Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 19 of 199
Found at i:6150490 original size:132 final size:131
Alignment explanation
Indices: 6150325--6150985 Score: 839
Period size: 132 Copynumber: 5.0 Consensus size: 131
6150315 GGGGAGCAGT
*
6150325 TTGAAGATTAT-AGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATTGAAAATGGTGGATTTTAC
1 TTGAAGATT-TCAGATCTTGTCTCCCTAAGCAGTAGTAGAGCAGATTGAAAATGGTGGATTTTAC
* * *
6150389 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCACTAATTCTATCTCCCTGGGCAACAGTGGAAT
65 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA-CTCCCTGGGCAGCAGCGGAAT
6150454 AGA
129 AGA
* * * * * **
6150457 TTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG-GTCAAAGATGGCAGATTTTAC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTAGAGCAGATTGAAA-ATGGTGGATTTTAC
* * *
6150521 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGGTAATTCTACTTCCCTAGGCAGCAGCGGAAT
65 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAC-TCCCTGGGCAGCAGCGGAAT
6150586 AGA
129 AGA
* * * * *
6150589 TTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTAGAGCAGGTCGAAGATGGCGGATTTTACC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTAGAGCAGATTGAAAATGGTGGATTTTACC
* *
6150654 TCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACCTCCCTGGGCAGCAGCGGAATA
66 TCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA-CTCCCTGGGCAGCAGCGGAATA
6150719 GA
130 GA
* * * * *
6150721 TTAAAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGA-TCAAAGATGGTGAATTTTAC
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTAGAGCAGATTGAAA-ATGGTGGATTTTAC
*
6150785 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGAAT
65 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAC-TCCCTGGGCAGCAGCGGAAT
6150850 AGA
129 AGA
* * * * *
6150853 TTGAAGATTTCAGATCTTGCCTTCCT--GCA-TAGATAGTGAAGCAGATCGAAGATGGTAGATTT
1 TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAG-TA--G-AGCAGATTGAAAATGGTGGATTT
* * * * *
6150915 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGCAATTCTATCTTCCAGGGCAACAGTGG
62 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA-CTCCCTGGGCAGCAGCGG
6150980 AATAGA
126 AATAGA
6150986 CAGAAGAAAT
Statistics
Matches: 461, Mismatches: 55, Indels: 25
0.85 0.10 0.05
Matches are distributed among these distances:
129 3 0.01
130 4 0.01
131 8 0.02
132 362 0.79
133 81 0.18
134 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (131 bp):
TTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTAGAGCAGATTGAAAATGGTGGATTTTACC
TCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTCCCTGGGCAGCAGCGGAATAG
A
Found at i:6150795 original size:264 final size:264
Alignment explanation
Indices: 6150325--6150985 Score: 1008
Period size: 264 Copynumber: 2.5 Consensus size: 264
6150315 GGGGAGCAGT
** * *
6150325 TTGAAGATTAT-AGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATTGAAAATGGTGGATTTTAC
1 TTGAAGATT-TCAGATCTTGCCTCCCTAAGCAGTAGTAGAGCAGATCGAAGATGGTGGATTTTAC
*
6150389 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCACTAATTCTATCTCCCTGGGCAACAGTGGAAT
65 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGTGGAAT
* * *
6150454 AGATTGAAGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGCAGATTTT
130 AGATTAAAGATTACAGATCTTATCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTT
*
6150519 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGGTAATTCTACTTCCCTAGGCAGCAGCGGA
195 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTAGGCAGCAGCGGA
6150584 ATAGA
260 ATAGA
* *
6150589 TTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTAGAGCAGGTCGAAGATGGCGGATTTTACC
1 TTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTAGAGCAGATCGAAGATGGTGGATTTTACC
* * * * *
6150654 TCCCTGAAGTTGCAGTGGAGTACATTGAAGCCAGTAATTCTACCTCCCTGGGCAGCAGCGGAATA
66 TCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGTGGAATA
* * *
6150719 GATTAAAGATTTCAGATCTTGTCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGG-TGAATTTT
131 GATTAAAGATTACAGATCTTATCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGCAG-ATTTT
*
6150783 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGCGGA
195 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTAGGCAGCAGCGGA
6150848 ATAGA
260 ATAGA
* *
6150853 TTGAAGATTTCAGATCTTGCCTTCCT--GCA-TAGATAGTGAAGCAGATCGAAGATGGTAGATTT
1 TTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAG-TA--G-AGCAGATCGAAGATGGTGGATTT
* * *
6150915 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGCAATTCTATCTTCCAGGGCAACAGTGG
62 TACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGTGG
6150980 AATAGA
127 AATAGA
6150986 CAGAAGAAAT
Statistics
Matches: 359, Mismatches: 32, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
261 3 0.01
262 5 0.01
263 2 0.01
264 266 0.74
265 83 0.23
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (264 bp):
TTGAAGATTTCAGATCTTGCCTCCCTAAGCAGTAGTAGAGCAGATCGAAGATGGTGGATTTTACC
TCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAACAGTGGAATA
GATTAAAGATTACAGATCTTATCTCCCCAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTA
CCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTAGGCAGCAGCGGAA
TAGA
Found at i:6152512 original size:19 final size:18
Alignment explanation
Indices: 6152490--6152546 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 18
6152480 TTTTTTACGT
6152490 TATTATTGTT-TTATGGTAC
1 TATTATTGTTATTAT--TAC
6152509 TATTACTTGTTTATTATTAC
1 TATTA-TTG-TTATTATTAC
6152529 TATTATTGTCTATTATTA
1 TATTATTGT-TATTATTA
6152547 TTACTAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
18 1 0.03
19 16 0.47
20 11 0.32
21 2 0.06
22 4 0.12
ACGTcount: A:0.25, C:0.07, G:0.09, T:0.60
Consensus pattern (18 bp):
TATTATTGTTATTATTAC
Found at i:6163622 original size:13 final size:13
Alignment explanation
Indices: 6163604--6163630 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6163594 TTTCGGTTTA
6163604 ATTTAAACAATAT
1 ATTTAAACAATAT
6163617 ATTTAAACAATAT
1 ATTTAAACAATAT
6163630 A
1 A
6163631 GTTGTTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (13 bp):
ATTTAAACAATAT
Found at i:6167127 original size:120 final size:120
Alignment explanation
Indices: 6166995--6168337 Score: 2560
Period size: 120 Copynumber: 11.2 Consensus size: 120
6166985 TTTTCAAGTT
6166995 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
6167060 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
6167115 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
6167180 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
*
6167235 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
6167300 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
* *
6167355 ATATATTTAATAATAATTATGTTAATTAATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
6167420 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
6167475 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
6167540 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
6167595 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
6167660 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
6167715 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
6167780 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
6167835 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
6167900 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
6167955 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
6168020 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
6168075 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
6168140 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
*
6168195 ATATATTTAATGATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
* *
6168260 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
6168315 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
6168338 TAAATATGAT
Statistics
Matches: 1212, Mismatches: 11, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 1212 1.00
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATAGTTTAATTAAA
Found at i:6167365 original size:15 final size:16
Alignment explanation
Indices: 6167339--6167385 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 16
6167329 TTATTAAATT
6167339 ATATAGTTTAATTAA-A
1 ATATA-TTTAATTAATA
6167355 ATATATTTAA-TAATA
1 ATATATTTAATTAATA
6167370 AT-TATGTTAATTAATA
1 ATATAT-TTAATTAATA
6167386 TTTTACAGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.21
15 12 0.43
16 10 0.36
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (16 bp):
ATATATTTAATTAATA
Found at i:6168314 original size:18 final size:17
Alignment explanation
Indices: 6168286--6168320 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
6168276 ATTATTAAGA
*
6168286 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
6168303 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
6168321 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:6168550 original size:44 final size:45
Alignment explanation
Indices: 6168485--6168575 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
6168475 ACCTCTATTC
* * *
6168485 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
6168529 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
6168574 CA
1 CA
6168576 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:6168577 original size:16 final size:16
Alignment explanation
Indices: 6168556--6168591 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
6168546 GATTAGCTAT
6168556 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
6168572 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
6168588 TACA
1 TACA
6168592 ACGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:6170922 original size:3 final size:3
Alignment explanation
Indices: 6170916--6170954 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
6170906 TTCTTTTCTT
6170916 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
6170955 ACATTTTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6172458 original size:30 final size:30
Alignment explanation
Indices: 6172417--6172474 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
6172407 CTGGGCATTT
* * *
6172417 CCACACAGGCTGGGCACATGCCCGTGTGAG
1 CCACACAGGCTGGCCACACGCCCATGTGAG
*
6172447 CCACACGGGCTGGCCACACGCCCATGTG
1 CCACACAGGCTGGCCACACGCCCATGTG
6172475 CCTGTCCCTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.19, C:0.38, G:0.31, T:0.12
Consensus pattern (30 bp):
CCACACAGGCTGGCCACACGCCCATGTGAG
Found at i:6185085 original size:45 final size:45
Alignment explanation
Indices: 6185016--6185432 Score: 426
Period size: 45 Copynumber: 9.3 Consensus size: 45
6185006 GTACTGGCGT
* *
6185016 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGC
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGC
** * *** * *
6185061 GAAGTAGATTGAAGAAAACGGATCTTGTCTTCATGTACTGG-CGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGC
*
6185105 AAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGC
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGC
* * *
6185150 AAAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGC
* *** * *
6185195 GAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGG-CGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGC
* *
6185239 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGC
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGC
* * * *** * *
6185284 GAAGTAGATCGAAGAAAACGGATATTGTCTTCATGTACTGG-CGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGC
* * *
6185328 GAAGTAGATCAAAGATAATAGATCTTGTCTTCCCATACTGATGGC
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGC
* * * * ** * ** *
6185373 GAAGTAGGTCAGAGATAGCAGATCTTGTCTTCCTGTATTGGCAGT
1 GAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGC
6185418 GAAGTAGATCAAAGA
1 GAAGTAGATCAAAGA
6185433 TATCAGTCTT
Statistics
Matches: 299, Mismatches: 70, Indels: 6
0.80 0.19 0.02
Matches are distributed among these distances:
44 105 0.35
45 194 0.65
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (45 bp):
GAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTGGC
Found at i:6185261 original size:134 final size:134
Alignment explanation
Indices: 6185017--6185405 Score: 521
Period size: 134 Copynumber: 2.9 Consensus size: 134
6185007 TACTGGCGTG
* * * *
6185017 AAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGAAGAAAACGG
1 AAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAG
* * *
6185082 ATCTTGTCTTCATGTACTGGCGTAAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGT
66 ATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGT
6185147 GGCA
131 GGCA
6185151 AAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAG
1 AAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAG
6185216 ATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGT
66 ATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGT
*
6185281 GGCG
131 GGCA
* * * * *** * * * *
6185285 AAGTAGATCGAAGAAAACGGATATTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAATAG
1 AAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAG
*** * * *
6185349 ATCTTGTCTTCCCATACTGATG-GCGAAGTAGGTCAGAGATAGCAGATCTTGTCTTCC
66 ATCTTGTCTTCATGTACTG--GCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCC
6185406 TGTATTGGCA
Statistics
Matches: 228, Mismatches: 25, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
133 36 0.16
134 191 0.84
135 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (134 bp):
AAGTAGATCAAAGATAACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAACAG
ATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGT
GGCA
Found at i:6185360 original size:89 final size:89
Alignment explanation
Indices: 6185016--6185442 Score: 466
Period size: 89 Copynumber: 4.8 Consensus size: 89
6185006 GTACTGGCGT
* * * *** * * ** * *
6185016 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATTGAAGAAAACG
1 GAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAACA
*** * *
6185081 GATCTTGTCTTCATGTACTGG-CGT
65 GATCTTGTCTTCCCATACTGGTGGC
* * *** *
6185105 AAAGTAGATCAAAGAAAACAGATCTTGTCTTCCCATACTGGTG-GCAAAGTAGATCAAAGATAAC
1 GAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTG--AAGTAGATCAAAGATAAC
*
6185169 AGATCTTGTCTTCCCATACTGGTGGT
64 AGATCTTGTCTTCCCATACTGGTGGC
*
6185195 GAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAG
1 GAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
6185260 ATCTTGTCTTCCCATACTGGTGGC
66 ATCTTGTCTTCCCATACTGGTGGC
* * *
6185284 GAAGTAGATCGAAGAAAACGGATATTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAATAG
1 GAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
*
6185349 ATCTTGTCTTCCCATACTGATGGC
66 ATCTTGTCTTCCCATACTGGTGGC
* * * * * *
6185373 GAAGTAGGTC-AGAGATAGCAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAGATCAAAGATATC
1 GAAGTAGATCGA-AGAAAACAGATCTTGTCTTCATGTACTGGC-GTGAAGTAGATCAAAGATAAC
6185437 AG-TCTT
64 AGATCTT
6185443 ATCTCCCCGG
Statistics
Matches: 298, Mismatches: 34, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
87 1 0.00
88 2 0.01
89 234 0.79
90 60 0.20
91 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (89 bp):
GAAGTAGATCGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAACAG
ATCTTGTCTTCCCATACTGGTGGC
Found at i:6185397 original size:223 final size:223
Alignment explanation
Indices: 6184991--6185446 Score: 734
Period size: 223 Copynumber: 2.0 Consensus size: 223
6184981 GAGTAGCAGT
6184991 AGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTG
1 AGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTG
* *
6185056 GTGGCGAAGTAGATTGAAGAAAACGGATCTTGTCTTCATGTACTGGCGTAAAGTAGATCAAAGAA
66 GTGGCGAAGTAGATCGAAGAAAACGGATATTGTCTTCATGTACTGGCGTAAAGTAGATCAAAGAA
*
6185121 AACAGATCTTGTCTTCCCATACTGGTGGCAAAGTAGATCAAAGATAACAGATCTTGTCTTCCCAT
131 AACAGATCTTGTCTTCCCATACTGATGGCAAAGTAGATCAAAGATAACAGATCTTGTCTTCCCAT
** *
6185186 ACTGGTGGTGAAGTAGATCGAAGAAAAC
196 ACTGGCAGTGAAGTAGATCAAAGAAAAC
*
6185214 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTG
1 AGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTG
* *
6185279 GTGGCGAAGTAGATCGAAGAAAACGGATATTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGAT
66 GTGGCGAAGTAGATCGAAGAAAACGGATATTGTCTTCATGTACTGGCGTAAAGTAGATCAAAGAA
* * * * * **
6185344 AATAGATCTTGTCTTCCCATACTGATGGCGAAGTAGGTCAGAGATAGCAGATCTTGTCTTCCTGT
131 AACAGATCTTGTCTTCCCATACTGATGGCAAAGTAGATCAAAGATAACAGATCTTGTCTTCCCAT
* * *
6185409 ATTGGCAGTGAAGTAGATCAAAGATATC
196 ACTGGCAGTGAAGTAGATCAAAGAAAAC
6185437 AG-TCTTATCT
1 AGATCTTATCT
6185447 CCCCGGCATT
Statistics
Matches: 213, Mismatches: 20, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
222 7 0.03
223 206 0.97
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (223 bp):
AGATCTTATCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTG
GTGGCGAAGTAGATCGAAGAAAACGGATATTGTCTTCATGTACTGGCGTAAAGTAGATCAAAGAA
AACAGATCTTGTCTTCCCATACTGATGGCAAAGTAGATCAAAGATAACAGATCTTGTCTTCCCAT
ACTGGCAGTGAAGTAGATCAAAGAAAAC
Found at i:6186107 original size:29 final size:30
Alignment explanation
Indices: 6186064--6186125 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
6186054 GTGTATATTG
* **
6186064 TTTCTTTTTGTTTATATATTTCTTTTTTAT
1 TTTCTTTTTATTTATATATTTCCATTTTAT
* *
6186094 TTTC-TTTTATTTATTTTTTTCCATTTTAT
1 TTTCTTTTTATTTATATATTTCCATTTTAT
6186123 TTT
1 TTT
6186126 ACCTAAAACA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 23 0.85
30 4 0.15
ACGTcount: A:0.13, C:0.08, G:0.02, T:0.77
Consensus pattern (30 bp):
TTTCTTTTTATTTATATATTTCCATTTTAT
Found at i:6186119 original size:24 final size:25
Alignment explanation
Indices: 6186074--6186126 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
6186064 TTTCTTTTTG
** *
6186074 TTTATATATTTCTTTTTTATTTTCT
1 TTTATATATTTCTTTTCCATTTTAT
*
6186099 TTTATTTATTT-TTTTCCATTTTAT
1 TTTATATATTTCTTTTCCATTTTAT
6186123 TTTA
1 TTTA
6186127 CCTAAAACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.17, C:0.08, G:0.00, T:0.75
Consensus pattern (25 bp):
TTTATATATTTCTTTTCCATTTTAT
Found at i:6186729 original size:3 final size:3
Alignment explanation
Indices: 6186716--6186775 Score: 50
Period size: 3 Copynumber: 19.7 Consensus size: 3
6186706 ATTTTCTCCC
* * *
6186716 ATT ATTT ATT ATT ATT GTT A-T ATT ATTT ATT ATC ATC ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
* *
6186762 TTT ATT ATT TTT AT
1 ATT ATT ATT ATT AT
6186776 ATTTGTACAT
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 2 0.04
3 38 0.83
4 6 0.13
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:6186760 original size:24 final size:21
Alignment explanation
Indices: 6186716--6186778 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
6186706 ATTTTCTCCC
*
6186716 ATTATTTATTATTATTGTTAT
1 ATTATTTATTATTATTATTAT
* *
6186737 ATTATTTATTATCATCA-T-T
1 ATTATTTATTATTATTATTAT
*
6186756 ATTATTT-TTATTATTTTTAT
1 ATTATTTATTATTATTATTAT
6186776 ATT
1 ATT
6186779 TGTACATACG
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
18 6 0.18
19 9 0.26
20 5 0.15
21 14 0.41
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.67
Consensus pattern (21 bp):
ATTATTTATTATTATTATTAT
Found at i:6186778 original size:8 final size:9
Alignment explanation
Indices: 6186716--6186779 Score: 58
Period size: 9 Copynumber: 6.8 Consensus size: 9
6186706 ATTTTCTCCC
6186716 ATTATTTATT
1 ATTATTT-TT
6186726 ATTATTGTTAT
1 ATTATT-TT-T
6186737 ATTATTTATT
1 ATTATTT-TT
* **
6186747 ATCATCATT
1 ATTATTTTT
6186756 ATTATTTTT
1 ATTATTTTT
6186765 ATTATTTTT
1 ATTATTTTT
6186774 A-TATTT
1 ATTATTT
6186780 GTACATACGC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
8 5 0.11
9 18 0.40
10 13 0.29
11 9 0.20
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.67
Consensus pattern (9 bp):
ATTATTTTT
Found at i:6190875 original size:20 final size:20
Alignment explanation
Indices: 6190850--6190890 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
6190840 GCAAATGTTC
6190850 TTTCATTCTTT-ACGATTTTT
1 TTTCATTCTTTCA-GATTTTT
6190870 TTTCATTCTTTCAGATTTTT
1 TTTCATTCTTTCAGATTTTT
6190890 T
1 T
6190891 CTGCCAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.15, C:0.15, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTCATTCTTTCAGATTTTT
Found at i:6193186 original size:44 final size:44
Alignment explanation
Indices: 6193137--6193347 Score: 160
Period size: 44 Copynumber: 4.8 Consensus size: 44
6193127 CCAGTAATTC
* * *
6193137 TATCTCCCTGGGCAACAGTGGAATAGATTGAAGGTTACAGATCT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
*** * * * ** *
6193181 TATCTCCCAAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * * *
6193225 TACCTCCCTGAGGTTA-CAGTGGAGTACATTAAAGCCAATA-A-TTC-
1 TATCTCCCTG-GG-CAGCAGTGGAGTAGATTGAAG--ATTACAGATCT
*
6193269 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * *
6193313 TATCTCCCTAGGCAGTAGTGGAGTAGATCGAAGAT
1 TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGAT
6193348 GGAAGATTTT
Statistics
Matches: 121, Mismatches: 38, Indels: 16
0.69 0.22 0.09
Matches are distributed among these distances:
41 3 0.02
42 2 0.02
43 19 0.16
44 79 0.65
45 15 0.12
46 2 0.02
47 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (44 bp):
TATCTCCCTGGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
Found at i:6193288 original size:132 final size:132
Alignment explanation
Indices: 6193081--6193434 Score: 546
Period size: 132 Copynumber: 2.7 Consensus size: 132
6193071 GGAGCAGGTT
*
6193081 GATGGCGGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* *
6193146 GGGCAACAGTGGAATAGATTGAAGGTTACAGATCTTATCTCCCAAAGCAGTAGTGGAGCAGATCG
66 GGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCAAAGCAGTAGTGGAGCAGATCG
6193211 AA
131 AA
* * *
6193213 GATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTAAAGCCAATAATTCTATCTCCCT
1 GATGGCAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * *
6193278 GGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGAGTAGATCG
66 GGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCAAAGCAGTAGTGGAGCAGATCG
6193343 AA
131 AA
* * * * *
6193345 GATGGAAGATTTTACCTCCCTCAGGTTACAGTAGAGTATATTGAAGCCAGTAATTTTATCTCCCT
1 GATGGCAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
* * * *
6193410 GGTCGGCAGTGGAATCGATCGAAGA
66 GGGCAGCAGTGGAATAGATTGAAGA
6193435 AAGCAGATCT
Statistics
Matches: 202, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
132 202 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (132 bp):
GATGGCAGATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCT
GGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCAAAGCAGTAGTGGAGCAGATCG
AA
Found at i:6193364 original size:44 final size:44
Alignment explanation
Indices: 6193192--6193365 Score: 115
Period size: 44 Copynumber: 4.0 Consensus size: 44
6193182 ATCTCCCAAA
* * *
6193192 GCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCTCCCTGAG
1 GCAGCAGTGGAGTAGATCGAAGATGGAAGATTTTACCTCCCT-AG
* * * * * * * *
6193237 GTTA-CAGTGGAGTACAT-TAA-A-GCCAATAATTCTATCTCCCTGG
1 G-CAGCAGTGGAGTAGATCGAAGATG-GAA-GATTTTACCTCCCTAG
* * * * *
6193280 GCAGCAGTGGAATAGATTGAAGAT-TACAGATCTTATCTCCCTAG
1 GCAGCAGTGGAGTAGATCGAAGATGGA-AGATTTTACCTCCCTAG
*
6193324 GCAGTAGTGGAGTAGATCGAAGATGGAAGATTTTACCTCCCT
1 GCAGCAGTGGAGTAGATCGAAGATGGAAGATTTTACCTCCCT
6193366 CAGGTTACAG
Statistics
Matches: 94, Mismatches: 26, Indels: 19
0.68 0.19 0.14
Matches are distributed among these distances:
42 2 0.02
43 15 0.16
44 62 0.66
45 14 0.15
46 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.26
Consensus pattern (44 bp):
GCAGCAGTGGAGTAGATCGAAGATGGAAGATTTTACCTCCCTAG
Found at i:6193490 original size:132 final size:131
Alignment explanation
Indices: 6193088--6193512 Score: 527
Period size: 132 Copynumber: 3.2 Consensus size: 131
6193078 GTTGATGGCG
*
6193088 GATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAAC
1 GATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGC
* * *
6193153 AGTGGAATAGATTGAAGGTTACAGATCTTATCTCCCAAAGCAGTAGTGGAGCAGATCGAAGATGG
66 AGTGGAATAGATTGAA-GATACAGATCTTATCTCCCATAGCAGTAGTGGAGTAGATCGAAGAT-G
6193218 C-A
129 CAA
* * *
6193220 GATTTTACCTCCCTGAGGTTACAGTGGAGTACATTAAAGCCAATAATTCTATCTCCCTGGGCAGC
1 GATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGC
6193285 AGTGGAATAGATTGAAGATTACAGATCTTATCTCCC-TAGGCAGTAGTGGAGTAGATCGAAGATG
66 AGTGGAATAGATTGAAGA-TACAGATCTTATCTCCCATA-GCAGTAGTGGAGTAGATCGAAGATG
*
6193349 GAA
129 CAA
* * * * * *
6193352 GATTTTACCTCCCTCAGGTTACAGTAGAGTATATTGAAGCCAGTAATTTTATCTCCCTGGTCGGC
1 GATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGC
* * * * * * *
6193417 AGTGGAATCGATCGAAGAAAGCAGATCTTGTCTTCCCATA-CTGGTAGCGAAGTAGATCGAAGAT
66 AGTGGAATAGATTGAAGATA-CAGATCTTATC-TCCCATAGC-AGTAGTGGAGTAGATCGAAGAT
*
6193481 ACAA
128 GCAA
* *
6193485 G-TTTTATCTCCCTGAA-GTTGCAGTGGAG
1 GATTTTACCTCCCT-AAGGTTACAGTGGAG
6193513 CGGACAGAAA
Statistics
Matches: 256, Mismatches: 29, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
131 4 0.02
132 223 0.87
133 27 0.11
134 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (131 bp):
GATTTTACCTCCCTAAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTATCTCCCTGGGCAGC
AGTGGAATAGATTGAAGATACAGATCTTATCTCCCATAGCAGTAGTGGAGTAGATCGAAGATGCA
A
Found at i:6196534 original size:29 final size:28
Alignment explanation
Indices: 6196474--6196561 Score: 97
Period size: 29 Copynumber: 3.1 Consensus size: 28
6196464 ATTTTGTTAG
* *
6196474 ATAAGTCCTTATACTTTTATTAACCCAA
1 ATAAGTCCTTAAACTTTAATTAACCCAA
6196502 ATAAG-CCTTAAACTTTAATTTATACCCAA
1 ATAAGTCCTTAAACTTTAA-TTA-ACCCAA
* * *
6196531 ATAAATCTTTTAACTTTTAATTAACCCAA
1 ATAAGTCCTTAAAC-TTTAATTAACCCAA
6196560 AT
1 AT
6196562 GGGGCTTATT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
27 11 0.22
28 8 0.16
29 18 0.35
30 9 0.18
31 5 0.10
ACGTcount: A:0.40, C:0.19, G:0.02, T:0.39
Consensus pattern (28 bp):
ATAAGTCCTTAAACTTTAATTAACCCAA
Found at i:6204075 original size:37 final size:37
Alignment explanation
Indices: 6204025--6204099 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
6204015 TACCTTACTC
6204025 ATTCCAAATTTAAAATTCTTTCCGACCAATATTTGAG
1 ATTCCAAATTTAAAATTCTTTCCGACCAATATTTGAG
6204062 ATTCCAAATTTAAAATTCTTTCCGACCAATATTTGAG
1 ATTCCAAATTTAAAATTCTTTCCGACCAATATTTGAG
6204099 A
1 A
6204100 GGACTTAAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.37
Consensus pattern (37 bp):
ATTCCAAATTTAAAATTCTTTCCGACCAATATTTGAG
Found at i:6216868 original size:3 final size:3
Alignment explanation
Indices: 6216856--6216895 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
6216846 ACTATAAAAA
*
6216856 AAG AAA AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
6216896 CTAAATTACA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6219768 original size:21 final size:21
Alignment explanation
Indices: 6219742--6219787 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
6219732 TTTAAATTCG
6219742 AAAAATA-AAA-AAAATGATTTT
1 AAAAATATAAATAAAA--ATTTT
6219763 AAAAATATAAATAAAAATTTT
1 AAAAATATAAATAAAAATTTT
6219784 AAAA
1 AAAA
6219788 TTTAATGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 16 0.70
22 3 0.13
23 4 0.17
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (21 bp):
AAAAATATAAATAAAAATTTT
Found at i:6220533 original size:19 final size:18
Alignment explanation
Indices: 6220505--6220543 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
6220495 TTAGATAATA
*
6220505 TTGAATTTTAGAATTTGT
1 TTGAATTTTAAAATTTGT
6220523 TTGATATTTTAAAATTTGT
1 TTGA-ATTTTAAAATTTGT
6220542 TT
1 TT
6220544 TATTTTGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.59
Consensus pattern (18 bp):
TTGAATTTTAAAATTTGT
Found at i:6220549 original size:17 final size:18
Alignment explanation
Indices: 6220509--6220549 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
6220499 ATAATATTGA
*
6220509 ATTTTAGAATTTGTTTGAT
1 ATTTTAAAATTTGTTT-AT
6220528 ATTTTAAAATTTGTTT-T
1 ATTTTAAAATTTGTTTAT
6220545 ATTTT
1 ATTTT
6220550 GTAACACCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.29
19 15 0.71
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (18 bp):
ATTTTAAAATTTGTTTAT
Found at i:6221483 original size:16 final size:16
Alignment explanation
Indices: 6221462--6221492 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
6221452 TGAGATATCT
6221462 CCAACGAGCCTCCAAC
1 CCAACGAGCCTCCAAC
6221478 CCAACGAGCCTCCAA
1 CCAACGAGCCTCCAA
6221493 ATTACTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.48, G:0.13, T:0.06
Consensus pattern (16 bp):
CCAACGAGCCTCCAAC
Found at i:6221992 original size:25 final size:25
Alignment explanation
Indices: 6221962--6222080 Score: 75
Period size: 25 Copynumber: 4.8 Consensus size: 25
6221952 GCCCTCTCTC
6221962 GAGCCATATAACGGGAAGCTCATGT
1 GAGCCATATAACGGGAAGCTCATGT
* * * *
6221987 GAGCCATGTAACGAGAAGCTTATCT
1 GAGCCATATAACGGGAAGCTCATGT
** * **
6222012 -AGACTGTATAACTGGAAGCTCATAA
1 GAG-CCATATAACGGGAAGCTCATGT
* * *
6222037 GAGCCATATTTA--GAAAGCTCATGC
1 GAGCCATA-TAACGGGAAGCTCATGT
*
6222061 GAGCCA-ATAACGGGTAGCTC
1 GAGCCATATAACGGGAAGCTC
6222081 CGAAGAGACA
Statistics
Matches: 68, Mismatches: 21, Indels: 11
0.68 0.21 0.11
Matches are distributed among these distances:
22 2 0.03
23 1 0.01
24 23 0.34
25 38 0.56
26 4 0.06
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTCATGT
Found at i:6222185 original size:26 final size:26
Alignment explanation
Indices: 6222156--6222224 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 26
6222146 AAAGCTCCGG
6222156 AGAGCCATTAATCAGGAAGCTCACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
* ** *
6222182 AGAGCCTTTAATTGGGAAGCTCACGA
1 AGAGCCATTAATCAGGAAGCTCACAA
6222208 AGAGCCA-TATATCAGGA
1 AGAGCCATTA-ATCAGGA
6222225 CACTCATAAG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
25 2 0.06
26 33 0.94
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCTCACAA
Found at i:6232080 original size:16 final size:16
Alignment explanation
Indices: 6232059--6232115 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
6232049 TTTGGTTCGC
*
6232059 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
6232075 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
6232091 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
6232107 TGTAATGGA
1 TGTAATGGA
6232116 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:6232382 original size:17 final size:17
Alignment explanation
Indices: 6232361--6232394 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
6232351 TTATTATTAA
6232361 ATAT-ATTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
6232378 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
6232395 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:6235419 original size:30 final size:30
Alignment explanation
Indices: 6235379--6235438 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
6235369 TATTTTATTA
* *
6235379 TTAATTTTGTTATTATTTTAAAGCCATTTG
1 TTAATATTGTTATTATTTTAAAGACATTTG
*
6235409 TTAATATTGTTATTATTTTAGAGACATTTG
1 TTAATATTGTTATTATTTTAAAGACATTTG
6235439 CTTGTTAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.55
Consensus pattern (30 bp):
TTAATATTGTTATTATTTTAAAGACATTTG
Found at i:6235594 original size:13 final size:11
Alignment explanation
Indices: 6235560--6235587 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
6235550 TATATATATT
6235560 TAAAAATAATA
1 TAAAAATAATA
6235571 TAAAAATAATA
1 TAAAAATAATA
6235582 TAAAAA
1 TAAAAA
6235588 ATTAATACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:6239382 original size:30 final size:28
Alignment explanation
Indices: 6239348--6239403 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 28
6239338 GTGATTAAAT
6239348 AAAATCGACA-CAAGCAGAATTTAAAAGAAA
1 AAAATCGACAGCAAG-A-AA-TTAAAAGAAA
*
6239378 AAAATTGACAGCAAGAAATTAAAAGA
1 AAAATCGACAGCAAGAAATTAAAAGA
6239404 TAAGTCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 8 0.33
29 2 0.08
30 10 0.42
31 4 0.17
ACGTcount: A:0.61, C:0.11, G:0.14, T:0.14
Consensus pattern (28 bp):
AAAATCGACAGCAAGAAATTAAAAGAAA
Found at i:6239576 original size:15 final size:15
Alignment explanation
Indices: 6239556--6239588 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
6239546 AGAATACTCA
6239556 AGAGAGAATTCTTGG
1 AGAGAGAATTCTTGG
6239571 AGAGAGAATTCTTGG
1 AGAGAGAATTCTTGG
6239586 AGA
1 AGA
6239589 AAAACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.24
Consensus pattern (15 bp):
AGAGAGAATTCTTGG
Found at i:6240542 original size:34 final size:33
Alignment explanation
Indices: 6240494--6240557 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
6240484 TTTAAAAACC
*
6240494 TTATATATATACATACATGCTCATATATATATTTT
1 TTATATATATACATACAT-AT-ATATATATATTTT
*
6240529 TTATAT-TTTACATACATATATATATATAT
1 TTATATATATACATACATATATATATATAT
6240558 ATCTATATGC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 10 0.37
33 1 0.04
34 10 0.37
35 6 0.22
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (33 bp):
TTATATATATACATACATATATATATATATTTT
Found at i:6240635 original size:17 final size:18
Alignment explanation
Indices: 6240593--6240636 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
6240583 GAATATATAC
*
6240593 ATACATATATTTTTTTAT
1 ATACATATATATTTTTAT
*
6240611 ATTC-TATA-ATTTTTAT
1 ATACATATATATTTTTAT
6240627 ATACATATAT
1 ATACATATAT
6240637 TTGCACATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
16 10 0.48
17 8 0.38
18 3 0.14
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (18 bp):
ATACATATATATTTTTAT
Found at i:6247085 original size:27 final size:27
Alignment explanation
Indices: 6247055--6247107 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
6247045 TTCAGGAACC
6247055 TAAATCCTCAAGTTGAGTGTAGTATAT
1 TAAATCCTCAAGTTGAGTGTAGTATAT
6247082 TAAATCCTCAAGTTGAGTGTAGTATA
1 TAAATCCTCAAGTTGAGTGTAGTATA
6247108 CCATGCATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (27 bp):
TAAATCCTCAAGTTGAGTGTAGTATAT
Found at i:6253978 original size:23 final size:24
Alignment explanation
Indices: 6253952--6254050 Score: 143
Period size: 23 Copynumber: 4.3 Consensus size: 24
6253942 ATAAGTGCCA
6253952 CACTGATA-TGTAGCCGAAGCTAC
1 CACTGATATTGTAGCCGAAGCTAC
* *
6253975 CACTGATA-TGCAGCCGTAGCTAC
1 CACTGATATTGTAGCCGAAGCTAC
*
6253998 CACTGA-ATTGTAGCCGTAGCTAC
1 CACTGATATTGTAGCCGAAGCTAC
6254021 CACTGA-ATTGTAGCCGAAGCTAC
1 CACTGATATTGTAGCCGAAGCTAC
6254044 CACTGAT
1 CACTGAT
6254051 CAATAACACT
Statistics
Matches: 70, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
22 1 0.01
23 69 0.99
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (24 bp):
CACTGATATTGTAGCCGAAGCTAC
Found at i:6254302 original size:18 final size:17
Alignment explanation
Indices: 6254276--6254314 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
6254266 ATTTTCCTTC
6254276 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
6254293 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
6254311 CACA
1 CACA
6254315 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:6254448 original size:45 final size:45
Alignment explanation
Indices: 6254384--6254474 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
6254374 TTTTCGTAAA
6254384 TTAGTCGATAACCTTCTCTTTTCCCCTATCACTTCCACTATTTCT
1 TTAGTCGATAACCTTCTCTTTTCCCCTATCACTTCCACTATTTCT
6254429 TTAGTCGATAACCTTCTCTTTTCCCCTATCACTTCCACTATTTCT
1 TTAGTCGATAACCTTCTCTTTTCCCCTATCACTTCCACTATTTCT
6254474 T
1 T
6254475 CTTTCTTGAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.18, C:0.33, G:0.04, T:0.45
Consensus pattern (45 bp):
TTAGTCGATAACCTTCTCTTTTCCCCTATCACTTCCACTATTTCT
Found at i:6255492 original size:31 final size:31
Alignment explanation
Indices: 6255456--6255522 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
6255446 TCAATGGCCA
* * *
6255456 AAAATGAATTTAATTGCCAAATTGAATGA-CC
1 AAAATGAATCTAATTACCAAATTCAA-GAGCC
*
6255487 AAAATGGATCTAATTACCAAATTCAAGAGCC
1 AAAATGAATCTAATTACCAAATTCAAGAGCC
6255518 AAAAT
1 AAAAT
6255523 TTATATTATC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 2 0.06
31 29 0.94
ACGTcount: A:0.48, C:0.15, G:0.12, T:0.25
Consensus pattern (31 bp):
AAAATGAATCTAATTACCAAATTCAAGAGCC
Found at i:6272134 original size:15 final size:17
Alignment explanation
Indices: 6272095--6272138 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 17
6272085 AGTTAAATAA
6272095 AAATTGAAAATTAATGCCT
1 AAATT-AAAATTAAT-CCT
6272114 AAATTAAAATTAAT-C-
1 AAATTAAAATTAATCCT
6272129 AAATTAAAAT
1 AAATTAAAAT
6272139 ATAAAGATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.40
16 1 0.04
18 9 0.36
19 5 0.20
ACGTcount: A:0.57, C:0.07, G:0.05, T:0.32
Consensus pattern (17 bp):
AAATTAAAATTAATCCT
Found at i:6275605 original size:60 final size:61
Alignment explanation
Indices: 6275540--6275667 Score: 145
Period size: 61 Copynumber: 2.1 Consensus size: 61
6275530 CAGCTGGTAA
*
6275540 CAAAAAAAGACAAAATTA-AATAGTTAGAT-ATCATTTTGTAACTTTTCATAGTTGGGTGAC
1 CAAAAAAAGAC-AAATTACAATAGTTAGATGATCATTTTGTAACTTTTCATAGTTAGGTGAC
** * * * * *
6275600 C-AAAAAAGACATTTTACTAGTAGTTAGGTGATTATTTTGTAACTTTTTATAGTTAGGTGAT
1 CAAAAAAAGACAAATTAC-AATAGTTAGATGATCATTTTGTAACTTTTCATAGTTAGGTGAC
6275661 CAAAAAA
1 CAAAAAA
6275668 GTAATTTACT
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
58 4 0.07
59 9 0.16
60 10 0.18
61 28 0.50
62 5 0.09
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.36
Consensus pattern (61 bp):
CAAAAAAAGACAAATTACAATAGTTAGATGATCATTTTGTAACTTTTCATAGTTAGGTGAC
Found at i:6294969 original size:18 final size:18
Alignment explanation
Indices: 6294932--6294970 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6294922 AATTAAAATT
*
6294932 TATTTTATAATAATATAA
1 TATTTTATAATAATACAA
6294950 TATTTTATAAATAAT-CAA
1 TATTTTAT-AATAATACAA
6294968 TAT
1 TAT
6294971 CATATTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
TATTTTATAATAATACAA
Found at i:6295161 original size:24 final size:23
Alignment explanation
Indices: 6295102--6295157 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
6295092 TGATTTAAAC
*
6295102 AAATATTCATATTTATATAATTA
1 AAATATTTATATTTATATAATTA
* *
6295125 AAATGTTTATATTT-TATACTATA
1 AAATATTTATATTTATATAAT-TA
6295148 AAATATTTAT
1 AAATATTTAT
6295158 TATTAAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 5 0.18
23 23 0.82
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.50
Consensus pattern (23 bp):
AAATATTTATATTTATATAATTA
Found at i:6300738 original size:28 final size:28
Alignment explanation
Indices: 6300698--6300753 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
6300688 AACAAAAGAA
6300698 TACTTCTTGATTATTCAACCGTCAGCTT
1 TACTTCTTGATTATTCAACCGTCAGCTT
6300726 TACTTCTTGATTATTCAACCGTCAGCTT
1 TACTTCTTGATTATTCAACCGTCAGCTT
6300754 CCCTGCAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.11, T:0.43
Consensus pattern (28 bp):
TACTTCTTGATTATTCAACCGTCAGCTT
Found at i:6308769 original size:3 final size:3
Alignment explanation
Indices: 6308761--6308790 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
6308751 GATATAGAGT
6308761 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6308791 CCAAACCTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6314993 original size:23 final size:24
Alignment explanation
Indices: 6314954--6314998 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
6314944 TAATTTAATC
*
6314954 CTTTAAAAATTATAAAAATATAAG
1 CTTTAAAAATTACAAAAATATAAG
*
6314978 CTTT-AAAATTACAAAATTATA
1 CTTTAAAAATTACAAAAATATA
6314999 TTTTAACTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.36
Consensus pattern (24 bp):
CTTTAAAAATTACAAAAATATAAG
Found at i:6317932 original size:16 final size:16
Alignment explanation
Indices: 6317911--6317946 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6317901 TTTTTTAAAA
* *
6317911 AAATATTTAATATATT
1 AAATATTAAATATATC
6317927 AAATATTAAATATATC
1 AAATATTAAATATATC
6317943 AAAT
1 AAAT
6317947 GAATTAGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
AAATATTAAATATATC
Found at i:6319338 original size:16 final size:18
Alignment explanation
Indices: 6319317--6319362 Score: 60
Period size: 16 Copynumber: 2.6 Consensus size: 18
6319307 ACACTATATG
6319317 TGAAAAATAAT-CT-TTT
1 TGAAAAATAATACTCTTT
6319333 TGAAAAATAATACTCTTT
1 TGAAAAATAATACTCTTT
*
6319351 TCTAAAAATAAT
1 T-GAAAAATAAT
6319363 TATATTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 11 0.42
17 2 0.08
18 4 0.15
19 9 0.35
ACGTcount: A:0.48, C:0.09, G:0.04, T:0.39
Consensus pattern (18 bp):
TGAAAAATAATACTCTTT
Found at i:6319349 original size:19 final size:19
Alignment explanation
Indices: 6319322--6319362 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
6319312 ATATGTGAAA
6319322 AATAATCTTTT-TGAAAAAT
1 AATAATCTTTTCT-AAAAAT
*
6319341 AATACTCTTTTCTAAAAAT
1 AATAATCTTTTCTAAAAAT
6319360 AAT
1 AAT
6319363 TATATTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.41
Consensus pattern (19 bp):
AATAATCTTTTCTAAAAAT
Found at i:6319513 original size:3 final size:3
Alignment explanation
Indices: 6319505--6319562 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
6319495 CCCTAATTTC
6319505 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6319553 TAT TAT TAT T
1 TAT TAT TAT T
6319563 TTGTAATTTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6321929 original size:125 final size:125
Alignment explanation
Indices: 6321647--6321917 Score: 526
Period size: 125 Copynumber: 2.2 Consensus size: 125
6321637 TAGAGTTAGG
6321647 GGTTGACAAGTGTCCTATAGGGATATTTTAAAAAAGAGAGACACATGTATAATTTTTAAGATTGT
1 GGTTGACAAGTGTCCTATAGGGATATTTTAAAAAAGAGAGACACATGTATAATTTTTAAGATTGT
6321712 TTGTGGAATAAAAAAGTACACTGCCAGTGGAATTTTTAAATTCCAAAAGTAGACTTAAGA
66 TTGTGGAATAAAAAAGTACACTGCCAGTGGAATTTTTAAATTCCAAAAGTAGACTTAAGA
6321772 GGTTGACAAGTGTCCTATAGGGATATTTTAAAAAAGAGAGACACATGTATAATTTTTAAGATTGT
1 GGTTGACAAGTGTCCTATAGGGATATTTTAAAAAAGAGAGACACATGTATAATTTTTAAGATTGT
6321837 TTGTGGAATAAAAAAGTACACTGCCAGTGGAATTTTTAAATTCCAAAAGTAGACTTAAGA
66 TTGTGGAATAAAAAAGTACACTGCCAGTGGAATTTTTAAATTCCAAAAGTAGACTTAAGA
6321897 GGTTGACAAGTG-CCTTATAGG
1 GGTTGACAAGTGTCC-TATAGG
6321918 AGTATACTAA
Statistics
Matches: 145, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
124 2 0.01
125 143 0.99
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (125 bp):
GGTTGACAAGTGTCCTATAGGGATATTTTAAAAAAGAGAGACACATGTATAATTTTTAAGATTGT
TTGTGGAATAAAAAAGTACACTGCCAGTGGAATTTTTAAATTCCAAAAGTAGACTTAAGA
Found at i:6330276 original size:23 final size:25
Alignment explanation
Indices: 6330231--6330280 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
6330221 AAACACCTCT
* *
6330231 TTTAATTTTATAACTATTTTTAATC
1 TTTAATTATATAACTATTCTTAATC
6330256 TTTAATTATATAA-T-TTCTTAATC
1 TTTAATTATATAACTATTCTTAATC
6330279 TT
1 TT
6330281 ATAAGAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 10 0.43
24 1 0.04
25 12 0.52
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (25 bp):
TTTAATTATATAACTATTCTTAATC
Found at i:6332197 original size:21 final size:21
Alignment explanation
Indices: 6332168--6332209 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
6332158 TTGGTGGAGT
*
6332168 CATAGAGAATGACGCCACCAC
1 CATAAAGAATGACGCCACCAC
*
6332189 CATAAAGAATGGCGCCACCAC
1 CATAAAGAATGACGCCACCAC
6332210 TAAGTAGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.33, G:0.19, T:0.10
Consensus pattern (21 bp):
CATAAAGAATGACGCCACCAC
Found at i:6338200 original size:8 final size:8
Alignment explanation
Indices: 6338173--6338206 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
6338163 ATGATAGTGT
6338173 TAAAAGAAA
1 TAAAA-AAA
6338182 TAAATAAAA
1 TAAA-AAAA
6338191 TAAAAAAA
1 TAAAAAAA
6338199 TAAAAAAA
1 TAAAAAAA
6338207 ATTATACATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 12 0.50
9 11 0.46
10 1 0.04
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (8 bp):
TAAAAAAA
Found at i:6338201 original size:17 final size:18
Alignment explanation
Indices: 6338173--6338208 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
6338163 ATGATAGTGT
*
6338173 TAAAAGAAATAAATAAAA
1 TAAAAGAAATAAAAAAAA
6338191 TAAAA-AAATAAAAAAAA
1 TAAAAGAAATAAAAAAAA
6338208 T
1 T
6338209 TATACATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.17
Consensus pattern (18 bp):
TAAAAGAAATAAAAAAAA
Found at i:6340628 original size:31 final size:30
Alignment explanation
Indices: 6340593--6340691 Score: 110
Period size: 31 Copynumber: 3.2 Consensus size: 30
6340583 ATTTCAAAAA
*
6340593 TAATATTTATCTTGATAGTATTTTATTCATT
1 TAATATTTATCTTGATA-TATTTTATTAATT
* * * **
6340624 TAATATTAAT-GTGAGATATTAAATTTAATT
1 TAATATTTATCTTGATATATTTTA-TTAATT
6340654 TAATATTTATCTTGATAATATTTTATTAATT
1 TAATATTTATCTTGAT-ATATTTTATTAATT
6340685 TAATATT
1 TAATATT
6340692 AATATGATTA
Statistics
Matches: 54, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
29 5 0.09
30 18 0.33
31 25 0.46
32 6 0.11
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (30 bp):
TAATATTTATCTTGATATATTTTATTAATT
Found at i:6341859 original size:23 final size:23
Alignment explanation
Indices: 6341832--6341879 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
6341822 ATTAATATTT
6341832 TTATTTTTAT-TTTGAATAAATTA
1 TTATTTTT-TCTTTGAATAAATTA
* *
6341855 TTATTTTTTCTTTTAATATATTA
1 TTATTTTTTCTTTGAATAAATTA
6341878 TT
1 TT
6341880 TAAAGAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 21 0.95
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (23 bp):
TTATTTTTTCTTTGAATAAATTA
Found at i:6342798 original size:26 final size:26
Alignment explanation
Indices: 6342769--6342822 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
6342759 TTTAAATAAA
*
6342769 CAGTTAATAGAACCAGTTGGTCAAAT
1 CAGTTAATACAACCAGTTGGTCAAAT
**
6342795 CAGTTAATACAATTAGTTGGTCAAAT
1 CAGTTAATACAACCAGTTGGTCAAAT
6342821 CA
1 CA
6342823 ACCATTGCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.30
Consensus pattern (26 bp):
CAGTTAATACAACCAGTTGGTCAAAT
Found at i:6343822 original size:18 final size:18
Alignment explanation
Indices: 6343796--6343841 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
6343786 AATCTTTTTC
6343796 TTTATTTTTTC-CTTTCAT
1 TTTA-TTTTTCACTTTCAT
*
6343814 TTTCA-TTTTCATTTTCAT
1 TTT-ATTTTTCACTTTCAT
6343832 TTTATTTTTC
1 TTTATTTTTC
6343842 TGAATGGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
17 6 0.25
18 17 0.71
19 1 0.04
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTTTCACTTTCAT
Found at i:6343840 original size:6 final size:6
Alignment explanation
Indices: 6343808--6343839 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
6343798 TATTTTTTCC
6343808 TTTCAT TTTCAT TTTCAT TTTCAT TTT-AT TTT
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTT
6343840 TCTGAATGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTCAT
Found at i:6352365 original size:198 final size:198
Alignment explanation
Indices: 6352031--6352800 Score: 946
Period size: 198 Copynumber: 3.9 Consensus size: 198
6352021 ACCTTTTAAG
* * * *
6352031 CTAAACATCATAATCACGGATGCGTGACCATAAAAACTAAGAAATAAAGATTAAAATCTA-C-CA
1 CTAAACATCATAATCACGGATGCATGATCATAAAAACTAAGAAATAAAGATTAAATTCTATCATA
* * * *
6352094 --TCTCCTTTAGCATGCTATTTTCCAATTCCATGGCGGCTGAATGAGATGTTATCGAGCTACTAT
66 TTTCTTCTTCAGCATGCTATTTTCCAATTCCATGGAGGATGAATGAGATGTTATCGAGCTACTAT
6352157 TCGATATTTTCCTCAATAGAAAAGAAGCTTATAGAGAAAAGAGATCGTACA-TGGTTTCAATTTT
131 TCGATATTTTCCTCAATAGAAAAGAAGCTTATAGAGAAAAGAGATCGTA-AGTGGTTTCAATTTT
**
6352221 GGAC
195 CAAC
* * *
6352225 CTAAACATCACAATCATGGATGCATGATCATAAAAACTAAGAAATAAAGATTAAATTCTATTATA
1 CTAAACATCATAATCACGGATGCATGATCATAAAAACTAAGAAATAAAGATTAAATTCTATCATA
* * * *
6352290 TTTCTTCATT-AGCATGCTATTTTCTGAA-TCCATGGAGGATTAATGGGATGTTATCGAGCAACT
66 TTTCTTC-TTCAGCATGCTATTTTC-CAATTCCATGGAGGATGAATGAGATGTTATCGAGCTACT
* * * * * *
6352353 ATTTGATATTTTCATCAATAGAAAAGAAGCTTATAGAGAAAAGAAACCTTAAGTTGTTTCAATTT
129 ATTCGATATTTTCCTCAATAGAAAAGAAGCTTATAGAGAAAAGAGATCGTAAGTGGTTTCAATTT
6352418 TCAAC
194 TCAAC
* ** *
6352423 CTAAACATCATAATCATGGATGCATGATTGTAAAAACTAAGAAATAAAGATCAAATTCTATCATA
1 CTAAACATCATAATCACGGATGCATGATCATAAAAACTAAGAAATAAAGATTAAATTCTATCATA
* * * * * **
6352488 TTTCTTCTTCAACATGCTAGTTTCCAAATCCATGGAGAATGAATGAGATGTTATCTAGCTTTTAT
66 TTTCTTCTTCAGCATGCTATTTTCCAATTCCATGGAGGATGAATGAGATGTTATCGAGCTACTAT
* * * *
6352553 TCAATATTTTCCTCATTAGAAAAGAAGCTTATCGAGAAACA-AGATCGTAAGAGGTTTCAATTTT
131 TCGATATTTTCCTCAATAGAAAAGAAGCTTATAGAGAAA-AGAGATCGTAAGTGGTTTCAATTTT
6352617 CAAC
195 CAAC
* * * * * * * *
6352621 CTAAATAACATAATCACGGATGCATGATCTTAGAAGCTAAGAACTAAATATTATATTCTATCATA
1 CTAAACATCATAATCACGGATGCATGATCATAAAAACTAAGAAATAAAGATTAAATTCTATCATA
* * *
6352686 TTTCTTCTTCAGCATGCTATTTTCCAATTCCATGGTGGATGAATGAGATATTATCGAGCTGCTAT
66 TTTCTTCTTCAGCATGCTATTTTCCAATTCCATGGAGGATGAATGAGATGTTATCGAGCTACTAT
* ** * *
6352751 TTGATATTACCCTCGAGA-AAATAGAAGCTTATAGAGAAAAGAGATCGTAA
131 TCGATATTTTCCTCAATAGAAA-AGAAGCTTATAGAGAAAAGAGATCGTAA
6352801 AGGGTTTTGA
Statistics
Matches: 489, Mismatches: 75, Indels: 20
0.84 0.13 0.03
Matches are distributed among these distances:
194 55 0.11
196 1 0.00
197 9 0.02
198 419 0.86
199 5 0.01
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (198 bp):
CTAAACATCATAATCACGGATGCATGATCATAAAAACTAAGAAATAAAGATTAAATTCTATCATA
TTTCTTCTTCAGCATGCTATTTTCCAATTCCATGGAGGATGAATGAGATGTTATCGAGCTACTAT
TCGATATTTTCCTCAATAGAAAAGAAGCTTATAGAGAAAAGAGATCGTAAGTGGTTTCAATTTTC
AAC
Found at i:6354616 original size:7 final size:7
Alignment explanation
Indices: 6354606--6354637 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
6354596 TATAATATTA
6354606 TATTTTT
1 TATTTTT
6354613 TATTTTT
1 TATTTTT
6354620 TATTTTT
1 TATTTTT
6354627 TATTTATT
1 TATTT-TT
6354635 TAT
1 TAT
6354638 AATATATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.79
8 5 0.21
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (7 bp):
TATTTTT
Found at i:6354625 original size:14 final size:15
Alignment explanation
Indices: 6354601--6354637 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
6354591 AAGTTTATAA
6354601 TATTATATTTTTTATT
1 TATT-TATTTTTTATT
6354617 T-TTTATTTTTTATT
1 TATTTATTTTTTATT
6354631 TATTTAT
1 TATTTAT
6354638 AATATATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 12 0.60
15 7 0.35
16 1 0.05
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TATTTATTTTTTATT
Found at i:6355306 original size:19 final size:20
Alignment explanation
Indices: 6355269--6355306 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
6355259 TTTAAAATAC
*
6355269 TTTTAAAATTATTTTTTTAT
1 TTTTAAAATTAATTTTTTAT
6355289 TTTTAAAA-TAATTTTTTA
1 TTTTAAAATTAATTTTTTA
6355307 ATGTTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTAAAATTAATTTTTTAT
Found at i:6355313 original size:20 final size:20
Alignment explanation
Indices: 6355270--6355313 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
6355260 TTAAAATACT
* * *
6355270 TTTAAAATTATTTTTTTATT
1 TTTAAAATAATTTTTTAATG
6355290 TTTAAAATAATTTTTTAATG
1 TTTAAAATAATTTTTTAATG
6355310 TTTA
1 TTTA
6355314 TTTTAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TTTAAAATAATTTTTTAATG
Found at i:6355318 original size:31 final size:30
Alignment explanation
Indices: 6355246--6355319 Score: 76
Period size: 31 Copynumber: 2.4 Consensus size: 30
6355236 AAATATATTT
*
6355246 TTTTATTTTTAATTTTAAAATACTTTTAAAA
1 TTTTA-TTTTAATTTTAAAATAATTTTAAAA
* * **
6355277 TTATTTTTTTATTTTTAAAATAATTTTTTAA
1 TT-TTATTTTAATTTTAAAATAATTTTAAAA
6355308 TGTTTATTTTAA
1 T-TTTATTTTAA
6355320 AAATGGGTCG
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
31 31 0.91
32 3 0.09
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (30 bp):
TTTTATTTTAATTTTAAAATAATTTTAAAA
Found at i:6361855 original size:18 final size:18
Alignment explanation
Indices: 6361834--6361868 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6361824 ACACAAAACT
* *
6361834 AAAATCTAACCTAAAAAA
1 AAAACCTAAACTAAAAAA
6361852 AAAACCTAAACTAAAAA
1 AAAACCTAAACTAAAAA
6361869 TGAAATGAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.17, G:0.00, T:0.14
Consensus pattern (18 bp):
AAAACCTAAACTAAAAAA
Found at i:6363695 original size:15 final size:15
Alignment explanation
Indices: 6363675--6363704 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6363665 GTTTTCCAAA
6363675 ATTATAATATATCAT
1 ATTATAATATATCAT
*
6363690 ATTATATTATATCAT
1 ATTATAATATATCAT
6363705 GCAATTTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATAATATATCAT
Found at i:6364941 original size:19 final size:19
Alignment explanation
Indices: 6364914--6364957 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
6364904 AGAACAAGAG
* *
6364914 AAAATAGCAATAAAATAAT
1 AAAAAAGCAATAAAACAAT
*
6364933 AAAAAAGCAATAAAACGAT
1 AAAAAAGCAATAAAACAAT
6364952 AAAAAA
1 AAAAAA
6364958 ACAACACTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.73, C:0.07, G:0.07, T:0.14
Consensus pattern (19 bp):
AAAAAAGCAATAAAACAAT
Found at i:6366616 original size:26 final size:26
Alignment explanation
Indices: 6366587--6366655 Score: 63
Period size: 26 Copynumber: 2.7 Consensus size: 26
6366577 CCCGTTATAT
6366587 GGCTTTCCATGAGCTTCCTGATTAAA
1 GGCTTTCCATGAGCTTCCTGATTAAA
* * *
6366613 GGC--TCCTTGTGAGCTTTCTGATTAAT
1 GGCTTTCC--ATGAGCTTCCTGATTAAA
*
6366639 GGCTTTCTA-GAGCTTCC
1 GGCTTTCCATGAGCTTCC
6366656 CGATATGGCT
Statistics
Matches: 33, Mismatches: 6, Indels: 9
0.69 0.12 0.19
Matches are distributed among these distances:
24 3 0.09
25 7 0.21
26 21 0.64
28 2 0.06
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
GGCTTTCCATGAGCTTCCTGATTAAA
Found at i:6372174 original size:159 final size:160
Alignment explanation
Indices: 6371856--6372174 Score: 441
Period size: 159 Copynumber: 2.0 Consensus size: 160
6371846 TTTTAAAAAA
* * *
6371856 AAATTAGAGTGTTATTTTTTACGGATTTGCTTGTTGTCTTCAAGGTGTCACTTTCAGTAAGTTCT
1 AAATTAGAGTGTTATTTTTTACGGAGTTGCTTGTTGTCTTCAAGGTGTCACTTTCAGTAAATTAT
*
6371921 TGGATTTGCCTTTTAGTTATTTCATATGGCTTCCTGATTTTAAGTGTCATTTGACTTCAATTTGG
66 TGGATTTGCCTTTTAGTTATTTCATATGGCTTCCTAATTTTAAGTGTCATTTGACTTCAATTTGG
*
6371986 ATTTGCATCTGCTTTTCTGAATCTTTTTTT
131 ATTTGCATCTGCTTTTCTGAATCTCTTTTT
* * * *
6372016 AAATTGGAGTGTTA-TTTTTACGGAGTTGCTTGTTGTTTTGAAGGTGTCACTTTCTGTAAATTAT
1 AAATTAGAGTGTTATTTTTTACGGAGTTGCTTGTTGTCTTCAAGGTGTCACTTTCAGTAAATTAT
* * * *
6372080 TGGATTTGCTTTTTATTTATTTCATTTATGGCTTCCTAATTTTAA-TGGT-AGTTTGAGTT-AGT
66 TGGATTTGCCTTTTAGTTATTTCA--TATGGCTTCCTAATTTTAAGT-GTCA-TTTGACTTCAAT
*
6372142 TTGGATTTGCATTTGCTTTTCTGAAT-TCTTTTT
127 TTGGATTTGCATCTGCTTTTCTGAATCTCTTTTT
6372175 TCTTTTTGAA
Statistics
Matches: 141, Mismatches: 14, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
159 72 0.51
160 42 0.30
161 27 0.19
ACGTcount: A:0.19, C:0.11, G:0.18, T:0.51
Consensus pattern (160 bp):
AAATTAGAGTGTTATTTTTTACGGAGTTGCTTGTTGTCTTCAAGGTGTCACTTTCAGTAAATTAT
TGGATTTGCCTTTTAGTTATTTCATATGGCTTCCTAATTTTAAGTGTCATTTGACTTCAATTTGG
ATTTGCATCTGCTTTTCTGAATCTCTTTTT
Found at i:6379071 original size:165 final size:164
Alignment explanation
Indices: 6378794--6379122 Score: 478
Period size: 165 Copynumber: 2.0 Consensus size: 164
6378784 AAATAAAATT
* * * *
6378794 ACCACGTTAGAGGCTGTTTTCTAGGTCATTGTTAACTTAATGGGTGTAATGTTTTGATATTTCAG
1 ACCACGTTAGAGGCTATTGTATAGGTCATTGTTAACTTAAGGGGTGTAATGTTTTGATATTTCAG
* * * ** *
6378859 GGTAGTTTTGGTAGGTTGCGTGACAGGGGGAAGGAAGTTCAGAAGGCTACTTAAATTTTTACTAA
66 GATAGCTTTGGTAGGTTGCATGACAGGGGGAAGGAAGTTCAGAAGGCTACAAAAATTTTGACTAA
* *
6378924 GCATTTTCTAAATAAAGTTACCATTCATATGCCA
131 GCATTTTCCAAATAAAGTTACCATTCACATGCCA
* * * * *
6378958 ACCATGTTAGAGGCTATTGTATAGGTTATTGTTAATTTAAGGGGTGTGATGTTTTGCTATTTTCA
1 ACCACGTTAGAGGCTATTGTATAGGTCATTGTTAACTTAAGGGGTGTAATGTTTTGATA-TTTCA
*
6379023 GGATAGCTTTGGTAGGTTGCATGACAGGGGGAAGGAAGTTCCGAAGGCTACAAAAATTTTGACTA
65 GGATAGCTTTGGTAGGTTGCATGACAGGGGGAAGGAAGTTCAGAAGGCTACAAAAATTTTGACTA
*
6379088 AGCTTTTTCCAAATAAAGTTACCATTCACATGCCA
130 AGCATTTTCCAAATAAAGTTACCATTCACATGCCA
6379123 CAGGTCTGTA
Statistics
Matches: 145, Mismatches: 19, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
164 50 0.34
165 95 0.66
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (164 bp):
ACCACGTTAGAGGCTATTGTATAGGTCATTGTTAACTTAAGGGGTGTAATGTTTTGATATTTCAG
GATAGCTTTGGTAGGTTGCATGACAGGGGGAAGGAAGTTCAGAAGGCTACAAAAATTTTGACTAA
GCATTTTCCAAATAAAGTTACCATTCACATGCCA
Found at i:6381911 original size:15 final size:16
Alignment explanation
Indices: 6381893--6381925 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6381883 CAAAAAACTA
*
6381893 TTTTCTTT-TTTCCTT
1 TTTTCTTTACTTCCTT
6381908 TTTTCTTTACTTCCTT
1 TTTTCTTTACTTCCTT
6381924 TT
1 TT
6381926 GTTGCAGTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTCTTTACTTCCTT
Found at i:6394150 original size:14 final size:14
Alignment explanation
Indices: 6394131--6394160 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6394121 GTTTAGCATC
*
6394131 TTCATTACCCGGGA
1 TTCATTACCAGGGA
6394145 TTCATTACCAGGGA
1 TTCATTACCAGGGA
6394159 TT
1 TT
6394161 ACCTGATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.33
Consensus pattern (14 bp):
TTCATTACCAGGGA
Found at i:6394893 original size:7 final size:7
Alignment explanation
Indices: 6394881--6394911 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
6394871 AGAAATGGTC
6394881 AAACTTA
1 AAACTTA
6394888 AAACTTA
1 AAACTTA
6394895 AAACTTA
1 AAACTTA
6394902 AAACTTA
1 AAACTTA
6394909 AAA
1 AAA
6394912 GAAGAGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.61, C:0.13, G:0.00, T:0.26
Consensus pattern (7 bp):
AAACTTA
Found at i:6397197 original size:96 final size:96
Alignment explanation
Indices: 6397033--6397229 Score: 376
Period size: 96 Copynumber: 2.1 Consensus size: 96
6397023 ACACTCAGCC
6397033 ACAAAGATCACTATTATGCTCTGCACAAATACTAAGCTTCCTTGGCAACACTATAAAGTAGCAAA
1 ACAAAGATCACTATTATGCTCTGCACAAATACTAAGCTTCCTTGGCAACACTATAAAGTAGCAAA
6397098 TGGTGTAGTTCTAGAAGCAACTCCTGCATCA
66 TGGTGTAGTTCTAGAAGCAACTCCTGCATCA
* *
6397129 ACAAAGATCACTATTATGCTGTGCACAAATACTAAGCTTCCTTGGCAACTCTATAAAGTAGCAAA
1 ACAAAGATCACTATTATGCTCTGCACAAATACTAAGCTTCCTTGGCAACACTATAAAGTAGCAAA
6397194 TGGTGTAGTTCTAGAAGCAACTCCTGCATCA
66 TGGTGTAGTTCTAGAAGCAACTCCTGCATCA
6397225 ACAAA
1 ACAAA
6397230 CCAAGCTCCA
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
96 99 1.00
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (96 bp):
ACAAAGATCACTATTATGCTCTGCACAAATACTAAGCTTCCTTGGCAACACTATAAAGTAGCAAA
TGGTGTAGTTCTAGAAGCAACTCCTGCATCA
Found at i:6400295 original size:76 final size:76
Alignment explanation
Indices: 6400203--6400353 Score: 302
Period size: 76 Copynumber: 2.0 Consensus size: 76
6400193 TTTTGATTAC
6400203 TAAACTTCAAAAAGTTATAAAATTGTCACTGGGTTATTCGAAAGTTTTCTTTTGAAGTTCGACTA
1 TAAACTTCAAAAAGTTATAAAATTGTCACTGGGTTATTCGAAAGTTTTCTTTTGAAGTTCGACTA
6400268 GCAAGCTTAAG
66 GCAAGCTTAAG
6400279 TAAACTTCAAAAAGTTATAAAATTGTCACTGGGTTATTCGAAAGTTTTCTTTTGAAGTTCGACTA
1 TAAACTTCAAAAAGTTATAAAATTGTCACTGGGTTATTCGAAAGTTTTCTTTTGAAGTTCGACTA
6400344 GCAAGCTTAA
66 GCAAGCTTAA
6400354 CTAACGATTT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 75 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (76 bp):
TAAACTTCAAAAAGTTATAAAATTGTCACTGGGTTATTCGAAAGTTTTCTTTTGAAGTTCGACTA
GCAAGCTTAAG
Found at i:6412507 original size:21 final size:22
Alignment explanation
Indices: 6412463--6412507 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
6412453 TTAAATATTG
*
6412463 TTAAAATATAATGATTGTAAAT
1 TTAAAATATAATGATTATAAAT
* *
6412485 TTAAATTATAATG-TTATATAT
1 TTAAAATATAATGATTATAAAT
6412506 TT
1 TT
6412508 GAAACAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (22 bp):
TTAAAATATAATGATTATAAAT
Found at i:6413444 original size:9 final size:9
Alignment explanation
Indices: 6413430--6413469 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
6413420 TTTGGTTAAA
6413430 AATTAACCG
1 AATTAACCG
*
6413439 AATTAATCG
1 AATTAACCG
*
6413448 AATTATCCG
1 AATTAACCG
*
6413457 AATTAATCG
1 AATTAACCG
6413466 AATT
1 AATT
6413470 TTATGTTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (9 bp):
AATTAACCG
Found at i:6413457 original size:18 final size:18
Alignment explanation
Indices: 6413430--6413469 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
6413420 TTTGGTTAAA
6413430 AATTAACCGAATTAATCG
1 AATTAACCGAATTAATCG
*
6413448 AATTATCCGAATTAATCG
1 AATTAACCGAATTAATCG
6413466 AATT
1 AATT
6413470 TTATGTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (18 bp):
AATTAACCGAATTAATCG
Found at i:6413509 original size:12 final size:12
Alignment explanation
Indices: 6413492--6413520 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
6413482 ATTTTTAAAC
6413492 TTTAGTTTTAGT
1 TTTAGTTTTAGT
6413504 TTTAGTTTTAGT
1 TTTAGTTTTAGT
6413516 TTTAG
1 TTTAG
6413521 AATTTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (12 bp):
TTTAGTTTTAGT
Found at i:6413544 original size:20 final size:20
Alignment explanation
Indices: 6413492--6413533 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
6413482 ATTTTTAAAC
6413492 TTTAGTTTTAG--TTTTAGT
1 TTTAGTTTTAGAATTTTAGT
*
6413510 TTTAGTTTTAGAATTTTATT
1 TTTAGTTTTAGAATTTTAGT
6413530 TTTA
1 TTTA
6413534 TTTATTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.52
20 10 0.48
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (20 bp):
TTTAGTTTTAGAATTTTAGT
Found at i:6419539 original size:102 final size:102
Alignment explanation
Indices: 6419410--6419614 Score: 410
Period size: 102 Copynumber: 2.0 Consensus size: 102
6419400 GTGTGGTTTT
6419410 TGGGGATTCTTTTTAGTATTTTCGTATGATTTTATAAGCTGATGTTTCGGTTTGGTTCTTGCATT
1 TGGGGATTCTTTTTAGTATTTTCGTATGATTTTATAAGCTGATGTTTCGGTTTGGTTCTTGCATT
6419475 TTGCAGATACATTGTTACATTCCGATAATTTGATCTG
66 TTGCAGATACATTGTTACATTCCGATAATTTGATCTG
6419512 TGGGGATTCTTTTTAGTATTTTCGTATGATTTTATAAGCTGATGTTTCGGTTTGGTTCTTGCATT
1 TGGGGATTCTTTTTAGTATTTTCGTATGATTTTATAAGCTGATGTTTCGGTTTGGTTCTTGCATT
6419577 TTGCAGATACATTGTTACATTCCGATAATTTGATCTG
66 TTGCAGATACATTGTTACATTCCGATAATTTGATCTG
6419614 T
1 T
6419615 TCTAGGAAGT
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 103 1.00
ACGTcount: A:0.20, C:0.12, G:0.20, T:0.48
Consensus pattern (102 bp):
TGGGGATTCTTTTTAGTATTTTCGTATGATTTTATAAGCTGATGTTTCGGTTTGGTTCTTGCATT
TTGCAGATACATTGTTACATTCCGATAATTTGATCTG
Found at i:6423981 original size:13 final size:13
Alignment explanation
Indices: 6423963--6423988 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6423953 ATTGAGTTAG
6423963 TTGCACAAAACAT
1 TTGCACAAAACAT
6423976 TTGCACAAAACAT
1 TTGCACAAAACAT
6423989 CCCTAAACTA
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:0.46, C:0.23, G:0.08, T:0.23
Consensus pattern (13 bp):
TTGCACAAAACAT
Found at i:6424726 original size:29 final size:30
Alignment explanation
Indices: 6424673--6424733 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 30
6424663 ATAGATTTAA
* * *
6424673 ACCAAATTATAATTTCATGTGTATAATTGT
1 ACCAAATTATAAATTCATATATATAATTGT
6424703 ACCAAATTA-AAATTCATATATATAATTGT
1 ACCAAATTATAAATTCATATATATAATTGT
6424732 AC
1 AC
6424734 ATTAAATTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.43, C:0.11, G:0.07, T:0.39
Consensus pattern (30 bp):
ACCAAATTATAAATTCATATATATAATTGT
Found at i:6427344 original size:14 final size:15
Alignment explanation
Indices: 6427313--6427346 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
6427303 CCCACTTAAC
6427313 AAATAAAACCCAAAT
1 AAATAAAACCCAAAT
6427328 AAATAAAACCC-AAT
1 AAATAAAACCCAAAT
6427342 AAATA
1 AAATA
6427347 GTCCATTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.68, C:0.18, G:0.00, T:0.15
Consensus pattern (15 bp):
AAATAAAACCCAAAT
Found at i:6434665 original size:9 final size:9
Alignment explanation
Indices: 6434649--6434682 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
6434639 GGTATTTTTC
6434649 GGTAATTCG
1 GGTAATTCG
*
6434658 GTTAATTCG
1 GGTAATTCG
6434667 GGTAATTCG
1 GGTAATTCG
6434676 GGTAATT
1 GGTAATT
6434683 TTTAACCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.24, C:0.09, G:0.29, T:0.38
Consensus pattern (9 bp):
GGTAATTCG
Found at i:6439667 original size:20 final size:20
Alignment explanation
Indices: 6439642--6439679 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6439632 GAAACTAATC
6439642 CTTTCGGGAATGCAATGTTT
1 CTTTCGGGAATGCAATGTTT
*
6439662 CTTTCGGGAGTGCAATGT
1 CTTTCGGGAATGCAATGT
6439680 GTCACTCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.29, T:0.37
Consensus pattern (20 bp):
CTTTCGGGAATGCAATGTTT
Found at i:6445603 original size:15 final size:15
Alignment explanation
Indices: 6445583--6445611 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6445573 ATGTAGTTTA
6445583 TTAATATTTTTTAAT
1 TTAATATTTTTTAAT
6445598 TTAATATTTTTTAA
1 TTAATATTTTTTAA
6445612 AAAGTAGCAA
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TTAATATTTTTTAAT
Found at i:6447650 original size:16 final size:14
Alignment explanation
Indices: 6447609--6447653 Score: 56
Period size: 13 Copynumber: 3.1 Consensus size: 14
6447599 ACCAATATTT
*
6447609 TAATATTTTTAATA
1 TAATATTTTAAATA
6447623 TAAT-TTTTAAATA
1 TAATATTTTAAATA
6447636 TGAATATTTTAAAATA
1 T-AATATTTT-AAATA
6447652 TA
1 TA
6447654 TGATGAATTG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 9 0.33
14 7 0.26
15 5 0.19
16 6 0.22
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (14 bp):
TAATATTTTAAATA
Found at i:6448190 original size:38 final size:38
Alignment explanation
Indices: 6448101--6448189 Score: 115
Period size: 38 Copynumber: 2.3 Consensus size: 38
6448091 AAAAATTATA
* * * *
6448101 TTTAATACAATAAATCATTTATTATATTTATTTATGTT
1 TTTAATATAATAAAACATTTATTATATTTATGTATATT
6448139 TTTAATATAATAAAACATTTATTATATTTATGGTAGTATTT
1 TTTAATATAATAAAACATTTATTATATTTAT-GTA-TA-TT
6448180 TTTAATATAA
1 TTTAATATAA
6448190 ATATTTTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
38 29 0.66
39 2 0.05
40 1 0.02
41 12 0.27
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.53
Consensus pattern (38 bp):
TTTAATATAATAAAACATTTATTATATTTATGTATATT
Found at i:6452404 original size:61 final size:60
Alignment explanation
Indices: 6452323--6452436 Score: 165
Period size: 61 Copynumber: 1.9 Consensus size: 60
6452313 ATATATTTTT
* * * * *
6452323 TTTCTTTTTTGGTCATCCAACTATGAAAAGTTACAAAATGATCACCCAACTATTAGTAAA
1 TTTCTTTTTTGGCCACCCAACTATAAAAAATTACAAAATAATCACCCAACTATTAGTAAA
*
6452383 TTTCTTATTTTGGCCACCCAACTATAAAAAATTACAAAATAATCATCCAACTAT
1 TTTCTT-TTTTGGCCACCCAACTATAAAAAATTACAAAATAATCACCCAACTAT
6452437 ACAATTTTGT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
60 6 0.13
61 41 0.87
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (60 bp):
TTTCTTTTTTGGCCACCCAACTATAAAAAATTACAAAATAATCACCCAACTATTAGTAAA
Found at i:6453910 original size:52 final size:52
Alignment explanation
Indices: 6453832--6453935 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
6453822 GATACCATGC
6453832 AAGTCACCAAGTTGGTAGGCTGTCAGGTTAACAGTACTTACGTGTCAGACGT
1 AAGTCACCAAGTTGGTAGGCTGTCAGGTTAACAGTACTTACGTGTCAGACGT
6453884 AAGTCACCAAGTTGGTAGGCTGTCAGGTTAACAGTACTTACGTGTCAGACGT
1 AAGTCACCAAGTTGGTAGGCTGTCAGGTTAACAGTACTTACGTGTCAGACGT
6453936 TTTGTATTGC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (52 bp):
AAGTCACCAAGTTGGTAGGCTGTCAGGTTAACAGTACTTACGTGTCAGACGT
Found at i:6454457 original size:24 final size:24
Alignment explanation
Indices: 6454430--6454475 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
6454420 AAACTTATAA
6454430 TTTTTGAAAATTTTAATTAGGCAC
1 TTTTTGAAAATTTTAATTAGGCAC
6454454 TTTTTGAAAATTTTAATTAGGC
1 TTTTTGAAAATTTTAATTAGGC
6454476 TTCTCAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.48
Consensus pattern (24 bp):
TTTTTGAAAATTTTAATTAGGCAC
Found at i:6455235 original size:26 final size:22
Alignment explanation
Indices: 6455181--6455236 Score: 58
Period size: 26 Copynumber: 2.4 Consensus size: 22
6455171 CAAGTTATAA
6455181 ATATTATATTATAACAAAAAAT
1 ATATTATATTATAACAAAAAAT
* *
6455203 TTCTTATATTATTAATCCTAAAAAAT
1 ATATTATATTA-TAA--C-AAAAAAT
6455229 ATATTATA
1 ATATTATA
6455237 AAAATTTGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 9 0.35
23 3 0.12
25 1 0.04
26 13 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (22 bp):
ATATTATATTATAACAAAAAAT
Found at i:6465663 original size:84 final size:85
Alignment explanation
Indices: 6465475--6465664 Score: 215
Period size: 84 Copynumber: 2.3 Consensus size: 85
6465465 AAATATAATT
* * * * *
6465475 TTTTTTATTTTTAGGGGGTTAAAGTGCAATTTTACTATACATTAATTTATAATTTCTTTATTTAT
1 TTTTTCATTTTTAAGGGATCAAAGTACAATTTTACTATACATTAATTTATAATTTCTTTATTTAT
* ** * *
6465540 AAGAGGATTGAATTGAAAAA
66 AAAAAAACTAAATTGAAAAA
*** * *
6465560 GAATTCA-TTTTAAGAGATCAAAGTACAATTTTACTATATATTAATTTATAATATT-TTTATTTA
1 TTTTTCATTTTTAAGGGATCAAAGTACAATTTTACTATACATTAATTTATAAT-TTCTTTATTTA
6465623 TAAAAAAACTAAATT-AAAAA
65 TAAAAAAACTAAATTGAAAAA
6465643 TTTTTCATTTTTAAGGGATCAA
1 TTTTTCATTTTTAAGGGATCAA
6465665 GGTCCAAGGC
Statistics
Matches: 84, Mismatches: 19, Indels: 5
0.78 0.18 0.05
Matches are distributed among these distances:
83 9 0.11
84 70 0.83
85 5 0.06
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.45
Consensus pattern (85 bp):
TTTTTCATTTTTAAGGGATCAAAGTACAATTTTACTATACATTAATTTATAATTTCTTTATTTAT
AAAAAAACTAAATTGAAAAA
Found at i:6466247 original size:31 final size:31
Alignment explanation
Indices: 6466178--6466247 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
6466168 AAGTTAATCT
* * *
6466178 TTGAACTTGGTAATTATTTTCATATTGGGGC
1 TTGAACTAGGTAATTATTTTCACATTAGGGC
* *
6466209 CTAAACTAGGTAATTATTCTT-ACATTAGGGC
1 TTGAACTAGGTAATTATT-TTCACATTAGGGC
6466240 TTGAACTA
1 TTGAACTA
6466248 TCTTTTATAT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
31 29 0.94
32 2 0.06
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.40
Consensus pattern (31 bp):
TTGAACTAGGTAATTATTTTCACATTAGGGC
Found at i:6473920 original size:10 final size:9
Alignment explanation
Indices: 6473905--6473948 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
6473895 ATTCATTTTA
*
6473905 ATAAAATTT
1 ATAAAAATT
6473914 ATAAAAATT
1 ATAAAAATT
*
6473923 ATTAAGAATT
1 A-TAAAAATT
6473933 ATAAAAATT
1 ATAAAAATT
6473942 ATAAAAA
1 ATAAAAA
6473949 AATTACAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
9 23 0.74
10 8 0.26
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (9 bp):
ATAAAAATT
Found at i:6478478 original size:15 final size:15
Alignment explanation
Indices: 6478458--6478508 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
6478448 TTACCTCAAA
*
6478458 TTATATTTTAGTTAT
1 TTATATTTTAGTAAT
*
6478473 TTATA-TTTA-AAAT
1 TTATATTTTAGTAAT
*
6478486 GTTATATTTTAGTCAT
1 -TTATATTTTAGTAAT
6478502 TTATATT
1 TTATATT
6478509 ATTGTGTTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 2 0.07
14 9 0.31
15 16 0.55
16 2 0.07
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (15 bp):
TTATATTTTAGTAAT
Found at i:6479184 original size:26 final size:27
Alignment explanation
Indices: 6479148--6479198 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
6479138 TTTAATTTGG
* *
6479148 TTTTTTTTTAATATAGTA-TTGTATGA
1 TTTTTATTTAACATAGTATTTGTATGA
6479174 TTTTTATTTAACATAGTATTTGTAT
1 TTTTTATTTAACATAGTATTTGTAT
6479199 TTGATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.73
27 6 0.27
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (27 bp):
TTTTTATTTAACATAGTATTTGTATGA
Found at i:6480039 original size:26 final size:25
Alignment explanation
Indices: 6479995--6480046 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
6479985 CACCCTTAAT
* *
6479995 TAAATAAGAAAAAATCTGGTTTTGA
1 TAAATAAGAAAAAAGCTGGGTTTGA
*
6480020 TAAATAAATAAAAAAGCTGGGTTTGA
1 TAAAT-AAGAAAAAAGCTGGGTTTGA
6480046 T
1 T
6480047 TCATGTGTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.48, C:0.04, G:0.17, T:0.31
Consensus pattern (25 bp):
TAAATAAGAAAAAAGCTGGGTTTGA
Found at i:6480372 original size:29 final size:31
Alignment explanation
Indices: 6480315--6480379 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 31
6480305 AGCAATTTAA
**
6480315 TTTTTTTTCTTTTATATTCTTTTAACTTT-C
1 TTTTTTTTCTTTTATATTCCATTAACTTTGC
* *
6480345 TTTTTTTTC-TTTATTTTCCATTATCTTTGC
1 TTTTTTTTCTTTTATATTCCATTAACTTTGC
6480375 TTTTT
1 TTTTT
6480380 CATCTATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 15 0.50
30 15 0.50
ACGTcount: A:0.11, C:0.14, G:0.02, T:0.74
Consensus pattern (31 bp):
TTTTTTTTCTTTTATATTCCATTAACTTTGC
Found at i:6482804 original size:25 final size:23
Alignment explanation
Indices: 6482752--6482806 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 23
6482742 ACATACAATT
*
6482752 TTTATTTTAAATAAATACATTAA
1 TTTATTTTAAATAAATAAATTAA
6482775 TTTATTGTTATAATAAATAAATATAA
1 TTTATT-TTA-AATAAATAAAT-TAA
6482801 -TTATTT
1 TTTATTT
6482807 GTGTACACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 6 0.21
24 4 0.14
25 15 0.54
26 3 0.11
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
TTTATTTTAAATAAATAAATTAA
Found at i:6483611 original size:18 final size:17
Alignment explanation
Indices: 6483590--6483638 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
6483580 TTATAACATT
6483590 TTTATGATTTTTATAATA
1 TTTATGATTTTTA-AATA
* *
6483608 TTTAATAATATTTAAATA
1 TTT-ATGATTTTTAAATA
6483626 TTTATTGATTTTT
1 TTTA-TGATTTTT
6483639 TAGAATTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 1 0.04
18 16 0.64
19 8 0.32
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (17 bp):
TTTATGATTTTTAAATA
Found at i:6493351 original size:20 final size:20
Alignment explanation
Indices: 6493326--6493365 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6493316 CGTAAAATGA
*
6493326 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
6493346 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
6493366 AGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:6493355 original size:34 final size:35
Alignment explanation
Indices: 6493311--6493377 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
6493301 CAGTAAAATA
* *
6493311 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
*
6493345 TTTTCTGTAAAATGATTTACTAGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTAGAAAATATTTT
6493378 CTGCTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTAGAAAATATTTTAC
Found at i:6496691 original size:16 final size:18
Alignment explanation
Indices: 6496654--6496693 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
6496644 AATTTATAAG
6496654 ATTT-TATATTATGTTAT
1 ATTTATATATTATGTTAT
*
6496671 TTTTATATATTATG-TA-
1 ATTTATATATTATGTTAT
6496687 ATTTATA
1 ATTTATA
6496694 ACAAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 6 0.30
17 5 0.25
18 9 0.45
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
ATTTATATATTATGTTAT
Found at i:6501826 original size:30 final size:30
Alignment explanation
Indices: 6501759--6501827 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
6501749 TCCACCCTTA
*
6501759 AAATATTTGCACAATTGATCCTTCAAATTTT
1 AAATATTTGCAC-ATTGAACCTTCAAATTTT
** *
6501790 CTATATTTGCAC-TTTAACCTCTCAAATTTT
1 AAATATTTGCACATTGAACCT-TCAAATTTT
6501820 AAATATTT
1 AAATATTT
6501828 ACTTTTAGGC
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
29 6 0.19
30 15 0.48
31 10 0.32
ACGTcount: A:0.33, C:0.17, G:0.04, T:0.45
Consensus pattern (30 bp):
AAATATTTGCACATTGAACCTTCAAATTTT
Found at i:6510177 original size:153 final size:155
Alignment explanation
Indices: 6509893--6510323 Score: 473
Period size: 153 Copynumber: 2.7 Consensus size: 155
6509883 TCAGGGTCGG
* * *
6509893 CTTGGTTTGGTTCAATCACAGCCGCTTGTACCAAACAATTGTTTCATTCTTACAGTTCAAGATGG
1 CTTGGTTTGGTTCAATCACATCCGCTTGTACC--A-TA-TATTTCATT-TTACAGTTCAAGATGG
* * * * *
6509958 TAAAAGCTGTAAGAATTCCTTAATGAGGAG-AAAAGGATAAATGAAAAGAAAAA-GTAAGAGAGA
61 TTAAAGCTGTAAGAATTCATTCATGAGGAGAAAAAGGATAAAGGAAAAGAAAAAGGTAAGAGACA
* * *
6510021 TGATACGCTTTATCCATCTTCAGAG-TCAA
126 TGATACACTTTAACCATCTGCAGAGTTCAA
* *
6510050 CTTGGTTTGGTTCAATCACATCCGCTTGTACCGTATATTTCACTTTTACAGTTCATGATGGTTAA
1 CTTGGTTTGGTTCAATCACATCCGCTTGTACCATATATTTCA-TTTTACAGTTCAAGATGGTTAA
6510115 AGCTGTAAGAATTCATTCATGAGGAGAAAAAGGATAAAGGAAAAGAAAAAGGT-A-AGACATGAT
65 AGCTGTAAGAATTCATTCATGAGGAGAAAAAGGATAAAGGAAAAGAAAAAGGTAAGAGACATGAT
*
6510178 ACACTTTAACCGTCTGCAGAGTTCAA
130 ACACTTTAACCATCTGCAGAGTTCAA
* * * * * * *
6510204 CTTGGTTCGATTCAATCACTTCCACTTGAATCATATAATTGTTCCATTTTTTACAGTTGAAGATG
1 CTTGGTTTGGTTCAATCACATCCGCTTGTACCATAT-A-T-TT-CA--TTTTACAGTTCAAGATG
* *
6510269 GTTAAAGCTGTAAG-ATCCATTCATGA-G-GACAAAGGAATAAAGGAAAAGGAAAAAG
60 GTTAAAGCTGTAAGAATTCATTCATGAGGAGAAAAAGG-ATAAAGGAAAA-GAAAAAG
6510324 AAAAGAAAGA
Statistics
Matches: 237, Mismatches: 26, Indels: 21
0.83 0.09 0.07
Matches are distributed among these distances:
153 73 0.31
154 59 0.25
155 3 0.01
156 8 0.03
157 45 0.19
158 20 0.08
159 29 0.12
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (155 bp):
CTTGGTTTGGTTCAATCACATCCGCTTGTACCATATATTTCATTTTACAGTTCAAGATGGTTAAA
GCTGTAAGAATTCATTCATGAGGAGAAAAAGGATAAAGGAAAAGAAAAAGGTAAGAGACATGATA
CACTTTAACCATCTGCAGAGTTCAA
Found at i:6511520 original size:304 final size:304
Alignment explanation
Indices: 6510971--6511583 Score: 1226
Period size: 304 Copynumber: 2.0 Consensus size: 304
6510961 ATCTCTACAA
6510971 GCAAGTCATCTATGTGCCTGCCAATCAATGATATAAGTTTCTTGCAATACTTTGCCACCAAAACA
1 GCAAGTCATCTATGTGCCTGCCAATCAATGATATAAGTTTCTTGCAATACTTTGCCACCAAAACA
6511036 AGCAATTGCTGCAACTAACCTCTTGTTAATCATTGGACCAAGATACAAGCAGAATGAAAAATAGC
66 AGCAATTGCTGCAACTAACCTCTTGTTAATCATTGGACCAAGATACAAGCAGAATGAAAAATAGC
6511101 ATAGTGGCTCTATGCACCAATCCGCTAGCCCCACAACAGTATAAAAGGGATTTTTTCCCCACTGC
131 ATAGTGGCTCTATGCACCAATCCGCTAGCCCCACAACAGTATAAAAGGGATTTTTTCCCCACTGC
6511166 AGCTGCATCACATTCAGATCATGGTTCCTTGTATATGTCTCTAAATCAACACAAAAACTAAGATA
196 AGCTGCATCACATTCAGATCATGGTTCCTTGTATATGTCTCTAAATCAACACAAAAACTAAGATA
6511231 CAACTATCACTGCAAACCGATTCAAACTTTAGGGCGGAAAGTTG
261 CAACTATCACTGCAAACCGATTCAAACTTTAGGGCGGAAAGTTG
6511275 GCAAGTCATCTATGTGCCTGCCAATCAATGATATAAGTTTCTTGCAATACTTTGCCACCAAAACA
1 GCAAGTCATCTATGTGCCTGCCAATCAATGATATAAGTTTCTTGCAATACTTTGCCACCAAAACA
6511340 AGCAATTGCTGCAACTAACCTCTTGTTAATCATTGGACCAAGATACAAGCAGAATGAAAAATAGC
66 AGCAATTGCTGCAACTAACCTCTTGTTAATCATTGGACCAAGATACAAGCAGAATGAAAAATAGC
6511405 ATAGTGGCTCTATGCACCAATCCGCTAGCCCCACAACAGTATAAAAGGGATTTTTTCCCCACTGC
131 ATAGTGGCTCTATGCACCAATCCGCTAGCCCCACAACAGTATAAAAGGGATTTTTTCCCCACTGC
6511470 AGCTGCATCACATTCAGATCATGGTTCCTTGTATATGTCTCTAAATCAACACAAAAACTAAGATA
196 AGCTGCATCACATTCAGATCATGGTTCCTTGTATATGTCTCTAAATCAACACAAAAACTAAGATA
6511535 CAACTATCACTGCAAACCGATTCAAACTTTAGGGCGGAAAGTTG
261 CAACTATCACTGCAAACCGATTCAAACTTTAGGGCGGAAAGTTG
6511579 GCAAG
1 GCAAG
6511584 AATTCTTTAG
Statistics
Matches: 309, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
304 309 1.00
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (304 bp):
GCAAGTCATCTATGTGCCTGCCAATCAATGATATAAGTTTCTTGCAATACTTTGCCACCAAAACA
AGCAATTGCTGCAACTAACCTCTTGTTAATCATTGGACCAAGATACAAGCAGAATGAAAAATAGC
ATAGTGGCTCTATGCACCAATCCGCTAGCCCCACAACAGTATAAAAGGGATTTTTTCCCCACTGC
AGCTGCATCACATTCAGATCATGGTTCCTTGTATATGTCTCTAAATCAACACAAAAACTAAGATA
CAACTATCACTGCAAACCGATTCAAACTTTAGGGCGGAAAGTTG
Found at i:6517189 original size:44 final size:44
Alignment explanation
Indices: 6517125--6517220 Score: 156
Period size: 44 Copynumber: 2.2 Consensus size: 44
6517115 TTAAGAAATG
* *
6517125 AATTAAATAGAAACTGTGATAGTTATACATTTAAAAACAATTAT
1 AATTTAATAAAAACTGTGATAGTTATACATTTAAAAACAATTAT
* *
6517169 AATTTAATAAAAATTGTGATAGTTATACATTTAAAAATAATTAT
1 AATTTAATAAAAACTGTGATAGTTATACATTTAAAAACAATTAT
6517213 AATTTAAT
1 AATTTAAT
6517221 TTATAATTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (44 bp):
AATTTAATAAAAACTGTGATAGTTATACATTTAAAAACAATTAT
Found at i:6519954 original size:29 final size:27
Alignment explanation
Indices: 6519921--6520011 Score: 80
Period size: 25 Copynumber: 3.3 Consensus size: 27
6519911 TAGTATATAG
*
6519921 TAAAATTATATTTAACTCTCTTAAAATGA
1 TAAAATTA-ATTTAA-TCTATTAAAATGA
* *
6519950 TAAAAAGTTAATTTAATCTTTTAAAATTA
1 T-AAAA-TTAATTTAATCTATTAAAATGA
*
6519979 TAAAA--AATATAAAT-TATTAAAATGA
1 TAAAATTAAT-TTAATCTATTAAAATGA
6520004 TAAAATTA
1 TAAAATTA
6520012 TATTATCGTA
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
25 17 0.33
26 4 0.08
27 1 0.02
28 4 0.08
29 13 0.25
30 10 0.19
31 3 0.06
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (27 bp):
TAAAATTAATTTAATCTATTAAAATGA
Done.