Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_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: 10075380
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 42
Found at i:1193072 original size:12 final size:12
Alignment explanation
Indices: 1193050--1193089 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
1193040 CAAGTGGTCA
*
1193050 ATGAAGATGAAG
1 ATGACGATGAAG
*
1193062 CTGACGATGAAG
1 ATGACGATGAAG
*
1193074 ATGACGATGATG
1 ATGACGATGAAG
1193086 ATGA
1 ATGA
1193090 TGATCATGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.40, C:0.07, G:0.33, T:0.20
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:1193087 original size:3 final size:3
Alignment explanation
Indices: 1193067--1193111 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
1193057 TGAAGCTGAC
* * *
1193067 GAT GAA GAT GAC GAT GAT GAT GAT GAT CAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1193112 CCAAACAAGT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.36, C:0.04, G:0.31, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:1193088 original size:18 final size:18
Alignment explanation
Indices: 1193050--1193107 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
1193040 CAAGTGGTCA
* *
1193050 ATGAAGATGAAGCTGACG
1 ATGAAGATGAAGATGATG
*
1193068 ATGAAGATGACGATGATG
1 ATGAAGATGAAGATGATG
* * *
1193086 ATGATGATCATGATGATG
1 ATGAAGATGAAGATGATG
1193104 ATGA
1 ATGA
1193108 TGATCCAAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.38, C:0.07, G:0.31, T:0.24
Consensus pattern (18 bp):
ATGAAGATGAAGATGATG
Found at i:1194871 original size:182 final size:183
Alignment explanation
Indices: 1194321--1195091 Score: 1386
Period size: 183 Copynumber: 4.2 Consensus size: 183
1194311 CAAAGTTTTC
*
1194321 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* * *
1194386 CAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAA
66 CAAAAAGTGTCGACATT---TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
* *
1194449 TATAATCGGTATAAATATACCGGTTTTATGAGCGAATAGGCCTACAACCTATATCG
128 TATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
* *
1194505 ATACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGAAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
*
1194570 CAAAAAGTGTCGACATTTACACATCGAAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
1194635 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
1194688 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1194753 CAAAAAGTGTCGACATTTACACATCGGAA-CCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
1194817 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
1194870 ACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
*
1194935 CAAAAAGTGTCGACATTTACACATCGGAATCCAGAATTATAATGTAATAGATAATTTTGTAATAT
66 CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
1195000 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
1195053 ACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAAT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
1195092 TATAATGTAC
Statistics
Matches: 571, Mismatches: 13, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
182 181 0.32
183 313 0.55
184 74 0.13
186 3 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (183 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATAT
AACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:1194993 original size:365 final size:365
Alignment explanation
Indices: 1194321--1195091 Score: 1384
Period size: 365 Copynumber: 2.1 Consensus size: 365
1194311 CAAAGTTTTC
*
1194321 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
*
1194386 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATA
66 CAAAAAGTGTCGATT--AAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
* *
1194451 TAATCGGTATAAATATACCGGTTTTATGAGCGAATAGGCCTACAACCTATATCGATACTTTTTAA
129 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGCCTACAACCTATATCGACACTTTTTAA
1194516 TATTGTGTCGGTACTTTATGTCCAGAATGAAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTC
194 TATTGTGTCGGTACTTTATGTCCAGAATGAAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTC
1194581 GACATTTACACATCGAAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAA
259 GACATTTACACATCGAAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAA
1194646 ATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
324 ATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
1194688 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* *
1194753 CAAAAAGTGTCGACATT-TACACATCGGAA-CCAGAATTATAATGTAATAGATAATTTTGTAATA
66 CAAAAAGTGTCG--ATTAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATA
*
1194816 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAA
129 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGCCTACAACCTATATCGACACTTTTTAA
* *
1194881 TTTTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTC
194 TATTGTGTCGGTACTTTATGTCCAGAATGAAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTC
* *
1194946 GACATTTACACATCGGAATCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAA
259 GACATTTACACATCGAAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAA
1195011 ATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
324 ATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
*
1195053 ACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAAT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
1195092 TATAATGTAC
Statistics
Matches: 390, Mismatches: 12, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
365 301 0.77
366 10 0.03
367 76 0.19
369 3 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (365 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTGTCGATTAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATA
ACCGGTATAAATATACCGGTTTTATGAGCGAATAGGCCTACAACCTATATCGACACTTTTTAATA
TTGTGTCGGTACTTTATGTCCAGAATGAAAGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGA
CATTTACACATCGAAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAAT
ATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:1195177 original size:120 final size:120
Alignment explanation
Indices: 1194964--1195211 Score: 451
Period size: 120 Copynumber: 2.1 Consensus size: 120
1194954 CACATCGGAA
1194964 TCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAG
1 TCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAG
*
1195029 CGAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATG
66 CGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATG
* * *
1195084 TCCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAG
1 TCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAG
*
1195149 CGAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATG
66 CGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATG
1195204 TCCAGAAT
1 TCCAGAAT
1195212 GGAAGAAAAA
Statistics
Matches: 123, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 123 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (120 bp):
TCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAG
CGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATG
Found at i:1195329 original size:303 final size:303
Alignment explanation
Indices: 1194782--1195376 Score: 1091
Period size: 303 Copynumber: 2.0 Consensus size: 303
1194772 CACATCGGAA
1194782 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
*
1194847 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
* *
1194912 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAATCCAGAATTATAA
131 AGAAAAATATGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
* *
1194977 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
196 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTAC
*
1195042 AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
261 AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
* * *
1195085 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
*
1195150 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
1195215 AGAAAAATATGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
131 AGAAAAATATGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
*
1195280 TGTAATATATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTAC
196 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTAC
1195345 AACCTATATCGACACTTTTTAATATTGTGTCG
261 AACCTATATCGACACTTTTTAATATTGTGTCG
1195377 CTAATTTTAA
Statistics
Matches: 281, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
303 281 1.00
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.35
Consensus pattern (303 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
AGAAAAATATGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGAGAATAGGTCTAC
AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:1198584 original size:87 final size:87
Alignment explanation
Indices: 1198480--1198699 Score: 395
Period size: 87 Copynumber: 2.5 Consensus size: 87
1198470 AAATAGGTCA
* * *
1198480 ATATAAGCGCTACCTATTACATTATATAAGTGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1198545 CCCGTTAAATACCTATTTTATT
66 CCCGTTAAATACCTATTTTATT
1198567 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1198632 CCCGTTAAATACCTATTTTATT
66 CCCGTTAAATACCTATTTTATT
* *
1198654 ATGTAAGCGCTATCTATTACATTATATAAGCGTTATCTAATATGTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTT
1198700 GAGTGAGTTT
Statistics
Matches: 128, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 128 1.00
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (87 bp):
ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
CCCGTTAAATACCTATTTTATT
Found at i:1198614 original size:23 final size:23
Alignment explanation
Indices: 1198564--1198608 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1198554 TACCTATTTT
* *
1198564 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
1198587 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
1198609 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:1199091 original size:21 final size:22
Alignment explanation
Indices: 1199047--1199091 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
1199037 ATTACATAAC
* *
1199047 TTTAAAAAAAGTATTGATCCCT
1 TTTAAAAAAAGTATGGATCACT
*
1199069 TTTATAAAAAGTATGGA-CACT
1 TTTAAAAAAAGTATGGATCACT
1199090 TT
1 TT
1199092 CAATATAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (22 bp):
TTTAAAAAAAGTATGGATCACT
Found at i:1199140 original size:23 final size:23
Alignment explanation
Indices: 1199109--1199181 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
1199099 ATAAGTAAAA
*
1199109 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
1199132 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
1199155 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
1199178 ATAT
1 ATAT
1199182 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1199630 original size:23 final size:23
Alignment explanation
Indices: 1199599--1199671 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 23
1199589 ATAGGTAAAA
*
1199599 ATATGATATAATAGGTATCGCTT
1 ATATAATATAATAGGTATCGCTT
* *
1199622 ATATAATATAATAGGTAGCGTTT
1 ATATAATATAATAGGTATCGCTT
*
1199645 ATATAATGTAATAGGTAGT-GCTT
1 ATATAATATAATAGGTA-TCGCTT
1199668 ATAT
1 ATAT
1199672 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.40
Consensus pattern (23 bp):
ATATAATATAATAGGTATCGCTT
Found at i:1200122 original size:23 final size:23
Alignment explanation
Indices: 1200096--1200160 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
1200086 AAATATGATA
1200096 TAATAGGTAGCGCTTATATAATG
1 TAATAGGTAGCGCTTATATAATG
* *
1200119 TAATAGATAGCGTTTATATAATG
1 TAATAGGTAGCGCTTATATAATG
*
1200142 TAATAGGTAGTGCTTATAT
1 TAATAGGTAGCGCTTATAT
1200161 TGTAAAGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
TAATAGGTAGCGCTTATATAATG
Found at i:1200285 original size:489 final size:489
Alignment explanation
Indices: 1198747--1200560 Score: 3292
Period size: 489 Copynumber: 3.7 Consensus size: 489
1198737 GTGAGTATGG
*
1198747 ACATTAATTTAAGGTTACCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTA
1 ACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTA
*
1198812 ATGATTTATTTTTTACGTTGCGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTA
66 ATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTA
1198877 CATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATA
131 CATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATA
*
1198942 TCAAAACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACA
196 TCAAAACAATCAAATAATTTTTTGTGTAAATAAAATTATTAAATTAATATTGTAGGTGGAAAACA
* *
1199007 TGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATTGATCCCTTTT
261 TGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTT
* *
1199072 ATAAAAAGTATGGACACTTTCAATATAATAAGTAAAAATATGATGTAATAGGTAGCGCTTATATA
326 ATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATATAATAGGTAGCGCTTATATA
1199137 ATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTT
391 ATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTT
*
1199202 TATAAAAGTGTCTATACTTTTTTCACTGTGGAAA
456 TATAAAAGTGTCAATACTTTTTTCACTGTGGAAA
* *
1199236 ACATTAATTTAATGTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTA
1 ACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTA
**
1199301 ATGATTTATTTTTTACGTTATAGTATATATTATTATTAAATTAAAAACAATAAACATATATATTA
66 ATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTA
1199366 CATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATA
131 CATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATA
1199431 TCAAAACAATCAAATAATTTTTTGTGTAAATAAAATTATTAAATTAATATTGTAGGTGGAAAACA
196 TCAAAACAATCAAATAATTTTTTGTGTAAATAAAATTATTAAATTAATATTGTAGGTGGAAAACA
* * *
1199496 TAAAACATTATTAAAAAAATTAAAACATAAATTACATAACTTTAAAAAAAAGTATCGATCCTTTT
261 TGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTT-AAAAAAAGTATCGATCCTTTT
*
1199561 TATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATATAATAGGTATCGCTTATAT
325 TATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATATAATAGGTAGCGCTTATAT
*
1199626 AATATAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTT
390 AATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTT
*
1199691 TTATAAAAGTGTCAATACTTTTTTCACTATGGAAA
455 TTATAAAAGTGTCAATACTTTTTTCACTGTGGAAA
* *
1199726 ACATTAATTTAAGGTTATCTTGTGAGTGAGTTTTAAGATATTAATTTAGTAATTATATGCGTCTA
1 ACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTA
*
1199791 ATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAAAAATAAACATATATATTA
66 ATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTA
1199856 CATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATA
131 CATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATA
1199921 TCAAAACAATCAAATAATTTTTTGTGTAAATAAAATTATTAAATTAATATTGTAGGTGGAAAACA
196 TCAAAACAATCAAATAATTTTTTGTGTAAATAAAATTATTAAATTAATATTGTAGGTGGAAAACA
* *
1199986 TGAAATACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCAATCCTTTTT
261 TGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTT
*
1200051 ATAAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATATAATAGGTAGCGCTTATATA
326 ATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATATAATAGGTAGCGCTTATATA
*
1200116 ATGTAATAGATAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTT
391 ATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTT
*
1200181 TATAAAAGTGTCCATACTTTTTTCACTGTGGAAA
456 TATAAAAGTGTCAATACTTTTTTCACTGTGGAAA
*
1200215 ACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAAATATTAATTTAGTAATTATAGGCGTCTA
1 ACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTA
*
1200280 ATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAA-AAA-ATATATATTA
66 ATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTA
* *
1200343 CATATTTATTATTATCTTTTGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATA
131 CATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATA
* * *
1200408 TCAAAACAATCAAATAATATTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACA
196 TCAAAACAATCAAATAATTTTTTGTGTAAATAAAATTATTAAATTAATATTGTAGGTGGAAAACA
1200473 TGAAACACTATT-AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTT
261 TGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTT
1200537 ATAAAAAAGTATGGACACTTTCAA
326 AT-AAAAAGTATGGACACTTTCAA
1200561 CATATTATAA
Statistics
Matches: 1274, Mismatches: 49, Indels: 6
0.96 0.04 0.00
Matches are distributed among these distances:
486 53 0.04
487 166 0.13
488 3 0.00
489 582 0.46
490 470 0.37
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.40
Consensus pattern (489 bp):
ACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTA
ATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTA
CATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATA
TCAAAACAATCAAATAATTTTTTGTGTAAATAAAATTATTAAATTAATATTGTAGGTGGAAAACA
TGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTT
ATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATATAATAGGTAGCGCTTATATA
ATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTT
TATAAAAGTGTCAATACTTTTTTCACTGTGGAAA
Found at i:1208583 original size:15 final size:16
Alignment explanation
Indices: 1208563--1208602 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
1208553 TTTACTTCAA
*
1208563 AATGATT-AAGCGCTG
1 AATGATTCAAACGCTG
*
1208578 AATGATTCAAATGCTG
1 AATGATTCAAACGCTG
1208594 AATGATTCA
1 AATGATTCA
1208603 GAGGCTCTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (16 bp):
AATGATTCAAACGCTG
Found at i:1209085 original size:30 final size:30
Alignment explanation
Indices: 1209044--1209133 Score: 119
Period size: 30 Copynumber: 3.0 Consensus size: 30
1209034 AATCTTATAT
* *
1209044 ATTAGAAAGTAGCAATGCTCAAATAGAGAG
1 ATTAAAAAGTAGCAATGCTCAAATAGAGAC
* *
1209074 ATTAAAAAGTAGCAGTGCTCAAA-ACAGAC
1 ATTAAAAAGTAGCAATGCTCAAATAGAGAC
**
1209103 ATTAAAAAGTAGCAATGCAGAAATAGAGAC
1 ATTAAAAAGTAGCAATGCTCAAATAGAGAC
1209133 A
1 A
1209134 AGCTTCTTCA
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
29 24 0.47
30 27 0.53
ACGTcount: A:0.50, C:0.12, G:0.20, T:0.18
Consensus pattern (30 bp):
ATTAAAAAGTAGCAATGCTCAAATAGAGAC
Found at i:1209116 original size:29 final size:30
Alignment explanation
Indices: 1209044--1209120 Score: 111
Period size: 29 Copynumber: 2.6 Consensus size: 30
1209034 AATCTTATAT
* * *
1209044 ATTAGAAAGTAGCAATGCTCAAATAGAGAG
1 ATTAAAAAGTAGCAATGCTCAAATACAGAC
*
1209074 ATTAAAAAGTAGCAGTGCTCAAA-ACAGAC
1 ATTAAAAAGTAGCAATGCTCAAATACAGAC
1209103 ATTAAAAAGTAGCAATGC
1 ATTAAAAAGTAGCAATGC
1209121 AGAAATAGAG
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 21 0.50
30 21 0.50
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (30 bp):
ATTAAAAAGTAGCAATGCTCAAATACAGAC
Found at i:1213584 original size:23 final size:25
Alignment explanation
Indices: 1213533--1213584 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 25
1213523 TGGAAAAATA
1213533 TATTTAGTTTAAACATATACATTTT
1 TATTTAGTTTAAACATATACATTTT
1213558 TATTTAGTTT-AAC-TATGAC-TTTT
1 TATTTAGTTTAAACATAT-ACATTTT
1213581 TATT
1 TATT
1213585 AATGGGTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
23 11 0.42
24 5 0.19
25 10 0.38
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.56
Consensus pattern (25 bp):
TATTTAGTTTAAACATATACATTTT
Found at i:1217929 original size:15 final size:15
Alignment explanation
Indices: 1217905--1217938 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1217895 CCGTAGAACC
*
1217905 ACTACATCCCGAAGG
1 ACTACATCCCGAAGA
*
1217920 ACTACGTCCCGAAGA
1 ACTACATCCCGAAGA
1217935 ACTA
1 ACTA
1217939 TTATACCCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.32, G:0.18, T:0.15
Consensus pattern (15 bp):
ACTACATCCCGAAGA
Found at i:1218068 original size:29 final size:29
Alignment explanation
Indices: 1218023--1218132 Score: 186
Period size: 29 Copynumber: 3.8 Consensus size: 29
1218013 TTTTATATGT
*
1218023 TCATGTA-CTCATTTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
1218051 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
1218080 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
*
1218109 TCATGTAGCTCATGCCATGTTCTC
1 TCATGTAGCTCATGTCAT-TTCTC
1218133 ATATCACATA
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
28 7 0.09
29 66 0.85
30 5 0.06
ACGTcount: A:0.17, C:0.23, G:0.15, T:0.45
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:1218578 original size:64 final size:63
Alignment explanation
Indices: 1218509--1218663 Score: 163
Period size: 64 Copynumber: 2.4 Consensus size: 63
1218499 TAATGAAGGT
* *
1218509 ATGCATCGATGCACTACTTGTGCATCGGTGCA-TAAAATGCATTCGAT-GTTTTATTATTAATAG
1 ATGCATCGATGCACTACTTGTGCATCGGTGCACT-AAATGCATTCAATCGTTTTATT-TTAA-AA
*
1218572 G
63 A
* * * * *
1218573 ATGCATCGATGCA-TGCCTTATGCATCGTTGCACTAATTGCATTCAATCTTTTTATTTTAAAAA
1 ATGCATCGATGCACT-ACTTGTGCATCGGTGCACTAAATGCATTCAATCGTTTTATTTTAAAAA
*
1218636 AGTGCATCGATGCACTACCTGTGCATCG
1 A-TGCATCGATGCACTACTTGTGCATCG
1218664 ATACACCTTC
Statistics
Matches: 75, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
63 3 0.04
64 63 0.84
65 9 0.12
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.35
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTGTGCATCGGTGCACTAAATGCATTCAATCGTTTTATTTTAAAAA
Found at i:1218725 original size:21 final size:21
Alignment explanation
Indices: 1218699--1218739 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
1218689 TTTAACCTTG
1218699 ATGCATCGATGCACTATGAAT
1 ATGCATCGATGCACTATGAAT
1218720 ATGCATCGATGCACTATGAA
1 ATGCATCGATGCACTATGAA
1218740 CTCTGCCTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (21 bp):
ATGCATCGATGCACTATGAAT
Found at i:1224455 original size:15 final size:15
Alignment explanation
Indices: 1224435--1224463 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1224425 TGCCATATAT
1224435 GTCCCGAAGGACTAC
1 GTCCCGAAGGACTAC
1224450 GTCCCGAAGGACTA
1 GTCCCGAAGGACTA
1224464 TTATACCCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.31, G:0.28, T:0.14
Consensus pattern (15 bp):
GTCCCGAAGGACTAC
Found at i:1224590 original size:29 final size:29
Alignment explanation
Indices: 1224548--1224657 Score: 177
Period size: 29 Copynumber: 3.8 Consensus size: 29
1224538 TTTTATATGT
*
1224548 TCATGTA-CTCATGTTATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
1224576 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
* *
1224605 TAATGTAGCTCATATCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
1224634 TCATGTAGCTCATGTCATGTTCTC
1 TCATGTAGCTCATGTCAT-TTCTC
1224658 ATATCACATA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
28 7 0.09
29 63 0.84
30 5 0.07
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.45
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:1225107 original size:64 final size:63
Alignment explanation
Indices: 1225034--1225190 Score: 167
Period size: 64 Copynumber: 2.5 Consensus size: 63
1225024 TAATGAAGGT
* **
1225034 ATGCATCGATGCACTACTTGTGCATCGGTGCA-TAAAATACATTCGAT-GTTTTATTATTAATGG
1 ATGCATCGATGCACTACTTGTGCATCGATGCACT-AAATACATTCGATCGTTTTATT-TTAA-AA
1225097 G
63 G
* * * * *
1225098 ATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTGCATTCGATCTTTTTATTTTAAAAG
1 ATGCATCGATGCACT-ACTTGTGCATCGATGCACTAAATACATTCGATCGTTTTATTTTAAAAG
*
1225161 AGTGCATCGATGCACTACATGTGCATCGAT
1 A-TGCATCGATGCACTACTTGTGCATCGAT
1225191 ACACCTTCAA
Statistics
Matches: 77, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
63 3 0.04
64 65 0.84
65 9 0.12
ACGTcount: A:0.27, C:0.18, G:0.19, T:0.35
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTGTGCATCGATGCACTAAATACATTCGATCGTTTTATTTTAAAAG
Found at i:1225243 original size:14 final size:14
Alignment explanation
Indices: 1225224--1225250 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1225214 TTTAACCTTG
1225224 ATGCATCGATGCAT
1 ATGCATCGATGCAT
1225238 ATGCATCGATGCA
1 ATGCATCGATGCA
1225251 CTCTGCCCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (14 bp):
ATGCATCGATGCAT
Found at i:1231186 original size:31 final size:31
Alignment explanation
Indices: 1231151--1231216 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
1231141 GAGTCGTAAT
1231151 TAGATATATTAATGTTGAGTAAAAAGAATTA
1 TAGATATATTAATGTTGAGTAAAAAGAATTA
1231182 TAGATATATTAATGTTGAGTAAAAAGAATTA
1 TAGATATATTAATGTTGAGTAAAAAGAATTA
1231213 TAGA
1 TAGA
1231217 AAAAAAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.35
Consensus pattern (31 bp):
TAGATATATTAATGTTGAGTAAAAAGAATTA
Found at i:1250361 original size:22 final size:22
Alignment explanation
Indices: 1250322--1250364 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1250312 TTGGCACTAA
*
1250322 TTAATATTAATAAATTTTTAAT
1 TTAATATTAACAAATTTTTAAT
**
1250344 TTAATATTAACATGTTTTTAA
1 TTAATATTAACAAATTTTTAA
1250365 ATTACTTTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
TTAATATTAACAAATTTTTAAT
Found at i:1251586 original size:28 final size:28
Alignment explanation
Indices: 1251555--1251621 Score: 134
Period size: 28 Copynumber: 2.4 Consensus size: 28
1251545 ACCGGTTATT
1251555 ATATTTAATTTGAAAATTATATATTTTG
1 ATATTTAATTTGAAAATTATATATTTTG
1251583 ATATTTAATTTGAAAATTATATATTTTG
1 ATATTTAATTTGAAAATTATATATTTTG
1251611 ATATTTAATTT
1 ATATTTAATTT
1251622 ATATTTTAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (28 bp):
ATATTTAATTTGAAAATTATATATTTTG
Found at i:1252711 original size:43 final size:43
Alignment explanation
Indices: 1252619--1252889 Score: 237
Period size: 43 Copynumber: 6.2 Consensus size: 43
1252609 AGACATCTCG
* * * *
1252619 ATTATAAAGATAAAAAAATGAGATTAAAAAAAATTAGAGACATCA
1 ATTATAAAGGT-AAAAAGTGAGATT-GAAAAAATTAGGGACATCA
* * *
1252664 ATTATAAAGGTAAAAGGTGAGATTGAAAAAATTAGGGGCATCG
1 ATTATAAAGGTAAAAAGTGAGATTGAAAAAATTAGGGACATCA
* * * *
1252707 ATTATAAAGGTAAAAAGTGAGAGT-AAAAAATTAAGGACTTAA
1 ATTATAAAGGTAAAAAGTGAGATTGAAAAAATTAGGGACATCA
* * * *
1252749 ATTATAAAAGTAAAAAGTGATATTGAAAAAAAATTAGGGGCCTCA
1 ATTATAAAGGTAAAAAGTGAGATTG--AAAAAATTAGGGACATCA
* *
1252794 ATTATAAAGATAAAAATTG-GAATTGAAAAAAATT-GGGTA-ATCA
1 ATTATAAAGGTAAAAAGTGAG-ATTG-AAAAAATTAGGG-ACATCA
* * * *
1252837 ATTATAAATGTAAAATAGT-AGGATTGAAAAAAATAAGGACCTCA
1 ATTATAAAGGTAAAA-AGTGA-GATTGAAAAAATTAGGGACATCA
1252881 ATTATAAAG
1 ATTATAAAG
1252890 ACAAAAAATT
Statistics
Matches: 182, Mismatches: 34, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
42 34 0.19
43 64 0.35
44 39 0.21
45 45 0.25
ACGTcount: A:0.53, C:0.04, G:0.18, T:0.25
Consensus pattern (43 bp):
ATTATAAAGGTAAAAAGTGAGATTGAAAAAATTAGGGACATCA
Found at i:1252753 original size:42 final size:43
Alignment explanation
Indices: 1252619--1252939 Score: 215
Period size: 43 Copynumber: 7.4 Consensus size: 43
1252609 AGACATCTCG
* *
1252619 ATTATAAAGATAAAAAAATGAGATTAAAAAAAATT-AGAGACATCA
1 ATTATAAAGGT-AAAAAGTGAGATT-AAAAAAATTAAG-GACATCA
* * * * *
1252664 ATTATAAAGGTAAAAGGTGAGATTGAAAAAATTAGGGGCATCG
1 ATTATAAAGGTAAAAAGTGAGATTAAAAAAATTAAGGACATCA
* * *
1252707 ATTATAAAGGTAAAAAGTGAGAGT-AAAAAATTAAGGACTTAA
1 ATTATAAAGGTAAAAAGTGAGATTAAAAAAATTAAGGACATCA
* * * * *
1252749 ATTATAAAAGTAAAAAGTGATATTGAAAAAAAATTAGGGGCCTCA
1 ATTATAAAGGTAAAAAGTGAGATT--AAAAAAATTAAGGACATCA
* * *
1252794 ATTATAAAGATAAAAATTG-GAATTGAAAAAAATT-GGGTA-ATCA
1 ATTATAAAGGTAAAAAGTGAG-ATT-AAAAAAATTAAGG-ACATCA
* *
1252837 ATTATAAATGTAAAATAGT-AGGATTGAAAAAAA-TAAGGACCTCA
1 ATTATAAAGGTAAAA-AGTGA-GATT-AAAAAAATTAAGGACATCA
** * * * * * **
1252881 ATTATAAAGACAAAAAATTAGATTACAAAGATTAAGAATTTCA
1 ATTATAAAGGTAAAAAGTGAGATTAAAAAAATTAAGGACATCA
* *
1252924 ATTATAATGATAAAAA
1 ATTATAAAGGTAAAAA
1252940 TAAAATTAAA
Statistics
Matches: 219, Mismatches: 44, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
42 39 0.18
43 84 0.38
44 52 0.24
45 44 0.20
ACGTcount: A:0.54, C:0.05, G:0.16, T:0.25
Consensus pattern (43 bp):
ATTATAAAGGTAAAAAGTGAGATTAAAAAAATTAAGGACATCA
Found at i:1252753 original size:130 final size:131
Alignment explanation
Indices: 1252619--1252939 Score: 318
Period size: 130 Copynumber: 2.5 Consensus size: 131
1252609 AGACATCTCG
* *
1252619 ATTATAAAGATAAAAAAATGAGATTAAAAAAAATTAGAGACATCAATTATAAAGGTAAAAGGT-G
1 ATTATAAAGAT-AAAAAATGAGATTAAAAAAAATTAGAGACATCAATTATAAAGATAAAAAGTGG
* * *
1252683 AGATTG-AAAAAATTAGGGGCATCGATTATAAAGGTAAAA-AGT-GAGAGT-AAAAAATTAAGGA
65 A-ATTGAAAAAAATT-GGGGAATCAATTATAAAGGTAAAATAGTAG-GAGTGAAAAAAATAAGGA
*
1252744 CTTAA
127 CCTAA
* * * * * *
1252749 ATTATAAA-AGTAAAAAGTGATATTGAAAAAAAATTAGGGGCCTCAATTATAAAGATAAAAATTG
1 ATTATAAAGA-TAAAAAATGAGATT-AAAAAAAATTAGAGACATCAATTATAAAGATAAAAAGTG
* * *
1252813 GAATTGAAAAAAATTGGGTAATCAATTATAAATGTAAAATAGTAGGATTGAAAAAAATAAGGACC
64 GAATTGAAAAAAATTGGGGAATCAATTATAAAGGTAAAATAGTAGGAGTGAAAAAAATAAGGACC
*
1252878 TCA
129 TAA
* * * * *
1252881 ATTATAAAGACAAAAAATTAGATT-ACAAAGATTA-AGA-ATTTCAATTATAATGATAAAAA
1 ATTATAAAGATAAAAAATGAGATTAAAAAAAATTAGAGACA--TCAATTATAAAGATAAAAA
1252940 TAAAATTAAA
Statistics
Matches: 155, Mismatches: 26, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
129 13 0.08
130 91 0.59
131 16 0.10
132 34 0.22
133 1 0.01
ACGTcount: A:0.54, C:0.05, G:0.16, T:0.25
Consensus pattern (131 bp):
ATTATAAAGATAAAAAATGAGATTAAAAAAAATTAGAGACATCAATTATAAAGATAAAAAGTGGA
ATTGAAAAAAATTGGGGAATCAATTATAAAGGTAAAATAGTAGGAGTGAAAAAAATAAGGACCTA
A
Found at i:1252798 original size:87 final size:86
Alignment explanation
Indices: 1252619--1252898 Score: 248
Period size: 87 Copynumber: 3.2 Consensus size: 86
1252609 AGACATCTCG
* * * *
1252619 ATTATAAAGATAAAAAAATGAGATTAAAAAAAATTAGAGACATCAATTATAAAGGTAAAAGGTGA
1 ATTATAAAGAT-AAAAAATGAGAGT-AAAAAAATTAGAGACATAAATTATAAAAGTAAAAAGTGA
*
1252684 GATTGAAAAAATTAGGGGCATCG
64 GATTGAAAAAATTAGGGGCATCA
* * * *
1252707 ATTATAAAGGTAAAAAGTGAGAGT-AAAAAATTA-AGGACTTAAATTATAAAAGTAAAAAGTGAT
1 ATTATAAAGATAAAAAATGAGAGTAAAAAAATTAGA-GACATAAATTATAAAAGTAAAAAGTGAG
*
1252770 ATTGAAAAAAAATTAGGGGCCTCA
65 ATTG--AAAAAATTAGGGGCATCA
* * * * *
1252794 ATTATAAAGATAAAAATTG-GAATTGAAAAAAATT-GGGTA-ATCAATTATAAATGTAAAATAGT
1 ATTATAAAGATAAAAAATGAG-AGT-AAAAAAATTAGAG-ACATAAATTATAAAAGTAAAA-AGT
* * * *
1252856 -AGGATTGAAAAAAATAAGGACCTCA
62 GA-GATTGAAAAAATTAGGGGCATCA
*
1252881 ATTATAAAGACAAAAAAT
1 ATTATAAAGATAAAAAAT
1252899 TAGATTACAA
Statistics
Matches: 159, Mismatches: 23, Indels: 21
0.78 0.11 0.10
Matches are distributed among these distances:
84 1 0.01
85 36 0.23
86 1 0.01
87 77 0.48
88 28 0.18
89 16 0.10
ACGTcount: A:0.54, C:0.05, G:0.17, T:0.24
Consensus pattern (86 bp):
ATTATAAAGATAAAAAATGAGAGTAAAAAAATTAGAGACATAAATTATAAAAGTAAAAAGTGAGA
TTGAAAAAATTAGGGGCATCA
Found at i:1252987 original size:27 final size:26
Alignment explanation
Indices: 1252923--1252983 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
1252913 TAAGAATTTC
* *
1252923 AATTATAATGATAAAAATAAAATTAA
1 AATTATAATTATAAAAATAAAAATAA
*
1252949 AA-GACTCAATTATAAAAATAAAAATAA
1 AATTA-T-AATTATAAAAATAAAAATAA
1252976 AATTATAA
1 AATTATAA
1252984 ATTAAACTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
25 1 0.04
26 5 0.18
27 21 0.75
28 1 0.04
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (26 bp):
AATTATAATTATAAAAATAAAAATAA
Found at i:1253266 original size:32 final size:31
Alignment explanation
Indices: 1253188--1253309 Score: 120
Period size: 31 Copynumber: 3.9 Consensus size: 31
1253178 AGTAATAAAT
* * *
1253188 TTTGATTAGTTTAAGGATCATTTTGT-ATAAG
1 TTTGATAAATTTAATGATCATTTTGTAAT-AG
* *
1253219 TTGGATAAATTTAATGATCATTTTATAATAG
1 TTTGATAAATTTAATGATCATTTTGTAATAG
* ** *
1253250 TTTGATAAAATTTAATGACCATTACGTAATAC
1 TTTGAT-AAATTTAATGATCATTTTGTAATAG
* *
1253282 TTTGATAAGTTTAATGATTATTTTGTAA
1 TTTGATAAATTTAATGATCATTTTGTAA
1253310 CTTCAGAAAC
Statistics
Matches: 73, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
31 45 0.62
32 28 0.38
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTGATAAATTTAATGATCATTTTGTAATAG
Found at i:1255282 original size:24 final size:23
Alignment explanation
Indices: 1255235--1255282 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
1255225 CAATGACTGC
*
1255235 CTCACCAGCTGGGTATCTTCCTG
1 CTCACCAGCTGGGTATCATCCTG
* *
1255258 CTCACCCAGTTGGGTATCATGCTG
1 CTCA-CCAGCTGGGTATCATCCTG
1255282 C
1 C
1255283 AGCAAACAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.15, C:0.33, G:0.23, T:0.29
Consensus pattern (23 bp):
CTCACCAGCTGGGTATCATCCTG
Found at i:1256644 original size:18 final size:18
Alignment explanation
Indices: 1256621--1256655 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
1256611 ATCCACTTGC
1256621 GTTGTTTTTTTCAATAAT
1 GTTGTTTTTTTCAATAAT
1256639 GTTGTTTTTTTCAATAA
1 GTTGTTTTTTTCAATAA
1256656 AGATTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.06, G:0.11, T:0.60
Consensus pattern (18 bp):
GTTGTTTTTTTCAATAAT
Found at i:1258807 original size:14 final size:15
Alignment explanation
Indices: 1258778--1258810 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
1258768 CACCGGGAAA
1258778 AAAACTAGAGGAGAG
1 AAAACTAGAGGAGAG
*
1258793 AAAACTA-ATGAGAG
1 AAAACTAGAGGAGAG
1258807 AAAA
1 AAAA
1258811 ATCTTGACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.61, C:0.06, G:0.24, T:0.09
Consensus pattern (15 bp):
AAAACTAGAGGAGAG
Found at i:1261361 original size:40 final size:39
Alignment explanation
Indices: 1261279--1261391 Score: 156
Period size: 40 Copynumber: 2.9 Consensus size: 39
1261269 AGATTCCCAA
* * *
1261279 AAAATAAATCCAAAGATTTATTTCCTTTTACAAAAGAGG
1 AAAATAAATCTAACGATTTATTTCCTTTTACAAAACAGG
*
1261318 AAAATAAATCTAACGATTTATTTCCTTCTTACAATACAGG
1 AAAATAAATCTAACGATTTATTTCCTT-TTACAAAACAGG
*
1261358 AAAATAAATTCT-ACGATTTATTTCTTTTTACAAA
1 AAAATAAA-TCTAACGATTTATTTCCTTTTACAAA
1261392 CTAGAATCAT
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
39 31 0.47
40 32 0.48
41 3 0.05
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.36
Consensus pattern (39 bp):
AAAATAAATCTAACGATTTATTTCCTTTTACAAAACAGG
Found at i:1261483 original size:58 final size:58
Alignment explanation
Indices: 1261421--1261553 Score: 203
Period size: 58 Copynumber: 2.3 Consensus size: 58
1261411 TAAAAAATAT
* * *
1261421 AATCATTTAAGATTCTCAAAGAAATAAATTAAACTATTTATTTTCCTTACAGAGTTAA
1 AATCATTCAAGATTCTCAAAGAAATAAATTAAACAATTTATTTTCCTTACAAAGTTAA
* * *
1261479 AATCATTCAAGATTCTCAAGGAAATAAATTCAACAATTTATTTTCCTTACAAAGTTAG
1 AATCATTCAAGATTCTCAAAGAAATAAATTAAACAATTTATTTTCCTTACAAAGTTAA
1261537 AATCATTGCAAGATTCT
1 AATCATT-CAAGATTCT
1261554 AATGATGAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
58 59 0.87
59 9 0.13
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.36
Consensus pattern (58 bp):
AATCATTCAAGATTCTCAAAGAAATAAATTAAACAATTTATTTTCCTTACAAAGTTAA
Found at i:1261756 original size:45 final size:45
Alignment explanation
Indices: 1261643--1261827 Score: 181
Period size: 45 Copynumber: 4.0 Consensus size: 45
1261633 CAATAATCGA
* ** * ** *
1261643 AATCGAAAGGAATTAATCCACTAATTTTAATTTTCGCAATCCAAT
1 AATCGAAAGGAACTAATCCTTTGATTTTAATTTTTACAACCCAAT
* *
1261688 AATCGAAAGGAATTAATACTTTGATTTTAATTTTTACAACCCAAT
1 AATCGAAAGGAACTAATCCTTTGATTTTAATTTTTACAACCCAAT
* * * *
1261733 AATCGAAAGGAACTAATCTTTTGATTTTTTTTATTTTTGGCAACTCAAT
1 AATCGAAAGGAACTAATCCTTTGA---TTTTAATTTTT-ACAACCCAAT
* * * *
1261782 AATCAAAAGGAACTAATCCTTTGATTTTAGTTTTGATAACCCAAT
1 AATCGAAAGGAACTAATCCTTTGATTTTAATTTTTACAACCCAAT
1261827 A
1 A
1261828 TTCAAAATCC
Statistics
Matches: 115, Mismatches: 21, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
45 67 0.58
46 8 0.07
48 10 0.09
49 30 0.26
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (45 bp):
AATCGAAAGGAACTAATCCTTTGATTTTAATTTTTACAACCCAAT
Found at i:1262035 original size:12 final size:12
Alignment explanation
Indices: 1262018--1262043 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1262008 AATGCCATAA
1262018 AAATAATATCAT
1 AAATAATATCAT
1262030 AAATAATATCAT
1 AAATAATATCAT
1262042 AA
1 AA
1262044 TTACTGTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (12 bp):
AAATAATATCAT
Found at i:1265839 original size:23 final size:23
Alignment explanation
Indices: 1265813--1265876 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
1265803 CAACTCGTAT
1265813 AATTGCACCGAAGTGCCACATAG
1 AATTGCACCGAAGTGCCACATAG
* * *
1265836 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCACATAG
*
1265859 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
1265877 TATAATAATG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.28, C:0.27, G:0.27, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACATAG
Found at i:1266071 original size:103 final size:103
Alignment explanation
Indices: 1265892--1266104 Score: 345
Period size: 103 Copynumber: 2.1 Consensus size: 103
1265882 TAATGTCCAT
* * *
1265892 AAGGACTACATATCATTCCTTAAGAATCATATAAATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATAAATATACCAAGGATCAAGTATGTGTCTCACCA
* *
1265957 GAGTTCACACATGTTTCAAAGAATACATATACGTCCCA
66 GACTTCACACATGTTCCAAAGAATACATATACGTCCCA
* *
1265995 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATAAATATACCAAGGATCAAGTATGTGTCTCACCA
* *
1266060 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATACGTCCCA
1266098 AAGGACC
1 AAGGACC
1266105 GCGTAGACCC
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATAAATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATACGTCCCA
Found at i:1271214 original size:23 final size:23
Alignment explanation
Indices: 1271188--1271251 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
1271178 CAGCTCGTAT
1271188 AATTGCACCGAAGTGCCACATAG
1 AATTGCACCGAAGTGCCACATAG
* *
1271211 AATTGCACC-AGAGTGCCGCGTAG
1 AATTGCACCGA-AGTGCCACATAG
*
1271234 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
1271252 TATAATAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
22 1 0.03
23 34 0.97
ACGTcount: A:0.30, C:0.27, G:0.25, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACATAG
Found at i:1271459 original size:103 final size:102
Alignment explanation
Indices: 1271267--1271476 Score: 357
Period size: 103 Copynumber: 2.0 Consensus size: 102
1271257 TAATGTCCAT
* * * * *
1271267 AAGGACTACATATCATTCCTTAAGAATCATATACATATACTAGGGATAAGTATGTGTCTTACCAG
1 AAGGACCACATATCATTCCTTAAAAATCATATACATATACCAAGGATAAGTATGTGTCTCACCAG
1271332 ACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 ACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
1271369 AAGGACCACATATCATTCCTTAAAAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAAAATCATATACATATACCAAGGAT-AAGTATGTGTCTCACCA
1271434 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
65 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
1271472 AAGGA
1 AAGGA
1271477 TCGCGTAGAC
Statistics
Matches: 101, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
102 42 0.42
103 59 0.58
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (102 bp):
AAGGACCACATATCATTCCTTAAAAATCATATACATATACCAAGGATAAGTATGTGTCTCACCAG
ACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:1276744 original size:32 final size:32
Alignment explanation
Indices: 1276696--1276774 Score: 108
Period size: 32 Copynumber: 2.5 Consensus size: 32
1276686 ATATCGCATG
* *
1276696 TCACGTCATCATTTTAGATGATATGACACATA
1 TCACATCATTATTTTAGATGATATGACACATA
*
1276728 TCACATCATTATTTTAGATGATATGACATATA
1 TCACATCATTATTTTAGATGATATGACACATA
*
1276760 TTACA--ATTATTTTAG
1 TCACATCATTATTTTAG
1276775 GAGTAAACAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
30 10 0.23
32 33 0.77
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (32 bp):
TCACATCATTATTTTAGATGATATGACACATA
Found at i:1278758 original size:21 final size:21
Alignment explanation
Indices: 1278694--1278753 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
1278684 GATTTCTGGG
1278694 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAATCGGTACCCATT
1278715 CAAGGGGAAT-GGTACCCATT
1 CAAGGGGAATCGGTACCCATT
*
1278735 CAATGGGGAATCGATACCC
1 CAA-GGGGAATCGGTACCC
1278754 CTCAAGTGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
20 13 0.36
21 17 0.47
22 6 0.17
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.18
Consensus pattern (21 bp):
CAAGGGGAATCGGTACCCATT
Found at i:1278831 original size:23 final size:22
Alignment explanation
Indices: 1278787--1278831 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
1278777 AATCTCATAG
*
1278787 GGGAATCGATTCCCCCACAGGA
1 GGGAATCGATTCCCCCAAAGGA
1278809 GGGAATCGATTCCCCCTAAAGGA
1 GGGAATCGATTCCCCC-AAAGGA
1278832 AAAATGTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.16
Consensus pattern (22 bp):
GGGAATCGATTCCCCCAAAGGA
Found at i:1280272 original size:23 final size:23
Alignment explanation
Indices: 1280239--1280306 Score: 127
Period size: 23 Copynumber: 3.0 Consensus size: 23
1280229 ATTATTATAT
*
1280239 GGCACTACGGTGCAATTCTACGC
1 GGCACTCCGGTGCAATTCTACGC
1280262 GGCACTCCGGTGCAATTCTACGC
1 GGCACTCCGGTGCAATTCTACGC
1280285 GGCACTCCGGTGCAATTCTACG
1 GGCACTCCGGTGCAATTCTACG
1280307 AGCTGTGGTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.19, C:0.32, G:0.26, T:0.22
Consensus pattern (23 bp):
GGCACTCCGGTGCAATTCTACGC
Found at i:1286499 original size:206 final size:203
Alignment explanation
Indices: 1286127--1286538 Score: 781
Period size: 206 Copynumber: 2.0 Consensus size: 203
1286117 TCGATAAAAA
1286127 TCTAAAGATAAAAAATAACAATCAAAAGTGTTCGAAATCGGGACAAAGAATAGAGAGAACGAATC
1 TCTAAAGATAAAAAATAACAATCAAAAGTGTTCGAAATCGGGACAAAGAATAGAGAGAACGAATC
1286192 TATAAAACCCAATAGCCGGAGTTTTAAAAAGAAAGAGATTAGTGTATACAAATGAGTTGGAGTGC
66 TATAAAACCCAATAGCCGGAGTTTTAAAAAGAAAGAGATTAGTGTATACAAATGAGTTGGAGTGC
1286257 GAGTAGGAAGACTGACTTTATACTCGCGAAAATAGGAATGGACACGTCTA-TTCACCAATCAGAT
131 GAGTAGGAAGACTGACTTTATACTCGCGAAAATAGGAATGGACACGTCTATTTCACCAATCAGAT
1286321 TCGTTTAT
196 TCGTTTAT
1286329 TCTAAAGATAAAAAATAACAATCAAAAGTGTTCGAAATCGGGACAAAAGAATAGAGAGAACGAAT
1 TCTAAAGATAAAAAATAACAATCAAAAGTGTTCGAAATCGGGAC-AAAGAATAGAGAGAACGAAT
1286394 CTATAAAACCCAATAGCCGGAGTTTTATAAAAAGAAAGAGATTAGTGTATACAAATGATGTTGGA
65 CTATAAAACCCAATAGCCGGAG-TTT-TAAAAAGAAAGAGATTAGTGTATACAAATGA-GTTGGA
1286459 GTGCGAGTAGGAAGACTGACTTTATACTCGCGAAAATAGGAATGGACACGTCTATTTCACCAATC
127 GTGCGAGTAGGAAGACTGACTTTATACTCGCGAAAATAGGAATGGACACGTCTATTTCACCAATC
1286524 AGATTCGTTTAT
192 AGATTCGTTTAT
1286536 TCT
1 TCT
1286539 TCACGGGGAA
Statistics
Matches: 205, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
202 44 0.21
203 42 0.20
204 3 0.01
205 31 0.15
206 60 0.29
207 25 0.12
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (203 bp):
TCTAAAGATAAAAAATAACAATCAAAAGTGTTCGAAATCGGGACAAAGAATAGAGAGAACGAATC
TATAAAACCCAATAGCCGGAGTTTTAAAAAGAAAGAGATTAGTGTATACAAATGAGTTGGAGTGC
GAGTAGGAAGACTGACTTTATACTCGCGAAAATAGGAATGGACACGTCTATTTCACCAATCAGAT
TCGTTTAT
Found at i:1286916 original size:18 final size:18
Alignment explanation
Indices: 1286864--1286914 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
1286854 TTGATATTTT
*
1286864 TATTATGTTTAAATTTT-A
1 TATTATATTT-AATTTTAA
1286882 TATTTATATTT-ATTTTAA
1 TA-TTATATTTAATTTTAA
1286900 TATTAT-TTTAATTTT
1 TATTATATTTAATTTT
1286915 TATAACATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
16 3 0.10
17 14 0.48
18 5 0.17
19 7 0.24
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TATTATATTTAATTTTAA
Found at i:1288797 original size:36 final size:37
Alignment explanation
Indices: 1288756--1288826 Score: 108
Period size: 38 Copynumber: 1.9 Consensus size: 37
1288746 TGAATATTTG
*
1288756 TCCGAAGGACCACTA-TCCCGAAAGACCACTGATTGT
1 TCCGAAGAACCACTAGTCCCGAAAGACCACTGATTGT
*
1288792 TCCGAAGAACCACTATGTCCCGAAGGACCACTGAT
1 TCCGAAGAACCACTA-GTCCCGAAAGACCACTGAT
1288827 AATCCCTCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
36 14 0.45
38 17 0.55
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.18
Consensus pattern (37 bp):
TCCGAAGAACCACTAGTCCCGAAAGACCACTGATTGT
Found at i:1289485 original size:19 final size:19
Alignment explanation
Indices: 1289461--1289514 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
1289451 TTTTAAGGGG
1289461 GTGCATCAATGCACTACTT
1 GTGCATCAATGCACTACTT
1289480 GTGCATCAATGCACTACTT
1 GTGCATCAATGCACTACTT
*
1289499 GTGCATCAATACACTA
1 GTGCATCAATGCACTA
1289515 ATGACATTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (19 bp):
GTGCATCAATGCACTACTT
Found at i:1306852 original size:3 final size:3
Alignment explanation
Indices: 1306833--1306905 Score: 128
Period size: 3 Copynumber: 24.3 Consensus size: 3
1306823 GTAGCCTGTA
* *
1306833 AAT AAT GAT ACT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1306881 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
1306906 TATTATTATT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 66 1.00
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1307354 original size:17 final size:18
Alignment explanation
Indices: 1307316--1307360 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
1307306 GTTTATGAGT
1307316 GAATTGGAATCTGTGAAG
1 GAATTGGAATCTGTGAAG
* *
1307334 GAATTTGAATCTGT-CAG
1 GAATTGGAATCTGTGAAG
1307351 GAA-TGGAATC
1 GAATTGGAATC
1307361 CAATTCCATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 6 0.25
17 5 0.21
18 13 0.54
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (18 bp):
GAATTGGAATCTGTGAAG
Found at i:1307981 original size:37 final size:38
Alignment explanation
Indices: 1307903--1307981 Score: 99
Period size: 37 Copynumber: 2.1 Consensus size: 38
1307893 GACCGACCCG
* * *
1307903 AATATCACACTTAAAAAAACCCGACTCGACTCGACCCA
1 AATATCACACTTAAAAAAACCCGACCCGACTCGAACAA
*
1307941 AATATCACACTT-AAAAAACCTGACCCGGAC-CGAACAA
1 AATATCACACTTAAAAAAACCCGACCC-GACTCGAACAA
1307978 AATA
1 AATA
1307982 AAGTTTCACC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
37 21 0.58
38 15 0.42
ACGTcount: A:0.46, C:0.30, G:0.09, T:0.15
Consensus pattern (38 bp):
AATATCACACTTAAAAAAACCCGACCCGACTCGAACAA
Found at i:1316521 original size:51 final size:51
Alignment explanation
Indices: 1316445--1316548 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
1316435 CTCCAGCCCC
*
1316445 TGCTTATTATCACAATGGGGTACCAATTGGGTCCAACAATGGATGTCTTTA
1 TGCTTATTATCACAATGGGCTACCAATTGGGTCCAACAATGGATGTCTTTA
*
1316496 TGCTTATTATCACAATGGGCTACCAATTGGGTCCAACAATGGGTGTCTTTA
1 TGCTTATTATCACAATGGGCTACCAATTGGGTCCAACAATGGATGTCTTTA
1316547 TG
1 TG
1316549 GTGGGTCTGA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (51 bp):
TGCTTATTATCACAATGGGCTACCAATTGGGTCCAACAATGGATGTCTTTA
Found at i:1321744 original size:6 final size:6
Alignment explanation
Indices: 1321720--1321754 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
1321710 AATTAACTGA
1321720 AAAAAT AACAAAT -AAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AA-AAAT AAAAAT AAAAAT AAAAAT AAAAA
1321755 ATTGTTGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 4 0.15
6 19 0.70
7 4 0.15
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:1321754 original size:18 final size:18
Alignment explanation
Indices: 1321720--1321753 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
1321710 AATTAACTGA
1321720 AAAAATAACAAATAAAAT
1 AAAAATAACAAATAAAAT
1321738 AAAAATAA-AAATAAAA
1 AAAAATAACAAATAAAA
1321754 AATTGTTGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (18 bp):
AAAAATAACAAATAAAAT
Found at i:1324834 original size:14 final size:14
Alignment explanation
Indices: 1324796--1324846 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
1324786 TTCTTGTTTC
*
1324796 AATATAATTTTAA-
1 AATATTATTTTAAT
* *
1324809 AATTTTAATTTAAT
1 AATATTATTTTAAT
1324823 AATATTATTTTAAT
1 AATATTATTTTAAT
1324837 CATATATTAT
1 -A-ATATTAT
1324847 AAAATAAGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
13 10 0.33
14 12 0.40
15 1 0.03
16 7 0.23
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (14 bp):
AATATTATTTTAAT
Found at i:1325664 original size:9 final size:9
Alignment explanation
Indices: 1325632--1325765 Score: 62
Period size: 9 Copynumber: 14.2 Consensus size: 9
1325622 GAAAAGTAAT
1325632 AAATAAATA
1 AAATAAATA
*
1325641 TTAAAT-AAGA
1 --AAATAAATA
1325651 AAATAAATA
1 AAATAAATA
*
1325660 AAATAATAGA
1 AAATAA-ATA
1325670 ATAATAAA-A
1 A-AATAAATA
1325679 ATAATAAATCA
1 A-AATAAAT-A
*
1325690 AAACAAATA
1 AAATAAATA
*
1325699 ATA-AAATA
1 AAATAAATA
1325707 ATAAT-AATA
1 A-AATAAATA
1325716 ATAAT-AATA
1 A-AATAAATA
*
1325725 ATAATAAACA
1 A-AATAAATA
*
1325735 TAAATCAAAGA
1 -AAAT-AAATA
* *
1325746 AAAAAAATT
1 AAATAAATA
1325755 AAATAAATA
1 AAATAAATA
1325764 AA
1 AA
1325766 TTGGAAAAAA
Statistics
Matches: 100, Mismatches: 13, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
8 10 0.10
9 52 0.52
10 22 0.22
11 16 0.16
ACGTcount: A:0.72, C:0.03, G:0.02, T:0.23
Consensus pattern (9 bp):
AAATAAATA
Found at i:1325665 original size:17 final size:17
Alignment explanation
Indices: 1325623--1325725 Score: 81
Period size: 17 Copynumber: 5.9 Consensus size: 17
1325613 TGTTAGATAG
1325623 AAAAGTAAT-AAATAAAT
1 AAAA-TAATAAAATAAAT
*
1325640 ATTAAATAAGAAAATAAAT
1 A--AAATAATAAAATAAAT
*
1325659 AAAATAATAGAAT-AAT
1 AAAATAATAAAATAAAT
1325675 AAAAATAAT-AAATCAAA-
1 -AAAATAATAAAAT-AAAT
1325692 ACAAATAATAAAAT-AAT
1 A-AAATAATAAAATAAAT
1325709 AATAATAATAATAATAA
1 AA-AATAATAA-AATAA
1325726 TAATAAACAT
Statistics
Matches: 70, Mismatches: 4, Indels: 22
0.73 0.04 0.23
Matches are distributed among these distances:
16 10 0.14
17 35 0.50
18 12 0.17
19 13 0.19
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.24
Consensus pattern (17 bp):
AAAATAATAAAATAAAT
Found at i:1325675 original size:3 final size:3
Alignment explanation
Indices: 1325656--1325731 Score: 70
Period size: 3 Copynumber: 25.7 Consensus size: 3
1325646 TAAGAAAATA
* * *
1325656 AAT AA- AAT AAT -AG AAT AAT AAA AAT AAT AAAT CAA- AACA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AA-T AAT AAT
1325701 AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1325732 ACATAAATCA
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
2 7 0.11
3 47 0.77
4 7 0.11
ACGTcount: A:0.71, C:0.03, G:0.01, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:1325871 original size:15 final size:16
Alignment explanation
Indices: 1325799--1325873 Score: 55
Period size: 16 Copynumber: 4.4 Consensus size: 16
1325789 AAGAAACACT
*
1325799 AATAATAAAAATAAGAG
1 AATAA-AAAAATAAGAA
1325816 AATAAAAAATATAA-AA
1 AATAAAAAA-ATAAGAA
* *
1325832 AAGAAAAAAATGAAATATA
1 AATAAAAAAAT--AAGA-A
1325851 ATATAAAAAAATAA-AA
1 A-ATAAAAAAATAAGAA
1325867 AATAAAA
1 AATAAAA
1325874 GGTTAAATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
15 8 0.16
16 15 0.31
17 12 0.24
18 3 0.06
19 2 0.04
20 9 0.18
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.17
Consensus pattern (16 bp):
AATAAAAAAATAAGAA
Found at i:1329823 original size:2 final size:2
Alignment explanation
Indices: 1329816--1329857 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1329806 TCATAACTTC
1329816 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
1329858 TATTATTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1330664 original size:18 final size:18
Alignment explanation
Indices: 1330632--1330680 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
1330622 GACGGGGTCA
* *
1330632 GGGTCATCAGTCTCTT-T
1 GGGTCAGCAGGCTCTTCT
1330649 GGCGTCAGCAGGCTCTTCT
1 GG-GTCAGCAGGCTCTTCT
*
1330668 GGTTCAGCAGGCT
1 GGGTCAGCAGGCT
1330681 GGGGACTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 2 0.07
18 22 0.81
19 3 0.11
ACGTcount: A:0.12, C:0.27, G:0.31, T:0.31
Consensus pattern (18 bp):
GGGTCAGCAGGCTCTTCT
Found at i:1337584 original size:13 final size:13
Alignment explanation
Indices: 1337566--1337591 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1337556 GCCCCGGCAT
1337566 TCTGATCCTCCTC
1 TCTGATCCTCCTC
1337579 TCTGATCCTCCTC
1 TCTGATCCTCCTC
1337592 ATGGCCAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.46, G:0.08, T:0.38
Consensus pattern (13 bp):
TCTGATCCTCCTC
Found at i:1339932 original size:163 final size:163
Alignment explanation
Indices: 1339612--1340377 Score: 773
Period size: 164 Copynumber: 4.6 Consensus size: 163
1339602 GGAGTTATCA
* *
1339612 GTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATG
1 GTAATCAAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
* * * * * * * *
1339677 ATATGCCCTCGAAGCTGAGTGTAATCAAAATTGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGA
65 ATGT-ACCTTGGAGCTGAGCGTAATCAAACTCGAAGGTC--T--TTGACAGATAACCCTTCTCGA
* * * *
1339742 CTTAAGCTATGTTGCAAATGTTGTGCCTTTGAGCTGAGT
125 CTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
* * * *
1339781 GTAATCAAACTCGAAGGTCTTTGTTGGTAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGA
1 GTAATCAAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
** * * * * *
1339846 TGCGCCTTGGAGCTGAACGTAGTCGAACTCGAAGGTCTTTGACAGATAGCACTTCTCGACTTAAG
66 TGTACCTTGGAGCTGAGCGTAATCAAACTCGAAGGTCTTTGACAGATAACCCTTCTCGACTTAAG
* *
1339911 CTATACTACAAATGATGTGCCTTGGAGCTGAGC
131 CTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
* * * * * * * *
1339944 GTAGTCTAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGA
1 GTAATCAAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
* * * * * * * * * * *
1340009 TGTGCTCTCGAAGCTGAGTGTAATTAAACTTGAGGGTCTTTGGCATATAGCCCTTCTCGACCTAA
66 TGTAC-CTTGGAGCTGAGCGTAATCAAACTCGAAGGTCTTTGACAGATAACCCTTCTCGACTTAA
* *
1340074 CCTATGCTGCAAATGATGTGCCTTGGAGCTGAAC
130 GCTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
* * *
1340108 GTAGTCAAACTCGAAGGTCTTTGGTTGGAAGATAACCCTTCTCGACTTAAGTTATGCTACAAATG
1 GTAATCAAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
* * * *
1340173 ATATACCTTGGAGCTGAGCGTAATCGAACTCGAAGGTCTTTTAGTCACAGATAACCCTTCTAGCC
65 ATGTACCTTGGAGCTGAGCGTAATCAAACTCGAAGGTC-TTT-G--ACAGATAACCCTTCTCGAC
* * * * * * *
1340238 TTGAGTTATGTTGTAAATGTTGTGCCCTCGAAGCTGAGC
126 TTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGC
* * * * *
1340277 GTAATCGAACTCGAGGGTC--T-TTGGCAGATAACCCTTCTCGACTTAAGCTATGTTGTAAATGA
1 GTAATCAAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
* *
1340339 TGTACCTTAGAGCTGAGCGTAGTCAAACTCGAAGGTCTT
66 TGTACCTTGGAGCTGAGCGTAATCAAACTCGAAGGTCTT
1340378 CGTTGGCAGA
Statistics
Matches: 495, Mismatches: 95, Indels: 19
0.81 0.16 0.03
Matches are distributed among these distances:
163 114 0.23
164 124 0.25
165 112 0.23
166 1 0.00
167 26 0.05
168 70 0.14
169 48 0.10
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (163 bp):
GTAATCAAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
TGTACCTTGGAGCTGAGCGTAATCAAACTCGAAGGTCTTTGACAGATAACCCTTCTCGACTTAAG
CTATGCTGCAAATGATGTGCCTTGGAGCTGAGC
Found at i:1340171 original size:84 final size:83
Alignment explanation
Indices: 1339612--1340420 Score: 776
Period size: 84 Copynumber: 9.8 Consensus size: 83
1339602 GGAGTTATCA
* *
1339612 GTAATCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATG
1 GTAATCAAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
* * * *
1339677 ATATGCCCTCGAAGCTGAGT
65 ATGTG-CCTTGGAGCTGAGC
* * * *
1339697 GTAATCAAAATTGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGTTGCAAATG
1 GTAATCAAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
* * *
1339762 TTGTGCCTTTGAGCTGAGT
65 ATGTGCCTTGGAGCTGAGC
* * * *
1339781 GTAATCAAACTCGAAGGTCTTTGTTGGTAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGA
1 GTAATCAAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
* *
1339846 TGCGCCTTGGAGCTGAAC
66 TGTGCCTTGGAGCTGAGC
* * * * * * * *
1339864 GTAGTCGAACTCGAAGGTC--T-TTGACAGATAGCACTTCTCGACTTAAGCTATACTACAAATGA
1 GTAATCAAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
1339926 TGTGCCTTGGAGCTGAGC
66 TGTGCCTTGGAGCTGAGC
* * * * * * * *
1339944 GTAGTCTAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGA
1 GTAATCAAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
* * *
1340009 TGTGCTCTCGAAGCTGAGT
66 TGTGC-CTTGGAGCTGAGC
* * * * * * **
1340028 GTAATTAAACTTGAGGGTC--T-TTGGCATATAGCCCTTCTCGACCTAACCTATGCTGCAAATGA
1 GTAATCAAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
*
1340090 TGTGCCTTGGAGCTGAAC
66 TGTGCCTTGGAGCTGAGC
* * *
1340108 GTAGTCAAACTCGAAGGTCTTTGGTTGGAAGATAACCCTTCTCGACTTAAGTTATGCTACAAATG
1 GTAATCAAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
* *
1340173 ATATACCTTGGAGCTGAGC
65 ATGTGCCTTGGAGCTGAGC
* ** * * * * *
1340192 GTAATCGAACTCGAAGGTCTTT-TAGTCACAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAAT
1 GTAATCAAACTCGAAGGTCTTTGT--TGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAAT
* * *
1340256 GTTGTGCCCTCGAAGCTGAGC
64 GATGTG-CCTTGGAGCTGAGC
* * * * *
1340277 GTAATCGAACTCGAGGGTC--T-TTGGCAGATAACCCTTCTCGACTTAAGCTATGTTGTAAATGA
1 GTAATCAAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
* *
1340339 TGTACCTTAGAGCTGAGC
66 TGTGCCTTGGAGCTGAGC
* * * * * *
1340357 GTAGTCAAACTCGAAGGTCTTCGTTGGCAGATAACTCTTCTAG-CTTTGAGTTATGCTACAAATG
1 GTAATCAAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGAC-TTAAGTTATGCTGCAAATG
1340421 TTGTCTTTAA
Statistics
Matches: 584, Mismatches: 125, Indels: 32
0.79 0.17 0.04
Matches are distributed among these distances:
80 117 0.20
81 74 0.13
82 5 0.01
83 138 0.24
84 158 0.27
85 92 0.16
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (83 bp):
GTAATCAAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
TGTGCCTTGGAGCTGAGC
Found at i:1340299 original size:249 final size:247
Alignment explanation
Indices: 1339619--1340420 Score: 952
Period size: 249 Copynumber: 3.2 Consensus size: 247
1339609 TCAGTAATCG
* * *
1339619 AACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATACTGCAAATGATATGCC
1 AACTCGAAGGTC-TTGGTTGGAAGATAACCCTTCTCGACTTAAGTTATACTACAAATGATAT-AC
* * * * * * * * * *
1339684 CTCGAAGCTGAGTGTAATCAAAATTGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGC
64 CTTGGAGCTGAGCGTAATCAAACTCGAAGGTCTTTGG-TGACAGATAACCCTTCTAGCCTTGAGT
* * * * *
1339749 TATGTTGCAAATGTTGTGCCTTTG-AGCTGAGTGTAATCAAACTCGAAGGTCTTTGTTGGTAGAT
128 TATGTTGTAAATGTTGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAGGGTC--T-TTGGCAGAT
* * * * *
1339813 AACCCTTCTAG-CCTTGAGTTATGCTGCAAATGATGCGCCTTGGAGCTGAACGTAGTCG
190 AACCCTTCTCGACC-TAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAACGTAGTCA
* * * * *
1339871 AACTCGAAGGTC-T--TT-GACAGATAGCACTTCTCGACTTAAGCTATACTACAAATGATGTGCC
1 AACTCGAAGGTCTTGGTTGGA-AGATAACCCTTCTCGACTTAAGTTATACTACAAATGATATACC
* *
1339932 TTGGAGCTGAGCGTAGTCTAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTA
65 TTGGAGCTGAGCGTAATCAAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTA
* * * * * * *
1339997 TGCTGTAAATGATGTGCTCTCGAAGCTGAGTGTAATTAAACTTGAGGGTCTTTGGCATATAGCCC
130 TGTTGTAAATGTTGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGGCAGATAACCC
*
1340062 TTCTCGACCTAACCTATGCTGCAAATGATGTGCCTTGGAGCTGAACGTAGTCA
195 TTCTCGACCTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAACGTAGTCA
*
1340115 AACTCGAAGGTCTTTGGTTGGAAGATAACCCTTCTCGACTTAAGTTATGCTACAAATGATATACC
1 AACTCGAAGGTC-TTGGTTGGAAGATAACCCTTCTCGACTTAAGTTATACTACAAATGATATACC
* * *
1340180 TTGGAGCTGAGCGTAATCGAACTCGAAGGTCTTTTAGTCACAGATAACCCTTCTAGCCTTGAGTT
65 TTGGAGCTGAGCGTAATCAAACTCGAAGGTC-TTTGGTGACAGATAACCCTTCTAGCCTTGAGTT
* *
1340245 ATGTTGTAAATGTTGTGCCCTCGAAGCTGAGCGTAATCGAACTCGAGGGTCTTTGGCAGATAACC
129 ATGTTGTAAATGTTGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGGCAGATAACC
* * * * * *
1340310 CTTCTCGACTTAAGCTATGTTGTAAATGATGTACCTTAGAGCTGAGCGTAGTCA
194 CTTCTCGACCTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAACGTAGTCA
* * * * * *
1340364 AACTCGAAGGTCTTCGTTGGCAGATAACTCTTCTAG-CTTTGAGTTATGCTACAAATG
1 AACTCGAAGGTCTTGGTTGGAAGATAACCCTTCTCGAC-TTAAGTTATACTACAAATG
1340421 TTGTCTTTAA
Statistics
Matches: 472, Mismatches: 68, Indels: 24
0.84 0.12 0.04
Matches are distributed among these distances:
244 67 0.14
245 3 0.01
246 41 0.09
247 57 0.12
248 143 0.30
249 148 0.31
250 1 0.00
252 12 0.03
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (247 bp):
AACTCGAAGGTCTTGGTTGGAAGATAACCCTTCTCGACTTAAGTTATACTACAAATGATATACCT
TGGAGCTGAGCGTAATCAAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTAT
GTTGTAAATGTTGTGCCCTCGAAGCTGAGTGTAATCAAACTCGAGGGTCTTTGGCAGATAACCCT
TCTCGACCTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAACGTAGTCA
Found at i:1345668 original size:8 final size:8
Alignment explanation
Indices: 1345657--1345736 Score: 72
Period size: 8 Copynumber: 9.5 Consensus size: 8
1345647 TAAATATTAC
*
1345657 ATAAGAAA
1 ATAATAAA
1345665 ATAAATAAA
1 AT-AATAAA
*
1345674 ATAATAGA
1 ATAATAAA
1345682 ATAATAAA
1 ATAATAAA
1345690 ATAAT-AA
1 ATAATAAA
*
1345697 ATCAAAACAA
1 AT-AATA-AA
1345707 ATAATAAA
1 ATAATAAA
1345715 ATAATAATA
1 ATAATAA-A
*
1345724 AAAATAATA
1 ATAATAA-A
1345733 ATAA
1 ATAA
1345737 AAACATAAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
7 4 0.07
8 30 0.50
9 22 0.37
10 4 0.07
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.23
Consensus pattern (8 bp):
ATAATAAA
Found at i:1345682 original size:19 final size:24
Alignment explanation
Indices: 1345640--1345689 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
1345630 GATAGAAAAG
1345640 TAATAAATAAATATTACATAAGAA
1 TAATAAATAAATATTACATAAGAA
1345664 -AATAAATAAA-A-TA-AT-AGAA
1 TAATAAATAAATATTACATAAGAA
1345683 TAATAAA
1 TAATAAA
1345690 ATAATAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 4 0.16
20 8 0.32
21 2 0.08
22 1 0.04
23 10 0.40
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (24 bp):
TAATAAATAAATATTACATAAGAA
Found at i:1345691 original size:25 final size:22
Alignment explanation
Indices: 1345645--1345733 Score: 74
Period size: 25 Copynumber: 3.9 Consensus size: 22
1345635 AAAAGTAATA
* * *
1345645 AATAAATATTACATAAGAAAAT
1 AATAAATAATAAATAATAAAAT
1345667 AAATAAAATAATAGAATAATAAAAT
1 -AAT-AAATAATA-AATAATAAAAT
*
1345692 AATAAATCAAAACAAATAATAAAAT
1 AATAAAT---AATAAATAATAAAAT
1345717 AAT-AATAA-AAATAATAA
1 AATAAATAATAAATAATAA
1345734 TAAAAACATA
Statistics
Matches: 57, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
20 9 0.16
21 2 0.04
23 7 0.12
24 13 0.23
25 23 0.40
26 3 0.05
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (22 bp):
AATAAATAATAAATAATAAAAT
Found at i:1345712 original size:28 final size:28
Alignment explanation
Indices: 1345664--1345725 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
1345654 TACATAAGAA
*
1345664 AATAAATAAAATAATAGAATAATAA-AAT
1 AATAAATAAAACAATAGAATAA-AATAAT
*
1345692 AATAAATCAAAACAA-ATAATAAAATAAT
1 AATAAAT-AAAACAATAGAATAAAATAAT
1345720 AATAAA
1 AATAAA
1345726 AATAATAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 2 0.07
28 22 0.73
29 6 0.20
ACGTcount: A:0.73, C:0.03, G:0.02, T:0.23
Consensus pattern (28 bp):
AATAAATAAAACAATAGAATAAAATAAT
Found at i:1345713 original size:36 final size:36
Alignment explanation
Indices: 1345673--1345741 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
1345663 AAATAAATAA
* *
1345673 AATAATAGAATAAT-AAAATAATAAATCAAAACAAAT
1 AATAAAAGAATAATAAAAATAAT-AATAAAAACAAAT
*
1345709 AATAAAATAATAATAAAAATAATAATAAAAACA
1 AATAAAAGAATAATAAAAATAATAATAAAAACA
1345742 TAAATCAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
36 21 0.72
37 8 0.28
ACGTcount: A:0.72, C:0.04, G:0.01, T:0.22
Consensus pattern (36 bp):
AATAAAAGAATAATAAAAATAATAATAAAAACAAAT
Found at i:1345744 original size:20 final size:19
Alignment explanation
Indices: 1345687--1345745 Score: 52
Period size: 20 Copynumber: 3.1 Consensus size: 19
1345677 ATAGAATAAT
1345687 AAAATAATAAATCAAAACA-A
1 AAAATAAT-AAT-AAAACATA
* *
1345707 ATAATAA-AATAATA-ATA
1 AAAATAATAATAAAACATA
1345724 AAAATAATAATAAAAACATA
1 AAAATAATAAT-AAAACATA
1345744 AA
1 AA
1345746 TCAAAGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
16 1 0.03
17 10 0.32
18 6 0.19
19 3 0.10
20 11 0.35
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (19 bp):
AAAATAATAATAAAACATA
Found at i:1345769 original size:48 final size:50
Alignment explanation
Indices: 1345657--1345770 Score: 132
Period size: 48 Copynumber: 2.3 Consensus size: 50
1345647 TAAATATTAC
*
1345657 ATAAGAAAATAAATAAAATAATAGAATAATAAAATAATAAATCAAAACAA
1 ATAATAAAATAAATAAAATAATAGAATAATAAAATAATAAATCAAAACAA
*
1345707 ATAATAAAAT-AATAATAA-AA-ATAATAATAAAA-ACATAAATCAAAGA-AA
1 ATAATAAAATAAATAA-AATAATAGAATAATAAAATA-ATAAATCAAA-ACAA
*
1345755 A-AATTAAATAAATAAA
1 ATAATAAAATAAATAAA
1345771 TTGGAAAAAA
Statistics
Matches: 57, Mismatches: 3, Indels: 11
0.80 0.04 0.15
Matches are distributed among these distances:
47 9 0.16
48 29 0.51
49 8 0.14
50 11 0.19
ACGTcount: A:0.73, C:0.04, G:0.03, T:0.21
Consensus pattern (50 bp):
ATAATAAAATAAATAAAATAATAGAATAATAAAATAATAAATCAAAACAA
Found at i:1351567 original size:8 final size:8
Alignment explanation
Indices: 1351551--1351611 Score: 56
Period size: 8 Copynumber: 7.6 Consensus size: 8
1351541 TAAGAAATAA
1351551 AATAAAAT
1 AATAAAAT
*
1351559 AATAGAAT
1 AATAAAAT
1351567 AAT-AAA-
1 AATAAAAT
1351573 AAT-AAAT
1 AATAAAAT
*
1351580 CAAAACAAAT
1 -AATA-AAAT
1351590 AATAAAAT
1 AATAAAAT
1351598 AATAAAAAT
1 AAT-AAAAT
1351607 AATAA
1 AATAA
1351612 TAAAACATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
6 6 0.14
7 2 0.05
8 21 0.48
9 11 0.25
10 4 0.09
ACGTcount: A:0.74, C:0.03, G:0.02, T:0.21
Consensus pattern (8 bp):
AATAAAAT
Found at i:1351574 original size:17 final size:17
Alignment explanation
Indices: 1351554--1351611 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 17
1351544 GAAATAAAAT
*
1351554 AAAATAATAGAATAATA
1 AAAATAATAAAATAATA
**
1351571 AAAATAA-ATCA-AA-A
1 AAAATAATAAAATAATA
*
1351585 CAAATAATAAAATAATA
1 AAAATAATAAAATAATA
1351602 AAAATAATAA
1 AAAATAATAA
1351612 TAAAACATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
14 7 0.22
15 4 0.12
16 4 0.12
17 17 0.53
ACGTcount: A:0.74, C:0.03, G:0.02, T:0.21
Consensus pattern (17 bp):
AAAATAATAAAATAATA
Found at i:1351594 original size:23 final size:23
Alignment explanation
Indices: 1351564--1351627 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 23
1351554 AAAATAATAG
1351564 AATAATAAAAATAAATCAAAACA-
1 AATAATAAAAATAAATCAAAA-AT
1351587 AATAAT-AAAAT-AAT-AAAAAT
1 AATAATAAAAATAAATCAAAAAT
1351607 AATAATAAAACATAAATCAAA
1 AATAATAAAA-ATAAATCAAA
1351628 GAAAAAATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
19 1 0.03
20 10 0.28
21 6 0.17
22 7 0.19
23 9 0.25
24 3 0.08
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.20
Consensus pattern (23 bp):
AATAATAAAAATAAATCAAAAAT
Found at i:1351682 original size:27 final size:25
Alignment explanation
Indices: 1351652--1351719 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 25
1351642 AATAAATTGG
1351652 AAAAAATATAAAAAAAGAATA-AG-T
1 AAAAAATATAAAAAAA-AATAGAGAT
*
1351676 CAAAAAAATACTAAAATAAAATAGAGAAT
1 --AAAAAATA-TAAAAAAAAATAGAG-AT
1351705 AAAAAATATAAAAAA
1 AAAAAATATAAAAAA
1351720 TAAAAAATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
26 18 0.50
27 17 0.47
29 1 0.03
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (25 bp):
AAAAAATATAAAAAAAAATAGAGAT
Found at i:1351723 original size:16 final size:16
Alignment explanation
Indices: 1351702--1351749 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
1351692 TAAAATAGAG
1351702 AATAAAAAATATAAAA
1 AATAAAAAATATAAAA
* *
1351718 AATAAAAAATGA-ATAG
1 AATAAAAAAT-ATAAAA
1351734 AATAAAAAA-ATAAAA
1 AATAAAAAATATAAAA
1351749 A
1 A
1351750 GGTTGAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
14 1 0.04
15 3 0.12
16 21 0.81
17 1 0.04
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.17
Consensus pattern (16 bp):
AATAAAAAATATAAAA
Found at i:1354650 original size:19 final size:20
Alignment explanation
Indices: 1354622--1354659 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
1354612 TCTTTCATTC
*
1354622 AAAAGTATTGATA-TTTGTG
1 AAAAGCATTGATACTTTGTG
1354641 AAAAGCATTGATACTTTGT
1 AAAAGCATTGATACTTTGT
1354660 ATCCTCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.39
Consensus pattern (20 bp):
AAAAGCATTGATACTTTGTG
Found at i:1356076 original size:23 final size:24
Alignment explanation
Indices: 1356022--1356075 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
1356012 ATTAAATATT
*
1356022 AATATAATTATCAAATACAATTAAA
1 AATAAAATT-TCAAATACAATTAAA
*
1356047 AATAAAATTTCAACTACAA-T-AA
1 AATAAAATTTCAAATACAATTAAA
1356069 AATAAAA
1 AATAAAA
1356076 AATTCAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 9 0.33
23 1 0.04
24 9 0.33
25 8 0.30
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (24 bp):
AATAAAATTTCAAATACAATTAAA
Found at i:1356077 original size:24 final size:25
Alignment explanation
Indices: 1356027--1356079 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
1356017 ATATTAATAT
*
1356027 AATTATCAAATACAATTAAAAATAA
1 AATTATCAAATACAATTAAAAAAAA
*
1356052 AATT-TCAACTACAA-TAAAATAAAA
1 AATTATCAAATACAATTAAAA-AAAA
1356076 AATT
1 AATT
1356080 CAATAATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.20
24 16 0.64
25 4 0.16
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.28
Consensus pattern (25 bp):
AATTATCAAATACAATTAAAAAAAA
Found at i:1359798 original size:20 final size:20
Alignment explanation
Indices: 1359768--1359824 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
1359758 ATACTGAGCC
1359768 CCCTC-AGTATCGATACTGA
1 CCCTCGAGTATCGATACTGA
*
1359787 CCCTCGAGTATCGATATTGA
1 CCCTCGAGTATCGATACTGA
*
1359807 CCCTCGGGTATCGATACT
1 CCCTCGAGTATCGATACT
1359825 CACATTTGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 5 0.15
20 29 0.85
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (20 bp):
CCCTCGAGTATCGATACTGA
Found at i:1365772 original size:19 final size:20
Alignment explanation
Indices: 1365741--1365779 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
1365731 TTTTAATTAA
1365741 AAATATAATTAAAA-AATTT
1 AAATATAATTAAAATAATTT
1365760 AAATA-AATATAAAATAATTT
1 AAATATAAT-TAAAATAATTT
1365780 TATTACAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.17
19 10 0.56
20 5 0.28
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAATATAATTAAAATAATTT
Found at i:1366272 original size:37 final size:38
Alignment explanation
Indices: 1366222--1366319 Score: 164
Period size: 38 Copynumber: 2.6 Consensus size: 38
1366212 TCAAAGTGAT
1366222 GAGTCACAATGAATATATTAAAATTAGT-CACATTGAC
1 GAGTCACAATGAATATATTAAAATTAGTCCACATTGAC
*
1366259 GAGTCACAATGAATAT-TAAAATATTAGTCCACATTGAC
1 GAGTCACAATGAATATATTAAA-ATTAGTCCACATTGAC
1366297 GAGTCACAATGAATATATTAAAA
1 GAGTCACAATGAATATATTAAAA
1366320 GATTAATCCA
Statistics
Matches: 56, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
36 4 0.07
37 22 0.39
38 26 0.46
39 4 0.07
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (38 bp):
GAGTCACAATGAATATATTAAAATTAGTCCACATTGAC
Found at i:1366301 original size:38 final size:37
Alignment explanation
Indices: 1366222--1366332 Score: 152
Period size: 37 Copynumber: 2.9 Consensus size: 37
1366212 TCAAAGTGAT
*
1366222 GAGTCACAATGAATATATTAAAATTAGT-CACATTGAC
1 GAGTCACAATGAATAT-TAAAAATTAGTCCACATTGAC
1366259 GAGTCACAATGAATATTAAAATATTAGTCCACATTGAC
1 GAGTCACAATGAATATTAAAA-ATTAGTCCACATTGAC
*
1366297 GAGTCACAATGAATATATTAAAAGATTAATCCACAT
1 GAGTCACAATG-A-ATATTAAAA-ATTAGTCCACAT
1366333 AGGGCTCATA
Statistics
Matches: 67, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
36 4 0.06
37 22 0.33
38 20 0.30
39 1 0.01
40 20 0.30
ACGTcount: A:0.44, C:0.14, G:0.13, T:0.29
Consensus pattern (37 bp):
GAGTCACAATGAATATTAAAAATTAGTCCACATTGAC
Found at i:1368345 original size:16 final size:16
Alignment explanation
Indices: 1368326--1368357 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1368316 TTGCCCCATT
*
1368326 CGTATTTTCTCATCAA
1 CGTATTTTCACATCAA
1368342 CGTATTTTCACATCAA
1 CGTATTTTCACATCAA
1368358 TTTAGCCCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.41
Consensus pattern (16 bp):
CGTATTTTCACATCAA
Found at i:1370722 original size:21 final size:23
Alignment explanation
Indices: 1370679--1370725 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
1370669 AACTCAAAAC
1370679 TTAAATTTATTACAAATACCTTT
1 TTAAATTTATTACAAATACCTTT
1370702 TTAAA-TTATTACAAA-ACCTTT
1 TTAAATTTATTACAAATACCTTT
1370723 TTA
1 TTA
1370726 TGATTTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 9 0.38
22 10 0.42
23 5 0.21
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (23 bp):
TTAAATTTATTACAAATACCTTT
Found at i:1370913 original size:20 final size:20
Alignment explanation
Indices: 1370888--1370970 Score: 139
Period size: 20 Copynumber: 4.2 Consensus size: 20
1370878 CCAAATTCGT
*
1370888 AACGCGAATGGGTAAATCGC
1 AACGCGAATAGGTAAATCGC
1370908 AACGCGAATAGGTAAATCGC
1 AACGCGAATAGGTAAATCGC
1370928 AACGCGAATAGGTAAATCGC
1 AACGCGAATAGGTAAATCGC
**
1370948 AACGCGAATTTGTAAATCGC
1 AACGCGAATAGGTAAATCGC
1370968 AAC
1 AAC
1370971 ACGCGATTTT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (20 bp):
AACGCGAATAGGTAAATCGC
Found at i:1371473 original size:20 final size:20
Alignment explanation
Indices: 1371448--1371493 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
1371438 GATTGAGTTG
*
1371448 TGATTTAGGGTTTTTGGTTA
1 TGATTTAGGGTTTTAGGTTA
1371468 TGATTTAGGGTTTTAGGTTA
1 TGATTTAGGGTTTTAGGTTA
1371488 TGATTT
1 TGATTT
1371494 GCGATTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.17, C:0.00, G:0.28, T:0.54
Consensus pattern (20 bp):
TGATTTAGGGTTTTAGGTTA
Found at i:1371624 original size:20 final size:20
Alignment explanation
Indices: 1371601--1371665 Score: 103
Period size: 20 Copynumber: 3.2 Consensus size: 20
1371591 TGACTTCTGT
1371601 GTTGCGATTTACATATTCGC
1 GTTGCGATTTACATATTCGC
**
1371621 GTTGCGATTTACATATTATC
1 GTTGCGATTTACATATTCGC
*
1371641 GTTGCGATTTACCTATTCGC
1 GTTGCGATTTACATATTCGC
1371661 GTTGC
1 GTTGC
1371666 CAATTTGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.42
Consensus pattern (20 bp):
GTTGCGATTTACATATTCGC
Found at i:1387707 original size:28 final size:28
Alignment explanation
Indices: 1387675--1387764 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
1387665 CTTTAATAAG
1387675 ATGTTCAATATGGTACTTATATTTCTAA
1 ATGTTCAATATGGTACTTATATTTCTAA
* *
1387703 ATGTTTAATATGGTTC-T-TATTTCTAAA
1 ATGTTCAATATGGTACTTATATTTCT-AA
*
1387730 ATATTTC-ATATGGTATCTATATATTGT-TAA
1 AT-GTTCAATATGGTA-CT-TATATT-TCTAA
1387760 ATGTT
1 ATGTT
1387765 TAATGACTTA
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
26 7 0.14
27 12 0.24
28 17 0.35
29 2 0.04
30 5 0.10
31 5 0.10
32 1 0.02
ACGTcount: A:0.31, C:0.08, G:0.11, T:0.50
Consensus pattern (28 bp):
ATGTTCAATATGGTACTTATATTTCTAA
Found at i:1387952 original size:26 final size:27
Alignment explanation
Indices: 1387901--1387952 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
1387891 TAAATAAAAT
* * *
1387901 CATATTAGATAATTTATATATGTATAC
1 CATAGTAGATAATTTAAATATATATAC
1387928 CATAGTAGAT-ATTTAAATATATATA
1 CATAGTAGATAATTTAAATATATATA
1387953 TATACATACA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (27 bp):
CATAGTAGATAATTTAAATATATATAC
Found at i:1395387 original size:29 final size:28
Alignment explanation
Indices: 1395344--1395409 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 28
1395334 ATAATTTTAA
1395344 ATATTTTAAATAATTGATTT-TTATAAAAT
1 ATATTTTAAATAATT-ATTTATT-TAAAAT
1395373 ATATATTTAAA-AATTATTTGATTTAAAAT
1 ATAT-TTTAAATAATTATTT-ATTTAAAAT
1395402 ATACTTTT
1 ATA-TTTT
1395410 TATATTCTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
28 4 0.12
29 20 0.61
30 9 0.27
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.52
Consensus pattern (28 bp):
ATATTTTAAATAATTATTTATTTAAAAT
Found at i:1399625 original size:21 final size:21
Alignment explanation
Indices: 1399543--1399619 Score: 122
Period size: 21 Copynumber: 3.8 Consensus size: 21
1399533 TCCATTTATT
1399543 TTGGAGACTATCGCAACGAAC
1 TTGGAGACTATCGCAACGAAC
*
1399564 TTGGAGACTATCGCAACGCAC
1 TTGGAGACTATCGCAACGAAC
*
1399585 TTGGAGACTATCGCAGCGAAC
1 TTGGAGACTATCGCAACGAAC
1399606 TT-G-GACTATCGCAA
1 TTGGAGACTATCGCAA
1399620 TGCGAATATG
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
19 10 0.19
20 1 0.02
21 41 0.79
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.21
Consensus pattern (21 bp):
TTGGAGACTATCGCAACGAAC
Found at i:1401852 original size:54 final size:54
Alignment explanation
Indices: 1401788--1401924 Score: 238
Period size: 54 Copynumber: 2.5 Consensus size: 54
1401778 AAACGAATCT
* *
1401788 ATGCAATTATTATTGAACAAAACATTTATACACGTCTTCAAGTAGGGGACATAC
1 ATGCACTTATTCTTGAACAAAACATTTATACACGTCTTCAAGTAGGGGACATAC
*
1401842 ATGCACTTATTCTCGAACAAAACATTTATACACGTCTTCAAGTAGGGGACATAC
1 ATGCACTTATTCTTGAACAAAACATTTATACACGTCTTCAAGTAGGGGACATAC
*
1401896 ATGCACTTATCCTTGAACAAAACATTTAT
1 ATGCACTTATTCTTGAACAAAACATTTAT
1401925 CCGCAATACA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 78 1.00
ACGTcount: A:0.37, C:0.20, G:0.13, T:0.30
Consensus pattern (54 bp):
ATGCACTTATTCTTGAACAAAACATTTATACACGTCTTCAAGTAGGGGACATAC
Found at i:1417732 original size:3 final size:3
Alignment explanation
Indices: 1417726--1417750 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1417716 TTTTTAAATA
1417726 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
1417751 TAAAAATGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1418652 original size:30 final size:31
Alignment explanation
Indices: 1418618--1418689 Score: 110
Period size: 30 Copynumber: 2.3 Consensus size: 31
1418608 ACGGTAGAAG
*
1418618 AAGAGAAAAGAATGATAATTCTCTCGAT-AA
1 AAGAGAAAACAATGATAATTCTCTCGATAAA
*
1418648 AAGAGAAAACAATGATAATTCTCTCTATAAA
1 AAGAGAAAACAATGATAATTCTCTCGATAAA
1418679 AAGGAGAAAAC
1 AA-GAGAAAAC
1418690 TAGAATCCCT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 26 0.68
31 4 0.11
32 8 0.21
ACGTcount: A:0.53, C:0.11, G:0.15, T:0.21
Consensus pattern (31 bp):
AAGAGAAAACAATGATAATTCTCTCGATAAA
Found at i:1421969 original size:209 final size:209
Alignment explanation
Indices: 1421725--1422230 Score: 867
Period size: 209 Copynumber: 2.4 Consensus size: 209
1421715 AAATTGCTTG
*
1421725 TTGACAACCAACGGT-CCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCC-ATATCCTTCG
1 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCG
*
1421788 TTGGGAAGTTGAAATTGGCTCTGAAATGGAGAAA-TG-TTGGTGACAACCAGCGGTCCCTTCGTC
66 TTGTGAAGTTGAAATTGGCTCTGAAATGGAGAAATTGTTTGGTGACAACCAGC-GTCCCTTCGTC
* *
1421851 GTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
130 CTGAAGTTGAACTTACGTTGTCTGGAGTCC-ATATCCTTCG-TGTGAAGTTGAAATTGGCTCTGA
1421916 AATTGAGAAGTTGTTTA
193 AATTGAGAAGTTGTTTA
*
1421933 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
1 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCG
* *
1421998 TTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAACCAGCGTCCCTTCGTCC
66 TTGTGAAGTTGAAATTGGCTCTGAAATGGAGAAATTGTTTGGTGACAACCAGCGTCCCTTCGTCC
*
1422063 TGAAGTTGAACTTACGTTGTCTGGAGTCCATATCCTTCGTGTGAAGTTGAGATTGGCTCTGAAAT
131 TGAAGTTGAACTTACGTTGTCTGGAGTCCATATCCTTCGTGTGAAGTTGAAATTGGCTCTGAAAT
1422128 TGAGAAGTTGTTTA
196 TGAGAAGTTGTTTA
*
1422142 TTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCG
1 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCG
*
1422207 CTGTGAAGTTGAAATTGGCTCTGA
66 TTGTGAAGTTGAAATTGGCTCTGA
1422231 GTAAAACCTG
Statistics
Matches: 283, Mismatches: 11, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
208 14 0.05
209 162 0.57
210 52 0.18
211 41 0.14
212 14 0.05
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (209 bp):
TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCG
TTGTGAAGTTGAAATTGGCTCTGAAATGGAGAAATTGTTTGGTGACAACCAGCGTCCCTTCGTCC
TGAAGTTGAACTTACGTTGTCTGGAGTCCATATCCTTCGTGTGAAGTTGAAATTGGCTCTGAAAT
TGAGAAGTTGTTTA
Found at i:1421974 original size:106 final size:106
Alignment explanation
Indices: 1421725--1422230 Score: 837
Period size: 106 Copynumber: 4.8 Consensus size: 106
1421715 AAATTGCTTG
*
1421725 TTGACAACCAACGGT-CCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCC-ATATCCTTCG
1 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCG
* * * *
1421788 TTGGGAAGTTGAAATTGGCTCTGAAATGGAGAA-ATG-TTG
66 TTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTA
* *
1421827 GTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
1 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCG
1421892 TTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTA
66 TTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTA
*
1421933 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCG
1 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCG
* *
1421998 TTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTG
66 TTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTA
*
1422039 TTGACAACCAGC-GTCCCTTCGTCCTGAAGTTGAACTTACGTTGTCTGGAGTCC-ATATCCTTCG
1 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCG
*
1422102 -TGTGAAGTTGAGATTGGCTCTGAAATTGAGAAGTTGTTTA
66 TTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTA
*
1422142 TTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCG
1 TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCG
*
1422207 CTGTGAAGTTGAAATTGGCTCTGA
66 TTGTGAAGTTGAAATTGGCTCTGA
1422231 GTAAAACCTG
Statistics
Matches: 380, Mismatches: 17, Indels: 10
0.93 0.04 0.02
Matches are distributed among these distances:
102 13 0.03
103 86 0.23
104 91 0.24
105 51 0.13
106 139 0.37
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (106 bp):
TTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCG
TTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTA
Found at i:1429389 original size:20 final size:22
Alignment explanation
Indices: 1429366--1429406 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
1429356 TCTTCTAATA
*
1429366 TTTTATCTTT-TCTTC-CATCT
1 TTTTAGCTTTATCTTCTCATCT
1429386 TTTTAGCTTTATCTTCTCATC
1 TTTTAGCTTTATCTTCTCATC
1429407 AAAGTCTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 5 0.28
22 4 0.22
ACGTcount: A:0.12, C:0.24, G:0.02, T:0.61
Consensus pattern (22 bp):
TTTTAGCTTTATCTTCTCATCT
Found at i:1432624 original size:260 final size:258
Alignment explanation
Indices: 1432160--1432679 Score: 942
Period size: 260 Copynumber: 2.0 Consensus size: 258
1432150 ATTCCACGAA
1432160 GGCATAAGGTATATGAATCCCGAAGGCTACTGCTAGGCCATACGGTGAATAAATTCACACGAAGG
1 GGCATAAGGTATATGAATCCCGAAGGCTACTGCTAGGCCATACGGTGAATAAATTCACACGAAGG
1432225 CGTCGCTTTCACCCCACTTAAAACGGGTTCGGAGCTCGGGTATAGAGCCTTAGATGAAAAAAACT
66 CGTCGCTTTCACCCCACTTAAAACGGGTTCGGAGCTCGGGTATAGAGCCTTAGATGAAAAAAACT
1432290 TTGAAGTTGAAATCATGAGAAAACGATTAGTCCAAACTATTTACCCGAAAATATAATCAAAAGAA
131 TTGAAGTTGAAATCATGAGAAAACGATTAGTCCAAACTATTTACCCGAAAATATAATCAAAAGAA
1432355 GTAAAAAAGGATCGAAATATTACC-TAAAA-TTAAACTT-CCATTTTCGTTAACAAGACAACT
196 GTAAAAAAGGATCGAAATATTACCTTAAAATTTAAACTTACCATTTTCGTTAACAAGACAACT
1432415 GGCATAAGGTATATGAATCCCGAAGGCTACTTGCTAGGCCCATACGGTGAATAAATTCACACGAA
1 GGCATAAGGTATATGAATCCCGAAGGCTAC-TGCTAGG-CCATACGGTGAATAAATTCACACGAA
1432480 GGCGTCGCTTTCACCCCCACTTAAAACGGGTTCGGAGCTCGGGTATAGAGCCTTAGATGAAAAAA
64 GGCGTCGCTTTCA-CCCCACTTAAAACGGGTTCGGAGCTCGGGTATAGAGCCTTAGATG--AAAA
1432545 AAACTTTGAAGTCTGAAATCATGAGAAAACGATTAGTCC-AACTATTTACCCGAAAATATAATCA
126 AAACTTTGAAGT-TGAAATCATGAGAAAACGATTAGTCCAAACTATTTACCCGAAAATATAATCA
1432609 AAAGTAAGT-AAAAAGGATCGAAATATTACCTTAAAATTTAAACTTACCATTTTCGTTAACAAGA
190 AAAG-AAGTAAAAAAGGATCGAAATATTACCTTAAAATTTAAACTTACCATTTTCGTTAACAAGA
1432673 CAACT
254 CAACT
1432678 GG
1 GG
1432680 AAATTACCTT
Statistics
Matches: 255, Mismatches: 0, Indels: 12
0.96 0.00 0.04
Matches are distributed among these distances:
255 30 0.12
256 7 0.03
257 39 0.15
258 45 0.18
260 66 0.26
261 35 0.14
262 8 0.03
263 25 0.10
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.24
Consensus pattern (258 bp):
GGCATAAGGTATATGAATCCCGAAGGCTACTGCTAGGCCATACGGTGAATAAATTCACACGAAGG
CGTCGCTTTCACCCCACTTAAAACGGGTTCGGAGCTCGGGTATAGAGCCTTAGATGAAAAAAACT
TTGAAGTTGAAATCATGAGAAAACGATTAGTCCAAACTATTTACCCGAAAATATAATCAAAAGAA
GTAAAAAAGGATCGAAATATTACCTTAAAATTTAAACTTACCATTTTCGTTAACAAGACAACT
Found at i:1433192 original size:26 final size:26
Alignment explanation
Indices: 1433131--1433196 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
1433121 ATATATGACG
*
1433131 GTAATAATAATAAAGATATAAACAATG
1 GTAATAATAA-AAAGATATAAACAATA
* * * *
1433158 GGAAAAATAAAAAGATATATATAATA
1 GTAATAATAAAAAGATATAAACAATA
1433184 GTAATAATAAAAA
1 GTAATAATAAAAA
1433197 AACTAAAAAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
26 24 0.75
27 8 0.25
ACGTcount: A:0.64, C:0.02, G:0.11, T:0.24
Consensus pattern (26 bp):
GTAATAATAAAAAGATATAAACAATA
Found at i:1433953 original size:20 final size:20
Alignment explanation
Indices: 1433928--1433966 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1433918 CCGCCTCGCC
*
1433928 GCCGCCGTTGAACGGCGACG
1 GCCGCCGTTCAACGGCGACG
*
1433948 GCCGCCGTTCATCGGCGAC
1 GCCGCCGTTCAACGGCGAC
1433967 AAAATCAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.38, G:0.36, T:0.13
Consensus pattern (20 bp):
GCCGCCGTTCAACGGCGACG
Found at i:1442051 original size:58 final size:59
Alignment explanation
Indices: 1441982--1442093 Score: 181
Period size: 59 Copynumber: 1.9 Consensus size: 59
1441972 AAAAATTGAA
* * *
1441982 ATAATATTCACTTTTAAAATTTTA-TTTTGGGTTATTTTTACGGTTGTAATTTTTAATC
1 ATAATAATCACTTTTAAAATTTTATTTTTGGGTTAATTTTACGGTTATAATTTTTAATC
*
1442040 ATAATAATCACTTTTAAAATTTTATTTTTGGGTTAATTTTACTGTTATAATTTT
1 ATAATAATCACTTTTAAAATTTTATTTTTGGGTTAATTTTACGGTTATAATTTT
1442094 AAATATTTGT
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
58 23 0.47
59 26 0.53
ACGTcount: A:0.29, C:0.06, G:0.09, T:0.55
Consensus pattern (59 bp):
ATAATAATCACTTTTAAAATTTTATTTTTGGGTTAATTTTACGGTTATAATTTTTAATC
Found at i:1444617 original size:55 final size:55
Alignment explanation
Indices: 1444530--1444668 Score: 174
Period size: 55 Copynumber: 2.5 Consensus size: 55
1444520 AGTTGTATAA
* * *
1444530 GGGGTATTAATAGGGGAAGAGTAGATAATAATTAA-GGGGAGCGAC-GAACGATTG
1 GGGGTATTTATAGGGGAAGAGTAGGTGATAATTAAGGGGGAGCGACAG-ACGATTG
* * *
1444584 GGGGTATTTATAGGGGGAGGAGTAGGTGGTAATTAAGGGGGAGCGACAGACGGTTG
1 GGGGTATTTATA-GGGGAAGAGTAGGTGATAATTAAGGGGGAGCGACAGACGATTG
* *
1444640 GAGGTATTTTTAGGGGAAGAGTAGGTGAT
1 GGGGTATTTATAGGGGAAGAGTAGGTGAT
1444669 CCGCGTCTTC
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
54 11 0.15
55 34 0.47
56 26 0.36
57 1 0.01
ACGTcount: A:0.30, C:0.04, G:0.42, T:0.23
Consensus pattern (55 bp):
GGGGTATTTATAGGGGAAGAGTAGGTGATAATTAAGGGGGAGCGACAGACGATTG
Found at i:1445143 original size:23 final size:23
Alignment explanation
Indices: 1445117--1445164 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
1445107 AACATATTAT
**
1445117 GTAACAATTATATAATGTAATAG
1 GTAACAATTATATAATAAAATAG
**
1445140 GTAACGCTTATATAATAAAATAG
1 GTAACAATTATATAATAAAATAG
1445163 GT
1 GT
1445165 TAATTACTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.46, C:0.06, G:0.15, T:0.33
Consensus pattern (23 bp):
GTAACAATTATATAATAAAATAG
Found at i:1445298 original size:23 final size:23
Alignment explanation
Indices: 1445263--1445312 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
1445253 ATCAAGCACA
*
1445263 ATAACATATTAGGTAGCACTTAT
1 ATAACATAATAGGTAGCACTTAT
* *
1445286 ATAACGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCACTTAT
1445309 ATAA
1 ATAA
1445313 TAAAATATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (23 bp):
ATAACATAATAGGTAGCACTTAT
Found at i:1445319 original size:23 final size:23
Alignment explanation
Indices: 1445263--1445319 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 23
1445253 ATCAAGCACA
* *
1445263 ATAACATATTAGGTAGCACTTAT
1 ATAACAAAATAGGTAGCACTTAT
** *
1445286 ATAACGTAATAGGTAGCGCTTAT
1 ATAACAAAATAGGTAGCACTTAT
*
1445309 ATAATAAAATA
1 ATAACAAAATA
1445320 TTAATTATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.32
Consensus pattern (23 bp):
ATAACAAAATAGGTAGCACTTAT
Found at i:1445444 original size:23 final size:23
Alignment explanation
Indices: 1445418--1445467 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
1445408 ATCAACAATA
* *
1445418 ATAAAATATTAGGTAGCGTTTAT
1 ATAAAATAATAGGTAGCGCTTAT
** *
1445441 ATAACGTAATAGGTAGTGCTTAT
1 ATAAAATAATAGGTAGCGCTTAT
1445464 ATAA
1 ATAA
1445468 TAAAATATGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.36
Consensus pattern (23 bp):
ATAAAATAATAGGTAGCGCTTAT
Found at i:1445576 original size:157 final size:156
Alignment explanation
Indices: 1445104--1445612 Score: 754
Period size: 156 Copynumber: 3.2 Consensus size: 156
1445094 TATCAAATAC
* * ** * *
1445104 AATAACATATTATGTAACAATTATATAATGTAATAGGTAACGCTTATATAATAAAATAGGTTAAT
1 AATAACATATTAGGTAGCGTTTATATAACGTAATAGGTAGCGCTTATATAATAAAATA-GTTAAT
* * *
1445169 TACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAATGTTACCAATGATAATATAATCG
65 TACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAATGTTACCAAGGATAACATAACCG
* * *
1445234 GTTATTTATTGGAAACATTATCAAGCAC
130 GTTAATTACT-GAAACATTATCAAGCAT
**
1445262 AATAACATATTAGGTAGCACTTATATAACGTAATAGGTAGCGCTTATATAATAAAATA-TTAATT
1 AATAACATATTAGGTAGCGTTTATATAACGTAATAGGTAGCGCTTATATAATAAAATAGTTAATT
* *
1445326 ATTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAATATTACCAAGGATAACATAACCGG
66 ACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAATGTTACCAAGGATAACATAACCGG
1445391 TTAATTACTGAAACATTATCAA-CAAT
131 TTAATTACTGAAACATTATCAAGC-AT
* *
1445417 AATAAAATATTAGGTAGCGTTTATATAACGTAATAGGTAGTGCTTATATAATAAAATATGTTAAT
1 AATAACATATTAGGTAGCGTTTATATAACGTAATAGGTAGCGCTTATATAATAAAATA-GTTAAT
*
1445482 TACTTAATTTGTTATTACAACATATTAGGTAAACG-CTTAAATGTTACCAAGGATAACATAACCG
65 TACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAATGTTACCAAGGATAACATAACCG
1445546 GTTAATTACTAGAAACATTATCAAGCAT
130 GTTAATTACT-GAAACATTATCAAGCAT
* **
1445574 AATAACATATTAGGTAGCGTTTATGTAACAAAATAGGTA
1 AATAACATATTAGGTAGCGTTTATATAACGTAATAGGTA
1445613 ATTACTTACT
Statistics
Matches: 322, Mismatches: 24, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
154 1 0.00
155 68 0.21
156 110 0.34
157 89 0.28
158 54 0.17
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.34
Consensus pattern (156 bp):
AATAACATATTAGGTAGCGTTTATATAACGTAATAGGTAGCGCTTATATAATAAAATAGTTAATT
ACTTAATTTGTTATTACAACATATTAGGTAAACGCCTAAAATGTTACCAAGGATAACATAACCGG
TTAATTACTGAAACATTATCAAGCAT
Found at i:1445869 original size:72 final size:73
Alignment explanation
Indices: 1445681--1445918 Score: 363
Period size: 73 Copynumber: 3.2 Consensus size: 73
1445671 AAAATTTAAA
* * *
1445681 CTACCTATTACATTAAAATACCTATC-AATTTTTTGAAGGTTGTTAATAATATAAACGGTAAAAA
1 CTACCTATTACATTAAAATACCTATCGATTTTTTTGAAGGTTGCTAATAATGTAAACGGTAAAAA
*
1445745 AAATAGACG
66 AAATAG-TG
* * *
1445754 CTACCTATTACATAAAAATACCTATCAGTTTTTTTTGAAGGTTGCTAATAATGTAAATGGT-AAA
1 CTACCTATTACATTAAAATACCTATC-GATTTTTTTGAAGGTTGCTAATAATGTAAACGGTAAAA
1445818 AAAATAGTG
65 AAAATAGTG
1445827 CTACCTATTACATTAAAATACCTATCGATTTTTTTGAAGGTTGCTAATAATGTAAACGGTAAAAA
1 CTACCTATTACATTAAAATACCTATCGATTTTTTTGAAGGTTGCTAATAATGTAAACGGT-AAAA
1445892 AAAATAGGTG
65 AAAATA-GTG
1445902 CTACCTATTACATTAAA
1 CTACCTATTACATTAAA
1445919 CTACTTACCG
Statistics
Matches: 150, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
72 32 0.21
73 51 0.34
74 19 0.13
75 48 0.32
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.34
Consensus pattern (73 bp):
CTACCTATTACATTAAAATACCTATCGATTTTTTTGAAGGTTGCTAATAATGTAAACGGTAAAAA
AAATAGTG
Found at i:1445939 original size:75 final size:73
Alignment explanation
Indices: 1445681--1445928 Score: 329
Period size: 75 Copynumber: 3.4 Consensus size: 73
1445671 AAAATTTAAA
* * * *
1445681 CTACCTATTACATTAAAATACCTATCAATTTTTTGAAGGTTGTTAATAATATAAACGGTAAAAAA
1 CTACCTATTACATTAAAATACCTACCGATTTTTTGAAGGTTGCTAATAATGTAAACGGTAAAAAA
**
1445746 AATAGACG
66 AATAGGTG
* * * *
1445754 CTACCTATTACATAAAAATACCTATCAGTTTTTTTTGAAGGTTGCTAATAATGTAAATGGT-AAA
1 CTACCTATTACATTAAAATACCTA-CCG-ATTTTTTGAAGGTTGCTAATAATGTAAACGGTAAAA
1445818 AAAATA-GTG
64 AAAATAGGTG
*
1445827 CTACCTATTACATTAAAATACCTATCGATTTTTTTGAAGGTTGCTAATAATGTAAACGGTAAAAA
1 CTACCTATTACATTAAAATACCTACCGA-TTTTTTGAAGGTTGCTAATAATGTAAACGGT-AAAA
1445892 AAAATAGGTG
64 AAAATAGGTG
* *
1445902 CTACCTATTACATTAAACTACTTACCG
1 CTACCTATTACATTAAAATACCTACCG
1445929 GATATGTTGA
Statistics
Matches: 151, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
72 31 0.21
73 47 0.31
74 18 0.12
75 55 0.36
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (73 bp):
CTACCTATTACATTAAAATACCTACCGATTTTTTGAAGGTTGCTAATAATGTAAACGGTAAAAAA
AATAGGTG
Found at i:1446436 original size:226 final size:225
Alignment explanation
Indices: 1446009--1446475 Score: 648
Period size: 226 Copynumber: 2.1 Consensus size: 225
1445999 TAACGCCTAT
* *
1446009 AAAGTATCGATACTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAAATATGATAA
1 AAAGTATCGATACTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAAACATGACAA
* * * * * *
1446074 AATCAGTTTCATTATGATAAAATCGGCAAAGAACTACTTGATATGTTGAAAGTATCTATACTTTA
66 AACCAATTTCATTATGACAAAACCGGCAAAGAACTACCTGATATGTTGAAAGTATCGATACTTTA
* * * *
1446139 TAAAAATGTATCGATATTTTACAATATAACATGTAAAAATATAACAAAATCAGTTTCATTATGAA
131 TAAAAATGTATCAATACTTTACAATATAACAGGTAAAAATATAACAAAACCAGTTTCATTATGAA
* *
1446204 AAAATCGGTAAAGAAATACATAATATGTTG
196 AAAATCGGTAAAGAAATACATAATATATTA
* * *
1446234 AAAGTATCGATACTTTATAAGAATGTATCGATGCTTTACAATATAACATGT-AAAAACATGACAA
1 AAAGTATCGATACTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAAACATGACAA
* * * *
1446298 AGCCAATTTCATTATGACAAAACCGGTAAAGAGCTACCTGATATGTTGAAAGTATCGATTCTTTT
66 AACCAATTTCATTATGACAAAACCGGCAAAGAACTACCTGATATGTTGAAAGTATCGATAC--TT
* *
1446363 TATAAAAATGTATCAATACTTTACAATATAATAGGTAAAAATATGACAAAACCAGTTTCATTATG
129 TATAAAAATGTATCAATACTTTACAATATAACAGGTAAAAATATAACAAAACCAGTTTCATTATG
* ** * *
1446428 ATAAAATCGGTAAAGAGTTACCTGATATATTA
194 AAAAAATCGGTAAAGAAATACATAATATATTA
*
1446460 AAAGTATAGATACTTT
1 AAAGTATCGATACTTT
1446476 TTGTACATAT
Statistics
Matches: 211, Mismatches: 29, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
224 62 0.29
225 48 0.23
226 101 0.48
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.32
Consensus pattern (225 bp):
AAAGTATCGATACTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAAACATGACAA
AACCAATTTCATTATGACAAAACCGGCAAAGAACTACCTGATATGTTGAAAGTATCGATACTTTA
TAAAAATGTATCAATACTTTACAATATAACAGGTAAAAATATAACAAAACCAGTTTCATTATGAA
AAAATCGGTAAAGAAATACATAATATATTA
Found at i:1446477 original size:114 final size:112
Alignment explanation
Indices: 1446009--1446475 Score: 637
Period size: 112 Copynumber: 4.1 Consensus size: 112
1445999 TAACGCCTAT
*
1446009 AAAGTATCGATACTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAAATATGATAA
1 AAAGTATCGATACTTTATAAAAATGTATCGATACTTTACAATATAACAGGT-AAAAATATGACAA
* * *
1446074 AATCAGTTTCATTATGATAAAATCGGCAAAGAACTACTTGATATGTTG
65 AACCAGTTTCATTATGATAAAATCGGTAAAGAACTACCTGATATGTTG
* * * *
1446122 AAAGTATCTATACTTTATAAAAATGTATCGATATTTTACAATATAACATGTAAAAATATAACAAA
1 AAAGTATCGATACTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAATATGACAAA
* * * * *
1446187 ATCAGTTTCATTATGAAAAAATCGGTAAAGAAATACATAATATGTTG
66 ACCAGTTTCATTATGATAAAATCGGTAAAGAACTACCTGATATGTTG
* * * *
1446234 AAAGTATCGATACTTTATAAGAATGTATCGATGCTTTACAATATAACATGTAAAAACATGACAAA
1 AAAGTATCGATACTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAATATGACAAA
* * * * *
1446299 GCCAATTTCATTATGACAAAACCGGTAAAGAGCTACCTGATATGTTG
66 ACCAGTTTCATTATGATAAAATCGGTAAAGAACTACCTGATATGTTG
* * *
1446346 AAAGTATCGATTCTTTTTATAAAAATGTATCAATACTTTACAATATAATAGGTAAAAATATGACA
1 AAAGTATCGATAC--TTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAATATGACA
** * *
1446411 AAACCAGTTTCATTATGATAAAATCGGTAAAGAGTTACCTGATATATTA
64 AAACCAGTTTCATTATGATAAAATCGGTAAAGAACTACCTGATATGTTG
*
1446460 AAAGTATAGATACTTT
1 AAAGTATCGATACTTT
1446476 TTGTACATAT
Statistics
Matches: 311, Mismatches: 41, Indels: 5
0.87 0.11 0.01
Matches are distributed among these distances:
112 166 0.53
113 48 0.15
114 97 0.31
ACGTcount: A:0.44, C:0.11, G:0.12, T:0.32
Consensus pattern (112 bp):
AAAGTATCGATACTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAATATGACAAA
ACCAGTTTCATTATGATAAAATCGGTAAAGAACTACCTGATATGTTG
Found at i:1448554 original size:16 final size:17
Alignment explanation
Indices: 1448530--1448570 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
1448520 GTTCTTTGCC
1448530 ATTGAATTTACTCA-GT
1 ATTGAATTTACTCATGT
* *
1448546 ATTGTATTTTCTCATGT
1 ATTGAATTTACTCATGT
1448563 A-TGAATTT
1 ATTGAATTT
1448571 CACCTGTGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 18 0.86
17 3 0.14
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.51
Consensus pattern (17 bp):
ATTGAATTTACTCATGT
Done.