Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 4 of 185
Found at i:989442 original size:61 final size:61
Alignment explanation
Indices: 989377--989564 Score: 199
Period size: 61 Copynumber: 3.1 Consensus size: 61
989367 GTTAAATTAT
989377 ATTTTATAGTATCATATATTATGATTTTAGTAAATTGATATAAGAATATTGATTATTAAGA
1 ATTTTATAGTATCATATATTATGATTTTAGTAAATTGATATAAGAATATTGATTATTAAGA
* * * * ** * * * * *
989438 ATTTTATTA-AATTATATATTTTAATTAAAATATATTTA-ATAATAAT-TATG-TTAAATT-A-T
1 ATTTTA-TAGTATCATATATTATGATTTTAGTAAATTGATATAAGAATAT-TGATT--ATTAAGA
989497 ATTTTATAGTATCATATATTATGATTTTAGTAAATTGATATAAGAATATTGATTATTAAGA
1 ATTTTATAGTATCATATATTATGATTTTAGTAAATTGATATAAGAATATTGATTATTAAGA
989558 ATTTTAT
1 ATTTTAT
989565 TAAATTATAT
Statistics
Matches: 95, Mismatches: 22, Indels: 20
0.69 0.16 0.15
Matches are distributed among these distances:
58 2 0.02
59 32 0.34
60 20 0.21
61 39 0.41
62 2 0.02
ACGTcount: A:0.42, C:0.01, G:0.08, T:0.49
Consensus pattern (61 bp):
ATTTTATAGTATCATATATTATGATTTTAGTAAATTGATATAAGAATATTGATTATTAAGA
Found at i:989466 original size:18 final size:17
Alignment explanation
Indices: 989438--989472 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
989428 ATTATTAAGA
*
989438 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
989455 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
989473 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:989846 original size:16 final size:16
Alignment explanation
Indices: 989825--989873 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
989815 TTGAATTGTT
989825 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
989841 ATTACGCCTCTATCCC
1 ATTACGCCTCTATTCC
989857 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
989873 A
1 A
989874 ATACAGCGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.20, C:0.39, G:0.06, T:0.35
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:990889 original size:21 final size:21
Alignment explanation
Indices: 990865--990931 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
990855 AAAAAAACAA
990865 AACAAAGAAAGATGAAAATGT
1 AACAAAGAAAGATGAAAATGT
** *
990886 AAC-AA-ATTGAT-AACAT-T
1 AACAAAGAAAGATGAAAATGT
990903 AATACAAAGAAAGATGAAAATGT
1 -A-ACAAAGAAAGATGAAAATGT
990926 AACAAA
1 AACAAA
990932 TTGATAACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
17 1 0.03
18 5 0.15
19 6 0.18
20 4 0.12
21 12 0.35
22 5 0.15
23 1 0.03
ACGTcount: A:0.61, C:0.07, G:0.13, T:0.18
Consensus pattern (21 bp):
AACAAAGAAAGATGAAAATGT
Found at i:990921 original size:40 final size:40
Alignment explanation
Indices: 990866--990945 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
990856 AAAAAACAAA
990866 ACAAAGAAAGATGAAAATGTAACAAATTGATAACATTAAT
1 ACAAAGAAAGATGAAAATGTAACAAATTGATAACATTAAT
990906 ACAAAGAAAGATGAAAATGTAACAAATTGATAACATTAAT
1 ACAAAGAAAGATGAAAATGTAACAAATTGATAACATTAAT
990946 GACTACTATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.57, C:0.07, G:0.12, T:0.23
Consensus pattern (40 bp):
ACAAAGAAAGATGAAAATGTAACAAATTGATAACATTAAT
Found at i:990997 original size:30 final size:31
Alignment explanation
Indices: 990922--990998 Score: 84
Period size: 33 Copynumber: 2.5 Consensus size: 31
990912 AAAGATGAAA
**
990922 ATGTAACAAATTGATAACATTAATGACTACT
1 ATGTAACATTTTGATAACATTAATGACTACT
* * *
990953 ATGTAACAAGTTTTGATAACATTAGTTACTATT
1 ATGTAAC-A-TTTTGATAACATTAATGACTACT
990986 ATGTAAC-TTTTGA
1 ATGTAACATTTTGA
990999 AAGTTGGGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
30 6 0.15
31 7 0.18
32 1 0.03
33 25 0.64
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (31 bp):
ATGTAACATTTTGATAACATTAATGACTACT
Found at i:993978 original size:120 final size:118
Alignment explanation
Indices: 993811--994054 Score: 298
Period size: 120 Copynumber: 2.1 Consensus size: 118
993801 TTTCACAGGC
* * * *
993811 AAGCCTACAAGAAAATTACTAACTGATTCCATCTTTATGTTTCATGTATTAGC-AAATATTTCCT
1 AAGCCTACAAGAAAATTACTAACTGATTCCATCTTTATGGTTCATGTATTAACAAAAAAGTTCCT
*
993875 TTAATCTTTCACTAATCTTT-TACACCATTTTTTTCTCATTCATTACCTTCAGAAAT
66 TTAATCTTTCACTAATCTTTCGA-ACC---TTTTTCTCATTCATTACCTTCAGAAAT
* * * *
993931 AAGCCTGCAAGTAAA-TAGCTAATTGGTTCCATCTTTA-GGTTCAATGTATTAACAAAAAAGTTC
1 AAGCCTACAAGAAAATTA-CTAACTGATTCCATCTTTATGGTTC-ATGTATTAACAAAAAAGTTC
* * *
993994 CTTTAATCTTTCATTAATCTTTCGAACCTTTTTCTCATTCATTACTTTCATAAAT
64 CTTTAATCTTTCACTAATCTTTCGAACCTTTTTCTCATTCATTACCTTCAGAAAT
994049 AAGCCT
1 AAGCCT
994055 TACTTCCAAT
Statistics
Matches: 108, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
118 31 0.29
119 6 0.06
120 39 0.36
121 31 0.29
122 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (118 bp):
AAGCCTACAAGAAAATTACTAACTGATTCCATCTTTATGGTTCATGTATTAACAAAAAAGTTCCT
TTAATCTTTCACTAATCTTTCGAACCTTTTTCTCATTCATTACCTTCAGAAAT
Found at i:997837 original size:24 final size:24
Alignment explanation
Indices: 997810--997855 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
997800 GAAAGAACAT
* *
997810 GATAGAGATGAAGATTAAGATGGA
1 GATAGAGATGAAAATGAAGATGGA
*
997834 GATAGAGGTGAAAATGAAGATG
1 GATAGAGATGAAAATGAAGATG
997856 ATAAGAGGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.35, T:0.20
Consensus pattern (24 bp):
GATAGAGATGAAAATGAAGATGGA
Found at i:998444 original size:16 final size:17
Alignment explanation
Indices: 998423--998465 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
998413 TTAATCATTT
998423 TAATATTAAATT-AATA
1 TAATATTAAATTAAATA
* *
998439 TAATA-TAGATTAAATT
1 TAATATTAAATTAAATA
998455 TAATATTAAAT
1 TAATATTAAAT
998466 CTTATTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 5 0.23
16 13 0.59
17 4 0.18
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
TAATATTAAATTAAATA
Found at i:998550 original size:11 final size:11
Alignment explanation
Indices: 998536--998611 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
998526 GATAATAACT
998536 TTAATATTAAA
1 TTAATATTAAA
998547 TTAATA--AAA
1 TTAATATTAAA
*
998556 -TACTATTAAGA
1 TTAATATTAA-A
*
998567 TAAATATTAAA
1 TTAATATTAAA
998578 TTTAAT-TTAATA
1 -TTAATATTAA-A
998590 TTAAATTATTAAA
1 TT-AA-TATTAAA
*
998603 ATAATATTA
1 TTAATATTA
998612 TTTTTGAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
8 4 0.08
9 3 0.06
10 2 0.04
11 19 0.37
12 16 0.31
13 3 0.06
14 4 0.08
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:998551 original size:20 final size:19
Alignment explanation
Indices: 998504--998553 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
998494 CAAAATAAAC
998504 ATTAAATT-A-AATTTAAT
1 ATTAAATTAATAATTTAAT
998521 ATTAAGA-TAATAACTTTAAT
1 ATTAA-ATTAATAA-TTTAAT
998541 ATTAAATTAATAA
1 ATTAAATTAATAA
998554 AATACTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 6 0.21
18 2 0.07
19 3 0.11
20 17 0.61
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
ATTAAATTAATAATTTAAT
Found at i:998953 original size:3 final size:3
Alignment explanation
Indices: 998945--998982 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
998935 GATAATCATG
998945 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
998983 AATTTATGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1002172 original size:19 final size:19
Alignment explanation
Indices: 1002148--1002187 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
1002138 AAAATATCAT
*
1002148 ATTAATTTTAATTAACTTG
1 ATTAATTTAAATTAACTTG
*
1002167 ATTAATTTAAATTTACTTG
1 ATTAATTTAAATTAACTTG
1002186 AT
1 AT
1002188 CAAAATTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.53
Consensus pattern (19 bp):
ATTAATTTAAATTAACTTG
Found at i:1005300 original size:27 final size:27
Alignment explanation
Indices: 1005270--1005365 Score: 140
Period size: 27 Copynumber: 3.6 Consensus size: 27
1005260 CCTAATATTT
1005270 GTAAAATGATCGTAATGCCCCTGTAGG
1 GTAAAATGATCGTAATGCCCCTGTAGG
*
1005297 GTAAAATGATCGTAATGCCCCTATAGG
1 GTAAAATGATCGTAATGCCCCTGTAGG
* * *
1005324 GTAAAATAACCGTGATGCCCCTGTA-G
1 GTAAAATGATCGTAATGCCCCTGTAGG
*
1005350 GTAAAATGATTGTAAT
1 GTAAAATGATCGTAAT
1005366 ACCTCTGTTA
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 13 0.22
27 47 0.78
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (27 bp):
GTAAAATGATCGTAATGCCCCTGTAGG
Found at i:1005464 original size:24 final size:24
Alignment explanation
Indices: 1005432--1005493 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
1005422 CCTTCGAGGT
* * *
1005432 TAAACGATTGATTTATCTATGGTG
1 TAAATGATTGATTTATCCATGATG
* *
1005456 TAAATGATTGATTTGTCCGTGATG
1 TAAATGATTGATTTATCCATGATG
*
1005480 TAAATGACTGATTT
1 TAAATGATTGATTT
1005494 GTTTGTGATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (24 bp):
TAAATGATTGATTTATCCATGATG
Found at i:1005494 original size:24 final size:24
Alignment explanation
Indices: 1005440--1005564 Score: 119
Period size: 24 Copynumber: 5.2 Consensus size: 24
1005430 GTTAAACGAT
* * * *
1005440 TGATTTATCTATGGTGTAAATGAT
1 TGATTTGTCTGTGATGTAAATGAC
*
1005464 TGATTTGTCCGTGATGTAAATGAC
1 TGATTTGTCTGTGATGTAAATGAC
* *
1005488 TGATTTGTTTGTGATTTAAATGAC
1 TGATTTGTCTGTGATGTAAATGAC
1005512 TGATTTGTCTGTGATTGGT--ATGAC
1 TGATTTGTCTGTGA-T-GTAAATGAC
* * **
1005536 TGATTTGTTTGTGATTTGTATGAC
1 TGATTTGTCTGTGATGTAAATGAC
1005560 TGATT
1 TGATT
1005565 CTGAGCATGG
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
22 1 0.01
23 1 0.01
24 81 0.95
25 1 0.01
26 1 0.01
ACGTcount: A:0.22, C:0.06, G:0.24, T:0.47
Consensus pattern (24 bp):
TGATTTGTCTGTGATGTAAATGAC
Found at i:1005504 original size:11 final size:11
Alignment explanation
Indices: 1005488--1005557 Score: 50
Period size: 11 Copynumber: 6.0 Consensus size: 11
1005478 TGTAAATGAC
*
1005488 TGATTTGTTTG
1 TGATTTGTATG
**
1005499 TGATTTAAATG
1 TGATTTGTATG
*
1005510 ACTGATTTGTCTG
1 --TGATTTGTATG
*
1005523 TGATTGGTATG
1 TGATTTGTATG
*
1005534 ACTGATTTGTTTG
1 --TGATTTGTATG
1005547 TGATTTGTATG
1 TGATTTGTATG
1005558 ACTGATTCTG
Statistics
Matches: 44, Mismatches: 11, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
11 27 0.61
13 17 0.39
ACGTcount: A:0.19, C:0.04, G:0.26, T:0.51
Consensus pattern (11 bp):
TGATTTGTATG
Found at i:1005508 original size:48 final size:48
Alignment explanation
Indices: 1005456--1005564 Score: 150
Period size: 48 Copynumber: 2.3 Consensus size: 48
1005446 ATCTATGGTG
*
1005456 TAAATGATTGATTTGTCCGTGA-T-GTAAATGACTGATTTGTTTGTGATT
1 TAAATGACTGATTTGTCCGTGATTGGT--ATGACTGATTTGTTTGTGATT
*
1005504 TAAATGACTGATTTGTCTGTGATTGGTATGACTGATTTGTTTGTGATT
1 TAAATGACTGATTTGTCCGTGATTGGTATGACTGATTTGTTTGTGATT
**
1005552 TGTATGACTGATT
1 TAAATGACTGATT
1005565 CTGAGCATGG
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
48 52 0.95
49 1 0.02
50 2 0.04
ACGTcount: A:0.23, C:0.06, G:0.24, T:0.47
Consensus pattern (48 bp):
TAAATGACTGATTTGTCCGTGATTGGTATGACTGATTTGTTTGTGATT
Found at i:1005718 original size:26 final size:26
Alignment explanation
Indices: 1005681--1005730 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
1005671 TGGTCACATA
*
1005681 TACTGTTACTGGCAGCTTTGCTGCAG
1 TACTGTTACTGGAAGCTTTGCTGCAG
*
1005707 TACTGTTGCTGGAAGCTTTGCTGC
1 TACTGTTACTGGAAGCTTTGCTGC
1005731 GATGCTACTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.14, C:0.22, G:0.28, T:0.36
Consensus pattern (26 bp):
TACTGTTACTGGAAGCTTTGCTGCAG
Found at i:1005859 original size:22 final size:21
Alignment explanation
Indices: 1005834--1005898 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
1005824 ATTACTGTAC
1005834 TTATGGCTAGTAGCCATTCTGT
1 TTATGGCTA-TAGCCATTCTGT
* * * *
1005856 TTATAGCTTATAGCTATCCTAT
1 TTATGGC-TATAGCCATTCTGT
*
1005878 TTATGGCTCTTAGCCATTCTG
1 TTATGGCT-ATAGCCATTCTG
1005899 ATCACTGGCA
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
21 1 0.03
22 29 0.91
23 2 0.06
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.43
Consensus pattern (21 bp):
TTATGGCTATAGCCATTCTGT
Found at i:1010007 original size:19 final size:19
Alignment explanation
Indices: 1009955--1010026 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 19
1009945 AAAATTACAA
* *
1009955 AAAAAATCAAAACAATTTT
1 AAAAATTCAAAATAATTTT
* *
1009974 CAAAATTTGAAAATAATTTT
1 -AAAAATTCAAAATAATTTT
*
1009994 TAAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
1010013 AAAAATTCTAAAAT
1 AAAAATTC-AAAAT
1010027 TTTTATTTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
18 4 0.10
19 18 0.43
20 20 0.48
ACGTcount: A:0.57, C:0.07, G:0.01, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:1010015 original size:18 final size:20
Alignment explanation
Indices: 1009995--1010032 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1009985 AATAATTTTT
1009995 AAAATTC-AAAATATTTATA
1 AAAATTCTAAAATATTTATA
*
1010014 AAAATTCTAAAATTTTTAT
1 AAAATTCTAAAATATTTAT
1010033 TTTTTTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
AAAATTCTAAAATATTTATA
Found at i:1010043 original size:18 final size:18
Alignment explanation
Indices: 1010022--1010061 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
1010012 TAAAAATTCT
* *
1010022 AAAATTTTTATTTTTTTA
1 AAAATTTATAATTTTTTA
1010040 AAAA-TTATAATTTTTTA
1 AAAATTTATAATTTTTTA
1010057 AAAAT
1 AAAAT
1010062 CTAAAAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
AAAATTTATAATTTTTTA
Found at i:1010102 original size:9 final size:9
Alignment explanation
Indices: 1010088--1010112 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
1010078 AAAGTTGAAA
1010088 TTTAAAAAT
1 TTTAAAAAT
1010097 TTTAAAAAT
1 TTTAAAAAT
1010106 TTTAAAA
1 TTTAAAA
1010113 TGTTATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TTTAAAAAT
Found at i:1010105 original size:17 final size:18
Alignment explanation
Indices: 1010085--1010123 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
1010075 AAAAAAGTTG
*
1010085 AAATTTAAAAATTTTA-A
1 AAATTTAAAAATGTTATA
*
1010102 AAATTTTAAAATGTTATA
1 AAATTTAAAAATGTTATA
1010120 AAAT
1 AAAT
1010124 GATAAATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (18 bp):
AAATTTAAAAATGTTATA
Found at i:1010190 original size:3 final size:3
Alignment explanation
Indices: 1010182--1010212 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
1010172 CTGAAATATC
*
1010182 TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1010213 GCTTTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1012440 original size:16 final size:16
Alignment explanation
Indices: 1012414--1012453 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
1012404 TAGCTAATAG
1012414 AAAAA-AAATTC-AAA
1 AAAAATAAATTCTAAA
1012428 AATAAATAAATTCTAAA
1 AA-AAATAAATTCTAAA
1012445 AAAAATAAA
1 AAAAATAAA
1012454 AAATCATCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 2 0.09
15 3 0.13
16 13 0.57
17 5 0.22
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (16 bp):
AAAAATAAATTCTAAA
Found at i:1013429 original size:21 final size:21
Alignment explanation
Indices: 1013382--1013429 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
1013372 AAGTAGGATG
*
1013382 AAAGAAGCAAGAAAAGGGAAA
1 AAAGAAGCAAGAAAAGAGAAA
*
1013403 AGAAGAAG-AGGAAAAGAGAACA
1 A-AAGAAGCAAGAAAAGAGAA-A
1013425 AAAGA
1 AAAGA
1013430 GGTGAAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.67, C:0.04, G:0.29, T:0.00
Consensus pattern (21 bp):
AAAGAAGCAAGAAAAGAGAAA
Found at i:1020852 original size:11 final size:11
Alignment explanation
Indices: 1020832--1020892 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 11
1020822 CCTTAAGTTC
*
1020832 ACATAGAACAT
1 ACATAAAACAT
1020843 ACATAAAACA-
1 ACATAAAACAT
* *
1020853 CCATTCAAACAT
1 ACA-TAAAACAT
1020865 ACAT--AA-A-
1 ACATAAAACAT
1020872 ACATAAAACAT
1 ACATAAAACAT
1020883 ACATAAAACA
1 ACATAAAACA
1020893 CCATTCAAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
7 4 0.10
8 1 0.03
9 4 0.10
10 3 0.08
11 26 0.65
12 2 0.05
ACGTcount: A:0.61, C:0.21, G:0.02, T:0.16
Consensus pattern (11 bp):
ACATAAAACAT
Found at i:1020866 original size:22 final size:22
Alignment explanation
Indices: 1020838--1020907 Score: 94
Period size: 22 Copynumber: 3.4 Consensus size: 22
1020828 GTTCACATAG
1020838 AACATACATAAAACACCATTCA
1 AACATACATAAAACACCATTCA
*
1020860 AACATACAT-AAA-A-CA-TAA
1 AACATACATAAAACACCATTCA
1020878 AACATACATAAAACACCATTCA
1 AACATACATAAAACACCATTCA
*
1020900 AGCATACA
1 AACATACA
1020908 CCAACATTCC
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
18 11 0.27
19 5 0.12
20 2 0.05
21 5 0.12
22 18 0.44
ACGTcount: A:0.57, C:0.24, G:0.01, T:0.17
Consensus pattern (22 bp):
AACATACATAAAACACCATTCA
Found at i:1020887 original size:40 final size:40
Alignment explanation
Indices: 1020832--1020907 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
1020822 CCTTAAGTTC
*
1020832 ACATAGAACATACATAAAACACCATTCAAACATACATAAA
1 ACATAAAACATACATAAAACACCATTCAAACATACATAAA
*
1020872 ACATAAAACATACATAAAACACCATTCAAGCATACA
1 ACATAAAACATACATAAAACACCATTCAAACATACA
1020908 CCAACATTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.57, C:0.24, G:0.03, T:0.17
Consensus pattern (40 bp):
ACATAAAACATACATAAAACACCATTCAAACATACATAAA
Found at i:1023365 original size:19 final size:20
Alignment explanation
Indices: 1023328--1023365 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
1023318 AAATTATTCT
1023328 CTTCTAGTTTAGTAAAATAG
1 CTTCTAGTTTAGTAAAATAG
1023348 CTTCTAGTTTAG-AAAATA
1 CTTCTAGTTTAGTAAAATA
1023366 ATGTAGTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (20 bp):
CTTCTAGTTTAGTAAAATAG
Found at i:1033211 original size:7 final size:7
Alignment explanation
Indices: 1033199--1033231 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
1033189 CCGGTAGGGT
1033199 ATATAAA
1 ATATAAA
1033206 ATATAAA
1 ATATAAA
1033213 ATATAAA
1 ATATAAA
1033220 ATATAAA
1 ATATAAA
1033227 ATATA
1 ATATA
1033232 CATTATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (7 bp):
ATATAAA
Found at i:1036438 original size:28 final size:27
Alignment explanation
Indices: 1036386--1036465 Score: 79
Period size: 28 Copynumber: 2.8 Consensus size: 27
1036376 ATAAATAGGG
*
1036386 AAATAAAAATATAATCAAATATAATAATAT
1 AAAT-AAAA-ATAAT-AAATATAATAATAA
* *
1036416 CAATAACAATAATAAATATTAATAATAA
1 AAATAAAAATAATAAATA-TAATAATAA
*
1036444 AAATAAAAATATATAAAAATAA
1 AAATAAAAATA-ATAAATATAA
1036466 ATTAATTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
27 5 0.12
28 25 0.60
29 9 0.21
30 3 0.07
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.28
Consensus pattern (27 bp):
AAATAAAAATAATAAATATAATAATAA
Found at i:1036439 original size:13 final size:12
Alignment explanation
Indices: 1036387--1036476 Score: 53
Period size: 13 Copynumber: 7.3 Consensus size: 12
1036377 TAAATAGGGA
*
1036387 AATAAAAAT-AT
1 AATAAATATAAT
1036398 AATCAAATATAAT
1 AAT-AAATATAAT
*
1036411 AATATCAATAACAAT
1 AATA--AAT-ATAAT
1036426 AATAAATATTAAT
1 AATAAATA-TAAT
*
1036439 AATAAAAATAA-
1 AATAAATATAAT
* *
1036450 AA-ATATATAAA
1 AATAAATATAAT
1036461 AATAAAT-TAATT
1 AATAAATATAA-T
1036473 AATA
1 AATA
1036477 GAAAAAATAT
Statistics
Matches: 62, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
10 6 0.10
11 10 0.16
12 17 0.27
13 18 0.29
14 3 0.05
15 8 0.13
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (12 bp):
AATAAATATAAT
Found at i:1036439 original size:19 final size:19
Alignment explanation
Indices: 1036406--1036450 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
1036396 ATAATCAAAT
1036406 ATAAT-AATATCAATAACA
1 ATAATAAATATCAATAACA
* *
1036424 ATAATAAATATTAATAATA
1 ATAATAAATATCAATAACA
*
1036443 AAAATAAA
1 ATAATAAA
1036451 AATATATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (19 bp):
ATAATAAATATCAATAACA
Found at i:1036459 original size:16 final size:15
Alignment explanation
Indices: 1036436--1036466 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
1036426 AATAAATATT
1036436 AATAATAAAAATAAA
1 AATAATAAAAATAAA
1036451 AATATATAAAAATAAA
1 AATA-ATAAAAATAAA
1036467 TTAATTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAATAAAAATAAA
Found at i:1036464 original size:22 final size:22
Alignment explanation
Indices: 1036417--1036466 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
1036407 TAATAATATC
* *
1036417 AATAACAATAATAAATATTAAT
1 AATAAAAATAATAAATATTAAA
1036439 AATAAAAATAA-AAATATATAAA
1 AATAAAAATAATAAATAT-TAAA
1036461 AATAAA
1 AATAAA
1036467 TTAATTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 6 0.24
22 19 0.76
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (22 bp):
AATAAAAATAATAAATATTAAA
Found at i:1038546 original size:36 final size:36
Alignment explanation
Indices: 1038494--1038568 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 36
1038484 GTTCCACTGC
1038494 AATGCCAGAGAAATAAGATTCGCTATCTTCAGCTTT
1 AATGCCAGAGAAATAAGATTCGCTATCTTCAGCTTT
* * * *
1038530 AATGCCAGGGAGATAAGATTCGCTGTCTTCAGTTTT
1 AATGCCAGAGAAATAAGATTCGCTATCTTCAGCTTT
1038566 AAT
1 AAT
1038569 TTGCTCCGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (36 bp):
AATGCCAGAGAAATAAGATTCGCTATCTTCAGCTTT
Found at i:1038599 original size:87 final size:87
Alignment explanation
Indices: 1038446--1038619 Score: 213
Period size: 87 Copynumber: 2.0 Consensus size: 87
1038436 TCTTCGCAAC
* * * *
1038446 GCCAGGGAAACAAGATTCGCTACCTTTAGTTTTAATTTGTTCCACTGCAATGCCAGAGAAATAAG
1 GCCAGGGAAACAAGATTCGCTACCTTCAGTTTTAATTTGCTCCACTGCAATGCCAGAAAAACAAG
* * *
1038511 ATTCGCTATCTTCAGCTTTAAT
66 ATCCACTACCTTCAGCTTTAAT
* * ** * * *
1038533 GCCAGGGAGATAAGATTCGCTGTCTTCAGTTTTAATTTGCTCCGCTGTAATGTCAGAAAAACAAG
1 GCCAGGGAAACAAGATTCGCTACCTTCAGTTTTAATTTGCTCCACTGCAATGCCAGAAAAACAAG
*
1038598 ATCCACTACCTTTAGCTTTAAT
66 ATCCACTACCTTCAGCTTTAAT
1038620 CTGTTCCACC
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
87 72 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (87 bp):
GCCAGGGAAACAAGATTCGCTACCTTCAGTTTTAATTTGCTCCACTGCAATGCCAGAAAAACAAG
ATCCACTACCTTCAGCTTTAAT
Found at i:1038766 original size:51 final size:51
Alignment explanation
Indices: 1038671--1038784 Score: 129
Period size: 51 Copynumber: 2.2 Consensus size: 51
1038661 ATCCGCTCCA
* * * *
1038671 CTTCAGTTTTAATCTATTTCACTACAATGCCAGGGAAACGAGATTTGCTAC
1 CTTCAGCTTTAATCTATTTCACTACAACGCCAGGGAAACAAGATTCGCTAC
* * * * * * *
1038722 CTTTAGCTTTAATCTGTTTCACTGCAACGCTAGGGAAATAAGATTCGTTAT
1 CTTCAGCTTTAATCTATTTCACTACAACGCCAGGGAAACAAGATTCGCTAC
1038773 CTTCAGCTTTAA
1 CTTCAGCTTTAA
1038785 CGCCAGGGAG
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (51 bp):
CTTCAGCTTTAATCTATTTCACTACAACGCCAGGGAAACAAGATTCGCTAC
Found at i:1038804 original size:36 final size:36
Alignment explanation
Indices: 1038747--1038820 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 36
1038737 GTTTCACTGC
* * * *
1038747 AACGCTAGGGAAATAAGATTCGTTATCTTCAGCTTT
1 AACGCCAGGGAAATAAAATTCGCTACCTTCAGCTTT
* *
1038783 AACGCCAGGGAGATAAAATTCGCTGCCTTCAGCTTT
1 AACGCCAGGGAAATAAAATTCGCTACCTTCAGCTTT
1038819 AA
1 AA
1038821 TCTGCTCCAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.28
Consensus pattern (36 bp):
AACGCCAGGGAAATAAAATTCGCTACCTTCAGCTTT
Found at i:1038868 original size:51 final size:51
Alignment explanation
Indices: 1038782--1039035 Score: 337
Period size: 51 Copynumber: 5.0 Consensus size: 51
1038772 TCTTCAGCTT
*
1038782 TAACGCCAGGGAGATAAAATTCGCTGCCTTCAGCTTTAATCTGCTCCACTG
1 TAACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTG
* * * * *
1038833 TAACGCTAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTG
1 TAACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTG
* * *
1038884 TAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTG
1 TAACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTG
* * * * *
1038935 TAACGCTAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTG
1 TAACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTG
* * * **
1038986 TAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCACTCCACT
1 TAACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACT
1039036 TTAGCTTTAA
Statistics
Matches: 171, Mismatches: 32, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 171 1.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (51 bp):
TAACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTG
Found at i:1038967 original size:102 final size:102
Alignment explanation
Indices: 1038782--1039035 Score: 454
Period size: 102 Copynumber: 2.5 Consensus size: 102
1038772 TCTTCAGCTT
* * **
1038782 TAACGCCAGGGAGATAAAATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGTAACGCTAGGGAAA
1 TAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGTAACGCTAGGGAAA
1038847 TAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTG
66 TAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTG
1038884 TAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGTAACGCTAGGGAAA
1 TAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGTAACGCTAGGGAAA
1038949 TAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTG
66 TAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTG
**
1038986 TAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCACTCCACT
1 TAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCTGCTCCACT
1039036 TTAGCTTTAA
Statistics
Matches: 146, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 146 1.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.30
Consensus pattern (102 bp):
TAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCTGCTCCACTGTAACGCTAGGGAAA
TAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTG
Found at i:1039107 original size:72 final size:72
Alignment explanation
Indices: 1038962--1039098 Score: 184
Period size: 72 Copynumber: 1.9 Consensus size: 72
1038952 GATTCGCTAC
* * * * *
1038962 CTTTAGCTTTAATCTGTTCCACTGTAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATC
1 CTTTAGCTTTAATCTCTTCCACTGCAACACCAAGGAAATAAGATTCGCTACCTTCAGCTTTAATC
1039027 CACTCCA
66 CACTCCA
* * * * *
1039034 CTTTAGCTTTAATCTCTTCCATTGCGACGCCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATC
1 CTTTAGCTTTAATCTCTTCCACTGCAACACCAAGGAAATAAGATTCGCTACCTTCAGCTTTAATC
1039099 TGTTCCACTG
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
72 55 1.00
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (72 bp):
CTTTAGCTTTAATCTCTTCCACTGCAACACCAAGGAAATAAGATTCGCTACCTTCAGCTTTAATC
CACTCCA
Found at i:1039130 original size:51 final size:51
Alignment explanation
Indices: 1039034--1039149 Score: 142
Period size: 51 Copynumber: 2.3 Consensus size: 51
1039024 ATCCACTCCA
* * * *
1039034 CTTTAGCTTTAATCTCTTCCATTGCGACGCCAGGGAAATAAGATTCGCTAC
1 CTTTAGCTTTAATCTCTTCCACTGCAACACCAAGGAAATAAGATTCGCTAC
* * * * *
1039085 CTTTAGCTTTAATCTGTTCCACTGTAACACCAAGGAGATAGGATTCGCTGC
1 CTTTAGCTTTAATCTCTTCCACTGCAACACCAAGGAAATAAGATTCGCTAC
*
1039136 CTTCAGCTTTAATC
1 CTTTAGCTTTAATC
1039150 CACTCCACTT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (51 bp):
CTTTAGCTTTAATCTCTTCCACTGCAACACCAAGGAAATAAGATTCGCTAC
Found at i:1039134 original size:123 final size:123
Alignment explanation
Indices: 1038915--1039333 Score: 678
Period size: 123 Copynumber: 3.4 Consensus size: 123
1038905 CGCTGCCTTC
* *
1038915 AGCTTTAATCTGC-TCCACTGTAACGCTAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGT
1 AGCTTTAATCT-CTTCCACTGCAACGCCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGT
1038979 TCCACTGTAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCACTCCACTTT
65 TCCACTGTAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCACTCCACTTT
* *
1039038 AGCTTTAATCTCTTCCATTGCGACGCCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTT
1 AGCTTTAATCTCTTCCACTGCAACGCCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTT
1039103 CCACTGTAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCACTCCACTTT
66 CCACTGTAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCACTCCACTTT
* *
1039161 AGCTTTAATCTCTTCCATTGCGACGCCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTT
1 AGCTTTAATCTCTTCCACTGCAACGCCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTT
* * * * * *
1039226 CCACCGTAACGCCAAGGAGATAGGATTCACTACCTTCAGCTTTAATCCGCTCCATTTT
66 CCACTGTAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCACTCCACTTT
* * * *
1039284 AGCTTTAATCTATTCCACTGCAACACCAGGGAAACAAGATTCGCTGCCTT
1 AGCTTTAATCTCTTCCACTGCAACGCCAGGGAAATAAGATTCGCTACCTT
1039334 CAGTCTTAAC
Statistics
Matches: 279, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
122 1 0.00
123 278 1.00
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.31
Consensus pattern (123 bp):
AGCTTTAATCTCTTCCACTGCAACGCCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATCTGTT
CCACTGTAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATCCACTCCACTTT
Found at i:1039229 original size:72 final size:72
Alignment explanation
Indices: 1039085--1039221 Score: 184
Period size: 72 Copynumber: 1.9 Consensus size: 72
1039075 GATTCGCTAC
* * * * *
1039085 CTTTAGCTTTAATCTGTTCCACTGTAACACCAAGGAGATAGGATTCGCTGCCTTCAGCTTTAATC
1 CTTTAGCTTTAATCTCTTCCACTGCAACACCAAGGAAATAAGATTCGCTACCTTCAGCTTTAATC
1039150 CACTCCA
66 CACTCCA
* * * * *
1039157 CTTTAGCTTTAATCTCTTCCATTGCGACGCCAGGGAAATAAGATTCGCTACCTTTAGCTTTAATC
1 CTTTAGCTTTAATCTCTTCCACTGCAACACCAAGGAAATAAGATTCGCTACCTTCAGCTTTAATC
1039222 TGTTCCACCG
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
72 55 1.00
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (72 bp):
CTTTAGCTTTAATCTCTTCCACTGCAACACCAAGGAAATAAGATTCGCTACCTTCAGCTTTAATC
CACTCCA
Found at i:1039238 original size:51 final size:51
Alignment explanation
Indices: 1039157--1039272 Score: 142
Period size: 51 Copynumber: 2.3 Consensus size: 51
1039147 ATCCACTCCA
** * * *
1039157 CTTTAGCTTTAATCTCTTCCATTGCGACGCCAGGGAAATAAGATTCGCTAC
1 CTTTAGCTTTAATCTCTTCCACCGCAACGCCAAGGAAATAAGATTCACTAC
* * * *
1039208 CTTTAGCTTTAATCTGTTCCACCGTAACGCCAAGGAGATAGGATTCACTAC
1 CTTTAGCTTTAATCTCTTCCACCGCAACGCCAAGGAAATAAGATTCACTAC
*
1039259 CTTCAGCTTTAATC
1 CTTTAGCTTTAATC
1039273 CGCTCCATTT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (51 bp):
CTTTAGCTTTAATCTCTTCCACCGCAACGCCAAGGAAATAAGATTCACTAC
Found at i:1054267 original size:33 final size:30
Alignment explanation
Indices: 1054215--1054276 Score: 79
Period size: 33 Copynumber: 2.0 Consensus size: 30
1054205 AAATATATAT
1054215 ATATGTACTTACATATTCTTCATATTTTAA
1 ATATGTACTTACATATTCTTCATATTTTAA
* *
1054245 ATATGTATCTTATATATGTTCTTTATATTTTA
1 ATATGTA-CTTACATA--TTCTTCATATTTTA
1054277 TGAATCATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 7 0.26
31 7 0.26
33 13 0.48
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.55
Consensus pattern (30 bp):
ATATGTACTTACATATTCTTCATATTTTAA
Found at i:1054891 original size:111 final size:111
Alignment explanation
Indices: 1054698--1055874 Score: 2221
Period size: 111 Copynumber: 10.6 Consensus size: 111
1054688 TATTTCTAAT
* * *
1054698 TAAGGCAATATTTAGTATTT-GGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTT
1 TAAGGCAATGTTTTGTGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTT
1054762 TCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAAGTGTTAAAA
66 TCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAAGTGTTAAAA
1054808 TAAGGCAATGTTTTGTGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTT
1 TAAGGCAATGTTTTGTGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTT
1054873 TCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAAGTGTTAAAA
66 TCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAAGTGTTAAAA
1054919 TAAGGCAATGTTTTGTGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTT
1 TAAGGCAATGTTTTGTGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTT
1054984 TCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAAGTGTTAAAA
66 TCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAAGTGTTAAAA
1055030 TAAGGCAATGTTTTGTGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTT
1 TAAGGCAATGTTTTGTGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTT
1055095 TCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAAGTGTTAAAA
66 TCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAAGTGTTAAAA
1055141 TAAGGCAATGTTTTGTGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTT
1 TAAGGCAATGTTTTGTGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTT
1055206 TCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAAGTGTTAAAA
66 TCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAAGTGTTAAAA
1055252 TAAGGCAATGTTTTGTGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTT
1 TAAGGCAATGTTTTGTGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTT
1055317 TCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAAGTGTTAAAA
66 TCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAAGTGTTAAAA
1055363 TAAGGCAATGTTTTGTGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTT
1 TAAGGCAATGTTTTGTGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTT
1055428 TCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAAGTGTTAAAA
66 TCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAAGTGTTAAAA
1055474 TAAGGCAATGTTTTGTGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTT
1 TAAGGCAATGTTTTGTGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTT
1055539 TCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAAGTGTTAAAA
66 TCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAAGTGTTAAAA
1055585 TAAGGCAATGTTTTGTGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTT
1 TAAGGCAATGTTTTGTGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTT
1055650 TCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAAGTGTTAAAA
66 TCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAAGTGTTAAAA
*
1055696 TAAGGCAATGTTTTGTGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTT
1 TAAGGCAATGTTTTGTGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTT
** * * *
1055761 TCTCATTCAACCAAATGGCAAAATATCATTTTAAAAAATTTTCAAAA
66 TCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAAGTGTT-AAAA
* * * *
1055808 TAAGGCAATGTTTTGCGTTTGGAAAATTCTAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTT
1 TAAGGCAATGTTTTGTGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTT
1055873 TC
66 TC
1055875 CAACGTCAGG
Statistics
Matches: 1053, Mismatches: 12, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
110 17 0.02
111 968 0.92
112 68 0.06
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (111 bp):
TAAGGCAATGTTTTGTGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGTTTTT
TCTCATTCAACCAAATGGCTTAATATCCTTTTAAAAAGTGTTAAAA
Found at i:1055928 original size:36 final size:36
Alignment explanation
Indices: 1055876--1055949 Score: 112
Period size: 36 Copynumber: 2.1 Consensus size: 36
1055866 CGATTTTTCC
* *
1055876 AACGTCAGGGAAATAAGATTCACTGTCTTCAGCTTT
1 AACGCCAGGGAAATAAGATTCACTGCCTTCAGCTTT
* *
1055912 AACGCCAGGGAGATAAGATTCGCTGCCTTCAGCTTT
1 AACGCCAGGGAAATAAGATTCACTGCCTTCAGCTTT
1055948 AA
1 AA
1055950 TCTGCTCTGC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (36 bp):
AACGCCAGGGAAATAAGATTCACTGCCTTCAGCTTT
Found at i:1059433 original size:9 final size:9
Alignment explanation
Indices: 1059414--1059463 Score: 93
Period size: 9 Copynumber: 5.7 Consensus size: 9
1059404 GACTCAAAAG
1059414 AAAAATC-A
1 AAAAATCAA
1059422 AAAAATCAA
1 AAAAATCAA
1059431 AAAAATCAA
1 AAAAATCAA
1059440 AAAAATCAA
1 AAAAATCAA
1059449 AAAAATCAA
1 AAAAATCAA
1059458 AAAAAT
1 AAAAAT
1059464 TATAAGAGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
8 7 0.17
9 34 0.83
ACGTcount: A:0.78, C:0.10, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAATCAA
Found at i:1060706 original size:43 final size:44
Alignment explanation
Indices: 1060639--1060752 Score: 126
Period size: 43 Copynumber: 2.6 Consensus size: 44
1060629 AAAAACGGCG
*
1060639 GCTCAAATTTTGGAACAAAATGGGGCA-CGAAGTGATCAGAGC-
1 GCTCAAATTTTGGATCAAAATGGGGCATCGAAGTGATCAGAGCA
* * * **
1060681 GACTTAAATTTTGGATCAAACTGGGGCATGGTGGTGATCAGAGCA
1 G-CTCAAATTTTGGATCAAAATGGGGCATCGAAGTGATCAGAGCA
* *
1060726 GCTCAAATTTT-GATCAGATTGGGGCAT
1 GCTCAAATTTTGGATCAAAATGGGGCAT
1060753 ATGATGATCT
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 1 0.02
43 37 0.62
44 21 0.35
45 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (44 bp):
GCTCAAATTTTGGATCAAAATGGGGCATCGAAGTGATCAGAGCA
Found at i:1061963 original size:50 final size:50
Alignment explanation
Indices: 1061885--1063487 Score: 700
Period size: 50 Copynumber: 32.2 Consensus size: 50
1061875 ATTGCAATTC
* ** * *
1061885 AAAAGATTGAAGCCACAACGGTAAATCTCACCTCCCTGGCGATGCAGTGG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
* * * ** * *
1061935 AACAGATTGAAGCTACGACGGCGAATCTCACTTCCCCAAC-ATTGCAATTT
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGA-TGCAGTTG
* * **
1061985 AAAAGATTGAAGCTACAACAGCGAATCTCACCTTCCTGACGATGCAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
* * * * * * *
1062035 AACAGATTGAAGTTACGACGGTGAATCTCACTTTCCC-GAC-ATTGCAATTT
1 AAAAGATTGAAGCTACAACGGCGAATCTCAC-CTCCCTGACGA-TGCAGTTG
* * * **
1062085 AAAATATTGAAGCTACAACAGCGAATCTCACCTCCCT-AGCGATGTAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGA-CGATGCAGTTG
* * * * * *
1062135 AACAA-ATCGAAGCTACGACGGCGAATCTCACTTCCCCGAC-ATTGCAATTT
1 AA-AAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGA-TGCAGTTG
* * * **
1062185 AAAAGATTGAAGCTACAACAGCGAATCTCACCTCCCTGATGATGTAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
* * * * * * *
1062235 AACAGATCGAAGCTACGACGGCAAATCTCACTTTCCC-GAC-ATTGCAATTT
1 AAAAGATTGAAGCTACAACGGCGAATCTCAC-CTCCCTGACGA-TGCAGTTG
* * * * **
1062285 AAAAGATTGAAGCTACAACAGCGAATCTCATCTCTCTGATGATGCAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
* * * * * * * *
1062335 AACAGATCGAAGCTACGACAGTGAATCTCACTTCCCCGAC-ATTGCAGTTT
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGA-TGCAGTTG
* * * * * * **
1062385 AAAAGATTGAAGCCACAATGGCGAATCTTA-CTTCCAGGCGATGCAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
* * ** * * * *
1062434 AACAGATTGAAGCTACAACAGCGAATCT-TGCTTCCTCGAC-ATTACAATTC
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCT-GACGA-TGCAGTTG
* * * ** * * * * **
1062484 AAAAGATCGAAGCCACAACGGCAAATCT-TGCTTCCAGACGGTGTAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
* * * * * * * *
1062533 AACAGATTGAAGCTACGACGGCAAATCTCACTTCCCCGAC-ATTACAATTC
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGA-TGCAGTTG
* * * * * *
1062583 AAAAGACTAAAGCTACAACAGCGAATCTCACCTCTCTGGCGATGCAG-CG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
* * * * *
1062632 AAACAGATTGAAGCTACGACGGTGAATCTCACTATCCC-GAC-ATTGCAATTC
1 AAA-AGATTGAAGCTACAACGGCGAATCTCAC-CTCCCTGACGA-TGCAGTTG
* * **
1062683 AAAAGATTGAAGCTACAACAGCGAATCTCACCTCCCTAACGATGCAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
* *** * * * * *
1062733 AACAGAACAAAGCTACGACGGCGAATCTCACTTCCCCGAC-ATTGTAGTTT
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGA-TGCAGTTG
* * * * * * * * **
1062783 AAAAGATCGAAGCCACAACGGTGAGTCTTA-CTTCCAGGCGATGCAGCAG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
* * ** * * * *
1062832 AATAGATTGAAGCTACAACTGCGAATCTTGCTTCCCCGAC-ATTGCAATTC
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGA-TGCAGTTG
* * ** * * ** *
1062882 AAAAGATCGAAGCCACAACGGCGAATCT-TGCTTCCAGGTGATGCAG-CG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
* * * * * *
1062930 AAACAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGAC-ATTGCAATTT
1 AAA-AGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGA-TGCAGTTG
* * **
1062981 AAAAGATTGAAGCTACAACAGTGAATCTCACCTCCCTGACGATGCAGCAG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
* * * * * * ** *
1063031 AATAGATCGAAGCTACGACAGCGAATCTCACTTCCCCGACTTTGCAGTTT
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
* * ** * * **
1063081 AAAAGATCGAAGCCACAACGGCGAATCT-TGCTCCCAGGCGATGCAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
* * * * * * * *
1063130 AACAGATTGAAGCTATAACAGCGAATCTTACTTCCCCGAC-ATTGCAATTC
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGA-TGCAGTTG
* * ** *
1063180 AAAAGATTGAAG-TCACAACAGCAAATCTCATTTCCCT-AGCGATGCAG-CG
1 AAAAGATTGAAGCT-ACAACGGCGAATCTCACCTCCCTGA-CGATGCAGTTG
* * * * *
1063229 AAACAGATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC-ATTGCAATTT
1 AAA-AGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGA-TGCAGTTG
* * * * ** * * *
1063280 AAAAGATCGAAGCCACAACGGTGAATCTTATTTCCCAGGC-AGTGCAATTG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGA-TGCAGTTG
* * * ** * * * *
1063330 AACAGATTGAAGCTACAACAGCGGATCT-TGCTTCCTCGA-TATTGCAATTT
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCT-GACGA-TGCAGTTG
* * * * * * **
1063380 AAAAGATTGAAGCCACAACGGCGAATCTTACTTCTCAGACGATGTAGCGG
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
* * * * * *
1063430 AATAGATTGAAGCTACGATGGCGAATCTTACTTCCCCGAC-ATTGCAGTT-
1 AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGA-TGCAGTTG
1063479 AAACAGATT
1 AAA-AGATT
1063488 AAAGAAGCCA
Statistics
Matches: 1117, Mismatches: 379, Indels: 114
0.69 0.24 0.07
Matches are distributed among these distances:
48 3 0.00
49 204 0.18
50 875 0.78
51 35 0.03
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (50 bp):
AAAAGATTGAAGCTACAACGGCGAATCTCACCTCCCTGACGATGCAGTTG
Found at i:1062052 original size:100 final size:100
Alignment explanation
Indices: 1061875--1063475 Score: 1727
Period size: 100 Copynumber: 16.1 Consensus size: 100
1061865 AAAACCATAG
* * ** * * *
1061875 ATTGCAATTCAAAAGATTGAAGCCACAACGGTAAATCTCACCTCCCTGGCGATGCAGTGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTCCTGACGATGCAGCGGAACAG
*
1061940 ATTGAAGCTACGACGGCGAATCTCACTTCCCCAAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
*
1061975 ATTGCAATTTAAAAGATTGAAGCTACAACAGCGAATCTCACCTTCCTGACGATGCAGCGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTCCTGACGATGCAGCGGAACAG
* * *
1062040 ATTGAAGTTACGACGGTGAATCTCACTTTCCCGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * *
1062075 ATTGCAATTTAAAATATTGAAGCTACAACAGCGAATCTCACCTCCCT-AGCGATGTAGCGGAACA
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTCCTGA-CGATGCAGCGGAACA
* *
1062139 AATCGAAGCTACGACGGCGAATCTCACTTCCCCGAC
65 GATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * *
1062175 ATTGCAATTTAAAAGATTGAAGCTACAACAGCGAATCTCACCTCCCTGATGATGTAGCGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTCCTGACGATGCAGCGGAACAG
* * *
1062240 ATCGAAGCTACGACGGCAAATCTCACTTTCCCGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * *
1062275 ATTGCAATTTAAAAGATTGAAGCTACAACAGCGAATCTCATC-TCTCTGATGATGCAGCGGAACA
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTC-CTGACGATGCAGCGGAACA
* * *
1062339 GATCGAAGCTACGACAGTGAATCTCACTTCCCCGAC
65 GATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* ** * * *
1062375 ATTGCAGTTTAAAAGATTGAAGCCACAATGGCGAATCTTA-CTTCCAGGCGATGCAGCGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTCCTGACGATGCAGCGGAACAG
* * ** *
1062439 ATTGAAGCTACAACAGCGAATCTTGCTTCCTCGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * * ** * * *
1062474 ATTACAATTCAAAAGATCGAAGCCACAACGGCAAATCT-TGCTTCCAGACGGTGTAGCGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTCCTGACGATGCAGCGGAACAG
*
1062538 ATTGAAGCTACGACGGCAAATCTCACTTCCCCGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * * * *
1062573 ATTACAATTCAAAAGACTAAAGCTACAACAGCGAATCTCACC-TCTCTGGCGATGCAGCGAAACA
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTC-CTGACGATGCAGCGGAACA
*
1062637 GATTGAAGCTACGACGGTGAATCTCACTAT-CCCGAC
65 GATTGAAGCTACGACGGCGAATCTCACT-TCCCCGAC
* * * *
1062673 ATTGCAATTCAAAAGATTGAAGCTACAACAGCGAATCTCACCTCCCTAACGATGCAGCGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTCCTGACGATGCAGCGGAACAG
***
1062738 AACAAAGCTACGACGGCGAATCTCACTTCCCCGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * * * * * * * *
1062773 ATTGTAGTTTAAAAGATCGAAGCCACAACGGTGAGTCTTA-CTTCCAGGCGATGCAGCAGAATAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTCCTGACGATGCAGCGGAACAG
* * **
1062837 ATTGAAGCTACAACTGCGAATCTTGCTTCCCCGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * ** * ** *
1062872 ATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCT-TGCTTCCAGGTGATGCAGCGAAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTCCTGACGATGCAGCGGAACAG
* * *
1062936 ATTGAAGCTACAACAGCGAATCTTACTTCCCCGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * *
1062971 ATTGCAATTTAAAAGATTGAAGCTACAACAGTGAATCTCACCTCCCTGACGATGCAGCAGAATAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTCCTGACGATGCAGCGGAACAG
* *
1063036 ATCGAAGCTACGACAGCGAATCTCACTTCCCCGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * ** * * *
1063071 TTTGCAGTTTAAAAGATCGAAGCCACAACGGCGAATCT-TGCTCCCAGGCGATGCAGCGGAACAG
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTCCTGACGATGCAGCGGAACAG
** * *
1063135 ATTGAAGCTATAACAGCGAATCTTACTTCCCCGAC
66 ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * *
1063170 ATTGCAATTCAAAAGATTGAAGTCACAACAGCAAATCTCA-TTTCCCT-AGCGATGCAGCGAAAC
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTT-CCTGA-CGATGCAGCGGAAC
1063233 AGATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
64 AGATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * * * * ***
1063270 ATTGCAATTTAAAAGATCGAAGCCACAACGGTGAATCTTA-TTTCC-CAGGCAGTGCAATTGAAC
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTCCTGACG-A-TGCAGCGGAAC
* * * ** * *
1063333 AGATTGAAGCTACAACAGCGGATCTTGCTTCCTCGAT
64 AGATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
* * * * *
1063370 ATTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTA-CTTCTCAGACGATGTAGCGGAATA
1 ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTC-CTGACGATGCAGCGGAACA
* *
1063434 GATTGAAGCTACGATGGCGAATCTTACTTCCCCGAC
65 GATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
1063470 ATTGCA
1 ATTGCA
1063476 GTTAAACAGA
Statistics
Matches: 1273, Mismatches: 208, Indels: 40
0.84 0.14 0.03
Matches are distributed among these distances:
98 1 0.00
99 418 0.33
100 847 0.67
101 5 0.00
102 2 0.00
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (100 bp):
ATTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTCACCTTCCTGACGATGCAGCGGAACAG
ATTGAAGCTACGACGGCGAATCTCACTTCCCCGAC
Found at i:1062672 original size:398 final size:398
Alignment explanation
Indices: 1061875--1063475 Score: 1918
Period size: 398 Copynumber: 4.0 Consensus size: 398
1061865 AAAACCATAG
* ** * *
1061875 ATTGCAATTCAAAAGATTGAAGCCACAACGGTAAATCTCACCTCCCTGGCGATGCAGTGGAACAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACAGCGAATCTCACCTCCCTGACGATGCAGCGGAACAG
* * * *
1061940 ATTGAAGCTACGACGGCGAATCTCACTTCCCCAACATTGCAATTTAAAAGATTGAAGCTACAACA
66 ATCGAAGCTACGACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAAGCCACAACA
* * * * * *
1062005 GCGAATCTCACCTTCCTGACGATGCAGCGGAACAGATTGAAGTTACGACGGTGAATCTCACTTTC
131 GCGAATCTCA-CTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAACGGCGAATCTCACTTCC
* * * * * ** * *
1062070 CCGACATTGCAATTTAAAATATTGAAGCTACAACAGCGAATCTCACCTCCCTA-GCGATGTAGCG
195 CCGACATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCT-TGCTTCC-AGGCGATGCAGCG
* * * *
1062134 GAACAAATCGAAGCTACGACGGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAAGCT
258 GAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAAGCT
* * * *
1062199 ACAACAGCGAATCTCACCTCCCTGATGATGTAGCGGAACAGATCGAAGCTACGACGGCAAATCTC
323 ACAACAGCGAATCTCACCTCCCTGACGATGCAGCGAAACAGATCGAAGCTACGACGGCGAATCTC
*
1062264 ACTTTCCCGAC
388 ACTTCCCCGAC
* * * * *
1062275 ATTGCAATTTAAAAGATTGAAGCTACAACAGCGAATCTCATCTCTCTGATGATGCAGCGGAACAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACAGCGAATCTCACCTCCCTGACGATGCAGCGGAACAG
* * **
1062340 ATCGAAGCTACGACAGTGAATCTCACTTCCCCGACATTGCAGTTTAAAAGATTGAAGCCACAATG
66 ATCGAAGCTACGACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAAGCCACAACA
* * ** *
1062405 GCGAATCTTACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAACAGCGAATCTTGCTTCCT
131 GCGAATCTCACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAACGGCGAATCTCACTTCCC
* * * * *
1062470 CGACATTACAATTCAAAAGATCGAAGCCACAACGGCAAATCTTGCTTCCAGACGGTGTAGCGGAA
196 CGACATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTGCTTCCAGGCGATGCAGCGGAA
* * * * * * *
1062535 CAGATTGAAGCTACGACGGCAAATCTCACTTCCCCGACATTACAATTCAAAAGACTAAAGCTACA
261 CAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAAGCTACA
* * * *
1062600 ACAGCGAATCTCACCTCTCTGGCGATGCAGCGAAACAGATTGAAGCTACGACGGTGAATCTCACT
326 ACAGCGAATCTCACCTCCCTGACGATGCAGCGAAACAGATCGAAGCTACGACGGCGAATCTCACT
1062665 AT-CCCGAC
391 -TCCCCGAC
* *
1062673 ATTGCAATTCAAAAGATTGAAGCTACAACAGCGAATCTCACCTCCCTAACGATGCAGCGGAACAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACAGCGAATCTCACCTCCCTGACGATGCAGCGGAACAG
* * * * * * *
1062738 AACAAAGCTACGACGGCGAATCTCACTTCCCCGACATTGTAGTTTAAAAGATCGAAGCCACAACG
66 ATCGAAGCTACGACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAAGCCACAACA
* * * * * * **
1062803 GTGAGTCTTACTTCCAGGCGATGCAGCAGAATAGATTGAAGCTACAACTGCGAATCTTGCTTCCC
131 GCGAATCTCACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAACGGCGAATCTCACTTCCC
* *
1062868 CGACATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTGCTTCCAGGTGATGCAGCGAAA
196 CGACATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTGCTTCCAGGCGATGCAGCGGAA
*
1062933 CAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGACATTGCAATTTAAAAGATTGAAGCTACA
261 CAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAAGCTACA
* * *
1062998 ACAGTGAATCTCACCTCCCTGACGATGCAGC-AGAATAGATCGAAGCTACGACAGCGAATCTCAC
326 ACAGCGAATCTCACCTCCCTGACGATGCAGCGA-AACAGATCGAAGCTACGACGGCGAATCTCAC
1063062 TTCCCCGAC
390 TTCCCCGAC
* * * * * ** * *
1063071 TTTGCAGTTTAAAAGATCGAAGCCACAACGGCGAATCT-TGCTCCCAGGCGATGCAGCGGAACAG
1 ATTGCAATTCAAAAGATTGAAGCCACAACAGCGAATCTCACCTCCCTGACGATGCAGCGGAACAG
* ** * * *
1063135 ATTGAAGCTATAACAGCGAATCTTACTTCCCCGACATTGCAATTCAAAAGATTGAAGTCACAACA
66 ATCGAAGCTACGACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAAGCCACAACA
* * * *
1063200 GCAAATCTCATTTCCCTA-GCGATGCAGCGAAACAGATTGAAGCTACGACGGCGAATCTCACTTC
131 GCGAATCTCACTT-CC-AGGCGATGCAGCGGAACAGATTGAAGCTACAACGGCGAATCTCACTTC
* * ** **
1063264 CCCGACATTGCAATTTAAAAGATCGAAGCCACAACGGTGAATCTTATTTCCCAGGC-AGTGCAAT
194 CCCGACATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTGCTT-CCAGGCGA-TGCAGC
* * ** * *
1063328 TGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCTCGATATTGCAATTTAAAAGATTGAAGC
257 GGAACAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAAGC
* * * * * * * * * * *
1063393 CACAACGGCGAATCTTACTTCTCAGACGATGTAGCGGAATAGATTGAAGCTACGATGGCGAATCT
322 TACAACAGCGAATCTCACCTCCCTGACGATGCAGCGAAACAGATCGAAGCTACGACGGCGAATCT
*
1063458 TACTTCCCCGAC
387 CACTTCCCCGAC
1063470 ATTGCA
1 ATTGCA
1063476 GTTAAACAGA
Statistics
Matches: 1033, Mismatches: 159, Indels: 19
0.85 0.13 0.02
Matches are distributed among these distances:
397 84 0.08
398 610 0.59
399 218 0.21
400 121 0.12
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.22
Consensus pattern (398 bp):
ATTGCAATTCAAAAGATTGAAGCCACAACAGCGAATCTCACCTCCCTGACGATGCAGCGGAACAG
ATCGAAGCTACGACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAAGCCACAACA
GCGAATCTCACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAACGGCGAATCTCACTTCCC
CGACATTGCAATTCAAAAGATCGAAGCCACAACGGCGAATCTTGCTTCCAGGCGATGCAGCGGAA
CAGATTGAAGCTACAACAGCGAATCTCACTTCCCCGACATTGCAATTTAAAAGATTGAAGCTACA
ACAGCGAATCTCACCTCCCTGACGATGCAGCGAAACAGATCGAAGCTACGACGGCGAATCTCACT
TCCCCGAC
Found at i:1063642 original size:85 final size:85
Alignment explanation
Indices: 1063495--1063659 Score: 194
Period size: 85 Copynumber: 1.9 Consensus size: 85
1063485 ATTAAAGAAG
** * *
1063495 CCAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAACCACAGATCTTATCTCTCTGAAGT
1 CCAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAACACAGATCCTATCTCTCTGAAGT
*
1063560 TGCAGT-AGAGCAGATCGTAT
66 TACAGTGA-AGCAGATCGTAT
* * *
1063580 CCAATCTTATCTCCCTGAAGTTTCAGTGGAGCAGATTGAAGAAAC-CA-ATCCTAT-TTTCCTGA
1 CCAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATT-AA-AAACACAGATCCTATCTCT-CTGA
1063642 AGTTACAGTGAAGCAGAT
63 AGTTACAGTGAAGCAGAT
1063660 TAAAATGATG
Statistics
Matches: 68, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
84 2 0.03
85 58 0.85
86 5 0.07
87 3 0.04
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.28
Consensus pattern (85 bp):
CCAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAACACAGATCCTATCTCTCTGAAGT
TACAGTGAAGCAGATCGTAT
Found at i:1063683 original size:129 final size:129
Alignment explanation
Indices: 1063471--1063825 Score: 451
Period size: 129 Copynumber: 2.8 Consensus size: 129
1063461 TTCCCCGACA
* * * *
1063471 TTGCAGTTAAACAGATTAAAGAAGCCAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTAAAA
1 TTGCAGTGAAGCAGATTGAAGAAGCCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA
** ** * *
1063536 CCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGTATCCAATCTTATCTCCCTGAAG
66 TGATGGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAATCTTATCTCCCTAAAG
* * * * * * *
1063600 TTTCAGTGGAGCAGATTGAAGAAACCAATCCTATTTTCCTGAAGTTACAGTGAAGCAGATTAAAA
1 TTGCAGTGAAGCAGATTGAAGAAGCCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA
* * *
1063665 TGATGGATCTTATCTCTCTGGAGTTGCAGTAGAGCATATCGCATCCAGTCTTATCTCCCTAAAG
66 TGATGGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAATCTTATCTCCCTAAAG
* ** * *
1063729 TTGCAGTGAAGTAGACAGAAGAAGCTAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAA
1 TTGCAGTGAAGCAGATTGAAGAAGCCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA
* *
1063794 TGATGAATCCTATAC-CTCTGAAGTTGCAGTAG
66 TGATGGATCTTAT-CTCTCTGAAGTTGCAGTAG
1063826 GTCGGATTAA
Statistics
Matches: 190, Mismatches: 35, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
129 189 0.99
130 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (129 bp):
TTGCAGTGAAGCAGATTGAAGAAGCCAATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAA
TGATGGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAATCTTATCTCCCTAAAG
Found at i:1065608 original size:33 final size:30
Alignment explanation
Indices: 1065550--1065611 Score: 79
Period size: 33 Copynumber: 2.0 Consensus size: 30
1065540 ATAAATATAT
1065550 ATATGTACTTACATATTCTTCATATTTTAA
1 ATATGTACTTACATATTCTTCATATTTTAA
* *
1065580 ATATGTATCTTATATATGTTCTTTATATTTTA
1 ATATGTA-CTTACATA--TTCTTCATATTTTA
1065612 TGAATCATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 7 0.26
31 7 0.26
33 13 0.48
ACGTcount: A:0.31, C:0.10, G:0.05, T:0.55
Consensus pattern (30 bp):
ATATGTACTTACATATTCTTCATATTTTAA
Found at i:1065785 original size:23 final size:23
Alignment explanation
Indices: 1065759--1065803 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
1065749 TAATTTTATG
1065759 TATA-TACATAAATATATTTTCCT
1 TATAGTACATAAATAT-TTTTCCT
*
1065782 TATATGTACATACATATTTTTC
1 TATA-GTACATAAATATTTTTC
1065804 ATATTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 4 0.21
24 5 0.26
25 10 0.53
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (23 bp):
TATAGTACATAAATATTTTTCCT
Found at i:1066312 original size:112 final size:111
Alignment explanation
Indices: 1066049--1066503 Score: 770
Period size: 112 Copynumber: 4.1 Consensus size: 111
1066039 ATATTTAGTA
* * * *
1066049 TTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGTGTGTCGTTTTTTCTCGTTCAACCAAATGG
1 TTTGGAAATTAGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGG
* * *
1066114 ATTAATATCCTTTT-AAAAATTTT-AAAATAAGGCAATGTTTTACG
66 CTAAATATCCTTTTAAAAAATTTTCAAAATAAGGCAATGTTTTGCG
* *
1066158 TTTGAAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGG
1 TTTGGAAATTAGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGG
1066223 CTAAATATCCTTTTAAAAAATTTTCAAAATAAGGCAATGTTTTGCG
66 CTAAATATCCTTTTAAAAAATTTTCAAAATAAGGCAATGTTTTGCG
1066269 TTTGGGAAATTAGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATG
1 TTT-GGAAATTAGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATG
1066334 GCTAAATATCCTTTTAAAAAATTTTCAAAATAAGGCAATGTTTTGCG
65 GCTAAATATCCTTTTAAAAAATTTTCAAAATAAGGCAATGTTTTGCG
1066381 TTTGGGAAATTAGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATG
1 TTT-GGAAATTAGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATG
* *
1066446 GCTAAATATCCTTTTAAAAAAAATTTCAAAATAAGGCAATGTTTTGTG
65 GCTAAATATCCTTTT-AAAAAATTTTCAAAATAAGGCAATGTTTTGCG
1066494 TTTGGAAATT
1 TTTGGAAATT
1066504 TGAGGAACGT
Statistics
Matches: 331, Mismatches: 11, Indels: 5
0.95 0.03 0.01
Matches are distributed among these distances:
109 73 0.22
110 9 0.03
111 23 0.07
112 193 0.58
113 33 0.10
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (111 bp):
TTTGGAAATTAGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCATTCAACCAAATGG
CTAAATATCCTTTTAAAAAATTTTCAAAATAAGGCAATGTTTTGCG
Found at i:1067641 original size:19 final size:19
Alignment explanation
Indices: 1067604--1067642 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1067594 TATTTTAAAA
***
1067604 TATTTTTAAAATTCTTTTT
1 TATTTTTAAAATAAATTTT
1067623 TATTTTTAAAATAAATTTT
1 TATTTTTAAAATAAATTTT
1067642 T
1 T
1067643 GGTGTTTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (19 bp):
TATTTTTAAAATAAATTTT
Found at i:1070287 original size:23 final size:21
Alignment explanation
Indices: 1070260--1070304 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 21
1070250 CCAACTCAAT
*
1070260 TAAATACTTAAAAATAATATAAA
1 TAAATAATT-AAAAT-ATATAAA
1070283 TAAATAATTAAAATATATAAA
1 TAAATAATTAAAATATATAAA
1070304 T
1 T
1070305 TACTTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.38
22 5 0.24
23 8 0.38
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAATAATTAAAATATATAAA
Found at i:1072057 original size:16 final size:16
Alignment explanation
Indices: 1072036--1072066 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1072026 CAAATTTTAT
*
1072036 TTGGATTTGGATTTTC
1 TTGGATTTGAATTTTC
1072052 TTGGATTTGAATTTT
1 TTGGATTTGAATTTT
1072067 TTAGAGCCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.03, G:0.23, T:0.58
Consensus pattern (16 bp):
TTGGATTTGAATTTTC
Found at i:1075293 original size:93 final size:93
Alignment explanation
Indices: 1075181--1075351 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
1075171 GCCCATAAGT
* *
1075181 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1075246 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
1075274 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1075339 CGAGTTCGGATGC
66 CGAGTTCGGATGC
1075352 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:1075348 original size:46 final size:46
Alignment explanation
Indices: 1075173--1075348 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
1075163 TGTAACCCGC
* * *
1075173 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
1075219 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
1075269 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1075312 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1075349 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 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 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:1077783 original size:30 final size:30
Alignment explanation
Indices: 1077739--1077827 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
1077729 CAAAGATAAC
1077739 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
1077768 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
1077798 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
1077828 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:1077787 original size:15 final size:15
Alignment explanation
Indices: 1077739--1077818 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
1077729 CAAAGATAAC
*
1077739 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
1077753 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
1077768 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
1077783 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
1077798 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
1077813 AAGAAA
1 AAGAAA
1077819 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:1077827 original size:15 final size:15
Alignment explanation
Indices: 1077750--1077827 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
1077740 AGAAAACCGA
1077750 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
1077765 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
1077779 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
1077794 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
1077810 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
1077825 ATA
1 ATA
1077828 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:1081149 original size:47 final size:47
Alignment explanation
Indices: 1081016--1081222 Score: 184
Period size: 47 Copynumber: 4.3 Consensus size: 47
1081006 ATAGTAAAAT
** * *
1081016 TATGGTCTTGCACA-TAGTCACATATCACATACCGAGGCCATAGCCCAGC
1 TATGGTCTTATACAGTAG-CACATATCAC--ACCGATGCCATAGCCCAGA
* * * * *
1081065 CATGGTCTTATAC-GGATCACATATCACACTGATGCCATATCCCAGA
1 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
* *
1081111 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCGGA
1 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
* * * * *
1081158 TATGGTCTTATACGGAAGCACAAATCACATTTCTCCGAAGCCATAGCCCAGC
1 TATGGTCTTATACAGTAGCACATATCACA-----CCGATGCCATAGCCCAGA
1081210 TATGGTCTTATAC
1 TATGGTCTTATAC
1081223 GGAAATCACA
Statistics
Matches: 130, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
46 27 0.21
47 55 0.42
48 10 0.08
49 11 0.08
52 27 0.21
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (47 bp):
TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
Found at i:1086917 original size:54 final size:51
Alignment explanation
Indices: 1086810--1086917 Score: 121
Period size: 54 Copynumber: 2.1 Consensus size: 51
1086800 AATTTAGAGA
** *
1086810 AAATTATTTAAAAATTAAAAAAATAAAAAAATTATTTAAGGTAATATATAT
1 AAATTATTTAAAAATTAAAAAAATAAAAAAATTATAAAAAGTAATATATAT
*
1086861 AAATTA-TTAAAATTTCAAAAATAATATAAAAAATATATAAAAAGTAA-ATATTAT
1 AAATTATTTAAAAATT-AAAAA-AATA-AAAAAAT-TATAAAAAGTAATATA-TAT
1086915 AAA
1 AAA
1086918 ACTATTGTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
50 8 0.17
51 11 0.23
52 4 0.08
53 10 0.21
54 15 0.31
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (51 bp):
AAATTATTTAAAAATTAAAAAAATAAAAAAATTATAAAAAGTAATATATAT
Found at i:1087462 original size:30 final size:30
Alignment explanation
Indices: 1087426--1087485 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
1087416 CTGAAACAAG
* *
1087426 TTTTCAGTTTTTGTTCATTAATTTGTTGAA
1 TTTTCAGTTTTTGTTCATCAATTTGCTGAA
1087456 TTTTCAGTTTTTGTTCATCAATTTGCTGAA
1 TTTTCAGTTTTTGTTCATCAATTTGCTGAA
1087486 GAAGAGTGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.20, C:0.10, G:0.13, T:0.57
Consensus pattern (30 bp):
TTTTCAGTTTTTGTTCATCAATTTGCTGAA
Found at i:1097098 original size:22 final size:21
Alignment explanation
Indices: 1097073--1097114 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
1097063 TAACATGTTG
1097073 AATTTTAATTAATTTTATATTA
1 AATTTTAATTAATTTT-TATTA
*
1097095 AATTTTTATTAATTTTTATT
1 AATTTTAATTAATTTTTATT
1097115 TATTTTCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
AATTTTAATTAATTTTTATTA
Found at i:1097104 original size:11 final size:10
Alignment explanation
Indices: 1097073--1097120 Score: 60
Period size: 10 Copynumber: 4.6 Consensus size: 10
1097063 TAACATGTTG
*
1097073 AATTTTAATT
1 AATTTTTATT
1097083 AATTTTATATT
1 AATTTT-TATT
1097094 AAATTTTTATT
1 -AATTTTTATT
1097105 AATTTTTATT
1 AATTTTTATT
*
1097115 TATTTT
1 AATTTT
1097121 CAACAGATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
10 21 0.62
11 7 0.21
12 6 0.18
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
AATTTTTATT
Found at i:1111133 original size:23 final size:23
Alignment explanation
Indices: 1111107--1111198 Score: 71
Period size: 23 Copynumber: 3.9 Consensus size: 23
1111097 GGACTCACCA
1111107 CAGCTTGTATGAGCTTACCGTTT
1 CAGCTTGTATGAGCTTACCGTTT
* * *
1111130 CAGC-TCTACGGACCTTACCGTTT
1 CAGCTTGTA-TGAGCTTACCGTTT
*
1111153 CAGCTCG-ATAGAGCTTACCGTTTAT
1 CAGCTTGTAT-GAGCTTACCG-TT-T
* *
1111178 CAGCTCGGAATGAGCTTACCG
1 CAGCT-TGTATGAGCTTACCG
1111199 ATCATGGCTC
Statistics
Matches: 54, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
22 3 0.06
23 30 0.56
24 2 0.04
25 6 0.11
26 11 0.20
27 2 0.04
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.30
Consensus pattern (23 bp):
CAGCTTGTATGAGCTTACCGTTT
Found at i:1111198 original size:26 final size:23
Alignment explanation
Indices: 1111117--1111198 Score: 85
Period size: 23 Copynumber: 3.4 Consensus size: 23
1111107 CAGCTTGTAT
* **
1111117 GAGCTTACCGTTTCAGCTCTACG
1 GAGCTTACCGTTTCAGCTCGATA
*
1111140 GACCTTACCGTTTCAGCTCGATA
1 GAGCTTACCGTTTCAGCTCGATA
1111163 GAGCTTACCGTTTATCAGCTCGGA-A
1 GAGCTTACCG-TT-TCAGCTC-GATA
1111188 TGAGCTTACCG
1 -GAGCTTACCG
1111199 ATCATGGCTC
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
23 28 0.56
24 2 0.04
25 8 0.16
26 12 0.24
ACGTcount: A:0.21, C:0.28, G:0.22, T:0.29
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCGATA
Found at i:1119224 original size:29 final size:29
Alignment explanation
Indices: 1119191--1119309 Score: 229
Period size: 29 Copynumber: 4.1 Consensus size: 29
1119181 GTTTACATGA
1119191 ATGCAAATGAAATGTTACAAATACTATTT
1 ATGCAAATGAAATGTTACAAATACTATTT
1119220 ATGCAAATGAAATGTTACAAATACTATTT
1 ATGCAAATGAAATGTTACAAATACTATTT
1119249 ATGCAAATGAAATGTTACAAATACTATTT
1 ATGCAAATGAAATGTTACAAATACTATTT
*
1119278 ATGCAAATGAAATGTTACAAATACTATAT
1 ATGCAAATGAAATGTTACAAATACTATTT
1119307 ATG
1 ATG
1119310 TTATATAGAT
Statistics
Matches: 89, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
29 89 1.00
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (29 bp):
ATGCAAATGAAATGTTACAAATACTATTT
Found at i:1119585 original size:23 final size:23
Alignment explanation
Indices: 1119559--1119673 Score: 92
Period size: 23 Copynumber: 4.9 Consensus size: 23
1119549 GGACCCACCA
1119559 CAGCTTGTATGAGCTTACCGTTT
1 CAGCTTGTATGAGCTTACCGTTT
* *
1119582 CAGC-TCTACAGAGCTTACCGTTT
1 CAGCTTGTA-TGAGCTTACCGTTT
* *
1119605 CAGC-TCTACAGAGCTTACCGTTT
1 CAGCTTGTA-TGAGCTTACCGTTT
*
1119628 CAGCTCG-ATAGAGCTTACCGTTTAT
1 CAGCTTGTAT-GAGCTTACCG-TT-T
* *
1119653 CAGCTCGGAATGAGCTTACCG
1 CAGCT-TGTATGAGCTTACCG
1119674 ATCATGGCTC
Statistics
Matches: 79, Mismatches: 6, Indels: 11
0.82 0.06 0.11
Matches are distributed among these distances:
22 3 0.04
23 55 0.70
24 2 0.03
25 6 0.08
26 11 0.14
27 2 0.03
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (23 bp):
CAGCTTGTATGAGCTTACCGTTT
Found at i:1120990 original size:12 final size:12
Alignment explanation
Indices: 1120975--1121008 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1120965 AAAAGATTAT
1120975 GAAAAAGAAAAC
1 GAAAAAGAAAAC
**
1120987 GAAAAAGAAATT
1 GAAAAAGAAAAC
1120999 GAAAAAGAAA
1 GAAAAAGAAA
1121009 GTGAGAGTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.74, C:0.03, G:0.18, T:0.06
Consensus pattern (12 bp):
GAAAAAGAAAAC
Found at i:1126376 original size:13 final size:13
Alignment explanation
Indices: 1126358--1126387 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1126348 GATTAGCGGC
1126358 TTTGAGAGTTTTT
1 TTTGAGAGTTTTT
1126371 TTTGAGAGTTTTT
1 TTTGAGAGTTTTT
1126384 TTTG
1 TTTG
1126388 TTTTTTTTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.00, G:0.23, T:0.63
Consensus pattern (13 bp):
TTTGAGAGTTTTT
Found at i:1126831 original size:19 final size:19
Alignment explanation
Indices: 1126809--1126848 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
1126799 ATAAATAATG
1126809 TAATTATTAT-TTTCATATA
1 TAATTATTATCTTTC-TATA
*
1126828 TAATTATTTTCTTTCTATA
1 TAATTATTATCTTTCTATA
1126847 TA
1 TA
1126849 TTTGTATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (19 bp):
TAATTATTATCTTTCTATA
Found at i:1128219 original size:18 final size:18
Alignment explanation
Indices: 1128197--1128238 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1128187 ATACTTTACC
*
1128197 TTTTTTAAAATATATATAA
1 TTTTCTAAAA-ATATATAA
1128216 TTTTCTAAAAATATATAA
1 TTTTCTAAAAATATATAA
*
1128234 ATTTC
1 TTTTC
1128239 AGAATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTTCTAAAAATATATAA
Found at i:1132448 original size:125 final size:125
Alignment explanation
Indices: 1132220--1132491 Score: 415
Period size: 125 Copynumber: 2.2 Consensus size: 125
1132210 TTATTTCGAG
* * **
1132220 TTGACGTTTCTG-GTCAAATGGTATAAAATCGCTTCTACCAGGATGCTATTAGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCACTGATACCAGGATGCTATTAGAGAAGAAATTGT
* *
1132284 GAAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAAAT-TTTT
65 GAAATCGCGCCCTCGTGGACGCGATTTCGCTACAATTGGTCATGTAAGAAATAAATATTTT
*
1132344 TTGACGTTTTCTGAGCAACTAGTATAAAATCACTGATACCAGGATGCTA-TATGAGAAGAAATTG
1 TTGACG-TTTCTGAGCAAATAGTATAAAATCACTGATACCAGGATGCTATTA-GAGAAGAAATTG
* *
1132408 TGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAATTGGTCATGTAGGAAATAATTATTTT
64 TGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAATTGGTCATGTAAGAAATAAATATTTT
1132470 TTGACGTTTCTGAGCAAATAGT
1 TTGACGTTTCTGAGCAAATAGT
1132492 GTCAAATCGC
Statistics
Matches: 134, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
124 8 0.06
125 115 0.86
126 11 0.08
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCACTGATACCAGGATGCTATTAGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTCGCTACAATTGGTCATGTAAGAAATAAATATTTT
Found at i:1135563 original size:29 final size:29
Alignment explanation
Indices: 1135521--1136329 Score: 774
Period size: 29 Copynumber: 28.5 Consensus size: 29
1135511 TTTTGTTAAT
1135521 GGTTAGGGTTTTTAATTAAATTAAATTAG
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
1135550 GGTTAGGGTTTTTAATTAAATTAAATTAG
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
1135579 GGTTAGGGTTTTTAATTAAATTAAATTAG
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
**
1135608 GGTTAGGGTTTTTAATTAAAATGGGTTAGGGTTAG
1 GGTTAGGGTTTTTAATT-AAA----TTA-AATTAG
*
1135643 GGTTTAGGGTTCTTAATTAAATTAAATTAG
1 GG-TTAGGGTTTTTAATTAAATTAAATTAG
**
1135673 GGTTAGGGTTTTTAATTAAAATGGGTTAGGGTTAG
1 GGTTAGGGTTTTTAATT-AAA----TTA-AATTAG
*
1135708 GGTTTAGGGTTCTTAATTAAATTAAATTAG
1 GG-TTAGGGTTTTTAATTAAATTAAATTAG
* ***
1135738 GGTTAGGGTTTTTAATTAAAATGGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
* **
1135767 GGTTAGGGTTTTTAATTTAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
* * ***
1135796 GATTTAGGGTTTTTAATTAAAATGGGTTAG
1 G-GTTAGGGTTTTTAATTAAATTAAATTAG
* * ***
1135826 GGTTTAAGGTTTTTAATTAAAATGGGTTAG
1 GG-TTAGGGTTTTTAATTAAATTAAATTAG
*
1135856 GGTTAGGGTTTTTAATTAAATTAAGTTTA-
1 GGTTAGGGTTTTTAATTAAATTAA-ATTAG
* ***
1135885 GGTTAGGGTTTTTAATTAAAATGGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
*
1135914 GGTTAGGGTTTTTAATTAATTTAAATTA-
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
1135942 GGTTAGGG--TTT--TT-AATTAAATTA-
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
*
1135965 GGTTAGGGTTTTTAATTAATTTAAATTA-
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
* ***
1135993 GGTTAGGGTTTTTAATTAAAATGGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
* **
1136022 GGTTAGGGTTTTTAATTTAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
1136051 GGTTTAGGG--TTT--TT-AATTAAATTA-
1 GG-TTAGGGTTTTTAATTAAATTAAATTAG
1136075 GGTTAGGGTTTTTAATTAAATTAAATTA-
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
* ***
1136103 GGTTAGGGTTTTTAATTAAAATGGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
* **
1136132 GGTTAGGGTTTTTAATTTAATTAGGTTAG
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
1136161 GGTTTAGGG--TTT--TT-AATTAAATTA-
1 GG-TTAGGGTTTTTAATTAAATTAAATTAG
1136185 GGTTAGGGTTTTTAATTAAATTAAATTA-
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
1136213 GGTTAGGGTTTTTAATT--A--AAA-T-G
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
* *
1136236 GGTTAGGGGTTTTAATTAATTTAAATTA-
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
1136264 GGTTAGGG--TTT--TT-AATTAAATTA-
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
1136287 GGTTAGGGTTTTTAATTAAATTAAATTAG
1 GGTTAGGGTTTTTAATTAAATTAAATTAG
1136316 GGTT-GGGTTTTTAA
1 GGTTAGGGTTTTTAA
1136330 ACAAATTATA
Statistics
Matches: 667, Mismatches: 63, Indels: 101
0.80 0.08 0.12
Matches are distributed among these distances:
23 63 0.09
24 11 0.02
25 28 0.04
26 11 0.02
27 11 0.02
28 139 0.21
29 260 0.39
30 86 0.13
31 6 0.01
34 6 0.01
35 18 0.03
36 28 0.04
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (29 bp):
GGTTAGGGTTTTTAATTAAATTAAATTAG
Found at i:1135911 original size:23 final size:23
Alignment explanation
Indices: 1135856--1136306 Score: 263
Period size: 28 Copynumber: 16.9 Consensus size: 23
1135846 AATGGGTTAG
1135856 GGTTAGGGTTTTTAATTAAATTAAGTTTA
1 GGTTAGGGTTTTTAATT-AA--AA---TA
1135885 GGTTAGGGTTTTTAATTAAAATGGGTTA
1 GGTTAGGGTTTTTAATTAAAA-----TA
1135913 GGGTTAGGGTTTTTAATTAATTTAAATTA
1 -GGTTAGGGTTTTTAATT-A---AAA-TA
*
1135942 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAAATA
1135965 GGTTAGGGTTTTTAATTAATTTAAATTA
1 GGTTAGGGTTTTTAATT-A---AAA-TA
1135993 GGTTAGGGTTTTTAATTAAAATGGGTTA
1 GGTTAGGGTTTTTAATTAAAA-----TA
*
1136021 GGGTTAGGGTTTTTAATTTAATTAGGTTA
1 -GGTTAGGGTTTTTAA-TTAA--A--ATA
*
1136050 GGGTTTAGGGTTTTTAATTAAATTA
1 -GG-TTAGGGTTTTTAATTAAAATA
1136075 GGTTAGGGTTTTTAATTAAATTAAATTA
1 GGTTAGGGTTTTTAATT--A--AAA-TA
1136103 GGTTAGGGTTTTTAATTAAAATGGGTTA
1 GGTTAGGGTTTTTAATTAAAA-----TA
*
1136131 GGGTTAGGGTTTTTAATTTAATTAGGTTA
1 -GGTTAGGGTTTTTAA-TTAA--A--ATA
*
1136160 GGGTTTAGGGTTTTTAATTAAATTA
1 -GG-TTAGGGTTTTTAATTAAAATA
1136185 GGTTAGGGTTTTTAATTAAATTAAATTA
1 GGTTAGGGTTTTTAATT--A--AAA-TA
*
1136213 GGTTAGGGTTTTTAATTAAAATG
1 GGTTAGGGTTTTTAATTAAAATA
*
1136236 GGTTAGGGGTTTTAATTAATTTAAATTA
1 GGTTA-GGG-TTT--TTAA-TTAAAATA
*
1136264 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAAATA
1136287 GGTTAGGGTTTTTAATTAAA
1 GGTTAGGGTTTTTAATTAAA
1136307 TTAAATTAGG
Statistics
Matches: 363, Mismatches: 10, Indels: 104
0.76 0.02 0.22
Matches are distributed among these distances:
23 83 0.23
24 23 0.06
25 11 0.03
26 7 0.02
27 17 0.05
28 97 0.27
29 85 0.23
30 35 0.10
32 2 0.01
33 3 0.01
ACGTcount: A:0.30, C:0.00, G:0.24, T:0.47
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAAATA
Found at i:1135982 original size:18 final size:21
Alignment explanation
Indices: 1135934--1135976 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 21
1135924 TTTAATTAAT
1135934 TTAAATTAGGTTAGGGTTTTTAA
1 TTAAATTAGGTTAGGG-TTTT-A
1135957 TTAAATTAGGTTAGGGTTTT
1 TTAAATTAGGTTAGGGTTTT
1135977 TAATTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (21 bp):
TTAAATTAGGTTAGGGTTTTA
Found at i:1136303 original size:18 final size:21
Alignment explanation
Indices: 1136204--1136319 Score: 79
Period size: 23 Copynumber: 4.9 Consensus size: 21
1136194 TTTTAATTAA
1136204 ATTAAATTAGGTTAGGGTTTTT
1 ATTAAATTAGGTTAGGG-TTTT
* *
1136226 AATTAAAATGGGTTAGGGGTTTTAATT
1 -ATTAAATTAGGTTA-GGG--TT--TT
1136253 AATTTAAATTAGGTTAGGGTTTTT
1 -A-TTAAATTAGGTTAGGG-TTTT
1136277 AATTAAATTAGGTTAGGGTTTTT
1 -ATTAAATTAGGTTAGGG-TTTT
**
1136300 AATTAAATTAAATTAGGGTT
1 -ATTAAATTAGGTTAGGGTT
1136320 GGGTTTTTAA
Statistics
Matches: 82, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
22 2 0.02
23 49 0.60
24 7 0.09
25 3 0.04
26 3 0.04
27 7 0.09
28 11 0.13
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.46
Consensus pattern (21 bp):
ATTAAATTAGGTTAGGGTTTT
Found at i:1136647 original size:24 final size:24
Alignment explanation
Indices: 1136615--1136670 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
1136605 TGTATGTGGA
1136615 GGTGTTTGCATCATGAACGGCAAC
1 GGTGTTTGCATCATGAACGGCAAC
*
1136639 GGTGTTTGCATCATGAACGGCGAC
1 GGTGTTTGCATCATGAACGGCAAC
*
1136663 GGAGTTTG
1 GGTGTTTG
1136671 AAAGCCATGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.21, C:0.18, G:0.34, T:0.27
Consensus pattern (24 bp):
GGTGTTTGCATCATGAACGGCAAC
Found at i:1137248 original size:75 final size:74
Alignment explanation
Indices: 1137125--1137267 Score: 268
Period size: 75 Copynumber: 1.9 Consensus size: 74
1137115 ATACGACTTC
1137125 CCATGAATCCTAAACCATGGCATGTATTCTGGAACGCACGCTAACTCGGGAACGATGATTTGTTC
1 CCATGAATCCTAAACCATGGCATGTATTCTGGAACGCACGCTAACTCGGGAACGATGATTTGTTC
1137190 CCGNGGCTTT
66 CCG-GGCTTT
*
1137200 CCATGGATCCTAAACCATGGCATGTATTCTGGAACGCACGCTAACTCGGGAACGATGATTTGTTC
1 CCATGAATCCTAAACCATGGCATGTATTCTGGAACGCACGCTAACTCGGGAACGATGATTTGTTC
1137265 CCG
66 CCG
1137268 AGTTGGTAGA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 67 1.00
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.26
Consensus pattern (74 bp):
CCATGAATCCTAAACCATGGCATGTATTCTGGAACGCACGCTAACTCGGGAACGATGATTTGTTC
CCGGGCTTT
Found at i:1138743 original size:29 final size:29
Alignment explanation
Indices: 1138704--1138759 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
1138694 TTGAAAATAT
1138704 TAAAAATTTTAAAATTAT-TTTAAAAAAA
1 TAAAAATTTTAAAATTATCTTTAAAAAAA
*
1138732 TAAAAATATTTAAAATTTTCTTTAAAAA
1 TAAAAAT-TTTAAAATTATCTTTAAAAA
1138760 TGAAATTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 7 0.28
29 10 0.40
30 8 0.32
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (29 bp):
TAAAAATTTTAAAATTATCTTTAAAAAAA
Found at i:1138851 original size:11 final size:11
Alignment explanation
Indices: 1138816--1138873 Score: 50
Period size: 11 Copynumber: 5.3 Consensus size: 11
1138806 TTGAAGGAAA
1138816 TTGAGAGAATT
1 TTGAGAGAATT
*
1138827 TTGAAAAGAA-T
1 TTG-AGAGAATT
1138838 TTGAGAGAATT
1 TTGAGAGAATT
*
1138849 TTG-GAAGGAA-A
1 TTGAG-A-GAATT
1138860 TTGAGAGAATT
1 TTGAGAGAATT
1138871 TTG
1 TTG
1138874 GTTTGTGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
10 9 0.24
11 19 0.51
12 9 0.24
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.33
Consensus pattern (11 bp):
TTGAGAGAATT
Found at i:1138883 original size:24 final size:22
Alignment explanation
Indices: 1138794--1138874 Score: 117
Period size: 22 Copynumber: 3.7 Consensus size: 22
1138784 TAATATGGAT
* *
1138794 TTGAGAGATTTTTTGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
* * *
1138816 TTGAGAGAATTTTGAAAAGAAT
1 TTGAGAGAATTTTGGAAGGAAA
1138838 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
1138860 TTGAGAGAATTTTGG
1 TTGAGAGAATTTTGG
1138875 TTTGTGAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.33
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:1142144 original size:13 final size:13
Alignment explanation
Indices: 1142126--1142151 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1142116 TCACCTTAGG
1142126 CTTGCTTCTGAAC
1 CTTGCTTCTGAAC
1142139 CTTGCTTCTGAAC
1 CTTGCTTCTGAAC
1142152 TAGCCTAAGT
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:0.15, C:0.31, G:0.15, T:0.38
Consensus pattern (13 bp):
CTTGCTTCTGAAC
Found at i:1143559 original size:9 final size:9
Alignment explanation
Indices: 1143545--1143572 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
1143535 TTTGTATTAA
1143545 TATTGTTAT
1 TATTGTTAT
1143554 TATTGTTAT
1 TATTGTTAT
1143563 TATTGTTAT
1 TATTGTTAT
1143572 T
1 T
1143573 TTATTCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.11, T:0.68
Consensus pattern (9 bp):
TATTGTTAT
Found at i:1144011 original size:12 final size:12
Alignment explanation
Indices: 1143994--1144036 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
1143984 TTTTACAATT
1143994 TATATATATACA
1 TATATATATACA
*
1144006 TATATATGTCTACA
1 TATATA--TATACA
*
1144020 TATATATATCCA
1 TATATATATACA
1144032 TATAT
1 TATAT
1144037 TTTTATAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 15 0.58
14 11 0.42
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (12 bp):
TATATATATACA
Found at i:1144011 original size:14 final size:14
Alignment explanation
Indices: 1143994--1144028 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
1143984 TTTTACAATT
1143994 TATATATATACATA
1 TATATATATACATA
* *
1144008 TATATGTCTACATA
1 TATATATATACATA
1144022 TATATAT
1 TATATAT
1144029 CCATATATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.46
Consensus pattern (14 bp):
TATATATATACATA
Found at i:1146425 original size:23 final size:23
Alignment explanation
Indices: 1146381--1146426 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1146371 GGGATTAGTA
* * *
1146381 AATTTACAATTTGATTATTCAAT
1 AATTTACAATTTAATCACTCAAT
*
1146404 AATTTATAATTTAATCACTCAAT
1 AATTTACAATTTAATCACTCAAT
1146427 TATTAGTAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.46
Consensus pattern (23 bp):
AATTTACAATTTAATCACTCAAT
Found at i:1146430 original size:31 final size:31
Alignment explanation
Indices: 1146394--1146454 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
1146384 TTACAATTTG
*
1146394 ATTATTCAAT-AATTTATAATTTAATCACTCA
1 ATTATT-AATAAATTTATAACTTAATCACTCA
* *
1146425 ATTATTAGTAAATTTATAACTTGATCACTC
1 ATTATTAATAAATTTATAACTTAATCACTC
1146455 CCATGTTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.39, C:0.13, G:0.03, T:0.44
Consensus pattern (31 bp):
ATTATTAATAAATTTATAACTTAATCACTCA
Found at i:1146544 original size:15 final size:15
Alignment explanation
Indices: 1146523--1146553 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
1146513 GAAATCTTAG
1146523 ATTTTTTTT-CTTTA
1 ATTTTTTTTGCTTTA
1146537 ATTTTTTTTGCTTTA
1 ATTTTTTTTGCTTTA
1146552 AT
1 AT
1146554 CCAACTAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.16, C:0.06, G:0.03, T:0.74
Consensus pattern (15 bp):
ATTTTTTTTGCTTTA
Found at i:1153192 original size:16 final size:16
Alignment explanation
Indices: 1153171--1153205 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
1153161 AAATTACGAC
1153171 ATTATATATTTATATT
1 ATTATATATTTATATT
1153187 ATTATATATTTATATT
1 ATTATATATTTATATT
1153203 ATT
1 ATT
1153206 GTATTGTGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTATATATTTATATT
Found at i:1158462 original size:18 final size:20
Alignment explanation
Indices: 1158439--1158481 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
1158429 TTATTATTAT
1158439 TTTTTTGAAT-TT-TTAAAA
1 TTTTTTGAATGTTCTTAAAA
*
1158457 TTTTTTGAATGTTCTTATAA
1 TTTTTTGAATGTTCTTAAAA
1158477 TTTTT
1 TTTTT
1158482 ACATTATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.45
19 2 0.09
20 10 0.45
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (20 bp):
TTTTTTGAATGTTCTTAAAA
Found at i:1160461 original size:296 final size:297
Alignment explanation
Indices: 1159762--1160619 Score: 885
Period size: 300 Copynumber: 2.9 Consensus size: 297
1159752 ATTACACATT
* * *
1159762 TTATCTATACTATTATTTAAA-CCTCTGACTGAGTTGTTGGTGTCATAAGCCAACCAGG-CACCA
1 TTATCTATATTATTATTTAAACCCT-TGACTGA---GTTGGTGTCATGAGTCAACC-GGACACCA
* * * * *
1159825 ACTCGATTAGAAAAATTACTAAAATATCCTTTCATATTTAAAATAAGTTATGTTATTTGAAGATA
61 ACTTGATTAGAGAAATTACTAAAATATCCTTTCATATTTAAAATAAGTTATATTA-TTAAAGGTA
** * *
1159890 CTTTGGTTTTTTATTATTGAAAAACAATAAAAAATATACATATGAT-AGGATTTGAATTCATGCC
125 CTTTAATTTTTTATT-TTAAAAAACAATAAAAAATATACATATTATGA-GATTTGAATTCATGCC
* * * * * *
1159954 AATTACATTAGAAAAATCTTAAATTTACCACTCAATCAAAGCTTTGTTTTGATATTATTATACAT
188 AATTGCATTAGAAAAATCTTAAATTTACCATTCAACCAAAGCTTTATTTTGATATTTTTAAACAT
** * * * *
1160019 TACAATTTTATTATACACACTTTTATTACCTTCATCAATTGTATA
253 TTTAATTTTACTATACACACTTTTATTACCATCATCAAATCTATA
* * * * * * *
1160064 TTTATTTATATTATTATTTAAACCCTTGACTGAATTGGTATTATGAGTCAACC-AAGCACTAATT
1 -TTATCTATATTATTATTTAAACCCTTGACTGAGTTGGTGTCATGAGTCAACCGGA-CACCAACT
* * *
1160128 TGATTAG-GTAGATTACTAAAATATCCTCTCGTATTTAAAATAAGTTATATTATTAAACGGTACT
64 TGATTAGAG-AAATTACTAAAATATCCTTTCATATTTAAAATAAGTTATATTATTAAA-GGTACT
* * * * *
1160192 TTAATCTTTTTATTTTTAAAAACAAT-AAAAATATGCATATTATGATATTTAAATCCATGCCAAT
127 TTAAT-TTTTTATTTTAAAAAACAATAAAAAATATACATATTATGAGATTTGAATTCATGCCAAT
* *
1160256 TGTATTAG-AAAATCTTAAAGTTACCATTCAACCACAA-CTTTATTTTGATAACTTTTTAAACAT
191 TGCATTAGAAAAATCTTAAATTTACCATTCAACCA-AAGCTTTATTTTGAT-A-TTTTTAAACAT
*
1160319 TTTAATTTTACTATTCACAC-TTTATTA-CATCATCAAATCTATA
253 TTTAATTTTACTATACACACTTTTATTACCATCATCAAATCTATA
** ** *
1160362 -TATCTATATTATTATTTAAATTCTTGGGTGAGTTGGTGTCACGAGTCAACCGGACACCAACTTG
1 TTATCTATATTATTATTTAAACCCTTGACTGAGTTGGTGTCATGAGTCAACCGGACACCAACTTG
* * * ** *
1160426 ATTAGAGAAATTACTAAAATATCATTTCATATTTAAAATAAATTATATTCTTTGAGGCTATTTTA
66 ATTAGAGAAATTACTAAAATATCCTTTCATATTTAAAATAAGTTATATTATTAAAGG-TACTTTA
* * * * *
1160491 ATATTTTAATTTAAAATAATAATAAAAAATATACAT-TTGATGAGATATGAATTCATACCAATTG
130 ATTTTTTATTTTAAAA-AACAATAAAAAATATACATATT-ATGAGATTTGAATTCATGCCAATTG
* * * * *
1160555 CATTAGAAAAACCTTAAATTTATCGTTCAACCAAAGCTTTATTTTAATATTTTTTACACATTTTA
193 CATTAGAAAAATCTTAAATTTACCATTCAACCAAAGCTTTATTTTGATA-TTTTTAAACATTTTA
1160620 TATATATTAT
Statistics
Matches: 457, Mismatches: 80, Indels: 42
0.79 0.14 0.07
Matches are distributed among these distances:
295 13 0.03
296 110 0.24
297 55 0.12
298 80 0.18
299 51 0.11
300 111 0.24
301 8 0.02
303 26 0.06
304 3 0.01
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (297 bp):
TTATCTATATTATTATTTAAACCCTTGACTGAGTTGGTGTCATGAGTCAACCGGACACCAACTTG
ATTAGAGAAATTACTAAAATATCCTTTCATATTTAAAATAAGTTATATTATTAAAGGTACTTTAA
TTTTTTATTTTAAAAAACAATAAAAAATATACATATTATGAGATTTGAATTCATGCCAATTGCAT
TAGAAAAATCTTAAATTTACCATTCAACCAAAGCTTTATTTTGATATTTTTAAACATTTTAATTT
TACTATACACACTTTTATTACCATCATCAAATCTATA
Found at i:1161302 original size:841 final size:834
Alignment explanation
Indices: 1159458--1161318 Score: 1977
Period size: 840 Copynumber: 2.2 Consensus size: 834
1159448 TAAAGTTTTA
* * *
1159458 TTTTAATATATTTTAATTCTATTATGCACACTTTATTACATCTATCAAATGTATATATCTATATT
1 TTTTTATACATTTTAATTTTATT-TGCACACTTTATTACATC-ATCAAATGTATATATCTATATT
* * *
1159523 ATTATTTAAATCTCTGACCGAGTTGGTGTCAAAAGTC-AACGAAGCACCAACTCGGTTAGAAAAA
64 ATTATTTAAATCT-TGACTGAGTTGGTGTCAAGAGTCAAACG-AGCACCAACTTGGTTAGAAAAA
* * * *
1159587 TTACTAAAATGTCCTTTTATGTTTAAAATAAGTTA-AGTTATTCAAGGATACTTTAGTTTTTTAT
127 TTACTAAAATGTCCTTTCATATTTAAAATAAGTTATA-TTATTCAAGGATACTTTAATTTTTAAT
* * * * *
1159651 TTAAAAAGAATAAAAATATACACAAGATATTTGAATTCATGCCAATTGCACTAGGAAAGCCTTAA
191 TTAAAAAGAATAAAAATATACACAAGAGATATGAATTCATACCAATTGCACTAGAAAAACCTTAA
* *
1159716 ATTTATCACTTAACCAAAGTTTTACTTTAATATTTTATTACACATTTTATCTATACTATTATTTA
256 ATTTATCACTTAACCAAAGCTTTACTTTAATATTTTATTACACATTTTATATATACTATTATTTA
* *
1159781 AACCTCTGACTGAGTTGTTGGTGTCATAAGCCAACCAGGCACCAACTCGATTAGAAAAATTACTA
321 AACCTCTAACTGAG-TGTTGGTGTCATAAGCCAACCAGGCACCAACTAGATTAGAAAAATTACTA
* ** * *
1159846 AAATATCCTTTCATATTTAAAATAAGTTATGTTATTTGAAGATACTTTGGTTTTTTATTATTGAA
385 AAATATCCTTTCACATTTAAAATAAGTTACATTATTTGAAG------TGGTATTTTAATATTGAA
* * ** * *
1159911 AAACAATAAAAAATATACATATGATAGGATTTGAATTCATGCCAATTACATTAGAAAAATCTTAA
444 AAACAAT----AATATACATAGGATAGGATTTGAATCCATGCCAACCACATTAAAAAAACCTTAA
* *
1159976 ATTTACCACTCAATCAAAGCTTTGTTTTGATATTATTATACATTACAATTTTATTATACACACTT
505 ATTTACCACTCAACCAAAGCTTTATTTTGATATTATTATACATTACAATTTTATTATACACAC--
** * * * * * *
1160041 TTATTACCTTCATCAATTGTATATTTATTTATATTATTATTTAAACCCTTGACTGAATTGGTATT
568 TTATTACCCCCATCAACTGTATATCTATTTATACTATTATTTAAACCCCTAACTGAATTGGTATC
** * * * * * * *
1160106 ATGAGTCAACCAAGCACTAATTTGATTAGGTAGATTACTAAAATATCCTCTCGTATTTAAAATAA
633 ACAAGTCAACCAAGCACCAACTCGATTAAGTAAATTACTAAAATATCCTCTCGAATTTAAAACAA
* * * * *
1160171 GTTATATTATTAAACGGTACTTTAATCTTTTTATTTTTAAAAACAATAAAAATATGCATATTATG
698 GTTATATTATTAAACGGTAATTTAATCTTTTTATATTAAAAAACAATAAAAAAATGCATATGATG
* *
1160236 ATATTTAAATCCATGCCAATTGTATTAGAAAATCTTAAAGTTACCATTCAACCACAACTTTATTT
763 ATATTTAAATCCATGCCAATTGCATTAGAAAATCTTAAAGTTAACATTCAACCACAACTTTATTT
1160301 TGATAAC
828 TGATAAC
* *
1160308 TTTTTAAACATTTTAATTTTACTATT-CACACTTTATTACATCATCAAATCTATATATCTATATT
1 TTTTTATACATTTTAATTTTA-T-TTGCACACTTTATTACATCATCAAATGTATATATCTATATT
** * * * *
1160372 ATTATTTAAATTCTTGGGTGAGTTGGTGTCACGAGTCAACCG-GACACCAACTTGATTAGAGAAA
64 ATTATTTAAA-TCTTGACTGAGTTGGTGTCAAGAGTCAAACGAG-CACCAACTTGGTTAGAAAAA
* * * * ** * *
1160436 TTACTAAAATATCATTTCATATTTAAAATAAATTATATTCTTTGAGGCTATTTTAATATTTTAAT
127 TTACTAAAATGTCCTTTCATATTTAAAATAAGTTATATTATTCAAGGATACTTTAAT-TTTTAAT
* * * *
1160501 TTAAAATAATAATAAAAAATATACATTTGATGAGATATGAATTCATACCAATTGCATTAGAAAAA
191 TT-AAA-AAGAAT-AAAAATATACA---CAAGAGATATGAATTCATACCAATTGCACTAGAAAAA
* * *
1160566 CCTTAAATTTATC-GTTCAACCAAAGCTTTATTTTAATATTTT-TTACACATTTTATATATATTA
250 CCTTAAATTTATCACTT-AACCAAAGCTTTACTTTAATATTTTATTACACATTTTATATATACTA
* * * * *
1160629 TTATTTAAACC-CATAACTGA-T-TTGGTGTGATAAGTCAACCTA-GCACCAATTAGGTTAGCAA
314 TTATTTAAACCTC-TAACTGAGTGTTGGTGTCATAAGCCAACC-AGGCACCAACTAGATTAGAAA
* * * * *
1160690 AATTACTAAAGTGTCTTTTCGCATTTAAAATAAGTTACATTATTTG-AG-GGTATTTTAATATTT
377 AATTACTAAAATATCCTTTCACATTTAAAATAAGTTACATTATTTGAAGTGGTATTTTAATATTG
* * * * *
1160753 ATAAAA-GAT-ATGTGCATAGGAT-GAGATTTGAATCCATGCTAACCGCATTAAAAAAACCTTAA
442 A-AAAACAATAATATACATAGGATAG-GATTTGAATCCATGCCAACCACATTAAAAAAACCTTAA
* * * * * ** *
1160815 ATTTACCACTTAGCCAAAGTTTTATTTTGATATTGTTTATATATTTTAATTTTATTATGCACAC-
505 ATTTACCACTCAACCAAAGCTTTATTTTGATATT-ATTATACATTACAATTTTATTATACACACT
* * *
1160879 T-TTACCCCCATCAACTGTATATCTATCTATACTCACTATTATTTGAACCCCTAACTGAGTTTGT
569 TATTACCCCCATCAACTGTATATCTAT-T-TA-T-ACTATTATTTAAACCCCTAACTGAATTGGT
* *
1160943 ATCACAAGTCAACTC-AGCACCAACTCGATTAAGTAAATTACTAAAATGTCCTCTTGAATTTAAA
630 ATCACAAGTCAAC-CAAGCACCAACTCGATTAAGTAAATTACTAAAATATCCTCTCGAATTTAAA
* * * *
1161007 ACAAGTTATATTATTAGAGGGTAATTTAGTCTTTTT-TATTAAAAAATAATAAAAAAATGTACAT
694 ACAAGTTATATTATTAAACGGTAATTTAATCTTTTTATATTAAAAAACAATAAAAAAATG--CAT
* * *
1161071 ATGATGA-AGTTTTAAATCCATGGCAATTGCATTAGAAAA-CTTTAAATTTAACATTCAATCA-A
757 ATGATGATA--TTTAAATCCATGCCAATTGCATTAGAAAATC-TTAAAGTTAACATTCAACCACA
* *
1161133 AGTTTTATTTTGAT-AT
819 A-CTTTATTTTGATAAC
* * * *
1161149 TTTTTATACATTTTAATTTTATTTGCACCCTTTATTACATTCATCAATTGTATATATCTAAACTA
1 TTTTTATACATTTTAATTTTATTTGCACACTTTATTACA-TCATCAAATGTATATATCTATATTA
* * *
1161214 TTATTTAAACCCTTGACTGAGATGGTGTCATGAGTCAAACGAGCACCAACTTGGTTAGAAAAATT
65 TTATTTAAA-TCTTGACTGAGTTGGTGTCAAGAGTCAAACGAGCACCAACTTGGTTAGAAAAATT
* * * * *
1161279 ACGAATATGTCCTTCCGTATTTAAAAGAAGTTATATTATT
129 ACTAAAATGTCCTTTCATATTTAAAATAAGTTATATTATT
1161319 TTAGGGTATG
Statistics
Matches: 838, Mismatches: 140, Indels: 75
0.80 0.13 0.07
Matches are distributed among these distances:
836 21 0.03
837 2 0.00
838 3 0.00
839 92 0.11
840 145 0.17
841 140 0.17
842 56 0.07
844 15 0.02
845 4 0.00
848 1 0.00
849 110 0.13
850 48 0.06
851 7 0.01
852 77 0.09
853 13 0.02
854 1 0.00
855 38 0.05
856 65 0.08
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (834 bp):
TTTTTATACATTTTAATTTTATTTGCACACTTTATTACATCATCAAATGTATATATCTATATTAT
TATTTAAATCTTGACTGAGTTGGTGTCAAGAGTCAAACGAGCACCAACTTGGTTAGAAAAATTAC
TAAAATGTCCTTTCATATTTAAAATAAGTTATATTATTCAAGGATACTTTAATTTTTAATTTAAA
AAGAATAAAAATATACACAAGAGATATGAATTCATACCAATTGCACTAGAAAAACCTTAAATTTA
TCACTTAACCAAAGCTTTACTTTAATATTTTATTACACATTTTATATATACTATTATTTAAACCT
CTAACTGAGTGTTGGTGTCATAAGCCAACCAGGCACCAACTAGATTAGAAAAATTACTAAAATAT
CCTTTCACATTTAAAATAAGTTACATTATTTGAAGTGGTATTTTAATATTGAAAAACAATAATAT
ACATAGGATAGGATTTGAATCCATGCCAACCACATTAAAAAAACCTTAAATTTACCACTCAACCA
AAGCTTTATTTTGATATTATTATACATTACAATTTTATTATACACACTTATTACCCCCATCAACT
GTATATCTATTTATACTATTATTTAAACCCCTAACTGAATTGGTATCACAAGTCAACCAAGCACC
AACTCGATTAAGTAAATTACTAAAATATCCTCTCGAATTTAAAACAAGTTATATTATTAAACGGT
AATTTAATCTTTTTATATTAAAAAACAATAAAAAAATGCATATGATGATATTTAAATCCATGCCA
ATTGCATTAGAAAATCTTAAAGTTAACATTCAACCACAACTTTATTTTGATAAC
Found at i:1162458 original size:305 final size:307
Alignment explanation
Indices: 1161939--1162492 Score: 717
Period size: 305 Copynumber: 1.8 Consensus size: 307
1161929 TTGAAATTTT
* *
1161939 TTTTACTCCCAATTTAATCTAATTTTTTTATTTTAATATCGTACATATTGCATATGTTATTATAA
1 TTTTACTCACAATTTAATCTAATTTTTTTATTTTAATATCGTACATATTGCATATATTATTATAA
* * *
1162004 ATTAGTTTCAAACTTACGTTTCATTATTTATTGTATGTTATTTTTAAACACACCCCCTGTGTTCT
66 ATTAGTTGCAAACATACGTTTCATTATTTATTGTA--TTATTTTTAAACACACCCCCTATGTTCT
* ** * * * *
1162069 AAATACATAGTTTCCACATGCATATGCATGTGACAGAATTTCTAGTGTTAATAATTTTGTTGATT
129 AAACACATAGTTTCCACACACATATGCAGGTGACAGAATTTCTAATATTAATAATGTTGTTGATT
* * * * *
1162134 GATTTGGTGTCATAAATTAACTCAACACTAACCTAAAATTGATAACAATACCATAATAAATAATT
194 GAGTAGGTGTCACAAATTAACTCAACACCAACCTAAAATTGATAACAACACCATAATAAATAATT
1162199 TTATTCATTTAGTATAATTAATATGTTGTATTTATGTGTTCAAATTCCA
259 TTATTCATTTAGTATAATTAATATGTTGTATTTATGTGTTCAAATTCCA
** * * * *
1162248 TTTTACTCACAATTTAATCTCTTTTTTTTCATTTTAATATCGTACATATTTCGTTTATTATTATT
1 TTTTACTCACAATTTAATCTAATTTTTTT-ATTTTAATATCGTACATATTGCATATATTATTATA
* *
1162313 AATTAGTTGCAAATCATATGTTTCATTATTTA-T-TA-TATTTTTAAACACA-CCTCTATGTTCT
65 AATTAGTTGCAAA-CATACGTTTCATTATTTATTGTATTATTTTTAAACACACCCCCTATGTTCT
* * *
1162374 AAACATATGGTTTCCACACACATATGTGCGAGGT-A-A-AATTTTTAATATTAATAATGTTGTTG
129 AAACACATAGTTTCCACACACATA--TGC-AGGTGACAGAATTTCTAATATTAATAATGTTGTTG
* * *
1162436 ATTGAGTAGGTGTCACAAATTAACTCAACACCAACTTATAATTGATGACAACACCAT
191 ATTGAGTAGGTGTCACAAATTAACTCAACACCAACCTAAAATTGATAACAACACCAT
1162493 GATGTCGAAA
Statistics
Matches: 209, Mismatches: 31, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
305 100 0.48
306 15 0.07
307 4 0.02
308 3 0.01
309 28 0.13
310 43 0.21
311 16 0.08
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (307 bp):
TTTTACTCACAATTTAATCTAATTTTTTTATTTTAATATCGTACATATTGCATATATTATTATAA
ATTAGTTGCAAACATACGTTTCATTATTTATTGTATTATTTTTAAACACACCCCCTATGTTCTAA
ACACATAGTTTCCACACACATATGCAGGTGACAGAATTTCTAATATTAATAATGTTGTTGATTGA
GTAGGTGTCACAAATTAACTCAACACCAACCTAAAATTGATAACAACACCATAATAAATAATTTT
ATTCATTTAGTATAATTAATATGTTGTATTTATGTGTTCAAATTCCA
Found at i:1165859 original size:19 final size:18
Alignment explanation
Indices: 1165824--1165859 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1165814 GAAGCAAGCA
*
1165824 ATGATTGAAGAAATCAGG
1 ATGATTGAAAAAATCAGG
1165842 ATGATTGAAAAGAATCAG
1 ATGATTGAAAA-AATCAG
1165860 ACCTGGAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.25, T:0.22
Consensus pattern (18 bp):
ATGATTGAAAAAATCAGG
Found at i:1171265 original size:22 final size:21
Alignment explanation
Indices: 1171240--1171286 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
1171230 CTATTTACTT
1171240 TTTTATTATTATATATTAT-TAG
1 TTTTA-TATT-TATATTATATAG
*
1171262 TTTTATATTTATATTTTATAG
1 TTTTATATTTATATTATATAG
1171283 TTTT
1 TTTT
1171287 TATAATTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 7 0.30
21 11 0.48
22 5 0.22
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (21 bp):
TTTTATATTTATATTATATAG
Found at i:1171287 original size:22 final size:23
Alignment explanation
Indices: 1171239--1171300 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 23
1171229 GCTATTTACT
*
1171239 TTTTTAT-TATTATATATTATTAG
1 TTTTTATAT-TTATATTTTATTAG
1171262 -TTTTATATTTATATTTTA-TAG
1 TTTTTATATTTATATTTTATTAG
1171283 TTTTTATAATTT-TATTTT
1 TTTTTAT-ATTTATATTTT
1171301 TTAATAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
21 3 0.09
22 27 0.77
23 5 0.14
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.69
Consensus pattern (23 bp):
TTTTTATATTTATATTTTATTAG
Found at i:1172036 original size:28 final size:27
Alignment explanation
Indices: 1172004--1172074 Score: 65
Period size: 26 Copynumber: 2.5 Consensus size: 27
1171994 ATTTTTCATT
1172004 AAATAAAATAAAGTTATAAAAACTAATA-A
1 AAATAAAATAAAGTT-TAAAAA--AATATA
**
1172033 AATATAAAA-ATTGTTTAAAAAAATATA
1 AA-ATAAAATAAAGTTTAAAAAAATATA
1172060 AAATAAAATTAAAGT
1 AAATAAAA-TAAAGT
1172075 AAAAAGTAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
26 10 0.29
27 3 0.09
28 9 0.26
29 6 0.18
30 6 0.18
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.28
Consensus pattern (27 bp):
AAATAAAATAAAGTTTAAAAAAATATA
Found at i:1172162 original size:15 final size:14
Alignment explanation
Indices: 1172135--1172168 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
1172125 AATTCAAATA
1172135 TTATTTTTTTATTT
1 TTATTTTTTTATTT
1172149 TTATTTTATTTATTT
1 TTATTTT-TTTATTT
1172164 TTATT
1 TTATT
1172169 AAAATATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (14 bp):
TTATTTTTTTATTT
Found at i:1172328 original size:60 final size:58
Alignment explanation
Indices: 1172197--1172306 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 58
1172187 TTAATATACC
* * * *
1172197 ATTTGATATTTGAACTTGACATTTTTTTCTAGTTTGGTACCTAAATTTTTTTAGCCGA
1 ATTTGGTATTTGAACTTGACAATTTTCTCTAATTTGGTACCTAAATTTTTTTAGCCGA
* *
1172255 GTTTGGTATTTGAACTTGACACATTTTCT-TAATTTGGTACCTAATTTTTTTT
1 ATTTGGTATTTGAACTTGACA-ATTTTCTCTAATTTGGTACCTAAATTTTTTT
1172307 TTGTCTCAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
58 40 0.89
59 5 0.11
ACGTcount: A:0.23, C:0.12, G:0.14, T:0.52
Consensus pattern (58 bp):
ATTTGGTATTTGAACTTGACAATTTTCTCTAATTTGGTACCTAAATTTTTTTAGCCGA
Found at i:1172751 original size:19 final size:18
Alignment explanation
Indices: 1172721--1172778 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 18
1172711 ACTATCTTAT
1172721 AAAATATATAAAACTTTAA
1 AAAATATATAAAA-TTTAA
*
1172740 AAACAT-TATAAAATTGAA
1 AAA-ATATATAAAATTTAA
1172758 ATAAATATATAAAATTTAA
1 A-AAATATATAAAATTTAA
1172777 AA
1 AA
1172779 TTAAAATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
18 8 0.24
19 24 0.71
20 2 0.06
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.31
Consensus pattern (18 bp):
AAAATATATAAAATTTAA
Found at i:1172787 original size:20 final size:19
Alignment explanation
Indices: 1172722--1172793 Score: 67
Period size: 19 Copynumber: 3.6 Consensus size: 19
1172712 CTATCTTATA
1172722 AAATATATAAAACTTTAAAA-
1 AAATATATAAAA--TTAAAAT
* *
1172742 ACAT-TATAAAATTGAAAT
1 AAATATATAAAATTAAAAT
1172760 AAATATATAAAATTTAAAATT
1 AAATATATAAAA-TTAAAA-T
1172781 AAAATATATAAAA
1 -AAATATATAAAA
1172794 ATTATAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
17 5 0.12
18 3 0.07
19 14 0.33
20 8 0.19
21 1 0.02
22 12 0.28
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (19 bp):
AAATATATAAAATTAAAAT
Found at i:1172792 original size:30 final size:30
Alignment explanation
Indices: 1172758--1172821 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
1172748 TAAAATTGAA
* *
1172758 ATAAATATATAAAATTTAAAAT-TAAAATAT
1 ATAAAAAT-TAAAATATAAAATCTAAAATAT
* *
1172788 ATAAAAATTATAATATAAAGTCTAAAATAT
1 ATAAAAATTAAAATATAAAATCTAAAATAT
1172818 ATAA
1 ATAA
1172822 GAAAATATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (30 bp):
ATAAAAATTAAAATATAAAATCTAAAATAT
Found at i:1174399 original size:29 final size:30
Alignment explanation
Indices: 1174357--1174422 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 30
1174347 ATTTTTGGTA
1174357 ATAAAA-CCGAAAATATAGCTACAAATGAT
1 ATAAAATCCGAAAATATAGCTACAAATGAT
1174386 ATAAAATCC-AAAATATAGCTACAAATGAT
1 ATAAAATCCGAAAATATAGCTACAAATGAT
1174415 ATAAAATC
1 ATAAAATC
1174423 TGAATATACA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
29 34 0.94
30 2 0.06
ACGTcount: A:0.56, C:0.14, G:0.08, T:0.23
Consensus pattern (30 bp):
ATAAAATCCGAAAATATAGCTACAAATGAT
Found at i:1176596 original size:24 final size:25
Alignment explanation
Indices: 1176565--1176613 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
1176555 AGATCTTTCA
*
1176565 AAAATAAAA-TATTTTTATAATCTT
1 AAAATAAAAGAATTTTTATAATCTT
1176589 AAAATAAAAGAATTTTTATAATCTT
1 AAAATAAAAGAATTTTTATAATCTT
1176614 GGTTTATCAC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (25 bp):
AAAATAAAAGAATTTTTATAATCTT
Found at i:1182919 original size:3 final size:3
Alignment explanation
Indices: 1182911--1182962 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
1182901 TTAGTTTTTG
* * *
1182911 TTA TTA TTA TTA TTA CTA TTA TCA TTA TTA -TA TTA TATA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
*
1182956 TAA TTA T
1 TTA TTA T
1182963 ACTTACATAT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.90
4 2 0.05
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:1182954 original size:24 final size:24
Alignment explanation
Indices: 1182911--1182962 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
1182901 TTAGTTTTTG
*
1182911 TTATTATTATTATTACTATTATCA
1 TTATTATTATTATTACTATTATAA
*
1182935 TTATTA-TATTATATAGTATTATAA
1 TTATTATTATTAT-TACTATTATAA
1182959 TTAT
1 TTAT
1182963 ACTTACATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 6 0.24
24 19 0.76
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.58
Consensus pattern (24 bp):
TTATTATTATTATTACTATTATAA
Found at i:1185345 original size:18 final size:18
Alignment explanation
Indices: 1185311--1185357 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
1185301 GGATTGGAAA
*
1185311 TCATATTTTTGTTGTTTT
1 TCATATTTTTGTCGTTTT
1185329 TCATATTTTT-TCCGTTTT
1 TCATATTTTTGT-CGTTTT
*
1185347 TTATGATTTTT
1 TCAT-ATTTTT
1185358 ATATTTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 18 0.72
19 6 0.24
ACGTcount: A:0.13, C:0.09, G:0.09, T:0.70
Consensus pattern (18 bp):
TCATATTTTTGTCGTTTT
Found at i:1185415 original size:3 final size:3
Alignment explanation
Indices: 1185407--1185434 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1185397 ACCTGATTTA
1185407 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1185435 TATAACCTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Done.