Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 13 of 163
Found at i:3660144 original size:6 final size:6
Alignment explanation
Indices: 3660125--3660184 Score: 70
Period size: 6 Copynumber: 10.3 Consensus size: 6
3660115 GTGCATAATT
* * *
3660125 AAAATA AAATTA AAAAT- AAAAT- AAAATA AAACTA AAAATG AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
3660171 AAAATG AAAATA AA
1 AAAATA AAAATA AA
3660185 GATACTACTT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
5 10 0.22
6 35 0.78
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:3660149 original size:22 final size:23
Alignment explanation
Indices: 3660124--3660173 Score: 84
Period size: 22 Copynumber: 2.2 Consensus size: 23
3660114 AGTGCATAAT
*
3660124 TAAAATAAAATTAAAAAT-AAAA
1 TAAAATAAAACTAAAAATGAAAA
3660146 TAAAATAAAACTAAAAATGAAAA
1 TAAAATAAAACTAAAAATGAAAA
3660169 TAAAA
1 TAAAA
3660174 ATGAAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 17 0.65
23 9 0.35
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (23 bp):
TAAAATAAAACTAAAAATGAAAA
Found at i:3663350 original size:18 final size:16
Alignment explanation
Indices: 3663323--3663361 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
3663313 TTTTAATATT
3663323 AAATAATTTTTAATTCA
1 AAATAA-TTTTAATTCA
*
3663340 AAATGAATTTTAATTTA
1 AAAT-AATTTTAATTCA
3663357 AAATA
1 AAATA
3663362 GATTCAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 1 0.05
17 17 0.85
18 2 0.10
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (16 bp):
AAATAATTTTAATTCA
Found at i:3663371 original size:17 final size:16
Alignment explanation
Indices: 3663351--3663393 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
3663341 AATGAATTTT
*
3663351 AATTTAAAATAGATTCA
1 AATTTAAAATAAATT-A
3663368 AATTTAAAATAAATTA
1 AATTTAAAATAAATTA
3663384 AGATTTAAAA
1 A-ATTTAAAA
3663394 ATTAAAAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 2 0.08
17 22 0.92
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (16 bp):
AATTTAAAATAAATTA
Found at i:3663638 original size:14 final size:15
Alignment explanation
Indices: 3663614--3663642 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3663604 AGACTTGCAA
3663614 TAAAGAAAAAGAGAG
1 TAAAGAAAAAGAGAG
3663629 TAAA-AAAAAGAGAG
1 TAAAGAAAAAGAGAG
3663643 GGGTTAGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.07
Consensus pattern (15 bp):
TAAAGAAAAAGAGAG
Found at i:3666754 original size:41 final size:41
Alignment explanation
Indices: 3666644--3666772 Score: 125
Period size: 41 Copynumber: 3.1 Consensus size: 41
3666634 GAAATTGTAG
* * * * *
3666644 AAAAACGCTTCTACATGGAAACACTTTTCCTTGAATGAGAG
1 AAAAACGCCTCCACGTGGAAGCACTTTTCCTTGAATGAGAC
* * *
3666685 AAAAATGCCTCCACGTGGAAGCACTTTTCTTTAAATGAGAC
1 AAAAACGCCTCCACGTGGAAGCACTTTTCCTTGAATGAGAC
*** * *
3666726 AAAAACGCCTCCACGTAGG-AGTGTTTTTCCTTGACTAAGAC
1 AAAAACGCCTCCACGT-GGAAGCACTTTTCCTTGAATGAGAC
3666767 AAAAAC
1 AAAAAC
3666773 ACGCTAAAAA
Statistics
Matches: 71, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
41 69 0.97
42 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.17, T:0.26
Consensus pattern (41 bp):
AAAAACGCCTCCACGTGGAAGCACTTTTCCTTGAATGAGAC
Found at i:3668966 original size:3 final size:3
Alignment explanation
Indices: 3668958--3668990 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
3668948 GAGTAAATAA
*
3668958 AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
3668991 GATGAGGTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:3672641 original size:2 final size:2
Alignment explanation
Indices: 3672634--3672661 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3672624 TAATACTTCA
3672634 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3672662 CAAACAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3676497 original size:15 final size:15
Alignment explanation
Indices: 3676477--3676507 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
3676467 TCATTGCTGT
3676477 CGGAAAATTTATTTA
1 CGGAAAATTTATTTA
3676492 CGGAAAATTTATTTA
1 CGGAAAATTTATTTA
3676507 C
1 C
3676508 ATCATGTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.39
Consensus pattern (15 bp):
CGGAAAATTTATTTA
Found at i:3684677 original size:18 final size:18
Alignment explanation
Indices: 3684636--3684678 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
3684626 GGGTGAGGTT
*
3684636 GTAACTTTCGATGTACTC
1 GTAACTTTAGATGTACTC
*
3684654 GCAACTTTAGATG-AGCTC
1 GTAACTTTAGATGTA-CTC
3684672 GTAACTT
1 GTAACTT
3684679 CAAATATGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 1 0.05
18 20 0.95
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.35
Consensus pattern (18 bp):
GTAACTTTAGATGTACTC
Found at i:3689659 original size:2 final size:2
Alignment explanation
Indices: 3689654--3689689 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
3689644 TAAAAAATGA
3689654 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3689690 TCACATATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3691883 original size:23 final size:23
Alignment explanation
Indices: 3691857--3691976 Score: 145
Period size: 23 Copynumber: 5.1 Consensus size: 23
3691847 ACACTAGCGC
*
3691857 GCTCTCTGATTAGCACTGTGTAT
1 GCTCTCTGATTAGCACTGTGTGT
* *
3691880 GCTCTCTGTTTAGCAC-GTCTCGT
1 GCTCTCTGATTAGCACTGTGT-GT
3691903 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG--ATTAGCACTGTGTGT
*
3691928 GCTCTCCGATTAGCACT-TCGTGT
1 GCTCTCTGATTAGCACTGT-GTGT
*
3691951 GCTCTCTGATTAGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
3691974 GCT
1 GCT
3691977 TAGTACTTTG
Statistics
Matches: 84, Mismatches: 7, Indels: 12
0.82 0.07 0.12
Matches are distributed among these distances:
22 4 0.05
23 60 0.71
24 1 0.01
25 16 0.19
26 3 0.04
ACGTcount: A:0.12, C:0.25, G:0.23, T:0.40
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:3691909 original size:25 final size:24
Alignment explanation
Indices: 3691881--3691966 Score: 74
Period size: 25 Copynumber: 3.6 Consensus size: 24
3691871 ACTGTGTATG
*
3691881 CTCTCTGTTTAGCACGTCTCGTGCT
1 CTCTCTGATTAGCACGT-TCGTGCT
* *
3691906 CTCTGTTATTAGCACTGTGT-GTGCT
1 CTCTCTGATTAGCAC-GT-TCGTGCT
3691931 CTC-C-GATTAGCAC-TTCGTG-T
1 CTCTCTGATTAGCACGTTCGTGCT
3691951 GCTCTCTGATTAGCAC
1 -CTCTCTGATTAGCAC
3691967 TTTGTGTGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
20 2 0.04
21 7 0.14
22 1 0.02
23 17 0.34
25 20 0.40
26 3 0.06
ACGTcount: A:0.13, C:0.28, G:0.21, T:0.38
Consensus pattern (24 bp):
CTCTCTGATTAGCACGTTCGTGCT
Found at i:3691931 original size:48 final size:46
Alignment explanation
Indices: 3691857--3691976 Score: 161
Period size: 48 Copynumber: 2.6 Consensus size: 46
3691847 ACACTAGCGC
* * *
3691857 GCTCTCTGATTAGCACTGTGTATGCTCTCTGTTTAGCACGTC-TCGT
1 GCTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGT-GT
*
3691903 GCTCTCTGTTATTAGCACTGTGTGTGCTCTCCGATTAGCACTTCGTGT
1 GCTCTCTG--ATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGT
*
3691951 GCTCTCTGATTAGCACTTTGTGTGCT
1 GCTCTCTGATTAGCACTGTGTGTGCT
3691977 TAGTACTTTG
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
46 25 0.38
48 40 0.61
49 1 0.02
ACGTcount: A:0.12, C:0.25, G:0.23, T:0.40
Consensus pattern (46 bp):
GCTCTCTGATTAGCACTGTGTGTGCTCTCCGATTAGCACGTCGTGT
Found at i:3692006 original size:39 final size:39
Alignment explanation
Indices: 3691937--3692015 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
3691927 TGCTCTCCGA
*
3691937 TTAGCACTTCGTGTGCTCTCTGATTAGCACTTTGTGTGC
1 TTAGCACTTCGTGTACTCTCTGATTAGCACTTTGTGTGC
* * *
3691976 TTAGTACTTTGTGTACTCTCTGTTTAGCACTTTGTGTGC
1 TTAGCACTTCGTGTACTCTCTGATTAGCACTTTGTGTGC
3692015 T
1 T
3692016 CTCTGTTGCC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.13, C:0.20, G:0.22, T:0.46
Consensus pattern (39 bp):
TTAGCACTTCGTGTACTCTCTGATTAGCACTTTGTGTGC
Found at i:3692007 original size:23 final size:23
Alignment explanation
Indices: 3691976--3692070 Score: 79
Period size: 23 Copynumber: 4.1 Consensus size: 23
3691966 CTTTGTGTGC
*
3691976 TTAGTACTTTGTGTACTCTCTGT
1 TTAGCACTTTGTGTACTCTCTGT
*
3691999 TTAGCACTTTGTGTGCTCTCTGT
1 TTAGCACTTTGTGTACTCTCTGT
*
3692022 TGCCCAGCACTTATGTG--CTCTCTGT
1 T---TAGCACTT-TGTGTACTCTCTGT
* * *
3692047 TCAGTACTTCG-GTACTCTCTGT
1 TTAGCACTTTGTGTACTCTCTGT
3692069 TT
1 TT
3692071 GTTCCATTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
20 1 0.02
21 1 0.02
22 16 0.27
23 22 0.37
25 9 0.15
26 7 0.12
27 4 0.07
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.45
Consensus pattern (23 bp):
TTAGCACTTTGTGTACTCTCTGT
Found at i:3698022 original size:28 final size:27
Alignment explanation
Indices: 3697957--3698023 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
3697947 TGTAAAGGTA
3697957 TAAAACAGTTAGTAGCAGTTAAGTTGG
1 TAAAACAGTTAGTAGCAGTTAAGTTGG
* * * *
3697984 TAAAGCCGTTAGTAGCAGTTAGTGTTGT
1 TAAAACAGTTAGTAGCAGTTA-AGTTGG
3698012 TAAAACAGTTAG
1 TAAAACAGTTAG
3698024 CAAAGTATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 19 0.58
28 14 0.42
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.31
Consensus pattern (27 bp):
TAAAACAGTTAGTAGCAGTTAAGTTGG
Found at i:3703945 original size:21 final size:21
Alignment explanation
Indices: 3703921--3703966 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
3703911 ACCTTCCTTT
*
3703921 TACAGTTCATTCTCATATTTA
1 TACAGTCCATTCTCATATTTA
3703942 TACAGTCCATTCTCATATTTA
1 TACAGTCCATTCTCATATTTA
3703963 TACA
1 TACA
3703967 CACTCTAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.30, C:0.22, G:0.04, T:0.43
Consensus pattern (21 bp):
TACAGTCCATTCTCATATTTA
Found at i:3712166 original size:29 final size:29
Alignment explanation
Indices: 3712126--3712188 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 29
3712116 GATTTATAAT
*
3712126 AAAACTTTCC-AACCATCCTTCAAAAAGA
1 AAAACTTTCCAAACAATCCTTCAAAAAGA
* *
3712154 AAAAGCTTTCCAAATAATTCTTCAAAAAGA
1 AAAA-CTTTCCAAACAATCCTTCAAAAAGA
3712184 AAAAC
1 AAAAC
3712189 AAAAAAAGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
28 4 0.13
29 7 0.23
30 19 0.63
ACGTcount: A:0.51, C:0.22, G:0.05, T:0.22
Consensus pattern (29 bp):
AAAACTTTCCAAACAATCCTTCAAAAAGA
Found at i:3715696 original size:33 final size:33
Alignment explanation
Indices: 3715659--3715723 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 33
3715649 TTTTAAAAAA
* *
3715659 CAATACATTAAGAAT-ATTAAAATAAATATTTTT
1 CAATAAATTAAAAATAATTAAAA-AAATATTTTT
3715692 CAATAAATTAAAAATAAATTAAAAAAATATTT
1 CAATAAATTAAAAAT-AATTAAAAAAATATTT
3715724 ATACTTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 13 0.46
34 8 0.29
35 7 0.25
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (33 bp):
CAATAAATTAAAAATAATTAAAAAAATATTTTT
Found at i:3715800 original size:17 final size:19
Alignment explanation
Indices: 3715778--3715817 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
3715768 TCTCTAAAAT
*
3715778 AATAAAAGAAGA-TTA-AC
1 AATAAAACAAGAGTTATAC
3715795 AATAAAACAAGAGTTATAC
1 AATAAAACAAGAGTTATAC
3715814 AATA
1 AATA
3715818 TCCCAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
18 3 0.15
19 6 0.30
ACGTcount: A:0.62, C:0.07, G:0.10, T:0.20
Consensus pattern (19 bp):
AATAAAACAAGAGTTATAC
Found at i:3725011 original size:6 final size:6
Alignment explanation
Indices: 3725000--3725061 Score: 90
Period size: 6 Copynumber: 10.2 Consensus size: 6
3724990 AGTTAAATTG
*
3725000 ATTTAA ATTTAA ATTTAA TTATTTAA ATTT-A CTTTAA ATTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA --ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
3725049 ATTTAA ATTTAA A
1 ATTTAA ATTTAA A
3725062 CACTAAACAT
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
5 4 0.08
6 41 0.80
8 6 0.12
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTTAA
Found at i:3725271 original size:15 final size:15
Alignment explanation
Indices: 3725251--3725281 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
3725241 GCCTATGCTG
3725251 CTGCCACCACCAGCT
1 CTGCCACCACCAGCT
3725266 CTGCCACCACCAGCT
1 CTGCCACCACCAGCT
3725281 C
1 C
3725282 CATCCACCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.55, G:0.13, T:0.13
Consensus pattern (15 bp):
CTGCCACCACCAGCT
Found at i:3726925 original size:30 final size:30
Alignment explanation
Indices: 3726891--3727057 Score: 185
Period size: 30 Copynumber: 5.6 Consensus size: 30
3726881 CAAAAATCAT
** *
3726891 ATTTTGATGCCAAAACTTTTCTAAAATTAC
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
* **
3726921 ATTTTAACCCTGAAACTTTTCCAAAATTAC
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
*
3726951 ATTTTAACCCCAAAACTTTTCCAAAATTAC
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
* *
3726981 ATTTTGACCCCAAAACTTTCCCAAAATCAC
1 ATTTTGACCCCAAAACTTTTCCAAAATTAC
* * * *
3727011 ATTTTAACCCTAAAAC-TTTCAAAAATCATC
1 ATTTTGACCCCAAAACTTTTCCAAAATTA-C
*
3727041 ATTTT-ACCCCCAAACTT
1 ATTTTGACCCCAAAACTT
3727058 CCCTAAATCC
Statistics
Matches: 118, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
29 18 0.15
30 100 0.85
ACGTcount: A:0.38, C:0.26, G:0.02, T:0.34
Consensus pattern (30 bp):
ATTTTGACCCCAAAACTTTTCCAAAATTAC
Found at i:3726977 original size:60 final size:60
Alignment explanation
Indices: 3726900--3727080 Score: 215
Period size: 60 Copynumber: 3.0 Consensus size: 60
3726890 TATTTTGATG
* ** * *
3726900 CCAAAACTTTTCTAAAATTACATTTTAACCCTGAAACTTTTCCAAAATTACATTTTAACC
1 CCAAAACTTTTCAAAAATTACATTTTAACCCCAAAACTTTCCCAAAATCACATTTTAACC
* *
3726960 CCAAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTCCCAAAATCACATTTTAACC
1 CCAAAACTTTTCAAAAATTACATTTTAACCCCAAAACTTTCCCAAAATCACATTTTAACC
* * * * *
3727020 CTAAAAC-TTTCAAAAATCATCATTTT-ACCCCCAAAC-TTCCCTAAATCCCATTTTTAACC
1 CCAAAACTTTTCAAAAATTA-CATTTTAACCCCAAAACTTTCCCAAAATCACA-TTTTAACC
3727079 CC
1 CC
3727081 TATTTAACCA
Statistics
Matches: 106, Mismatches: 13, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
58 12 0.11
59 28 0.26
60 66 0.62
ACGTcount: A:0.37, C:0.29, G:0.01, T:0.33
Consensus pattern (60 bp):
CCAAAACTTTTCAAAAATTACATTTTAACCCCAAAACTTTCCCAAAATCACATTTTAACC
Found at i:3727044 original size:90 final size:90
Alignment explanation
Indices: 3726891--3727054 Score: 231
Period size: 90 Copynumber: 1.8 Consensus size: 90
3726881 CAAAAATCAT
** * * * * * *
3726891 ATTTTGATGCCAAAACTTTTCTAAAATTACATTTTAACCCTGAAACTTTTCCAAAATTACATTTT
1 ATTTTGACCCCAAAACTTTCCCAAAATCACATTTTAACCCTAAAACTTTTCAAAAATCACATTTT
3726956 AACCCCAAAACTTTTCCAAAATTAC
66 AACCCCAAAACTTTTCCAAAATTAC
3726981 ATTTTGACCCCAAAACTTTCCCAAAATCACATTTTAACCCTAAAAC-TTTCAAAAATCATCATTT
1 ATTTTGACCCCAAAACTTTCCCAAAATCACATTTTAACCCTAAAACTTTTCAAAAATCA-CATTT
*
3727045 TACCCCCAAA
65 TAACCCCAAA
3727055 CTTCCCTAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
89 10 0.16
90 54 0.84
ACGTcount: A:0.38, C:0.26, G:0.02, T:0.34
Consensus pattern (90 bp):
ATTTTGACCCCAAAACTTTCCCAAAATCACATTTTAACCCTAAAACTTTTCAAAAATCACATTTT
AACCCCAAAACTTTTCCAAAATTAC
Found at i:3727065 original size:29 final size:29
Alignment explanation
Indices: 3726913--3727080 Score: 158
Period size: 30 Copynumber: 5.7 Consensus size: 29
3726903 AAACTTTTCT
* ** *
3726913 AAAATTACATTTTAACCCTGAAACTTTTCC
1 AAAATCACATTTTAACCCCAAAAC-TTCCC
* *
3726943 AAAATTACATTTTAACCCCAAAACTTTTCC
1 AAAATCACATTTTAACCCCAAAAC-TTCCC
* *
3726973 AAAATTACATTTTGACCCCAAAACTTTCCC
1 AAAATCACATTTTAACCCCAAAAC-TTCCC
* * *
3727003 AAAATCACATTTTAACCCTAAAACTTTCA
1 AAAATCACATTTTAACCCCAAAACTTCCC
*
3727032 AAAATCATCATTTT-ACCCCCAAACTTCCC
1 AAAATCA-CATTTTAACCCCAAAACTTCCC
* *
3727061 TAAATCCCATTTTTAACCCC
1 AAAATCACA-TTTTAACCCC
3727081 TATTTAACCA
Statistics
Matches: 120, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
28 2 0.02
29 30 0.25
30 88 0.73
ACGTcount: A:0.38, C:0.29, G:0.01, T:0.32
Consensus pattern (29 bp):
AAAATCACATTTTAACCCCAAAACTTCCC
Found at i:3727094 original size:58 final size:58
Alignment explanation
Indices: 3727040--3727250 Score: 212
Period size: 59 Copynumber: 3.6 Consensus size: 58
3727030 CAAAAATCAT
* *
3727040 CATTTTACCCCCAAACTTCCCT-AAATCCCATTTTTAACCCCTA-TTTAACCAAAATTAC
1 CATTTTACCCCCAAACTT--CTAAAATCCCATTTTTAACCCCGACTTCAACCAAAATTAC
* * * * *
3727098 CATTTTACCCCCGAATCTTTTAAAATTCCATTTTTAACCCCGACTTCATCGAAAATTAC
1 CATTTTACCCCC-AAACTTCTAAAATCCCATTTTTAACCCCGACTTCAACCAAAATTAC
* * * **
3727157 CATTTTACCCCCAAATCTTTTAAAATTCTATTTTTAACCCCGGTTTC-ACCGAAAATTAC
1 CATTTTACCCCCAAA-CTTCTAAAATCCCATTTTTAACCCCGACTTCAACC-AAAATTAC
* * *
3727216 CATTTTACCCCCGAATCTTTTAAAATTCCATTTTT
1 CATTTTACCCCC-AAACTTCTAAAATCCCATTTTT
3727251 TACCTCGATG
Statistics
Matches: 132, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
57 1 0.01
58 34 0.26
59 95 0.72
60 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.03, T:0.37
Consensus pattern (58 bp):
CATTTTACCCCCAAACTTCTAAAATCCCATTTTTAACCCCGACTTCAACCAAAATTAC
Found at i:3727153 original size:30 final size:30
Alignment explanation
Indices: 3727090--3727231 Score: 103
Period size: 30 Copynumber: 4.8 Consensus size: 30
3727080 CTATTTAACC
* * **
3727090 AAAATTACCATTTTACCCCCGAA-TCTTTT
1 AAAATTACCATTTTAACCCCGAATTCATCG
*
3727119 AAAATT-CCATTTTTAACCCCGACTTCATCG
1 AAAATTACCA-TTTTAACCCCGAATTCATCG
* * * **
3727149 AAAATTACCATTTT-ACCCCCAAATCTTTT
1 AAAATTACCATTTTAACCCCGAATTCATCG
* ** *
3727178 AAAATT-CTATTTTTAACCCCGGTTTCACCG
1 AAAATTACCA-TTTTAACCCCGAATTCATCG
*
3727208 AAAATTACCATTTTACCCCCGAAT
1 AAAATTACCATTTTAACCCCGAAT
3727232 CTTTTAAAAT
Statistics
Matches: 83, Mismatches: 24, Indels: 11
0.70 0.20 0.09
Matches are distributed among these distances:
28 5 0.06
29 36 0.43
30 37 0.45
31 5 0.06
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (30 bp):
AAAATTACCATTTTAACCCCGAATTCATCG
Found at i:3727250 original size:29 final size:29
Alignment explanation
Indices: 3727090--3727249 Score: 137
Period size: 29 Copynumber: 5.5 Consensus size: 29
3727080 CTATTTAACC
3727090 AAAATTACCATTTTACCCCCGAATCTTTT
1 AAAATTACCATTTTACCCCCGAATCTTTT
* * * **
3727119 AAAATT-CCATTTTTAACCCCGACTTCATCG
1 AAAATTACCA-TTTTACCCCCGA-ATCTTTT
*
3727149 AAAATTACCATTTTACCCCCAAATCTTTT
1 AAAATTACCATTTTACCCCCGAATCTTTT
* * ** ****
3727178 AAAATT-CTATTTTTAACCCCGGTTTCACCG
1 AAAATTACCA-TTTT-ACCCCCGAATCTTTT
3727208 AAAATTACCATTTTACCCCCGAATCTTTT
1 AAAATTACCATTTTACCCCCGAATCTTTT
3727237 AAAATT-CCATTTT
1 AAAATTACCATTTT
3727250 TTACCTCGAT
Statistics
Matches: 97, Mismatches: 28, Indels: 13
0.70 0.20 0.09
Matches are distributed among these distances:
28 12 0.12
29 44 0.45
30 36 0.37
31 5 0.05
ACGTcount: A:0.31, C:0.27, G:0.04, T:0.38
Consensus pattern (29 bp):
AAAATTACCATTTTACCCCCGAATCTTTT
Found at i:3729403 original size:35 final size:36
Alignment explanation
Indices: 3729232--3729482 Score: 199
Period size: 37 Copynumber: 6.9 Consensus size: 36
3729222 TTATCCAACA
* * ** *
3729232 CTATGCCAACCTTTTTAATATTGTCTTAGACAAGGT
1 CTATCCCAACTTTTTTAAGGTTGCCTTAGACAAGGT
* * *
3729268 CTATTCCAACTTTCTTTAAAGGTTGCCTCA-AAAAGGT
1 CTATCCCAACTTT-TTT-AAGGTTGCCTTAGACAAGGT
*
3729305 CTATCCCAACATTTTTTAAGGGTTG-CTTCAAACAAGGT
1 CTATCCCAAC-TTTTTTAA-GGTTGCCTT-AGACAAGGT
* *
3729343 TTATCCCAACCTTTTTAAGGTTGCCTTAGACAAGGT
1 CTATCCCAACTTTTTTAAGGTTGCCTTAGACAAGGT
* * *
3729379 TTAT-CTAACTTTTTTAAGGCTGCCTTTAGACAA-GT
1 CTATCCCAACTTTTTTAAGGTTGCC-TTAGACAAGGT
* *
3729414 CTATCCCAACCTTTTTTAAAGGTTATCC-TAGACAAGGC
1 CTATCCCAA-CTTTTTT-AAGGTT-GCCTTAGACAAGGT
* * *
3729452 CTA-CCAGAACCTTTTTAAAGTTGCCTTAGAC
1 CTATCC-CAACTTTTTTAAGGTTGCCTTAGAC
3729483 GAATTTATCC
Statistics
Matches: 175, Mismatches: 25, Indels: 30
0.76 0.11 0.13
Matches are distributed among these distances:
35 24 0.14
36 53 0.30
37 59 0.34
38 37 0.21
39 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (36 bp):
CTATCCCAACTTTTTTAAGGTTGCCTTAGACAAGGT
Found at i:3729449 original size:109 final size:110
Alignment explanation
Indices: 3729237--3729482 Score: 261
Period size: 109 Copynumber: 2.2 Consensus size: 110
3729227 CAACACTATG
* *
3729237 CCAACCTTTTTAATA-TTGTCTTAGACAAGGTCTATTCCAACTTTCTTTAAAGGTTGCCTCAAAA
1 CCAACCTTTTTAA-AGTTGCCTTAGACAAGGTCTATTCCAACTTTCTTTAAAGGCTGCCTCAAAA
* * **
3729301 AGGTCTATCCCAACATTTTTTAAGGGTTGCTTCAAACAAGGTTTATC
65 AGGTCTATCCCAACATTTTTTAAAGGTTGCCTCAAACAAGGCCTA-C
* * * * *
3729348 CCAACCTTTTTAAGGTTGCCTTAGACAAGGTTTA-TCTAACTTT-TTT-AAGGCTGCCTTTAGAC
1 CCAACCTTTTTAAAGTTGCCTTAGACAAGGTCTATTCCAACTTTCTTTAAAGGCTGCC-TCA-AA
* * *
3729410 AA-GTCTATCCCAACCTTTTTTAAAGGTTATCCT-AGACAAGGCCTAC
64 AAGGTCTATCCCAACATTTTTTAAAGGTT-GCCTCAAACAAGGCCTAC
*
3729456 CAGAACCTTTTTAAAGTTGCCTTAGAC
1 C-CAACCTTTTTAAAGTTGCCTTAGAC
3729483 GAATTTATCC
Statistics
Matches: 114, Mismatches: 16, Indels: 12
0.80 0.11 0.08
Matches are distributed among these distances:
108 10 0.09
109 61 0.54
110 13 0.11
111 30 0.26
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (110 bp):
CCAACCTTTTTAAAGTTGCCTTAGACAAGGTCTATTCCAACTTTCTTTAAAGGCTGCCTCAAAAA
GGTCTATCCCAACATTTTTTAAAGGTTGCCTCAAACAAGGCCTAC
Found at i:3733286 original size:35 final size:37
Alignment explanation
Indices: 3733247--3733513 Score: 100
Period size: 38 Copynumber: 7.3 Consensus size: 37
3733237 AATAAATAAA
* *
3733247 TTGTTTTATACGTGTCTATCTCAA-CTTTTTT-AAGG
1 TTGTTTTAGACGGGTCTATCTCAATCTTTTTTAAAGG
* * *
3733282 TTGTTTTAGACGGGTTTATCTTAATTTTTTTTAAAGG
1 TTGTTTTAGACGGGTCTATCTCAATCTTTTTTAAAGG
* *** * * * * **
3733319 TTGCTTTAGATAAAGTTTAT-TATAACCTTTTTAAAATA
1 TTGTTTTAGA-CGGGTCTATCT-CAATCTTTTTTAAAGG
*** * * * *
3733357 TTGTTTTAGACAAAATTTATTTCAA-C-CTTTTAAAGT
1 TTGTTTTAGAC-GGGTCTATCTCAATCTTTTTTAAAGG
* *** *
3733393 TTGATTTAGATATGTCTATCTCAATCTTTTTTAAAAG
1 TTGTTTTAGACGGGTCTATCTCAATCTTTTTTAAAGG
** * * * * *
3733430 TTGCCTTAAACAAGATATATCTCAATTTTTTTTAAA-G
1 TTGTTTTAGAC-GGGTCTATCTCAATCTTTTTTAAAGG
* *
3733467 TTGTTTTAGACAAGGTTTATCTCAAT-TTTTTTAAA-G
1 TTGTTTTAGAC-GGGTCTATCTCAATCTTTTTTAAAGG
*
3733503 TTGCTTTAGAC
1 TTGTTTTAGAC
3733514 AAATTTATCT
Statistics
Matches: 178, Mismatches: 45, Indels: 17
0.74 0.19 0.07
Matches are distributed among these distances:
35 29 0.16
36 42 0.24
37 51 0.29
38 55 0.31
39 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.49
Consensus pattern (37 bp):
TTGTTTTAGACGGGTCTATCTCAATCTTTTTTAAAGG
Found at i:3733350 original size:38 final size:38
Alignment explanation
Indices: 3733308--3733794 Score: 101
Period size: 38 Copynumber: 13.3 Consensus size: 38
3733298 TATCTTAATT
* * *
3733308 TTTTTTAAAGGTTGCTTTAGATAAAGTTTATTAT-AACC
1 TTTTTTAAAGATTGATTTAGATAAAATTTATT-TCAACC
* * * *
3733346 TTTTTAAAATATTGTTTTAGACAAAATTTATTTCAACC
1 TTTTTTAAAGATTGATTTAGATAAAATTTATTTCAACC
* ** * * *
3733384 --TTTTAAAGTTTGATTTAGAT-ATGTCTATCTCAATC
1 TTTTTTAAAGATTGATTTAGATAAAATTTATTTCAACC
** * * * * * **
3733419 TTTTTTAAA-AGTTGCCTTAAACAAGATATATCTCAATT
1 TTTTTTAAAGA-TTGATTTAGATAAAATTTATTTCAACC
* * ** * *
3733457 TTTTTTAAAG-TTGTTTTAGACAAGGTTTATCTCAA-T
1 TTTTTTAAAGATTGATTTAGATAAAATTTATTTCAACC
* * *
3733493 TTTTTTAAAG-TTGCTTTAGA-CAAATTTATCTCAACC
1 TTTTTTAAAGATTGATTTAGATAAAATTTATTTCAACC
* * * * *
3733529 -TTTTTAAAAAGTT-ACCTTACG-CAAGATCTATTTCAACC
1 TTTTTTAAAGA-TTGA-TTTA-GATAAAATTTATTTCAACC
* * * * **
3733567 --TTTTAAAGGTTGTTTTAGAT---GTTTATCTCAATT
1 TTTTTTAAAGATTGATTTAGATAAAATTTATTTCAACC
* ** * *
3733600 TTTTTTAAAGGTTGCCTTAGATAATATATATTTCAA-C
1 TTTTTTAAAGATTGATTTAGATAAAATTTATTTCAACC
* * * * **
3733637 TTTTTTAAAG-TTGTTTTAAACAATATTTATTTTGACC
1 TTTTTTAAAGATTGATTTAGATAAAATTTATTTCAACC
** * ** *
3733674 TTTTTTAAA-AGTTGCCTTAAATAAGGTTTATCTCAACC
1 TTTTTTAAAGA-TTGATTTAGATAAAATTTATTTCAACC
* * **
3733712 -TTTTTAAAG-TTG-TATTA-A-ACAAGTCTATCTT-AATT
1 TTTTTTAAAGATTGAT-TTAGATA-AAATTTAT-TTCAACC
* * *
3733747 TTTTTTAAAAGGTTGCTTTAGATAAGATTTATTTCAA-C
1 TTTTTT-AAAGATTGATTTAGATAAAATTTATTTCAACC
3733785 TTTTTTAAAG
1 TTTTTTAAAG
3733795 GTTGGCCTTG
Statistics
Matches: 333, Mismatches: 83, Indels: 67
0.69 0.17 0.14
Matches are distributed among these distances:
33 8 0.02
34 1 0.00
35 57 0.17
36 70 0.21
37 83 0.25
38 104 0.31
39 9 0.03
40 1 0.00
ACGTcount: A:0.32, C:0.11, G:0.10, T:0.47
Consensus pattern (38 bp):
TTTTTTAAAGATTGATTTAGATAAAATTTATTTCAACC
Found at i:3733604 original size:71 final size:71
Alignment explanation
Indices: 3733472--3733654 Score: 163
Period size: 71 Copynumber: 2.5 Consensus size: 71
3733462 TAAAGTTGTT
* * * * * * **
3733472 TTAGACAAGGTTTATCTCAATTTTTTTAAAGTTGCTTTAGACAAATTTATCTCAACCTTTTTAAA
1 TTAGACAAGATATATTTCAACTCTTTTAAAGTTGTTTTAG--ATGTTTATCTCAACCTTTTTAAA
3733537 AAGTTACC
64 AAGTTACC
* ** *
3733545 TTACG-CAAGATCTATTTCAAC-CTTTTAAAGGTTGTTTTAGATGTTTATCTCAATTTTTTTTAA
1 TTA-GACAAGATATATTTCAACTCTTTTAAA-GTTGTTTTAGATGTTTATCTCAACCTTTTTAAA
* *
3733608 AGGTTGCC
64 AAGTTACC
* * *
3733616 TTAGATAATATATATTTCAACTTTTTTAAAGTTGTTTTA
1 TTAGACAAGATATATTTCAACTCTTTTAAAGTTGTTTTA
3733655 AACAATATTT
Statistics
Matches: 89, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
70 1 0.01
71 49 0.55
72 14 0.16
73 24 0.27
74 1 0.01
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (71 bp):
TTAGACAAGATATATTTCAACTCTTTTAAAGTTGTTTTAGATGTTTATCTCAACCTTTTTAAAAA
GTTACC
Found at i:3733798 original size:37 final size:37
Alignment explanation
Indices: 3733267--3733798 Score: 267
Period size: 37 Copynumber: 14.5 Consensus size: 37
3733257 CGTGTCTATC
* * *
3733267 TCAACTTTTTT-AAGGTTGTTTTAGAC-GGGTTTATCT
1 TCAACTTTTTTAAAGGTTGCTTTAGACAAGATTTAT-T
* *
3733303 T-AATTTTTTTTAAAGGTTGCTTTAGATAA-AGTTTATT
1 TCAA-CTTTTTTAAAGGTTGCTTTAGACAAGA-TTTATT
* ** * *
3733340 AT-AACCTTTTTAAAATATTGTTTTAGACAAAATTTATT
1 -TCAA-CTTTTTTAAAGGTTGCTTTAGACAAGATTTATT
* * * * * * *
3733378 TCAAC-CTTTTAAAGTTTGATTTAGATATG-TCTATC
1 TCAACTTTTTTAAAGGTTGCTTTAGACAAGATTTATT
* * * * *
3733413 TCAATCTTTTTTAAAAGTTGCCTTAAACAAGATATATC
1 TCAA-CTTTTTTAAAGGTTGCTTTAGACAAGATTTATT
* * * *
3733451 TCAATTTTTTTTAAA-GTTGTTTTAGACAAGGTTTATC
1 TCAA-CTTTTTTAAAGGTTGCTTTAGACAAGATTTATT
* *
3733488 TCAATTTTTTTAAA-GTTGCTTTAGACAA-ATTTATC
1 TCAACTTTTTTAAAGGTTGCTTTAGACAAGATTTATT
* * * * *
3733523 TCAACCTTTTTAAAAAGTTACCTTACG-CAAGATCTATT
1 TCAA-CTTTTTTAAAGGTTGCTTTA-GACAAGATTTATT
* * * *
3733561 TCAAC-CTTTTAAAGGTTGTTTTAG--ATG-TTTATC
1 TCAACTTTTTTAAAGGTTGCTTTAGACAAGATTTATT
* * * * *
3733594 TCAATTTTTTTTAAAGGTTGCCTTAGATAATATATATT
1 TCAA-CTTTTTTAAAGGTTGCTTTAGACAAGATTTATT
* * *
3733632 TCAACTTTTTTAAA-GTTGTTTTAAACAATATTTATTT
1 TCAACTTTTTTAAAGGTTGCTTTAGACAAGATTTA-TT
* * * * * * * *
3733669 TGACCTTTTTTAAAAGTTGCCTTAAATAAGGTTTATC
1 TCAACTTTTTTAAAGGTTGCTTTAGACAAGATTTATT
* * *
3733706 TCAACCTTTTTAAA-GTTG-TATTAAACAAG-TCTATCT
1 TCAACTTTTTTAAAGGTTGCT-TTAGACAAGATTTAT-T
* *
3733742 T-AATTTTTTTTAAAAGGTTGCTTTAGATAAGATTTATT
1 TCAA-CTTTTTT-AAAGGTTGCTTTAGACAAGATTTATT
3733780 TCAACTTTTTTAAAGGTTG
1 TCAACTTTTTTAAAGGTTG
3733799 GCCTTGATTA
Statistics
Matches: 378, Mismatches: 89, Indels: 57
0.72 0.17 0.11
Matches are distributed among these distances:
33 8 0.02
34 2 0.01
35 43 0.11
36 100 0.26
37 111 0.29
38 106 0.28
39 8 0.02
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (37 bp):
TCAACTTTTTTAAAGGTTGCTTTAGACAAGATTTATT
Found at i:3736286 original size:114 final size:113
Alignment explanation
Indices: 3736087--3736314 Score: 420
Period size: 114 Copynumber: 2.0 Consensus size: 113
3736077 TATCCGAGAT
* *
3736087 GTTACAACTGAGAATCTCAGTGCATTCCATTTGCAACGGAAAAAAAAGATTGGATGTTCTTCAGA
1 GTTACAACTGAGAATCGCAGTGCATTCCATTTGCAACGGAAAAAAAAGATTGGATGTTATTCAGA
3736152 TTCTAATTCGAATGCTTAAGAAGGACTATTACTGGGAAGAGGTAAATA
66 TTCTAATTCGAATGCTTAAGAAGGACTATTACTGGGAAGAGGTAAATA
3736200 GTTACAACTGAGAATCGCAGTGCATTCCATATTGCAACGGAAAAAAAAGATTGGATGTTATTCAG
1 GTTACAACTGAGAATCGCAGTGCATTCCAT-TTGCAACGGAAAAAAAAGATTGGATGTTATTCAG
*
3736265 ATTCTAATTCGAATGCTTAAGAAGGACTATTATTGGGAAGAGGTAAATA
65 ATTCTAATTCGAATGCTTAAGAAGGACTATTACTGGGAAGAGGTAAATA
3736314 G
1 G
3736315 AAAGGACGAA
Statistics
Matches: 111, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
113 29 0.26
114 82 0.74
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (113 bp):
GTTACAACTGAGAATCGCAGTGCATTCCATTTGCAACGGAAAAAAAAGATTGGATGTTATTCAGA
TTCTAATTCGAATGCTTAAGAAGGACTATTACTGGGAAGAGGTAAATA
Found at i:3737232 original size:42 final size:42
Alignment explanation
Indices: 3737172--3737358 Score: 248
Period size: 42 Copynumber: 4.4 Consensus size: 42
3737162 TTTATGAGGA
* * * *
3737172 AAAAATGCCGCTATAGAACATGATCTTTAGCGGCGCTTTCCC
1 AAAAACGCCGCTAAAGAACATGGTCTTTAACGGCGCTTTCCC
*
3737214 AAAAACGCCGCTAAAGAACATGCTCTTTAACGGCGCTTTCCC
1 AAAAACGCCGCTAAAGAACATGGTCTTTAACGGCGCTTTCCC
*
3737256 TAAAACGCCGCTAAAGAACATGGTCTTTAACGGCGCTTTTCCC
1 AAAAACGCCGCTAAAGAACATGGTCTTTAACGGCGC-TTTCCC
* * *
3737299 ACAAACGCCGCTAAACAACATGGTCTTTAGCGGCGCTTATCCC
1 AAAAACGCCGCTAAAGAACATGGTCTTTAACGGCGCTT-TCCC
* * *
3737342 ACAAATGCAGCTAAAGA
1 AAAAACGCCGCTAAAGA
3737359 CCATAAACGC
Statistics
Matches: 130, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
42 74 0.57
43 56 0.43
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.22
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGGTCTTTAACGGCGCTTTCCC
Found at i:3737326 original size:85 final size:84
Alignment explanation
Indices: 3737173--3737358 Score: 257
Period size: 85 Copynumber: 2.2 Consensus size: 84
3737163 TTATGAGGAA
* * *
3737173 AAAATGCCGCTATAGAACATGATCTTTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGAACATGCT
1 AAAATGCCGCTAAAGAACATGATCTTTAACGGCGCTTTCCCAAAAACGCCGCTAAACAACATGCT
3737238 CTTTAACGGCGCTT-TCCC
66 CTTTAACGGCGCTTATCCC
* * *
3737256 TAAAACGCCGCTAAAGAACATGGTCTTTAACGGCGCTTTTCCCACAAACGCCGCTAAACAACATG
1 -AAAATGCCGCTAAAGAACATGATCTTTAACGGCGC-TTTCCCAAAAACGCCGCTAAACAACATG
* *
3737321 GTCTTTAGCGGCGCTTATCCC
64 CTCTTTAACGGCGCTTATCCC
*
3737342 ACAAATGCAGCTAAAGA
1 A-AAATGCCGCTAAAGA
3737359 CCATAAACGC
Statistics
Matches: 89, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
84 31 0.35
85 41 0.46
86 17 0.19
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (84 bp):
AAAATGCCGCTAAAGAACATGATCTTTAACGGCGCTTTCCCAAAAACGCCGCTAAACAACATGCT
CTTTAACGGCGCTTATCCC
Found at i:3737441 original size:43 final size:44
Alignment explanation
Indices: 3737363--3737478 Score: 121
Period size: 43 Copynumber: 2.7 Consensus size: 44
3737353 TAAAGACCAT
* * *
3737363 AAACGCCGCTAAAGAACATGGTATTTAG-CAGCGTTTACCCCAC
1 AAACGCTGCTAAAGAACATGGTCTTTAGTGAGCGTTTACCCCAC
* * * **
3737406 AAATG-TCGTTAAAGAAAATGGTCTTTAGTGA-CGTTTTTCCCAC
1 AAACGCT-GCTAAAGAACATGGTCTTTAGTGAGCGTTTACCCCAC
*
3737449 AAACGCTGCTAAAGAACATGATCTTTAGTG
1 AAACGCTGCTAAAGAACATGGTCTTTAGTG
3737479 GCATTTTTCT
Statistics
Matches: 58, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
43 56 0.97
44 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (44 bp):
AAACGCTGCTAAAGAACATGGTCTTTAGTGAGCGTTTACCCCAC
Found at i:3737447 original size:105 final size:105
Alignment explanation
Indices: 3737258--3737463 Score: 261
Period size: 105 Copynumber: 2.0 Consensus size: 105
3737248 GCTTTCCCTA
* * * *
3737258 AAACGCCGCTAAAGAACATGGTCTTTAACGGCGCTTTTCCCACAAACGCCGCTAAACAACATGGT
1 AAACGCCGCTAAAGAACATGGTATTTAACAGCGCTTTCCCCACAAACGCCGCTAAACAAAATGGT
* *
3737323 CTTTAGCGGCGCTTATCCCACAAATGCAGCTAAAGACCAT
66 CTTTAGCGACGCTTATCCCACAAACGCAGCTAAAGACCAT
* * * * *
3737363 AAACGCCGCTAAAGAACATGGTATTTAGCAGCG-TTTACCCCACAAATGTCGTTAAAGAAAATGG
1 AAACGCCGCTAAAGAACATGGTATTTAACAGCGCTTT-CCCCACAAACGCCGCTAAACAAAATGG
* * * *
3737427 TCTTTAGTGACGTTTTTCCCACAAACGCTGCTAAAGA
65 TCTTTAGCGACGCTTATCCCACAAACGCAGCTAAAGA
3737464 ACATGATCTT
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
104 3 0.04
105 82 0.96
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (105 bp):
AAACGCCGCTAAAGAACATGGTATTTAACAGCGCTTTCCCCACAAACGCCGCTAAACAAAATGGT
CTTTAGCGACGCTTATCCCACAAACGCAGCTAAAGACCAT
Found at i:3737486 original size:43 final size:43
Alignment explanation
Indices: 3737415--3737497 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
3737405 CAAATGTCGT
* *
3737415 TAAAGAAAATGGTCTTTAGTGACGTTTTTCCCACAAACGCTGC
1 TAAAGAAAATGATCTTTAGTGACATTTTTCCCACAAACGCTGC
* * *
3737458 TAAAGAACATGATCTTTAGTGGCATTTTTCTCACAAACGC
1 TAAAGAAAATGATCTTTAGTGACATTTTTCCCACAAACGC
3737498 CACTAATATT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (43 bp):
TAAAGAAAATGATCTTTAGTGACATTTTTCCCACAAACGCTGC
Found at i:3737494 original size:148 final size:147
Alignment explanation
Indices: 3737216--3737481 Score: 345
Period size: 148 Copynumber: 1.8 Consensus size: 147
3737206 GCTTTCCCAA
* * * *
3737216 AAACGCCGCTAAAGAACATGCTCTTTAACGGCGCTTTCCCTAAAACGCCGCTAAAGAACATGGTC
1 AAACGCCGCTAAAGAACATGCTATTTAACAGCGCTTTCCCCAAAACGCCGCTAAAGAAAATGGTC
* * *
3737281 TTTAACGGCGCTTTTCCCACAAACGCCGCTAAACAACATGGTCTTTAGCGGCGCTTATCCCACAA
66 TTTAACGACGCTTTTCCCACAAACGCCGCTAAACAACATGATCTTTAGCGGCACTTATCCCACAA
3737346 ATGCAGCTAAAGACCAT
131 ATGCAGCTAAAGACCAT
* * * * *
3737363 AAACGCCGCTAAAGAACATGGTATTTAGCAGCG-TTTACCCCACAAATGTCGTTAAAGAAAATGG
1 AAACGCCGCTAAAGAACATGCTATTTAACAGCGCTTT-CCCCA-AAACGCCGCTAAAGAAAATGG
** * * * *
3737427 TCTTTAGTGACGTTTTTCCCACAAACGCTGCTAAAGAACATGATCTTTAGTGGCA
64 TCTTTAACGACGCTTTTCCCACAAACGCCGCTAAACAACATGATCTTTAGCGGCA
3737482 TTTTTCTCAC
Statistics
Matches: 99, Mismatches: 18, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
146 3 0.03
147 33 0.33
148 63 0.64
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (147 bp):
AAACGCCGCTAAAGAACATGCTATTTAACAGCGCTTTCCCCAAAACGCCGCTAAAGAAAATGGTC
TTTAACGACGCTTTTCCCACAAACGCCGCTAAACAACATGATCTTTAGCGGCACTTATCCCACAA
ATGCAGCTAAAGACCAT
Found at i:3740727 original size:29 final size:30
Alignment explanation
Indices: 3740695--3740817 Score: 98
Period size: 29 Copynumber: 4.2 Consensus size: 30
3740685 TCAAAAATGA
*
3740695 AATTTTGAAAAGTTTGGGGGT-AAAATGGT
1 AATTTTGGAAAGTTTGGGGGTCAAAATGGT
* * *
3740724 AATTTTTGGTGAAA---TCGGGATCAAAAAAGG-
1 AA-TTTT-G-GAAAGTTTGGGGGTC-AAAATGGT
* *
3740754 AATTTTGGAAAGTTCGAGGGT-AAAATGGT
1 AATTTTGGAAAGTTTGGGGGTCAAAATGGT
*
3740783 AATTTTGGAAAGTTTTGGGGTCAAAAT-GT
1 AATTTTGGAAAGTTTGGGGGTCAAAATGGT
3740812 AATTTT
1 AATTTT
3740818 CATAAAGTTT
Statistics
Matches: 72, Mismatches: 12, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
27 4 0.06
28 7 0.10
29 37 0.51
30 14 0.19
31 7 0.10
32 3 0.04
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (30 bp):
AATTTTGGAAAGTTTGGGGGTCAAAATGGT
Found at i:3740758 original size:59 final size:58
Alignment explanation
Indices: 3740600--3740788 Score: 215
Period size: 59 Copynumber: 3.2 Consensus size: 58
3740590 ACTTGAGGAC
* * *
3740600 AAAATGGT-ACTTTTGGTTGAAATTGGGTCAAAAACAGG-ATTTTTAGAAA-TTCGAGGGT
1 AAAATGGTAATTTTTGG-TGAAATCGGGTCAAAAA-AGGAATTTTGA-AAAGTTCGAGGGT
* * * * * *
3740658 AAAATAGTAA-TTTTAGTGAAATCGAGGTCAAAAATGAAATTTTGAAAAGTTTGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCG-GGTCAAAAAAGGAATTTTGAAAAGTTCGAGGGT
*
3740716 AAAATGGTAATTTTTGGTGAAATCGGGATCAAAAAAGGAATTTTGGAAAGTTCGAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGGG-TCAAAAAAGGAATTTTGAAAAGTTCGAGGGT
3740775 AAAATGGTAATTTT
1 AAAATGGTAATTTT
3740789 GGAAAGTTTT
Statistics
Matches: 110, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
57 11 0.10
58 45 0.41
59 54 0.49
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.32
Consensus pattern (58 bp):
AAAATGGTAATTTTTGGTGAAATCGGGTCAAAAAAGGAATTTTGAAAAGTTCGAGGGT
Found at i:3740857 original size:30 final size:30
Alignment explanation
Indices: 3740791--3740847 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
3740781 GTAATTTTGG
* *
3740791 AAAGTTTTGGGGTCAAAATGTAATTTTCAT
1 AAAGTTTTAGGGTCAAAATATAATTTTCAT
3740821 AAAGTTTTAGGGTCAAAATATAATTTT
1 AAAGTTTTAGGGTCAAAATATAATTTT
3740848 TAAATAGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.40
Consensus pattern (30 bp):
AAAGTTTTAGGGTCAAAATATAATTTTCAT
Found at i:3742671 original size:17 final size:17
Alignment explanation
Indices: 3742647--3742776 Score: 154
Period size: 17 Copynumber: 7.5 Consensus size: 17
3742637 TGGACATTTG
*
3742647 AATTTAAATTTATAATA
1 AATTTAAATTTAAAATA
*
3742664 ATTTTAAATTTGAAAATA
1 AATTTAAATTT-AAAATA
* *
3742682 AATTTAAACTTAAATTA
1 AATTTAAATTTAAAATA
3742699 AATTTAAATTTAAAAATA
1 AATTTAAATTT-AAAATA
3742717 AATTTAAATTTAAAATA
1 AATTTAAATTTAAAATA
*
3742734 AATTTAAACTTTAAAACA
1 AATTTAAA-TTTAAAATA
* *
3742752 AA-TTCAATCTTAAGATA
1 AATTTAAAT-TTAAAATA
3742769 AATTTAAA
1 AATTTAAA
3742777 ATAGGTTTGG
Statistics
Matches: 96, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
16 1 0.01
17 51 0.53
18 44 0.46
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:3742674 original size:29 final size:28
Alignment explanation
Indices: 3742642--3742712 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
3742632 TAATTTGGAC
*
3742642 ATTTGAATTTAAATTTATAA-TAATTTTAA
1 ATTTGAATTTAAATTTA-AACTAA-ATTAA
**
3742671 ATTTGAAAATAAATTTAAACTTAAATTAA
1 ATTTGAATTTAAATTTAAAC-TAAATTAA
*
3742700 ATTTAAATTTAAA
1 ATTTGAATTTAAA
3742713 AATAAATTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
28 2 0.06
29 29 0.85
30 3 0.09
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (28 bp):
ATTTGAATTTAAATTTAAACTAAATTAA
Found at i:3742687 original size:35 final size:33
Alignment explanation
Indices: 3742647--3742776 Score: 145
Period size: 35 Copynumber: 3.7 Consensus size: 33
3742637 TGGACATTTG
*
3742647 AATTTAAATTTATAATAATTTTAAATTTGAAAATA
1 AATTTAAATTTA-AATAAATTTAAATTT-AAAATA
*
3742682 AATTTAAACTTAAATTAAATTTAAATTTAAAAATA
1 AATTTAAATTTAAA-TAAATTTAAATTT-AAAATA
*
3742717 AATTTAAATTTAAAATAAATTTAAACTTTAAAACA
1 AATTTAAATTT-AAATAAATTTAAA-TTTAAAATA
*
3742752 AA-TTCAATCTTAAGATAAATTTAAA
1 AATTTAAAT-TTAA-ATAAATTTAAA
3742777 ATAGGTTTGG
Statistics
Matches: 84, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
34 9 0.11
35 69 0.82
36 6 0.07
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.40
Consensus pattern (33 bp):
AATTTAAATTTAAATAAATTTAAATTTAAAATA
Found at i:3742746 original size:7 final size:6
Alignment explanation
Indices: 3742642--3742748 Score: 89
Period size: 6 Copynumber: 18.2 Consensus size: 6
3742632 TAATTTGGAC
* * *
3742642 ATTTGA ATTTAA ATTTATA A--TAA TTTTAA ATTTGAA A-ATAA ATTTAA
1 ATTTAA ATTTAA ATTTA-A ATTTAA ATTTAA ATTT-AA ATTTAA ATTTAA
* ** *
3742689 ACTTAA A-TTAA ATTTAA ATTTAA AAATAA ATTTAA ATTTAA A-ATAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
3742735 ATTTAA ACTTTAA A
1 ATTTAA A-TTTAA A
3742749 ACAAATTCAA
Statistics
Matches: 81, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
4 1 0.01
5 14 0.17
6 55 0.68
7 11 0.14
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (6 bp):
ATTTAA
Found at i:3743599 original size:92 final size:92
Alignment explanation
Indices: 3743391--3743920 Score: 821
Period size: 92 Copynumber: 5.7 Consensus size: 92
3743381 GCAATACAAC
* * *
3743391 TTCAGAGGGATAAAGACTTGCTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGAT-GTT
1 TTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATATTT
* * *
3743455 GATGCTTCATCTAGCTCTTACTACAAC
66 GATGCTTTATCTAGCTCTTACTTCAAT
* *
3743482 TTCAGAGAGATAAAGACTTGTTATCCAATTTTACTTCAATTTCAAGAGGATAGGAAATGATATTT
1 TTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATATTT
*
3743547 GATGCTTTATCTAACTCTTACTTCAAT
66 GATGCTTTATCTAGCTCTTACTTCAAT
*
3743574 TTCAAAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATGTTT
1 TTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGA----T
*
3743639 GATGTTTGATGCTTTATCTAGCTCTTTCTTCAAT
62 -A--TTTGATGCTTTATCTAGCTCTTACTTCAAT
* *
3743673 TGT-AGAGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATAAGAAATGATATT
1 T-TCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATATT
3743737 TGATGCTTTATCTAGCTCTTACTTCAAT
65 TGATGCTTTATCTAGCTCTTACTTCAAT
* *
3743765 TTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAACGATGTTT
1 TTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATATTT
3743830 GATGCTTTATCTAGCTCTTACTTCAAT
66 GATGCTTTATCTAGCTCTTACTTCAAT
* *
3743857 TTCAGAGAAATAAAGATTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATATT
1 TTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATATT
3743921 ATTTAAATAT
Statistics
Matches: 403, Mismatches: 26, Indels: 19
0.90 0.06 0.04
Matches are distributed among these distances:
91 58 0.14
92 257 0.64
94 1 0.00
95 1 0.00
96 1 0.00
97 1 0.00
99 83 0.21
100 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (92 bp):
TTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATATTT
GATGCTTTATCTAGCTCTTACTTCAAT
Found at i:3743715 original size:191 final size:183
Alignment explanation
Indices: 3743399--3743920 Score: 830
Period size: 191 Copynumber: 2.8 Consensus size: 183
3743389 ACTTCAGAGG
* *
3743399 GATAAAGACTTGCTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATG-TTGATGCTTC
1 GATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATGTTTGATGCTTT
* * *
3743463 ATCTAGCTCTTACTACAACTTCAGAGAGATAAAGACTTGTTATCCAATTTTACTTCAATTTCAAG
66 ATCTAGCTCTTACTTCAA-TTTAGAGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAG
3743528 AGGATAGGAAATGATATTTGATGCTTTATCTAACTCTTACTTCAATTTCAAAGA
130 AGGATAGGAAATGATATTTGATGCTTTATCTAACTCTTACTTCAATTTCAAAGA
3743582 GATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATGTTTGATGTTTG
1 GATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGG-AA--A----TGATGTTTG
*
3743647 ATGCTTTATCTAGCTCTTTCTTCAATTGTAGAGAGATAAAGACTTGTTATCCAACTTTACTTCAA
59 ATGCTTTATCTAGCTCTTACTTCAATT-TAGAGAGATAAAGACTTGTTATCCAACTTTACTTCAA
* * *
3743712 TTTCAAGAGGATAAGAAATGATATTTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGA
123 TTTCAAGAGGATAGGAAATGATATTTGATGCTTTATCTAACTCTTACTTCAATTTCAAAGA
*
3743773 GATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAACGATGTTTGATGCTTT
1 GATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATGTTTGATGCTTT
* * *
3743838 ATCTAGCTCTTACTTCAATTTCAGAGAAATAAAGATTTGCTATCCAACTTTACTTCAATTTCAAG
66 ATCTAGCTCTTACTTCAATTT-AGAGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAG
3743903 AGGATAGGAAATGATATT
130 AGGATAGGAAATGATATT
3743921 ATTTAAATAT
Statistics
Matches: 314, Mismatches: 15, Indels: 19
0.90 0.04 0.05
Matches are distributed among these distances:
183 46 0.15
184 93 0.30
186 1 0.00
188 1 0.00
190 9 0.03
191 164 0.52
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (183 bp):
GATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATGTTTGATGCTTT
ATCTAGCTCTTACTTCAATTTAGAGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGA
GGATAGGAAATGATATTTGATGCTTTATCTAACTCTTACTTCAATTTCAAAGA
Found at i:3743725 original size:40 final size:41
Alignment explanation
Indices: 3743676--3743908 Score: 134
Period size: 40 Copynumber: 5.2 Consensus size: 41
3743666 CTTCAATTGT
*
3743676 AGAGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCA
1 AGAGAGATAAAGATTTGTTATCCAACTTTACTTCAATTTCA
* *
3743717 AGAG-GATAAGAAATGATATTTGATGCTTTATCTAGCTCTTACTTCAATTTC-
1 AGAGAGAT---AAA-G--A-TT--TG--TTATCCAACT-TTACTTCAATTTCA
* *
3743768 AGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCA
1 AGAGAGATAAAGATTTGTTATCCAACTTTACTTCAATTTCA
* *
3743809 AGAG-GATAGGAAACGATGTTTGATGCTTTATCTAGCTCTTACTTCAATTTC-
1 AGAGAGAT---AAA-GA---TT--TG--TTATCCAACT-TTACTTCAATTTCA
* *
3743860 AGAGAAATAAAGATTTGCTATCCAACTTTACTTCAATTTCA
1 AGAGAGATAAAGATTTGTTATCCAACTTTACTTCAATTTCA
3743901 AGAG-GATA
1 AGAGAGATA
3743909 GGAAATGATA
Statistics
Matches: 148, Mismatches: 16, Indels: 57
0.67 0.07 0.26
Matches are distributed among these distances:
40 35 0.24
41 26 0.18
43 10 0.07
44 3 0.02
45 3 0.02
46 2 0.01
47 2 0.01
48 3 0.02
49 10 0.07
51 23 0.16
52 31 0.21
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (41 bp):
AGAGAGATAAAGATTTGTTATCCAACTTTACTTCAATTTCA
Found at i:3743905 original size:283 final size:282
Alignment explanation
Indices: 3743394--3743917 Score: 895
Period size: 283 Copynumber: 1.9 Consensus size: 282
3743384 ATACAACTTC
* * *
3743394 AGAGGGATAAAGACTTGCTATCCAGCTTTACTTCAATTTCAAGAGGATAGGAAATGATGTTGATG
1 AGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAAGAAATGATGTTGATG
* *
3743459 CTTCATCTAGCTCTTACTACAACTTCAGAGAGATAAAGACTTGTTATCCAATTTTACTTCAATTT
66 CTTCATCTAGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTT
* *
3743524 CAAGAGGATAGGAAATGATATTTGATGCTTTATCTAACTCTTACTTCAATTTCAAAGAGATAAAG
131 CAAGAGGATAGGAAACGATATTTGATGCTTTATCTAACTCTTACTTCAATTTCAAAGAAATAAAG
3743589 ACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATGTTTGATGTTTGATGCTTT
196 ACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATGTTTGATGTTTGATGCTTT
3743654 ATCTAGCTCTTTCTTCAATTGT
261 ATCTAGCTCTTTCTTCAATTGT
* *
3743676 AGAGAGATAAAGACTTGTTATCCAACTTTACTTCAATTTCAAGAGGATAAGAAATGATATTTGAT
1 AGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAAGAAATGAT-GTTGAT
* * *
3743741 GCTTTATCTAGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATT
65 GCTTCATCTAGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATT
* * *
3743806 TCAAGAGGATAGGAAACGATGTTTGATGCTTTATCTAGCTCTTACTTCAATTTCAGAGAAATAAA
130 TCAAGAGGATAGGAAACGATATTTGATGCTTTATCTAACTCTTACTTCAATTTCAAAGAAATAAA
*
3743871 GATTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGAT
195 GACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGAT
3743918 ATTATTTAAA
Statistics
Matches: 225, Mismatches: 16, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
282 54 0.24
283 171 0.76
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.35
Consensus pattern (282 bp):
AGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAAGAAATGATGTTGATG
CTTCATCTAGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTT
CAAGAGGATAGGAAACGATATTTGATGCTTTATCTAACTCTTACTTCAATTTCAAAGAAATAAAG
ACTTGCTATCCAACTTTACTTCAATTTCAAGAGGATAGGAAATGATGTTTGATGTTTGATGCTTT
ATCTAGCTCTTTCTTCAATTGT
Found at i:3745318 original size:12 final size:11
Alignment explanation
Indices: 3745304--3745374 Score: 65
Period size: 12 Copynumber: 6.4 Consensus size: 11
3745294 TCTTATTTTG
3745304 TTTTTCTTCTT
1 TTTTTCTTCTT
*
3745315 GTTTTT-TT-TG
1 -TTTTTCTTCTT
*
3745325 CTTTTCTTCTT
1 TTTTTCTTCTT
3745336 TTCTTTCTTCTT
1 TT-TTTCTTCTT
3745348 TTCTTTCTTCTT
1 TT-TTTCTTCTT
* *
3745360 TTTTTTTTGTT
1 TTTTTCTTCTT
3745371 TTTT
1 TTTT
3745375 ATTGTCTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
9 4 0.08
10 3 0.06
11 15 0.30
12 28 0.56
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.80
Consensus pattern (11 bp):
TTTTTCTTCTT
Found at i:3745323 original size:21 final size:20
Alignment explanation
Indices: 3745299--3745373 Score: 87
Period size: 21 Copynumber: 3.5 Consensus size: 20
3745289 CTTTTTCTTA
3745299 TTTTGTTTTTCTTCTTGTTTT
1 TTTTGTTTTTCTTCTT-TTTT
*
3745320 TTTTGCTTTTCTTCTTTTCTT
1 TTTTGTTTTTCTTCTTTT-TT
*
3745341 TCTTCTTTTCTTTCTTCTTTTTT
1 T-TT-TGTT-TTTCTTCTTTTTT
3745364 TTTTGTTTTT
1 TTTTGTTTTT
3745374 TATTGTCTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
20 5 0.11
21 21 0.46
22 4 0.09
23 5 0.11
24 11 0.24
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.80
Consensus pattern (20 bp):
TTTTGTTTTTCTTCTTTTTT
Found at i:3750817 original size:58 final size:58
Alignment explanation
Indices: 3750753--3750891 Score: 183
Period size: 59 Copynumber: 2.4 Consensus size: 58
3750743 TTATAAATTC
* * *
3750753 GAGGGTAAAATAGTAATTTTGGTGAAATCGAGG-TTAAAAATGAAAATTTGAAAAGTTT
1 GAGGGTAAAATGGTAATTTTGGTGAAATCG-GGATCAAAAAAGAAAATTTGAAAAGTTT
* * *
3750811 -AGGGGTAAAATGGTAATTTTTGGTGAAATCGGGATCAAAAAAGGAATTTTGGAAAGTTT
1 GA-GGGTAAAATGGTAA-TTTTGGTGAAATCGGGATCAAAAAAGAAAATTTGAAAAGTTT
3750870 GAGGGTAAAATGGTAATTTTGG
1 GAGGGTAAAATGGTAATTTTGG
3750892 AAAGTTTTGG
Statistics
Matches: 71, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
57 1 0.01
58 21 0.30
59 48 0.68
60 1 0.01
ACGTcount: A:0.39, C:0.02, G:0.28, T:0.31
Consensus pattern (58 bp):
GAGGGTAAAATGGTAATTTTGGTGAAATCGGGATCAAAAAAGAAAATTTGAAAAGTTT
Found at i:3750867 original size:59 final size:59
Alignment explanation
Indices: 3750693--3750889 Score: 181
Period size: 59 Copynumber: 3.4 Consensus size: 59
3750683 TTTTGGATAC
* * * * ** * *
3750693 TTGAGGGCAAAATGGT-ACTTTTGGTTGAAAT-TAGGTCAAAAATGGGATTTTTATAAA-T
1 TTGAGGGTAAAATGGTAATTTTTGG-TGAAATCGAGGTCAAAAAAGAAAATTTGA-AAAGT
* * * *
3750751 TCGAGGGTAAAATAGTAA-TTTTGGTGAAATCGAGGTTAAAAATGAAAATTTGAAAAGT
1 TTGAGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTCAAAAAAGAAAATTTGAAAAGT
* * *
3750809 TT-AGGGGTAAAATGGTAATTTTTGGTGAAATCG-GGATCAAAAAAGGAATTTTGGAAAGT
1 TTGA-GGGTAAAATGGTAATTTTTGGTGAAATCGAGG-TCAAAAAAGAAAATTTGAAAAGT
3750868 TTGAGGGTAAAATGGTAATTTT
1 TTGAGGGTAAAATGGTAATTTT
3750890 GGAAAGTTTT
Statistics
Matches: 116, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
57 10 0.09
58 52 0.45
59 53 0.46
60 1 0.01
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.33
Consensus pattern (59 bp):
TTGAGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTCAAAAAAGAAAATTTGAAAAGT
Found at i:3750904 original size:29 final size:29
Alignment explanation
Indices: 3750855--3751008 Score: 184
Period size: 30 Copynumber: 5.2 Consensus size: 29
3750845 TCAAAAAAGG
* * *
3750855 AATTTTGGAAAGTTTGAGGGT-AAAATGGT
1 AATTTTAGAAAGTTTTAGGGTCAAAAT-AT
* * *
3750884 AATTTTGGAAAGTTTTGGGGTCAAAATGT
1 AATTTTAGAAAGTTTTAGGGTCAAAATAT
*
3750913 AATTTTCAAAAAGTTTTAGGGTCAAAATAT
1 AATTTT-AGAAAGTTTTAGGGTCAAAATAT
3750943 AATTTTTAGAAAGTTTTAGGGTCAAAATAT
1 AA-TTTTAGAAAGTTTTAGGGTCAAAATAT
* *
3750973 AATTTTCATAAAGTTTTAGCGTCAAAATAT
1 AATTTT-AGAAAGTTTTAGGGTCAAAATAT
3751003 AATTTT
1 AATTTT
3751009 TAAATAGTTT
Statistics
Matches: 112, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
29 31 0.28
30 77 0.69
31 4 0.04
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.39
Consensus pattern (29 bp):
AATTTTAGAAAGTTTTAGGGTCAAAATAT
Found at i:3750908 original size:59 final size:59
Alignment explanation
Indices: 3750799--3750969 Score: 156
Period size: 59 Copynumber: 2.9 Consensus size: 59
3750789 AAAATGAAAA
* *
3750799 TTTGAAAAGTTTAGGGGTAAAATGGTAATTTTTGGTGAAA---TCGGGATCAAAAAAGGAAT
1 TTTGAAAAGTTTA-GGGTAAAATGGTAATTTTT-G-GAAAGTTTTGGGGTCAAAAAAGGAAT
* * *
3750858 TTTGGAAAGTTTGAGGGTAAAATGGTAA-TTTTGGAAAGTTTTGGGGTC-AAAATGTAAT
1 TTTGAAAAGTTT-AGGGTAAAATGGTAATTTTTGGAAAGTTTTGGGGTCAAAAAAGGAAT
* * * *
3750916 TTTCAAAAAGTTTTAGGGTCAAAAT-ATAATTTTTAGAAAGTTTTAGGGTCAAAA
1 TTT-GAAAAG-TTTAGGGT-AAAATGGTAATTTTTGGAAAGTTTTGGGGTCAAAA
3750970 TATAATTTTC
Statistics
Matches: 93, Mismatches: 10, Indels: 16
0.78 0.08 0.13
Matches are distributed among these distances:
56 4 0.04
57 1 0.01
58 15 0.16
59 43 0.46
60 27 0.29
61 3 0.03
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.35
Consensus pattern (59 bp):
TTTGAAAAGTTTAGGGTAAAATGGTAATTTTTGGAAAGTTTTGGGGTCAAAAAAGGAAT
Found at i:3750968 original size:60 final size:60
Alignment explanation
Indices: 3750863--3751018 Score: 210
Period size: 60 Copynumber: 2.6 Consensus size: 60
3750853 GGAATTTTGG
* * * * *
3750863 AAAGTTTGAGGGT-AAAATGGTAA-TTTTGGAAAGTTTTGGGGTCAAAATGTAATTTTCAA
1 AAAGTTTTAGGGTCAAAAT-ATAATTTTTAGAAAGTTTTAGGGTCAAAATATAATTTTCAA
*
3750922 AAAGTTTTAGGGTCAAAATATAATTTTTAGAAAGTTTTAGGGTCAAAATATAATTTTCAT
1 AAAGTTTTAGGGTCAAAATATAATTTTTAGAAAGTTTTAGGGTCAAAATATAATTTTCAA
*
3750982 AAAGTTTTAGCGTCAAAATATAATTTTTA-AATAGTTT
1 AAAGTTTTAGGGTCAAAATATAATTTTTAGAA-AGTTT
3751019 AAGGACTTAC
Statistics
Matches: 87, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
59 17 0.20
60 70 0.80
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.39
Consensus pattern (60 bp):
AAAGTTTTAGGGTCAAAATATAATTTTTAGAAAGTTTTAGGGTCAAAATATAATTTTCAA
Found at i:3752832 original size:29 final size:28
Alignment explanation
Indices: 3752800--3752870 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
3752790 TAATTTGGAC
*
3752800 ATTTGAATTTAAATTTATAA-TAATTTTAA
1 ATTTGAATTTAAATTTA-AACTAA-ATTAA
**
3752829 ATTTGAAAATAAATTTAAACTTAAATTAA
1 ATTTGAATTTAAATTTAAAC-TAAATTAA
*
3752858 ATTTAAATTTAAA
1 ATTTGAATTTAAA
3752871 AATAAATTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
28 2 0.06
29 29 0.85
30 3 0.09
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (28 bp):
ATTTGAATTTAAATTTAAACTAAATTAA
Found at i:3752845 original size:18 final size:17
Alignment explanation
Indices: 3752805--3752934 Score: 163
Period size: 17 Copynumber: 7.5 Consensus size: 17
3752795 TGGACATTTG
*
3752805 AATTTAAATTTATAATA
1 AATTTAAATTTAAAATA
*
3752822 ATTTTAAATTTGAAAATA
1 AATTTAAATTT-AAAATA
* *
3752840 AATTTAAACTTAAATTA
1 AATTTAAATTTAAAATA
3752857 AATTTAAATTTAAAAATA
1 AATTTAAATTT-AAAATA
3752875 AATTTAAATTTAAAATA
1 AATTTAAATTTAAAATA
*
3752892 AATTTAAACTTTAAAACA
1 AATTTAAA-TTTAAAATA
*
3752910 AATTT-AATCTTAAGATA
1 AATTTAAAT-TTAAAATA
3752927 AATTTAAA
1 AATTTAAA
3752935 ATAGGTTTGG
Statistics
Matches: 98, Mismatches: 10, Indels: 9
0.84 0.09 0.08
Matches are distributed among these distances:
16 1 0.01
17 52 0.53
18 45 0.46
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:3752845 original size:35 final size:33
Alignment explanation
Indices: 3752805--3752934 Score: 154
Period size: 35 Copynumber: 3.7 Consensus size: 33
3752795 TGGACATTTG
*
3752805 AATTTAAATTTATAATAATTTTAAATTTGAAAATA
1 AATTTAAATTTA-AATAAATTTAAATTT-AAAATA
*
3752840 AATTTAAACTTAAATTAAATTTAAATTTAAAAATA
1 AATTTAAATTTAAA-TAAATTTAAATTT-AAAATA
*
3752875 AATTTAAATTTAAAATAAATTTAAACTTTAAAACA
1 AATTTAAATTT-AAATAAATTTAAA-TTTAAAATA
3752910 AATTT-AATCTTAAGATAAATTTAAA
1 AATTTAAAT-TTAA-ATAAATTTAAA
3752935 ATAGGTTTGG
Statistics
Matches: 85, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
34 7 0.08
35 72 0.85
36 6 0.07
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (33 bp):
AATTTAAATTTAAATAAATTTAAATTTAAAATA
Found at i:3752904 original size:7 final size:6
Alignment explanation
Indices: 3752800--3752906 Score: 89
Period size: 6 Copynumber: 18.2 Consensus size: 6
3752790 TAATTTGGAC
* * *
3752800 ATTTGA ATTTAA ATTTATA A--TAA TTTTAA ATTTGAA A-ATAA ATTTAA
1 ATTTAA ATTTAA ATTTA-A ATTTAA ATTTAA ATTT-AA ATTTAA ATTTAA
* ** *
3752847 ACTTAA A-TTAA ATTTAA ATTTAA AAATAA ATTTAA ATTTAA A-ATAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
3752893 ATTTAA ACTTTAA A
1 ATTTAA A-TTTAA A
3752907 ACAAATTTAA
Statistics
Matches: 81, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
4 1 0.01
5 14 0.17
6 55 0.68
7 11 0.14
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (6 bp):
ATTTAA
Found at i:3756564 original size:12 final size:12
Alignment explanation
Indices: 3756547--3756571 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3756537 ACCATATTTC
3756547 ATTAAAAAAATT
1 ATTAAAAAAATT
3756559 ATTAAAAAAATT
1 ATTAAAAAAATT
3756571 A
1 A
3756572 AAATTCATCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATTAAAAAAATT
Found at i:3757222 original size:10 final size:10
Alignment explanation
Indices: 3757204--3757237 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
3757194 ACTCCTATTT
3757204 TTATTAAAAA
1 TTATTAAAAA
*
3757214 TTATAAAAAAA
1 TTAT-TAAAAA
3757225 TTATTAAAAA
1 TTATTAAAAA
3757235 TTA
1 TTA
3757238 AAATCAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TTATTAAAAA
Found at i:3757340 original size:10 final size:10
Alignment explanation
Indices: 3757290--3757426 Score: 57
Period size: 9 Copynumber: 14.7 Consensus size: 10
3757280 AATCCAATAC
*
3757290 TAAAAATTTA
1 TAAAAATATA
3757300 TTAAAAAT-T-
1 -TAAAAATATA
*
3757309 TAAAAA-AAA
1 TAAAAATATA
*
3757318 TAAAAAT-TG
1 TAAAAATATA
3757327 TAAAAATATA
1 TAAAAATATA
3757337 T-AAAATATA
1 TAAAAATATA
*
3757346 T-AGAA-ATA
1 TAAAAATATA
3757354 TAAAAAT-TA
1 TAAAAATATA
*
3757363 T-AAAATCGTA
1 TAAAAAT-ATA
3757373 -AAAAAT-TA
1 TAAAAATATA
* *
3757381 TATAAATGTA
1 TAAAAATATA
*
3757391 -AAGAA-ATA
1 TAAAAATATA
* *
3757399 TAAAATTCGTA
1 TAAAAAT-ATA
*
3757410 TAAAAATTTA
1 TAAAAATATA
3757420 TAAAAAT
1 TAAAAAT
3757427 TGTTTTACCA
Statistics
Matches: 97, Mismatches: 15, Indels: 29
0.69 0.11 0.21
Matches are distributed among these distances:
8 19 0.20
9 42 0.43
10 21 0.22
11 15 0.15
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (10 bp):
TAAAAATATA
Found at i:3757341 original size:26 final size:26
Alignment explanation
Indices: 3757303--3757426 Score: 51
Period size: 26 Copynumber: 4.6 Consensus size: 26
3757293 AAATTTATTA
* * *
3757303 AAAATTTAAAAAAA-ATAAAAATTGT
1 AAAATATATAAAAATATAAAAATTAT
*
3757328 AAAAATATATAAAATATATAGAAA-TAT
1 -AAAATATATAAAA-ATATAAAAATTAT
*
3757355 AAAA-AT-TATAAAATCGTAAAAAATTAT
1 AAAATATATA-AAAAT-AT-AAAAATTAT
* *
3757382 ATAAATGTA-AAGAAATATAAAATTCGTAT
1 A-AAATATATAA-AAATATAAAAAT--TAT
*
3757411 AAAAATTTATAAAAAT
1 -AAAATATATAAAAAT
3757427 TGTTTTACCA
Statistics
Matches: 74, Mismatches: 10, Indels: 25
0.68 0.09 0.23
Matches are distributed among these distances:
24 4 0.05
25 6 0.08
26 19 0.26
27 12 0.16
28 11 0.15
29 19 0.26
30 3 0.04
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (26 bp):
AAAATATATAAAAATATAAAAATTAT
Found at i:3757352 original size:19 final size:16
Alignment explanation
Indices: 3757301--3757404 Score: 73
Period size: 18 Copynumber: 5.9 Consensus size: 16
3757291 AAAAATTTAT
* *
3757301 TAAAAATTTAAAAAAAA
1 TAAAAA-TTATAAAATA
*
3757318 TAAAAATTGTAAAAATA
1 TAAAAATTAT-AAAATA
3757335 TATAAAATATATAGAAATA
1 TA-AAAAT-TATA-AAATA
*
3757354 TAAAAATTATAAAATCG
1 TAAAAATTATAAAAT-A
*
3757371 TAAAAAATTATATAAATG
1 T-AAAAATTATA-AAATA
*
3757389 TAAAGAAATATAAAAT
1 TAAA-AATTATAAAAT
3757405 TCGTATAAAA
Statistics
Matches: 73, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
16 6 0.08
17 25 0.34
18 29 0.40
19 13 0.18
ACGTcount: A:0.65, C:0.01, G:0.05, T:0.29
Consensus pattern (16 bp):
TAAAAATTATAAAATA
Found at i:3757367 original size:45 final size:48
Alignment explanation
Indices: 3757317--3757426 Score: 122
Period size: 45 Copynumber: 2.4 Consensus size: 48
3757307 TTTAAAAAAA
*
3757317 ATAAAAATTGTAAAAATA-TATA-AAATATATAGAAATATAAAAAT-T
1 ATAAAAATTGTAAAAATATTATATAAATATAAAGAAATATAAAAATCT
* * *
3757362 AT-AAAATCGTAAAAA-ATTATATAAATGTAAAGAAATATAAAATTCGT
1 ATAAAAATTGTAAAAATATTATATAAATATAAAGAAATATAAAAATC-T
*
3757409 ATAAAAATTTATAAAAAT
1 ATAAAAA-TTGTAAAAAT
3757427 TGTTTTACCA
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.02
44 16 0.31
45 21 0.40
47 3 0.06
48 4 0.08
49 7 0.13
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (48 bp):
ATAAAAATTGTAAAAATATTATATAAATATAAAGAAATATAAAAATCT
Found at i:3757376 original size:18 final size:18
Alignment explanation
Indices: 3757355--3757424 Score: 81
Period size: 18 Copynumber: 3.7 Consensus size: 18
3757345 ATAGAAATAT
3757355 AAAAATTATAAAATCGTA
1 AAAAATTATAAAATCGTA
3757373 AAAAATTATATAAAT-GTA
1 AAAAATTATA-AAATCGTA
3757391 AAGAAA-TATAAAATTCGTA
1 AA-AAATTATAAAA-TCGTA
3757410 TAAAAATTTATAAAA
1 -AAAAA-TTATAAAA
3757425 ATTGTTTTAC
Statistics
Matches: 45, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
17 3 0.07
18 20 0.44
19 13 0.29
20 2 0.04
21 7 0.16
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.30
Consensus pattern (18 bp):
AAAAATTATAAAATCGTA
Found at i:3757409 original size:37 final size:36
Alignment explanation
Indices: 3757333--3757423 Score: 105
Period size: 36 Copynumber: 2.5 Consensus size: 36
3757323 ATTGTAAAAA
* *
3757333 TATATAAAATATATAGAAATATAAAAATTATAAAATCG
1 TATA-AAAAT-TATATAAATATAAAAAATATAAAATCG
*
3757371 TA-AAAAATTATATAAATGTAAAGAAATATAAAATTCG
1 TATAAAAATTATATAAATATAAA-AAATATAAAA-TCG
3757408 TATAAAAATT-TATAAA
1 TATAAAAATTATATAAA
3757424 AATTGTTTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
35 12 0.26
36 14 0.30
37 12 0.26
38 9 0.19
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.32
Consensus pattern (36 bp):
TATAAAAATTATATAAATATAAAAAATATAAAATCG
Found at i:3757627 original size:36 final size:36
Alignment explanation
Indices: 3757560--3757630 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
3757550 CTGTCGTTAA
**
3757560 TTTTTTAAGATTTTTATAAAATTTTACAATTTTTAT
1 TTTTTTAAGATTTTTATAAAAAATTACAATTTTTAT
*
3757596 TTTTTTACGATTTTTATAAAAAATT-CTAATTTTTA
1 TTTTTTAAGATTTTTATAAAAAATTAC-AATTTTTA
3757631 ATAAATTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 1 0.03
36 30 0.97
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (36 bp):
TTTTTTAAGATTTTTATAAAAAATTACAATTTTTAT
Found at i:3765025 original size:16 final size:16
Alignment explanation
Indices: 3764985--3765067 Score: 69
Period size: 16 Copynumber: 5.1 Consensus size: 16
3764975 GTTTTTTAAA
* *
3764985 ATTTAAATCTAAATTT
1 ATTTAAATTTGAATTT
3765001 ATTTAAATTTGAATTT
1 ATTTAAATTTGAATTT
*
3765017 ACTTT-AATTTGAACTT
1 A-TTTAAATTTGAATTT
* * *
3765033 ATTTGGAGTTTGGATTT
1 ATTT-AAATTTGAATTT
*
3765050 AATTTAAATTTAAATTT
1 -ATTTAAATTTGAATTT
3765067 A
1 A
3765068 CCTTTTTAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
15 3 0.06
16 27 0.51
17 19 0.36
18 4 0.08
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.52
Consensus pattern (16 bp):
ATTTAAATTTGAATTT
Found at i:3766850 original size:29 final size:29
Alignment explanation
Indices: 3766818--3767032 Score: 172
Period size: 30 Copynumber: 7.3 Consensus size: 29
3766808 TAAAATTTGT
*
3766818 ATTTTACCCCTCGAACTTCTAAAAATTCC
1 ATTTTACCCCTCGAACTTCCAAAAATTCC
**
3766847 ATTTTCACCCC-AAAACTTCCAAAAATTCC
1 ATTTT-ACCCCTCGAACTTCCAAAAATTCC
**
3766876 ATTTTTGACCCC-AAAACTTCCAAAAATTCC
1 A-TTTT-ACCCCTCGAACTTCCAAAAATTCC
* *
3766906 ATTTTTA-CCCTTGAACTTTCAAAAATTCC
1 A-TTTTACCCCTCGAACTTCCAAAAATTCC
*** * *
3766935 ATTTTTGACCTCAAAACTTCCAAAAATTAC
1 ATTTTACCCCTC-GAACTTCCAAAAATTCC
*
3766965 ATTTT-CACCCTTGAACTTCCAAAAATTCC
1 ATTTTAC-CCCTCGAACTTCCAAAAATTCC
* *
3766994 ATTTTTA-ACCTCGAAACTTTC-AAAATTACC
1 A-TTTTACCCCTCG-AACTTCCAAAAATT-CC
3767024 ATTTTACCC
1 ATTTTACCC
3767033 TTGAATACCC
Statistics
Matches: 153, Mismatches: 22, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
28 7 0.05
29 72 0.47
30 74 0.48
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.34
Consensus pattern (29 bp):
ATTTTACCCCTCGAACTTCCAAAAATTCC
Found at i:3766894 original size:59 final size:59
Alignment explanation
Indices: 3766831--3767085 Score: 295
Period size: 59 Copynumber: 4.4 Consensus size: 59
3766821 TTACCCCTCG
***
3766831 AACTTCTAAAAATTCCATTTTCACCCCAAAACTTCCAAAAATTCCATTTTTGACCCCAA
1 AACTTCTAAAAATTCCATTTTCACCCTTGAACTTCCAAAAATTCCATTTTTGACCCCAA
* * * *
3766890 AACTTCCAAAAATTCCATTTTTACCCTTGAACTTTCAAAAATTCCATTTTTGACCTCAA
1 AACTTCTAAAAATTCCATTTTCACCCTTGAACTTCCAAAAATTCCATTTTTGACCCCAA
* * * * *
3766949 AACTTCCAAAAATTACATTTTCACCCTTGAACTTCCAAAAATTCCATTTTTAACCTCGA
1 AACTTCTAAAAATTCCATTTTCACCCTTGAACTTCCAAAAATTCCATTTTTGACCCCAA
* * * *
3767008 AACTT-TCAAAATTACCATTTT-ACCCTTGAA-TACCCAAAATTTCATTTTT-ACCCCAA
1 AACTTCTAAAAATT-CCATTTTCACCCTTGAACTTCCAAAAATTCCATTTTTGACCCCAA
*
3767064 AAATT-TCAAAAATTACCATTTT
1 AACTTCT-AAAAATT-CCATTTT
3767086 GCCCTCGGGT
Statistics
Matches: 172, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
56 10 0.06
57 30 0.17
58 15 0.09
59 117 0.68
ACGTcount: A:0.36, C:0.26, G:0.02, T:0.35
Consensus pattern (59 bp):
AACTTCTAAAAATTCCATTTTCACCCTTGAACTTCCAAAAATTCCATTTTTGACCCCAA
Found at i:3767085 original size:29 final size:30
Alignment explanation
Indices: 3766831--3767085 Score: 220
Period size: 29 Copynumber: 8.7 Consensus size: 30
3766821 TTACCCCTCG
*
3766831 AACTTCTAAAAATTCCA-TTTTCACCCCAA
1 AACTTCCAAAAATTCCATTTTTCACCCCAA
*
3766860 AACTTCCAAAAATTCCATTTTTGACCCCAA
1 AACTTCCAAAAATTCCATTTTTCACCCCAA
***
3766890 AACTTCCAAAAATTCCATTTTT-ACCCTTG
1 AACTTCCAAAAATTCCATTTTTCACCCCAA
* * *
3766919 AACTTTCAAAAATTCCATTTTTGACCTCAA
1 AACTTCCAAAAATTCCATTTTTCACCCCAA
* ***
3766949 AACTTCCAAAAATTACA-TTTTCACCCTTG
1 AACTTCCAAAAATTCCATTTTTCACCCCAA
* * *
3766978 AACTTCCAAAAATTCCATTTTTAACCTCGA
1 AACTTCCAAAAATTCCATTTTTCACCCCAA
* ***
3767008 AACTTTC-AAAATTACCA-TTTT-ACCCTTG
1 AACTTCCAAAAATT-CCATTTTTCACCCCAA
* * *
3767036 AA-TACCCAAAATTTCATTTTT-ACCCCAA
1 AACTTCCAAAAATTCCATTTTTCACCCCAA
* *
3767064 AAATTTCAAAAATTACCATTTT
1 AACTTCCAAAAATT-CCATTTT
3767086 GCCCTCGGGT
Statistics
Matches: 180, Mismatches: 38, Indels: 15
0.77 0.16 0.06
Matches are distributed among these distances:
27 4 0.02
28 21 0.12
29 82 0.46
30 73 0.41
ACGTcount: A:0.36, C:0.26, G:0.02, T:0.35
Consensus pattern (30 bp):
AACTTCCAAAAATTCCATTTTTCACCCCAA
Found at i:3772730 original size:13 final size:13
Alignment explanation
Indices: 3772712--3772822 Score: 77
Period size: 12 Copynumber: 8.2 Consensus size: 13
3772702 TTCAATAAAT
3772712 AAAAGAAGAAGAA
1 AAAAGAAGAAGAA
*
3772725 AAAAGAAAAAGAAA
1 AAAAGAAGAAG-AA
3772739 AAGAAGAAAGAAATGAAA
1 AA-AAG-AAG-AA-G-AA
3772757 AAAAGAAGAAG-A
1 AAAAGAAGAAGAA
3772769 AAAAGAAGAAAGAA
1 AAAAGAAG-AAGAA
*
3772783 ATAAA-AAAAAGAA
1 A-AAAGAAGAAGAA
** *
3772796 GGAA-AAGAACAA
1 AAAAGAAGAAGAA
3772808 AAAAGAA-AAGAA
1 AAAAGAAGAAGAA
3772820 AAA
1 AAA
3772823 GAAAAGGAGA
Statistics
Matches: 79, Mismatches: 10, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
12 26 0.33
13 20 0.25
14 9 0.11
15 8 0.10
16 5 0.06
17 5 0.06
18 6 0.08
ACGTcount: A:0.78, C:0.01, G:0.19, T:0.02
Consensus pattern (13 bp):
AAAAGAAGAAGAA
Found at i:3772736 original size:19 final size:19
Alignment explanation
Indices: 3772712--3772827 Score: 84
Period size: 19 Copynumber: 6.2 Consensus size: 19
3772702 TTCAATAAAT
3772712 AAAAGAAGAAGAAAAAAGA
1 AAAAGAAGAAGAAAAAAGA
* *
3772731 AAAAGAAAAAGAAGAAAGA
1 AAAAGAAGAAGAAAAAAGA
* *
3772750 AATGAA-AAAAAG-AAGAAGA
1 AA--AAGAAGAAGAAAAAAGA
3772769 AAAAGAAGAAAGAAATAAA-A
1 AAAAGAAG-AAGAAA-AAAGA
*
3772789 AAAAGAAG--GAAAAGAACAA
1 AAAAGAAGAAGAAAA-AA-GA
3772808 AAAAGAA-AAG-AAAAAGA
1 AAAAGAAGAAGAAAAAAGA
3772825 AAA
1 AAA
3772828 GGAGAGGTCG
Statistics
Matches: 79, Mismatches: 7, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
16 1 0.01
17 12 0.15
18 4 0.05
19 40 0.51
20 18 0.23
21 4 0.05
ACGTcount: A:0.78, C:0.01, G:0.19, T:0.02
Consensus pattern (19 bp):
AAAAGAAGAAGAAAAAAGA
Found at i:3772757 original size:29 final size:29
Alignment explanation
Indices: 3772725--3772827 Score: 113
Period size: 32 Copynumber: 3.5 Consensus size: 29
3772715 AGAAGAAGAA
3772725 AAAAGAAAAAGAAAAAGAAGAAAGAAATG
1 AAAAGAAAAAGAAAAAGAAGAAAGAAATG
*
3772754 AAAAAAAGAAGAAGAAAAAGAAGAAAGAAAT-
1 ---AAAAGAAAAAGAAAAAGAAGAAAGAAATG
* * *
3772785 AAAAAAAAGAAGGAAAAGAACAAA-AAA-G
1 AAAAGAAA-AAGAAAAAGAAGAAAGAAATG
3772813 AAAAGAAAAAGAAAA
1 AAAAGAAAAAGAAAA
3772828 GGAGAGGTCG
Statistics
Matches: 62, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
27 6 0.10
28 16 0.26
29 13 0.21
32 27 0.44
ACGTcount: A:0.79, C:0.01, G:0.18, T:0.02
Consensus pattern (29 bp):
AAAAGAAAAAGAAAAAGAAGAAAGAAATG
Found at i:3772796 original size:32 final size:32
Alignment explanation
Indices: 3772723--3772796 Score: 130
Period size: 32 Copynumber: 2.3 Consensus size: 32
3772713 AAAGAAGAAG
* *
3772723 AAAAAAGAAAAAGAAAAAGAAGAAAGAAATGA
1 AAAAAAGAAGAAGAAAAAGAAGAAAGAAATAA
3772755 AAAAAAGAAGAAGAAAAAGAAGAAAGAAATAA
1 AAAAAAGAAGAAGAAAAAGAAGAAAGAAATAA
3772787 AAAAAAGAAG
1 AAAAAAGAAG
3772797 GAAAAGAACA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (32 bp):
AAAAAAGAAGAAGAAAAAGAAGAAAGAAATAA
Found at i:3772800 original size:21 final size:20
Alignment explanation
Indices: 3772712--3772827 Score: 82
Period size: 20 Copynumber: 5.8 Consensus size: 20
3772702 TTCAATAAAT
*
3772712 AAAAGAAG-AAGAAAAAAGA
1 AAAAGAAGAAAGAAAAAAAA
3772731 AAAAGAA-AAAGAAGAAAGAAA
1 AAAAGAAGAAAGAA-AAA-AAA
** * *
3772752 TGAA-AA-AAAG-AAGAAGA
1 AAAAGAAGAAAGAAAAAAAA
*
3772769 AAAAGAAGAAAGAAATAAAA
1 AAAAGAAGAAAGAAAAAAAA
3772789 AAAAGAAGGAAAAGAACAAAAAA
1 AAAAGAA-G-AAAGAA-AAAAAA
3772812 GAAAAGAA-AAAGAAAA
1 -AAAAGAAGAAAGAAAA
3772828 GGAGAGGTCG
Statistics
Matches: 77, Mismatches: 10, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
17 4 0.05
18 4 0.05
19 17 0.22
20 23 0.30
21 11 0.14
22 6 0.08
23 5 0.06
24 7 0.09
ACGTcount: A:0.78, C:0.01, G:0.19, T:0.02
Consensus pattern (20 bp):
AAAAGAAGAAAGAAAAAAAA
Found at i:3772822 original size:32 final size:33
Alignment explanation
Indices: 3772712--3772830 Score: 106
Period size: 32 Copynumber: 3.7 Consensus size: 33
3772702 TTCAATAAAT
* *
3772712 AAAAGAAGAAG-AAAAAAGAA-AAAGAAAAAGAA
1 AAAAGAA-AAGAAAAAAAGAAGGAAGAAAAACAA
* * *
3772744 GAAAGAAATGAAAAAAAGAA-GAAGAAAAAGAA
1 AAAAGAAAAGAAAAAAAGAAGGAAGAAAAACAA
* *
3772776 GAAAGAAATA-AAAAAAAGAAGGAA-AAGAACAA
1 AAAAGAAA-AGAAAAAAAGAAGGAAGAAAAACAA
3772808 AAAAGAAAAGAAAAAGAA-AAGGA
1 AAAAGAAAAGAAAAA-AAGAAGGA
3772831 GAGGTCGAGG
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
31 3 0.04
32 67 0.89
33 5 0.07
ACGTcount: A:0.77, C:0.01, G:0.20, T:0.02
Consensus pattern (33 bp):
AAAAGAAAAGAAAAAAAGAAGGAAGAAAAACAA
Found at i:3774269 original size:150 final size:150
Alignment explanation
Indices: 3773998--3774289 Score: 485
Period size: 150 Copynumber: 1.9 Consensus size: 150
3773988 TCAATACCAG
* *
3773998 GAAGACATGAAGGGAAAGATCTAAGACCGCAACGGCGGATCTAGTACCACAAAGATGCAAAAGGG
1 GAAGACATGAAGGGAAAGATCTAAAACCGCAACGGCGGATCCAGTACCACAAAGATGCAAAAGGG
* * * *
3774063 AAAGGTCTAAGTTGCAACAGTGGACCTTGTACCTCAGAAGACAAGAAAGGAAAGATTTAAGCCGT
66 AAAGGTCTAAGTCGCAACAGTGGACCGTGTACCTCAAAAGACAAGAAAGGAAAGATTTAAGCCGC
*
3774128 AATGGCGAATCCAGTAACAT
131 AACGGCGAATCCAGTAACAT
* *
3774148 GAAGACATGAAGGGAAAGATCTAAAACCGCGACGGTGGATCCAGTACCACAAAGATGCAAAAGGG
1 GAAGACATGAAGGGAAAGATCTAAAACCGCAACGGCGGATCCAGTACCACAAAGATGCAAAAGGG
* *
3774213 AAAGGTCTAAGTCGCAACGGTGGACCGTGTACCTCAAAAGACAAGAAAGGAAAGATTTAAGTCGC
66 AAAGGTCTAAGTCGCAACAGTGGACCGTGTACCTCAAAAGACAAGAAAGGAAAGATTTAAGCCGC
3774278 AACGGCGAATCC
131 AACGGCGAATCC
3774290 GGTACCACAA
Statistics
Matches: 131, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
150 131 1.00
ACGTcount: A:0.40, C:0.19, G:0.27, T:0.15
Consensus pattern (150 bp):
GAAGACATGAAGGGAAAGATCTAAAACCGCAACGGCGGATCCAGTACCACAAAGATGCAAAAGGG
AAAGGTCTAAGTCGCAACAGTGGACCGTGTACCTCAAAAGACAAGAAAGGAAAGATTTAAGCCGC
AACGGCGAATCCAGTAACAT
Found at i:3774298 original size:100 final size:100
Alignment explanation
Indices: 3774149--3774396 Score: 316
Period size: 100 Copynumber: 2.5 Consensus size: 100
3774139 CAGTAACATG
* * * * ***
3774149 AAGACATGAAGGGAAAGATCTAAAACCGCGACGGTGGATCCAGTACCACAAAGATGCAAAAGGGA
1 AAGACAAGAAAGGAAAGAT-TTAAACCGCAACGGCAAATCCAGTACCACAAAGATGCAAAAGGGA
*
3774214 AAGGTCTAAGTCGCAACGGTGGACCGTGTACCTCAA
65 AAGGTCTAAGTCGCAACGGCGGACCGTGTACCTCAA
** * *
3774250 AAGACAAGAAAGGAAAGATTTAAGTCGCAACGGCGAATCCGGTACCACAAAGATGCAAAAGGGAA
1 AAGACAAGAAAGGAAAGATTTAAACCGCAACGGCAAATCCAGTACCACAAAGATGCAAAAGGGAA
* ** ** *
3774315 AGGTTTAAGTCTTAACGGCGGGTCGTGTACCTCAG
66 AGGTCTAAGTCGCAACGGCGGACCGTGTACCTCAA
*
3774350 AAGACAAGAAGGGAAAGATTTAAACCGCAACGGCAAATCCAGTACCA
1 AAGACAAGAAAGGAAAGATTTAAACCGCAACGGCAAATCCAGTACCA
3774397 TGAAGACATG
Statistics
Matches: 126, Mismatches: 21, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
100 109 0.87
101 17 0.13
ACGTcount: A:0.39, C:0.20, G:0.27, T:0.15
Consensus pattern (100 bp):
AAGACAAGAAAGGAAAGATTTAAACCGCAACGGCAAATCCAGTACCACAAAGATGCAAAAGGGAA
AGGTCTAAGTCGCAACGGCGGACCGTGTACCTCAA
Found at i:3774362 original size:150 final size:148
Alignment explanation
Indices: 3774027--3774586 Score: 400
Period size: 150 Copynumber: 3.7 Consensus size: 148
3774017 TCTAAGACCG
* * * *
3774027 CAACGGCGGATC-TAGTACCACA-AAGATGCAA-AAGGGAAAGGTCTAAGTTGCAACAGTGGACC
1 CAACGGCGGATCGT-GTACCTCAGAAGA--CAAGAAGGGAAAGATCTAAGTCGCAACGGTGGACC
* * **
3774089 TTGTACCTCAGAAGACAAGAAAGGAAAGATTTAAGCCGTAATGGCGAATCCAGTAACATGAAGA-
63 -TGTACCTCAGAAGACAAGAAAGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCACAAAGAT
* * * ** *
3774153 CATGAAGGGAAAGATCTAAAACCG
127 CA-AAAGGGAAAGGT-TTAAGTCA
* * ** * *
3774177 CGACGGTGGATCCAGTACCACA-AAGATGCAA-AAGGGAAAGGTCTAAGTCGCAACGGTGGACCG
1 CAACGGCGGATCGTGTACCTCAGAAGA--CAAGAAGGGAAAGATCTAAGTCGCAACGGTGGACC-
* * * *
3774240 TGTACCTCAAAAGACAAGAAAGGAAAGATTTAAGTCGCAACGGCGAATCCGGTACCACAAAGATG
63 TGTACCTCAGAAGACAAGAAAGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCACAAAGAT-
*
3774305 CAAAAGGGAAAGGTTTAAGTCT
127 CAAAAGGGAAAGGTTTAAGTCA
* * * ** *** *
3774327 TAACGGCGGGTCGTGTACCTCAGAAGACAAGAAGGGAAAGATTTAAACCGCAACGGCAAATCCAG
1 CAACGGCGGATCGTGTACCTCAGAAGACAAGAAGGGAAAGATCTAAGTCGCAACGGTGGA-CCTG
* * * * * * * *
3774392 TA-C-CATGAAGACATGAAGGGAAAGATCTAAGACCACAATGGTGGATCTAGTACCACCAAGATA
65 TACCTCA-GAAGACAAGAAAGGAAAGATTTAAG-CCGCAATGGCGAATCCAGTACCACAAAGAT-
*
3774455 CAAAAGGAAAAGGTTTAAGTCA
127 CAAAAGGGAAAGGTTTAAGTCA
* * * * * * * *
3774477 CAACGACGGATCGTGTAGCTCAGAAGACAGGAAAGGAAAGATTTAAGTTGCAACGGTGAATCCAG
1 CAACGGCGGATCGTGTACCTCAGAAGACAAGAAGGGAAAGATCTAAGTCGCAACGGTGGA-CCTG
* *** * *
3774542 TACCAC-GAAGATTTGAAAGGGAAAGGTTTAAGTCGCAATGGCGAA
65 TACCTCAGAAGACAAGAAA-GGAAAGATTTAAGCCGCAATGGCGAA
3774587 CTTGGTACCT
Statistics
Matches: 329, Mismatches: 70, Indels: 22
0.78 0.17 0.05
Matches are distributed among these distances:
148 2 0.01
149 25 0.08
150 271 0.82
151 28 0.09
152 3 0.01
ACGTcount: A:0.39, C:0.18, G:0.26, T:0.16
Consensus pattern (148 bp):
CAACGGCGGATCGTGTACCTCAGAAGACAAGAAGGGAAAGATCTAAGTCGCAACGGTGGACCTGT
ACCTCAGAAGACAAGAAAGGAAAGATTTAAGCCGCAATGGCGAATCCAGTACCACAAAGATCAAA
AGGGAAAGGTTTAAGTCA
Found at i:3774445 original size:100 final size:99
Alignment explanation
Indices: 3774148--3774438 Score: 314
Period size: 100 Copynumber: 2.9 Consensus size: 99
3774138 CCAGTAACAT
* * * * *
3774148 GAAGACATGAAGGGAAAGATCTAAAACCGCGACGGTGGATCCAGTACCACAAAGATGCAAAAGGG
1 GAAGACAAGAAGGGAAAGAT-TTAAACCGCAACGGCGAATCCAGTACCACAAAGA-GCAAAAGGG
* *
3774213 AAAGGTCTAAGTCGCAACGGTGGACCGTGTACCTCA
64 AAAGGTCTAAGTCACAACGGTGGATCGTGTACCTCA
* * ** *
3774249 AAAGACAAGAAAGGAAAGATTTAAGTCGCAACGGCGAATCCGGTACCACAAAGATGCAAAAGGGA
1 GAAGACAAGAAGGGAAAGATTTAAACCGCAACGGCGAATCCAGTACCACAAAGA-GCAAAAGGGA
* ** * *
3774314 AAGGTTTAAGTCTTAACGGCGGGTCGTGTACCTCA
65 AAGGTCTAAGTCACAACGGTGGATCGTGTACCTCA
* ** *
3774349 GAAGACAAGAAGGGAAAGATTTAAACCGCAACGGCAAATCCAGTACCATGAAGA-CATGAAGGGA
1 GAAGACAAGAAGGGAAAGATTTAAACCGCAACGGCGAATCCAGTACCACAAAGAGCA-AAAGGGA
* * *
3774413 AAGATCTAAGACCACAATGGTGGATC
65 AAGGTCTAAG-TCACAACGGTGGATC
3774439 TAGTACCACC
Statistics
Matches: 155, Mismatches: 33, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
98 2 0.01
99 14 0.09
100 122 0.79
101 17 0.11
ACGTcount: A:0.39, C:0.19, G:0.27, T:0.15
Consensus pattern (99 bp):
GAAGACAAGAAGGGAAAGATTTAAACCGCAACGGCGAATCCAGTACCACAAAGAGCAAAAGGGAA
AGGTCTAAGTCACAACGGTGGATCGTGTACCTCA
Found at i:3774513 original size:250 final size:251
Alignment explanation
Indices: 3773998--3774579 Score: 756
Period size: 250 Copynumber: 2.3 Consensus size: 251
3773988 TCAATACCAG
* * * * * *
3773998 GAAGACATGAAGGGAAAGATCTAAGACCGCAACGGCGGATCTAGTACCACAAAGATGCAAAAGGG
1 GAAGACAAGAAAGGAAAGATTTAAG-TCGCAACGGCGAATCCAGTACCACAAAGATGCAAAAGGG
* * * *
3774063 AAAGGTCTAAGT-TGCAACAGTGGACCTTGTACCTCAGAAGACAAGAAAGGAAAGATTTAAGCCG
65 AAAGGTTTAAGTCTGCAACAGCGGACCGTGTACCTCAGAAGACAAGAAAGGAAAGATTTAAACCG
* * * * *
3774127 TAATGGCGAATCCAGTAACATGAAGACATGAAGGGAAAGATCTAAAACCGCGACGGTGGATCCAG
130 CAACGGCAAATCCAGTAACATGAAGACATGAAGGGAAAGATCTAAAACCACAACGGTGGATCCAG
* * * **
3774192 TACCACAAAGATGCAAAAGGGAAAGGTCTAAGTCGCAACGGTGGACCGTGTACCTCA
195 TACCACAAAGATACAAAAGGAAAAGGTCTAAGTCACAACGACGGACCGTGTACCTCA
* *
3774249 AAAGACAAGAAAGGAAAGATTTAAGTCGCAACGGCGAATCCGGTACCACAAAGATGCAAAAGGGA
1 GAAGACAAGAAAGGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCACAAAGATGCAAAAGGGA
* * ** *
3774314 AAGGTTTAAGTCT-TAACGGCGGGTCGTGTACCTCAGAAGACAAGAAGGGAAAGATTTAAACCGC
66 AAGGTTTAAGTCTGCAACAGCGGACCGTGTACCTCAGAAGACAAGAAAGGAAAGATTTAAACCGC
* * * *
3774378 AACGGCAAATCCAGTACCATGAAGACATGAAGGGAAAGATCTAAGACCACAATGGTGGATCTAGT
131 AACGGCAAATCCAGTAACATGAAGACATGAAGGGAAAGATCTAAAACCACAACGGTGGATCCAGT
* * * *
3774443 ACCACCAAGATACAAAAGGAAAAGGTTTAAGTCACAACGACGGATCGTGTAGCTCA
196 ACCACAAAGATACAAAAGGAAAAGGTCTAAGTCACAACGACGGACCGTGTACCTCA
* * * * ***
3774499 GAAGACAGGAAAGGAAAGATTTAAGTTGCAACGGTGAATCCAGTACCACGAAGATTTGAAAGGGA
1 GAAGACAAGAAAGGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCACAAAGATGCAAAAGGGA
3774564 AAGGTTTAAGTC-GCAA
66 AAGGTTTAAGTCTGCAA
3774580 TGGCGAACTT
Statistics
Matches: 284, Mismatches: 45, Indels: 5
0.85 0.13 0.01
Matches are distributed among these distances:
250 262 0.92
251 22 0.08
ACGTcount: A:0.40, C:0.18, G:0.26, T:0.16
Consensus pattern (251 bp):
GAAGACAAGAAAGGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCACAAAGATGCAAAAGGGA
AAGGTTTAAGTCTGCAACAGCGGACCGTGTACCTCAGAAGACAAGAAAGGAAAGATTTAAACCGC
AACGGCAAATCCAGTAACATGAAGACATGAAGGGAAAGATCTAAAACCACAACGGTGGATCCAGT
ACCACAAAGATACAAAAGGAAAAGGTCTAAGTCACAACGACGGACCGTGTACCTCA
Found at i:3774595 original size:150 final size:150
Alignment explanation
Indices: 3774250--3774595 Score: 401
Period size: 150 Copynumber: 2.3 Consensus size: 150
3774240 TGTACCTCAA
* * * * *
3774250 AAGACAAGAAA-GGAAAGATTTAAGTCGCAACGGCGAATCCGGTACCACAAAGATGCAAAAGGGA
1 AAGACATGAAAGGGAAAGATTTAAGTCGCAATGGCGAATCTGGTACCACAAAGATACAAAAGGAA
** * * *
3774314 AAGGTTTAAGTCTTAACGGCGGGTCGTGTACCTCAGAAGACAAGAAGGGAAAGATTTAAACCGCA
66 AAGGTTTAAGTCACAACGACGGATCGTGTACCTCAGAAGACAAGAAAGGAAAGATTTAAACCGCA
*
3774379 ACGGCAAATCCAGTACCATG
131 ACGGCAAATCCAGTACCACG
* * * * * * *
3774399 AAGACATG-AAGGGAAAGATCTAAGACCACAATGGTGGATCTAGTACCACCAAGATACAAAAGGA
1 AAGACATGAAAGGGAAAGATTTAAG-TCGCAATGGCGAATCTGGTACCACAAAGATACAAAAGGA
* * ***
3774463 AAAGGTTTAAGTCACAACGACGGATCGTGTAGCTCAGAAGACAGGAAAGGAAAGATTTAAGTTGC
65 AAAGGTTTAAGTCACAACGACGGATCGTGTACCTCAGAAGACAAGAAAGGAAAGATTTAAACCGC
**
3774528 AACGGTGAATCCAGTACCACG
130 AACGGCAAATCCAGTACCACG
** *
3774549 AAGATTTGAAAGGGAAAGGTTTAAGTCGCAATGGCGAA-CTTGGTACC
1 AAGACATGAAAGGGAAAGATTTAAGTCGCAATGGCGAATC-TGGTACC
3774596 TTAGAAACAT
Statistics
Matches: 159, Mismatches: 34, Indels: 7
0.80 0.17 0.04
Matches are distributed among these distances:
148 2 0.01
149 20 0.13
150 123 0.77
151 14 0.09
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (150 bp):
AAGACATGAAAGGGAAAGATTTAAGTCGCAATGGCGAATCTGGTACCACAAAGATACAAAAGGAA
AAGGTTTAAGTCACAACGACGGATCGTGTACCTCAGAAGACAAGAAAGGAAAGATTTAAACCGCA
ACGGCAAATCCAGTACCACG
Found at i:3774853 original size:101 final size:101
Alignment explanation
Indices: 3774676--3774875 Score: 310
Period size: 101 Copynumber: 2.0 Consensus size: 101
3774666 TCAAAACTGT
* * * * *
3774676 AATAGCAAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGTAAGATGGAGCTTTAACGTTAATTCCT
1 AATAGCAAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTTAACATCAAATCCT
* *
3774741 ATCCTCTTGAAGTTGCAGTAAAGTAGGATTAAAAAC
66 ATCCTCCTGAAGTTGCAGCAAAGTAGGATTAAAAAC
*
3774777 AATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTTAACATCAAATCCT
1 AATAGCAAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTTAACATCAAATCCT
* *
3774842 ATCTTCCTGAAGTTGCAGCAAAGTTGGATTAAAA
66 ATCCTCCTGAAGTTGCAGCAAAGTAGGATTAAAA
3774876 CTACAGTAGC
Statistics
Matches: 89, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 89 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.31
Consensus pattern (101 bp):
AATAGCAAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATGAAGCTTTAACATCAAATCCT
ATCCTCCTGAAGTTGCAGCAAAGTAGGATTAAAAAC
Found at i:3775420 original size:201 final size:201
Alignment explanation
Indices: 3775072--3775859 Score: 1096
Period size: 201 Copynumber: 3.9 Consensus size: 201
3775062 TAACGAGGCA
* * * **
3775072 GTCATCTTCTTGATGAGATACAGAGAAGTATACCAACTCGAGGCTTAATGCGAGCAAATCTTCGA
1 GTCATCTTCCTGATGAGATACAGAGAAGTATGCCAACTCGACGCTCGATGCGAGCAAATCTTCGA
* * * *
3775137 ACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCAAAGCAATAAAACGATTAGCTT-TCTGAT
66 ACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCT-TGAT
* * *
3775201 GAGATACTAAGGAGTGGACCAAATTCGTCTTCCTAATGAGATACAGAGAAGCGAATTGAAACAAG
130 GAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGAATTGAAACAAG
3775266 TGAGGTG
195 TGAGGTG
*
3775273 ATCATCTTCCTGATGAGATACAGAGAAGTATGCCAACTCGACGCTCGATGCGAGCAAATCTTCGA
1 GTCATCTTCCTGATGAGATACAGAGAAGTATGCCAACTCGACGCTCGATGCGAGCAAATCTTCGA
* *
3775338 ACCCCAACTTCCTGATGAGATACTGAGAAGCAGATCGAAGCAATAAAATGGTTAGCTTCTTCATG
66 ACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCTTGATG
* * * *
3775403 AGATATTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATACAGAGAAGCAAATTGAAACAAAT
131 AGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGAATTGAAACAAGT
3775468 GAGGTG
196 GAGGTG
* *
3775474 GTCATCTTCCCGATGAGATACAGAGAAGTATGCCAACTCGACGGTCGATGCGAGCAAATCTTCGA
1 GTCATCTTCCTGATGAGATACAGAGAAGTATGCCAACTCGACGCTCGATGCGAGCAAATCTTCGA
* *
3775539 ACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGTTTCCTGATG
66 ACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCTTGATG
* *
3775604 AGATATTGAGAAGTGGACCAAATT-TTCGTTCCTGATGAGATACAGAGAAGCGAATTGAAACAAG
131 AGATACTGAGAAGTGGACCAAATTCGTC-TTCCTGATGAGATACAGAGAAGCGAATTGAAACAAG
* * *
3775668 CGATGCG
195 TGAGGTG
* * * * * * ** *
3775675 GTTATCTTCCTGATGAGATACTGAGAA-AAAGACCAAATCAAACCCACGCTCGATATGAGAAAAT
1 GTCATCTTCCTGATGAGATACAGAGAAGTATG-CC-AA-C---TCGACGCTCGATGCGAGCAAAT
* * * *
3775739 CTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAGCAGGCCGAAGTAATAAAATGGTTAGCTTC
60 CTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTC
* *
3775804 ATGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATATAGAGAAG
125 TTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAG
3775860 TATACCAACC
Statistics
Matches: 525, Mismatches: 53, Indels: 13
0.89 0.09 0.02
Matches are distributed among these distances:
200 4 0.01
201 390 0.74
202 3 0.01
203 1 0.00
206 125 0.24
207 2 0.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (201 bp):
GTCATCTTCCTGATGAGATACAGAGAAGTATGCCAACTCGACGCTCGATGCGAGCAAATCTTCGA
ACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGCTTCTTGATG
AGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGAATTGAAACAAGT
GAGGTG
Found at i:3775910 original size:152 final size:152
Alignment explanation
Indices: 3775721--3776011 Score: 465
Period size: 152 Copynumber: 1.9 Consensus size: 152
3775711 ATCAAACCCA
* * * * *
3775721 CGCTCGATATGAGAAAATCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAGCAGGCCGAAGT
1 CGCTCGATACGAGAAAATCTTCGAACCCCAGCATCCTGATGAGATACTAAGAAGCAGGCCGAAGC
* * *
3775786 AATAAAATGGTTAGCTTCATGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGAT
66 AATAAAATGGTCAGCTTCATGATGAGATACTGAGAAGTAGACCAAATTCGTCTTCCTGATAAGAT
*
3775851 ATAGAGAAGTATACCAACCTAG
131 ACAGAGAAGTATACCAACCTAG
* * *
3775873 CGCTCGATGCGAGCAAATCTTCGAACCCCAGCATCCTGATGAGATACTAAGAAGCAGGTCGAAGC
1 CGCTCGATACGAGAAAATCTTCGAACCCCAGCATCCTGATGAGATACTAAGAAGCAGGCCGAAGC
*
3775938 AATAAAATGGTCAGCTTCCTGATGAGATACTGAGAAGTAGACCAAATTCGTCTTCCTGATAAGAT
66 AATAAAATGGTCAGCTTCATGATGAGATACTGAGAAGTAGACCAAATTCGTCTTCCTGATAAGAT
3776003 ACAGAGAAG
131 ACAGAGAAG
3776012 CGAATTGAAA
Statistics
Matches: 126, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
152 126 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.23
Consensus pattern (152 bp):
CGCTCGATACGAGAAAATCTTCGAACCCCAGCATCCTGATGAGATACTAAGAAGCAGGCCGAAGC
AATAAAATGGTCAGCTTCATGATGAGATACTGAGAAGTAGACCAAATTCGTCTTCCTGATAAGAT
ACAGAGAAGTATACCAACCTAG
Found at i:3776108 original size:206 final size:206
Alignment explanation
Indices: 3775884--3776278 Score: 526
Period size: 206 Copynumber: 1.9 Consensus size: 206
3775874 GCTCGATGCG
3775884 AGCAAATCTTCGAACCCCAGCATCCTGATGAGATACTAAGAAGCAGGTCGAAGCAATAAAATGGT
1 AGCAAATCTTCGAACCCCAGCATCCTGATGAGATACTAAGAAGCAGGTCGAAGCAATAAAATGGT
* * * *
3775949 CAGCTTCCTGATGAGATACTGAGAAGT-AGACCAAATTCGTCTTCCTGAT-AAGATACAGAGAAG
66 CAACTTCCTGATGAGATACAGAGAAGTGA-ACCAAATCCGTCTTCCTGATGAA-ACACAGAGAAG
* ** * * *
3776012 CGAATTGAAATAACTGAGGCGGTCATCTTCCTGATGAGATA-TGGAGAAGAAGACCAAATCAAAT
129 AGAATCAAAACAACTGAGGCGGTCATCTTCCTAATGAAATACT-GAGAAGAAGACCAAATCAAAT
3776076 CCACGCTCGATATA
193 CCACGCTCGATATA
* * * * *
3776090 AGCAAATCTTCGAACCCCAGCTTCTTGATTAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGGT
1 AGCAAATCTTCGAACCCCAGCATCCTGATGAGATACTAAGAAGCAGGTCGAAGCAATAAAATGGT
* * * *
3776155 TAACTTCTTTATGAGATACAGAGAAGTGAACCAAATCCGTCTTCTTGATGAAACACAGAGAAGAG
66 CAACTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAAACACAGAGAAGAG
* * * * *
3776220 GATCAAAACAAGTGATGCGGTCGTCTTCCTAATGAAATACTGAGAAGAAGGCCAAATCA
131 AATCAAAACAACTGAGGCGGTCATCTTCCTAATGAAATACTGAGAAGAAGACCAAATCA
3776279 GTGAAACCAG
Statistics
Matches: 162, Mismatches: 24, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
206 158 0.98
207 4 0.02
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (206 bp):
AGCAAATCTTCGAACCCCAGCATCCTGATGAGATACTAAGAAGCAGGTCGAAGCAATAAAATGGT
CAACTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAAACACAGAGAAGAG
AATCAAAACAACTGAGGCGGTCATCTTCCTAATGAAATACTGAGAAGAAGACCAAATCAAATCCA
CGCTCGATATA
Found at i:3776171 original size:358 final size:358
Alignment explanation
Indices: 3775478--3776217 Score: 1092
Period size: 358 Copynumber: 2.1 Consensus size: 358
3775468 GAGGTGGTCA
* * * *
3775478 TCTTCCCGATGAGATACAGAGAAGTATGCCAACTCGACGGTCGATGCGAGCAAATCTTCGAACCC
1 TCTTCCTGATGAGATACAGAGAAGTATACCAACTAGACGCTCGATGCGAGCAAATCTTCGAACCC
* * * *
3775543 CAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGTTAGTTTCCTGATGAGAT
66 CAACATCCTGATGAGATACTAAGAAGCAGGTCGAAGCAATAAAATGGTCAGCTTCCTGATGAGAT
* * * * *
3775608 ATTGAGAAGTGGACCAAATTTTCGTTCCTGATGAGATACAGAGAAGCGAATTGAAACAAGCGATG
131 ACTGAGAAGTAGACCAAATTGTCGTTCCTGATAAGATACAGAGAAGCGAATTGAAACAAGCGAGG
* *
3775673 CGGTTATCTTCCTGATGAGATACTGAGAAAAAGACCAAATCAAACCCACGCTCGATATGAGAAAA
196 CGGTCATCTTCCTGATGAGATACTGAGAAAAAGACCAAATCAAACCCACGCTCGATATAAGAAAA
* * *
3775738 TCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAGCAGGCCGAAGTAATAAAATGGTTAGCTT
261 TCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGCCGAAGCAATAAAATGGTTAACTT
* * *
3775803 CATGATGAGATACTGAGAAGTGGACCAAATTCG
326 CATGATGAGATACAGAGAAGTGAACCAAATCCG
*
3775836 TCTTCCTGATGAGATATAGAGAAGTATACCAACCTAG-CGCTCGATGCGAGCAAATCTTCGAACC
1 TCTTCCTGATGAGATACAGAGAAGTATACCAA-CTAGACGCTCGATGCGAGCAAATCTTCGAACC
*
3775900 CCAGCATCCTGATGAGATACTAAGAAGCAGGTCGAAGCAATAAAATGGTCAGCTTCCTGATGAGA
65 CCAACATCCTGATGAGATACTAAGAAGCAGGTCGAAGCAATAAAATGGTCAGCTTCCTGATGAGA
*
3775965 TACTGAGAAGTAGACCAAATTCGTC-TTCCTGATAAGATACAGAGAAGCGAATTGAAATAA-CTG
130 TACTGAGAAGTAGACCAAATT-GTCGTTCCTGATAAGATACAGAGAAGCGAATTGAAACAAGC-G
* *
3776028 AGGCGGTCATCTTCCTGATGAGATA-TGGAGAAGAAGACCAAATCAAATCCACGCTCGATATAAG
193 AGGCGGTCATCTTCCTGATGAGATACT-GAGAAAAAGACCAAATCAAACCCACGCTCGATATAAG
* * * * *
3776092 CAAATCTTCGAACCCCAGCTTCTTGATTAGATACTGAGAAGCAGGTCGAAGCAATAAAGTGGTTA
257 AAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGCCGAAGCAATAAAATGGTTA
* *
3776157 ACTTCTTTATGAGATACAGAGAAGTGAACCAAATCCG
322 ACTTCATGATGAGATACAGAGAAGTGAACCAAATCCG
* * *
3776194 TCTTCTTGATGAAACACAGAGAAG
1 TCTTCCTGATGAGATACAGAGAAG
3776218 AGGATCAAAA
Statistics
Matches: 341, Mismatches: 37, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
357 2 0.01
358 334 0.98
359 5 0.01
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (358 bp):
TCTTCCTGATGAGATACAGAGAAGTATACCAACTAGACGCTCGATGCGAGCAAATCTTCGAACCC
CAACATCCTGATGAGATACTAAGAAGCAGGTCGAAGCAATAAAATGGTCAGCTTCCTGATGAGAT
ACTGAGAAGTAGACCAAATTGTCGTTCCTGATAAGATACAGAGAAGCGAATTGAAACAAGCGAGG
CGGTCATCTTCCTGATGAGATACTGAGAAAAAGACCAAATCAAACCCACGCTCGATATAAGAAAA
TCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGCCGAAGCAATAAAATGGTTAACTT
CATGATGAGATACAGAGAAGTGAACCAAATCCG
Found at i:3776641 original size:16 final size:16
Alignment explanation
Indices: 3776620--3776660 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
3776610 GTTTTTAAAA
3776620 ATTTAAATCTAAATTT
1 ATTTAAATCTAAATTT
* *
3776636 ATTTAAATTTGAATTT
1 ATTTAAATCTAAATTT
3776652 ACTTTAAAT
1 A-TTTAAAT
3776661 TTGAACTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.51
Consensus pattern (16 bp):
ATTTAAATCTAAATTT
Found at i:3776659 original size:17 final size:16
Alignment explanation
Indices: 3776620--3776706 Score: 75
Period size: 17 Copynumber: 5.2 Consensus size: 16
3776610 GTTTTTAAAA
* *
3776620 ATTTAAATCTAAATTT
1 ATTTAAATTTGAATTT
3776636 ATTTAAATTTGAATTT
1 ATTTAAATTTGAATTT
*
3776652 ACTTTAAATTTGAACTT
1 A-TTTAAATTTGAATTT
* * *
3776669 ATTTGGAGTTTGGATTT
1 ATTT-AAATTTGAATTT
* *
3776686 AATTTAAATTTAAATCT
1 -ATTTAAATTTGAATTT
3776703 ATTT
1 ATTT
3776707 TTTTAAAGTC
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
16 22 0.39
17 30 0.54
18 4 0.07
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.52
Consensus pattern (16 bp):
ATTTAAATTTGAATTT
Found at i:3776706 original size:34 final size:33
Alignment explanation
Indices: 3776619--3776706 Score: 88
Period size: 34 Copynumber: 2.6 Consensus size: 33
3776609 CGTTTTTAAA
* *
3776619 AATTTAAATCTAAATTTATTTAAATTTGAATTT
1 AATTTAAATTTAAATCTATTTAAATTTGAATTT
* * * * *
3776652 ACTTTAAATTTGAA-CTTATTTGGAGTTTGGATTT
1 AATTTAAATTTAAATC-TATTT-AAATTTGAATTT
3776686 AATTTAAATTTAAATCTATTT
1 AATTTAAATTTAAATCTATTT
3776707 TTTTAAAGTC
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
33 16 0.37
34 26 0.60
35 1 0.02
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (33 bp):
AATTTAAATTTAAATCTATTTAAATTTGAATTT
Found at i:3778458 original size:29 final size:28
Alignment explanation
Indices: 3778409--3778712 Score: 200
Period size: 30 Copynumber: 10.4 Consensus size: 28
3778399 AAGGTCCCTA
**
3778409 AACTGTCCAAAAATTATATTTTAACCCTCG
1 AACT-TCCAAAAATTCCATTTTAACCC-CG
*** *
3778439 AACTTTTGAAAATTCCATTTTTCACCCCG
1 AACTTCCAAAAATTCCA-TTTTAACCCCG
* *
3778468 AACTTCCAAAAATTCCATTTTTGACCCCAA
1 AACTTCCAAAAATTCCA-TTTTAACCCC-G
* * *
3778498 AACTTCCAAAAAATTACATTTTTTACCCTTG
1 AACTTCC-AAAAATTCCA-TTTTAACCC-CG
* **
3778529 AACTTCCAAAAATTCCATTTTTGACCTCAA
1 AACTTCCAAAAATTCCA-TTTTAACC-CCG
* * *
3778559 AACTTTCAAAAATTACATTTTCACCCCG
1 AACTTCCAAAAATTCCATTTTAACCCCG
3778587 AACTTCCAAAAATTCCATTTTTAACCCCG
1 AACTTCCAAAAATTCCA-TTTTAACCCCG
* *
3778616 AAACTTTC-AAAATTACCATTTTACCCCCG
1 -AACTTCCAAAAATT-CCATTTTAACCCCG
* * * ** *
3778645 AA-TACCCAAAATTTCATTTTTTGCTCCG
1 AACTTCCAAAAATTCCA-TTTTAACCCCG
*
3778673 AAACTTTCAAAAATTACCATTTTAACCCC-
1 -AACTTCCAAAAATT-CCATTTTAACCCCG
*
3778702 AAATTCCAAAA
1 AACTTCCAAAA
3778713 GACTCCATCT
Statistics
Matches: 217, Mismatches: 44, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
27 4 0.02
28 41 0.19
29 69 0.32
30 75 0.35
31 28 0.13
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (28 bp):
AACTTCCAAAAATTCCATTTTAACCCCG
Found at i:3778488 original size:58 final size:59
Alignment explanation
Indices: 3778409--3778712 Score: 266
Period size: 58 Copynumber: 5.2 Consensus size: 59
3778399 AAGGTCCCTA
* * *
3778409 AACTGTCCAAAAATT--ATATTTTAACCCTC-GAACTTTTGAAAATTCCATTTTTCACCCCG
1 AACT-TCCAAAAATTCCAT-TTTTAACCC-CAAAACTTTTAAAAATTACATTTTTCACCCCG
* ** * *
3778468 AACTTCCAAAAATTCCATTTTTGACCCCAAAACTTCCAAAAAATTACATTTTTTACCCTTG
1 AACTTCCAAAAATTCCATTTTTAACCCCAAAACTT-TTAAAAATTACATTTTTCACCC-CG
* * *
3778529 AACTTCCAAAAATTCCATTTTTGACCTCAAAACTTTCAAAAATTACA-TTTTCACCCCG
1 AACTTCCAAAAATTCCATTTTTAACCCCAAAACTTTTAAAAATTACATTTTTCACCCCG
* * *
3778587 AACTTCCAAAAATTCCATTTTTAACCCCGAAAC-TTTCAAAATTACCATTTTAC-CCCCG
1 AACTTCCAAAAATTCCATTTTTAACCCCAAAACTTTTAAAAATTA-CATTTTTCACCCCG
* * * ** * * * *
3778645 AA-TACCCAAAATTTCATTTTTTGCTCCGAAACTTTCAAAAATTACCA-TTTTAACCCC-
1 AACTTCCAAAAATTCCATTTTTAACCCCAAAACTTTTAAAAATTA-CATTTTTCACCCCG
*
3778702 AAATTCCAAAA
1 AACTTCCAAAA
3778713 GACTCCATCT
Statistics
Matches: 204, Mismatches: 31, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
57 38 0.19
58 73 0.36
59 29 0.14
60 29 0.14
61 35 0.17
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (59 bp):
AACTTCCAAAAATTCCATTTTTAACCCCAAAACTTTTAAAAATTACATTTTTCACCCCG
Found at i:3778504 original size:30 final size:29
Alignment explanation
Indices: 3778447--3778712 Score: 206
Period size: 29 Copynumber: 9.1 Consensus size: 29
3778437 CGAACTTTTG
* *
3778447 AAAATTCCATTTTTCACCCCGAACTTCCA
1 AAAATTCCATTTTTGACCCCAAACTTCCA
3778476 AAAATTCCATTTTTGACCCCAAAACTTCCAA
1 AAAATTCCATTTTTGACCCC-AAACTTCC-A
* * **
3778507 AAAATTACATTTTTTACCCTTGAACTTCCA
1 AAAATTCCATTTTTGACCC-CAAACTTCCA
* *
3778537 AAAATTCCATTTTTGACCTCAAAACTTTCA
1 AAAATTCCATTTTTGACC-CCAAACTTCCA
* * *
3778567 AAAATTACA-TTTTCACCCCGAACTTCCA
1 AAAATTCCATTTTTGACCCCAAACTTCCA
* *
3778595 AAAATTCCATTTTTAACCCCGAAACTTTC-
1 AAAATTCCATTTTTGACCCC-AAACTTCCA
* * *
3778624 AAAATTACCA-TTTT-ACCCCCGAA-TACCC
1 AAAATT-CCATTTTTGA-CCCCAAACTTCCA
* * *
3778652 AAAATTTCATTTTTTG-CTCCGAAACTTTCA
1 AAAATTCCA-TTTTTGAC-CCCAAACTTCCA
*
3778682 AAAATTACCA-TTTTAACCCCAAA-TTCCA
1 AAAATT-CCATTTTTGACCCCAAACTTCCA
3778710 AAA
1 AAA
3778713 GACTCCATCT
Statistics
Matches: 188, Mismatches: 33, Indels: 33
0.74 0.13 0.13
Matches are distributed among these distances:
27 4 0.02
28 33 0.18
29 66 0.35
30 57 0.30
31 28 0.15
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.33
Consensus pattern (29 bp):
AAAATTCCATTTTTGACCCCAAACTTCCA
Found at i:3781617 original size:17 final size:17
Alignment explanation
Indices: 3781595--3781639 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
3781585 CATTACTTTT
3781595 TAAAAATATTTGTAAGA
1 TAAAAATATTTGTAAGA
* *
3781612 TAAAAAATATTTTTTAGA
1 T-AAAAATATTTGTAAGA
*
3781630 TAAAAGTATT
1 TAAAAATATT
3781640 GTTAAACAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.40
Consensus pattern (17 bp):
TAAAAATATTTGTAAGA
Found at i:3781619 original size:18 final size:18
Alignment explanation
Indices: 3781596--3781634 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
3781586 ATTACTTTTT
3781596 AAAAATATTTGTAAGATA
1 AAAAATATTTGTAAGATA
* *
3781614 AAAAATATTTTTTAGATA
1 AAAAATATTTGTAAGATA
3781632 AAA
1 AAA
3781635 GTATTGTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (18 bp):
AAAAATATTTGTAAGATA
Found at i:3786098 original size:23 final size:25
Alignment explanation
Indices: 3786052--3786099 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
3786042 TTGATTCAAC
*
3786052 GTGTTATAATATTTTATTGATGTTG
1 GTGTTAAAATATTTTATTGATGTTG
3786077 GTGTTAAAAT-TTTTATTG-TGTTG
1 GTGTTAAAATATTTTATTGATGTTG
3786100 ATAAAATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.23
24 8 0.36
25 9 0.41
ACGTcount: A:0.23, C:0.00, G:0.21, T:0.56
Consensus pattern (25 bp):
GTGTTAAAATATTTTATTGATGTTG
Found at i:3788496 original size:39 final size:39
Alignment explanation
Indices: 3788442--3788519 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
3788432 CGCATCTTTA
3788442 GATTCAACCAGCACTGCACCCGAACCAAGTCCTCAACCC
1 GATTCAACCAGCACTGCACCCGAACCAAGTCCTCAACCC
* *
3788481 GATTCAACCAGCACTGCAGCCGAACCAAGTCCTCCACCC
1 GATTCAACCAGCACTGCACCCGAACCAAGTCCTCAACCC
3788520 CAACAAGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.29, C:0.44, G:0.14, T:0.13
Consensus pattern (39 bp):
GATTCAACCAGCACTGCACCCGAACCAAGTCCTCAACCC
Found at i:3790062 original size:14 final size:15
Alignment explanation
Indices: 3790038--3790072 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
3790028 AAATATAATT
3790038 ATAATATTAAATTT-A
1 ATAA-ATTAAATTTGA
3790053 ATAAATTAAATTTGA
1 ATAAATTAAATTTGA
3790068 ATAAA
1 ATAAA
3790073 AATATAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (15 bp):
ATAAATTAAATTTGA
Found at i:3801441 original size:6 final size:6
Alignment explanation
Indices: 3801418--3801501 Score: 79
Period size: 6 Copynumber: 14.3 Consensus size: 6
3801408 TTTGATTTTT
* *
3801418 AATTAA AATTTA AA-TTA ATTTTA AATTTA AATTT- -ATCTTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AAT-TTA AATTTA
*
3801464 AATTTA CTTATTTA AATTTA AATTT- AA-TTA AATTTA AA
1 AATTTA --AATTTA AATTTA AATTTA AATTTA AATTTA AA
3801502 ATGATATTAA
Statistics
Matches: 65, Mismatches: 5, Indels: 16
0.76 0.06 0.19
Matches are distributed among these distances:
4 4 0.06
5 10 0.15
6 44 0.68
7 2 0.03
8 5 0.08
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (6 bp):
AATTTA
Found at i:3801510 original size:17 final size:17
Alignment explanation
Indices: 3801423--3801512 Score: 101
Period size: 17 Copynumber: 5.2 Consensus size: 17
3801413 TTTTTAATTA
* *
3801423 AAATTTAAATTAATTTT
1 AAATTTAAATTTATATT
*
3801440 AAATTTAAATTTATCTT
1 AAATTTAAATTTATATT
3801457 AAATTTAAATTTACTTATTT
1 AAATTTAAATTTA--TA-TT
3801477 AAATTTAAATTTA-ATT
1 AAATTTAAATTTATATT
* *
3801493 AAATTTAAAATGATATT
1 AAATTTAAATTTATATT
3801510 AAA
1 AAA
3801513 ACTTAATACA
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
16 13 0.20
17 35 0.55
19 1 0.02
20 15 0.23
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (17 bp):
AAATTTAAATTTATATT
Found at i:3803536 original size:29 final size:29
Alignment explanation
Indices: 3803431--3803692 Score: 245
Period size: 29 Copynumber: 9.1 Consensus size: 29
3803421 TCTTAAAAGT
* * *
3803431 CCCT-AAACTGTCTAAAAATTATATTTTGA
1 CCCTCAAACT-TCCAAAAATTACATTTTTA
*
3803460 CCC-CTAAACTTCTCCAAAATTACA-TTTTA
1 CCCTC-AAACTTC-CAAAAATTACATTTTTA
* *
3803489 CCCT-AAACTTTCAAAAATTACATTTTTG
1 CCCTCAAACTTCCAAAAATTACATTTTTA
*
3803517 CCCTCGAACTTCCAAAAATTACATTTTTAA
1 CCCTCAAACTTCCAAAAATTACATTTTT-A
*
3803547 CCC-CAAAACTTCCTAAAATTACATTTTTA
1 CCCTC-AAACTTCCAAAAATTACATTTTTA
** *
3803576 CCCTTGAACTTCCAAAAATTACATTTTGA
1 CCCTCAAACTTCCAAAAATTACATTTTTA
* *
3803605 CCC-CAAAACTTCCAAAAATTATATTTTTG
1 CCCTC-AAACTTCCAAAAATTACATTTTTA
* *
3803634 CCCTCGAACTTCCAAAAATTACATTTTGA
1 CCCTCAAACTTCCAAAAATTACATTTTTA
**
3803663 CCCT-AAAC-TCCCGAAATTACCA-TTTTA
1 CCCTCAAACTTCCAAAAATTA-CATTTTTA
3803690 CCC
1 CCC
3803693 CCGGATGTCC
Statistics
Matches: 192, Mismatches: 29, Indels: 26
0.78 0.12 0.11
Matches are distributed among these distances:
27 26 0.14
28 19 0.10
29 109 0.57
30 38 0.20
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.34
Consensus pattern (29 bp):
CCCTCAAACTTCCAAAAATTACATTTTTA
Found at i:3803603 original size:87 final size:87
Alignment explanation
Indices: 3803435--3803688 Score: 270
Period size: 87 Copynumber: 2.9 Consensus size: 87
3803425 AAAAGTCCCT
* * *
3803435 AAACTGTCTAAAAATTATATTTTGACCCCTAAACTTCTCCAAAATTACA-TTTTACCC-TAAACT
1 AAACT-TCCAAAAATTATATTTTTACCCC-AAACTTC-CAAAAATTACATTTTTACCCTTAAACT
*
3803498 TTCAAAAATTACATTTTTG-CCCTC-
63 TCCAAAAATTACATTTTTGACCC-CA
* * * *
3803522 GAACTTCCAAAAATTACATTTTTAACCCCAAAACTTCCTAAAATTACATTTTTACCCTTGAACTT
1 AAACTTCCAAAAATTATATTTTT-ACCCC-AAACTTCCAAAAATTACATTTTTACCCTTAAACTT
3803587 CCAAAAATTACA-TTTTGACCCCA
64 CCAAAAATTACATTTTTGACCCCA
* * *
3803610 AAACTTCCAAAAATTATATTTTTGCCCTCGAACTTCCAAAAATTACATTTTGACCC-TAAAC-TC
1 AAACTTCCAAAAATTATATTTTTACCC-CAAACTTCCAAAAATTACATTTTTACCCTTAAACTTC
**
3803673 CCGAAATTACCATTTT
65 CAAAAATTA-CATTTT
3803689 ACCCCCGGAT
Statistics
Matches: 142, Mismatches: 17, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
85 9 0.06
86 31 0.22
87 60 0.42
88 42 0.30
ACGTcount: A:0.36, C:0.25, G:0.04, T:0.35
Consensus pattern (87 bp):
AAACTTCCAAAAATTATATTTTTACCCCAAACTTCCAAAAATTACATTTTTACCCTTAAACTTCC
AAAAATTACATTTTTGACCCCA
Found at i:3803643 original size:58 final size:58
Alignment explanation
Indices: 3803466--3803665 Score: 296
Period size: 58 Copynumber: 3.4 Consensus size: 58
3803456 TTGACCCCTA
* * *
3803466 AACTTCTCCAAAATTACATTTT-A-CCCTAAACTTTCAAAAATTACATTTTTGCCCTCG
1 AACTTC-CAAAAATTACATTTTGACCCCAAAACTTCCAAAAATTACATTTTTGCCCTCG
* * * *
3803523 AACTTCCAAAAATTACATTTTTAACCCCAAAACTTCCTAAAATTACATTTTTACCCTTG
1 AACTTCCAAAAATTACA-TTTTGACCCCAAAACTTCCAAAAATTACATTTTTGCCCTCG
*
3803582 AACTTCCAAAAATTACATTTTGACCCCAAAACTTCCAAAAATTATATTTTTGCCCTCG
1 AACTTCCAAAAATTACATTTTGACCCCAAAACTTCCAAAAATTACATTTTTGCCCTCG
3803640 AACTTCCAAAAATTACATTTTGACCC
1 AACTTCCAAAAATTACATTTTGACCC
3803666 TAAACTCCCG
Statistics
Matches: 129, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
56 10 0.08
57 10 0.08
58 63 0.49
59 46 0.36
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (58 bp):
AACTTCCAAAAATTACATTTTGACCCCAAAACTTCCAAAAATTACATTTTTGCCCTCG
Found at i:3803776 original size:87 final size:88
Alignment explanation
Indices: 3803651--3803815 Score: 194
Period size: 87 Copynumber: 1.9 Consensus size: 88
3803641 ACTTCCAAAA
* ** * *
3803651 ATTACATTTTGACCCTAAACTCCCGAAATTACCATTTTACCCCCGGATGTCCAAACACTC-CGTT
1 ATTACATTTTGACCCTAAACTCCCGAAAATACCATTTTACCCCCAAATATCCAAAAACTCTCGTT
*
3803715 TTTTATCCCGATTTTTTCTAAAG
66 TTTAATCCCGATTTTTTCTAAAG
* * *
3803738 ATTACATTTT-ACCCCTAAA-TGCCC-AAAATATCATTTTTAGCCCCAAATATCCAAAAAGTCTC
1 ATTACATTTTGA-CCCTAAACT-CCCGAAAATACCA-TTTTACCCCCAAATATCCAAAAACTCTC
3803800 GTTTTTAATCCCGATT
63 GTTTTTAATCCCGATT
3803816 GCGTCATTTT
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
86 9 0.14
87 40 0.62
88 16 0.25
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (88 bp):
ATTACATTTTGACCCTAAACTCCCGAAAATACCATTTTACCCCCAAATATCCAAAAACTCTCGTT
TTTAATCCCGATTTTTTCTAAAG
Found at i:3825113 original size:78 final size:81
Alignment explanation
Indices: 3825020--3825168 Score: 209
Period size: 81 Copynumber: 1.9 Consensus size: 81
3825010 ATTACACACA
* *
3825020 AAAAAATCAGATAATGGATTTAATGA-T-TAG-TTAAATCAATACTAAAATTTCGAAATT-AAAA
1 AAAAAATCAGATAATGGATTTAATGACTATAGCTTAAATCAAGACTAAAATTTAGAAATTCAAAA
3825081 ATATATATATAACTCAC
66 A-ATATATATAACTCAC
* *
3825098 AAAAAATCA-ATTAATGGATTTAATGACTATTGCTTAAATCAAGACTGAAATTTAGAAATTCAAA
1 AAAAAATCAGA-TAATGGATTTAATGACTATAGCTTAAATCAAGACTAAAATTTAGAAATTCAAA
3825162 AAATATA
65 AAATATA
3825169 ACAATTAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 7
0.85 0.05 0.10
Matches are distributed among these distances:
77 1 0.02
78 24 0.39
79 1 0.02
80 2 0.03
81 29 0.47
82 5 0.08
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.32
Consensus pattern (81 bp):
AAAAAATCAGATAATGGATTTAATGACTATAGCTTAAATCAAGACTAAAATTTAGAAATTCAAAA
AATATATATAACTCAC
Found at i:3826067 original size:14 final size:15
Alignment explanation
Indices: 3826048--3826077 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3826038 TACGATAAAA
3826048 AAATTT-ATTTTTAT
1 AAATTTGATTTTTAT
3826062 AAATTTGATTTTTAT
1 AAATTTGATTTTTAT
3826077 A
1 A
3826078 TTTAACACGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (15 bp):
AAATTTGATTTTTAT
Found at i:3826681 original size:23 final size:24
Alignment explanation
Indices: 3826655--3826704 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
3826645 TCGCTCTTTA
*
3826655 ATTATATTGGTTTTT-TC-CATTTT
1 ATTAT-TTAGTTTTTATCTCATTTT
*
3826678 ATTATTTATTTTTTATCTCATTTT
1 ATTATTTAGTTTTTATCTCATTTT
3826702 ATT
1 ATT
3826705 CCAAAAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 7 0.30
23 7 0.30
24 9 0.39
ACGTcount: A:0.20, C:0.08, G:0.04, T:0.68
Consensus pattern (24 bp):
ATTATTTAGTTTTTATCTCATTTT
Found at i:3828948 original size:28 final size:28
Alignment explanation
Indices: 3828916--3828978 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 28
3828906 AAAACGGGAC
3828916 TTTTGGA-TACCTAGGGGCAAAATGGTAA
1 TTTTGGACTACC-AGGGGCAAAATGGTAA
** *
3828944 TTTTGGACTTTCGGGGGCAAAATGGTAA
1 TTTTGGACTACCAGGGGCAAAATGGTAA
3828972 TTTTGGA
1 TTTTGGA
3828979 GAAATCGGGG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
28 29 0.94
29 2 0.06
ACGTcount: A:0.27, C:0.10, G:0.30, T:0.33
Consensus pattern (28 bp):
TTTTGGACTACCAGGGGCAAAATGGTAA
Found at i:3828988 original size:28 final size:28
Alignment explanation
Indices: 3828929--3829038 Score: 100
Period size: 28 Copynumber: 3.9 Consensus size: 28
3828919 TGGATACCTA
***
3828929 GGGGCAAAATGGTAATTTTGGACTTTCG
1 GGGGCAAAATGGTAATTTTGGAAAATCG
3828957 GGGGCAAAATGGTAATTTTGGAGAAATC-
1 GGGGCAAAATGGTAATTTTGGA-AAATCG
* *
3828985 GGGGCTAAAAATGG-AACTTTGGAAAGTTCG
1 GGGGC--AAAATGGTAATTTTGGAAA-ATCG
*
3829015 AGGGGTAAAAT-GTAATTTTGGAAA
1 -GGGGCAAAATGGTAATTTTGGAAA
3829039 TATTTTGGGG
Statistics
Matches: 68, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
28 30 0.44
29 27 0.40
30 7 0.10
31 4 0.06
ACGTcount: A:0.34, C:0.07, G:0.32, T:0.27
Consensus pattern (28 bp):
GGGGCAAAATGGTAATTTTGGAAAATCG
Found at i:3828998 original size:30 final size:30
Alignment explanation
Indices: 3828930--3829098 Score: 88
Period size: 30 Copynumber: 5.8 Consensus size: 30
3828920 GGATACCTAG
*** *
3828930 GGGC-AAAATGGTAATTTTGG-ACTTTCGG
1 GGGCTAAAATGGTAATTTTGGAAAGATCGA
3828958 GGGC-AAAATGGTAATTTTGGAGAA-ATCG-
1 GGGCTAAAATGGTAATTTTGGA-AAGATCGA
* *
3828986 GGGCTAAAAATGG-AACTTTGGAAAGTTCGA
1 GGGCT-AAAATGGTAATTTTGGAAAGATCGA
* * *
3829016 GGGGTAAAAT-GTAATTTTGGAAATATTTTG-
1 GGGCTAAAATGGTAATTTTGGAAAGA--TCGA
* * * **
3829046 GGGTTAAAAT-GTAATATTGGAAAAGTTTTA
1 GGGCTAAAATGGTAATTTTGG-AAAGATCGA
*
3829076 GGGTTAAAAT-GTAATTTTGGAAA
1 GGGCTAAAATGGTAATTTTGGAAA
3829099 AATTTTGGGG
Statistics
Matches: 115, Mismatches: 15, Indels: 21
0.76 0.10 0.14
Matches are distributed among these distances:
28 27 0.23
29 34 0.30
30 49 0.43
31 5 0.04
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (30 bp):
GGGCTAAAATGGTAATTTTGGAAAGATCGA
Found at i:3829085 original size:60 final size:60
Alignment explanation
Indices: 3829015--3829153 Score: 224
Period size: 60 Copynumber: 2.3 Consensus size: 60
3829005 GGAAAGTTCG
* * **
3829015 AGGGGTAAAATGTAATTTTGGAAATATTTTGGGGTTAAAATGTAATATTGGAAAAGTTTT
1 AGGGTTAAAATGTAATTTTGGAAAAATTTTGGGGTTAAAATGTAATATTAAAAAAGTTTT
*
3829075 AGGGTTAAAATGTAATTTTGGAAAAATTTTGGGGTTAAAATGTAATTTTAAAAAAGTTTT
1 AGGGTTAAAATGTAATTTTGGAAAAATTTTGGGGTTAAAATGTAATATTAAAAAAGTTTT
*
3829135 AGGGTTAAAATATAATTTT
1 AGGGTTAAAATGTAATTTT
3829154 TGGACAGTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
60 73 1.00
ACGTcount: A:0.39, C:0.00, G:0.22, T:0.40
Consensus pattern (60 bp):
AGGGTTAAAATGTAATTTTGGAAAAATTTTGGGGTTAAAATGTAATATTAAAAAAGTTTT
Found at i:3829099 original size:30 final size:30
Alignment explanation
Indices: 3828992--3829153 Score: 193
Period size: 30 Copynumber: 5.4 Consensus size: 30
3828982 ATCGGGGCTA
* * ** *
3828992 AAAATGGAACTTTGG-AAAGTTCGAGGGGT
1 AAAATGTAATTTTGGAAAAGTTTTAGGGTT
*
3829021 AAAATGTAATTTTGGAAATA-TTTTGGGGTT
1 AAAATGTAATTTTGGAAA-AGTTTTAGGGTT
*
3829051 AAAATGTAATATTGGAAAAGTTTTAGGGTT
1 AAAATGTAATTTTGGAAAAGTTTTAGGGTT
* *
3829081 AAAATGTAATTTTGGAAAAATTTTGGGGTT
1 AAAATGTAATTTTGGAAAAGTTTTAGGGTT
**
3829111 AAAATGTAATTTTAAAAAAGTTTTAGGGTT
1 AAAATGTAATTTTGGAAAAGTTTTAGGGTT
*
3829141 AAAATATAATTTT
1 AAAATGTAATTTT
3829154 TGGACAGTTT
Statistics
Matches: 114, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
29 14 0.12
30 99 0.87
31 1 0.01
ACGTcount: A:0.39, C:0.01, G:0.22, T:0.38
Consensus pattern (30 bp):
AAAATGTAATTTTGGAAAAGTTTTAGGGTT
Done.