Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 329 of 373
Found at i:110490045 original size:21 final size:21
Alignment explanation
Indices: 110490021--110490063 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
110490011 GGTAAGTTTT
* *
110490021 TTTTCTCTTTTTTTTTTTATA
1 TTTTCTCTTATTTTTTATATA
* *
110490042 TTTTTTGTTATTTTTTATATA
1 TTTTCTCTTATTTTTTATATA
110490063 T
1 T
110490064 ATGTATATAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTTCTCTTATTTTTTATATA
Found at i:110495440 original size:5 final size:5
Alignment explanation
Indices: 110495425--110495472 Score: 87
Period size: 5 Copynumber: 9.6 Consensus size: 5
110495415 ATGTTGGTTA
*
110495425 ATATT AAATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATA
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATA
110495473 ATGAAATAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:110495812 original size:9 final size:9
Alignment explanation
Indices: 110495798--110495831 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
110495788 AAATAGATAT
110495798 TTATTATAA
1 TTATTATAA
110495807 TTATTATAA
1 TTATTATAA
*
110495816 TGTATTATTA
1 T-TATTATAA
110495826 TTATTA
1 TTATTA
110495832 ACAAATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (9 bp):
TTATTATAA
Found at i:110495922 original size:4 final size:4
Alignment explanation
Indices: 110495913--110495947 Score: 52
Period size: 4 Copynumber: 8.2 Consensus size: 4
110495903 AAAACAGGGG
110495913 AGAA AGAA AGAA AGGAAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA A-G-AA AGAA AGAA AGAA AGAA A
110495948 AGGGAGAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 24 0.83
5 2 0.07
6 3 0.10
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:110495934 original size:18 final size:17
Alignment explanation
Indices: 110495855--110495949 Score: 66
Period size: 18 Copynumber: 5.2 Consensus size: 17
110495845 TATAAGATAT
110495855 AAAGTAAAGAAAGAAATGAA
1 AAAG-AAAGAAAGAAA-G-A
* *
110495875 AAAGAAGGAAAAAACAGA
1 AAAGAAAGAAAGAA-AGA
* *
110495893 ATAGAAACGAAA-AACAGG
1 AAAGAAA-GAAAGAA-AGA
**
110495911 GGAGAAAGAAAGAAAGGA
1 AAAGAAAGAAAGAAA-GA
110495929 AAAGAAAGAAAGAAAGA
1 AAAGAAAGAAAGAAAGA
110495946 AAAG
1 AAAG
110495950 GGAGAAATAG
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
17 11 0.18
18 32 0.52
19 13 0.21
20 5 0.08
ACGTcount: A:0.68, C:0.03, G:0.25, T:0.03
Consensus pattern (17 bp):
AAAGAAAGAAAGAAAGA
Found at i:110496355 original size:12 final size:11
Alignment explanation
Indices: 110496335--110496386 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
110496325 GTTAAGATTA
*
110496335 AAATTGAAATT
1 AAATAGAAATT
110496346 AAAGTAGAAATT
1 AAA-TAGAAATT
*
110496358 GAATAGAAATT
1 AAATAGAAATT
*
110496369 GAATAAGAAATTT
1 AAAT-AGAAA-TT
110496382 AAATA
1 AAATA
110496387 TTAAATGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
11 15 0.43
12 15 0.43
13 5 0.14
ACGTcount: A:0.58, C:0.00, G:0.13, T:0.29
Consensus pattern (11 bp):
AAATAGAAATT
Found at i:110496366 original size:11 final size:11
Alignment explanation
Indices: 110496340--110496380 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
110496330 GATTAAAATT
*
110496340 GAAATTAAAGTA
1 GAAATTGAA-TA
110496352 GAAATTGAATA
1 GAAATTGAATA
110496363 GAAATTGAATAA
1 GAAATTGAAT-A
110496375 GAAATT
1 GAAATT
110496381 TAAATATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 12 0.44
12 15 0.56
ACGTcount: A:0.56, C:0.00, G:0.17, T:0.27
Consensus pattern (11 bp):
GAAATTGAATA
Found at i:110497145 original size:44 final size:44
Alignment explanation
Indices: 110497060--110497151 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 44
110497050 TGTTCAGGGA
* *
110497060 TACTTCGACCTTGAGTCGATGAGGCACTATAAGTGTTGTACTGT
1 TACTTCGACCTTAAGTCGATGAGGCACTATAAGTGTCGTACTGT
* **
110497104 TACTTCGACTTTAAGTCGATGAGGCACCT-TGTGTGTCGTACTGT
1 TACTTCGACCTTAAGTCGATGAGGCA-CTATAAGTGTCGTACTGT
110497148 TACT
1 TACT
110497152 ATTACTTCGG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 40 0.95
45 2 0.05
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.36
Consensus pattern (44 bp):
TACTTCGACCTTAAGTCGATGAGGCACTATAAGTGTCGTACTGT
Found at i:110497219 original size:47 final size:46
Alignment explanation
Indices: 110497140--110497240 Score: 114
Period size: 47 Copynumber: 2.2 Consensus size: 46
110497130 CCTTGTGTGT
* *
110497140 CGTACTGTTACTATTACTTCGGATTTATCCGATGAGATACTGAGTAC
1 CGTACTGTTACTATTACTTCGGA-TTAGCCGATGAGACACTGAGTAC
* * **
110497187 CGTACTGTTACTGTTTACTTCGGCA-TAGCCGATGAGGCACTGAGTGT
1 CGTACTGTTACT-ATTACTTCGG-ATTAGCCGATGAGACACTGAGTAC
110497234 CGTACTG
1 CGTACTG
110497241 GTGTGTTCGT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 36 0.78
48 9 0.20
49 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.34
Consensus pattern (46 bp):
CGTACTGTTACTATTACTTCGGATTAGCCGATGAGACACTGAGTAC
Found at i:110497384 original size:48 final size:48
Alignment explanation
Indices: 110497330--110497432 Score: 125
Period size: 48 Copynumber: 2.1 Consensus size: 48
110497320 TCTCTAATGG
* **
110497330 TTGACTGTTACTAAATAATAAAGATCAATTGATCGCTATTGAAAAATA
1 TTGACTGTTACTAAATAATAAAGATAAATTGATCAATATTGAAAAATA
* ** ** *
110497378 TTGACTGTTACTGAATGGTATTGATAAATTGATTAATATTGAAAAATA
1 TTGACTGTTACTAAATAATAAAGATAAATTGATCAATATTGAAAAATA
110497426 TTGACTG
1 TTGACTG
110497433 ATATTGAGCT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.37
Consensus pattern (48 bp):
TTGACTGTTACTAAATAATAAAGATAAATTGATCAATATTGAAAAATA
Found at i:110499487 original size:24 final size:25
Alignment explanation
Indices: 110499460--110499506 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
110499450 AAACATTAAT
*
110499460 TATAATATTAAA-ATAAATATAAGG
1 TATAAGATTAAATATAAATATAAGG
*
110499484 TATAAGATTAAATATAGATATAA
1 TATAAGATTAAATATAAATATAA
110499507 TTTCTCATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (25 bp):
TATAAGATTAAATATAAATATAAGG
Found at i:110499984 original size:30 final size:30
Alignment explanation
Indices: 110499948--110500010 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
110499938 TTTGTGACTA
*
110499948 GCCCTTCTAAATGGCCTCACACGCCCGTGT
1 GCCCTTCGAAATGGCCTCACACGCCCGTGT
110499978 GCCCTTCGAAATGGCCTCACACGCCCGTGT
1 GCCCTTCGAAATGGCCTCACACGCCCGTGT
110500008 GCC
1 GCC
110500011 AGGTCGTGTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.16, C:0.41, G:0.22, T:0.21
Consensus pattern (30 bp):
GCCCTTCGAAATGGCCTCACACGCCCGTGT
Found at i:110504697 original size:22 final size:22
Alignment explanation
Indices: 110504669--110504712 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
110504659 TTTTGAACCA
110504669 TTACCATTTCGTACCAAATCCC
1 TTACCATTTCGTACCAAATCCC
*
110504691 TTACCATTTCGTACCAATTCCC
1 TTACCATTTCGTACCAAATCCC
110504713 AAATACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.36, G:0.05, T:0.34
Consensus pattern (22 bp):
TTACCATTTCGTACCAAATCCC
Found at i:110509314 original size:21 final size:22
Alignment explanation
Indices: 110509263--110509316 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
110509253 TGCAGGGCTC
*
110509263 ACACACCCGTGTGGTCCAAGGG
1 ACACACCCGTGTGGACCAAGGG
** **
110509285 ACATGCCCGTGT-GACCCTGGG
1 ACACACCCGTGTGGACCAAGGG
110509306 ACACACCCGTG
1 ACACACCCGTG
110509317 CTAGAGGCCG
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.20, C:0.35, G:0.30, T:0.15
Consensus pattern (22 bp):
ACACACCCGTGTGGACCAAGGG
Found at i:110524393 original size:14 final size:14
Alignment explanation
Indices: 110524365--110524406 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
110524355 TTTTTCTATC
*
110524365 TTAAATATT-TATT
1 TTAATTATTATATT
*
110524378 TTAATTGTTATATT
1 TTAATTATTATATT
110524392 TTAATTATTATATT
1 TTAATTATTATATT
110524406 T
1 T
110524407 GACTTAGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 7 0.28
14 18 0.72
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (14 bp):
TTAATTATTATATT
Found at i:110527610 original size:33 final size:33
Alignment explanation
Indices: 110527573--110527637 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
110527563 TATATCAATG
*
110527573 TGCGAGTCGTAATGATGTCTGAGCTGTGTAATT
1 TGCGAGTCATAATGATGTCTGAGCTGTGTAATT
* *
110527606 TGCGAGTCATAGTGATGTGTGAGCTGTGTAAT
1 TGCGAGTCATAATGATGTCTGAGCTGTGTAAT
110527638 GTGTGAGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.22, C:0.11, G:0.32, T:0.35
Consensus pattern (33 bp):
TGCGAGTCATAATGATGTCTGAGCTGTGTAATT
Found at i:110527641 original size:16 final size:16
Alignment explanation
Indices: 110527620--110527715 Score: 72
Period size: 16 Copynumber: 5.9 Consensus size: 16
110527610 AGTCATAGTG
110527620 ATGTGTGAGCTGTGTA
1 ATGTGTGAGCTGTGTA
**
110527636 ATGTGTGAGC--TACA
1 ATGTGTGAGCTGTGTA
110527650 ATGATGT-ACGACTTGTGTA
1 ATG-TGTGA-G-C-TGTGTA
** *
110527669 ATGTGCAAGCTATGTA
1 ATGTGTGAGCTGTGTA
110527685 ATGTGTGAGCTGTAGTA
1 ATGTGTGAGCTGT-GTA
*
110527702 GTGTGTGAGCTGTG
1 ATGTGTGAGCTGTG
110527716 AAAATATGCA
Statistics
Matches: 62, Mismatches: 10, Indels: 16
0.70 0.11 0.18
Matches are distributed among these distances:
14 6 0.10
15 4 0.06
16 27 0.44
17 16 0.26
18 3 0.05
19 6 0.10
ACGTcount: A:0.23, C:0.09, G:0.33, T:0.34
Consensus pattern (16 bp):
ATGTGTGAGCTGTGTA
Found at i:110527655 original size:33 final size:33
Alignment explanation
Indices: 110527583--110527712 Score: 97
Period size: 33 Copynumber: 3.9 Consensus size: 33
110527573 TGCGAGTCGT
* *
110527583 AATGATGTCTGAGCTGTGTAATTTGCGAG-T-C
1 AATGATGTGTGAGCTGTGTAATGTGCGAGCTAC
*
110527614 ATAGTGATGTGTGAGCTGTGTAATGTGTGAGCTAC
1 A-A-TGATGTGTGAGCTGTGTAATGTGCGAGCTAC
** *
110527649 AATGATGTACGA-CTTGTGTAATGTGCAAGCTA-
1 AATGATGTGTGAGC-TGTGTAATGTGCGAGCTAC
** * * *
110527681 TGTAATGTGTGAGCTGTAGTAGTGTGTGAGCT
1 AATGATGTGTGAGCTGT-GTAATGTGCGAGCT
110527713 GTGAAAATAT
Statistics
Matches: 77, Mismatches: 15, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
31 1 0.01
32 12 0.16
33 60 0.78
34 2 0.03
35 2 0.03
ACGTcount: A:0.24, C:0.10, G:0.32, T:0.35
Consensus pattern (33 bp):
AATGATGTGTGAGCTGTGTAATGTGCGAGCTAC
Found at i:110531598 original size:20 final size:21
Alignment explanation
Indices: 110531568--110531606 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
110531558 ATAATTTAAA
110531568 ATATAAAATTTATTAATATGT
1 ATATAAAATTTATTAATATGT
110531589 ATAT-AAATTTATTAATAT
1 ATATAAAATTTATTAATAT
110531607 ATGTAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (21 bp):
ATATAAAATTTATTAATATGT
Found at i:110531616 original size:20 final size:20
Alignment explanation
Indices: 110531568--110531616 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
110531558 ATAATTTAAA
110531568 ATAT-AAAATTTATTAATAT
1 ATATAAAAATTTATTAATAT
* *
110531587 GTATATAAATTTATTAATAT
1 ATATAAAAATTTATTAATAT
*
110531607 ATGTAAAAAT
1 ATATAAAAAT
110531617 AACTTTTACA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (20 bp):
ATATAAAAATTTATTAATAT
Found at i:110535741 original size:10 final size:10
Alignment explanation
Indices: 110535726--110535755 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
110535716 TTATTAATTT
110535726 AAAATTTAAA
1 AAAATTTAAA
110535736 AAAATTTAAA
1 AAAATTTAAA
110535746 AAAATTTAAA
1 AAAATTTAAA
110535756 GAGTCTACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:110536723 original size:21 final size:22
Alignment explanation
Indices: 110536676--110536723 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
110536666 GAATTTTAAC
* *
110536676 AAATTCTTTTAAAATAAGAATT
1 AAATTCTTTAAAAATAAGAAAT
110536698 AAATTC-TTAAAAATAA-AAAT
1 AAATTCTTTAAAAATAAGAAAT
110536718 AGAATT
1 A-AATT
110536724 AAATTATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 13 0.57
22 6 0.26
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.35
Consensus pattern (22 bp):
AAATTCTTTAAAAATAAGAAAT
Found at i:110537257 original size:29 final size:28
Alignment explanation
Indices: 110537208--110537283 Score: 107
Period size: 29 Copynumber: 2.7 Consensus size: 28
110537198 TTGAAACTCA
* * *
110537208 GAGTACTGAAAAATATTTTTGATGAGAT
1 GAGTTCTGAAAAATATCTTTGACGAGAT
110537236 GAGTTCTGAAAAAATATCTTTGACGAGAT
1 GAGTTCTG-AAAAATATCTTTGACGAGAT
*
110537265 GAGCTCTGAAAAATATCTT
1 GAGTTCTGAAAAATATCTT
110537284 GGGAATCTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 18 0.42
29 25 0.58
ACGTcount: A:0.38, C:0.09, G:0.20, T:0.33
Consensus pattern (28 bp):
GAGTTCTGAAAAATATCTTTGACGAGAT
Found at i:110543824 original size:50 final size:49
Alignment explanation
Indices: 110543703--110543832 Score: 179
Period size: 50 Copynumber: 2.6 Consensus size: 49
110543693 CTGGTACGCA
* ** * *
110543703 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTATACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAACCATCCGATACACG
*
110543752 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC-AACCATCCGATACACG
* *
110543802 TAGTATCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA
110543833 TCGAAGTTAT
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
49 32 0.44
50 40 0.56
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAACCATCCGATACACG
Found at i:110543886 original size:101 final size:99
Alignment explanation
Indices: 110543703--110543886 Score: 251
Period size: 101 Copynumber: 1.8 Consensus size: 99
110543693 CTGGTACGCA
* * *
110543703 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTATACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
*
110543768 GTACTACACATGTGACCTAACCATCTGATACACG
66 GTACTACACATGCGACCTAACCATCTGATACACG
* * * ** *
110543802 TAGTATCCTGCACTTAGTACTACACACGTGATCGAAGTTATTGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
*
110543867 TAGTACTATACATGCGACCT
64 TAGTACTACACATGCGACCT
110543887 CATAATAGAT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
99 28 0.39
100 3 0.04
101 41 0.57
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACATGCGACCTAACCATCTGATACACG
Found at i:110546433 original size:44 final size:42
Alignment explanation
Indices: 110546287--110546459 Score: 127
Period size: 43 Copynumber: 4.0 Consensus size: 42
110546277 GGAAAGCTCG
*** * * *
110546287 TACGATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAA
1 TACGATGCCAACGTCCCAGATACGGTCTTACACGAAACCAAA
* * * * * *
110546329 TATCAATGAC-ACTATCGCAGATAGGGTCTTACATGAAACCAAA
1 TA-CGATGCCAAC-GTCCCAGATACGGTCTTACACGAAACCAAA
*
110546372 TACGATGCCAATGTCCCAGATACGGTCTTACACGTAAATCTCAAA
1 TACGATGCCAACGTCCCAGATACGGTCTTACACG-AAA-C-CAAA
* * *
110546417 T-CGATGCCAACGTCCCAGACT-TGGCCTTACACGAAATCAAA
1 TACGATGCCAACGTCCCAGA-TACGGTCTTACACGAAACCAAA
110546458 TA
1 TA
110546460 TCAGAAATCC
Statistics
Matches: 103, Mismatches: 20, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
41 5 0.05
42 27 0.26
43 37 0.36
44 28 0.27
45 6 0.06
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (42 bp):
TACGATGCCAACGTCCCAGATACGGTCTTACACGAAACCAAA
Found at i:110547019 original size:18 final size:20
Alignment explanation
Indices: 110546982--110547020 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
110546972 TCATTTTTAC
*
110546982 AATTCAGTCCAAAATACTCA
1 AATTCAGTCAAAAATACTCA
110547002 AATTCA-TCAAAAAT-CTCA
1 AATTCAGTCAAAAATACTCA
110547020 A
1 A
110547021 TACAAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 7 0.39
20 6 0.33
ACGTcount: A:0.49, C:0.23, G:0.03, T:0.26
Consensus pattern (20 bp):
AATTCAGTCAAAAATACTCA
Found at i:110548120 original size:11 final size:11
Alignment explanation
Indices: 110548099--110548131 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
110548089 ATATTTCTTG
110548099 AAAATATTAATA
1 AAAATA-TAATA
110548111 AAAATATAATA
1 AAAATATAATA
110548122 AAAATATAAT
1 AAAATATAAT
110548132 TTAGATAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (11 bp):
AAAATATAATA
Found at i:110550800 original size:20 final size:20
Alignment explanation
Indices: 110550775--110550824 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
110550765 TGGCTTAAAA
110550775 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
110550795 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
110550812 GTGGTAGTGGATT
1 TTGGTAGTGGATT
110550825 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:110555439 original size:20 final size:20
Alignment explanation
Indices: 110555414--110555463 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
110555404 TGGCTTAAAA
110555414 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
110555434 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
110555451 GTGGTAGTGGATT
1 TTGGTAGTGGATT
110555464 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:110563587 original size:26 final size:26
Alignment explanation
Indices: 110563555--110563608 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
110563545 ATTTTATTAC
110563555 TGCTTGATTTTTTATTTCATTTATGA
1 TGCTTGATTTTTTATTTCATTTATGA
110563581 TGCTTGATTTTTTATTTCATTTATGA
1 TGCTTGATTTTTTATTTCATTTATGA
110563607 TG
1 TG
110563609 TTTGCATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.19, C:0.07, G:0.13, T:0.61
Consensus pattern (26 bp):
TGCTTGATTTTTTATTTCATTTATGA
Found at i:110565217 original size:18 final size:18
Alignment explanation
Indices: 110565194--110565235 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
110565184 GCCATGTGCA
*
110565194 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
110565212 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
*
110565230 TTTCCT
1 TATCCT
110565236 TTTCCTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.29, G:0.07, T:0.43
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:110567759 original size:27 final size:26
Alignment explanation
Indices: 110567722--110567816 Score: 127
Period size: 27 Copynumber: 3.5 Consensus size: 26
110567712 AGCATGACTG
*
110567722 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGATAGAGTCA
*
110567748 CCAGATACAGATAATCGTGGTAGAGTCA
1 CCAGA-ACAGATAAT-GTGATAGAGTCA
*
110567776 CCAGAACAGATATATGTGATAGAGCCA
1 CCAGAACAGATA-ATGTGATAGAGTCA
*
110567803 CCAGATCAGATAAT
1 CCAGAACAGATAAT
110567817 TGTGGCATAG
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
26 7 0.11
27 37 0.61
28 17 0.28
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATAATGTGATAGAGTCA
Found at i:110567828 original size:27 final size:27
Alignment explanation
Indices: 110567722--110567833 Score: 111
Period size: 27 Copynumber: 4.1 Consensus size: 27
110567712 AGCATGACTG
*
110567722 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGACAGAGCCA
* ** *
110567748 CCAGATACAGATAATCGTGGTAGAGTCA
1 CCAGA-ACAGATAATTGTGACAGAGCCA
*
110567776 CCAGAACAGAT-ATATGTGATAGAGCCA
1 CCAGAACAGATAAT-TGTGACAGAGCCA
* * *
110567803 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGACAGAGCCA
110567830 CCAG
1 CCAG
110567834 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 7 0.10
27 48 0.67
28 17 0.24
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.19
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGACAGAGCCA
Found at i:110567832 original size:54 final size:54
Alignment explanation
Indices: 110567722--110567833 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
110567712 AGCATGACTG
* * *
110567722 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGTAGAGTCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
110567776 CCAGAACAGATATATGTGATAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
110567830 CCAG
1 CCAG
110567834 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.19
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:110569272 original size:25 final size:24
Alignment explanation
Indices: 110569239--110569295 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 24
110569229 AACTCTTGCT
110569239 CCTTGATCAGCTCCTAAATCTTCTCC
1 CCTT-ATCAGCTCCTAAATCTTCT-C
110569265 CCTTATCAGCTCCTAAATCTTCTC
1 CCTTATCAGCTCCTAAATCTTCTC
110569289 CCTTATC
1 CCTTATC
110569296 CCCTCCTTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 8 0.26
25 19 0.61
26 4 0.13
ACGTcount: A:0.19, C:0.39, G:0.05, T:0.37
Consensus pattern (24 bp):
CCTTATCAGCTCCTAAATCTTCTC
Found at i:110569301 original size:24 final size:25
Alignment explanation
Indices: 110569239--110569302 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
110569229 AACTCTTGCT
*
110569239 CCTTGATCAGCTCCTAAATCTTCTCC
1 CCTT-ATCACCTCCTAAATCTTCTCC
*
110569265 CCTTATCAGCTCCTAAATCTTCT-C
1 CCTTATCACCTCCTAAATCTTCTCC
*
110569289 CCTTATCCCCTCCT
1 CCTTATCACCTCCT
110569303 TACTCAATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 13 0.36
25 19 0.53
26 4 0.11
ACGTcount: A:0.17, C:0.42, G:0.05, T:0.36
Consensus pattern (25 bp):
CCTTATCACCTCCTAAATCTTCTCC
Found at i:110571731 original size:126 final size:126
Alignment explanation
Indices: 110571586--110571816 Score: 383
Period size: 126 Copynumber: 1.8 Consensus size: 126
110571576 TTATAACCTC
* *
110571586 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTAGGAGCTTTTTTCAGAAATTTTGTTA
1 ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTAGGAGCTTTTTCCAGAAATTTTGCTA
110571651 ACAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
66 ACAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
* * *
110571712 ATTTTTGC-ACGAACTACTGTCGCAAAAGAGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCT
1 ATTTTT-CTACGAACTACTGTAGCAAAAGAGCATCCACGTAGGAGCTTTTTCCAGAAATTTTGCT
* *
110571776 GACAGTGCATCCTGCTTGAAGCGTTTTTGGCACTATTTGTT
65 AACAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTT
110571817 AGCGTCCATG
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
126 96 0.99
127 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.34
Consensus pattern (126 bp):
ATTTTTCTACGAACTACTGTAGCAAAAGAGCATCCACGTAGGAGCTTTTTCCAGAAATTTTGCTA
ACAGTGCATCCTGCTTGAAGCGTTTTCGGCACTATTTGTTCAGAAACGTCTACTCAGAATT
Found at i:110571872 original size:77 final size:78
Alignment explanation
Indices: 110571740--110571891 Score: 252
Period size: 77 Copynumber: 2.0 Consensus size: 78
110571730 GTCGCAAAAG
*
110571740 AGCGTCCACGTGGGAGCTTTTTCCAGAAATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTT-
1 AGCGTCCACGTGAGAGCTTTTTCCAGAAATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTC
*
110571804 GGCACTATTTGTT
66 GACACTATTTGTT
* * *
110571817 AGCGTCCATGTGAGAGTTTTTTCCAGAAATTTTGCTGACAGTGCATCCTGTTTGAAGCGTTTTTC
1 AGCGTCCACGTGAGAGCTTTTTCCAGAAATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTC
110571882 GACACTATTT
66 GACACTATTT
110571892 TTCCAGAAAC
Statistics
Matches: 69, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
77 60 0.87
78 9 0.13
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (78 bp):
AGCGTCCACGTGAGAGCTTTTTCCAGAAATTTTGCTGACAGTGCATCCTGCTTGAAGCGTTTTTC
GACACTATTTGTT
Found at i:110572432 original size:15 final size:15
Alignment explanation
Indices: 110572409--110572438 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
110572399 ACAAAACCCT
*
110572409 AACCCTAACCCTAAA
1 AACCATAACCCTAAA
110572424 AACCATAACCCTAAA
1 AACCATAACCCTAAA
110572439 TCAATTAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.37, G:0.00, T:0.13
Consensus pattern (15 bp):
AACCATAACCCTAAA
Found at i:110572836 original size:2 final size:2
Alignment explanation
Indices: 110572829--110572854 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
110572819 AAATTTAAAT
110572829 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
110572855 AAAGAAGAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:110573380 original size:18 final size:17
Alignment explanation
Indices: 110573348--110573381 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
110573338 GTTTGTTATA
*
110573348 TATCAAATTAGATTAGT
1 TATCAAATTACATTAGT
110573365 TATCAATATTACATTAG
1 TATCAA-ATTACATTAG
110573382 CATAAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (17 bp):
TATCAAATTACATTAGT
Found at i:110573660 original size:2 final size:2
Alignment explanation
Indices: 110573647--110573682 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
110573637 CAAGTTTAAT
*
110573647 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
110573683 AAAAGACACT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:110588912 original size:7 final size:7
Alignment explanation
Indices: 110588902--110588964 Score: 54
Period size: 7 Copynumber: 9.0 Consensus size: 7
110588892 TAAGGGTTAA
110588902 TTAGGGT
1 TTAGGGT
110588909 TTAGGGT
1 TTAGGGT
* *
110588916 CTAGAGT
1 TTAGGGT
*
110588923 TTGGGGT
1 TTAGGGT
*
110588930 TTAAGGT
1 TTAGGGT
**
110588937 TTATAGT
1 TTAGGGT
110588944 TTAGGGT
1 TTAGGGT
*
110588951 TTATGGT
1 TTAGGGT
*
110588958 ATAGGGT
1 TTAGGGT
110588965 CAAGGTCTTA
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
7 42 1.00
ACGTcount: A:0.19, C:0.02, G:0.37, T:0.43
Consensus pattern (7 bp):
TTAGGGT
Found at i:110588929 original size:21 final size:21
Alignment explanation
Indices: 110588902--110588953 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
110588892 TAAGGGTTAA
*
110588902 TTAGGGTTTAGGGTCTAGAGT
1 TTAGGGTTTAAGGTCTAGAGT
* * *
110588923 TTGGGGTTTAAGGTTTATAGT
1 TTAGGGTTTAAGGTCTAGAGT
110588944 TTAGGGTTTA
1 TTAGGGTTTA
110588954 TGGTATAGGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.19, C:0.02, G:0.35, T:0.44
Consensus pattern (21 bp):
TTAGGGTTTAAGGTCTAGAGT
Found at i:110589168 original size:7 final size:7
Alignment explanation
Indices: 110589156--110589264 Score: 51
Period size: 7 Copynumber: 15.6 Consensus size: 7
110589146 GTTAGGGAGA
110589156 TTTAGGG
1 TTTAGGG
110589163 TTTAGGG
1 TTTAGGG
110589170 TTTAGGG
1 TTTAGGG
*
110589177 TTTAAGG
1 TTTAGGG
** *
110589184 ACT-GTG
1 TTTAGGG
*
110589190 TTTTGTGG
1 TTTAG-GG
*
110589198 TTTATGG
1 TTTAGGG
* *
110589205 TATGGGG
1 TTTAGGG
* *
110589212 CTTATGG
1 TTTAGGG
*
110589219 TTTGGGG
1 TTTAGGG
110589226 TTT-GGG
1 TTTAGGG
*
110589232 ATTTGGGG
1 -TTTAGGG
*
110589240 TTTGGGG
1 TTTAGGG
*
110589247 TTTAGTG
1 TTTAGGG
*
110589254 TTTAGTG
1 TTTAGGG
110589261 TTTA
1 TTTA
110589265 ATTTTGGAAT
Statistics
Matches: 76, Mismatches: 22, Indels: 8
0.72 0.21 0.08
Matches are distributed among these distances:
6 5 0.07
7 64 0.84
8 7 0.09
ACGTcount: A:0.12, C:0.02, G:0.39, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:110590972 original size:24 final size:24
Alignment explanation
Indices: 110590909--110590977 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 24
110590899 TTTGTGACTG
*
110590909 TGAAAATCGTATTATAATAATGTTA
1 TGAAAATTGTATTATAAT-ATGTTA
**
110590934 T-ACTATCT-TATTTATAATATGTTA
1 TGAAAAT-TGTA-TTATAATATGTTA
110590958 TGAAAATTGTATTATAATAT
1 TGAAAATTGTATTATAATAT
110590978 ACTTTGGTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
24 22 0.63
25 13 0.37
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (24 bp):
TGAAAATTGTATTATAATATGTTA
Found at i:110592675 original size:69 final size:70
Alignment explanation
Indices: 110592552--110592685 Score: 216
Period size: 69 Copynumber: 1.9 Consensus size: 70
110592542 GACTCAGATC
* *
110592552 CATGGTTCAAATAAGTCACTTACCTTTTAAGTACTAAATTGGACAAAAATCTAAATTCATGTGTT
1 CATGGTTCAAATAAGTCACTTACCTTTTAAGTACTAAATTGGAAAAAAATCTAAATTCAAGTGTT
110592617 AGGTT
66 AGGTT
* * *
110592622 CATGGTTCAAATAAGTCATTTACC-TTTAAGTACTTATTTGGAAAAAAATCTAAATTCAAGTGTT
1 CATGGTTCAAATAAGTCACTTACCTTTTAAGTACTAAATTGGAAAAAAATCTAAATTCAAGTGTT
110592686 GATTACTTAA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 36 0.61
70 23 0.39
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (70 bp):
CATGGTTCAAATAAGTCACTTACCTTTTAAGTACTAAATTGGAAAAAAATCTAAATTCAAGTGTT
AGGTT
Found at i:110593852 original size:9 final size:9
Alignment explanation
Indices: 110593838--110593933 Score: 111
Period size: 9 Copynumber: 10.3 Consensus size: 9
110593828 TCTTAAAAAA
110593838 TTACATAAC
1 TTACATAAC
110593847 TTACATAAC
1 TTACATAAC
* *
110593856 TCATATAAC
1 TTACATAAC
110593865 TTACATAAC
1 TTACATAAC
*
110593874 TCACATAAC
1 TTACATAAC
*
110593883 TTACATAAT
1 TTACATAAC
110593892 TTACATAAC
1 TTACATAAC
*
110593901 TCACATAAC
1 TTACATAAC
*
110593910 GTACATAACAAC
1 TTACAT---AAC
110593922 TTACATAAC
1 TTACATAAC
110593931 TTA
1 TTA
110593934 ACTAATACAT
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
9 64 0.89
12 8 0.11
ACGTcount: A:0.45, C:0.23, G:0.01, T:0.31
Consensus pattern (9 bp):
TTACATAAC
Found at i:110599527 original size:21 final size:21
Alignment explanation
Indices: 110599484--110599527 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
110599474 TCAACTTAGA
* *
110599484 GCGGAGGCAGCAGCGCGGGAG
1 GCGGAGGCAGCAGCGAGGAAG
110599505 GCGGAGGCAGCAGCGAGGAAG
1 GCGGAGGCAGCAGCGAGGAAG
110599526 GC
1 GC
110599528 AGAGCAGAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.55, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGAAG
Found at i:110599953 original size:43 final size:43
Alignment explanation
Indices: 110599825--110599982 Score: 151
Period size: 41 Copynumber: 3.7 Consensus size: 43
110599815 ACTGGGAAAA
* * * * ****
110599825 TTAGCGGCGTTTCTTAAAAAAAGCACCGCTAAAAGTACTGCAAA
1 TTAGCGGCGTTT-TTTAAAAAAGCGCCGCGAAAAGTGCTGGTCT
*
110599869 TTAGCGGCGTTTTTT--AAAAGCGCCGCTAAAAGTGCTGGTCT
1 TTAGCGGCGTTTTTTAAAAAAGCGCCGCGAAAAGTGCTGGTCT
* *
110599910 TTAGCGTCGTTTTTTAAAAAAGCGCCGCGAAAAGT-CTTTGTCT
1 TTAGCGGCGTTTTTTAAAAAAGCGCCGCGAAAAGTGC-TGGTCT
*
110599953 TTAGCGGCGCTTTTTTCAAAAAAACGCCGC
1 TTAGCGGCG-TTTTTT-AAAAAAGCGCCGC
110599983 TAATTTTACC
Statistics
Matches: 97, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
41 34 0.35
42 1 0.01
43 32 0.33
44 18 0.19
45 12 0.12
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (43 bp):
TTAGCGGCGTTTTTTAAAAAAGCGCCGCGAAAAGTGCTGGTCT
Found at i:110603788 original size:38 final size:38
Alignment explanation
Indices: 110603745--110603822 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
110603735 GCATGCACAA
*
110603745 AAAATTTGTTTTAATAAATTATCAACATCAAATATGAT
1 AAAATTTGTTTTAATAAATTACCAACATCAAATATGAT
110603783 AAAATTTGTTTTAATAAATTACCAACATCAAATATGAT
1 AAAATTTGTTTTAATAAATTACCAACATCAAATATGAT
110603821 AA
1 AA
110603823 GTATTAGGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.37
Consensus pattern (38 bp):
AAAATTTGTTTTAATAAATTACCAACATCAAATATGAT
Found at i:110605444 original size:9 final size:9
Alignment explanation
Indices: 110605430--110605506 Score: 73
Period size: 9 Copynumber: 8.6 Consensus size: 9
110605420 ATAAGCATAA
110605430 AATTAACCG
1 AATTAACCG
*
110605439 AATTAATCG
1 AATTAACCG
*
110605448 AATTAATCG
1 AATTAACCG
* *
110605457 AATTATCCA
1 AATTAACCG
*
110605466 AATTATCCG
1 AATTAACCG
* *
110605475 AATTATCCA
1 AATTAACCG
* *
110605484 AATTAATCT
1 AATTAACCG
110605493 AATTAACCG
1 AATTAACCG
110605502 AATTA
1 AATTA
110605507 TTTGTATAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 57 1.00
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.32
Consensus pattern (9 bp):
AATTAACCG
Found at i:110605541 original size:5 final size:6
Alignment explanation
Indices: 110605526--110605566 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
110605516 AATTATATGT
*
110605526 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
110605567 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:110612487 original size:17 final size:17
Alignment explanation
Indices: 110612444--110612487 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
110612434 AAATCACAAG
*
110612444 AGAGAAAAAAAATGAAA
1 AGAGAAAAAAAATAAAA
110612461 AGA-AAAAAAAAGTAAAA
1 AGAGAAAAAAAA-TAAAA
110612478 AGAGATAAAA
1 AGAGA-AAAA
110612488 GCATAAACGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 8 0.35
17 10 0.43
18 1 0.04
19 4 0.17
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (17 bp):
AGAGAAAAAAAATAAAA
Found at i:110613976 original size:16 final size:17
Alignment explanation
Indices: 110613953--110613990 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
110613943 AATAAACAAT
110613953 TAAA-TAAATT-GGAAA
1 TAAATTAAATTGGGAAA
110613968 TAAATTAAATTGGGAAA
1 TAAATTAAATTGGGAAA
110613985 TAAATT
1 TAAATT
110613991 CGAATTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.19
16 6 0.29
17 11 0.52
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (17 bp):
TAAATTAAATTGGGAAA
Found at i:110618096 original size:15 final size:16
Alignment explanation
Indices: 110618076--110618108 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
110618066 TTTAAAAATT
*
110618076 ATAAAATATTT-TAAA
1 ATAAAAAATTTGTAAA
110618091 ATAAAAAATTTGTAAA
1 ATAAAAAATTTGTAAA
110618107 AT
1 AT
110618109 TTATATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (16 bp):
ATAAAAAATTTGTAAA
Found at i:110618133 original size:22 final size:22
Alignment explanation
Indices: 110618091--110618152 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
110618081 ATATTTTAAA
110618091 ATAAAAAATTTGTAAAA-TTTAT
1 ATAAAAAATTT-TAAAATTTTAT
110618113 ATAAAAAATTTTAAAATTTTAT
1 ATAAAAAATTTTAAAATTTTAT
* * * *
110618135 TTTAAAAATATAAAAATT
1 ATAAAAAATTTTAAAATT
110618153 ATTGAAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.14
22 30 0.86
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
ATAAAAAATTTTAAAATTTTAT
Found at i:110618141 original size:21 final size:22
Alignment explanation
Indices: 110618091--110618131 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
110618081 ATATTTTAAA
110618091 ATAAAAAATTTGTAAAATTTAT
1 ATAAAAAATTTGTAAAATTTAT
110618113 ATAAAAAATTT-TAAAATTT
1 ATAAAAAATTTGTAAAATTT
110618132 TATTTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
ATAAAAAATTTGTAAAATTTAT
Found at i:110618419 original size:33 final size:36
Alignment explanation
Indices: 110618349--110618421 Score: 98
Period size: 33 Copynumber: 2.1 Consensus size: 36
110618339 AAAAATTTTA
110618349 ATTTTTTTAAAACTGTAAAAAAATGTGAAAAACATT
1 ATTTTTTTAAAACTGTAAAAAAATGTGAAAAACATT
** *
110618385 ATTTTTTTAAAA-TG-ACTAAAAT-TGAAAAAGATT
1 ATTTTTTTAAAACTGTAAAAAAATGTGAAAAACATT
110618418 ATTT
1 ATTT
110618422 AAATTTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 14 0.41
34 6 0.18
35 2 0.06
36 12 0.35
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (36 bp):
ATTTTTTTAAAACTGTAAAAAAATGTGAAAAACATT
Found at i:110618474 original size:18 final size:19
Alignment explanation
Indices: 110618453--110618489 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
110618443 AAATCATAAT
110618453 AATTTTAAAAT-ATTTTAA
1 AATTTTAAAATAATTTTAA
*
110618471 AATTTTATAATAATTTTAA
1 AATTTTAAAATAATTTTAA
110618490 TTTTTTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AATTTTAAAATAATTTTAA
Found at i:110618758 original size:19 final size:19
Alignment explanation
Indices: 110618719--110618796 Score: 66
Period size: 19 Copynumber: 3.9 Consensus size: 19
110618709 ATAAAATAAA
* **
110618719 TTTTACAATTTTTAAGGAT
1 TTTTACAAATTTTAAATAT
*
110618738 TTTTACAACTTTTAAATAT
1 TTTTACAAATTTTAAATAT
*
110618757 TTTTAAATAAATTTTAAATAT
1 TTTT--ACAAATTTTAAATAT
* *
110618778 TTTTATATATATTTAAATA
1 TTTTACAAAT-TTTAAATA
110618797 AAATTTAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
19 25 0.50
20 8 0.16
21 17 0.34
ACGTcount: A:0.40, C:0.04, G:0.03, T:0.54
Consensus pattern (19 bp):
TTTTACAAATTTTAAATAT
Found at i:110618760 original size:10 final size:10
Alignment explanation
Indices: 110618747--110618796 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
110618737 TTTTTACAAC
110618747 TTTTAAATAT
1 TTTTAAATAT
*
110618757 TTTTAAATAAA
1 TTTTAAAT-AT
110618768 TTTTAAATAT
1 TTTTAAATAT
*
110618778 TTTTATATAT
1 TTTTAAATAT
*
110618788 ATTTAAATA
1 TTTTAAATA
110618797 AAATTTAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
10 25 0.74
11 9 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTTAAATAT
Found at i:110618773 original size:21 final size:21
Alignment explanation
Indices: 110618747--110618796 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
110618737 TTTTTACAAC
110618747 TTTTAAATATTTTTAAATAAA
1 TTTTAAATATTTTTAAATAAA
* *
110618768 TTTTAAATATTTTTATATATA
1 TTTTAAATATTTTTAAATAAA
110618789 -TTTAAATA
1 TTTTAAATA
110618797 AAATTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 8 0.30
21 19 0.70
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTAAATATTTTTAAATAAA
Found at i:110618782 original size:31 final size:30
Alignment explanation
Indices: 110618747--110618815 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 30
110618737 TTTTTACAAC
* *
110618747 TTTTAAATATTTTTAAATAAATTTTAAATAT
1 TTTTAAATATATTTAAATAAAATTTAAA-AT
*
110618778 TTTTATATATATTTAAATAAAATTTAAAAT
1 TTTTAAATATATTTAAATAAAATTTAAAAT
110618808 TTTCTAAA
1 TTT-TAAA
110618816 CATTATTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 5 0.15
31 28 0.85
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (30 bp):
TTTTAAATATATTTAAATAAAATTTAAAAT
Found at i:110621332 original size:25 final size:23
Alignment explanation
Indices: 110621304--110621349 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
110621294 ATAAAAAATA
110621304 CTCAAAAAAGTTAAAATAAATATTT
1 CTCAAAAAA-TTAAAA-AAATATTT
*
110621329 CTCAACAAATTAAAAAAATAT
1 CTCAAAAAATTAAAAAAATAT
110621350 GTATACTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.28
Consensus pattern (23 bp):
CTCAAAAAATTAAAAAAATATTT
Found at i:110628383 original size:21 final size:21
Alignment explanation
Indices: 110628357--110628397 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
110628347 ATCTGCTCAA
* *
110628357 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
110628378 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
110628398 TTGCTCATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:110631907 original size:29 final size:27
Alignment explanation
Indices: 110631866--110631929 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 27
110631856 TGTTGCTCCC
*
110631866 AATAATTTTTATTTACTTT-TTATATTTTT
1 AATATTTTTTATTTA-TTTGTT-TA-TTTT
110631895 AATATTTTTTATTTATTTGTTTATTTT
1 AATATTTTTTATTTATTTGTTTATTTT
110631922 AA-ATTTTT
1 AATATTTTT
110631930 AAAAAATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
26 6 0.18
27 6 0.18
28 5 0.15
29 16 0.48
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (27 bp):
AATATTTTTTATTTATTTGTTTATTTT
Found at i:110633657 original size:9 final size:9
Alignment explanation
Indices: 110633645--110633671 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
110633635 GATTTTAATT
110633645 TTTTTAAAA
1 TTTTTAAAA
110633654 TTTTTAAAA
1 TTTTTAAAA
110633663 TTTTTAAAA
1 TTTTTAAAA
110633672 ATTAATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:110645550 original size:16 final size:17
Alignment explanation
Indices: 110645529--110645561 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
110645519 TATATAGAAA
110645529 AAAAATG-GACCGTTGG
1 AAAAATGTGACCGTTGG
110645545 AAAAATGTGACCGTTGG
1 AAAAATGTGACCGTTGG
110645562 TCCAATTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.12, G:0.30, T:0.21
Consensus pattern (17 bp):
AAAAATGTGACCGTTGG
Found at i:110645610 original size:53 final size:53
Alignment explanation
Indices: 110645547--110645651 Score: 165
Period size: 53 Copynumber: 2.0 Consensus size: 53
110645537 ACCGTTGGAA
* * *
110645547 AAATGTGACCGTTGGTCCAATTAGCCGTTGGTTTCAACGGTTAGAAAATCAAG
1 AAATGTGACCGTTGGTCCAAGTAGCCGTTGATCTCAACGGTTAGAAAATCAAG
* *
110645600 AAATGTGACCGTTGGTCTAAGTAGTCGTTGATCTCAACGGTTAGAAAATCAA
1 AAATGTGACCGTTGGTCCAAGTAGCCGTTGATCTCAACGGTTAGAAAATCAA
110645652 CTATGGTGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (53 bp):
AAATGTGACCGTTGGTCCAAGTAGCCGTTGATCTCAACGGTTAGAAAATCAAG
Found at i:110653616 original size:40 final size:39
Alignment explanation
Indices: 110653565--110653701 Score: 97
Period size: 40 Copynumber: 3.6 Consensus size: 39
110653555 TGGGCGCAAT
*
110653565 TATCGTTGGTTTATCCAACTAGGCCTAGGCTTACAATTAC
1 TATCGTCGGTTTATCCAACTAGGCCT-GGCTTACAATTAC
*** * *
110653605 TATCGTCGGTTTATTTGACTA-GCACTGG-GTGCAA--A-
1 TATCGTCGGTTTATCCAACTAGGC-CTGGCTTACAATTAC
* * * *
110653640 TATTGTTGGTTTATCCAACTAGAG-TTGGGCTCACAATTAC
1 TATCGTCGGTTTATCCAACTAG-GCCT-GGCTTACAATTAC
*
110653680 TATCGCCGGTTTATCCAACTAG
1 TATCGTCGGTTTATCCAACTAG
110653702 CACTGGGTGC
Statistics
Matches: 71, Mismatches: 18, Indels: 16
0.68 0.17 0.15
Matches are distributed among these distances:
35 17 0.24
36 3 0.04
37 4 0.06
38 4 0.06
39 5 0.07
40 38 0.54
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (39 bp):
TATCGTCGGTTTATCCAACTAGGCCTGGCTTACAATTAC
Found at i:110653661 original size:35 final size:35
Alignment explanation
Indices: 110653622--110653735 Score: 115
Period size: 35 Copynumber: 3.1 Consensus size: 35
110653612 GGTTTATTTG
110653622 ACTAGCACTGGGTGCAAATATTGTTGGTTTATCCA
1 ACTAGCACTGGGTGCAAATATTGTTGGTTTATCCA
* **
110653657 ACTAG-AGTTGGGCT-CACAATTACTATCGCCGGTTTATCCA
1 ACTAGCA-CTGGG-TGCA-AA-TA-T-T-GTTGGTTTATCCA
*
110653697 ACTAGCACTGGGTGCAAACATTGTTGGTTTATCCA
1 ACTAGCACTGGGTGCAAATATTGTTGGTTTATCCA
110653732 ACTA
1 ACTA
110653736 AAGCTGGGCT
Statistics
Matches: 63, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
34 1 0.02
35 26 0.41
36 4 0.06
37 3 0.05
38 2 0.03
39 4 0.06
40 22 0.35
41 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (35 bp):
ACTAGCACTGGGTGCAAATATTGTTGGTTTATCCA
Found at i:110653676 original size:75 final size:75
Alignment explanation
Indices: 110653532--110653788 Score: 304
Period size: 75 Copynumber: 3.4 Consensus size: 75
110653522 TGGGCACATA
** * * * *
110653532 ATCGCCGG-TTATCTGACTAGTGCTGGGCGCAATTATCGTTGGTTTATCCAACTAG-GCCTAGGC
1 ATCGCCGGTTTATCTGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAG-CTGGGC
*
110653595 TTACAATTACT
65 TCACAATTACT
* * *
110653606 ATCGTCGGTTTATTTGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGTTGGGCT
1 ATCGCCGGTTTATCTGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGGGCT
110653671 CACAATTACT
66 CACAATTACT
** * *
110653681 ATCGCCGGTTTATCCAACTAGCACTGGGTGCAAACATTGTTGGTTTATCCAACTAAAGCTGGGCT
1 ATCGCCGGTTTATCTGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGGGCT
*
110653746 CA-AATTCAAT
66 CACAATT-ACT
* * * *
110653756 ATTGCTGGTTAATCTGACTAGCGCTGGGTGCAA
1 ATCGCCGGTTTATCTGACTAGCACTGGGTGCAA
110653789 CCTTTTCTGC
Statistics
Matches: 156, Mismatches: 24, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
74 11 0.07
75 144 0.92
76 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (75 bp):
ATCGCCGGTTTATCTGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGGGCT
CACAATTACT
Found at i:110658399 original size:20 final size:22
Alignment explanation
Indices: 110658346--110658400 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 22
110658336 GATATATCAT
*
110658346 GTTATATGTTAGAATTGGCTTG
1 GTTATATGTTTGAATTGGCTTG
110658368 GTTATAATGTTTGAATTGGC-TG
1 GTTAT-ATGTTTGAATTGGCTTG
110658390 G-TATATGTTTG
1 GTTATATGTTTG
110658401 CAAGTATTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 7 0.23
21 3 0.10
22 8 0.26
23 13 0.42
ACGTcount: A:0.22, C:0.04, G:0.27, T:0.47
Consensus pattern (22 bp):
GTTATATGTTTGAATTGGCTTG
Found at i:110663425 original size:17 final size:18
Alignment explanation
Indices: 110663390--110663428 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
110663380 AATTAAACTT
110663390 TAAAATGTTAAAAATAAA
1 TAAAATGTTAAAAATAAA
110663408 TAAAAT-TTCAAAAA-AAA
1 TAAAATGTT-AAAAATAAA
110663425 TAAA
1 TAAA
110663429 TGGGTTCCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (18 bp):
TAAAATGTTAAAAATAAA
Found at i:110664858 original size:16 final size:17
Alignment explanation
Indices: 110664834--110664867 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
110664824 TATCCATACG
*
110664834 ACATTTATACAA-ATTC
1 ACATATATACAACATTC
110664850 ACATATATACAACATTC
1 ACATATATACAACATTC
110664867 A
1 A
110664868 ATTCAAACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (17 bp):
ACATATATACAACATTC
Found at i:110665039 original size:21 final size:21
Alignment explanation
Indices: 110665015--110665058 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
110665005 TAAATTTAGC
* *
110665015 TCAATTTAATACAATTCATAT
1 TCAATTCAATACAATTCACAT
*
110665036 TCAATTCAATTCAATTCACAT
1 TCAATTCAATACAATTCACAT
110665057 TC
1 TC
110665059 TAGGAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (21 bp):
TCAATTCAATACAATTCACAT
Found at i:110665044 original size:5 final size:5
Alignment explanation
Indices: 110665015--110665058 Score: 52
Period size: 5 Copynumber: 8.4 Consensus size: 5
110665005 TAAATTTAGC
* *
110665015 TCAAT TTAAT ACAAT TCATAT TCAAT TCAAT TCAAT TCACAT TC
1 TCAAT TCAAT TCAAT TCA-AT TCAAT TCAAT TCAAT TCA-AT TC
110665059 TAGGAAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
5 24 0.73
6 9 0.27
ACGTcount: A:0.39, C:0.20, G:0.00, T:0.41
Consensus pattern (5 bp):
TCAAT
Found at i:110665047 original size:16 final size:16
Alignment explanation
Indices: 110665026--110665058 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
110665016 CAATTTAATA
110665026 CAATTCATATTCA-ATT
1 CAATTCA-ATTCACATT
110665042 CAATTCAATTCACATT
1 CAATTCAATTCACATT
110665058 C
1 C
110665059 TAGGAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.39
Consensus pattern (16 bp):
CAATTCAATTCACATT
Found at i:110671700 original size:77 final size:74
Alignment explanation
Indices: 110671595--110672251 Score: 493
Period size: 77 Copynumber: 8.6 Consensus size: 74
110671585 GTGATCTGAA
110671595 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAGACAGAAATTGAAAATACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAA-ACAGAAATTGAAAATACCTCAG
110671659 CATGTGAACCGAG
65 CA-GTG--CCGAG
* *
110671672 GCTCAACTCACCTCTCGCAATATAAGTTGA--TTTTTTGAAAACAGAAATTGAAAATACCTCAAC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAATTGAAAATACCTCAGC
*
110671735 -GTGTCTTGAG
66 AGTG-C-CGAG
** * * * *
110671745 GCTCAACTCATTTCTCGCAATATGAGTTGA---ATTTTGAAAACAGAATTTGAAATTACTTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAATTGAAAATACCTCAGC
110671807 -GTGTCCCGAG
66 AGTG--CCGAG
*
110671817 GCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTGAAA-ACAGAAATTGAAAATACCTCA
*
110671882 GCA-TGTCTTGAG
64 GCAGTG-C-CGAG
** * * *
110671894 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTGACAACAGAAATTGAAATTACCTTAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAATTGAAAATACCTCAGC
110671959 -GTGCCTTGAG
66 AGTGCC--GAG
* * * * **
110671969 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTTGAAAAATATAAATTTAAAAGCAGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTG-ATTTTTTTTG-AAAACAGAAA-TTGAAA--ATACC
* * * * *
110672034 T-TGAAATTAACTCAACG
61 TCAG-CAGT-GC-CGA-G
* * * *
110672051 TGCCTTAAGGCTCAACT-TAC-C--TCTCGCAGTATGAGTTGATTTTTTGAAAGACAAAAATTGA
1 -G-CTCAA--CTCACCTCT-CGCAATAT-G-AGT-TGA-TT--TTTTTTGAAA-ACAGAAATTGA
***
110672112 AAATACCTCAGCATGTTTTGAG
54 AAATACCTCAGCA-GTGCCGAG
** * * *
110672134 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTACAACAGAAATTGAAATTACCTCAG
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTGAAAACAGAAATTGAAAATACCTCAG
110672199 C-GTGTCCTGAG
65 CAGTG-CC-GAG
110672210 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAA
110672252 ATATAAATTT
Statistics
Matches: 461, Mismatches: 77, Indels: 87
0.74 0.12 0.14
Matches are distributed among these distances:
72 61 0.13
73 34 0.07
74 13 0.03
75 75 0.16
76 92 0.20
77 96 0.21
78 5 0.01
79 12 0.03
80 7 0.02
81 7 0.02
82 5 0.01
83 5 0.01
84 6 0.01
85 10 0.02
86 13 0.03
87 8 0.02
88 12 0.03
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (74 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAACAGAAATTGAAAATACCTCAGC
AGTGCCGAG
Found at i:110671972 original size:75 final size:74
Alignment explanation
Indices: 110671595--110672012 Score: 524
Period size: 77 Copynumber: 5.6 Consensus size: 74
110671585 GTGATCTGAA
110671595 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATTGAAAATACCTCAGC
110671660 ATGTGAACC--GAG
65 --GTG--CCTTGAG
* *
110671672 GCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTGAAAACAGAAATTGAAAATACCTCAACG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
*
110671736 TGTCTTGAG
66 TGCCTTGAG
** * * * *
110671745 GCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAATTTGAAATTACTTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
*
110671808 TGTCC-CGAG
66 TG-CCTTGAG
*
110671817 GCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCA
1 GCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAA-ACAGAAATTGAAAATACCTCA
* *
110671882 GCATGTCTTGAG
63 GCGTGCCTTGAG
** * * *
110671894 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTGACAACAGAAATTGAAATTACCTTAGC
1 GCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAACAGAAATTGAAAATACCTCAGC
110671959 GTGCCTTGAG
65 GTGCCTTGAG
110671969 GCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTTGAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTG-A-TTTTTTTGAAAA
110672013 ATATAAATTT
Statistics
Matches: 297, Mismatches: 34, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
71 1 0.00
72 60 0.20
73 34 0.11
75 78 0.26
76 43 0.14
77 81 0.27
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.32
Consensus pattern (74 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCG
TGCCTTGAG
Found at i:110671987 original size:224 final size:220
Alignment explanation
Indices: 110671595--110672420 Score: 890
Period size: 239 Copynumber: 3.6 Consensus size: 220
110671585 GTGATCTGAA
* *
110671595 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAATACCTCAGC
1 GCTCAACTCACCTCTCACAATATGAGTTGA-TTTTTTGAAAGACAAAAATTGAAAATACCTCAGC
* * *
110671660 ATGTGAAC-CGAGGCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTTGAAAACAGAAATTGA
65 ATGT---CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGA
* * * **
110671723 AAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CA
127 AATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAGCA
* * *
110671787 GAATTTGAAATTACTTCAGCGTGTCC-CGAG
192 GAAATTGAAATTAC-TCAACGTG-CCTTGAG
*
110671817 GCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCA
1 GCTCAACTCACCTCTCACAATATGAGTTGA---TTTTTTGAAAGACAAAAATTGAAAATACCTCA
**
110671882 GCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTGACAACAGAAATTGA
63 GCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGACAACAGAAATTGA
*
110671947 AATTACCTTAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTTTTTGAAA
127 AATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAA----TTTTG---
*
110672012 AATATAAATTTAAAAGCAGAAATTGAAATTAACTCAACGTGCCTTAAG
185 -----------AAAAGCAGAAATTGAAATT-ACTCAACGTGCCTTGAG
* * *
110672060 GCTCAACTTACCTCTCGCAGTATGAGTTGATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCA
1 GCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCA
* ** *
110672125 TGTTTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTTACAACAGAAATTGAAA
66 TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGACAACAGAAATTGAAA
110672190 TTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAT
129 TTACCTCAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGA---G------TTG---AAT
*
110672254 ATAAATTTAAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAG
181 -T---TTGAAAAGCAGAAATTGAAATTA-CTCAACGTGCCTTGAG
* * ***
110672299 GCTCAACTTACCTCTCACAGTATGAGTTGATTTTTTGAAAGACAAAAATTGAAAATACCTCAATG
1 GCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCA
110672364 TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA-AACAGAAAT
66 TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAAT
110672421 AAAAACATCA
Statistics
Matches: 526, Mismatches: 33, Indels: 76
0.83 0.05 0.12
Matches are distributed among these distances:
221 1 0.00
222 59 0.11
224 106 0.20
228 5 0.01
236 9 0.02
237 8 0.02
238 1 0.00
239 131 0.25
240 72 0.14
241 65 0.12
242 8 0.02
243 49 0.09
244 3 0.01
249 1 0.00
250 4 0.01
253 4 0.01
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (220 bp):
GCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCA
TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATT
ACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAA
TTGAAATTACTCAACGTGCCTTGAG
Found at i:110672113 original size:74 final size:74
Alignment explanation
Indices: 110672031--110672251 Score: 266
Period size: 74 Copynumber: 3.0 Consensus size: 74
110672021 TTAAAAGCAG
* * * * *
110672031 AAATTGAAATTAACTCAACGTGCCTTAAGGCTCAACTTACCTCTCGCAGTATGAGTTGA-TTTTT
1 AAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
110672095 TGAAAGACAA
66 TGAAA-ACAA
* * ** **
110672105 AAATTGAAAATACCTCAGCATGTTTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT
* * *
110672170 TTTTACAACAG
64 TTTGAAAACAA
110672181 AAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AAATTGAAATTACCTCAGCGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
110672245 TTGAAAA
65 TTGAAAA
110672252 ATATAAATTT
Statistics
Matches: 121, Mismatches: 22, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
74 58 0.48
76 55 0.45
77 8 0.07
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (74 bp):
AAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGAAAACAA
Found at i:110672171 original size:165 final size:166
Alignment explanation
Indices: 110671857--110672172 Score: 420
Period size: 165 Copynumber: 1.9 Consensus size: 166
110671847 TTTTTTTTTG
* * * * **
110671857 AAAGACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAGACAGAAATTGAAAATAACTCAACATGCCTTAAGGCTCAACTCACCTCTCGCAATATGAGTT
* * * * *
110671922 GATTTTTTTTGACAACAGAAATTGAAATTACCTTAGCGTGCCTTGAGGCTCAACTCACCTCTCGC
66 GA-TTTTTTTGAAAACAAAAATTGAAAATACCTCAGCATGCCTTGAGGCTCAACTCACCTCTCGC
110671987 AATATGAGTTGAATTTTTTTTGAAAAATATAAATTTA
130 AATATGAGTTGAATTTTTTTTGAAAAATATAAATTTA
* * * *
110672024 AAAG-CAGAAATTGAAATTAACTCAACGTGCCTTAAGGCTCAACTTACCTCTCGCAGTATGAGTT
1 AAAGACAGAAATTGAAAATAACTCAACATGCCTTAAGGCTCAACTCACCTCTCGCAATATGAGTT
** **
110672088 GA-TTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTTTTGAGGCTCAACTCATTTCTCGC
66 GATTTTTTTGAAA-ACAAAAATTGAAAATACCTCAGCATGCCTTGAGGCTCAACTCACCTCTCGC
*
110672152 AATATGAGTTGATTTTTTTTT
130 AATATGAGTTGAATTTTTTTT
110672173 TACAACAGAA
Statistics
Matches: 128, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
164 9 0.07
165 63 0.49
166 52 0.41
167 4 0.03
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (166 bp):
AAAGACAGAAATTGAAAATAACTCAACATGCCTTAAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTGAAAACAAAAATTGAAAATACCTCAGCATGCCTTGAGGCTCAACTCACCTCTCGCA
ATATGAGTTGAATTTTTTTTGAAAAATATAAATTTA
Found at i:110672323 original size:239 final size:241
Alignment explanation
Indices: 110671781--110672420 Score: 1005
Period size: 239 Copynumber: 2.7 Consensus size: 241
110671771 TTGAATTTTG
* * * * * *
110671781 AAAA-CAGAATTTGAAATTACTTCAGCGTGTCC-CGAGGCTCAACTCACCTCTCACAATATGAGT
1 AAAAGCAGAAATTGAAATTACCTCAACGTG-CCTTGAGGCTCAACTTACCTCTCACAGTATGAGT
* *
110671844 TGATTTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCT
65 TGA---TTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTTTTGAGGCTCAACTCATTTCT
*
110671909 CGCAATATGAGTTGA-TTTTTTTTGACAACAGAAATTGAAATTACCTTAGCGTGCCTTGAGGCTC
127 CGCAATATGAGTTGATTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGCCTTGAGGCTC
110671973 AACTCACCTCTCGCAATATGAGTTGAATTTTTTTTGAAAAATATAAATTT
192 AACTCACCTCTCGCAATATGAGTTGAATTTTTTTTGAAAAATATAAATTT
* * *
110672023 AAAAGCAGAAATTGAAATTAACTCAACGTGCCTTAAGGCTCAACTTACCTCTCGCAGTATGAGTT
1 AAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCTCTCACAGTATGAGTT
110672088 GATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTTTTGAGGCTCAACTCATTTCTCGCA
66 GATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTTTTGAGGCTCAACTCATTTCTCGCA
*
110672153 ATATGAGTTGATTTTTTTTTTACAACAGAAATTGAAATTACCTCAGCGTGTCC-TGAGGCTCAAC
131 ATATGAGTTGATTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTG-CCTTGAGGCTCAAC
110672217 TCACCTCTCGCAATATGAGTTG-A-TTTTTTTGAAAAATATAAATTT
195 TCACCTCTCGCAATATGAGTTGAATTTTTTTTGAAAAATATAAATTT
110672262 AAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCTCTCACAGTATGAGTT
1 AAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCTCTCACAGTATGAGTT
**
110672327 GATTTTTTGAAAGACAAAAATTGAAAATACCTCA--ATGTGTCTTGAGGCTCAACTCACCTCTCG
66 GATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGT-T-TTGAGGCTCAACTCATTTCTCG
110672390 CAATATGAGTTGA--TTTTTTTGA-AACAGAAAT
129 CAATATGAGTTGATTTTTTTTTGACAACAGAAAT
110672421 AAAAACATCA
Statistics
Matches: 373, Mismatches: 19, Indels: 18
0.91 0.05 0.04
Matches are distributed among these distances:
236 9 0.02
237 12 0.03
238 1 0.00
239 151 0.40
240 73 0.20
241 69 0.18
242 8 0.02
243 50 0.13
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (241 bp):
AAAAGCAGAAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCTCTCACAGTATGAGTT
GATTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTTTTGAGGCTCAACTCATTTCTCGCA
ATATGAGTTGATTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGCCTTGAGGCTCAACT
CACCTCTCGCAATATGAGTTGAATTTTTTTTGAAAAATATAAATTT
Found at i:110672359 original size:74 final size:75
Alignment explanation
Indices: 110672270--110672413 Score: 227
Period size: 74 Copynumber: 1.9 Consensus size: 75
110672260 TTAAAAGCAG
* * *
110672270 AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCTCTCACAGTATGAGTTGA-TTTTT
1 AAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTT
110672334 TGAAAGACAA
66 TGAAAGACAA
* * *
110672344 AAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTT
110672409 TGAAA
66 TGAAA
110672414 CAGAAATAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
74 53 0.84
75 10 0.16
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (75 bp):
AAATTGAAAATACCTCAACGTGCCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTT
TGAAAGACAA
Found at i:110672397 original size:163 final size:163
Alignment explanation
Indices: 110672105--110672413 Score: 431
Period size: 163 Copynumber: 1.9 Consensus size: 163
110672095 TGAAAGACAA
* ** ** *
110672105 AAATTGAAAATACCTCAGCATGTTTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTT
1 AAATTGAAAATACCTCAACATGCCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGA--TTTT
* * * * *
110672170 TTTTACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
64 TTTGAAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
110672235 GTTGATTTTTTTGAAAAATATAAATTTAAAAGCAG
129 GTTGATTTTTTTGAAAAATATAAATTTAAAAGCAG
* * * *
110672270 AAATTGAAATTACCTCAACGTGCCTTGAGGCTCAACTTACCTCTCACAGTATGAGTTGA-TTTTT
1 AAATTGAAAATACCTCAACATGCCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTT
* *
110672334 TGAAAGACAAAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
66 TGAAA-ACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAG
110672399 TTGATTTTTTTGAAA
130 TTGATTTTTTTGAAA
110672414 CAGAAATAAA
Statistics
Matches: 126, Mismatches: 17, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
162 8 0.06
163 69 0.55
165 49 0.39
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (163 bp):
AAATTGAAAATACCTCAACATGCCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTT
TGAAAACAAAAATTGAAAATACCTCAACGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTTGAAAAATATAAATTTAAAAGCAG
Found at i:110680234 original size:12 final size:12
Alignment explanation
Indices: 110680212--110680247 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
110680202 TGGGATATAC
*
110680212 AATGAATGAATG
1 AATGCATGAATG
*
110680224 GATGCATGAATG
1 AATGCATGAATG
110680236 AATGCATGAATG
1 AATGCATGAATG
110680248 TCAAATGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (12 bp):
AATGCATGAATG
Found at i:110687239 original size:91 final size:91
Alignment explanation
Indices: 110687084--110687266 Score: 366
Period size: 91 Copynumber: 2.0 Consensus size: 91
110687074 CCTCACCTCC
110687084 ACTACTCACTTTACTCTCTAAAACTTAGTGATTTAATTTCTATTTGTATTTTCTATTATTTTAAA
1 ACTACTCACTTTACTCTCTAAAACTTAGTGATTTAATTTCTATTTGTATTTTCTATTATTTTAAA
110687149 ATTCCAATCATTATCAAATAATATAT
66 ATTCCAATCATTATCAAATAATATAT
110687175 ACTACTCACTTTACTCTCTAAAACTTAGTGATTTAATTTCTATTTGTATTTTCTATTATTTTAAA
1 ACTACTCACTTTACTCTCTAAAACTTAGTGATTTAATTTCTATTTGTATTTTCTATTATTTTAAA
110687240 ATTCCAATCATTATCAAATAATATAT
66 ATTCCAATCATTATCAAATAATATAT
110687266 A
1 A
110687267 TTAAACAATT
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 92 1.00
ACGTcount: A:0.34, C:0.15, G:0.03, T:0.47
Consensus pattern (91 bp):
ACTACTCACTTTACTCTCTAAAACTTAGTGATTTAATTTCTATTTGTATTTTCTATTATTTTAAA
ATTCCAATCATTATCAAATAATATAT
Found at i:110690194 original size:127 final size:127
Alignment explanation
Indices: 110689914--110690276 Score: 582
Period size: 127 Copynumber: 2.8 Consensus size: 127
110689904 TTCGAGTTTG
* * *
110689914 TTAAGATTCACTCGTTCCAAAGGAATTAAATATCACATTCAGCACGTTAGGACACGATATTTTAA
1 TTAAGATTCACTCGTTCCAAAGGAATAAAATACCACATCCAGCACGTTAGGACACGATATTTTAA
* * * * *
110689979 ACTTCCAAAAAAAACTGAGATCACCTCATGATTTTCAAAACACACAAAACAACTCAAGTTGGATT
66 GCCTCC---AAAAACTGAGATCACCTCATGATTTCCAAAACACGCAAAACAACTCAAGTTGAATT
*
110690044 TTAAGATTCACTCGTTCCAAAGGAATAAAATACCACATCCAGCAAGTTAGGACACGATATTTTAA
1 TTAAGATTCACTCGTTCCAAAGGAATAAAATACCACATCCAGCACGTTAGGACACGATATTTTAA
* **
110690109 GCCTCCAAAAACTGAGATCACCTCATAATTTCCAAAACACGGGAAACAACTCAAGTTGAATT
66 GCCTCCAAAAACTGAGATCACCTCATGATTTCCAAAACACGCAAAACAACTCAAGTTGAATT
*
110690171 TTAAGATTCACTCGTTCAAAAGGAATAAAATACCACATCCAGCACGTTAGGACACGATATTTTAA
1 TTAAGATTCACTCGTTCCAAAGGAATAAAATACCACATCCAGCACGTTAGGACACGATATTTTAA
110690236 GCCTCCAAAAACTGAGATCACCTCATGATTTCCAAAACACG
66 GCCTCCAAAAACTGAGATCACCTCATGATTTCCAAAACACG
110690277 AAACGAAAAT
Statistics
Matches: 218, Mismatches: 15, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
127 153 0.70
130 65 0.30
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.25
Consensus pattern (127 bp):
TTAAGATTCACTCGTTCCAAAGGAATAAAATACCACATCCAGCACGTTAGGACACGATATTTTAA
GCCTCCAAAAACTGAGATCACCTCATGATTTCCAAAACACGCAAAACAACTCAAGTTGAATT
Found at i:110692482 original size:45 final size:45
Alignment explanation
Indices: 110692395--110692482 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 45
110692385 GATGGCTTAA
* * * *
110692395 ATCTGCTCCATAGCCGATACATGGGGATAAGACTCGCCATTTTTT
1 ATCTGCTCCATAGCCGACACATAGAGATAAGACTCGCAATTTTTT
110692440 ATCTGCTCCATAGCCGACACATAGAGATAAGA-TCCGCAATTTT
1 ATCTGCTCCATAGCCGACACATAGAGATAAGACT-CGCAATTTT
110692483 CAGTCTGCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 1 0.03
45 37 0.97
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (45 bp):
ATCTGCTCCATAGCCGACACATAGAGATAAGACTCGCAATTTTTT
Found at i:110692628 original size:177 final size:177
Alignment explanation
Indices: 110692369--110693133 Score: 1172
Period size: 177 Copynumber: 4.3 Consensus size: 177
110692359 CACTGTAACT
* * * * *
110692369 TCAGAGAGATAAAGTTGATGGCTTAAATCTGCTCCATAGCCGATACATGGGGATAAGACTCGCCA
1 TCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCA
* * * * * *
110692434 TTTTTTATCTGCTCCATAGCCGACACATAGAGATAAGATCCGCAATTTTCAGTCTGCTTCCTGCA
66 TTTTCTATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCA
* * *
110692499 ACTTCAGGAAGATAAGACATGTACCTTCAACCCGCTCTCTTGTTACC
131 ACTTCAGGAAGATAAGACCTGTATCTTCAACCTGCTCTCTTGTTACC
*
110692546 TCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCAATAGCCGATACATGGAGATAAGACTCGCCA
1 TCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCA
* * * *
110692611 TTTTCGATCTACTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCTTGCA
66 TTTTCTATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCA
* * * *
110692676 ACTTCAGGAAGATAATACCTGTATCTTCAACTTGCTATCTTGCTACC
131 ACTTCAGGAAGATAAGACCTGTATCTTCAACCTGCTCTCTTGTTACC
* * *
110692723 TTAGAGAGATAAGGCTGGTGGTTAAAATCTACTCCATAGCCGATACATGGAGATAAGACTCGCCA
1 TCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCA
110692788 TTTTCTATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCA
66 TTTTCTATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCA
* *
110692853 AATTCAGGAAGATAAAACCTGTATCTTCAACCTGCTCTCTTGTTACC
131 ACTTCAGGAAGATAAGACCTGTATCTTCAACCTGCTCTCTTGTTACC
* * *
110692900 CCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCTATAGCCGATACATGAAGATAAGACTCGCCA
1 TCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCA
* *
110692965 TTTTTTATCTGCTCCATAGCCAATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCA
66 TTTTCTATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCA
* *
110693030 ACTTCAGCAAGATAAGATCTGTATCTTCAACCTGCTCTCTTGTTACC
131 ACTTCAGGAAGATAAGACCTGTATCTTCAACCTGCTCTCTTGTTACC
* * * *
110693077 TTAAAGAGATAAGGCTGATGGCTAAAAT-TGCTCTATAGCCGATACATGGAGATAAGA
1 TCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGA
110693134 TCTGTAATTT
Statistics
Matches: 537, Mismatches: 51, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
176 28 0.05
177 509 0.95
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (177 bp):
TCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCA
TTTTCTATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTCAGTCTGCTTCCTGCA
ACTTCAGGAAGATAAGACCTGTATCTTCAACCTGCTCTCTTGTTACC
Found at i:110694243 original size:13 final size:13
Alignment explanation
Indices: 110694225--110694250 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
110694215 TCGGCTTCTC
110694225 CTTCTTCTTTTTT
1 CTTCTTCTTTTTT
110694238 CTTCTTCTTTTTT
1 CTTCTTCTTTTTT
110694251 TTAGGTGCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (13 bp):
CTTCTTCTTTTTT
Found at i:110704482 original size:127 final size:127
Alignment explanation
Indices: 110704222--110704584 Score: 557
Period size: 127 Copynumber: 2.8 Consensus size: 127
110704212 TTCGAGTTTG
* *
110704222 TTAAGATTCACTCATTCCAAAAGAACT-AAATACCACATCCAGCACGTTAGGACACGATATTTTA
1 TTAAGATTCACTCGTTCCAAAGGAA-TAAAATACCACATCCAGCACGTTAGGACACGATATTTTA
* * *
110704286 AACTTCCAAAAAAAACTGAGATCACCTCATGATTTCCAAAACATGCGAAACAACTCAAGTTAGAT
65 AGCCTCC---AAAAACTGAGATCACCTCATGATTTCCAAAACACGCGAAACAACTCAAGTTAGAT
110704351 T
127 T
* * * *
110704352 TTAAGATTCACTCGTTCCAAAGGAATAAAATACAACATCCAACACATTGGGACACGATATTTTAA
1 TTAAGATTCACTCGTTCCAAAGGAATAAAATACCACATCCAGCACGTTAGGACACGATATTTTAA
* *
110704417 GCCTCCAAAAACTGAGATCACCTCATGATTTCCAAAACACGCGAAAGAACTCAAGTTGGATT
66 GCCTCCAAAAACTGAGATCACCTCATGATTTCCAAAACACGCGAAACAACTCAAGTTAGATT
*
110704479 TTAAGATTCTCTCGTTCCAAAGGAATAAAATACCACATCCAGCACGTTAGGACACGATATTTTAA
1 TTAAGATTCACTCGTTCCAAAGGAATAAAATACCACATCCAGCACGTTAGGACACGATATTTTAA
* *
110704544 GCCTCCAAAAACTGAGGTCACCTCATGATTTTCAAAACACG
66 GCCTCCAAAAACTGAGATCACCTCATGATTTCCAAAACACG
110704585 AGACGAAAAT
Statistics
Matches: 214, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
127 152 0.71
129 1 0.00
130 61 0.29
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.25
Consensus pattern (127 bp):
TTAAGATTCACTCGTTCCAAAGGAATAAAATACCACATCCAGCACGTTAGGACACGATATTTTAA
GCCTCCAAAAACTGAGATCACCTCATGATTTCCAAAACACGCGAAACAACTCAAGTTAGATT
Found at i:110705271 original size:29 final size:30
Alignment explanation
Indices: 110705197--110705267 Score: 96
Period size: 27 Copynumber: 2.5 Consensus size: 30
110705187 AAGAAAGCCC
110705197 AAAT-TATACATAAATAAATTTTAAAGAGA
1 AAATATATACATAAATAAATTTTAAAGAGA
*
110705226 ATATATATACAT-AATAAA-TTTAAA-AGA
1 AAATATATACATAAATAAATTTTAAAGAGA
*
110705253 AAATATTTACATAAA
1 AAATATATACATAAA
110705268 ATAATATGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 13 0.35
28 8 0.22
29 9 0.24
30 7 0.19
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (30 bp):
AAATATATACATAAATAAATTTTAAAGAGA
Found at i:110707827 original size:23 final size:23
Alignment explanation
Indices: 110707801--110707848 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
110707791 CTGAAACAAA
*
110707801 TAAATATAGTTTAACTGGGAGAT
1 TAAATAGAGTTTAACTGGGAGAT
110707824 TAAATAGAGTTTAACTGGGAGAT
1 TAAATAGAGTTTAACTGGGAGAT
110707847 TA
1 TA
110707849 TCTTTCAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.33
Consensus pattern (23 bp):
TAAATAGAGTTTAACTGGGAGAT
Found at i:110710644 original size:23 final size:23
Alignment explanation
Indices: 110710618--110710662 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
110710608 TGGGTATGTA
*
110710618 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
110710641 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
110710663 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:110711139 original size:9 final size:10
Alignment explanation
Indices: 110711119--110711151 Score: 50
Period size: 9 Copynumber: 3.3 Consensus size: 10
110711109 ATTGCGTGTT
110711119 TGAATAGAAA
1 TGAATAGAAA
110711129 TGAAT-GAAA
1 TGAATAGAAA
110711138 TGAATAGGAAA
1 TGAATA-GAAA
110711149 TGA
1 TGA
110711152 GAAATGAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.43
10 5 0.24
11 7 0.33
ACGTcount: A:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (10 bp):
TGAATAGAAA
Found at i:110711465 original size:26 final size:25
Alignment explanation
Indices: 110711396--110711495 Score: 101
Period size: 26 Copynumber: 3.8 Consensus size: 25
110711386 ATATTTTCTT
*
110711396 AAAATTTTACCACGGGTATAATCGTC
1 AAAATTTTACCA-GGGTAAAATCGTC
** *
110711422 AAAATTTTATGAGGGGTAAAATCATC
1 AAAATTTTACCA-GGGTAAAATCGTC
*
110711448 AAAATTTTACCAGAGGTAAAATTGTC
1 AAAATTTTACCAG-GGTAAAATCGTC
* *
110711474 AAAAAATTTACTAGGGTAAAAT
1 -AAAATTTTACCAGGGTAAAAT
110711496 AGGGATGAGA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
25 1 0.02
26 49 0.80
27 11 0.18
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (25 bp):
AAAATTTTACCAGGGTAAAATCGTC
Found at i:110711491 original size:52 final size:52
Alignment explanation
Indices: 110711396--110711495 Score: 125
Period size: 52 Copynumber: 1.9 Consensus size: 52
110711386 ATATTTTCTT
* *
110711396 AAAATTTTACCACGGGTATAATCGTCAAAATTTTATGAGGGGTAAAATCATC
1 AAAATTTTACCACGGGTAAAATCGTCAAAAATTTATGAGGGGTAAAATCATC
*
110711448 AAAATTTTACCA-GAGGTAAAATTGTCAAAAAATTTACT-A-GGGTAAAAT
1 AAAATTTTACCACG-GGTAAAATCGTC-AAAAATTTA-TGAGGGGTAAAAT
110711496 AGGGATGAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
51 1 0.02
52 31 0.74
53 9 0.21
54 1 0.02
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (52 bp):
AAAATTTTACCACGGGTAAAATCGTCAAAAATTTATGAGGGGTAAAATCATC
Found at i:110717137 original size:46 final size:47
Alignment explanation
Indices: 110717075--110717210 Score: 139
Period size: 47 Copynumber: 2.9 Consensus size: 47
110717065 TTATTTTTCA
* * **
110717075 TAAGTCTCACCCATGTGTCTGGGAGTAAAGTCAC-TTATTACCTTTTG
1 TAAGCCTC-CCCATGTGTCTGGGAGTAAAGTCACTTTATTAACTTCCG
* * *
110717122 TAAGCCTCCCCATGTGTCTAGGAGCAATGTCACTTTATTAACTTCCG
1 TAAGCCTCCCCATGTGTCTGGGAGTAAAGTCACTTTATTAACTTCCG
* * * *
110717169 TAAGCCTCCTCTCATGCGTTTGGAAGTAAGGTCACTTTATTA
1 TAAGCCTCC-C-CATGTGTCTGGGAGTAAAGTCACTTTATTA
110717211 TTTTTCGTAA
Statistics
Matches: 73, Mismatches: 13, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
46 22 0.30
47 26 0.36
48 1 0.01
49 24 0.33
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (47 bp):
TAAGCCTCCCCATGTGTCTGGGAGTAAAGTCACTTTATTAACTTCCG
Found at i:110717220 original size:49 final size:48
Alignment explanation
Indices: 110717096--110717384 Score: 159
Period size: 48 Copynumber: 6.0 Consensus size: 48
110717086 CATGTGTCTG
* * * * *
110717096 GGAGTAAAGTCAC-TTATTACCTTTTGTAAGCCTCC-C-CATGTGTCTA
1 GGAGTAAGGTCACTTTATTATCTTTCGTAAGCCTCCTCTCATGCGT-TT
* * * *
110717142 GGAGCAATGTCACTTTATTAACTTCCGTAAGCCTCCTCTCATGCGTTT
1 GGAGTAAGGTCACTTTATTATCTTTCGTAAGCCTCCTCTCATGCGTTT
* ** * *
110717190 GGAAGTAAGGTCACTTTATTATTTTTCGTAAGTTTCC-CTCAATGCATCTA
1 GG-AGTAAGGTCACTTTATTATCTTTCGTAAGCCTCCTCTC-ATGCGT-TT
* * * * *
110717240 GGAGCATA-GTCACTTTACTA-CCTTCAGTAAG-CTTCTCTGC-TGTGTTT
1 GGAGTA-AGGTCACTTTATTATCTTTC-GTAAGCCTCCTCT-CATGCGTTT
* * * *
110717287 GAGAGTAGGGTCATTTTATTA-CTTTTCGTTAGCCT-CTCTCATGCGTCTC
1 G-GAGTAAGGTCACTTTATTATC-TTTCGTAAGCCTCCTCTCATGCGT-TT
* * * * *
110717336 GGAGTAGGGCCACTTTATTATCTTTCATAAGCCTCTTC-CATTCGTTT
1 GGAGTAAGGTCACTTTATTATCTTTCGTAAGCCTCCTCTCATGCGTTT
110717383 GG
1 GG
110717385 GAGCAAGACT
Statistics
Matches: 185, Mismatches: 40, Indels: 35
0.71 0.15 0.13
Matches are distributed among these distances:
46 11 0.06
47 25 0.14
48 75 0.41
49 69 0.37
50 5 0.03
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (48 bp):
GGAGTAAGGTCACTTTATTATCTTTCGTAAGCCTCCTCTCATGCGTTT
Found at i:110717252 original size:98 final size:97
Alignment explanation
Indices: 110717097--110717315 Score: 227
Period size: 97 Copynumber: 2.3 Consensus size: 97
110717087 ATGTGTCTGG
* ** **
110717097 GAGTAAAGTCAC-TTATTACCTTTT-GTAAGCCTCCC-C-ATGTGTCTAGGAGCAATGTCACTTT
1 GAGTAAGGTCACTTTATTA-CTTTTCGTAAGTTTCCCTCAATGCATCTAGGAGCAATGTCACTTT
* *
110717158 ATTAACTTCCGTAAGCCTCCTCT-CATGCGTTTG-
65 ACTAACTTCAGTAAG-CTCCTCTGC-TGCGTTTGA
*
110717191 GAAGTAAGGTCACTTTATTATTTTTCGTAAGTTTCCCTCAATGCATCTAGGAGC-ATAGTCACTT
1 G-AGTAAGGTCACTTTATTACTTTTCGTAAGTTTCCCTCAATGCATCTAGGAGCAAT-GTCACTT
* * *
110717255 TACTACCTTCAGTAAGCTTCTCTGCTGTGTTTGA
64 TACTAACTTCAGTAAGCTCCTCTGCTGCGTTTGA
* *
110717289 GAGTAGGGTCATTTTATTACTTTTCGT
1 GAGTAAGGTCACTTTATTACTTTTCGT
110717316 TAGCCTCTCT
Statistics
Matches: 103, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
94 1 0.01
95 14 0.14
96 15 0.15
97 39 0.38
98 34 0.33
ACGTcount: A:0.22, C:0.21, G:0.18, T:0.38
Consensus pattern (97 bp):
GAGTAAGGTCACTTTATTACTTTTCGTAAGTTTCCCTCAATGCATCTAGGAGCAATGTCACTTTA
CTAACTTCAGTAAGCTCCTCTGCTGCGTTTGA
Found at i:110719218 original size:6 final size:6
Alignment explanation
Indices: 110719207--110719234 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
110719197 GCATCAAAAG
110719207 GCCATT GCCATT GCCATT GCCATT GCCA
1 GCCATT GCCATT GCCATT GCCATT GCCA
110719235 CAGTATTTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.36, G:0.18, T:0.29
Consensus pattern (6 bp):
GCCATT
Found at i:110722698 original size:29 final size:30
Alignment explanation
Indices: 110722645--110722724 Score: 83
Period size: 29 Copynumber: 2.6 Consensus size: 30
110722635 GAATTGGATC
110722645 AAATCAAAATTATATATATAAAATTACACA
1 AAATCAAAATTATATATATAAAATTACACA
* *
110722675 AAATCAAAATTCAT-T-TATACAATTACATA
1 AAATCAAAATT-ATATATATAAAATTACACA
*
110722704 TTAAATCATAAATCATATATA
1 --AAATCA-AAATTATATATA
110722725 ATTATGATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
29 12 0.29
30 12 0.29
31 10 0.24
32 5 0.12
33 2 0.05
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (30 bp):
AAATCAAAATTATATATATAAAATTACACA
Found at i:110727109 original size:43 final size:43
Alignment explanation
Indices: 110727058--110727177 Score: 134
Period size: 43 Copynumber: 2.8 Consensus size: 43
110727048 TGGCTTCGAA
**
110727058 CACAACCTACATGGTTGCTTGTCTGCAAAATTGATGGTTTATC
1 CACAACCTACATGGCAGCTTGTCTGCAAAATTGATGGTTTATC
* * * * *
110727101 CACAACCTACATAGCAGTTTGTTTG-AGAATTTGGTGGTTTATC
1 CACAACCTACATGGCAGCTTGTCTGCA-AAATTGATGGTTTATC
* *
110727144 CACAACTTACATGGCAACTTGTCTGCAAATATTG
1 CACAACCTACATGGCAGCTTGTCTGCAAA-ATTG
110727178 GTGGCTTCGA
Statistics
Matches: 61, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
42 1 0.02
43 56 0.92
44 4 0.07
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (43 bp):
CACAACCTACATGGCAGCTTGTCTGCAAAATTGATGGTTTATC
Found at i:110734068 original size:3 final size:3
Alignment explanation
Indices: 110734060--110734098 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
110734050 TATCTAGTTG
110734060 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
110734099 TTGGATTTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:110734289 original size:15 final size:15
Alignment explanation
Indices: 110734269--110734316 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
110734259 TCAAAGATGG
110734269 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
110734284 GTTTATGTAGATGGA
1 GTTTATGGATATGAA
*
110734299 -TGTATGGATATGAA
1 GTTTATGGATATGAA
110734313 GTTT
1 GTTT
110734317 TTGTAGGTTC
Statistics
Matches: 24, Mismatches: 8, Indels: 2
0.71 0.24 0.06
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:110734296 original size:29 final size:29
Alignment explanation
Indices: 110734263--110734322 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
110734253 AAGGGTTCAA
* *
110734263 AGATGGGTTTATGGATATGAAGTTTATGT
1 AGATGGATGTATGGATATGAAGTTTATGT
*
110734292 AGATGGATGTATGGATATGAAGTTTTTGT
1 AGATGGATGTATGGATATGAAGTTTATGT
110734321 AG
1 AG
110734323 GTTCGGTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (29 bp):
AGATGGATGTATGGATATGAAGTTTATGT
Found at i:110736234 original size:28 final size:27
Alignment explanation
Indices: 110736203--110736272 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
110736193 AATTTTATAA
* **
110736203 TATACATTTTTATAAATTGATTTGCTTT
1 TATATATTTTTATAAATT-ATAAGCTTT
* *
110736231 TATATATTTGTATATATTATAAGCTTT
1 TATATATTTTTATAAATTATAAGCTTT
*
110736258 TATATATTTTGATAA
1 TATATATTTTTATAA
110736273 TTTAAAAATT
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
27 19 0.56
28 15 0.44
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (27 bp):
TATATATTTTTATAAATTATAAGCTTT
Found at i:110746592 original size:21 final size:21
Alignment explanation
Indices: 110746558--110746597 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
110746548 TATTTTTTTA
*
110746558 TTAATTTCTTTTTCTCAAATAT
1 TTAATTTCTGTTTC-CAAATAT
110746580 TTAATTT-TGTTTCCAAAT
1 TTAATTTCTGTTTCCAAAT
110746598 CTTTTTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 5 0.29
22 7 0.41
ACGTcount: A:0.28, C:0.12, G:0.03, T:0.57
Consensus pattern (21 bp):
TTAATTTCTGTTTCCAAATAT
Found at i:110751293 original size:3 final size:3
Alignment explanation
Indices: 110751285--110751311 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
110751275 CATTTCTACC
110751285 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
110751312 TTAGTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:110755609 original size:8 final size:8
Alignment explanation
Indices: 110755596--110755635 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
110755586 AAAGAAAGAT
110755596 AAAAAATA
1 AAAAAATA
110755604 AAAAAATAA
1 AAAAAAT-A
110755613 AAAAAATA
1 AAAAAATA
*
110755621 AAATAATA
1 AAAAAATA
*
110755629 ATAAAAT
1 AAAAAAT
110755636 CAATAATATC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
8 20 0.71
9 8 0.29
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (8 bp):
AAAAAATA
Found at i:110755615 original size:9 final size:9
Alignment explanation
Indices: 110755556--110755634 Score: 70
Period size: 9 Copynumber: 8.3 Consensus size: 9
110755546 AATTGAAGAG
110755556 AAAAAAATA
1 AAAAAAATA
* *
110755565 AAACAACTA
1 AAAAAAATA
110755574 AAACAAAATTA
1 AAA-AAAA-TA
*
110755585 AAAAGAAAGA
1 AAAA-AAATA
*
110755595 TAAAAAAT-
1 AAAAAAATA
110755603 AAAAAAATA
1 AAAAAAATA
110755612 AAAAAAATA
1 AAAAAAATA
110755621 AAATAATAATA
1 AAA-AA-AATA
110755632 AAA
1 AAA
110755635 TCAATAATAT
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
8 7 0.12
9 25 0.45
10 9 0.16
11 15 0.27
ACGTcount: A:0.80, C:0.04, G:0.03, T:0.14
Consensus pattern (9 bp):
AAAAAAATA
Found at i:110755618 original size:17 final size:17
Alignment explanation
Indices: 110755556--110755634 Score: 70
Period size: 17 Copynumber: 4.3 Consensus size: 17
110755546 AATTGAAGAG
*
110755556 AAAAAAATAAAACAACTA
1 AAAAAAATAAAA-AAATA
110755574 AAACAAAATTAAAAAGAA-A
1 AAA-AAAA-TAAAAA-AATA
110755593 GATAAAAAATAAAAAAATA
1 -A-AAAAAATAAAAAAATA
*
110755612 AAAAAAATAAAATAATA
1 AAAAAAATAAAAAAATA
110755629 ATAAAA
1 A-AAAA
110755635 TCAATAATAT
Statistics
Matches: 52, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
17 16 0.31
18 10 0.19
19 13 0.25
20 11 0.21
21 2 0.04
ACGTcount: A:0.80, C:0.04, G:0.03, T:0.14
Consensus pattern (17 bp):
AAAAAAATAAAAAAATA
Found at i:110755706 original size:22 final size:21
Alignment explanation
Indices: 110755680--110755733 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
110755670 TGATAATAGT
110755680 AAAATAAAAAAAA-TACGAAAGA
1 AAAATAAAAAAAATTA--AAAGA
*
110755702 AAAATAGAAAAAAATTAAAATA
1 AAAATA-AAAAAAATTAAAAGA
110755724 AAAATAAAAA
1 AAAATAAAAA
110755734 TAAAAGAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 4 0.14
22 16 0.55
23 7 0.24
24 2 0.07
ACGTcount: A:0.80, C:0.02, G:0.06, T:0.13
Consensus pattern (21 bp):
AAAATAAAAAAAATTAAAAGA
Found at i:110755721 original size:16 final size:16
Alignment explanation
Indices: 110755702--110755777 Score: 89
Period size: 16 Copynumber: 4.6 Consensus size: 16
110755692 ATACGAAAGA
*
110755702 AAAATAGAAAAAAATT
1 AAAATATAAAAAAATT
* *
110755718 AAAATAAAAATAAAAAT
1 AAAATATAAA-AAAATT
*
110755735 AAAAGAATATAAAAAATT
1 AAAA-TATA-AAAAAATT
110755753 AAAATATAAAAAAATT
1 AAAATATAAAAAAATT
110755769 AAAATATAA
1 AAAATATAA
110755778 GTATAAGAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
16 26 0.51
17 12 0.24
18 11 0.22
19 2 0.04
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (16 bp):
AAAATATAAAAAAATT
Found at i:110755832 original size:22 final size:20
Alignment explanation
Indices: 110755814--110755865 Score: 68
Period size: 22 Copynumber: 2.5 Consensus size: 20
110755804 AATTAATTAG
110755814 TAAAATAAAAATAAATAATA
1 TAAAATAAAAATAAATAATA
* *
110755834 TAACAATTACAAATAAATAAAA
1 TAA-AA-TAAAAATAAATAATA
110755856 TAAAATAAAA
1 TAAAATAAAA
110755866 TTGGGGTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 7 0.26
21 4 0.15
22 16 0.59
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (20 bp):
TAAAATAAAAATAAATAATA
Found at i:110756185 original size:30 final size:30
Alignment explanation
Indices: 110756144--110756201 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
110756134 ATGTGAGATC
* * *
110756144 CCACACGCCCGTGTGGCTAGGCCGTGTGCT
1 CCACACACCCGTGTGGCCAGGCCATGTGCT
110756174 CCACACACCCGTGTGGCCAGGCCATGTG
1 CCACACACCCGTGTGGCCAGGCCATGTG
110756202 GGTCAAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.14, C:0.38, G:0.31, T:0.17
Consensus pattern (30 bp):
CCACACACCCGTGTGGCCAGGCCATGTGCT
Done.