Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 138 of 250
Found at i:44654371 original size:395 final size:389
Alignment explanation
Indices: 44653594--44654857 Score: 1321
Period size: 395 Copynumber: 3.2 Consensus size: 389
44653584 ATATAAATTT
* * * * * *
44653594 AAAAGCAGAAATTGAAATTAACTCAACGTGCCTTGAGGCTCAACTTACCTCTCGCAGTATGAGTT
1 AAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCACAATATGAGTT
44653659 GA-----TT----TTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCA
65 GATTTTTTTGAAATTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCA
* * *
44653715 TTTCTCGCAATATGAGTTGATTTTTTTGAC-AATAGAAATTGAAATTACCTCAGCGTGTCCTGAG
130 TTTCTCGCAATATGAGTTGA-TTTTTTGACAAACAAAAATTAAAATTACCTCAGCGTGTCCTGAG
** *
44653779 GCTCAACTCGCCTT-TCGCAATATGAGTTGAATTTTTTTGAAAAATATAAATTGAAAAGCAGAAA
194 GCTCAACTC-ATTTCTCGCAATATGAGTTG-A--TTTTTG-AAAA-ATAAATTGAAAA-CAAAAA
* * * *
44653843 TTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCTATATAAGTTGATTTTTTGAA
252 TTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTGAA
* * * * **
44653908 AGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
317 AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
44653973 TTTTTTTG
382 TTTTTTTG
* * * *
44653981 ACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCACAATATGAGTTG
* * * * *
44654046 AATTTTTTTGAAAAATATAAATTGAAA-AGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCT
66 -ATTTTTTTG--AAAT-T---TTGAAAGA-CAAAAATTGAAAATACCTCAGCATGTCTTGAGGCT
**
44654110 CAACTCACCTCTCGCAATATGAGTTGA-TTTTTGACAAACAAAAATTAAAATTACCTCAGCGTGT
123 CAACTCATTTCTCGCAATATGAGTTGATTTTTTGACAAACAAAAATTAAAATTACCTCAGCGTGT
* *
44654174 CCTGAGGCTCAACTCATTTCTCGTAATATGAGTTGATTTTTGAAAAATAGATTGAAATACAAAAA
188 CCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAATAAATTGAAA-ACAAAAA
*
44654239 TTGACAA-TACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGAGTT-AATTTTTGA
252 TTGA-AATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTGA
*
44654302 AAAACAGGAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
316 AAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
44654367 ATTTTTGAAAAACATA
381 ATTTTT-------TTG
* * ** **
44654383 AATTGAACAAAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTTGCAATATGAG
1 AA---AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCACAATATGAG
*
44654448 TTGA-TTTTTT----TTTTGAAAGACAAAAATTTAAAATACCTCAGCATGTCTTGAGGCTCAACT
63 TTGATTTTTTTGAAATTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACT
* *
44654508 CATTTCTCGCAATATGAGTTGATTTTTTTGA-AAGACAAAAATTGAAAA-TACCTCAGCATGTCT
128 CATTTCTCGCAATATGAGTTGA-TTTTTTGACAA-ACAAAAATT-AAAATTACCTCAGCGTGTCC
** *
44654571 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT------T-TTTTGACAACAAAAATTG
190 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAATAAATTGAAAACAAAAATTG
* *
44654629 AAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTGAAA
255 AAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA--TTTTTG---
* * * *
44654694 AATATAAATTTAAAAGCAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTTACCCCTC
315 -------A---AAAA-CAGAAATTGAAAATACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTC
*
44654758 GCAGTATGAGTTGATTTTTTTG
368 GCAATATGAGTTGATTTTTTTG
*
44654780 AAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGA-AATATGAGT
1 AAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTC-ACAATATGAGT
44654844 TGATTTTTTTGAAA
64 TGATTTTTTTGAAA
44654858 CAGAAATAAA
Statistics
Matches: 737, Mismatches: 78, Indels: 111
0.80 0.08 0.12
Matches are distributed among these distances:
386 56 0.08
387 59 0.08
388 7 0.01
389 1 0.00
390 6 0.01
392 2 0.00
393 60 0.08
394 5 0.01
395 193 0.26
396 73 0.10
397 11 0.01
398 7 0.01
399 1 0.00
400 12 0.02
401 55 0.07
402 63 0.09
403 12 0.02
404 59 0.08
405 55 0.07
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (389 bp):
AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCACAATATGAGTTG
ATTTTTTTGAAATTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCAT
TTCTCGCAATATGAGTTGATTTTTTGACAAACAAAAATTAAAATTACCTCAGCGTGTCCTGAGGC
TCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAATAAATTGAAAACAAAAATTGAAATTA
CCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTGAAAAACAGAAA
TTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
Found at i:44654507 original size:78 final size:78
Alignment explanation
Indices: 44654225--44654689 Score: 518
Period size: 75 Copynumber: 6.0 Consensus size: 78
44654215 GAAAAATAGA
* * * * *
44654225 TTGAAATACAAAAATTGACAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
44654290 GTT-A----ATTT
66 GTTGATTTTTTTT
* ** *
44654298 TTGAAAAACAGGAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
***
44654363 GTTGATTTTTGAAAAAC
66 GTTGATTTTT----TTT
* * * * * ** *
44654380 AT-AAATTGAACAAAAATTGAAACTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTTGCAATA
1 TTGAAA--G-ACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATA
44654444 TGAGTTGATTTTTTTT
63 TGAGTTGATTTTTTTT
* * **
44654460 TTGAAAGACAAAAATTTAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
44654525 GTTGA---TTTTT
66 GTTGATTTTTTTT
* **
44654535 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
1 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
44654600 GTTGATTTTTTTT
66 GTTGATTTTTTTT
* *
44654613 TTGACA-ACAAAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
*
44654677 GTTGAATTTTTTT
66 GTTGATTTTTTTT
44654690 GAAAAATATA
Statistics
Matches: 340, Mismatches: 36, Indels: 28
0.84 0.09 0.07
Matches are distributed among these distances:
73 62 0.18
74 1 0.00
75 74 0.22
77 66 0.19
78 68 0.20
79 1 0.00
80 1 0.00
81 6 0.02
82 1 0.00
84 60 0.18
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (78 bp):
TTGAAAGACAAAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTT
Found at i:44654793 original size:75 final size:75
Alignment explanation
Indices: 44654705--44654864 Score: 243
Period size: 75 Copynumber: 2.2 Consensus size: 75
44654695 ATATAAATTT
* * * *
44654705 AAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCCCTCGCAGTATGAGTT
1 AAAAGCAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCCCTCGAAATATGAGTT
44654770 GATTTTTTTG
66 GATTTTTTTG
* * *
44654780 AAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGAAATATGAGTT
1 AAAAGCAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCCCTCGAAATATGAGTT
44654845 GATTTTTTTG
66 GATTTTTTTG
44654855 -AAA-CAGAAAT
1 AAAAGCAGAAAT
44654865 AAAAACATCA
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
73 7 0.09
74 3 0.04
75 68 0.87
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.30
Consensus pattern (75 bp):
AAAAGCAGAAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCCCTCGAAATATGAGTT
GATTTTTTTG
Found at i:44654841 original size:165 final size:164
Alignment explanation
Indices: 44654546--44654857 Score: 428
Period size: 165 Copynumber: 1.9 Consensus size: 164
44654536 TGAAAGACAA
* * ***
44654546 AAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACATGCCTTGAGGCTCAACTCACCCCTCGCAATATGAGTTGA--TTTT
* * * *
44654611 TTTTGACAACAAAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCGCAATATG
64 TTTTGAAAACAAAAATTGAAAATACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGAAATATG
44654676 AGTTGAATTTTTTTGAAAAATATAAATTTAAAAGCAG
129 AGTTG-ATTTTTTTGAAAAATATAAATTTAAAAGCAG
* * * *
44654713 AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCCCTCGCAGTATGAGTTGA-TTTTT
1 AAATTGAAAATACCTCAACATGCCTTGAGGCTCAACTCACCCCTCGCAATATGAGTTGATTTTTT
* ** *
44654777 TTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGAAATATGA
66 TTGAAAA-CAAAAATTGAAAATACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGAAATATGA
44654842 GTTGATTTTTTTGAAA
130 GTTGATTTTTTTGAAA
44654858 CAGAAATAAA
Statistics
Matches: 127, Mismatches: 17, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
164 23 0.18
165 54 0.43
167 50 0.39
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.33
Consensus pattern (164 bp):
AAATTGAAAATACCTCAACATGCCTTGAGGCTCAACTCACCCCTCGCAATATGAGTTGATTTTTT
TTGAAAACAAAAATTGAAAATACCTCAACATGTCCTGAGGCTCAACTCACCTCTCGAAATATGAG
TTGATTTTTTTGAAAAATATAAATTTAAAAGCAG
Found at i:44665078 original size:16 final size:17
Alignment explanation
Indices: 44665056--44665112 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
44665046 CATGATCCAA
*
44665056 TTGAAAA-ATGAGAATT
1 TTGAAAACATGAAAATT
*
44665072 TTTAAAACATGAAAATT
1 TTGAAAACATGAAAATT
*
44665089 TTGAAAACACGAAAATTT
1 TTGAAAACATGAAAA-TT
44665107 TTGAAA
1 TTGAAA
44665113 CCTGAATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
16 6 0.17
17 21 0.60
18 8 0.23
ACGTcount: A:0.51, C:0.05, G:0.12, T:0.32
Consensus pattern (17 bp):
TTGAAAACATGAAAATT
Found at i:44665735 original size:15 final size:17
Alignment explanation
Indices: 44665715--44665746 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
44665705 TTAGGAAACG
44665715 TACATAA-A-AAATATA
1 TACATAATATAAATATA
44665730 TACATAATATAAATATA
1 TACATAATATAAATATA
44665747 ATATATACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TACATAATATAAATATA
Found at i:44666291 original size:11 final size:11
Alignment explanation
Indices: 44666257--44666298 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
44666247 AAATCATTTT
44666257 GAAGAGAGAAA
1 GAAGAGAGAAA
* *
44666268 GAA-AAAAAAA
1 GAAGAGAGAAA
*
44666278 GAAGGGAGAAA
1 GAAGAGAGAAA
44666289 GAAGAGAGAA
1 GAAGAGAGAA
44666299 TGGAGGGGGA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
10 8 0.33
11 16 0.67
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (11 bp):
GAAGAGAGAAA
Found at i:44666479 original size:21 final size:22
Alignment explanation
Indices: 44666455--44666495 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
44666445 AAAAACAACA
44666455 CAAAA-AAAAAGAAAAAAGATT
1 CAAAAGAAAAAGAAAAAAGATT
* *
44666476 CAAAAGAAGAGGAAAAAAGA
1 CAAAAGAAAAAGAAAAAAGA
44666496 AAAAATGCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.73, C:0.05, G:0.17, T:0.05
Consensus pattern (22 bp):
CAAAAGAAAAAGAAAAAAGATT
Found at i:44666772 original size:19 final size:19
Alignment explanation
Indices: 44666748--44666784 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
44666738 AGGGTTTCTT
44666748 GGTTTTTTTTGGGGGGTTA
1 GGTTTTTTTTGGGGGGTTA
*
44666767 GGTTTTTTTTTGGGGGTT
1 GGTTTTTTTTGGGGGGTT
44666785 TAATGGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.00, G:0.41, T:0.57
Consensus pattern (19 bp):
GGTTTTTTTTGGGGGGTTA
Found at i:44670416 original size:24 final size:24
Alignment explanation
Indices: 44670364--44670416 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
44670354 CTCAAATGCA
44670364 TCCTCCACCACTAATGTATCACCC
1 TCCTCCACCACTAATGTATCACCC
* * * **
44670388 ACCTCCACCTCTCATGTATCTTCC
1 TCCTCCACCACTAATGTATCACCC
44670412 TCCTC
1 TCCTC
44670417 AAATATATCC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.19, C:0.47, G:0.04, T:0.30
Consensus pattern (24 bp):
TCCTCCACCACTAATGTATCACCC
Found at i:44671812 original size:19 final size:19
Alignment explanation
Indices: 44671779--44671821 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
44671769 AAATTTGTAT
44671779 TTTTTAAACTAATTTTTAA
1 TTTTTAAACTAATTTTTAA
*
44671798 TATTTTAAAC-CATTTTTAA
1 T-TTTTAAACTAATTTTTAA
44671817 TTTTT
1 TTTTT
44671822 GTAATTTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 10 0.45
20 8 0.36
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTAAACTAATTTTTAA
Found at i:44672904 original size:24 final size:24
Alignment explanation
Indices: 44672876--44672951 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
44672866 ATAATGGTAA
*
44672876 TTAACTAATTTAATTAAAAATGAT
1 TTAACTAATTTAATTAAAAATAAT
* *
44672900 TTAACAAATTTATTTAAAAATAAT
1 TTAACTAATTTAATTAAAAATAAT
* *
44672924 ATATA-TAATTGAATT-AAAATAAGT
1 TTA-ACTAATTTAATTAAAAATAA-T
44672948 TTAA
1 TTAA
44672952 AATCTTTACA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
23 8 0.19
24 33 0.79
25 1 0.02
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.41
Consensus pattern (24 bp):
TTAACTAATTTAATTAAAAATAAT
Found at i:44673220 original size:15 final size:15
Alignment explanation
Indices: 44673202--44673232 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44673192 AAATTAAAAC
44673202 AAAAATGAATATTGT
1 AAAAATGAATATTGT
*
44673217 AAAAATGAATGTTGT
1 AAAAATGAATATTGT
44673232 A
1 A
44673233 CACATCTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.16, T:0.32
Consensus pattern (15 bp):
AAAAATGAATATTGT
Found at i:44673372 original size:46 final size:46
Alignment explanation
Indices: 44673298--44673396 Score: 116
Period size: 46 Copynumber: 2.2 Consensus size: 46
44673288 ATTTTGTTCA
*
44673298 ATTTTACTTTATTTTTAGTTTTTAATTTTAAAATTTATG-CA-ATAAC
1 ATTTTACTTTATTTTTAATTTTTAATTTT-AAA-TTATGTCATATAAC
*
44673344 ATTTTACTTT-TTTTTAAAATTTTT-ATTTTAAATTATGTCATATAAG
1 ATTTTACTTTATTTTT--AATTTTTAATTTTAAATTATGTCATATAAC
44673390 ATTTTAC
1 ATTTTAC
44673397 GTGTCATTCA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
44 5 0.11
45 10 0.21
46 26 0.55
47 6 0.13
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (46 bp):
ATTTTACTTTATTTTTAATTTTTAATTTTAAATTATGTCATATAAC
Found at i:44675399 original size:34 final size:35
Alignment explanation
Indices: 44675334--44675412 Score: 92
Period size: 34 Copynumber: 2.3 Consensus size: 35
44675324 ATAGGTAAGC
44675334 TTATATTGAACTTGATTATTCGATTACATGTGAA-
1 TTATATTGAACTTGATTATTCGATTACATGTGAAG
**
44675368 TTATATTGAACTT-ATATATTC-AGTTTTATGTGAAG
1 TTATATTGAACTTGAT-TATTCGA-TTACATGTGAAG
*
44675403 TTATTTTGAA
1 TTATATTGAA
44675413 TGTGCATATT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
33 3 0.08
34 27 0.69
35 9 0.23
ACGTcount: A:0.32, C:0.06, G:0.14, T:0.48
Consensus pattern (35 bp):
TTATATTGAACTTGATTATTCGATTACATGTGAAG
Found at i:44678842 original size:76 final size:76
Alignment explanation
Indices: 44678708--44678858 Score: 284
Period size: 76 Copynumber: 2.0 Consensus size: 76
44678698 ATGGCAAACC
*
44678708 CAATTCACAGTTCAATGACTTTTCCAAAGCTTTTGTTTAACTTATGTTTTCTGTGTGCTATGTGG
1 CAATTCACAGTTCAATGACTTTTCCAAAGCTTTTGTTTAACTTATGTTTTCTGCGTGCTATGTGG
44678773 TTATTCTTTCT
66 TTATTCTTTCT
*
44678784 CAATTCACAGTTCAATGACTTTTCCAAAGCTTTTGTTTAACTTATGTTTTGTGCGTGCTATGTGG
1 CAATTCACAGTTCAATGACTTTTCCAAAGCTTTTGTTTAACTTATGTTTTCTGCGTGCTATGTGG
44678849 TTATTCTTTC
66 TTATTCTTTC
44678859 CTGTAAATTC
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 73 1.00
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (76 bp):
CAATTCACAGTTCAATGACTTTTCCAAAGCTTTTGTTTAACTTATGTTTTCTGCGTGCTATGTGG
TTATTCTTTCT
Found at i:44680362 original size:19 final size:19
Alignment explanation
Indices: 44680338--44680377 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
44680328 TCGGAATAAG
44680338 TATGTTATTTGGATTAACT
1 TATGTTATTTGGATTAACT
44680357 TATGTTATTTGGATTAACT
1 TATGTTATTTGGATTAACT
44680376 TA
1 TA
44680378 AATATATGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.53
Consensus pattern (19 bp):
TATGTTATTTGGATTAACT
Found at i:44681668 original size:20 final size:20
Alignment explanation
Indices: 44681630--44681668 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
44681620 AAGTTCTTAT
* *
44681630 TTTTCTGGTGCTTGGAATTC
1 TTTTCTAGTGCTTGCAATTC
*
44681650 TTTTCTAGTGGTTGCAATT
1 TTTTCTAGTGCTTGCAATT
44681669 AGAGATTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.23, T:0.51
Consensus pattern (20 bp):
TTTTCTAGTGCTTGCAATTC
Found at i:44683074 original size:28 final size:28
Alignment explanation
Indices: 44683034--44683088 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
44683024 TGCTAGGCCG
*
44683034 TGTGACACACGACTGAGACACATGCCCA
1 TGTGACACACGACTAAGACACATGCCCA
44683062 TGTGACACACGACTAAGACACATGCCC
1 TGTGACACACGACTAAGACACATGCCC
44683089 GTGTCTCTGC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.33, G:0.20, T:0.15
Consensus pattern (28 bp):
TGTGACACACGACTAAGACACATGCCCA
Found at i:44683886 original size:42 final size:42
Alignment explanation
Indices: 44683838--44683993 Score: 161
Period size: 42 Copynumber: 3.7 Consensus size: 42
44683828 CCCGAAAGCA
* * *
44683838 AAACAGAAGCACATAAGTGCTAAATAGAAACCTATAAGGGTT
1 AAACAGAAGCTCATAAGAGCTGAATAGAAACCTATAAGGGTT
* * **
44683880 GAACAGAAGCTCATGAGAGCTGAACGGAAACCTATAAGGGTT
1 AAACAGAAGCTCATAAGAGCTGAATAGAAACCTATAAGGGTT
* * * *
44683922 AAACAGAAGCTCAAAAGAGCTGAATAGAAA-CTCACATGAGTT
1 AAACAGAAGCTCATAAGAGCTGAATAGAAACCT-ATAAGGGTT
* * * *
44683964 AAACAGAAGCTCGTGAGAGCTAAATGGAAA
1 AAACAGAAGCTCATAAGAGCTGAATAGAAA
44683994 GTAAACACAA
Statistics
Matches: 93, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
41 2 0.02
42 91 0.98
ACGTcount: A:0.45, C:0.15, G:0.23, T:0.17
Consensus pattern (42 bp):
AAACAGAAGCTCATAAGAGCTGAATAGAAACCTATAAGGGTT
Found at i:44683887 original size:21 final size:21
Alignment explanation
Indices: 44683863--44683929 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
44683853 AGTGCTAAAT
44683863 AGAAACCTATAAGGGTTGAAC
1 AGAAACCTATAAGGGTTGAAC
* * * *
44683884 AG-AAGCTCATGAGAGCTGAAC
1 AGAAACCT-ATAAGGGTTGAAC
* *
44683905 GGAAACCTATAAGGGTTAAAC
1 AGAAACCTATAAGGGTTGAAC
44683926 AGAA
1 AGAA
44683930 GCTCAAAAGA
Statistics
Matches: 33, Mismatches: 11, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
20 4 0.12
21 25 0.76
22 4 0.12
ACGTcount: A:0.43, C:0.15, G:0.25, T:0.16
Consensus pattern (21 bp):
AGAAACCTATAAGGGTTGAAC
Found at i:44683971 original size:21 final size:21
Alignment explanation
Indices: 44683919--44683971 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
44683909 ACCTATAAGG
*
44683919 GTTAAACAGAAGCTCAAAAGA
1 GTTAAACAGAAACTCAAAAGA
* * * * *
44683940 GCTGAATAGAAACTCACATGA
1 GTTAAACAGAAACTCAAAAGA
44683961 GTTAAACAGAA
1 GTTAAACAGAA
44683972 GCTCGTGAGA
Statistics
Matches: 23, Mismatches: 9, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.17
Consensus pattern (21 bp):
GTTAAACAGAAACTCAAAAGA
Found at i:44687742 original size:26 final size:25
Alignment explanation
Indices: 44687694--44687749 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
44687684 ATTGTTTTTA
* * * *
44687694 AATTTTAATAAGATTATTGTTAAAT
1 AATTTTAATAAAAATAATATTAAAT
44687719 ATATTTTAATAAAAATAATATTAAAT
1 A-ATTTTAATAAAAATAATATTAAAT
44687745 AATTT
1 AATTT
44687750 AATCTTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 5 0.19
26 21 0.81
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (25 bp):
AATTTTAATAAAAATAATATTAAAT
Found at i:44701838 original size:21 final size:21
Alignment explanation
Indices: 44701812--44701854 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
44701802 AAAACTCGAA
**
44701812 AGACTTAAGCTTGTCTTTCTT
1 AGACTTAAGCTTACCTTTCTT
44701833 AGACTTAAGCTTACCTTTCTT
1 AGACTTAAGCTTACCTTTCTT
44701854 A
1 A
44701855 AACCCAGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.21, G:0.12, T:0.44
Consensus pattern (21 bp):
AGACTTAAGCTTACCTTTCTT
Found at i:44704901 original size:51 final size:51
Alignment explanation
Indices: 44704783--44704909 Score: 134
Period size: 51 Copynumber: 2.5 Consensus size: 51
44704773 GGACATCAAT
* * *
44704783 TATTTAAGATAAATAAAAAAATAAAAAAAACTAGTTTAAATTAAAAAAATC
1 TATTTATGATAAATAAAAAAATAAAAAAAACTAATTTAAATTAAAAAAACC
* * *
44704834 TATTTAT-CTAAGATAAAAACTAA-AAAAAAAACTAATTTAAATT-CAAAAGCC
1 TATTTATGATAA-ATAAAAA--AATAAAAAAAACTAATTTAAATTAAAAAAACC
* *
44704885 TATTTATGATGAATAAAAAGATAAA
1 TATTTATGATAAATAAAAAAATAAA
44704910 GGCTAAAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
49 1 0.02
50 6 0.10
51 32 0.52
52 21 0.34
53 2 0.03
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (51 bp):
TATTTATGATAAATAAAAAAATAAAAAAAACTAATTTAAATTAAAAAAACC
Found at i:44707205 original size:30 final size:30
Alignment explanation
Indices: 44707169--44707228 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
44707159 ATTTAATACG
* *
44707169 AACTTTTGCAAAATTACATTTTTGCCCCTA
1 AACTTTTGCAAAATTACACTTTTACCCCTA
*
44707199 AACTTTTGCATAATTACACTTTTACCCCTA
1 AACTTTTGCAAAATTACACTTTTACCCCTA
44707229 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (30 bp):
AACTTTTGCAAAATTACACTTTTACCCCTA
Found at i:44708528 original size:24 final size:24
Alignment explanation
Indices: 44708495--44708575 Score: 101
Period size: 24 Copynumber: 3.4 Consensus size: 24
44708485 TATAACATGG
*
44708495 GGGTTCGCATATATAAGACATATA
1 GGGTTCGCATATATAAAACATATA
* * *
44708519 GGGTTTGCATAT-TAAAACTTGTA
1 GGGTTCGCATATATAAAACATATA
* *
44708542 GAGTTCGCATGTATAAAACATATA
1 GGGTTCGCATATATAAAACATATA
44708566 GGGTTCGCAT
1 GGGTTCGCAT
44708576 CTATGCACTA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
23 17 0.37
24 29 0.63
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.32
Consensus pattern (24 bp):
GGGTTCGCATATATAAAACATATA
Found at i:44713442 original size:36 final size:37
Alignment explanation
Indices: 44713365--44713442 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
44713355 TTTTCAATTG
* *
44713365 ATTTAATTTTTTCAATGGTCTATCAAATAGGGCCTTA
1 ATTTAATTTTTTCAATGGTCTATCAAACAAGGCCTTA
*
44713402 ATTTAATTTTTTCAATGGGT-TATCAAACAATGCCTT-
1 ATTTAATTTTTTCAAT-GGTCTATCAAACAAGGCCTTA
44713438 ATTTA
1 ATTTA
44713443 GAGTTGAGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 5 0.14
37 29 0.78
38 3 0.08
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.45
Consensus pattern (37 bp):
ATTTAATTTTTTCAATGGTCTATCAAACAAGGCCTTA
Found at i:44716654 original size:15 final size:16
Alignment explanation
Indices: 44716629--44716661 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
44716619 CGTTAATTCA
44716629 AAATCTTAGCAATTGT
1 AAATCTTAGCAATTGT
44716645 AAAT-TTAGCAATTGT
1 AAATCTTAGCAATTGT
44716660 AA
1 AA
44716662 TTGATTTGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.42, C:0.09, G:0.12, T:0.36
Consensus pattern (16 bp):
AAATCTTAGCAATTGT
Found at i:44719173 original size:38 final size:39
Alignment explanation
Indices: 44719131--44719240 Score: 116
Period size: 38 Copynumber: 2.8 Consensus size: 39
44719121 TCAAATAGTT
* *
44719131 CGAAGCAAAGTTGACACCCAGTGTCTCATCG-GCCTAGC
1 CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAGC
** ** * *
44719169 CGAAGTAAAG-TGGTACCCAGTACCTCATCGAATCTATC
1 CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAGC
44719207 CGAAGTAATAGTATGACACCCAGTGTCTCATCGA
1 CGAAGTAA-AGT-TGACACCCAGTGTCTCATCGA
44719241 CTCGAGGTTG
Statistics
Matches: 56, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
37 16 0.29
38 21 0.38
39 2 0.04
41 17 0.30
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (39 bp):
CGAAGTAAAGTTGACACCCAGTGTCTCATCGAACCTAGC
Found at i:44719886 original size:17 final size:18
Alignment explanation
Indices: 44719852--44719887 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
44719842 TGAATTTCTA
44719852 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
44719870 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
44719887 T
1 T
44719888 AACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:44720340 original size:17 final size:18
Alignment explanation
Indices: 44720313--44720356 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
44720303 CCTTCATTTC
*
44720313 TTTCTTTTATTTTTTTA-G
1 TTTC-TTTATTCTTTTATG
44720331 TTTCTTTATTCTTTTATG
1 TTTCTTTATTCTTTTATG
*
44720349 TTTATTTA
1 TTTCTTTA
44720357 CTTTATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.14, C:0.07, G:0.05, T:0.75
Consensus pattern (18 bp):
TTTCTTTATTCTTTTATG
Found at i:44720369 original size:23 final size:23
Alignment explanation
Indices: 44720326--44720369 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
44720316 CTTTTATTTT
**
44720326 TTTAGTTTCTTTATTCTTTTATG
1 TTTAGTTTCTTTATTAATTTATG
44720349 TTTA-TTTACTTTATTAATTTA
1 TTTAGTTT-CTTTATTAATTTA
44720370 ATAATAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (23 bp):
TTTAGTTTCTTTATTAATTTATG
Found at i:44720866 original size:20 final size:20
Alignment explanation
Indices: 44720820--44720867 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
44720810 AGTCTTTTTT
*
44720820 CCTAATTACTCTTAATTAAA
1 CCTAATTACACTTAATTAAA
44720840 -CTAAATT-CACTTAATTAAAA
1 CCT-AATTACACTTAATT-AAA
44720860 CCTAATTA
1 CCTAATTA
44720868 AATACACAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
19 10 0.43
20 11 0.48
21 2 0.09
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (20 bp):
CCTAATTACACTTAATTAAA
Found at i:44734216 original size:27 final size:28
Alignment explanation
Indices: 44734132--44734229 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
44734122 CATGAGATTG
* * * *
44734132 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
44734161 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
44734189 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
44734216 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
44734230 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:44734240 original size:27 final size:27
Alignment explanation
Indices: 44734160--44734242 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
44734150 TAAATTGTAC
* *
44734160 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
44734188 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
44734215 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
44734242 A
1 A
44734243 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:44734243 original size:29 final size:27
Alignment explanation
Indices: 44734132--44734243 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
44734122 CATGAGATTG
** * *
44734132 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
44734161 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
44734189 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
44734216 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
44734244 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:44736647 original size:13 final size:14
Alignment explanation
Indices: 44736614--44736651 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
44736604 TCAAGATGGT
44736614 CCGGCTTGATGAGC
1 CCGGCTTGATGAGC
44736628 CCGGCTTGATGAG-
1 CCGGCTTGATGAGC
*
44736641 TCGGCTTGATG
1 CCGGCTTGATG
44736652 GGTTCTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.13, C:0.24, G:0.37, T:0.26
Consensus pattern (14 bp):
CCGGCTTGATGAGC
Found at i:44741401 original size:17 final size:19
Alignment explanation
Indices: 44741379--44741417 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
44741369 TAAACGCCAC
44741379 TTCTCA-ATTTAAT-CCAA
1 TTCTCACATTTAATACCAA
*
44741396 TTCTCACATTTCATACCAA
1 TTCTCACATTTAATACCAA
44741415 TTC
1 TTC
44741418 ACAAACAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 6 0.32
19 7 0.37
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (19 bp):
TTCTCACATTTAATACCAA
Found at i:44746084 original size:42 final size:43
Alignment explanation
Indices: 44746000--44746141 Score: 182
Period size: 42 Copynumber: 3.3 Consensus size: 43
44745990 CGTTCCAAAT
* * *
44746000 ATGGTCTTACATGTAA-TCAAATATCGATGCCACTGTCTCAGAC
1 ATGGTCTTACACGTAACTCAAATA-CGATGCCAATGTCCCAGAC
44746043 ATGGTCTTACACG-AACTCAAATACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAACTCAAATACGATGCCAATGTCCCAGAC
**
44746085 ATGGTCTTACACGTAAATCTCAAAT-CGATGCCAACATCCCAGAC
1 ATGGTCTTACACGT-AA-CTCAAATACGATGCCAATGTCCCAGAC
*
44746129 GTGGTCTTACACG
1 ATGGTCTTACACG
44746142 AAATCACATA
Statistics
Matches: 89, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
42 32 0.36
43 19 0.21
44 31 0.35
45 7 0.08
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGGTCTTACACGTAACTCAAATACGATGCCAATGTCCCAGAC
Found at i:44746134 original size:44 final size:44
Alignment explanation
Indices: 44746000--44746146 Score: 162
Period size: 44 Copynumber: 3.4 Consensus size: 44
44745990 CGTTCCAAAT
* * * *
44746000 ATGGTCTTACATGTAA--TCAAATATCGATGCC-ACTGTCTCAGAC
1 ATGGTCTTACACGAAATCTCAAATA-CGATGCCAAC-ATCCCAGAC
**
44746043 ATGGTCTTACACG-AA-CTCAAATACGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAAATCTCAAATACGATGCCAACATCCCAGAC
44746085 ATGGTCTTACACGTAAATCTCAAAT-CGATGCCAACATCCCAGAC
1 ATGGTCTTACACG-AAATCTCAAATACGATGCCAACATCCCAGAC
*
44746129 GTGGTCTTACACGAAATC
1 ATGGTCTTACACGAAATC
44746147 ACATATCGTA
Statistics
Matches: 93, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
42 30 0.32
43 25 0.27
44 31 0.33
45 7 0.08
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (44 bp):
ATGGTCTTACACGAAATCTCAAATACGATGCCAACATCCCAGAC
Found at i:44749312 original size:53 final size:52
Alignment explanation
Indices: 44749217--44749424 Score: 192
Period size: 53 Copynumber: 4.0 Consensus size: 52
44749207 AAATTTTTTT
* * ** *
44749217 CATATGATGCCATAACCTACTAGTTGTGATCTTTA-ATGATATGATCTTCTTTC
1 CATATGATGCCATAACCCACCAGTTACGGTC-TTACA-GATATGATCTTCTTTC
* * *
44749270 CATATGATGCCATAGCCCACCAGTTACGGTCTTATGCA-ATATGGTCTTTTTTC
1 CATATGATGCCATAACCCACCAGTTACGGTCTTA--CAGATATGATCTTCTTTC
* * *
44749323 CATATGATGCCATAACTCACCAATTATGGTCTTACATGATATGA---TCTTTC
1 CATATGATGCCATAACCCACCAGTTACGGTCTTACA-GATATGATCTTCTTTC
** * *
44749373 CATATGATGCCATAACCCACCAGTTACTATCTTAAACGATATGGTCTTCTTT
1 CATATGATGCCATAACCCACCAGTTACGGTCTTACA-GATATGATCTTCTTT
44749425 AGTGCCATGG
Statistics
Matches: 125, Mismatches: 22, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
50 41 0.33
51 2 0.02
52 3 0.02
53 78 0.62
55 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (52 bp):
CATATGATGCCATAACCCACCAGTTACGGTCTTACAGATATGATCTTCTTTC
Found at i:44749362 original size:106 final size:103
Alignment explanation
Indices: 44749210--44749399 Score: 267
Period size: 106 Copynumber: 1.8 Consensus size: 103
44749200 CTTCCTTAAA
* * * *
44749210 TTTTTTTCATATGATGCCATAACCTACTAGTTGTGATCTTTAATGATATGATCTTCTTTCCATAT
1 TTTTTTCCATATGATGCCATAACCTACCAATTATGATCTTTAATGATATGA---TCTTTCCATAT
*
44749275 GATGCCATAGCCCACCAGTTACGGTCTTATGCAATATGGTC
63 GATGCCATAACCCACCAGTTACGGTCTTATGCAATATGGTC
*
44749316 TTTTTTCCATATGATGCCATAA-CTCACCAATTATGGTC-TTACATGATATGATCTTTCCATATG
1 TTTTTTCCATATGATGCCATAACCT-ACCAATTATGATCTTTA-ATGATATGATCTTTCCATATG
44749379 ATGCCATAACCCACCAGTTAC
64 ATGCCATAACCCACCAGTTAC
44749400 TATCTTAAAC
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
103 32 0.42
105 5 0.07
106 39 0.51
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (103 bp):
TTTTTTCCATATGATGCCATAACCTACCAATTATGATCTTTAATGATATGATCTTTCCATATGAT
GCCATAACCCACCAGTTACGGTCTTATGCAATATGGTC
Found at i:44749406 original size:103 final size:104
Alignment explanation
Indices: 44749210--44749420 Score: 266
Period size: 103 Copynumber: 2.0 Consensus size: 104
44749200 CTTCCTTAAA
* * * *
44749210 TTTTTTTCATATGATGCCATAACCTACTAGTTGTGATCTTTAATGATATGATCTTCTTTCCATAT
1 TTTTTTCCATATGATGCCATAACCTACCAATTATGATCTTTAATGATATGA--TTCTTTCCATAT
* * **
44749275 GATGCCATAGCCCACCAGTTACGGTCTTATGCAATATGGTC
64 GATGCCATAACCCACCAGTTACGATCTTAAACAATATGGTC
*
44749316 TTTTTTCCATATGATGCCATAA-CTCACCAATTATGGTC-TTACATGATATGA-TCTTTCCATAT
1 TTTTTTCCATATGATGCCATAACCT-ACCAATTATGATCTTTA-ATGATATGATTCTTTCCATAT
* *
44749378 GATGCCATAACCCACCAGTTACTATCTTAAACGATATGGTC
64 GATGCCATAACCCACCAGTTACGATCTTAAACAATATGGTC
44749419 TT
1 TT
44749421 CTTTAGTGCC
Statistics
Matches: 92, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
103 48 0.52
105 5 0.05
106 39 0.42
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (104 bp):
TTTTTTCCATATGATGCCATAACCTACCAATTATGATCTTTAATGATATGATTCTTTCCATATGA
TGCCATAACCCACCAGTTACGATCTTAAACAATATGGTC
Found at i:44759012 original size:24 final size:24
Alignment explanation
Indices: 44758980--44759029 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
44758970 TCCTTTCGTA
44758980 TTACCACTTCTATTTCACTTATCC
1 TTACCACTTCTATTTCACTTATCC
44759004 TTACCACTTCTATTTCACTTATCC
1 TTACCACTTCTATTTCACTTATCC
44759028 TT
1 TT
44759030 GTAATCTGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.20, C:0.32, G:0.00, T:0.48
Consensus pattern (24 bp):
TTACCACTTCTATTTCACTTATCC
Found at i:44764202 original size:24 final size:22
Alignment explanation
Indices: 44764136--44764224 Score: 79
Period size: 24 Copynumber: 3.8 Consensus size: 22
44764126 TAGTGCTCGC
** *
44764136 TTGAACTTCCCGTTACTGGTTAT
1 TTGAACTTCCCAATA-TGGTTCT
* * *
44764159 CTGAAGCTTTCCGATATGGTTCTT
1 TTGAA-CTTCCCAATATGGTTC-T
44764183 TGTGAACTTCCCAATATGGTTCT
1 T-TGAACTTCCCAATATGGTTCT
44764206 TTGAACTTCCCAATTATGG
1 TTGAACTTCCCAA-TATGG
44764225 CTGTTATGAG
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
22 12 0.22
23 16 0.29
24 23 0.42
25 4 0.07
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.40
Consensus pattern (22 bp):
TTGAACTTCCCAATATGGTTCT
Found at i:44768676 original size:24 final size:24
Alignment explanation
Indices: 44768649--44768717 Score: 93
Period size: 24 Copynumber: 2.9 Consensus size: 24
44768639 AACCTTTCCG
*
44768649 ATATGGTTCTTTGTGAACTTCCTA
1 ATATGGTTCTTTGTGAACTTCCAA
*
44768673 ATATGGTTCTTTGTGAACTCCCAA
1 ATATGGTTCTTTGTGAACTTCCAA
* * *
44768697 ATAAGGTTCTTTCTTAACTTC
1 ATATGGTTCTTTGTGAACTTC
44768718 TCGATAATGG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.43
Consensus pattern (24 bp):
ATATGGTTCTTTGTGAACTTCCAA
Found at i:44768809 original size:24 final size:23
Alignment explanation
Indices: 44768761--44768814 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
44768751 AGCCCGGATA
*
44768761 AGCTTCCCGATGGGCTTTTTATG
1 AGCTTCCCGATGGGCTTTGTATG
*
44768784 AGCTTCCCGAAAT-GGCTTTGTGTG
1 AGCTTCCCG--ATGGGCTTTGTATG
44768808 AGCTTCC
1 AGCTTCC
44768815 TATTATAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 9 0.33
24 16 0.59
25 2 0.07
ACGTcount: A:0.15, C:0.24, G:0.26, T:0.35
Consensus pattern (23 bp):
AGCTTCCCGATGGGCTTTGTATG
Found at i:44773752 original size:45 final size:45
Alignment explanation
Indices: 44773696--44773794 Score: 135
Period size: 45 Copynumber: 2.2 Consensus size: 45
44773686 TCTACATAAA
* * * *
44773696 TAAGATAACCATTACTCAACCATAGTGGGATAATCACTTGTATCAT
1 TAAGA-AACCATTACTCAACCACAGTGGAACAATCACTTGTATCAC
*
44773742 TAAGAAACCATTACTCAACCACAGTGGAACAATCACTTTTATCAC
1 TAAGAAACCATTACTCAACCACAGTGGAACAATCACTTGTATCAC
*
44773787 TAAAAAAC
1 TAAGAAAC
44773795 TCTTCGGAAC
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 42 0.89
46 5 0.11
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.26
Consensus pattern (45 bp):
TAAGAAACCATTACTCAACCACAGTGGAACAATCACTTGTATCAC
Found at i:44779130 original size:27 final size:27
Alignment explanation
Indices: 44779048--44779455 Score: 157
Period size: 27 Copynumber: 15.1 Consensus size: 27
44779038 TTAGTTTACC
* *
44779048 AAATTACTGAAATACCCTC-AGTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * * *
44779074 GAATCACC-AAAGTACCCCCGGTTTATA
1 AAATTACCGAAA-TACCCTCGATTTGTA
* *
44779101 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* **
44779128 AAATTACCGAAATACCCT-TAGTTTACA
1 AAATTACCGAAATACCCTCGA-TTTGTA
* *
44779155 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * **
44779182 AAATTATC-AAAGTACCC-CTGAATTACA
1 AAATTACCGAAA-TACCCTC-GATTTGTA
* *** * * *
44779209 AAATTACTGTTTTAGCCTCAATTTATA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *** * **
44779236 GAATTACTGTTTTACCCTTGATTTACA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * **
44779263 AAATTACTGAAATACCCTTGGTTTACA
1 AAATTACCGAAATACCCTCGATTTGTA
* * **
44779290 AAATTACCAAAATACCCTCCATCAGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * *
44779317 AAATTACCAAAATAACCTTGGTTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
** *
44779344 AAATTACTAAAATACCC-CTGGTTTGTA
1 AAATTACCGAAATACCCTC-GATTTGTA
* ** **
44779371 AAGTTACTAAAATACCC-CTGGCTTGTA
1 AAATTACCGAAATACCCTC-GATTTGTA
** *
44779398 AAATTACTAAAATACCC-CTGATTTGTG
1 AAATTACCGAAATACCCTC-GATTTGTA
* * *
44779425 AAATTATCAAAATACTCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
44779452 AAAT
1 AAAT
44779456 ATCAAAATAC
Statistics
Matches: 296, Mismatches: 75, Indels: 21
0.76 0.19 0.05
Matches are distributed among these distances:
25 3 0.01
26 16 0.05
27 271 0.92
28 6 0.02
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:44779241 original size:108 final size:107
Alignment explanation
Indices: 44779038--44779280 Score: 263
Period size: 108 Copynumber: 2.3 Consensus size: 107
44779028 TTAGAATACT
* * * ** *
44779038 TTAGTTTACCAAATTACTGAAATACCCTCAGTTGTAGAATCACCAAAGTACCCCCGGTTTATAAA
1 TTAGTTTACAAAATTACTGAAATACCCTCACTTGTAAAATCACCAAAGTACCCCCGAATTACAAA
* * *
44779103 ATTACCCAAATATCCTCGATTTGTAAAATTACCGAAATACCC
66 ATTACCCAAATAGCCTCAATTTATAAAATTACCGAAATACCC
* * *
44779145 TTAGTTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTATCAAAGTACCCCTGAATTACAA
1 TTAGTTTACAAAATTACTGAAATACCCTC-ACTTGTAAAATCACCAAAGTACCCCCGAATTACAA
***** * * ***
44779210 AATTACTGTTTTAGCCTCAATTTATAGAATTACTGTTTTACCC
65 AATTACCCAAATAGCCTCAATTTATAAAATTACCGAAATACCC
44779253 TT-GATTTACAAAATTACTGAAATACCCT
1 TTAG-TTTACAAAATTACTGAAATACCCT
44779281 TGGTTTACAA
Statistics
Matches: 112, Mismatches: 22, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
107 29 0.26
108 83 0.74
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.33
Consensus pattern (107 bp):
TTAGTTTACAAAATTACTGAAATACCCTCACTTGTAAAATCACCAAAGTACCCCCGAATTACAAA
ATTACCCAAATAGCCTCAATTTATAAAATTACCGAAATACCC
Found at i:44779306 original size:54 final size:54
Alignment explanation
Indices: 44779042--44779470 Score: 222
Period size: 54 Copynumber: 8.0 Consensus size: 54
44779032 AATACTTTAG
* ** * * * * *
44779042 TTTACCAAATTACTGAAATACCCTCAG-TTGTAGAATCACCAAAGTACCCCCGG
1 TTTACAAAATTACTGAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGA
* ** * * * * *
44779095 TTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTACCGAAATA-CCCTTA
1 TTTACAAAATTACTGAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGA
* ** * *
44779148 GTTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTATCAAAGTACCCCTGA
1 -TTTACAAAATTACTGAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGA
* *** * *** * * ***** *
44779203 ATTACAAAATTACTGTTTTAGCCTCAATTTATAGAATTACTGTTTTACCCTTGA
1 TTTACAAAATTACTGAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGA
** *
44779257 TTTACAAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCCA
1 TTTACAAAATTACTGAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCT-GA
* * ** * * *
44779311 -TCAGTAAAATTACCAAAATAACCTTGGTTTGTAAAATTACTAAAATACCCCTGG
1 TTTA-CAAAATTACTGAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGA
** * * * * *
44779365 TTTGTAAAGTTACTAAAATACCCCTGGCTTGTAAAATTACTAAAATACCCCTGA
1 TTTACAAAATTACTGAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGA
*** * * * * *
44779419 TTTGTGAAATTA-TCAAAATACTCTCGATTTGTAAAA-TATCAAAATACCCCTG
1 TTTACAAAATTACT-GAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTG
44779471 TAGGGTAGAA
Statistics
Matches: 285, Mismatches: 83, Indels: 16
0.74 0.22 0.04
Matches are distributed among these distances:
53 43 0.15
54 232 0.81
55 10 0.04
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.32
Consensus pattern (54 bp):
TTTACAAAATTACTGAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGA
Found at i:44779399 original size:81 final size:81
Alignment explanation
Indices: 44779262--44779439 Score: 191
Period size: 81 Copynumber: 2.2 Consensus size: 81
44779252 CTTGATTTAC
* *
44779262 AAAATTACTGAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCCATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTCCATCAGTAAAATTACCAA
* *
44779327 AATAACCTTGGTTTGT
66 AATAACCCTGATTTGT
** * * * * *
44779343 AAAATTACTAAAATACCCCTGGTTTGTAAAGTTACTAAAATACCCCTGGC-T-TGTAAAATTACT
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATA-CCCT-CCATCAGTAAAATTACC
*
44779406 AAAATACCCCTGATTTGT
64 AAAATAACCCTGATTTGT
*
44779424 GAAATTA-TCAAAATAC
1 AAAATTACT-AAAATAC
44779440 TCTCGATTTG
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
80 1 0.01
81 74 0.91
82 5 0.06
83 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTCCATCAGTAAAATTACCAA
AATAACCCTGATTTGT
Found at i:44779450 original size:81 final size:80
Alignment explanation
Indices: 44779314--44779470 Score: 185
Period size: 81 Copynumber: 1.9 Consensus size: 80
44779304 CCCTCCATCA
* * * *
44779314 GTAAAATTACCAAAATAACCTTGGTTTGTAAAATTACTAAAATACCCCTGGTTTGTAAAGT-TAC
1 GTAAAATTACCAAAATAACCCTGATTTGTAAAATTACTAAAATACCCCTGATTTGTAAAATAT-C
44779378 TAAAATACCCCTGGCTT
65 -AAAATACCCCTGGCTT
* * * *
44779395 GTAAAATTACTAAAATACCCCTGATTTGTGAAATTA-TCAAAATA-CTCTCGATTTGTAAAATAT
1 GTAAAATTACCAAAATAACCCTGATTTGTAAAATTACT-AAAATACCCCT-GATTTGTAAAATAT
44779458 CAAAATACCCCTG
64 CAAAATACCCCTG
44779471 TAGGGTAGAA
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
80 16 0.25
81 48 0.74
82 1 0.02
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (80 bp):
GTAAAATTACCAAAATAACCCTGATTTGTAAAATTACTAAAATACCCCTGATTTGTAAAATATCA
AAATACCCCTGGCTT
Found at i:44779498 original size:27 final size:27
Alignment explanation
Indices: 44779460--44779647 Score: 259
Period size: 27 Copynumber: 7.0 Consensus size: 27
44779450 TAAAATATCA
44779460 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
44779487 AAATACCCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
** *
44779514 AAATAATCCTGTAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
44779541 AAATACCCCTGTAGGGCAAAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
44779568 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
44779595 AAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
44779622 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
44779648 ATTTTGCCCC
Statistics
Matches: 141, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 141 1.00
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:44779916 original size:25 final size:25
Alignment explanation
Indices: 44779849--44779918 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
44779839 AGGAAGTGCT
* * *
44779849 AAAAGGGCTATGCCCCAATTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
44779874 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
44779899 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
44779919 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:44780186 original size:31 final size:31
Alignment explanation
Indices: 44780137--44780219 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
44780127 CGCTTACAGT
44780137 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
44780167 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
44780198 AAAGGCTTCAGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
44780220 TCGAGACTGA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 16 0.31
31 35 0.69
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:44782626 original size:27 final size:27
Alignment explanation
Indices: 44782582--44782650 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
44782572 GAAGTGTATT
* * *
44782582 ATACCGGTGGCTTCGCCACATATACTG
1 ATACTGGTGGCTTTGCCACATATACTA
*
44782609 TTACTGGTGGCTTTGCCACATATACTA
1 ATACTGGTGGCTTTGCCACATATACTA
*
44782636 ATACTGGTAGCTTTG
1 ATACTGGTGGCTTTG
44782651 TTGCGATACT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (27 bp):
ATACTGGTGGCTTTGCCACATATACTA
Found at i:44789791 original size:7 final size:7
Alignment explanation
Indices: 44789781--44789864 Score: 63
Period size: 7 Copynumber: 12.1 Consensus size: 7
44789771 ATTTTACTTT
44789781 TATATTA
1 TATATTA
44789788 TATATTA
1 TATATTA
*
44789795 TAAAATTA
1 T-ATATTA
*
44789803 TTTTATTA
1 -TATATTA
44789811 TAAGTATTA
1 T-A-TATTA
44789820 T-T-TT-
1 TATATTA
44789824 TA-ATTA
1 TATATTA
44789830 TATATTA
1 TATATTA
44789837 T-TATTA
1 TATATTA
44789843 CT-TATTA
1 -TATATTA
44789850 TATATTA
1 TATATTA
44789857 TATATTA
1 TATATTA
44789864 T
1 T
44789865 TTTTCTTAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
4 1 0.02
5 4 0.06
6 9 0.14
7 33 0.52
8 9 0.14
9 7 0.11
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (7 bp):
TATATTA
Found at i:44789811 original size:16 final size:17
Alignment explanation
Indices: 44789790--44789823 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
44789780 TTATATTATA
44789790 TATTATAA-AATTATTT
1 TATTATAAGAATTATTT
*
44789806 TATTATAAGTATTATTT
1 TATTATAAGAATTATTT
44789823 T
1 T
44789824 TAATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TATTATAAGAATTATTT
Found at i:44789840 original size:20 final size:21
Alignment explanation
Indices: 44789745--44789866 Score: 85
Period size: 20 Copynumber: 5.9 Consensus size: 21
44789735 ATTCCATATA
* *
44789745 TATATATTATTATTCGTTTATT
1 TATATATTATTATT-ATTTAAT
* *
44789767 TCTA-ATT-TTACT-TTTATAT
1 TATATATTATTATTATTTA-AT
* *
44789786 TATATATTATAAAATTATTTTAT
1 TATATATTAT--TATTATTTAAT
*
44789809 TATA-AGTATTATT-TTTAAT
1 TATATATTATTATTATTTAAT
*
44789828 TATATATTATTATTACTT-AT
1 TATATATTATTATTATTTAAT
44789848 TATATATTATATATTATTT
1 TATATATTAT-TATTATTT
44789867 TTCTTAAATT
Statistics
Matches: 78, Mismatches: 13, Indels: 19
0.71 0.12 0.17
Matches are distributed among these distances:
18 4 0.05
19 13 0.17
20 30 0.38
21 13 0.17
22 7 0.09
23 8 0.10
24 3 0.04
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (21 bp):
TATATATTATTATTATTTAAT
Found at i:44789864 original size:17 final size:17
Alignment explanation
Indices: 44789781--44789865 Score: 63
Period size: 17 Copynumber: 4.9 Consensus size: 17
44789771 ATTTTACTTT
44789781 TATATTATATATTA-TA
1 TATATTATATATTATTA
*
44789797 -AAATTAT-T-TTATTA
1 TATATTATATATTATTA
*
44789811 TAAGTATTAT-TTTTAATTA
1 T-A-TATTATATATT-ATTA
44789830 TATATTATTATTACTTATTA
1 TATATTA-TA-TA-TTATTA
44789850 TATATTATATATTATT
1 TATATTATATATTATT
44789866 TTTCTTAAAT
Statistics
Matches: 56, Mismatches: 3, Indels: 19
0.72 0.04 0.24
Matches are distributed among these distances:
13 3 0.05
14 3 0.05
15 6 0.11
16 1 0.02
17 16 0.29
18 6 0.11
19 7 0.12
20 12 0.21
21 2 0.04
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (17 bp):
TATATTATATATTATTA
Found at i:44789894 original size:22 final size:21
Alignment explanation
Indices: 44789850--44789986 Score: 77
Period size: 22 Copynumber: 6.2 Consensus size: 21
44789840 TTACTTATTA
44789850 TATATTATATATTATT--TTTCT
1 TATATTAT-TATT-TTAATTTCT
*
44789871 TAAATTATTATTTTACATTTCT
1 TATATTATTATTTTA-ATTTCT
* *
44789893 TATATATATTATTATAATTTCA
1 TATAT-TATTATTTTAATTTCT
*
44789915 TATATTA-TATTTATGAATTACT
1 TATATTATTATTT-T-AATTTCT
* *
44789937 TATA-TATATATTGTTACTTCATAT
1 TATATTAT-TATT-TTAATT--TCT
*
44789961 TATATCTATTATTTT-TTTTCT
1 TATAT-TATTATTTTAATTTCT
44789982 TATAT
1 TATAT
44789987 GTTCATATTA
Statistics
Matches: 91, Mismatches: 12, Indels: 26
0.71 0.09 0.20
Matches are distributed among these distances:
19 2 0.02
20 8 0.09
21 19 0.21
22 31 0.34
23 16 0.18
24 8 0.09
25 4 0.04
26 3 0.03
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.60
Consensus pattern (21 bp):
TATATTATTATTTTAATTTCT
Found at i:44789922 original size:44 final size:44
Alignment explanation
Indices: 44789847--44789947 Score: 109
Period size: 44 Copynumber: 2.3 Consensus size: 44
44789837 TTATTACTTA
* * *
44789847 TTATATATTATATATTATTTTTCTTAAATTATTATTT-T-ACATTTC
1 TTATATA-TATATATTATATTTCATAAATTA-TATTTATGA-ATTAC
*
44789892 TTATATATAT-TATTATAATTTCATATATTATATTTATGAATTAC
1 TTATATATATATATTAT-ATTTCATAAATTATATTTATGAATTAC
44789936 TTATATATATAT
1 TTATATATATAT
44789948 TGTTACTTCA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
43 11 0.23
44 28 0.58
45 9 0.19
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.58
Consensus pattern (44 bp):
TTATATATATATATTATATTTCATAAATTATATTTATGAATTAC
Found at i:44790626 original size:16 final size:17
Alignment explanation
Indices: 44790605--44790638 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
44790595 ATTTTTTTTG
*
44790605 CTTTATAT-GTATTATT
1 CTTTATATCGTAGTATT
44790621 CTTTATATCGTAGTATT
1 CTTTATATCGTAGTATT
44790638 C
1 C
44790639 ATTTTTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.56
Consensus pattern (17 bp):
CTTTATATCGTAGTATT
Found at i:44794022 original size:19 final size:19
Alignment explanation
Indices: 44793998--44794037 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
44793988 GATGCCTTTG
*
44793998 TTACATTCATA-CATTTGCA
1 TTACA-TCATATCATATGCA
44794017 TTACATCATATCATATGCA
1 TTACATCATATCATATGCA
44794036 TT
1 TT
44794038 CAAGGTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.42
Consensus pattern (19 bp):
TTACATCATATCATATGCA
Found at i:44799541 original size:43 final size:43
Alignment explanation
Indices: 44799491--44799602 Score: 152
Period size: 43 Copynumber: 2.6 Consensus size: 43
44799481 CCTAGATATC
* * *
44799491 GTCTTACATGTAATCATATATCGATGTCACTGTCCTAGACAGG
1 GTCTTACATGTAATCACATATCGATGTCAATGTCCCAGACAGG
* * * *
44799534 GTCTTACATGAAATCACCTAACGATGTCAATGTCCCAGACATG
1 GTCTTACATGTAATCACATATCGATGTCAATGTCCCAGACAGG
*
44799577 GTCTTACATGTAATCACATCTCGATG
1 GTCTTACATGTAATCACATATCGATG
44799603 ATCCTATTAT
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.30
Consensus pattern (43 bp):
GTCTTACATGTAATCACATATCGATGTCAATGTCCCAGACAGG
Found at i:44801415 original size:34 final size:34
Alignment explanation
Indices: 44801372--44801437 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
44801362 ATGAGGAGTC
44801372 AGGTCGTGTGGCATGAACCCCATTATCTCAAGTT
1 AGGTCGTGTGGCATGAACCCCATTATCTCAAGTT
*
44801406 AGGTCGTGTGGCATGAACCCTATTATCTCAAG
1 AGGTCGTGTGGCATGAACCCCATTATCTCAAG
44801438 ACATCTTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (34 bp):
AGGTCGTGTGGCATGAACCCCATTATCTCAAGTT
Found at i:44804566 original size:315 final size:320
Alignment explanation
Indices: 44803977--44804604 Score: 1196
Period size: 315 Copynumber: 2.0 Consensus size: 320
44803967 ATAATGGTCT
44803977 AAGCCTCATAAGCAGAATCACACTTGGAGATTGGCCTAAATTCCTAAGGATCTACATCATTGAAG
1 AAGCCTCATAAG-AGAATCACACTTGGAGATTGGCCTAAATTCCTAAGGATCTACATCATTGAAG
44804042 ATAGCATCCAAGGCCTTTAAGTTGTAACTAGATGTTTTATCTTCATTTAGTGTGTAGGTGGTTTA
65 ATAGCATCCAAGGCCTTTAAGTTGTAACTAGATGTTTTATCTTCATTTAGTGTGTAGGTGGTTTA
44804107 AGGTTTGATGCTTCTAACTCCATTAGTTTCTTTAGTAGGTGGCTCCCAACCTGATAAAACAACCT
130 AGGTTTGATGCTTCTAACTCCATTAGTTTCTTTAGTAGGTGGCTCCCAACCTGATAAAACAACCT
44804172 TCTAAAACTTCTCATCAATTGGCTTTATAAGGAGTCCCATATGTTCCTTCGAACAAGTTTAATTC
195 TCTAAAACTTCTCATCAATTGGCTTTATAAGGAGTCCCATATGTTCCTTCGAACAAGTTTAATTC
44804237 AATCCATCGAGCATGGGGTCTCAAGATTGATGTACATTGTAACACCCCGTAGGAGGAGATG
260 AATCCATCGAGCATGGGGTCTCAAGATTGATGTACATTGTAACACCCCGTAGGAGGAGATG
44804298 AAGCCTCAT-AG-GAATCACACTTGGAGATTGGCCTAAATTCCTAAGGATCTACATCATTGAAGA
1 AAGCCTCATAAGAGAATCACACTTGGAGATTGGCCTAAATTCCTAAGGATCTACATCATTGAAGA
44804361 TAGCATCCAAAGGCC-TT-AGTTGTAACTAGATG-TTTATCTTCATTTAGTGTGTAGGTGG-TTA
66 TAGCATCC-AAGGCCTTTAAGTTGTAACTAGATGTTTTATCTTCATTTAGTGTGTAGGTGGTTTA
44804422 AGGTTTGATGCTTCTAACTCCATTAGTTTCTTTAGTAGGTGGCTCCCAACCTGATAAAACAACCT
130 AGGTTTGATGCTTCTAACTCCATTAGTTTCTTTAGTAGGTGGCTCCCAACCTGATAAAACAACCT
44804487 TCTAAAACTTCTCATCAATTGGCTTTATAAGGAGTCCCATATGTTCCTTCGAACAAGTTTAATTC
195 TCTAAAACTTCTCATCAATTGGCTTTATAAGGAGTCCCATATGTTCCTTCGAACAAGTTTAATTC
44804552 AATCCATCGAGCATGGGGTCTCAAGATTGATGTACATTGTAACACCCCGTAGG
260 AATCCATCGAGCATGGGGTCTCAAGATTGATGTACATTGTAACACCCCGTAGG
44804605 TGACAGATGG
Statistics
Matches: 306, Mismatches: 0, Indels: 8
0.97 0.00 0.03
Matches are distributed among these distances:
315 186 0.61
316 26 0.08
317 15 0.05
318 62 0.20
319 6 0.02
320 2 0.01
321 9 0.03
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (320 bp):
AAGCCTCATAAGAGAATCACACTTGGAGATTGGCCTAAATTCCTAAGGATCTACATCATTGAAGA
TAGCATCCAAGGCCTTTAAGTTGTAACTAGATGTTTTATCTTCATTTAGTGTGTAGGTGGTTTAA
GGTTTGATGCTTCTAACTCCATTAGTTTCTTTAGTAGGTGGCTCCCAACCTGATAAAACAACCTT
CTAAAACTTCTCATCAATTGGCTTTATAAGGAGTCCCATATGTTCCTTCGAACAAGTTTAATTCA
ATCCATCGAGCATGGGGTCTCAAGATTGATGTACATTGTAACACCCCGTAGGAGGAGATG
Found at i:44809977 original size:119 final size:119
Alignment explanation
Indices: 44809792--44810236 Score: 694
Period size: 119 Copynumber: 3.7 Consensus size: 119
44809782 ACATTTATGT
* * *
44809792 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTCTACAAGAAACAAATCGAGGACATAGTAGA
1 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAAGACATAGCAGA
*
44809857 TTTGACTCTCAGACGTTCTCAAAGATAGCAGATCTAACCTTCAGATGATTATAC
66 TTTGACTCTCAGACGTTCTCAAATATAGCAGATCTAACCTTCAGATGATTATAC
* *
44809911 TGAAACAGAGCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAAGACATAGCAGA
1 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAAGACATAGCAGA
*
44809976 TTTGACTCTCAGACGTTCTCAAATATAGCAGATCTAACATTCAGATGATTATAC
66 TTTGACTCTCAGACGTTCTCAAATATAGCAGATCTAACCTTCAGATGATTATAC
* * *
44810030 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGTAGA
1 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAAGACATAGCAGA
* * *
44810095 TTTGACTCTCAAACGTTCTCAAATATAGCAGATCTAACCTTCAGATGTTTATAT
66 TTTGACTCTCAGACGTTCTCAAATATAGCAGATCTAACCTTCAGATGATTATAC
* * * * * *
44810149 TGAAGTAGATCCATGATGTTTTGGTATTCTTGTATTTACAAGGAACAAATC-AATGACATAACAG
1 TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAA-GACATAGCAG
*
44810213 ATTTGACTCTCAGATGTTCTCAAA
65 ATTTGACTCTCAGACGTTCTCAAA
44810237 CAGACTCAAG
Statistics
Matches: 300, Mismatches: 25, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
118 1 0.00
119 299 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (119 bp):
TGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGAAACAAATCGAAGACATAGCAGA
TTTGACTCTCAGACGTTCTCAAATATAGCAGATCTAACCTTCAGATGATTATAC
Found at i:44810282 original size:83 final size:83
Alignment explanation
Indices: 44810184--44810429 Score: 314
Period size: 83 Copynumber: 3.0 Consensus size: 83
44810174 ATTCTTGTAT
* * * *
44810184 TTACAAGGAACAAATCAATGACATAACAGATTTGACTCTCAGATGTTCTCAAACAGACTCAAGAT
1 TTACAAGGAACAAATCGAGGACATAACAGATATGACTCTCAAATGTTCTCAAACAGACTCAAGAT
44810249 GGTTTGACATCCTTGTGC
66 GGTTTGACATCCTTGTGC
* ** *
44810267 TTACAAGGAAGAAATCGAGGACATTGCAGATATAACTCTCAAATGTTCTCAAACAGACTCAAGAT
1 TTACAAGGAACAAATCGAGGACATAACAGATATGACTCTCAAATGTTCTCAAACAGACTCAAGAT
* *
44810332 GGTTTAAGCACCCTTGTGC
66 GGTTTGA-CATCCTTGTGC
* * * * * *
44810351 TTACAAGGAACAAGTCGAGGACCTTGA-AGAAATGACTCTCAAATGTTTTCAGACAGACTCAAGA
1 TTACAAGGAACAAATCGAGGA-CATAACAGATATGACTCTCAAATGTTCTCAAACAGACTCAAGA
*
44810415 TGATTTGACATCCTT
65 TGGTTTGACATCCTT
44810430 ACAAATAGAA
Statistics
Matches: 139, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
83 69 0.50
84 68 0.49
85 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.26
Consensus pattern (83 bp):
TTACAAGGAACAAATCGAGGACATAACAGATATGACTCTCAAATGTTCTCAAACAGACTCAAGAT
GGTTTGACATCCTTGTGC
Found at i:44810390 original size:84 final size:83
Alignment explanation
Indices: 44810184--44810416 Score: 297
Period size: 84 Copynumber: 2.8 Consensus size: 83
44810174 ATTCTTGTAT
* * * ** *
44810184 TTACAAGGAACAAATCAATGACA-TAACAGATTTGACTCTCAGATGTTCTCAAACAGACTCAAGA
1 TTACAAGGAACAAATCGAGGACATTGA-AGAAATGACTCTCAAATGTTCTCAAACAGACTCAAGA
* *
44810248 TGGTTTGACATCCTTGTGC
65 TGGTTTAACACCCTTGTGC
* * * *
44810267 TTACAAGGAAGAAATCGAGGACATTGCAGATATAACTCTCAAATGTTCTCAAACAGACTCAAGAT
1 TTACAAGGAACAAATCGAGGACATTGAAGAAATGACTCTCAAATGTTCTCAAACAGACTCAAGAT
44810332 GGTTTAAGCACCCTTGTGC
66 GGTTTAA-CACCCTTGTGC
* * * *
44810351 TTACAAGGAACAAGTCGAGGACCTTGAAGAAATGACTCTCAAATGTTTTCAGACAGACTCAAGAT
1 TTACAAGGAACAAATCGAGGACATTGAAGAAATGACTCTCAAATGTTCTCAAACAGACTCAAGAT
44810416 G
66 G
44810417 ATTTGACATC
Statistics
Matches: 130, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
83 61 0.47
84 69 0.53
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (83 bp):
TTACAAGGAACAAATCGAGGACATTGAAGAAATGACTCTCAAATGTTCTCAAACAGACTCAAGAT
GGTTTAACACCCTTGTGC
Found at i:44811936 original size:16 final size:17
Alignment explanation
Indices: 44811915--44811955 Score: 57
Period size: 16 Copynumber: 2.4 Consensus size: 17
44811905 TTATATTATA
44811915 TATTATAA-AATTATTT
1 TATTATAAGAATTATTT
*
44811931 TATTATAAGTATTATTT
1 TATTATAAGAATTATTT
44811948 TAATTATA
1 T-ATTATA
44811956 TATTATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 8 0.36
18 6 0.27
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (17 bp):
TATTATAAGAATTATTT
Found at i:44811965 original size:36 final size:31
Alignment explanation
Indices: 44811924--44812001 Score: 84
Period size: 36 Copynumber: 2.3 Consensus size: 31
44811914 ATATTATAAA
44811924 ATTATTTTATTATAAGTATTATTTTAATTATATATT
1 ATTATTTTATTAT-A-TATTATTTT-ATTA-A-ATT
*
44811960 ATTATTACTTATTATATATTATTTTCTTAAATT
1 ATTATT--TTATTATATATTATTTTATTAAATT
44811993 ATTATTTTA
1 ATTATTTTA
44812002 CATCTCTTAG
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
31 3 0.08
33 9 0.23
34 1 0.03
35 3 0.08
36 15 0.38
37 1 0.03
38 7 0.18
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.62
Consensus pattern (31 bp):
ATTATTTTATTATATATTATTTTATTAAATT
Found at i:44811973 original size:20 final size:18
Alignment explanation
Indices: 44811924--44811982 Score: 75
Period size: 20 Copynumber: 3.2 Consensus size: 18
44811914 ATATTATAAA
*
44811924 ATTATTTTATTATA-AGT
1 ATTATTTTATTATATATT
44811941 ATTATTTTAATTATATATT
1 ATTATTTT-ATTATATATT
44811960 ATTATTACTTATTATATATT
1 ATTATT--TTATTATATATT
44811980 ATT
1 ATT
44811983 TTCTTAAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
17 8 0.22
18 6 0.16
19 8 0.22
20 13 0.35
21 2 0.05
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (18 bp):
ATTATTTTATTATATATT
Found at i:44811993 original size:20 final size:21
Alignment explanation
Indices: 44811909--44811998 Score: 68
Period size: 20 Copynumber: 4.5 Consensus size: 21
44811899 TTACTTTTAT
* * *
44811909 ATTATATATTATAAAATTATTTT
1 ATTATATATTAT--TATTACTTA
*
44811932 ATTATA-AGTATTATT--TTA
1 ATTATATATTATTATTACTTA
44811950 ATTATATATTATTATTACTT-
1 ATTATATATTATTATTACTTA
44811970 ATTATATATTATT-TT-CTTAA
1 ATTATATATTATTATTACTT-A
44811990 ATTAT-TATT
1 ATTATATATT
44811999 TTACATCTCT
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
18 11 0.19
19 14 0.24
20 21 0.36
21 2 0.03
22 4 0.07
23 6 0.10
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.59
Consensus pattern (21 bp):
ATTATATATTATTATTACTTA
Found at i:44811998 original size:3 final size:3
Alignment explanation
Indices: 44811924--44811982 Score: 50
Period size: 3 Copynumber: 19.0 Consensus size: 3
44811914 ATATTATAAA
* *
44811924 ATT ATT -TT ATT ATA AGT ATT ATT -TT AATT ATAT ATT ATT ATT ACTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT AT-T ATT ATT ATT A-TT
44811970 ATT ATAT ATT ATT
1 ATT AT-T ATT ATT
44811983 TTCTTAAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
2 4 0.09
3 31 0.67
4 11 0.24
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:44812060 original size:44 final size:43
Alignment explanation
Indices: 44811949--44812062 Score: 116
Period size: 44 Copynumber: 2.7 Consensus size: 43
44811939 GTATTATTTT
*
44811949 AATTATATATTATT-ATTACTTAT-TATA-TATTATTTTCTTA
1 AATTATATATTATTAATTACTTATATATATTATTATTTTCATA
*
44811989 AATTAT-TATT-TTACATCT-CTTAGATATATTATTATATTTTCATA
1 AATTATATATTATTA-AT-TACTTATATATATTA-T-TATTTTCATA
*
44812033 TATTATAT-TTATTAATTACTTATATATATT
1 AATTATATATTATTAATTACTTATATATATT
44812063 GTTACTTCAT
Statistics
Matches: 60, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
38 2 0.03
39 4 0.07
40 12 0.20
41 5 0.08
42 2 0.03
43 2 0.03
44 29 0.48
45 4 0.07
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.58
Consensus pattern (43 bp):
AATTATATATTATTAATTACTTATATATATTATTATTTTCATA
Found at i:44812741 original size:16 final size:17
Alignment explanation
Indices: 44812720--44812753 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
44812710 TTTTTTTTTG
*
44812720 CTTTATAT-GTATTATT
1 CTTTATATCGTAGTATT
44812736 CTTTATATCGTAGTATT
1 CTTTATATCGTAGTATT
44812753 C
1 C
44812754 ATTTTTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.24, C:0.12, G:0.09, T:0.56
Consensus pattern (17 bp):
CTTTATATCGTAGTATT
Found at i:44816138 original size:19 final size:19
Alignment explanation
Indices: 44816114--44816153 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
44816104 GATGCCTTTG
*
44816114 TTACATTCATA-CATTTGCA
1 TTACA-TCATATCATATGCA
44816133 TTACATCATATCATATGCA
1 TTACATCATATCATATGCA
44816152 TT
1 TT
44816154 CAAGGTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.42
Consensus pattern (19 bp):
TTACATCATATCATATGCA
Found at i:44818343 original size:40 final size:41
Alignment explanation
Indices: 44818258--44818353 Score: 117
Period size: 40 Copynumber: 2.4 Consensus size: 41
44818248 AAGTCGGTAT
* **
44818258 CGCACACTTAGTGCC-TTATATAGCCGAAGCTATGCCTACT
1 CGCACACTTAGTGCCATTATATAGCCGAAGCTATGACTAAA
* *
44818298 CGCACACTTAGTGCCATT-TATAGCTGAAGCTAT-ATTAAA
1 CGCACACTTAGTGCCATTATATAGCCGAAGCTATGACTAAA
44818337 CAGCACACTTAGTGCCA
1 C-GCACACTTAGTGCCA
44818354 ATCATAGTCA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 3 0.06
40 44 0.90
41 2 0.04
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (41 bp):
CGCACACTTAGTGCCATTATATAGCCGAAGCTATGACTAAA
Found at i:44823978 original size:170 final size:170
Alignment explanation
Indices: 44823690--44824026 Score: 566
Period size: 170 Copynumber: 2.0 Consensus size: 170
44823680 AGACTCCCCC
* * *
44823690 TAATGGCAACATCAGATTATATCTTTGAGTCGACACATTTCAATCTTGTTTCATAGTCTTTCAAA
1 TAATGCCAACATCAGATTATATCTTTGAGTCAACACATTCCAATCTTGTTTCATAGTCTTTCAAA
* * *
44823755 TGTTGAAGTTGGCAATTCCTTGGTAAAAGGATCTACTAAATTATCACTAGAACGAATTTTTTGAA
66 TGTTAAAGTTGGCAATGCCTTGGTAAAAAGATCTACTAAATTATCACTAGAACGAATTTTTTGAA
*
44823820 CTTCTATGTCACCTTTCTTCTCAAGATCATGAGTGAACCT
131 CTTCTATGTCACCTTCCTTCTCAAGATCATGAGTGAACCT
* *
44823860 TAATGCCAACATCAGATTATATCTTTGATTCAACACATTCCAATCTTGTTTCGTAGTCTTTCAAA
1 TAATGCCAACATCAGATTATATCTTTGAGTCAACACATTCCAATCTTGTTTCATAGTCTTTCAAA
* * *
44823925 TGTTAAAGTTGGCAATGCCTTGGTAAAAAGATTTGCTAAATTATCATTAGAACGAATTTTTTGAA
66 TGTTAAAGTTGGCAATGCCTTGGTAAAAAGATCTACTAAATTATCACTAGAACGAATTTTTTGAA
44823990 CTTCTATGTCACCTTCCTTCTCAAGATCATGAGTGAA
131 CTTCTATGTCACCTTCCTTCTCAAGATCATGAGTGAA
44824027 GAATAATTTT
Statistics
Matches: 155, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
170 155 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (170 bp):
TAATGCCAACATCAGATTATATCTTTGAGTCAACACATTCCAATCTTGTTTCATAGTCTTTCAAA
TGTTAAAGTTGGCAATGCCTTGGTAAAAAGATCTACTAAATTATCACTAGAACGAATTTTTTGAA
CTTCTATGTCACCTTCCTTCTCAAGATCATGAGTGAACCT
Found at i:44832170 original size:34 final size:33
Alignment explanation
Indices: 44832127--44832236 Score: 91
Period size: 34 Copynumber: 3.2 Consensus size: 33
44832117 TTTCATGCTC
*
44832127 TTTTTTTTACGTATTGTTTTTGAATTTTTATATA
1 TTTTTTTTACATATT-TTTTTGAATTTTTATATA
*
44832161 TTTTTTTTACAT-TTTACATTTTGAATTTTTTTGAATA
1 TTTTTTTTACATATTT---TTTTGAATTTTTAT--ATA
*
44832198 TTTTATGATTT--TTATTTTTTTGAATTTTTATATA
1 TTTT-T--TTTACATATTTTTTTGAATTTTTATATA
44832232 TTTTT
1 TTTTT
44832237 ATTTTCTTTT
Statistics
Matches: 63, Mismatches: 4, Indels: 19
0.73 0.05 0.22
Matches are distributed among these distances:
32 1 0.02
33 3 0.05
34 18 0.29
35 13 0.21
36 13 0.21
37 7 0.11
38 2 0.03
39 3 0.05
40 3 0.05
ACGTcount: A:0.22, C:0.03, G:0.06, T:0.69
Consensus pattern (33 bp):
TTTTTTTTACATATTTTTTTGAATTTTTATATA
Found at i:44832200 original size:26 final size:26
Alignment explanation
Indices: 44832171--44832228 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
44832161 TTTTTTTTAC
44832171 ATTTTA-CATTTTGAATTTTTTTGAAT
1 ATTTTATCATTTT-AATTTTTTTGAAT
* *
44832197 ATTTTATGATTTTTATTTTTTTGAAT
1 ATTTTATCATTTTAATTTTTTTGAAT
44832223 -TTTTAT
1 ATTTTAT
44832229 ATATTTTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 6 0.21
26 18 0.62
27 5 0.17
ACGTcount: A:0.24, C:0.02, G:0.07, T:0.67
Consensus pattern (26 bp):
ATTTTATCATTTTAATTTTTTTGAAT
Found at i:44832234 original size:26 final size:26
Alignment explanation
Indices: 44832185--44832241 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
44832175 TACATTTTGA
44832185 ATTTTTTTGAATATTTTATGATTTTT
1 ATTTTTTTGAATATTTTATGATTTTT
*
44832211 ATTTTTTTGAAT-TTTTATATATTTTT
1 ATTTTTTTGAATATTTTAT-GATTTTT
44832237 ATTTT
1 ATTTT
44832242 CTTTTATGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 6 0.21
26 23 0.79
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (26 bp):
ATTTTTTTGAATATTTTATGATTTTT
Found at i:44832240 original size:16 final size:17
Alignment explanation
Indices: 44832195--44832241 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 17
44832185 ATTTTTTTGA
44832195 ATATTTTATGATTTTTAT
1 ATATTTT-TGATTTTTAT
44832213 -T-TTTTTGAATTTTTAT
1 ATATTTTTG-ATTTTTAT
44832229 ATATTTTT-ATTTT
1 ATATTTTTGATTTT
44832242 CTTTTATGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
15 2 0.08
16 17 0.65
17 2 0.08
18 5 0.19
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.72
Consensus pattern (17 bp):
ATATTTTTGATTTTTAT
Found at i:44832246 original size:21 final size:21
Alignment explanation
Indices: 44832223--44832262 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
44832213 TTTTTTGAAT
44832223 TTTTAT-ATATTTT-TATTTTC
1 TTTTATGA-ATTTTGTATTTTC
44832243 TTTTATGAATTTTGTATTTT
1 TTTTATGAATTTTGTATTTT
44832263 TTAAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.72
Consensus pattern (21 bp):
TTTTATGAATTTTGTATTTTC
Found at i:44835824 original size:26 final size:23
Alignment explanation
Indices: 44835794--44835841 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
44835784 ACTGCATATT
44835794 ATGCACATGTATATTAATATTATGTC
1 ATGCACAT-TATA-T-ATATTATGTC
*
44835820 ATGCATATTATATATATTATGT
1 ATGCACATTATATATATTATGT
44835842 ACATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
24 1 0.05
25 4 0.19
26 7 0.33
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.46
Consensus pattern (23 bp):
ATGCACATTATATATATTATGTC
Found at i:44835827 original size:20 final size:22
Alignment explanation
Indices: 44835789--44835834 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
44835779 ATAATACTGC
*
44835789 ATATTATGCACATGTATATTA-
1 ATATTATGCACATGCATATTAT
*
44835810 ATATTATG-TCATGCATATTAT
1 ATATTATGCACATGCATATTAT
44835831 ATAT
1 ATAT
44835835 ATTATGTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.46
Consensus pattern (22 bp):
ATATTATGCACATGCATATTAT
Found at i:44836016 original size:25 final size:26
Alignment explanation
Indices: 44835983--44836037 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
44835973 TATATATATA
44835983 TTTTAATACCATATG-TATTATTATCG
1 TTTTAATACCAT-TGCTATTATTATCG
* *
44836009 TTTT-ATACTATTGCTATTATTATTG
1 TTTTAATACCATTGCTATTATTATCG
44836034 TTTT
1 TTTT
44836038 CGTCATCATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 2 0.08
25 20 0.77
26 4 0.15
ACGTcount: A:0.25, C:0.09, G:0.07, T:0.58
Consensus pattern (26 bp):
TTTTAATACCATTGCTATTATTATCG
Found at i:44837942 original size:19 final size:18
Alignment explanation
Indices: 44837919--44837976 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 18
44837909 TATATATAAA
*
44837919 ATTTTTTAAAATATTATT
1 ATTTTTTTAAATATTATT
44837937 ATTTTTTATGAAAT-TGT-TT
1 ATTTTTT-T-AAATAT-TATT
44837956 ATTTTTTTAAATATTAATT
1 ATTTTTTTAAATATT-ATT
44837975 AT
1 AT
44837977 CAATTATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 11
0.73 0.02 0.24
Matches are distributed among these distances:
17 5 0.15
18 9 0.27
19 14 0.42
20 5 0.15
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
ATTTTTTTAAATATTATT
Found at i:44841950 original size:23 final size:23
Alignment explanation
Indices: 44841920--44841990 Score: 133
Period size: 23 Copynumber: 3.1 Consensus size: 23
44841910 TGATAGGCGA
44841920 TTACTAATTAAATTATATAGGAT
1 TTACTAATTAAATTATATAGGAT
*
44841943 TTACTAATTAAATTATATAGGGT
1 TTACTAATTAAATTATATAGGAT
44841966 TTACTAATTAAATTATATAGGAT
1 TTACTAATTAAATTATATAGGAT
44841989 TT
1 TT
44841991 TTATTTGATT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.41, C:0.04, G:0.10, T:0.45
Consensus pattern (23 bp):
TTACTAATTAAATTATATAGGAT
Found at i:44854857 original size:17 final size:17
Alignment explanation
Indices: 44854798--44854857 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
44854788 TAATAAATTT
44854798 AAAATATAATATATAATAA
1 AAAATATAAT-TAT-ATAA
44854817 AAAATAT-ATT-TAT-A
1 AAAATATAATTATATAA
*
44854831 AGAATAATAATTATATAA
1 AAAAT-ATAATTATATAA
44854849 AAAATATAA
1 AAAATATAA
44854858 AATATATTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 5 0.14
15 4 0.11
16 4 0.11
17 8 0.23
18 7 0.20
19 7 0.20
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATATAATTATATAA
Found at i:44855374 original size:18 final size:18
Alignment explanation
Indices: 44855338--44855470 Score: 164
Period size: 18 Copynumber: 7.5 Consensus size: 18
44855328 AATCATATCT
*
44855338 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
44855357 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
* *
44855375 TCTAAGATTG-TATTATA
1 TCTAAGATTGCAATCATA
44855392 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
* * *
44855410 TTTAAGATT-CTATTATA
1 TCTAAGATTGCAATCATA
44855427 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
* *
44855445 TTTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
44855462 TCTAAGATT
1 TCTAAGATT
44855471 ACATATCATT
Statistics
Matches: 98, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
17 43 0.44
18 44 0.45
19 11 0.11
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:44855400 original size:35 final size:35
Alignment explanation
Indices: 44855338--44855479 Score: 212
Period size: 35 Copynumber: 4.0 Consensus size: 35
44855328 AATCATATCT
44855338 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTAT-T-ATATCTAAGATTGCAATCATA
44855375 TCTAAGATTGTATTATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATTATATCTAAGATTGCAATCATA
* *
44855410 TTTAAGATTCTATTATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATTATATCTAAGATTGCAATCATA
* * *
44855445 TTTAAGATTGTATCATATCTAAGATTACATATCAT
1 TCTAAGATTGTATTATATCTAAGATTGCA-ATCAT
44855480 TGAAGATTAT
Statistics
Matches: 99, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
35 80 0.81
36 6 0.06
37 13 0.13
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (35 bp):
TCTAAGATTGTATTATATCTAAGATTGCAATCATA
Found at i:44856079 original size:83 final size:83
Alignment explanation
Indices: 44855865--44856217 Score: 589
Period size: 83 Copynumber: 4.2 Consensus size: 83
44855855 TTCAATTTGT
* * * *
44855865 AAGGATGTCAAATCATCTTGAGTCTTTTTGAGAACATTTGAGAATCATATCTGCAAGGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
*
44855930 CTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* * *
44855948 AAGGATGCCTAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATGTCTGCAGGGTCCTCA
1 AAGGATGCC-AAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCG
44856013 ATTTGTTCCTTGTAAGCAC
65 ATTTGTTCCTTGTAAGCAC
*
44856032 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
44856097 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
* * *
44856115 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTTATATCTACAATGTCCTCGA
1 AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
44856180 TTTGTTCCTTGTAAGCAC
66 TTTGTTCCTTGTAAGCAC
44856198 AAGGATGCCAAACCATCTTG
1 AAGGATGCCAAACCATCTTG
44856218 GATCTACTTC
Statistics
Matches: 255, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
83 179 0.70
84 76 0.30
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (83 bp):
AAGGATGCCAAACCATCTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAAGGTCCTCGA
TTTGTTCCTTGTAAGCAC
Found at i:44856735 original size:119 final size:119
Alignment explanation
Indices: 44856141--44856737 Score: 1005
Period size: 119 Copynumber: 5.0 Consensus size: 119
44856131 CTTGAGTCTG
* * * * * * *
44856141 TTTGAGAACATTTGAGAGTTATATCTACAATGTCCTCGATTTGTTCCTTGTAAGCACAAGGATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
* *
44856206 CAAACCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
* * *
44856260 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
* * *
44856325 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
66 CAAATCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
* * *
44856379 TTTGAGAATGTCTGAGAGTCAATTCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
*
44856444 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
66 CAAATCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
44856498 TTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
44856563 CAAATCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
66 CAAATCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
* *
44856617 TTTGAGAACGTCTGAGATTCAAATCTACTATGTCCTCGATTTGTTCCTTATAAACACAAGAATGC
1 TTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
44856682 CAAATCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
66 CAAATCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
44856736 TT
1 TT
44856738 CGATCTGTTC
Statistics
Matches: 453, Mismatches: 25, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
119 453 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTACTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATGC
CAAATCATCTTGGATCTACTTCAGTATAAACATCTGAAGGTTAGATCTGCTATC
Found at i:44856774 original size:44 final size:44
Alignment explanation
Indices: 44856726--44856905 Score: 186
Period size: 44 Copynumber: 4.1 Consensus size: 44
44856716 TGAAGGTTAG
44856726 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
* *
44856770 ATCTGCTATCTTC-AACTTGTTCCCTATAAACATAGGGATGCC--
1 ATCTGCTATCTTCGATC-TGTTCCCTATAAACACAGGGATGCCAA
** * * * * * * *
44856812 ATGCTGAAATCTTCAATCTGCTTCGCTGTAAGCACAGGAATGTCAG
1 AT-CTGCTATCTTCGATCTG-TTCCCTATAAACACAGGGATGCCAA
* * *
44856858 ATCTACTATCTTTGATCTGTTCCCTATAAACATAGGGATGCCAA
1 ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
44856902 ATCT
1 ATCT
44856906 TTTTTCTTTG
Statistics
Matches: 107, Mismatches: 23, Indels: 12
0.75 0.16 0.08
Matches are distributed among these distances:
42 2 0.02
43 13 0.12
44 78 0.73
45 12 0.11
46 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (44 bp):
ATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAA
Found at i:44856848 original size:88 final size:87
Alignment explanation
Indices: 44856733--44856900 Score: 221
Period size: 88 Copynumber: 1.9 Consensus size: 87
44856723 TAGATCTGCT
* * *
44856733 ATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCTATCTTCAA-CTTGTTCCCTAT
1 ATCTTCAATCTGTTCCCTATAAACACAGGAATGCCAAATCTACTATCTTCAATC-TGTTCCCTAT
44856797 AAACATAGGGATGCCATGCTGAA
65 AAACATAGGGATGCCATGCTGAA
* * * * * **
44856820 ATCTTCAATCTGCTTCGCTGTAAGCACAGGAATGTCAGATCTACTATCTTTGATCTGTTCCCTAT
1 ATCTTCAATCTG-TTCCCTATAAACACAGGAATGCCAAATCTACTATCTTCAATCTGTTCCCTAT
44856885 AAACATAGGGATGCCA
65 AAACATAGGGATGCCA
44856901 AATCTTTTTT
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
87 11 0.16
88 57 0.83
89 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (87 bp):
ATCTTCAATCTGTTCCCTATAAACACAGGAATGCCAAATCTACTATCTTCAATCTGTTCCCTATA
AACATAGGGATGCCATGCTGAA
Found at i:44857796 original size:20 final size:20
Alignment explanation
Indices: 44857773--44857820 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
44857763 TGGCCTCTCC
44857773 ATTTTTTCTTT-TTTCTCTTT
1 ATTTTTT-TTTCTTTCTCTTT
*
44857793 ATTTTTTTTTCTTTTTCTTT
1 ATTTTTTTTTCTTTCTCTTT
44857813 -TTTTTTTT
1 ATTTTTTTT
44857821 GAAATAGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.04, C:0.10, G:0.00, T:0.85
Consensus pattern (20 bp):
ATTTTTTTTTCTTTCTCTTT
Found at i:44857802 original size:16 final size:16
Alignment explanation
Indices: 44857781--44857818 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
44857771 CCATTTTTTC
44857781 TTTTTTCTCTTTATTT
1 TTTTTTCTCTTTATTT
* *
44857797 TTTTTTCTTTTTCTTT
1 TTTTTTCTCTTTATTT
44857813 TTTTTT
1 TTTTTT
44857819 TTGAAATAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.87
Consensus pattern (16 bp):
TTTTTTCTCTTTATTT
Found at i:44863645 original size:37 final size:36
Alignment explanation
Indices: 44863585--44863664 Score: 88
Period size: 37 Copynumber: 2.2 Consensus size: 36
44863575 ATATATAATA
* *
44863585 AAAATATATTTATAAGAATAATAATTATATAAAAAAT
1 AAAATATATTGATAAGAAAAATAA-TATATAAAAAAT
* * * *
44863622 AAAATATATTGGTTAGAAAAATAATGTATAAAATAT
1 AAAATATATTGATAAGAAAAATAATATATAAAAAAT
*
44863658 CAAATAT
1 AAAATAT
44863665 GTAAAATAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
36 16 0.44
37 20 0.56
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.34
Consensus pattern (36 bp):
AAAATATATTGATAAGAAAAATAATATATAAAAAAT
Found at i:44864139 original size:18 final size:18
Alignment explanation
Indices: 44864103--44864235 Score: 182
Period size: 18 Copynumber: 7.5 Consensus size: 18
44864093 AATCATATCT
*
44864103 TCTAAGATTGTATATCATA
1 TCTAAGATTGCA-ATCATA
44864122 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
44864140 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
*
44864157 TCTAAGATTGCAATTATA
1 TCTAAGATTGCAATCATA
*
44864175 TCTAAGATT-CTATCATA
1 TCTAAGATTGCAATCATA
44864192 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
* *
44864210 TTTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
44864227 TCTAAGATT
1 TCTAAGATT
44864236 ACATATCATT
Statistics
Matches: 102, Mismatches: 10, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
17 45 0.44
18 46 0.45
19 11 0.11
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.40
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:44864161 original size:35 final size:35
Alignment explanation
Indices: 44864103--44864244 Score: 221
Period size: 35 Copynumber: 4.0 Consensus size: 35
44864093 AATCATATCT
44864103 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
*
44864140 TCTAAGATTGTATCATATCTAAGATTGCAATTATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
44864175 TCTAAGATTCTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
* *
44864210 TTTAAGATTGTATCATATCTAAGATTACATATCAT
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCAT
44864245 TGAAGATTAT
Statistics
Matches: 98, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
35 83 0.85
36 5 0.05
37 10 0.10
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.39
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:44878811 original size:14 final size:14
Alignment explanation
Indices: 44878788--44878817 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
44878778 TTGAAAATAT
44878788 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
44878802 GTTGATTTGGATTG
1 GTTGAATTGGATTG
44878816 GT
1 GT
44878818 CTCGATATAA
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:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:44891871 original size:16 final size:17
Alignment explanation
Indices: 44891840--44891873 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
44891830 CTATAAATTT
44891840 ATATTTAATTATGTTATA
1 ATATTTAA-TATGTTATA
44891858 ATATTTAA-ATGTTATA
1 ATATTTAATATGTTATA
44891874 TGCATGGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
18 8 0.50
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
ATATTTAATATGTTATA
Found at i:44914864 original size:28 final size:26
Alignment explanation
Indices: 44914813--44914867 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
44914803 TAACGCCAAG
44914813 ATAATATATATTTTAAAAATAAAATA
1 ATAATATATATTTTAAAAATAAAATA
44914839 ATAATATATATTTTAAAAATAAAA-A
1 ATAATATATATTTTAAAAATAAAATA
44914864 ATAA
1 ATAA
44914868 ACCAATAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 5 0.17
26 24 0.83
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
ATAATATATATTTTAAAAATAAAATA
Found at i:44917213 original size:93 final size:93
Alignment explanation
Indices: 44917080--44917251 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
44917070 CGCCCATAAG
* * *
44917080 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
44917145 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
44917173 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
44917238 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
44917252 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:44917248 original size:46 final size:46
Alignment explanation
Indices: 44917073--44917248 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
44917063 TGTAACCCGC
* * * *
44917073 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
44917119 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
* *
44917169 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
*
44917212 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
44917249 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:44929472 original size:27 final size:27
Alignment explanation
Indices: 44929442--44929592 Score: 171
Period size: 27 Copynumber: 5.6 Consensus size: 27
44929432 ATATTGAGTC
* * *
44929442 CGCACACTCAGTGCTATATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44929469 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
44929497 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
**
44929524 CGCACACTTAGTGCATCACAT--TCATTT
1 CGCACACTTAGTGC-T-ACATAGTCAAAT
*
44929551 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
44929578 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44929593 GTACAATTTA
Statistics
Matches: 105, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
25 4 0.04
27 75 0.71
28 23 0.22
29 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:44940109 original size:18 final size:17
Alignment explanation
Indices: 44940081--44940132 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
44940071 TTGTATAATC
*
44940081 ATTTTAAGATATTATAT
1 ATTTCAAGATATTATAT
* *
44940098 ATTTACAAGATATTTTAA
1 ATTT-CAAGATATTATAT
44940116 ATTTC-AGA-ATTATAT
1 ATTTCAAGATATTATAT
44940131 AT
1 AT
44940133 ACACGCATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 7 0.24
16 3 0.10
17 5 0.17
18 14 0.48
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (17 bp):
ATTTCAAGATATTATAT
Found at i:44940559 original size:18 final size:18
Alignment explanation
Indices: 44940536--44940573 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
44940526 ATACTCAATA
*
44940536 TAATATCAATAAAGTCAT
1 TAATATCAATAAAGCCAT
44940554 TAATATCAATAAAGCCAT
1 TAATATCAATAAAGCCAT
44940572 TA
1 TA
44940574 GAACACAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.50, C:0.13, G:0.05, T:0.32
Consensus pattern (18 bp):
TAATATCAATAAAGCCAT
Found at i:44948362 original size:48 final size:49
Alignment explanation
Indices: 44948221--44948455 Score: 222
Period size: 48 Copynumber: 5.0 Consensus size: 49
44948211 ACATTAGGGT
* *
44948221 TATGTATGATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATCGA
1 TATGTA-GATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGA
** *
44948271 TATGTA-ATTTCATGTAAGACCATAGT-T-GGGC-T---ATTGGCATCGA
1 TATGTAGATCCCATGTAAGACCAT-GTCTAGGACATGGCATTGGCATCGA
* *
44948314 TATG-AGATCCAATGTAAGACCATGTCTAGGACATGACATTGGCATCG-
1 TATGTAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGA
* * * * *
44948361 -ATCTACGATCCCACGTAAGACCATGTCTGGGACATGGCATTGGAATTGA
1 TATGTA-GATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGA
** * *
44948410 TATGTA-ATCCCATGTAAGACCAAATCCAGGATATGGCATTGGCATC
1 TATGTAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATC
44948456 CTACCATAAG
Statistics
Matches: 149, Mismatches: 24, Indels: 26
0.75 0.12 0.13
Matches are distributed among these distances:
42 3 0.02
43 29 0.19
44 3 0.02
45 1 0.01
46 3 0.02
47 4 0.03
48 94 0.63
49 2 0.01
50 10 0.07
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (49 bp):
TATGTAGATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCATCGA
Found at i:44948480 original size:38 final size:38
Alignment explanation
Indices: 44948424--44948500 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
44948414 TAATCCCATG
44948424 TAAGACCAAATCCAGGATATGGCATTGGCATCCTACCA
1 TAAGACCAAATCCAGGATATGGCATTGGCATCCTACCA
*
44948462 TAAGACCAAATCCGGGATATGGCATTGGCATCCTACCA
1 TAAGACCAAATCCAGGATATGGCATTGGCATCCTACCA
44948500 T
1 T
44948501 GTGTATGAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.22
Consensus pattern (38 bp):
TAAGACCAAATCCAGGATATGGCATTGGCATCCTACCA
Found at i:44951254 original size:26 final size:26
Alignment explanation
Indices: 44951225--44951276 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
44951215 CATGTTGTAG
44951225 TATGCTCTTGTTTAACCTTTGATATT
1 TATGCTCTTGTTTAACCTTTGATATT
44951251 TATGCTCTTGTTTAACCTTTGATATT
1 TATGCTCTTGTTTAACCTTTGATATT
44951277 GTGTATACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.15, G:0.12, T:0.54
Consensus pattern (26 bp):
TATGCTCTTGTTTAACCTTTGATATT
Found at i:44953172 original size:59 final size:60
Alignment explanation
Indices: 44953071--44953219 Score: 151
Period size: 59 Copynumber: 2.5 Consensus size: 60
44953061 AATTTACCTA
* * * * *
44953071 CATTACTGTTAGCTTGTCCATAATACTGACAGCTTTACTGCAAT-CT-GACAGTTTATATG
1 CATTACTGGTGGCTTGTCCACAATACTGATAGCTTTACTGCAATACTGGACACTTT-TATG
* ** *
44953130 CATTACTGGTGGCTTGTCCACAATACTGATAGC-TTATTTGCAATACTGGTGACTTTTTTG
1 CATTACTGGTGGCTTGTCCACAATACTGATAGCTTTA-CTGCAATACTGGACACTTTTATG
* * *
44953190 CAATATTGGTGGCTTGTCCACAATATTGAT
1 CATTACTGGTGGCTTGTCCACAATACTGAT
44953220 GTGTTATTGA
Statistics
Matches: 75, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
58 3 0.04
59 35 0.47
60 32 0.43
61 5 0.07
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (60 bp):
CATTACTGGTGGCTTGTCCACAATACTGATAGCTTTACTGCAATACTGGACACTTTTATG
Found at i:44971415 original size:21 final size:21
Alignment explanation
Indices: 44971372--44971427 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
44971362 GTGGGGGTCT
* **
44971372 ACATGCCCATGTGAAGGTTAC
1 ACATGCCCGTGTGAAGGGGAC
*
44971393 ACATGCCCGTGTGGAGGGGAC
1 ACATGCCCGTGTGAAGGGGAC
* *
44971414 ACACGCCTGTGTGA
1 ACATGCCCGTGTGA
44971428 CAACCTATGT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.23, C:0.25, G:0.32, T:0.20
Consensus pattern (21 bp):
ACATGCCCGTGTGAAGGGGAC
Found at i:44975141 original size:15 final size:15
Alignment explanation
Indices: 44975109--44975137 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
44975099 ATTTTCTGTG
44975109 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
44975124 TTTATT-TGTGTGAA
1 TTTATTATGTGTGAA
44975138 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:44976376 original size:41 final size:41
Alignment explanation
Indices: 44976275--44976395 Score: 111
Period size: 41 Copynumber: 2.9 Consensus size: 41
44976265 ATATGTTTTC
* * *
44976275 TCGTGTAAGACCAC-GTCTGGGACGTTGGCATCGATATATGAT
1 TCGTGTAAGACC-CTGTCTAGGAC-ATGGCATCGATATATAAT
* * * *
44976317 TATGTGGAAGACCATGTCTAGGACATCGGCATCG-TATTTAAT
1 T-CGTGTAAGACCCTGTCTAGGACAT-GGCATCGATATATAAT
*
44976359 TCGTGTAAGACCCTGTCTAGGACAGTGGCATCAATAT
1 TCGTGTAAGACCCTGTCTAGGACA-TGGCATCGATAT
44976396 GTGATTGTAT
Statistics
Matches: 63, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
41 26 0.41
42 13 0.21
43 24 0.38
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (41 bp):
TCGTGTAAGACCCTGTCTAGGACATGGCATCGATATATAAT
Found at i:44983170 original size:15 final size:15
Alignment explanation
Indices: 44983138--44983166 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
44983128 TATTTTTTTG
44983138 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
44983153 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
44983167 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Done.