 CATATATATAACAATTTGAGCAACATTTTTACATCAAAATTGGACAGCATATATATAACAATTTA
1 CATATATATAACAAATTGAGCAACATTTTTACATCAAAATTGGACAGCATATATACAACAATTTA
48566334 GGCAG
66 GGCAG
* * * * *
48566339 CATAAATACAACGAATTGGGCAGCATTT
1 CATATATATAACAAATTGAGCAACATTT
48566367 AAGCATCAAA
Statistics
Matches: 221, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 221 1.00
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.30
Consensus pattern (70 bp):
CATATATATAACAAATTGAGCAACATTTTTACATCAAAATTGGACAGCATATATACAACAATTTA
GGCAG
Found at i:48567119 original size:28 final size:28
Alignment explanation
Indices: 48567078--48567157 Score: 110
Period size: 28 Copynumber: 2.9 Consensus size: 28
48567068 CGAAAATATT
*
48567078 TAATAAGT-TCGCACACTTAGTGCTTAA
1 TAATAAATCTCGCACACTTAGTGCTTAA
*
48567105 TAATAAATCTCGCACACTTAGTGCTTTA
1 TAATAAATCTCGCACACTTAGTGCTTAA
*
48567133 CAATTAAA-CTCGCACACTTAGTGCT
1 TAA-TAAATCTCGCACACTTAGTGCT
48567158 AATCTCATTA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
27 7 0.15
28 37 0.77
29 4 0.08
ACGTcount: A:0.33, C:0.23, G:0.12, T:0.33
Consensus pattern (28 bp):
TAATAAATCTCGCACACTTAGTGCTTAA
Found at i:48573562 original size:23 final size:23
Alignment explanation
Indices: 48573524--48574003 Score: 187
Period size: 23 Copynumber: 20.5 Consensus size: 23
48573514 ATCTACCCTG
* *
48573524 TTTGGACAGC-TCTTATACATCAA
1 TTTGGACAGCAT-ATATACAACAA
* * *
48573547 TTTGGACAGCATTTATATACCAA
1 TTTGGACAGCATATATACAACAA
** * * *
48573570 ACTAGACAGCAT-TTTCACACCAAA
1 TTTGGACAGCATATAT-ACAAC-AA
48573594 ATTTGGACAGCATATATACAACAA
1 -TTTGGACAGCATATATACAACAA
*
48573618 TTTGGGCAGCATATATACAACAAA
1 TTTGGACAGCATATATACAAC-AA
* * * *
48573642 ATT-GAGCAGCATTTTTACACCAAAA
1 TTTGGA-CAGCATATATACA--ACAA
*
48573667 ATTGGACAGCATATATACAACAA
1 TTTGGACAGCATATATACAACAA
* * * *
48573690 ATTGGGCAGCATATATATACCAA
1 TTTGGACAGCATATATACAACAA
* * * * * *
48573713 ATT-AAGCAACATTTTTACATCAAAA
1 TTTGGA-CAGCATATATACA--ACAA
*
48573738 TTT-GACAGCATATATACGACAA
1 TTTGGACAGCATATATACAACAA
**
48573760 TTTAGG-CAGCATATATTTAACAAA
1 TTT-GGACAGCATATATACAAC-AA
* * * *
48573784 TTGAGGA-A-CATTTTTACATCAAA
1 TT-TGGACAGCATATATACAAC-AA
*
48573807 ATTGGACAGCATATATACAACAA
1 TTTGGACAGCATATATACAACAA
* * *
48573830 TTTAGG-TAGCATATATATACCAA
1 TTT-GGACAGCATATATACAACAA
* * * * *
48573853 ATT-GAGCAACATTTTTACATCAA
1 TTTGGA-CAGCATATATACAACAA
*
48573876 ATTGGACAGCATATATACAACAA
1 TTTGGACAGCATATATACAACAA
*
48573899 TTTAGG-CAGCATATATATAACAA
1 TTT-GGACAGCATATATACAACAA
* * * *
48573922 TTT-GAGCAACATTTTTACATCAAA
1 TTTGGA-CAGCATATATACAAC-AA
* * *
48573946 ATTGGACATCATATATATAACAA
1 TTTGGACAGCATATATACAACAA
*
48573969 TTTAGG-CAGCATAAATACAACGAA
1 TTT-GGACAGCATATATACAAC-AA
*
48573993 -TTGGGCAGCAT
1 TTTGGACAGCAT
48574004 TTAAGCATCA
Statistics
Matches: 340, Mismatches: 85, Indels: 64
0.70 0.17 0.13
Matches are distributed among these distances:
21 2 0.01
22 13 0.04
23 214 0.63
24 70 0.21
25 36 0.11
26 5 0.01
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (23 bp):
TTTGGACAGCATATATACAACAA
Found at i:48574005 original size:139 final size:140
Alignment explanation
Indices: 48573537--48573981 Score: 635
Period size: 139 Copynumber: 3.2 Consensus size: 140
48573527 GGACAGCTCT
* * * * * *
48573537 TATACATCAATTT-GGACAGCATTTATATACCAAACT-AGACAGCATTTTCACACCAAAATTTGG
1 TATACAACAATTTAGG-CAGCATATATATACCAAATTGAG-CAACATTTTTACATCAAAA-TTGG
* * * *
48573600 ACAGCATATATACAACAATTTGGGCAGCATATATACAACAAAATTGAGCAGCATTTTTACACCAA
63 ACAGCATATATACAACAATTTAGGCAGCATATATATAAC-AAATTGAGCAACATTTTTACATC-A
48573665 AAATTGGACAGCATA
126 AAATTGGACAGCATA
* * * *
48573680 TATACAACAAATTGGGCAGCATATATATACCAAATTAAGCAACATTTTTACATCAAAATTTGACA
1 TATACAACAATTTAGGCAGCATATATATACCAAATTGAGCAACATTTTTACATCAAAATTGGACA
* * *
48573745 GCATATATACGACAATTTAGGCAGCATATATTTAACAAATTGAGGAACATTTTTACATCAAAATT
66 GCATATATACAACAATTTAGGCAGCATATATATAACAAATTGAGCAACATTTTTACATCAAAATT
48573810 GGACAGCATA
131 GGACAGCATA
*
48573820 TATACAACAATTTAGGTAGCATATATATACCAAATTGAGCAACATTTTTACATC-AAATTGGACA
1 TATACAACAATTTAGGCAGCATATATATACCAAATTGAGCAACATTTTTACATCAAAATTGGACA
*
48573884 GCATATATACAACAATTTAGGCAGCATATATATAACAATTTGAGCAACATTTTTACATCAAAATT
66 GCATATATACAACAATTTAGGCAGCATATATATAACAAATTGAGCAACATTTTTACATCAAAATT
*
48573949 GGACATCATA
131 GGACAGCATA
*
48573959 TATATAACAATTTAGGCAGCATA
1 TATACAACAATTTAGGCAGCATA
48573982 AATACAACGA
Statistics
Matches: 273, Mismatches: 27, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
139 100 0.37
140 66 0.24
141 20 0.07
142 38 0.14
143 45 0.16
144 4 0.01
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (140 bp):
TATACAACAATTTAGGCAGCATATATATACCAAATTGAGCAACATTTTTACATCAAAATTGGACA
GCATATATACAACAATTTAGGCAGCATATATATAACAAATTGAGCAACATTTTTACATCAAAATT
GGACAGCATA
Found at i:48574017 original size:70 final size:70
Alignment explanation
Indices: 48573537--48574005 Score: 611
Period size: 70 Copynumber: 6.7 Consensus size: 70
48573527 GGACAGCTCT
* * * * * * *
48573537 TATACATCAATTT-GGACAGCATTTATATACCAAACT-AGACAGCATTTTCACACCAAAATTTGG
1 TATACAACAATTTAGG-CAGCATATATATAACAAATTGAG-CAACATTTTTACATCAAAA-TTGG
48573600 ACAGCATA
63 ACAGCATA
* * * *
48573608 TATACAACAATTTGGGCAGCATATATACAACAAAATTGAGCAGCATTTTTACACCAAAAATTGGA
1 TATACAACAATTTAGGCAGCATATATATAAC-AAATTGAGCAACATTTTTACATC-AAAATTGGA
48573673 CAGCATA
64 CAGCATA
* * * * *
48573680 TATACAACAAATTGGGCAGCATATATATACCAAATTAAGCAACATTTTTACATCAAAATTTGACA
1 TATACAACAATTTAGGCAGCATATATATAACAAATTGAGCAACATTTTTACATCAAAATTGGACA
48573745 GCATA
66 GCATA
* * *
48573750 TATACGACAATTTAGGCAGCATATATTTAACAAATTGAGGAACATTTTTACATCAAAATTGGACA
1 TATACAACAATTTAGGCAGCATATATATAACAAATTGAGCAACATTTTTACATCAAAATTGGACA
48573815 GCATA
66 GCATA
* *
48573820 TATACAACAATTTAGGTAGCATATATATACCAAATTGAGCAACATTTTTACATC-AAATTGGACA
1 TATACAACAATTTAGGCAGCATATATATAACAAATTGAGCAACATTTTTACATCAAAATTGGACA
48573884 GCATA
66 GCATA
*
48573889 TATACAACAATTTAGGCAGCATATATATAACAATTTGAGCAACATTTTTACATCAAAATTGGACA
1 TATACAACAATTTAGGCAGCATATATATAACAAATTGAGCAACATTTTTACATCAAAATTGGACA
*
48573954 TCATA
66 GCATA
* * * * * *
48573959 TATATAACAATTTAGGCAGCATAAATACAACGAATTGGGCAGCATTT
1 TATACAACAATTTAGGCAGCATATATATAACAAATTGAGCAACATTT
48574006 AAGCATCAAA
Statistics
Matches: 356, Mismatches: 37, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
69 66 0.19
70 180 0.51
71 44 0.12
72 60 0.17
73 6 0.02
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (70 bp):
TATACAACAATTTAGGCAGCATATATATAACAAATTGAGCAACATTTTTACATCAAAATTGGACA
GCATA
Found at i:48574749 original size:28 final size:28
Alignment explanation
Indices: 48574717--48574782 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
48574707 CGAAAATATT
*
48574717 ACTTAGTGCTTAATAA-TAAATCTCGCAC
1 ACTTAGTGCTTAACAATTAAA-CTCGCAC
*
48574745 ACTTAGTGCTTTACAATTAAACTCGCAC
1 ACTTAGTGCTTAACAATTAAACTCGCAC
48574773 ACTTAGTGCT
1 ACTTAGTGCT
48574783 AATCTCATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 31 0.89
29 4 0.11
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (28 bp):
ACTTAGTGCTTAACAATTAAACTCGCAC
Found at i:48576073 original size:30 final size:30
Alignment explanation
Indices: 48576030--48576096 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
48576020 ATTTCAGGGG
* *
48576030 TCACACACTCGTGTGGCCAAGCCGTGTGCC
1 TCACACGCCCGTGTGGCCAAGCCGTGTGCC
*
48576060 TCACACGCCCGTGTGGCCAAGTCGTGTGCC
1 TCACACGCCCGTGTGGCCAAGCCGTGTGCC
48576090 TCACACG
1 TCACACG
48576097 ATTGAGACAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.16, C:0.37, G:0.27, T:0.19
Consensus pattern (30 bp):
TCACACGCCCGTGTGGCCAAGCCGTGTGCC
Found at i:48577098 original size:44 final size:44
Alignment explanation
Indices: 48577047--48577133 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
48577037 TCATATTTCA
48577047 TTTCTCATCTCATAATCATTTCTCATATTTGT-CATTTCAATATT
1 TTTCTCATCTCATAATCATTTCTCATATTT-TCCATTTCAATATT
* *
48577091 TTTCTCATCTCATAATCATTTCTCATCTTTTCCATTTCGATAT
1 TTTCTCATCTCATAATCATTTCTCATATTTTCCATTTCAATAT
48577134 CAATCACATA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
43 1 0.03
44 39 0.98
ACGTcount: A:0.23, C:0.23, G:0.02, T:0.52
Consensus pattern (44 bp):
TTTCTCATCTCATAATCATTTCTCATATTTTCCATTTCAATATT
Found at i:48582065 original size:6 final size:6
Alignment explanation
Indices: 48582054--48582109 Score: 50
Period size: 6 Copynumber: 10.0 Consensus size: 6
48582044 CGTCGATTAG
*
48582054 TTATTT TTA--T TTAGTT TTATGTT TTA--T TTATTT TTA-TT TTATTT
1 TTATTT TTATTT TTATTT TTAT-TT TTATTT TTATTT TTATTT TTATTT
*
48582098 TTATTG TTATTT
1 TTATTT TTATTT
48582110 GTTTTTCTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
4 8 0.20
5 5 0.12
6 23 0.56
7 5 0.12
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (6 bp):
TTATTT
Found at i:48582083 original size:11 final size:10
Alignment explanation
Indices: 48582054--48582102 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
48582044 CGTCGATTAG
48582054 TTATTTTTAT
1 TTATTTTTAT
*
48582064 TTAGTTTTA-
1 TTATTTTTAT
*
48582073 -T-GTTTTAT
1 TTATTTTTAT
48582081 TTATTTTTATT
1 TTATTTTTA-T
48582092 TTATTTTTAT
1 TTATTTTTAT
48582102 T
1 T
48582103 GTTATTTGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
7 6 0.18
8 1 0.03
9 1 0.03
10 15 0.45
11 10 0.30
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (10 bp):
TTATTTTTAT
Found at i:48582092 original size:27 final size:27
Alignment explanation
Indices: 48582054--48582120 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
48582044 CGTCGATTAG
*
48582054 TTATTTTTA-TTTAGTTTTATGTTTTAT
1 TTATTTTTATTTTAGTTTTAT-TGTTAT
*
48582081 TTATTTTTATTTTATTTTTATTGTTAT
1 TTATTTTTATTTTAGTTTTATTGTTAT
* *
48582108 TTGTTTTTCTTTT
1 TTATTTTTATTTT
48582121 TTGGATTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 25 0.71
28 10 0.29
ACGTcount: A:0.15, C:0.01, G:0.06, T:0.78
Consensus pattern (27 bp):
TTATTTTTATTTTAGTTTTATTGTTAT
Found at i:48582100 original size:17 final size:16
Alignment explanation
Indices: 48582054--48582109 Score: 67
Period size: 17 Copynumber: 3.4 Consensus size: 16
48582044 CGTCGATTAG
*
48582054 TTATTTTTATTTAGTT
1 TTATTTTTATTTATTT
48582070 TTATGTTTTATTTATTT
1 TTAT-TTTTATTTATTT
* *
48582087 TTATTTTATTTTTATTG
1 TTATTTT-TATTTATTT
48582104 TTATTT
1 TTATTT
48582110 GTTTTTCTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
16 7 0.20
17 28 0.80
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.77
Consensus pattern (16 bp):
TTATTTTTATTTATTT
Found at i:48582165 original size:50 final size:52
Alignment explanation
Indices: 48582076--48582174 Score: 116
Period size: 50 Copynumber: 1.9 Consensus size: 52
48582066 AGTTTTATGT
* * * *
48582076 TTTATTTATTTTTATTTTATTTTTATTGTTA-TTTGTTTTT-CTTTTTTGGA
1 TTTATATATTTTTAATGTATTTTTACTGTTATTTTGTTTTTACTTTTTTGGA
48582126 TTTATATATTTTTAATGTA-TTTTACTGTTATTGCTT-TTTTTACTTTTTT
1 TTTATATATTTTTAATGTATTTTTACTGTTATT--TTGTTTTTACTTTTTT
48582175 CTATTTGTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
49 10 0.24
50 17 0.41
51 5 0.12
52 9 0.22
ACGTcount: A:0.16, C:0.04, G:0.07, T:0.73
Consensus pattern (52 bp):
TTTATATATTTTTAATGTATTTTTACTGTTATTTTGTTTTTACTTTTTTGGA
Found at i:48594227 original size:4 final size:4
Alignment explanation
Indices: 48594218--48594248 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
48594208 AAGTTTTATT
48594218 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
48594249 TACTTAGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:48605539 original size:66 final size:66
Alignment explanation
Indices: 48605428--48605573 Score: 163
Period size: 66 Copynumber: 2.2 Consensus size: 66
48605418 ATAAAGAATT
* * * * * *
48605428 TGATGGGGAGGATGATGTTGAATGGGTAGAAGCTGCTGGAAAGGGTGATG-TTAAAGGTGTAGAA
1 TGATAGGGAGGGTGATGTTGAAGGGGTAAAAGCTGCTGAAAAGGGTAATGTTTAAAGG-GTAGAA
48605492 GC
65 GC
* *
48605494 T-ACTAGGGAGGGTGATGTTGAAGGGGTAAAAGCT-TTTAAAGAGGGTAATGTTTAAAGGGTAGA
1 TGA-TAGGGAGGGTGATGTTGAAGGGGTAAAAGCTGCTGAAA-AGGGTAATGTTTAAAGGGTAGA
48605557 AGC
64 AGC
*
48605560 TGATAGAGAGGGTG
1 TGATAGGGAGGGTG
48605574 TGACTGCTGC
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
65 4 0.06
66 55 0.82
67 8 0.12
ACGTcount: A:0.31, C:0.04, G:0.40, T:0.25
Consensus pattern (66 bp):
TGATAGGGAGGGTGATGTTGAAGGGGTAAAAGCTGCTGAAAAGGGTAATGTTTAAAGGGTAGAAG
C
Found at i:48605570 original size:33 final size:33
Alignment explanation
Indices: 48605435--48605573 Score: 129
Period size: 33 Copynumber: 4.2 Consensus size: 33
48605425 ATTTGATGGG
* * * *
48605435 GAGGATGATGTTGAATGGGTAGAAGCTGCTGGA
1 GAGGGTGATGTTGAAAGGGTAGAAGCTGATAGA
* *
48605468 AAGGGTGATGTT-AAAGGTGTAGAAGCT-ACTAGG
1 GAGGGTGATGTTGAAAGG-GTAGAAGCTGA-TAGA
* * ** *
48605501 GAGGGTGATGTTGAAGGGGTAAAAGCTTTTAAA
1 GAGGGTGATGTTGAAAGGGTAGAAGCTGATAGA
* *
48605534 GAGGGTAATGTTTAAAGGGTAGAAGCTGATAGA
1 GAGGGTGATGTTGAAAGGGTAGAAGCTGATAGA
48605567 GAGGGTG
1 GAGGGTG
48605574 TGACTGCTGC
Statistics
Matches: 82, Mismatches: 20, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
32 4 0.05
33 74 0.90
34 4 0.05
ACGTcount: A:0.32, C:0.04, G:0.40, T:0.24
Consensus pattern (33 bp):
GAGGGTGATGTTGAAAGGGTAGAAGCTGATAGA
Found at i:48614500 original size:21 final size:21
Alignment explanation
Indices: 48614439--48614502 Score: 110
Period size: 21 Copynumber: 3.0 Consensus size: 21
48614429 TTCGGGTGGA
*
48614439 TCAGCTCTTGTGAGCTTCTAT
1 TCAGCTCTTGTGAGCTTCTGT
48614460 TCAGCTCTTGTGAGCTTCTGT
1 TCAGCTCTTGTGAGCTTCTGT
*
48614481 TCAGCTCTTTTGAGCTTCTGT
1 TCAGCTCTTGTGAGCTTCTGT
48614502 T
1 T
48614503 GGCGTGTTCG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.11, C:0.23, G:0.20, T:0.45
Consensus pattern (21 bp):
TCAGCTCTTGTGAGCTTCTGT
Found at i:48617565 original size:5 final size:5
Alignment explanation
Indices: 48617555--48617580 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
48617545 CTGCCCTATC
48617555 TCCCT TCCCT TCCCT TCCCT TCCCT T
1 TCCCT TCCCT TCCCT TCCCT TCCCT T
48617581 AAACACGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (5 bp):
TCCCT
Found at i:48653155 original size:18 final size:18
Alignment explanation
Indices: 48653114--48653160 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
48653104 AAAATTCAAA
* *
48653114 AAAAATAATAAAGAATTT
1 AAAAATTATAAAAAATTT
48653132 AAAAATTATAAAAAATGTT
1 AAAAATTATAAAAAAT-TT
48653151 -AAAATTATAA
1 AAAAATTATAA
48653161 TTTTTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 24 0.92
19 2 0.08
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (18 bp):
AAAAATTATAAAAAATTT
Found at i:48653567 original size:17 final size:17
Alignment explanation
Indices: 48653545--48653584 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
48653535 TAGTAAAAAT
48653545 ATAATTTTATTAT-TTTA
1 ATAATTTTA-TATCTTTA
48653562 ATAA-TTTATATCTTTA
1 ATAATTTTATATCTTTA
48653578 A-AATTTT
1 ATAATTTT
48653585 TGAAGAGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 5 0.24
16 12 0.57
17 4 0.19
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (17 bp):
ATAATTTTATATCTTTA
Found at i:48656683 original size:263 final size:263
Alignment explanation
Indices: 48656211--48656706 Score: 753
Period size: 263 Copynumber: 1.9 Consensus size: 263
48656201 TGTCTCTATA
* * * *
48656211 GAGCAGCATGAAGAAAAAGGAATATTAGTTCTTCGGAACAAGGATCAAAAGATAGCACAAAGAAT
1 GAGCAGCATGAAGAAAAAAGAATATTAGTTCTTCAGAAAAAGGATCAAAAGATAGCACAAAGAAG
* *
48656276 GGAGTGTATTAGTATAAGGTGCATAAATGTGTTAGATGATGTGTGGAGAATTGCATGATGTGTAA
66 GGAGTGTAATAGTATAAGGTGCATAAATGTGTTAAATGATGTGTGGAGAATTGCATGATGTGTAA
* * *
48656341 AAGGTATGTGAAATGGTTATGAAAGTTGTTCTATAATGTGGCATACCAATAGAATAGTAGTGATG
131 AAAGCATGTGAAATGGTTATGAAAGTTGTTCTATAATGTGGCATACCAATAGAATAGTAGTAATG
* *
48656406 TGTGCCCGTCAAATGTTGGTCTCTGATAGCAGATAGTGTCCACCAATGGGTTGTATACTGGCTTT
196 TGTGCCCGTCAAATGTCGGTCTCTAATAGCAGATAGTGTCCACCAATGGGTTGTATACTGGCTTT
48656471 ATG
261 ATG
* ** * *
48656474 GAGCGGCATGAAGAAAAAAGAATATTAGTTCTTCAGAAAAAGGATCGGAAGCTAGCACAAGGAAG
1 GAGCAGCATGAAGAAAAAAGAATATTAGTTCTTCAGAAAAAGGATCAAAAGATAGCACAAAGAAG
*
48656539 GGAGTGTAATAGTATAAGGTGCATAGATGTGTTAAATGATGTGTGG-GCAATTGCATGATGTGTA
66 GGAGTGTAATAGTATAAGGTGCATAAATGTGTTAAATGATGTGTGGAG-AATTGCATGATGTGTA
* *
48656603 AAAAGCATGTGAAATGGTTATGAAAGTTGGTT-TATAATGTGTCATACCAATAGAATAGTCGTAA
130 AAAAGCATGTGAAATGGTTATGAAAGTT-GTTCTATAATGTGGCATACCAATAGAATAGTAGTAA
** * *
48656667 TGTGTTTCTGTCAAATGTCGGTCTCTAATAGCGGATAGTG
194 TGTGTGCCCGTCAAATGTCGGTCTCTAATAGCAGATAGTG
48656707 CCTGCAAATG
Statistics
Matches: 208, Mismatches: 23, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
262 1 0.00
263 204 0.98
264 3 0.01
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (263 bp):
GAGCAGCATGAAGAAAAAAGAATATTAGTTCTTCAGAAAAAGGATCAAAAGATAGCACAAAGAAG
GGAGTGTAATAGTATAAGGTGCATAAATGTGTTAAATGATGTGTGGAGAATTGCATGATGTGTAA
AAAGCATGTGAAATGGTTATGAAAGTTGTTCTATAATGTGGCATACCAATAGAATAGTAGTAATG
TGTGCCCGTCAAATGTCGGTCTCTAATAGCAGATAGTGTCCACCAATGGGTTGTATACTGGCTTT
ATG
Found at i:48667784 original size:3 final size:3
Alignment explanation
Indices: 48667776--48667800 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
48667766 AAAAAACCCT
48667776 AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA A
48667801 AAGCTAAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:48671432 original size:33 final size:33
Alignment explanation
Indices: 48671380--48671486 Score: 135
Period size: 33 Copynumber: 3.2 Consensus size: 33
48671370 CTGCCAAGAT
**
48671380 AGTAAACATGGAATAGAGATAGTCCACTAGGAC
1 AGTAAACACAGAATAGAGATAGTCCACTAGGAC
* * *
48671413 AGTAAACACAGAATTGAGATAGTCCGC-CGGAGC
1 AGTAAACACAGAATAGAGATAGTCCACTAGGA-C
* *
48671446 AGTAAACACAAAATAGAGATAGTCCCCTAGGAC
1 AGTAAACACAGAATAGAGATAGTCCACTAGGAC
48671479 AGTAAACA
1 AGTAAACA
48671487 TGAAATAAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
32 3 0.05
33 57 0.90
34 3 0.05
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (33 bp):
AGTAAACACAGAATAGAGATAGTCCACTAGGAC
Found at i:48674991 original size:2 final size:2
Alignment explanation
Indices: 48674984--48675018 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
48674974 ATTATACATG
48674984 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
48675019 CGATCATAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:48675624 original size:2 final size:2
Alignment explanation
Indices: 48675617--48675644 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
48675607 GCATCCATAA
48675617 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
48675645 CAACCACCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48675875 original size:41 final size:41
Alignment explanation
Indices: 48675773--48675878 Score: 167
Period size: 41 Copynumber: 2.6 Consensus size: 41
48675763 ACTAGCAATT
* * * *
48675773 AGCCTGCTGGACGTAAAGTCCGAAATATTTCACCGGCGTCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
*
48675814 AGCCTGCTAGACGTATAGTCTGAAACATTTCACCGGCATCA
1 AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
48675855 AGCCTGCTAGACGTAAAGTCTGAA
1 AGCCTGCTAGACGTAAAGTCTGAA
48675879 TTATCTCATT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (41 bp):
AGCCTGCTAGACGTAAAGTCTGAAACATTTCACCGGCATCA
Found at i:48681835 original size:15 final size:15
Alignment explanation
Indices: 48681815--48681843 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
48681805 TAAGTCCCTG
48681815 AATTTCAAAATTTTA
1 AATTTCAAAATTTTA
48681830 AATTTCAAAATTTT
1 AATTTCAAAATTTT
48681844 CATAATTTAG
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:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (15 bp):
AATTTCAAAATTTTA
Found at i:48688608 original size:14 final size:16
Alignment explanation
Indices: 48688578--48688609 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
48688568 CATTCAATTC
48688578 ATCACTTCATAAACAT
1 ATCACTTCATAAACAT
48688594 ATCA-TTCAT-AACAT
1 ATCACTTCATAAACAT
48688608 AT
1 AT
48688610 TCAATTCTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.44
15 5 0.31
16 4 0.25
ACGTcount: A:0.44, C:0.22, G:0.00, T:0.34
Consensus pattern (16 bp):
ATCACTTCATAAACAT
Found at i:48688634 original size:22 final size:21
Alignment explanation
Indices: 48688609--48688651 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
48688599 TCATAACATA
*
48688609 TTCAATTCTCATCACTTGCTAT
1 TTCAAGTCTCAT-ACTTGCTAT
48688631 TTCAAGTCTCATACTTGCTAT
1 TTCAAGTCTCATACTTGCTAT
48688652 CAAATAGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.23, C:0.26, G:0.07, T:0.44
Consensus pattern (21 bp):
TTCAAGTCTCATACTTGCTAT
Found at i:48689777 original size:21 final size:21
Alignment explanation
Indices: 48689733--48689778 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
48689723 GCCTTTCTCC
* * **
48689733 TTCTTTCTTTCTCTTTTTTTT
1 TTCTTTCATTCTCTGTTTCGT
48689754 TTCTTTCATTCTCTGTTTCGT
1 TTCTTTCATTCTCTGTTTCGT
48689775 TTCT
1 TTCT
48689779 ACACTTGTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.22, G:0.04, T:0.72
Consensus pattern (21 bp):
TTCTTTCATTCTCTGTTTCGT
Found at i:48699283 original size:22 final size:22
Alignment explanation
Indices: 48699255--48699351 Score: 122
Period size: 22 Copynumber: 4.4 Consensus size: 22
48699245 TTTATTGTTC
*
48699255 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
48699277 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
**
48699299 AGCCATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
** * * *
48699321 AGCCATGAGGGTTTAGTTCGTT
1 AAACATGAGAGCTTAGTACGTT
48699343 AAACATGAG
1 AAACATGAG
48699352 CACTACACAT
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 67 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTT
Found at i:48703097 original size:4 final size:4
Alignment explanation
Indices: 48703075--48703112 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
48703065 TGCAATTGGA
*
48703075 ATGT AGGT ATAGT -TGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT AT-GT ATGT ATGT ATGT ATGT ATGT ATGT AT
48703113 AAAAGATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 2 0.07
4 26 0.87
5 2 0.07
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (4 bp):
ATGT
Found at i:48705939 original size:17 final size:18
Alignment explanation
Indices: 48705899--48705939 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
48705889 CTTTTTTCAG
48705899 TTTAGGAGGTTGAATAACAA
1 TTTAGGAGGTTGAAT-A-AA
48705919 TTTAGGAGGTTGAAT-AA
1 TTTAGGAGGTTGAATAAA
48705936 TTTA
1 TTTA
48705940 TAAAGGAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.29
20 15 0.71
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.37
Consensus pattern (18 bp):
TTTAGGAGGTTGAATAAA
Found at i:48711539 original size:20 final size:20
Alignment explanation
Indices: 48711514--48711551 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48711504 AAAGTATATT
* *
48711514 AATTTTTTATTAATTGTTTG
1 AATTTTATATGAATTGTTTG
48711534 AATTTTATATGAATTGTT
1 AATTTTATATGAATTGTT
48711552 ACATAAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.61
Consensus pattern (20 bp):
AATTTTATATGAATTGTTTG
Found at i:48712544 original size:20 final size:20
Alignment explanation
Indices: 48712519--48712561 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
48712509 TTAAGCTAGT
48712519 TAAAGTCT-GTTTTAGTATAA
1 TAAAGTCTAG-TTTAGTATAA
*
48712539 TAAAGTCTAGTTTATTATAA
1 TAAAGTCTAGTTTAGTATAA
48712559 TAA
1 TAA
48712562 CATTGTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (20 bp):
TAAAGTCTAGTTTAGTATAA
Found at i:48724248 original size:23 final size:24
Alignment explanation
Indices: 48724217--48724270 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
48724207 TAAATTATAA
*
48724217 AATATTAAAATATTAAAAATAAAT
1 AATATTAAAAAATTAAAAATAAAT
* *
48724241 AATA-TAAAAAATTTAAAATGAAT
1 AATATTAAAAAATTAAAAATAAAT
*
48724264 ATTATTA
1 AATATTA
48724271 TATTTATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (24 bp):
AATATTAAAAAATTAAAAATAAAT
Found at i:48732392 original size:21 final size:20
Alignment explanation
Indices: 48732353--48732393 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
48732343 AAGCAAAAAC
* *
48732353 AAAAATAAGATAAATAATAA
1 AAAAATAAGACAAACAATAA
48732373 AAAAATAAGACAAACCAATAA
1 AAAAATAAGACAAA-CAATAA
48732394 TAAGTAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.73, C:0.07, G:0.05, T:0.15
Consensus pattern (20 bp):
AAAAATAAGACAAACAATAA
Found at i:48732392 original size:24 final size:23
Alignment explanation
Indices: 48732365--48732409 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
48732355 AAATAAGATA
48732365 AATAATAAAAAAATAAGACAAACC
1 AATAATAAAAAAATAA-ACAAACC
**
48732389 AATAATAAGTAAATAAACAAA
1 AATAATAAAAAAATAAACAAA
48732410 TAAAACCTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.71, C:0.09, G:0.04, T:0.16
Consensus pattern (23 bp):
AATAATAAAAAAATAAACAAACC
Found at i:48732615 original size:8 final size:8
Alignment explanation
Indices: 48732601--48732651 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
48732591 AAATGGATAA
48732601 ATAAAAAT
1 ATAAAAAT
48732609 AGTAAAAAT
1 A-TAAAAAT
48732618 ATAAAAAT
1 ATAAAAAT
48732626 AT-AAAAT
1 ATAAAAAT
48732633 A-AAACAA-
1 ATAAA-AAT
*
48732640 AAAAAAAT
1 ATAAAAAT
48732648 ATAA
1 ATAA
48732652 GGAAAATAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
7 11 0.30
8 18 0.49
9 8 0.22
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (8 bp):
ATAAAAAT
Found at i:48737042 original size:2 final size:2
Alignment explanation
Indices: 48737035--48737063 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
48737025 CAAATATTCT
48737035 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
48737064 GTACATATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48741622 original size:24 final size:24
Alignment explanation
Indices: 48741594--48741641 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
48741584 TTCATATTAA
48741594 ATATTGAATATTTAAATTTTTACT
1 ATATTGAATATTTAAATTTTTACT
48741618 ATATTGAATATTTAAATTTTTACT
1 ATATTGAATATTTAAATTTTTACT
48741642 CAATATTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (24 bp):
ATATTGAATATTTAAATTTTTACT
Found at i:48742079 original size:18 final size:18
Alignment explanation
Indices: 48742056--48742095 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
48742046 CGTGCGTGAC
48742056 TTTCTTTTC-TTCTTTCTT
1 TTTCTTTTCTTTCTTT-TT
48742074 TTTC-TTTCTTTCTTTTT
1 TTTCTTTTCTTTCTTTTT
48742091 TTTCT
1 TTTCT
48742096 AATTTGTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTCTTTTCTTTCTTTTT
Found at i:48742083 original size:17 final size:17
Alignment explanation
Indices: 48742056--48742095 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 17
48742046 CGTGCGTGAC
48742056 TTTCTTT-TCTTCTTTCTT
1 TTTCTTTCT-TTCTTT-TT
48742074 TTTCTTTCTTTCTTTTT
1 TTTCTTTCTTTCTTTTT
48742091 TTTCT
1 TTTCT
48742096 AATTTGTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.33
18 13 0.62
19 1 0.05
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTCTTTCTTTCTTTTT
Found at i:48742172 original size:18 final size:18
Alignment explanation
Indices: 48742128--48742176 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
48742118 CTTTCTTTAT
*
48742128 TTTTTTTATTATACTAAA
1 TTTTATTATTATACTAAA
* *
48742146 TTTTTTTATTATACTTTAA
1 TTTTATTATTATAC-TAAA
48742165 -TTTATTATTATA
1 TTTTATTATTATA
48742177 ATATATATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 25 0.89
19 3 0.11
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTATTATTATACTAAA
Found at i:48747053 original size:10 final size:10
Alignment explanation
Indices: 48747008--48747061 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
48746998 TTTATAACCC
48747008 AAAAAATTAT
1 AAAAAATTAT
*
48747018 AAAAAGTT-T
1 AAAAAATTAT
*
48747027 AAAGAA-TAT
1 AAAAAATTAT
*
48747036 ATAAAAATTTT
1 A-AAAAATTAT
48747047 AAAAAA-TAT
1 AAAAAATTAT
48747056 AAAAAA
1 AAAAAA
48747062 AACCTAAACT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
8 1 0.03
9 15 0.43
10 16 0.46
11 3 0.09
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.28
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:48747062 original size:20 final size:20
Alignment explanation
Indices: 48747008--48747061 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
48746998 TTTATAACCC
48747008 AAAAAAT-TATAAAAAGTTT
1 AAAAAATATATAAAAAGTTT
* *
48747027 AAAGAATATATAAAAATTTT
1 AAAAAATATATAAAAAGTTT
48747047 AAAAAATATA-AAAAA
1 AAAAAATATATAAAAA
48747062 AACCTAAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 11 0.35
20 20 0.65
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.28
Consensus pattern (20 bp):
AAAAAATATATAAAAAGTTT
Found at i:48747084 original size:14 final size:13
Alignment explanation
Indices: 48747061--48747090 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
48747051 AATATAAAAA
48747061 AAACCTAAACTCT
1 AAACCTAAACTCT
48747074 AAACACTAAACTCT
1 AAAC-CTAAACTCT
48747088 AAA
1 AAA
48747091 ATACCACCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (13 bp):
AAACCTAAACTCT
Found at i:48763147 original size:20 final size:20
Alignment explanation
Indices: 48763124--48763166 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
48763114 TAAAAATATT
48763124 TAAAATTAAAAATATTTTTA
1 TAAAATTAAAAATATTTTTA
* *
48763144 TAAAATTAAAATTGTTTTTA
1 TAAAATTAAAAATATTTTTA
48763164 TAA
1 TAA
48763167 TGTTTCACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
TAAAATTAAAAATATTTTTA
Found at i:48763991 original size:15 final size:16
Alignment explanation
Indices: 48763945--48763991 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
48763935 TATAAAAATC
*
48763945 ATATATAAAACCTTAAT
1 ATATATAAAA-ATTAAT
48763962 ATATATGAAATAATTAA-
1 ATATAT-AAA-AATTAAT
48763979 ATATATAAAAATT
1 ATATATAAAAATT
48763992 CAAAAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 4 0.15
16 3 0.11
17 12 0.44
18 7 0.26
19 1 0.04
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (16 bp):
ATATATAAAAATTAAT
Found at i:48781251 original size:23 final size:22
Alignment explanation
Indices: 48781198--48781252 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
48781188 GACACATACA
*
48781198 ATTTGTTTATTATTTTAGTTTTT
1 ATTT-TTTATTATTTTAGTTTTG
48781221 ACTATTTTT-TTATTTTAGTATTTG
1 A-T-TTTTTATTATTTTAGT-TTTG
48781245 ATTTTTTA
1 ATTTTTTA
48781253 ACTCAATCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
22 5 0.19
23 12 0.44
24 8 0.30
25 2 0.07
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.71
Consensus pattern (22 bp):
ATTTTTTATTATTTTAGTTTTG
Found at i:48792687 original size:26 final size:24
Alignment explanation
Indices: 48792648--48792697 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
48792638 TACACCATAG
48792648 GTCACCCAACTATGGATCATTTTTTT
1 GTCACCCAACTAT-GAT-ATTTTTTT
*
48792674 GTCACCCAATTATGATATTTTTTT
1 GTCACCCAACTATGATATTTTTTT
48792698 TTTAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 8 0.35
25 3 0.13
26 12 0.52
ACGTcount: A:0.24, C:0.20, G:0.10, T:0.46
Consensus pattern (24 bp):
GTCACCCAACTATGATATTTTTTT
Found at i:48795782 original size:3 final size:3
Alignment explanation
Indices: 48795667--48795764 Score: 196
Period size: 3 Copynumber: 32.7 Consensus size: 3
48795657 TATTTTCTCC
48795667 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
48795715 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
48795763 TT
1 TT
48795765 GGTATTGTAA
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 95 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:48795894 original size:2 final size:2
Alignment explanation
Indices: 48795887--48795913 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
48795877 CTATACATTT
48795887 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
48795914 TATTCTCCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:48796125 original size:22 final size:22
Alignment explanation
Indices: 48796097--48796249 Score: 225
Period size: 22 Copynumber: 7.0 Consensus size: 22
48796087 TTTATTGTTC
*
48796097 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
48796119 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
**
48796141 AGCCATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
** * * *
48796163 AGCCATGAGGGTTTAGTTCGTT
1 AAACATGAGAGCTTAGTACGTT
48796185 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
*
48796207 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
48796229 AAACATGAGAGCTTAGTACGT
1 AAACATGAGAGCTTAGTACGT
48796250 ACTATCAACA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 119 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTT
Done.