Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 100 of 143
Found at i:30812976 original size:30 final size:29
Alignment explanation
Indices: 30812942--30813305 Score: 275
Period size: 29 Copynumber: 12.3 Consensus size: 29
30812932 CTAAAATCAT
* *
30812942 ATTTTAACCCTCAAACTCTTTAAAAATTAC
1 ATTTTTACCCTCAAACT-TTCAAAAATTAC
* *
30812972 ATTTTAACCCTTAAACTTTCCAAAAATTAC
1 ATTTTTACCCTCAAACTTT-CAAAAATTAC
* * *
30813002 ATTTTGACCC-CTAAACTTTTTATAAATTAC
1 ATTTTTACCCTC-AAAC-TTTCAAAAATTAC
*
30813032 ATTTTAATCCCT-AAACTTCTCAAAAATTAC
1 ATTTTTA-CCCTCAAACTT-TCAAAAATTAC
* *
30813062 ATTTTCACCCTTAAACTTTCTCAAAAATTAC
1 ATTTTTACCCTCAAAC-TT-TCAAAAATTAC
*
30813093 ATTTTTACCC-CTAAA-TTTCTAAAAATCAC
1 ATTTTTACCCTC-AAACTTTC-AAAAATTAC
* * *
30813122 ATTTTTACCC-CATACTTCCAAAAATCACC
1 ATTTTTACCCTCAAACTTTCAAAAATTA-C
*
30813151 A-TTTTA-CCTCTGAACTTCTCAAAAAATTAC
1 ATTTTTACCCTC-AAACTT-TC-AAAAATTAC
* * * *
30813181 ATTTTTACCCCCGAACTTCCATAAATTAC
1 ATTTTTACCCTCAAACTTTCAAAAATTAC
* *
30813210 ATTTTTACCCTCGAACTTCCAAAAATTAC
1 ATTTTTACCCTCAAACTTTCAAAAATTAC
* *
30813239 ATTTTTACCCTCGAACTTTCAAAAATCAGC
1 ATTTTTACCCTCAAACTTTCAAAAATTA-C
30813269 A--TTTACCCTCGAGAA-TTT-AAAAATTACC
1 ATTTTTACCCTC-A-AACTTTCAAAAATTA-C
30813297 A-TTTTACCC
1 ATTTTTACCC
30813306 CTAATTTTCC
Statistics
Matches: 283, Mismatches: 29, Indels: 45
0.79 0.08 0.13
Matches are distributed among these distances:
27 2 0.01
28 36 0.13
29 109 0.39
30 83 0.29
31 50 0.18
32 3 0.01
ACGTcount: A:0.36, C:0.26, G:0.02, T:0.36
Consensus pattern (29 bp):
ATTTTTACCCTCAAACTTTCAAAAATTAC
Found at i:30813006 original size:60 final size:59
Alignment explanation
Indices: 30812928--30813264 Score: 285
Period size: 60 Copynumber: 5.7 Consensus size: 59
30812918 GTCCCTGAAT
* * * * *
30812928 TTTCCTAAAATCATATTTTAACCCTCAAACTCTTTAAAAATTACATTTTAACCCTTAAAC
1 TTTCCAAAAATTACATTTTTACCCTCAAACT-TTCAAAAATTACATTTTAACCCTTAAAC
* * *
30812988 TTTCCAAAAATTACATTTTGACCC-CTAAACTTTTTATAAATTACATTTTAATCCC-TAAAC
1 TTTCCAAAAATTACATTTTTACCCTC-AAAC-TTTCAAAAATTACATTTTAA-CCCTTAAAC
* * * *
30813048 -TTCTCAAAAATTACATTTTCACCCTTAAACTTTCTCAAAAATTACATTTTTACCCCTAAA-
1 TTTC-CAAAAATTACATTTTTACCCTCAAAC-TT-TCAAAAATTACATTTTAACCCTTAAAC
* * * * * *
30813108 TTTCTAAAAATCACATTTTTACCC-CATACTTCCAAAAATCACCATTTT-A-CCTCTGAAC
1 TTTCCAAAAATTACATTTTTACCCTCAAACTTTCAAAAATTA-CATTTTAACCCT-TAAAC
* * * * * * **
30813166 TTCTCAAAAAATTACATTTTTACCCCCGAACTTCCATAAATTACATTTTTACCCTCGAAC
1 TT-TCCAAAAATTACATTTTTACCCTCAAACTTTCAAAAATTACATTTTAACCCTTAAAC
*
30813226 -TTCCAAAAATTACATTTTTACCCTCGAACTTTCAAAAAT
1 TTTCCAAAAATTACATTTTTACCCTCAAACTTTCAAAAAT
30813265 CAGCATTTAC
Statistics
Matches: 232, Mismatches: 30, Indels: 32
0.79 0.10 0.11
Matches are distributed among these distances:
56 2 0.01
57 12 0.05
58 44 0.19
59 34 0.15
60 111 0.48
61 29 0.12
ACGTcount: A:0.36, C:0.25, G:0.01, T:0.37
Consensus pattern (59 bp):
TTTCCAAAAATTACATTTTTACCCTCAAACTTTCAAAAATTACATTTTAACCCTTAAAC
Found at i:30813126 original size:29 final size:29
Alignment explanation
Indices: 30812962--30813319 Score: 230
Period size: 30 Copynumber: 12.2 Consensus size: 29
30812952 TCAAACTCTT
* *
30812962 TAAAAATTACATTTTAACCCTTAAACTTTC
1 TAAAAATTACATTTTTACCCCTAAA-TTTC
* * *
30812992 CAAAAATTACATTTTGACCCCTAAACTTTT
1 TAAAAATTACATTTTTACCCCTAAA-TTTC
* * * *
30813022 TATAAATTACATTTTAATCCCTAAACTTC
1 TAAAAATTACATTTTTACCCCTAAATTTC
* *
30813051 TCAAAAATTACATTTTCACCCTTAAACTTTC
1 T-AAAAATTACATTTTTACCCCTAAA-TTTC
30813082 TCAAAAATTACATTTTTACCCCTAAATTTC
1 T-AAAAATTACATTTTTACCCCTAAATTTC
* * *
30813112 TAAAAATCACATTTTTACCCC-ATACTTC
1 TAAAAATTACATTTTTACCCCTAAATTTC
* * * *
30813140 CAAAAATCACCA-TTTTACCTCTGAACTTCTC
1 TAAAAATTA-CATTTTTACCCCT-AAATT-TC
* ** *
30813171 AAAAAATTACATTTTTACCCCCGAACTTC
1 TAAAAATTACATTTTTACCCCTAAATTTC
* * * *
30813200 CATAAATTACATTTTTA-CCCTCGAACTTC
1 TAAAAATTACATTTTTACCCCT-AAATTTC
* * *
30813229 CAAAAATTACATTTTTACCCTCGAACTTTC
1 TAAAAATTACATTTTTACCC-CTAAATTTC
* *
30813259 -AAAAATCAGCA--TTTACCCTCGAGAA-TT-
1 TAAAAATTA-CATTTTTACCC-CTA-AATTTC
*
30813286 TAAAAATTACCA-TTTTACCCCTAATTTTC
1 TAAAAATTA-CATTTTTACCCCTAAATTTC
*
30813315 CAAAA
1 TAAAA
30813320 GTTTAACTTT
Statistics
Matches: 265, Mismatches: 47, Indels: 33
0.77 0.14 0.10
Matches are distributed among these distances:
27 1 0.00
28 50 0.19
29 83 0.31
30 86 0.32
31 45 0.17
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.36
Consensus pattern (29 bp):
TAAAAATTACATTTTTACCCCTAAATTTC
Found at i:30813355 original size:30 final size:30
Alignment explanation
Indices: 30813302--30813380 Score: 79
Period size: 30 Copynumber: 2.7 Consensus size: 30
30813292 TTACCATTTT
* * *
30813302 ACCCCTAA-TTTTCCAAAAGTTTAACTTTA
1 ACCCCAAATTTTTCAAAAATTTTAACTTTA
* * *
30813331 ATCCCAAATTTTTCAAAAATTTTAATTTTG
1 ACCCCAAATTTTTCAAAAATTTTAACTTTA
* *
30813361 ACCCCAAATTCTTCGAAAAT
1 ACCCCAAATTTTTCAAAAAT
30813381 CACATTTTTA
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
29 6 0.15
30 34 0.85
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.38
Consensus pattern (30 bp):
ACCCCAAATTTTTCAAAAATTTTAACTTTA
Found at i:30821311 original size:31 final size:30
Alignment explanation
Indices: 30821276--30821372 Score: 89
Period size: 31 Copynumber: 3.3 Consensus size: 30
30821266 ATATTTGAAT
*
30821276 ATTTGATACTTCAATTTGACACTTTTTCTTA
1 ATTTGGTACTT-AATTTGACACTTTTTCTTA
*
30821307 ATTTGGTACTT-A----A-ACTTTTTGGATTCA
1 ATTTGGTACTTAATTTGACACTTTTT--CTT-A
30821334 ATTTGGTACTTGAATTTGACACTTTTTCTTA
1 ATTTGGTACTT-AATTTGACACTTTTTCTTA
30821365 ATTTGGTA
1 ATTTGGTA
30821373 TCTAAACTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 20
0.70 0.04 0.26
Matches are distributed among these distances:
24 7 0.13
25 1 0.02
26 2 0.04
27 12 0.23
29 2 0.04
31 19 0.36
32 2 0.04
33 1 0.02
34 7 0.13
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.51
Consensus pattern (30 bp):
ATTTGGTACTTAATTTGACACTTTTTCTTA
Found at i:30821344 original size:58 final size:59
Alignment explanation
Indices: 30821276--30821435 Score: 209
Period size: 58 Copynumber: 2.7 Consensus size: 59
30821266 ATATTTGAAT
*
30821276 ATTTGATACTTCAATTTGACACTTTTTCTTAATTTGGTA-CTTAAAC-TTTTTGGATTCA
1 ATTTGATACTTCAATTTGACACTTTTTCTTAATTTGGTATC-TAAACTTTTTTGGACTCA
* *
30821334 ATTTGGTACTTGAATTTGACACTTTTTCTTAATTTGGTATCTAAACTTTTTTGGACTCA
1 ATTTGATACTTCAATTTGACACTTTTTCTTAATTTGGTATCTAAACTTTTTTGGACTCA
* * * * * *
30821393 ATTTGATACCTGAACTTGATATTTTTTC-TAATTTAGTATCTAA
1 ATTTGATACTTCAATTTGACACTTTTTCTTAATTTGGTATCTAA
30821436 GTTTTTTTTA
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
58 56 0.62
59 35 0.38
ACGTcount: A:0.26, C:0.13, G:0.11, T:0.49
Consensus pattern (59 bp):
ATTTGATACTTCAATTTGACACTTTTTCTTAATTTGGTATCTAAACTTTTTTGGACTCA
Found at i:30821462 original size:59 final size:57
Alignment explanation
Indices: 30821291--30821462 Score: 170
Period size: 59 Copynumber: 2.9 Consensus size: 57
30821281 ATACTTCAAT
* * *
30821291 TTGACACTTTTTCTTAATTTGGTA-CTTAAAC-TTTTTGGATTCAATTTGGTACTTGAAT
1 TTGACACTTTTTCTTAATTTAGTATC-TAAACTTTTTTGGA-TCAATTT-GTACCTGAAC
*
30821349 TTGACACTTTTTCTTAATTTGGTATCTAAACTTTTTTGGACTCAATTTGATACCTGAAC
1 TTGACACTTTTTCTTAATTTAGTATCTAAACTTTTTTGGA-TCAATTTG-TACCTGAAC
* * ** *
30821408 TTGATATTTTTTC-TAATTTAGTATCTAAGTTTTTTTTAGATACAATTTAGTACCT
1 TTGACACTTTTTCTTAATTTAGTATCTAA-ACTTTTTTGGAT-CAATTT-GTACCT
30821463 AAATTTATTA
Statistics
Matches: 99, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
58 45 0.45
59 53 0.54
60 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.12, T:0.50
Consensus pattern (57 bp):
TTGACACTTTTTCTTAATTTAGTATCTAAACTTTTTTGGATCAATTTGTACCTGAAC
Found at i:30832539 original size:24 final size:24
Alignment explanation
Indices: 30832512--30832575 Score: 103
Period size: 24 Copynumber: 2.7 Consensus size: 24
30832502 AACCTTCATG
30832512 TTAAACTTTGTTTATTTGTTTCAA
1 TTAAACTTTGTTTATTTGTTTCAA
* *
30832536 TTAAACTGTATTTATTTGTTTCAA
1 TTAAACTTTGTTTATTTGTTTCAA
30832560 TTAAAC-TTGTTTATTT
1 TTAAACTTTGTTTATTT
30832576 ATTTTAGTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 8 0.22
24 28 0.78
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.58
Consensus pattern (24 bp):
TTAAACTTTGTTTATTTGTTTCAA
Found at i:30835194 original size:60 final size:60
Alignment explanation
Indices: 30835121--30835241 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
30835111 TTAGACAATG
*
30835121 TACCATTTAGATTACCTACTAATATAAGTTATCTTTTCGCGTTATGATCCGACTACATAA
1 TACCATTTAGATTACCTACTAATATAAGTTATCTTTTCGCATTATGATCCGACTACATAA
30835181 TACCATTTAGATTACCTACTAATATAAGTTATCTTTTCGCATTATGATCCGACTACATAA
1 TACCATTTAGATTACCTACTAATATAAGTTATCTTTTCGCATTATGATCCGACTACATAA
30835241 T
1 T
30835242 GCAACTTAAT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (60 bp):
TACCATTTAGATTACCTACTAATATAAGTTATCTTTTCGCATTATGATCCGACTACATAA
Found at i:30835531 original size:15 final size:15
Alignment explanation
Indices: 30835478--30835539 Score: 61
Period size: 15 Copynumber: 4.1 Consensus size: 15
30835468 GATAAACTAA
* *
30835478 AAAAATTAAGTACTG
1 AAAAATTAAATATTG
* * *
30835493 AAAAAATAAGTGTTG
1 AAAAATTAAATATTG
30835508 AAAAATTAAATATTG
1 AAAAATTAAATATTG
* *
30835523 AAAATTTAAATACTG
1 AAAAATTAAATATTG
30835538 AA
1 AA
30835540 TCTAAATTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 39 1.00
ACGTcount: A:0.56, C:0.03, G:0.11, T:0.29
Consensus pattern (15 bp):
AAAAATTAAATATTG
Found at i:30837103 original size:11 final size:11
Alignment explanation
Indices: 30837087--30837113 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
30837077 ATCATTTTTG
30837087 TTCTTTTTCTT
1 TTCTTTTTCTT
30837098 TTCTTTTTCTT
1 TTCTTTTTCTT
30837109 TTCTT
1 TTCTT
30837114 CTCATCTCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (11 bp):
TTCTTTTTCTT
Found at i:30850680 original size:27 final size:27
Alignment explanation
Indices: 30850647--30850875 Score: 296
Period size: 27 Copynumber: 8.5 Consensus size: 27
30850637 CTGAGCAATA
*
30850647 AGCGATATTCTGTATCTGGCTCAAATG
1 AGCGATATTCTGTATCTGGCTCGAATG
* * *
30850674 AGTGATATTTTGTATTTGGCTCGAATG
1 AGCGATATTCTGTATCTGGCTCGAATG
*
30850701 AGCGATTTTCTGTATCTGGCTCGAATG
1 AGCGATATTCTGTATCTGGCTCGAATG
* * *
30850728 AACGATATTATGTATCTTGCTCGAATG
1 AGCGATATTCTGTATCTGGCTCGAATG
* *
30850755 AGCAATATTCTGTATTTGGCTCGAATG
1 AGCGATATTCTGTATCTGGCTCGAATG
* * * *
30850782 AGAGATATTTTGTGTCTAGCTCGAATG
1 AGCGATATTCTGTATCTGGCTCGAATG
*
30850809 AGCGATATTCTGTATCTAGCTCGAATG
1 AGCGATATTCTGTATCTGGCTCGAATG
* *
30850836 AGCGATATTCTGTATTTGGCTCGAACG
1 AGCGATATTCTGTATCTGGCTCGAATG
*
30850863 AGTGATATTCTGT
1 AGCGATATTCTGT
30850876 TATTGCTGAA
Statistics
Matches: 172, Mismatches: 30, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 172 1.00
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
AGCGATATTCTGTATCTGGCTCGAATG
Found at i:30861240 original size:17 final size:17
Alignment explanation
Indices: 30861215--30861252 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
30861205 ATGCATTTCA
30861215 TTTAATTGTCATTGCAT
1 TTTAATTGTCATTGCAT
* *
30861232 TTTAGTTGTCGTTGCAT
1 TTTAATTGTCATTGCAT
30861249 TTTA
1 TTTA
30861253 CTTATTAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.18, C:0.11, G:0.16, T:0.55
Consensus pattern (17 bp):
TTTAATTGTCATTGCAT
Found at i:30871083 original size:17 final size:17
Alignment explanation
Indices: 30871048--30871085 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
30871038 AAATATGAGA
*
30871048 ACAATTAAAATGCAGTG
1 ACAATTAAAATGCAATG
*
30871065 ACAATTAAAATGTAATG
1 ACAATTAAAATGCAATG
30871082 ACAA
1 ACAA
30871086 CTAGAGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.11, G:0.13, T:0.24
Consensus pattern (17 bp):
ACAATTAAAATGCAATG
Found at i:30871498 original size:3 final size:3
Alignment explanation
Indices: 30871490--30871546 Score: 57
Period size: 3 Copynumber: 19.0 Consensus size: 3
30871480 CGAGGCAACG
*
30871490 TCT TCT TC- TCTT TCT TCCT TC- TCT TCT TTT TCT TCT TCT T-T TCTT
1 TCT TCT TCT TC-T TCT T-CT TCT TCT TCT TCT TCT TCT TCT TCT TC-T
30871535 TCT TCT TCT TCT
1 TCT TCT TCT TCT
30871547 GCCTTAATAC
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
2 6 0.13
3 32 0.70
4 8 0.17
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:30871516 original size:18 final size:17
Alignment explanation
Indices: 30871493--30871543 Score: 70
Period size: 15 Copynumber: 3.1 Consensus size: 17
30871483 GGCAACGTCT
30871493 TCTTCTCTTTCTTCCTTC
1 TCTTCTCTTTCTT-CTTC
*
30871511 TCTTCTTTTTCTTCTTC
1 TCTTCTCTTTCTTCTTC
30871528 T-TT-TCTTTCTTCTTC
1 TCTTCTCTTTCTTCTTC
30871543 T
1 T
30871544 TCTGCCTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
15 12 0.39
16 2 0.06
17 5 0.16
18 12 0.39
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
TCTTCTCTTTCTTCTTC
Found at i:30871516 original size:21 final size:19
Alignment explanation
Indices: 30871490--30871546 Score: 66
Period size: 18 Copynumber: 3.1 Consensus size: 19
30871480 CGAGGCAACG
30871490 TCTTCTTCTCTTTCTTCCTTC
1 TCTTCTT-TCTTTCTT-CTTC
30871511 TCTTC-TT-TTTCTTCTTC
1 TCTTCTTTCTTTCTTCTTC
*
30871528 TTTTCTTTC-TTCTTCTTC
1 TCTTCTTTCTTTCTTCTTC
30871546 T
1 T
30871547 GCCTTAATAC
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
17 8 0.24
18 18 0.55
19 1 0.03
20 1 0.03
21 5 0.15
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (19 bp):
TCTTCTTTCTTTCTTCTTC
Found at i:30882106 original size:13 final size:13
Alignment explanation
Indices: 30882088--30882112 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30882078 CCCATTTTAT
30882088 CATTTTTAGCATG
1 CATTTTTAGCATG
30882101 CATTTTTAGCAT
1 CATTTTTAGCAT
30882113 TTTTAACTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.12, T:0.48
Consensus pattern (13 bp):
CATTTTTAGCATG
Found at i:30883313 original size:2 final size:2
Alignment explanation
Indices: 30883306--30883362 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
30883296 TTACTAATTA
30883306 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30883348 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
30883363 AGATATAAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:30894376 original size:48 final size:48
Alignment explanation
Indices: 30894320--30894415 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
30894310 CAACAGCTGC
30894320 CCCTTTTGGCTCGTTGCTGTGTAATGGGAATGGAGCAAAAACTGAAAG
1 CCCTTTTGGCTCGTTGCTGTGTAATGGGAATGGAGCAAAAACTGAAAG
30894368 CCCTTTTGGCTCGTTGCTGTGTAATGGGAATGGAGCAAAAACTGAAAG
1 CCCTTTTGGCTCGTTGCTGTGTAATGGGAATGGAGCAAAAACTGAAAG
30894416 GAGGATCAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (48 bp):
CCCTTTTGGCTCGTTGCTGTGTAATGGGAATGGAGCAAAAACTGAAAG
Found at i:30894770 original size:49 final size:49
Alignment explanation
Indices: 30894708--30895671 Score: 858
Period size: 49 Copynumber: 19.7 Consensus size: 49
30894698 TCTTCTTTGT
* *
30894708 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGGTTCGTCATTGC
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCGCCATTGC
* * * * *
30894757 AGCTTCAACCTTTCCCTTCACATCTCTAGGGTATAAGATTTGTCATTGT
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCGCCATTGC
* * * * * * *
30894806 GGCTTCAACCTTTCCCTCCATATCTCTAAGGTATAAGATTCGTCGTTGT
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCGCCATTGC
* * *
30894855 GGCTTCAATATTTCCCTTCACATCTCTAGGGTATAAGGTTCACCATTGC
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCGCCATTGC
* * * * *
30894904 GGCTGCAACCTTTCCCTCCACATCTCTAGGGTATAAGGTTCACCATTGC
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCGCCATTGC
* * * * * *
30894953 GGCTGCAACCTTTCCCTCCACATCTCTAGGGTATAAGGTTCACCATTAC
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCGCCATTGC
* * * * *
30895002 GGCTTCAACCGTTCCCTCCATATCTCTAGGGTATAAGATTCGCCGTTGC
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCGCCATTGC
* * * * *
30895051 GGCATCAATCTTTCCCTTCACATCTCTAAGGTATAAGATTCACCGTCGC
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCGCCATTGC
* * * * ** *
30895100 AGTTTCAATCTTTCCCTTCA-AGTCTCTAGGGTAT-AGGTTCACTGTTGT
1 GGCTTCAATCTTTCCCTTCACA-TCTCTAGGGTATAAGATTCGCCATTGC
* * * * *
30895148 GGCTTCAAGCTTTCCCTCCACATCTTTAGGGTACAAGATTCACCATTGC
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCGCCATTGC
* * * * * *
30895197 AGCATCAATCTTTCCCTTCACATCTTTTGGGTACAAGATTCGCCATTAC
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCGCCATTGC
** * * * * * ** * *
30895246 AACTTCAATCTTTCTCATCATATCTCTAAGGTACAAGATTCATCGTTGT
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCGCCATTGC
* * * * *
30895295 GGCTTCAATCTTTCCCATCACATCTCTAAGGTACAAGATTCACCGTTGC
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCGCCATTGC
* * * * * *
30895344 GGCTTAAATCTTGCCCATCACATCTCTATGGTACAAGATTCGTCATTGC
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCGCCATTGC
* * * * * *
30895393 GGCTTCAATC-TTCCTTATCATATCTCTAAGGCATAAGATTCGCCGTTGT
1 GGCTTCAATCTTTCCCT-TCACATCTCTAGGGTATAAGATTCGCCATTGC
* * * * *
30895442 GGCTTCATATCTTTCCCTTCACATCTTTAGGGTACAAGGTTCACCATTCC
1 GGCTTCA-ATCTTTCCCTTCACATCTCTAGGGTATAAGATTCGCCATTGC
* * * * * * * **
30895492 GGCTTCAATCTTTCTCATCATAACTCTAAGGTACAAGATTTGCCATTTT
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCGCCATTGC
* * * * * *
30895541 GGCTTCAATCTTTCCCATCACATCTCTAAGGAACAAGATTCACTATTGC
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCGCCATTGC
* *
30895590 GGCTTCATATCTTT-CCTTCACATCTCTA-TGTATAAGATTCGCCGTTGC
1 GGCTTCA-ATCTTTCCCTTCACATCTCTAGGGTATAAGATTCGCCATTGC
** * * *
30895638 AACTTCAATCTTTCTCTTCACGTCTTTAGGGTAT
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTAT
30895672 GGATTTAATT
Statistics
Matches: 760, Mismatches: 146, Indels: 18
0.82 0.16 0.02
Matches are distributed among these distances:
47 6 0.01
48 70 0.09
49 641 0.84
50 38 0.05
51 5 0.01
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (49 bp):
GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCGCCATTGC
Found at i:30896491 original size:13 final size:13
Alignment explanation
Indices: 30896471--30896540 Score: 74
Period size: 12 Copynumber: 5.3 Consensus size: 13
30896461 GACCTCTCCT
30896471 TTTTCTTTTTTTC
1 TTTTCTTTTTTTC
*
30896484 TCTTC-TTTTTTC
1 TTTTCTTTTTTTC
30896496 TTTTTCTTTTTCTTTTC
1 -TTTTC--TTT-TTTTC
30896513 TTTTCTTTTTTTC
1 TTTTCTTTTTTTC
30896526 -TTTCTTTTTTT-
1 TTTTCTTTTTTTC
30896537 TTTT
1 TTTT
30896541 TTGGGCTTCA
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
12 21 0.43
13 13 0.27
14 3 0.06
16 7 0.14
17 5 0.10
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTCTTTTTTTC
Found at i:30896499 original size:5 final size:5
Alignment explanation
Indices: 30896471--30896541 Score: 57
Period size: 4 Copynumber: 14.8 Consensus size: 5
30896461 GACCTCTCCT
30896471 TTTTC TTTT- TTTCTC TTCTT- TTTTC TTTTTC TTTTTC TTTTC TTTTC
1 TTTTC TTTTC TTT-TC TT-TTC TTTTC -TTTTC -TTTTC TTTTC TTTTC
30896518 -TTT- TTTTC -TTTC TTTT- TTTT- TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
30896542 TGGGCTTCAA
Statistics
Matches: 58, Mismatches: 0, Indels: 17
0.77 0.00 0.23
Matches are distributed among these distances:
4 23 0.40
5 20 0.34
6 14 0.24
7 1 0.02
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (5 bp):
TTTTC
Found at i:30896539 original size:18 final size:19
Alignment explanation
Indices: 30896470--30896542 Score: 87
Period size: 20 Copynumber: 3.7 Consensus size: 19
30896460 TGACCTCTCC
30896470 TTTTTCTTTTTTTCTCTTCT
1 TTTTTCTTTTTTTCT-TTCT
30896490 TTTTTCTTTTTCTT-TTTCTTT
1 TTTTTCTTTTT-TTCTTTC--T
30896511 TCTTTTCTTTTTTTCTTTCT
1 T-TTTTCTTTTTTTCTTTCT
30896531 TTTTT-TTTTTTT
1 TTTTTCTTTTTTT
30896543 GGGCTTCAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
18 7 0.15
19 7 0.15
20 14 0.29
21 6 0.12
22 14 0.29
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTTCTTTTTTTCTTTCT
Found at i:30896540 original size:17 final size:17
Alignment explanation
Indices: 30896472--30896541 Score: 77
Period size: 17 Copynumber: 3.9 Consensus size: 17
30896462 ACCTCTCCTT
* *
30896472 TTTCTTTTTTTCTCTTC
1 TTTCTTTTTTTTTTTTC
*
30896489 TTTTTTCTTTTTCTTTTTC
1 TTTCTT-TTTTT-TTTTTC
*
30896508 TTTTCTTTTCTTTTTTTC
1 -TTTCTTTTTTTTTTTTC
30896526 TTTCTTTTTTTTTTTT
1 TTTCTTTTTTTTTTTT
30896542 TGGGCTTCAA
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
17 20 0.45
18 11 0.25
19 8 0.18
20 5 0.11
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTCTTTTTTTTTTTTC
Found at i:30906314 original size:20 final size:19
Alignment explanation
Indices: 30906285--30906336 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
30906275 ATGCATGGCA
*
30906285 TAAATTAAATGACAACAAT
1 TAAATTAAATGACAAAAAT
*
30906304 TAAATTTAAATTACAAAAAT
1 TAAA-TTAAATGACAAAAAT
*
30906324 AAAAATTAAATGA
1 -TAAATTAAATGA
30906337 ATAAAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 4 0.15
20 20 0.74
21 3 0.11
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.29
Consensus pattern (19 bp):
TAAATTAAATGACAAAAAT
Found at i:30906459 original size:16 final size:16
Alignment explanation
Indices: 30906446--30906500 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
30906436 AATAAATTCT
30906446 AAAAGGATTAAATTTAA
1 AAAAGGATTAAATTT-A
*
30906463 AAAAGGACTAAATTTA
1 AAAAGGATTAAATTTA
*
30906479 AAAAGGATTAATTTTA
1 AAAAGGATTAAATTTA
30906495 AAAAGG
1 AAAAGG
30906501 GTTTAACTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
16 21 0.60
17 14 0.40
ACGTcount: A:0.56, C:0.02, G:0.15, T:0.27
Consensus pattern (16 bp):
AAAAGGATTAAATTTA
Found at i:30906468 original size:17 final size:17
Alignment explanation
Indices: 30906446--30906498 Score: 81
Period size: 17 Copynumber: 3.2 Consensus size: 17
30906436 AATAAATTCT
30906446 AAAAGGATTAAATTTAA
1 AAAAGGATTAAATTTAA
*
30906463 AAAAGGACTAAATTT-A
1 AAAAGGATTAAATTTAA
*
30906479 AAAAGGATTAATTTTAA
1 AAAAGGATTAAATTTAA
30906496 AAA
1 AAA
30906499 GGGTTTAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
16 14 0.44
17 18 0.56
ACGTcount: A:0.58, C:0.02, G:0.11, T:0.28
Consensus pattern (17 bp):
AAAAGGATTAAATTTAA
Found at i:30914846 original size:21 final size:21
Alignment explanation
Indices: 30914804--30914843 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
30914794 TTAAAAACAA
30914804 TTTATAAATATATTAATAAAT
1 TTTATAAATATATTAATAAAT
30914825 TTTATACAATA-A-TAATAAA
1 TTTATA-AATATATTAATAAA
30914844 ATTGACATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (21 bp):
TTTATAAATATATTAATAAAT
Found at i:30915217 original size:24 final size:24
Alignment explanation
Indices: 30915174--30915222 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
30915164 TTTGACCGAT
30915174 TCAAAATAAAATAAACCAAAAATA
1 TCAAAATAAAATAAACCAAAAATA
*
30915198 TCAAAATCAAAATAAACAAAAAATA
1 TCAAAAT-AAAATAAACCAAAAATA
30915223 AAAAATCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.16
Consensus pattern (24 bp):
TCAAAATAAAATAAACCAAAAATA
Found at i:30915227 original size:24 final size:25
Alignment explanation
Indices: 30915176--30915229 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
30915166 TGACCGATTC
* *
30915176 AAAAT-AAAATAAACCAAAAATATC
1 AAAATCAAAATAAACAAAAAATATA
30915200 AAAATCAAAATAAACAAAAAATA-A
1 AAAATCAAAATAAACAAAAAATATA
30915224 AAAATC
1 AAAATC
30915230 TTTAAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 11 0.41
25 16 0.59
ACGTcount: A:0.74, C:0.11, G:0.00, T:0.15
Consensus pattern (25 bp):
AAAATCAAAATAAACAAAAAATATA
Found at i:30917665 original size:21 final size:20
Alignment explanation
Indices: 30917625--30917663 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
30917615 AAGACAACAC
30917625 AAAACCAAAATAAATAAAAT
1 AAAACCAAAATAAATAAAAT
30917645 AAAATCCAAAA-AAATAAAA
1 AAAA-CCAAAATAAATAAAA
30917664 ATTTCATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (20 bp):
AAAACCAAAATAAATAAAAT
Found at i:30918116 original size:12 final size:12
Alignment explanation
Indices: 30918099--30918124 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30918089 TACACATATT
30918099 TTTTATTATTTA
1 TTTTATTATTTA
30918111 TTTTATTATTTA
1 TTTTATTATTTA
30918123 TT
1 TT
30918125 ATTTACATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTATTATTTA
Found at i:30919026 original size:22 final size:22
Alignment explanation
Indices: 30919001--30919045 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
30918991 TTTGCCCATA
30919001 CATTTTGT-TTTTTAAATTAAAT
1 CATTTT-TATTTTTAAATTAAAT
*
30919023 CATTTTTATTTTTTAATTAAAT
1 CATTTTTATTTTTAAATTAAAT
30919045 C
1 C
30919046 CTATTATTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (22 bp):
CATTTTTATTTTTAAATTAAAT
Found at i:30919034 original size:23 final size:22
Alignment explanation
Indices: 30919003--30919045 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
30918993 TGCCCATACA
*
30919003 TTTTGTTTTTTAAATTAAATCAT
1 TTTTATTTTTT-AATTAAATCAT
30919026 TTTTATTTTTTAATTAAATC
1 TTTTATTTTTTAATTAAATC
30919046 CTATTATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (22 bp):
TTTTATTTTTTAATTAAATCAT
Found at i:30919392 original size:21 final size:19
Alignment explanation
Indices: 30919368--30919409 Score: 66
Period size: 21 Copynumber: 2.1 Consensus size: 19
30919358 ATAGCAATAT
30919368 TCTTTTTCTTTTCACTTTTTC
1 TCTTTTTCTTTT--CTTTTTC
30919389 TCTTTTTCTTTTCTTTTTC
1 TCTTTTTCTTTTCTTTTTC
30919408 TC
1 TC
30919410 ATTCACAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 9 0.43
21 12 0.57
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (19 bp):
TCTTTTTCTTTTCTTTTTC
Found at i:30929233 original size:17 final size:18
Alignment explanation
Indices: 30929192--30929235 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
30929182 TTTGAATTAA
*
30929192 ATAAATATAAGTTTATTT
1 ATAAATATTAGTTTATTT
*
30929210 ATAAATATTATTTTATTT
1 ATAAATATTAGTTTATTT
30929228 -TAAATATT
1 ATAAATATT
30929236 GTAATAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (18 bp):
ATAAATATTAGTTTATTT
Found at i:30929397 original size:25 final size:24
Alignment explanation
Indices: 30929344--30929391 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
30929334 TTGACCGGTC
* *
30929344 CAAAATAAAATAAACCAAAAATAT
1 CAAAATAAAATAAACAAAAAAAAT
30929368 CAAAATCAAAATAAACAAAAAAAA
1 CAAAAT-AAAATAAACAAAAAAAA
30929392 ATAAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.75, C:0.12, G:0.00, T:0.12
Consensus pattern (24 bp):
CAAAATAAAATAAACAAAAAAAAT
Found at i:30932278 original size:7 final size:7
Alignment explanation
Indices: 30932266--30932299 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
30932256 TATACACATA
30932266 TATTTTT
1 TATTTTT
30932273 TATTTTT
1 TATTTTT
30932280 TATTTTAT
1 TATTTT-T
*
30932288 TATTTAT
1 TATTTTT
30932295 TATTT
1 TATTT
30932300 ACATTTTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (7 bp):
TATTTTT
Found at i:30932292 original size:15 final size:14
Alignment explanation
Indices: 30932266--30932299 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
30932256 TATACACATA
*
30932266 TATTTTTTATTTTT
1 TATTTTTTATTTAT
30932280 TATTTTATTATTTAT
1 TATTTT-TTATTTAT
30932295 TATTT
1 TATTT
30932300 ACATTTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TATTTTTTATTTAT
Found at i:30937334 original size:8 final size:8
Alignment explanation
Indices: 30937320--30937353 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
30937310 GAAACCCAAG
30937320 AAAAGAAA
1 AAAAGAAA
*
30937328 GAAAGAAA
1 AAAAGAAA
30937336 AAAAGAAA
1 AAAAGAAA
*
30937344 AGAAGAAA
1 AAAAGAAA
30937352 AA
1 AA
30937354 TCCAAGATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:30938190 original size:14 final size:14
Alignment explanation
Indices: 30938167--30938218 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
30938157 AAATACAAGG
*
30938167 AAGAAGAAAGAAGA
1 AAGAAGAAAGAAAA
*
30938181 AAGAAAAAAGAAAA
1 AAGAAGAAAGAAAA
* *
30938195 AGGAA-AAAGGAAA
1 AAGAAGAAAGAAAA
*
30938208 AAGGAGAAAGA
1 AAGAAGAAAGA
30938219 GGTGAAGTCG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
13 10 0.33
14 20 0.67
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (14 bp):
AAGAAGAAAGAAAA
Found at i:30938207 original size:21 final size:21
Alignment explanation
Indices: 30938167--30938218 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
30938157 AAATACAAGG
30938167 AAGAAGAAAGAAGAAAGAAAA
1 AAGAAGAAAGAAGAAAGAAAA
*
30938188 AAGAA-AAAGGAA-AAAGGAAA
1 AAGAAGAAA-GAAGAAAGAAAA
*
30938208 AAGGAGAAAGA
1 AAGAAGAAAGA
30938219 GGTGAAGTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (21 bp):
AAGAAGAAAGAAGAAAGAAAA
Found at i:30938211 original size:7 final size:7
Alignment explanation
Indices: 30938183--30938217 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
30938173 AAAGAAGAAA
*
30938183 GAAAAAA
1 GAAAAAG
30938190 GAAAAAG
1 GAAAAAG
30938197 GAAAAAG
1 GAAAAAG
30938204 GAAAAAG
1 GAAAAAG
*
30938211 GAGAAAG
1 GAAAAAG
30938218 AGGTGAAGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (7 bp):
GAAAAAG
Found at i:30939285 original size:49 final size:49
Alignment explanation
Indices: 30939172--30939892 Score: 253
Period size: 49 Copynumber: 14.6 Consensus size: 49
30939162 GGAAACATAG
* * * * * * *
30939172 AGATATAAAGGGAAAGGTTAAGGCCGCAACAGTGAACCTTGTACC-T-T
1 AGATATAAAGGGAAAGATTGAGGCCGCAACGGCGAATCTAGTACCATGA
* * *
30939219 AGA-ATAAGGATGAGAAAGATTGAAGCCGCAACGGTGAATCTAGTACCATGGA
1 AGATATAA--A-GGGAAAGATTGAGGCCGCAACGGCGAATCTAGTACCAT-GA
* * * * *
30939271 A-ATATAAAGGGAAAGGTTGAGGTCGCAACGGCGAACCTTA-TACCTTAAA
1 AGATATAAAGGGAAAGATTGAGGCCGCAACGGCGAATC-TAGTACCAT-GA
* * * * *
30939320 AGATGTAATGGGAAGGATTGAGGCCGCAACGACGAATCCAGTACCATGA
1 AGATATAAAGGGAAAGATTGAGGCCGCAACGGCGAATCTAGTACCATGA
* * * * * *
30939369 AGATATAAAGGAAAAGGTTGAGGCCGCAATGGCAAACCCTA-TACCTTAGA
1 AGATATAAAGGGAAAGATTGAGGCCGCAACGGCGAA-TCTAGTACCAT-GA
* * * * * * * *
30939419 AGATGTGATGGGAAGGATTGAGGCCACAATGGTGAATCCAGTACCATGA
1 AGATATAAAGGGAAAGATTGAGGCCGCAACGGCGAATCTAGTACCATGA
* * * ** * * * ** *
30939468 AGATATGAAGGGAAAGGTTAAGGTAGTAACGGAGAACCCT-GTACTTTAAA
1 AGATATAAAGGGAAAGATTGAGGCCGCAACGGCGAA-TCTAGTACCAT-GA
* * * * * * ** *
30939518 AGATGTGATGGGAAGGATTGAGGCCGTAACGGTGAATCCGGTACCATAA
1 AGATATAAAGGGAAAGATTGAGGCCGCAACGGCGAATCTAGTACCATGA
* * * * *
30939567 AGATATGAAGGGAAAGATTGAGGCCGCAACAGCAAACCCT-GTACCTTAGA
1 AGATATAAAGGGAAAGATTGAGGCCGCAACGGCGAA-TCTAGTACCAT-GA
*** * * ** * **
30939617 AGATGCGATGGGAAAGAATGAGGCCGCAACGATGATTCCGGTACCATGA
1 AGATATAAAGGGAAAGATTGAGGCCGCAACGGCGAATCTAGTACCATGA
* * * * * * *
30939666 AGATATGAAA-GGAAAGGTTGAGGCCACAACGACAAACCCTA-TA-CTTAAA
1 AGATAT-AAAGGGAAAGATTGAGGCCGCAACGGCGAA-TCTAGTACCAT-GA
* * * * * ** * *
30939715 AAATGTAATGGGAAGGATTAAGGCTACAAACGGTGAAT-TCGGTACCATGA
1 AGATATAAAGGGAAAGATTGAGGCCGC-AACGGCGAATCT-AGTACCATGA
* * * * * * * *
30939765 AGATATAAATGGAAAGGTTAAGGCCACAACGACGAACCCT-GTAACTTAGA
1 AGATATAAAGGGAAAGATTGAGGCCGCAACGGCGAA-TCTAGTACCAT-GA
* * * * ** *
30939815 AGATGTGATGGGAAGGATTGAGGCCGCAACGGCGAATCCGGTACCAAGA
1 AGATATAAAGGGAAAGATTGAGGCCGCAACGGCGAATCTAGTACCATGA
* * *
30939864 AGATATGAAGGGAAAGGTTGAGACCGCAA
1 AGATATAAAGGGAAAGATTGAGGCCGCAA
30939893 TGAAGAACCT
Statistics
Matches: 482, Mismatches: 161, Indels: 60
0.69 0.23 0.09
Matches are distributed among these distances:
46 4 0.01
47 3 0.01
48 6 0.01
49 252 0.52
50 208 0.43
51 4 0.01
52 5 0.01
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.18
Consensus pattern (49 bp):
AGATATAAAGGGAAAGATTGAGGCCGCAACGGCGAATCTAGTACCATGA
Found at i:30939378 original size:99 final size:99
Alignment explanation
Indices: 30939172--30940048 Score: 811
Period size: 99 Copynumber: 8.9 Consensus size: 99
30939162 GGAAACATAG
* * * * * * * * * *
30939172 AGATATAAAGGGAAAGGTTAAGGCCGCAACAGTGAACCTTGTACCTTAGAATAAG-GATGAGAAA
1 AGATATAAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCTATACCTTAAAAGATGTGATGGGAAG
* *
30939236 GATTGAAGCCGCAACGGTGAATCTAGTACCATGGA
66 GATTGAGGCCGCAACGGTGAATCCAGTACCAT-GA
* * *
30939271 A-ATATAAAGGGAAAGGTTGAGGTCGCAACGGCGAACCTTATACCTTAAAAGATGTAATGGGAAG
1 AGATATAAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCTATACCTTAAAAGATGTGATGGGAAG
**
30939335 GATTGAGGCCGCAACGACGAATCCAGTACCATGA
66 GATTGAGGCCGCAACGGTGAATCCAGTACCATGA
* * * *
30939369 AGATATAAAGGAAAAGGTTGAGGCCGCAATGGCAAACCCTATACCTTAGAAGATGTGATGGGAAG
1 AGATATAAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCTATACCTTAAAAGATGTGATGGGAAG
* *
30939434 GATTGAGGCCACAATGGTGAATCCAGTACCATGA
66 GATTGAGGCCGCAACGGTGAATCCAGTACCATGA
* * ** * * * *
30939468 AGATATGAAGGGAAAGGTTAAGGTAGTAACGGAGAACCCTGTACTTTAAAAGATGTGATGGGAAG
1 AGATATAAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCTATACCTTAAAAGATGTGATGGGAAG
* * *
30939533 GATTGAGGCCGTAACGGTGAATCCGGTACCATAA
66 GATTGAGGCCGCAACGGTGAATCCAGTACCATGA
* * * * * * * *
30939567 AGATATGAAGGGAAAGATTGAGGCCGCAACAGCAAACCCTGTACCTTAGAAGATGCGATGGGAAA
1 AGATATAAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCTATACCTTAAAAGATGTGATGGGAAG
* * * *
30939632 GAATGAGGCCGCAACGATGATTCCGGTACCATGA
66 GATTGAGGCCGCAACGGTGAATCCAGTACCATGA
* * * * *
30939666 AGATATGAAA-GGAAAGGTTGAGGCCACAACGACAAACCCTATA-CTTAAAAAATGTAATGGGAA
1 AGATAT-AAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCTATACCTTAAAAGATGTGATGGGAA
* ** * *
30939729 GGATTAAGGCTACAAACGGTGAATTCGGTACCATGA
65 GGATTGAGGCCGC-AACGGTGAATCCAGTACCATGA
* * * * * * *
30939765 AGATATAAATGGAAAGGTTAAGGCCACAACGACGAACCCTGTAACTTAGAAGATGTGATGGGAAG
1 AGATATAAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCTATACCTTAAAAGATGTGATGGGAAG
* * *
30939830 GATTGAGGCCGCAACGGCGAATCCGGTACCAAGA
66 GATTGAGGCCGCAACGGTGAATCCAGTACCATGA
* * * ** * * * *
30939864 AGATATGAAGGGAAAGGTTGAGACCGCAATGAAGAA-CCTGATACCTT-AGAGACGTGATAGGAT
1 AGATATAAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCT-ATACCTTAAAAGATGTGATGGGAA
* * * * * *
30939927 TGATCGAAGTCGCAACGG-CAGATCTAGTACCATGGA
65 GGATTGAGGCCGCAACGGTGA-ATCCAGTACCAT-GA
* * * * * **
30939963 A-ATATAAAGAGG-AAGGTTGAGGCTGCAACGACAAACCTTCTACCTTAAAA-ACATGATGGGAA
1 AGATATAAAG-GGAAAGGTTGAGGCCGCAACGGCGAACCCTATACCTTAAAAGATGTGATGGGAA
* *
30940025 AGATTGAGGCCGTAACGGTGAATC
65 GGATTGAGGCCGCAACGGTGAATC
30940049 TGGAACCATA
Statistics
Matches: 635, Mismatches: 130, Indels: 27
0.80 0.16 0.03
Matches are distributed among these distances:
97 1 0.00
98 168 0.26
99 437 0.69
100 29 0.05
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.19
Consensus pattern (99 bp):
AGATATAAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCTATACCTTAAAAGATGTGATGGGAAG
GATTGAGGCCGCAACGGTGAATCCAGTACCATGA
Found at i:30939782 original size:297 final size:295
Alignment explanation
Indices: 30939172--30939892 Score: 896
Period size: 297 Copynumber: 2.4 Consensus size: 295
30939162 GGAAACATAG
* * * * * * *
30939172 AGATATAAAGGGAAAGGTTAAGGCCGCAACAGTGAACCTTGTACCTTAGAATAAG-GATGAGAAA
1 AGATATAAAGGGAAAGGTTAAGGCAGCAAC-GAGAACCCTGTA-CTTAGAAGATGTGATGGGAAG
* ** * * *
30939236 GATTGAAGCCGCAACGGTGAATCTAGTACCATGGAA-ATATAAAGGGAAAGGTTGAGGTCGCAAC
64 GATTGAGGCCGCAACGGTGAATCCGGTACCAT-AAAGATATGAAGGGAAAGGTTGAGGCCGCAAC
* * * * * *
30939300 GGCGAACCTTATACCTTAAAAGATGTAATGGGAAGGATTGAGGCCGCAACGACGAATCCAGTACC
128 AGCAAACCCTATACCTTAAAAGATGCAATGGGAAAGAATGAGGCCGCAACGACGAATCCAGTACC
* * * * * *
30939365 ATGAAGATATAAAGGAAAAGGTTGAGGCCGCAATGGCAAACCCTATACCTTAGAAGATGTGATGG
193 ATGAAGATATAAAGGAAAAGGTTGAGGCCACAACGACAAACCCTATACCTTAAAAAATGTAATGG
* *
30939430 GAAGGATTGAGGCCACAATGGTGAATCCAGTACCATGA
258 GAAGGATTAAGGCCACAACGGTGAATCCAGTACCATGA
* * * *
30939468 AGATATGAAGGGAAAGGTTAAGGTAGTAACGGAGAACCCTGTACTTTAAAAGATGTGATGGGAAG
1 AGATATAAAGGGAAAGGTTAAGGCAGCAAC-GAGAACCCTGTAC-TTAGAAGATGTGATGGGAAG
* *
30939533 GATTGAGGCCGTAACGGTGAATCCGGTACCATAAAGATATGAAGGGAAAGATTGAGGCCGCAACA
64 GATTGAGGCCGCAACGGTGAATCCGGTACCATAAAGATATGAAGGGAAAGGTTGAGGCCGCAACA
* * * * * *
30939598 GCAAACCCTGTACCTTAGAAGATGCGATGGGAAAGAATGAGGCCGCAACGATGATTCCGGTACCA
129 GCAAACCCTATACCTTAAAAGATGCAATGGGAAAGAATGAGGCCGCAACGACGAATCCAGTACCA
30939663 TGAAGATATGAAAGG-AAAGGTTGAGGCCACAACGACAAACCCTATA-CTTAAAAAATGTAATGG
194 TGAAGATAT-AAAGGAAAAGGTTGAGGCCACAACGACAAACCCTATACCTTAAAAAATGTAATGG
* * *
30939726 GAAGGATTAAGGCTACAAACGGTGAATTCGGTACCATGA
258 GAAGGATTAAGGCCAC-AACGGTGAATCCAGTACCATGA
*
30939765 AGATATAAATGGAAAGGTTAAGGCCA-CAACGACGAACCCTGTAACTTAGAAGATGTGATGGGAA
1 AGATATAAAGGGAAAGGTTAAGG-CAGCAACGA-GAACCCTGT-ACTTAGAAGATGTGATGGGAA
* *
30939829 GGATTGAGGCCGCAACGGCGAATCCGGTACCA-AGAAGATATGAAGGGAAAGGTTGAGACCGCAA
63 GGATTGAGGCCGCAACGGTGAATCCGGTACCATA-AAGATATGAAGGGAAAGGTTGAGGCCGCAA
30939893 TGAAGAACCT
Statistics
Matches: 364, Mismatches: 52, Indels: 17
0.84 0.12 0.04
Matches are distributed among these distances:
295 1 0.00
296 76 0.21
297 279 0.77
298 8 0.02
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.18
Consensus pattern (295 bp):
AGATATAAAGGGAAAGGTTAAGGCAGCAACGAGAACCCTGTACTTAGAAGATGTGATGGGAAGGA
TTGAGGCCGCAACGGTGAATCCGGTACCATAAAGATATGAAGGGAAAGGTTGAGGCCGCAACAGC
AAACCCTATACCTTAAAAGATGCAATGGGAAAGAATGAGGCCGCAACGACGAATCCAGTACCATG
AAGATATAAAGGAAAAGGTTGAGGCCACAACGACAAACCCTATACCTTAAAAAATGTAATGGGAA
GGATTAAGGCCACAACGGTGAATCCAGTACCATGA
Found at i:30940183 original size:293 final size:293
Alignment explanation
Indices: 30939846--30940433 Score: 1158
Period size: 293 Copynumber: 2.0 Consensus size: 293
30939836 GGCCGCAACG
30939846 GCGAATCCGGTACCAAGAAGATATGAAGGGAAAGGTTGAGACCGCAATGAAGAACCTGATACCTT
1 GCGAATCCGGTACCAAGAAGATATGAAGGGAAAGGTTGAGACCGCAATGAAGAACCTGATACCTT
30939911 AGAGACGTGATAGGATTGATCGAAGTCGCAACGGCAGATCTAGTACCATGGAAATATAAAGAGGA
66 AGAGACGTGATAGGATTGATCGAAGTCGCAACGGCAGATCTAGTACCATGGAAATATAAAGAGGA
*
30939976 AGGTTGAGGCTGCAACGACAAACCTTCTACCTTAAAAACATGATGGGAAAGATTGAGGCCGTAAC
131 AGGTTAAGGCTGCAACGACAAACCTTCTACCTTAAAAACATGATGGGAAAGATTGAGGCCGTAAC
*
30940041 GGTGAATCTGGAACCATAAAGATCTGAGGAGAAAGATTGAGGTCACAATAATGAATCTGGAACTA
196 GGTGAATCTGGAACCATAAAGATCTGAGGAGAAAGATTGAGGTCACAACAATGAATCTGGAACTA
30940106 GAAAGGTCTGAAAGGAAGGTTAAGGTCGCAAAA
261 GAAAGGTCTGAAAGGAAGGTTAAGGTCGCAAAA
30940139 GCGAATCCGGTACCAAGAAGATATGAAGGGAAAGGTTGAGACCGCAATGAAGAACCTGATACCTT
1 GCGAATCCGGTACCAAGAAGATATGAAGGGAAAGGTTGAGACCGCAATGAAGAACCTGATACCTT
30940204 AGAGACGTGATAGGATTGATCGAAGTCGCAACGGCAGATCTAGTACCATGGAAATATAAAGAGGA
66 AGAGACGTGATAGGATTGATCGAAGTCGCAACGGCAGATCTAGTACCATGGAAATATAAAGAGGA
30940269 AGGTTAAGGCTGCAACGACAAACCTTCTACCTTAAAAACATGATGGGAAAGATTGAGGCCGTAAC
131 AGGTTAAGGCTGCAACGACAAACCTTCTACCTTAAAAACATGATGGGAAAGATTGAGGCCGTAAC
30940334 GGTGAATCTGGAACCATAAAGATCTGAGGAGAAAGATTGAGGTCACAACAATGAATCTGGAACTA
196 GGTGAATCTGGAACCATAAAGATCTGAGGAGAAAGATTGAGGTCACAACAATGAATCTGGAACTA
30940399 GAAAGGTCTGAAAGGAAGGTTAAGGTCGCAAAA
261 GAAAGGTCTGAAAGGAAGGTTAAGGTCGCAAAA
30940432 GC
1 GC
30940434 AAACCTTATA
Statistics
Matches: 293, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
293 293 1.00
ACGTcount: A:0.38, C:0.16, G:0.28, T:0.19
Consensus pattern (293 bp):
GCGAATCCGGTACCAAGAAGATATGAAGGGAAAGGTTGAGACCGCAATGAAGAACCTGATACCTT
AGAGACGTGATAGGATTGATCGAAGTCGCAACGGCAGATCTAGTACCATGGAAATATAAAGAGGA
AGGTTAAGGCTGCAACGACAAACCTTCTACCTTAAAAACATGATGGGAAAGATTGAGGCCGTAAC
GGTGAATCTGGAACCATAAAGATCTGAGGAGAAAGATTGAGGTCACAACAATGAATCTGGAACTA
GAAAGGTCTGAAAGGAAGGTTAAGGTCGCAAAA
Found at i:30940866 original size:114 final size:114
Alignment explanation
Indices: 30940666--30940879 Score: 329
Period size: 114 Copynumber: 1.9 Consensus size: 114
30940656 GAGACGGATT
* *
30940666 AAAACAACAAAGTAGATCTCAACGTCCCCAAGGATATAGTGAAGTGGAGTGAAACTTCAAATCCC
1 AAAACAACAAAGTAGAGCTCAACGTCCCCAAGGATACAGTGAAGTGGAGTGAAACTTCAAATCCC
* *
30940731 ATCTTCCTGGTTAGGTACAAAGAAGTGGGTCAAAATAGTGTGTTGAATC
66 ATATTCCTGGTGAGGTACAAAGAAGTGGGTCAAAATAGTGTGTTGAATC
* * * * *
30940780 AAAACAACAAAGTAGAGCTCAATGTCCCTAAGGATACAGTGGAGTGGAGTGAGATTTCAAATCCC
1 AAAACAACAAAGTAGAGCTCAACGTCCCCAAGGATACAGTGAAGTGGAGTGAAACTTCAAATCCC
* *
30940845 ATATTCTTGGTGAGGTACAAAGAAGTGGGTTAAAA
66 ATATTCCTGGTGAGGTACAAAGAAGTGGGTCAAAA
30940880 CAAATAGCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
114 89 1.00
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.23
Consensus pattern (114 bp):
AAAACAACAAAGTAGAGCTCAACGTCCCCAAGGATACAGTGAAGTGGAGTGAAACTTCAAATCCC
ATATTCCTGGTGAGGTACAAAGAAGTGGGTCAAAATAGTGTGTTGAATC
Found at i:30941706 original size:7 final size:7
Alignment explanation
Indices: 30941694--30941727 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
30941684 TATACACATA
30941694 TATTTTT
1 TATTTTT
30941701 TATTTTT
1 TATTTTT
30941708 TATTTTAT
1 TATTTT-T
*
30941716 TATTTAT
1 TATTTTT
30941723 TATTT
1 TATTT
30941728 ACATTTTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (7 bp):
TATTTTT
Found at i:30941720 original size:15 final size:14
Alignment explanation
Indices: 30941694--30941727 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
30941684 TATACACATA
*
30941694 TATTTTTTATTTTT
1 TATTTTTTATTTAT
30941708 TATTTTATTATTTAT
1 TATTTT-TTATTTAT
30941723 TATTT
1 TATTT
30941728 ACATTTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TATTTTTTATTTAT
Found at i:30942608 original size:18 final size:17
Alignment explanation
Indices: 30942587--30942620 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
30942577 TACATTTTGT
30942587 TTTTTTTAAATTAAATCA
1 TTTTTTT-AATTAAATCA
30942605 TTTTTTTAATTAAATC
1 TTTTTTTAATTAAATC
30942621 CTATTATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTTTTAATTAAATCA
Found at i:30944935 original size:18 final size:18
Alignment explanation
Indices: 30944888--30944941 Score: 67
Period size: 16 Copynumber: 3.1 Consensus size: 18
30944878 ACACTAAGAT
30944888 AGTTAAAATTGTCAATGCA
1 AGTT-AAATTGTCAATGCA
*
30944907 A--TAAGTTGTCAATGCA
1 AGTTAAATTGTCAATGCA
*
30944923 AGTTAAATTGTCAGTGCA
1 AGTTAAATTGTCAATGCA
30944941 A
1 A
30944942 TAGAAAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 14 0.47
17 1 0.03
18 14 0.47
19 1 0.03
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (18 bp):
AGTTAAATTGTCAATGCA
Found at i:30948979 original size:49 final size:49
Alignment explanation
Indices: 30948900--30949796 Score: 803
Period size: 49 Copynumber: 18.3 Consensus size: 49
30948890 TCTTCTTTGT
* * * * * *
30948900 GGCTTCAATCTTTCCCTTCATATCTTTAGGGCATAAGGTTCATCATTGC
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCACCGTTGC
* * * * *
30948949 AGCTTCAACCTTTCCCTCCACATCTCTAGGGTATAAGATTCATCGTTGT
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCACCGTTGC
* * * * ** *
30948998 GGCTTCAACCTTTCCCTCCATATCTCTAGGGTATAGGATTTGCCGTTGT
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCACCGTTGC
* * * * *
30949047 GACTTCAATATTTCCCTTCACATCTCTAGGGTATAAGGTTCATCGTTGT
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCACCGTTGC
* * * * *
30949096 GGCTTTAACCTTTCCCTCCACATCTCTAGGGTATAAGGTTCACCGTTAC
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCACCGTTGC
* * * * * * * * *
30949145 GCCTTCAACCGTTCACTCCATATCTCTAGGGTATAAGATTCGCCATTCC
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCACCGTTGC
* * * * *
30949194 AGCATCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTGACCGTCGT
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCACCGTTGC
* * * *
30949243 GGCTTCAATCTTTCCCTTCAAATCTCTAAGGTATAAGGTTCACCGTTGT
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCACCGTTGC
* * * * * *
30949292 GGCTTCAAGCTTTCCCTCCACATCTTTAAGGTACAAGATTCACCATTGC
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCACCGTTGC
* * * * *
30949341 AGCTTCAATCTTTCCCTTCACATCTCTTGGGTACAAGATTCGCCATTGC
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCACCGTTGC
* * * * * * * * * *
30949390 AGCTTAAATCTTTCTCATCATATCTCTAAGGTACAAGATTCGCTGTTGT
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCACCGTTGC
* * * **
30949439 GGCTTCAATCTTTCCCATCACATCTCTAAGGTACAAGATTCGTCGTTGC
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCACCGTTGC
* * * * *
30949488 GGCTTCAATCTTGT-CCATCACATCTCTATGGTACAAGATTCATCATTGC
1 GGCTTCAATCTT-TCCCTTCACATCTCTAGGGTATAAGATTCACCGTTGC
* * *
30949537 GACTTCAATC-TTCCCTATCATATCTCTAAGGTATAAGATTCACCGTTGC
1 GGCTTCAATCTTTCCCT-TCACATCTCTAGGGTATAAGATTCACCGTTGC
** * * * * * *
30949586 AACTTCATACCTTTCCCTTCACATCTTTAGGGTACAAGACTCACCATTCC
1 GGCTTCA-ATCTTTCCCTTCACATCTCTAGGGTATAAGATTCACCGTTGC
* * * * * *
30949636 GACTTCAATCTTTCCCATCATAACTCTAAGGTACAAGATTCACCGTTGC
1 GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCACCGTTGC
* * *
30949685 GGCTTCAATCTTTCCCATT-ACATCTCTAAGGTATAAGATTCGCTGTTGC
1 GGCTTCAATCTTTCCC-TTCACATCTCTAGGGTATAAGATTCACCGTTGC
** * *
30949734 GGCTTCATATCTTTCCCTTTGCATCTCTA-TGTATAAGATTCTCCGTTGC
1 GGCTTCA-ATCTTTCCCTTCACATCTCTAGGGTATAAGATTCACCGTTGC
*
30949783 GACTTCAATCTTTC
1 GGCTTCAATCTTTC
30949797 TCTTTGACAT
Statistics
Matches: 705, Mismatches: 135, Indels: 17
0.82 0.16 0.02
Matches are distributed among these distances:
47 1 0.00
48 10 0.01
49 636 0.90
50 52 0.07
51 6 0.01
ACGTcount: A:0.23, C:0.27, G:0.15, T:0.35
Consensus pattern (49 bp):
GGCTTCAATCTTTCCCTTCACATCTCTAGGGTATAAGATTCACCGTTGC
Found at i:30950662 original size:10 final size:10
Alignment explanation
Indices: 30950634--30950705 Score: 53
Period size: 9 Copynumber: 7.2 Consensus size: 10
30950624 TGATCTTGAC
*
30950634 CTCTCCTTTT
1 CTCTTCTTTT
*
30950644 -TCTTTTTTT
1 CTCTTCTTTT
30950653 CTCTTCTTTT
1 CTCTTCTTTT
30950663 CTCTTTTTCTTTTT
1 CTC---TTC-TTTT
*
30950677 CTTTTCTTTT
1 CTCTTCTTTT
30950687 CT-TTCTTTT
1 CTCTTCTTTT
30950696 -TCTT-TTTT
1 CTCTTCTTTT
30950704 CT
1 CT
30950706 TTTTTTGGGT
Statistics
Matches: 51, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
8 5 0.10
9 17 0.33
10 17 0.33
11 3 0.06
13 3 0.06
14 6 0.12
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (10 bp):
CTCTTCTTTT
Found at i:30950668 original size:26 final size:27
Alignment explanation
Indices: 30950639--30950703 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 27
30950629 TTGACCTCTC
30950639 CTTTTTCTTTTTTTCTCTTCTTTTC-T
1 CTTTTTCTTTTTTTCTCTTCTTTTCTT
*
30950665 CTTTTTC--TTTTTCTTTTCTTTTCTTT
1 CTTTTTCTTTTTTTCTCTTCTTTTC-TT
30950691 CTTTTTCTTTTTT
1 CTTTTTCTTTTTT
30950704 CTTTTTTTGG
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
24 15 0.44
26 15 0.44
28 4 0.12
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (27 bp):
CTTTTTCTTTTTTTCTCTTCTTTTCTT
Found at i:30950676 original size:32 final size:33
Alignment explanation
Indices: 30950642--30950709 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
30950632 ACCTCTCCTT
30950642 TTTC-TTT-TTTTCTCTTC-TTTTCTCTTTTTCTT
1 TTTCTTTTCTTTTCT-TTCTTTTTCT-TTTTTCTT
30950674 TTTCTTTTCTTTTCTTTCTTTTTCTTTTTTCTT
1 TTTCTTTTCTTTTCTTTCTTTTTCTTTTTTCTT
30950707 TTT
1 TTT
30950710 TTGGGTTTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
32 4 0.12
33 17 0.52
34 12 0.36
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (33 bp):
TTTCTTTTCTTTTCTTTCTTTTTCTTTTTTCTT
Found at i:30950708 original size:5 final size:5
Alignment explanation
Indices: 30950641--30950701 Score: 51
Period size: 5 Copynumber: 12.8 Consensus size: 5
30950631 GACCTCTCCT
* *
30950641 TTTTC -TTT- TTTTC TCTTC TTTTC -TCT- TTTTC TTTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC
30950688 -TTTC TTTTTC TTTT
1 TTTTC -TTTTC TTTT
30950702 TTCTTTTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 14
0.71 0.06 0.22
Matches are distributed among these distances:
4 14 0.31
5 22 0.49
6 9 0.20
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTC
Found at i:30950711 original size:10 final size:10
Alignment explanation
Indices: 30950640--30950703 Score: 65
Period size: 10 Copynumber: 6.2 Consensus size: 10
30950630 TGACCTCTCC
30950640 TTTTTCTTTT
1 TTTTTCTTTT
* *
30950650 TTTCTCTTCT
1 TTTTTCTTTT
*
30950660 TTTCTCTTTTT
1 TTTTTC-TTTT
30950671 CTTTTTCTTTT
1 -TTTTTCTTTT
* *
30950682 CTTTTCTTTC
1 TTTTTCTTTT
30950692 TTTTTCTTTT
1 TTTTTCTTTT
30950702 TT
1 TT
30950704 CTTTTTTTGG
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
10 32 0.73
11 7 0.16
12 5 0.11
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:30950718 original size:27 final size:26
Alignment explanation
Indices: 30950639--30950712 Score: 73
Period size: 26 Copynumber: 2.8 Consensus size: 26
30950629 TTGACCTCTC
* *
30950639 CTTTTTCTTTTTTTCTCTTCTTT--TCT
1 CTTTTTC--TTTTTCTTTTCTTTGCTTT
*
30950665 CTTTTTCTTTTTCTTTTCTTTTCTTT
1 CTTTTTCTTTTTCTTTTCTTTGCTTT
30950691 CTTTTTCTTTTTTCTTTT-TTTG
1 CTTTTTC-TTTTTCTTTTCTTTG
30950713 GGTTTCAAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 13 0.31
26 19 0.45
27 10 0.24
ACGTcount: A:0.00, C:0.19, G:0.01, T:0.80
Consensus pattern (26 bp):
CTTTTTCTTTTTCTTTTCTTTGCTTT
Found at i:30954054 original size:25 final size:24
Alignment explanation
Indices: 30954021--30954139 Score: 78
Period size: 24 Copynumber: 5.0 Consensus size: 24
30954011 TGAGCCTTCC
30954021 AGAAA-TTTAGCTCATACGAGCCT
1 AGAAACTTTAGCTCATACGAGCCT
* * *
30954044 AGACAACTTTAGCTCACACAAGCCC
1 AGA-AACTTTAGCTCATACGAGCCT
*** *
30954069 AGAATGGTTAGCTCTTACGAGCCT
1 AGAAACTTTAGCTCATACGAGCCT
*** * *
30954093 AGAATGGTTAGCTCTTACGAGCCC
1 AGAAACTTTAGCTCATACGAGCCT
*** *
30954117 AGAATGGTTAGCTCTTACGAGCC
1 AGAAACTTTAGCTCATACGAGCC
30954140 CAGACAAAGT
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
23 3 0.04
24 62 0.75
25 18 0.22
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (24 bp):
AGAAACTTTAGCTCATACGAGCCT
Found at i:30954091 original size:24 final size:24
Alignment explanation
Indices: 30954064--30954143 Score: 151
Period size: 24 Copynumber: 3.3 Consensus size: 24
30954054 AGCTCACACA
30954064 AGCCCAGAATGGTTAGCTCTTACG
1 AGCCCAGAATGGTTAGCTCTTACG
*
30954088 AGCCTAGAATGGTTAGCTCTTACG
1 AGCCCAGAATGGTTAGCTCTTACG
30954112 AGCCCAGAATGGTTAGCTCTTACG
1 AGCCCAGAATGGTTAGCTCTTACG
30954136 AGCCCAGA
1 AGCCCAGA
30954144 CAAAGTTTAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.24
Consensus pattern (24 bp):
AGCCCAGAATGGTTAGCTCTTACG
Found at i:30954116 original size:48 final size:49
Alignment explanation
Indices: 30954027--30954146 Score: 161
Period size: 48 Copynumber: 2.5 Consensus size: 49
30954017 TTCCAGAAAT
* *
30954027 TTAGCTCATACGAGCCTAGACAACTTTAGCTCACACAAGCCCAGAATGG
1 TTAGCTCTTACGAGCCTAGACAACGTTAGCTCACACAAGCCCAGAATGG
** ** *
30954076 TTAGCTCTTACGAGCCTAGA-ATGGTTAGCTCTTACGAGCCCAGAATGG
1 TTAGCTCTTACGAGCCTAGACAACGTTAGCTCACACAAGCCCAGAATGG
*
30954124 TTAGCTCTTACGAGCCCAGACAA
1 TTAGCTCTTACGAGCCTAGACAA
30954147 AGTTTAACTA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
48 41 0.67
49 20 0.33
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (49 bp):
TTAGCTCTTACGAGCCTAGACAACGTTAGCTCACACAAGCCCAGAATGG
Found at i:30960547 original size:20 final size:19
Alignment explanation
Indices: 30960518--30960568 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
30960508 ATGCATGGCA
*
30960518 TAAATTAAATGACAACAAT
1 TAAATTAAATGACAAAAAT
*
30960537 TAAATTTAAATTACAAAAAT
1 TAAA-TTAAATGACAAAAAT
*
30960557 AAAAATTAAATG
1 -TAAATTAAATG
30960569 GATAAACAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 4 0.15
20 19 0.73
21 3 0.12
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.29
Consensus pattern (19 bp):
TAAATTAAATGACAAAAAT
Found at i:30960613 original size:2 final size:2
Alignment explanation
Indices: 30960606--30960632 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
30960596 TTAAAATTTC
30960606 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
30960633 AAATAAAATA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:30960719 original size:16 final size:16
Alignment explanation
Indices: 30960691--30960751 Score: 88
Period size: 16 Copynumber: 3.9 Consensus size: 16
30960681 AAAAAATTTC
30960691 TAAAAA-GATTAAATT
1 TAAAAAGGATTAAATT
*
30960706 TAAAAAGGACTAAATT
1 TAAAAAGGATTAAATT
*
30960722 TAAAAAGGATTAATTT
1 TAAAAAGGATTAAATT
*
30960738 TAAAAAGGGTTAAA
1 TAAAAAGGATTAAA
30960752 CTAAACTAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
15 6 0.15
16 34 0.85
ACGTcount: A:0.56, C:0.02, G:0.13, T:0.30
Consensus pattern (16 bp):
TAAAAAGGATTAAATT
Found at i:30974911 original size:18 final size:17
Alignment explanation
Indices: 30974879--30974922 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
30974869 TTTGAATTAA
*
30974879 ATAAATATAAGTTTATCT
1 ATAAATATTAGTTTAT-T
*
30974897 ATAAATATTATTTTATT
1 ATAAATATTAGTTTATT
*
30974914 TTAAATATT
1 ATAAATATT
30974923 GTAATAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
ATAAATATTAGTTTATT
Found at i:30982479 original size:13 final size:13
Alignment explanation
Indices: 30982461--30982504 Score: 54
Period size: 12 Copynumber: 3.3 Consensus size: 13
30982451 CTTGAAACCC
30982461 AAGAAAAAAAAGA
1 AAGAAAAAAAAGA
30982474 AAG-AAAAAAAGAA
1 AAGAAAAAAAAG-A
*
30982487 AAGAAGAAAAAATA
1 AAGAA-AAAAAAGA
30982501 AAGA
1 AAGA
30982505 TGAAAACCCG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 8 0.30
13 7 0.26
14 6 0.22
15 6 0.22
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (13 bp):
AAGAAAAAAAAGA
Found at i:30982493 original size:16 final size:16
Alignment explanation
Indices: 30982464--30982498 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
30982454 GAAACCCAAG
30982464 AAAAAAAAGAAAGAAA
1 AAAAAAAAGAAAGAAA
30982480 AAAAGAAAAG-AAGAAA
1 AAAA-AAAAGAAAGAAA
30982496 AAA
1 AAA
30982499 TAAAGATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAAGAAA
Found at i:30983305 original size:4 final size:4
Alignment explanation
Indices: 30983298--30983345 Score: 50
Period size: 4 Copynumber: 12.8 Consensus size: 4
30983288 CACCCAAAAA
*
30983298 AAAG AAAG AAAAG GAAG -AAG AAAG AAA- AAAG AAA- AAAG AAA- AAAG
1 AAAG AAAG -AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
30983343 AAA
1 AAA
30983346 AATAAAAGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
3 12 0.32
4 22 0.58
5 4 0.11
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:30983321 original size:11 final size:11
Alignment explanation
Indices: 30983295--30983356 Score: 53
Period size: 11 Copynumber: 5.9 Consensus size: 11
30983285 TTTCACCCAA
30983295 AAAAAAGAAAG
1 AAAAAAGAAAG
*
30983306 --AAAAGGAAG
1 AAAAAAGAAAG
*
30983315 AAGAAAGAAA-
1 AAAAAAGAAAG
30983325 AAAGAAA-AAAG
1 AAA-AAAGAAAG
30983336 AAAAAAGAAA-
1 AAAAAAGAAAG
30983346 AATAAAAGAAA
1 AA-AAAAGAAA
30983357 AAGGAAAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
9 8 0.20
10 10 0.24
11 23 0.56
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.02
Consensus pattern (11 bp):
AAAAAAGAAAG
Found at i:30983328 original size:7 final size:7
Alignment explanation
Indices: 30983293--30983382 Score: 71
Period size: 7 Copynumber: 13.0 Consensus size: 7
30983283 AATTTCACCC
30983293 AAAAAA-
1 AAAAAAG
*
30983299 AAGAAAG
1 AAAAAAG
30983306 AAAAGGAAG
1 AAAA--AAG
*
30983315 AAGAAAG
1 AAAAAAG
30983322 AAAAAAG
1 AAAAAAG
30983329 AAAAAAG
1 AAAAAAG
30983336 AAAAAAG
1 AAAAAAG
30983343 --AAAA-
1 AAAAAAG
*
30983347 ATAAAAG
1 AAAAAAG
*
30983354 AAAAAGG
1 AAAAAAG
*
30983361 AAAAAGG
1 AAAAAAG
*
30983368 CAAAAAG
1 AAAAAAG
30983375 AGAAAAAG
1 A-AAAAAG
30983383 GTGAAGTCGA
Statistics
Matches: 68, Mismatches: 9, Indels: 12
0.76 0.10 0.13
Matches are distributed among these distances:
5 4 0.06
6 9 0.13
7 43 0.63
8 6 0.09
9 6 0.09
ACGTcount: A:0.78, C:0.01, G:0.20, T:0.01
Consensus pattern (7 bp):
AAAAAAG
Found at i:30983334 original size:25 final size:24
Alignment explanation
Indices: 30983293--30983381 Score: 90
Period size: 24 Copynumber: 3.6 Consensus size: 24
30983283 AATTTCACCC
*
30983293 AAAAAAAAGAAAGAAAAGGAAGAAGA
1 AAAAAAAAG-AA-AAAAGGAAAAAGA
*
30983319 AAGAAAAAAGAAAAAAGAAAAAAGA
1 AA-AAAAAAGAAAAAAGGAAAAAGA
*
30983344 AAAATAAAAG-AAAAAGGAAAAAGG
1 AAAA-AAAAGAAAAAAGGAAAAAGA
* *
30983368 CAAAAAGAGAAAAA
1 AAAAAAAAGAAAAA
30983382 GGTGAAGTCG
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
23 4 0.07
24 21 0.39
25 18 0.33
26 4 0.07
27 7 0.13
ACGTcount: A:0.79, C:0.01, G:0.19, T:0.01
Consensus pattern (24 bp):
AAAAAAAAGAAAAAAGGAAAAAGA
Found at i:30983354 original size:32 final size:34
Alignment explanation
Indices: 30983318--30983381 Score: 96
Period size: 32 Copynumber: 1.9 Consensus size: 34
30983308 AAGGAAGAAG
30983318 AAAGAAAAAAGAAAAAAG-AAAAA-AGAAAAATA
1 AAAGAAAAAAGAAAAAAGCAAAAAGAGAAAAATA
* *
30983350 AAAGAAAAAGGAAAAAGGCAAAAAGAGAAAAA
1 AAAGAAAAAAGAAAAAAGCAAAAAGAGAAAAA
30983382 GGTGAAGTCG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 16 0.57
33 5 0.18
34 7 0.25
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.02
Consensus pattern (34 bp):
AAAGAAAAAAGAAAAAAGCAAAAAGAGAAAAATA
Found at i:30983357 original size:18 final size:18
Alignment explanation
Indices: 30983331--30983365 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
30983321 GAAAAAAGAA
30983331 AAAAGAAAAAAGAAAAAT
1 AAAAGAAAAAAGAAAAAT
*
30983349 AAAAGAAAAAGGAAAAA
1 AAAAGAAAAAAGAAAAA
30983366 GGCAAAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (18 bp):
AAAAGAAAAAAGAAAAAT
Found at i:30984539 original size:99 final size:99
Alignment explanation
Indices: 30984335--30984711 Score: 445
Period size: 99 Copynumber: 3.8 Consensus size: 99
30984325 GGAAACATAG
* * * * * *
30984335 AGATATAAAGGGAAAGGTTGAGGCCGTAACAGTGAACCTTGTACCTTAGAACAAG-GATGGGAAA
1 AGATATAAAGGGAAAGGTTGAGGCCGCAACAGTGAACCCTGTACCTTAAAAGATGTGATGGGAAG
* * * *
30984399 GATTGAAGCCACAATGGCGAATCTAGTACCATGGA
66 GATTGAGGCCGCAACGGCGAATCCAGTACCAT-GA
* * * * * * * * *
30984434 A-ATATAAAAGGAAAGTTTGAGGTCGCAGCGGTGAACCTTATACCTTAAAAGATGTAATAGGAAG
1 AGATATAAAGGGAAAGGTTGAGGCCGCAACAGTGAACCCTGTACCTTAAAAGATGTGATGGGAAG
30984498 GATTGAGGCCGCAACGGCGAATCCAGTACCATGA
66 GATTGAGGCCGCAACGGCGAATCCAGTACCATGA
*
30984532 AGATATAAAGGGAAAGGTTGAGGCCGCAAC-GATAAACCCTGTACCTTAAAAGATGTGATGGGAA
1 AGATATAAAGGGAAAGGTTGAGGCCGCAACAG-TGAACCCTGTACCTTAAAAGATGTGATGGGAA
* * * *
30984596 CGATTGAGGCTGCAACGGTGAATCCGGTACCATGA
65 GGATTGAGGCCGCAACGGCGAATCCAGTACCATGA
* * * * *
30984631 AGATATGAAGGGAAAGGTTAAGGCAGTAACAGAGAACCCTGTACCTTAAAAGATGTGATGGGAAG
1 AGATATAAAGGGAAAGGTTGAGGCCGCAACAGTGAACCCTGTACCTTAAAAGATGTGATGGGAAG
*
30984696 GATTCAGGCCGCAACG
66 GATTGAGGCCGCAACG
30984712 ACAAATCTTG
Statistics
Matches: 235, Mismatches: 39, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
98 47 0.20
99 187 0.80
100 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.29, T:0.19
Consensus pattern (99 bp):
AGATATAAAGGGAAAGGTTGAGGCCGCAACAGTGAACCCTGTACCTTAAAAGATGTGATGGGAAG
GATTGAGGCCGCAACGGCGAATCCAGTACCATGA
Found at i:30984611 original size:50 final size:50
Alignment explanation
Indices: 30984474--30984860 Score: 269
Period size: 50 Copynumber: 7.8 Consensus size: 50
30984464 GTGAACCTTA
* * * *** * *
30984474 TACCTTAAAAGATGTAATAGGAAGGATTGAGGCCGCAACGGCGAATCCAG
1 TACCTTAAAAGATGTGATGGGAAAGATTGAGGCCGCAACGATAAACCCTG
* * * * * *
30984524 TACCAT-GAAGATATAAAGGGAAAGGTTGAGGCCGCAACGATAAACCCTG
1 TACCTTAAAAGATGTGATGGGAAAGATTGAGGCCGCAACGATAAACCCTG
* * * * * *
30984573 TACCTTAAAAGATGTGATGGGAACGATTGAGGCTGCAACGGTGAATCCGG
1 TACCTTAAAAGATGTGATGGGAAAGATTGAGGCCGCAACGATAAACCCTG
* * * * * * * * *
30984623 TACCAT-GAAGATATGAAGGGAAAGGTTAAGGCAGTAACAGA-GAACCCTG
1 TACCTTAAAAGATGTGATGGGAAAGATTGAGGCCGCAAC-GATAAACCCTG
* * * * *
30984672 TACCTTAAAAGATGTGATGGGAAGGATTCAGGCCGCAACGACAAATCTTG
1 TACCTTAAAAGATGTGATGGGAAAGATTGAGGCCGCAACGATAAACCCTG
* * * * * * * *
30984722 TACCTTAGAAGATGTGATGGGAAGGAATGAGGCTGCAACGGTGAATCCGG
1 TACCTTAAAAGATGTGATGGGAAAGATTGAGGCCGCAACGATAAACCCTG
* * ** * * **
30984772 TACCAT-AAAGATATGAAAGGAAAGGTTGAGGCCACAACGGCAAACCCTG
1 TACCTTAAAAGATGTGATGGGAAAGATTGAGGCCGCAACGATAAACCCTG
* *
30984821 TACCTTAAAAGATGTCATGGGAAAGATTAAGGCCGCAACG
1 TACCTTAAAAGATGTGATGGGAAAGATTGAGGCCGCAACG
30984861 GTGAATTCGG
Statistics
Matches: 253, Mismatches: 79, Indels: 10
0.74 0.23 0.03
Matches are distributed among these distances:
49 109 0.43
50 144 0.57
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (50 bp):
TACCTTAAAAGATGTGATGGGAAAGATTGAGGCCGCAACGATAAACCCTG
Found at i:30984725 original size:99 final size:100
Alignment explanation
Indices: 30984330--30985098 Score: 431
Period size: 99 Copynumber: 7.8 Consensus size: 100
30984320 ATCGGGGAAA
* * * * * *
30984330 CATAG-AGATATAAAGGGAAAGGTTGAGGCCGTAACAGTGAACCTTGTACCTTAGAACAAG-GAT
1 CATAGAAGATATAAAGGGAAAGGTTGAGGCCGCAACAGAGAACCCTGTACCTTAAAAGATGTGAT
* * * * *
30984393 GGGAAAGATTGAAGCCACAATGGCGAATCTAGTAC
66 GGGAAGGATTGAGGCCGCAACGGCGAATCCAGTAC
* * * * * * * * * *
30984428 CATGGAA-ATATAAAAGGAAAGTTTGAGGTCGCAGCGGTGAACCTTATACCTTAAAAGATGTAAT
1 CATAGAAGATATAAAGGGAAAGGTTGAGGCCGCAACAGAGAACCCTGTACCTTAAAAGATGTGAT
*
30984492 AGGAAGGATTGAGGCCGCAACGGCGAATCCAGTAC
66 GGGAAGGATTGAGGCCGCAACGGCGAATCCAGTAC
*
30984527 CAT-GAAGATATAAAGGGAAAGGTTGAGGCCGCAAC-GATAAACCCTGTACCTTAAAAGATGTGA
1 CATAGAAGATATAAAGGGAAAGGTTGAGGCCGCAACAGA-GAACCCTGTACCTTAAAAGATGTGA
* * * *
30984590 TGGGAACGATTGAGGCTGCAACGGTGAATCCGGTAC
65 TGGGAAGGATTGAGGCCGCAACGGCGAATCCAGTAC
* * * *
30984626 CAT-GAAGATATGAAGGGAAAGGTTAAGGCAGTAACAGAGAACCCTGTACCTTAAAAGATGTGAT
1 CATAGAAGATATAAAGGGAAAGGTTGAGGCCGCAACAGAGAACCCTGTACCTTAAAAGATGTGAT
* * * **
30984690 GGGAAGGATTCAGGCCGCAACGACAAATCTTGTAC
66 GGGAAGGATTGAGGCCGCAACGGCGAATCCAGTAC
* * * * * * * * * * * *
30984725 CTTAGAAGATGTGATGGG-AAGGAATGAGGCTGCAACGGTGAATCCGGTACCAT-AAAGATATGA
1 CATAGAAGATATAAAGGGAAAGG-TTGAGGCCGCAACAGAGAACCCTGTACCTTAAAAGATGTG-
* * * * * *
30984788 AAGGAAAGG-TTGAGGCCACAACGGCAAACCCTGTAC
64 ATGGGAAGGATTGAGGCCGCAACGGCGAATCCAGTAC
* * * * * * * * * ** * * * * * * *
30984824 CTTAAAAGATGTCATGGGAAAGATTAAGGCCGCAACGGTGAATTCGGTACCATGAAA-TTATAAA
1 CATAGAAGATATAAAGGGAAAGGTTGAGGCCGCAACAGAGAACCCTGTACCTTAAAAGATGTGAT
* * *
30984888 GGGAAAGG-TTGAGGCCGTAACGGTGAATCCGGTAC
66 GGG-AAGGATTGAGGCCGCAACGGCGAATCCAGTAC
* * * * **
30984923 CAT-GAAGATAT-----G-ATGGTTGAGACCACAAC-GACGAA-CCTGATACCTT-AGAGACCTG
1 CATAGAAGATATAAAGGGAAAGGTTGAGGCCGCAACAGA-GAACCCTG-TACCTTAAAAGATGTG
* * * *
30984978 ATAGGAAAGATCT-AGGTCGCAACGGC-AGATCTAGTAC
64 ATGGGAAGGAT-TGAGGCCGCAACGGCGA-ATCCAGTAC
* * * * *
30985015 CATAGAA-ATATAAAGCGGAAAGGTTAAGGCCGCAACGGCA-AACCTTGTACCCTAGAAACA--T
1 CATAGAAGATATAAAG-GGAAAGGTTGAGGCCGCAACAG-AGAACCCTGTACCTTA-AAAGATGT
*
30985076 GATGGGAAAGATTGAGGCCGCAA
63 GATGGGAAGGATTGAGGCCGCAA
30985099 TGGTGAGTCT
Statistics
Matches: 524, Mismatches: 116, Indels: 61
0.75 0.17 0.09
Matches are distributed among these distances:
91 9 0.02
92 49 0.09
93 5 0.01
98 63 0.12
99 342 0.65
100 52 0.10
101 4 0.01
ACGTcount: A:0.36, C:0.17, G:0.28, T:0.19
Consensus pattern (100 bp):
CATAGAAGATATAAAGGGAAAGGTTGAGGCCGCAACAGAGAACCCTGTACCTTAAAAGATGTGAT
GGGAAGGATTGAGGCCGCAACGGCGAATCCAGTAC
Found at i:30984734 original size:149 final size:149
Alignment explanation
Indices: 30984541--30984935 Score: 476
Period size: 149 Copynumber: 2.7 Consensus size: 149
30984531 AAGATATAAA
* * * * * *
30984541 GGGAAAGGTTGAGGCCGCAACGATAAACCCTGTACCTTAAAAGATGTGATGGGAACGATTGAGGC
1 GGGAAAGATTAAGGCCGCAACGATAAATCTTGTACCTTAGAAGATGTGATGGGAAAGATTGAGGC
* *
30984606 TGCAACGGTGAATCCGGTACCATGAAGATATGAAGGGAAAGGTTAAGG-CAGTAACAG-AGAACC
66 TGCAACGGTGAATCCGGTACCATGAAGATATGAAAGGAAAGGTTAAGGCCA-CAACAGCA-AACC
*
30984669 CTGTACCTTAAAAGATGTGAT
129 CTGTACCTTAAAAGATGTCAT
* * * * *
30984690 GGGAAGGATTCAGGCCGCAACGACAAATCTTGTACCTTAGAAGATGTGATGGGAAGGAATGAGGC
1 GGGAAAGATTAAGGCCGCAACGATAAATCTTGTACCTTAGAAGATGTGATGGGAAAGATTGAGGC
* * *
30984755 TGCAACGGTGAATCCGGTACCATAAAGATATGAAAGGAAAGGTTGAGGCCACAACGGCAAACCCT
66 TGCAACGGTGAATCCGGTACCATGAAGATATGAAAGGAAAGGTTAAGGCCACAACAGCAAACCCT
30984820 GTACCTTAAAAGATGTCAT
131 GTACCTTAAAAGATGTCAT
* * * * * * * *
30984839 GGGAAAGATTAAGGCCGCAACGGTGAAT-TCGGTACCAT-GAA-ATTATAAAGGGAAAGGTTGAG
1 GGGAAAGATTAAGGCCGCAACGATAAATCT-TGTACCTTAGAAGA-TGTGATGGGAAAGATTGAG
* *
30984901 GCCGTAACGGTGAATCCGGTACCATGAAGATATGA
64 GCTGCAACGGTGAATCCGGTACCATGAAGATATGA
30984936 TGGTTGAGAC
Statistics
Matches: 211, Mismatches: 31, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
147 1 0.00
148 49 0.23
149 158 0.75
150 3 0.01
ACGTcount: A:0.35, C:0.16, G:0.29, T:0.19
Consensus pattern (149 bp):
GGGAAAGATTAAGGCCGCAACGATAAATCTTGTACCTTAGAAGATGTGATGGGAAAGATTGAGGC
TGCAACGGTGAATCCGGTACCATGAAGATATGAAAGGAAAGGTTAAGGCCACAACAGCAAACCCT
GTACCTTAAAAGATGTCAT
Found at i:30985049 original size:50 final size:49
Alignment explanation
Indices: 30984981--30985098 Score: 121
Period size: 50 Copynumber: 2.4 Consensus size: 49
30984971 AGACCTGATA
* * * *
30984981 GGAAAGATCT-AGGTCGCAACGGCAGATCTAGTACCATAGAAATATAAAG
1 GGAAAGAT-TAAGGCCGCAACGGCAAACCTAGTACCATAGAAACATAAAG
* * * * *
30985030 CGGAAAGGTTAAGGCCGCAACGGCAAACCTTGTACCCTAGAAACATGATG
1 -GGAAAGATTAAGGCCGCAACGGCAAACCTAGTACCATAGAAACATAAAG
*
30985080 GGAAAGATTGAGGCCGCAA
1 GGAAAGATTAAGGCCGCAA
30985099 TGGTGAGTCT
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
49 18 0.32
50 38 0.68
ACGTcount: A:0.37, C:0.19, G:0.27, T:0.16
Consensus pattern (49 bp):
GGAAAGATTAAGGCCGCAACGGCAAACCTAGTACCATAGAAACATAAAG
Found at i:30985134 original size:49 final size:48
Alignment explanation
Indices: 30985081--30985195 Score: 149
Period size: 49 Copynumber: 2.4 Consensus size: 48
30985071 AACATGATGG
* * * *
30985081 GAAAGATTGAGGCCGCAATGGTGAGTCTGGAACCATAAAGATCTGAAGA
1 GAAAGATTGAGGTCGCAACGGTGAATCTGGAACCACAAAGATCTGAA-A
* *
30985130 GAAAGATTGAGGTCGCAACGGTGAATTTGGAACCACAAAGGTCTGAAA
1 GAAAGATTGAGGTCGCAACGGTGAATCTGGAACCACAAAGATCTGAAA
* *
30985178 GGAAGGTTGAGGTCGCAA
1 GAAAGATTGAGGTCGCAA
30985196 AAGCGAATCT
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
48 17 0.29
49 41 0.71
ACGTcount: A:0.36, C:0.14, G:0.32, T:0.18
Consensus pattern (48 bp):
GAAAGATTGAGGTCGCAACGGTGAATCTGGAACCACAAAGATCTGAAA
Found at i:30985617 original size:114 final size:112
Alignment explanation
Indices: 30985452--30985759 Score: 386
Period size: 114 Copynumber: 2.7 Consensus size: 112
30985442 AGTAGATCTT
* *
30985452 AACGTCTCC-GAGGATACAGTGAAGTGGAGTGAAACTTCAAATCCCATCTTCCTAGGAAGATACA
1 AACGTC-CCTGAGGATACAGTG-AGTGGAGTGAGACTTCAAATCCCATCTTCCTAGG-AGGTACA
30985516 GAGAAGTGGGT-ACAAACAGTATGTTGAATCAAAACAACGAAGCCGAGATC
63 GAGAAGTGGGTCA-AAACAGTATGTTGAATCAAAACAACGAAGCCGAGATC
* * *
30985566 AACGTCCTTGAGGATACAATAGAGTAGAGTGAGACTTCAAATCCCATCTTCCTAGTGAGGTACAG
1 AACGTCCCTGAGGATACAGT-GAGTGGAGTGAGACTTCAAATCCCATCTTCCTAG-GAGGTACAG
* * * *
30985631 AGAAGTGGGTCAAAACGGTGTGTTGAATCAAAACAATGAAGCCGAGCTC
64 AGAAGTGGGTCAAAACAGTATGTTGAATCAAAACAACGAAGCCGAGATC
* * * * * *
30985680 AATGTCCCTAAGGTTACAGTGGAGTGGCGTGAGACTTCAAATCCCATCTTCTTGGTGAGGTACAG
1 AACGTCCCTGAGGATACAGT-GAGTGGAGTGAGACTTCAAATCCCATCTTCCTAG-GAGGTACAG
*
30985745 AGAAGTGGTTCAAAA
64 AGAAGTGGGTCAAAA
30985760 TAATAAAGTA
Statistics
Matches: 170, Mismatches: 20, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
113 1 0.01
114 166 0.98
115 3 0.02
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (112 bp):
AACGTCCCTGAGGATACAGTGAGTGGAGTGAGACTTCAAATCCCATCTTCCTAGGAGGTACAGAG
AAGTGGGTCAAAACAGTATGTTGAATCAAAACAACGAAGCCGAGATC
Found at i:30985794 original size:33 final size:33
Alignment explanation
Indices: 30985752--30985818 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
30985742 CAGAGAAGTG
30985752 GTTCAAAATAATAAAGTAGAGCTCAATGTATCT
1 GTTCAAAATAATAAAGTAGAGCTCAATGTATCT
*
30985785 GTTCAAAATAATAAAGTAGAGCTCAATGTCTCT
1 GTTCAAAATAATAAAGTAGAGCTCAATGTATCT
30985818 G
1 G
30985819 AGGATACAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.30
Consensus pattern (33 bp):
GTTCAAAATAATAAAGTAGAGCTCAATGTATCT
Found at i:30985888 original size:129 final size:129
Alignment explanation
Indices: 30985674--30985906 Score: 346
Period size: 129 Copynumber: 1.8 Consensus size: 129
30985664 CAATGAAGCC
* * * *
30985674 GAGCTCAATGTCCCTAAGGTTACAGTGGAGTGGCGTGAGACTTCAAATCCCATCTTCTTGGTGAG
1 GAGCTCAATGTCCCTAAGGATACAGTGGAGTGGAGTGAGACTTCAAATCCCATCTTCCTGGTAAG
*
30985739 GTACAGAGAAGTGGTTCAAAATAATAAAGTAGAGCTCAATGTATCTGTTCAAAATAATAAAGTA
66 GTACAGAGAAGTGGTTCAAAATAATAAAGCAGAGCTCAATGTATCTGTTCAAAATAATAAAGTA
* *
30985803 GAGCTCAATGTCTCTGAGGATACAGTGGAGTGGAGTGAGACATT-AAATCCCATCTTCCTGGTAA
1 GAGCTCAATGTCCCTAAGGATACAGTGGAGTGGAGTGAGAC-TTCAAATCCCATCTTCCTGGTAA
*
30985867 GGTACCA-AGAAGTGAG-TCAAAATAATGAAGCAGAGCTCAA
65 GGTA-CAGAGAAGTG-GTTCAAAATAATAAAGCAGAGCTCAA
30985907 CGTCCCTGAG
Statistics
Matches: 93, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
129 88 0.95
130 5 0.05
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.25
Consensus pattern (129 bp):
GAGCTCAATGTCCCTAAGGATACAGTGGAGTGGAGTGAGACTTCAAATCCCATCTTCCTGGTAAG
GTACAGAGAAGTGGTTCAAAATAATAAAGCAGAGCTCAATGTATCTGTTCAAAATAATAAAGTA
Found at i:30985951 original size:96 final size:96
Alignment explanation
Indices: 30985787--30985984 Score: 292
Period size: 96 Copynumber: 2.1 Consensus size: 96
30985777 ATGTATCTGT
* * *
30985787 TCAAAATAATAAAGTAGAGCTCAATGTCTCTGAGGATACAGTGGAGTGGAGTGAGACATTAAATC
1 TCAAAATAATAAAGCAGAGCTCAACGTCCCTGAGGATACAGTGGAGTGGAGTGAGACATTAAATC
*
30985852 CCATCTTCCTGGTAAGGTACCA-AGAAGTGAG
66 CCATCTTCCTAGTAAGGTA-CAGAGAAGTGAG
* *
30985883 TCAAAATAATGAAGCAGAGCTCAACGTCCCTGAGGATATAGTGGAGTGGAGTGAGAC-TTCAAAT
1 TCAAAATAATAAAGCAGAGCTCAACGTCCCTGAGGATACAGTGGAGTGGAGTGAGACATT-AAAT
* *
30985947 CCCATCTTCCTAGTGAGGTACAGAGAAGTGGG
65 CCCATCTTCCTAGTAAGGTACAGAGAAGTGAG
30985979 TCAAAA
1 TCAAAA
30985985 CAGTGTGTTG
Statistics
Matches: 92, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
95 4 0.04
96 88 0.96
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.23
Consensus pattern (96 bp):
TCAAAATAATAAAGCAGAGCTCAACGTCCCTGAGGATACAGTGGAGTGGAGTGAGACATTAAATC
CCATCTTCCTAGTAAGGTACAGAGAAGTGAG
Found at i:30986084 original size:114 final size:114
Alignment explanation
Indices: 30985884--30986320 Score: 412
Period size: 114 Copynumber: 3.9 Consensus size: 114
30985874 AGAAGTGAGT
* * * *
30985884 CAAAATAATGAAGCAGAGCTCAACGTCCCTGAGGATATAGTGGAGTGGAGTGAGACTTCAAATCC
1 CAAAACAACGAAGCAGAGCTCAACATCCCTGAGGATACAGTGGAGTGGAGTGAGACTTCAAATCC
* *
30985949 CATCTTCCTAGTGAGGTACAGAGAAGTGGGTCAAAACAGTGTGTTGAAG
66 CATCTTCCTGGTGAGGTACAAAGAAGTGGGTCAAAACAGTGTGTTGAAG
* * * *
30985998 CAAAACAACGAAGCCGAGCTCAACATCCTTGAGGTTACAATGGAGTGGAGTGAGACTTCAAATCC
1 CAAAACAACGAAGCAGAGCTCAACATCCCTGAGGATACAGTGGAGTGGAGTGAGACTTCAAATCC
* * **
30986063 CATCTTTCTGGTGAGGTACAGAGAAGTGGGTC-AAA-A---TAATGAAG
66 CATCTTCCTGGTGAGGTACAAAGAAGTGGGTCAAAACAGTGTGTTGAAG
* ** * * * * ** *
30986107 CAAAGCTTAACGTAATTA-AG---GATAT---AGTGGAGTGGAGTGGAGTGAAGTGAGACTTCAA
1 CAAAAC--AACG-AAGCAGAGCTCAACATCCCTGAGGA-TACAGTGGAGTGGAGTGAGACTTCAA
* * *
30986165 ATCCCATCTTCCTGGTTAGGTACAAAGAAGTGGGTCAAAATAGTGTGTTGAAT
62 ATCCCATCTTCCTGGTGAGGTACAAAGAAGTGGGTCAAAACAGTGTGTTGAAG
* * * ** * * *
30986218 CAAAACGACAAAGTAGAGCTCAATGTCCCTAAGGATACAGTGGAGTGGAGTGAGATTTCAAGTCC
1 CAAAACAACGAAGCAGAGCTCAACATCCCTGAGGATACAGTGGAGTGGAGTGAGACTTCAAATCC
* * *
30986283 TATATTCCTGGTGAGGTACAAAGAAGTGGGTAAAAACA
66 CATCTTCCTGGTGAGGTACAAAGAAGTGGGTCAAAACA
30986321 AATAGAAAAT
Statistics
Matches: 257, Mismatches: 50, Indels: 32
0.76 0.15 0.09
Matches are distributed among these distances:
105 3 0.01
106 55 0.21
107 3 0.01
108 8 0.03
109 15 0.06
111 16 0.06
112 6 0.02
113 3 0.01
114 145 0.56
115 3 0.01
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.23
Consensus pattern (114 bp):
CAAAACAACGAAGCAGAGCTCAACATCCCTGAGGATACAGTGGAGTGGAGTGAGACTTCAAATCC
CATCTTCCTGGTGAGGTACAAAGAAGTGGGTCAAAACAGTGTGTTGAAG
Found at i:30986239 original size:220 final size:209
Alignment explanation
Indices: 30985788--30986318 Score: 634
Period size: 220 Copynumber: 2.5 Consensus size: 209
30985778 TGTATCTGTT
* *
30985788 CAAAATAATAAAGTAGAGCTCAATGT-CTCTGAGGATACAGTGGAGTGGAGTGAGACATT-AAAT
1 CAAAACAACAAAGTAGAGCTCAATGTCCT-TGAGGATACAGTGGAGTGGAGTGAGAC-TTCAAAT
* * * ** *
30985851 CCCATCTTCCTGGTAAGGTACCAAGAAGTGAGTCAAAATAATGAAGCAGAGCTCAACGTCCCTGA
64 CCCATCTTCCTGGTGAGGTA-CAAGAAGTGGGTCAAAATAATGAAGCAAAGCTCAACGTAACTAA
*
30985916 GGATATAGTGGAGTGGAGTGAGACTTCAAATCCCATCTTCCTAGTGAGGTACAGAGAAGTGGGTC
128 GGATATAGTGGAGTGGAGTGAGACTTCAAATCCCATCTTCCTAGTGAGGTACAAAGAAGTGGGTC
30985981 AAAACAGTGTGTTGAAG
193 AAAACAGTGTGTTGAAG
* ** ** * *
30985998 CAAAACAACGAAGCCGAGCTCAACATCCTTGAGGTTACAATGGAGTGGAGTGAGACTTCAAATCC
1 CAAAACAACAAAGTAGAGCTCAATGTCCTTGAGGATACAGTGGAGTGGAGTGAGACTTCAAATCC
* * *
30986063 CATCTTTCTGGTGAGGTACAGAGAAGTGGGTCAAAATAATGAAGCAAAGCTTAACGTAATTAAGG
66 CATCTTCCTGGTGAGGTACA-AGAAGTGGGTCAAAATAATGAAGCAAAGCTCAACGTAACTAAGG
* *
30986128 ATATAGTGGAGTGGAGTGGAGTGAAGTGAGACTTCAAATCCCATCTTCCTGGTTAGGTACAAAGA
130 --ATA-T--AGTGGAGT---G-G-AGTGAGACTTCAAATCCCATCTTCCTAGTGAGGTACAAAGA
* *
30986193 AGTGGGTCAAAATAGTGTGTTGAAT
185 AGTGGGTCAAAACAGTGTGTTGAAG
* * * * *
30986218 CAAAACGACAAAGTAGAGCTCAATGTCCCTAAGGATACAGTGGAGTGGAGTGAGATTTCAAGTCC
1 CAAAACAACAAAGTAGAGCTCAATGTCCTTGAGGATACAGTGGAGTGGAGTGAGACTTCAAATCC
* * *
30986283 TATATTCCTGGTGAGGTACAAAGAAGTGGGTAAAAA
66 CATCTTCCTGGTGAGGTAC-AAGAAGTGGGTCAAAA
30986319 CAAATAGAAA
Statistics
Matches: 268, Mismatches: 39, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
209 4 0.01
210 103 0.38
211 2 0.01
212 3 0.01
213 1 0.00
215 8 0.03
218 1 0.00
219 1 0.00
220 144 0.54
221 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (209 bp):
CAAAACAACAAAGTAGAGCTCAATGTCCTTGAGGATACAGTGGAGTGGAGTGAGACTTCAAATCC
CATCTTCCTGGTGAGGTACAAGAAGTGGGTCAAAATAATGAAGCAAAGCTCAACGTAACTAAGGA
TATAGTGGAGTGGAGTGAGACTTCAAATCCCATCTTCCTAGTGAGGTACAAAGAAGTGGGTCAAA
ACAGTGTGTTGAAG
Found at i:30988083 original size:22 final size:21
Alignment explanation
Indices: 30988053--30988096 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
30988043 TGCCCATACA
30988053 TTTTTTTTTTAAATTAAATCC
1 TTTTTTTTTTAAATTAAATCC
*
30988074 TTTTTATTTTTTAATTAAATCC
1 TTTTT-TTTTTAAATTAAATCC
30988096 T
1 T
30988097 ATTATTCAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTTTTTTAAATTAAATCC
Found at i:30990407 original size:18 final size:16
Alignment explanation
Indices: 30990369--30990415 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
30990359 TAGTTAAAAC
*
30990369 TGTCAATGCAATAAGT
1 TGTCAATGCAATAAAT
30990385 TGTCAATGCAAGTTAAAT
1 TGTCAATGCAA--TAAAT
*
30990403 TGTCAGTGCAATA
1 TGTCAATGCAATA
30990416 GAAAATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 13 0.48
18 14 0.52
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.32
Consensus pattern (16 bp):
TGTCAATGCAATAAAT
Found at i:30991434 original size:13 final size:13
Alignment explanation
Indices: 30991416--30991440 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
30991406 AGCAAAATTT
30991416 CTTTTTCTTTTCA
1 CTTTTTCTTTTCA
30991429 CTTTTTCTTTTC
1 CTTTTTCTTTTC
30991441 TTTTTCTCAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.72
Consensus pattern (13 bp):
CTTTTTCTTTTCA
Found at i:31008775 original size:45 final size:45
Alignment explanation
Indices: 31008645--31008762 Score: 123
Period size: 45 Copynumber: 2.6 Consensus size: 45
31008635 AGGATGTAAG
* * * **
31008645 AACATCTTTCAACTATGGTCTTAATCCCATT-T-ACCATGATATCAT
1 AACATCTTTCAGCTATGGTCTT-A-CTCATTATCATCATGATGCCAT
* *
31008690 AACATCTTTCAGTTATGGTCTTACTCATTATCATCGTGATGCCAT
1 AACATCTTTCAGCTATGGTCTTACTCATTATCATCATGATGCCAT
* *
31008735 AACTTCTTTTAGCTATGGTCTTACTCAT
1 AACATCTTTCAGCTATGGTCTTACTCAT
31008763 CTTTATTATG
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
43 5 0.08
44 2 0.03
45 54 0.89
ACGTcount: A:0.26, C:0.23, G:0.10, T:0.41
Consensus pattern (45 bp):
AACATCTTTCAGCTATGGTCTTACTCATTATCATCATGATGCCAT
Found at i:31015867 original size:72 final size:72
Alignment explanation
Indices: 31015785--31015922 Score: 249
Period size: 72 Copynumber: 1.9 Consensus size: 72
31015775 ATAGTTTGGC
*
31015785 ATATACAGTTAAATTAACTCTTAAATTTAATGGTAACTTTATAAATTTTTGTTTTTAAGTAAAAT
1 ATATACAGTTAAATTAACTCTTAAATTTAATGGTAACTTTATAAATTTTTATTTTTAAGTAAAAT
31015850 ATTAAGG
66 ATTAAGG
* *
31015857 ATATATAGTTAAATTAACTCTTAAATTTAATGGTAACTTTTTAAATTTTTATTTTTAAGTAAAAT
1 ATATACAGTTAAATTAACTCTTAAATTTAATGGTAACTTTATAAATTTTTATTTTTAAGTAAAAT
31015922 A
66 A
31015923 CATGTTAATA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 63 1.00
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (72 bp):
ATATACAGTTAAATTAACTCTTAAATTTAATGGTAACTTTATAAATTTTTATTTTTAAGTAAAAT
ATTAAGG
Found at i:31024566 original size:52 final size:51
Alignment explanation
Indices: 31024483--31024720 Score: 248
Period size: 52 Copynumber: 4.6 Consensus size: 51
31024473 TAAATCAAAT
* * *
31024483 AGGTCCGATGAATATGTGTCATCATGAGTATATGAATGCTTTATGGATTATA
1 AGGTCCGATGACTATGTGTCATCATGAGTATATGAAT-CTTTAAGGATTATG
* *
31024535 AGGTTCGATGACTATGTGTCATCATGAGTATATGAATCCTTTAAGAATTATG
1 AGGTCCGATGACTATGTGTCATCATGAGTATATGAAT-CTTTAAGGATTATG
* * * * * *
31024587 AGGTCCGGTAACTATATGCCATCGTGAGTATATGAATCATTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCATGAGTATATGAATC-TTTAAGGATTATG
* * *
31024639 AGGTCAGATGACTATGTGTCATCGTGAGTATATGAATTCTTTACA-AATTA--
1 AGGTCCGATGACTATGTGTCATCATGAGTATATGAA-TCTTTA-AGGATTATG
* * *
31024689 ATGGTCCAATGACTCTGTGTCATCGTGAGTAT
1 A-GGTCCGATGACTATGTGTCATCATGAGTAT
31024721 CCAAATATGC
Statistics
Matches: 158, Mismatches: 24, Indels: 9
0.83 0.13 0.05
Matches are distributed among these distances:
50 1 0.01
51 28 0.18
52 127 0.80
53 2 0.01
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.35
Consensus pattern (51 bp):
AGGTCCGATGACTATGTGTCATCATGAGTATATGAATCTTTAAGGATTATG
Found at i:31026708 original size:433 final size:433
Alignment explanation
Indices: 31025466--31028065 Score: 5094
Period size: 433 Copynumber: 6.0 Consensus size: 433
31025456 TGAACTGTTT
31025466 ACTAACTTGACAACTACCGATACTTGTCCAACAAGTACCGATAGAAGTCTTCAAAAATGTCGAAA
1 ACTAACTTGACAACTACCGATACTTGTCCAACAAGTACCGATAGAAGTCTTCAAAAATGTCGAAA
31025531 ATAACTTTTTTCTCTTGTTGAATTGTGCTTATAATCAAATGATGATAAATAACACATGGGGTGAA
66 ATAACTTTTTTCTCTTGTTGAATTGTGCTTATAATCAAATGATGATAAATAACACATGGGGTGAA
31025596 TTTCTTAATAAAAAAATAGGTTTGAATAAAACATTGAGAAATGAATGATAAGTCACCGGAGCCCT
131 TTTCTTAATAAAAAAATAGGTTTGAATAAAACATTGAGAAATGAATGATAAGTCACCGGAGCCCT
31025661 AACCGTTGATAGTTTACGGGTTTTGAGTGTTACATTTAGTGGTATTAAAGTGTACGATTTAGTCA
196 AACCGTTGATAGTTTACGGGTTTTGAGTGTTACATTTAGTGGTATTAAAGTGTACGATTTAGTCA
31025726 TTTCTTGGACTGTATTGGTTGTGTTTAATGATTTAGAAGTACATGCCATATGAACCTGTGATAGT
261 TTTCTTGGACTGTATTGGTTGTGTTTAATGATTTAGAAGTACATGCCATATGAACCTGTGATAGT
*
31025791 GTGATATAGATGAATCCGATCTAACTATGATTTTTACAGATAAATACAAGATGCTTGACTCAAAA
326 GTGATATAGATGAATCCGATCTAACTATGATTTTTACAGATAAATACAAGATGCCTGACTCAAAA
31025856 AAAGATTAAACTAATAAGGTAAACAATAATGTACCGACTAATG
391 AAAGATTAAACTAATAAGGTAAACAATAATGTACCGACTAATG
31025899 ACTAACTTGACAACTACCGATACTTGTCCAACAAGTACCGATAGAAGTCTTCAAAAATGTCGAAA
1 ACTAACTTGACAACTACCGATACTTGTCCAACAAGTACCGATAGAAGTCTTCAAAAATGTCGAAA
31025964 ATAACTTTTTTCTCTTGTTGAATTGTGCTTATAATCAAATGATGATAAATAACACATGGGGTGAA
66 ATAACTTTTTTCTCTTGTTGAATTGTGCTTATAATCAAATGATGATAAATAACACATGGGGTGAA
*
31026029 TTTCTTAAT-AAAAAATAGGTTTGAATAAAACATTGAGAAATGAATGATAAGTCACCAGAGCCCT
131 TTTCTTAATAAAAAAATAGGTTTGAATAAAACATTGAGAAATGAATGATAAGTCACCGGAGCCCT
31026093 AACCGTTGATAGTTTACGGGTTTTGAGTGTTACATTTAGTGGTATTAAAGTGTACGATTTAGTCA
196 AACCGTTGATAGTTTACGGGTTTTGAGTGTTACATTTAGTGGTATTAAAGTGTACGATTTAGTCA
31026158 TTTCTTGGACTGTATTGGTTGTGTTTAATGATTTAGAAGTACATGCCATATGAACCTGTGATAGT
261 TTTCTTGGACTGTATTGGTTGTGTTTAATGATTTAGAAGTACATGCCATATGAACCTGTGATAGT
31026223 GTGATATAGATGAATCCGATCTAACTATGATTTTTACAGATAAATACAAGATGCCTGACTCAAAA
326 GTGATATAGATGAATCCGATCTAACTATGATTTTTACAGATAAATACAAGATGCCTGACTCAAAA
31026288 AAAGATTAAACTAATAAGGTAAACAATAATGTACCGACTAATG
391 AAAGATTAAACTAATAAGGTAAACAATAATGTACCGACTAATG
31026331 ACTAACTTGACAACTACCGATACTTGTCCAACAAGTACCGATAGAAGTCTTCAAAAATGTCGAAA
1 ACTAACTTGACAACTACCGATACTTGTCCAACAAGTACCGATAGAAGTCTTCAAAAATGTCGAAA
31026396 ATAACTTTTTTCTCTTGTTGAATTGTGCTTATAATCAAATGATGATAAATAACACATGGGGTGAA
66 ATAACTTTTTTCTCTTGTTGAATTGTGCTTATAATCAAATGATGATAAATAACACATGGGGTGAA
*
31026461 TTTCTTAATAAAAAAATAGGTTTGAATAAAACATTGAGAAATGAATGATAAGTCACCAGAGCCCT
131 TTTCTTAATAAAAAAATAGGTTTGAATAAAACATTGAGAAATGAATGATAAGTCACCGGAGCCCT
31026526 AACCGTTGATAGTTTACGGGTTTTGAGTGTTACATTTAGTGGTATTAAAGTGTACGATTTAGTCA
196 AACCGTTGATAGTTTACGGGTTTTGAGTGTTACATTTAGTGGTATTAAAGTGTACGATTTAGTCA
31026591 TTTCTTGGACTGTATTGGTTGTGTTTAATGATTTAGAAGTACATGCCATATGAACCTGTGATAGT
261 TTTCTTGGACTGTATTGGTTGTGTTTAATGATTTAGAAGTACATGCCATATGAACCTGTGATAGT
31026656 GTGATATAGATGAATCCGATCTAACTATGATTTTTACAGATAAATACAAGATGCCTGACTCAAAA
326 GTGATATAGATGAATCCGATCTAACTATGATTTTTACAGATAAATACAAGATGCCTGACTCAAAA
31026721 AAAGATTAAACTAATAAGGTAAACAATAATGTACCGACTAATG
391 AAAGATTAAACTAATAAGGTAAACAATAATGTACCGACTAATG
31026764 ACTAACTTGACAACTACCGATACTTGTCCAACAAGTACCGATAGAAGTCTTCAAAAATGTCGAAA
1 ACTAACTTGACAACTACCGATACTTGTCCAACAAGTACCGATAGAAGTCTTCAAAAATGTCGAAA
*
31026829 ATAACTTTTTTCTCTTGTTGAATTGTGCTTATAATCAAATGATGATAAATAACACATGGGGTGAG
66 ATAACTTTTTTCTCTTGTTGAATTGTGCTTATAATCAAATGATGATAAATAACACATGGGGTGAA
*
31026894 TTTCTTAATAAAAAAATAGGTTTGATTAAAACATTGAGAAATGAATGATAAGTCACCGGAGCCCT
131 TTTCTTAATAAAAAAATAGGTTTGAATAAAACATTGAGAAATGAATGATAAGTCACCGGAGCCCT
31026959 AACCGTTGATAGTTTACGGGTTTTGAGTGTTACATTTAGTGGTATTAAAGTGTACGATTTAGTCA
196 AACCGTTGATAGTTTACGGGTTTTGAGTGTTACATTTAGTGGTATTAAAGTGTACGATTTAGTCA
31027024 TTTCTTGGACTGTATTGGTTGTGTTTAATGATTTAGAAGTACATGCCATATGAACCTGTGATAGT
261 TTTCTTGGACTGTATTGGTTGTGTTTAATGATTTAGAAGTACATGCCATATGAACCTGTGATAGT
31027089 GTGATATAGATGAATCCGATCTAACTATGATTTTTACAGATAAATACAAGATGCCTGACTCAAAA
326 GTGATATAGATGAATCCGATCTAACTATGATTTTTACAGATAAATACAAGATGCCTGACTCAAAA
31027154 AAAGATTAAACTAATAAGGTAAACAATAATGTACCGACTAATG
391 AAAGATTAAACTAATAAGGTAAACAATAATGTACCGACTAATG
31027197 ACTAACTTGACAACTACCGATACTTGTCCAACAAGTACCGATAGAAGTCTTCAAAAATGTCGAAA
1 ACTAACTTGACAACTACCGATACTTGTCCAACAAGTACCGATAGAAGTCTTCAAAAATGTCGAAA
31027262 ATAACTTTTTTCTCTTGTTGAATTGTGCTTATAATCAAATGATGATAAATAACACATGGGGTGAA
66 ATAACTTTTTTCTCTTGTTGAATTGTGCTTATAATCAAATGATGATAAATAACACATGGGGTGAA
*
31027327 TTTCTTAATAAAAAAATAGGTTTGATTAAAACATTGAGAAATGAATGATAAGTCACCGGAGCCCT
131 TTTCTTAATAAAAAAATAGGTTTGAATAAAACATTGAGAAATGAATGATAAGTCACCGGAGCCCT
31027392 AACCGTTGATAGTTTACGGGTTTTGAGTGTTACATTTAGTGGTATTAAAGTGTACGATTTAGTCA
196 AACCGTTGATAGTTTACGGGTTTTGAGTGTTACATTTAGTGGTATTAAAGTGTACGATTTAGTCA
31027457 TTTCTTGGACTGTATTGGTTGTGTTTAATGATTTAGAAGTACATGCCATATGAACCTGTGATAGT
261 TTTCTTGGACTGTATTGGTTGTGTTTAATGATTTAGAAGTACATGCCATATGAACCTGTGATAGT
31027522 GTGATATAGATGAATCCGATCTAACTATGATTTTTACAGATAAATACAAGATGCCTGACTCAAAA
326 GTGATATAGATGAATCCGATCTAACTATGATTTTTACAGATAAATACAAGATGCCTGACTCAAAA
*
31027587 AAAGATTAAACTAATAAGGTAAACAATAATGTATCGACTAATG
391 AAAGATTAAACTAATAAGGTAAACAATAATGTACCGACTAATG
31027630 ACTAACTTGACAACTACCGATACTTGTCCAACAAGTACCGATAGAAGTCTTCAAAAATGTCGAAA
1 ACTAACTTGACAACTACCGATACTTGTCCAACAAGTACCGATAGAAGTCTTCAAAAATGTCGAAA
31027695 ATAACTTTTTTCTCTTGTTGAATTGTGCTTATAATCAAATGATGATAAATAACACATGGGGTGAA
66 ATAACTTTTTTCTCTTGTTGAATTGTGCTTATAATCAAATGATGATAAATAACACATGGGGTGAA
*
31027760 TTTCTTAATAAAAAAATAGGTTTGATTAAAACATTGAGAAATGAATGATAAGTCACCGGAGCCCT
131 TTTCTTAATAAAAAAATAGGTTTGAATAAAACATTGAGAAATGAATGATAAGTCACCGGAGCCCT
*
31027825 AACCGTTGATAGTTTACGGGTTTTAAGTGTTACATTTAGTGGTATTAAAGTGTACGATTTAGTCA
196 AACCGTTGATAGTTTACGGGTTTTGAGTGTTACATTTAGTGGTATTAAAGTGTACGATTTAGTCA
*
31027890 TTTCTTGGACTGTATTGGTTGTGTTTAATGATTTAGAAGTACATGCCATATGAACCTATGATAGT
261 TTTCTTGGACTGTATTGGTTGTGTTTAATGATTTAGAAGTACATGCCATATGAACCTGTGATAGT
*
31027955 GTGATATAGATGAATCCGATCTAACTATGATTTTTACAGACAAATACAAGATGCCTGACTCAAAA
326 GTGATATAGATGAATCCGATCTAACTATGATTTTTACAGATAAATACAAGATGCCTGACTCAAAA
31028020 AAAGATTAAACTAATAAGGTAAACAATAATGTACCGACTAATG
391 AAAGATTAAACTAATAAGGTAAACAATAATGTACCGACTAATG
31028063 ACT
1 ACT
31028066 CTAGGGCTAG
Statistics
Matches: 2155, Mismatches: 11, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
432 430 0.20
433 1725 0.80
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (433 bp):
ACTAACTTGACAACTACCGATACTTGTCCAACAAGTACCGATAGAAGTCTTCAAAAATGTCGAAA
ATAACTTTTTTCTCTTGTTGAATTGTGCTTATAATCAAATGATGATAAATAACACATGGGGTGAA
TTTCTTAATAAAAAAATAGGTTTGAATAAAACATTGAGAAATGAATGATAAGTCACCGGAGCCCT
AACCGTTGATAGTTTACGGGTTTTGAGTGTTACATTTAGTGGTATTAAAGTGTACGATTTAGTCA
TTTCTTGGACTGTATTGGTTGTGTTTAATGATTTAGAAGTACATGCCATATGAACCTGTGATAGT
GTGATATAGATGAATCCGATCTAACTATGATTTTTACAGATAAATACAAGATGCCTGACTCAAAA
AAAGATTAAACTAATAAGGTAAACAATAATGTACCGACTAATG
Found at i:31031461 original size:59 final size:57
Alignment explanation
Indices: 31031398--31031633 Score: 303
Period size: 58 Copynumber: 4.1 Consensus size: 57
31031388 TGGACTTACG
* **
31031398 GGGGTAAAATGGTAATTTTTGGTGAAATTGGGGTCGAAAATGGAATTTTGGAAAATTT
1 GGGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAATTT
* * * * *
31031456 AGGGGTAAAATGGTGATTTTGGTGAAATCGAGGTTAAAAATGGAATTGTGGAAAGTTCG
1 -GGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAATT-T
* * *
31031515 GGGGTAAAATGGTCATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGGAAGTTT
1 GGGGTAAAATGGT-AATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAATTT
* *
31031573 GGAGGT-AAATGGTAATTTTGGTGAAATCGGGGTTAAAAATAGAATTTTGGAAAATTC
1 GG-GGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAATTT
31031630 GGGG
1 GGGG
31031634 ACCTATAGAC
Statistics
Matches: 155, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
56 2 0.01
57 41 0.26
58 57 0.37
59 55 0.35
ACGTcount: A:0.33, C:0.03, G:0.33, T:0.32
Consensus pattern (57 bp):
GGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAATTT
Found at i:31031631 original size:29 final size:28
Alignment explanation
Indices: 31031396--31031633 Score: 150
Period size: 29 Copynumber: 8.2 Consensus size: 28
31031386 TTTGGACTTA
*
31031396 CGGGGGTAAAATGGTAATTTTTGGTGAAATT
1 CGGGGTTAAAATGG-AA-TTTTGG-GAAATT
* *
31031427 -GGGGTCGAAAATGGAATTTTGGAAAATTT
1 CGGGGT-TAAAATGGAATTTTGGGAAA-TT
* *
31031456 AGGGG-TAAAATGGTGATTTTGGTGAAA-T
1 CGGGGTTAAAATGG-AATTTTGG-GAAATT
* *
31031484 CGAGGTTAAAAATGGAATTGT-GGAAAGTT
1 CGGGGTT-AAAATGGAATTTTGGGAAA-TT
* *
31031513 CGGGGGTAAAATGGTCATTTTTGGTGAAA-T
1 CGGGGTTAAAATGG--AATTTTGG-GAAATT
*
31031543 CGGGGTTAAAAATGGAATTTTGGGAAGTT
1 CGGGGTT-AAAATGGAATTTTGGGAAATT
*
31031572 TGGAGG-T-AAATGGTAATTTTGGTGAAA-T
1 CGG-GGTTAAAATGG-AATTTTGG-GAAATT
* *
31031600 CGGGGTTAAAAATAGAATTTTGGAAAATT
1 CGGGGTT-AAAATGGAATTTTGGGAAATT
31031629 CGGGG
1 CGGGG
31031634 ACCTATAGAC
Statistics
Matches: 163, Mismatches: 22, Indels: 46
0.71 0.10 0.20
Matches are distributed among these distances:
27 12 0.07
28 40 0.25
29 54 0.33
30 38 0.23
31 15 0.09
32 4 0.02
ACGTcount: A:0.32, C:0.03, G:0.33, T:0.32
Consensus pattern (28 bp):
CGGGGTTAAAATGGAATTTTGGGAAATT
Found at i:31032775 original size:13 final size:13
Alignment explanation
Indices: 31032750--31032829 Score: 61
Period size: 13 Copynumber: 6.1 Consensus size: 13
31032740 TTCTTTTGCT
*
31032750 TATTTATTTATTAT
1 TATTTA-TTATTAA
31032764 TATTTATTATTAA
1 TATTTATTATTAA
** *
31032777 TGGTCATTATTAA
1 TATTTATTATTAA
* * *
31032790 TAATTATTAATAC
1 TATTTATTATTAA
* * *
31032803 CATTCATTATTAG
1 TATTTATTATTAA
31032816 TATTTATTATTAA
1 TATTTATTATTAA
31032829 T
1 T
31032830 GCTATTAAAA
Statistics
Matches: 49, Mismatches: 17, Indels: 1
0.73 0.25 0.01
Matches are distributed among these distances:
13 43 0.88
14 6 0.12
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (13 bp):
TATTTATTATTAA
Found at i:31032796 original size:26 final size:25
Alignment explanation
Indices: 31032757--31032830 Score: 78
Period size: 26 Copynumber: 2.9 Consensus size: 25
31032747 GCTTATTTAT
*
31032757 TTATTATTATTTATTATTAATGGTCA
1 TTATTAATATTTATTATTAAT-GTCA
* *
31032783 TTATTAATAATTATTAATACCAT-TCA
1 TTATTAATATTTATTATTA--ATGTCA
*
31032809 TTATTAGTATTTATTATTAATG
1 TTATTAATATTTATTATTAATG
31032831 CTATTAAAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
24 2 0.05
26 35 0.90
28 2 0.05
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (25 bp):
TTATTAATATTTATTATTAATGTCA
Found at i:31033167 original size:27 final size:27
Alignment explanation
Indices: 31033129--31033226 Score: 171
Period size: 27 Copynumber: 3.6 Consensus size: 27
31033119 GGTTTTTTTT
31033129 AGAACAGGGTTTGTAACTGTGTATTCA
1 AGAACAGGGTTTGTAACTGTGTATTCA
*
31033156 AGAACAGGGTTTGTAACCGTGTATTCA
1 AGAACAGGGTTTGTAACTGTGTATTCA
31033183 AGAACAGGGTTTGTAA-TCGTGTATTCA
1 AGAACAGGGTTTGTAACT-GTGTATTCA
31033210 AGAACAGGGTTTGTAAC
1 AGAACAGGGTTTGTAAC
31033227 CCTTTTACAA
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
27 67 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (27 bp):
AGAACAGGGTTTGTAACTGTGTATTCA
Found at i:31033678 original size:25 final size:25
Alignment explanation
Indices: 31033628--31033678 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
31033618 TTTAAATTTT
**
31033628 TAATTAAATTTAAATTTATTTCAAA
1 TAATTAAATTTAAATGAATTTCAAA
*
31033653 TAATTTAATTTAAAATGAATTT-AAA
1 TAATTAAATTT-AAATGAATTTCAAA
31033678 T
1 T
31033679 CTAATAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (25 bp):
TAATTAAATTTAAATGAATTTCAAA
Found at i:31034118 original size:61 final size:61
Alignment explanation
Indices: 31034023--31034145 Score: 228
Period size: 61 Copynumber: 2.0 Consensus size: 61
31034013 AGTCTTTGAG
*
31034023 TCTGATTTCATTGACCTGGTCTTCTTCACTGTGTCTCATCAGGAAGATGACTGCAATCATT
1 TCTGATTTCATTGACCTGGTCTTCTTCACTGTGTCTCATCAGGAAGATGACCGCAATCATT
*
31034084 TCTGATTTCATTGACCTGGTCTTCTTCACTGTGTCTCATCAGGAAGATGACCGTAATCATT
1 TCTGATTTCATTGACCTGGTCTTCTTCACTGTGTCTCATCAGGAAGATGACCGCAATCATT
31034145 T
1 T
31034146 GTTTTAATTC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (61 bp):
TCTGATTTCATTGACCTGGTCTTCTTCACTGTGTCTCATCAGGAAGATGACCGCAATCATT
Found at i:31034393 original size:200 final size:200
Alignment explanation
Indices: 31034100--31034548 Score: 738
Period size: 200 Copynumber: 2.2 Consensus size: 200
31034090 TTCATTGACC
* * * ** ** *
31034100 TGGTCTTCTTCACTGTGTCTCATCAGGAAGATGACCGTAATCATTTGTTTTAATTCGCTTCTCTG
1 TGGTGTTCTTCTCTGTATCTCATCAGGAAGATGACCG-CCTCGCTTGTTTCAATTCGCTTCTCTG
* * *
31034165 GATCTCCTCAGGAAGACGAATTTGGTCCACTTCTCTGGATCTCCTCAGGAAGCTAACCTTTTTAT
65 GATCTCCTCAGGAAGACAAATCTGGTCCACTTCTCTGGATCTCCTCAGGAAGCTAACCATTTTAT
31034230 TGCTTCGACCTGCTTCTCAATGTCTCATCAGGAAGCCGGGTTCGAAGATTTGCTCACATTGAGCG
130 TGCTTCGACCTGCTTCTCAATGTCTCATCAGGAAGCCGGGTTCGAAGATTTGCTCACATTGAGCG
31034295 TTGAGT
195 TTGAGT
* *
31034301 TGGTGTTCTTCTCTGTATCTCATCAGAAAGATGACCGCCTCGCTTGTTTCGATTCGCTTCTCTGG
1 TGGTGTTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTCAATTCGCTTCTCTGG
*
31034366 ATCTCCTCAGGAAGACAAATCTGGTCCACTTCTCTGGATCTCCTCAGGATGCTAACCATTTTATT
66 ATCTCCTCAGGAAGACAAATCTGGTCCACTTCTCTGGATCTCCTCAGGAAGCTAACCATTTTATT
* *
31034431 GCTTCGACCTGCTTCTCAGTGTCTCATCGGGAAGCCGGGTTCGAAGATTTGCTCACATTGAGCGT
131 GCTTCGACCTGCTTCTCAATGTCTCATCAGGAAGCCGGGTTCGAAGATTTGCTCACATTGAGCGT
31034496 TGAGT
196 TGAGT
31034501 TGGTGTTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGC-TGTTT
1 TGGTGTTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTT
31034549 ATGTATAATC
Statistics
Matches: 231, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
199 5 0.02
200 193 0.84
201 33 0.14
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (200 bp):
TGGTGTTCTTCTCTGTATCTCATCAGGAAGATGACCGCCTCGCTTGTTTCAATTCGCTTCTCTGG
ATCTCCTCAGGAAGACAAATCTGGTCCACTTCTCTGGATCTCCTCAGGAAGCTAACCATTTTATT
GCTTCGACCTGCTTCTCAATGTCTCATCAGGAAGCCGGGTTCGAAGATTTGCTCACATTGAGCGT
TGAGT
Found at i:31034938 original size:38 final size:38
Alignment explanation
Indices: 31034887--31035014 Score: 111
Period size: 38 Copynumber: 3.4 Consensus size: 38
31034877 CTATCCAACT
*
31034887 TTACTTTAATTTCAAGAGGATAGGGAATGATCTTGCTC
1 TTACTTCAATTTCAAGAGGATAGGGAATGATCTTGCTC
** * ***
31034925 TTACTTCAATTTC-AGA-GATAAAGACTTGTTATCCAACTC
1 TTACTTCAATTTCAAGAGGATAGGGA-ATG--ATCTTGCTC
*
31034964 -TACTTCAATTTCAAGAGGAT-GGGAAACGATCTTGCTC
1 TTACTTCAATTTCAAGAGGATAGGG-AATGATCTTGCTC
*
31035001 TTACTTTAATTTCA
1 TTACTTCAATTTCA
31035015 GAGATAAAAA
Statistics
Matches: 68, Mismatches: 15, Indels: 14
0.70 0.15 0.14
Matches are distributed among these distances:
36 6 0.09
37 11 0.16
38 36 0.53
39 11 0.16
40 4 0.06
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (38 bp):
TTACTTCAATTTCAAGAGGATAGGGAATGATCTTGCTC
Found at i:31034961 original size:76 final size:76
Alignment explanation
Indices: 31034863--31035073 Score: 302
Period size: 76 Copynumber: 2.8 Consensus size: 76
31034853 CCCTTTTAGT
* *
31034863 GAGATAAATG-CTTGCTATCCAACTTTACTTTAATTTCAAGAGGATAGGGAATGATCTTGCTCTT
1 GAGATAAA-GACTTGATATCCAACTTTACTTTAATTTCAAGAGGATAGGGAAAGATCTTGCTCTT
31034927 ACTTCAATTTCA
65 ACTTCAATTTCA
* * *
31034939 GAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAGGAT-GGGAAACGATCTTGCTCTT
1 GAGATAAAGACTTGATATCCAACTTTACTTTAATTTCAAGAGGATAGGGAAA-GATCTTGCTCTT
*
31035003 ACTTTAATTTCA
65 ACTTCAATTTCA
* *
31035015 GAGATAAAAACTTGATATCCAACTTTA-TTTCAATTTCAAGAGGATAGGAAAAGATCTTG
1 GAGATAAAGACTTGATATCCAACTTTACTTT-AATTTCAAGAGGATAGGGAAAGATCTTG
31035074 GTGCGGTCTG
Statistics
Matches: 121, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
75 8 0.07
76 108 0.89
77 5 0.04
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (76 bp):
GAGATAAAGACTTGATATCCAACTTTACTTTAATTTCAAGAGGATAGGGAAAGATCTTGCTCTTA
CTTCAATTTCA
Found at i:31047372 original size:13 final size:13
Alignment explanation
Indices: 31047347--31047426 Score: 61
Period size: 13 Copynumber: 6.1 Consensus size: 13
31047337 TTCTTTTGCT
*
31047347 TATTTATTTATTAT
1 TATTTA-TTATTAA
31047361 TATTTATTATTAA
1 TATTTATTATTAA
** *
31047374 TGGTCATTATTAA
1 TATTTATTATTAA
* * *
31047387 TAATTATTAATAC
1 TATTTATTATTAA
* * *
31047400 CATTCATTATTAG
1 TATTTATTATTAA
31047413 TATTTATTATTAA
1 TATTTATTATTAA
31047426 T
1 T
31047427 GCTATTAAAA
Statistics
Matches: 49, Mismatches: 17, Indels: 1
0.73 0.25 0.01
Matches are distributed among these distances:
13 43 0.88
14 6 0.12
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (13 bp):
TATTTATTATTAA
Found at i:31047393 original size:26 final size:25
Alignment explanation
Indices: 31047354--31047427 Score: 78
Period size: 26 Copynumber: 2.9 Consensus size: 25
31047344 GCTTATTTAT
*
31047354 TTATTATTATTTATTATTAATGGTCA
1 TTATTAATATTTATTATTAAT-GTCA
* *
31047380 TTATTAATAATTATTAATACCAT-TCA
1 TTATTAATATTTATTATTA--ATGTCA
*
31047406 TTATTAGTATTTATTATTAATG
1 TTATTAATATTTATTATTAATG
31047428 CTATTAAAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
24 2 0.05
26 35 0.90
28 2 0.05
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.54
Consensus pattern (25 bp):
TTATTAATATTTATTATTAATGTCA
Found at i:31047764 original size:27 final size:27
Alignment explanation
Indices: 31047726--31047797 Score: 135
Period size: 27 Copynumber: 2.7 Consensus size: 27
31047716 GGTTTTTTTT
*
31047726 AGAACAGGGTTTGTAACTGTGTATTCA
1 AGAACAGGGTTTGTAACCGTGTATTCA
31047753 AGAACAGGGTTTGTAACCGTGTATTCA
1 AGAACAGGGTTTGTAACCGTGTATTCA
31047780 AGAACAGGGTTTGTAACC
1 AGAACAGGGTTTGTAACC
31047798 CTTTTACAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (27 bp):
AGAACAGGGTTTGTAACCGTGTATTCA
Found at i:31051120 original size:52 final size:51
Alignment explanation
Indices: 31051038--31051271 Score: 264
Period size: 52 Copynumber: 4.6 Consensus size: 51
31051028 CGTAAATGAA
31051038 ATAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATT
1 ATAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATT
* * * * *
31051089 ATGAGGTCCGATGACTATGTGTCAACATGAGTATATGAATCATTTATGAATT
1 AT-AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATT
** * *
31051141 ATGAGGTTTGGTGACTATGTGTCAACGTGAGTATATGAATCCTTTACGGATT
1 AT-AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATT
** * *
31051193 AT--GTCTAATGA-T-T-TGTCATCGTGAGTATATGAATTCTTTACAGATT
1 ATAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATT
* *
31051239 A-ATGGTCCGATGACTCTGTGTCATCATGAGTAT
1 ATA-GGTCCGATGACTATGTGTCATCGTGAGTAT
31051272 CCAAATACGC
Statistics
Matches: 155, Mismatches: 21, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
46 31 0.20
47 1 0.01
48 8 0.05
49 7 0.05
50 1 0.01
51 16 0.10
52 91 0.59
ACGTcount: A:0.27, C:0.13, G:0.23, T:0.37
Consensus pattern (51 bp):
ATAGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATT
Found at i:31051982 original size:22 final size:22
Alignment explanation
Indices: 31051954--31052012 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
31051944 TAGAAGTAAG
*
31051954 ACTTGTATCGATAGAAAGAGTC
1 ACTTGTATCGATAGAAACAGTC
* * *
31051976 ACTTGTATCGGTA-AGACTGTC
1 ACTTGTATCGATAGAAACAGTC
31051997 ACTTGTATCGATAGAA
1 ACTTGTATCGATAGAA
31052013 GTCTGCACTA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 17 0.57
22 13 0.43
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (22 bp):
ACTTGTATCGATAGAAACAGTC
Found at i:31061515 original size:23 final size:23
Alignment explanation
Indices: 31061462--31061507 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
31061452 CTGACGTGGC
**
31061462 ATCCAGTCAGCAGCTTCTGGAAG
1 ATCCAGTCAGCAGCTTCCAGAAG
31061485 ATCCAGTCAGCAGCTTCCAGAAG
1 ATCCAGTCAGCAGCTTCCAGAAG
31061508 GTCTAGTCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (23 bp):
ATCCAGTCAGCAGCTTCCAGAAG
Found at i:31062369 original size:17 final size:17
Alignment explanation
Indices: 31062347--31062380 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
31062337 AGGCTGATAC
31062347 TTAAATTGAGTTTCTTT
1 TTAAATTGAGTTTCTTT
* *
31062364 TTAAATTTATTTTCTTT
1 TTAAATTGAGTTTCTTT
31062381 AAATTCTTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.65
Consensus pattern (17 bp):
TTAAATTGAGTTTCTTT
Found at i:31064744 original size:30 final size:28
Alignment explanation
Indices: 31064713--31065616 Score: 397
Period size: 29 Copynumber: 31.1 Consensus size: 28
31064703 CTTCAAGGTA
*
31064713 AAAAATGGAATCTTTAGAAGTTCGAGAGT
1 AAAAATGGAAT-TTTAGAAGTTCGAGGGT
* *
31064742 -AAAATGATAATTTTTGAGAAGTTCGAGGTT
1 AAAAATG-GAA-TTTT-AGAAGTTCGAGGGT
* *
31064772 AAAAATAGAAATTTTAAAAGTTCGAGGGT
1 AAAAAT-GGAATTTTAGAAGTTCGAGGGT
*
31064801 -AAAATGGTAATTTTTAGAAAGTTTG-GGGT
1 AAAAATGG-AA-TTTTAG-AAGTTCGAGGGT
* * *
31064830 CAAAATTGGAATATTTGGAAGTTCGAGAGT
1 -AAAAATGGAAT-TTTAGAAGTTCGAGGGT
31064860 -AAAATGGTAACTTTTAGAAAGTTC-AGGGTT
1 AAAAATGG-AA-TTTTAG-AAGTTCGAGGG-T
* *
31064890 AAAAATGGAATTTTTGAAAGTTTGAGGGT
1 AAAAATGGAATTTTAG-AAGTTCGAGGGT
*
31064919 -AAAATGGTAATTTTTAGAAAGTTTG-GGGT
1 AAAAATGG-AA-TTTTAG-AAGTTCGAGGGT
* * *
31064948 CAAAAATGCAATTTTTGGAAGTTTGAGGGT
1 -AAAAATGGAA-TTTTAGAAGTTCGAGGGT
*
31064978 --AAATGGTAATTTTTAAAAAGTTCG-GGGTT
1 AAAAATGG-AA-TTTT-AGAAGTTCGAGGG-T
* *
31065007 AAAAATTGAA-TTT-----TT-GA-AGT
1 AAAAATGGAATTTTAGAAGTTCGAGGGT
*
31065027 -AAAATGCTAATTTTTAGAAAGTTC-AGGGTT
1 AAAAATG-GAA-TTTTAG-AAGTTCGAGGG-T
* *
31065057 AAAAATGGAATTTTTGAAAGTTTGAGGGT
1 AAAAATGGAATTTTAG-AAGTTCGAGGGT
* *
31065086 -AAAATGGTAATTTTAATAAAGATT--AAGGT
1 AAAAATGG-AATTTT-A-GAAG-TTCGAGGGT
* **
31065115 CAAAAATGGAATTTTTGGAAGTTTAAGGGT
1 -AAAAATGGAA-TTTTAGAAGTTCGAGGGT
*
31065145 -AAAATGGTAATTTTAGAAAGTT-TAGGGTT
1 AAAAATGG-AATTTTAG-AAGTTCGAGGG-T
* *
31065174 AAAAATGGAATTTTGGAAGTTCAAGGGT
1 AAAAATGGAATTTTAGAAGTTCGAGGGT
* * * *
31065202 AAAATTGTAATTTTTAGAAAGTTCAAGGTT
1 AAAAATGGAA-TTTTAG-AAGTTCGAGGGT
* *
31065232 AAAAATGGAATTTTTGAAAGTTAGAGGGT
1 AAAAATGGAATTTTAG-AAGTTCGAGGGT
* *
31065261 -AAAATGGTAATTTTCAAAAAGTTC-AAGGT
1 AAAAATGG-AATTTT--AGAAGTTCGAGGGT
*
31065290 CAAAAATGGAATTTTTGAAGTTCGAGGGT
1 -AAAAATGGAATTTTAGAAGTTCGAGGGT
*
31065319 -AAAATGGTAATTTTTAGAAAGTTTG-GGGT
1 AAAAATGG-AA-TTTTAG-AAGTTCGAGGGT
* **
31065348 CAAAAATGGAATTTTTAAAAGTTTAAGGGT
1 -AAAAATGGAA-TTTTAGAAGTTCGAGGGT
*
31065378 -AAAATGGTAATTTTTAGAAAGTTTG-GGGT
1 AAAAATGG-AA-TTTTAG-AAGTTCGAGGGT
* *
31065407 CAAAAATGGAACTTTTGGAAGTTTGAGGGT
1 -AAAAATGGAA-TTTTAGAAGTTCGAGGGT
* *
31065437 -AAAATGGTAATTTTTAGAAAGTTTG-GGCT
1 AAAAATGG-AA-TTTTAG-AAGTTCGAGGGT
* * * *
31065466 CGAAAATAGAATTTTTGGAAGTTTGAGGGT
1 -AAAAATGGAA-TTTTAGAAGTTCGAGGGT
* *
31065496 -AAAATAGTAATTTTTAGAAAGTTTGA-GGT
1 AAAAAT-GGAA-TTTTAG-AAGTTCGAGGGT
* **
31065525 CAAAAATGGAACTTTTGGAAGTTTAAGGGT
1 -AAAAATGGAA-TTTTAGAAGTTCGAGGGT
*
31065555 -AAAATGGTTATTTTTAGAAAGTTCG-GGGTT
1 AAAAATGG--AATTTTAG-AAGTTCGAGGG-T
*
31065585 AAAAATGGAATTTTGGGAAGTTCGAGGGT
1 AAAAATGGAATTTT-AGAAGTTCGAGGGT
31065614 AAA
1 AAA
31065617 TTGGTAATTT
Statistics
Matches: 695, Mismatches: 87, Indels: 186
0.72 0.09 0.19
Matches are distributed among these distances:
19 5 0.01
20 3 0.00
21 2 0.00
22 5 0.01
27 13 0.02
28 122 0.18
29 246 0.35
30 209 0.30
31 89 0.13
32 1 0.00
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.34
Consensus pattern (28 bp):
AAAAATGGAATTTTAGAAGTTCGAGGGT
Found at i:31064793 original size:59 final size:59
Alignment explanation
Indices: 31064708--31065696 Score: 946
Period size: 59 Copynumber: 17.0 Consensus size: 59
31064698 GGACACTTCA
* * * * *
31064708 AGGTAAAAAATGG-AATCTTTAGAAGTTCGAGAGTAAAATGATAATTTTT-GAGAAGTTCG
1 AGGTTAAAAATGGAAAT-TTTGGAAGTTTGAGGGTAAAATGGTAATTTTTAGA-AAGTTCG
* ** * *
31064767 AGGTTAAAAATAGAAATTTTAAAAGTTCGAGGGTAAAATGGTAATTTTTAGAAAGTTTG
1 AGGTTAAAAATGGAAATTTTGGAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAGTTCG
* * * * * *
31064826 GGGTCAAAATTGG-AATATTTGGAAGTTCGAGAGTAAAATGGTAACTTTTAGAAAGTTC-
1 AGGTTAAAAATGGAAAT-TTTGGAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAGTTCG
* * *
31064884 AGGGTTAAAAATGGAATTTTTGAAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAGTTTG
1 A-GGTTAAAAATGGAAATTTTGGAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAGTTCG
* * * * *
31064944 GGGTCAAAAATGCAATTTTTGGAAGTTTGAGGGT-AAATGGTAATTTTTAAAAAGTTCG
1 AGGTTAAAAATGGAAATTTTGGAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAGTTCG
* * * *
31065002 GGGTTAAAAATTG-AA--TT-----TTTGA-AGTAAAATGCTAATTTTTAGAAAGTTC-
1 AGGTTAAAAATGGAAATTTTGGAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAGTTCG
* * * * *
31065051 AGGGTTAAAAATGGAATTTTTGAAAGTTTGAGGGTAAAATGGTAATTTTAATAAAGATT-A
1 A-GGTTAAAAATGGAAATTTTGGAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAG-TTCG
* * * *
31065111 AGGTCAAAAATGGAATTTTTGGAAGTTTAAGGGTAAAATGGTAA-TTTTAGAAAGTT-T
1 AGGTTAAAAATGGAAATTTTGGAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAGTTCG
** * *
31065168 AGGGTTAAAAATGG-AATTTTGGAAGTTCAAGGGTAAAATTGTAATTTTTAGAAAGTTCA
1 A-GGTTAAAAATGGAAATTTTGGAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAGTTCG
* * * * * *
31065227 AGGTTAAAAATGGAATTTTTGAAAGTTAGAGGGTAAAATGGTAATTTTCAAAAAGTTCA
1 AGGTTAAAAATGGAAATTTTGGAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAGTTCG
* * * *
31065286 AGGTCAAAAATGG-AATTTTTGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAAGTTTG
1 AGGTTAAAAATGGAAATTTTGGAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAGTTCG
* * * ** * *
31065344 GGGTCAAAAATGGAATTTTTAAAAGTTTAAGGGTAAAATGGTAATTTTTAGAAAGTTTG
1 AGGTTAAAAATGGAAATTTTGGAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAGTTCG
* * * *
31065403 GGGTCAAAAATGGAACTTTTGGAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAGTTTG
1 AGGTTAAAAATGGAAATTTTGGAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAGTTCG
** * * * *
31065462 -GGCTCGAAAATAGAATTTTTGGAAGTTTGAGGGTAAAATAGTAATTTTTAGAAAGTTTG
1 AGG-TTAAAAATGGAAATTTTGGAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAGTTCG
* * * *
31065521 AGGTCAAAAATGGAACTTTTGGAAGTTTAAGGGTAAAATGGTTATTTTTAGAAAGTTCG
1 AGGTTAAAAATGGAAATTTTGGAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAGTTCG
* * * * *
31065580 GGGTTAAAAATGG-AATTTTGGGAAGTTCGAGGGTAAATTGGTAATTTTTGGAAAGTT-A
1 AGGTTAAAAATGGAAATTTT-GGAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAGTTCG
* * * * * * *
31065638 AGGGGTCAAAATGTAATTTTTGGAAAGTTTAAGGGTTAAAAT-GTATTTTTTGGAAAGTT
1 A-GGTTAAAAATGGAAATTTTGG-AAGTTTGAGGG-TAAAATGGTAATTTTTAGAAAGTT
31065697 AAGAGTTTAA
Statistics
Matches: 789, Mismatches: 110, Indels: 61
0.82 0.11 0.06
Matches are distributed among these distances:
49 2 0.00
50 37 0.05
51 1 0.00
53 2 0.00
55 2 0.00
57 31 0.04
58 139 0.18
59 528 0.67
60 42 0.05
61 5 0.01
ACGTcount: A:0.38, C:0.03, G:0.25, T:0.35
Consensus pattern (59 bp):
AGGTTAAAAATGGAAATTTTGGAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAGTTCG
Found at i:31064803 original size:29 final size:28
Alignment explanation
Indices: 31064714--31065770 Score: 514
Period size: 30 Copynumber: 36.2 Consensus size: 28
31064704 TTCAAGGTAA
* * * *
31064714 AAAATGGAATCTTTAGAAGTTCGAGAGT
1 AAAATGGAATTTTTAAAAGTTTGAGGGT
* * * *
31064742 AAAATGATAATTTTTGAGAAGTTCGAGGTT
1 AAAATG-GAATTTTT-AAAAGTTTGAGGGT
* * *
31064772 AAAAATAGAAATTTTAAAAGTTCGAGGGT
1 -AAAATGGAATTTTTAAAAGTTTGAGGGT
31064801 AAAATGGTAATTTTTAGAAAGTTTG-GGGT
1 AAAATGG-AATTTTTA-AAAGTTTGAGGGT
* ** * *
31064830 CAAAATTGGAATATTTGGAAGTTCGAGAGT
1 -AAAA-TGGAATTTTTAAAAGTTTGAGGGT
* *
31064860 AAAATGGTAACTTTTAGAAAG-TTCAGGGTT
1 AAAATGG-AATTTTTA-AAAGTTTGAGGG-T
*
31064890 AAAAATGGAATTTTTGAAAGTTTGAGGGT
1 -AAAATGGAATTTTTAAAAGTTTGAGGGT
31064919 AAAATGGTAATTTTTAGAAAGTTTG-GGGT
1 AAAATGG-AATTTTTA-AAAGTTTGAGGGT
* **
31064948 CAAAAATGCAATTTTTGGAAGTTTGAGGGT
1 --AAAATGGAATTTTTAAAAGTTTGAGGGT
*
31064978 -AAATGGTAATTTTTAAAAAGTTCG-GGGT
1 AAAATGG-AATTTTT-AAAAGTTTGAGGGT
* * ** *
31065006 TAAA---AA---TTGAATTTTTGA-AGT
1 AAAATGGAATTTTTAAAAGTTTGAGGGT
* *
31065027 AAAATGCTAATTTTTAGAAAG-TTCAGGGTT
1 AAAATG-GAATTTTTA-AAAGTTTGAGGG-T
*
31065057 AAAAATGGAATTTTTGAAAGTTTGAGGGT
1 -AAAATGGAATTTTTAAAAGTTTGAGGGT
* * *
31065086 AAAATGGTAATTTTAATAAAGATT-AAGGT
1 AAAATGG-AATTTTTA-AAAGTTTGAGGGT
** *
31065115 CAAAAATGGAATTTTTGGAAGTTTAAGGGT
1 --AAAATGGAATTTTTAAAAGTTTGAGGGT
31065145 AAAATGGTAA-TTTTAGAAAGTTT-AGGGTT
1 AAAATGG-AATTTTTA-AAAGTTTGAGGG-T
** **
31065174 AAAAATGGAA-TTTTGGAAGTTCAAGGGT
1 -AAAATGGAATTTTTAAAAGTTTGAGGGT
* ** *
31065202 AAAATTGTAATTTTTAGAAAGTTCAAGGTT
1 AAAA-TGGAATTTTTA-AAAGTTTGAGGGT
* *
31065232 AAAAATGGAATTTTTGAAAGTTAGAGGGT
1 -AAAATGGAATTTTTAAAAGTTTGAGGGT
* * *
31065261 AAAATGGTAATTTTCAAAAAG-TTCAAGGT
1 AAAATGG-AATTTT-TAAAAGTTTGAGGGT
* *
31065290 CAAAAATGGAATTTTT-GAAGTTCGAGGGT
1 --AAAATGGAATTTTTAAAAGTTTGAGGGT
31065319 AAAATGGTAATTTTTAGAAAGTTTG-GGGT
1 AAAATGG-AATTTTTA-AAAGTTTGAGGGT
*
31065348 CAAAAATGGAATTTTTAAAAGTTTAAGGGT
1 --AAAATGGAATTTTTAAAAGTTTGAGGGT
31065378 AAAATGGTAATTTTTAGAAAGTTTG-GGGT
1 AAAATGG-AATTTTTA-AAAGTTTGAGGGT
* **
31065407 CAAAAATGGAACTTTTGGAAGTTTGAGGGT
1 --AAAATGGAATTTTTAAAAGTTTGAGGGT
*
31065437 AAAATGGTAATTTTTAGAAAGTTTG-GGCT
1 AAAATGG-AATTTTTA-AAAGTTTGAGGGT
* **
31065466 CGAAAATAGAATTTTTGGAAGTTTGAGGGT
1 --AAAATGGAATTTTTAAAAGTTTGAGGGT
*
31065496 AAAATAGTAATTTTTAGAAAGTTTGA-GGT
1 AAAAT-GGAATTTTTA-AAAGTTTGAGGGT
* ** *
31065525 CAAAAATGGAACTTTTGGAAGTTTAAGGGT
1 --AAAATGGAATTTTTAAAAGTTTGAGGGT
* *
31065555 AAAATGGTTATTTTTAGAAAGTTCG-GGGTT
1 AAAATGG-AATTTTTA-AAAGTTTGAGGG-T
*** *
31065585 AAAAATGGAATTTTGGGAAGTTCGAGGGT
1 -AAAATGGAATTTTTAAAAGTTTGAGGGT
* * *
31065614 AAATTGGTAATTTTTGGAAAG-TTAAGGGGT
1 AAAATGG-AATTTTT-AAAAGTTTGA-GGGT
* * *
31065644 CAAAATGTAATTTTTGGAAAGTTTAAGGGTT
1 -AAAATGGAATTTTT-AAAAGTTTGAGGG-T
* * * * **
31065675 AAAATGTATTTTTTGGAAAGTTAAGAGTTT
1 AAAATGGAATTTTT-AAAAGTT-TGAGGGT
* *
31065705 AAAATGTG-ATTTTTGGAAA-TTTTAGGGGTT
1 AAAATG-GAATTTTT-AAAAGTTTGA-GGG-T
31065735 AAAATGTG-ATTTTTGAAAAGTTTGAGGGT
1 AAAATG-GAATTTTT-AAAAGTTTGAGGGT
31065764 CAAAATG
1 -AAAATG
31065771 TGGTTTTTTG
Statistics
Matches: 802, Mismatches: 136, Indels: 180
0.72 0.12 0.16
Matches are distributed among these distances:
21 10 0.01
22 2 0.00
25 4 0.00
27 16 0.02
28 120 0.15
29 243 0.30
30 314 0.39
31 93 0.12
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.35
Consensus pattern (28 bp):
AAAATGGAATTTTTAAAAGTTTGAGGGT
Found at i:31064863 original size:118 final size:117
Alignment explanation
Indices: 31064713--31065768 Score: 1130
Period size: 118 Copynumber: 9.0 Consensus size: 117
31064703 CTTCAAGGTA
* * *
31064713 AAAAATGGAATCTTTAGAAGTTCGAGAGTAAAATGATAATTTTT-GAGAAGTTCGAGGTTAAAAA
1 AAAAATGGAAT-TTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGA-AAGTTCGAGGTTAAAAA
* * * *
31064777 TAGAAATTTTAAAAGTTCGAGGGTAAAATGGTAATTTTTAGAAAGTTTGGGGTC
64 TGGAATTTTTGAAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAGTTTGGGGTC
* * *
31064831 AAAATTGGAATATTTGGAAGTTCGAGAGTAAAATGGTAACTTTTAGAAAGTTC-AGGGTTAAAAA
1 AAAAATGGAAT-TTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAAGTTCGA-GGTTAAAAA
31064895 TGGAATTTTTGAAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAGTTTGGGGTC
64 TGGAATTTTTGAAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAGTTTGGGGTC
* * * *
31064949 AAAAATGCAATTTTTGGAAGTTTGAGGGT-AAATGGTAATTTTTAAAAAGTTCGGGGTTAAAAAT
1 AAAAATGGAA-TTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAAGTTCGAGGTTAAAAAT
* * ** *
31065013 TGAATTTTTG--A-----A--GTAAAATGCTAATTTTTAGAAAGTTCAGGGTT
65 GGAATTTTTGAAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAGTTTGGGGTC
* * * * * *
31065057 AAAAATGGAATTTTTGAAAGTTTGAGGGTAAAATGGTAATTTTAATAAAGATT-AAGGTCAAAAA
1 AAAAATGGAA-TTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAAG-TTCGAGGTTAAAAA
* * * *
31065121 TGGAATTTTTGGAAGTTTAAGGGTAAAATGGTAA-TTTTAGAAAGTTTAGGGTT
64 TGGAATTTTTGAAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAGTTTGGGGTC
* * *
31065174 AAAAATGGAATTTTGGAAGTTCAAGGGTAAAATTGTAATTTTTAGAAAGTTCAAGGTTAAAAATG
1 AAAAATGGAATTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAAGTTCGAGGTTAAAAATG
* * * ***
31065239 GAATTTTTGAAAGTTAGAGGGTAAAATGGTAATTTTCAAAAAGTTCAAGGTC
66 GAATTTTTGAAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAGTTTGGGGTC
* * * *
31065291 AAAAATGGAATTTTTGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAAGTTTGGGGTCAAAAATG
1 AAAAATGGAATTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAAGTTCGAGGTTAAAAATG
* *
31065356 GAATTTTTAAAAGTTTAAGGGTAAAATGGTAATTTTTAGAAAGTTTGGGGTC
66 GAATTTTTGAAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAGTTTGGGGTC
* * **
31065408 AAAAATGGAACTTTTGGAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAGTTTG-GGCTCGAAAA
1 AAAAATGGAA-TTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAAGTTCGAGG-TTAAAAA
* * * *
31065472 TAGAATTTTTGGAAGTTTGAGGGTAAAATAGTAATTTTTAGAAAGTTTGAGGTC
64 TGGAATTTTTGAAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAGTTTGGGGTC
** * *
31065526 AAAAATGGAACTTTTGGAAGTTTAAGGGTAAAATGGTTATTTTTAGAAAGTTCGGGGTTAAAAAT
1 AAAAATGGAA-TTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAAGTTCGAGGTTAAAAAT
* * * * * *
31065591 GGAATTTTGGGAAGTTCGAGGGTAAATTGGTAATTTTTGGAAAGTTAAGGGGTC
65 GGAATTTTTGAAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAGTT-TGGGGTC
* ** * * * *
31065645 -AAAATGTAATTTTTGGAAAGTTTAAGGGTTAAAAT-GTATTTTTTGGAAAGTT-AAGAGTTTAA
1 AAAAATGGAA-TTTTGG-AAGTTCGAGGG-TAAAATGGTAATTTTTAGAAAGTTCGAG-GTTAAA
* *
31065707 AATGTG-ATTTTTGGAAA-TTTTAGGGGTTAAAAT-GTGATTTTT-GAAAAGTTTGAGGGTC
62 AATG-GAATTTTT-GAAAGTTTGA-GGG-TAAAATGGTAATTTTTAG-AAAGTTTG-GGGTC
31065765 AAAA
1 AAAA
31065769 TGTGGTTTTT
Statistics
Matches: 809, Mismatches: 98, Indels: 59
0.84 0.10 0.06
Matches are distributed among these distances:
108 55 0.07
109 36 0.04
110 3 0.00
111 1 0.00
115 3 0.00
116 75 0.09
117 197 0.24
118 345 0.43
119 54 0.07
120 32 0.04
121 8 0.01
ACGTcount: A:0.37, C:0.03, G:0.25, T:0.35
Consensus pattern (117 bp):
AAAAATGGAATTTTGGAAGTTCGAGGGTAAAATGGTAATTTTTAGAAAGTTCGAGGTTAAAAATG
GAATTTTTGAAAGTTTGAGGGTAAAATGGTAATTTTTAGAAAGTTTGGGGTC
Found at i:31065048 original size:50 final size:50
Alignment explanation
Indices: 31064978--31065074 Score: 158
Period size: 50 Copynumber: 1.9 Consensus size: 50
31064968 GTTTGAGGGT
* * *
31064978 AAATGGTAATTTTTAAAAAGTTCGGGGTTAAAAATTGAATTTTTGAAGTA
1 AAATGCTAATTTTTAAAAAGTTCAGGGTTAAAAATGGAATTTTTGAAGTA
*
31065028 AAATGCTAATTTTTAGAAAGTTCAGGGTTAAAAATGGAATTTTTGAA
1 AAATGCTAATTTTTAAAAAGTTCAGGGTTAAAAATGGAATTTTTGAA
31065075 AGTTTGAGGG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.40, C:0.03, G:0.20, T:0.37
Consensus pattern (50 bp):
AAATGCTAATTTTTAAAAAGTTCAGGGTTAAAAATGGAATTTTTGAAGTA
Found at i:31065789 original size:60 final size:58
Alignment explanation
Indices: 31065026--31065791 Score: 271
Period size: 59 Copynumber: 13.0 Consensus size: 58
31065016 ATTTTTGAAG
* * *
31065026 TAAAATGCTAATTTTTAGAAAGTTCAGGGTTAAAAATG-GAATTTTT-GAAAGTTT-GAGGG-
1 TAAAATG-T-ATTTTTGGAAAGTTAAGGG-TCAAAATGTG-ATTTTTGGAAAGTTTAG-GGGT
*** *
31065085 TAAAATGGTAATTTTAATAAAGATTAA-GGTCAAAAATG-GAATTTTTGG-AAGTTTAAGGG-
1 TAAAAT-GT-ATTTTTGGAAAG-TTAAGGGTC-AAAATGTG-ATTTTTGGAAAGTTTAGGGGT
* * * * * * *
31065144 TAAAATGGTAATTTTAGAAAGTTTAGGGTTAAAAATG-GAATTTTGG-AAGTTCAAGGG-
1 TAAAAT-GTATTTTTGGAAAGTTAAGGG-TCAAAATGTGATTTTTGGAAAGTTTAGGGGT
* * *
31065201 TAAAATTGTAATTTTTAGAAAGTTCAAGGTTAAAAATG-GAATTTTT-GAAAG-TTAGAGGG-
1 TAAAA-TGT-ATTTTTGGAAAGTT-AAGGGTCAAAATGTG-ATTTTTGGAAAGTTTAG-GGGT
*** *
31065260 TAAAATGGTAATTTTCAAAAAGTTCAA-GGTCAAAAATG-GAATTTTT-G-AAG-TTCGAGGG-
1 TAAAAT-GT-ATTTTTGGAAAGTT-AAGGGTC-AAAATGTG-ATTTTTGGAAAGTTTAG-GGGT
* ** * *
31065318 TAAAATGGTAATTTTTAGAAAGTTTGGGGTCAAAAATG-GAATTTTT-AAAAGTTTAAGGG-
1 TAAAAT-GT-ATTTTTGGAAAGTTAAGGGTC-AAAATGTG-ATTTTTGGAAAGTTTAGGGGT
* ** *
31065377 TAAAATGGTAATTTTTAGAAAGTTTGGGGTCAAAAATG-GAACTTTTGG-AAGTTT-GAGGG-
1 TAAAAT-GT-ATTTTTGGAAAGTTAAGGGTC-AAAATGTG-ATTTTTGGAAAGTTTAG-GGGT
* * *
31065436 TAAAATGGTAATTTTTAGAAAGTT-TGGGCTCGAAAATAG-AATTTTTGG-AAGTTT-GAGGG-
1 TAAAAT-GT-ATTTTTGGAAAGTTAAGGG-TC-AAAAT-GTGATTTTTGGAAAGTTTAG-GGGT
* * * *
31065495 TAAAATAGTAATTTTTAGAAAGTT-TGAGGTCAAAAATG-GAACTTTTGG-AAGTTTAAGGG-
1 TAAAAT-GT-ATTTTTGGAAAGTTAAG-GGTC-AAAATGTG-ATTTTTGGAAAGTTTAGGGGT
* ** * * * *
31065554 TAAAATGGTTATTTTTAGAAAGTTCGGGGTTAAAAATG-GAATTTTGGGAAG-TTCGAGGG-
1 TAAAAT-G-TATTTTTGGAAAGTTAAGGG-TCAAAATGTGATTTTTGGAAAGTTTAG-GGGT
* * *
31065613 TAAATTGGTAATTTTTGGAAAGTTAAGGGGTCAAAATGTAATTTTTGGAAAGTTTAAGGGT
1 TAAAAT-GT-ATTTTTGGAAAGTTAA-GGGTCAAAATGTGATTTTTGGAAAGTTTAGGGGT
* * *
31065674 TAAAATGTATTTTTTGGAAAGTTAAGAGTTTAAAATGTGATTTTTGGAAATTTTAGGGGT
1 TAAAATGTA-TTTTTGGAAAGTTAAG-GGTCAAAATGTGATTTTTGGAAAGTTTAGGGGT
* * * * *
31065734 TAAAATGTGATTTTTGAAAAGTTTGAGGGTCAAAATGTGGTTTTTTGACAGTTTAGGG
1 TAAAATGT-ATTTTTGGAAAG-TTAAGGGTCAAAATGTGATTTTTGGAAAGTTTAGGG
31065792 ACCTCCTAAA
Statistics
Matches: 596, Mismatches: 72, Indels: 77
0.80 0.10 0.10
Matches are distributed among these distances:
57 27 0.05
58 113 0.19
59 327 0.55
60 117 0.20
61 12 0.02
ACGTcount: A:0.36, C:0.03, G:0.25, T:0.36
Consensus pattern (58 bp):
TAAAATGTATTTTTGGAAAGTTAAGGGTCAAAATGTGATTTTTGGAAAGTTTAGGGGT
Found at i:31067420 original size:17 final size:17
Alignment explanation
Indices: 31067374--31067495 Score: 94
Period size: 17 Copynumber: 7.4 Consensus size: 17
31067364 GTATTTGGAC
* *
31067374 TTTAAAATTAAATTTAAA
1 TTTAAATTTAAA-ATAAA
* * *
31067392 ATTAAGTTTAAAAT-CA
1 TTTAAATTTAAAATAAA
*
31067408 TTTCAAATTTAAACTAAA
1 TTT-AAATTTAAAATAAA
*
31067426 TTTAAATTTAAAACAAA
1 TTTAAATTTAAAATAAA
*
31067443 TTT--ATTT---TTAAA
1 TTTAAATTTAAAATAAA
*
31067455 TTTAAATTTAAAGTAAA
1 TTTAAATTTAAAATAAA
31067472 TTTAAATTTAAAAATAAA
1 TTTAAATTT-AAAATAAA
31067490 TTTAAA
1 TTTAAA
31067496 ACCAATTAAA
Statistics
Matches: 81, Mismatches: 15, Indels: 16
0.72 0.13 0.14
Matches are distributed among these distances:
12 6 0.07
14 4 0.05
15 4 0.05
16 3 0.04
17 38 0.47
18 26 0.32
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:31067433 original size:6 final size:6
Alignment explanation
Indices: 31067374--31067495 Score: 83
Period size: 6 Copynumber: 21.0 Consensus size: 6
31067364 GTATTTGGAC
* * * * *
31067374 TTTAAA ATTAAA TTTAAA ATTAAG TTTAAA -AT-CA TTTCAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA
* ** **
31067421 -CTAAA TTTAAA TTTAAA -ACAAA TTTATT TTTAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* **
31067467 -GTAAA TTTAAA TTTAAA AATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
31067496 ACCAATTAAA
Statistics
Matches: 84, Mismatches: 26, Indels: 12
0.69 0.21 0.10
Matches are distributed among these distances:
4 1 0.01
5 13 0.15
6 66 0.79
7 4 0.05
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:31067459 original size:29 final size:29
Alignment explanation
Indices: 31067411--31067524 Score: 124
Period size: 29 Copynumber: 4.0 Consensus size: 29
31067401 AAAATCATTT
* *
31067411 CAAATTTAAA-CTAAATTTAAATTTAAAA
1 CAAATTTAAATTTAAATATAAATTTAAAA
** * *
31067439 CAAATTTATTTTTAAATTTAAATTTAAAG
1 CAAATTTAAATTTAAATATAAATTTAAAA
* *
31067468 TAAATTTAAATTTAAAAATAAATTTAAAA
1 CAAATTTAAATTTAAATATAAATTTAAAA
* *
31067497 CCAATTAAAATTT-AATATAAATTTAAAA
1 CAAATTTAAATTTAAATATAAATTTAAAA
31067525 TAAAAAATTT
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
28 22 0.31
29 49 0.69
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.39
Consensus pattern (29 bp):
CAAATTTAAATTTAAATATAAATTTAAAA
Done.