Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000186.1 Hibiscus syriacus cultivar Beakdansim tig00000329_pilon, whole genome shotgun sequence
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: 3152351
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 12 of 17
Found at i:2054002 original size:20 final size:20
Alignment explanation
Indices: 2053979--2054031 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
2053969 ATAGTCAGAA
*
2053979 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
2053999 TCGCGTTGCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
*
2054019 TCTCGTTGCGATT
1 TCGCGTTGCGATT
2054032 CTGGAAAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.13, C:0.19, G:0.23, T:0.45
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:2054096 original size:21 final size:19
Alignment explanation
Indices: 2053977--2054094 Score: 58
Period size: 21 Copynumber: 5.8 Consensus size: 19
2053967 CGATAGTCAG
2053977 AATCGCGTTGCGATTTATAT
1 AATCGCGTTGCGATTT-TAT
**
2053997 GTTCGCGTTGCGATTTTCAT
1 AATCGCGTTGCGATTTT-AT
* * * *
2054017 ATTCTCGTTGCGATTCTGGAA
1 AATCGCGTTGCGATT-T-TAT
**
2054038 AATCGCAATGCGAATTTGTACT
1 AATCGCGTTGCG-ATTT-TA-T
* *
2054060 -ATTGCATTGCGATTCTTCAT
1 AATCGCGTTGCGATT-TT-AT
2054080 AATCGCGTTGCGATT
1 AATCGCGTTGCGATT
2054095 CTGGGAACTG
Statistics
Matches: 74, Mismatches: 16, Indels: 15
0.70 0.15 0.14
Matches are distributed among these distances:
19 1 0.01
20 34 0.46
21 36 0.49
22 3 0.04
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (19 bp):
AATCGCGTTGCGATTTTAT
Found at i:2055597 original size:17 final size:17
Alignment explanation
Indices: 2055571--2055603 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2055561 GAATCCACCT
2055571 TGAACCGATTTGACCCC
1 TGAACCGATTTGACCCC
*
2055588 TGAACTGATTTGACCC
1 TGAACCGATTTGACCC
2055604 ATAAATTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (17 bp):
TGAACCGATTTGACCCC
Found at i:2056263 original size:29 final size:28
Alignment explanation
Indices: 2056201--2056367 Score: 156
Period size: 29 Copynumber: 5.8 Consensus size: 28
2056191 GCATGCAATT
* * * *
2056201 CTGATTTTACATGGGATTATATCATCGTT
1 CTGATTCTACATGAGATTATATC-CCGTC
* *
2056230 TTGATTCTGA-ATGAAATTATATCCCTGTC
1 CTGATTCT-ACATGAGATTATATCCC-GTC
* *
2056259 CTGATTCTGCATGAGATTATATCCCCATC
1 CTGATTCTACATGAGATTATAT-CCCGTC
*
2056288 CTGATTCTACATGCGATTATATTCCCGTC
1 CTGATTCTACATGAGATTATA-TCCCGTC
* *
2056317 CTGATTCTATATGGGATTATATCCCGTC
1 CTGATTCTACATGAGATTATATCCCGTC
* * *
2056345 CTGATTTTGCATGAGGTTATATC
1 CTGATTCTACATGAGATTATATC
2056368 TCTATTCTGG
Statistics
Matches: 113, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
28 26 0.23
29 82 0.73
30 5 0.04
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.40
Consensus pattern (28 bp):
CTGATTCTACATGAGATTATATCCCGTC
Found at i:2056293 original size:58 final size:57
Alignment explanation
Indices: 2056231--2056395 Score: 165
Period size: 57 Copynumber: 2.9 Consensus size: 57
2056221 ATCATCGTTT
* *
2056231 TGATTCTGAATGAAATTATATCCCTGTCCTGATTCTGCATGAGATTATATCCCCATCC
1 TGATTCTGAATGAGATTATATCCCTGTCCTGATTCTGCATGGGATTATAT-CCCATCC
* ** *
2056289 TGATTCT-ACATGCGATTATATTCCC-GTCCTGATTCTATATGGGATTATATCCCGTCC
1 TGATTCTGA-ATGAGATTATA-TCCCTGTCCTGATTCTGCATGGGATTATATCCCATCC
* * * * * *
2056346 TGATTTTGCATGAGGTTATATCTCTATTCTGGA-TCTGCATGGGATTATAT
1 TGATTCTGAATGAGATTATATCCCTGTCCT-GATTCTGCATGGGATTATAT
2056396 TTTCGTCCTG
Statistics
Matches: 87, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
56 3 0.03
57 40 0.46
58 40 0.46
59 4 0.05
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (57 bp):
TGATTCTGAATGAGATTATATCCCTGTCCTGATTCTGCATGGGATTATATCCCATCC
Found at i:2056403 original size:86 final size:87
Alignment explanation
Indices: 2056201--2056405 Score: 227
Period size: 86 Copynumber: 2.4 Consensus size: 87
2056191 GCATGCAATT
* * **
2056201 CTGATTTTACATGGGATTATATCATCGTTTTGATTCTGAATGAAATTATATCCCTGTCCTGATTC
1 CTGATTCTACATGGGATTATATTATCGTCCTGATTCTGAATGAAATTATATCCCTGTCCTGATTC
2056266 TGCATGAGATTATATCCCCATC
66 TGCATGAGATTATATCCCCATC
* ** **
2056288 CTGATTCTACATGCGATTATATTCCCGTCCTGATTCT-ATATGGGATTATATCCC-GTCCTGATT
1 CTGATTCTACATGGGATTATATTATCGTCCTGATTCTGA-ATGAAATTATATCCCTGTCCTGATT
* * * * *
2056351 TTGCATGAGGTTATATCTCTATT
65 CTGCATGAGATTATATCCCCATC
* *
2056374 CTGGA-TCTGCATGGGATTATATTTTCGTCCTG
1 CT-GATTCTACATGGGATTATATTATCGTCCTG
2056406 TTTATGTTTG
Statistics
Matches: 98, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
86 53 0.54
87 45 0.46
ACGTcount: A:0.22, C:0.20, G:0.17, T:0.41
Consensus pattern (87 bp):
CTGATTCTACATGGGATTATATTATCGTCCTGATTCTGAATGAAATTATATCCCTGTCCTGATTC
TGCATGAGATTATATCCCCATC
Found at i:2058152 original size:23 final size:23
Alignment explanation
Indices: 2058122--2058176 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
2058112 AAATACCACT
*
2058122 GTTGAGAATAACTTATTGCCGGG
1 GTTGAGAATAACTTATTACCGGG
*
2058145 GTTGAGAATAACTTATTACTGGG
1 GTTGAGAATAACTTATTACCGGG
2058168 GTTGAGAAT
1 GTTGAGAAT
2058177 CTTTGCAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.29, C:0.09, G:0.29, T:0.33
Consensus pattern (23 bp):
GTTGAGAATAACTTATTACCGGG
Found at i:2060340 original size:29 final size:30
Alignment explanation
Indices: 2060298--2060354 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
2060288 ATGCCTATTT
2060298 TTCCAATTTAGTGCCTAAAGTTT-ATTTTG
1 TTCCAATTTAGTGCCTAAAGTTTCATTTTG
* * *
2060327 TTCCAGTTTGGTGCCTAACGTTTCATTT
1 TTCCAATTTAGTGCCTAAAGTTTCATTT
2060355 CGTGACTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.19, C:0.18, G:0.16, T:0.47
Consensus pattern (30 bp):
TTCCAATTTAGTGCCTAAAGTTTCATTTTG
Found at i:2061426 original size:32 final size:32
Alignment explanation
Indices: 2061309--2061431 Score: 96
Period size: 30 Copynumber: 4.0 Consensus size: 32
2061299 AACCTCGGCA
* * *
2061309 ACTGTCCATA-GGTCCGAAGAACCTAGGTAA-
1 ACTGTCCATATGTTCCGTAGAACATAGGTAAT
* * * *
2061339 ACTGTCCATATATT-CATAGAACATA-ATTAT
1 ACTGTCCATATGTTCCGTAGAACATAGGTAAT
* *
2061369 AATGTCCATATG-TCTCG-AAAGACATAGGTAAT
1 ACTGTCCATATGTTC-CGTAGA-ACATAGGTAAT
*
2061401 TCTGTCCATATGTTCCGTAGAACATAGGTAA
1 ACTGTCCATATGTTCCGTAGAACATAGGTAA
2061432 ACCTCGACTC
Statistics
Matches: 69, Mismatches: 16, Indels: 14
0.70 0.16 0.14
Matches are distributed among these distances:
29 3 0.04
30 30 0.43
31 7 0.10
32 25 0.36
33 4 0.06
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (32 bp):
ACTGTCCATATGTTCCGTAGAACATAGGTAAT
Found at i:2063286 original size:29 final size:29
Alignment explanation
Indices: 2063232--2063287 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
2063222 AAATAAGAAA
* *
2063232 TTATTTTGTTCCAGTTTAGTGCCTAACAT
1 TTATTTCGTTCCAATTTAGTGCCTAACAT
* *
2063261 TTATTTCGTTCCAATTTGGTGTCTAAC
1 TTATTTCGTTCCAATTTAGTGCCTAAC
2063288 GTTCTTTCCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (29 bp):
TTATTTCGTTCCAATTTAGTGCCTAACAT
Found at i:2065141 original size:30 final size:30
Alignment explanation
Indices: 2065099--2065346 Score: 397
Period size: 30 Copynumber: 8.2 Consensus size: 30
2065089 TCTGAAGGAC
* *
2065099 CTATCAAGAGGTCATAAAGATCCTCGATAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* *
2065129 CTATCCAAAGGTCATACAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2065159 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2065189 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2065219 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2065249 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
2065279 CTATCCAGAGGTCATAAAGATCCTTGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* ** * *
2065309 CTATCCATAGGTCCCAAAGAACCTAGGTAAA
1 CTATCCAGAGGTCATAAAGATCCTCGGT-AA
2065340 CTATCCA
1 CTATCCA
2065347 TATATTCCTT
Statistics
Matches: 205, Mismatches: 12, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
30 196 0.96
31 9 0.04
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:2065847 original size:2 final size:2
Alignment explanation
Indices: 2065835--2065866 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2065825 TACACAACTC
2065835 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2065867 CTGTAACATG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2069431 original size:30 final size:30
Alignment explanation
Indices: 2069395--2069609 Score: 385
Period size: 30 Copynumber: 7.2 Consensus size: 30
2069385 TCCGAAGGAC
* *
2069395 CTATCCAGAGGTCATAAAGATTCTCGATAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* * *
2069425 CTATCCAAAGGTCATACAGATCCTTGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2069455 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2069485 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2069515 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2069545 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2069575 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
2069605 CTATC
1 CTATC
2069610 ATAGGTCCCG
Statistics
Matches: 177, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 177 1.00
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:2069637 original size:90 final size:90
Alignment explanation
Indices: 2069395--2069641 Score: 356
Period size: 90 Copynumber: 2.7 Consensus size: 90
2069385 TCCGAAGGAC
* * * *
2069395 CTATCCAGAGGTCATAAAGATTCTCGATAACTATCCAAAGGT-CATACAGATCCTTGGTAACTAT
1 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAAAGGTCCA-AAAGATCCTAGGTAACTAT
2069459 CCAGAGGTCATAAAGATCCTCGGTAA
65 CCAGAGGTCATAAAGATCCTCGGTAA
* *
2069485 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAGAGGT-CATAAAGATCCTCGGTAACTAT
1 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAAAGGTCCA-AAAGATCCTAGGTAACTAT
2069549 CCAGAGGTCATAAAGATCCTCGGTAA
65 CCAGAGGTCATAAAGATCCTCGGTAA
* ** *
2069575 CTATCCAGAGGTCATAAAGATCCTCGGTAACTAT-CATAGGTCCCGAAGAACCTAGGTAAACTAT
1 CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAAAGGTCCAAAAGATCCTAGGT-AACTAT
2069639 CCA
65 CCA
2069642 TATGTTCCTT
Statistics
Matches: 145, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
89 16 0.11
90 129 0.89
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (90 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAACTATCCAAAGGTCCAAAAGATCCTAGGTAACTATC
CAGAGGTCATAAAGATCCTCGGTAA
Found at i:2072953 original size:21 final size:21
Alignment explanation
Indices: 2072927--2072971 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2072917 GATTTCTGGG
* *
2072927 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
2072948 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
2072969 CAA
1 CAA
2072972 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:2073687 original size:31 final size:31
Alignment explanation
Indices: 2073649--2073801 Score: 265
Period size: 31 Copynumber: 5.0 Consensus size: 31
2073639 GGGTCGAGGG
2073649 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
2073680 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
2073711 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
2073742 TTACCTATGTTCTTCGGGACATA-GGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
2073772 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
2073802 GTCCTTCGGG
Statistics
Matches: 118, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
30 26 0.22
31 92 0.78
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:2081036 original size:6 final size:6
Alignment explanation
Indices: 2081025--2081054 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
2081015 TTTCTCCCTC
2081025 GAAACA GAAACA GAAACA GAAACA GAAACA
1 GAAACA GAAACA GAAACA GAAACA GAAACA
2081055 AAATGGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.17, G:0.17, T:0.00
Consensus pattern (6 bp):
GAAACA
Found at i:2082222 original size:3 final size:3
Alignment explanation
Indices: 2082214--2082242 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
2082204 AGATAGCTTG
2082214 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
2082243 TAGGGGTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:2085017 original size:45 final size:44
Alignment explanation
Indices: 2084963--2085139 Score: 173
Period size: 43 Copynumber: 4.0 Consensus size: 44
2084953 CACAACCGTT
* * *
2084963 GCAAAAGGTCATATCTATAGCGGCGTTTTTTCTGATTCAAAAGCT
1 GCAAAAGGTCATATCTATAGCGGCGTTTTTT-GGATACAAAAGCC
* * *
2085008 GCAAAAGGTCGAGATCTATAGCGGTG-TTTTTGGATACAAACGCC
1 GCAAAAGGTC-ATATCTATAGCGGCGTTTTTTGGATACAAAAGCC
* * * *
2085052 GCAAAAGATCATATCTATAGAGTC-ATTTTTGGATACAAACA-CC
1 GCAAAAGGTCATATCTATAGCGGCGTTTTTTGGATACAAA-AGCC
* * * *
2085095 ACAAAAGGTCATATATATAGCGGCG-TTTTTGGATTCAAACGCC
1 GCAAAAGGTCATATCTATAGCGGCGTTTTTTGGATACAAAAGCC
2085138 GC
1 GC
2085140 TAATTACCTT
Statistics
Matches: 107, Mismatches: 20, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
43 61 0.57
44 18 0.17
45 15 0.14
46 13 0.12
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
GCAAAAGGTCATATCTATAGCGGCGTTTTTTGGATACAAAAGCC
Found at i:2088964 original size:718 final size:718
Alignment explanation
Indices: 2086767--2091790 Score: 9757
Period size: 718 Copynumber: 7.0 Consensus size: 718
2086757 AAGGAGAGAG
* *
2086767 GAAAGAAATGCTTGCCTTTATATCTTTTATAAAGCTTCTGGGGAAAGAAAACATCAACAACTTCT
1 GAAAGAAAAGCTTGCCTTTATATCTTTTATAAAGCTTCCGGGGAAAGAAAACATCAACAACTTCT
*
2086832 TTAAGATTCCAACCAATTTCCTTCAATGGTTTAATAGAAATTTCTTCACTACAATTAAATAACCA
66 TTAAGATTCCAACCAATTTCCTTCAATGGTTCAATAGAAATTTCTTCACTACAATTAAATAACCA
2086897 TATGAATAAATACATGAACAAAGGAACTGAAAAGAGGGCAGCAAACCACTGATACATTCAATATA
131 TATGAATAAATACATGAACAAAGGAACTGAAAAGAGGGCAGCAAACCACTGATACATTCAATATA
2086962 GTTATAGACAACAAAACCATAATTCTAAAGATAACTGGAAAAAAATGACATTGATGGAAATGGGA
196 GTTATAGACAACAAAACCATAATTCTAAAGATAACTGGAAAAAAATGACATTGATGGAAATGGGA
2087027 AGAGACGTGATTAGCCTTACCAACAGGTTTTTATTGAGGGACCAGAATCAATCATCTCTATCAAA
261 AGAGACGTGATTAGCCTTACCAACAGGTTTTTATTGAGGGACCAGAATCAATCATCTCTATCAAA
2087092 ACACATCCATTGTTCCTTTGTTTTCATCTTTGCACATAAACCATTTTTTTCCCGATCCATTTTTA
326 ACACATCCATTGTTCCTTTGTTTTCATCTTTGCACATAAACCATTTTTTTCCCGATCCATTTTTA
*
2087157 AAAGTAGCTCTATATTAACAGTGATTTCAAAAGTAAATCCTAGACACACCCAAATATTAACAGTG
391 AAAGTAGCTCTATGTTAACAGTGATTTCAAAAGTAAATCCTAGACACACCCAAATATTAACAGTG
2087222 AAAATGAAAAATAAGAAAAATCAGGCTACCTCGATTTAGTTATCGACATGAACTGCAGGACTTTG
456 AAAATGAAAAATAAGAAAAATCAGGCTACCTCGATTTAGTTATCGACATGAACTGCAGGACTTTG
2087287 ATCCCACGACTTCCCTCCAGTTTATGCTGTTACGAACAACAAAATCATATTACATGATATAATAA
521 ATCCCACGACTTCCCTCCAGTTTATGCTGTTACGAACAACAAAATCATATTACATGATATAATAA
2087352 CATTTTCATTTTGTAGTAAATTTTATCTGTAATAATAACATCTCATATGAAGAAAATATACCCTA
586 CATTTTCATTTTGTAGTAAATTTTATCTGTAATAATAACATCTCATATGAAGAAAATATACCCTA
*
2087417 ATCGTTTATAAATGGAGGAAAATGGTTGGTATAAAGTTGAGGTTTACAAATAAGATAAAACATAC
651 ATCGTTTATAAATGGAGGAAAATGGTTGGTATAAAGTTGAGGTTTACAACTAAGATAAAACATAC
2087482 AGA
716 AGA
2087485 GAAAGAAAAGCTTGCCTTTATATCTTTTATAAAGCTTCCGGGGAAAGAAAACATCAACAACTTCT
1 GAAAGAAAAGCTTGCCTTTATATCTTTTATAAAGCTTCCGGGGAAAGAAAACATCAACAACTTCT
2087550 TTAAGATTCCAACCAATTTCCTTCAATGGTTCAATAGAAATTTCTTCACTACAATTAAATAACCA
66 TTAAGATTCCAACCAATTTCCTTCAATGGTTCAATAGAAATTTCTTCACTACAATTAAATAACCA
*
2087615 TATGAATAAATACATGAACAAAGGAACTGAAAAGAGGGAAGCAAACCACTGATACATTCAATATA
131 TATGAATAAATACATGAACAAAGGAACTGAAAAGAGGGCAGCAAACCACTGATACATTCAATATA
2087680 GTTATAGACAACAAAACCATAATTCTAAAGATAACTGGAAAAAAATGACATTGATGGAAATGGGA
196 GTTATAGACAACAAAACCATAATTCTAAAGATAACTGGAAAAAAATGACATTGATGGAAATGGGA
2087745 AGAGACGTGATTAGCCTTACCAACAGGTTTTTATTGAGGGACCAGAATCAATCATCTCTATCAAA
261 AGAGACGTGATTAGCCTTACCAACAGGTTTTTATTGAGGGACCAGAATCAATCATCTCTATCAAA
2087810 ACACATCCATTGTTCCTTTGTTTTCATCTTTGCACATAAACCA-TTTTTTCCCGATCCATTTTTA
326 ACACATCCATTGTTCCTTTGTTTTCATCTTTGCACATAAACCATTTTTTTCCCGATCCATTTTTA
2087874 AAAGTAGCTCTATGTTAACAGTGATTTCAAAAGTAAATCCTAGACACACCCAAATATTAACAGTG
391 AAAGTAGCTCTATGTTAACAGTGATTTCAAAAGTAAATCCTAGACACACCCAAATATTAACAGTG
2087939 AAAATGAAAAATAAGAAAAATCAGGCTACCTCGATTTAGTTATCGACATGAACTGCAGGACTTTG
456 AAAATGAAAAATAAGAAAAATCAGGCTACCTCGATTTAGTTATCGACATGAACTGCAGGACTTTG
*
2088004 ATCCCACGACTTCCTTCCAGTTTATGCTGTTACGAACAACAAAATCATATTACATGATATAATAA
521 ATCCCACGACTTCCCTCCAGTTTATGCTGTTACGAACAACAAAATCATATTACATGATATAATAA
* *
2088069 CATTTTCATTTTATAGTAAATTTTATCTGTAATAATAATATCTCATATGAAGAAAATATACCCTA
586 CATTTTCATTTTGTAGTAAATTTTATCTGTAATAATAACATCTCATATGAAGAAAATATACCCTA
*
2088134 ATCGTTTATAAATGGCGGAAAATGGTTGGTATAAAGTTGAGGTTTACAACTAAGATAAAACATAC
651 ATCGTTTATAAATGGAGGAAAATGGTTGGTATAAAGTTGAGGTTTACAACTAAGATAAAACATAC
2088199 AGA
716 AGA
2088202 GAAAGAAAAGCTTGCCTTTATATCTTTTATAAAGCTTCCGGGGAAAGAAAACATCAACAACTTCT
1 GAAAGAAAAGCTTGCCTTTATATCTTTTATAAAGCTTCCGGGGAAAGAAAACATCAACAACTTCT
2088267 TTAAGATTCCAACCAATTTCCTTCAATGGTTCAATAGAAATTTCTTCACTACAATTAAATAACCA
66 TTAAGATTCCAACCAATTTCCTTCAATGGTTCAATAGAAATTTCTTCACTACAATTAAATAACCA
2088332 TATGAATAAATACATGAACAAAGGAACTGAAAAGAGGGCAGCAAACCACTGATACATTCAATATA
131 TATGAATAAATACATGAACAAAGGAACTGAAAAGAGGGCAGCAAACCACTGATACATTCAATATA
*
2088397 GTTATAGACAACAAAACCATAATTCTAAGGATAACTGGAAAAAAATGACATTGATGGAAATGGGA
196 GTTATAGACAACAAAACCATAATTCTAAAGATAACTGGAAAAAAATGACATTGATGGAAATGGGA
2088462 AGAGACGTGATTAGCCTTACCAACAGGTTTTTATTGAGGGACCAGAATCAATCATCTCTATCAAA
261 AGAGACGTGATTAGCCTTACCAACAGGTTTTTATTGAGGGACCAGAATCAATCATCTCTATCAAA
*
2088527 ACACATCCATTGTTCCTTTATTTTCATCTTTGCACATAAACCATTTTTTTCCCGATCCATTTTTA
326 ACACATCCATTGTTCCTTTGTTTTCATCTTTGCACATAAACCATTTTTTTCCCGATCCATTTTTA
2088592 AAAGTAGCTCTATGTTAACAGTGATTTCAAAAGTAAATCCTAGACACACCCAAATATTAACAGTG
391 AAAGTAGCTCTATGTTAACAGTGATTTCAAAAGTAAATCCTAGACACACCCAAATATTAACAGTG
2088657 AAAATGAAAAATAAGAAAAATCAGGCTACCTCGATTTAGTTATCGACATGAACTGCAGGACTTTG
456 AAAATGAAAAATAAGAAAAATCAGGCTACCTCGATTTAGTTATCGACATGAACTGCAGGACTTTG
*
2088722 ATCCCACGACTTCCCTCCAGTTTATGCTGTTACGAACAACAAAATTATATTACATGATATAATAA
521 ATCCCACGACTTCCCTCCAGTTTATGCTGTTACGAACAACAAAATCATATTACATGATATAATAA
2088787 CATTTTCATTTTGTAGTAAATTTTATCTGTAATAATAACATCTCATATGAAGAAAATATACCCTA
586 CATTTTCATTTTGTAGTAAATTTTATCTGTAATAATAACATCTCATATGAAGAAAATATACCCTA
2088852 ATCGTTTATAAATGGAGGAAAATGGTTGGTATAAAGTTGAGGTTTACAACTAAGATAAAACATAC
651 ATCGTTTATAAATGGAGGAAAATGGTTGGTATAAAGTTGAGGTTTACAACTAAGATAAAACATAC
2088917 AGA
716 AGA
2088920 GAAAGAAAAGCTTGCCTTTATATCTTTTATAAAGCTTCCGGGGAAAGAAAACATCAACAACTTCT
1 GAAAGAAAAGCTTGCCTTTATATCTTTTATAAAGCTTCCGGGGAAAGAAAACATCAACAACTTCT
2088985 TTAAGATTCCAACCAATTTCCTTCAATGGTTCAATAGAAATTTCTTCACTACAATTAAATAACCA
66 TTAAGATTCCAACCAATTTCCTTCAATGGTTCAATAGAAATTTCTTCACTACAATTAAATAACCA
*
2089050 TATGAATAAATACATGAAAAAAGGAACTGAAAAGAGGGCAGCAAACCACTGATACATTCAATATA
131 TATGAATAAATACATGAACAAAGGAACTGAAAAGAGGGCAGCAAACCACTGATACATTCAATATA
*
2089115 GTTATAGACAACAAAACCATAATTCTAAAGATAATTGGAAAAAAATGACATTGATGGAAATGGGA
196 GTTATAGACAACAAAACCATAATTCTAAAGATAACTGGAAAAAAATGACATTGATGGAAATGGGA
2089180 AGAGACGTGATTAGCCTTACCAACAGGTTTTTATTGAGGGACCAGAATCAATCATCTCTATCAAA
261 AGAGACGTGATTAGCCTTACCAACAGGTTTTTATTGAGGGACCAGAATCAATCATCTCTATCAAA
2089245 ACACATCCATTGTTCCTTTGTTTTCATCTTTGCACATAAACCATTTTTTTCCCGATCCATTTTTA
326 ACACATCCATTGTTCCTTTGTTTTCATCTTTGCACATAAACCATTTTTTTCCCGATCCATTTTTA
2089310 AAAGTAGCTCTATGTTAACAGTGATTTCAAAAGTAAATCCTAGACACACCCAAATATTAACAGTG
391 AAAGTAGCTCTATGTTAACAGTGATTTCAAAAGTAAATCCTAGACACACCCAAATATTAACAGTG
2089375 AAAATGAAAAATAAGAAAAATCAGGCTACCTCGATTTAGTTATCGACATGAACTGCAGGACTTTG
456 AAAATGAAAAATAAGAAAAATCAGGCTACCTCGATTTAGTTATCGACATGAACTGCAGGACTTTG
2089440 ATCCCACGACTTCCCTCCAGTTTATGCTGTTACGAACAACAAAATCATATTACATGATATAATAA
521 ATCCCACGACTTCCCTCCAGTTTATGCTGTTACGAACAACAAAATCATATTACATGATATAATAA
2089505 CATTTTCATTTTGTAGTAAATTTTATCTGTAATAATAACATCTCATATGAAGAAAATATACCCTA
586 CATTTTCATTTTGTAGTAAATTTTATCTGTAATAATAACATCTCATATGAAGAAAATATACCCTA
2089570 ATCGTTTATAAATGGAGGAAAATGGTTGGTATAAAGTTGAGGTTTACAACTAAGATAAAACATAC
651 ATCGTTTATAAATGGAGGAAAATGGTTGGTATAAAGTTGAGGTTTACAACTAAGATAAAACATAC
2089635 AGA
716 AGA
2089638 GAAAGAAAAGCTTGCCTTTATATCTTTTATAAAGCTTCCGGGGAAAGAAAACATCAACAACTTCT
1 GAAAGAAAAGCTTGCCTTTATATCTTTTATAAAGCTTCCGGGGAAAGAAAACATCAACAACTTCT
2089703 TTAAGATTCCAACCAATTTCCTTCAATGGTTCAATAGAAATTTCTTCACTACAATTAAATAACCA
66 TTAAGATTCCAACCAATTTCCTTCAATGGTTCAATAGAAATTTCTTCACTACAATTAAATAACCA
2089768 TATGAATAAATACATGAACAAAGGAACTGAAAAGAGGGCAGCAAACCACTGATACATTCAATATA
131 TATGAATAAATACATGAACAAAGGAACTGAAAAGAGGGCAGCAAACCACTGATACATTCAATATA
*
2089833 GTTATAGACAACAAAACCATAATTCTAAGGATAACTGGAAAAAAATGACATTGATGGAAATGGGA
196 GTTATAGACAACAAAACCATAATTCTAAAGATAACTGGAAAAAAATGACATTGATGGAAATGGGA
2089898 AGAGACGTGATTAGCCTTACCAACAGGTTTTTATTGAGGGACCAGAATCAATCATCTCTATCAAA
261 AGAGACGTGATTAGCCTTACCAACAGGTTTTTATTGAGGGACCAGAATCAATCATCTCTATCAAA
2089963 ACACATCCATTGTTCCTTTGTTTTCATCTTTGCACATAAACCA-TTTTTTCCCGATCCATTTTTA
326 ACACATCCATTGTTCCTTTGTTTTCATCTTTGCACATAAACCATTTTTTTCCCGATCCATTTTTA
2090027 AAAGTAGCTCTATGTTAACAGTGATTTCAAAAGTAAATCCTAGACACACCCAAATATTAACAGTG
391 AAAGTAGCTCTATGTTAACAGTGATTTCAAAAGTAAATCCTAGACACACCCAAATATTAACAGTG
2090092 AAAATGAAAAATAAGAAAAATCAGGCTACCTCGATTTAGTTATCGACATGAACTGCAGGACTTTG
456 AAAATGAAAAATAAGAAAAATCAGGCTACCTCGATTTAGTTATCGACATGAACTGCAGGACTTTG
*
2090157 ATCCCACGACTTCCCTCCAGTTTATGCTGTTACGAACAACAAAATTATATTACATGATATAATAA
521 ATCCCACGACTTCCCTCCAGTTTATGCTGTTACGAACAACAAAATCATATTACATGATATAATAA
*
2090222 CATTTTCATTTTGTAGTAAATTTTATATGTAATAATAACATCTCATATGAAGAAAATATACCCTA
586 CATTTTCATTTTGTAGTAAATTTTATCTGTAATAATAACATCTCATATGAAGAAAATATACCCTA
*
2090287 ATTGTTTATAAATGGAGGAAAATGGTTGGTATAAAGTTGAGGTTTACAACTAAGATAAAACATAC
651 ATCGTTTATAAATGGAGGAAAATGGTTGGTATAAAGTTGAGGTTTACAACTAAGATAAAACATAC
2090352 AGA
716 AGA
*
2090355 GAAAGAAAAGCTTGCCTTTATATCTTTTATAAAGCTTACGGGGAAAGAAAACATCAACAACTTCT
1 GAAAGAAAAGCTTGCCTTTATATCTTTTATAAAGCTTCCGGGGAAAGAAAACATCAACAACTTCT
2090420 TTAAGATTCCAACCAATTTCCTTCAATGGTTCAATAGAAATTTCTTCACTACAATTAAATAACCA
66 TTAAGATTCCAACCAATTTCCTTCAATGGTTCAATAGAAATTTCTTCACTACAATTAAATAACCA
2090485 TATGAATAAATACATGAACAAAGGAACTGAAAAGAGGGCAGCAAACCACTGATACATTCAATATA
131 TATGAATAAATACATGAACAAAGGAACTGAAAAGAGGGCAGCAAACCACTGATACATTCAATATA
*
2090550 GTTATAGACAACAAAACCATAATTCTAAAGATAATTGG-AAAAAATGACATTGATGGAAATGGGA
196 GTTATAGACAACAAAACCATAATTCTAAAGATAACTGGAAAAAAATGACATTGATGGAAATGGGA
2090614 AGAGACGTGATTAGCCTTACCAACAGGTTTTTATTGAGGGACCAGAATCAATCATCTCTATCAAA
261 AGAGACGTGATTAGCCTTACCAACAGGTTTTTATTGAGGGACCAGAATCAATCATCTCTATCAAA
2090679 ACACATCCATTGTTCCTTTGTTTTCATCTTTGCACATAAACCATTTTTTTCCCGATCCATTTTTA
326 ACACATCCATTGTTCCTTTGTTTTCATCTTTGCACATAAACCATTTTTTTCCCGATCCATTTTTA
2090744 AAAGTAGCTCTATGTTAACAGTGATTTCAAAAGTAAATCCTAGACACACCCAAATATTAACAGTG
391 AAAGTAGCTCTATGTTAACAGTGATTTCAAAAGTAAATCCTAGACACACCCAAATATTAACAGTG
2090809 AAAATGAAAAATAAGAAAAATCAGGCTACCTCGATTTAGTTATCGACATGAACTGCAGGACTTTG
456 AAAATGAAAAATAAGAAAAATCAGGCTACCTCGATTTAGTTATCGACATGAACTGCAGGACTTTG
**
2090874 ATCCCACGACTTCCCTCCAGTTTATGCTGTTACGAACAACAAAATTTTATTACATGATATAATAA
521 ATCCCACGACTTCCCTCCAGTTTATGCTGTTACGAACAACAAAATCATATTACATGATATAATAA
*
2090939 CATTTTCATTTTGTAGTAAATTTTATATGTAATAATAACATCTCATATGAAGAAAATATACCCTA
586 CATTTTCATTTTGTAGTAAATTTTATCTGTAATAATAACATCTCATATGAAGAAAATATACCCTA
*
2091004 ATTGTTTATAAATGGAGGAAAATGGTTGGTATAAAGTTGAGGTTTACAACTAAGATAAAACATAC
651 ATCGTTTATAAATGGAGGAAAATGGTTGGTATAAAGTTGAGGTTTACAACTAAGATAAAACATAC
2091069 AGA
716 AGA
2091072 GAAAGAAAAGCTTGCCTTTATATCTTTTATAAAGCTTCCGGGGAAAGAAAACATCAACAACTTCT
1 GAAAGAAAAGCTTGCCTTTATATCTTTTATAAAGCTTCCGGGGAAAGAAAACATCAACAACTTCT
*
2091137 TTAAGATTCCAACCAATTTCCTTCAATGGTTCAATAGAAATTTATTCACTACAATTAAATAACCA
66 TTAAGATTCCAACCAATTTCCTTCAATGGTTCAATAGAAATTTCTTCACTACAATTAAATAACCA
2091202 TATGAATAAATACATGAACAAAGGAACTGAAAAGAGGGCAGCAAACCACTGATACATTCAATATA
131 TATGAATAAATACATGAACAAAGGAACTGAAAAGAGGGCAGCAAACCACTGATACATTCAATATA
*
2091267 GTTATAGACAACAAAACCATAATTCTAAAGATAATTGGAAAAAAATGACATTGATGGAAATGGGA
196 GTTATAGACAACAAAACCATAATTCTAAAGATAACTGGAAAAAAATGACATTGATGGAAATGGGA
*
2091332 AGAGACATGATTAGCCTTACCAACAGGTTTTTATTGAGGGACCAGAATCAATCATCTCTATCAAA
261 AGAGACGTGATTAGCCTTACCAACAGGTTTTTATTGAGGGACCAGAATCAATCATCTCTATCAAA
2091397 ACACATCCATTGTTCCTTTGTTTTCATCTTTGCACATAAACCATTTTTTTCCCGATCCATTTTTA
326 ACACATCCATTGTTCCTTTGTTTTCATCTTTGCACATAAACCATTTTTTTCCCGATCCATTTTTA
2091462 AAAGTAGCTCTATGTTAACAGTGATTTCAAAAGTAAATCCTAGACACACCCAAATATTAACAGTG
391 AAAGTAGCTCTATGTTAACAGTGATTTCAAAAGTAAATCCTAGACACACCCAAATATTAACAGTG
2091527 AAAATGAAAAATAAGAAAAATCAGGCTACCTCGATTTAGTTATCGACATGAACTGCAGGACTTTG
456 AAAATGAAAAATAAGAAAAATCAGGCTACCTCGATTTAGTTATCGACATGAACTGCAGGACTTTG
*
2091592 ATCCCATGACTTCCCTCCAGTTTATGCTGTTACGAACAACAAAATCATATTACATGATATAATAA
521 ATCCCACGACTTCCCTCCAGTTTATGCTGTTACGAACAACAAAATCATATTACATGATATAATAA
2091657 CATTTTCATTTTGTAGTAAATTTTATCTGTAATAATAACATCTCATATGAAGAAAATATACCCTA
586 CATTTTCATTTTGTAGTAAATTTTATCTGTAATAATAACATCTCATATGAAGAAAATATACCCTA
*
2091722 ATCGTTTATAAATGGAGGAAAATGGTTGGTATAAAGTTGAGTTTTACAACTAAGATAAAACATAC
651 ATCGTTTATAAATGGAGGAAAATGGTTGGTATAAAGTTGAGGTTTACAACTAAGATAAAACATAC
2091787 AGA
716 AGA
2091790 G
1 G
2091791 TTGGAGCGCC
Statistics
Matches: 4261, Mismatches: 42, Indels: 6
0.99 0.01 0.00
Matches are distributed among these distances:
716 134 0.03
717 1863 0.44
718 2264 0.53
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (718 bp):
GAAAGAAAAGCTTGCCTTTATATCTTTTATAAAGCTTCCGGGGAAAGAAAACATCAACAACTTCT
TTAAGATTCCAACCAATTTCCTTCAATGGTTCAATAGAAATTTCTTCACTACAATTAAATAACCA
TATGAATAAATACATGAACAAAGGAACTGAAAAGAGGGCAGCAAACCACTGATACATTCAATATA
GTTATAGACAACAAAACCATAATTCTAAAGATAACTGGAAAAAAATGACATTGATGGAAATGGGA
AGAGACGTGATTAGCCTTACCAACAGGTTTTTATTGAGGGACCAGAATCAATCATCTCTATCAAA
ACACATCCATTGTTCCTTTGTTTTCATCTTTGCACATAAACCATTTTTTTCCCGATCCATTTTTA
AAAGTAGCTCTATGTTAACAGTGATTTCAAAAGTAAATCCTAGACACACCCAAATATTAACAGTG
AAAATGAAAAATAAGAAAAATCAGGCTACCTCGATTTAGTTATCGACATGAACTGCAGGACTTTG
ATCCCACGACTTCCCTCCAGTTTATGCTGTTACGAACAACAAAATCATATTACATGATATAATAA
CATTTTCATTTTGTAGTAAATTTTATCTGTAATAATAACATCTCATATGAAGAAAATATACCCTA
ATCGTTTATAAATGGAGGAAAATGGTTGGTATAAAGTTGAGGTTTACAACTAAGATAAAACATAC
AGA
Found at i:2095915 original size:21 final size:21
Alignment explanation
Indices: 2095876--2095915 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
2095866 TTGGGCTAGG
* *
2095876 GGAATCGATACCCATTCAAGA
1 GGAACCGATACCCACTCAAGA
*
2095897 GGAACCGATACCCCCTCAA
1 GGAACCGATACCCACTCAA
2095916 ACGAACCAGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.33, G:0.17, T:0.15
Consensus pattern (21 bp):
GGAACCGATACCCACTCAAGA
Found at i:2095988 original size:23 final size:22
Alignment explanation
Indices: 2095944--2095988 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
2095934 AATGTCATGG
*
2095944 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
*
2095966 GGGAACCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
2095989 AAGTTATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.31, C:0.33, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:2096593 original size:2 final size:2
Alignment explanation
Indices: 2096586--2096617 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
2096576 TATGAGATTA
2096586 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
2096618 TAGGAGATAT
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:2097586 original size:23 final size:23
Alignment explanation
Indices: 2097556--2097620 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
2097546 ACATTATTAT
* *
2097556 ATGGCACTACGGCGCAATTCTAC
1 ATGGCACTTCGGTGCAATTCTAC
2097579 ATGGCACTTCGGTGCAATTCTAC
1 ATGGCACTTCGGTGCAATTCTAC
*
2097602 GTGGCACTTCGGTGCAATT
1 ATGGCACTTCGGTGCAATT
2097621 ATACGAGCTG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.28
Consensus pattern (23 bp):
ATGGCACTTCGGTGCAATTCTAC
Found at i:2103190 original size:34 final size:33
Alignment explanation
Indices: 2103152--2103255 Score: 94
Period size: 34 Copynumber: 3.2 Consensus size: 33
2103142 CAGTTGAGAT
*
2103152 TAAACAAACCCAAATTGAAATTTCACAAAAATTA
1 TAAACAAACCC-AATTGAAATTTCACAAAAACTA
**
2103186 TAAACAAAATC-A--GAAA--TCGA-AAAAACTA
1 TAAACAAACCCAATTGAAATTTC-ACAAAAACTA
* *
2103214 TAAACAAACCTATATTGAAATTTCACAGAAACTA
1 TAAACAAACCCA-ATTGAAATTTCACAAAAACTA
2103248 TAAACAAA
1 TAAACAAA
2103256 ATCAGAAATC
Statistics
Matches: 55, Mismatches: 7, Indels: 16
0.71 0.09 0.21
Matches are distributed among these distances:
28 17 0.31
29 1 0.02
30 5 0.09
32 5 0.09
33 1 0.02
34 26 0.47
ACGTcount: A:0.58, C:0.16, G:0.05, T:0.21
Consensus pattern (33 bp):
TAAACAAACCCAATTGAAATTTCACAAAAACTA
Found at i:2103218 original size:62 final size:62
Alignment explanation
Indices: 2103152--2103268 Score: 198
Period size: 62 Copynumber: 1.9 Consensus size: 62
2103142 CAGTTGAGAT
*
2103152 TAAACAAACCCAAATTGAAATTTCACAAAAATTATAAACAAAATCAGAAATCGAAAAAACTA
1 TAAACAAACCCAAATTGAAATTTCACAAAAACTATAAACAAAATCAGAAATCGAAAAAACTA
* * *
2103214 TAAACAAACCTATATTGAAATTTCACAGAAACTATAAACAAAATCAGAAATCGAA
1 TAAACAAACCCAAATTGAAATTTCACAAAAACTATAAACAAAATCAGAAATCGAA
2103269 GAAGTGAAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 51 1.00
ACGTcount: A:0.57, C:0.16, G:0.06, T:0.21
Consensus pattern (62 bp):
TAAACAAACCCAAATTGAAATTTCACAAAAACTATAAACAAAATCAGAAATCGAAAAAACTA
Found at i:2104469 original size:83 final size:83
Alignment explanation
Indices: 2104371--2104617 Score: 282
Period size: 83 Copynumber: 3.0 Consensus size: 83
2104361 TTTATTGGGA
* * ** * * *
2104371 AAAAAAATGCCACTATAGGTGAACCATATTGTAGTGTTTTTATAAAAATGCCGCTAAAGTACTAA
1 AAAAAAACGCCACTATAGATGAACC-TATTGCGGCGTTTATATAAAAACGCCGCTAAAGTACTAA
**
2104436 TCTGTTGTGGTGTTTGTCG
65 TCTGTTGTGGCATTTGTCG
* * * *
2104455 -AAAAAACGCCACTATAGATGGACCTATTACGGCGTTTGTATAAAAACGCCGCTAAAGTACTACT
1 AAAAAAACGCCACTATAGATGAACCTATTGCGGCGTTTATATAAAAACGCCGCTAAAGTACTAAT
* *
2104519 CTTTTGTGGCATTTTTCG
66 CTGTTGTGGCATTTGTCG
* * * *
2104537 AAAAAAACGCCACTACATATGTACCTATTGCGGCGTTTATATAAAAACGCCGCTAAAGTACTACT
1 AAAAAAACGCCACTATAGATGAACCTATTGCGGCGTTTATATAAAAACGCCGCTAAAGTACTAAT
*
2104602 CTAG-TGCGGCATTTGT
66 CT-GTTGTGGCATTTGT
2104618 TTAAGAAACG
Statistics
Matches: 139, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
82 47 0.34
83 92 0.66
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31
Consensus pattern (83 bp):
AAAAAAACGCCACTATAGATGAACCTATTGCGGCGTTTATATAAAAACGCCGCTAAAGTACTAAT
CTGTTGTGGCATTTGTCG
Found at i:2104587 original size:40 final size:40
Alignment explanation
Indices: 2104456--2104593 Score: 107
Period size: 40 Copynumber: 3.4 Consensus size: 40
2104446 TGTTTGTCGA
* * * * *
2104456 AAAAACGCCACTATAGATGGACCTATTACGGCGTTTGTAT
1 AAAAACGCCACTAAATATGTACCTATTGCGGCGTTTATAT
* * * * * * *
2104496 AAAAACGCCGCTAAAGTA-CTACTCTTTTGTGGCATTTTTCGAA
1 AAAAACGCCACTAAA-TATGTAC-CTATTGCGGCGTTTAT--AT
*
2104539 AAAAACGCCACTACATATGTACCTATTGCGGCGTTTATAT
1 AAAAACGCCACTAAATATGTACCTATTGCGGCGTTTATAT
*
2104579 AAAAACGCCGCTAAA
1 AAAAACGCCACTAAA
2104594 GTACTACTCT
Statistics
Matches: 72, Mismatches: 21, Indels: 10
0.70 0.20 0.10
Matches are distributed among these distances:
40 29 0.40
41 12 0.17
42 14 0.19
43 17 0.24
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.28
Consensus pattern (40 bp):
AAAAACGCCACTAAATATGTACCTATTGCGGCGTTTATAT
Found at i:2104628 original size:42 final size:41
Alignment explanation
Indices: 2104478--2104638 Score: 146
Period size: 41 Copynumber: 3.9 Consensus size: 41
2104468 ATAGATGGAC
* *
2104478 CTATTACGGCGTTTGTATAAAAACGCCGCTAAAGTACTACT
1 CTATTGCGGCATTTGTATAAAAACGCCGCTAAAGTACTACT
* * * * * * *
2104519 CTTTTGTGGCATTTTTCGAAAAAAACGCCACTACA-TATGTAC-
1 CTATTGCGGCATTTGT--ATAAAAACGCCGCTAAAGTA-CTACT
* *
2104561 CTATTGCGGCGTTTATATAAAAACGCCGCTAAAGTACTACT
1 CTATTGCGGCATTTGTATAAAAACGCCGCTAAAGTACTACT
* * *
2104602 CTAGTGCGGCATTTGTTTAAGAAACGCTGCTAAAGTA
1 CTATTGCGGCATTTGTATAA-AAACGCCGCTAAAGTA
2104639 TCATTTTGTG
Statistics
Matches: 92, Mismatches: 22, Indels: 11
0.74 0.18 0.09
Matches are distributed among these distances:
40 17 0.18
41 29 0.32
42 29 0.32
43 17 0.18
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.30
Consensus pattern (41 bp):
CTATTGCGGCATTTGTATAAAAACGCCGCTAAAGTACTACT
Found at i:2106076 original size:13 final size:13
Alignment explanation
Indices: 2106042--2106079 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
2106032 TAAAAAAATG
*
2106042 TTGTAAAAGATGTT
1 TTGTAAAATAT-TT
2106056 TT-TAAAATATTT
1 TTGTAAAATATTT
2106068 TTGTAAAATATT
1 TTGTAAAATATT
2106080 ATTCAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 4 0.18
13 16 0.73
14 2 0.09
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (13 bp):
TTGTAAAATATTT
Found at i:2106234 original size:33 final size:33
Alignment explanation
Indices: 2106192--2106257 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
2106182 ATTACAAGAG
2106192 ATAGTTTCTTCTTCTTAGTAGCTTAACCATCTT
1 ATAGTTTCTTCTTCTTAGTAGCTTAACCATCTT
2106225 ATAGTTTCTTCTTCTTAGTAGCTTAACCATCTT
1 ATAGTTTCTTCTTCTTAGTAGCTTAACCATCTT
2106258 CTTCTCCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.21, G:0.09, T:0.48
Consensus pattern (33 bp):
ATAGTTTCTTCTTCTTAGTAGCTTAACCATCTT
Found at i:2107044 original size:23 final size:22
Alignment explanation
Indices: 2106999--2107063 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
2106989 TTTTTAATTA
*
2106999 TATTTTTTTATTTATTTACTATAT
1 TATTTTTTTATTTA--TATTATAT
*
2107023 TCCTTTTTTTATTTATATTATAT
1 T-ATTTTTTTATTTATATTATAT
*
2107046 TATTTTTATTATATATAT
1 TATTTTT-TTATTTATAT
2107064 CTTATATCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
22 5 0.14
23 17 0.49
24 1 0.03
25 12 0.34
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (22 bp):
TATTTTTTTATTTATATTATAT
Found at i:2107050 original size:14 final size:14
Alignment explanation
Indices: 2107031--2107070 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 14
2107021 ATTCCTTTTT
2107031 TTATTTATATTATA
1 TTATTTATATTATA
*
2107045 TTATTTTTATTATA
1 TTATTTATATTATA
2107059 TATATCTTATAT
1 T-TAT-TTATAT
2107071 CATTATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 14 0.64
15 3 0.14
16 5 0.23
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATTTATATTATA
Found at i:2107243 original size:18 final size:18
Alignment explanation
Indices: 2107217--2107254 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
2107207 TATATATATA
2107217 TTATATTTTTACT-TTATT
1 TTATATTTTT-CTATTATT
*
2107235 TTATTTTTTTCTATTATT
1 TTATATTTTTCTATTATT
2107253 TT
1 TT
2107255 TTTCTTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 2 0.11
18 16 0.89
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.76
Consensus pattern (18 bp):
TTATATTTTTCTATTATT
Found at i:2107251 original size:13 final size:13
Alignment explanation
Indices: 2107235--2107259 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2107225 TTACTTTATT
2107235 TTATTTTTTTCTA
1 TTATTTTTTTCTA
2107248 TTATTTTTTTCT
1 TTATTTTTTTCT
2107260 TAATATCATG
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:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTTTTTTCTA
Found at i:2107392 original size:18 final size:17
Alignment explanation
Indices: 2107360--2107404 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
2107350 TGTATACATT
2107360 ATTTTTATT-CCTTTTTA
1 ATTTTT-TTACCTTTTTA
*
2107377 ATTTCTTTTACCTTTTTT
1 ATTT-TTTTACCTTTTTA
2107395 ATTTTTTTAC
1 ATTTTTTTAC
2107405 TCCATTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 12 0.48
18 13 0.52
ACGTcount: A:0.16, C:0.13, G:0.00, T:0.71
Consensus pattern (17 bp):
ATTTTTTTACCTTTTTA
Found at i:2107402 original size:17 final size:17
Alignment explanation
Indices: 2107358--2107404 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
2107348 TATGTATACA
2107358 TTATTTTTATT-CCTTTT
1 TTATTTTT-TTACCTTTT
*
2107375 TAATTTCTTTTACCTTTT
1 TTATTT-TTTTACCTTTT
2107393 TTATTTTTTTAC
1 TTATTTTTTTAC
2107405 TCCATTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.15, C:0.13, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTTTTTTACCTTTT
Found at i:2107470 original size:19 final size:18
Alignment explanation
Indices: 2107448--2107492 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
2107438 TTTTTTAACA
*
2107448 TTTTATTCATTTTGTTTAT
1 TTTTATTCA-TTTATTTAT
*
2107467 TTTTATTTATTTATTTAT
1 TTTTATTCATTTATTTAT
2107485 TTATTATT
1 TT-TTATT
2107493 TTTTACGTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 10 0.43
19 13 0.57
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTATTCATTTATTTAT
Found at i:2107509 original size:26 final size:26
Alignment explanation
Indices: 2107476--2107542 Score: 86
Period size: 26 Copynumber: 2.6 Consensus size: 26
2107466 TTTTTATTTA
2107476 TTTATTTATTTATTATTTTTTACGTGT
1 TTTATTTATTTATTATTTTTT-CGTGT
*
2107503 TTT-TTTATTT-TTCATTTTTTCTTGT
1 TTTATTTATTTATT-ATTTTTTCGTGT
2107528 TTTATTTA-TTATTAT
1 TTTATTTATTTATTAT
2107543 CATGTTTGCA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
25 13 0.36
26 20 0.56
27 3 0.08
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.75
Consensus pattern (26 bp):
TTTATTTATTTATTATTTTTTCGTGT
Found at i:2110627 original size:10 final size:10
Alignment explanation
Indices: 2110607--2110636 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
2110597 AGATTTAATC
2110607 AGAACAAAAAG
1 AGAA-AAAAAG
2110618 AGAAAAAAAG
1 AGAAAAAAAG
2110628 AGAAAAAAA
1 AGAAAAAAA
2110637 CAAAGAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAG
Found at i:2110638 original size:26 final size:26
Alignment explanation
Indices: 2110609--2110659 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
2110599 ATTTAATCAG
*
2110609 AACAAAAAGAGAAAA-AAAGAGAAAAA
1 AACAAAAAGAAAAAACAAAG-GAAAAA
*
2110635 AACAAAGAGAAAAAACAAAGGAAAA
1 AACAAAAAGAAAAAACAAAGGAAAA
2110660 TTGAAGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.78, C:0.06, G:0.16, T:0.00
Consensus pattern (26 bp):
AACAAAAAGAAAAAACAAAGGAAAAA
Found at i:2110643 original size:14 final size:14
Alignment explanation
Indices: 2110620--2110659 Score: 59
Period size: 13 Copynumber: 3.1 Consensus size: 14
2110610 ACAAAAAGAG
2110620 AAAA-AAAGAGAAA
1 AAAACAAAGAGAAA
2110633 AAAACAAAGAG-AA
1 AAAACAAAGAGAAA
2110646 AAAACAAAG-GAAA
1 AAAACAAAGAGAAA
2110659 A
1 A
2110660 TTGAAGAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.04
13 18 0.72
14 6 0.24
ACGTcount: A:0.80, C:0.05, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAACAAAGAGAAA
Found at i:2110647 original size:12 final size:12
Alignment explanation
Indices: 2110614--2110659 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
2110604 ATCAGAACAA
2110614 AAAGAGAAAAA-
1 AAAGAGAAAAAC
*
2110625 AAGAGAAAAAAAC
1 AA-AGAGAAAAAC
2110638 AAAGAGAAAAAAC
1 AAAGAG-AAAAAC
2110651 AAAG-GAAAA
1 AAAGAGAAAA
2110660 TTGAAGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
11 6 0.20
12 12 0.40
13 12 0.40
ACGTcount: A:0.78, C:0.04, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAGAGAAAAAC
Found at i:2110850 original size:69 final size:69
Alignment explanation
Indices: 2110731--2110868 Score: 233
Period size: 69 Copynumber: 2.0 Consensus size: 69
2110721 GATTCAAACT
2110731 ATGAGATTGATCAAGCACAACCATTTCCGAATCACTGAACCACTTCACTCGAAGATCATAGAGCA
1 ATGAGATTGATCAAGCACAACCATTTCCGAATCACTGAACCACTTCACTCGAAGATCATAGAGCA
2110796 TCAA
66 TCAA
* * *
2110800 ATGAGATTGATCAAGCACAATCATTTCTGAATCACTGAATCAC-TCTACTCGAAGATCATAGAGC
1 ATGAGATTGATCAAGCACAACCATTTCCGAATCACTGAACCACTTC-ACTCGAAGATCATAGAGC
2110864 ATCAA
65 ATCAA
2110869 GAGAGAGACA
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
68 2 0.03
69 63 0.97
ACGTcount: A:0.38, C:0.24, G:0.14, T:0.24
Consensus pattern (69 bp):
ATGAGATTGATCAAGCACAACCATTTCCGAATCACTGAACCACTTCACTCGAAGATCATAGAGCA
TCAA
Found at i:2112026 original size:26 final size:26
Alignment explanation
Indices: 2111990--2112051 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
2111980 TTCAACCAAC
2111990 TCTACAGATTGAAAGATCGACATTCA
1 TCTACAGATTGAAAGATCGACATTCA
2112016 TCTACAGATTGAAAGATCGACATTCA
1 TCTACAGATTGAAAGATCGACATTCA
*
2112042 TCTTCAGATT
1 TCTACAGATT
2112052 CAACATTTCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (26 bp):
TCTACAGATTGAAAGATCGACATTCA
Found at i:2112245 original size:37 final size:37
Alignment explanation
Indices: 2112193--2112264 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
2112183 TAAAAAGAAG
*
2112193 ATTTTATCTCGCTTGAGATAGTTTCCCTTGAAACAAA
1 ATTTTATCTCCCTTGAGATAGTTTCCCTTGAAACAAA
* *
2112230 ATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACA
1 ATTTTATCTCCCTTGAGATAGTTTCCCTTGAAACA
2112265 TAAACATTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.26, C:0.19, G:0.14, T:0.40
Consensus pattern (37 bp):
ATTTTATCTCCCTTGAGATAGTTTCCCTTGAAACAAA
Found at i:2112347 original size:37 final size:36
Alignment explanation
Indices: 2112280--2112364 Score: 116
Period size: 37 Copynumber: 2.3 Consensus size: 36
2112270 ATTGAAAACA
* * * *
2112280 TTTCTCTTGAAATGAATTTTGTCTCTCTTGAGATAG
1 TTTCTCTTGAAATAAATTTTGCCTCCCTTGAGACAG
*
2112316 TTTCCCTTGAAATAAAATTTTGCCTCCCTTGAGACAG
1 TTTCTCTTGAAAT-AAATTTTGCCTCCCTTGAGACAG
2112353 TTTCTCTTGAAA
1 TTTCTCTTGAAA
2112365 CATAAACATT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 12 0.29
37 30 0.71
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.42
Consensus pattern (36 bp):
TTTCTCTTGAAATAAATTTTGCCTCCCTTGAGACAG
Found at i:2112369 original size:102 final size:102
Alignment explanation
Indices: 2112199--2112569 Score: 455
Period size: 102 Copynumber: 3.6 Consensus size: 102
2112189 GAAGATTTTA
* * * *
2112199 TCTCGCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAAC
1 TCTCTCTTGAGACAGTTTCCCTTGAAATAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
* *
2112264 ATAAACATTGAAAACATTTCTCTTGAAATGAATTTTG
66 ATAAACATTGAAAACATTTCTCTTGAAATAAATTTCG
* *
2112301 TCTCTCTTGAGATAGTTTCCCTTGAAATAAAATTTTGCCTCCCTTGAGACAGTTTCTCTTGAAAC
1 TCTCTCTTGAGACAGTTTCCCTTGAAATAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
* *
2112366 ATAAACATTAAAAACATTTCCCTTGAAATAAATTTCG
66 ATAAACATTGAAAACATTTCTCTTGAAATAAATTTCG
* * *
2112403 TCTCTCTTGAGACAGTTTCCCTTGAAA-CAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
1 TCTCTCTTGAGACAGTTTCCCTTGAAATAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
* * ** * *
2112467 A-AAATATTTGAATATGTTT-TATTTGAAACAAATTTCG
66 ATAAACA-TTGAAAACATTTCT-CTTGAAATAAATTTCG
** * * *
2112504 TCT-TCCTTGAGACAGTTTCTTTTGGAACT-AAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAA
1 TCTCT-CTTGAGACAGTTTCCCTT-GAAATAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAA
2112567 ACA
64 ACA
2112570 AATTTCGTCT
Statistics
Matches: 238, Mismatches: 26, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
100 5 0.02
101 75 0.32
102 158 0.66
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (102 bp):
TCTCTCTTGAGACAGTTTCCCTTGAAATAAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC
ATAAACATTGAAAACATTTCTCTTGAAATAAATTTCG
Found at i:2112429 original size:36 final size:36
Alignment explanation
Indices: 2112382--2112607 Score: 236
Period size: 36 Copynumber: 6.4 Consensus size: 36
2112372 ATTAAAAACA
*
2112382 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
*
2112418 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* * *
2112454 TTTCCCTTGAAACAAA------ATAT-TTGA-ATATG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACA-G
***
2112483 TTTTATTTGAAACAAATTTCGTCT-TCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCT-CTTGAGACAG
** * * *
2112519 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
*
2112556 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
2112592 TTTCCCTTGAAACAAA
1 TTTCCCTTGAAACAAA
2112608 ATATTTGAAT
Statistics
Matches: 158, Mismatches: 20, Indels: 24
0.78 0.10 0.12
Matches are distributed among these distances:
28 2 0.01
29 18 0.11
30 2 0.01
34 1 0.01
35 1 0.01
36 101 0.64
37 32 0.20
38 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
Found at i:2112544 original size:138 final size:138
Alignment explanation
Indices: 2112402--2112661 Score: 425
Period size: 138 Copynumber: 1.9 Consensus size: 138
2112392 AATAAATTTC
*
2112402 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
1 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAAC
* * *
2112467 AAAATATTTGAATATGT-TTTAT-TTGAAACAAATTTCGTCTTCCTTGAGACAGTTTCTTTTGGA
66 AAAATATTTGAAT-T-TATTTATCCTAAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGA
2112530 ACTAAGTTTT
129 ACTAAGTTTT
*
2112540 GTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAAC
1 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAAC
* *
2112605 AAAATATTTGAATTTATTTCTCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCT
66 AAAATATTTGAATTTATTTATCCTAAAACAAATTTCGTCTCCCTTGAGACAGTTTCT
2112662 CTTGAAACAC
Statistics
Matches: 113, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
136 1 0.01
137 5 0.04
138 107 0.95
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.40
Consensus pattern (138 bp):
GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAAC
AAAATATTTGAATTTATTTATCCTAAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAAC
TAAGTTTT
Found at i:2112554 original size:203 final size:204
Alignment explanation
Indices: 2112199--2112569 Score: 491
Period size: 203 Copynumber: 1.8 Consensus size: 204
2112189 GAAGATTTTA
* * *
2112199 TCTCGCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAAC
1 TCTCGCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAAC
** * *
2112264 ATAAACATTGAAAACATTTCTCTTGAAATGAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAT
66 ATAAACATTGAAAACATTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAAT
2112329 AAAATTTTGCCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTAAAAACATTTCCCTTGAAA
131 AAAATTTTGCCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTAAAAACATTTCCCTTGAAA
2112394 TAAATTTCG
196 TAAATTTCG
* *
2112403 TCTCTCTTGAGACAGTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
1 TCTCGCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAAC
* * ** * **
2112467 A-AAATATTTGAATATGTTT-TATTTGAAACAAATTTCGTCT-TCCTTGAGACAGTTTCTTTTGG
66 ATAAACA-TTGAAAACATTTCT-CTTGAAACAAATTTCGTCTCT-CTTGAGACAGTTTCCCTT-G
* * * *
2112529 AACT-AAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
127 AAATAAAATTTTGCCTCCCTTGAGACAGTTTCTCTTGAAACA
2112570 AATTTCGTCT
Statistics
Matches: 143, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
202 6 0.04
203 107 0.75
204 30 0.21
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (204 bp):
TCTCGCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAAC
ATAAACATTGAAAACATTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAAT
AAAATTTTGCCTCCCTTGAGACAGTTTCTCTTGAAACATAAACATTAAAAACATTTCCCTTGAAA
TAAATTTCG
Found at i:2112660 original size:65 final size:67
Alignment explanation
Indices: 2112556--2112720 Score: 212
Period size: 65 Copynumber: 2.5 Consensus size: 67
2112546 CTTGAGACAG
* * * * *
2112556 TTTCTCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAATAT-TT-GAAT
1 TTTCTCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACACAAA-ATCTTCAAAT
2112618 TTA
65 TTA
*
2112621 TTTCTCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATT
1 TTTCTCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACACAAAATCTTCAAATT
2112686 TA
66 TA
*
2112688 TTTC-CCTTAAAACAAAATTTTGTTTCCCTTGAG
1 TTTCTCC-TAAAAC-AAATTTTGTCTCCCTTGAG
2112721 TCCGTTTTCA
Statistics
Matches: 88, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
65 47 0.53
66 7 0.08
67 16 0.18
68 18 0.20
ACGTcount: A:0.31, C:0.21, G:0.09, T:0.39
Consensus pattern (67 bp):
TTTCTCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACACAAAATCTTCAAATT
TA
Found at i:2113656 original size:110 final size:110
Alignment explanation
Indices: 2113463--2113661 Score: 274
Period size: 110 Copynumber: 1.8 Consensus size: 110
2113453 GTTTCAGAGC
* * * *
2113463 CAATTTTAACTTCACAACGAGGGATATTGGACTCAAGACAACACAAGCTCAATTTCACAACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGAACTCAAGACAACACAAGCTCAAATTCACAACGAAG
* *
2113528 AGGCGACTGATTGTCAACAAACAACTTTTCAGTTTCATTTAGTGT
66 AGGCGACTGACTATCAACAAACAACTTTTCAGTTTCATTTAGTGT
* * **
2113573 CAATTTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGCTCAAATTCACAGTGAA-
1 CAATTTCAACTTCACAACGAAGGATATTGAACTCAAGACAACACAAGCTCAAATTCACAACGAAG
* *
2113637 AGGGCGGCTGGCTATCAACAAACAA
66 A-GGCGACTGACTATCAACAAACAA
2113662 TTTCCCAGTT
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
109 1 0.01
110 75 0.99
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (110 bp):
CAATTTCAACTTCACAACGAAGGATATTGAACTCAAGACAACACAAGCTCAAATTCACAACGAAG
AGGCGACTGACTATCAACAAACAACTTTTCAGTTTCATTTAGTGT
Found at i:2113671 original size:110 final size:110
Alignment explanation
Indices: 2113463--2113712 Score: 271
Period size: 110 Copynumber: 2.3 Consensus size: 110
2113453 GTTTCAGAGC
* * * *
2113463 CAATTTTAACTTCACAACGAGGGATATTGGACTCAAGACAACACAAGCTCAATTTCACAACGAAG
1 CAATTTCAACTTCACAACGAAGGATATTGAACTCAAGACAACACAAGCTCAAATTCACAACGAAG
* * *
2113528 AGGCGACTGATTGTCAACAAACAACTTTTCAGTTTCATTTAGTGT
66 AGGCGACTGACTATCAACAAACAACTTTCCAGTTTCATTTAGTGT
* * **
2113573 CAATTTCAACTTCACAGCGAAGGATATTGAACTCGAGACAACACAAGCTCAAATTCACAGTGAA-
1 CAATTTCAACTTCACAACGAAGGATATTGAACTCAAGACAACACAAGCTCAAATTCACAACGAAG
* * * *
2113637 AGGGCGGCTGGCTATCAACAAACAA-TTTCCCAG-TTC---TAGAGC
66 A-GGCGACTGACTATCAACAAACAACTTT-CCAGTTTCATTTAGTGT
* *
2113679 CAATTTCAACTTCATGAA-GAAGGATATTGGACTC
1 CAATTTCAACTTCA-CAACGAAGGATATTGAACTC
2113713 GGAACAATAC
Statistics
Matches: 119, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
106 33 0.28
107 1 0.01
109 7 0.06
110 78 0.66
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.25
Consensus pattern (110 bp):
CAATTTCAACTTCACAACGAAGGATATTGAACTCAAGACAACACAAGCTCAAATTCACAACGAAG
AGGCGACTGACTATCAACAAACAACTTTCCAGTTTCATTTAGTGT
Found at i:2115184 original size:19 final size:19
Alignment explanation
Indices: 2115148--2115200 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
2115138 ATATTCCTTT
2115148 TTTTATTAT-T-TATATTA
1 TTTTATTATATATATATTA
*
2115165 TTTTATTATATATATCTTA
1 TTTTATTATATATATATTA
* *
2115184 TATCATTATATATATAT
1 TTTTATTATATATATAT
2115201 AGATGTATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 9 0.30
18 1 0.03
19 20 0.67
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTATTATATATATATTA
Found at i:2115347 original size:18 final size:18
Alignment explanation
Indices: 2115321--2115362 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
2115311 TTTAAATATA
*
2115321 TTATATTTTTACT-TTATT
1 TTAT-TTTTTTCTATTATT
2115339 TTATTTTTTTCTATTATT
1 TTATTTTTTTCTATTATT
2115357 TT-TTTT
1 TTATTTT
2115363 CTTAATATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.79
Consensus pattern (18 bp):
TTATTTTTTTCTATTATT
Found at i:2115502 original size:18 final size:17
Alignment explanation
Indices: 2115475--2115508 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2115465 TTTTTATTCA
2115475 TTTTTAATTTCTTTTACC
1 TTTTTAATTT-TTTTACC
*
2115493 TTTTTTATTTTTTTAC
1 TTTTTAATTTTTTTAC
2115509 TCCATTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTAATTTTTTTACC
Found at i:2115506 original size:17 final size:17
Alignment explanation
Indices: 2115462--2115508 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
2115452 TATGTACACA
2115462 TTATTTTTATT-CATTTT
1 TTATTTTT-TTACATTTT
* *
2115479 TAATTTCTTTTACCTTTT
1 TTATTT-TTTTACATTTT
2115497 TTATTTTTTTAC
1 TTATTTTTTTAC
2115509 TCCATTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.72
Consensus pattern (17 bp):
TTATTTTTTTACATTTT
Found at i:2117363 original size:26 final size:26
Alignment explanation
Indices: 2117309--2117359 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
2117299 GTTCGAGCCT
* * *
2117309 TTTCGAGTTCAAGTTTTAATATTATA
1 TTTCGAGTTCAAGTTTAAACATGATA
2117335 TTTCGAGTTCAAG-TTAAACATGATA
1 TTTCGAGTTCAAGTTTAAACATGATA
2117360 ATTTTTAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (26 bp):
TTTCGAGTTCAAGTTTAAACATGATA
Found at i:2117547 original size:30 final size:30
Alignment explanation
Indices: 2117511--2117576 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
2117501 AGTGAACCGG
* *
2117511 CGGTTCAAACC-GATTTTGCCGGTTTTCAGC
1 CGGTTCAACCCAG-TTTTACCGGTTTTCAGC
*
2117541 CGGTTCACCCCAGTTTTACCGGTTTTCAGC
1 CGGTTCAACCCAGTTTTACCGGTTTTCAGC
2117571 CGGTTC
1 CGGTTC
2117577 TATCGGTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.14, C:0.30, G:0.23, T:0.33
Consensus pattern (30 bp):
CGGTTCAACCCAGTTTTACCGGTTTTCAGC
Found at i:2120109 original size:2 final size:2
Alignment explanation
Indices: 2120102--2120145 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
2120092 TAAATATAAA
2120102 AT AT AT AT AT AT AT AT AT AT AT AT AT -T 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
2120143 AT A
1 AT A
2120146 AACTAATAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2120688 original size:13 final size:13
Alignment explanation
Indices: 2120672--2120704 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
2120662 CATCTTCATC
*
2120672 TTTCTTTCTTTAT
1 TTTCTTTCATTAT
2120685 TTTCTTTCATTAT
1 TTTCTTTCATTAT
2120698 TTTCTTT
1 TTTCTTT
2120705 TCACAATGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCTTTCATTAT
Found at i:2121354 original size:21 final size:20
Alignment explanation
Indices: 2121295--2121354 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
2121285 ATTCTTATAC
*
2121295 TTTATTTATTTT-CTCATTA
1 TTTATTTATTTTATTCATTA
* *
2121314 -TTA-TT-TTTTATTAAATA
1 TTTATTTATTTTATTCATTA
2121331 TTTATTTATTTTATTCATTGA
1 TTTATTTATTTTATTCATT-A
2121352 TTT
1 TTT
2121355 TCATTAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
16 4 0.13
17 6 0.19
18 6 0.19
19 2 0.06
20 9 0.29
21 4 0.13
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTATTTATTTTATTCATTA
Found at i:2121854 original size:23 final size:23
Alignment explanation
Indices: 2121827--2121870 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
2121817 ATAACGTTAA
* *
2121827 AGAAATTGAACAGTTAAAATGTT
1 AGAAATTAAACAGTCAAAATGTT
2121850 AGAAATTAAACAGTCAAAATG
1 AGAAATTAAACAGTCAAAATG
2121871 AACAGTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.52, C:0.07, G:0.16, T:0.25
Consensus pattern (23 bp):
AGAAATTAAACAGTCAAAATGTT
Found at i:2122282 original size:23 final size:23
Alignment explanation
Indices: 2122252--2122313 Score: 97
Period size: 23 Copynumber: 2.7 Consensus size: 23
2122242 CTCGTATAAA
2122252 TGCACCGAAGTGCCATGTAGAAT
1 TGCACCGAAGTGCCATGTAGAAT
**
2122275 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCATGTAGAAT
*
2122298 TGCACCGAAGTTCCAT
1 TGCACCGAAGTGCCAT
2122314 ATAAAATGTC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.27, C:0.26, G:0.26, T:0.21
Consensus pattern (23 bp):
TGCACCGAAGTGCCATGTAGAAT
Found at i:2122426 original size:20 final size:20
Alignment explanation
Indices: 2122398--2122436 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2122388 CAAAGGACCT
*
2122398 CATAGATGTTCCAAAGGATA
1 CATAGATGTCCCAAAGGATA
* *
2122418 CATATATGTCCCGAAGGAT
1 CATAGATGTCCCAAAGGAT
2122437 CGCGTAGATC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (20 bp):
CATAGATGTCCCAAAGGATA
Found at i:2127389 original size:23 final size:23
Alignment explanation
Indices: 2127363--2127416 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
2127353 AAATGCACAG
2127363 AAGTGCCACGTAGAATTGCACCA
1 AAGTGCCACGTAGAATTGCACCA
* * *
2127386 AAGTGCCGCGTAGAATTGCATCG
1 AAGTGCCACGTAGAATTGCACCA
2127409 AAGTGCCA
1 AAGTGCCA
2127417 AATAAAATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.19
Consensus pattern (23 bp):
AAGTGCCACGTAGAATTGCACCA
Found at i:2129384 original size:22 final size:23
Alignment explanation
Indices: 2129352--2129400 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
2129342 CCACATTCTG
2129352 CAAATATTTAC-CAAACTAACACC
1 CAAATATTTACGCAAA-TAACACC
*
2129375 CAAAT-TTTACGCAAATAGCACC
1 CAAATATTTACGCAAATAACACC
2129397 CAAA
1 CAAA
2129401 CAAAAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.47, C:0.29, G:0.04, T:0.20
Consensus pattern (23 bp):
CAAATATTTACGCAAATAACACC
Found at i:2136453 original size:17 final size:17
Alignment explanation
Indices: 2136431--2136469 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
2136421 ATCCCTAGAA
2136431 ATTTTAAATTCTCTTAT
1 ATTTTAAATTCTCTTAT
* * *
2136448 ATTTTAGATTTTTTTAT
1 ATTTTAAATTCTCTTAT
2136465 ATTTT
1 ATTTT
2136470 CTGTTGATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.67
Consensus pattern (17 bp):
ATTTTAAATTCTCTTAT
Found at i:2136646 original size:65 final size:65
Alignment explanation
Indices: 2136542--2136670 Score: 195
Period size: 65 Copynumber: 2.0 Consensus size: 65
2136532 AAATTCCAAC
* * *
2136542 ATTCATCCCTCATAGCATTCATTATTATCACAATCATAATGAACTTAACAGCTTAAAGTATCCTA
1 ATTCATCCCTCATAGCATTCATTATTATCACAATCATAATGAACGTAAAAACTTAAAGTATCCTA
* * * *
2136607 ATTCATCCCTCATGGCATTCATTATTATTAGAATTATAATGAACGTAAAAACTTAAAGTATCCT
1 ATTCATCCCTCATAGCATTCATTATTATCACAATCATAATGAACGTAAAAACTTAAAGTATCCT
2136671 CGTAACTGTA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 57 1.00
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.35
Consensus pattern (65 bp):
ATTCATCCCTCATAGCATTCATTATTATCACAATCATAATGAACGTAAAAACTTAAAGTATCCTA
Found at i:2140442 original size:22 final size:23
Alignment explanation
Indices: 2140417--2140466 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
2140407 TGAGAAAGGG
*
2140417 AGGAACAA-TCTAATTT-AATTTA
1 AGGAACAACT-TAATTTAAAGTTA
*
2140439 AGGAATAACTTAATTTAAAGTTA
1 AGGAACAACTTAATTTAAAGTTA
2140462 AGGAA
1 AGGAA
2140467 TAACCATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.48, C:0.06, G:0.14, T:0.32
Consensus pattern (23 bp):
AGGAACAACTTAATTTAAAGTTA
Found at i:2140466 original size:23 final size:22
Alignment explanation
Indices: 2140427--2140470 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
2140417 AGGAACAATC
*
2140427 TAATTTAATTTAAGGAATAACT
1 TAATTTAAGTTAAGGAATAACT
2140449 TAATTTAAAGTTAAGGAATAAC
1 TAATTT-AAGTTAAGGAATAAC
2140471 CATGAATGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.48, C:0.05, G:0.11, T:0.36
Consensus pattern (22 bp):
TAATTTAAGTTAAGGAATAACT
Found at i:2140630 original size:36 final size:39
Alignment explanation
Indices: 2140560--2140633 Score: 109
Period size: 39 Copynumber: 2.0 Consensus size: 39
2140550 AAAAATGTTA
*
2140560 TATTTTTTATGATATTTTTATATTGACAAACGAAAATAT
1 TATTTTTTATAATATTTTTATATTGACAAACGAAAATAT
*
2140599 TATTTTTTATAATATTTTTA-ATT-A-AACCGAAAATA
1 TATTTTTTATAATATTTTTATATTGACAAACGAAAATA
2140634 GCATGAAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
36 10 0.30
37 1 0.03
38 3 0.09
39 19 0.58
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (39 bp):
TATTTTTTATAATATTTTTATATTGACAAACGAAAATAT
Found at i:2142562 original size:16 final size:15
Alignment explanation
Indices: 2142529--2142558 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2142519 TCTCACATGC
2142529 AAAAATAAATCAAAG
1 AAAAATAAATCAAAG
2142544 AAAAA-AAATCAAAG
1 AAAAATAAATCAAAG
2142558 A
1 A
2142559 GAAACTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.77, C:0.07, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAAATAAATCAAAG
Found at i:2144069 original size:26 final size:25
Alignment explanation
Indices: 2144019--2144069 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
2144009 TCAACAACAC
*
2144019 AATAAAATCAACACAAAGTGTTCAA
1 AATAAAATCAACACAAAGTGATCAA
*
2144044 AATAAAATACCACACAAGAGT-ATCAA
1 AATAAAAT-CAACACAA-AGTGATCAA
2144070 GTCTTAACGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 8 0.36
26 11 0.50
27 3 0.14
ACGTcount: A:0.57, C:0.18, G:0.08, T:0.18
Consensus pattern (25 bp):
AATAAAATCAACACAAAGTGATCAA
Found at i:2147682 original size:20 final size:20
Alignment explanation
Indices: 2147657--2147694 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2147647 CAATTTATTC
2147657 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
2147677 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
2147695 TCCTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:2150349 original size:23 final size:22
Alignment explanation
Indices: 2150319--2150406 Score: 72
Period size: 23 Copynumber: 3.9 Consensus size: 22
2150309 GCATGGCCTT
2150319 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
** *
2150341 CGTGCATCGGCGCATC-TTC-ATG
1 -GTGCATCGATGCA-CATTCAAGG
* *
2150363 ATGTATCGATGCACATTCAAAGG
1 GTGCATCGATGCACATTC-AAGG
2150386 GATGCATCGATGCACTATTCA
1 G-TGCATCGATGCAC-ATTCA
2150407 GTGTATCGAT
Statistics
Matches: 49, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
20 1 0.02
21 12 0.24
22 2 0.04
23 16 0.33
24 14 0.29
25 4 0.08
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:2150412 original size:44 final size:44
Alignment explanation
Indices: 2150323--2150419 Score: 119
Period size: 44 Copynumber: 2.2 Consensus size: 44
2150313 GGCCTTGTGC
* *
2150323 ATCGATGCACATTCAAGGCGTGCATCGGCGCATCTTCATGATGT
1 ATCGATGCACATTCAAGGCGTGCATCGACGCATATTCATGATGT
*
2150367 ATCGATGCACATTCAAAGG-GATGCATCGATGCACTATTCA-G-TGT
1 ATCGATGCACATTC-AAGGCG-TGCATCGACGCA-TATTCATGATGT
2150411 ATCGATGCA
1 ATCGATGCA
2150420 TTAAGTACAA
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
44 27 0.57
45 15 0.32
46 5 0.11
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.27
Consensus pattern (44 bp):
ATCGATGCACATTCAAGGCGTGCATCGACGCATATTCATGATGT
Found at i:2154509 original size:117 final size:117
Alignment explanation
Indices: 2154295--2154510 Score: 267
Period size: 117 Copynumber: 1.8 Consensus size: 117
2154285 AATCAAAATT
* *
2154295 TTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTCAAGATTTCATTTT
1 TTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTAAACATTTCATTTT
* * *
2154360 GGTTTTCAAAATCCATTTTCGTTTCTAGAAGAAGTTTGTTTAATTTGAAAAA
66 GATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTTGAAAAA
* * * *
2154412 TTCTTTTTCAA-AGTTTTCAGATTTTATTTTTGAAAGCTCTAACTCCTT-TCTAAACATTTCATT
1 TTCTTTTTCAATA-CTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCT-TAAACATTTCATT
* * **
2154475 TTGATTTTCCAAGTCTGTTTTAGCTTTC-AAAAGAAG
64 TTGATTTTCAAAATCCATTTTAG-TTTCTAAAAGAAG
2154511 ATCATTTTAG
Statistics
Matches: 83, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
116 2 0.02
117 77 0.93
118 4 0.05
ACGTcount: A:0.28, C:0.15, G:0.10, T:0.47
Consensus pattern (117 bp):
TTCTTTTTCAATACTTTCAAATTTCATTTTTGAAAGCTCTAAATCCTTCTTAAACATTTCATTTT
GATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTTGAAAAA
Found at i:2155885 original size:56 final size:57
Alignment explanation
Indices: 2155808--2155915 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 57
2155798 TGTGCATCGA
*
2155808 TGCATAAAATGCATTCGATG-TTTCA-AAATAGC-CTGAGTGCATCGATGCATGTCTTG
1 TGCATAAAATGCATTCAATGTTTTCATAAA-A-CTCTGAGTGCATCGATGCATGTCTTG
* *
2155864 TGCATTAAATGCATTCAATGTTTTCATAAAACTTTGAGTGCATCGATGCATG
1 TGCATAAAATGCATTCAATGTTTTCATAAAACTCTGAGTGCATCGATGCATG
2155916 GTATGTGCAT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
56 19 0.41
57 24 0.52
58 3 0.07
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (57 bp):
TGCATAAAATGCATTCAATGTTTTCATAAAACTCTGAGTGCATCGATGCATGTCTTG
Found at i:2155986 original size:20 final size:20
Alignment explanation
Indices: 2155961--2155998 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2155951 CAATTTATTC
2155961 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
2155981 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
2155999 TCCTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:2157291 original size:20 final size:20
Alignment explanation
Indices: 2157266--2157303 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2157256 CACATGTTAA
2157266 AGAATGCATCGATGCACTGT
1 AGAATGCATCGATGCACTGT
2157286 AGAATGCATCGATGCACT
1 AGAATGCATCGATGCACT
2157304 TCAAGGGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (20 bp):
AGAATGCATCGATGCACTGT
Found at i:2158582 original size:20 final size:20
Alignment explanation
Indices: 2158559--2158654 Score: 101
Period size: 20 Copynumber: 5.0 Consensus size: 20
2158549 GAGGGATTAT
2158559 CAGTGGTCCTTCGGGACAAA
1 CAGTGGTCCTTCGGGACAAA
*
2158579 CAGTAGTCCTTCGGGAC--A
1 CAGTGGTCCTTCGGGACAAA
* * * *
2158597 TAGTGGTTCTTCGGAACAAC
1 CAGTGGTCCTTCGGGACAAA
*
2158617 CAGTGGTCCTTCAGGAC--A
1 CAGTGGTCCTTCGGGACAAA
*
2158635 TAGTGGTCCTTCGGGACAAA
1 CAGTGGTCCTTCGGGACAAA
2158655 TATTCAGTGC
Statistics
Matches: 59, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
18 29 0.49
20 30 0.51
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (20 bp):
CAGTGGTCCTTCGGGACAAA
Found at i:2158610 original size:18 final size:18
Alignment explanation
Indices: 2158560--2158652 Score: 96
Period size: 18 Copynumber: 4.9 Consensus size: 18
2158550 AGGGATTATC
*
2158560 AGTGGTCCTTCGGGACAAAC
1 AGTGGTCCTTCGGGAC--AT
*
2158580 AGTAGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAT
* * *
2158598 AGTGGTTCTTCGGAACAACC
1 AGTGGTCCTTCGGGAC-A-T
*
2158618 AGTGGTCCTTCAGGACAT
1 AGTGGTCCTTCGGGACAT
2158636 AGTGGTCCTTCGGGACA
1 AGTGGTCCTTCGGGACA
2158653 AATATTCAGT
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
18 30 0.50
19 2 0.03
20 28 0.47
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (18 bp):
AGTGGTCCTTCGGGACAT
Found at i:2158626 original size:38 final size:38
Alignment explanation
Indices: 2158560--2158654 Score: 145
Period size: 38 Copynumber: 2.5 Consensus size: 38
2158550 AGGGATTATC
*
2158560 AGTGGTCCTTCGGGACAAACAGTAGTCCTTCGGGACAT
1 AGTGGTCCTTCGGGACAAACAGTAGTCCTTCAGGACAT
* * * *
2158598 AGTGGTTCTTCGGAACAACCAGTGGTCCTTCAGGACAT
1 AGTGGTCCTTCGGGACAAACAGTAGTCCTTCAGGACAT
2158636 AGTGGTCCTTCGGGACAAA
1 AGTGGTCCTTCGGGACAAA
2158655 TATTCAGTGC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (38 bp):
AGTGGTCCTTCGGGACAAACAGTAGTCCTTCAGGACAT
Found at i:2160231 original size:2 final size:2
Alignment explanation
Indices: 2160224--2160258 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2160214 CTATGCTTAA
2160224 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2160259 CACTTACAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2171930 original size:55 final size:54
Alignment explanation
Indices: 2171871--2172118 Score: 291
Period size: 55 Copynumber: 4.5 Consensus size: 54
2171861 TAGAATTAAC
2171871 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGTAGCCAAAAGT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGTAGCCAAAA-T
* ***
2171926 GATTGAGCACCTCTGTGCTTCAATCGAGAACTGACACCTCTGTGCAGTTAAAAAAAAGT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGT---G-TAGCCAAAA-T
* ** * * *
2171985 GACTGAGCACCTCTGTGCTTCAGCCGGGAGCTGACACCTCTGTGTAGCTAAGAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGTAGCCAAAAT
* * *
2172039 GATTGAGCACCTCTGTGCTTCAATCGAG-GACTTACACCTCTGTGCAGCCAACTAT
1 GATTGAGCACCTCTGTGCTTCAATCGAGAG-CTGACACCTCTGTGTAGCCAA-AAT
*
2172094 GACTGAGCACCTCTGTGCTTCAATC
1 GATTGAGCACCTCTGTGCTTCAATC
2172119 TAAATTCTAG
Statistics
Matches: 165, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
53 1 0.01
54 43 0.26
55 73 0.44
56 1 0.01
58 1 0.01
59 46 0.28
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (54 bp):
GATTGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGTAGCCAAAAT
Found at i:2171969 original size:27 final size:27
Alignment explanation
Indices: 2171874--2172118 Score: 121
Period size: 27 Copynumber: 8.8 Consensus size: 27
2171864 AATTAACGAT
2171874 TGAGCACCTCTGTGCTTCAATCGAGAGC
1 TGAGCACCTCTGTGCTTCAATCGAGA-C
* ** * *
2171902 TGA-CACCTCTGTG-TAGCCAAAAGTGAT
1 TGAGCACCTCTGTGCT--TCAATCGAGAC
2171929 TGAGCACCTCTGTGCTTCAATCGAGAAC
1 TGAGCACCTCTGTGCTTCAATCGAG-AC
* ** *
2171957 TGA-CACCTCTGTGCAGTTAAAAAAAAGTGAC
1 TGAGCACCTCTGTGC--TT---CAATCGAGAC
** *
2171988 TGAGCACCTCTGTGCTTCAGCCGGGAGC
1 TGAGCACCTCTGTGCTTCAATCGAGA-C
* *
2172016 TGA-CACCTCTGTG-TAGCTAA--GATGAT
1 TGAGCACCTCTGTGCT-TC-AATCGA-GAC
2172042 TGAGCACCTCTGTGCTTCAATCGAGGAC
1 TGAGCACCTCTGTGCTTCAATCGA-GAC
* ** *
2172070 TTA-CACCTCTGTGCAGCCAA-CTATGAC
1 TGAGCACCTCTGTGC-TTCAATCGA-GAC
2172097 TGAGCACCTCTGTGCTTCAATC
1 TGAGCACCTCTGTGCTTCAATC
2172119 TAAATTCTAG
Statistics
Matches: 161, Mismatches: 34, Indels: 44
0.67 0.14 0.18
Matches are distributed among these distances:
26 8 0.05
27 78 0.48
28 50 0.31
29 3 0.02
30 2 0.01
31 5 0.03
32 15 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (27 bp):
TGAGCACCTCTGTGCTTCAATCGAGAC
Found at i:2172082 original size:113 final size:114
Alignment explanation
Indices: 2171874--2172085 Score: 354
Period size: 113 Copynumber: 1.9 Consensus size: 114
2171864 AATTAACGAT
*
2171874 TGAGCACCTCTGTGCTTCAATCGAGAGCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCTC
1 TGAGCACCTCTGTGCTTCAACCGAGAGCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCTC
2171939 TGTGCTTCAATCGAGAACTGACACCTCTGTGCAGTTAAAAAAAAGTGAC
66 TGTGCTTCAATCGAGAACTGACACCTCTGTGCAGTTAAAAAAAAGTGAC
* * * *
2171988 TGAGCACCTCTGTGCTTCAGCCGGGAGCTGACACCTCTGTGTAGCTAAGA-TGATTGAGCACCTC
1 TGAGCACCTCTGTGCTTCAACCGAGAGCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCTC
* *
2172052 TGTGCTTCAATCGAGGACTTACACCTCTGTGCAG
66 TGTGCTTCAATCGAGAACTGACACCTCTGTGCAG
2172086 CCAACTATGA
Statistics
Matches: 91, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
113 46 0.51
114 45 0.49
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (114 bp):
TGAGCACCTCTGTGCTTCAACCGAGAGCTGACACCTCTGTGTAGCCAAAAGTGATTGAGCACCTC
TGTGCTTCAATCGAGAACTGACACCTCTGTGCAGTTAAAAAAAAGTGAC
Found at i:2176630 original size:2 final size:2
Alignment explanation
Indices: 2176623--2176679 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
2176613 TTTTAGCATA
2176623 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
2176665 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
2176680 AGCAGGTACA
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:2180194 original size:16 final size:16
Alignment explanation
Indices: 2180173--2180204 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
2180163 AATAAATAAG
2180173 CGAACATAAACGAACA
1 CGAACATAAACGAACA
2180189 CGAACATAAACGAACA
1 CGAACATAAACGAACA
2180205 AAAATTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.25, G:0.12, T:0.06
Consensus pattern (16 bp):
CGAACATAAACGAACA
Found at i:2180291 original size:16 final size:16
Alignment explanation
Indices: 2180270--2180324 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
2180260 CATTTAATAA
*
2180270 ATAAACGAACACAAAC
1 ATAAACGAACACGAAC
2180286 ATAAACGAACACGAAC
1 ATAAACGAACACGAAC
*
2180302 ATAAATGAACACGAAC
1 ATAAACGAACACGAAC
2180318 ATAAACG
1 ATAAACG
2180325 TTGGAGACCC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.58, C:0.22, G:0.11, T:0.09
Consensus pattern (16 bp):
ATAAACGAACACGAAC
Found at i:2181890 original size:24 final size:24
Alignment explanation
Indices: 2181829--2181890 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 24
2181819 TATTAGGTTA
*
2181829 AACATAAATGAACGCACATAAACG
1 AACATAACTGAACGCACATAAACG
* *
2181853 AACATAACTAAACGCATATAAACG
1 AACATAACTGAACGCACATAAACG
*
2181877 AACATAACCGAACG
1 AACATAACTGAACG
2181891 TTCACGAACG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.53, C:0.23, G:0.11, T:0.13
Consensus pattern (24 bp):
AACATAACTGAACGCACATAAACG
Found at i:2182465 original size:29 final size:29
Alignment explanation
Indices: 2182408--2182465 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
2182398 GTGTTGGCCG
*
2182408 TAGGTCGCCATGCCTTCCGGGCGACCTAC
1 TAGGTCGCCATGCCTTCCGGACGACCTAC
* *
2182437 TAGGTCGCCATGTCTTACC-GACGAGCTAC
1 TAGGTCGCCATGCCTT-CCGGACGACCTAC
2182466 AAGAGATTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.17, C:0.34, G:0.26, T:0.22
Consensus pattern (29 bp):
TAGGTCGCCATGCCTTCCGGACGACCTAC
Found at i:2182527 original size:14 final size:14
Alignment explanation
Indices: 2182508--2182535 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2182498 CGCTGGGTAT
2182508 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
2182522 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
2182536 GAGCATTCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.43, G:0.29, T:0.07
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:2182594 original size:33 final size:33
Alignment explanation
Indices: 2182543--2182623 Score: 117
Period size: 33 Copynumber: 2.5 Consensus size: 33
2182533 CGAGAGCATT
* * * *
2182543 CGAGGCCATCCGAACGAGCTATGCAAGGGCATC
1 CGAGGGCAACCGAGCGAGCTATGCAAGGGAATC
*
2182576 CGAGGGTAACCGAGCGAGCTATGCAAGGGAATC
1 CGAGGGCAACCGAGCGAGCTATGCAAGGGAATC
2182609 CGAGGGCAACCGAGC
1 CGAGGGCAACCGAGC
2182624 AAGGGTAGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.28, C:0.27, G:0.35, T:0.10
Consensus pattern (33 bp):
CGAGGGCAACCGAGCGAGCTATGCAAGGGAATC
Found at i:2182672 original size:29 final size:29
Alignment explanation
Indices: 2182630--2182743 Score: 192
Period size: 29 Copynumber: 3.9 Consensus size: 29
2182620 GAGCAAGGGT
2182630 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
2182659 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
*
2182688 AGGTCACCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
* * *
2182717 AGGTTGCCCTGAGGGCATGGCGACCTA
1 AGGTCGCCCGGAGTGCATGGCGACCTA
2182744 TGTGTTGGGA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 80 1.00
ACGTcount: A:0.21, C:0.30, G:0.34, T:0.15
Consensus pattern (29 bp):
AGGTCGCCCGGAGTGCATGGCGACCTACA
Found at i:2185883 original size:23 final size:25
Alignment explanation
Indices: 2185857--2185912 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
2185847 AAGAACAATT
*
2185857 ATAA-AATATGGTTATTTA-TTAAA
1 ATAATAATAAGGTTATTTATTTAAA
2185880 ATAATTTAATAAGGTTATTTATTTTAAA
1 ATAA--TAATAAGGTTATTTA-TTTAAA
2185908 ATAAT
1 ATAAT
2185913 TTATTATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
23 4 0.15
26 14 0.52
28 9 0.33
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (25 bp):
ATAATAATAAGGTTATTTATTTAAA
Found at i:2185890 original size:26 final size:27
Alignment explanation
Indices: 2185861--2185945 Score: 91
Period size: 30 Copynumber: 3.0 Consensus size: 27
2185851 ACAATTATAA
*
2185861 AATATGGTTATTTA-TTAAAATAATTT
1 AATAAGGTTATTTATTTAAAATAATTT
2185887 AATAAGGTTATTTATTTTAAAATAATTT
1 AATAAGGTTATTTA-TTTAAAATAATTT
** *
2185915 ATTATAAAATAATTTATTTTAAAATAATTT
1 A--ATAAGGTTATTTA-TTTAAAATAATTT
2185945 A
1 A
2185946 TTATAAAATA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
26 13 0.25
28 13 0.25
30 25 0.49
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (27 bp):
AATAAGGTTATTTATTTAAAATAATTT
Found at i:2185902 original size:30 final size:29
Alignment explanation
Indices: 2185875--2185998 Score: 115
Period size: 30 Copynumber: 4.0 Consensus size: 29
2185865 TGGTTATTTA
** *
2185875 TTAAAATAATTTA-ATAAGGTTATTTATT
1 TTAAAATAATTTATATAAAATAATTTATT
2185903 TTAAAATAATTTATTATAAAATAATTTATT
1 TTAAAATAATTTA-TATAAAATAATTTATT
2185933 TTAAAATAATTTATTATAAAATATGGATTGATTTATT
1 TTAAAATAATTTA-TAT-AAA-AT--A---ATTTATT
* *
2185970 TTAAAATAATTTATTTTAAATAATTTATT
1 TTAAAATAATTTATATAAAATAATTTATT
2185999 AGTATGGATT
Statistics
Matches: 82, Mismatches: 5, Indels: 17
0.79 0.05 0.16
Matches are distributed among these distances:
28 13 0.16
29 7 0.09
30 29 0.35
31 3 0.04
32 3 0.04
34 3 0.04
35 2 0.02
36 2 0.02
37 20 0.24
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (29 bp):
TTAAAATAATTTATATAAAATAATTTATT
Found at i:2185966 original size:22 final size:22
Alignment explanation
Indices: 2185941--2186043 Score: 98
Period size: 22 Copynumber: 4.5 Consensus size: 22
2185931 TTTTAAAATA
*
2185941 ATTTATTATAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
** *
2185963 ATTTATTTTAAAATAATTTATTTT
1 ATTTATTTTAAAAT-ATGGA-TTG
** * * *
2185987 AAATAATTTATTAGTATGGATTG
1 ATTTATTTTA-AAATATGGATTG
2186010 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
2186032 ATTTATTTTAAA
1 ATTTATTTTAAA
2186044 TAATTTATTA
Statistics
Matches: 61, Mismatches: 17, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
22 35 0.57
23 12 0.20
24 12 0.20
25 2 0.03
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.51
Consensus pattern (22 bp):
ATTTATTTTAAAATATGGATTG
Found at i:2185992 original size:14 final size:15
Alignment explanation
Indices: 2185896--2185998 Score: 118
Period size: 15 Copynumber: 6.5 Consensus size: 15
2185886 TAATAAGGTT
2185896 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
2185911 ATTTATTATAAAATA
1 ATTTATTTTAAAATA
2185926 ATTTATTTTAAAATA
1 ATTTATTTTAAAATA
*
2185941 ATTTATTATAAAATATGGA
1 ATTTATT-TTAAA-AT--A
2185960 TTGATTTATTTTAAAATA
1 ---ATTTATTTTAAAATA
2185978 ATTTATTTT-AAATA
1 ATTTATTTTAAAATA
2185992 ATTTATT
1 ATTTATT
2185999 AGTATGGATT
Statistics
Matches: 77, Mismatches: 4, Indels: 15
0.80 0.04 0.16
Matches are distributed among these distances:
14 12 0.16
15 44 0.57
16 4 0.05
17 2 0.03
18 1 0.01
19 1 0.01
20 2 0.03
21 4 0.05
22 7 0.09
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (15 bp):
ATTTATTTTAAAATA
Found at i:2186016 original size:32 final size:32
Alignment explanation
Indices: 2185978--2186129 Score: 146
Period size: 32 Copynumber: 5.4 Consensus size: 32
2185968 TTTTAAAATA
2185978 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
2186010 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
2186032 ATTTATTTTAAATAATTTATTAGTATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
2186064 ATTTA-TTT---TAA---A--A-TATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
2186086 ATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTG
*
2186118 ATATATTTTAAA
1 ATTTATTTTAAA
2186130 ATATGGATTG
Statistics
Matches: 97, Mismatches: 3, Indels: 40
0.69 0.02 0.29
Matches are distributed among these distances:
22 27 0.28
23 8 0.08
25 2 0.02
26 6 0.06
28 6 0.06
29 2 0.02
31 8 0.08
32 38 0.39
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (32 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTG
Found at i:2186044 original size:54 final size:54
Alignment explanation
Indices: 2185978--2186531 Score: 525
Period size: 54 Copynumber: 10.4 Consensus size: 54
2185968 TTTTAAAATA
2185978 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
2186032 ATTTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
2186086 ATTTATTTTAAATAATTTATTAGTATGGATTGATATATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
*
2186140 ----A-TTT-AAT-ATTGTAGTT-GTATGGATTGATTTATTTT-AAATA---ATTT
1 ATTTATTTTAAATAATT-TA-TTAGTATGGATTGATTTATTTTAAAATATGGATTG
* ** * * * *
2186184 A-TTAGTATGGATTGA-TTA-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTA-TTTTAAATAATTTATTAGTATGGATTGATTTA-TTT---TAA---A--A-TATGGATTG
* * * *
2186246 ATTTATTTT-AA-AA--TA-TAG-ATTGATTTATTTTAAATAATTTATTAGTATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGA-TTT--AT--TTTA-AAATATGGATTG
* * * * *** *
2186300 ATTTATTTT-AA-AA--TA-T-GGATTGATTTA-TTATTGTAGTTGTATAGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA-AAATATGGATTG
*
2186348 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATACGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
2186402 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
2186456 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
2186510 ATTTATTTTAAATAATTTATTA
1 ATTTATTTTAAATAATTTATTA
2186532 TTGTAGTTGT
Statistics
Matches: 426, Mismatches: 35, Indels: 78
0.79 0.06 0.14
Matches are distributed among these distances:
44 3 0.01
47 9 0.02
48 59 0.14
49 13 0.03
50 8 0.02
51 1 0.00
52 5 0.01
53 3 0.01
54 283 0.66
55 7 0.02
56 1 0.00
57 1 0.00
58 8 0.02
59 10 0.02
60 2 0.00
61 2 0.00
62 8 0.02
63 3 0.01
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.51
Consensus pattern (54 bp):
ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
Found at i:2186080 original size:22 final size:22
Alignment explanation
Indices: 2186055--2186097 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2186045 AATTTATTAG
2186055 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
*
2186077 TATGGATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
2186098 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:2186243 original size:32 final size:32
Alignment explanation
Indices: 2186205--2186311 Score: 144
Period size: 32 Copynumber: 3.7 Consensus size: 32
2186195 TTGATTAAAA
2186205 TATGGATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
2186237 TATGGATTGATTTATTTT--A-AA---A-TA-
1 TATGGATTGATTTATTTTAAATAATTTATTAG
2186261 TA--GATTGATTTATTTTAAATAATTTATTAG
1 TATGGATTGATTTATTTTAAATAATTTATTAG
2186291 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2186312 ATATGGATTG
Statistics
Matches: 65, Mismatches: 0, Indels: 20
0.76 0.00 0.24
Matches are distributed among these distances:
22 14 0.22
24 3 0.05
25 4 0.06
26 1 0.02
28 1 0.02
29 4 0.06
30 3 0.05
32 35 0.54
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (32 bp):
TATGGATTGATTTATTTTAAATAATTTATTAG
Found at i:2186250 original size:80 final size:82
Alignment explanation
Indices: 2186077--2186445 Score: 267
Period size: 80 Copynumber: 4.3 Consensus size: 82
2186067 TATTTTAAAA
2186077 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATATATTTTAAAATATGGATTG--
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG---TA-TTTAAAATATGGATTGAT
2186140 --A-TTT-AAT-ATTGTAGTT-G
62 TTATTTTAAATAATT-TA-TTAG
2186157 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTG-A-TTAAAATATGGATTGATTTAT
1 TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGTATTTAAAATATGGATTGATTTAT
2186220 TTTAAATAATTTATTAG
66 TTTAAATAATTTATTAG
* * ** * * * *
2186237 TATGGATTGATTTATTTTAAAATATAGATTGATTTA-TTTTAAAT-AATTTATTAGTATGGATTG
1 TATGGATTGATTTATTTT--AA-ATA-ATTTA-TTAGTATGGATTGTATTTA-AAATATGGATTG
2186300 ATTTATTTTAAAATATGGATTGATTTATTATTG
60 ATTTATTTT--AA-AT--A---ATTTATTA--G
* * *
2186333 TAGTTGTATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATACGG
1 TA--TGGATTGATT----TATTTTAAATAATTTATTAGTATGGATTG---TA-TTTAAAATATGG
2186398 ATTGATTTATTTTAAATAATTTATTAG
56 ATTGATTTATTTTAAATAATTTATTAG
2186425 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2186446 ATATGGATTG
Statistics
Matches: 231, Mismatches: 20, Indels: 70
0.72 0.06 0.22
Matches are distributed among these distances:
74 15 0.06
76 1 0.00
78 1 0.00
79 5 0.02
80 65 0.28
81 3 0.01
82 2 0.01
83 3 0.01
84 9 0.04
85 6 0.03
86 28 0.12
88 2 0.01
89 2 0.01
90 8 0.03
91 1 0.00
92 3 0.01
94 16 0.07
96 3 0.01
97 4 0.02
98 16 0.07
99 5 0.02
100 4 0.02
102 25 0.11
103 4 0.02
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (82 bp):
TATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGTATTTAAAATATGGATTGATTTAT
TTTAAATAATTTATTAG
Found at i:2186347 original size:102 final size:99
Alignment explanation
Indices: 2186161--2186359 Score: 262
Period size: 102 Copynumber: 1.9 Consensus size: 99
2186151 TAGTTGTATG
2186161 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTAAAATATGGATTGATTTATTTTAAA
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTAAAATATGGATTGATTTA-TTT-AA
* *
2186226 TAATTTATTAGTATGGATTGATTTATTTTAAAATATA
64 T-ATGTATTAGTATAGATTGATTTATTTTAAAATATA
2186263 GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTGATTTA-
1 GATTGATTTATTTTAAATAATTTATTAGTATGGATTG----A--TTAAAATATGGATTGATTTAT
2186327 TT-AT-TGTAGTT-GTATAGATTGATTTATTTTAAA
60 TTAATATGTA-TTAGTATAGATTGATTTATTTTAAA
2186360 TAATTTATTA
Statistics
Matches: 88, Mismatches: 2, Indels: 14
0.85 0.02 0.13
Matches are distributed among these distances:
102 61 0.69
103 2 0.02
104 2 0.02
106 3 0.03
108 20 0.23
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (99 bp):
GATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTAAAATATGGATTGATTTATTTAATA
TGTATTAGTATAGATTGATTTATTTTAAAATATA
Found at i:2186384 original size:32 final size:32
Alignment explanation
Indices: 2186338--2186499 Score: 166
Period size: 32 Copynumber: 5.7 Consensus size: 32
2186328 TATTGTAGTT
*
2186338 GTATAGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
2186370 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
*
2186393 -TACGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
2186424 GTATGGATTGATTTA-TTT---TAA---A--A
1 GTATGGATTGATTTATTTTAAATAATTTATTA
2186447 -TATGGATTGATTTATTTTAAATAATTTATTA
1 GTATGGATTGATTTATTTTAAATAATTTATTA
2186478 GTATGGATTGATTTATTTTAAA
1 GTATGGATTGATTTATTTTAAA
2186500 ATATGGATTG
Statistics
Matches: 107, Mismatches: 3, Indels: 40
0.71 0.02 0.27
Matches are distributed among these distances:
22 27 0.25
23 8 0.07
25 2 0.02
26 6 0.06
28 6 0.06
29 2 0.02
31 8 0.07
32 48 0.45
ACGTcount: A:0.35, C:0.01, G:0.13, T:0.51
Consensus pattern (32 bp):
GTATGGATTGATTTATTTTAAATAATTTATTA
Found at i:2186407 original size:134 final size:133
Alignment explanation
Indices: 2186055--2186462 Score: 533
Period size: 134 Copynumber: 3.1 Consensus size: 133
2186045 AATTTATTAG
* * *
2186055 TATGAATTGATTTATT-TT-A-AAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATT
1 TATGGATTGATTTATTATTGATTAATATAGATTGATTTATTTTAAATAATTTATTAGTATGGATT
*
2186117 GATATATTTTAAAATATGGATTG----A-TTT-AAT-ATTGTAGTT-GTATGGATTGATTTATTT
66 GATTTATTTTAAAATATGGATTGATTTATTTTAAATAATT-TA-TTAGTATGGATTGATTTATTT
2186174 T-AAA
129 TAAAA
* * *
2186178 TA---ATTTATTAGTATGGATTGATTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTAT
1 TATGGATTGATT--TAT-TATTGATT--AATATAGATTGATTTATTTTAAATAATTTATTAGTAT
*
2186240 GGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA
61 GGATTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTA
2186305 TTTTAAAA
126 TTTTAAAA
*
2186313 TATGGATTGATTTATTATTGTAGTT-GTATAGATTGATTTATTTTAAATAATTTATTAGTATGGA
1 TATGGATTGATTTATTATTG-A-TTAATATAGATTGATTTATTTTAAATAATTTATTAGTATGGA
*
2186377 TTGATTTATTTTAAAATACGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTT
64 TTGATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTT
2186442 TAAAA
129 TAAAA
2186447 TATGGATTGATTTATT
1 TATGGATTGATTTATT
2186463 TTAAATAATT
Statistics
Matches: 252, Mismatches: 11, Indels: 33
0.85 0.04 0.11
Matches are distributed among these distances:
120 6 0.02
122 3 0.01
123 2 0.01
124 2 0.01
125 1 0.00
128 63 0.25
132 1 0.00
133 5 0.02
134 145 0.58
135 12 0.05
136 4 0.02
137 2 0.01
138 6 0.02
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (133 bp):
TATGGATTGATTTATTATTGATTAATATAGATTGATTTATTTTAAATAATTTATTAGTATGGATT
GATTTATTTTAAAATATGGATTGATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTA
AAA
Found at i:2186450 original size:22 final size:22
Alignment explanation
Indices: 2186425--2186467 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2186415 AATTTATTAG
2186425 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
2186447 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2186468 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2186504 original size:22 final size:22
Alignment explanation
Indices: 2186479--2186521 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
2186469 AATTTATTAG
2186479 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATTTATTTTAAAA
2186501 TATGGATTGATTTATTTTAAA
1 TATGGATTGATTTATTTTAAA
2186522 TAATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.14, T:0.51
Consensus pattern (22 bp):
TATGGATTGATTTATTTTAAAA
Found at i:2186581 original size:31 final size:31
Alignment explanation
Indices: 2186546--2186604 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
2186536 AGTTGTATGG
* *
2186546 ATTATTTAAATTTCAGTATTGTAAAACTAAA
1 ATTATTTAAATCTCAGTATTGCAAAACTAAA
2186577 ATTATTTAAATCTCAGTATTGCAAAACT
1 ATTATTTAAATCTCAGTATTGCAAAACT
2186605 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.41
Consensus pattern (31 bp):
ATTATTTAAATCTCAGTATTGCAAAACTAAA
Found at i:2191325 original size:44 final size:44
Alignment explanation
Indices: 2191252--2191362 Score: 177
Period size: 44 Copynumber: 2.5 Consensus size: 44
2191242 CCATTAAAGA
* * *
2191252 TTATGATATTTAGTGGCGTTTGTTCCTAAAAGTGCCGCTAAATG
1 TTATGACATATAGTGGCGTTTGTTCCTAAAAATGCCGCTAAATG
*
2191296 TTCTGACATATAGTGGCGTTTGTTCCTAAAAATGCCGCTAAATG
1 TTATGACATATAGTGGCGTTTGTTCCTAAAAATGCCGCTAAATG
*
2191340 TTATGTCATATAGTGGCGTTTGT
1 TTATGACATATAGTGGCGTTTGT
2191363 GAATGTAAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.39
Consensus pattern (44 bp):
TTATGACATATAGTGGCGTTTGTTCCTAAAAATGCCGCTAAATG
Found at i:2193266 original size:13 final size:13
Alignment explanation
Indices: 2193248--2193272 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2193238 ATTTGAACCC
2193248 TTATCATAACAAT
1 TTATCATAACAAT
2193261 TTATCATAACAA
1 TTATCATAACAA
2193273 ATAAGGGTAT
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:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
TTATCATAACAAT
Found at i:2194637 original size:40 final size:40
Alignment explanation
Indices: 2194592--2195073 Score: 208
Period size: 40 Copynumber: 11.9 Consensus size: 40
2194582 GGCCAGTACG
* *
2194592 AGTATTTCA-CGGTGTTTGTATAAAAAC-ACCACTAAAGTAT
1 AGTATTT-AGCGGCGTTTATATAAAAACGA-CACTAAAGTAT
* *
2194632 AGTATTTAGCGGCGTTTATATAAAAACGACACTAAAATACG
1 AGTATTTAGCGGCGTTTATATAAAAACGACACTAAAGTA-T
* * * * * *
2194673 AGTAATTAGCGGCGTTTGTTCTTAAAACG-CTTCTAAAGTACG
1 AGTATTTAGCGGCGTTT-ATATAAAAACGAC-ACTAAAGTA-T
** * ** * *
2194715 AGTATTTAGTTGTG-TGCT-T-AAAACGCCACTAAAGTACG
1 AGTATTTAGCGGCGTTTATATAAAAACGACACTAAAGTA-T
* * * * * * *
2194753 AGTATTTAGCGACGTTTGTGCTTAAAATGCCACTAAAGTACG
1 AGTATTTAGCGGCGTTTAT-ATAAAAACGACACTAAAGTA-T
** * * * * * *
2194795 AGTATTTAGCAACATTTATGCTTAAAACGCCACTGAAGTACG
1 AGTATTTAGCGGCGTTTAT-ATAAAAACGACACTAAAGTA-T
* * * * *
2194837 AGTCTTTAGCGGTGTTTGTAT-AAAATGCCACTAAAGTACT
1 AGTATTTAGCGGCGTTTATATAAAAACGACACTAAAGTA-T
* * * * *
2194877 AGTATTTAGAGGCATTTATATAAAAGCGCCACTAAAATAT
1 AGTATTTAGCGGCGTTTATATAAAAACGACACTAAAGTAT
* ** * * * *
2194917 GAGT-TATTGGCGATGTTTTTGTACAAACGCCACTAAAGTAT
1 -AGTAT-TTAGCGGCGTTTATATAAAAACGACACTAAAGTAT
* * * * * * *
2194958 AGTATTTAGTGGCGCTTATGCTTAAAATGCCACTAAAGTACG
1 AGTATTTAGCGGCGTTTAT-ATAAAAACGACACTAAAGTA-T
* * * *
2195000 AGTATTTAG-GGCGTTTGTACAAAAATGCCACTAAAGTAT
1 AGTATTTAGCGGCGTTTATATAAAAACGACACTAAAGTAT
*
2195039 AGTATTTAGCGGCGTTTATATAAAAACGCCACTAA
1 AGTATTTAGCGGCGTTTATATAAAAACGACACTAA
2195074 GTACGAGTTT
Statistics
Matches: 348, Mismatches: 77, Indels: 34
0.76 0.17 0.07
Matches are distributed among these distances:
38 26 0.07
39 14 0.04
40 117 0.34
41 87 0.25
42 104 0.30
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (40 bp):
AGTATTTAGCGGCGTTTATATAAAAACGACACTAAAGTAT
Found at i:2194690 original size:81 final size:82
Alignment explanation
Indices: 2194586--2195086 Score: 439
Period size: 81 Copynumber: 6.2 Consensus size: 82
2194576 TATAAAGGCC
* *
2194586 AGTACGAGTATTTCA-CGGTGTTTGTATAAAAACACCACTAAAGTA-TAGTATTTAGCGGCGTTT
1 AGTACGAGTATTT-AGCGGCGTTTGTATAAAAACGCCACTAAAGTACTAGTATTTAGCGGCGTTT
*
2194649 ATATAAAAACGACACTAA
65 ATATAAAAACGCCACTAA
* * * * ** * ** * *
2194667 AATACGAGTAATTAGCGGCGTTTGTTCTTAAAACGCTTCTAAAGTACGAGTATTTAGTTGTG-TG
1 AGTACGAGTATTTAGCGGCGTTTG-TATAAAAACGCCACTAAAGTACTAGTATTTAGCGGCGTTT
*
2194731 CT-T-AAAACGCCACTAA
65 ATATAAAAACGCCACTAA
* * * * * ** *
2194747 AGTACGAGTATTTAGCGACGTTTGTGCTTAAAATGCCACTAAAGTACGAGTATTTAGCAACATTT
1 AGTACGAGTATTTAGCGGCGTTTGT-ATAAAAACGCCACTAAAGTACTAGTATTTAGCGGCGTTT
* * *
2194812 ATGCTTAAAACGCCACTGA
65 AT-ATAAAAACGCCACTAA
* * * * *
2194831 AGTACGAGTCTTTAGCGGTGTTTGTAT-AAAATGCCACTAAAGTACTAGTATTTAGAGGCATTTA
1 AGTACGAGTATTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACTAGTATTTAGCGGCGTTTA
*
2194895 TATAAAAGCGCCACTAA
66 TATAAAAACGCCACTAA
* * * ** * * * * *
2194912 AATATGAGT-TATTGGCGATGTTTTTGTACAAACGCCACTAAAGTA-TAGTATTTAGTGGCGCTT
1 AGTACGAGTAT-TTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACTAGTATTTAGCGGCGTTT
* * *
2194975 ATGCTTAAAATGCCACTAA
65 AT-ATAAAAACGCCACTAA
* *
2194994 AGTACGAGTATTTAG-GGCGTTTGTACAAAAATGCCACTAAAGTA-TAGTATTTAGCGGCGTTTA
1 AGTACGAGTATTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACTAGTATTTAGCGGCGTTTA
2195057 TATAAAAACGCCACT-A
66 TATAAAAACGCCACTAA
*
2195073 AGTACGAGTTTTTA
1 AGTACGAGTATTTA
2195087 CTGGCGATTA
Statistics
Matches: 336, Mismatches: 72, Indels: 26
0.77 0.17 0.06
Matches are distributed among these distances:
79 15 0.04
80 74 0.22
81 110 0.33
82 89 0.26
83 14 0.04
84 34 0.10
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.31
Consensus pattern (82 bp):
AGTACGAGTATTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACTAGTATTTAGCGGCGTTTA
TATAAAAACGCCACTAA
Found at i:2194715 original size:42 final size:42
Alignment explanation
Indices: 2194614--2195086 Score: 320
Period size: 42 Copynumber: 11.6 Consensus size: 42
2194604 TGTTTGTATA
* * * * * *
2194614 AAAACACCACTAAAGTA-TAGTATTTAGCGGCGTTTAT-ATA
1 AAAACGCCACTAAAGTACGAGTATTTAGCGACGTTTGTGCTT
* * * * *
2194654 AAAACGACACTAAAATACGAGTAATTAGCGGCGTTTGTTCTT
1 AAAACGCCACTAAAGTACGAGTATTTAGCGACGTTTGTGCTT
**
2194696 AAAACGCTTCTAAAGTACGAGTATTT----A-GTTGTGTGCTT
1 AAAACGCCACTAAAGTACGAGTATTTAGCGACGTT-TGTGCTT
2194734 AAAACGCCACTAAAGTACGAGTATTTAGCGACGTTTGTGCTT
1 AAAACGCCACTAAAGTACGAGTATTTAGCGACGTTTGTGCTT
* * * *
2194776 AAAATGCCACTAAAGTACGAGTATTTAGCAACATTTATGCTT
1 AAAACGCCACTAAAGTACGAGTATTTAGCGACGTTTGTGCTT
* * ** *
2194818 AAAACGCCACTGAAGTACGAGTCTTTAGCGGTGTTTGT--AT
1 AAAACGCCACTAAAGTACGAGTATTTAGCGACGTTTGTGCTT
* * * * * * *
2194858 AAAATGCCACTAAAGTACTAGTATTTAGAGGCATTTAT--AT
1 AAAACGCCACTAAAGTACGAGTATTTAGCGACGTTTGTGCTT
* * * * *
2194898 AAAAGCGCCACTAAAATATGAGT-TATTGGCGATGTTTTTG--T
1 AAAA-CGCCACTAAAGTACGAGTAT-TTAGCGACGTTTGTGCTT
* * * * *
2194939 ACAAACGCCACTAAAGTA-TAGTATTTAGTGGCGCTTATGCTT
1 A-AAACGCCACTAAAGTACGAGTATTTAGCGACGTTTGTGCTT
* * * *
2194981 AAAATGCCACTAAAGTACGAGTATTTAG-GGCGTTTGTAC-A
1 AAAACGCCACTAAAGTACGAGTATTTAGCGACGTTTGTGCTT
* * * * * *
2195021 AAAATGCCACTAAAGTA-TAGTATTTAGCGGCGTTTAT-ATA
1 AAAACGCCACTAAAGTACGAGTATTTAGCGACGTTTGTGCTT
*
2195061 AAAACGCCACT-AAGTACGAGTTTTTA
1 AAAACGCCACTAAAGTACGAGTATTTA
2195087 CTGGCGATTA
Statistics
Matches: 346, Mismatches: 68, Indels: 38
0.77 0.15 0.08
Matches are distributed among these distances:
37 3 0.01
38 30 0.09
39 14 0.04
40 107 0.31
41 77 0.22
42 112 0.32
43 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (42 bp):
AAAACGCCACTAAAGTACGAGTATTTAGCGACGTTTGTGCTT
Found at i:2194819 original size:122 final size:122
Alignment explanation
Indices: 2194586--2194920 Score: 343
Period size: 122 Copynumber: 2.7 Consensus size: 122
2194576 TATAAAGGCC
* * *
2194586 AGTACGAGTATTTCACGGTGTTTGTATAAAAACACCACTAAAGTA-TAGTATTTAGCGGCGTTTA
1 AGTACGAGTATTT-ACGGTGTGTGTAT-AAAACGCCACTAAAGTACTAGTATTTAGCGACGTTTA
** * * * **
2194650 TATAAAAACGACACTAAAATACGAGTAATTAGCGGCGTTTGTTCTTAAAACGCTTCTAA
64 TATAAAAACGACACTAAAATACGAGTAATTAGCAACATTTATGCTTAAAACGCCACTAA
* * *
2194709 AGTACGAGTATTTA-GTTGTGTGCT-TAAAACGCCACTAAAGTACGAGTATTTAGCGACGTTTGT
1 AGTACGAGTATTTACGGTGTGTG-TATAAAACGCCACTAAAGTACTAGTATTTAGCGACGTTTAT
* * * * * * *
2194772 GCTTAAAATGCCACTAAAGTACGAGTATTTAGCAACATTTATGCTTAAAACGCCACTGA
65 -ATAAAAACGACACTAAAATACGAGTAATTAGCAACATTTATGCTTAAAACGCCACTAA
* * * * * *
2194831 AGTACGAGTCTTTAGCGGTGTTTGTATAAAATGCCACTAAAGTACTAGTATTTAGAGGCATTTAT
1 AGTACGAGTATTTA-CGGTGTGTGTATAAAACGCCACTAAAGTACTAGTATTTAGCGACGTTTAT
* * *
2194896 ATAAAAGCGCCACTAAAATATGAGT
65 ATAAAAACGACACTAAAATACGAGT
2194921 TATTGGCGAT
Statistics
Matches: 171, Mismatches: 35, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
120 16 0.09
121 24 0.14
122 59 0.35
123 33 0.19
124 39 0.23
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.31
Consensus pattern (122 bp):
AGTACGAGTATTTACGGTGTGTGTATAAAACGCCACTAAAGTACTAGTATTTAGCGACGTTTATA
TAAAAACGACACTAAAATACGAGTAATTAGCAACATTTATGCTTAAAACGCCACTAA
Found at i:2196798 original size:72 final size:72
Alignment explanation
Indices: 2196721--2196858 Score: 267
Period size: 72 Copynumber: 1.9 Consensus size: 72
2196711 TATGGATTTT
2196721 ATATATTTTTAAGTCTAATTTAGCCTATTAATTTTATATTGTATCGAATCGAGCATGTTTAAAGT
1 ATATATTTTTAAGTCTAATTTAGCCTATTAATTTTATATTGTATCGAATCGAGCATGTTTAAAGT
2196786 TTAACCA
66 TTAACCA
*
2196793 ATATATTTTTAAGTCTAATTTAGCCTATTAATTTTATATTGTATCTAATCGAGCATGTTTAAAGT
1 ATATATTTTTAAGTCTAATTTAGCCTATTAATTTTATATTGTATCGAATCGAGCATGTTTAAAGT
2196858 T
66 T
2196859 GGAACCAAGA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.46
Consensus pattern (72 bp):
ATATATTTTTAAGTCTAATTTAGCCTATTAATTTTATATTGTATCGAATCGAGCATGTTTAAAGT
TTAACCA
Done.