Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 281 of 356
Found at i:91602451 original size:26 final size:27
Alignment explanation
Indices: 91602394--91602458 Score: 69
Period size: 29 Copynumber: 2.4 Consensus size: 27
91602384 ACCATCATTG
* *
91602394 ATTAATATTATTATCACTATTATAGATGT
1 ATTATTATTATGATCACTATTAT--ATGT
*
91602423 ATTATTATTATGATCACTATTAT-TTT
1 ATTATTATTATGATCACTATTATATGT
*
91602449 ATTCTTATTA
1 ATTATTATTA
91602459 ATTTTTGCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 11 0.34
29 21 0.66
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.54
Consensus pattern (27 bp):
ATTATTATTATGATCACTATTATATGT
Found at i:91605504 original size:22 final size:23
Alignment explanation
Indices: 91605460--91605507 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
91605450 TTTAATGAAA
91605460 TTTTTTGCTTTCCAAGATAATTT
1 TTTTTTGCTTTCCAAGATAATTT
*
91605483 TTTTTTGCTTTCCAAGA-CATTT
1 TTTTTTGCTTTCCAAGATAATTT
91605505 TTT
1 TTT
91605508 GAAATATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.19, C:0.15, G:0.08, T:0.58
Consensus pattern (23 bp):
TTTTTTGCTTTCCAAGATAATTT
Found at i:91608590 original size:17 final size:18
Alignment explanation
Indices: 91608558--91608592 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
91608548 AGAATAAGAC
91608558 AATTTTATTATCTTTTTA
1 AATTTTATTATCTTTTTA
*
91608576 AATTTT-TTTTCTTTTTA
1 AATTTTATTATCTTTTTA
91608593 TTTCACTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (18 bp):
AATTTTATTATCTTTTTA
Found at i:91610500 original size:92 final size:92
Alignment explanation
Indices: 91610242--91610519 Score: 246
Period size: 92 Copynumber: 3.0 Consensus size: 92
91610232 ACTAATCCAC
* * * * * *
91610242 TCAGATAATAATATGCAG--TAGGGCTAGCGTATGTGTTGTACGGTGCAATGCGGTAGAT-TGCT
1 TCAGATAATGATACGCAGCATA-GGCTAACGTATGTGCTGTACAGTGCAATGCAGTA-ATCTGCT
* * *
91610304 ATATAGAAAAGTTGCAGTTAAACTGCCAGA
64 ATACAGAAAA-TTGCAGTTTAACTACCAGA
* * * * * * * *
91610334 TCAGATAATGGTACGTAGCATA-GCTAACGTACGTACGGTACAGTGCGATGCATTAAACTGCTAT
1 TCAGATAATGATACGCAGCATAGGCTAACGTATGTGCTGTACAGTGCAATGCAGTAATCTGCTAT
* *
91610398 ACTAGTAAATTGCAGTTTAACTATCAGA
66 AC-AGAAAATTGCAGTTTAACTACCAGA
91610426 TCAGATAAAT-ATACGCAGCA-AGGCTAACGTATGTGCTGTACAGTGCAATGCAGTAATCTGC-A
1 TCAGAT-AATGATACGCAGCATAGGCTAACGTATGTGCTGTACAGTGCAATGCAGTAATCTGCTA
* *
91610488 GTACAGACAAATTGTAGTTTGAACTGCCAGA
65 -TACAGA-AAATTGCAGTTT-AACTACCAGA
91610519 T
1 T
91610520 TAGACCAGAA
Statistics
Matches: 146, Mismatches: 31, Indels: 17
0.75 0.16 0.09
Matches are distributed among these distances:
91 5 0.03
92 122 0.84
93 17 0.12
94 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.27
Consensus pattern (92 bp):
TCAGATAATGATACGCAGCATAGGCTAACGTATGTGCTGTACAGTGCAATGCAGTAATCTGCTAT
ACAGAAAATTGCAGTTTAACTACCAGA
Found at i:91614979 original size:27 final size:26
Alignment explanation
Indices: 91614949--91615011 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
91614939 AGATAATTAA
91614949 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
91614976 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
91615003 AATATAAAT
1 AATA-AAAT
91615012 AAAATGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:91614998 original size:15 final size:15
Alignment explanation
Indices: 91614978--91615007 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
91614968 ATAATCCTAA
*
91614978 TAATTATCTTAATAT
1 TAATTATCCTAATAT
91614993 TAATTATCCTAATAT
1 TAATTATCCTAATAT
91615008 AAATAAAATG
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:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:91616462 original size:34 final size:34
Alignment explanation
Indices: 91616384--91616464 Score: 83
Period size: 34 Copynumber: 2.4 Consensus size: 34
91616374 TGGATACTGT
* **
91616384 ACTGAGATGGGCTAAGACCCACACTAATACTATT
1 ACTGATATGGGCTAAGACCCACACTAATACTACC
* * * *
91616418 ACTG-TCATGGGCTAAGGCCCACACTGATATTGCC
1 ACTGAT-ATGGGCTAAGACCCACACTAATACTACC
91616452 ACTGATATGGGCT
1 ACTGATATGGGCT
91616465 CGGGCCCAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
34 37 0.97
35 1 0.03
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (34 bp):
ACTGATATGGGCTAAGACCCACACTAATACTACC
Found at i:91624888 original size:15 final size:14
Alignment explanation
Indices: 91624866--91624897 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
91624856 CGGATAAAAT
91624866 TTTAATTTTTATAA
1 TTTAATTTTTATAA
91624880 TTTATATTTTTATAA
1 TTTA-ATTTTTATAA
91624895 TTT
1 TTT
91624898 GTAAAAGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTAATTTTTATAA
Found at i:91625676 original size:20 final size:20
Alignment explanation
Indices: 91625651--91625702 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
91625641 TTAGTTTCTA
*
91625651 CTCTGTTTCGTTCTGCTTTG
1 CTCTGTTTCGTTCTGCTCTG
*
91625671 CTCTGTTTAGTTCTGCTCTG
1 CTCTGTTTCGTTCTGCTCTG
*
91625691 CTCTGTTCCGTT
1 CTCTGTTTCGTT
91625703 ATGTTCTACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.02, C:0.27, G:0.19, T:0.52
Consensus pattern (20 bp):
CTCTGTTTCGTTCTGCTCTG
Found at i:91625689 original size:15 final size:15
Alignment explanation
Indices: 91625604--91625690 Score: 50
Period size: 15 Copynumber: 5.4 Consensus size: 15
91625594 CCTTTGCGTA
*
91625604 GCTCTGTTCAGTTCT
1 GCTCTGTTTAGTTCT
* *
91625619 GCTCTGCTCTA-TTTT
1 GCTCTG-TTTAGTTCT
*
91625634 GTTCTGTTTAGTTTCT
1 GCTCTGTTTAG-TTCT
* *
91625650 ACTCTGTTTCGTTCTGCTTT
1 GCTCTGTTTAG-T-T-C--T
91625670 GCTCTGTTTAGTTCT
1 GCTCTGTTTAGTTCT
91625685 GCTCTG
1 GCTCTG
91625691 CTCTGTTCCG
Statistics
Matches: 54, Mismatches: 11, Indels: 14
0.68 0.14 0.18
Matches are distributed among these distances:
14 3 0.06
15 21 0.39
16 15 0.28
17 2 0.04
18 2 0.04
19 1 0.02
20 10 0.19
ACGTcount: A:0.06, C:0.23, G:0.18, T:0.53
Consensus pattern (15 bp):
GCTCTGTTTAGTTCT
Found at i:91627295 original size:26 final size:26
Alignment explanation
Indices: 91627266--91627530 Score: 216
Period size: 26 Copynumber: 10.2 Consensus size: 26
91627256 CGGCACAGAT
** *
91627266 CCTGACAACAAATCACCTACACGAAG
1 CCTGACAGTAAATCACCGACACGAAG
91627292 CCTGACAGTAAATCACCGACAC-AGAG
1 CCTGACAGTAAATCACCGACACGA-AG
* *
91627318 -CTAGACAGTAAATCATCAACACGAAG
1 CCT-GACAGTAAATCACCGACACGAAG
* *
91627344 CCTGACAATAAATCACCGATACGAAG
1 CCTGACAGTAAATCACCGACACGAAG
* *
91627370 CCTGATAGTAAATCATC-AGCACGAAG
1 CCTGACAGTAAATCACCGA-CACGAAG
* ** *
91627396 CCTGACAGTAAATAATTGGCAC-AGAG
1 CCTGACAGTAAATCACCGACACGA-AG
* * * * *
91627422 CCTGATAGTAAATCATCGGCACAAAT
1 CCTGACAGTAAATCACCGACACGAAG
*
91627448 CCTGACAGTAAATCACC-AGCACAAAG
1 CCTGACAGTAAATCACCGA-CACGAAG
* * *
91627474 CCTGACAATAAATCATCGACACAAAG
1 CCTGACAGTAAATCACCGACACGAAG
* * * *
91627500 CCTAACAGTAAATCACTGGCACAAAG
1 CCTGACAGTAAATCACCGACACGAAG
91627526 CCTGA
1 CCTGA
91627531 TAGAATATTT
Statistics
Matches: 196, Mismatches: 33, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
25 5 0.03
26 186 0.95
27 5 0.03
ACGTcount: A:0.41, C:0.27, G:0.16, T:0.16
Consensus pattern (26 bp):
CCTGACAGTAAATCACCGACACGAAG
Found at i:91627331 original size:52 final size:52
Alignment explanation
Indices: 91627251--91627530 Score: 271
Period size: 52 Copynumber: 5.4 Consensus size: 52
91627241 TGCGGTCCAT
* * ** * *
91627251 ATCACCGGCACAGATCCTGACAACAAATCACCTACACGAAGCCTGACAGTAA
1 ATCACCGACACAGAGCCTGACAGTAAATCATCGACACGAAGCCTGACAGTAA
* *
91627303 ATCACCGACACAGAG-CTAGACAGTAAATCATCAACACGAAGCCTGACAATAA
1 ATCACCGACACAGAGCCT-GACAGTAAATCATCGACACGAAGCCTGACAGTAA
* *
91627355 ATCACCGATAC-GAAGCCTGATAGTAAATCATC-AGCACGAAGCCTGACAGTAA
1 ATCACCGACACAG-AGCCTGACAGTAAATCATCGA-CACGAAGCCTGACAGTAA
* ** * * * * *
91627407 ATAATTGGCACAGAGCCTGATAGTAAATCATCGGCACAAATCCTGACAGTAA
1 ATCACCGACACAGAGCCTGACAGTAAATCATCGACACGAAGCCTGACAGTAA
* * * *
91627459 ATCACC-AGCACAAAGCCTGACAATAAATCATCGACACAAAGCCTAACAGTAA
1 ATCACCGA-CACAGAGCCTGACAGTAAATCATCGACACGAAGCCTGACAGTAA
* * *
91627511 ATCACTGGCACAAAGCCTGA
1 ATCACCGACACAGAGCCTGA
91627531 TAGAATATTT
Statistics
Matches: 190, Mismatches: 30, Indels: 16
0.81 0.13 0.07
Matches are distributed among these distances:
51 4 0.02
52 183 0.96
53 3 0.02
ACGTcount: A:0.41, C:0.27, G:0.16, T:0.16
Consensus pattern (52 bp):
ATCACCGACACAGAGCCTGACAGTAAATCATCGACACGAAGCCTGACAGTAA
Found at i:91627403 original size:78 final size:75
Alignment explanation
Indices: 91627266--91627530 Score: 244
Period size: 78 Copynumber: 3.4 Consensus size: 75
91627256 CGGCACAGAT
* * * *
91627266 CCTGACAACAAATCACCTACACGAAGCCTGACAGTAAATCACCGACACAGAG-CTAGACAGTAAA
1 CCTGACAATAAATCACCGACACAAAGCCTGACAGTAAATCACAG-CACA-AGCCT-GACAGTAAA
*
91627330 TCATCAACACGAAG
63 TCATCGACAC-AAG
* * *
91627344 CCTGACAATAAATCACCGATACGAAGCCTGATAGTAAATCATCAGCACGAAGCCTGACAGTAAAT
1 CCTGACAATAAATCACCGACACAAAGCCTGACAGTAAATCA-CAGCAC-AAGCCTGACAGTAAAT
* * *
91627409 AATTGGCACAGAG
64 CATCGACACA-AG
* * * * * *
91627422 CCTGATAGTAAATCATCGGCACAAATCCTGACAGTAAATCACCAGCACAAAGCCTGACAATAAAT
1 CCTGACAATAAATCACCGACACAAAGCCTGACAGTAAATCA-CAGCAC-AAGCCTGACAGTAAAT
91627487 CATCGACACAAAG
64 CATCGACAC-AAG
* * * *
91627500 CCTAACAGTAAATCACTGGCACAAAGCCTGA
1 CCTGACAATAAATCACCGACACAAAGCCTGA
91627531 TAGAATATTT
Statistics
Matches: 154, Mismatches: 28, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
77 1 0.01
78 147 0.95
79 6 0.04
ACGTcount: A:0.41, C:0.27, G:0.16, T:0.16
Consensus pattern (75 bp):
CCTGACAATAAATCACCGACACAAAGCCTGACAGTAAATCACAGCACAAGCCTGACAGTAAATCA
TCGACACAAG
Found at i:91628158 original size:17 final size:17
Alignment explanation
Indices: 91628136--91628173 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
91628126 ACAAGTCCTT
91628136 ACATTTTTA-TCACTTTA
1 ACATTTTTAGTCA-TTTA
91628153 ACA-TTTTAGTCATTTA
1 ACATTTTTAGTCATTTA
91628169 ACATT
1 ACATT
91628174 AAAATTAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.32, C:0.16, G:0.03, T:0.50
Consensus pattern (17 bp):
ACATTTTTAGTCATTTA
Found at i:91630013 original size:19 final size:18
Alignment explanation
Indices: 91629989--91630034 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
91629979 ATTATTTTTT
* *
91629989 AAATTAATTTTTTTAAAAA
1 AAATTAAATTATTT-AAAA
91630008 AAATTATAATTATTTAAAA
1 AAATTA-AATTATTTAAAA
91630027 AAATTAAA
1 AAATTAAA
91630035 AAATTGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 16 0.67
20 6 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAATTAAATTATTTAAAA
Found at i:91632398 original size:36 final size:36
Alignment explanation
Indices: 91632351--91632422 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
91632341 GAGACACTTT
91632351 GGTGTTCGAACATCAAGGTGAAATGTGAAATAGGTC
1 GGTGTTCGAACATCAAGGTGAAATGTGAAATAGGTC
91632387 GGTGTTCGAACATCAAGGTGAAATGTGAAATAGGTC
1 GGTGTTCGAACATCAAGGTGAAATGTGAAATAGGTC
91632423 CTTTGGGATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.11, G:0.31, T:0.25
Consensus pattern (36 bp):
GGTGTTCGAACATCAAGGTGAAATGTGAAATAGGTC
Found at i:91634405 original size:21 final size:20
Alignment explanation
Indices: 91634381--91634429 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
91634371 ATTCTATTTG
91634381 GCCTTTGTGGAC-TTCTGATTA
1 GCCTTTGTGG-CTTTCTG-TTA
*
91634402 GCCTTGGTGGCTTTCTGTTA
1 GCCTTTGTGGCTTTCTGTTA
*
91634422 TCCTTTGT
1 GCCTTTGT
91634430 AGTGTACTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.08, C:0.20, G:0.24, T:0.47
Consensus pattern (20 bp):
GCCTTTGTGGCTTTCTGTTA
Found at i:91638162 original size:67 final size:67
Alignment explanation
Indices: 91638054--91638186 Score: 239
Period size: 67 Copynumber: 2.0 Consensus size: 67
91638044 TGAGCATATG
*
91638054 TTACAGGGGATTTAACCTAGACTGGTAATCCTGCTATAAGAAATGAGGTTTGCGGGAGTGTGCTC
1 TTACAGGGGATTTAACCTAGACTGGTAATCCTGCTATAAGAAATGAGGTTCGCGGGAGTGTGCTC
91638119 TC
66 TC
* *
91638121 TTACAGGGGATTTAGCCTAGACTGGTAATCCTGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTC
1 TTACAGGGGATTTAACCTAGACTGGTAATCCTGCTATAAGAAATGAGGTTCGCGGGAGTGTGCTC
91638186 T
66 T
91638187 TTGAAAAGGA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (67 bp):
TTACAGGGGATTTAACCTAGACTGGTAATCCTGCTATAAGAAATGAGGTTCGCGGGAGTGTGCTC
TC
Found at i:91639036 original size:32 final size:32
Alignment explanation
Indices: 91638998--91639060 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
91638988 CTAGCCATTG
91638998 GTATGGCTTATATTTAGTAAGTTTTGAGTTAT
1 GTATGGCTTATATTTAGTAAGTTTTGAGTTAT
91639030 GTATGGCTTATATTTAGTAAGTTTTGAGTTA
1 GTATGGCTTATATTTAGTAAGTTTTGAGTTA
91639061 CATATAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.22, T:0.49
Consensus pattern (32 bp):
GTATGGCTTATATTTAGTAAGTTTTGAGTTAT
Found at i:91642151 original size:34 final size:34
Alignment explanation
Indices: 91642113--91642183 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
91642103 AATTTTGAGA
91642113 TAGTAAATTTTTATTTAATTTAAGGTTTATGTTG
1 TAGTAAATTTTTATTTAATTTAAGGTTTATGTTG
*
91642147 TAGTAAATTTTTATTTAATTTAAGGTTTCTGTTG
1 TAGTAAATTTTTATTTAATTTAAGGTTTATGTTG
91642181 TAG
1 TAG
91642184 GAAGATTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.28, C:0.01, G:0.15, T:0.55
Consensus pattern (34 bp):
TAGTAAATTTTTATTTAATTTAAGGTTTATGTTG
Found at i:91642198 original size:34 final size:33
Alignment explanation
Indices: 91642122--91642198 Score: 102
Period size: 34 Copynumber: 2.3 Consensus size: 33
91642112 ATAGTAAATT
*
91642122 TTTA-TTTAATTTAAGGTTTATGTTGTAGTAAA
1 TTTATTTTAATTTAAGGTTTATGTTGTAGGAAA
* *
91642154 TTTTTATTTAATTTAAGGTTTCTGTTGTAGGAAGA
1 TTTAT-TTTAATTTAAGGTTTATGTTGTAGGAA-A
91642189 TTTATTTTAA
1 TTTATTTTAA
91642199 GAAATAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
32 3 0.08
34 30 0.79
35 5 0.13
ACGTcount: A:0.29, C:0.01, G:0.16, T:0.55
Consensus pattern (33 bp):
TTTATTTTAATTTAAGGTTTATGTTGTAGGAAA
Found at i:91661653 original size:29 final size:30
Alignment explanation
Indices: 91661605--91661661 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
91661595 AAATTGAATC
91661605 AAATCAAAATATTATATATAAAATTACACA
1 AAATCAAAATATTATATATAAAATTACACA
* * *
91661635 AAATTAAAAT-TTATGTATAATATTACA
1 AAATCAAAATATTATATATAAAATTACA
91661662 GGTTAAACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (30 bp):
AAATCAAAATATTATATATAAAATTACACA
Found at i:91663148 original size:30 final size:28
Alignment explanation
Indices: 91663114--91663175 Score: 74
Period size: 27 Copynumber: 2.2 Consensus size: 28
91663104 TTAACAATAA
*
91663114 GAGTTTATTTTTAATTTTATTTA-TGAAAAT
1 GAGTTTATTTTT--TATTATTTACT-AAAAT
91663144 GAG-TTATTTTTTATTATTTACTAAAAT
1 GAGTTTATTTTTTATTATTTACTAAAAT
91663171 GAGTT
1 GAGTT
91663176 GAAAATATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
27 16 0.55
28 2 0.07
29 8 0.28
30 3 0.10
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (28 bp):
GAGTTTATTTTTTATTATTTACTAAAAT
Found at i:91663563 original size:34 final size:34
Alignment explanation
Indices: 91663460--91663565 Score: 160
Period size: 34 Copynumber: 3.1 Consensus size: 34
91663450 AATAAATCGA
*
91663460 GGTTTAGAGTTTTTAAAAAAATTAATTAAATTAG
1 GGTTAAGAGTTTTTAAAAAAATTAATTAAATTAG
* *
91663494 GTTTTAAGAG-TTTTAAATAAATTAATTAAATTAG
1 G-GTTAAGAGTTTTTAAAAAAATTAATTAAATTAG
*
91663528 GGTTCAGAGTTTTTAAAAAAATTAATTAAATTAG
1 GGTTAAGAGTTTTTAAAAAAATTAATTAAATTAG
91663562 GGTT
1 GGTT
91663566 TTTTTTCAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
33 6 0.09
34 52 0.81
35 6 0.09
ACGTcount: A:0.42, C:0.01, G:0.15, T:0.42
Consensus pattern (34 bp):
GGTTAAGAGTTTTTAAAAAAATTAATTAAATTAG
Found at i:91663945 original size:127 final size:127
Alignment explanation
Indices: 91663680--91664178 Score: 655
Period size: 127 Copynumber: 4.0 Consensus size: 127
91663670 TCAGAATAAT
* ** * * *
91663680 TAATTTTGAGAAGACGGTTCTGAAATGATAATGTCAAAAACGCTTCAAGCAAGATGCACTGTCAA
1 TAATTTTGAGAAGACGATTCTGAAAAAATAGTGTCAAAAACACTTCAAACAAGATGCACTGTCAA
* * *
91663745 CAAAATTTCT-AAAAAAA-CTCTCACATGGACGCTCTATTTCTACAGTAGTTCCTGAAAAAA
66 CAAAATTACTGAAAAAAAGCTCCCACGTGGACGCTCTATTTCTACAGTAGTTCCTGAAAAAA
* * *
91663805 TAATTTTGAGAAGACGATTTTGAAAAAATAGTGTCAAAAACACTTCAAACAAGATGCATTGTCAG
1 TAATTTTGAGAAGACGATTCTGAAAAAATAGTGTCAAAAACACTTCAAACAAGATGCACTGTCAA
* *
91663870 CAAAATTACTGAAAAAAAGTTCCCATGTGGACGCTCTATTTCTACAGTAGTTCCTGAAAAAA
66 CAAAATTACTGAAAAAAAGCTCCCACGTGGACGCTCTATTTCTACAGTAGTTCCTGAAAAAA
* *
91663932 TAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAACACTTCAAACAAGATGCACTGTCAG
1 TAATTTTGAGAAGACGATTCTGAAAAAATAGTGTCAAAAACACTTCAAACAAGATGCACTGTCAA
* * *
91663997 CAAAATTACTGAAAAAAAGCTCCCACGTGGACACTCTTTTTCTACAGTAGTTTCTGAAAAAA
66 CAAAATTACTGAAAAAAAGCTCCCACGTGGACGCTCTATTTCTACAGTAGTTCCTGAAAAAA
* ** * ** *
91664059 TAATTTTAAGAAGAC-AGTAATGAAAAAATAGTGTCAAAAATACTTCAAGTAGGATGCACTGTCA
1 TAATTTTGAGAAGACGA-TTCTGAAAAAATAGTGTCAAAAACACTTCAAACAAGATGCACTGTCA
* * * * * * * *
91664123 ACCAATTTATTG-GAAAAAGCTCTCACGTGAACGTTCTTTTTCTACAGTAGTTCCTG
65 ACAAAATTACTGAAAAAAAGCTCCCACGTGGACGCTCTATTTCTACAGTAGTTCCTG
91664179 CTTGGCCTTA
Statistics
Matches: 331, Mismatches: 40, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
125 65 0.20
126 45 0.14
127 221 0.67
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (127 bp):
TAATTTTGAGAAGACGATTCTGAAAAAATAGTGTCAAAAACACTTCAAACAAGATGCACTGTCAA
CAAAATTACTGAAAAAAAGCTCCCACGTGGACGCTCTATTTCTACAGTAGTTCCTGAAAAAA
Found at i:91665941 original size:21 final size:21
Alignment explanation
Indices: 91665900--91665941 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
91665890 AAGAAAGGAA
* **
91665900 ATAATAAAAGAAATACTAAGG
1 ATAATAAAAGAAAAAAAAAGG
91665921 ATAATAAAAGAAAAAAAAAGG
1 ATAATAAAAGAAAAAAAAAGG
91665942 GGTTATCACC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.69, C:0.02, G:0.14, T:0.14
Consensus pattern (21 bp):
ATAATAAAAGAAAAAAAAAGG
Found at i:91668319 original size:47 final size:47
Alignment explanation
Indices: 91668265--91668505 Score: 383
Period size: 47 Copynumber: 5.1 Consensus size: 47
91668255 TTAGGATTTT
** * *
91668265 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
91668312 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
91668359 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
91668406 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
91668453 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
91668500 ATGTGA
1 ATGTGA
91668506 AATATGTATG
Statistics
Matches: 180, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 180 1.00
ACGTcount: A:0.33, C:0.11, G:0.29, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:91668340 original size:25 final size:25
Alignment explanation
Indices: 91668312--91668390 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
91668302 CGAATGGCCA
91668312 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * *
91668337 ATGTGAT-AAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
91668359 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
91668384 ATGTGAT
1 ATGTGAT
91668391 AAGGCCGAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 8 0.20
23 9 0.22
24 9 0.22
25 15 0.37
ACGTcount: A:0.34, C:0.10, G:0.27, T:0.29
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:91668365 original size:22 final size:22
Alignment explanation
Indices: 91668294--91668412 Score: 66
Period size: 22 Copynumber: 5.1 Consensus size: 22
91668284 GTATATATGA
91668294 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
91668316 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
91668341 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
91668363 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
91668388 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
91668410 GAT
1 GAT
91668413 GAATGTGAGC
Statistics
Matches: 71, Mismatches: 12, Indels: 28
0.64 0.11 0.25
Matches are distributed among these distances:
22 19 0.27
23 18 0.25
24 18 0.25
25 16 0.23
ACGTcount: A:0.34, C:0.13, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:91668461 original size:25 final size:25
Alignment explanation
Indices: 91668386--91668461 Score: 63
Period size: 23 Copynumber: 3.2 Consensus size: 25
91668376 ATGCATATAT
91668386 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
91668411 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
91668433 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
91668458 GTGA
1 GTGA
91668462 ATATGAACAT
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 6 0.17
23 10 0.28
24 10 0.28
25 10 0.28
ACGTcount: A:0.29, C:0.13, G:0.34, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:91668634 original size:98 final size:96
Alignment explanation
Indices: 91668476--91668659 Score: 316
Period size: 98 Copynumber: 1.9 Consensus size: 96
91668466 GAACATGCAT
*
91668476 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGTAAAGCCGA
1 ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
91668541 ATGGCTAATGTGAAATATGTATGAGATATGC
66 ATGGCTAATGTGAAATATGTATGAGATATGC
91668572 ATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATGTATATGTGGTAAAGC
1 ATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATATATGAGATATGTATATGTGGTAAAGC
*
91668636 CGAATGGCTAGTGTGAAATATGTA
63 CGAATGGCTAATGTGAAATATGTA
91668660 GGCGATGTGC
Statistics
Matches: 83, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
95 1 0.01
96 27 0.33
97 2 0.02
98 53 0.64
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (96 bp):
ATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATGTGGTAAAGCCGA
ATGGCTAATGTGAAATATGTATGAGATATGC
Found at i:91668675 original size:50 final size:48
Alignment explanation
Indices: 91668475--91668659 Score: 309
Period size: 48 Copynumber: 3.8 Consensus size: 48
91668465 TGAACATGCA
91668475 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
91668523 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
91668571 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
*
91668621 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
91668660 GGCGATGTGC
Statistics
Matches: 128, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
47 1 0.01
48 81 0.63
49 4 0.03
50 41 0.32
51 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.26, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:91668913 original size:37 final size:37
Alignment explanation
Indices: 91668807--91668913 Score: 187
Period size: 37 Copynumber: 2.9 Consensus size: 37
91668797 AAATATATTT
*
91668807 CGGGTAAGACCCGATGACTACGTGTGGAGATTATGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
91668844 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
* *
91668881 CGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 CGGGTAAGACCCGATGACTACGTGTGGAGATTT
91668914 CGTCTGAGCT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
CGGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
Found at i:91679008 original size:13 final size:12
Alignment explanation
Indices: 91678990--91679061 Score: 60
Period size: 11 Copynumber: 6.0 Consensus size: 12
91678980 TTGAGACCTT
91678990 GAAAAAATCAAAA
1 GAAAAAAT-AAAA
91679003 GAAAAAATAAAA
1 GAAAAAATAAAA
*
91679015 -AAAAAAGAAGAA
1 GAAAAAATAA-AA
91679027 GAAAAAAATAAAA
1 G-AAAAAATAAAA
* *
91679040 -AAAAGA-AGAA
1 GAAAAAATAAAA
*
91679050 GAAAAATTAAAA
1 GAAAAAATAAAA
91679062 AAATACAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 11
0.72 0.11 0.17
Matches are distributed among these distances:
10 3 0.06
11 17 0.36
12 9 0.19
13 10 0.21
14 8 0.17
ACGTcount: A:0.81, C:0.01, G:0.11, T:0.07
Consensus pattern (12 bp):
GAAAAAATAAAA
Found at i:91679019 original size:23 final size:21
Alignment explanation
Indices: 91678999--91679064 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 21
91678989 TGAAAAAATC
91678999 AAAAGAAAAAATAAAAAAAAAA
1 AAAAGAAAAAAT-AAAAAAAAA
91679021 GAAGAAGAAAAAAATAAAAAAAAGA
1 -AA-AAG-AAAAAATAAAAAAAA-A
* *
91679046 AGAAGAAAAATTAAAAAAA
1 AAAAGAAAAAATAAAAAAA
91679065 TACAAAACTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
22 13 0.34
23 5 0.13
24 12 0.32
25 8 0.21
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (21 bp):
AAAAGAAAAAATAAAAAAAAA
Found at i:91679033 original size:26 final size:23
Alignment explanation
Indices: 91679001--91679064 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
91678991 AAAAAATCAA
*
91679001 AAGAAAAAATAAAAAAAAAAGAAG
1 AAGAAAAAA-ATAAAAAAAAGAAG
91679025 AAGAAAAAAATAAAAAAAAGAAG
1 AAGAAAAAAATAAAAAAAAGAAG
*
91679048 AAG-AAAAATTAAAAAAA
1 AAGAAAAAAATAAAAAAA
91679065 TACAAAACTT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 13 0.34
23 16 0.42
24 9 0.24
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (23 bp):
AAGAAAAAAATAAAAAAAAGAAG
Found at i:91680361 original size:66 final size:66
Alignment explanation
Indices: 91680172--91680371 Score: 269
Period size: 66 Copynumber: 3.0 Consensus size: 66
91680162 AGATCATTCT
91680172 CATAACACATCTAGTTAGGAGCATTTGATTCATTTTTGATCATAGCATCCTAATTATTTGACATA
1 CATAACACATCTAGTTAGGAGCATTTGATTCA-TTTTGATCATAGCATCCTAATTATTTGACATA
91680237 AA
65 AA
* * * *
91680239 CAT--CACATCTAGTTAGGTGCATTTGACTCATTTCGATCATAGCATCCTAATTATTTGACATCA
1 CATAACACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAA
*
91680302 G
66 A
* * * * * * *
91680303 CATAATACATCTAGTTAGGAGTATTTGATTTATTTTGATCATAACATCTTAATCATTTGGCATAA
1 CATAACACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAA
91680368 A
66 A
91680369 CAT
1 CAT
91680372 GATACATGAA
Statistics
Matches: 114, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
64 34 0.30
65 25 0.22
66 52 0.46
67 3 0.03
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (66 bp):
CATAACACATCTAGTTAGGAGCATTTGATTCATTTTGATCATAGCATCCTAATTATTTGACATAA
A
Found at i:91681466 original size:131 final size:130
Alignment explanation
Indices: 91681303--91681555 Score: 375
Period size: 131 Copynumber: 1.9 Consensus size: 130
91681293 TAAGCCTCAA
*
91681303 AGCCTCATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGAAT-GAGTCTTATCTTCCTAAGATAG
1 AGCCTCATCTCTCTAAGGTAGCAAGAGAGCAGGTTAAAG-ATGGAGTCTTATCTTCCTAAGATAG
* * *
91681367 CAAGGAAACAGACTGAGATTTGAAGATCTTATTTCACTAAGACAGTAGTGGAGCAGATTTTATTA
65 CAAGGAAACAGACTGAGAATTGAAGATCTTATCTCACTAA-ACAGTAGCGGAGCAGATTTTATTA
91681432 CT
129 CT
* * * *
91681434 AGCCTCATTTCTCTGAGGTAGCAAGA-AGGCAGGTTAAAGATGGAGTCTTATCTTCCTGAGGTAG
1 AGCCTCATCTCTCTAAGGTAGCAAGAGA-GCAGGTTAAAGATGGAGTCTTATCTTCCTAAGATAG
* *
91681498 CAAGGAAACAGACTGAGAATTGAAGATTTTATCTCCCTAAACAGTAGCGGAGCAGATT
65 CAAGGAAACAGACTGAGAATTGAAGATCTTATCTCACTAAACAGTAGCGGAGCAGATT
91681556 GAAGATGGTG
Statistics
Matches: 110, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
130 20 0.18
131 90 0.82
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.27
Consensus pattern (130 bp):
AGCCTCATCTCTCTAAGGTAGCAAGAGAGCAGGTTAAAGATGGAGTCTTATCTTCCTAAGATAGC
AAGGAAACAGACTGAGAATTGAAGATCTTATCTCACTAAACAGTAGCGGAGCAGATTTTATTACT
Found at i:91686680 original size:12 final size:12
Alignment explanation
Indices: 91686648--91686673 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
91686638 TTTAAAATCT
91686648 AAAATTAAAAAA
1 AAAATTAAAAAA
91686660 AAAATTAAAAAA
1 AAAATTAAAAAA
91686672 AA
1 AA
91686674 TTTTAAACAA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAATTAAAAAA
Found at i:91693459 original size:28 final size:28
Alignment explanation
Indices: 91693398--91693548 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
91693388 ATATTAAGTC
*
91693398 CGCACACTCAGTGCTATATAAT-AAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
91693425 CGCACACTTGGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
91693453 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
91693481 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
91693509 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
91693538 CGCACACTTAG
1 CGCACACTTAG
91693549 CGCCAATCTC
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 20 0.18
28 77 0.68
29 16 0.14
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:91698800 original size:19 final size:21
Alignment explanation
Indices: 91698760--91698800 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
91698750 TTTTTCAATG
91698760 AAATATTAAAAATATTACTTA
1 AAATATTAAAAATATTACTTA
*
91698781 AAAT-TTAAAATTATTA-TTA
1 AAATATTAAAAATATTACTTA
91698800 A
1 A
91698801 TGTTAAAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 11 0.58
21 4 0.21
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
AAATATTAAAAATATTACTTA
Found at i:91699326 original size:38 final size:38
Alignment explanation
Indices: 91699284--91699358 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
91699274 ATGAAAGGTT
* * *
91699284 TAGTCAATGCCAACCAT-TAAAAAAGGTTGGGATAGACC
1 TAGTCAAGGCCAACC-TCTAAAAAAGGTCGAGATAGACC
*
91699322 TAGTCAAGGCCAACCTCTGAAAAAGGTCGAGATAGAC
1 TAGTCAAGGCCAACCTCTAAAAAAGGTCGAGATAGAC
91699359 TCGTCTAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 1 0.03
38 31 0.97
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.19
Consensus pattern (38 bp):
TAGTCAAGGCCAACCTCTAAAAAAGGTCGAGATAGACC
Found at i:91699701 original size:149 final size:148
Alignment explanation
Indices: 91699400--91699740 Score: 363
Period size: 149 Copynumber: 2.3 Consensus size: 148
91699390 AGATAACCTT
* * * * * * *
91699400 TTAAAAAAGTTGGGATAGACTTTATTTAAGGCAACATTTAAAAAAAGTTATGATAAACCTTGTCT
1 TTAAAAAAGGTGGGATAGACCTTATCTAACGCAACCTTTAAAAAAAGTTAGGATAAACATTGTCT
* * *
91699465 AAAGCAACCTTTAAAAAAGATTGGGATAGAATAGTCTAAGGCAACCTTAAATAGGTTGGTATAGA
66 AAAGCAACCTTTAAAAAAGATTAGAATAGAATAGTCTAAGGCAACCTTAAAAAGGTTGGTATAGA
* *
91699530 CCTTGTCTAAGGTAACTT
131 CCTTGTCTAAGGCAACTC
* * * *
91699548 TTAAAAAATGGTGGGATAGACCTTATCTAACGCAACCTTTTAAAATAGTTGGGATAGACATTGTC
1 TTAAAAAA-GGTGGGATAGACCTTATCTAACGCAACCTTTAAAAAAAGTTAGGATAAACATTGTC
* * *
91699613 TAAAGCAACCTTT-AAAAAGGTTAGAATAGACCTA-TCTAAGGCAACCTTTTAAAAATGTTAGG-
65 TAAAGCAACCTTTAAAAAAGATTAGAATAGA-ATAGTCTAAGGCAACC--TTAAAAAGGTT-GGT
*
91699675 ATAGGCCTTGT-TAAAGGCAAC-C
126 ATAGACCTTGTCT-AAGGCAACTC
* *
91699697 TTAAAAAAAGGTTGAGATAGA-CTTATCTAATGCAACC-TTAAAAA
1 TT-AAAAAAGG-TGGGATAGACCTTATCTAACGCAACCTTTAAAAA
91699741 GGTTGGCATA
Statistics
Matches: 162, Mismatches: 23, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
148 40 0.25
149 80 0.49
150 40 0.25
151 2 0.01
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (148 bp):
TTAAAAAAGGTGGGATAGACCTTATCTAACGCAACCTTTAAAAAAAGTTAGGATAAACATTGTCT
AAAGCAACCTTTAAAAAAGATTAGAATAGAATAGTCTAAGGCAACCTTAAAAAGGTTGGTATAGA
CCTTGTCTAAGGCAACTC
Found at i:91699834 original size:108 final size:107
Alignment explanation
Indices: 91699451--91700010 Score: 422
Period size: 108 Copynumber: 5.1 Consensus size: 107
91699441 AAAAAGTTAT
* * * *
91699451 GATAAACCTTGTCTAAAGCAACCTTTAAAAAAGATTGGGATAGA-ATAGTCTAAGGCAACCTTAA
1 GATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCT-GTCTAAGGCAACCTTAA
* * * *
91699515 ATAGGTTGGTATAGA-CCTTGTCTAAGGTAACTTTTAAAAAATGG-TGG
65 AAAGGTTGG-ATAGATCC--ATCTAAGGCAAC-CTT-AAAAA-GGTTGG
* * * * *
91699562 GATAGACCTTATCTAACGCAACCTTTTAAAATA-GTTGGGATAGACATTGTCTAAAGCAACCTTT
1 GATAGACCTTGTCTAAGGCAACC-TTTAAAAAAGGTTGGGATAGAC-CTGTCTAAGGCAACC-TT
* * *
91699626 AAAAAGGTTAGAATAGA-CCTATCTAAGGCAACCTTTTAAAAATGTTAG
63 AAAAAGGTT-GGATAGATCC-ATCTAAGGCAACC--TTAAAAAGGTTGG
* * * * * *
91699674 GATAGGCCTTGT-TAAAGGCAACCTTAAAAAAAGGTTGAGATAGACTTATCTAATGCAACCTTAA
1 GATAGACCTTGTCT-AAGGCAACCTTTAAAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAA
* *
91699738 AAAGGTTGGCATAGATTCATCTAAGGTAACCTTAAAAAGGTTGG
65 AAAGGTTGG-ATAGATCCATCTAAGGCAACCTTAAAAAGGTTGG
** * * * * *
91699782 GATAGATATTGTCTAAGGCAACTTTTAGAAAAGGTTGGGATTGACCTGTCTAAGACAACGTTAAA
1 GATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAAA
* * * * *
91699847 AATGTTAGGATA-AACCAGTTTACA-GCAACCCTAAAAAGGTTAG
66 AAGGTT-GGATAGATCCA-TCTA-AGGCAACCTTAAAAAGGTTGG
* * * * * *
91699890 GATAGACCTTTTCGAAGGCAA-C-TTAAAAAAAGTTGGGATAAACCCGTCTAAGGAAACCTTAAA
1 GATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAAA
* * * *
91699953 AAGGTTAGGGTA-AACACGTCTAAGGCAAACTTAAAAAGGTTGG
66 AAGGTT-GGATAGATC-CATCTAAGGCAACCTTAAAAAGGTTGG
*
91699996 GATAGATCTTTGTCT
1 GATAGA-CCTTGTCT
91700011 CATGTTTAAT
Statistics
Matches: 360, Mismatches: 70, Indels: 42
0.76 0.15 0.09
Matches are distributed among these distances:
105 1 0.00
106 71 0.20
107 9 0.03
108 105 0.29
109 5 0.01
110 28 0.08
111 53 0.15
112 67 0.19
113 20 0.06
114 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.27
Consensus pattern (107 bp):
GATAGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAAA
AAGGTTGGATAGATCCATCTAAGGCAACCTTAAAAAGGTTGG
Found at i:91699917 original size:35 final size:36
Alignment explanation
Indices: 91699400--91700010 Score: 358
Period size: 35 Copynumber: 16.8 Consensus size: 36
91699390 AGATAACCTT
* * * * * *
91699400 TTAAAAAAGTTGGGATAGACTTTATTTAAGGCAACAT
1 TTAAAAAGGTTAGGATAGACCTTGTCTAAGGCAAC-C
* * * *
91699437 TTAAAAAAAGTTATGATAAACCTTGTCTAAAGCAACC
1 TT-AAAAAGGTTAGGATAGACCTTGTCTAAGGCAACC
* * * *
91699474 TTTAAAAAAGATTGGGATAGA-ATAGTCTAAGGCAACC
1 -TT-AAAAAGGTTAGGATAGACCTTGTCTAAGGCAACC
* * *
91699511 TTAAATAGGTT-GGTATAGACCTTGTCTAAGGTAACTT
1 TTAAAAAGGTTAGG-ATAGACCTTGTCTAAGGCAAC-C
* * *
91699548 TTAAAAAATGG-TGGGATAGACCTTATCTAACGCAACC
1 TT-AAAAA-GGTTAGGATAGACCTTGTCTAAGGCAACC
* * *
91699585 TTTTAAAATA-GTTGGGATAGACATTGTCTAAAGCAACC
1 --TTAAAA-AGGTTAGGATAGACCTTGTCTAAGGCAACC
* *
91699623 TTTAAAAAGGTTAGAATAGACC-TATCTAAGGCAACC
1 -TTAAAAAGGTTAGGATAGACCTTGTCTAAGGCAACC
* *
91699659 TTTTAAAAATGTTAGGATAGGCCTTGT-TAAAGGCAACC
1 --TTAAAAAGGTTAGGATAGACCTTGTCT-AAGGCAACC
* *
91699697 TTAAAAAAAGGTT-GAGATAGA-CTTATCTAATGCAACC
1 TT--AAAAAGGTTAG-GATAGACCTTGTCTAAGGCAACC
* *
91699734 TTAAAAAGGTT-GGCATAGA--TTCATCTAAGGTAACC
1 TTAAAAAGGTTAGG-ATAGACCTT-GTCTAAGGCAACC
* ** *
91699769 TTAAAAAGGTTGGGATAGATATTGTCTAAGGCAACTT
1 TTAAAAAGGTTAGGATAGACCTTGTCTAAGGCAAC-C
* * * *
91699806 TTAGAAAAGGTTGGGATTGACC-TGTCTAAGACAACG
1 TTA-AAAAGGTTAGGATAGACCTTGTCTAAGGCAACC
* * * *
91699842 TTAAAAATGTTAGGATAAACC-AGTTTACA-GCAACC
1 TTAAAAAGGTTAGGATAGACCTTGTCTA-AGGCAACC
* * *
91699877 CTAAAAAGGTTAGGATAGACCTTTTCGAAGGCAA-C
1 TTAAAAAGGTTAGGATAGACCTTGTCTAAGGCAACC
* * * * *
91699912 TTAAAAAAAGTTGGGATAAACC-CGTCTAAGGAAACC
1 TT-AAAAAGGTTAGGATAGACCTTGTCTAAGGCAACC
* * *
91699948 TTAAAAAGGTTAGGGTAAACAC--GTCTAAGGCAAAC
1 TTAAAAAGGTTAGGATAGAC-CTTGTCTAAGGCAACC
* *
91699983 TTAAAAAGGTTGGGATAGATCTTTGTCT
1 TTAAAAAGGTTAGGATAGA-CCTTGTCT
91700011 CATGTTTAAT
Statistics
Matches: 453, Mismatches: 85, Indels: 72
0.74 0.14 0.12
Matches are distributed among these distances:
34 5 0.01
35 147 0.32
36 72 0.16
37 91 0.20
38 131 0.29
39 7 0.02
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.28
Consensus pattern (36 bp):
TTAAAAAGGTTAGGATAGACCTTGTCTAAGGCAACC
Found at i:91699954 original size:71 final size:72
Alignment explanation
Indices: 91699400--91699999 Score: 293
Period size: 73 Copynumber: 8.2 Consensus size: 72
91699390 AGATAACCTT
* * * * * * * * *
91699400 TTAAAAAAGTTGGGATAGACTTTATTTAAGGCAACATTTAAAAAAAGTTATGATAAACCTT-GTC
1 TTAAAAAAGTTGGGATAAAC-CTGTCTAAGGCAAC-CTT-AAAAAGGTTAGGATAGACCTTCTTC
*
91699464 TAAAGCAACC
63 TAAGGCAACC
* *
91699474 TTTAAAAAAGATTGGGATAGAA--TAGTCTAAGGCAACCTTAAATAGGTT-GGTATAGACCTT-G
1 -TTAAAAAAG-TTGGGATA-AACCT-GTCTAAGGCAACCTTAAAAAGGTTAGG-ATAGACCTTCT
* *
91699535 TCTAAGGTAACTT
61 TCTAAGGCAAC-C
* * * * * * *
91699548 TTAAAAAATGGTGGGATAGACCTTATCTAACGCAACCTTTTAAAATA-GTTGGGATAGACATT-G
1 TTAAAAAA-GTTGGGATAAACC-TGTCTAAGGCAACC--TTAAAA-AGGTTAGGATAGACCTTCT
*
91699611 TCTAAAGCAACC
61 TCTAAGGCAACC
* * * * * * * *
91699623 TTTAAAAAGGTTAGAATAGACCTATCTAAGGCAACCTTTTAAAAATGTTAGGATAGGCCTTGTT-
1 -TTAAAAAAGTTGGGATAAACCTGTCTAAGGCAACC--TTAAAAAGGTTAGGATAGACCTTCTTC
*
91699687 AAAGGCAACC
63 TAAGGCAACC
* * * * * *
91699697 TTAAAAAAAGGTTGAGATAGACTTATCTAATGCAACCTTAAAAAGGTT-GGCATAGA--TTCATC
1 TT-AAAAAA-GTTGGGATAAACCTGTCTAAGGCAACCTTAAAAAGGTTAGG-ATAGACCTTCTTC
*
91699759 TAAGGTAACC
63 TAAGGCAACC
* * * * * *
91699769 TTAAAAAGGTTGGGATAGATA-TTGTCTAAGGCAACTTTTAGAAAAGGTTGGGATTGACC-T-GT
1 TTAAAAAAGTTGGGATA-A-ACCTGTCTAAGGCAAC-CTTA-AAAAGGTTAGGATAGACCTTCTT
* *
91699831 CTAAGACAACG
62 CTAAGGCAACC
* * * * * *
91699842 TTAAAAATGTTAGGATAAACCAGTTTACA-GCAACCCTAAAAAGGTTAGGATAGACCTT-TTCGA
1 TTAAAAAAGTTGGGATAAACCTGTCTA-AGGCAACCTTAAAAAGGTTAGGATAGACCTTCTTCTA
91699905 AGGCAA-C
65 AGGCAACC
* * * * * *
91699912 TTAAAAAAAGTTGGGATAAACCCGTCTAAGGAAACCTTAAAAAGGTTAGGGTA-AAC-ACGTCTA
1 TT-AAAAAAGTTGGGATAAACCTGTCTAAGGCAACCTTAAAAAGGTTAGGATAGACCTTCTTCTA
*
91699975 AGGCAAAC
65 AGGCAACC
*
91699983 TTAAAAAGGTTGGGATA
1 TTAAAAAAGTTGGGATA
91700000 GATCTTTGTC
Statistics
Matches: 412, Mismatches: 79, Indels: 73
0.73 0.14 0.13
Matches are distributed among these distances:
70 52 0.13
71 76 0.18
72 28 0.07
73 94 0.23
74 64 0.16
75 53 0.13
76 41 0.10
77 4 0.01
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (72 bp):
TTAAAAAAGTTGGGATAAACCTGTCTAAGGCAACCTTAAAAAGGTTAGGATAGACCTTCTTCTAA
GGCAACC
Found at i:91701491 original size:16 final size:16
Alignment explanation
Indices: 91701470--91701501 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
91701460 TTAATATGTA
91701470 ATACTTACAAACTGTG
1 ATACTTACAAACTGTG
91701486 ATACTTACAAACTGTG
1 ATACTTACAAACTGTG
91701502 CATTGAGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.19, G:0.12, T:0.31
Consensus pattern (16 bp):
ATACTTACAAACTGTG
Found at i:91703055 original size:323 final size:323
Alignment explanation
Indices: 91702467--91703060 Score: 1109
Period size: 323 Copynumber: 1.8 Consensus size: 323
91702457 AAGCTTTAAC
91702467 TCAAATCGTTACTAGTCCAAAATTAATGCTACTTTGTTATCTTCATCAGAGAAATTTTTCAAGCA
1 TCAAATCGTTACTAGTCCAAAATTAATGCTACTTTGTTATCTTCATCAGAGAAATTTTTCAAGCA
* * *
91702532 ATACTGGATTACACAATGACCATTCAAGTCCTTCGACAATGTAACAGCTCCAATGCTTAGAGCTG
66 ATACGGGATTACACAATGACCATTCAAGTCCTTCAACAATGCAACAGCTCCAATGCTTAGAGCTG
91702597 ACATAAACAACGAGATCTTTTGTTGAGTAGTAAGTTTCTCCAACAATTTTTGTACAGCACGAGCC
131 ACATAAACAACGAGATCTTTTGTTGAGTAGTAAGTTTCTCCAACAATTTTTGTACAGCACGAGCC
91702662 CTATCACCGAATGAAAATATATTTGTATTTTATTTATTGAACACAAAAAAACTTCTTAACCAGAA
196 CTATCACCGAATGAAAATATATTTGTATTTTATTTATTGAACACAAAAAAACTTCTTAACCAGAA
91702727 ACAAAAAAAAACAAAACAAAACCGAATCAACCAACATACCCATGATCAACCAACAAAACCGAA
261 ACAAAAAAAAACAAAACAAAACCGAATCAACCAACATACCCATGATCAACCAACAAAACCGAA
91702790 TCAAATCGTTACTAGTCCAAAATTAATGCTACTTTGTTATCTTCATCAGAGAAATTTTTCAAGCA
1 TCAAATCGTTACTAGTCCAAAATTAATGCTACTTTGTTATCTTCATCAGAGAAATTTTTCAAGCA
* *
91702855 ATACGGGATTACACGATGACCATTCAAGTCCTTCAACAATGCAACAGCTCCAGTGCTTAGAGCTG
66 ATACGGGATTACACAATGACCATTCAAGTCCTTCAACAATGCAACAGCTCCAATGCTTAGAGCTG
91702920 ACATAAACAACGAGATCTTTTGTTGAGTAGTAAGTTTCTCCAACAATTTTTGTACAGCACGAGCC
131 ACATAAACAACGAGATCTTTTGTTGAGTAGTAAGTTTCTCCAACAATTTTTGTACAGCACGAGCC
* *
91702985 TTATCACC-AATTGAAAATATATTTGTATTTTATTTATTGAACACAAAACAACTTCTTAACCAGA
196 CTATCACCGAA-TGAAAATATATTTGTATTTTATTTATTGAACACAAAAAAACTTCTTAACCAGA
91703049 AACAAAAAAAAA
260 AACAAAAAAAAA
91703061 ACTGATTCAA
Statistics
Matches: 263, Mismatches: 7, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
322 2 0.01
323 261 0.99
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.29
Consensus pattern (323 bp):
TCAAATCGTTACTAGTCCAAAATTAATGCTACTTTGTTATCTTCATCAGAGAAATTTTTCAAGCA
ATACGGGATTACACAATGACCATTCAAGTCCTTCAACAATGCAACAGCTCCAATGCTTAGAGCTG
ACATAAACAACGAGATCTTTTGTTGAGTAGTAAGTTTCTCCAACAATTTTTGTACAGCACGAGCC
CTATCACCGAATGAAAATATATTTGTATTTTATTTATTGAACACAAAAAAACTTCTTAACCAGAA
ACAAAAAAAAACAAAACAAAACCGAATCAACCAACATACCCATGATCAACCAACAAAACCGAA
Found at i:91704486 original size:31 final size:31
Alignment explanation
Indices: 91704426--91704493 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
91704416 AATAATAATG
* *
91704426 ATTTAACTTTTTTTAAAAGGATAATAATTAA
1 ATTTAACTCTTTTTAAAAGGATAAGAATTAA
* *
91704457 ATTTCACTCTTTTTAAAA-GACTAAGAATTAG
1 ATTTAACTCTTTTTAAAAGGA-TAAGAATTAA
91704488 ATTTAA
1 ATTTAA
91704494 TTAAAATAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 2 0.06
31 29 0.94
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (31 bp):
ATTTAACTCTTTTTAAAAGGATAAGAATTAA
Found at i:91706018 original size:266 final size:266
Alignment explanation
Indices: 91705501--91706257 Score: 945
Period size: 266 Copynumber: 2.8 Consensus size: 266
91705491 ATCCTAAACC
* * * *
91705501 CCTTAGGAATGCATATACCAACACTTATACAAAGAGTTGGCCAAAGTGTATGTTCG-CAAGTCTA
1 CCTTAGGCATACATATCCCAACTCTTATACAAAGAGTTGGCCAAAGTGTATGTT-GACAAGTCTA
* * * * * *
91705565 TCCCAACACTTAGGAAAGTGTCGGCCCAAAAGTGTAGGCATAGCG-TTGGACAAAA-CCAACTCT
65 TCCCAACACTTAGGAAA-TGTCGCCCCAAAAGTGTCGTCTTAG-GACTAGACAAAAGCCAACTCT
* * * * *
91705628 TATTTAAGCGTTACCTTAAGTATGCATATCCCAACCCTTATACAAAAAGTTGACCAAAGCGTATG
128 TATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATG
* * * * * **
91705693 TCGGCAAGTTTGTCCCAACACTTAGGAAATTATTGTCTTAGAACTGGACAAAGCCAACTCTTATT
193 TTGGCAAGTCTATCCCAACACTTAGGAAAGTGTTGTCTTAGAACTACACAAAGCCAACTCTTATT
*
91705758 TAAGCGTTG
258 CAAGCGTTG
* *
91705767 CCTTAGGCATGCATA-CCTCAAC-CTTTATACAAAGAGTTGGCCAAAGTGTATGTTGACAAGTCC
1 CCTTAGGCATACATATCC-CAACTC-TTATACAAAGAGTTGGCCAAAGTGTATGTTGACAAGTCT
**
91705830 ATCCCAACACTTAGGAAA-GTCGCCCCAAAACAGTCGTCTTAGGACTAGACAAAAGCCAACTCTT
64 ATCCCAACACTTAGGAAATGTCGCCCCAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACTCTT
* ** * * **
91705894 ATTTAAGCATTGTTTTAGGCATACATATCTCAACCCTTACGCAAAGAGTTGGCCAAAGCGTATGT
129 ATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGT
** * *
91705959 TGGCAAGTCTATCCCAACACTTACAAAAGTGTTGTCTTAGGACTACACAAAATCCAACTCTTATT
194 TGGCAAGTCTATCCCAACACTTAGGAAAGTGTTGTCTTAGAACTACAC-AAAGCCAACTCTTATT
*
91706024 CAAGTGTTG
258 CAAGCGTTG
* * *
91706033 CCTTAGGCATATATATCCCAACTCTTATACAAAGAGTTGGCCAAA-TCGTATGTTCACAACTCTA
1 CCTTAGGCATACATATCCCAACTCTTATACAAAGAGTTGGCCAAAGT-GTATGTTGACAAGTCTA
*
91706097 TCCCAACACTTAGGAAAATGTCTCCCCAAAAGTGTCGTCTTAGGACTAGAC-AAAGCCAACTCTT
65 TCCCAACACTTAGG-AAATGTCGCCCCAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACTCTT
* * * * *
91706161 ATGTAAGTGTTGCCTTAGTCACGCATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATATGT
129 ATTTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGT
*
91706226 TGGCCAGTCTATCCCAACACTTAGGAAAGTGT
194 TGGCAAGTCTATCCCAACACTTAGGAAAGTGT
91706258 CGCCCCATAA
Statistics
Matches: 421, Mismatches: 59, Indels: 21
0.84 0.12 0.04
Matches are distributed among these distances:
263 1 0.00
264 26 0.06
265 104 0.25
266 160 0.38
267 101 0.24
268 29 0.07
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (266 bp):
CCTTAGGCATACATATCCCAACTCTTATACAAAGAGTTGGCCAAAGTGTATGTTGACAAGTCTAT
CCCAACACTTAGGAAATGTCGCCCCAAAAGTGTCGTCTTAGGACTAGACAAAAGCCAACTCTTAT
TTAAGCGTTGCCTTAGGCATGCATATCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTTG
GCAAGTCTATCCCAACACTTAGGAAAGTGTTGTCTTAGAACTACACAAAGCCAACTCTTATTCAA
GCGTTG
Found at i:91706040 original size:127 final size:126
Alignment explanation
Indices: 91705862--91706259 Score: 429
Period size: 127 Copynumber: 3.0 Consensus size: 126
91705852 CCCCAAAACA
** ** *
91705862 GTCGTCTTAGGACTAGACAAAAGCCAACTCTTATTTAAGCATTGTTTTAGGCATACATATCTCAA
1 GTCGTCTTAGGACTAGACAAAAGCCAACTCTTA-TTAAGTGTTGCCTTAGGCATACATATCCCAA
**
91705927 CCCTTACGCAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTACAAAAGT
65 CCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTACAAAAGT
* * * *
91705989 GTTGTCTTAGGACTACACAAAATCCAACTCTTATTCAAGTGTTGCCTTAGGCATATATATCCCAA
1 GTCGTCTTAGGACTAGACAAAAGCCAACTCTTATT-AAGTGTTGCCTTAGGCATACATATCCCAA
* * ** *
91706054 CTCTTATACAAAGAGTTGGCCAAATCGTATGTTCACAACTCTATCCCAACACTTAGGAAAATGTC
65 CCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTT------A----
91706119 TCCCCAAAAGT
120 ----CAAAAGT
* **
91706130 GTCGTCTTAGGACTAGAC-AAAGCCAACTCTTATGTAAGTGTTGCCTTAGTCACGCATATCCCAA
1 GTCGTCTTAGGACTAGACAAAAGCCAACTCTTAT-TAAGTGTTGCCTTAGGCATACATATCCCAA
* * **
91706194 CCCTTATACAAAGAGTTGGCCAAAGCATATGTTGGCCAGTCTATCCCAACACTTAGGAAAGT
65 CCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTACAAAAGT
91706256 GTCG
1 GTCG
91706260 CCCCATAAAT
Statistics
Matches: 223, Mismatches: 32, Indels: 33
0.77 0.11 0.11
Matches are distributed among these distances:
126 11 0.05
127 100 0.45
133 1 0.00
134 1 0.00
140 86 0.39
141 24 0.11
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (126 bp):
GTCGTCTTAGGACTAGACAAAAGCCAACTCTTATTAAGTGTTGCCTTAGGCATACATATCCCAAC
CCTTATACAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTACAAAAGT
Found at i:91706237 original size:140 final size:141
Alignment explanation
Indices: 91705982--91706279 Score: 404
Period size: 140 Copynumber: 2.1 Consensus size: 141
91705972 CCAACACTTA
* * * *
91705982 CAAAAGTGTTGTCTTAGGACTACACAAAATCCAACTCTTATTCAAGTGTTGCCTTAGGCATATAT
1 CAAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTCTTATTCAAGTGTTGCCTTAGGCACACAT
* * *
91706047 ATCCCAACTCTTATACAAAGAGTTGGCCAAATCGTATGTTCACAACTCTATCCCAACACTTAGGA
66 ATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATATGTTCACAACTCTATCCCAACACTTAGGA
*
91706112 AAATGTCTCCC
131 AAATGTCGCCC
* * *
91706123 CAAAAGTGTCGTCTTAGGACTAGAC-AAAGCCAACTCTTATGT-AAGTGTTGCCTTAGTCACGCA
1 CAAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTCTTAT-TCAAGTGTTGCCTTAGGCACACA
** * *
91706186 TATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATATGTTGGCCAGTCTATCCCAACACTTAGG
65 TATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATATGTTCACAACTCTATCCCAACACTTAGG
*
91706251 AAAGTGTCGCCC
130 AAAATGTCGCCC
*
91706263 CATAAA-TGTCGTTTTAG
1 CA-AAAGTGTCGTCTTAG
91706280 CACTGTTTTG
Statistics
Matches: 138, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
140 111 0.80
141 27 0.20
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.28
Consensus pattern (141 bp):
CAAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTCTTATTCAAGTGTTGCCTTAGGCACACAT
ATCCCAACCCTTATACAAAGAGTTGGCCAAAGCATATGTTCACAACTCTATCCCAACACTTAGGA
AAATGTCGCCC
Found at i:91707649 original size:31 final size:31
Alignment explanation
Indices: 91707611--91707770 Score: 103
Period size: 32 Copynumber: 5.0 Consensus size: 31
91707601 TCTTTTTTTC
*
91707611 TATTTTTTAATTTTTTTATTTATTTGTTTAT
1 TATTTTTTAAATTTTTTATTTATTTGTTTAT
* *
91707642 TATTTTTTAAAATTATTTA-TTATTTATTTTAT
1 TATTTTTT-AAATTTTTTATTTATTT-GTTTAT
* * * *
91707674 AATATTTTAAATGTTTTATAATATTTGTTTAT
1 TATTTTTTAAATTTTTTAT-TTATTTGTTTAT
* *
91707706 TCAAATGTTTTTTAA--TTTTA-TTATTTTTTTAT
1 T---AT-TTTTTAAATTTTTTATTTATTTGTTTAT
* * * *
91707738 AATATTTTAAATGTTTTATAATATTTGTTTAT
1 TATTTTTTAAATTTTTTAT-TTATTTGTTTAT
91707770 T
1 T
91707771 TATACGTTTT
Statistics
Matches: 97, Mismatches: 20, Indels: 23
0.69 0.14 0.16
Matches are distributed among these distances:
28 6 0.06
29 2 0.02
30 5 0.05
31 22 0.23
32 44 0.45
33 5 0.05
34 5 0.05
35 2 0.02
36 6 0.06
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.67
Consensus pattern (31 bp):
TATTTTTTAAATTTTTTATTTATTTGTTTAT
Found at i:91707690 original size:9 final size:10
Alignment explanation
Indices: 91707666--91707699 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
91707656 ATTTATTATT
91707666 TATTTTATAA
1 TATTTTATAA
91707676 TATTTTA-AA
1 TATTTTATAA
*
91707685 TGTTTTATAA
1 TATTTTATAA
91707695 TATTT
1 TATTT
91707700 GTTTATTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (10 bp):
TATTTTATAA
Found at i:91707692 original size:19 final size:19
Alignment explanation
Indices: 91707668--91707763 Score: 77
Period size: 19 Copynumber: 4.7 Consensus size: 19
91707658 TTATTATTTA
91707668 TTTTATAATATTTTAAATG
1 TTTTATAATATTTTAAATG
91707687 TTTTATAATATTTGTTTATTCAAATG
1 TTTTATAATA-----TT-TT-AAATG
* * * *
91707713 TTTTTTAAT-TTTATTATTT
1 TTTTATAATATTT-TAAATG
91707732 TTTTATAATATTTTAAATG
1 TTTTATAATATTTTAAATG
91707751 TTTTATAATATTT
1 TTTTATAATATTT
91707764 GTTTATTTAT
Statistics
Matches: 60, Mismatches: 8, Indels: 18
0.70 0.09 0.21
Matches are distributed among these distances:
19 37 0.62
20 6 0.10
24 2 0.03
25 2 0.03
26 13 0.22
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (19 bp):
TTTTATAATATTTTAAATG
Found at i:91707729 original size:24 final size:26
Alignment explanation
Indices: 91707682--91707730 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
91707672 ATAATATTTT
*
91707682 AAATGTTTTATAATATTTGTTTATTC
1 AAATGTTTTATAATATTTGATTATTC
*
91707708 AAATGTTTTTTAAT-TTT-ATTATT
1 AAATGTTTTATAATATTTGATTATT
91707731 TTTTTATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 3 0.14
26 13 0.62
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (26 bp):
AAATGTTTTATAATATTTGATTATTC
Found at i:91707780 original size:64 final size:65
Alignment explanation
Indices: 91707657--91707781 Score: 216
Period size: 64 Copynumber: 1.9 Consensus size: 65
91707647 TTTAAAATTA
*
91707657 TTTATTATTTATTTTATAATATTTTAAATGTTTTATAATATTTGTTTATTCAAATGTTTTTTAAT
1 TTTATTATTTATTTTATAATATTTTAAATGTTTTATAATATTTGTTTATTCAAACGTTTTTTAAT
* *
91707722 TTTATTATTT-TTTTATAATATTTTAAATGTTTTATAATATTTGTTTATTTATACGTTTTT
1 TTTATTATTTATTTTATAATATTTTAAATGTTTTATAATATTTGTTTATTCAAACGTTTTT
91707782 CAAAATATAT
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
64 47 0.82
65 10 0.18
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.65
Consensus pattern (65 bp):
TTTATTATTTATTTTATAATATTTTAAATGTTTTATAATATTTGTTTATTCAAACGTTTTTTAAT
Found at i:91713786 original size:14 final size:14
Alignment explanation
Indices: 91713767--91713796 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
91713757 TTATATCGAG
91713767 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
91713781 ACCAATCCAATTCA
1 ACCAATCCAAATCA
91713795 AC
1 AC
91713797 ATATTTTCAA
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:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:91718318 original size:176 final size:176
Alignment explanation
Indices: 91718080--91718502 Score: 561
Period size: 176 Copynumber: 2.4 Consensus size: 176
91718070 CTTAAATTTG
* * * * *
91718080 CTCCATTGCCAATACATGGACATAAGATT-AAC-TCTTTCGATCTGCTCTGCTACTGTTTAGGGA
1 CTCCATTGCCAATACATGGAGATAAGATTCACCATC-TTCGATCTGCTCCGCTAATGCTTAGGGA
* **
91718143 GATAAGATCTTCAAT-TCTCAGTCTGCTTCCTTGCTAACTTAGGAAGATAAGACT-CAATCTTCA
65 GATAAGATCTTCAATCT-TCAGTCTGCTTCCTTGCTAACTCAGGAAGATAAGACTACAATCACCA
* **
91718206 ACCTGCTCTCTTGCTACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTA
129 ACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCAGTGG-TAAAATCTA
* * *
91718255 CTCCATTACCAATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCACTATTGCTTAGGGAG
1 CTCCATTGCCAATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCGCTAATGCTTAGGGAG
* * *
91718320 ATAAGATCTTTAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAATACTACAATCACCAAC
66 ATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTAACTCAGGAAGATAAGACTACAATCACCAAC
*
91718385 CTGCTCTCTTGCTACCTCAGAGAGATAAGGCCAGTGGTAAAATCTG
131 CTGCTCTCTTGCTACCTCAGAGAGATAAGGCCAGTGGTAAAATCTA
* * *
91718431 TTCCATTGCCGATACATGGAGATAAGA-TCTACCATCTTTGATCTGCTCCGCTGCAAT-CTTAGG
1 CTCCATTGCCAATACATGGAGATAAGATTC-ACCATCTTCGATCTGCTCCGCT--AATGCTTAGG
91718494 GAGATAAGA
63 GAGATAAGA
91718503 CTTGTATATT
Statistics
Matches: 218, Mismatches: 23, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
175 29 0.13
176 126 0.58
177 61 0.28
178 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (176 bp):
CTCCATTGCCAATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCGCTAATGCTTAGGGAG
ATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTAACTCAGGAAGATAAGACTACAATCACCAAC
CTGCTCTCTTGCTACCTCAGAGAGATAAGGCCAGTGGTAAAATCTA
Found at i:91718870 original size:64 final size:64
Alignment explanation
Indices: 91718757--91719065 Score: 485
Period size: 64 Copynumber: 4.8 Consensus size: 64
91718747 ATACTTATGC
* ** * *
91718757 CAAATAATTAGGATGCTATGATCAAAATGAACCAAAAACTCCCAACTAGATGTGATGCTAATGT
1 CAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTGATGCTGATGT
* * *
91718821 CAAATAATTAGGATGCAATGATCAAAATGAATCAAATGCTCCTAGCTAGATGTGATGCTTATGT
1 CAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTGATGCTGATGT
*
91718885 CAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCT-ACTAGATGTAATGCTGATGT
1 CAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTGATGCTGATGT
* *
91718948 CAAATAATTAGGATGCTATGATCAGAATGAATCAAATGCTCCTAACTAGATGTAATGCTGATGT
1 CAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTGATGCTGATGT
* * *
91719012 CAAATAATTAGGATGCTATGATCAAAATGGATCAAATACTCCTAACAAGATGTG
1 CAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
91719066 TTATGAATGA
Statistics
Matches: 227, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
63 59 0.26
64 168 0.74
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.28
Consensus pattern (64 bp):
CAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTGATGCTGATGT
Found at i:91718977 original size:127 final size:127
Alignment explanation
Indices: 91718750--91719064 Score: 486
Period size: 127 Copynumber: 2.5 Consensus size: 127
91718740 ATGTATCATA
* * * * *
91718750 CTTATGCCAAATAATTAGGATGCTATGATCAAAATGAACCAAAAACTCCCAACTAGATGTGATGC
1 CTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATACT-CCTACTAGATGTAATGC
* *
91718815 TAATGTCAAATAATTAGGATGCAATGATCAAAATGAATCAAATGCTCCTAGCTAGATGTGATG
65 TAATGTCAAATAATTAGGATGCAATGATCAAAATGAATCAAATGCTCCTAACTAGATGTAATG
*
91718878 CTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTACTAGATGTAATGCT
1 CTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATACTCCTACTAGATGTAATGCT
* * *
91718943 GATGTCAAATAATTAGGATGCTATGATCAGAATGAATCAAATGCTCCTAACTAGATGTAATG
66 AATGTCAAATAATTAGGATGCAATGATCAAAATGAATCAAATGCTCCTAACTAGATGTAATG
* * *
91719005 CTGATGTCAAATAATTAGGATGCTATGATCAAAATGGATCAAATACTCCTAACAAGATGT
1 CTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATACTCCT-ACTAGATGT
91719065 GTTATGAATG
Statistics
Matches: 171, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
127 120 0.70
128 51 0.30
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (127 bp):
CTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATACTCCTACTAGATGTAATGCT
AATGTCAAATAATTAGGATGCAATGATCAAAATGAATCAAATGCTCCTAACTAGATGTAATG
Found at i:91721797 original size:27 final size:27
Alignment explanation
Indices: 91721739--91721819 Score: 99
Period size: 27 Copynumber: 3.0 Consensus size: 27
91721729 GAGGAAGCGT
* * *
91721739 TCTGGTAGCTCTACCACAAATATCTGTT
1 TCTGGTGGCTCTGCCAC-AATATCTGTA
91721767 TCTGGTGGCTCTGCCACAATATCTGTA
1 TCTGGTGGCTCTGCCACAATATCTGTA
* **
91721794 TCTGGTGACTCTGTTACAATATCTGT
1 TCTGGTGGCTCTGCCACAATATCTGT
91721820 TTTGGCAGCC
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 32 0.68
28 15 0.32
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAATATCTGTA
Found at i:91723042 original size:13 final size:12
Alignment explanation
Indices: 91723025--91723067 Score: 59
Period size: 13 Copynumber: 3.4 Consensus size: 12
91723015 CTTCTTTTTA
91723025 TTTTTTTAATTT
1 TTTTTTTAATTT
91723037 TCTTTTTTAATTCT
1 T-TTTTTTAATT-T
*
91723051 TTTTTTTTATTT
1 TTTTTTTAATTT
91723063 TTTTT
1 TTTTT
91723068 GGATTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 7 0.25
13 19 0.68
14 2 0.07
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTTAATTT
Found at i:91733761 original size:18 final size:19
Alignment explanation
Indices: 91733726--91733766 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
91733716 TTCATACTTT
*
91733726 CAAAAGTAAAAACTAAAAA
1 CAAAAGTAAAAACGAAAAA
*
91733745 CAAAA-TAAAACCGAAAAA
1 CAAAAGTAAAAACGAAAAA
91733763 -AAAA
1 CAAAA
91733767 CTGAGCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 4 0.20
18 11 0.55
19 5 0.25
ACGTcount: A:0.76, C:0.12, G:0.05, T:0.07
Consensus pattern (19 bp):
CAAAAGTAAAAACGAAAAA
Found at i:91735186 original size:27 final size:26
Alignment explanation
Indices: 91735147--91735197 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
91735137 AACAGACGGT
91735147 TGAACTTGAGGAAACTTTGAAGGCTGG
1 TGAACTTGAGGAAACTTTG-AGGCTGG
* * *
91735174 TGAATTTGTGGAAATTTTGAGGCT
1 TGAACTTGAGGAAACTTTGAGGCT
91735198 CAAAAATCGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 5 0.24
27 16 0.76
ACGTcount: A:0.27, C:0.08, G:0.31, T:0.33
Consensus pattern (26 bp):
TGAACTTGAGGAAACTTTGAGGCTGG
Found at i:91740767 original size:35 final size:35
Alignment explanation
Indices: 91740728--91740798 Score: 117
Period size: 35 Copynumber: 2.0 Consensus size: 35
91740718 TCTAGGATCA
*
91740728 CATATCTTTGAAGA-TCCTCTTCCATATTTGCCAAG
1 CATATCTTTGAAGATTACT-TTCCATATTTGCCAAG
91740763 CATATCTTTGAAGATTACTTTCCATATTTGCCAAG
1 CATATCTTTGAAGATTACTTTCCATATTTGCCAAG
91740798 C
1 C
91740799 TCTGGAGATG
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 31 0.91
36 3 0.09
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (35 bp):
CATATCTTTGAAGATTACTTTCCATATTTGCCAAG
Found at i:91741394 original size:29 final size:29
Alignment explanation
Indices: 91741352--91741409 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
91741342 CCCGTATATC
91741352 GCAACATCAAATGTAGTTTGGCAAGGACT
1 GCAACATCAAATGTAGTTTGGCAAGGACT
91741381 GCAACATCAAATGTAGTTTGGCAAGGACT
1 GCAACATCAAATGTAGTTTGGCAAGGACT
91741410 AAGTCCCCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.24
Consensus pattern (29 bp):
GCAACATCAAATGTAGTTTGGCAAGGACT
Found at i:91745929 original size:35 final size:35
Alignment explanation
Indices: 91745890--91745960 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 35
91745880 TCTAGGATCA
*
91745890 CATATCTTCGAAGA-TCCTCTTCCATATTTGCCAAG
1 CATATCTTCGAAGATTACT-TTCCATATTTGCCAAG
*
91745925 CATATCTTTGAAGATTACTTTCCATATTTGCCAAG
1 CATATCTTCGAAGATTACTTTCCATATTTGCCAAG
91745960 C
1 C
91745961 TCCGGAGATG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 30 0.91
36 3 0.09
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.37
Consensus pattern (35 bp):
CATATCTTCGAAGATTACTTTCCATATTTGCCAAG
Found at i:91747327 original size:13 final size:14
Alignment explanation
Indices: 91747302--91747330 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
91747292 TGATATGTTT
91747302 TAAACTAAATTTAC
1 TAAACTAAATTTAC
91747316 TAAACT-AATTTAC
1 TAAACTAAATTTAC
91747329 TA
1 TA
91747331 GGAACTCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAACTAAATTTAC
Found at i:91749956 original size:6 final size:6
Alignment explanation
Indices: 91749947--91749994 Score: 64
Period size: 6 Copynumber: 8.0 Consensus size: 6
91749937 GTCTAAGAAG
91749947 ATAAAA ATAAAA ATAAAA ACTAAAA GA-AAAA AT-AAA ATAAAA ATAAAA
1 ATAAAA ATAAAA ATAAAA A-TAAAA -ATAAAA ATAAAA ATAAAA ATAAAA
91749995 TCAACGGTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
5 6 0.16
6 26 0.68
7 5 0.13
8 1 0.03
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (6 bp):
ATAAAA
Found at i:91749959 original size:26 final size:25
Alignment explanation
Indices: 91749895--91749983 Score: 76
Period size: 26 Copynumber: 3.5 Consensus size: 25
91749885 AGAAACAACC
*
91749895 ATAAAAGTAAAAATATAGT-TCAAAAG
1 ATAAAAATAAAAATA-AGTCT-AAAAG
*
91749921 ATAATAAA-CAAAATAAGTCTAAGAAG
1 ATAA-AAATAAAAATAAGTCTAA-AAG
**
91749947 ATAAAAATAAAAATAAAAACTAAAAG
1 ATAAAAATAAAAAT-AAGTCTAAAAG
91749973 A-AAAAATAAAA
1 ATAAAAATAAAA
91749984 TAAAAATAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
25 18 0.34
26 27 0.51
27 8 0.15
ACGTcount: A:0.70, C:0.04, G:0.08, T:0.18
Consensus pattern (25 bp):
ATAAAAATAAAAATAAGTCTAAAAG
Found at i:91755415 original size:22 final size:22
Alignment explanation
Indices: 91755387--91755433 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
91755377 ACAAAAGAAA
91755387 AAAAAATTAGAATGTAAAAATT
1 AAAAAATTAGAATGTAAAAATT
91755409 AAAAAATTAGAATGTAAAAATT
1 AAAAAATTAGAATGTAAAAATT
91755431 AAA
1 AAA
91755434 CTAAAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (22 bp):
AAAAAATTAGAATGTAAAAATT
Found at i:91758774 original size:141 final size:142
Alignment explanation
Indices: 91758515--91758806 Score: 568
Period size: 141 Copynumber: 2.1 Consensus size: 142
91758505 GCTTCCAAGC
91758515 AATTAATTTGTTCATCATGGAACAACATGGGACACAGGTTGGATACGTTGCATTACTAATCAAAA
1 AATTAATTTGTTCATCATGGAACAACATGGGACACAGGTTGGATACGTTGCATTACTAATCAAAA
91758580 CCCTGAAATTTTCTGTTGGTTTTTGCTGCAATTGTCTTAATGATATAATGAAAGTAAACTGTAAC
66 CCCTGAAATTTTCTGTTGGTTTTTGCTGCAATTGTCTTAATGATATAATGAAAGTAAACTGTAAC
91758645 ATCTGTAATAGA
131 ATCTGTAATAGA
91758657 AATT-ATTTGTTCATCATGGAACAACATGGGACACAGGTTGGATACGTTGCATTACTAATCAAAA
1 AATTAATTTGTTCATCATGGAACAACATGGGACACAGGTTGGATACGTTGCATTACTAATCAAAA
91758721 CCCTGAAATTTTCTGTTGGTTTTTGCTGCAATTGTCTTAATGATATAATGAAAGTAAACTGTAAC
66 CCCTGAAATTTTCTGTTGGTTTTTGCTGCAATTGTCTTAATGATATAATGAAAGTAAACTGTAAC
91758786 ATCTGTAATAGA
131 ATCTGTAATAGA
91758798 AATTGAATT
1 AATT-AATT
91758807 GTACTTTGGT
Statistics
Matches: 148, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
141 141 0.95
142 4 0.03
143 3 0.02
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (142 bp):
AATTAATTTGTTCATCATGGAACAACATGGGACACAGGTTGGATACGTTGCATTACTAATCAAAA
CCCTGAAATTTTCTGTTGGTTTTTGCTGCAATTGTCTTAATGATATAATGAAAGTAAACTGTAAC
ATCTGTAATAGA
Found at i:91766035 original size:48 final size:48
Alignment explanation
Indices: 91765964--91766067 Score: 129
Period size: 48 Copynumber: 2.2 Consensus size: 48
91765954 TCTCTAAATC
* *
91765964 TGTTTCATCCCCTACTGCTGATGAC-TTTCTTTCTTCAGCCATTGAAGA
1 TGTTTCTTCCCCTACTGCTGATGACGCTTCTTT-TTCAGCCATTGAAGA
** * *
91766012 TGTTTCTTCCCCTGTTGCTGATGACGCTTCTTTTTCAGTCATTGAAGG
1 TGTTTCTTCCCCTACTGCTGATGACGCTTCTTTTTCAGCCATTGAAGA
*
91766060 CGTTTCTT
1 TGTTTCTT
91766068 TTTCAGCCAT
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 42 0.88
49 6 0.12
ACGTcount: A:0.14, C:0.25, G:0.17, T:0.43
Consensus pattern (48 bp):
TGTTTCTTCCCCTACTGCTGATGACGCTTCTTTTTCAGCCATTGAAGA
Found at i:91766117 original size:72 final size:73
Alignment explanation
Indices: 91765989--91766126 Score: 199
Period size: 72 Copynumber: 1.9 Consensus size: 73
91765979 TGCTGATGAC
* * ** *
91765989 TTTCTTTCTTCAGCCATTGAAGATGTTTCTTCCCCTGTTGCTGATGACGCTTCTTTTTCAGTCAT
1 TTTCTTTCTTCAGCCATTGAAGATGTTTCTGCCCCTATTGCTGATGACGCCCCTTTTTCAGCCAT
91766054 TGAAGGCG
66 TGAAGGCG
*
91766062 TTTCTTT-TTCAGCCATTGAAGTTGTTTCTGCCCCTATTGCTGATGA-GTCCCCTTTTTCAGCCA
1 TTTCTTTCTTCAGCCATTGAAGATGTTTCTGCCCCTATTGCTGATGACG-CCCCTTTTTCAGCCA
91766125 TT
65 TT
91766127 TAAGAAGAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
71 1 0.02
72 50 0.86
73 7 0.12
ACGTcount: A:0.14, C:0.25, G:0.17, T:0.43
Consensus pattern (73 bp):
TTTCTTTCTTCAGCCATTGAAGATGTTTCTGCCCCTATTGCTGATGACGCCCCTTTTTCAGCCAT
TGAAGGCG
Found at i:91770824 original size:18 final size:18
Alignment explanation
Indices: 91770801--91770859 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
91770791 CTATGGCCAA
91770801 ATCATTTTGGTAGCGAAG
1 ATCATTTTGGTAGCGAAG
* *
91770819 ATCA--TTGGTTTGGCCAA-
1 ATCATTTTGG--TAGCGAAG
*
91770836 ATCATTTTGGTAGTGAAG
1 ATCATTTTGGTAGCGAAG
91770854 ATCATT
1 ATCATT
91770860 GGTTTCCCAT
Statistics
Matches: 31, Mismatches: 5, Indels: 10
0.67 0.11 0.22
Matches are distributed among these distances:
16 4 0.13
17 8 0.26
18 15 0.48
19 4 0.13
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.37
Consensus pattern (18 bp):
ATCATTTTGGTAGCGAAG
Found at i:91770840 original size:35 final size:35
Alignment explanation
Indices: 91770794--91770864 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
91770784 AAGCAAACTA
91770794 TGGCCAAATCATTTTGGTAGCGAAGATCATTGGTT
1 TGGCCAAATCATTTTGGTAGCGAAGATCATTGGTT
*
91770829 TGGCCAAATCATTTTGGTAGTGAAGATCATTGGTT
1 TGGCCAAATCATTTTGGTAGCGAAGATCATTGGTT
91770864 T
1 T
91770865 CCCATGTCAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.25, C:0.13, G:0.25, T:0.37
Consensus pattern (35 bp):
TGGCCAAATCATTTTGGTAGCGAAGATCATTGGTT
Found at i:91774275 original size:25 final size:24
Alignment explanation
Indices: 91774247--91774293 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
91774237 TAAAATTATT
*
91774247 TTATATTCATATTAAATAAAAATAA
1 TTATATTAATATTAAA-AAAAATAA
*
91774272 TTATATTAATATTTAAAAAAAT
1 TTATATTAATATTAAAAAAAAT
91774294 CCCTCTTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TTATATTAATATTAAAAAAAATAA
Found at i:91774401 original size:21 final size:23
Alignment explanation
Indices: 91774376--91774419 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
91774366 GAAAAATGTA
91774376 TTTTT-TTAAATATTAATATAAT
1 TTTTTATTAAATATTAATATAAT
*
91774398 TTTTTATTTAATATTAATATAA
1 TTTTTATTAAATATTAATATAA
91774420 AATAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (23 bp):
TTTTTATTAAATATTAATATAAT
Found at i:91776804 original size:23 final size:23
Alignment explanation
Indices: 91776778--91776829 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
91776768 TTTAAATAAT
91776778 TAATATTTATATATTT-ATATTTA
1 TAATATTTATAT-TTTAATATTTA
**
91776801 TAATGGTTATATTTTAATATTTA
1 TAATATTTATATTTTAATATTTA
*
91776824 AAATAT
1 TAATAT
91776830 AATTTATATA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (23 bp):
TAATATTTATATTTTAATATTTA
Found at i:91776835 original size:19 final size:20
Alignment explanation
Indices: 91776808--91776846 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
91776798 TTATAATGGT
* *
91776808 TATATTTTA-ATATTTAAAA
1 TATAATTTATATATTCAAAA
91776827 TATAATTTATATATTCAAAA
1 TATAATTTATATATTCAAAA
91776847 CAAAATATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
TATAATTTATATATTCAAAA
Found at i:91783961 original size:84 final size:84
Alignment explanation
Indices: 91783817--91783987 Score: 317
Period size: 84 Copynumber: 2.0 Consensus size: 84
91783807 AATAAATAGG
*
91783817 ATAGTCAGATACTGGTTTCTGATGTTGTATGGATATCAACAAATAAAAACATAATTAATACACAA
1 ATAGTCAGATACTGGTTTCTGATGTTGTATCGATATCAACAAATAAAAACATAATTAATACACAA
91783882 ATCATGAAATATAACTATA
66 ATCATGAAATATAACTATA
91783901 ATAGTCAGATACTGGTTTCTGATGTTGTATCGATATCAACAAATAAAAACAT-ATTCAATACACA
1 ATAGTCAGATACTGGTTTCTGATGTTGTATCGATATCAACAAATAAAAACATAATT-AATACACA
91783965 AATCATGAAATATAACTATA
65 AATCATGAAATATAACTATA
91783985 ATA
1 ATA
91783988 CAGGGGTTCC
Statistics
Matches: 85, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
83 3 0.04
84 82 0.96
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.31
Consensus pattern (84 bp):
ATAGTCAGATACTGGTTTCTGATGTTGTATCGATATCAACAAATAAAAACATAATTAATACACAA
ATCATGAAATATAACTATA
Found at i:91786715 original size:23 final size:23
Alignment explanation
Indices: 91786685--91786732 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
91786675 CTCTTCAATA
91786685 ATGATAAAATC-ATAATTTAACAT
1 ATGATAAAATCTAT-ATTTAACAT
*
91786708 ATGATAAAATCTATATTTGACAT
1 ATGATAAAATCTATATTTAACAT
91786731 AT
1 AT
91786733 CAAAAATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (23 bp):
ATGATAAAATCTATATTTAACAT
Found at i:91787099 original size:21 final size:22
Alignment explanation
Indices: 91787059--91787100 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
91787049 AAAAACAGAA
*
91787059 ATAAATAATTGTCATCTTAATC
1 ATAAACAATTGTCATCTTAATC
*
91787081 ATAAACAATTG-CGTCTTAAT
1 ATAAACAATTGTCATCTTAAT
91787101 TCCTTAAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.38
Consensus pattern (22 bp):
ATAAACAATTGTCATCTTAATC
Found at i:91789649 original size:3 final size:3
Alignment explanation
Indices: 91789641--91789678 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
91789631 TTATTTCCTT
91789641 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
91789679 TTGGCTTGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:91790002 original size:27 final size:27
Alignment explanation
Indices: 91789972--91790030 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
91789962 ATATACCTTG
91789972 CAACCTATTTACTTTACATCACATTGA
1 CAACCTATTTACTTTACATCACATTGA
91789999 CAACCTATTTACTTTACATCACATTGA
1 CAACCTATTTACTTTACATCACATTGA
91790026 CAACC
1 CAACC
91790031 CAATAAGGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (27 bp):
CAACCTATTTACTTTACATCACATTGA
Found at i:91790339 original size:17 final size:18
Alignment explanation
Indices: 91790317--91790350 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
91790307 AGTCAAATTG
91790317 AAATTGCG-AAATTAAAT
1 AAATTGCGAAAATTAAAT
91790334 AAATTGCGAAAATTAAA
1 AAATTGCGAAAATTAAA
91790351 ATGGAGAATA
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:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Found at i:91791106 original size:10 final size:10
Alignment explanation
Indices: 91791079--91791128 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
91791069 TTAAATTCTA
91791079 AAAGATAAAT
1 AAAGATAAAT
*
91791089 ACAA-ATAATT
1 A-AAGATAAAT
*
91791099 AAAGATAATT
1 AAAGATAAAT
91791109 AAAGATAAAT
1 AAAGATAAAT
91791119 AAAGATAAAT
1 AAAGATAAAT
91791129 GAAAAAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
9 2 0.06
10 32 0.89
11 2 0.06
ACGTcount: A:0.66, C:0.02, G:0.08, T:0.24
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:91791138 original size:20 final size:19
Alignment explanation
Indices: 91791079--91791138 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 19
91791069 TTAAATTCTA
*
91791079 AAAGATAAATACAAATAATT
1 AAAGATAAATA-AAATAAAT
*
91791099 AAAGATAATTAAAGATAAAT
1 AAAGATAAATAAA-ATAAAT
*
91791119 AAAGATAAATGAAAAAAAAT
1 AAAGATAAAT-AAAATAAAT
91791139 CCTAAAATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
19 2 0.06
20 29 0.85
21 3 0.09
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (19 bp):
AAAGATAAATAAAATAAAT
Found at i:91794452 original size:37 final size:37
Alignment explanation
Indices: 91794406--91794509 Score: 127
Period size: 37 Copynumber: 2.8 Consensus size: 37
91794396 GAACTTGTCT
*
91794406 TCATGTTTCAAGTTATGATGTTCCGCTGGACTTGCCC
1 TCATGTTTCAAGTTATGATGATCCGCTGGACTTGCCC
* * *
91794443 TCATTTTTCAAGTTATGATGATCTGCTAGACTTGCCC
1 TCATGTTTCAAGTTATGATGATCCGCTGGACTTGCCC
* * * * *
91794480 ACATGTTTCGAGTTATAATGGTCCGTTGGA
1 TCATGTTTCAAGTTATGATGATCCGCTGGA
91794510 TGTGTCCTCA
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.38
Consensus pattern (37 bp):
TCATGTTTCAAGTTATGATGATCCGCTGGACTTGCCC
Found at i:91794757 original size:26 final size:26
Alignment explanation
Indices: 91794687--91794823 Score: 112
Period size: 26 Copynumber: 5.2 Consensus size: 26
91794677 CTTTATACAA
* * * *
91794687 GAGTCTGCAATGACTATCTTTTAAGCAA
1 GAGTCTGCAAGGACTA--TTTCAAGTAT
* *
91794715 GAGTCTGTAAGGGCTATTTCAAGTAT
1 GAGTCTGCAAGGACTATTTCAAGTAT
* * *
91794741 GAGTCTGCAATGACTATTCCATGTAT
1 GAGTCTGCAAGGACTATTTCAAGTAT
* * *
91794767 GACTCAGCAAGGACTATTTCAAGCAT
1 GAGTCTGCAAGGACTATTTCAAGTAT
** *
91794793 GAGTCCACAAGGACTAATATCAAGTAT
1 GAGTCTGCAAGGACT-ATTTCAAGTAT
91794820 GAGT
1 GAGT
91794824 TCGTAAGATT
Statistics
Matches: 86, Mismatches: 22, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
26 60 0.70
27 13 0.15
28 13 0.15
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (26 bp):
GAGTCTGCAAGGACTATTTCAAGTAT
Found at i:91802162 original size:3 final size:3
Alignment explanation
Indices: 91802147--91802178 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
91802137 TTTTCAATTT
*
91802147 TCA TCA CCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
91802179 TTTTTACTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.31, C:0.38, G:0.00, T:0.31
Consensus pattern (3 bp):
TCA
Found at i:91806971 original size:169 final size:170
Alignment explanation
Indices: 91806680--91807075 Score: 562
Period size: 169 Copynumber: 2.3 Consensus size: 170
91806670 ATTAAAAAAC
* * * *
91806680 ATATATAAAGTGTTTAAGATAACATATCAATGGTTAAATTTTGATATTTTGATTTGATATATAAA
1 ATATATAAAGTCTTTAAGAAAACATATAAATGATTAAATTTTGATATTTTGATTTGATATATAAA
* * * * ** * *
91806745 ACCATTTGATCAAGTCTTGTCTCTTATTCATGATGAATTGGTTGAGGATGGCCAAAATAACATGG
66 ACCATCTGATCAAGTCTTGTCTCTTACTCATGATGAATTGATCGAACATGACCAAAATAACACGG
* *
91806810 CTTTAATGTAATCGATTAATTTGCTTTATTTACCA-ATAT
131 CTTTAATGTAATCGATTAATTTACTTTATTTACAATATAT
*
91806849 ATATATAAAGTCTTTAAGAAAACATATAAATGATTAAATTTTGATATTTTTATTTGATATATAAA
1 ATATATAAAGTCTTTAAGAAAACATATAAATGATTAAATTTTGATATTTTGATTTGATATATAAA
* * * * *
91806914 ACTATCTGATTATGTCTTGTCTCTTGCTCATGATGACTTGATCGAACATGACCAAAATAACACGG
66 ACCATCTGATCAAGTCTTGTCTCTTACTCATGATGAATTGATCGAACATGACCAAAATAACACGG
* *
91806979 TTTTAATGTAATGGATTAATTTACTTTATTTACAATATAT
131 CTTTAATGTAATCGATTAATTTACTTTATTTACAATATAT
*
91807019 ATATATAAAGTCTTTAAGAAAGCATATAAAT-AGTTAAATTTTGATATTTTGATTTGA
1 ATATATAAAGTCTTTAAGAAAACATATAAATGA-TTAAATTTTGATATTTTGATTTGA
91807076 AGAATGAAGT
Statistics
Matches: 201, Mismatches: 24, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
169 144 0.72
170 57 0.28
ACGTcount: A:0.37, C:0.09, G:0.13, T:0.41
Consensus pattern (170 bp):
ATATATAAAGTCTTTAAGAAAACATATAAATGATTAAATTTTGATATTTTGATTTGATATATAAA
ACCATCTGATCAAGTCTTGTCTCTTACTCATGATGAATTGATCGAACATGACCAAAATAACACGG
CTTTAATGTAATCGATTAATTTACTTTATTTACAATATAT
Found at i:91810559 original size:11 final size:11
Alignment explanation
Indices: 91810545--91810583 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
91810535 ATACAAAGTC
91810545 CAAGATATTTT
1 CAAGATATTTT
91810556 CAAGATA--TT
1 CAAGATATTTT
91810565 CAAGATATTTT
1 CAAGATATTTT
*
91810576 TAAGATAT
1 CAAGATAT
91810584 ATAAGATAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
9 9 0.36
11 16 0.64
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (11 bp):
CAAGATATTTT
Found at i:91810591 original size:20 final size:20
Alignment explanation
Indices: 91810545--91810583 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
91810535 ATACAAAGTC
91810545 CAAGATATTTTCAAGATATT
1 CAAGATATTTTCAAGATATT
*
91810565 CAAGATATTTTTAAGATAT
1 CAAGATATTTTCAAGATAT
91810584 ATAAGATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.41
Consensus pattern (20 bp):
CAAGATATTTTCAAGATATT
Found at i:91813102 original size:2 final size:2
Alignment explanation
Indices: 91813091--91813128 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
91813081 GATATCATTT
*
91813091 TA TA -A TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
91813129 CATAGAAGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:91818923 original size:30 final size:30
Alignment explanation
Indices: 91818858--91818934 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 30
91818848 TTGGTACATT
* * *
91818858 GGTGCTGCTCCATATCCAGGTTGGTGGAGT
1 GGTGCAGCTCCATATCCAGGTTGGTGAAGA
* *
91818888 TGTGCAGCTCTATATCC-GAGTTGGTGAAGA
1 GGTGCAGCTCCATATCCAG-GTTGGTGAAGA
* *
91818918 GGTGCAACCCCATATCC
1 GGTGCAGCTCCATATCC
91818935 TGAATGGTGT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 1 0.03
30 36 0.97
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.27
Consensus pattern (30 bp):
GGTGCAGCTCCATATCCAGGTTGGTGAAGA
Found at i:91819022 original size:30 final size:30
Alignment explanation
Indices: 91818952--91819100 Score: 97
Period size: 30 Copynumber: 5.0 Consensus size: 30
91818942 TGTGCTAATG
* *
91818952 CAGCCCCGTATCCGGCTTGGTGTGACGGTG
1 CAGCCCCATATCCGGCTTGGTGTGACGGTA
* * * *
91818982 TAACCACATATCCGGGTTGGTGT-AGCGGTA
1 CAGCCCCATATCCGGCTTGGTGTGA-CGGTA
* * *
91819012 CAGCCCCATATCCAGCTTAGG-GCGATGGTA
1 CAGCCCCATATCCGGCTT-GGTGTGACGGTA
* * * *
91819042 CAGCTCTA-AACTCGGCTTGGTGTGACGGTG
1 CAGCCCCATATC-CGGCTTGGTGTGACGGTA
* * * *
91819072 CAACTCCATATTCGGCTTGGTGCGACGGT
1 CAGCCCCATATCCGGCTTGGTGTGACGGT
91819101 GGGGCCCTAT
Statistics
Matches: 88, Mismatches: 25, Indels: 12
0.70 0.20 0.10
Matches are distributed among these distances:
29 5 0.06
30 79 0.90
31 4 0.05
ACGTcount: A:0.18, C:0.26, G:0.31, T:0.25
Consensus pattern (30 bp):
CAGCCCCATATCCGGCTTGGTGTGACGGTA
Found at i:91819341 original size:30 final size:30
Alignment explanation
Indices: 91819220--91819341 Score: 95
Period size: 30 Copynumber: 4.1 Consensus size: 30
91819210 GGTGCATGTC
* * *
91819220 TGCAGCATCATATCC-GAGTTGGTGCGGTGG
1 TGCAGCACCATATCCAG-GTTGGTACGGCGG
* **
91819250 GGCAGCACCATATCCAGGTTGGTGA-GGCAA
1 TGCAGCACCATATCCAGGTTGGT-ACGGCGG
* * * * **
91819280 TGCAGCAGCATATCCTGGCTGGTGCATCGG
1 TGCAGCACCATATCCAGGTTGGTACGGCGG
*
91819310 TGCAGCACCATGTCCAGGTTGGTACGGCGG
1 TGCAGCACCATATCCAGGTTGGTACGGCGG
91819340 TG
1 TG
91819342 TAAAGTCATT
Statistics
Matches: 67, Mismatches: 22, Indels: 6
0.71 0.23 0.06
Matches are distributed among these distances:
30 66 0.99
31 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.35, T:0.22
Consensus pattern (30 bp):
TGCAGCACCATATCCAGGTTGGTACGGCGG
Found at i:91825265 original size:31 final size:32
Alignment explanation
Indices: 91825230--91825296 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 32
91825220 ATAAAAATAT
91825230 TTTTTTATAATTTTTAAA-AGATTAAA-T-TAA
1 TTTTTTATAA-TTTTAAAGAGATTAAAGTATAA
* *
91825260 ATTTTTATTATTTTAAAGGAGATTAAAGTATAA
1 TTTTTTATAATTTTAAA-GAGATTAAAGTATAA
91825293 TTTT
1 TTTT
91825297 ACTTTTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
29 7 0.23
30 8 0.27
31 8 0.27
32 1 0.03
33 6 0.20
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.52
Consensus pattern (32 bp):
TTTTTTATAATTTTAAAGAGATTAAAGTATAA
Found at i:91825267 original size:30 final size:31
Alignment explanation
Indices: 91825231--91825296 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 31
91825221 TAAAAATATT
*
91825231 TTTTTATAATTTTTAAA-AGATTAAATTA-AA
1 TTTTTATAA-TTTTAAAGAGATTAAAGTATAA
*
91825261 TTTTTATTATTTTAAAGGAGATTAAAGTATAA
1 TTTTTATAATTTTAAA-GAGATTAAAGTATAA
91825293 TTTT
1 TTTT
91825297 ACTTTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 7 0.23
30 8 0.26
31 10 0.32
32 6 0.19
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.52
Consensus pattern (31 bp):
TTTTTATAATTTTAAAGAGATTAAAGTATAA
Found at i:91828170 original size:25 final size:27
Alignment explanation
Indices: 91828142--91828213 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
91828132 CCATTTTTCC
91828142 CCAAAAAG-AAA-AAAAAAGAGGAAAA
1 CCAAAAAGCAAAGAAAAAAGAGGAAAA
*
91828167 CCAAAAAGCAAAGAAAAGAGAGGAAAA
1 CCAAAAAGCAAAGAAAAAAGAGGAAAA
*
91828194 ACAAAAATG-AGAAGAAAAAA
1 CCAAAAA-GCA-AAGAAAAAA
91828214 AAGTCCAGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
25 8 0.20
26 3 0.08
27 20 0.50
28 9 0.22
ACGTcount: A:0.72, C:0.08, G:0.18, T:0.01
Consensus pattern (27 bp):
CCAAAAAGCAAAGAAAAAAGAGGAAAA
Found at i:91845042 original size:41 final size:40
Alignment explanation
Indices: 91844963--91845042 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 40
91844953 GACCGTGTGA
* * *
91844963 CACACATGGCCTCCACATGGCCTATCACATTGTCGTATGT
1 CACACATGGCCTCCACACGGCCTAGCACATTGACGTATGT
91845003 CACACATGGCCTACCACACGGCCTAGCACA-TGACTGTATG
1 CACACATGGCCT-CCACACGGCCTAGCACATTGAC-GTATG
91845043 GTGTCGATAG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
40 15 0.43
41 20 0.57
ACGTcount: A:0.25, C:0.34, G:0.19, T:0.23
Consensus pattern (40 bp):
CACACATGGCCTCCACACGGCCTAGCACATTGACGTATGT
Found at i:91846988 original size:58 final size:59
Alignment explanation
Indices: 91846870--91846990 Score: 174
Period size: 60 Copynumber: 2.1 Consensus size: 59
91846860 GTCACCCAAT
* * *
91846870 TATGAAAAGTTATAAAATGGTCACTCAACTATTAATAATTTTCTTTTTAGGCCACTCAAC
1 TATGAAAAATTACAAAAAGGTCACTCAACTATT-ATAATTTTCTTTTTAGGCCACTCAAC
*
91846930 TATGAAAAATTACAAAAAGGTCACTCAACTATT-TAATTTAT-TTTTTTGGCCACTCAAC
1 TATGAAAAATTACAAAAAGGTCACTCAACTATTATAATTT-TCTTTTTAGGCCACTCAAC
91846988 TAT
1 TAT
91846991 CTTAGATTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
58 25 0.45
59 1 0.02
60 30 0.54
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (59 bp):
TATGAAAAATTACAAAAAGGTCACTCAACTATTATAATTTTCTTTTTAGGCCACTCAAC
Found at i:91850165 original size:30 final size:30
Alignment explanation
Indices: 91850097--91850166 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
91850087 ATATAAAAAT
* *
91850097 AAATTAAAGTTTCATGTATACATTTGAACC
1 AAATTAAAGTTTCATGTATAAAATTGAACC
* * *
91850127 ACAATTAAAGTTTCGTGTGTAAAATTGCACC
1 A-AATTAAAGTTTCATGTATAAAATTGAACC
91850158 AAATTAAAG
1 AAATTAAAG
91850167 CTCTTGTATC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 9 0.26
31 25 0.74
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (30 bp):
AAATTAAAGTTTCATGTATAAAATTGAACC
Found at i:91854677 original size:74 final size:74
Alignment explanation
Indices: 91854599--91854766 Score: 196
Period size: 74 Copynumber: 2.3 Consensus size: 74
91854589 TTTGTGGAAG
* *
91854599 TCAAATTGTTTAACTTGATTAAAACCCTT-AAGAGATTTAACTTTA-CTGATTAAGTGCAAGCAA
1 TCAAATTGTTTAACTTGATTAAAACCCTTAAAGAG-TTTAACTCTATC-GATTAAATGCAAGCAA
91854662 ATCTATGAAAC
64 ATCTATGAAAC
* * * * **
91854673 TCAAATTGTTTAACTTGATTACATCTCTTAAAGAGTTTAGCTCTATCGATTAAATGGGAGCAAAT
1 TCAAATTGTTTAACTTGATTAAAACCCTTAAAGAGTTTAACTCTATCGATTAAATGCAAGCAAAT
* *
91854738 TTATGAAAG
66 CTATGAAAC
* *
91854747 TTAAATTGTTTGACTTGATT
1 TCAAATTGTTTAACTTGATT
91854767 TCATTTCTGT
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
74 74 0.93
75 6 0.08
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (74 bp):
TCAAATTGTTTAACTTGATTAAAACCCTTAAAGAGTTTAACTCTATCGATTAAATGCAAGCAAAT
CTATGAAAC
Found at i:91855216 original size:59 final size:59
Alignment explanation
Indices: 91855145--91855264 Score: 240
Period size: 59 Copynumber: 2.0 Consensus size: 59
91855135 GGCTTGAGAA
91855145 GGAAAGAAAAATAAGTAAGTTCAAAGAACTTAATGAGTTCTAAAAGTATACATTACATC
1 GGAAAGAAAAATAAGTAAGTTCAAAGAACTTAATGAGTTCTAAAAGTATACATTACATC
91855204 GGAAAGAAAAATAAGTAAGTTCAAAGAACTTAATGAGTTCTAAAAGTATACATTACATC
1 GGAAAGAAAAATAAGTAAGTTCAAAGAACTTAATGAGTTCTAAAAGTATACATTACATC
91855263 GG
1 GG
91855265 TTATACATGA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.48, C:0.10, G:0.17, T:0.25
Consensus pattern (59 bp):
GGAAAGAAAAATAAGTAAGTTCAAAGAACTTAATGAGTTCTAAAAGTATACATTACATC
Found at i:91856285 original size:16 final size:17
Alignment explanation
Indices: 91856266--91856298 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
91856256 TGATTTCAAG
*
91856266 GTTAAA-TGATTAAATT
1 GTTAAAGTGATAAAATT
91856282 GTTAAAGTGATAAAATT
1 GTTAAAGTGATAAAATT
91856299 TAAACGATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.39
Consensus pattern (17 bp):
GTTAAAGTGATAAAATT
Found at i:91858683 original size:48 final size:49
Alignment explanation
Indices: 91858612--91858925 Score: 385
Period size: 48 Copynumber: 6.6 Consensus size: 49
91858602 TAAAGTACCA
* * **
91858612 ATGCCATGTCCCAGACATAGTCTTACATGAGTC-CATATATCATCGCTA
1 ATGCCATGTCCCAGACATGGTCTTACATGAGGCACATATATCATCGCCG
* *
91858660 ATGCCATGTCCCAAACATGGTCTTACA--ATGGCATATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACATGA-GGCACATATATCATCGCCG
* *
91858708 ATGCCATATCCCAGGCATGGTCTTACAT-AGGCACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACATGAGGCACATATATCATCGCCG
*
91858756 ATGCCATGTCCCAGACATGGTCTTACA-CAGGCACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACATGAGGCACATATATCATCGCCG
* * * *
91858804 ATGCTATGTCCCAGACATGGTCTTACACT--GGTACATATATTATCTCCG
1 ATGCCATGTCCCAGACATGGTCTTACA-TGAGGCACATATATCATCGCCG
* * * * *
91858852 ATGTCATATCCCAGACATGGTCTTACA-CAGGCACATA-ATCATCACTG
1 ATGCCATGTCCCAGACATGGTCTTACATGAGGCACATATATCATCGCCG
91858899 ATGCCATGTCCCAGACATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
91858926 CAGAATCTCA
Statistics
Matches: 233, Mismatches: 25, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.00
47 34 0.15
48 197 0.85
49 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (49 bp):
ATGCCATGTCCCAGACATGGTCTTACATGAGGCACATATATCATCGCCG
Found at i:91858776 original size:96 final size:96
Alignment explanation
Indices: 91858612--91858925 Score: 429
Period size: 96 Copynumber: 3.3 Consensus size: 96
91858602 TAAAGTACCA
* * ** *
91858612 ATGCCATGTCCCAGACATAGTCTTACATGAGTC-CATATATCATCGCTAATGCCATGTCCCAAAC
1 ATGCCATGTCCCAGACATGGTCTTACAT-AGGCACATATATCATCGCCGATGCCATGTCCCAGAC
*
91858676 ATGGTCTTACA-ATGGCATATATATCATCGCCG
65 ATGGTCTTACACA-GGCACATATATCATCGCCG
* *
91858708 ATGCCATATCCCAGGCATGGTCTTACATAGGCACATATATCATCGCCGATGCCATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACATAGGCACATATATCATCGCCGATGCCATGTCCCAGACA
91858773 TGGTCTTACACAGGCACATATATCATCGCCG
66 TGGTCTTACACAGGCACATATATCATCGCCG
* * * * * *
91858804 ATGCTATGTCCCAGACATGGTCTTACACT-GGTACATATATTATCTCCGATGTCATATCCCAGAC
1 ATGCCATGTCCCAGACATGGTCTTACA-TAGGCACATATATCATCGCCGATGCCATGTCCCAGAC
* *
91858868 ATGGTCTTACACAGGCACATA-ATCATCACTG
65 ATGGTCTTACACAGGCACATATATCATCGCCG
91858899 ATGCCATGTCCCAGACATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
91858926 CAGAATCTCA
Statistics
Matches: 196, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
95 37 0.19
96 157 0.80
97 2 0.01
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (96 bp):
ATGCCATGTCCCAGACATGGTCTTACATAGGCACATATATCATCGCCGATGCCATGTCCCAGACA
TGGTCTTACACAGGCACATATATCATCGCCG
Found at i:91858872 original size:144 final size:142
Alignment explanation
Indices: 91858612--91858928 Score: 454
Period size: 144 Copynumber: 2.2 Consensus size: 142
91858602 TAAAGTACCA
* * * *
91858612 ATGCCATGTCCCAGACATAGTCTTACATGAGTCCATATATCATCGCTAATGCCATGTCCCAAACA
1 ATGCCATGTCCCAGACATGGTCTTACA-CAGGCCATATATCATCGCCAATGCCATGTCCCAAACA
* * *
91858677 TGGTCTTACAATGGCATATATATCATCGCCGATGCCATATCCCAGGCATGGTCTTACATAGGCAC
65 TGGTCTTACAATGGCACATATATCATCGCCGATGCCATATCCCAGACATGGTCTTACACAGGCAC
*
91858742 ATATATCATCGCCG
130 ATA-ATCATCACCG
* * *
91858756 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCGATGCTATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACAGGC-CATATATCATCGCCAATGCCATGTCCCAAACA
* * * * *
91858821 TGGTCTTACACTGGTACATATATTATCTCCGATGTCATATCCCAGACATGGTCTTACACAGGCAC
65 TGGTCTTACAATGGCACATATATCATCGCCGATGCCATATCCCAGACATGGTCTTACACAGGCAC
*
91858886 ATAATCATCACTG
130 ATAATCATCACCG
91858899 ATGCCATGTCCCAGACATGGTCTTACACAG
1 ATGCCATGTCCCAGACATGGTCTTACACAG
91858929 AATCTCATTT
Statistics
Matches: 155, Mismatches: 17, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
143 41 0.26
144 114 0.74
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (142 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGGCCATATATCATCGCCAATGCCATGTCCCAAACAT
GGTCTTACAATGGCACATATATCATCGCCGATGCCATATCCCAGACATGGTCTTACACAGGCACA
TAATCATCACCG
Found at i:91861715 original size:81 final size:81
Alignment explanation
Indices: 91861577--91861735 Score: 273
Period size: 81 Copynumber: 2.0 Consensus size: 81
91861567 AGTAAGAAAG
* * *
91861577 AACTCACCAGAAAACACAACAAGTCTTTTGCCCTTATCACGAGAACCTTTAAAAGTGTCTTGAGC
1 AACTCACCAGAAAACACAACAAGTCCTTTGCCCTTATCACGAGAACCTTCAAAAGTGTCTTGAGA
91861642 TATAATATAAATAAAA
66 TATAATATAAATAAAA
* *
91861658 AACTCACCAGAAAACACAACAAGTCCTTTGCCTTTATCACGAGAACCTTCAAGAGTGTCTTGAGA
1 AACTCACCAGAAAACACAACAAGTCCTTTGCCCTTATCACGAGAACCTTCAAAAGTGTCTTGAGA
91861723 TATAATATAAATA
66 TATAATATAAATA
91861736 CTTAAACTTA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 73 1.00
ACGTcount: A:0.41, C:0.21, G:0.12, T:0.26
Consensus pattern (81 bp):
AACTCACCAGAAAACACAACAAGTCCTTTGCCCTTATCACGAGAACCTTCAAAAGTGTCTTGAGA
TATAATATAAATAAAA
Found at i:91863181 original size:26 final size:26
Alignment explanation
Indices: 91863148--91863255 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
91863138 TGATACAAAT
91863148 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
91863174 TGACAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
91863200 TGATAATGGGTTAAGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
91863226 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
91863252 TGAT
1 TGAT
91863256 GGGAATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:91865288 original size:137 final size:137
Alignment explanation
Indices: 91865042--91865328 Score: 538
Period size: 137 Copynumber: 2.1 Consensus size: 137
91865032 GAGTAGTCTC
91865042 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATAGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATAGGCCATAC
*
91865107 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTGCC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
91865172 ACTGTTA
131 ACTGTTA
*
91865179 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATAGGCCATAC
91865244 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
91865309 ACTGTTA
131 ACTGTTA
**
91865316 CCTGAATGGGCTT
1 CCCAAATGGGCTT
91865329 AGGCCCAATA
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 146 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATAGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:91867677 original size:40 final size:40
Alignment explanation
Indices: 91867619--91867796 Score: 254
Period size: 40 Copynumber: 4.5 Consensus size: 40
91867609 TGGATGATAA
*
91867619 CCGGGCTAAGTCCTGAAGGCAATT-GTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGC-ATTGGTGCGAGTTACTATAT
91867659 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
91867699 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
* * * *
91867739 CCGAGCTATGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTA-CTATAT
* *
91867779 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
91867797 TACTTGGCTT
Statistics
Matches: 127, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 17 0.13
40 110 0.87
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
Found at i:91873666 original size:55 final size:54
Alignment explanation
Indices: 91873603--91873835 Score: 313
Period size: 55 Copynumber: 4.2 Consensus size: 54
91873593 TTCTTAATTT
* * * *
91873603 TTGGAATATTGCTTCTTTTGATTCAATTTTTTATATGTTGAAATCGATTGTCATG
1 TTGGAATATTGCTTCTTTTGAAT-AATTGTTTATATGTTTAAATCAATTGTCATG
* *
91873658 TTGGAATATTGCTGCTTTTGAATAGATTTTTTATATGTTTAAATCAATTGTCATG
1 TTGGAATATTGCTTCTTTTGAATA-ATTGTTTATATGTTTAAATCAATTGTCATG
* * *
91873713 TTGGAATATTGCTTCTTTTGAATTGATTGTTTCTATGTTTAAATCAATTGTTATG
1 TTGGAATATTGCTTCTTTTGAA-TAATTGTTTATATGTTTAAATCAATTGTCATG
* ** *
91873768 TTGGAATATTGCTTCTTTTGAATCAGTTGTTTATATGTTTAAATCGGTTGTTATG
1 TTGGAATATTGCTTCTTTTGAAT-AATTGTTTATATGTTTAAATCAATTGTCATG
91873823 TTGGAATATTGCT
1 TTGGAATATTGCT
91873836 GATAAATCTT
Statistics
Matches: 161, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
54 2 0.01
55 158 0.98
56 1 0.01
ACGTcount: A:0.24, C:0.08, G:0.18, T:0.51
Consensus pattern (54 bp):
TTGGAATATTGCTTCTTTTGAATAATTGTTTATATGTTTAAATCAATTGTCATG
Found at i:91878416 original size:20 final size:20
Alignment explanation
Indices: 91878393--91878434 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
91878383 AGCTATATTG
*
91878393 ACTTGTTTAAAAACAATTTA
1 ACTTGATTAAAAACAATTTA
* *
91878413 ACTTGATTGAAATCAATTTA
1 ACTTGATTAAAAACAATTTA
91878433 AC
1 AC
91878435 CATTTTAACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (20 bp):
ACTTGATTAAAAACAATTTA
Found at i:91878559 original size:17 final size:17
Alignment explanation
Indices: 91878533--91878566 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
91878523 TAAATATCAT
* *
91878533 TTTTTCAATTTTCTTCA
1 TTTTTAAATTTTATTCA
91878550 TTTTTAAATTTTATTCA
1 TTTTTAAATTTTATTCA
91878567 AAAACACCTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTAAATTTTATTCA
Found at i:91880562 original size:37 final size:37
Alignment explanation
Indices: 91880501--91880646 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
91880491 TACGTATGAT
* *
91880501 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
91880536 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
91880573 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
91880610 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
91880647 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:91880663 original size:46 final size:46
Alignment explanation
Indices: 91880610--91880878 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
91880600 TAAGTGTAGC
* **
91880610 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
91880656 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
91880702 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
91880754 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
91880800 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
91880852 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
91880879 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Done.