Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007825.1 Hibiscus syriacus cultivar Beakdansim tig00110163_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: 2082551
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 11
Found at i:983641 original size:10 final size:10
Alignment explanation
Indices: 983622--983651 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
983612 GCAAAGAAAG
983622 AAGAAAAAAA
1 AAGAAAAAAA
983632 AAGGAAAAAAA
1 AA-GAAAAAAA
983643 AAGAAAAAA
1 AAGAAAAAA
983652 GGAAAATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:986183 original size:114 final size:114
Alignment explanation
Indices: 985899--986239 Score: 574
Period size: 114 Copynumber: 3.0 Consensus size: 114
985889 AAGTGCCATG
985899 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
*
985964 TGGTTTGGTATGAACCCCAAAAACCAATCATTGGATTTTAAAGATGAATT
66 TGGTTTGGTATGAACCCC-AAAACCAATCATTGGATTTAAAAGATGAATT
986014 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
986079 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATT
66 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATT
* * *
986128 TGCTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGAAAGTGTTCTTTGAGTTATCTGATC
1 TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
* * * * * * *
986193 TGATTCGGTAGGAACCCCAGAACCGATCATTGGAATTGAAAGATGAA
66 TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAA
986240 CTGCATGATC
Statistics
Matches: 215, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
114 132 0.61
115 83 0.39
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (114 bp):
TGCTCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATC
TGGTTTGGTATGAACCCCAAAACCAATCATTGGATTTAAAAGATGAATT
Found at i:988379 original size:54 final size:54
Alignment explanation
Indices: 988297--988462 Score: 287
Period size: 54 Copynumber: 3.1 Consensus size: 54
988287 CAATGATTGA
988297 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
*
988351 GAACATCTGAGCAGAAACTACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
* * **
988405 GAACATCTGAGCAGAAGCCACAGGAAAGGATGAATGCGCCGTCAAATGTTTTAC
1 GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
988459 GAAC
1 GAAC
988463 CTGCTATTCT
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 106 1.00
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (54 bp):
GAACATCTGAGCAGAAACCACAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
Found at i:988846 original size:22 final size:22
Alignment explanation
Indices: 988820--988898 Score: 113
Period size: 22 Copynumber: 3.6 Consensus size: 22
988810 ACATCTACAT
988820 TCTTCAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
988842 TCTTCAAAGATGATAGATTCCC
1 TCTTCAAAGATGATAGATTCTC
* * *
988864 TTTTTAAAGATGACAGATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
988886 TTTTCAAAGATGA
1 TCTTCAAAGATGA
988899 AAGCTTTATC
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:989537 original size:24 final size:23
Alignment explanation
Indices: 989494--989538 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
989484 GTTCGTAATG
*
989494 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
989517 AGAAGAAATTCATAATG-AGAAG
1 AGAAG-AATTCAT-ATGAAGAAG
989539 AATTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:989575 original size:113 final size:113
Alignment explanation
Indices: 989375--990235 Score: 988
Period size: 113 Copynumber: 7.6 Consensus size: 113
989365 GAAGAAGAAG
* *
989375 AAGTTCATAATAAGAAGAACTCATCT---G-A--AAGAATAAATTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
* * * * *
989434 CAACTTTTTGTTCAAAACCATCACTTGATGGATCAAAC-TTTCCAGAGG
66 CAACCTTTTGCTCAAATCCATCATTTGATGGATC-AACTTTTCCAGAGA
* *
989482 AAGTTCGTAATGAGAAGAATTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
* *
989547 CAACCTTTTGCTCAAATCCATTATTTGATGGATCAGCTTTTCCAGAGA
66 CAACCTTTTGCTCAAATCCATCATTTGATGGATCAACTTTTCCAGAGA
*
989595 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
* * * * * *
989660 CAACCTTTTGGTTAAATTCATCATTTGATGGATTAACATTGT-CAGATA
66 CAACCTTTTGCTCAAATCCATCATTTGATGGATCAAC-TTTTCCAGAGA
* **
989708 GAGTTCATAATGAGAAGAACTCATCAT-CTGAA-GAAGAAGAAATTCATAATGAGAAGAATTTGT
1 AAGTTCATAATGAGAAGAACTCATC-TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGT
* *
989771 TCAACCTTTTGCTCAAATCCATTATTTGATGGATCAGCTTTTCCAGAGA
65 TCAACCTTTTGCTCAAATCCATCATTTGATGGATCAACTTTTCCAGAGA
*
989820 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
* * * * * *
989885 CAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAG-GTA
66 CAACCTTTTGCTCAAATCCATCATTTGATGGATCAACTTTTCCAGAG-A
* * ** *
989933 GAGTTCATAATGAGAAGAACTCGTCAT-CTGAA-GAAGAAGAAATTCATAATGAGAAGAATTTTT
1 AAGTTCATAATGAGAAGAACTCATC-TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGT
* *
989996 TCAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAG-
65 TCAACCTTTTGCTCAAATCCATCATTTGATGGATCAACTTTTCCAGAGA
* **
990044 AAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAG---TTCACAATGAGAAGAGCTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
* * * * *
990105 CAACCTTTTACAT-AATTTTATCACAGACGCAAATAGATTAGCATCAAC-TTTCCAGAGA
66 CAACCTTTTGC-TCAA----ATC-C--A-TC-ATTTGA-T-GGATCAACTTTTCCAGAGA
* * **
990163 AAGTTCATAATGAGAAGAAATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
990228 CAACCTTT
66 CAACCTTT
990236 GTTTGATTCT
Statistics
Matches: 645, Mismatches: 76, Indels: 50
0.84 0.10 0.06
Matches are distributed among these distances:
107 23 0.04
108 30 0.05
109 1 0.00
110 2 0.00
111 38 0.06
112 167 0.26
113 290 0.45
114 5 0.01
115 1 0.00
116 1 0.00
117 4 0.01
118 10 0.02
119 37 0.06
120 7 0.01
123 29 0.04
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.29
Consensus pattern (113 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
CAACCTTTTGCTCAAATCCATCATTTGATGGATCAACTTTTCCAGAGA
Found at i:989786 original size:225 final size:223
Alignment explanation
Indices: 989375--990113 Score: 1106
Period size: 225 Copynumber: 3.3 Consensus size: 223
989365 GAAGAAGAAG
* *
989375 AAGTTCATAATAAGAAGAACTCATCTGA-AAGAA-TA-AA-TTCATAATGAGAAGAATTTGTTCA
1 AAGTTCATAATGAGAAGAACTCATCTGAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
* ** * * * *
989436 A-CTTTTTGTTCAAAACCATCACTTGATGGATCAA-ACTT-TCCAGA-GGAAGTTCGTAATGAGA
66 ACCTTTTGGTT-AAATTCATCATTTGATGGATTAACA-TTGT-CAGATAG-AGTTCATAATGAGA
* **
989497 AGAATTCATC-TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCA
127 AGAACTCATCAT-CTGAA-GAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCA
989561 AATCCATTATTTGATGGATCAGCTTTTCCAGAGA
190 AATCCATTATTTGATGGATCAGCTTTTCCAGAGA
989595 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTG-AGAA-GAAGAAGAAGTTCATAATGAGAAGAATTTGTT
989660 CAACCTTTTGGTTAAATTCATCATTTGATGGATTAACATTGTCAGATAGAGTTCATAATGAGAAG
64 CAACCTTTTGGTTAAATTCATCATTTGATGGATTAACATTGTCAGATAGAGTTCATAATGAGAAG
989725 AACTCATCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATC
129 AACTCATCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATC
989790 CATTATTTGATGGATCAGCTTTTCCAGAGA
194 CATTATTTGATGGATCAGCTTTTCCAGAGA
989820 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTG-AGAA-GAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* * *
989885 CAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAG
64 CAACCTTTTGGTTAAATTCATCATTTGATGGATTAACATTGTCAGATAGAGTTCATAATGAGAAG
* *
989950 AACTCGTCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTTTTCAACCTTTTGCTCAAATC
129 AACTCATCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATC
* *
990015 CATCACTTGATGGATCAGCTTTTCCAGAG-
194 CATTATTTGATGGATCAGCTTTTCCAGAGA
* **
990044 AAGTTCATAATGAGAAGAACTCATCT--GAAGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCA
1 AAGTTCATAATGAGAAGAACTCATCTGAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
990107 ACCTTTT
66 ACCTTTT
990114 ACATAATTTT
Statistics
Matches: 486, Mismatches: 22, Indels: 22
0.92 0.04 0.04
Matches are distributed among these distances:
220 64 0.13
221 4 0.01
222 2 0.00
223 3 0.01
224 27 0.06
225 299 0.62
226 75 0.15
227 12 0.02
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (223 bp):
AAGTTCATAATGAGAAGAACTCATCTGAGAAGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
ACCTTTTGGTTAAATTCATCATTTGATGGATTAACATTGTCAGATAGAGTTCATAATGAGAAGAA
CTCATCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCA
TTATTTGATGGATCAGCTTTTCCAGAGA
Found at i:990228 original size:123 final size:123
Alignment explanation
Indices: 990035--990323 Score: 369
Period size: 123 Copynumber: 2.4 Consensus size: 123
990025 TGGATCAGCT
990035 TTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCT---GAA-GAAGAAGAAGTTCACAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCACAATGAGA
* *
990095 AGAGCTTGTTCAACCTTT-TACATAATTTTATCACAG-ACGCAAATAGATTAGCATCAAC-
66 AGAGCTTGTTCAACCTTTGT--ATAATTCTATCACAGAACG-AAATAGATCAGCATCAACA
* *
990153 TTTCCAGAGAAAGTTCATAATGAGAAGAAATCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCACAATGAGA
* * * * * *
990218 AGAGCTTGTTCAACCTTTGTTTGATTCTATCACAGAATGAGATAGATCAGTATCAGCA
66 AGAGCTTGTTCAACCTTTGTATAATTCTATCACAGAACGAAATAGATCAGCATCAACA
* * * *
990276 TTTCCATAAAAAGTTCATAATAAGAAGAACTCATTTGAAGAAGGAAGA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
990324 GAATTTGTTC
Statistics
Matches: 148, Mismatches: 15, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
118 9 0.06
119 25 0.17
122 29 0.20
123 84 0.57
124 1 0.01
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (123 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCACAATGAGA
AGAGCTTGTTCAACCTTTGTATAATTCTATCACAGAACGAAATAGATCAGCATCAACA
Found at i:995713 original size:10 final size:10
Alignment explanation
Indices: 995698--995722 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
995688 CTTAAATAGA
995698 GAGAGTATTT
1 GAGAGTATTT
995708 GAGAGTATTT
1 GAGAGTATTT
995718 GAGAG
1 GAGAG
995723 AATATGATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (10 bp):
GAGAGTATTT
Found at i:997165 original size:25 final size:25
Alignment explanation
Indices: 997134--997185 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
997124 TTGTTGGAGG
997134 CCTATGCAAATTCTTATAAAGGGGC
1 CCTATGCAAATTCTTATAAAGGGGC
997159 CCTATGCAAATTCTTATAAAGGGGC
1 CCTATGCAAATTCTTATAAAGGGGC
997184 CC
1 CC
997186 ATAGATCTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (25 bp):
CCTATGCAAATTCTTATAAAGGGGC
Found at i:997883 original size:2 final size:2
Alignment explanation
Indices: 997876--997946 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
997866 TTTGATTCGT
997876 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
997918 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
997947 GCGACTGTGA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1007476 original size:41 final size:40
Alignment explanation
Indices: 1007439--1007589 Score: 169
Period size: 41 Copynumber: 3.7 Consensus size: 40
1007429 AAAAATGCCA
* * * *
1007439 CTAAAGACTCGTACTATCGTGGCGTTTATATACAAATGTCG
1 CTAAAGACTCATACT-TCGTGGCGTTTTTATACAAACGCCG
*
1007480 CTAAAGACTCATACTTTCATGGCGTTTTTATACAAACGCCG
1 CTAAAGACTCATAC-TTCGTGGCGTTTTTATACAAACGCCG
* *
1007521 CTAAAGACTCATACCTTCGTGGCATTTTTATACAAACACCG
1 CTAAAGACTCATA-CTTCGTGGCGTTTTTATACAAACGCCG
* *
1007562 CTATAGACT-AGTACTGTAGTGGCGTTTT
1 CTAAAGACTCA-TACT-TCGTGGCGTTTT
1007590 GTAAAGACTC
Statistics
Matches: 95, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
40 3 0.03
41 90 0.95
42 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.32
Consensus pattern (40 bp):
CTAAAGACTCATACTTCGTGGCGTTTTTATACAAACGCCG
Found at i:1007690 original size:106 final size:106
Alignment explanation
Indices: 1007499--1007695 Score: 279
Period size: 106 Copynumber: 1.9 Consensus size: 106
1007489 CATACTTTCA
* *
1007499 TGGCGTTTTTATACAAACGCCGCTAAAGACTCATACCTTCGTGGCATTTTTATACAAACACCGCT
1 TGGCGTTTATATACAAACGCCGCTAAAGACTCATACCTTCATGGCATTTTTATACAAACACCGCT
* *
1007564 ATAGACTAGTACTGTAGTGGCGTTTTGTAAAGACTCTATCG
66 AAAGACTAGTACTGTAGTGGCATTTTGTAAAGACTCTATCG
* * * * *
1007605 TGGCGTTTATATACAAATGTCGCTAAAGACTCATACTTTCATGGCGTTTTTATACAAACGCCGCT
1 TGGCGTTTATATACAAACGCCGCTAAAGACTCATACCTTCATGGCATTTTTATACAAACACCGCT
* *
1007670 AAAGACTCA-TACTTTCGTGGCATTTT
66 AAAGACT-AGTACTGTAGTGGCATTTT
1007696 TATACAAACA
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
106 78 0.99
107 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (106 bp):
TGGCGTTTATATACAAACGCCGCTAAAGACTCATACCTTCATGGCATTTTTATACAAACACCGCT
AAAGACTAGTACTGTAGTGGCATTTTGTAAAGACTCTATCG
Found at i:1007719 original size:147 final size:147
Alignment explanation
Indices: 1007452--1007737 Score: 563
Period size: 147 Copynumber: 1.9 Consensus size: 147
1007442 AAGACTCGTA
1007452 CTATCGTGGCGTTTATATACAAATGTCGCTAAAGACTCATACTTTCATGGCGTTTTTATACAAAC
1 CTATCGTGGCGTTTATATACAAATGTCGCTAAAGACTCATACTTTCATGGCGTTTTTATACAAAC
1007517 GCCGCTAAAGACTCATACCTTCGTGGCATTTTTATACAAACACCGCTATAGACTAGTACTGTAGT
66 GCCGCTAAAGACTCATACCTTCGTGGCATTTTTATACAAACACCGCTATAGACTAGTACTGTAGT
1007582 GGCGTTTTGTAAAGACT
131 GGCGTTTTGTAAAGACT
1007599 CTATCGTGGCGTTTATATACAAATGTCGCTAAAGACTCATACTTTCATGGCGTTTTTATACAAAC
1 CTATCGTGGCGTTTATATACAAATGTCGCTAAAGACTCATACTTTCATGGCGTTTTTATACAAAC
*
1007664 GCCGCTAAAGACTCATACTTTCGTGGCATTTTTATACAAACACCGCTATAGACTAGTACTGTAGT
66 GCCGCTAAAGACTCATACCTTCGTGGCATTTTTATACAAACACCGCTATAGACTAGTACTGTAGT
1007729 GGCGTTTTG
131 GGCGTTTTG
1007738 ATACAAACGC
Statistics
Matches: 138, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
147 138 1.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (147 bp):
CTATCGTGGCGTTTATATACAAATGTCGCTAAAGACTCATACTTTCATGGCGTTTTTATACAAAC
GCCGCTAAAGACTCATACCTTCGTGGCATTTTTATACAAACACCGCTATAGACTAGTACTGTAGT
GGCGTTTTGTAAAGACT
Found at i:1007841 original size:120 final size:120
Alignment explanation
Indices: 1007604--1007896 Score: 349
Period size: 120 Copynumber: 2.4 Consensus size: 120
1007594 AGACTCTATC
* *
1007604 GTGGCGTTTATATACAAATGTCGCTAAAGACTCATACTTTCA-TGGCGTTTTTATACAAACGCCG
1 GTGGCGTTT-TATACAAACGCCGCTAAAGACTCATACTTT-AGTGGCG--TTTATACAAACGCCG
* * * *
1007668 CTAAAGACTCATACTTTCGTGGCATTTTTATACAAACACCGCTATAGACTAGTACTGTA
62 CTAAAGACTCATACTTTCGTAGCACTTTTATACAAACACCGCTAGAAACTAGTACTGTA
* * *
1007727 GTGGCGTTTTGATACAAACGCCGCTAAAGATTCTTACTTTAGCGGCGTTTA-ACAAACGCCGCTA
1 GTGGCGTTTT-ATACAAACGCCGCTAAAGACTCATACTTTAGTGGCGTTTATACAAACGCCGCTA
* * * * * * *
1007791 TAA-ACTCGTACTTTGGTAGCGCTTTTATACAAACGCCGCTAGAAAGTAGTACTTTG
65 -AAGACTCATACTTTCGTAGCACTTTTATACAAACACCGCTAGAAACTAGTACTGTA
*
1007847 GTGGCATTTTTATACAAACGCCGCTAAAGACTCATACTTTAGTGGCGTTT
1 GTGGC-GTTTTATACAAACGCCGCTAAAGACTCATACTTTAGTGGCGTTT
1007897 TTATATAAAC
Statistics
Matches: 146, Mismatches: 20, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
120 96 0.66
121 10 0.07
122 2 0.01
123 38 0.26
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (120 bp):
GTGGCGTTTTATACAAACGCCGCTAAAGACTCATACTTTAGTGGCGTTTATACAAACGCCGCTAA
AGACTCATACTTTCGTAGCACTTTTATACAAACACCGCTAGAAACTAGTACTGTA
Found at i:1007926 original size:41 final size:41
Alignment explanation
Indices: 1007604--1007929 Score: 333
Period size: 41 Copynumber: 8.0 Consensus size: 41
1007594 AGACTCTATC
* * * *
1007604 GTGGCGTTTATATACAAATGTCGCTAAAGACTCATACTTTCA
1 GTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTT-A
* *
1007646 -TGGCGTTTTTATACAAACGCCGCTAAAGACTCATACTTTC
1 GTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTA
* * * * *
1007686 GTGGCATTTTTATACAAACACCGCTATAGACTAGTACTGTA
1 GTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTA
* * *
1007727 GTGGCGTTTTGATACAAACGCCGCTAAAGATTCTTACTTTA
1 GTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTA
* *
1007768 GCGGCG--TTTA-ACAAACGCCGCTATAA-ACTCGTACTTTG
1 GTGGCGTTTTTATACAAACGCCGCTA-AAGACTCGTACTTTA
* * * * *
1007806 GTAGCGCTTTTATACAAACGCCGCTAGAA-AGTAGTACTTTG
1 GTGGCGTTTTTATACAAACGCCGCTA-AAGACTCGTACTTTA
* *
1007847 GTGGCATTTTTATACAAACGCCGCTAAAGACTCATACTTTA
1 GTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTA
* * *
1007888 GTGGCGTTTTTATATAAACGTCC-CTAAAGATTTGTACTTTA
1 GTGGCGTTTTTATACAAACG-CCGCTAAAGACTCGTACTTTA
1007929 G
1 G
1007930 GAGCGTTCGT
Statistics
Matches: 236, Mismatches: 41, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
38 26 0.11
39 5 0.02
40 6 0.03
41 197 0.83
42 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (41 bp):
GTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTA
Found at i:1008537 original size:22 final size:21
Alignment explanation
Indices: 1008512--1008573 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
1008502 TAGCTTTCAC
1008512 TTTTTTCTGGGATTTATTTAA
1 TTTTTTCTGGGATTTATTTAA
* *
1008533 TTTTTAT-TCGGGGTTGT-TTTTA
1 TTTTT-TCT-GGGATT-TATTTAA
1008555 TTTTTTCTGGGATTTATTT
1 TTTTTTCTGGGATTTATTT
1008574 TGTTTTTCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.45
22 16 0.48
23 1 0.03
ACGTcount: A:0.13, C:0.05, G:0.18, T:0.65
Consensus pattern (21 bp):
TTTTTTCTGGGATTTATTTAA
Found at i:1008561 original size:43 final size:43
Alignment explanation
Indices: 1008512--1008594 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
1008502 TAGCTTTCAC
1008512 TTTTTTCTGGGATTTATTTAATTTTTATTCGGGGTTGTTTTTA
1 TTTTTTCTGGGATTTATTTAATTTTTATTCGGGGTTGTTTTTA
** *
1008555 TTTTTTCTGGGATTTATTTTGTTTTTCTTCGGGGTTGTTT
1 TTTTTTCTGGGATTTATTTAATTTTTATTCGGGGTTGTTT
1008595 AACCAGGACT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.10, C:0.06, G:0.20, T:0.64
Consensus pattern (43 bp):
TTTTTTCTGGGATTTATTTAATTTTTATTCGGGGTTGTTTTTA
Found at i:1008574 original size:22 final size:22
Alignment explanation
Indices: 1008512--1008574 Score: 62
Period size: 21 Copynumber: 2.9 Consensus size: 22
1008502 TAGCTTTCAC
1008512 TTTTTTCTGGGATTTA-TTTAA
1 TTTTTTCTGGGATTTATTTTAA
*
1008533 TTTTTAT-TCGGGGTTGT-TTTT-A
1 TTTTT-TCT-GGGATT-TATTTTAA
1008555 TTTTTTCTGGGATTTATTTT
1 TTTTTTCTGGGATTTATTTT
1008575 GTTTTTCTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
20 1 0.03
21 16 0.47
22 13 0.38
23 4 0.12
ACGTcount: A:0.13, C:0.05, G:0.17, T:0.65
Consensus pattern (22 bp):
TTTTTTCTGGGATTTATTTTAA
Found at i:1010593 original size:21 final size:21
Alignment explanation
Indices: 1010556--1010596 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1010546 ATTATTATAT
*
1010556 ATTTCAAGTTTCTTGTTATGA
1 ATTTCAAGTTTCATGTTATGA
*
1010577 ATTTCAAGTTTGATGTTATG
1 ATTTCAAGTTTCATGTTATG
1010597 GATGTAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.07, G:0.17, T:0.51
Consensus pattern (21 bp):
ATTTCAAGTTTCATGTTATGA
Found at i:1010776 original size:43 final size:43
Alignment explanation
Indices: 1010691--1011122 Score: 450
Period size: 43 Copynumber: 10.1 Consensus size: 43
1010681 ATTTTAATTC
* * * *
1010691 GCGGCGTTTGTAT-AAAAAACGCTGATATATATCTGAACTTTT
1 GCGGCGTTTGTATCAAAAAACGCCGCTATAGATCTGACCTTTT
* * *
1010733 GCGGCGTTTGTATCAAAAAATGCCGCTATAGATATGACATTTT
1 GCGGCGTTTGTATCAAAAAACGCCGCTATAGATCTGACCTTTT
* * *
1010776 GCGGCGTTTGTATCTAAAAACGCCGCTATAAATATGACCTTTT
1 GCGGCGTTTGTATCAAAAAACGCCGCTATAGATCTGACCTTTT
* * *
1010819 GTGGCGTTTGTATC-CAAAACGCCGCTATAGATCTGACATTTT
1 GCGGCGTTTGTATCAAAAAACGCCGCTATAGATCTGACCTTTT
* * * * *
1010861 GCGGCATTTGTATCCAAAAACACCACTATATATCTGACCTTTT
1 GCGGCGTTTGTATCAAAAAACGCCGCTATAGATCTGACCTTTT
*
1010904 GCGGCGTTTGTATCAAAAAACGCAG-TGATAGATCTGACCTTTT
1 GCGGCGTTTGTATCAAAAAACGCCGCT-ATAGATCTGACCTTTT
* * * * * *
1010947 GCGGCATTTAT-TC-TAAAACGTCGCTATAGATCTCAACATTTT
1 GCGGCGTTTGTATCAAAAAACGCCGCTATAGATCT-GACCTTTT
* * *
1010989 GCGGCGTTTGT-TCAGAAAACGCCGCAATAGAAATC-GACCTTTC
1 GCGGCGTTTGTATCAAAAAACGCCGCTATAG--ATCTGACCTTTT
* * *
1011032 GTGGCGTTTGT-TCAAAAAATGCCGCTATAGATATCGACCTTTT
1 GCGGCGTTTGTATCAAAAAACGCCGCTATAGATCT-GACCTTTT
* *
1011075 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATCTTGACCTATT
1 GCGGCGTTTGTATCAAAAAACGCCGCTATAGATC-TGACCTTTT
1011118 GCGGC
1 GCGGC
1011123 ATTTTTTGTT
Statistics
Matches: 324, Mismatches: 55, Indels: 21
0.81 0.14 0.05
Matches are distributed among these distances:
41 17 0.05
42 70 0.22
43 233 0.72
44 1 0.00
45 3 0.01
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (43 bp):
GCGGCGTTTGTATCAAAAAACGCCGCTATAGATCTGACCTTTT
Found at i:1010923 original size:128 final size:127
Alignment explanation
Indices: 1010691--1011126 Score: 434
Period size: 128 Copynumber: 3.4 Consensus size: 127
1010681 ATTTTAATTC
** * * * * * **
1010691 GCGGCGTTTGTATAAAAAACGCTGATATATATCTGA-ACTTTTGCGGCGTTTGTATCAAAAAATG
1 GCGGCGTTTGT-TCCAAAACGCCGCTATAGATCTGACA-TTTTGCGGCATTTGTATCCAAAAACA
* * * * * *
1010755 CCGCTATAGATATGACATTTTGCGGCGTTTGTATCTAAAAACGCCGCTATAAATATGACCTTTT
64 CCACTATAAATCTGACCTTTTGCGGCGTTTGTATCAAAAAACGCCGCTATAGATATGACCTTTT
*
1010819 GTGGCGTTTGTATCCAAAACGCCGCTATAGATCTGACATTTTGCGGCATTTGTATCCAAAAACAC
1 GCGGCGTTTGT-TCCAAAACGCCGCTATAGATCTGACATTTTGCGGCATTTGTATCCAAAAACAC
* * *
1010884 CACTATATATCTGACCTTTTGCGGCGTTTGTATCAAAAAACGCAG-TGATAGATCTGACCTTTT
65 CACTATAAATCTGACCTTTTGCGGCGTTTGTATCAAAAAACGCCGCT-ATAGATATGACCTTTT
* * * * * *
1010947 GCGGCATTTATTCTAAAACGTCGCTATAGATCTCAACATTTTGCGGCGTTTGT-T-CAGAAAACG
1 GCGGCGTTTGTTCCAAAACGCCGCTATAGATCT-GACATTTTGCGGCATTTGTATCCA-AAAAC-
* * * * * *
1011010 CCGCAATAGAAATC-GACCTTTCGTGGCGTTTGT-TCAAAAAATGCCGCTATAGATATCGACCTT
63 AC-CACTATAAATCTGACCTTTTGCGGCGTTTGTATCAAAAAACGCCGCTATAGATAT-GACCTT
1011073 TT
126 TT
* *
1011075 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATCTTGACCTATTGCGGCATTT
1 GCGGCGTTTGTTCC-AAAACGCCGCTATAGATC-TGACATTTTGCGGCATTT
1011127 TTTGTTCTCA
Statistics
Matches: 256, Mismatches: 42, Indels: 19
0.81 0.13 0.06
Matches are distributed among these distances:
126 2 0.01
127 45 0.18
128 169 0.66
129 39 0.15
130 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (127 bp):
GCGGCGTTTGTTCCAAAACGCCGCTATAGATCTGACATTTTGCGGCATTTGTATCCAAAAACACC
ACTATAAATCTGACCTTTTGCGGCGTTTGTATCAAAAAACGCCGCTATAGATATGACCTTTT
Found at i:1015300 original size:20 final size:19
Alignment explanation
Indices: 1015273--1015333 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
1015263 TATTTTGGTG
1015273 CAGAGGGAATCGATACCCC
1 CAGAGGGAATCGATACCCC
* *
1015292 CATGAGGGAACCGATTCCCCC
1 CA-GAGGGAATCGA-TACCCC
*
1015313 CACAGGGGAATCGATACCCC
1 CAGA-GGGAATCGATACCCC
1015333 C
1 C
1015334 TGGGGTTCTG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
19 2 0.06
20 17 0.50
21 15 0.44
ACGTcount: A:0.28, C:0.36, G:0.25, T:0.11
Consensus pattern (19 bp):
CAGAGGGAATCGATACCCC
Found at i:1018832 original size:27 final size:26
Alignment explanation
Indices: 1018792--1018853 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 26
1018782 TAGGTTGTAG
1018792 TATTAATATTGTTCTTATAGTATCGA
1 TATTAATATTGTTCTTATAGTATCGA
* *
1018818 TATTAGTATATGTTCTTGTAGTATCGA
1 TATTAATAT-TGTTCTTATAGTATCGA
*
1018845 TATCAATAT
1 TATTAATAT
1018854 CCATATTGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 8 0.26
27 23 0.74
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.48
Consensus pattern (26 bp):
TATTAATATTGTTCTTATAGTATCGA
Found at i:1019695 original size:3 final size:3
Alignment explanation
Indices: 1019684--1019727 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
1019674 AAAATATAAA
*
1019684 TAT TA- TAT TAT TAT TAT TAT TAT T-T TA- TAT TAT AAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1019728 AGGTCCCATG
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
2 8 0.23
3 27 0.77
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:1019711 original size:22 final size:21
Alignment explanation
Indices: 1019686--1019727 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
1019676 AATATAAATA
*
1019686 TTATATTATTATTATTATTATT
1 TTATATTATAATTATT-TTATT
1019708 TTATATTATAATTATTTTAT
1 TTATATTATAATTATTTTAT
1019728 AGGTCCCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTATATTATAATTATTTTATT
Found at i:1019716 original size:16 final size:16
Alignment explanation
Indices: 1019684--1019728 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
1019674 AAAATATAAA
*
1019684 TATTATATTATTATTAT
1 TATTATTTTA-TATTAT
1019701 TATTATTTTATATTAT
1 TATTATTTTATATTAT
*
1019717 AATTATTTTATA
1 TATTATTTTATA
1019729 GGTCCCATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
16 17 0.65
17 9 0.35
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TATTATTTTATATTAT
Found at i:1020931 original size:12 final size:12
Alignment explanation
Indices: 1020910--1020950 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
1020900 CTATTAATTA
1020910 TTTTTG-TTTTC
1 TTTTTGATTTTC
1020921 TTTTTGATTTT-
1 TTTTTGATTTTC
*
1020932 TTTATTTATTTTC
1 TTT-TTGATTTTC
1020945 TTTTTG
1 TTTTTG
1020951 CTATATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
11 9 0.36
12 13 0.52
13 3 0.12
ACGTcount: A:0.07, C:0.05, G:0.07, T:0.80
Consensus pattern (12 bp):
TTTTTGATTTTC
Found at i:1027224 original size:21 final size:21
Alignment explanation
Indices: 1027200--1027260 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
1027190 TTCAAAGAAA
1027200 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
1027221 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
*
1027235 CAATTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
1027256 CATTT
1 CATTT
1027261 TCAAAGTTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 14
0.62 0.09 0.30
Matches are distributed among these distances:
14 4 0.14
15 7 0.24
16 1 0.03
19 1 0.03
20 7 0.24
21 9 0.31
ACGTcount: A:0.44, C:0.21, G:0.05, T:0.30
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:1027227 original size:35 final size:35
Alignment explanation
Indices: 1027162--1027266 Score: 176
Period size: 35 Copynumber: 3.0 Consensus size: 35
1027152 AACATCTACC
*
1027162 AAAC-TTTACCAAACTTTGAAAAACATTTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCA-TTTTCAAAG
1027197 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
*
1027232 AAACAATTACCAAACTTTGAAAACCATTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
1027267 TTGGTTGCCA
Statistics
Matches: 67, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
35 47 0.70
36 20 0.30
ACGTcount: A:0.47, C:0.19, G:0.06, T:0.29
Consensus pattern (35 bp):
AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
Found at i:1027230 original size:20 final size:20
Alignment explanation
Indices: 1027207--1027265 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 20
1027197 AAACATTTAC
1027207 CAAACTTTGAAAACCATTTT
1 CAAACTTTGAAAACCATTTT
* **
1027227 CAAA----G-AAACAATTAC
1 CAAACTTTGAAAACCATTTT
1027242 CAAACTTTGAAAACCATTTT
1 CAAACTTTGAAAACCATTTT
1027262 CAAA
1 CAAA
1027266 GTTGGTTGCC
Statistics
Matches: 28, Mismatches: 6, Indels: 10
0.64 0.14 0.23
Matches are distributed among these distances:
15 11 0.39
16 1 0.04
19 1 0.04
20 15 0.54
ACGTcount: A:0.47, C:0.20, G:0.05, T:0.27
Consensus pattern (20 bp):
CAAACTTTGAAAACCATTTT
Found at i:1031844 original size:34 final size:35
Alignment explanation
Indices: 1031774--1031878 Score: 160
Period size: 34 Copynumber: 3.0 Consensus size: 35
1031764 AACATCTATC
*
1031774 AAAC-TTTACCAAACTTTGAAAAAACATTTTTCAAAG
1 AAACATTTACCAAACTTTG-AAAACCA-TTTTCAAAG
1031810 AAACATTTACCAAACTTTG-AAACCATTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
*
1031844 AAACATTTACCAAACTTTGAAAACTATTTTCAAAG
1 AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
1031879 TTGGTTGCCA
Statistics
Matches: 65, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
34 28 0.43
35 19 0.29
36 4 0.06
37 14 0.22
ACGTcount: A:0.46, C:0.18, G:0.06, T:0.30
Consensus pattern (35 bp):
AAACATTTACCAAACTTTGAAAACCATTTTCAAAG
Found at i:1033701 original size:57 final size:57
Alignment explanation
Indices: 1033633--1033746 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
1033623 AAAGAGTGGA
1033633 AAAGAGGAGAAATCACCAGATGAATATTGGATTAGAAAAGTAGGAGATTTTTTGTAC
1 AAAGAGGAGAAATCACCAGATGAATATTGGATTAGAAAAGTAGGAGATTTTTTGTAC
*
1033690 AAAGAGGAGAAATTACCAGATGAATATTGGATTAGAAAAGTAGGAGATTTTTTGTAC
1 AAAGAGGAGAAATCACCAGATGAATATTGGATTAGAAAAGTAGGAGATTTTTTGTAC
1033747 GGTTCGTGTC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.42, C:0.06, G:0.25, T:0.27
Consensus pattern (57 bp):
AAAGAGGAGAAATCACCAGATGAATATTGGATTAGAAAAGTAGGAGATTTTTTGTAC
Found at i:1034585 original size:250 final size:242
Alignment explanation
Indices: 1034282--1034750 Score: 728
Period size: 250 Copynumber: 1.9 Consensus size: 242
1034272 CTCCATCCGA
1034282 GACCCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCAAATATATGAATTAG-A-A-ACCC
1 GACCCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCAAATATATGAATTAGAATAGACCC
*
1034344 GACCCGAAATAATAAAAAAAATTATTTTTATTCAATAAAAACAATGACTTAATTGAAAAAAAAAT
66 GACCCGAAATAAT--AAAAAA-TATTTTTATTC-A-AAAAACAACGACTTAATTG--AAAAAAAT
*
1034409 ATATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTTTTTGGG
124 ATATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATA-TATTT---
*
1034474 TTGGGTCGGGTATTTTTCACCCTAAACCCGAACCCGAATATCACACTTAAAAAAAACC
185 TCGGGTCGGGTATTTTTCACCCTAAACCCGAACCCGAATATCACACTTAAAAAAAACC
* * **
1034532 GACCCGACCCGACCAAAATAAAGTTTCAGCCGATCCGACCTGAATATATGAATTAGAAATATGAC
1 GACCCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCAAATATATGAATTAG-AATA-GAC
*
1034597 CCGACCCGAAATAATAAAAAATATTTTTATTCAAAAAACAACGACTTAATTGAAAAAATTATATA
64 CCGACCCGAAATAATAAAAAATATTTTTATTCAAAAAACAACGACTTAATTGAAAAAAATATATA
1034662 TAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCGG
129 TAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCGG
1034727 GTATTTTTCACCCTAAACCCGAAC
194 GTATTTTTCACCCTAAACCCGAAC
1034751 TCAGCCCGAC
Statistics
Matches: 206, Mismatches: 8, Indels: 16
0.90 0.03 0.07
Matches are distributed among these distances:
244 32 0.16
247 4 0.02
248 63 0.31
250 70 0.34
251 1 0.00
252 12 0.06
253 7 0.03
255 17 0.08
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.28
Consensus pattern (242 bp):
GACCCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCAAATATATGAATTAGAATAGACCC
GACCCGAAATAATAAAAAATATTTTTATTCAAAAAACAACGACTTAATTGAAAAAAATATATATA
GAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGGT
ATTTTTCACCCTAAACCCGAACCCGAATATCACACTTAAAAAAAACC
Found at i:1035516 original size:14 final size:14
Alignment explanation
Indices: 1035497--1035527 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
1035487 ACCCTTTTTG
1035497 TAATTATTAAAGGA
1 TAATTATTAAAGGA
1035511 TAATTATTAAAGGA
1 TAATTATTAAAGGA
1035525 TAA
1 TAA
1035528 ACTTTTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.35
Consensus pattern (14 bp):
TAATTATTAAAGGA
Found at i:1052409 original size:24 final size:24
Alignment explanation
Indices: 1052382--1052428 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
1052372 AATATACAAT
1052382 TATATTGCATAATAAATAATATAG
1 TATATTGCATAATAAATAATATAG
* *
1052406 TATATTGCATTATATATAATATA
1 TATATTGCATAATAAATAATATA
1052429 TTGATTCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (24 bp):
TATATTGCATAATAAATAATATAG
Found at i:1055730 original size:12 final size:12
Alignment explanation
Indices: 1055708--1055753 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
1055698 AAAAGATTTC
*
1055708 AAAGAAGATTAA
1 AAAGAAAATTAA
*
1055720 AAATAAAATTAA
1 AAAGAAAATTAA
* *
1055732 AAAGAAAGTTTA
1 AAAGAAAATTAA
1055744 AAAGAAAATT
1 AAAGAAAATT
1055754 CAATACGGTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (12 bp):
AAAGAAAATTAA
Found at i:1056300 original size:25 final size:26
Alignment explanation
Indices: 1056272--1056325 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
1056262 TCCACCTTCC
*
1056272 AAAA-GGTGCTGACTAGATCTTCTAG
1 AAAATGGTGCTGACTAGACCTTCTAG
* * *
1056297 AAAATGTTGTTGACTGGACCTTCTAG
1 AAAATGGTGCTGACTAGACCTTCTAG
1056323 AAA
1 AAA
1056326 CTACCACGTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (26 bp):
AAAATGGTGCTGACTAGACCTTCTAG
Found at i:1057650 original size:46 final size:46
Alignment explanation
Indices: 1057538--1057635 Score: 155
Period size: 46 Copynumber: 2.1 Consensus size: 46
1057528 GGGTGCGTCA
1057538 ATGCATAAAATGCATTCGATGTTTCAAACAAGCCTGGAGTGCATCG
1 ATGCATAAAATGCATTCGATGTTTCAAACAAGCCTGGAGTGCATCG
*
1057584 ATGCATAAAATGCATTCGATGTTTCCATAA-AATCCT-GAGTGCATCG
1 ATGCATAAAATGCATTCGATGTTT-CA-AACAAGCCTGGAGTGCATCG
1057630 ATGCAT
1 ATGCAT
1057636 GGCAGTGCAT
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
46 40 0.82
47 7 0.14
48 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (46 bp):
ATGCATAAAATGCATTCGATGTTTCAAACAAGCCTGGAGTGCATCG
Found at i:1058858 original size:36 final size:36
Alignment explanation
Indices: 1058798--1058903 Score: 159
Period size: 36 Copynumber: 3.1 Consensus size: 36
1058788 ATATATTCGA
*
1058798 GTCGGGTGAAATTTTATTTTGGTCGGGTCGGGTC--
1 GTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGG
*
1058832 GT---GTGAAACTTTATTTTGGTCGGGTCGGGTCAG
1 GTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGG
1058865 GTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGG
1 GTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGG
1058901 GTC
1 GTC
1058904 TCGGATGGAA
Statistics
Matches: 65, Mismatches: 2, Indels: 8
0.87 0.03 0.11
Matches are distributed among these distances:
31 28 0.43
33 2 0.03
34 2 0.03
36 33 0.51
ACGTcount: A:0.12, C:0.13, G:0.39, T:0.36
Consensus pattern (36 bp):
GTCGGGTGAAACTTTATTTTGGTCGGGTCGGGTCGG
Found at i:1058900 original size:31 final size:31
Alignment explanation
Indices: 1058798--1058902 Score: 147
Period size: 31 Copynumber: 3.2 Consensus size: 31
1058788 ATATATTCGA
*
1058798 GTCGGGTGAAATTTTATTTTGGTCGGGTCGG
1 GTCGGGTGAAACTTTATTTTGGTCGGGTCGG
*
1058829 GTCGTGTGAAACTTTATTTTGGTCGGGTCGGGTCAG
1 GTCGGGTGAAACTTTATTTTGGTCGGGTC--G---G
1058865 GTCGGGTGAAACTTTATTTTGGTCGGGTCGG
1 GTCGGGTGAAACTTTATTTTGGTCGGGTCGG
1058896 GTCGGGT
1 GTCGGGT
1058903 CTCGGATGGA
Statistics
Matches: 66, Mismatches: 3, Indels: 10
0.84 0.04 0.13
Matches are distributed among these distances:
31 35 0.53
33 1 0.02
34 1 0.02
36 29 0.44
ACGTcount: A:0.12, C:0.12, G:0.39, T:0.36
Consensus pattern (31 bp):
GTCGGGTGAAACTTTATTTTGGTCGGGTCGG
Found at i:1059285 original size:17 final size:18
Alignment explanation
Indices: 1059263--1059309 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
1059253 TATGGAATTG
*
1059263 GATTCCAATTCC-TGAAA
1 GATTCCAATTCCTTCAAA
*
1059280 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCAAA
1059298 GATTCCAATTCC
1 GATTCCAATTCC
1059310 CTCAGAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (18 bp):
GATTCCAATTCCTTCAAA
Found at i:1060137 original size:32 final size:32
Alignment explanation
Indices: 1060094--1060202 Score: 137
Period size: 34 Copynumber: 3.3 Consensus size: 32
1060084 TTTTTTCTCT
*
1060094 CTGTTCGAACCAAAATTGTATTGCTTTTTTTA
1 CTGTTCGAACCAAAATTGTACTGCTTTTTTTA
* *
1060126 CTGTTCAAACCAAAATTGTACTGATGTTTTTTCA
1 CTGTTCGAACCAAAATTGTACTGCT-TTTTTT-A
* *
1060160 CTGTTTGAACCAAAATTATACTGCTATTTTTTTA
1 CTGTTCGAACCAAAATTGTACTGC--TTTTTTTA
1060194 CTGTTCGAA
1 CTGTTCGAA
1060203 TAGTGCACTA
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
32 22 0.34
33 6 0.09
34 30 0.46
35 6 0.09
36 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.44
Consensus pattern (32 bp):
CTGTTCGAACCAAAATTGTACTGCTTTTTTTA
Found at i:1060535 original size:134 final size:139
Alignment explanation
Indices: 1060244--1060536 Score: 337
Period size: 134 Copynumber: 2.1 Consensus size: 139
1060234 ATGTGCTATA
* * * *
1060244 TTTTTCTGCACTATTCAGTTCGAACTTTTCTGCACAGTTCGAACCAAATATGTTTTTTTTCTGCA
1 TTTTTTTGCACTGTTCAGTTCGAACTTTTCTGCACAGTTCAAACCAAATATGATTTTTTTCTGCA
* * *
1060309 CTGTTTCTTTTTTCTCCACTGCACTGCACTGTTCAAATATGCTGTGTATTTTTTCTGTACTATTC
66 CTG--T-TTTTTTCTCCACTGCACTACACTGTTCAAATATACTGTGTATTTTTTCTGCACTATTC
*
1060374 GATCAAAATCAG
128 GAACAAAATCAG
* * * *
1060386 TTTTTTTGCAATGTTCTGTTCGAACTTTTCTGCACAGTTCAAACCAAATCT-ATTTTTTTCTGTA
1 TTTTTTTGCACTGTTCAGTTCGAACTTTTCTGCACAGTTCAAACCAAATATGATTTTTTTCTGCA
* * * * *
1060450 CTG-TTTTTT-T-C-CTGCACTATACTGTTCGAATCTACTGTGTATTTTTT-TGCATTGTTCGAA
66 CTGTTTTTTTCTCCACTGCACTACACTGTTCAAATATACTGTGTATTTTTTCTGCACTATTCGAA
*
1060510 CCAAATCAG
131 CAAAATCAG
*
1060519 TTTTTTTTTCACTGTTCA
1 -TTTTTTTGCACTGTTCA
1060537 AACAGTGTAT
Statistics
Matches: 129, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
133 17 0.13
134 45 0.35
135 1 0.01
136 1 0.01
137 6 0.05
141 14 0.11
142 45 0.35
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.47
Consensus pattern (139 bp):
TTTTTTTGCACTGTTCAGTTCGAACTTTTCTGCACAGTTCAAACCAAATATGATTTTTTTCTGCA
CTGTTTTTTTCTCCACTGCACTACACTGTTCAAATATACTGTGTATTTTTTCTGCACTATTCGAA
CAAAATCAG
Found at i:1061189 original size:12 final size:12
Alignment explanation
Indices: 1061153--1061219 Score: 59
Period size: 12 Copynumber: 5.8 Consensus size: 12
1061143 AAAATAGAAG
1061153 AAAGAAAATTAA
1 AAAGAAAATTAA
**
1061165 AAAG---ATTTC
1 AAAGAAAATTAA
*
1061174 AAAGAAGATTAA
1 AAAGAAAATTAA
1061186 AAAGAAAATTAA
1 AAAGAAAATTAA
* **
1061198 AAAGAAAGTTTG
1 AAAGAAAATTAA
1061210 AAAGAAAATT
1 AAAGAAAATT
1061220 CAATACGGTA
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
9 7 0.16
12 36 0.84
ACGTcount: A:0.64, C:0.01, G:0.13, T:0.21
Consensus pattern (12 bp):
AAAGAAAATTAA
Found at i:1061758 original size:16 final size:16
Alignment explanation
Indices: 1061737--1061767 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1061727 CATATTGAAA
*
1061737 GAAAATTAAAGAAAAC
1 GAAAATAAAAGAAAAC
1061753 GAAAATAAAAGAAAA
1 GAAAATAAAAGAAAA
1061768 AATATTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.03, G:0.13, T:0.10
Consensus pattern (16 bp):
GAAAATAAAAGAAAAC
Found at i:1061887 original size:24 final size:23
Alignment explanation
Indices: 1061851--1061903 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
1061841 TTCTAAAAAC
*
1061851 CCTAAAAACAATAAAAAGATAATT
1 CCTAAAAACAATAAAAA-ATAAAT
1061875 CCTAAAATA-AATAAAAAATAAAT
1 CCTAAAA-ACAATAAAAAATAAAT
1061898 CCTAAA
1 CCTAAA
1061904 GGTAATTCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 11 0.41
24 15 0.56
25 1 0.04
ACGTcount: A:0.64, C:0.13, G:0.02, T:0.21
Consensus pattern (23 bp):
CCTAAAAACAATAAAAAATAAAT
Found at i:1061890 original size:23 final size:24
Alignment explanation
Indices: 1061851--1061903 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
1061841 TTCTAAAAAC
* *
1061851 CCTAAAAACAATAAAAAGATAATT
1 CCTAAAAACAATAAAAAAATAAAT
1061875 CCTAAAATA-AAT-AAAAAATAAAT
1 CCTAAAA-ACAATAAAAAAATAAAT
1061898 CCTAAA
1 CCTAAA
1061904 GGTAATTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 15 0.58
24 10 0.38
25 1 0.04
ACGTcount: A:0.64, C:0.13, G:0.02, T:0.21
Consensus pattern (24 bp):
CCTAAAAACAATAAAAAAATAAAT
Found at i:1062946 original size:16 final size:16
Alignment explanation
Indices: 1062925--1062965 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
1062915 TTAATTCATA
1062925 ATGATCTTTCACCATT
1 ATGATCTTTCACCATT
1062941 ATGATCTTTCACCATT
1 ATGATCTTTCACCATT
1062957 ATGATCTTT
1 ATGATCTTT
1062966 TCACATGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.24, C:0.22, G:0.07, T:0.46
Consensus pattern (16 bp):
ATGATCTTTCACCATT
Found at i:1063752 original size:21 final size:21
Alignment explanation
Indices: 1063713--1063753 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1063703 AACTTAACCC
* *
1063713 AAAAATCAATCGAATAAGCTT
1 AAAAATCAAACGAAAAAGCTT
*
1063734 AAAAATCAAACTAAAAAGCT
1 AAAAATCAAACGAAAAAGCT
1063754 CTCCCTTACC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.59, C:0.15, G:0.07, T:0.20
Consensus pattern (21 bp):
AAAAATCAAACGAAAAAGCTT
Found at i:1066165 original size:2 final size:2
Alignment explanation
Indices: 1066158--1066182 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1066148 AATATTGAGC
1066158 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1066183 CCCCTTATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1066476 original size:60 final size:60
Alignment explanation
Indices: 1066370--1066482 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 60
1066360 AATTAGCCTC
* * * *** *
1066370 TAAACTTTTAAATATTTTAATTTCATCCTTAAATTATGTCTATCATTTTAAATCAGTCTT
1 TAAACTTTTAAATAGTTCAATTTCATCCTTAAACTAAACCTATCATTCTAAATCAGTCTT
1066430 TAAACTTTTAAATAGTTCAATTTCATCCTTAAACTACAACCT-TCATTCTAAAT
1 TAAACTTTTAAATAGTTCAATTTCATCCTTAAACTA-AACCTATCATTCTAAAT
1066483 TAATACCAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
60 43 0.96
61 2 0.04
ACGTcount: A:0.35, C:0.17, G:0.03, T:0.45
Consensus pattern (60 bp):
TAAACTTTTAAATAGTTCAATTTCATCCTTAAACTAAACCTATCATTCTAAATCAGTCTT
Found at i:1067974 original size:51 final size:50
Alignment explanation
Indices: 1067894--1068113 Score: 325
Period size: 51 Copynumber: 4.3 Consensus size: 50
1067884 AAAATCGGTA
* * *
1067894 TAAGTATGTGTTAAGTCCTACACTTTTTTATTTTATTTAATTACACCGTTG
1 TAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTCACTTACACCG-TG
* * *
1067945 TAATTATGTTTTAAGTGCTACACTTTTTTATTTTATTCATTTACACCAGTG
1 TAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTCACTTACACC-GTG
*
1067996 T-AGTATGTGTTAAGTGCTACACTTTTTTATTTTATTCACTTACACAGGTG
1 TAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTCACTTACAC-CGTG
*
1068046 TAAGTATGTGTTAAGTGCTACACTTGTTTATTTTATTCACTTACACCGATG
1 TAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTCACTTACACCG-TG
1068097 TAAGTATGTGTTAAGTG
1 TAAGTATGTGTTAAGTG
1068114 TCATATTCTT
Statistics
Matches: 154, Mismatches: 11, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
50 46 0.30
51 107 0.69
52 1 0.01
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.47
Consensus pattern (50 bp):
TAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTCACTTACACCGTG
Found at i:1068022 original size:101 final size:102
Alignment explanation
Indices: 1067894--1068113 Score: 336
Period size: 101 Copynumber: 2.2 Consensus size: 102
1067884 AAAATCGGTA
* * * * * *
1067894 TAAGTATGTGTTAAGTCCTACACTTTTTTATTTTATTTAATTACACCGTTGTAATTATGTTTTAA
1 TAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTCAATTACACAGGTGTAAGTATGTGTTAA
* *
1067959 GTGCTACACTTTTTTATTTTATTCATTTACACC-AGTG
66 GTGCTACACTTGTTTATTTTATTCACTTACACCGA-TG
*
1067996 T-AGTATGTGTTAAGTGCTACACTTTTTTATTTTATTCACTTACACAGGTGTAAGTATGTGTTAA
1 TAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTCAATTACACAGGTGTAAGTATGTGTTAA
1068060 GTGCTACACTTGTTTATTTTATTCACTTACACCGATG
66 GTGCTACACTTGTTTATTTTATTCACTTACACCGATG
1068097 TAAGTATGTGTTAAGTG
1 TAAGTATGTGTTAAGTG
1068114 TCATATTCTT
Statistics
Matches: 107, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
101 90 0.84
102 17 0.16
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.47
Consensus pattern (102 bp):
TAAGTATGTGTTAAGTGCTACACTTTTTTATTTTATTCAATTACACAGGTGTAAGTATGTGTTAA
GTGCTACACTTGTTTATTTTATTCACTTACACCGATG
Found at i:1087067 original size:19 final size:19
Alignment explanation
Indices: 1087043--1087082 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
1087033 TCATTTTGGG
1087043 CTTTTCGAGAAACTTCTTC
1 CTTTTCGAGAAACTTCTTC
1087062 CTTTTCGAGAAACTTCTTC
1 CTTTTCGAGAAACTTCTTC
1087081 CT
1 CT
1087083 CCATGAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.28, G:0.10, T:0.42
Consensus pattern (19 bp):
CTTTTCGAGAAACTTCTTC
Found at i:1088754 original size:12 final size:12
Alignment explanation
Indices: 1088737--1088761 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1088727 GAGACAATTC
1088737 AATTTCTAAGAA
1 AATTTCTAAGAA
1088749 AATTTCTAAGAA
1 AATTTCTAAGAA
1088761 A
1 A
1088762 CTCGCTTTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (12 bp):
AATTTCTAAGAA
Found at i:1095567 original size:24 final size:24
Alignment explanation
Indices: 1095535--1095581 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
1095525 CACTGGTTAT
*
1095535 TATATATGATGTTTATCATGAATA
1 TATATATGATATTTATCATGAATA
1095559 TATATATGATATTTATCATGAAT
1 TATATATGATATTTATCATGAAT
1095582 GTTATTGCGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.38, C:0.04, G:0.11, T:0.47
Consensus pattern (24 bp):
TATATATGATATTTATCATGAATA
Found at i:1105748 original size:31 final size:31
Alignment explanation
Indices: 1105710--1105778 Score: 102
Period size: 31 Copynumber: 2.2 Consensus size: 31
1105700 CTTTTAAAAC
* *
1105710 TTGCAATACAGTCCCCTAATATTTAGTCTGT
1 TTGCAATACAGTCCCCCAACATTTAGTCTGT
**
1105741 TTGCAATATGGTCCCCCAACATTTAGTCTGT
1 TTGCAATACAGTCCCCCAACATTTAGTCTGT
1105772 TTGCAAT
1 TTGCAAT
1105779 GGTCCCTGAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (31 bp):
TTGCAATACAGTCCCCCAACATTTAGTCTGT
Found at i:1107724 original size:31 final size:31
Alignment explanation
Indices: 1107687--1107754 Score: 111
Period size: 31 Copynumber: 2.2 Consensus size: 31
1107677 TCAAACGGTT
*
1107687 GGGGACCATATTGCAAAC-AGACTAAATGTTG
1 GGGGACCATATTACAAACGA-ACTAAATGTTG
1107718 GGGGACCATATTACAAACGAACTAAATGTTG
1 GGGGACCATATTACAAACGAACTAAATGTTG
1107749 GGGGAC
1 GGGGAC
1107755 TGTGTTGCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
31 34 0.97
32 1 0.03
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (31 bp):
GGGGACCATATTACAAACGAACTAAATGTTG
Found at i:1117128 original size:6 final size:6
Alignment explanation
Indices: 1117119--1117144 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
1117109 TAATCAAATT
1117119 TTTAAA TTTAAA TTTAAA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TT
1117145 CTTAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:1118306 original size:117 final size:117
Alignment explanation
Indices: 1118100--1118347 Score: 424
Period size: 117 Copynumber: 2.1 Consensus size: 117
1118090 TTGCTTTTGG
* *
1118100 TTTCTACATCACTTGAATCGTCAGAGCTACAAGAACCAGAAGTTTGCCTTTTGAGCTCCCTTGGC
1 TTTCTCCAACACTTGAATCGTCAGAGCTACAAGAACCAGAAGTTTGCCTTTTGAGCTCCCTTGGC
** *
1118165 TGGGGAGTCCCAATTGGATCCCTCTGTCTCACGGCTAGAACAATTTCGTAGT
66 TGGGGAGTCCCAATTCCATCCCTCTGTCTCACGGCTAGAACAATTTCGTAGC
* * *
1118217 TTTCTCCAACACTTGAATCGTCAGAGCTACTAGAACTAGAAGTTTGCCTTTTGAGTTCCCTTGGC
1 TTTCTCCAACACTTGAATCGTCAGAGCTACAAGAACCAGAAGTTTGCCTTTTGAGCTCCCTTGGC
1118282 TGGGGAGTCCCAATTCCATCCCTCTGTCTCACGGCTAGAACAATTTCGTAGC
66 TGGGGAGTCCCAATTCCATCCCTCTGTCTCACGGCTAGAACAATTTCGTAGC
1118334 TTTCTCCAACACTT
1 TTTCTCCAACACTT
1118348 TCCTGGATCA
Statistics
Matches: 123, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
117 123 1.00
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (117 bp):
TTTCTCCAACACTTGAATCGTCAGAGCTACAAGAACCAGAAGTTTGCCTTTTGAGCTCCCTTGGC
TGGGGAGTCCCAATTCCATCCCTCTGTCTCACGGCTAGAACAATTTCGTAGC
Found at i:1120290 original size:22 final size:22
Alignment explanation
Indices: 1120265--1120329 Score: 61
Period size: 22 Copynumber: 3.2 Consensus size: 22
1120255 AGTGGTGATT
1120265 TTAATACAATCATGATGGATAA
1 TTAATACAATCATGATGGATAA
* *
1120287 TTAAGT--AA--ATGGT-GAT-T
1 TTAA-TACAATCATGATGGATAA
1120304 TTAATACAATCATGATGGATAA
1 TTAATACAATCATGATGGATAA
1120326 TTAA
1 TTAA
1120330 GTAACAAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 14
0.64 0.08 0.28
Matches are distributed among these distances:
16 1 0.03
17 4 0.12
18 5 0.16
19 4 0.12
20 4 0.12
21 5 0.16
22 8 0.25
23 1 0.03
ACGTcount: A:0.43, C:0.06, G:0.15, T:0.35
Consensus pattern (22 bp):
TTAATACAATCATGATGGATAA
Found at i:1120311 original size:39 final size:39
Alignment explanation
Indices: 1120257--1120333 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
1120247 CTTATCAAAG
1120257 TGGTGATTTTAATACAATCATGATGGATAATTAAGTAAA
1 TGGTGATTTTAATACAATCATGATGGATAATTAAGTAAA
1120296 TGGTGATTTTAATACAATCATGATGGATAATTAAGTAA
1 TGGTGATTTTAATACAATCATGATGGATAATTAAGTAA
1120334 CAAACAAGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.36
Consensus pattern (39 bp):
TGGTGATTTTAATACAATCATGATGGATAATTAAGTAAA
Found at i:1121746 original size:20 final size:20
Alignment explanation
Indices: 1121721--1121787 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
1121711 TTGAAAATCA
1121721 CGTTGCGTTTTTCCATTTCG
1 CGTTGCGTTTTTCCATTTCG
** ** **
1121741 CGTTGCGATAGTTGGAGATCG
1 CGTTGCG-TTTTTCCATTTCG
*
1121762 CGTTGCGATTTTCCATTTCG
1 CGTTGCGTTTTTCCATTTCG
1121782 CGTTGC
1 CGTTGC
1121788 ATTTCGCGTT
Statistics
Matches: 33, Mismatches: 13, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
20 19 0.58
21 14 0.42
ACGTcount: A:0.10, C:0.22, G:0.27, T:0.40
Consensus pattern (20 bp):
CGTTGCGTTTTTCCATTTCG
Found at i:1121747 original size:41 final size:41
Alignment explanation
Indices: 1121693--1121787 Score: 145
Period size: 41 Copynumber: 2.3 Consensus size: 41
1121683 ATTCACGTTG
* *
1121693 CATTTCGCATTGCGATAGTTGAAAATCACGTTGCGTTTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTC
* * *
1121734 CATTTCGCGTTGCGATAGTTGGAGATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTC
1121775 CATTTCGCGTTGC
1 CATTTCGCGTTGC
1121788 ATTTCGCGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCACGTTGCGATTTTC
Found at i:1121792 original size:12 final size:12
Alignment explanation
Indices: 1121775--1121799 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1121765 TGCGATTTTC
1121775 CATTTCGCGTTG
1 CATTTCGCGTTG
1121787 CATTTCGCGTTG
1 CATTTCGCGTTG
1121799 C
1 C
1121800 GATAGTTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.28, G:0.24, T:0.40
Consensus pattern (12 bp):
CATTTCGCGTTG
Found at i:1121821 original size:6 final size:6
Alignment explanation
Indices: 1121810--1121854 Score: 90
Period size: 6 Copynumber: 7.5 Consensus size: 6
1121800 GATAGTTGAA
1121810 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1121855 GACCCGAGAC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:1122366 original size:6 final size:6
Alignment explanation
Indices: 1122346--1122377 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
1122336 GTCCGTCTCG
1122346 GGTCG- GGTC-T GGTCGT GGTCGT GGTCGT GGTC
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTC
1122378 ATACGTGTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
5 8 0.32
6 17 0.68
ACGTcount: A:0.00, C:0.19, G:0.50, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:1122539 original size:41 final size:41
Alignment explanation
Indices: 1122469--1122611 Score: 227
Period size: 41 Copynumber: 3.5 Consensus size: 41
1122459 ACAACGAATT
*
1122469 TGGAAAATCGCAACGAC-AACTGTAGACTATCGCAACGTGAAA
1 TGGAAAATCGCAACG-CGAA-TGTAGACTATCGCAACGCGAAA
*
1122511 TGGAAAATCGCAACGCGAATTTCA-ACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGAATGT-AGACTATCGCAACGCGAAA
1122552 TGGAAAATCGCAACGCGAATGTAGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGAATGTAGACTATCGCAACGCGAAA
1122593 TGGAAAATCGCAACGCGAA
1 TGGAAAATCGCAACGCGAA
1122612 ATGGAAAATC
Statistics
Matches: 95, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
40 1 0.01
41 76 0.80
42 18 0.19
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.15
Consensus pattern (41 bp):
TGGAAAATCGCAACGCGAATGTAGACTATCGCAACGCGAAA
Found at i:1122603 original size:61 final size:61
Alignment explanation
Indices: 1122538--1122778 Score: 236
Period size: 61 Copynumber: 3.9 Consensus size: 61
1122528 AATTTCAACT
1122538 ATCGCAACGCGAAATGGAAAATCGCAACGCGAATGT-AGACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGAATGTCA-ACTATCGCAACGCGAAATGGAAA
* * *
1122599 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGTGAAATGGAAA
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGAATGTCAACTATCGCAACGCGAAATGGAAA
* ** ** * * * * ** ** *
1122660 ATCGCAACTCGATTTTCAACTATCGCAATGCGAAATG-GAA-AATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-AATCGCAACGCG-AATGTCAACTATCGCAACGCGAAATGGAA-A
* * * *
1122722 ATCGCAACGTGAAATGGAAAATCGCAACTCGATTTTCAACTATCGCAACGCGAAATG
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGAATGTCAACTATCGCAACGCGAAATG
1122779 CAACGCGAAT
Statistics
Matches: 138, Mismatches: 36, Indels: 11
0.75 0.19 0.06
Matches are distributed among these distances:
60 2 0.01
61 95 0.69
62 39 0.28
63 2 0.01
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (61 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGCGAATGTCAACTATCGCAACGCGAAATGGAAA
Found at i:1122636 original size:102 final size:102
Alignment explanation
Indices: 1122497--1122712 Score: 353
Period size: 102 Copynumber: 2.1 Consensus size: 102
1122487 ACTGTAGACT
*
1122497 ATCGCAACGTGAAATGGAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGGAAAATCG
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGGAAAATCG
1122562 CAACGCGAATGT-AGACTATCGCAACGCGAAATGGAAA
66 CAACGCGAATGTCA-ACTATCGCAACGCGAAATGGAAA
* *
1122599 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGTGAAATGGAAAATCG
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGGAAAATCG
* * * *
1122664 CAACTCGATTTTCAACTATCGCAATGCGAAATGGAAA
66 CAACGCGAATGTCAACTATCGCAACGCGAAATGGAAA
1122701 ATCGCAACGCGA
1 ATCGCAACGCGA
1122713 TTTTCAACTA
Statistics
Matches: 106, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
102 105 0.99
103 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.18
Consensus pattern (102 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGCGAATTTCAACTATCGCAACGCGAAATGGAAAATCG
CAACGCGAATGTCAACTATCGCAACGCGAAATGGAAA
Found at i:1122644 original size:41 final size:41
Alignment explanation
Indices: 1122599--1122778 Score: 315
Period size: 41 Copynumber: 4.4 Consensus size: 41
1122589 GAAATGGAAA
1122599 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
* *
1122640 ATCGCAACGTGAAATGGAAAATCGCAACTCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
*
1122681 ATCGCAATGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
* *
1122722 ATCGCAACGTGAAATGGAAAATCGCAACTCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1122763 ATCGCAACGCGAAATG
1 ATCGCAACGCGAAATG
1122779 CAACGCGAAT
Statistics
Matches: 130, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 130 1.00
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.22
Consensus pattern (41 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
Found at i:1122644 original size:82 final size:82
Alignment explanation
Indices: 1122475--1122730 Score: 259
Period size: 82 Copynumber: 3.1 Consensus size: 82
1122465 AATTTGGAAA
* * ** *
1122475 ATCGCAACGAC-AACTGTAGACTATCGCAACGTGAAATGGAAAATCGCAACGCGAATTTCAACTA
1 ATCGCAACG-CGAA-TGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGAAATGGAA-AA
** ** *
1122539 TCGCAACGCGAAATGGAA-A
63 TCGCAACGCGATTTTCAACT
1122558 ATCGCAACGCGAATGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGAAATGGAAAATCG
1 ATCGCAACGCGAATGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGAAATGGAAAATCG
1122623 CAACGCGATTTTCAACT
66 CAACGCGATTTTCAACT
* ** * ** ** * *
1122640 ATCGCAACGTGAAATG--GAAAATCGCAACTCGATTTTCAACTATCGCAATGCGAAATGGAAAAT
1 ATCGCAACGCG-AATGTAGACTATCGCAACGCGAAATGGAA-AATCGCAACGCGAAATGGAAAAT
1122703 CGCAACGCGATTTTCAACT
64 CGCAACGCGATTTTCAACT
1122722 ATCGCAACG
1 ATCGCAACG
1122731 TGAAATGGAA
Statistics
Matches: 149, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
81 31 0.21
82 103 0.69
83 15 0.10
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (82 bp):
ATCGCAACGCGAATGTAGACTATCGCAACGCGAAATGGAAAATCGCAACGCGAAATGGAAAATCG
CAACGCGATTTTCAACT
Found at i:1122795 original size:82 final size:82
Alignment explanation
Indices: 1122599--1122778 Score: 351
Period size: 82 Copynumber: 2.2 Consensus size: 82
1122589 GAAATGGAAA
1122599 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGTGAAATGGAAAATCG
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGTGAAATGGAAAATCG
1122664 CAACTCGATTTTCAACT
66 CAACTCGATTTTCAACT
*
1122681 ATCGCAATGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGTGAAATGGAAAATCG
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGTGAAATGGAAAATCG
1122746 CAACTCGATTTTCAACT
66 CAACTCGATTTTCAACT
1122763 ATCGCAACGCGAAATG
1 ATCGCAACGCGAAATG
1122779 CAACGCGAAT
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 96 1.00
ACGTcount: A:0.37, C:0.23, G:0.19, T:0.22
Consensus pattern (82 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGTGAAATGGAAAATCG
CAACTCGATTTTCAACT
Found at i:1124308 original size:31 final size:31
Alignment explanation
Indices: 1124270--1124339 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
1124260 CTTTTAAAAC
*
1124270 TTGCAATACAAT-CCTCCAACATTTAGTCTGT
1 TTGCAATACAATCCCT-CAACATTTAGTATGT
***
1124301 TTGCAATATGGTCCCTCAACATTTAGTATGT
1 TTGCAATACAATCCCTCAACATTTAGTATGT
1124332 TTGCAATA
1 TTGCAATA
1124340 TGGTCCCCGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 31 0.91
32 3 0.09
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.37
Consensus pattern (31 bp):
TTGCAATACAATCCCTCAACATTTAGTATGT
Found at i:1124340 original size:31 final size:31
Alignment explanation
Indices: 1124286--1124346 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
1124276 TACAATCCTC
*
1124286 CAACATTTAGTCTGTTTGCAATATGGTCCCT
1 CAACATTTAGTATGTTTGCAATATGGTCCCT
1124317 CAACATTTAGTATGTTTGCAATATGGTCCC
1 CAACATTTAGTATGTTTGCAATATGGTCCC
1124347 CGATGTAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (31 bp):
CAACATTTAGTATGTTTGCAATATGGTCCCT
Found at i:1125792 original size:31 final size:31
Alignment explanation
Indices: 1125757--1125840 Score: 132
Period size: 31 Copynumber: 2.7 Consensus size: 31
1125747 ATCCCCCAAG
*
1125757 ATTTAGTCCGTTTGCAATATGGGCACTCAAC
1 ATTTAGTCCGTTTGCAATATGGCCACTCAAC
* * *
1125788 ATTTAGTCCGTTTGGAATATGTCCTCTCAAC
1 ATTTAGTCCGTTTGCAATATGGCCACTCAAC
1125819 ATTTAGTCCGTTTGCAATATGG
1 ATTTAGTCCGTTTGCAATATGG
1125841 TCCCCGACGT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (31 bp):
ATTTAGTCCGTTTGCAATATGGCCACTCAAC
Found at i:1126158 original size:14 final size:14
Alignment explanation
Indices: 1126139--1126176 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
1126129 CGTTCAGTAA
*
1126139 TATATTTGTTCATT
1 TATATTCGTTCATT
*
1126153 TATATTCGTTCGTT
1 TATATTCGTTCATT
1126167 TATATTCGTT
1 TATATTCGTT
1126177 TACTTTCGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.18, C:0.11, G:0.11, T:0.61
Consensus pattern (14 bp):
TATATTCGTTCATT
Found at i:1126891 original size:32 final size:32
Alignment explanation
Indices: 1126850--1126910 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
1126840 ACGCGAAATG
* * *
1126850 AAATCGCAACGCGATTCTTGAAATCGCAATAA
1 AAATCGCAACGCGATCCGTAAAATCGCAATAA
1126882 AAATCGCAACGCGATCCGTAAAATCGCAA
1 AAATCGCAACGCGATCCGTAAAATCGCAA
1126911 CGAACACATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.41, C:0.25, G:0.16, T:0.18
Consensus pattern (32 bp):
AAATCGCAACGCGATCCGTAAAATCGCAATAA
Found at i:1126906 original size:20 final size:19
Alignment explanation
Indices: 1126882--1127162 Score: 225
Period size: 20 Copynumber: 14.5 Consensus size: 19
1126872 ATCGCAATAA
1126882 AAATCGCAACGCGATCCGT
1 AAATCGCAACGCGATCCGT
* *
1126901 AAAATCGCAA--CGAACACAT
1 -AAATCGCAACGCGATC-CGT
*
1126920 -AATCGCAACGCG-T--AT
1 AAATCGCAACGCGATCCGT
1126935 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCG-ATCCGT
1126955 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCG-ATCCGT
*
1126975 AAATCGCAACG-TATCCGT
1 AAATCGCAACGCGATCCGT
* *
1126993 ATATCGCAACGCATATCCGT
1 AAATCGCAACGC-GATCCGT
*
1127013 AAATCGCAACGAGAATCCGT
1 AAATCGCAACGCG-ATCCGT
**
1127033 AAATCGCAACGATAATCCGT
1 AAATCGCAACG-CGATCCGT
**
1127053 AAATCGCAACGATAATCCGT
1 AAATCGCAACG-CGATCCGT
* *
1127073 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCG-ATCCGT
**
1127093 AAATCGCAACGATAATCCGT
1 AAATCGCAACG-CGATCCGT
**
1127113 AAATCGCAACGATAATCCGT
1 AAATCGCAACG-CGATCCGT
* *
1127133 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCG-ATCCGT
*
1127153 AAATCACAAC
1 AAATCGCAAC
1127163 ACTTAAATTT
Statistics
Matches: 225, Mismatches: 21, Indels: 30
0.82 0.08 0.11
Matches are distributed among these distances:
15 2 0.01
16 12 0.05
17 8 0.04
18 21 0.09
19 4 0.02
20 178 0.79
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.19
Consensus pattern (19 bp):
AAATCGCAACGCGATCCGT
Found at i:1127042 original size:40 final size:39
Alignment explanation
Indices: 1126934--1127162 Score: 300
Period size: 40 Copynumber: 5.8 Consensus size: 39
1126924 GCAACGCGTA
* * *
1126934 TAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACG-ATATCCG
* *
1126974 TAAATCGCAAC--GTATCCGTATATCGCAACGCATATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACG-ATATCCG
1127012 TAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGAT-ATCCG
* * *
1127052 TAAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGA-TATCCG
*
1127092 TAAATCGCAACGATAATCCGTAAATCGCAACGATAATCCG
1 TAAATCGCAACGAGAATCCGTAAATCGCAACGAT-ATCCG
* *
1127132 TAAATCGCAACGAGAATCTGTAAATCACAAC
1 TAAATCGCAACGAGAATCCGTAAATCGCAAC
1127163 ACTTAAATTT
Statistics
Matches: 172, Mismatches: 12, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
38 36 0.21
39 2 0.01
40 134 0.78
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.20
Consensus pattern (39 bp):
TAAATCGCAACGAGAATCCGTAAATCGCAACGATATCCG
Found at i:1127080 original size:60 final size:60
Alignment explanation
Indices: 1126934--1127162 Score: 349
Period size: 60 Copynumber: 3.9 Consensus size: 60
1126924 GCAACGCGTA
* * *
1126934 TAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACG-T-ATCCG
1 TAAATCGCAACGCATATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
*
1126992 TATATCGCAACGCATATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
1 TAAATCGCAACGCATATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
*
1127052 TAAATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCG
1 TAAATCGCAACGCAT-ATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
* *
1127112 TAAATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCTGTAAATCACAAC
1 TAAATCGCAACGCAT-ATCCGTAAATCGCAACGAGAATCCGTAAATCGCAAC
1127163 ACTTAAATTT
Statistics
Matches: 161, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
58 48 0.30
59 3 0.02
60 110 0.68
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.20
Consensus pattern (60 bp):
TAAATCGCAACGCATATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCG
Found at i:1127882 original size:24 final size:24
Alignment explanation
Indices: 1127843--1127889 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1127833 AAATTTGGTC
1127843 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
1127867 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
1127890 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:1130366 original size:33 final size:34
Alignment explanation
Indices: 1130315--1130479 Score: 183
Period size: 33 Copynumber: 4.7 Consensus size: 34
1130305 CGGAAATTAC
* *
1130315 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
*
1130348 AATCCCAAC-ATGAAAATCGCAATGCGGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGC-GAAATGAA
1130382 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C--AATGAAAATCGCAATGCGAAATGAA
* *
1130420 AATCGCAACGA-GAGAATCGCAATGCGAAATGAA
1 AATCGCAACAATGAAAATCGCAATGCGAAATGAA
1130453 AATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAA--C--AATGAAAATCGCAA
1130480 CGAGAGAATC
Statistics
Matches: 113, Mismatches: 7, Indels: 19
0.81 0.05 0.14
Matches are distributed among these distances:
32 1 0.01
33 50 0.44
34 16 0.14
35 1 0.01
36 2 0.02
37 1 0.01
38 26 0.23
39 16 0.14
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAACAATGAAAATCGCAATGCGAAATGAA
Found at i:1130398 original size:19 final size:19
Alignment explanation
Indices: 1130329--1130517 Score: 219
Period size: 19 Copynumber: 10.7 Consensus size: 19
1130319 GCAACGAGAG
1130329 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1130348 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
1130362 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
1130382 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1130401 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1130420 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1130434 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1130453 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1130472 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
*
1130486 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
1130505 AATCGCATTGCGA
1 AATCGCAATGCGA
1130518 TTCTCCCGTT
Statistics
Matches: 146, Mismatches: 8, Indels: 32
0.78 0.04 0.17
Matches are distributed among these distances:
14 32 0.22
15 2 0.01
16 5 0.03
17 5 0.03
18 2 0.01
19 84 0.58
20 16 0.11
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1130456 original size:52 final size:52
Alignment explanation
Indices: 1130315--1130517 Score: 281
Period size: 52 Copynumber: 3.9 Consensus size: 52
1130305 CGGAAATTAC
*
1130315 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
1130362 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1130420 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* *
1130472 AATCGCAACGAGAGAATCGCAATGCGAAATTAAAATCGCATTGCGA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGA
1130518 TTCTCCCGTT
Statistics
Matches: 140, Mismatches: 5, Indels: 17
0.86 0.03 0.10
Matches are distributed among these distances:
47 8 0.06
49 1 0.01
50 1 0.01
52 85 0.61
53 29 0.21
55 2 0.01
56 1 0.01
58 13 0.09
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:1130566 original size:19 final size:19
Alignment explanation
Indices: 1130526--1130675 Score: 194
Period size: 19 Copynumber: 8.4 Consensus size: 19
1130516 GATTCTCCCG
1130526 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
1130546 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1130565 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1130579 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1130598 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
1130617 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
1130631 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1130650 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
1130669 TTGCGAT
1 TTGCGAT
1130676 AGTCAATTTT
Statistics
Matches: 114, Mismatches: 6, Indels: 21
0.81 0.04 0.15
Matches are distributed among these distances:
14 12 0.11
16 14 0.12
17 13 0.11
19 60 0.53
20 15 0.13
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:1130620 original size:52 final size:52
Alignment explanation
Indices: 1130507--1130675 Score: 311
Period size: 52 Copynumber: 3.2 Consensus size: 52
1130497 GAAATTAAAA
*
1130507 TCGCATTGCGATTCTCCCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
*
1130560 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTAATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1130612 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1130664 TCGCATTGCGAT
1 TCGCATTGCGAT
1130676 AGTCAATTTT
Statistics
Matches: 113, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
52 80 0.71
53 33 0.29
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.44
Consensus pattern (52 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
Found at i:1130801 original size:14 final size:14
Alignment explanation
Indices: 1130782--1130818 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1130772 CATCAATTAC
1130782 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1130796 ACAAATCATCTTTT
1 ACAAATCAACTTTT
1130810 ACAAATCAA
1 ACAAATCAA
1130819 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1132818 original size:14 final size:14
Alignment explanation
Indices: 1132799--1132855 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1132789 GCGAAATGAA
*
1132799 AATCGCAACGACAG
1 AATCGCAACGAAAG
1132813 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
1132830 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
1132846 AATCGCAACG
1 AATCGCAACG
1132856 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:1132826 original size:33 final size:33
Alignment explanation
Indices: 1132780--1132872 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
1132770 GCGAAACCAA
*
1132780 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
1132813 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1132846 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
1132873 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:1132837 original size:19 final size:19
Alignment explanation
Indices: 1132743--1132877 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
1132733 TAGTTTACTT
* *
1132743 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
1132763 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
1132782 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1132801 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
1132815 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
1132834 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
1132848 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1132867 TCGCAATGCGA
1 TCGCAACGCGA
1132878 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:1132915 original size:33 final size:33
Alignment explanation
Indices: 1132873--1132964 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
1132863 AAAATCGCAA
1132873 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
1132906 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* **
1132939 TGCCATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
1132965 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 53 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.20, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:1132993 original size:20 final size:19
Alignment explanation
Indices: 1132873--1133001 Score: 116
Period size: 19 Copynumber: 7.3 Consensus size: 19
1132863 AAAATCGCAA
1132873 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1132892 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
1132906 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1132925 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
* **
1132939 TGCCATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
1132958 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
1132977 TGCGATTTTATGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
1132997 TGCGA
1 TGCGA
1133002 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 11, Indels: 21
0.73 0.09 0.17
Matches are distributed among these distances:
14 21 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 47 0.53
20 13 0.15
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:1134656 original size:14 final size:14
Alignment explanation
Indices: 1134637--1134726 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
1134627 TTGAAATGAA
1134637 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1134651 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
1134670 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1134684 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1134703 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1134717 AATCGCAACG
1 AATCGCAACG
1134727 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 20 0.32
ACGTcount: A:0.43, C:0.23, G:0.24, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1134674 original size:33 final size:33
Alignment explanation
Indices: 1134629--1134742 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
1134619 TCTTTTGGTT
1134629 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
1134662 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1134695 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1134728 GAAATG-AAATCGCAA
1 GAAATGAAAATCGCAA
1134743 TGCGATTTTG
Statistics
Matches: 79, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
32 9 0.11
33 70 0.89
ACGTcount: A:0.46, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1134675 original size:19 final size:19
Alignment explanation
Indices: 1134648--1134747 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 19
1134638 ATCGCAACGA
1134648 GAGAATCGCAACGCGAAAT
1 GAGAATCGCAACGCGAAAT
*
1134667 GACAATCGCAA--CG--A-
1 GAGAATCGCAACGCGAAAT
1134681 GAGAATCGCAACGCGAAAT
1 GAGAATCGCAACGCGAAAT
*
1134700 GAAAATCGCAA--CG--A-
1 GAGAATCGCAACGCGAAAT
1134714 GAGAATCGCAACGCGAAAT
1 GAGAATCGCAACGCGAAAT
*
1134733 GA-AATCGCAATGCGA
1 GAGAATCGCAACGCGA
1134748 TTTTGGTTTC
Statistics
Matches: 66, Mismatches: 5, Indels: 21
0.72 0.05 0.23
Matches are distributed among these distances:
14 20 0.30
15 2 0.03
16 4 0.06
17 4 0.06
18 14 0.21
19 22 0.33
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (19 bp):
GAGAATCGCAACGCGAAAT
Found at i:1134778 original size:14 final size:14
Alignment explanation
Indices: 1134759--1134815 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1134749 TTTGGTTTCG
1134759 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1134773 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1134792 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1134806 CGTTGCGATT
1 CGTTGCGATT
1134816 GTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1134797 original size:19 final size:19
Alignment explanation
Indices: 1134773--1134861 Score: 80
Period size: 19 Copynumber: 4.9 Consensus size: 19
1134763 GCGATTCTCT
1134773 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
1134792 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
*
1134806 CGTTGCGATTGTCATTTCG
1 CGTTGCGATTTTCATTTCG
*** *
1134825 CGTTGCGACAGTCATTCTCT
1 CGTTGCGATTTTCATT-TCG
1134845 CGTTGCGATTTTCATTT
1 CGTTGCGATTTTCATTT
1134862 ATCTCGTTGC
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
14 10 0.18
16 2 0.04
17 3 0.05
19 25 0.45
20 15 0.27
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:1134853 original size:39 final size:33
Alignment explanation
Indices: 1134743--1134861 Score: 157
Period size: 33 Copynumber: 3.4 Consensus size: 33
1134733 GAAATCGCAA
**
1134743 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1134776 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
*
1134809 TGCGATTGTCATTTCGCGTTGCGACAGTCATTCTCTCGT
1 TGCGATTTTCATTTCGCGTT--G-C-G--ATTCTCTCGT
1134848 TGCGATTTTCATTT
1 TGCGATTTTCATTT
1134862 ATCTCGTTGC
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
33 50 0.66
35 1 0.01
36 1 0.01
37 1 0.01
39 23 0.30
ACGTcount: A:0.10, C:0.23, G:0.23, T:0.45
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:1134995 original size:33 final size:33
Alignment explanation
Indices: 1134953--1135023 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1134943 AATACTAACT
*
1134953 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
1134986 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
1135019 TGAAA
1 TGAAA
1135024 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:1135256 original size:22 final size:22
Alignment explanation
Indices: 1135204--1135258 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
1135194 TGGTTGTGAG
**
1135204 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
1135226 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
1135248 GGATTTCTTCG
1 GGATTTCTTCG
1135259 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:1135430 original size:20 final size:20
Alignment explanation
Indices: 1135405--1135558 Score: 168
Period size: 20 Copynumber: 7.7 Consensus size: 20
1135395 CTTTAAATAT
1135405 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1135425 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
1135447 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1135466 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
1135486 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1135506 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
1135526 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
1135546 CGCGTTGCGATTT
1 CGCGTTGCGATTT
1135559 TGGAAAATCG
Statistics
Matches: 113, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.02
20 94 0.83
21 15 0.13
22 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1135532 original size:40 final size:40
Alignment explanation
Indices: 1135404--1135558 Score: 186
Period size: 40 Copynumber: 3.9 Consensus size: 40
1135394 GCTTTAAATA
*
1135404 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTGT
** * *
1135445 TATCGTTGCGATTTACGGATACGCGTTGCGATATACG-GAT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTG-T
* *
1135485 ACACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
* ** *
1135525 TCGCGTTGCGATTTTCATATTCGCGTTGCGATTT
1 TCGCGTTGCGATTTACGGATACGCGTTGCGATTT
1135559 TGGAAAATCG
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 66 0.69
41 30 0.31
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.37
Consensus pattern (40 bp):
TCGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTGT
Found at i:1135575 original size:21 final size:21
Alignment explanation
Indices: 1135545--1135627 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
1135535 ATTTTCATAT
*
1135545 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
1135566 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
1135587 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
1135608 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
1135628 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:1135618 original size:42 final size:43
Alignment explanation
Indices: 1135525--1135623 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
1135515 ATTTATGTGT
* *
1135525 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
1135566 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
1135608 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
1135624 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:1136481 original size:14 final size:13
Alignment explanation
Indices: 1136462--1136508 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
1136452 GTTTATGTTT
1136462 TTTTAAATATATAA
1 TTTTAAATATA-AA
* *
1136476 TTTTAAGTTTAAAA
1 TTTTAAATAT-AAA
1136490 TTTTAAATA-AAA
1 TTTTAAATATAAA
1136502 TTTTAAA
1 TTTTAAA
1136509 AATTACTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 10 0.36
14 17 0.61
15 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (13 bp):
TTTTAAATATAAA
Found at i:1136917 original size:17 final size:17
Alignment explanation
Indices: 1136895--1136927 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
1136885 ACATAATTAT
1136895 ATTAAATATTT-TAAAAA
1 ATTAAAT-TTTATAAAAA
1136912 ATTAAATTTTATAAAA
1 ATTAAATTTTATAAAA
1136928 TATATGTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTAAATTTTATAAAAA
Found at i:1143381 original size:17 final size:17
Alignment explanation
Indices: 1143359--1143392 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1143349 CTCTTCTTCT
1143359 CTCTTTGTTTCATTGTA
1 CTCTTTGTTTCATTGTA
1143376 CTCTTTGTTTCATTGTA
1 CTCTTTGTTTCATTGTA
1143393 TGGTATTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.12, C:0.18, G:0.12, T:0.59
Consensus pattern (17 bp):
CTCTTTGTTTCATTGTA
Found at i:1148908 original size:65 final size:65
Alignment explanation
Indices: 1148831--1148958 Score: 247
Period size: 65 Copynumber: 2.0 Consensus size: 65
1148821 TACTCAGTTG
*
1148831 AAATTAATGCTTTTGTGTGTAAATAGTTGCAATAAAATAGAAAATAAAATCTATATAAAAATATA
1 AAATTAAAGCTTTTGTGTGTAAATAGTTGCAATAAAATAGAAAATAAAATCTATATAAAAATATA
1148896 AAATTAAAGCTTTTGTGTGTAAATAGTTGCAATAAAATAGAAAATAAAATCTATATAAAAATA
1 AAATTAAAGCTTTTGTGTGTAAATAGTTGCAATAAAATAGAAAATAAAATCTATATAAAAATA
1148959 GTTAACAAAG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.33
Consensus pattern (65 bp):
AAATTAAAGCTTTTGTGTGTAAATAGTTGCAATAAAATAGAAAATAAAATCTATATAAAAATATA
Found at i:1149159 original size:51 final size:51
Alignment explanation
Indices: 1149091--1149193 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
1149081 ATAAATCAAA
1149091 ATATACATACCATGTATTTAAAACAATTTACGACTCAAATTTACAAAATAG
1 ATATACATACCATGTATTTAAAACAATTTACGACTCAAATTTACAAAATAG
1149142 ATATACATACCATGTATTTAAAACAATTTACGACTCAAATTTACAAAATAG
1 ATATACATACCATGTATTTAAAACAATTTACGACTCAAATTTACAAAATAG
1149193 A
1 A
1149194 ATTTTAAATA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.48, C:0.16, G:0.06, T:0.31
Consensus pattern (51 bp):
ATATACATACCATGTATTTAAAACAATTTACGACTCAAATTTACAAAATAG
Found at i:1152118 original size:17 final size:17
Alignment explanation
Indices: 1152060--1152130 Score: 70
Period size: 18 Copynumber: 4.1 Consensus size: 17
1152050 AATCTACGTC
* *
1152060 TGATAACTATAAAACATA
1 TGATAACTGT-AAACATT
* *
1152078 TGATAACTGAAAATCATC
1 TGATAACTGTAAA-CATT
* *
1152096 TGATAATTGTAAATATT
1 TGATAACTGTAAACATT
1152113 TGATAACTGTAAACATT
1 TGATAACTGTAAACATT
1152130 T
1 T
1152131 AGAATTCATC
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
17 21 0.49
18 22 0.51
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (17 bp):
TGATAACTGTAAACATT
Found at i:1154824 original size:17 final size:18
Alignment explanation
Indices: 1154804--1154840 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
1154794 ATTCGTAATT
1154804 AACACT-TATTACAT-ACC
1 AACACTCTA-TACATAACC
1154821 AACACTCTATACATAACC
1 AACACTCTATACATAACC
1154839 AA
1 AA
1154841 GTACATACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (18 bp):
AACACTCTATACATAACC
Found at i:1155290 original size:15 final size:15
Alignment explanation
Indices: 1155267--1155314 Score: 87
Period size: 15 Copynumber: 3.2 Consensus size: 15
1155257 CGTAGGACTC
*
1155267 CTACATCCCGAAGGA
1 CTACGTCCCGAAGGA
1155282 CTACGTCCCGAAGGA
1 CTACGTCCCGAAGGA
1155297 CTACGTCCCGAAGGA
1 CTACGTCCCGAAGGA
1155312 CTA
1 CTA
1155315 TTATACCCTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.29, C:0.33, G:0.23, T:0.15
Consensus pattern (15 bp):
CTACGTCCCGAAGGA
Found at i:1155445 original size:29 final size:29
Alignment explanation
Indices: 1155410--1155472 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
1155400 CATGTACTTC
1155410 TGTCATTTCTCTTGTGATCATGTAGCTCA
1 TGTCATTTCTCTTGTGATCATGTAGCTCA
1155439 TGTCATTTCTCTTGTGATCATGTAGCTCA
1 TGTCATTTCTCTTGTGATCATGTAGCTCA
1155468 TGTCA
1 TGTCA
1155473 CTTCATATCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.44
Consensus pattern (29 bp):
TGTCATTTCTCTTGTGATCATGTAGCTCA
Found at i:1155505 original size:12 final size:12
Alignment explanation
Indices: 1155488--1155523 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
1155478 TATCATGTTC
*
1155488 TCATATTACATG
1 TCATATCACATG
*
1155500 TCATATCACATA
1 TCATATCACATG
1155512 TCATATCACATG
1 TCATATCACATG
1155524 AACATATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.36
Consensus pattern (12 bp):
TCATATCACATG
Found at i:1155909 original size:64 final size:64
Alignment explanation
Indices: 1155831--1156007 Score: 194
Period size: 64 Copynumber: 2.8 Consensus size: 64
1155821 TAATGAAGGT
* * * * * **
1155831 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAAGTATTCGATGTAGT-ATTATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACAAAAAGCATTCGATGT-GTCACTATTAATGGG
* ** ** *
1155895 ATGCATCGATGCACTCCTTATGCATCGATGCACCGATTGCATTCGATGTTTCACTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACAAAAAGCATTCGATGTGTCACTATTAATGGG
* **
1155959 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGT
1 ATGCATCGATGCACTACTTATGCATCGATGCACAAAAAGCATTCGATGT
1156008 CTTTATTTTA
Statistics
Matches: 96, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
63 1 0.01
64 95 0.99
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACAAAAAGCATTCGATGTGTCACTATTAATGGG
Found at i:1156028 original size:64 final size:63
Alignment explanation
Indices: 1155894--1156055 Score: 204
Period size: 64 Copynumber: 2.5 Consensus size: 63
1155884 TTATTGCTGG
* *
1155894 GATGCATCGATGCACTCCTTATGCATCGATGCACCGATTGCATTCGATGTTTCACTATTAATGG
1 GATGCATCGATGCACTACTTATGCATCGATGCA-CGATTGCATTCGATGTTTCACTATTAATGA
* *
1155958 GATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTCTTTA-TTTTAAAAT
1 GATGCATCGATGCACTACTTATGCATCGATGCACG-ATTGCATTCGATGT-TTCACTATT--AAT
1156022 -A
62 GA
**
1156023 G-TGCATCGATGCACTACCAATGCATCGATGCAC
1 GATGCATCGATGCACTACTTATGCATCGATGCAC
1156056 ATTCATATAA
Statistics
Matches: 88, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
63 2 0.02
64 79 0.90
65 4 0.05
66 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (63 bp):
GATGCATCGATGCACTACTTATGCATCGATGCACGATTGCATTCGATGTTTCACTATTAATGA
Found at i:1161746 original size:17 final size:18
Alignment explanation
Indices: 1161726--1161762 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
1161716 ATTCGTAATT
1161726 AACACT-TATTACAT-ACC
1 AACACTCTA-TACATAACC
1161743 AACACTCTATACATAACC
1 AACACTCTATACATAACC
1161761 AA
1 AA
1161763 GTACATACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (18 bp):
AACACTCTATACATAACC
Found at i:1162203 original size:18 final size:17
Alignment explanation
Indices: 1162182--1162220 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
1162172 TTCGTCTCGT
1162182 AGGACTCCTACGTCCCGA
1 AGGACT-CTACGTCCCGA
1162200 AGGA--CTACGTCCCGA
1 AGGACTCTACGTCCCGA
1162215 AGGACT
1 AGGACT
1162221 ATTATACCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
15 15 0.79
18 4 0.21
ACGTcount: A:0.26, C:0.33, G:0.26, T:0.15
Consensus pattern (17 bp):
AGGACTCTACGTCCCGA
Done.