Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 50 of 318
Found at i:14053887 original size:2 final size:2
Alignment explanation
Indices: 14053880--14053911 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
14053870 ATAGGATAGA
14053880 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
14053912 GGTGCATCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14054915 original size:32 final size:33
Alignment explanation
Indices: 14054869--14054932 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
14054859 AACAACGGGT
14054869 ACTGGGCCGAAG-CCCTTTTCAGA-ATACAGTAA
1 ACTGGGCCGAAGCCCCTTTTCAGATA-ACAGTAA
**
14054901 ACTGGGCCTTAGCCCCTTTTCAGATAACAGTA
1 ACTGGGCCGAAGCCCCTTTTCAGATAACAGTA
14054933 TGGCCTATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 10 0.36
33 17 0.61
34 1 0.04
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (33 bp):
ACTGGGCCGAAGCCCCTTTTCAGATAACAGTAA
Found at i:14055305 original size:27 final size:26
Alignment explanation
Indices: 14055249--14055305 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
14055239 CAACCTTAAC
* * * *
14055249 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAAGGGTAAATCAGTAATTTTCCA
*
14055275 CCTAAGGGTAAATCTGTAAATTTTCCA
1 CCTAAGGGTAAATCAGT-AATTTTCCA
14055302 CCTA
1 CCTA
14055306 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (26 bp):
CCTAAGGGTAAATCAGTAATTTTCCA
Found at i:14059453 original size:27 final size:26
Alignment explanation
Indices: 14059397--14059453 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
14059387 CAACCTTAAC
* * *
14059397 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
14059423 CCTAGGGGTAAATCTA-TAAATTTTCCA
1 CCTAGGGGTAAATC-AGT-AATTTTCCA
14059450 CCTA
1 CCTA
14059454 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:14062382 original size:20 final size:20
Alignment explanation
Indices: 14062359--14062413 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
14062349 ATACCAACTA
*
14062359 AAAAATATCGATACTTTTGT
1 AAAAATATCGATACTTGTGT
*
14062379 AAAAATATCGACACTTGTGT
1 AAAAATATCGATACTTGTGT
* *
14062399 AAATATATTGATACT
1 AAAAATATCGATACT
14062414 ACGTGGCTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (20 bp):
AAAAATATCGATACTTGTGT
Found at i:14064054 original size:16 final size:16
Alignment explanation
Indices: 14064033--14064063 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14064023 ATTATTGCTT
*
14064033 TATTTTTATTCTTATC
1 TATTTTTATGCTTATC
14064049 TATTTTTATGCTTAT
1 TATTTTTATGCTTAT
14064064 TTCACTTCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.10, G:0.03, T:0.68
Consensus pattern (16 bp):
TATTTTTATGCTTATC
Found at i:14074265 original size:49 final size:49
Alignment explanation
Indices: 14074193--14074292 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
14074183 TTAGATCGAG
14074193 ACCGATGGTTGTTTGTTATTTAGAGGCAGAGTATACCGAAAAGTTCAGA
1 ACCGATGGTTGTTTGTTATTTAGAGGCAGAGTATACCGAAAAGTTCAGA
*
14074242 ACCGATGGTTGTTTGTTATTTAGAGGCAGAGTATACCGAAAAGTTTAGA
1 ACCGATGGTTGTTTGTTATTTAGAGGCAGAGTATACCGAAAAGTTCAGA
14074291 AC
1 AC
14074293 TAGTACAAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (49 bp):
ACCGATGGTTGTTTGTTATTTAGAGGCAGAGTATACCGAAAAGTTCAGA
Found at i:14082710 original size:40 final size:39
Alignment explanation
Indices: 14082655--14082842 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 39
14082645 AGAATGATAC
* * *
14082655 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG-TTATAT
*
14082695 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
*
14082735 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
* * *
14082775 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGT--TATAT
* * *
14082815 TCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
14082843 TTGCGGTTAT
Statistics
Matches: 134, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 130 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGTTATAT
Found at i:14082852 original size:80 final size:80
Alignment explanation
Indices: 14082655--14082862 Score: 249
Period size: 80 Copynumber: 2.6 Consensus size: 80
14082645 AGAATGATAC
* * * *
14082655 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCATTCG
* *** *
14082720 TGCGAGTTGTTATAT
66 TGCAAGTTACCAAAT
* * *
14082735 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCATTC
14082799 GTGCAAGTTACCAAAT
65 GTGCAAGTTACCAAAT
* * * *
14082815 TCGGGTTAAGACCCGAAGGCAATTGTGCTTGCGGTTATATCC-GGCTAA
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAA
14082863 ATTCCGAAGA
Statistics
Matches: 108, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 8 0.07
80 97 0.90
81 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCATTCG
TGCAAGTTACCAAAT
Found at i:14087293 original size:28 final size:28
Alignment explanation
Indices: 14087224--14087324 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
14087214 GACAAGATTG
* * * *
14087224 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
14087254 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
14087282 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
14087311 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
14087325 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:14095216 original size:28 final size:28
Alignment explanation
Indices: 14095147--14095247 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
14095137 GACAAGATTG
* * * *
14095147 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
14095177 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
14095205 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
14095234 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
14095248 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:14098743 original size:28 final size:28
Alignment explanation
Indices: 14098674--14098774 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
14098664 GACAAGATTG
* * * *
14098674 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
14098704 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
14098732 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
14098761 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
14098775 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:14104535 original size:2 final size:2
Alignment explanation
Indices: 14104528--14104557 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14104518 CGGCTCTAGC
14104528 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
14104558 GTTTGCACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14105485 original size:40 final size:39
Alignment explanation
Indices: 14105430--14105617 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 39
14105420 AGAATGATAC
* * *
14105430 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG-TTATAT
*
14105470 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
*
14105510 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAG-TGTTATAT
* * *
14105550 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGT--TATAT
* * *
14105590 TCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
14105618 TTGCGGTTAT
Statistics
Matches: 134, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 130 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGTTATAT
Found at i:14105627 original size:80 final size:80
Alignment explanation
Indices: 14105430--14105637 Score: 249
Period size: 80 Copynumber: 2.6 Consensus size: 80
14105420 AGAATGATAC
* * * *
14105430 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCATTCG
* *** *
14105495 TGCGAGTTGTTATAT
66 TGCAAGTTACCAAAT
* * *
14105510 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCATTC
14105574 GTGCAAGTTACCAAAT
65 GTGCAAGTTACCAAAT
* * * *
14105590 TCGGGTTAAGACCCGAAGGCAATTGTGCTTGCGGTTATATCC-GGCTAA
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAA
14105638 ATTCCGAAGA
Statistics
Matches: 108, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
79 8 0.07
80 97 0.90
81 3 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGGTTATATCCGGGCTAAGACCCGAAGGCATTCG
TGCAAGTTACCAAAT
Found at i:14108746 original size:13 final size:13
Alignment explanation
Indices: 14108728--14108753 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14108718 CAGGGACACG
14108728 CCCGTGTCTGAAA
1 CCCGTGTCTGAAA
14108741 CCCGTGTCTGAAA
1 CCCGTGTCTGAAA
14108754 TCATGAGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (13 bp):
CCCGTGTCTGAAA
Found at i:14109970 original size:47 final size:46
Alignment explanation
Indices: 14109919--14110036 Score: 130
Period size: 47 Copynumber: 2.5 Consensus size: 46
14109909 ACGGCTGATA
* **
14109919 CATGTCCCAGACATGTCTTACACTAGCCCTCGT-CTGGATGCCGGTG
1 CATGTCCCAGACATGTCTTACACTAGCCCTCGTAATGGA-GCCGAAG
** * *
14109965 CCATGTCCTGGACATGGTCTTACACTAGCTCTCGTAATGTAGCCGAAG
1 -CATGTCCCAGACAT-GTCTTACACTAGCCCTCGTAATGGAGCCGAAG
*
14110013 CATGTCCCAGACATTTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
14110037 GGCGCACAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
46 9 0.15
47 24 0.41
48 23 0.39
49 3 0.05
ACGTcount: A:0.21, C:0.31, G:0.20, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCCCTCGTAATGGAGCCGAAG
Found at i:14116246 original size:46 final size:46
Alignment explanation
Indices: 14116193--14116368 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
14116183 TATTTGGGCA
14116193 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
14116239 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
14116286 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
14116332 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
14116369 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:14116348 original size:93 final size:93
Alignment explanation
Indices: 14116189--14116360 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
14116179 GGGATATTTG
* *
14116189 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
14116254 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
14116282 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
14116347 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
14116361 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:14120248 original size:47 final size:44
Alignment explanation
Indices: 14120148--14120456 Score: 228
Period size: 47 Copynumber: 6.7 Consensus size: 44
14120138 TACGCGTGCT
* * * *
14120148 GATGCATGTCCCAAACATGTCTTACACTAGCATAACTCT-TAGCC
1 GATGCATATCCCAGACATGTCTTACACTGGC-TATCTCTGTAGCC
*
14120192 GATGCATATCCCAGACACGTCTTACACTGGCTATCTCTGTCGAGGCC
1 GATGCATATCCCAGACATGTCTTACACTGGCTATCTCTGT--A-GCC
*
14120239 GATGCATATCCTAGACATGTCTTACACTGGCACTCATCTCTGT-GCC
1 GATGCATATCCCAGACATGTCTTACACTGG--CT-ATCTCTGTAGCC
* * *
14120285 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGTATGGCT
1 GATG-CATATCCCAGACAT-GTCTTACACTGGCTATC-TCTGTA--GCC
* * * ** *
14120333 GATGCATGTCCTAGACATGTCTTACACTAGCCCTCGTCTGGATGCC
1 GATGCATATCCCAGACATGTCTTACACTGGCTATC-TCTGTA-GCC
* * * * * *
14120379 AATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATGTGGCC
1 GATG-CATATCCCAGACAT-GTCTTACACTGGCTATC-T-CTGTAGCC
* *
14120427 GAAGCATGTCCCAGACATGTCTTACACTGG
1 GATGCATATCCCAGACATGTCTTACACTGG
14120457 TGCACAAATC
Statistics
Matches: 218, Mismatches: 30, Indels: 32
0.78 0.11 0.11
Matches are distributed among these distances:
43 6 0.03
44 28 0.13
45 5 0.02
46 43 0.20
47 85 0.39
48 39 0.18
49 4 0.02
50 8 0.04
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (44 bp):
GATGCATATCCCAGACATGTCTTACACTGGCTATCTCTGTAGCC
Found at i:14120345 original size:94 final size:94
Alignment explanation
Indices: 14120096--14120454 Score: 376
Period size: 94 Copynumber: 3.8 Consensus size: 94
14120086 GGATATATTA
* * * *
14120096 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATA-TACGCGTGCTGATGCATGTCCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTA--TG-GCCGATGCATGTCCC
* *
14120160 AAACATGTCTTACACTAGCA-T-AACTCT-TAG
63 AGACATGTCTTACACTAGCACTCATCTCTGT-G
* * * * *
14120190 CCGATG-CATATCCCAGACA-CGTCTTACACTGGCTATC-TCTGTCGA-GGCCGATGCATATCCT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAT-AGT--ATGGCCGATGCATGTCCC
*
14120251 AGACATGTCTTACACTGGCACTCATCTCTGTG
63 AGACATGTCTTACACTAGCACTCATCTCTGTG
* *
14120283 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCTAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCAGA
* * *
14120348 CATGTCTTACACTAGCCCTCGTCT-GGATG
66 CATGTCTTACACTAGCACTCATCTCTG-TG
* * * * * *
14120377 CCAATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGAAGCATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCAGA
14120442 CATGTCTTACACT
66 CATGTCTTACACT
14120455 GGTGCACAAA
Statistics
Matches: 225, Mismatches: 28, Indels: 24
0.81 0.10 0.09
Matches are distributed among these distances:
91 31 0.14
92 18 0.08
93 26 0.12
94 129 0.57
95 20 0.09
96 1 0.00
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (94 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAGTATGGCCGATGCATGTCCCAGA
CATGTCTTACACTAGCACTCATCTCTGTG
Found at i:14120359 original size:141 final size:140
Alignment explanation
Indices: 14120099--14120456 Score: 352
Period size: 141 Copynumber: 2.5 Consensus size: 140
14120089 TATATTACCG
* * * * * * * * *
14120099 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATACGCGTGCTGATGCATGTCCCAAAC
1 ATGCCATATCCTAGACATGGTCTTACACTGGCACTCATA-ATGTG-GCCGAAGCATGTCCCAGAC
* * * * * * *
14120164 ATGTCTTACACTAGC-AT-A-ACTCTTAGCCGATGCATATCCCAGACACGTCTTACACTGGCTAT
64 ATGTCTTACACTGGCTATCATAGT-ATGGCTGATGCATATCCCAGACACGTCTTACACTAGCCAT
*
14120226 C-TCTGTCGAGGCCG
128 CGTCTG--GAGGCCA
* * *
14120240 ATG-CATATCCTAGACAT-GTCTTACACTGGCACTCAT-CTCTGTGCCGATGCCATGTCCCAGAC
1 ATGCCATATCCTAGACATGGTCTTACACTGGCACTCATAATGTG-GCCGAAG-CATGTCCCAGAC
* * * *
14120302 ATGGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCTAGACATGTCTTACACTAGCCCT
64 AT-GTCTTACACTGGCTATCATAGTATGGCTGATGCATATCCCAGACACGTCTTACACTAGCCAT
*
14120367 CGTCTGGATGCCA
128 CGTCTGGAGGCCA
* *
14120380 ATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGAAGCATGTCCCAGACAT
1 ATGCCATATCCTAGACATGGTCTTACACTGGCACTCATAATGTGGCCGAAGCATGTCCCAGACAT
14120445 GTCTTACACTGG
66 GTCTTACACTGG
14120457 TGCACAAATC
Statistics
Matches: 180, Mismatches: 28, Indels: 19
0.79 0.12 0.08
Matches are distributed among these distances:
137 8 0.04
138 13 0.07
139 30 0.17
140 33 0.18
141 63 0.35
142 30 0.17
143 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (140 bp):
ATGCCATATCCTAGACATGGTCTTACACTGGCACTCATAATGTGGCCGAAGCATGTCCCAGACAT
GTCTTACACTGGCTATCATAGTATGGCTGATGCATATCCCAGACACGTCTTACACTAGCCATCGT
CTGGAGGCCA
Found at i:14122577 original size:27 final size:27
Alignment explanation
Indices: 14122546--14122646 Score: 121
Period size: 27 Copynumber: 3.7 Consensus size: 27
14122536 TCTAGCCCCT
* *
14122546 AAGGGCATTTCGATAATTTTACAAGTC
1 AAGGGTATTTCGGTAATTTTACAAGTC
* *
14122573 GAGGGTATTTCGGTAATTGTACAAGTC
1 AAGGGTATTTCGGTAATTTTACAAGTC
* * *
14122600 AAGGGTATTTCGGTAATTTCACAAATT
1 AAGGGTATTTCGGTAATTTTACAAGTC
* *
14122627 AGGGGTATTTTGGTAATTTT
1 AAGGGTATTTCGGTAATTTT
14122647 CCTTTATTAT
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (27 bp):
AAGGGTATTTCGGTAATTTTACAAGTC
Found at i:14122979 original size:28 final size:29
Alignment explanation
Indices: 14122942--14123032 Score: 107
Period size: 29 Copynumber: 3.2 Consensus size: 29
14122932 AAGTCTGCAT
*
14122942 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
* * *
14122970 TCATTCATATGACCCATTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
*
14122999 ACATTCATATGGCCCATCT-GGCCCGAATC
1 ACATTCATATGGCCCA-CTAGGCCCAAATC
14123028 A-ATTC
1 ACATTC
14123033 CAAGCCATGT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
28 24 0.45
29 28 0.53
30 1 0.02
ACGTcount: A:0.29, C:0.33, G:0.14, T:0.24
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAAATC
Found at i:14126219 original size:40 final size:40
Alignment explanation
Indices: 14126164--14126465 Score: 500
Period size: 40 Copynumber: 7.6 Consensus size: 40
14126154 TATTCGAATG
14126164 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
14126204 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTAACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
14126244 ATATCCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
14126284 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
14126324 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
14126364 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
14126404 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
14126444 ATATCC-AGCTAATTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
14126466 TACTTGGGTT
Statistics
Matches: 246, Mismatches: 15, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 13 0.05
40 231 0.94
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:14129807 original size:55 final size:53
Alignment explanation
Indices: 14129720--14129919 Score: 189
Period size: 53 Copynumber: 3.8 Consensus size: 53
14129710 ATTAGGGTTT
* *
14129720 AAGGATACCGTGTAAGACCATGTC-AGGACATGGCATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGG-CATGGCATTGGTAAGTT-C-ATAAGGC
* * *
14129775 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTAAGTTCATAAGGC
* * *
14129828 AAGGATACCATATAAGACCATGTCAAGACATGGCAATGGTAAGTT--TCAA---
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTAAGTTCAT-AAGGC
* ** * *
14129877 AAGGATACCACGTAAGACCATGAAAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTAAG
14129920 GTACCCGTGT
Statistics
Matches: 125, Mismatches: 16, Indels: 13
0.81 0.10 0.08
Matches are distributed among these distances:
49 38 0.30
51 1 0.01
52 6 0.05
53 41 0.33
54 1 0.01
55 31 0.25
56 7 0.06
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTAAGTTCATAAGGC
Found at i:14129848 original size:53 final size:56
Alignment explanation
Indices: 14129720--14129872 Score: 190
Period size: 53 Copynumber: 2.8 Consensus size: 56
14129710 ATTAGGGTTT
* *
14129720 AAGGATACCGTGTAAGACCATGTC-AGGACATGGCATTGATAAGTTACTATAAGGCA
1 AAGGATACCATGTAAGACCATGTCAAGG-CATGGCATTGGTAAGTTACTATAAGGCA
* * *
14129776 AAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTT-C-ATAAGGC-
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTAAGTTACTATAAGGCA
* * *
14129828 AAGGATACCATATAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTAAGTT
14129873 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
52 4 0.05
53 41 0.49
54 1 0.01
55 31 0.37
56 7 0.08
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (56 bp):
AAGGATACCATGTAAGACCATGTCAAGGCATGGCATTGGTAAGTTACTATAAGGCA
Found at i:14130132 original size:16 final size:16
Alignment explanation
Indices: 14130111--14130141 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14130101 ATAAATTTGA
14130111 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
14130127 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
14130142 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:14134649 original size:25 final size:25
Alignment explanation
Indices: 14134621--14134674 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
14134611 CTAAGAATTG
* * *
14134621 GTAAGCTCTTACGATATGATAATCA
1 GTAAGCTCTCACGAGATGAGAATCA
*
14134646 GTAAGCTCTCACGAGCTGAGAATCA
1 GTAAGCTCTCACGAGATGAGAATCA
14134671 GTAA
1 GTAA
14134675 TCCCTAATGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (25 bp):
GTAAGCTCTCACGAGATGAGAATCA
Found at i:14134668 original size:50 final size:50
Alignment explanation
Indices: 14134554--14134674 Score: 120
Period size: 50 Copynumber: 2.4 Consensus size: 50
14134544 ATGTATGCTT
* * *
14134554 ATACTAGCTGTGAATCGGTATGCTCTCACGAGATATAAACCAGTAAGCTC
1 ATACAAGCTGAGAATCGGTAAGCTCTCACGAGATATAAACCAGTAAGCTC
* * * * *
14134604 ATACAAGCTAAGAATTGGTAAGCTCTTACGATATGAT-AATCAGTAAGCTC
1 ATACAAGCTGAGAATCGGTAAGCTCTCACGAGAT-ATAAACCAGTAAGCTC
* *
14134654 -TCACGAGCTGAGAATCAGTAA
1 AT-ACAAGCTGAGAATCGGTAA
14134675 TCCCTAATGA
Statistics
Matches: 57, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
49 1 0.02
50 54 0.95
51 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (50 bp):
ATACAAGCTGAGAATCGGTAAGCTCTCACGAGATATAAACCAGTAAGCTC
Found at i:14139235 original size:23 final size:23
Alignment explanation
Indices: 14139205--14139251 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
14139195 TTGAATCAGA
14139205 TAGACTAGATAGTACATCTAATG
1 TAGACTAGATAGTACATCTAATG
14139228 TAGACTAGATAGTACATCTAATG
1 TAGACTAGATAGTACATCTAATG
14139251 T
1 T
14139252 TATTTTAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (23 bp):
TAGACTAGATAGTACATCTAATG
Found at i:14148869 original size:40 final size:40
Alignment explanation
Indices: 14148786--14149007 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
14148776 GCTACTCGTT
* * *
14148786 CAAATGCCTTCGGGACATAGCCC-G-TATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
14148824 CAAATGCCTTCGGGACTTAACCCGGATTTGGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
14148864 CAAATGCCTTCGGGACTTAACCCGGATTTGGTAA--CGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
**
14148902 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * *
14148942 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* * *
14148983 TAAA-GCCTTCGGGACTCAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
14149008 CATCATTCGA
Statistics
Matches: 164, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
37 3 0.02
38 52 0.32
39 1 0.01
40 98 0.60
41 10 0.06
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:14148902 original size:78 final size:77
Alignment explanation
Indices: 14148753--14148954 Score: 225
Period size: 78 Copynumber: 2.6 Consensus size: 77
14148743 GAATCACGTA
* ** *
14148753 CCTTCGGAAT-TTAA-CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGTATAG
1 CCTTCGG-ATCTTAACCCGGATTTAG-TAACTCGCACAAATGCCTTCGGGACATAACCCGTATAG
14148815 TAACTCGCACAAATG
64 TAAC-CGCACAAATG
* * * *
14148830 CCTTCGGGA-CTTAACCCGGATTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTG
1 CCTTC-GGATCTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACATAACCC-G-TATA
14148894 GTAA-CGCACAAATG
63 GTAACCGCACAAATG
**
14148908 CCTTCGGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGG
1 CCTTCGGATCTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGG
14148955 ATCTTAGTCC
Statistics
Matches: 107, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
77 14 0.13
78 86 0.80
79 1 0.01
80 6 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (77 bp):
CCTTCGGATCTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACATAACCCGTATAGTA
ACCGCACAAATG
Found at i:14148968 original size:78 final size:78
Alignment explanation
Indices: 14148786--14148954 Score: 227
Period size: 78 Copynumber: 2.2 Consensus size: 78
14148776 GCTACTCGTT
* * * *
14148786 CAAATGCCTTCGGGACATAGCCC-G-TATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAACCCGGATTTGGTAA--CGCACAAATGCCTTCGGGACTTAACCCGG
*
14148849 ATTTGGTAACTCGCA
64 ATTTAGTAACTCGCA
**
14148864 CAAATGCCTTCGGGACTTAACCCGGATTTGGTAACGCACAAATGCCTTC-GGATCTTAGTCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGATTTGGTAACGCACAAATGCCTTCGGGA-CTTAACCCGGA
14148928 TTTAGTAACTCGCA
65 TTTAGTAACTCGCA
14148942 CAAATGCCTTCGG
1 CAAATGCCTTCGG
14148955 ATCTTAGTCC
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
77 3 0.04
78 71 0.88
79 1 0.01
80 6 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTGGTAACGCACAAATGCCTTCGGGACTTAACCCGGAT
TTAGTAACTCGCA
Found at i:14156886 original size:40 final size:40
Alignment explanation
Indices: 14156849--14157074 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
14156839 GCTACTCGTT
* *
14156849 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
14156889 CAAATGCCTTCGGGACTTAACCCGGATTTGGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
14156929 CAAATGCCTTCGGGACTTAACCCGGATTTGGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** *
14156969 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAACTCGCA
** * * *
14157009 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* * *
14157050 TAAA-GCCTTCGGGACTCAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
14157075 CATCATTCGA
Statistics
Matches: 168, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
39 3 0.02
40 154 0.92
41 11 0.07
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:14157058 original size:120 final size:120
Alignment explanation
Indices: 14156849--14157074 Score: 280
Period size: 120 Copynumber: 1.9 Consensus size: 120
14156839 GCTACTCGTT
*
14156849 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
* * * *
14156914 ATTTGGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGTAACTCGCA
66 ATATAGTAACTAGCACAAATGCCTTCGGGACTCAACCCGGATTTGGTAACTCGCA
* * **
14156969 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCACACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCACACAAATGCCTTCGGGA-CTTAACC
* * *
14157031 CGGATATAGTCACTTAGCATAAA-GCCTTCGGGACTCAGCCCGGA
63 CGGATATAGTAAC-TAGCACAAATGCCTTCGGGACTCAACCCGGA
14157075 CATCATTCGA
Statistics
Matches: 90, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
119 6 0.07
120 75 0.83
121 9 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCACAAATGCCTTCGGGACTCAACCCGGATTTGGTAACTCGCA
Found at i:14169128 original size:27 final size:27
Alignment explanation
Indices: 14169098--14169159 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
14169088 GTGATTTTTG
14169098 GTGAAATGTCTA-ATTAGGGATTAAATT
1 GTGAAATGTCTACATTAGGG-TTAAATT
* * *
14169125 GTGAAATGTGTACTTTTTGGGTTAAATT
1 GTGAAATGTCTAC-ATTAGGGTTAAATT
14169153 GTGAAAT
1 GTGAAAT
14169160 AAATGAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 11 0.37
28 14 0.47
29 5 0.17
ACGTcount: A:0.32, C:0.03, G:0.24, T:0.40
Consensus pattern (27 bp):
GTGAAATGTCTACATTAGGGTTAAATT
Found at i:14178901 original size:50 final size:50
Alignment explanation
Indices: 14178842--14178941 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
14178832 TGTAGTGGTG
14178842 GAGACTTGATTCATTTGCAAGCCTACGGTAATATCATGCTACGTTTCGAT
1 GAGACTTGATTCATTTGCAAGCCTACGGTAATATCATGCTACGTTTCGAT
*
14178892 GAGACTTGATTCATTTGCAAGCCTATGGTAATATCATGCTACGTTTCGAT
1 GAGACTTGATTCATTTGCAAGCCTACGGTAATATCATGCTACGTTTCGAT
14178942 TTTGAGAGTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (50 bp):
GAGACTTGATTCATTTGCAAGCCTACGGTAATATCATGCTACGTTTCGAT
Found at i:14180838 original size:40 final size:40
Alignment explanation
Indices: 14180775--14180860 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 40
14180765 TCAATCTTTC
* *
14180775 CCTTCATGAGTTTTCCAATTATAATTCTTTATAGTTTCAT
1 CCTTCATGAGTTTTCCAAGTATAATTCTTTACAGTTTCAT
*
14180815 CCTTCATGAGTTTTCTAAGTATAATTCTTTACAGTTTCAT
1 CCTTCATGAGTTTTCCAAGTATAATTCTTTACAGTTTCAT
14180855 CCTTCA
1 CCTTCA
14180861 AGTAAATAGG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 43 1.00
ACGTcount: A:0.24, C:0.20, G:0.08, T:0.48
Consensus pattern (40 bp):
CCTTCATGAGTTTTCCAAGTATAATTCTTTACAGTTTCAT
Found at i:14182809 original size:2 final size:2
Alignment explanation
Indices: 14182802--14182827 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14182792 TAAAACAGAC
14182802 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
14182828 GACTTTTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14186518 original size:18 final size:19
Alignment explanation
Indices: 14186491--14186545 Score: 53
Period size: 18 Copynumber: 3.0 Consensus size: 19
14186481 GCATCATCAC
*
14186491 TACCAGCTCCTTCAACACA
1 TACCAACTCCTTCAACACA
* *
14186510 -ACCAACTCCTCCCAC-CA
1 TACCAACTCCTTCAACACA
14186527 TACCAAC-CTCTTCAACACA
1 TACCAACTC-CTTCAACACA
14186546 GCAAATACTT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
17 3 0.11
18 23 0.82
19 2 0.07
ACGTcount: A:0.33, C:0.47, G:0.02, T:0.18
Consensus pattern (19 bp):
TACCAACTCCTTCAACACA
Found at i:14186985 original size:45 final size:45
Alignment explanation
Indices: 14186930--14187028 Score: 153
Period size: 45 Copynumber: 2.2 Consensus size: 45
14186920 CGATGGATGG
* *
14186930 TTTTATTTTGTTGGATCATTTTGATGGATGTATTCTGATGGACAA
1 TTTTATTTTGTTGAATCATTCTGATGGATGTATTCTGATGGACAA
* *
14186975 TTTTATTTTGTTGAATCATTCTGATGGTTGTATTTTGATGGACAA
1 TTTTATTTTGTTGAATCATTCTGATGGATGTATTCTGATGGACAA
14187020 TTTGTATTT
1 TTT-TATTT
14187029 ATCCTTTATA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 44 0.90
46 5 0.10
ACGTcount: A:0.21, C:0.06, G:0.20, T:0.53
Consensus pattern (45 bp):
TTTTATTTTGTTGAATCATTCTGATGGATGTATTCTGATGGACAA
Found at i:14187261 original size:14 final size:16
Alignment explanation
Indices: 14187242--14187274 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
14187232 CATTAGTTTG
14187242 TTTTTCCTT-TAC-AT
1 TTTTTCCTTGTACAAT
14187256 TTTTTCCTTGTACAAT
1 TTTTTCCTTGTACAAT
14187272 TTT
1 TTT
14187275 ATCTTCTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.53
15 3 0.18
16 5 0.29
ACGTcount: A:0.15, C:0.18, G:0.03, T:0.64
Consensus pattern (16 bp):
TTTTTCCTTGTACAAT
Found at i:14187897 original size:16 final size:16
Alignment explanation
Indices: 14187878--14187925 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
14187868 TCTTTATTTA
14187878 TGATTGAGTCAAACCT
1 TGATTGAGTCAAACCT
*
14187894 TGATT-A-T--AA-TT
1 TGATTGAGTCAAACCT
14187905 TGATTGAGTCAAACCT
1 TGATTGAGTCAAACCT
14187921 TGATT
1 TGATT
14187926 ATAATTTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 10
0.68 0.05 0.27
Matches are distributed among these distances:
11 6 0.24
12 3 0.12
13 1 0.04
14 1 0.04
15 3 0.12
16 11 0.44
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (16 bp):
TGATTGAGTCAAACCT
Found at i:14187910 original size:27 final size:27
Alignment explanation
Indices: 14187878--14187935 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
14187868 TCTTTATTTA
14187878 TGATTGAGTCAAACCTTGATTATAATT
1 TGATTGAGTCAAACCTTGATTATAATT
14187905 TGATTGAGTCAAACCTTGATTATAATT
1 TGATTGAGTCAAACCTTGATTATAATT
14187932 TGAT
1 TGAT
14187936 GAGATTTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.41
Consensus pattern (27 bp):
TGATTGAGTCAAACCTTGATTATAATT
Found at i:14192525 original size:13 final size:13
Alignment explanation
Indices: 14192499--14192535 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
14192489 GTTATTTCTA
* *
14192499 TATCTGTATATTG
1 TATCTATATTTTG
14192512 TATCTATATTTTG
1 TATCTATATTTTG
14192525 TATCTATATTT
1 TATCTATATTT
14192536 AGGGTTGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.59
Consensus pattern (13 bp):
TATCTATATTTTG
Found at i:14194642 original size:11 final size:11
Alignment explanation
Indices: 14194626--14194650 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
14194616 ACATATGCTC
14194626 TTCTCTTTTTT
1 TTCTCTTTTTT
14194637 TTCTCTTTTTT
1 TTCTCTTTTTT
14194648 TTC
1 TTC
14194651 GCGACCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TTCTCTTTTTT
Found at i:14196499 original size:44 final size:42
Alignment explanation
Indices: 14196450--14196606 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 42
14196440 TGTGTTCTTG
* *
14196450 TGTAAGACCACGTCTGGGACATTGGCATCGACTTATGATTTACG
1 TGTAAGACCACGCCTGGGACATTGGCATCGA-TT-TGATTTACA
**
14196494 TGTAAGACCATACCTGGGACATTGGCATCGTATTTGATTT-CA
1 TGTAAGACCACGCCTGGGACATTGGCATCG-ATTTGATTTACA
* * * *
14196536 TGTAAGACC-CTGTCTGGGATAGTGACATCGATATTTGA-TTACA
1 TGTAAGACCAC-GCCTGGGACATTGGCATCG--ATTTGATTTACA
* **
14196579 TGTAAGACCATGCCTGGGATGTTGGCAT
1 TGTAAGACCACGCCTGGGACATTGGCAT
14196607 TGTACGAGCT
Statistics
Matches: 93, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
42 26 0.28
43 37 0.40
44 29 0.31
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGCCTGGGACATTGGCATCGATTTGATTTACA
Found at i:14200000 original size:24 final size:23
Alignment explanation
Indices: 14199946--14200000 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
14199936 AAAATTCCTT
* * *
14199946 AAAAACTTGTAAAAATTATTAGTT
1 AAAAA-TTCTAAAAATTATAAGTC
14199970 AAAAATTCTAAAAATTATAATGTC
1 AAAAATTCTAAAAATTATAA-GTC
*
14199994 AAGAATT
1 AAAAATT
14200001 AATTTTATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 13 0.50
24 13 0.50
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (23 bp):
AAAAATTCTAAAAATTATAAGTC
Found at i:14200032 original size:20 final size:21
Alignment explanation
Indices: 14200003--14200046 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
14199993 CAAGAATTAA
*
14200003 TTTTATAA-TTTGTATGATTT
1 TTTTACAATTTTGTATGATTT
*
14200023 TTTTACAATTTTTTATGATTT
1 TTTTACAATTTTGTATGATTT
14200044 TTT
1 TTT
14200047 ATAAAAATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.23, C:0.02, G:0.07, T:0.68
Consensus pattern (21 bp):
TTTTACAATTTTGTATGATTT
Found at i:14204967 original size:34 final size:34
Alignment explanation
Indices: 14204929--14204997 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
14204919 GTTTAACAAA
*
14204929 TTCGTTTTATTGATAATTTAGCATATATTTTTAC
1 TTCGTTTTAGTGATAATTTAGCATATATTTTTAC
14204963 TTCGTTTTAGTGATAATTTAGCATATATTTTTAC
1 TTCGTTTTAGTGATAATTTAGCATATATTTTTAC
14204997 T
1 T
14204998 AAGGCATTGC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.26, C:0.09, G:0.10, T:0.55
Consensus pattern (34 bp):
TTCGTTTTAGTGATAATTTAGCATATATTTTTAC
Found at i:14205575 original size:20 final size:21
Alignment explanation
Indices: 14205546--14205586 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
14205536 CAAAAATTAA
*
14205546 TTTTATAATTTGTATG-TTTT
1 TTTTACAATTTGTATGATTTT
*
14205566 TTTTACAATTTTTATGATTTT
1 TTTTACAATTTGTATGATTTT
14205587 ATAAAATTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.22, C:0.02, G:0.07, T:0.68
Consensus pattern (21 bp):
TTTTACAATTTGTATGATTTT
Found at i:14205746 original size:2 final size:2
Alignment explanation
Indices: 14205739--14205763 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14205729 GAAATCGAAT
14205739 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
14205764 TAAAAAAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14205923 original size:3 final size:3
Alignment explanation
Indices: 14205917--14205959 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
14205907 AAAATTTATT
14205917 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
14205960 CCCTGCAGGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:14209691 original size:27 final size:26
Alignment explanation
Indices: 14209656--14209710 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
14209646 ACTGGGAGAT
* *
14209656 TATCTTTTAAATTTTGACTGAAATAAG
1 TATCTTTTAAA-TTTAACTAAAATAAG
14209683 TATCTTTTAAATTTAACTAAAATAAG
1 TATCTTTTAAATTTAACTAAAATAAG
14209709 TA
1 TA
14209711 GCATACTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (26 bp):
TATCTTTTAAATTTAACTAAAATAAG
Found at i:14211163 original size:22 final size:22
Alignment explanation
Indices: 14211131--14211174 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
14211121 ATCCGAACTT
*
14211131 GCCACATATTGAAATTTGTGAA
1 GCCACAGATTGAAATTTGTGAA
*
14211153 GCCACAGATTGGAATTTGTGAA
1 GCCACAGATTGAAATTTGTGAA
14211175 ACCATCGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.30
Consensus pattern (22 bp):
GCCACAGATTGAAATTTGTGAA
Found at i:14211599 original size:26 final size:27
Alignment explanation
Indices: 14211569--14211623 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
14211559 CATTTTCTTA
14211569 TTAAGT-TACAT-TTATCTTAATGTTAT
1 TTAAGTATACATATTATCTTAAT-TTAT
* *
14211595 TTAAGTATACATATTTTTTTAATTTAT
1 TTAAGTATACATATTATCTTAATTTAT
14211622 TT
1 TT
14211624 TCAATTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.24
27 11 0.44
28 8 0.32
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.58
Consensus pattern (27 bp):
TTAAGTATACATATTATCTTAATTTAT
Found at i:14212770 original size:2 final size:2
Alignment explanation
Indices: 14212763--14212787 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14212753 CCACCAATTA
14212763 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 A
14212788 CTAATGCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14213606 original size:18 final size:18
Alignment explanation
Indices: 14213583--14213617 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14213573 TGCATTATTT
14213583 TTCAAAAGCACTTCTGGC
1 TTCAAAAGCACTTCTGGC
*
14213601 TTCAAAAGTACTTCTGG
1 TTCAAAAGCACTTCTGG
14213618 AAGAAAAGCT
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:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (18 bp):
TTCAAAAGCACTTCTGGC
Found at i:14213925 original size:33 final size:35
Alignment explanation
Indices: 14213888--14213984 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
14213878 ATAGTTATAT
14213888 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTGCTTAA
* *
14213921 TTAAAT-TTTATAA-ATAATTAATATTTATTGCTTAA
1 TTAAATATTTAAAATATAATT--TATATATTGCTTAA
*
14213956 --AAATATTTAAAATTTATATTTTATATATT
1 TTAAATATTTAAAA--TATAATTTATATATT
14213985 AAAATATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 7 0.14
35 10 0.20
37 5 0.10
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTGCTTAA
Found at i:14217183 original size:30 final size:30
Alignment explanation
Indices: 14217149--14217208 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
14217139 ACTTAACAAG
14217149 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
14217179 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
14217209 TAATAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.15, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:14217823 original size:26 final size:26
Alignment explanation
Indices: 14217794--14217845 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
14217784 TAAAGAAGTT
*
14217794 TGTTCACATAAACATATTTACCAAAC
1 TGTTCACATAAACACATTTACCAAAC
14217820 TGTTCACATAAACACATTTACCAAAC
1 TGTTCACATAAACACATTTACCAAAC
14217846 AGTGTCTGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.25, G:0.04, T:0.29
Consensus pattern (26 bp):
TGTTCACATAAACACATTTACCAAAC
Found at i:14223234 original size:66 final size:66
Alignment explanation
Indices: 14223125--14223257 Score: 221
Period size: 66 Copynumber: 2.0 Consensus size: 66
14223115 AGATTGAAAT
* *
14223125 ATCTGGTGTCATGTGATTTGTGCAGCCATTGTCTATAAGCCATCCCTTTGTGGCCTTCTCCTTAG
1 ATCTGGTGTCATGTGATTTGTGCAGCCACTGTCTATAAACCATCCCTTTGTGGCCTTCTCCTTAG
14223190 C
66 C
* **
14223191 ATCTGGTGTCATTTGATTTGTGCAGCCACTGTCTATAAACCATCCCTTTGTGGTTTTCTCCTTAG
1 ATCTGGTGTCATGTGATTTGTGCAGCCACTGTCTATAAACCATCCCTTTGTGGCCTTCTCCTTAG
14223256 C
66 C
14223257 A
1 A
14223258 GCTGAGCATG
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.39
Consensus pattern (66 bp):
ATCTGGTGTCATGTGATTTGTGCAGCCACTGTCTATAAACCATCCCTTTGTGGCCTTCTCCTTAG
C
Found at i:14225040 original size:27 final size:27
Alignment explanation
Indices: 14225003--14225088 Score: 163
Period size: 27 Copynumber: 3.2 Consensus size: 27
14224993 GGATGTAAGG
14225003 ATTATTAAATTAAGTCTGCTATAATGT
1 ATTATTAAATTAAGTCTGCTATAATGT
14225030 ATTATTAAATTAAGTCTGCTATAATGT
1 ATTATTAAATTAAGTCTGCTATAATGT
*
14225057 ATTATTAAATTAAGTCTGCTATAAAGT
1 ATTATTAAATTAAGTCTGCTATAATGT
14225084 ATTAT
1 ATTAT
14225089 CTGTTGAACC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.44
Consensus pattern (27 bp):
ATTATTAAATTAAGTCTGCTATAATGT
Found at i:14225994 original size:10 final size:10
Alignment explanation
Indices: 14225958--14225992 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
14225948 ACTTACATGT
14225958 TATATATATG
1 TATATATATG
14225968 TATATATATG
1 TATATATATG
14225978 TATATTATAT-
1 TATA-TATATG
14225988 TATAT
1 TATAT
14225993 TAATAATTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 1 0.04
10 18 0.75
11 5 0.21
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (10 bp):
TATATATATG
Found at i:14228796 original size:30 final size:30
Alignment explanation
Indices: 14228762--14228829 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
14228752 AAGGGGGAAA
* * *
14228762 GAAAATGGCAGGTCCGTTAAGTTTGTAACG
1 GAAAATGGCAGCTCCGTTAAGTCTATAACG
* * *
14228792 GAAAATGGTAGCTTCGTTACGTCTATAACG
1 GAAAATGGCAGCTCCGTTAAGTCTATAACG
14228822 GAAAATGG
1 GAAAATGG
14228830 TTAGTGGTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.26
Consensus pattern (30 bp):
GAAAATGGCAGCTCCGTTAAGTCTATAACG
Found at i:14230026 original size:2 final size:2
Alignment explanation
Indices: 14230019--14230071 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
14230009 ATCATGTCCA
14230019 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
14230061 AT AT AT AT AT A
1 AT AT AT AT AT A
14230072 GTACCCACGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14233135 original size:26 final size:26
Alignment explanation
Indices: 14233106--14233159 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
14233096 AACAAGAGTT
*
14233106 ATAAATCACTTATATCCTTACAAATA
1 ATAAATCACCTATATCCTTACAAATA
*
14233132 ATAAATCACCTGTATCCTTACAAATA
1 ATAAATCACCTATATCCTTACAAATA
14233158 AT
1 AT
14233160 TCCCTGAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.33
Consensus pattern (26 bp):
ATAAATCACCTATATCCTTACAAATA
Found at i:14234602 original size:48 final size:48
Alignment explanation
Indices: 14234530--14234717 Score: 225
Period size: 48 Copynumber: 3.9 Consensus size: 48
14234520 GACATTTGGG
* * *
14234530 TGATATGTGTGCCAGTGTAAGACCATTTCTGGGACATGGCATCGACCA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCA
* * * * * *
14234578 CGATATGAGAGCCAGTGTAAGACCATGTTTGGAACATGACATCAACGA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCA
* * * *
14234626 TGTTGTGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG-GCA
1 TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCA
* *
14234673 TTGAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 -TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
14234718 GCAATTCACC
Statistics
Matches: 117, Mismatches: 22, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
47 1 0.01
48 116 0.99
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (48 bp):
TGATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCA
Found at i:14234711 original size:96 final size:96
Alignment explanation
Indices: 14234543--14234716 Score: 260
Period size: 96 Copynumber: 1.8 Consensus size: 96
14234533 TATGTGTGCC
* * *
14234543 AGTGTAAGACCATTTCTGGGACATGGCATCGACCACGATATGAGAGCCAGTGTAAGACCATGTTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCACGAGATGAGAGCCAGTGTAAGACCATGTCT
14234608 GGAACATGACATCAACGATGTTGTGAGAGCT
66 GGAACATGACATCAACGATGTTGTGAGAGCT
* * *
14234639 AGTGTAAGACCATGTCTGGGACATGGCATCG-GCATTGAGATGAGAGCTAGTGTAAGACCATGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACCA-CGAGATGAGAGCCAGTGTAAGACCATGTC
* *
14234703 TGGGACATGGCATC
65 TGGAACATGACATC
14234717 GGCAATTCAC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
95 2 0.03
96 67 0.97
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (96 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACCACGAGATGAGAGCCAGTGTAAGACCATGTCT
GGAACATGACATCAACGATGTTGTGAGAGCT
Found at i:14242251 original size:48 final size:48
Alignment explanation
Indices: 14242189--14242510 Score: 258
Period size: 48 Copynumber: 6.7 Consensus size: 48
14242179 TGATATGTGT
*
14242189 GCCAGTGTAAGACCATGTCTGGGACATGGCGTCGACCACGATATGAAA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATATGAAA
* * * *** *
14242237 TCCAGTGTAAGACCATGTTTGGAACATGGCATCGGTGATG-T-TGTAAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATATG-AA-A
* * * ***
14242285 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGA-CATTGATGTGTGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCA-CGATATGAAA
* * * * * *
14242333 GCTAGTGTAAGACCATGTCTGAGG-CATGGCATCGGCCACAACATTAGA
1 GCCAGTGTAAGACCATGTCTG-GGACATGGCATCGACCACGATATGAAA
* * * * * *
14242381 GCCAGTGTAAGACCATGTCTGGGACATAGTATCGA-CATTGAGACGAGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCA-CGATATGAAA
* * * * * * *
14242429 GCTAGTGTAAGACCATGTCTGGGACAAGGCATTGGCCTCGACATGTAA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATATGAAA
*
14242477 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG
14242511 GCAATTTACC
Statistics
Matches: 214, Mismatches: 50, Indels: 20
0.75 0.18 0.07
Matches are distributed among these distances:
46 2 0.01
47 8 0.04
48 196 0.92
49 6 0.03
50 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACGATATGAAA
Found at i:14242361 original size:96 final size:93
Alignment explanation
Indices: 14242189--14242510 Score: 294
Period size: 96 Copynumber: 3.4 Consensus size: 93
14242179 TGATATGTGT
* * * * *
14242189 GCCAGTGTAAGACCATGTCTGGGACATGGCGTCGACCA-CGATATGAAAT-CCAGTGTAAGACCA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CATTGATGTG-AGTGCTAGTGTAAGACCA
* * **
14242252 TGTTTGGAACATGGCATCGGTGATGTTGTAAGA
64 TGTCTGG-GCATGGCATCGGTGA-AATGT-AGA
* *
14242285 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGACATTGATGTGTGTGCTAGTGTAAGACCATG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGATGTGAGTGCTAGTGTAAGACCATG
**
14242350 TCTGAGGCATGGCATCGGCCACAACAT-TAGA
66 TCTG-GGCATGGCATCGG--TGAA-ATGTAGA
* * * *
14242381 GCCAGTGTAAGACCATGTCTGGGACATAGTATCGACATTGA-GACGAGAGCTAGTGTAAGACCAT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGATG-TGAGTGCTAGTGTAAGACCAT
* * *
14242445 GTCTGGGACAAGGCATTGGCCTCGACATGTA-A
65 GTCTGGG-CATGGCATCGG--T-GAAATGTAGA
*
14242477 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCG
14242511 GCAATTTACC
Statistics
Matches: 189, Mismatches: 27, Indels: 20
0.80 0.11 0.08
Matches are distributed among these distances:
95 6 0.03
96 176 0.93
97 5 0.03
98 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (93 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGATGTGAGTGCTAGTGTAAGACCATG
TCTGGGCATGGCATCGGTGAAATGTAGA
Found at i:14247808 original size:20 final size:20
Alignment explanation
Indices: 14247783--14247822 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
14247773 TCATTCATTG
*
14247783 CATTTAAATT-ATTTCATTTA
1 CATTT-AATTAATTTAATTTA
14247803 CATTTAATTAATTTAATTTA
1 CATTTAATTAATTTAATTTA
14247823 ACACCTACCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (20 bp):
CATTTAATTAATTTAATTTA
Found at i:14251455 original size:9 final size:9
Alignment explanation
Indices: 14251441--14251467 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
14251431 ACAATGTTTC
14251441 ATTTTCCTT
1 ATTTTCCTT
14251450 ATTTTCCTT
1 ATTTTCCTT
14251459 ATTTTCCTT
1 ATTTTCCTT
14251468 CTTCATCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.11, C:0.22, G:0.00, T:0.67
Consensus pattern (9 bp):
ATTTTCCTT
Found at i:14261819 original size:42 final size:42
Alignment explanation
Indices: 14261714--14261876 Score: 193
Period size: 43 Copynumber: 3.8 Consensus size: 42
14261704 CGATATGTGT
* *
14261714 TTTCGAGTAAGACCATGTATGGGACATTGGCATTG-ACTTATGA
1 TTTCGTGTAAGACCATGTCTGGGACATTGGCATTGTA-TT-TGA
*
14261757 TTTACGTGTAAGACCATGTCTGGGACATCGGCATTGTATTTGA
1 TTT-CGTGTAAGACCATGTCTGGGACATTGGCATTGTATTTGA
* * *
14261800 TTTTGTGTAAGACCCTGTCTGGGACAGTGGCATTGATATTTGA
1 TTTCGTGTAAGACCATGTCTGGGACATTGGCATTG-TATTTGA
* * * *
14261843 TTACATATAAGACCATGTCTGGGACGTTGGCATT
1 TTTCGTGTAAGACCATGTCTGGGACATTGGCATT
14261877 TTATGAGCTT
Statistics
Matches: 103, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
42 28 0.27
43 43 0.42
44 31 0.30
45 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (42 bp):
TTTCGTGTAAGACCATGTCTGGGACATTGGCATTGTATTTGA
Found at i:14261831 original size:86 final size:85
Alignment explanation
Indices: 14261720--14261876 Score: 217
Period size: 85 Copynumber: 1.8 Consensus size: 85
14261710 GTGTTTTCGA
* * *
14261720 GTAAGACCATGTATGGGACATTGGCATTGACT-TATGATTTACGTGTAAGACCATGTCTGGGACA
1 GTAAGACCATGTATGGGACAGTGGCATTGA-TATATGA-TTACATATAAGACCATGTCTGGGACA
14261784 TCGGCATTGTATTTGATTTTGT
64 TCGGCATTGTATTTGATTTTGT
* * * * *
14261806 GTAAGACCCTGTCTGGGACAGTGGCATTGATATTTGATTACATATAAGACCATGTCTGGGACGTT
1 GTAAGACCATGTATGGGACAGTGGCATTGATATATGATTACATATAAGACCATGTCTGGGACATC
14261871 GGCATT
66 GGCATT
14261877 TTATGAGCTT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
85 31 0.50
86 31 0.50
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (85 bp):
GTAAGACCATGTATGGGACAGTGGCATTGATATATGATTACATATAAGACCATGTCTGGGACATC
GGCATTGTATTTGATTTTGT
Found at i:14268827 original size:26 final size:27
Alignment explanation
Indices: 14268778--14268839 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
14268768 GGCATAATCT
* *
14268778 TCATTCTACCATACAGGGGTATTACGA
1 TCATTTTACCATACAGGGGCATTACGA
* * *
14268805 TCATTTTACCCTA-AGGGGCATTATGG
1 TCATTTTACCATACAGGGGCATTACGA
14268831 TCATTTTAC
1 TCATTTTAC
14268840 TGTACAAAGG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 19 0.63
27 11 0.37
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (27 bp):
TCATTTTACCATACAGGGGCATTACGA
Found at i:14278280 original size:47 final size:47
Alignment explanation
Indices: 14278205--14278315 Score: 161
Period size: 47 Copynumber: 2.4 Consensus size: 47
14278195 CCCCTCGGGA
* * *
14278205 CTTATCACATT-TATACACTTTCATATTCATCGCATTGGCCATTCGGC
1 CTTATCAC-TTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
14278252 CTTATCACTTATATACACTTTGACATTCATCACATCGGCCATTCGGC
1 CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
*
14278299 CTTATCACATATATACA
1 CTTATCACTTATATACA
14278316 TCTCATACAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 2 0.03
47 56 0.97
ACGTcount: A:0.27, C:0.28, G:0.09, T:0.36
Consensus pattern (47 bp):
CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTCGGC
Found at i:14278371 original size:46 final size:46
Alignment explanation
Indices: 14278319--14278500 Score: 328
Period size: 46 Copynumber: 4.0 Consensus size: 46
14278309 ATATACATCT
* * *
14278319 CATACATGTTTCATACTAGCCATTTGGCTTTACCACACATATATCT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
*
14278365 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATACCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
14278411 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
14278457 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
1 CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATAT
14278501 ATATTTAACT
Statistics
Matches: 131, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 131 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (46 bp):
CATACATATTTCACACTAGCCATTTGGCTTTACCACACATATATCA
Found at i:14286057 original size:49 final size:47
Alignment explanation
Indices: 14285940--14286256 Score: 465
Period size: 47 Copynumber: 6.7 Consensus size: 47
14285930 GATTTTACGC
* * *
14285940 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
14285987 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* *
14286034 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCGAATGGCCAATGT
* *
14286083 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CAGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCGAATGGCCA-ATGT
14286132 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* * *
14286179 GATGAATGTGAAGGTGTATATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* * *
14286226 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAGGTGTATATATGTGATAAG
14286257 TCCCGAAGGG
Statistics
Matches: 250, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
47 154 0.62
48 9 0.04
49 87 0.35
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.29
Consensus pattern (47 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:14286064 original size:96 final size:93
Alignment explanation
Indices: 14285940--14286256 Score: 465
Period size: 96 Copynumber: 3.3 Consensus size: 93
14285930 GATTTTACGC
14285940 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
14286005 TATATGTGATAAGGCCGAATGGCCAATGT
65 TATATGTGATAAGGCCGAATGGCCAATGT
14286034 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTG-AA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-G
* *
14286099 TATATATATGTGATAAGGCCTAATGG-CAGATGT
61 TGTATATATGTGATAAGGCCGAATGGCCA-ATGT
* *
14286132 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTA
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
* * *
14286197 TATATGTGATAGGGCCGAGTGGCCAACGT
65 TATATGTGATAAGGCCGAATGGCCAATGT
* *
14286226 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTG-AAGTGTATATATGTGATAAG
14286257 TCCCGAAGGG
Statistics
Matches: 204, Mismatches: 12, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
94 62 0.30
95 9 0.04
96 87 0.43
97 7 0.03
98 39 0.19
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.29
Consensus pattern (93 bp):
GATGAATGTGAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTAT
ATATGTGATAAGGCCGAATGGCCAATGT
Found at i:14300156 original size:8 final size:8
Alignment explanation
Indices: 14300143--14300168 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
14300133 GGCCGAAAAC
14300143 GGGCCAAT
1 GGGCCAAT
14300151 GGGCCAAT
1 GGGCCAAT
14300159 GGGCCAAT
1 GGGCCAAT
14300167 GG
1 GG
14300169 CCCACTTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.42, T:0.12
Consensus pattern (8 bp):
GGGCCAAT
Found at i:14300469 original size:27 final size:26
Alignment explanation
Indices: 14300425--14300476 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
14300415 CTCGTTGCAA
*
14300425 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
14300452 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
14300477 GTAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:14300544 original size:26 final size:27
Alignment explanation
Indices: 14300515--14300574 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
14300505 CCACATATAT
*
14300515 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
14300541 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
14300568 ATATCTG
1 ATATCTG
14300575 GCAGCTTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:14302969 original size:41 final size:41
Alignment explanation
Indices: 14302924--14303024 Score: 157
Period size: 41 Copynumber: 2.5 Consensus size: 41
14302914 TGCGGTTACT
*
14302924 TGACAGCTTGTGTGAGTAGCACCGAGTAGGTACATCTTGAC
1 TGACAGCTTGTGTGAGCAGCACCGAGTAGGTACATCTTGAC
*
14302965 TGACAGCTTGTGTGAGCAGCACCGAGTAGGTACGTCTTGAC
1 TGACAGCTTGTGTGAGCAGCACCGAGTAGGTACATCTTGAC
* * *
14303006 TGATATCTTGTGTAAGCAG
1 TGACAGCTTGTGTGAGCAG
14303025 GCCCATTAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.28
Consensus pattern (41 bp):
TGACAGCTTGTGTGAGCAGCACCGAGTAGGTACATCTTGAC
Found at i:14312109 original size:39 final size:39
Alignment explanation
Indices: 14312055--14312133 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
14312045 GTACTCAGAG
*
14312055 TCTGTTATCGCAAATCGTAGTTTACTATGGTTTTCAATT
1 TCTGTTATCGCAAATCGTAGTTTACTACGGTTTTCAATT
14312094 TCTGTTATCGCAAATCGTAGTTTACTACGGTTTTCAATT
1 TCTGTTATCGCAAATCGTAGTTTACTACGGTTTTCAATT
14312133 T
1 T
14312134 ACACTATCTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.23, C:0.16, G:0.15, T:0.46
Consensus pattern (39 bp):
TCTGTTATCGCAAATCGTAGTTTACTACGGTTTTCAATT
Found at i:14312496 original size:13 final size:13
Alignment explanation
Indices: 14312478--14312504 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14312468 ATGAGAGTAC
14312478 TTTTAGGAAACCT
1 TTTTAGGAAACCT
14312491 TTTTAGGAAACCT
1 TTTTAGGAAACCT
14312504 T
1 T
14312505 ATCAAGAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTTTAGGAAACCT
Found at i:14317808 original size:24 final size:24
Alignment explanation
Indices: 14317776--14317822 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
14317766 CTTCCTCACT
14317776 CGATTGATGGCCACATTTAAAAGC
1 CGATTGATGGCCACATTTAAAAGC
14317800 CGATTGATGGCCACATTTAAAAG
1 CGATTGATGGCCACATTTAAAAG
14317823 TTTTAGTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (24 bp):
CGATTGATGGCCACATTTAAAAGC
Found at i:14326155 original size:40 final size:40
Alignment explanation
Indices: 14326089--14326255 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
14326079 AAATTGAATG
* * *
14326089 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
14326128 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
14326168 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
14326208 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
14326248 ATATCCGG
1 ATATCCGG
14326256 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:14334149 original size:40 final size:40
Alignment explanation
Indices: 14334083--14334249 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
14334073 AAATTGAATG
* * *
14334083 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
14334122 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
14334162 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
14334202 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
14334242 ATATCCGG
1 ATATCCGG
14334250 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:14335686 original size:46 final size:46
Alignment explanation
Indices: 14335633--14335807 Score: 262
Period size: 46 Copynumber: 3.8 Consensus size: 46
14335623 TATTTGGGCA
* * *
14335633 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAAGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
14335679 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * *
14335725 CCCGAGCTCGTTGAGTTGAGTTCAAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
14335771 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
14335808 GCGGGTTACA
Statistics
Matches: 119, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
45 2 0.02
46 117 0.98
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:14339134 original size:34 final size:34
Alignment explanation
Indices: 14339096--14339165 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 34
14339086 GTGTCAAGGG
* * *
14339096 CAACCCACTAATGAAGTCCATCGTCACTCGTTAC
1 CAACCCACTAACGAAGTCCATCATCACTCGCTAC
*
14339130 CAACCCACTAACGAAGTCTATCATCACTCGCTAC
1 CAACCCACTAACGAAGTCCATCATCACTCGCTAC
14339164 CA
1 CA
14339166 TTTTCATAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.31, C:0.37, G:0.10, T:0.21
Consensus pattern (34 bp):
CAACCCACTAACGAAGTCCATCATCACTCGCTAC
Found at i:14342976 original size:24 final size:24
Alignment explanation
Indices: 14342936--14343019 Score: 107
Period size: 24 Copynumber: 3.4 Consensus size: 24
14342926 CTGGAGGCCT
* *
14342936 AGCCTCTTTTAAT-AACTAGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
14342960 AGCCCTTTTGATAAACTGGGGCAA
1 AGCCCTTTTGATAAACTGGGGCAA
*
14342984 AGCCCTTTTTCGGTAAACTGGGGCAA
1 AGCCC-TTTT-GATAAACTGGGGCAA
14343010 AGCCCTTTTG
1 AGCCCTTTTG
14343020 CACTTCCTCC
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
23 7 0.13
24 20 0.37
25 8 0.15
26 19 0.35
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:14343007 original size:26 final size:25
Alignment explanation
Indices: 14342949--14343018 Score: 106
Period size: 26 Copynumber: 2.8 Consensus size: 25
14342939 CTCTTTTAAT
*
14342949 AACTAGGGCAAAGCCC-TTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
14342973 AACTGGGGCAAAGCCCTTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTT-GATA
14342999 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
14343019 GCACTTCCTC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 15 0.36
25 4 0.10
26 23 0.55
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:14343077 original size:10 final size:10
Alignment explanation
Indices: 14343064--14343102 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
14343054 ATATATGAAT
14343064 ATATCATGGC
1 ATATCATGGC
*
14343074 ATATCATGTAC
1 ATATCATG-GC
14343085 ATATCATGGC
1 ATATCATGGC
14343095 ATATCATG
1 ATATCATG
14343103 TATAAAACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 17 0.65
11 9 0.35
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:14343090 original size:21 final size:21
Alignment explanation
Indices: 14343064--14343104 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
14343054 ATATATGAAT
14343064 ATATCATGGCATATCATGTAC
1 ATATCATGGCATATCATGTAC
14343085 ATATCATGGCATATCATGTA
1 ATATCATGGCATATCATGTA
14343105 TAAAACAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.17, G:0.15, T:0.34
Consensus pattern (21 bp):
ATATCATGGCATATCATGTAC
Found at i:14349411 original size:40 final size:39
Alignment explanation
Indices: 14349351--14349554 Score: 196
Period size: 40 Copynumber: 5.1 Consensus size: 39
14349341 CGGAATTTAA
* ** *
14349351 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAA-TGCCTTCGGGTCTTAGC
* *** *
14349391 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATGCCTTCGGGTCTTAGC
14349431 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATGCCTTCGGGTCTTAGC
* * *
14349471 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCA-CAATGCCTTCGGGTCTTAGC
* * *
14349511 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCA-CAATGCCTTCGGGTCTTAGC
14349551 CCGG
1 CCGG
14349555 GTATCATTCA
Statistics
Matches: 144, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
40 141 0.98
41 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATAACAACTCGCACAATGCCTTCGGGTCTTAGC
Found at i:14349495 original size:80 final size:78
Alignment explanation
Indices: 14349351--14349554 Score: 246
Period size: 80 Copynumber: 2.5 Consensus size: 78
14349341 CGGAATTTAA
* * * ** *
14349351 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAATG
1 CCGGATATAA-CACTAGCACAA-TGCCTTCGGGTCTTAGCCCGGATATAATAACTAGCACAAATG
*
14349416 CCTTCGGGTCTTAGC
64 CCTTCGGGACTTAGC
* * *
14349431 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATG
1 CCGGATATAAC-ACTAGCAC-AATGCCTTCGGGTCTTAGCCCGGATATAATAACTAGCACAAATG
14349496 CCTTCGGGACTTAGC
64 CCTTCGGGACTTAGC
* *
14349511 CCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 CCGGATATAA-CACTAGCA-CAATGCCTTCGGGTCTTAGCCCGG
14349555 GTATCATTCA
Statistics
Matches: 107, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
79 1 0.01
80 103 0.96
81 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (78 bp):
CCGGATATAACACTAGCACAATGCCTTCGGGTCTTAGCCCGGATATAATAACTAGCACAAATGCC
TTCGGGACTTAGC
Found at i:14350435 original size:2 final size:2
Alignment explanation
Indices: 14350428--14350459 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
14350418 ATGTGCAAAC
14350428 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
14350460 GCTAGAGCTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14352938 original size:8 final size:8
Alignment explanation
Indices: 14352925--14352962 Score: 76
Period size: 8 Copynumber: 4.8 Consensus size: 8
14352915 TTTATATGGC
14352925 ATCACACT
1 ATCACACT
14352933 ATCACACT
1 ATCACACT
14352941 ATCACACT
1 ATCACACT
14352949 ATCACACT
1 ATCACACT
14352957 ATCACA
1 ATCACA
14352963 GGTTTATATG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.39, C:0.37, G:0.00, T:0.24
Consensus pattern (8 bp):
ATCACACT
Found at i:14353313 original size:31 final size:31
Alignment explanation
Indices: 14353273--14353356 Score: 96
Period size: 31 Copynumber: 2.6 Consensus size: 31
14353263 CAACCTTCTT
14353273 GCATAAAATCCAACCAAAAACAGCAAATATA
1 GCATAAAATCCAACCAAAAACAGCAAATATA
* * * *
14353304 GCATGAAATCCAACCATAAACTGCAAATGTA
1 GCATAAAATCCAACCAAAAACAGCAAATATA
* *
14353335 GTATAAAAAATACAACCAAAAA
1 GCAT--AAAATCCAACCAAAAA
14353357 TATTAAATCT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 30 0.70
33 13 0.30
ACGTcount: A:0.56, C:0.20, G:0.08, T:0.15
Consensus pattern (31 bp):
GCATAAAATCCAACCAAAAACAGCAAATATA
Found at i:14353622 original size:21 final size:21
Alignment explanation
Indices: 14353597--14353695 Score: 117
Period size: 21 Copynumber: 4.7 Consensus size: 21
14353587 ACCATCGCTA
*
14353597 CTGCCTCTACCTCCTTCACTG
1 CTGCCGCTACCTCCTTCACTG
* * *
14353618 TTGCCGCTACCTCTTTCGCTG
1 CTGCCGCTACCTCCTTCACTG
*
14353639 CTGTCGCTACCTCCTTCACTG
1 CTGCCGCTACCTCCTTCACTG
* * *
14353660 TTGCCGCTACCTCTTTCGCTG
1 CTGCCGCTACCTCCTTCACTG
*
14353681 CTGTCGCTACCTCCT
1 CTGCCGCTACCTCCT
14353696 CTCTGGTGCC
Statistics
Matches: 63, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 63 1.00
ACGTcount: A:0.07, C:0.42, G:0.15, T:0.35
Consensus pattern (21 bp):
CTGCCGCTACCTCCTTCACTG
Found at i:14353649 original size:42 final size:42
Alignment explanation
Indices: 14353603--14353695 Score: 186
Period size: 42 Copynumber: 2.2 Consensus size: 42
14353593 GCTACTGCCT
14353603 CTACCTCCTTCACTGTTGCCGCTACCTCTTTCGCTGCTGTCG
1 CTACCTCCTTCACTGTTGCCGCTACCTCTTTCGCTGCTGTCG
14353645 CTACCTCCTTCACTGTTGCCGCTACCTCTTTCGCTGCTGTCG
1 CTACCTCCTTCACTGTTGCCGCTACCTCTTTCGCTGCTGTCG
14353687 CTACCTCCT
1 CTACCTCCT
14353696 CTCTGGTGCC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.08, C:0.42, G:0.15, T:0.35
Consensus pattern (42 bp):
CTACCTCCTTCACTGTTGCCGCTACCTCTTTCGCTGCTGTCG
Found at i:14354144 original size:13 final size:14
Alignment explanation
Indices: 14354118--14354146 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
14354108 ACTAACGACG
14354118 AATTAAACCATTAT
1 AATTAAACCATTAT
14354132 AATTAAA-CATTAT
1 AATTAAACCATTAT
14354145 AA
1 AA
14354147 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:14358185 original size:40 final size:40
Alignment explanation
Indices: 14358148--14358411 Score: 324
Period size: 40 Copynumber: 6.7 Consensus size: 40
14358138 GCTACTCGTT
*
14358148 CAAATGCCTTCGGGAC-AAAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAA-CCCGGATT-TAGTAACTCGCA
*
14358188 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
14358228 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
14358267 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
14358307 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
14358346 CAAATGCCTTC-GGATCTTAGCCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
14358387 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
14358412 CATCATTCGA
Statistics
Matches: 198, Mismatches: 19, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 67 0.34
40 115 0.58
41 14 0.07
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:14358249 original size:79 final size:80
Alignment explanation
Indices: 14358150--14358411 Score: 381
Period size: 79 Copynumber: 3.3 Consensus size: 80
14358140 TACTCGTTCA
** *
14358150 AATGCCTTCGGGACAAAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
14358214 TTTAGTAACTAGCACC
65 TTTAGTAACTAGCACC
14358230 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
*
14358294 TTAGTAACTCGCACC
66 TTAGTAACTAGCACC
* *
14358309 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCACACAAATGCCTTC-GGATCTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGA
* *
14358372 TATAGTCACTTAGCA-C
65 TTTAGTAAC-TAGCACC
*
14358388 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
14358412 CATCATTCGA
Statistics
Matches: 168, Mismatches: 10, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
78 3 0.02
79 137 0.82
80 28 0.17
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
TTAGTAACTAGCACC
Found at i:14358365 original size:119 final size:121
Alignment explanation
Indices: 14358148--14358411 Score: 355
Period size: 119 Copynumber: 2.2 Consensus size: 121
14358138 GCTACTCGTT
*
14358148 CAAATGCCTTCGGGAC-AAAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCC
1 CAAATGCCTTCGGGACTTAA-CCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCC
* * *
14358211 GGATTTAGTAACTAGCACCAATGCCTTCGGGCTTAGCCCGGA-ATTAGTAAC-TCGCA
65 GGAATTAGTAACTAGCACAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTTAGCA
* *
14358267 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAACCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
14358330 GAATTAGTAACTCA-CACAAATGCCTTCGGATCTTAGCCCGGATATAGTCACTTAGCA
66 GAATTAGTAACT-AGCACAAATGCCTTCGG-GCTTAGCCCGGATATAGTAACTTAGCA
*
14358387 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
14358412 CATCATTCGA
Statistics
Matches: 130, Mismatches: 9, Indels: 12
0.86 0.06 0.08
Matches are distributed among these distances:
118 33 0.25
119 84 0.65
120 13 0.10
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (121 bp):
CAAATGCCTTCGGGACTTAACCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GAATTAGTAACTAGCACAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTTAGCA
Found at i:14363627 original size:40 final size:40
Alignment explanation
Indices: 14363582--14363748 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
14363572 CGGAATATAA
14363582 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
14363622 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
14363662 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
14363702 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
14363741 CCGGATAT
1 CCGGATAT
14363749 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:14363732 original size:80 final size:79
Alignment explanation
Indices: 14363598--14363748 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
14363588 ATAATCACGT
*
14363598 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
14363663 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
14363678 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
14363741 CCGGATAT
64 CCGGATAT
14363749 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:14371623 original size:40 final size:40
Alignment explanation
Indices: 14371578--14371744 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
14371568 CGGAATATAA
14371578 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
14371618 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
14371658 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
14371698 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
14371737 CCGGATAT
1 CCGGATAT
14371745 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:14371728 original size:80 final size:79
Alignment explanation
Indices: 14371594--14371744 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
14371584 ATAATCACGT
*
14371594 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
14371659 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
14371674 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
14371737 CCGGATAT
64 CCGGATAT
14371745 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:14379518 original size:71 final size:71
Alignment explanation
Indices: 14379432--14379595 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
14379422 CGATTTGTCT
14379432 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
14379497 CTTTCA
66 CTTTCA
14379503 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
14379568 CTTTCA
66 CTTTCA
14379574 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
14379596 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:14379633 original size:71 final size:70
Alignment explanation
Indices: 14379432--14379629 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
14379422 CGATTTGTCT
* * * *
14379432 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
14379497 CTTTCA
65 CTTTCA
* * * *
14379503 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
14379568 CTTTCA
65 CTTTCA
* *
14379574 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
14379630 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:14382793 original size:26 final size:26
Alignment explanation
Indices: 14382764--14382823 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
14382754 TCCCTTTGAA
* * *
14382764 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
14382790 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
14382818 CCATTC
1 TCATTC
14382824 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:14382809 original size:28 final size:28
Alignment explanation
Indices: 14382778--14382849 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
14382768 TCGATATTTT
*
14382778 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
14382806 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
14382834 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
14382850 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:14388935 original size:40 final size:40
Alignment explanation
Indices: 14388890--14389056 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
14388880 CGGAATATAA
14388890 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
14388930 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTA-C
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
14388969 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
14389009 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
14389049 CCGGATAT
1 CCGGATAT
14389057 CATTCAATTT
Statistics
Matches: 106, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
39 33 0.31
40 73 0.69
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:14389039 original size:79 final size:80
Alignment explanation
Indices: 14388906--14389056 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
14388896 ATAATCACGT
* *
14388906 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTA-CC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGGCTTAGCC
14388970 CGGATATAGCCACTA
66 CGGATATAGCCACTA
* * ** * *
14388985 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGGCTTAG
14389048 CCCGGATAT
64 CCCGGATAT
14389057 CATTCAATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.05
79 49 0.80
80 9 0.15
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATATAGCCACTA
Found at i:14408120 original size:47 final size:49
Alignment explanation
Indices: 14408051--14408266 Score: 150
Period size: 47 Copynumber: 4.6 Consensus size: 49
14408041 GTAAGGTGCC
* * * *
14408051 AATGCCATATCCTAGACATGGTCTTATACTAGCTTAT-ATCTC-AAGTT
1 AATGCCATGTCCCAGACATGGTCTTACACTAGCTTATCATCTCGAAGCT
*
14408098 AATGCCATGTCCCAGACATGGTCTTACACT-GAC-TATCATCTCGTAGCT
1 AATGCCATGTCCCAGACATGGTCTTACACTAG-CTTATCATCTCGAAGCT
* * * ** *
14408146 GATG-CATGTCCCAGACAT-GTCTTGCACTAGCTTA--GTCTCGGGGCC
1 AATGCCATGTCCCAGACATGGTCTTACACTAGCTTATCATCTCGAAGCT
** * * * * *
14408191 GTTG-CATGTCCCAAACAT-GTTTTACACTAGCCT-TCGTCTC-AATGCC
1 AATGCCATGTCCCAGACATGGTCTTACACTAGCTTATCATCTCGAA-GCT
* *
14408237 GATGCCATGTCCTAGACATGGTCTTACACT
1 AATGCCATGTCCCAGACATGGTCTTACACT
14408267 GGCTCTCATA
Statistics
Matches: 137, Mismatches: 22, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
45 35 0.26
46 25 0.18
47 62 0.45
48 15 0.11
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (49 bp):
AATGCCATGTCCCAGACATGGTCTTACACTAGCTTATCATCTCGAAGCT
Found at i:14410291 original size:21 final size:21
Alignment explanation
Indices: 14410265--14410305 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14410255 AATGAAATTC
* *
14410265 ATATAATGTATCACAATTAGT
1 ATATAACGAATCACAATTAGT
*
14410286 ATATAACGAATCATAATTAG
1 ATATAACGAATCACAATTAG
14410306 AATAAAATAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.34
Consensus pattern (21 bp):
ATATAACGAATCACAATTAGT
Found at i:14414483 original size:10 final size:10
Alignment explanation
Indices: 14414468--14414492 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
14414458 ATTTTGAATC
14414468 AAATGAATAG
1 AAATGAATAG
14414478 AAATGAATAG
1 AAATGAATAG
14414488 AAATG
1 AAATG
14414493 GTGAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (10 bp):
AAATGAATAG
Done.