Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 130 of 311
Found at i:43800018 original size:18 final size:18
Alignment explanation
Indices: 43799967--43800019 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 18
43799957 TAACTTTTTT
*
43799967 ATAATTTTATAAAAATTAAA
1 ATAATTTT-T-AAATTTAAA
*
43799987 ATAA-TTTTATAATTTATA
1 ATAATTTTTA-AATTTAAA
43800005 ATAATTTTTAAATTT
1 ATAATTTTTAAATTT
43800020 TTTAGTAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
17 1 0.03
18 16 0.55
19 8 0.28
20 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATAATTTTTAAATTTAAA
Found at i:43800022 original size:28 final size:29
Alignment explanation
Indices: 43799945--43800023 Score: 74
Period size: 28 Copynumber: 2.7 Consensus size: 29
43799935 TATTAATTAT
*
43799945 TAATAATTTATATAACTTTTTTATAATTTTA
1 TAATAATTT-T-TAAATTTTTTATAATTTTA
* * *
43799976 TAA-AA-ATTAAAATAATTTTATAA-TTTA
1 TAATAATTTTTAAAT-TTTTTATAATTTTA
43800003 TAATAATTTTTAAATTTTTTA
1 TAATAATTTTTAAATTTTTTA
43800024 GTAAGAAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
27 10 0.26
28 16 0.42
29 7 0.18
30 2 0.05
31 3 0.08
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (29 bp):
TAATAATTTTTAAATTTTTTATAATTTTA
Found at i:43813187 original size:49 final size:48
Alignment explanation
Indices: 43813129--43813397 Score: 167
Period size: 49 Copynumber: 5.6 Consensus size: 48
43813119 CATCTAAGTC
*
43813129 GATGCCATGTCCTAGACAAGTCTTACACTGACTTC-CATACATTGAGGCT
1 GATGCCATGTCCTAGACAGGTCTTACACTGAC-TCACAT-CATTGAGGCT
* * * * * *
43813178 GATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCACTTATCTGTGTC-
1 GATGCCATGTCCTAGACAGGTCTTACACTGACTCACA-TCAT-TGAGGCT
* * * * * *
43813227 GATGCCATGTCCCAAATAGGTCTTACACTAACACACCTCA---A-GCT
1 GATGCCATGTCCTAGACAGGTCTTACACTGACTCACATCATTGAGGCT
* * * *
43813271 GATGCCAAGTCCTAGACAGGTCTTCCACT-AGCTTGCATATC-TTGAGGCC
1 GATGCCATGTCCTAGACAGGTCTTACACTGA-C-T-CACATCATTGAGGCT
* * * * * *
43813320 GATGCCATGTCCTAGACAAGTCTTACACTGGCTCTCATCTATCGATGCC
1 GATGCCATGTCCTAGACAGGTCTTACACTGACTCACATC-ATTGAGGCT
* * * *
43813369 GATTCCATGTCCCAGGCAGGTCCTACACT
1 GATGCCATGTCCTAGACAGGTCTTACACT
43813398 AGCACTCATA
Statistics
Matches: 168, Mismatches: 38, Indels: 28
0.72 0.16 0.12
Matches are distributed among these distances:
43 2 0.01
44 25 0.15
46 4 0.02
47 4 0.02
48 6 0.04
49 122 0.73
50 5 0.03
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCTAGACAGGTCTTACACTGACTCACATCATTGAGGCT
Found at i:43813343 original size:93 final size:95
Alignment explanation
Indices: 43813100--43813348 Score: 242
Period size: 93 Copynumber: 2.6 Consensus size: 95
43813090 TTCCAAACAT
** * * *
43813100 GGTCTTACACTAGCTCTCAC-ATCTAAGTCGATGCCATGTCCTAGACAAGTCTTACACTGACTTC
1 GGTCTTACACTAGCTCTCACTATCTGGGCCGATGCCATGTCCTAGACAAGTCTTACACTAACTAC
*
43813164 CATACATTGAGGCTGATGCCATGTCCCAGACA
66 CATACA-T-AGGCTGATGCCAAGTCCCAGACA
* * * * * * *
43813196 GGTCTTACACTGGCTCTCACTTATCTGTGTCGATGCCATGTCCCAAATAGGTCTTACACTAAC-A
1 GGTCTTACACTAGCTCTCAC-TATCTGGGCCGATGCCATGTCCTAGACAAGTCTTACACTAACTA
* *
43813260 CACCT-CA-A-GCTGATGCCAAGTCCTAGACA
65 C-CATACATAGGCTGATGCCAAGTCCCAGACA
*
43813289 GGTCTTCCACTAGCT-TGCA-TATCTTGAGGCCGATGCCATGTCCTAGACAAGTCTTACACT
1 GGTCTTACACTAGCTCT-CACTATC-TG-GGCCGATGCCATGTCCTAGACAAGTCTTACACT
43813349 GGCTCTCATC
Statistics
Matches: 127, Mismatches: 20, Indels: 15
0.78 0.12 0.09
Matches are distributed among these distances:
91 4 0.03
92 3 0.02
93 61 0.48
94 1 0.01
96 19 0.15
97 3 0.02
98 36 0.28
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (95 bp):
GGTCTTACACTAGCTCTCACTATCTGGGCCGATGCCATGTCCTAGACAAGTCTTACACTAACTAC
CATACATAGGCTGATGCCAAGTCCCAGACA
Found at i:43813390 original size:142 final size:142
Alignment explanation
Indices: 43813129--43813398 Score: 359
Period size: 142 Copynumber: 1.9 Consensus size: 142
43813119 CATCTAAGTC
* *
43813129 GATGCCATGTCCTAGACAAGTCTTACACTGACTTCCATACATTGAGGCTGATGCCATGTCCCAGA
1 GATGCCAAGTCCTAGACAAGTCTTACACTGACTTCCATACATTGAGGCCGATGCCATGTCCCAGA
* * * *
43813194 CAGGTCTTACACTGGCTCTCACTTATCTGTGTCGATGCCATGTCCCAAATAGGTCTTACACTAAC
66 CAAGTCTTACACTGGCTCTCACTTATCTGTGCCGATGCCATGTCCCAAACAGGTCCTACACTAAC
43813259 ACACCTCAAGCT
131 ACACCTCAAGCT
* * * *
43813271 GATGCCAAGTCCTAGACAGGTCTTCCACT-AGCTTGCATATC-TTGAGGCCGATGCCATGTCCTA
1 GATGCCAAGTCCTAGACAAGTCTTACACTGA-CTTCCATA-CATTGAGGCCGATGCCATGTCCCA
* **
43813334 GACAAGTCTTACACTGGCTCTCA-TCTATC-GATGCCGATTCCATGTCCCAGGCAGGTCCTACAC
64 GACAAGTCTTACACTGGCTCTCACT-TATCTG-TGCCGATGCCATGTCCCAAACAGGTCCTACAC
43813397 TA
127 TA
43813399 GCACTCATAT
Statistics
Matches: 111, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
141 3 0.03
142 107 0.96
143 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (142 bp):
GATGCCAAGTCCTAGACAAGTCTTACACTGACTTCCATACATTGAGGCCGATGCCATGTCCCAGA
CAAGTCTTACACTGGCTCTCACTTATCTGTGCCGATGCCATGTCCCAAACAGGTCCTACACTAAC
ACACCTCAAGCT
Found at i:43816244 original size:15 final size:15
Alignment explanation
Indices: 43816224--43816255 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
43816214 CGCCTCTGTC
43816224 GAGTGATCTGGAGAT
1 GAGTGATCTGGAGAT
43816239 GAGTGATCTGGAGAT
1 GAGTGATCTGGAGAT
43816254 GA
1 GA
43816256 CTTCTCTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.06, G:0.41, T:0.25
Consensus pattern (15 bp):
GAGTGATCTGGAGAT
Found at i:43819500 original size:71 final size:71
Alignment explanation
Indices: 43819382--43819519 Score: 215
Period size: 71 Copynumber: 1.9 Consensus size: 71
43819372 TCACTAAACC
* * *
43819382 ATTATCCTCATCGCCTTTTTACCAGTTCAGGGAGAAACTTCATGTCACAATGCAGTAGTAGATGG
1 ATTATCCTCATCGCCTTTTTACCAGTTCAAGGAGAAACTTCAGGTCACAATACAGTAGTAGATGG
43819447 GTGACT
66 GTGACT
* *
43819453 ATTATCCTCATCTCCTTTTTGTCC-GTTCAAGGAGAAACTTCAGGTCACAATACAGTAGTAGATG
1 ATTATCCTCATCGCCTTTTT-ACCAGTTCAAGGAGAAACTTCAGGTCACAATACAGTAGTAGATG
43819517 GGT
65 GGT
43819520 AAATAGTTGA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
71 59 0.97
72 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (71 bp):
ATTATCCTCATCGCCTTTTTACCAGTTCAAGGAGAAACTTCAGGTCACAATACAGTAGTAGATGG
GTGACT
Found at i:43829309 original size:31 final size:31
Alignment explanation
Indices: 43829271--43829344 Score: 139
Period size: 31 Copynumber: 2.4 Consensus size: 31
43829261 TTAATTATGA
*
43829271 CATGCATTATGTGTTTTTCATTAAATAAAGT
1 CATGCATTATGTGTTTTTCATTAAATAAAGC
43829302 CATGCATTATGTGTTTTTCATTAAATAAAGC
1 CATGCATTATGTGTTTTTCATTAAATAAAGC
43829333 CATGCATTATGT
1 CATGCATTATGT
43829345 AACTCTCATG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (31 bp):
CATGCATTATGTGTTTTTCATTAAATAAAGC
Found at i:43829377 original size:50 final size:52
Alignment explanation
Indices: 43829319--43829451 Score: 173
Period size: 50 Copynumber: 2.6 Consensus size: 52
43829309 TATGTGTTTT
* * *
43829319 TCATTAAATAAAGCCATGCATTATGTAACTCTCATGTTAGTT-AAGTTTGCC
1 TCATTAAATTAAGACATGCATTATGTAACTCTCATGTTAGTTAAAGTTTGCA
* **
43829370 TCA-TAAATTATGACATGTTTTATGTAACTCTCATGTTAGTTAAAGTTTGCA
1 TCATTAAATTAAGACATGCATTATGTAACTCTCATGTTAGTTAAAGTTTGCA
*
43829421 TCATTAAATTAAGTA-ATGCATTAAGTAACTC
1 TCATTAAATTAAG-ACATGCATTATGTAACTC
43829452 ATCTATTCAT
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
50 33 0.48
51 14 0.20
52 21 0.30
53 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (52 bp):
TCATTAAATTAAGACATGCATTATGTAACTCTCATGTTAGTTAAAGTTTGCA
Found at i:43831747 original size:44 final size:45
Alignment explanation
Indices: 43831696--43831790 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 45
43831686 GCATGTAACT
43831696 ACATATATCGATGCCAACATCCCAGACATGGCCTTACAC-AAAAC
1 ACATATATCGATGCCAACATCCCAGACATGGCCTTACACGAAAAC
** ** *
43831740 ACATATATCGATGCCAATGTCCCAGATGTGGTCTTACACGAAAAC
1 ACATATATCGATGCCAACATCCCAGACATGGCCTTACACGAAAAC
43831785 ACATAT
1 ACATAT
43831791 CGGAATCCTA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 34 0.76
45 11 0.24
ACGTcount: A:0.37, C:0.27, G:0.14, T:0.22
Consensus pattern (45 bp):
ACATATATCGATGCCAACATCCCAGACATGGCCTTACACGAAAAC
Found at i:43835950 original size:39 final size:40
Alignment explanation
Indices: 43835851--43836034 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
43835841 TCGAATGATG
* * *
43835851 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
43835889 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
43835930 TTCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
43835969 TCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
43836008 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
43836035 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 11
0.81 0.11 0.07
Matches are distributed among these distances:
39 44 0.36
40 69 0.57
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:43836057 original size:79 final size:79
Alignment explanation
Indices: 43835903--43836057 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
43835893 GGACTAAGAT
** **
43835903 CCGAAGGCATTTGTGCGAGTTACTAATTTCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
43835968 ATCCGAGTTAAGTC
66 ATCCGAGTTAAGTC
* *
43835982 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
43836045 TATATCCG-GTTAA
63 TAAATCCGAGTTAA
43836058 ATTCTGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.59
80 25 0.38
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGAGTTAAGTC
Found at i:43844012 original size:40 final size:39
Alignment explanation
Indices: 43843822--43844005 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
43843812 CGAATGATGT
* * * *
43843822 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
43843862 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
* *
43843902 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTTCTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
43843940 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
43843981 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
43844006 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:43844028 original size:79 final size:79
Alignment explanation
Indices: 43843874--43844038 Score: 199
Period size: 79 Copynumber: 2.1 Consensus size: 79
43843864 GGACTAAGAT
* ** **
43843874 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTTCTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTAGCTAA
* *
43843939 ATCCGGGTTAAGTC
66 ATCCGAGTTAAATC
* *
43843953 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTAGCT
* *
43844017 ATATCC-AGTTAAATT
64 AAATCCGAGTTAAATC
43844032 CCGAAGG
1 CCGAAGG
43844039 TACGTGATTC
Statistics
Matches: 73, Mismatches: 11, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
78 2 0.03
79 46 0.63
80 25 0.34
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTAGCTAA
ATCCGAGTTAAATC
Found at i:43846749 original size:12 final size:12
Alignment explanation
Indices: 43846732--43846766 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
43846722 TCACGAAAAA
43846732 GCTCGTTTATTG
1 GCTCGTTTATTG
43846744 GCTCGTTTATTG
1 GCTCGTTTATTG
* *
43846756 ACTTGTTTATT
1 GCTCGTTTATT
43846767 TATTAATGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.54
Consensus pattern (12 bp):
GCTCGTTTATTG
Found at i:43847021 original size:23 final size:23
Alignment explanation
Indices: 43846988--43847052 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
43846978 ATCATGTTCA
*
43846988 ATTATATGTTCATGAATATATTTG
1 ATTA-ATGTTCATGAACATATTTG
* *
43847012 TTTAATGTTCGTGAACATATTTG
1 ATTAATGTTCATGAACATATTTG
*
43847035 ATTAA-GTTAAATGAACAT
1 ATTAATGTT-CATGAACAT
43847053 GTTCTTGAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
22 3 0.09
23 28 0.82
24 3 0.09
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.45
Consensus pattern (23 bp):
ATTAATGTTCATGAACATATTTG
Found at i:43847927 original size:13 final size:13
Alignment explanation
Indices: 43847909--43847974 Score: 62
Period size: 13 Copynumber: 5.1 Consensus size: 13
43847899 AGTTTAGTAT
43847909 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
43847922 TGCTTTTAAAAAT
1 TGCTTTTGAAAAG
*
43847935 TG-TTGTGGAAAAG
1 TGCTT-TTGAAAAG
* *
43847948 TGTTTTTGAGAAG
1 TGCTTTTGAAAAG
*
43847961 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
43847974 T
1 T
43847975 TCGGTTTAAG
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
12 2 0.05
13 37 0.90
14 2 0.05
ACGTcount: A:0.32, C:0.05, G:0.23, T:0.41
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:43853411 original size:18 final size:18
Alignment explanation
Indices: 43853388--43853426 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
43853378 AGTTTATCTA
43853388 CTATCTAAATCATGTTTT
1 CTATCTAAATCATGTTTT
43853406 CTATCTAAATCATGTTTT
1 CTATCTAAATCATGTTTT
43853424 CTA
1 CTA
43853427 ACCTTGTCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.18, G:0.05, T:0.49
Consensus pattern (18 bp):
CTATCTAAATCATGTTTT
Found at i:43857521 original size:20 final size:20
Alignment explanation
Indices: 43857496--43857566 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
43857486 AAACACAGTA
43857496 AATATATTTATGTTTAATAT
1 AATATATTTATGTTTAATAT
* * *
43857516 AATATATTAGTTCCAT-CTTCATAA
1 AATATA-T--TT--ATGTTTAATAT
43857540 AATATATTTATGTTTAATAT
1 AATATATTTATGTTTAATAT
43857560 AATATAT
1 AATATAT
43857567 CAGTTCCATC
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
19 2 0.05
20 18 0.46
21 3 0.08
23 3 0.08
24 11 0.28
25 2 0.05
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.49
Consensus pattern (20 bp):
AATATATTTATGTTTAATAT
Found at i:43857522 original size:22 final size:22
Alignment explanation
Indices: 43857497--43857566 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
43857487 AACACAGTAA
43857497 ATATATTTATGTTTAATATAAT
1 ATATATTTATGTTTAATATAAT
* * *
43857519 ATATTAGTTCCAT-CTTCATA-AA-
1 ATA-TA-TT-TATGTTTAATATAAT
43857541 ATATATTTATGTTTAATATAAT
1 ATATATTTATGTTTAATATAAT
43857563 ATAT
1 ATAT
43857567 CAGTTCCATC
Statistics
Matches: 36, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
19 2 0.06
20 7 0.19
21 4 0.11
22 10 0.28
23 4 0.11
24 7 0.19
25 2 0.06
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (22 bp):
ATATATTTATGTTTAATATAAT
Found at i:43857545 original size:44 final size:44
Alignment explanation
Indices: 43857495--43857584 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
43857485 TAAACACAGT
*
43857495 AAATATATTTATGTTTAATATAATATATTAGTTCCATCTTCATA
1 AAATATATTTATGTTTAATATAATATATCAGTTCCATCTTCATA
43857539 AAATATATTTATGTTTAATATAATATATCAGTTCCATCTTCATA
1 AAATATATTTATGTTTAATATAATATATCAGTTCCATCTTCATA
43857583 AA
1 AA
43857585 GCAAAATCAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.40, C:0.10, G:0.04, T:0.46
Consensus pattern (44 bp):
AAATATATTTATGTTTAATATAATATATCAGTTCCATCTTCATA
Found at i:43857689 original size:28 final size:30
Alignment explanation
Indices: 43857643--43857710 Score: 81
Period size: 28 Copynumber: 2.4 Consensus size: 30
43857633 AACTTTGGTC
* *
43857643 CTTCAACTTTTCATGTTTT-TAA-TTAACT
1 CTTCAACTTTTAATGTTTTACAATTTAACT
43857671 CTTCAACTTTTGAAT-TTTTACAATTTAACT
1 CTTCAACTTTT-AATGTTTTACAATTTAACT
43857701 CTTC-ACTTTT
1 CTTCAACTTTT
43857711 CACAAATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
28 15 0.43
29 10 0.29
30 10 0.29
ACGTcount: A:0.25, C:0.19, G:0.03, T:0.53
Consensus pattern (30 bp):
CTTCAACTTTTAATGTTTTACAATTTAACT
Found at i:43857721 original size:30 final size:30
Alignment explanation
Indices: 43857665--43857727 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
43857655 ATGTTTTTAA
* **
43857665 TTAACTCTTCAACTTTTGAATTTTTACAAT
1 TTAACTCTTCAACTTTTCAAAATTTACAAT
43857695 TTAACTCTTC-ACTTTTCACAAATTTACAAT
1 TTAACTCTTCAACTTTTCA-AAATTTACAAT
43857725 TTA
1 TTA
43857728 GTCCATACTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 7 0.24
30 22 0.76
ACGTcount: A:0.32, C:0.19, G:0.02, T:0.48
Consensus pattern (30 bp):
TTAACTCTTCAACTTTTCAAAATTTACAAT
Found at i:43858909 original size:24 final size:25
Alignment explanation
Indices: 43858864--43858923 Score: 113
Period size: 24 Copynumber: 2.4 Consensus size: 25
43858854 TTAAGCTTTT
43858864 AAATTACTTTAGTTTTTTTTTATAG
1 AAATTACTTTAGTTTTTTTTTATAG
43858889 AAATTACTTTAG-TTTTTTTTATAG
1 AAATTACTTTAGTTTTTTTTTATAG
43858913 AAATTACTTTA
1 AAATTACTTTA
43858924 TTTAATTGAC
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.57
Consensus pattern (25 bp):
AAATTACTTTAGTTTTTTTTTATAG
Found at i:43874689 original size:30 final size:29
Alignment explanation
Indices: 43874655--43874713 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
43874645 CTTTCATACG
*
43874655 AACTTTAGAAAAATTACATTTTTGCCCCTA
1 AACTTTAGAAAAATTACA-CTTTGCCCCTA
* *
43874685 AACTTTTGCAAAATTACACTTTGCCCCTA
1 AACTTTAGAAAAATTACACTTTGCCCCTA
43874714 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 10 0.38
30 16 0.62
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.36
Consensus pattern (29 bp):
AACTTTAGAAAAATTACACTTTGCCCCTA
Found at i:43879045 original size:31 final size:31
Alignment explanation
Indices: 43878986--43879047 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
43878976 TCGAGTCTGC
* *
43878986 ACCACTACCTTTTACACTTTAAAATTTTTCT
1 ACCACTAACTTTTACACTCTAAAATTTTTCT
* *
43879017 ACCACTAACTTTTACACTCTGAACTTTTTCT
1 ACCACTAACTTTTACACTCTAAAATTTTTCT
43879048 TTCTCAATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.27, C:0.27, G:0.02, T:0.44
Consensus pattern (31 bp):
ACCACTAACTTTTACACTCTAAAATTTTTCT
Found at i:43879927 original size:21 final size:21
Alignment explanation
Indices: 43879903--43879944 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
43879893 TCATCAGATC
*
43879903 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
43879924 TACATGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
43879945 AGGTTGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.40, T:0.21
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:43882191 original size:30 final size:30
Alignment explanation
Indices: 43882157--43882216 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
43882147 TCTTTAATAC
*
43882157 AAACTTTGGCAAAATAACATTTTTGCCCCT
1 AAACTTTGGCAAAATAACACTTTTGCCCCT
* * *
43882187 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGCAAAATAACACTTTTGCCCCT
43882217 CAGCTCGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AAACTTTGGCAAAATAACACTTTTGCCCCT
Found at i:43892526 original size:29 final size:28
Alignment explanation
Indices: 43892479--43892606 Score: 148
Period size: 28 Copynumber: 4.5 Consensus size: 28
43892469 CATGAGATTG
* * **
43892479 GCACTAAGCGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-AATTATATA
* *
43892508 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATATA
* *
43892536 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTAATTATAT-A
*
43892565 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATATA
*
43892593 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
43892607 GACTTACTAT
Statistics
Matches: 88, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
28 45 0.51
29 43 0.49
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATATA
Found at i:43892544 original size:28 final size:28
Alignment explanation
Indices: 43892505--43892606 Score: 168
Period size: 28 Copynumber: 3.6 Consensus size: 28
43892495 TTTAAATTGC
*
43892505 ATAGCACTAAGTGTGCAAGTTTGATTAT
1 ATAGCACTAAGTGTGCGAGTTTGATTAT
43892533 ATAGCACTAAGTGTGCGAGTTTGATTAT
1 ATAGCACTAAGTGTGCGAGTTTGATTAT
*
43892561 GTAAGCACTAAGTGTGCGAGTTTGATTAT
1 AT-AGCACTAAGTGTGCGAGTTTGATTAT
*
43892590 ATAACACTAAGTGTGCG
1 ATAGCACTAAGTGTGCG
43892607 GACTTACTAT
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 42 0.61
29 27 0.39
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (28 bp):
ATAGCACTAAGTGTGCGAGTTTGATTAT
Found at i:43906581 original size:37 final size:37
Alignment explanation
Indices: 43906520--43906598 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
43906510 TTATTACGAA
* * * *
43906520 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
*
43906557 GTCTTACCCAGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
43906594 GTCTT
1 GTCTT
43906599 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
Found at i:43906795 original size:47 final size:47
Alignment explanation
Indices: 43906717--43906928 Score: 334
Period size: 47 Copynumber: 4.5 Consensus size: 47
43906707 CCCTTCGGGA
* * * * * *
43906717 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
43906764 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43906811 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
43906858 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
43906905 CTTATCACATATATACACTTTCAC
1 CTTATCACATATATACACTTTCAC
43906929 GTATACACAC
Statistics
Matches: 152, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 152 1.00
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:43913892 original size:93 final size:93
Alignment explanation
Indices: 43913785--43913955 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
43913775 GCCCATAAGT
*
43913785 GAACTCGGACTCAACTCAACAAGCTC-GAGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 GAACTCGGACTCAACTCAACAAGCTCAGA-CATTCGCATCCATAAGTGAACTCAGACTCAACTCA
43913849 ACAAGCTCGGATGCCTAGTTACATCTCTC
65 ACAAGCTCGGATGCCTAGTTACATCTCTC
* * * *
43913878 GAACTTGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
* *
43913943 CGAGTTCGGATGC
66 CAAGCTCGGATGC
43913956 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
93 68 0.97
94 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCTC
Found at i:43913949 original size:46 final size:45
Alignment explanation
Indices: 43913777--43913943 Score: 167
Period size: 46 Copynumber: 3.6 Consensus size: 45
43913767 TGTAACCCGC
*
43913777 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGA-CATTCGCAT
* * *
43913823 CCATAAGTGAACTCAGACTCAACTCAACAAGCTCG-GATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGACATTCGC-A--T
* *** * * *
43913869 ACATCTCTCGAACTTGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACAAGCTC-GACATTCGCAT
43913916 CCATAAGTGAACTCGGACTCAACTCAAC
1 CCATAAGTGAACTCGGACTCAACTCAAC
43913944 GAGTTCGGAT
Statistics
Matches: 95, Mismatches: 19, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 58 0.61
47 27 0.28
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.32, C:0.30, G:0.17, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGACATTCGCAT
Found at i:43917075 original size:13 final size:13
Alignment explanation
Indices: 43917057--43917081 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43917047 TTTCGGGTAG
43917057 AAAATGATTATAT
1 AAAATGATTATAT
43917070 AAAATGATTATA
1 AAAATGATTATA
43917082 GGAATCGGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (13 bp):
AAAATGATTATAT
Found at i:43917103 original size:28 final size:28
Alignment explanation
Indices: 43917063--43917128 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
43917053 GTAGAAAATG
*
43917063 ATTATAT--AAAATGATTATAGGAATCG
1 ATTATATGGAAAATGATTATAGGAATCA
* *
43917089 GTTATATGGAAAATGATTATATGAATCA
1 ATTATATGGAAAATGATTATAGGAATCA
43917117 ATTATATGGAAA
1 ATTATATGGAAA
43917129 TATTTATGTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 6 0.18
28 28 0.82
ACGTcount: A:0.45, C:0.03, G:0.17, T:0.35
Consensus pattern (28 bp):
ATTATATGGAAAATGATTATAGGAATCA
Found at i:43920113 original size:18 final size:18
Alignment explanation
Indices: 43920092--43920134 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 18
43920082 TAAAAGTAGA
43920092 TAAAAATTTATAATTTTT
1 TAAAAATTTATAATTTTT
*
43920110 T-AAAA-TTATATTTTTT
1 TAAAAATTTATAATTTTT
43920126 TATAAAATT
1 TA-AAAATT
43920135 CAAAAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
16 11 0.52
17 4 0.19
18 5 0.24
19 1 0.05
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TAAAAATTTATAATTTTT
Found at i:43920822 original size:23 final size:22
Alignment explanation
Indices: 43920786--43920829 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
43920776 AAACTGGTTA
43920786 AAAGCATAAAATAATATATATAT
1 AAAGCATAAAATAATA-ATATAT
43920809 AAAGCA-AAATATAATAATATA
1 AAAGCATAAA-ATAATAATATA
43920830 ATTTAGACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.27
Consensus pattern (22 bp):
AAAGCATAAAATAATAATATAT
Found at i:43926682 original size:13 final size:13
Alignment explanation
Indices: 43926661--43926705 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
43926651 AAATTTTTCC
43926661 AAAGCACTTATCA
1 AAAGCACTTATCA
* *
43926674 AAAGTACTTCTCA
1 AAAGCACTTATCA
*
43926687 AAAGCACTTTTCA
1 AAAGCACTTATCA
43926700 AAAGCA
1 AAAGCA
43926706 ATGAAGAACT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.44, C:0.22, G:0.09, T:0.24
Consensus pattern (13 bp):
AAAGCACTTATCA
Found at i:43926735 original size:13 final size:13
Alignment explanation
Indices: 43926717--43926792 Score: 53
Period size: 13 Copynumber: 5.5 Consensus size: 13
43926707 TGAAGAACTG
43926717 GCTTTTGAAAAGT
1 GCTTTTGAAAAGT
*
43926730 GCTTTTGAGAAATACTTT
1 GCTTTT--GAAA-A--GT
43926748 GCTTTTGAAAAGT
1 GCTTTTGAAAAGT
*
43926761 GCTTTTGAGAAGT
1 GCTTTTGAAAAGT
* * *
43926774 ACTTGTGAGAAGT
1 GCTTTTGAAAAGT
*
43926787 ACTTTT
1 GCTTTT
43926793 AAATAAAAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
13 35 0.67
15 5 0.10
16 5 0.10
18 7 0.13
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.41
Consensus pattern (13 bp):
GCTTTTGAAAAGT
Found at i:43926752 original size:31 final size:31
Alignment explanation
Indices: 43926717--43926777 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
43926707 TGAAGAACTG
43926717 GCTTTTGAAAAGTGCTTTTGAGAAATACTTT
1 GCTTTTGAAAAGTGCTTTTGAGAAATACTTT
*
43926748 GCTTTTGAAAAGTGCTTTTGAGAAGTACTT
1 GCTTTTGAAAAGTGCTTTTGAGAAATACTT
43926778 GTGAGAAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (31 bp):
GCTTTTGAAAAGTGCTTTTGAGAAATACTTT
Found at i:43936073 original size:40 final size:40
Alignment explanation
Indices: 43936013--43936270 Score: 378
Period size: 40 Copynumber: 6.5 Consensus size: 40
43936003 TGGATGATAA
* * * *
43936013 CCGGGCTAAGTCCCAAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
43936053 CCGGGCTAAGTCCCGTAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
43936093 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
43936133 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
43936173 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
43936213 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
43936253 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
43936271 TACTTGGCTT
Statistics
Matches: 203, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
39 16 0.08
40 187 0.92
ACGTcount: A:0.22, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:43940029 original size:76 final size:76
Alignment explanation
Indices: 43939903--43940056 Score: 308
Period size: 76 Copynumber: 2.0 Consensus size: 76
43939893 CTTATGTGTT
43939903 TGACAAATATGAGAGATGTTGTAGCATGTTTCGTAGGACTCCCTCATGGCCAAATATTGGTGGCT
1 TGACAAATATGAGAGATGTTGTAGCATGTTTCGTAGGACTCCCTCATGGCCAAATATTGGTGGCT
43939968 ACCCAAAAAGG
66 ACCCAAAAAGG
43939979 TGACAAATATGAGAGATGTTGTAGCATGTTTCGTAGGACTCCCTCATGGCCAAATATTGGTGGCT
1 TGACAAATATGAGAGATGTTGTAGCATGTTTCGTAGGACTCCCTCATGGCCAAATATTGGTGGCT
43940044 ACCCAAAAAGG
66 ACCCAAAAAGG
43940055 TG
1 TG
43940057 TGCTTAAATT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 78 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (76 bp):
TGACAAATATGAGAGATGTTGTAGCATGTTTCGTAGGACTCCCTCATGGCCAAATATTGGTGGCT
ACCCAAAAAGG
Found at i:43945599 original size:45 final size:45
Alignment explanation
Indices: 43945548--43945669 Score: 142
Period size: 45 Copynumber: 2.7 Consensus size: 45
43945538 GCTGATGGAT
* * *
43945548 AGTAAGCTCTAATGAGCTGAAATGGTAAGCTTTAT-CGAGTTGAA
1 AGTAAGCTCTAATGAGCTGAAATAGTAAGCTTCATACGAGCTGAA
*
43945592 CAGTAAGCTCTATTGAGCT-AAATAGTAAGC-TCATACGAGCTGAA
1 -AGTAAGCTCTAATGAGCTGAAATAGTAAGCTTCATACGAGCTGAA
*
43945636 ATGGTACGCTCTAATGAGCTGAAAATAGTAAGCT
1 A--GTAAGCTCTAATGAGCTG-AAATAGTAAGCT
43945670 CTTACGATCT
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
43 4 0.06
44 18 0.28
45 32 0.49
47 11 0.17
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (45 bp):
AGTAAGCTCTAATGAGCTGAAATAGTAAGCTTCATACGAGCTGAA
Found at i:43945646 original size:23 final size:23
Alignment explanation
Indices: 43945546--43945676 Score: 115
Period size: 23 Copynumber: 5.7 Consensus size: 23
43945536 AAGCTGATGG
*
43945546 ATAGTAAGCTCTAATGAGCTGAA
1 ATAGTAAGCTCTAACGAGCTGAA
* * * *
43945569 ATGGTAAGCTTTATCGAGTTG-A
1 ATAGTAAGCTCTAACGAGCTGAA
* **
43945591 ACAGTAAGCTCTATTGAGCT-AA
1 ATAGTAAGCTCTAACGAGCTGAA
43945613 ATAGTAAGCTC-ATACGAGCTGAA
1 ATAGTAAGCTCTA-ACGAGCTGAA
* * *
43945636 ATGGTACGCTCTAATGAGCTGAAA
1 ATAGTAAGCTCTAACGAGCTG-AA
*
43945660 ATAGTAAGCTCTTACGA
1 ATAGTAAGCTCTAACGA
43945677 TCTAGTGTAA
Statistics
Matches: 83, Mismatches: 20, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
21 1 0.01
22 32 0.39
23 34 0.41
24 16 0.19
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.27
Consensus pattern (23 bp):
ATAGTAAGCTCTAACGAGCTGAA
Found at i:43949783 original size:56 final size:56
Alignment explanation
Indices: 43949659--43949816 Score: 190
Period size: 56 Copynumber: 2.8 Consensus size: 56
43949649 GAGGGGGTGT
* ** *
43949659 TAGGATATTATTATGGGATATTATCTTTTTAGCAATTTAATTCCTAATGGGATGTTA
1 TAGGATATTATTATGGGATATTATC-TTTTAGCAATTTGATTCCTAATGAAATATTA
* * * * * *
43949716 TAGGATGTTATTACGAGATATTATCTCTTAGTAATTTGATTCTTAATGAAATATTA
1 TAGGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATGAAATATTA
* * *
43949772 TATGATATTATTATGGGGTATTATTTTTTAGCAATTTGATTCCTA
1 TAGGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTA
43949817 CGTAACTACT
Statistics
Matches: 82, Mismatches: 19, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
56 60 0.73
57 22 0.27
ACGTcount: A:0.30, C:0.07, G:0.16, T:0.47
Consensus pattern (56 bp):
TAGGATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATGAAATATTA
Found at i:43956148 original size:18 final size:19
Alignment explanation
Indices: 43956105--43956148 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
43956095 ATATGTCAGC
*
43956105 TTAATAAATATTTTAAAAAT
1 TTAA-AAATATTTCAAAAAT
43956125 TATAAAAATA-TTCAAAAAT
1 T-TAAAAATATTTCAAAAAT
43956144 TTAAA
1 TTAAA
43956149 GTTAAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 4 0.18
19 9 0.41
20 6 0.27
21 3 0.14
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
TTAAAAATATTTCAAAAAT
Found at i:43956168 original size:10 final size:9
Alignment explanation
Indices: 43956108--43956185 Score: 58
Period size: 10 Copynumber: 8.8 Consensus size: 9
43956098 TGTCAGCTTA
*
43956108 ATAAATATT
1 ATAAAAATT
*
43956117 TTAAAAATT
1 ATAAAAATT
43956126 ATAAAAA-T
1 ATAAAAATT
43956134 ATTCAAAAATT
1 A-T-AAAAATT
*
43956145 -T-AAAGTT
1 ATAAAAATT
43956152 A-AAAAATAT
1 ATAAAAAT-T
43956161 ATAAAAATT
1 ATAAAAATT
43956170 CATAAAAATT
1 -ATAAAAATT
43956180 -TAAAAA
1 ATAAAAA
43956186 GAAAGCATGA
Statistics
Matches: 56, Mismatches: 5, Indels: 17
0.72 0.06 0.22
Matches are distributed among these distances:
7 5 0.09
8 12 0.21
9 18 0.32
10 20 0.36
11 1 0.02
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (9 bp):
ATAAAAATT
Found at i:43956171 original size:33 final size:34
Alignment explanation
Indices: 43956117--43956183 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
43956107 AATAAATATT
*
43956117 TTAAAAATTATAAAAATATTC-AAAAATTTAAAG
1 TTAAAAAATATAAAAATATTCAAAAAATTTAAAG
43956150 TTAAAAAATATATAAAA-ATTCATAAAAATTTAAA
1 TTAAAAAATATA-AAAATATTCA-AAAAATTTAAA
43956184 AAGAAAGCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 15 0.50
34 4 0.13
35 11 0.37
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (34 bp):
TTAAAAAATATAAAAATATTCAAAAAATTTAAAG
Found at i:43961996 original size:19 final size:18
Alignment explanation
Indices: 43961974--43962025 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
43961964 TAAAACCATT
43961974 AAAAATTTTAAATAATTTA
1 AAAAATTTTAAA-AATTTA
* *
43961993 AAAAATTAT-AAAATATA
1 AAAAATTTTAAAAATTTA
*
43962010 AAAAATATTAAAAATT
1 AAAAATTTTAAAAATT
43962026 ATATAAAAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 12 0.44
18 7 0.26
19 8 0.30
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAAATTTTAAAAATTTA
Found at i:43962028 original size:19 final size:19
Alignment explanation
Indices: 43961974--43962033 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 19
43961964 TAAAACCATT
*
43961974 AAAAATTTTAAATAATT-T-
1 AAAAATATTAAA-AATTATA
43961992 AAAAA-ATTATAAAA-TATA
1 AAAAATATTA-AAAATTATA
43962010 AAAAATATTAAAAATTATA
1 AAAAATATTAAAAATTATA
43962029 TAAAA
1 -AAAA
43962034 GAAAAAACAA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
16 1 0.03
17 6 0.17
18 16 0.46
19 8 0.23
20 4 0.11
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATATTAAAAATTATA
Found at i:43962047 original size:26 final size:26
Alignment explanation
Indices: 43961993--43962047 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
43961983 AAATAATTTA
* * *
43961993 AAAAATTATAAAATATAAAAAATATT
1 AAAAATTATAAAATAGAAAAAACAAT
43962019 AAAAATTATATAAA-AGAAAAAACAAT
1 AAAAATTATA-AAATAGAAAAAACAAT
43962045 AAA
1 AAA
43962048 TAATAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 22 0.88
27 3 0.12
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (26 bp):
AAAAATTATAAAATAGAAAAAACAAT
Found at i:43969447 original size:53 final size:54
Alignment explanation
Indices: 43969318--43969450 Score: 187
Period size: 56 Copynumber: 2.4 Consensus size: 54
43969308 TCCCAGACAA
*
43969318 GGTCTTAGTCACACACATATATCGGAGTCACATATCAATGCCAACATATTAAACGT
1 GGTCTTACTCACACACATATATCGGAGTCACATATCAAT--CAACATATTAAACGT
* *
43969374 GGTCTTACTCACACACATATATCGGAGTCACATATCGAT-AACGTATTAAACGT
1 GGTCTTACTCACACACATATATCGGAGTCACATATCAATCAACATATTAAACGT
** *
43969427 GGTCTTACTCGTACATATATATCG
1 GGTCTTACTCACACACATATATCG
43969451 ATGCCATGGT
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
53 34 0.48
56 37 0.52
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (54 bp):
GGTCTTACTCACACACATATATCGGAGTCACATATCAATCAACATATTAAACGT
Found at i:43969799 original size:15 final size:15
Alignment explanation
Indices: 43969779--43969808 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
43969769 GGTTCTTGAT
43969779 TTAAACATATTCAAA
1 TTAAACATATTCAAA
*
43969794 TTAAACTTATTCAAA
1 TTAAACATATTCAAA
43969809 CATATTTTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (15 bp):
TTAAACATATTCAAA
Found at i:43971438 original size:34 final size:33
Alignment explanation
Indices: 43971373--43971459 Score: 102
Period size: 34 Copynumber: 2.6 Consensus size: 33
43971363 ACTGTACTCG
* *
43971373 AATAGGCTAAAGCCCAGACTGCCACTAATACTGT
1 AATAGGC-AAGGCCCAGACTACCACTAATACTGT
* * *
43971407 AATGAGGTAAGGCCCAGACTACCATTGATACTGT
1 AAT-AGGCAAGGCCCAGACTACCACTAATACTGT
*
43971441 AATAGGCCAGGCCCAGACT
1 AATAGGCAAGGCCCAGACT
43971460 GTTACTGCTA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
33 14 0.31
34 28 0.62
35 3 0.07
ACGTcount: A:0.33, C:0.25, G:0.22, T:0.20
Consensus pattern (33 bp):
AATAGGCAAGGCCCAGACTACCACTAATACTGT
Found at i:43975420 original size:39 final size:41
Alignment explanation
Indices: 43975319--43975502 Score: 206
Period size: 39 Copynumber: 4.6 Consensus size: 41
43975309 TTGAATGATG
* *
43975319 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA
*
43975359 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATA
*
43975399 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
43975438 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
43975477 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43975503 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
38 1 0.01
39 69 0.55
40 43 0.34
41 12 0.10
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:43975455 original size:79 final size:80
Alignment explanation
Indices: 43975319--43975502 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 80
43975309 TTGAATGATG
*
43975319 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCA-T
43975383 TGTGCGAGATACTA-A
65 TGTGCGAGATACTATA
* * * **
43975398 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
43975460 TTGTGCGAGTTACTATA
64 TTGTGCGAGATACTATA
* *
43975477 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43975503 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 24 0.26
79 49 0.54
80 18 0.20
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
GTGCGAGATACTATA
Found at i:43975525 original size:78 final size:79
Alignment explanation
Indices: 43975372--43975535 Score: 201
Period size: 78 Copynumber: 2.1 Consensus size: 79
43975362 GGACTAAGAT
* **
43975372 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
43975437 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
43975451 CCGAAGGCA-TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
43975513 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
43975529 CCGAAGG
1 CCGAAGG
43975536 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
77 2 0.03
78 38 0.51
79 34 0.46
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:43983400 original size:79 final size:81
Alignment explanation
Indices: 43983264--43983448 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
43983254 TTGAATGATG
* *
43983264 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
43983328 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
43983343 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
43983405 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
43983423 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43983449 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:43983462 original size:40 final size:40
Alignment explanation
Indices: 43983265--43983448 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
43983255 TGAATGATGT
* * * *
43983265 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
43983305 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
43983345 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
43983383 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
43983424 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
43983449 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:43983470 original size:79 final size:79
Alignment explanation
Indices: 43983317--43983481 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
43983307 GGACTAAGAT
* * **
43983317 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
43983382 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
43983396 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
43983459 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
43983475 CCGAAGG
1 CCGAAGG
43983482 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:43988945 original size:46 final size:46
Alignment explanation
Indices: 43988892--43989064 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
43988882 TAGTTGAGCA
*
43988892 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
43988938 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
43988985 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
43989031 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
43989065 GGGGCAGGTT
Statistics
Matches: 108, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 62 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:43989048 original size:93 final size:93
Alignment explanation
Indices: 43988889--43989059 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
43988879 GGATAGTTGA
***
43988889 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
43988954 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
43988982 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
43989047 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
43989060 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:43995826 original size:46 final size:46
Alignment explanation
Indices: 43995776--43995943 Score: 189
Period size: 46 Copynumber: 3.6 Consensus size: 46
43995766 TGAGCATCTA
*
43995776 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
* * * *
43995822 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CGTCCG
* * * *
43995869 AACTCGTTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
*
43995915 AGCTCGTTGAGTTGAGTCCGAGTTCACTT
1 AACTCGTTGAGTTGAGTCCGAGTTCACTT
43995944 GGGGGCGGGT
Statistics
Matches: 100, Mismatches: 15, Indels: 14
0.78 0.12 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 55 0.55
47 28 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCG
Found at i:43996206 original size:19 final size:20
Alignment explanation
Indices: 43996169--43996206 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
43996159 ATAAGGTGGT
43996169 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
43996189 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
43996207 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:43996394 original size:48 final size:48
Alignment explanation
Indices: 43996319--43996549 Score: 222
Period size: 48 Copynumber: 4.9 Consensus size: 48
43996309 TTCACTGTAG
* ** *
43996319 GATGCCAATGCCATATCCTGGATATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* * * ** *
43996367 AATGCCAATGCCATGTCCCAAACATGGTCTTACAGGGGATCGTAGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* *
43996415 GATGCTAATGTCATGTCCCAGACATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* ** ** ** *
43996463 GATG-C--TG--ATAG-CCTAGTTATGGTCTTACCCGAAATTACATATC
1 GATGCCAATGCCAT-GTCCCAGACATGGTCTTACATGGGATCACATATC
*
43996506 GATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCACA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
43996550 CATAACCTTA
Statistics
Matches: 140, Mismatches: 36, Indels: 14
0.74 0.19 0.07
Matches are distributed among these distances:
43 30 0.21
44 2 0.01
45 2 0.01
46 1 0.01
47 1 0.01
48 104 0.74
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:44005353 original size:56 final size:56
Alignment explanation
Indices: 44005267--44005399 Score: 194
Period size: 56 Copynumber: 2.4 Consensus size: 56
44005257 ATGGCATCGA
* * * * **
44005267 TATATGTGTGCGAGTAAGACCATGTTTAATACATTGTCATTGATATGTGATTCTGT
1 TATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGACTCCAT
* *
44005323 TATATGTGTACGAGTAAGACCACGTTTAATACATTGGCGTCGATATGTGACTCCAT
1 TATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGACTCCAT
44005379 TATATGTGTGCGAGTAAGACC
1 TATATGTGTGCGAGTAAGACC
44005400 CTGTCTGGGG
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 68 1.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (56 bp):
TATATGTGTGCGAGTAAGACCACGTTTAATACATTGGCATCGATATGTGACTCCAT
Found at i:44008919 original size:48 final size:48
Alignment explanation
Indices: 44008848--44008942 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
44008838 ACTGTGATTA
* * *
44008848 ATGATATTTGTGCCTATGTAAGACCATGTCTTGGACATGGCATCGGCG
1 ATGATATGTGTGCCTATATAAGACCATGTCTGGGACATGGCATCGGCG
44008896 ATGATATGTGTG-CTAGTATAAGACCATGTCTGGGACATGGCATCGGC
1 ATGATATGTGTGCCTA-TATAAGACCATGTCTGGGACATGGCATCGGC
44008943 ACTGACATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 3 0.07
48 40 0.93
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.29
Consensus pattern (48 bp):
ATGATATGTGTGCCTATATAAGACCATGTCTGGGACATGGCATCGGCG
Found at i:44008963 original size:48 final size:48
Alignment explanation
Indices: 44008866--44008985 Score: 127
Period size: 48 Copynumber: 2.5 Consensus size: 48
44008856 TGTGCCTATG
* * **
44008866 TAAGACCATGTCTTGGACATGGCATCGGCGATGATATGTGTGCTAGTA
1 TAAGACCATGTCTGGGACATGGCATCGGCGATGACATGTGACCTAGTA
*
44008914 TAAGACCATGTCTGGGACATGGCATCGGC-ACTGACAT-TAGACCTTGTA
1 TAAGACCATGTCTGGGACATGGCATCGGCGA-TGACATGT-GACCTAGTA
* * * *
44008962 TAAGACTATATCCGGGATATGGCA
1 TAAGACCATGTCTGGGACATGGCA
44008986 ATGATATGTG
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
47 2 0.03
48 59 0.97
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.27
Consensus pattern (48 bp):
TAAGACCATGTCTGGGACATGGCATCGGCGATGACATGTGACCTAGTA
Found at i:44015220 original size:450 final size:449
Alignment explanation
Indices: 44014372--44015272 Score: 1525
Period size: 450 Copynumber: 2.0 Consensus size: 449
44014362 TGGCTGAAAC
* *
44014372 TTGCATGGCGAAACTATGTCTAGGGTTTTTCAAGCTTCCAAGATCGATTGCAAGTCCGTTCTAGC
1 TTGCATGGCGAAACCATGTCTAGGGTTTTTCAAGCTTCCAAGATCGATTGCAAGTCCGTCCTAGC
* *
44014437 CCCGTTTTTAATGATTTTTATGTTTTTACAATCCCCGTAACAAGATCTATTTATTTCTTCCATTA
66 CCCGTTTTTAATGATTTTTATGTTTTTACAATCCCCGTAACAAGATCTATCTATTTCTACCATTA
* * *
44014502 ATTTGAGCTAGGGTTCATGTTTAAAAATTGACCCATGTGTGAGATGCATGTATTTTGATGTCTAA
131 ATTTGAGCTAGGGTTCATGTTTAAAAATTGACCCATGTATGAGATGCATGCATTTTGAAGTCTAA
* * *
44014567 TGGTAGAGAATGAGTGTTGGGTGTTAAATAAATGACTTTTACTAATCAATTTTCGATGAGAACGT
196 TGGTAGAAAATGAGTGTTGGGTGTTAAATAAACGACTTTTACTAAGCAATTTTCGATGAGAACGT
44014632 CCGAAAGAACCGTTTTGTAAAAGTTATAAAATTGGTCATAAAAGGATAATTTAGTGGAAATTAGA
261 CCGAAAGAACCGTTTTGTAAAAGTTATAAAATTGGTCATAAAAGGATAATTTAGTGGAAATTAGA
** * * *
44014697 GGCTGCTATAGCTATGAAAATGATTCAACTAGGCTTAAAATGTACGAAAATTGAATAAAAATCAT
326 GAATGCTATAGCTATGAAAATAATTCAACTAGGCTTAAAATGTACGAAAATTGAAAAAAAATAAT
*
44014762 TTTACGAGCCTAGGGGAAAAAGTGTAAATATGACAAAGTTTAAGGGCAGAAATGTAAGTT
391 TTTACGAGCCTAGGGG-AAAAGTGTAAATATGACAAAGTTTAAGGGCAAAAATGTAAGTT
* * *
44014822 TTGCATTGCGAAACCATGTCTAGGGTTTTTCAAGCTTCCAAGGTCGATTGCAAGTCTGTCCTAGC
1 TTGCATGGCGAAACCATGTCTAGGGTTTTTCAAGCTTCCAAGATCGATTGCAAGTCCGTCCTAGC
* *
44014887 CCTGTTTTTAATGATTTTTATGTTTTTGCAATCCCCGTAACAAGATCTATCTATTTCTACCATTA
66 CCCGTTTTTAATGATTTTTATGTTTTTACAATCCCCGTAACAAGATCTATCTATTTCTACCATTA
*
44014952 ATTTGAGCTAGGGTTCATGTTTAAAAATTGACCTATGTATGAGATGCATGCATTTTGAAGTCTAA
131 ATTTGAGCTAGGGTTCATGTTTAAAAATTGACCCATGTATGAGATGCATGCATTTTGAAGTCTAA
*
44015017 TGGTAGAAAATGAGTGTTGGGTGTTAAATAAACGACTTTTACTAAGCGATTTTCGATGAGAACGT
196 TGGTAGAAAATGAGTGTTGGGTGTTAAATAAACGACTTTTACTAAGCAATTTTCGATGAGAACGT
* *
44015082 CTGAAAGGACCGTTTTGTAAAAGTTATAAAATTGGTCATAAAAGGATAATTTAGTGGAAATTAGA
261 CCGAAAGAACCGTTTTGTAAAAGTTATAAAATTGGTCATAAAAGGATAATTTAGTGGAAATTAGA
*
44015147 GAATGCTATTAGCTATGAAAATAATTCGACTAGGCTTAAAATGTACGAAAATT-AAAAAAAATAA
326 GAATGCTA-TAGCTATGAAAATAATTCAACTAGGCTTAAAATGTACGAAAATTGAAAAAAAATAA
* *
44015211 TTTTACGAGCCTAGGGGAAAAGTGTAAATATGTCAAAGTTTAAGGGCAAAAATGTAATTT
390 TTTTACGAGCCTAGGGGAAAAGTGTAAATATGACAAAGTTTAAGGGCAAAAATGTAAGTT
44015271 TT
1 TT
44015273 CCATAATATG
Statistics
Matches: 422, Mismatches: 28, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
449 42 0.10
450 338 0.80
451 42 0.10
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.34
Consensus pattern (449 bp):
TTGCATGGCGAAACCATGTCTAGGGTTTTTCAAGCTTCCAAGATCGATTGCAAGTCCGTCCTAGC
CCCGTTTTTAATGATTTTTATGTTTTTACAATCCCCGTAACAAGATCTATCTATTTCTACCATTA
ATTTGAGCTAGGGTTCATGTTTAAAAATTGACCCATGTATGAGATGCATGCATTTTGAAGTCTAA
TGGTAGAAAATGAGTGTTGGGTGTTAAATAAACGACTTTTACTAAGCAATTTTCGATGAGAACGT
CCGAAAGAACCGTTTTGTAAAAGTTATAAAATTGGTCATAAAAGGATAATTTAGTGGAAATTAGA
GAATGCTATAGCTATGAAAATAATTCAACTAGGCTTAAAATGTACGAAAATTGAAAAAAAATAAT
TTTACGAGCCTAGGGGAAAAGTGTAAATATGACAAAGTTTAAGGGCAAAAATGTAAGTT
Found at i:44015892 original size:48 final size:47
Alignment explanation
Indices: 44015821--44015957 Score: 157
Period size: 48 Copynumber: 2.9 Consensus size: 47
44015811 CACTGTGATT
* * *
44015821 AATGATATTTGTGCCTGTGTAAGACCATGTCTGGGACATGGCATTGGC
1 AATGATATGTGTG-CTGTATAAGACCATGTCTGGGACATGGCATCGGC
44015869 AATGATATGTGTGCTAGTATAAGACCATGTCTGGGACATGGCATCGGC
1 AATGATATGTGTGCT-GTATAAGACCATGTCTGGGACATGGCATCGGC
* * * ** * *
44015917 ACTGACATGAGACCTTGTATAAGACCATATCTGGGATATGG
1 AATGATATGTGTGC-TGTATAAGACCATGTCTGGGACATGG
44015958 AAAGGATATA
Statistics
Matches: 77, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
47 2 0.03
48 74 0.96
49 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (47 bp):
AATGATATGTGTGCTGTATAAGACCATGTCTGGGACATGGCATCGGC
Found at i:44021331 original size:42 final size:43
Alignment explanation
Indices: 44021248--44021364 Score: 121
Period size: 43 Copynumber: 2.7 Consensus size: 43
44021238 TCCTAGACGT
* * * *
44021248 GGTCTTACATGTAATCAAATATCGATGCCACTATTCTAGACAA
1 GGTCTTACATGAAATCAAATATCGATGCCAATATACCAGACAA
* * *
44021291 GGTCTTACATGAAATCATATAT-GATGCCAATGTACCAGACAT
1 GGTCTTACATGAAATCAAATATCGATGCCAATATACCAGACAA
* *
44021333 GATCTTACACGTAAATCACAA-ATCGATGCCAA
1 GGTCTTACATG-AAATCA-AATATCGATGCCAA
44021365 CGTCCAAAAC
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 24 0.39
43 28 0.46
44 9 0.15
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (43 bp):
GGTCTTACATGAAATCAAATATCGATGCCAATATACCAGACAA
Found at i:44028786 original size:49 final size:49
Alignment explanation
Indices: 44028714--44028889 Score: 228
Period size: 51 Copynumber: 3.5 Consensus size: 49
44028704 CTGATACGCA
* *
44028714 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACG
* * * *
44028763 TAGTAGCCTGCACTTAGTACTACACACGTGATCAA-AGTCATTGAGTACACA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTC--TG-GTACACG
* * *
44028814 TAGTAGCCTACACTTAGTACTACACATGCGACTTAACAGTATGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGAC-CAACAGTCTGGTACACG
44028864 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
44028890 CATGTATTCA
Statistics
Matches: 108, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
48 3 0.03
49 32 0.30
50 32 0.30
51 36 0.33
52 2 0.02
53 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACG
Found at i:44034988 original size:40 final size:41
Alignment explanation
Indices: 44034944--44035041 Score: 137
Period size: 40 Copynumber: 2.4 Consensus size: 41
44034934 CGACTATGAT
*
44034944 TGGCACTAAGTGTGCGATTTAATATAGCTTCGGCTATA-AA
1 TGGCACTAAGTGTGCGATTTAACATAGCTTCGGCTATAGAA
* **
44034984 TGGCACTAAGTGTGCGAGTTGGCATAGCTTCGGCTATAGAA
1 TGGCACTAAGTGTGCGATTTAACATAGCTTCGGCTATAGAA
*
44035025 -GGCATTAAGTGTGCGAT
1 TGGCACTAAGTGTGCGAT
44035042 ACCAATTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
40 49 0.96
41 2 0.04
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (41 bp):
TGGCACTAAGTGTGCGATTTAACATAGCTTCGGCTATAGAA
Found at i:44040240 original size:60 final size:60
Alignment explanation
Indices: 44040147--44040265 Score: 211
Period size: 60 Copynumber: 2.0 Consensus size: 60
44040137 CCTATCACAT
* *
44040147 TAACTCAATCATCAAGCTAGTCTCATATCAATACATCATGTCATTAGTCTTAGATGAGCA
1 TAACTCAATCATCAAGCTAATCTCATAACAATACATCATGTCATTAGTCTTAGATGAGCA
*
44040207 TAACTCAATCATCAAGTTAATCTCATAACAATACATCATGTCATTAGTCTTAGATGAGC
1 TAACTCAATCATCAAGCTAATCTCATAACAATACATCATGTCATTAGTCTTAGATGAGC
44040266 TCATCAATTC
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 56 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (60 bp):
TAACTCAATCATCAAGCTAATCTCATAACAATACATCATGTCATTAGTCTTAGATGAGCA
Found at i:44045106 original size:46 final size:46
Alignment explanation
Indices: 44045054--44045411 Score: 383
Period size: 46 Copynumber: 7.7 Consensus size: 46
44045044 TGGTTGAGCA
*
44045054 TCCGAACTCGTGGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
44045100 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
44045145 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
44045193 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
44045239 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
44045284 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
44045332 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
44045378 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
44045412 GGGGCGGGTT
Statistics
Matches: 263, Mismatches: 30, Indels: 38
0.79 0.09 0.11
Matches are distributed among these distances:
42 4 0.02
43 8 0.03
45 8 0.03
46 171 0.65
47 56 0.21
48 6 0.02
50 6 0.02
51 4 0.02
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:44045210 original size:93 final size:91
Alignment explanation
Indices: 44045051--44045409 Score: 340
Period size: 93 Copynumber: 3.9 Consensus size: 91
44045041 GGATGGTTGA
* * **
44045051 GCATCCGAACTCGTGGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
44045116 TGAGTCCGAGTTC-GTGAAATGTAACTAG
66 TGAGTCCGAGTTCACT-AAATG-AACT-G
*
44045144 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
* *
44045209 TGAGTCCGAGTTCACT-TATGGA-TG
66 TGAGTCCGAGTTCACTAAATGAACTG
* * * * * *
44045233 CGAATGTTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGCATCCGAACT
1 -GCA--TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC--CCGAACT
* *
44045294 CGTTGAGTTGAGTCCGAGTTCACT-TATGGA-TG
58 CGTTGAGTTGAGTCCGAGTTCACTAAATGAACTG
** * * *
44045326 CGAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCTGAGCTCGTTG
1 -G--CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTG
44045391 AGTTGAGTCCGAGTTCACT
63 AGTTGAGTCCGAGTTCACT
44045410 TAGGGGCGGG
Statistics
Matches: 225, Mismatches: 26, Indels: 31
0.80 0.09 0.11
Matches are distributed among these distances:
88 3 0.01
89 4 0.02
90 3 0.01
91 5 0.02
92 60 0.27
93 139 0.62
94 5 0.02
96 3 0.01
97 3 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (91 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCACTAAATGAACTG
Found at i:44045285 original size:139 final size:139
Alignment explanation
Indices: 44045055--44045406 Score: 643
Period size: 139 Copynumber: 2.5 Consensus size: 139
44045045 GGTTGAGCAT
* *
44045055 CCGAACTCGTGGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGTTGAG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGTTGAG
44045120 TCCGAGTTCGTGAAATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
66 TCCGAGTTCGTGAAATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
44045185 TGCGAACGC
131 TGCGAACGC
44045194 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGTTGAG
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGTTGAG
44045259 TCCGAGTTCGTGAAATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
66 TCCGAGTTCGTGAAATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
44045324 TGCGAACGC
131 TGCGAACGC
* * *
44045333 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAGTTGA
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTC-GAACTCGTTGAGTTGA
44045397 GTCCGAGTTC
65 GTCCGAGTTC
44045407 ACTTAGGGGC
Statistics
Matches: 207, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
138 1 0.00
139 206 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (139 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGTTGAG
TCCGAGTTCGTGAAATGTAACTAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA
TGCGAACGC
Found at i:44050388 original size:46 final size:45
Alignment explanation
Indices: 44050321--44050496 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 45
44050311 TATTTGGGCA
44050321 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCTAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATG-TAATG
*
44050367 TCCGAACTCGTTGAGTTGAGTCCGAGTT---C-GTGAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATG-GATGTAA-T--G
* * *
44050412 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGT-AATG
* * *
44050460 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGG
44050497 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 8, Indels: 22
0.79 0.06 0.16
Matches are distributed among these distances:
42 5 0.05
43 6 0.05
45 1 0.01
46 62 0.56
47 27 0.24
48 1 0.01
50 5 0.05
51 4 0.04
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGTAATG
Found at i:44050476 original size:93 final size:93
Alignment explanation
Indices: 44050317--44050488 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
44050307 AGGATATTTG
* *
44050317 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCTAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCTAACGCCCGAACTCGTTGAG
44050382 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
44050410 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATG-TGAACGCCCGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCT-AACGCCCGAACTCGTTGA
44050474 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
44050489 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCTAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:44053392 original size:15 final size:15
Alignment explanation
Indices: 44053372--44053440 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
44053362 GTATCTCGGG
44053372 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
44053387 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
44053402 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
44053417 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
44053432 TTTCTTTAT
1 TTTCTTTAT
44053441 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:44053441 original size:30 final size:30
Alignment explanation
Indices: 44053363--44053450 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 30
44053353 CATAGTATCG
* * * * *
44053363 TATCTCGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
44053393 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
44053423 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
44053451 TGTTATCTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
29 8 0.16
30 40 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:44055427 original size:46 final size:45
Alignment explanation
Indices: 44055360--44055535 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 45
44055350 TATTTGGGCA
*
44055360 TCCGAACTTGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATG-GAATG
* *
44055406 TCCGAACTCGTTGAGTTGAGTCCGAGTT---C-GTGAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATG-GATGGAA-T--G
* *
44055451 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATG-GAATG
* *
44055499 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGG
44055536 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 8, Indels: 24
0.77 0.06 0.17
Matches are distributed among these distances:
42 4 0.04
43 6 0.05
45 2 0.02
46 61 0.55
47 28 0.25
48 1 0.01
50 4 0.04
51 4 0.04
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGGAATG
Found at i:44055515 original size:93 final size:93
Alignment explanation
Indices: 44055356--44055527 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
44055346 AGGATATTTG
* *
44055356 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAG
44055421 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
44055449 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG-CTCGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTC-CGAACTCGTTGA
44055513 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
44055528 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:44058085 original size:47 final size:48
Alignment explanation
Indices: 44057875--44058195 Score: 254
Period size: 47 Copynumber: 6.7 Consensus size: 48
44057865 GGATAAGTTA
* * *
44057875 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCGTCATCGAAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATC-AGG
* * * *
44057924 CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATATACGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCAT-CAT-CA-G-G
** ** *
44057976 CTAATGCCATGTCCCAGACATCATCTTATACTAGC-A-CAACTC-TCA-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATC-A-TCATCAGG
*
44058022 CCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCATCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATC-AGG
* * * *
44058069 CCAATG-CATGTCCCAGACAT-GTCTTACACTAGC-ACTCGT-TTCAATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTA-TCATCATC-AGG
* * * *
44058115 CCGATGCCATGTCCCAGACATGGTCTTACACTATCTCTCGTAAT-ATGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCA-GG
*
44058163 CCGATG-CATGTCGCAGACAT-GTCTTACACTAGC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGC
44058196 ACACACATAA
Statistics
Matches: 221, Mismatches: 34, Indels: 37
0.76 0.12 0.13
Matches are distributed among these distances:
44 12 0.05
45 18 0.08
46 29 0.13
47 63 0.29
48 23 0.10
49 39 0.18
50 5 0.02
51 1 0.00
52 31 0.14
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCATCAGG
Found at i:44058135 original size:94 final size:94
Alignment explanation
Indices: 44057882--44058197 Score: 315
Period size: 94 Copynumber: 3.3 Consensus size: 94
44057872 TTACCGATGC
* * *
44057882 CATGTCCCAGACATGGTCTTACACTGGCTA-TCGTCATCGAAGCCGATGCCATGTCCCAAACATG
1 CATGTCCCAGACATCGTCTTACACTAGC-ACTCGT-ATC-AAGCCGATGCCATGTCCCAGACATG
*
44057946 GTCTTACACTAGCTCTCATATATATACGTGCTAATG
63 GTCTTACACTAGCTCTC--ATA-ATACG-GCCAATG
* * * *
44057982 CCATGTCCCAGACATCATCTTATACTAGCACAAC-TCTC-AGCCGATG-CATGTCCCAGACAT-G
1 -CATGTCCCAGACATCGTCTTACACTAGCAC-TCGTATCAAGCCGATGCCATGTCCCAGACATGG
* * *
44058043 TCTTACACTGGCTATCATCAT-CGAGGCCAATG
64 TCTTACACTAGCTCTCATAATAC--GGCCAATG
*
44058075 CATGTCCCAGACAT-GTCTTACACTAGCACTCGTTTCAATGCCGATGCCATGTCCCAGACATGGT
1 CATGTCCCAGACATCGTCTTACACTAGCACTCGTATCAA-GCCGATGCCATGTCCCAGACATGGT
* * * *
44058139 CTTACACTATCTCTCGTAATATGGCCGATG
65 CTTACACTAGCTCTCATAATACGGCCAATG
*
44058169 CATGTCGCAGACAT-GTCTTACACTAGCAC
1 CATGTCCCAGACATCGTCTTACACTAGCAC
44058198 ACACATAACC
Statistics
Matches: 182, Mismatches: 23, Indels: 27
0.78 0.10 0.12
Matches are distributed among these distances:
90 1 0.01
91 16 0.09
92 16 0.09
93 15 0.08
94 52 0.29
95 17 0.09
96 15 0.08
97 13 0.07
98 8 0.04
100 3 0.02
101 25 0.14
102 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (94 bp):
CATGTCCCAGACATCGTCTTACACTAGCACTCGTATCAAGCCGATGCCATGTCCCAGACATGGTC
TTACACTAGCTCTCATAATACGGCCAATG
Found at i:44065579 original size:52 final size:49
Alignment explanation
Indices: 44065454--44065772 Score: 236
Period size: 47 Copynumber: 6.7 Consensus size: 49
44065444 ATAAGTTGCC
*
44065454 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCGTCATTGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCGTCATTGAGGCT
* *
44065503 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGT-ATATATACGTGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCGTCAT-T-GA-G-GCT
* * ** * *
44065555 GATGCCATGTCCCAGACATTGTCTTATACTAGC-A-CAAC-TCTCA-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCGTCAT-TGAGGCT
* * * * * *
44065601 GATG-CATGTCCCAAACAT-GTCTTACACTGGCTATCATTATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCGTCATTGAGGCT
* * * * *
44065648 GATG-CATGTGCCAAACAT-GTCTTACAATAGC-ACTCGTC-TTAATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTA-TCGTCATTGAGGCT
* * * * *
44065694 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAG--AATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTATC-GTCATTGAGGCT
*
44065742 GATG-CATGTCCCAAACAT-GTCTTACACTAGC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGC
44065773 ACACAAATAA
Statistics
Matches: 216, Mismatches: 39, Indels: 33
0.75 0.14 0.11
Matches are distributed among these distances:
44 11 0.05
45 14 0.06
46 30 0.14
47 60 0.28
48 22 0.10
49 40 0.19
50 4 0.02
51 1 0.00
52 34 0.16
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTATCGTCATTGAGGCT
Found at i:44065713 original size:94 final size:94
Alignment explanation
Indices: 44065451--44065774 Score: 322
Period size: 94 Copynumber: 3.4 Consensus size: 94
44065441 GGGATAAGTT
* * *
44065451 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTA-TCGTCATTGAGGCTGATGCCATGTCC
1 GCCGATGCCATGTCCCAAACAT-GTCTTACACTAGC-ACTCGTC-TT-AAGCTGATGCCATGTCC
* *
44065515 CAGACATGGTCTTACACTAGCTCTCGTATATATACGT
62 CAGACATGGTCTTACACTGGCTCTC--AT-TAT-CGG
* * * * * *
44065552 GCTGATGCCATGTCCCAGACATTGTCTTATACTAGCACAAC-TC-TCAGCCGATG-CATGTCCCA
1 GCCGATGCCATGTCCCAAACA-TGTCTTACACTAGCAC-TCGTCTTAAGCTGATGCCATGTCCCA
* *
44065614 AACAT-GTCTTACACTGGCTATCATTATCGAG
64 GACATGGTCTTACACTGGCTCTCATTATCG-G
* *
44065645 GCCGATG-CATGTGCCAAACATGTCTTACAATAGCACTCGTCTTAATGCTGATGCCATGTCCCAG
1 GCCGATGCCATGTCCCAAACATGTCTTACACTAGCACTCGTCTTAA-GCTGATGCCATGTCCCAG
**
44065709 ACATGGTCTTACACTGGCTCTCAGAAT-GTG
65 ACATGGTCTTACACTGGCTCTCATTATCG-G
44065739 GCCGATG-CATGTCCCAAACATGTCTTACACTAGCAC
1 GCCGATGCCATGTCCCAAACATGTCTTACACTAGCAC
44065775 ACAAATAACT
Statistics
Matches: 188, Mismatches: 26, Indels: 25
0.79 0.11 0.10
Matches are distributed among these distances:
90 1 0.01
91 16 0.09
92 15 0.08
93 15 0.08
94 51 0.27
95 19 0.10
96 15 0.08
97 13 0.07
98 6 0.03
99 1 0.01
100 1 0.01
101 33 0.18
102 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (94 bp):
GCCGATGCCATGTCCCAAACATGTCTTACACTAGCACTCGTCTTAAGCTGATGCCATGTCCCAGA
CATGGTCTTACACTGGCTCTCATTATCGG
Found at i:44067474 original size:27 final size:27
Alignment explanation
Indices: 44067444--44067521 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 27
44067434 AGGGGCAAAA
*
44067444 TGGTAATTTTACAAACCAGGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
**
44067471 TGGTAATTTTGTAAACCAAGGGTATTT
1 TGGTAATTTTACAAACCAAGGGTATTT
** ** *
44067498 CAGTAATTTTGTAAATCAAGGGTA
1 TGGTAATTTTACAAACCAAGGGTA
44067522 AAATGGTAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.37
Consensus pattern (27 bp):
TGGTAATTTTACAAACCAAGGGTATTT
Found at i:44067530 original size:27 final size:27
Alignment explanation
Indices: 44067500--44067671 Score: 254
Period size: 27 Copynumber: 6.4 Consensus size: 27
44067490 GGGTATTTCA
* *
44067500 GTAATTTTGTAAATCAAGGGTAAAATG
1 GTAATTCTATAAATCAAGGGTAAAATG
* *
44067527 GTAATTCTATAAATCGAGAGTAAAATG
1 GTAATTCTATAAATCAAGGGTAAAATG
* * *
44067554 GTAATTCTGTAAATCAAGGGTAAGACG
1 GTAATTCTATAAATCAAGGGTAAAATG
44067581 GTAATTCTATAAATCAAGGGTAAAATG
1 GTAATTCTATAAATCAAGGGTAAAATG
* * *
44067608 ATAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCAAGGGTAAAATG
44067635 GTAATTCTATAAATCAAGGGTAAAATG
1 GTAATTCTATAAATCAAGGGTAAAATG
44067662 GTAATTCTAT
1 GTAATTCTAT
44067672 CTTATTTCGG
Statistics
Matches: 127, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 127 1.00
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (27 bp):
GTAATTCTATAAATCAAGGGTAAAATG
Found at i:44067565 original size:81 final size:81
Alignment explanation
Indices: 44067471--44067671 Score: 267
Period size: 81 Copynumber: 2.5 Consensus size: 81
44067461 AGGGGTATTT
* * *** * * *
44067471 TGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATCAAGGGTAAAATGGTAATTCTA
1 TGGTAATTCTGTAAATCAAGGGTAAGACAGTAATTCTATAAATCAAGGGTAAAATGATAATTCTA
44067536 TAAATCGAGAGTAAAA
66 TAAATCGAGAGTAAAA
*
44067552 TGGTAATTCTGTAAATCAAGGGTAAGACGGTAATTCTATAAATCAAGGGTAAAATGATAATTCTA
1 TGGTAATTCTGTAAATCAAGGGTAAGACAGTAATTCTATAAATCAAGGGTAAAATGATAATTCTA
*
44067617 TAAATCGAGGGTAAAA
66 TAAATCGAGAGTAAAA
* * * **
44067633 CGGTAATTCTATAAATCAAGGGTAAAATGGTAATTCTAT
1 TGGTAATTCTGTAAATCAAGGGTAAGACAGTAATTCTAT
44067672 CTTATTTCGG
Statistics
Matches: 106, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 106 1.00
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.31
Consensus pattern (81 bp):
TGGTAATTCTGTAAATCAAGGGTAAGACAGTAATTCTATAAATCAAGGGTAAAATGATAATTCTA
TAAATCGAGAGTAAAA
Found at i:44067704 original size:27 final size:27
Alignment explanation
Indices: 44067674--44067765 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
44067664 AATTCTATCT
*
44067674 TATTTCGGTAATTTTACAAATCGAGGA
1 TATTTCGGTAATTTTACAAATCGAGGG
* * *
44067701 TATTTGGGTAATTTTATAAATCGGGGG
1 TATTTCGGTAATTTTACAAATCGAGGG
*
44067728 TACTTT-GGTAATTTTACAAGTCGAGGG
1 TA-TTTCGGTAATTTTACAAATCGAGGG
*
44067755 TATTTCAGTAA
1 TATTTCGGTAA
44067766 AGTATTCTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
26 3 0.05
27 49 0.89
28 3 0.05
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (27 bp):
TATTTCGGTAATTTTACAAATCGAGGG
Found at i:44078093 original size:43 final size:42
Alignment explanation
Indices: 44078043--44078138 Score: 140
Period size: 43 Copynumber: 2.3 Consensus size: 42
44078033 ATCCGAGCTC
*
44078043 GTTGAGTGGTCTAAGTTCGTGATATATGTGAGA-ATCCAAACTT
1 GTTGAGTGGTCAAAGTTCGTGATATATGT-A-ACATCCAAACTT
* *
44078086 GTTGAGTGGTCAAAGTTCGTGATATATGTAACATCCGAGCTT
1 GTTGAGTGGTCAAAGTTCGTGATATATGTAACATCCAAACTT
44078128 GTTGAGTGGTC
1 GTTGAGTGGTC
44078139 CATGTTCTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
41 1 0.02
42 20 0.41
43 28 0.57
ACGTcount: A:0.25, C:0.12, G:0.28, T:0.34
Consensus pattern (42 bp):
GTTGAGTGGTCAAAGTTCGTGATATATGTAACATCCAAACTT
Found at i:44078479 original size:16 final size:17
Alignment explanation
Indices: 44078447--44078481 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
44078437 AAACGTATGA
*
44078447 ATAATGCCTTGGTAAAG
1 ATAACGCCTTGGTAAAG
44078464 ATAACGCCTT-GTAAAG
1 ATAACGCCTTGGTAAAG
44078480 AT
1 AT
44078482 CGATTTATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (17 bp):
ATAACGCCTTGGTAAAG
Found at i:44085861 original size:22 final size:22
Alignment explanation
Indices: 44085836--44085884 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
44085826 GACACAAGTT
*
44085836 CGTGTCCCTGTGTCCACACGGG
1 CGTGTCCCTATGTCCACACGGG
*
44085858 CGTGTCCCTATGTCTACACGGG
1 CGTGTCCCTATGTCCACACGGG
44085880 CGTGT
1 CGTGT
44085885 GACCCTGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.10, C:0.33, G:0.31, T:0.27
Consensus pattern (22 bp):
CGTGTCCCTATGTCCACACGGG
Found at i:44099838 original size:6 final size:6
Alignment explanation
Indices: 44099820--44099932 Score: 63
Period size: 6 Copynumber: 18.3 Consensus size: 6
44099810 AAGAAACATT
* *
44099820 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * * *
44099869 ATCAGT ATTAGGTA A-CAGA ATCAAA ATCAGA ATCGGT ATCAGGTA AT-AGA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
*
44099919 ATCAAA ATCAGA AT
1 ATCAGA ATCAGA AT
44099933 GTGAATGCAA
Statistics
Matches: 80, Mismatches: 16, Indels: 22
0.68 0.14 0.19
Matches are distributed among these distances:
5 7 0.09
6 62 0.77
7 7 0.09
8 4 0.05
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:44099865 original size:25 final size:25
Alignment explanation
Indices: 44099834--44099901 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
44099824 GAACTAGAAT
*
44099834 CAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATTAGGTAA
*
44099859 CAGAATCAGAATCAGTATTAGGTAA
1 CAGAATCAGAATCAGAATTAGGTAA
*
44099884 CAGAATCAAAATCAGAAT
1 CAGAATCAGAATCAGAAT
44099902 CGGTATCAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATTAGGTAA
Found at i:44099865 original size:31 final size:29
Alignment explanation
Indices: 44099829--44099932 Score: 99
Period size: 31 Copynumber: 3.6 Consensus size: 29
44099819 TATCAGAACT
* *
44099829 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATC-G-ATTAGGTAAC
*
44099860 AGAATCAGAATCAG--T--ATTAGGTAAC
1 AGAATCAAAATCAGAATCGATTAGGTAAC
* *
44099885 AGAATCAAAATCAGAATCGGTATCAGGTAAT
1 AGAATCAAAATCAGAATC-G-ATTAGGTAAC
44099916 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
44099933 GTGAATGCAA
Statistics
Matches: 63, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
25 22 0.35
27 1 0.02
29 1 0.02
31 39 0.62
ACGTcount: A:0.47, C:0.12, G:0.19, T:0.21
Consensus pattern (29 bp):
AGAATCAAAATCAGAATCGATTAGGTAAC
Found at i:44100352 original size:27 final size:27
Alignment explanation
Indices: 44100292--44100354 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
44100282 AGTCACTTGG
*
44100292 CCACAAGGGCAAAATAGTCATTTAACA
1 CCACAAGGGCAAAATAGTAATTTAACA
* * *
44100319 CCTCAAGGGCAAAATGGTAATTGT-ACC
1 CCACAAGGGCAAAATAGTAATT-TAACA
44100346 CCACAAGGG
1 CCACAAGGG
44100355 TATCTCGGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 29 0.97
28 1 0.03
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (27 bp):
CCACAAGGGCAAAATAGTAATTTAACA
Found at i:44100364 original size:27 final size:27
Alignment explanation
Indices: 44100334--44100582 Score: 338
Period size: 27 Copynumber: 9.3 Consensus size: 27
44100324 AGGGCAAAAT
* * *
44100334 GGTAATTGTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
44100361 GGTAATTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
44100388 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
44100415 GGTCATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
44100442 GGTAA-TCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
44100468 CGTTATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
44100495 GGTAATTCTACCCTACAGGGGCATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
44100522 AGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
44100549 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
44100576 GGTAATT
1 GGTAATT
44100583 TCACAAAGCA
Statistics
Matches: 196, Mismatches: 25, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 22 0.11
27 174 0.89
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:44100594 original size:27 final size:27
Alignment explanation
Indices: 44100537--44100637 Score: 116
Period size: 27 Copynumber: 3.7 Consensus size: 27
44100527 TTCTACCCTA
**
44100537 CAAGGGTATTTTGGTAA-TTCTACCCTA-
1 CAAGGGTATTTTGGTAATTTC-A-CAAAC
* *
44100564 CAAGGGTATTTCGGTAATTTCACAAAG
1 CAAGGGTATTTTGGTAATTTCACAAAC
*
44100591 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTCACAAAC
*
44100618 CAATGGTATTTTGGTAATTT
1 CAAGGGTATTTTGGTAATTT
44100638 GATTGATCGA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 2 0.03
27 60 0.92
28 3 0.05
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTCACAAAC
Found at i:44100688 original size:27 final size:27
Alignment explanation
Indices: 44100673--44100856 Score: 244
Period size: 27 Copynumber: 6.8 Consensus size: 27
44100663 TTTTTATATT
*
44100673 GAGGGTAAAATGGTAATTCTATAAATT
1 GAGGGTAAAATGGTAATTCTATAAATC
* ** *
44100700 GAGGGTAAGACAGTAATT-TCGTAAATC
1 GAGGGTAAAATGGTAATTCT-ATAAATC
*
44100727 GAGGGTAAAATAGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
* *
44100754 GAGGGTAAAACGGTAATTCTATAAATT
1 GAGGGTAAAATGGTAATTCTATAAATC
*
44100781 GAGGGTAAAATAGTAATTCTATAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
* * *
44100808 GAGGTTAAAATGATAATTCTGTAAATC
1 GAGGGTAAAATGGTAATTCTATAAATC
44100835 GAGGGTAAAATGGTAATTCTAT
1 GAGGGTAAAATGGTAATTCTAT
44100857 CTTACAGGAG
Statistics
Matches: 134, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 1 0.01
27 132 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (27 bp):
GAGGGTAAAATGGTAATTCTATAAATC
Found at i:44100716 original size:81 final size:81
Alignment explanation
Indices: 44100673--44100856 Score: 273
Period size: 81 Copynumber: 2.3 Consensus size: 81
44100663 TTTTTATATT
* *
44100673 GAGGGTAAAATGGTAATTCTATAAATTGAGGGTAAGACAGTAATTTCGTAAATCGAGGGTAAAAT
1 GAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAACAGTAATTTCGTAAATCGAGGGTAAAAT
44100738 AGTAATTCTATAAATC
66 AGTAATTCTATAAATC
* * *
44100754 GAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAATAGTAA-TTCTATAAATCGAGGTTAAAA
1 GAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAACAGTAATTTC-GTAAATCGAGGGTAAAA
*
44100818 T-GATAATTCTGTAAATC
65 TAG-TAATTCTATAAATC
*
44100835 GAGGGTAAAATGGTAATTCTAT
1 GAGGGTAAAACGGTAATTCTAT
44100857 CTTACAGGAG
Statistics
Matches: 94, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
80 4 0.04
81 90 0.96
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (81 bp):
GAGGGTAAAACGGTAATTCTATAAATTGAGGGTAAAACAGTAATTTCGTAAATCGAGGGTAAAAT
AGTAATTCTATAAATC
Found at i:44100896 original size:27 final size:27
Alignment explanation
Indices: 44100866--44101015 Score: 167
Period size: 27 Copynumber: 5.6 Consensus size: 27
44100856 TCTTACAGGA
44100866 GTATTTCAGTAATTTTACAAATTGAGG
1 GTATTTCAGTAATTTTACAAATTGAGG
* * *
44100893 GTATTTTAGTAATTTTGCAAACTGAGG
1 GTATTTCAGTAATTTTACAAATTGAGG
* *
44100920 GTATTTCTGTAATTTTACAAATCGAGG
1 GTATTTCAGTAATTTTACAAATTGAGG
* ** * * *
44100947 ATATTTGGGTAATTTTATAAATCGGGG
1 GTATTTCAGTAATTTTACAAATTGAGG
* *
44100974 GTACTTT-GGTAATTTTACAAGTTGAGG
1 GTA-TTTCAGTAATTTTACAAATTGAGG
44101001 GTATTTCAGTAATTT
1 GTATTTCAGTAATTT
44101016 GGTAAACTAA
Statistics
Matches: 102, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 3 0.03
27 96 0.94
28 3 0.03
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAATTGAGG
Found at i:44100932 original size:81 final size:81
Alignment explanation
Indices: 44100862--44101014 Score: 189
Period size: 81 Copynumber: 1.9 Consensus size: 81
44100852 TCTATCTTAC
* * *
44100862 AGGAGTATTTCAGTAATTTTACAAATTGAGGGTATTTTAGTAATTTTGCAAACTGAGGGTATTTC
1 AGGA-TATTTCAGTAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAAACTGAGGGTATTTC
* *
44100927 TGTAATTTTACAAATCG
65 AGTAATTCTACAAATCG
** * * * **
44100944 AGGATATTTGGGTAATTTTATAAATCGGGGGTACTTTGGTAATTTTACAAGTTGAGGGTATTTCA
1 AGGATATTTCAGTAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAAACTGAGGGTATTTCA
44101009 GTAATT
66 GTAATT
44101015 TGGTAAACTA
Statistics
Matches: 60, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
81 56 0.93
82 4 0.07
ACGTcount: A:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (81 bp):
AGGATATTTCAGTAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAAACTGAGGGTATTTCA
GTAATTCTACAAATCG
Found at i:44113951 original size:22 final size:22
Alignment explanation
Indices: 44113926--44113968 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
44113916 GGCCTTTAGC
*
44113926 CATCCTGTCTATGAAGTTGAGT
1 CATCCTGTCTACGAAGTTGAGT
*
44113948 CATCCTGTCTACGACGTTGAG
1 CATCCTGTCTACGAAGTTGAG
44113969 CTGTCTTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (22 bp):
CATCCTGTCTACGAAGTTGAGT
Found at i:44123188 original size:47 final size:47
Alignment explanation
Indices: 44123116--44123212 Score: 176
Period size: 47 Copynumber: 2.1 Consensus size: 47
44123106 ATGGCTAAAT
* *
44123116 ATAAACATTACAAAACCTATTCAAAGTACTTCTAGCCTATACATGCC
1 ATAAACATTACAAAACATATCCAAAGTACTTCTAGCCTATACATGCC
44123163 ATAAACATTACAAAACATATCCAAAGTACTTCTAGCCTATACATGCC
1 ATAAACATTACAAAACATATCCAAAGTACTTCTAGCCTATACATGCC
44123210 ATA
1 ATA
44123213 CTTTAGTAGA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.42, C:0.25, G:0.06, T:0.27
Consensus pattern (47 bp):
ATAAACATTACAAAACATATCCAAAGTACTTCTAGCCTATACATGCC
Found at i:44128814 original size:37 final size:37
Alignment explanation
Indices: 44128713--44128815 Score: 152
Period size: 37 Copynumber: 2.8 Consensus size: 37
44128703 CGAATAGTCC
* *
44128713 CCACACGTAGTTATCGGGTCTTACCCGAACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
* ***
44128750 CCATACGTAGTCATCGGGTCTTACCCGGACGTCATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
44128787 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
44128816 ATATATTTCC
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:44129014 original size:48 final size:48
Alignment explanation
Indices: 44128956--44129188 Score: 412
Period size: 48 Copynumber: 4.9 Consensus size: 48
44128946 ATATACACAC
* *
44128956 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
44129004 ATCTCATACATATTTCACATTAGTCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
44129052 ATCTCGTACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
44129100 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
44129148 ATCTCATATATATTTCACATTAGCCATTCGGCTTTAGCACA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
44129189 CACATATATA
Statistics
Matches: 177, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 177 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:44136412 original size:40 final size:40
Alignment explanation
Indices: 44136382--44136643 Score: 245
Period size: 39 Copynumber: 6.6 Consensus size: 40
44136372 GCTACTCGTT
*
44136382 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
44136422 CAATTGCCTTCGGGACTTAACCCGGATT-TAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
44136462 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * *
44136501 CAATTGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
** *
44136540 CAAATGCCTTCGGGA-TTAGCCC-GAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
44136579 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTTACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
*
44136620 TAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
44136644 ACATCATTCA
Statistics
Matches: 193, Mismatches: 19, Indels: 20
0.83 0.08 0.09
Matches are distributed among these distances:
38 4 0.02
39 103 0.53
40 71 0.37
41 15 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:44136503 original size:39 final size:39
Alignment explanation
Indices: 44136382--44136591 Score: 287
Period size: 39 Copynumber: 5.3 Consensus size: 39
44136372 GCTACTCGTT
* * *
44136382 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCA
* * * * *
44136422 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCACA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
44136462 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
*
44136501 CAATTGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* *
44136540 CAAATGCCTTCGGGATTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
44136579 CAAATGCCTTCGG
1 CAAATGCCTTCGG
44136592 ATCTTAGTCC
Statistics
Matches: 156, Mismatches: 13, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 108 0.69
40 46 0.29
41 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:44138916 original size:12 final size:13
Alignment explanation
Indices: 44138899--44138927 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
44138889 GCAATTTAAA
44138899 TTTTATT-CTAAT
1 TTTTATTACTAAT
44138911 TTTTATTACTAAT
1 TTTTATTACTAAT
44138924 TTTT
1 TTTT
44138928 CTTTTTTCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTATTACTAAT
Found at i:44151212 original size:51 final size:50
Alignment explanation
Indices: 44151135--44151312 Score: 182
Period size: 52 Copynumber: 3.5 Consensus size: 50
44151125 CGGATACTCG
* *
44151135 GTGG-CTTGCACATAGTACCACCCTTGTAGTCAAAGCAACCTTCTTCACAAA
1 GTGGCCTT-CACATAGTACCACACTTGT-GACAAAGCAACCTTCTTCACAAA
* * * *
44151186 GTGGCCTTCACATAGTACTACACTTGTGACCAAAGCTATCTTTCTTCAAAAA
1 GTGGCCTTCACATAGTACCACACTTGTGA-CAAAGC-AACCTTCTTCACAAA
* * * * * *
44151238 GTGGCCTTC-CTATAGCACCACACTTGCGACCAAGCTATC-TCTTCTCAAA
1 GTGGCCTTCAC-ATAGTACCACACTTGTGACAAAGCAACCTTCTTCACAAA
44151287 GTGGCCTTCACATAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
44151313 AGTTACTAGT
Statistics
Matches: 105, Mismatches: 17, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
49 31 0.30
50 2 0.02
51 33 0.31
52 39 0.37
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (50 bp):
GTGGCCTTCACATAGTACCACACTTGTGACAAAGCAACCTTCTTCACAAA
Found at i:44151261 original size:52 final size:51
Alignment explanation
Indices: 44151174--44151312 Score: 187
Period size: 52 Copynumber: 2.7 Consensus size: 51
44151164 TCAAAGCAAC
* *
44151174 CTTCTTCACAAAGTGGCCTTCACATAGTACTACACTTGTGACCAAAGCTATCT
1 CTTCTTCA-AAAGTGGCCTTCACATAGTACCACACTTGCGACC-AAGCTATCT
*
44151227 -TTCTTCAAAAAGTGGCCTTC-CTATAGCACCACACTTGCGACCAAGCTATCT
1 CTTCTTC-AAAAGTGGCCTTCAC-ATAGTACCACACTTGCGACCAAGCTATCT
44151278 CTTC-TC-AAAGTGGCCTTCACATAGTACCACACTTG
1 CTTCTTCAAAAGTGGCCTTCACATAGTACCACACTTG
44151313 AGTTACTAGT
Statistics
Matches: 78, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
49 26 0.33
50 1 0.01
51 12 0.15
52 38 0.49
53 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (51 bp):
CTTCTTCAAAAGTGGCCTTCACATAGTACCACACTTGCGACCAAGCTATCT
Found at i:44155750 original size:27 final size:27
Alignment explanation
Indices: 44155685--44155750 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
44155675 AAAACACCAG
*
44155685 CTCGCCAGGCCCTCTAAGGAACCCCAA
1 CTCGCCAGGCCTTCTAAGGAACCCCAA
* * *
44155712 CTTGCCAAGCCTTCT-AGAGAACCCTAA
1 CTCGCCAGGCCTTCTAAG-GAACCCCAA
*
44155739 CTCGTCAGGCCT
1 CTCGCCAGGCCT
44155751 AATGGCGAAC
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
26 2 0.06
27 29 0.94
ACGTcount: A:0.24, C:0.39, G:0.18, T:0.18
Consensus pattern (27 bp):
CTCGCCAGGCCTTCTAAGGAACCCCAA
Found at i:44159154 original size:56 final size:56
Alignment explanation
Indices: 44159089--44159202 Score: 228
Period size: 56 Copynumber: 2.0 Consensus size: 56
44159079 ACCAATAAGT
44159089 ATATAACTCATAATAACAAGAAAACATTTATCACATAATATCAAAACATTAAAAAC
1 ATATAACTCATAATAACAAGAAAACATTTATCACATAATATCAAAACATTAAAAAC
44159145 ATATAACTCATAATAACAAGAAAACATTTATCACATAATATCAAAACATTAAAAAC
1 ATATAACTCATAATAACAAGAAAACATTTATCACATAATATCAAAACATTAAAAAC
44159201 AT
1 AT
44159203 GCTACAACAC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.57, C:0.16, G:0.02, T:0.25
Consensus pattern (56 bp):
ATATAACTCATAATAACAAGAAAACATTTATCACATAATATCAAAACATTAAAAAC
Found at i:44168214 original size:46 final size:46
Alignment explanation
Indices: 44168161--44168279 Score: 193
Period size: 46 Copynumber: 2.6 Consensus size: 46
44168151 ACATATCTCA
* *
44168161 CATTAGCCATTTGGCTTTACCACATATCCATCTCACACACGTTTCG
1 CATTAGCCATTAGGCTTTACCACATATCCATCTCACACACATTTCG
* * *
44168207 CATTAGCCATTCGGCTTTACCTCATATCCATCTCATACACATTTCG
1 CATTAGCCATTAGGCTTTACCACATATCCATCTCACACACATTTCG
44168253 CATTAGCCATTAGGCTTTACCACATAT
1 CATTAGCCATTAGGCTTTACCACATAT
44168280 ATACACTTCC
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 67 1.00
ACGTcount: A:0.25, C:0.31, G:0.10, T:0.34
Consensus pattern (46 bp):
CATTAGCCATTAGGCTTTACCACATATCCATCTCACACACATTTCG
Found at i:44168324 original size:47 final size:47
Alignment explanation
Indices: 44168287--44168489 Score: 302
Period size: 47 Copynumber: 4.3 Consensus size: 47
44168277 TATATACACT
* * * *
44168287 TCCACGTTCATCACATTGGCCATTCTGCCTTATCACATATATGCTTG
1 TCCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATG
* * *
44168334 TTCACATTTATCACATTGGCCATTCGACCTTATCACACATATGCATG
1 TCCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATG
44168381 -CTCACATTCATCACATTGG-CATTCGGCCTTATCACACATATGCATG
1 TC-CACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATG
*
44168427 TTCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATG
1 TCCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATG
*
44168474 TTCACATTCATCACAT
1 TCCACATTCATCACAT
44168490 AAAATCCTAA
Statistics
Matches: 142, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
46 43 0.30
47 99 0.70
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (47 bp):
TCCACATTCATCACATTGGCCATTCGGCCTTATCACACATATGCATG
Found at i:44168394 original size:25 final size:24
Alignment explanation
Indices: 44168365--44168488 Score: 70
Period size: 23 Copynumber: 5.2 Consensus size: 24
44168355 ATTCGACCTT
44168365 ATCACACATATGCATGCTCACATTC
1 ATCACACATATGCATG-TCACATTC
* *
44168390 AT--CACAT-TGGCAT-TCGGCCTT-
1 ATCACACATAT-GCATGTC-ACATTC
44168411 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATG-TCACATTC
* *
44168436 AT--CACAT-TGGCCAT-TCGGCCTT-
1 ATCACACATAT-G-CATGTC-ACATTC
44168458 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATG-TCACATTC
44168483 ATCACA
1 ATCACA
44168489 TAAAATCCTA
Statistics
Matches: 74, Mismatches: 8, Indels: 34
0.64 0.07 0.29
Matches are distributed among these distances:
21 4 0.05
22 9 0.12
23 30 0.41
24 16 0.22
25 15 0.20
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.31
Consensus pattern (24 bp):
ATCACACATATGCATGTCACATTC
Found at i:44168415 original size:93 final size:94
Alignment explanation
Indices: 44168293--44168489 Score: 333
Period size: 93 Copynumber: 2.1 Consensus size: 94
44168283 CACTTCCACG
* * * *
44168293 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCTTGTTCACATTTATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
44168358 CGACCTTATCACACATATGCATGCTCACA
66 CGACCTTATCACACATATGCATGCTCACA
44168387 TTCATCACATTGG-CATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
1 TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
* *
44168451 CGGCCTTATCACACATATGCATGTTCACA
66 CGACCTTATCACACATATGCATGCTCACA
44168480 TTCATCACAT
1 TTCATCACAT
44168490 AAAATCCTAA
Statistics
Matches: 97, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
93 84 0.87
94 13 0.13
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (94 bp):
TTCATCACATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATT
CGACCTTATCACACATATGCATGCTCACA
Done.