Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 100 of 343
Found at i:33464014 original size:27 final size:27
Alignment explanation
Indices: 33463940--33464002 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
33463930 AAAATGACTA
*
33463940 TGCCCTTATGTGGTAAAATAATTGTTT
1 TGCCCTTATGTGGTAAAATGATTGTTT
33463967 TGCCCTTATGTGGTAAAATGATTGTTT
1 TGCCCTTATGTGGTAAAATGATTGTTT
33463994 TGCCCTTAT
1 TGCCCTTAT
33464003 ATAGTAAGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.44
Consensus pattern (27 bp):
TGCCCTTATGTGGTAAAATGATTGTTT
Found at i:33464021 original size:27 final size:27
Alignment explanation
Indices: 33463940--33464026 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 27
33463930 AAAATGACTA
* * *
33463940 TGCCCTTATGTGGTAAAAT-AATTGTTT
1 TGCCCTTATATAGTAAAATGAA-TATTT
* * * *
33463967 TGCCCTTATGTGGTAAAATGATTGTTT
1 TGCCCTTATATAGTAAAATGAATATTT
*
33463994 TGCCCTTATATAGTAAGATGAATATTT
1 TGCCCTTATATAGTAAAATGAATATTT
*
33464021 TTCCCT
1 TGCCCT
33464027 ATGTTATGTA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.44
Consensus pattern (27 bp):
TGCCCTTATATAGTAAAATGAATATTT
Found at i:33464379 original size:18 final size:18
Alignment explanation
Indices: 33464356--33464400 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
33464346 TATTGTTTAA
*
33464356 ACTGTTACTACATTAATT
1 ACTGTTACTACACTAATT
*
33464374 ACTGTTACTACACTATTT
1 ACTGTTACTACACTAATT
*
33464392 ATTGTTACT
1 ACTGTTACT
33464401 GTAATGGGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.29, C:0.18, G:0.07, T:0.47
Consensus pattern (18 bp):
ACTGTTACTACACTAATT
Found at i:33474173 original size:40 final size:41
Alignment explanation
Indices: 33473978--33474159 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 41
33473968 AATGATGTCT
* * *
33473978 GGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-ATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAATCC
* * *
33474018 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAATCC
*
33474058 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCC
* *
33474097 GGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCC
*
33474137 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
33474160 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 34 0.28
40 77 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (41 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAATCC
Found at i:33474181 original size:79 final size:79
Alignment explanation
Indices: 33474028--33474192 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
33474018 GGACTAAGAT
* **
33474028 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
* *
33474093 ATCTGGGTTAAGTC
66 ATCTCGGTTAAATC
* * *
33474107 CCGAAGGCATTTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
33474170 TATAT-TCGGTTAAATT
63 TAAATCTCGGTTAAATC
33474186 CCGAAGG
1 CCGAAGG
33474193 TATGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.66
80 23 0.32
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCTCGGTTAAATC
Found at i:33474458 original size:47 final size:47
Alignment explanation
Indices: 33474384--33474645 Score: 407
Period size: 47 Copynumber: 5.6 Consensus size: 47
33474374 AAGGGTTGGT
33474384 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
33474431 AATGAGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
33474478 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
33474525 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * * *
33474572 AATGTGAAGGCGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
33474619 GATGTGAAAGTGCATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
33474646 TCCCGAAGGG
Statistics
Matches: 196, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 196 1.00
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.27
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:33474820 original size:37 final size:37
Alignment explanation
Indices: 33474764--33474842 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
33474754 CCGAGCTCTA
* *
33474764 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
33474801 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
33474838 AAGAC
1 AAGAC
33474843 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:33481863 original size:43 final size:43
Alignment explanation
Indices: 33481787--33481911 Score: 128
Period size: 43 Copynumber: 3.0 Consensus size: 43
33481777 AAACACATAT
* * * *
33481787 ATCACATA-CAATGCC-ATATCCCAGATATAGTCTTACATGTT
1 ATCACATACCGATGCCAATGTCCCAGATATGGTCTTACATGTA
** * *
33481828 ATCACATACCGATGCCTCTGTCCCAGATAGGGTCTTACACGTA
1 ATCACATACCGATGCCAATGTCCCAGATATGGTCTTACATGTA
* * * *
33481871 ATCTCATATCGATGCCAATGTCCCAGACATGGTATTACATG
1 ATCACATACCGATGCCAATGTCCCAGATATGGTCTTACATG
33481912 AAATTACACC
Statistics
Matches: 67, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
41 8 0.12
42 6 0.09
43 53 0.79
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (43 bp):
ATCACATACCGATGCCAATGTCCCAGATATGGTCTTACATGTA
Found at i:33483750 original size:40 final size:40
Alignment explanation
Indices: 33483518--33483783 Score: 324
Period size: 40 Copynumber: 6.7 Consensus size: 40
33483508 TTGAATGATG
* * * *
33483518 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
33483558 TCCGGACTAAGAT-CCGAAGGCATTTGTCCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
33483598 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
33483638 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
33483678 TCCTAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
33483718 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
33483759 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33483784 AACGAGTAGC
Statistics
Matches: 204, Mismatches: 18, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.00
40 194 0.95
41 9 0.04
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33483790 original size:80 final size:79
Alignment explanation
Indices: 33483518--33483816 Score: 329
Period size: 80 Copynumber: 3.7 Consensus size: 79
33483508 TTGAATGATG
* * * **
33483518 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTAAATCCGGGTTAAG-TCCCGAAGGCAT
* *
33483581 TTGTCCGAGATACTAAA
63 TTGTACGAGTTACTAAA
*
33483598 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTAAATCCGGGTTAAGTCCCGAAGGCATT
*
33483662 TGTGCGAGTTACTAAA
64 TGTACGAGTTACTAAA
** *
33483678 TCCTAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAATCCGGGTTAAGTCCCGAAGGCATTT
33483743 GTACGAGTTACTATAA
65 GTACGAGTTACTA-AA
* ** * * *
33483759 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTAAATCCGGGTTAAGTCCCGAAGG
33483817 TATGTGATTT
Statistics
Matches: 189, Mismatches: 23, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
79 18 0.10
80 160 0.85
81 11 0.06
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
TACGAGTTACTAAA
Found at i:33491828 original size:40 final size:40
Alignment explanation
Indices: 33491599--33491864 Score: 351
Period size: 40 Copynumber: 6.7 Consensus size: 40
33491589 TTGAATGATG
* * * *
33491599 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
33491639 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
33491679 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
33491719 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
33491759 TCCGGGTTAAGTACCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
33491799 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
33491840 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33491865 AACGAGTATC
Statistics
Matches: 209, Mismatches: 13, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
39 1 0.00
40 198 0.95
41 10 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33491871 original size:80 final size:78
Alignment explanation
Indices: 33491599--33491896 Score: 343
Period size: 80 Copynumber: 3.7 Consensus size: 78
33491589 TTGAATGATG
* * * **
33491599 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGT-ACTAAATCCGGGTTAAG-TCCCGAAGGCAT
*
33491662 TTGTGCGAGATACTAAA
62 TTGTGCGAGTTACTAAA
*
33491679 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAG-TACTAAATCCGGGTTAAGTCCCGAAGGCATTT
33491744 GTGCGAGTTACTAAA
64 GTGCGAGTTACTAAA
*
33491759 TCCGGGTTAAGTACCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAG-TACTAAATCCGGGTTAAGTCCCGAAGGCATTT
33491824 GTGCGAGTTACTATAA
64 GTGCGAGTTACTA-AA
* ** * * *
33491840 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGTATCTATATCC-GGTTAAATTCCGAAG
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTA-CTAAATCCGGGTTAAGTCCCGAAG
33491897 TTATGTGATT
Statistics
Matches: 193, Mismatches: 18, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
79 17 0.09
80 165 0.85
81 11 0.06
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (78 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGT
GCGAGTTACTAAA
Found at i:33491871 original size:120 final size:119
Alignment explanation
Indices: 33491652--33491896 Score: 334
Period size: 120 Copynumber: 2.1 Consensus size: 119
33491642 GGACTAAGAT
33491652 CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
* ** *
33491717 AATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGT-TACTAAATCCGGGTTAAGTA
66 AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAT-CTAAATCC-GGTTAAATA
* ** *
33491772 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT
* * *
33491836 ATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTATCTATATCCGGTTAAATT
65 A-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTATCTAAATCCGGTTAAATA
33491891 CCGAAG
1 CCGAAG
33491897 TTATGTGATT
Statistics
Matches: 111, Mismatches: 11, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
119 14 0.13
120 94 0.85
121 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (119 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTATCTAAATCCGGTTAAATA
Found at i:33515047 original size:40 final size:40
Alignment explanation
Indices: 33515003--33515249 Score: 379
Period size: 40 Copynumber: 6.2 Consensus size: 40
33514993 GCATATACAA
* * *
33515003 AGCCCGGTTATAGTAACTAGCACAAATGCTTTCGGGACTT
1 AGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTT
*
33515043 AGCCCGGATATAGTAACTCGCACAAATGCTTTCGGGACTT
1 AGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTT
**
33515083 AGCCTAGATATAGTAACTCGCACAAATGCCTTCGGGACTT
1 AGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTT
33515123 AGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTT
1 AGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTT
* *
33515163 AGCCCGGATATAGTAACTCTCACAAAGGCCTTCGGGACTT
1 AGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTT
* * *
33515203 AGCCCGGA-ATTAGTCACTAGCACAAACGCCTTCGGGACTT
1 AGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTT
33515243 AGCCCGG
1 AGCCCGG
33515250 TTATCATCCG
Statistics
Matches: 193, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 1 0.01
40 192 0.99
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
AGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTT
Found at i:33533425 original size:6 final size:6
Alignment explanation
Indices: 33533414--33533503 Score: 180
Period size: 6 Copynumber: 15.0 Consensus size: 6
33533404 ATTGCATGAA
33533414 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
33533462 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
33533504 TTTTCTTTAT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 84 1.00
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
ATGTAT
Found at i:33533770 original size:96 final size:96
Alignment explanation
Indices: 33533628--33533843 Score: 278
Period size: 96 Copynumber: 2.2 Consensus size: 96
33533618 ATTATTGGAA
* *
33533628 TCCCATATAAGACCATATCTGGGATATGACATCGGCATCGAGATGAGATC-C-TGTGTAAGACCA
1 TCCCGTATAAGACCATATCTGGGATATGACATCGGCATCGAGATGAGATCTCATGT-CAA-ACCA
*
33533691 TATCTGGGATATGGCATCAGCATTAG-TATGAGG
64 TATCTAGGATATGGCATCAGCA-TAGATATGAGG
* * *
33533724 TCCCGTGTAAGACCATATTTGGGATATGACATCGGCAT-TAGTATGAGATCTCATGTCAAACCAT
1 TCCCGTATAAGACCATATCTGGGATATGACATCGGCATCGAG-ATGAGATCTCATGTCAAACCAT
** *
33533788 ATCTAGGATATGGCATTGGCATCGATATGAGG
65 ATCTAGGATATGGCATCAGCATAGATATGAGG
*
33533820 TCCCGTATAAGACCATGTCTGGGA
1 TCCCGTATAAGACCATATCTGGGA
33533844 CATGGCGTCA
Statistics
Matches: 104, Mismatches: 12, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
95 4 0.04
96 94 0.90
97 3 0.03
98 3 0.03
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (96 bp):
TCCCGTATAAGACCATATCTGGGATATGACATCGGCATCGAGATGAGATCTCATGTCAAACCATA
TCTAGGATATGGCATCAGCATAGATATGAGG
Found at i:33533849 original size:48 final size:48
Alignment explanation
Indices: 33533635--33533849 Score: 238
Period size: 48 Copynumber: 4.5 Consensus size: 48
33533625 GAATCCCATA
* *
33533635 TAAGACCATATCTGGGATATGACATCGGCATCGAG-ATGAGATCCTGTG
1 TAAGACCATATCTGGGATATGGCATCGGCAT-GAGTATGAGATCCCGTG
* * *
33533683 TAAGACCATATCTGGGATATGGCATCAGCATTAGTATGAGGTCCCGTG
1 TAAGACCATATCTGGGATATGGCATCGGCATGAGTATGAGATCCCGTG
* * * * *
33533731 TAAGACCATATTTGGGATATGACATCGGCATTAGTATGAGATCTCATG
1 TAAGACCATATCTGGGATATGGCATCGGCATGAGTATGAGATCCCGTG
* * * *
33533779 TCAA-ACCATATCTAGGATATGGCATTGGCATCGA-TATGAGGTCCCGTA
1 T-AAGACCATATCTGGGATATGGCATCGGCAT-GAGTATGAGATCCCGTG
* *
33533827 TAAGACCATGTCTGGGACATGGC
1 TAAGACCATATCTGGGATATGGC
33533850 GTCAACACCG
Statistics
Matches: 140, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
47 4 0.03
48 133 0.95
49 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.27
Consensus pattern (48 bp):
TAAGACCATATCTGGGATATGGCATCGGCATGAGTATGAGATCCCGTG
Found at i:33533883 original size:96 final size:96
Alignment explanation
Indices: 33533628--33533884 Score: 247
Period size: 96 Copynumber: 2.7 Consensus size: 96
33533618 ATTATTGGAA
* * **
33533628 TCCCATATAAGACCATATCTGGGATATGACATCGGCATCGAG-ATGAGATC-CTGTGTAAGACCA
1 TCCCGTATAAGACCATATCTGGGACATGACATCAACATC-AGTATGAGATCTC-GTGTAAGACCA
* *
33533691 TATCTGGGATATGGCATCAGCATTAGTATGAGG
64 TATCTAGGATATGGCATCAGCATGAGTATGAGG
* * * ** * *
33533724 TCCCGTGTAAGACCATATTTGGGATATGACATCGGCATTAGTATGAGATCTCATGTCAA-ACCAT
1 TCCCGTATAAGACCATATCTGGGACATGACATCAACATCAGTATGAGATCTCGTGT-AAGACCAT
**
33533788 ATCTAGGATATGGCATTGGCATCGA-TATGAGG
65 ATCTAGGATATGGCATCAGCAT-GAGTATGAGG
* * * *
33533820 TCCCGTATAAGACCATGTCTGGGACATGGCGTCAACA-CCGTTATGAGA-CTTCGTGTAAGACCA
1 TCCCGTATAAGACCATATCTGGGACATGACATCAACATCAG-TATGAGATC-TCGTGTAAGACCA
33533883 TA
64 TA
33533885 GATGGGTTGT
Statistics
Matches: 134, Mismatches: 20, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
95 6 0.04
96 124 0.93
97 4 0.03
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (96 bp):
TCCCGTATAAGACCATATCTGGGACATGACATCAACATCAGTATGAGATCTCGTGTAAGACCATA
TCTAGGATATGGCATCAGCATGAGTATGAGG
Found at i:33538912 original size:12 final size:12
Alignment explanation
Indices: 33538895--33538919 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33538885 GGCCGGGTTT
33538895 GGGGTGTTACAA
1 GGGGTGTTACAA
33538907 GGGGTGTTACAA
1 GGGGTGTTACAA
33538919 G
1 G
33538920 AAATGACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.44, T:0.24
Consensus pattern (12 bp):
GGGGTGTTACAA
Found at i:33540880 original size:6 final size:6
Alignment explanation
Indices: 33540850--33540968 Score: 66
Period size: 6 Copynumber: 19.3 Consensus size: 6
33540840 AAGAAACATT
* * * *
33540850 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGGTG AT-AGA ATCATA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * * * *
33540899 ATCAAA ATCAGA ATCAAA ATTAG- GTGACAGA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCA-G-A
33540950 A-CAGA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
33540969 GTGAATGCAA
Statistics
Matches: 85, Mismatches: 17, Indels: 22
0.69 0.14 0.18
Matches are distributed among these distances:
5 6 0.07
6 67 0.79
7 8 0.09
8 4 0.05
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:33540946 original size:37 final size:37
Alignment explanation
Indices: 33540859--33540939 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 37
33540849 TATCAGAACT
* * *
33540859 AGAATCAAAATGAGAATCAGAATCAGGTGATAGAATC
1 AGAATCAAAATCAGAATCAAAATCAGGTGACAGAATC
* *
33540896 ATAATCAAAATCAGAATCAAAATTAGGTGACAGAATC
1 AGAATCAAAATCAGAATCAAAATCAGGTGACAGAATC
33540933 AGAATCA
1 AGAATCA
33540940 GTATCAGGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.51, C:0.12, G:0.17, T:0.20
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAAAATCAGGTGACAGAATC
Found at i:33540965 original size:25 final size:25
Alignment explanation
Indices: 33540904--33540968 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
33540894 TCATAATCAA
* * *
33540904 AATCAGAATCAAAATTAGGTGACAG
1 AATCAGAATCAGAATCAGGTAACAG
*
33540929 AATCAGAATCAGTATCAGGTAACAG
1 AATCAGAATCAGAATCAGGTAACAG
33540954 AATCAGAATCAGAAT
1 AATCAGAATCAGAAT
33540969 GTGAATGCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (25 bp):
AATCAGAATCAGAATCAGGTAACAG
Found at i:33541123 original size:27 final size:26
Alignment explanation
Indices: 33541086--33541211 Score: 137
Period size: 27 Copynumber: 4.7 Consensus size: 26
33541076 ATCATGGTTG
*
33541086 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
* *
33541112 CCAGATACAGATATTGTGGCAGAGCAA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* *
33541139 CCA-ATACAGATATTTGTGGCATAGCCA
1 CCAGA-ACAGATA-TTGTGACAGAGCCA
33541166 CCAGAAACAGAATATTGTGACAGAGCCA
1 CCAG-AACAG-ATATTGTGACAGAGCCA
*
33541194 CCAGAATCAGATAATGTG
1 CCAGAA-CAGATATTGTG
33541212 GGAAAGCCAC
Statistics
Matches: 86, Mismatches: 8, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
26 14 0.16
27 45 0.52
28 23 0.27
29 4 0.05
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:33541212 original size:55 final size:54
Alignment explanation
Indices: 33541086--33541221 Score: 143
Period size: 55 Copynumber: 2.5 Consensus size: 54
33541076 ATCATGGTTG
* * * * *
33541086 CCAGAA-CAGATATTGTGACAGAGTCACCAGATACAGATATTGTGGCAGAGCAA
1 CCAGAATCAGATATTGTGGCAAAGCCACCAGAAACAGATATTGTGACAGAGCAA
* *
33541139 CC--AATACAGATATTTGTGGCATAGCCACCAGAAACAGAATATTGTGACAGAGCCA
1 CCAGAAT-CAGATA-TTGTGGCAAAGCCACCAGAAACAG-ATATTGTGACAGAGCAA
* *
33541194 CCAGAATCAGATAATGTGGGAAAGCCAC
1 CCAGAATCAGATATTGTGGCAAAGCCAC
33541222 TTAACAGAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
51 2 0.03
53 8 0.12
54 20 0.29
55 29 0.43
56 6 0.09
57 3 0.04
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (54 bp):
CCAGAATCAGATATTGTGGCAAAGCCACCAGAAACAGATATTGTGACAGAGCAA
Found at i:33541219 original size:27 final size:28
Alignment explanation
Indices: 33541161--33541221 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
33541151 TTTGTGGCAT
* *
33541161 AGCCACCAGAAACAGAATATTGTGACAG
1 AGCCACCAGAAACAGAATAATGTGACAA
* **
33541189 AGCCACCAGAATCAG-ATAATGTGGGAA
1 AGCCACCAGAAACAGAATAATGTGACAA
33541216 AGCCAC
1 AGCCAC
33541222 TTAACAGAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 14 0.50
28 14 0.50
ACGTcount: A:0.41, C:0.23, G:0.23, T:0.13
Consensus pattern (28 bp):
AGCCACCAGAAACAGAATAATGTGACAA
Found at i:33541501 original size:20 final size:19
Alignment explanation
Indices: 33541445--33541501 Score: 51
Period size: 20 Copynumber: 2.8 Consensus size: 19
33541435 TAACGGGTCT
33541445 ATAATCGGCACAAAGCCCACA
1 ATAA-CGGCAC-AAGCCCACA
* **
33541466 ATATCGATACGAAGCCCACA
1 ATAACGGCAC-AAGCCCACA
33541486 ATAACGGCACACAGCC
1 ATAACGGCACA-AGCC
33541502 TTCTGTAACA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
19 1 0.04
20 24 0.86
21 3 0.11
ACGTcount: A:0.40, C:0.33, G:0.16, T:0.11
Consensus pattern (19 bp):
ATAACGGCACAAGCCCACA
Found at i:33541827 original size:27 final size:27
Alignment explanation
Indices: 33541807--33542182 Score: 493
Period size: 27 Copynumber: 13.9 Consensus size: 27
33541797 GGGTATCTTG
33541807 GTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
33541834 GTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
33541861 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
33541888 GTAATTCTACCTTACACGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
33541914 GATAATTCTAGCTTACAAGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
33541942 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
33541969 GTAATTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
33541996 GTCATTCTACCCTACATGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
33542023 GTAATTCTACCTTACAGGAGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
33542050 ATAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
33542077 GTAATTCTACCTTACAGGAGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
33542104 GTAATTCCACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
33542131 GTAGTTCTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
33542158 GTAATTTTACCTTACAGGGGTATTT
1 GTAATTCTACCCTACAGGGGTATTT
33542183 TGGTAATTTT
Statistics
Matches: 300, Mismatches: 47, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
26 1 0.00
27 298 0.99
28 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:33541865 original size:54 final size:54
Alignment explanation
Indices: 33541797--33542190 Score: 565
Period size: 54 Copynumber: 7.3 Consensus size: 54
33541787 TAGCCCACGA
* * *
33541797 GGGTATCTT-GGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAA
1 GGGTAT-TTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAG
* * * * *
33541851 GGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCTTACAC
1 GGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAG
* * *
33541905 GGGTATTTCGATAATTCTAGCTTACAAGGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAG
* *
33541959 GGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTCATTCTACCCTACAT
1 GGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAG
* * *
33542013 GGGTATTTCGGTAATTCTACCTTACAGGAGTATTTCAATAATTCTACCCTATAG
1 GGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAG
* * *
33542067 GGGTATTTCGGTAATTCTACCTTACAGGAGTATTTTAGTAATTCCACCCTACAG
1 GGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAG
* * *
33542121 GGGTATTTCGGTAGTTCTACCTTACAGGGGTATTTCAGTAATTTTACCTTACAG
1 GGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAG
*
33542175 GGGTATTTTGGTAATT
1 GGGTATTTCGGTAATT
33542191 TTACAAATTA
Statistics
Matches: 304, Mismatches: 35, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
53 2 0.01
54 302 0.99
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (54 bp):
GGGTATTTCGGTAATTCTACCTTACAGGGGTATTTCAGTAATTCTACCCTACAG
Found at i:33542207 original size:27 final size:27
Alignment explanation
Indices: 33542175--33542299 Score: 151
Period size: 27 Copynumber: 4.6 Consensus size: 27
33542165 TACCTTACAG
*
33542175 GGGTATTTTGGTAATTTTACAAATTAA
1 GGGTATTTTGGTAATTTTACAAATCAA
* * *
33542202 GAGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAATCAA
* * * *
33542229 GGGTATTTTGATAATTTTGCTAATCGA
1 GGGTATTTTGGTAATTTTACAAATCAA
* * *
33542256 GGGTATTTTGGTAATTTTGCTAATCGA
1 GGGTATTTTGGTAATTTTACAAATCAA
33542283 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
33542300 GGTAAACTAA
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 86 1.00
ACGTcount: A:0.27, C:0.06, G:0.22, T:0.44
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCAA
Found at i:33542216 original size:54 final size:54
Alignment explanation
Indices: 33542158--33542299 Score: 162
Period size: 54 Copynumber: 2.6 Consensus size: 54
33542148 GGGTATTTCA
* *
33542158 GTAATTTTACCTTA-CAGGGGTATTTTGGTAATTTTACAAATTAAGAGTATTTTG
1 GTAATTTTA-CTAACCAGGGGTATTTTGGTAATTTTACAAATCAAGAGTATTTTG
* * * * * *
33542212 GTAATTTTACAAACCAGGGGTATTTTGATAATTTTGCTAATCGAGGGTATTTTG
1 GTAATTTTACTAACCAGGGGTATTTTGGTAATTTTACAAATCAAGAGTATTTTG
* *
33542266 GTAATTTTGCTAATC-GAGGGTATTTTGGTAATTT
1 GTAATTTTACTAACCAG-GGGTATTTTGGTAATTT
33542300 GGTAAACTAA
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
53 3 0.04
54 71 0.96
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.44
Consensus pattern (54 bp):
GTAATTTTACTAACCAGGGGTATTTTGGTAATTTTACAAATCAAGAGTATTTTG
Found at i:33542230 original size:81 final size:81
Alignment explanation
Indices: 33542145--33542299 Score: 190
Period size: 81 Copynumber: 1.9 Consensus size: 81
33542135 TTCTACCTTA
* *
33542145 CAGGGGTATTTCAG-TAATTTTACCTTA-C-AGGGGTATTTTGGTAATTTTACAAATTAAGAGTA
1 CAGGGGTATTT-AGATAATTTT-CCTAATCGA-GGGTATTTTGGTAATTTTACAAATCAAGAGTA
33542207 TTTTGGTAATTTTACAAAC
63 TTTTGGTAATTTTACAAAC
* * * * * *
33542226 CAGGGGTATTTTGATAATTTTGCTAATCGAGGGTATTTTGGTAATTTTGCTAATCGAGGGTATTT
1 CAGGGGTATTTAGATAATTTTCCTAATCGAGGGTATTTTGGTAATTTTACAAATCAAGAGTATTT
33542291 TGGTAATTT
66 TGGTAATTT
33542300 GGTAAACTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
80 4 0.06
81 58 0.92
82 1 0.02
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (81 bp):
CAGGGGTATTTAGATAATTTTCCTAATCGAGGGTATTTTGGTAATTTTACAAATCAAGAGTATTT
TGGTAATTTTACAAAC
Found at i:33548594 original size:48 final size:48
Alignment explanation
Indices: 33548517--33548742 Score: 223
Period size: 48 Copynumber: 4.8 Consensus size: 48
33548507 CACTTAGTAA
* * * * * *
33548517 GATGCCAGTTCCATATCCTAGATATGGTCTTACATGAGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
33548565 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
** *
33548613 GATGCCAATATCATGTCCCAGACATGGTCTTAAATGGGATCATGCATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA--CATATC
* * ** * *
33548663 G-TAGCCGAT---A-G-CCCA-ACTATGGTCCTACATGGTTTCTCATATT
1 GAT-GCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATC
*
33548706 GATGCCAATGCCATGTCCCAGACATAGTCTTACATGG
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGG
33548743 AATCTCACAT
Statistics
Matches: 148, Mismatches: 19, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
43 11 0.07
44 3 0.02
45 18 0.12
46 2 0.01
47 2 0.01
48 97 0.66
49 3 0.02
50 12 0.08
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.28
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:33549366 original size:21 final size:23
Alignment explanation
Indices: 33549342--33549387 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
33549332 AATTAAATTA
33549342 AGATAAATT-ATA-AAAAATATG
1 AGATAAATTAATATAAAAATATG
33549363 AGATAAATTAATATTAAAAATATG
1 AGATAAATTAATA-TAAAAATATG
33549387 A
1 A
33549388 TGCAATAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.41
22 3 0.14
24 10 0.45
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (23 bp):
AGATAAATTAATATAAAAATATG
Found at i:33550133 original size:28 final size:28
Alignment explanation
Indices: 33550057--33550147 Score: 96
Period size: 28 Copynumber: 3.2 Consensus size: 28
33550047 AAACAAAATT
*
33550057 AAAACAGATTTTTAAAAAAAAATTCAACAC
1 AAAACAGA-TTTCAAAAAAAAA-TCAACAC
* ***
33550087 AAAATC--ATATCATTTAAAAATCAACAC
1 AAAA-CAGATTTCAAAAAAAAATCAACAC
33550114 AAAACAGATTTCAAAAAAAAATCAACAC
1 AAAACAGATTTCAAAAAAAAATCAACAC
33550142 AAAACA
1 AAAACA
33550148 AAATTAAAAC
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
26 1 0.02
27 11 0.22
28 31 0.63
29 1 0.02
30 4 0.08
31 1 0.02
ACGTcount: A:0.62, C:0.16, G:0.02, T:0.20
Consensus pattern (28 bp):
AAAACAGATTTCAAAAAAAAATCAACAC
Found at i:33550179 original size:24 final size:21
Alignment explanation
Indices: 33550152--33550200 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
33550142 AAAACAAAAT
33550152 TAAAACTAATCATATAAAATATAA
1 TAAAACTAA--ATA-AAAATATAA
* *
33550176 TAAAATTAAATAAATATATAA
1 TAAAACTAAATAAAAATATAA
33550197 TAAA
1 TAAA
33550201 TTGAATCTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 12 0.52
22 3 0.13
24 8 0.35
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (21 bp):
TAAAACTAAATAAAAATATAA
Found at i:33554015 original size:14 final size:14
Alignment explanation
Indices: 33553993--33554058 Score: 53
Period size: 14 Copynumber: 4.7 Consensus size: 14
33553983 TTTTAGCCCG
33553993 TAAACCCTAAACTC
1 TAAACCCTAAACTC
* * *
33554007 TAAAGCCTAATCCC
1 TAAACCCTAAACTC
* *
33554021 TAAACCTTAACAC-A
1 TAAACCCTAA-ACTC
*
33554035 TAAACCCTAAAATC
1 TAAACCCTAAACTC
*
33554049 TAAAGCCTAA
1 TAAACCCTAA
33554059 CCCATGAATT
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
13 1 0.03
14 37 0.95
15 1 0.03
ACGTcount: A:0.45, C:0.30, G:0.03, T:0.21
Consensus pattern (14 bp):
TAAACCCTAAACTC
Found at i:33554021 original size:21 final size:21
Alignment explanation
Indices: 33553993--33554093 Score: 73
Period size: 21 Copynumber: 4.8 Consensus size: 21
33553983 TTTTAGCCCG
33553993 TAAACCCTAAACTCTAAAGCC
1 TAAACCCTAAACTCTAAAGCC
* *
33554014 TAATCCCTAAAC-CTTAACA-CA
1 TAAACCCTAAACTC-TAA-AGCC
*
33554035 TAAACCCTAAAATCTAAAGCC
1 TAAACCCTAAACTCTAAAGCC
* * * *
33554056 T-AACCCATGAATTGTAAACCC
1 TAAACCC-TAAACTCTAAAGCC
*
33554077 TAAAACCTTAAACTCTA
1 T-AAACCCTAAACTCTA
33554094 GAAACTAAAA
Statistics
Matches: 60, Mismatches: 13, Indels: 13
0.70 0.15 0.15
Matches are distributed among these distances:
20 7 0.12
21 41 0.68
22 8 0.13
23 4 0.07
ACGTcount: A:0.44, C:0.30, G:0.04, T:0.23
Consensus pattern (21 bp):
TAAACCCTAAACTCTAAAGCC
Found at i:33554119 original size:15 final size:15
Alignment explanation
Indices: 33554101--33554143 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
33554091 CTAGAAACTA
33554101 AAACCTTTAAACCCC
1 AAACCTTTAAACCCC
* *
33554116 AAACC-ATAAACCCT
1 AAACCTTTAAACCCC
*
33554130 AAAACTTTAAACCC
1 AAACCTTTAAACCC
33554144 TGATAATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.19
Consensus pattern (15 bp):
AAACCTTTAAACCCC
Found at i:33554799 original size:73 final size:73
Alignment explanation
Indices: 33554722--33554954 Score: 217
Period size: 74 Copynumber: 3.2 Consensus size: 73
33554712 CGCTTTCTTA
* *
33554722 AAAACGCCGCAAATATGTATTAGGAGTTCACAAAACGATACCG-TTTAGCCTTGTTATTAGTGGC
1 AAAACACCGCAAATATGTATTAAGAGTTCACAAAACG-TACCGTTTTAGCCTTGTTATTAGTGGC
33554786 GTTTTGCCC
65 GTTTTGCCC
* * ** **
33554795 AAAACACCGCAAATATGTGTTAAGTGTTTC-CAAAACGGTGTCGTTTTATGTTTTG-TATTTAGT
1 AAAACACCGCAAATATGTATTAAGAG-TTCACAAAAC-GTACCGTTTTA-GCCTTGTTA-TTAGT
* *
33554858 GGCG-CTT-CCAT
62 GGCGTTTTGCC-C
* * * *
33554869 AAAACACCTCAAATATGTATTAAGATTTTGA-AAAATGTCACCGTTTTAGCCTTGTTATTAGTGG
1 AAAACACCGCAAATATGTATTAAGA-GTTCACAAAACGT-ACCGTTTTAGCCTTGTTATTAGTGG
*
33554933 CATTTTGCCC
64 CGTTTTGCCC
33554943 AAAACACCGCAA
1 AAAACACCGCAA
33554955 TAGGCTATGC
Statistics
Matches: 124, Mismatches: 24, Indels: 23
0.73 0.14 0.13
Matches are distributed among these distances:
73 47 0.38
74 62 0.50
75 15 0.12
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (73 bp):
AAAACACCGCAAATATGTATTAAGAGTTCACAAAACGTACCGTTTTAGCCTTGTTATTAGTGGCG
TTTTGCCC
Found at i:33554923 original size:148 final size:148
Alignment explanation
Indices: 33554655--33554954 Score: 428
Period size: 148 Copynumber: 2.0 Consensus size: 148
33554645 GTTTTAAACA
* * * *
33554655 GCAAATATGTGTTAAGTGTTAGCAAAACGGTGATGTTTTATGTTTTGTTTTTAGTGGCGCTTTCT
1 GCAAATATGTGTTAAGTGTTACCAAAACGGTGATGTTTTATGTTTTGTATTTAGTGGCGCTTCCA
* *
33554720 TAAAAACGCCGCAAATATGTATTAGGAGTTCACAAAACGATACCGTTTAGCCTTGTTATTAGTGG
66 TAAAAACACCGCAAATATGTATTAAGAGTTCACAAAACGATACCGTTTAGCCTTGTTATTAGTGG
*
33554785 CGTTTTGCCCAAAACACC
131 CATTTTGCCCAAAACACC
*
33554803 GCAAATATGTGTTAAGTGTTTCCAAAACGGTG-TCGTTTTATGTTTTGTATTTAGTGGCGCTTCC
1 GCAAATATGTGTTAAGTGTTACCAAAACGGTGAT-GTTTTATGTTTTGTATTTAGTGGCGCTTCC
* * * *
33554867 AT-AAAACACCTCAAATATGTATTAAGATTTTGA-AAAATG-TCACCGTTTTAGCCTTGTTATTA
65 ATAAAAACACCGCAAATATGTATTAAGA-GTTCACAAAACGAT-ACCG-TTTAGCCTTGTTATTA
33554929 GTGGCATTTTGCCCAAAACACC
127 GTGGCATTTTGCCCAAAACACC
33554951 GCAA
1 GCAA
33554955 TAGGCTATGC
Statistics
Matches: 136, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
146 1 0.01
147 32 0.24
148 103 0.76
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (148 bp):
GCAAATATGTGTTAAGTGTTACCAAAACGGTGATGTTTTATGTTTTGTATTTAGTGGCGCTTCCA
TAAAAACACCGCAAATATGTATTAAGAGTTCACAAAACGATACCGTTTAGCCTTGTTATTAGTGG
CATTTTGCCCAAAACACC
Found at i:33555208 original size:20 final size:20
Alignment explanation
Indices: 33555165--33555215 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
33555155 CCCAACAAAA
*
33555165 TTTCCCCAAAT-CCTTAACT
1 TTTCCCCAAATCCCTAAACT
* *
33555184 TTTCCCCTAATCCCTAAATT
1 TTTCCCCAAATCCCTAAACT
33555204 TTTCCCCAAATC
1 TTTCCCCAAATC
33555216 AAAGTCGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.25, C:0.37, G:0.00, T:0.37
Consensus pattern (20 bp):
TTTCCCCAAATCCCTAAACT
Found at i:33555805 original size:31 final size:31
Alignment explanation
Indices: 33555770--33555833 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
33555760 ATCAAGTATG
33555770 AATCTTTCTCTCAATTCCTCCCATATGAGAA
1 AATCTTTCTCTCAATTCCTCCCATATGAGAA
*
33555801 AATCTTTCTCTCAATTCCTCTCATATGAGAA
1 AATCTTTCTCTCAATTCCTCCCATATGAGAA
33555832 AA
1 AA
33555834 GTTTTCCTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (31 bp):
AATCTTTCTCTCAATTCCTCCCATATGAGAA
Found at i:33557453 original size:9 final size:9
Alignment explanation
Indices: 33557439--33557466 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
33557429 ATTGTATTGC
33557439 TGTAGTTAT
1 TGTAGTTAT
33557448 TGTAGTTAT
1 TGTAGTTAT
33557457 TGTAGTTAT
1 TGTAGTTAT
33557466 T
1 T
33557467 TTATTGATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.57
Consensus pattern (9 bp):
TGTAGTTAT
Found at i:33558355 original size:26 final size:26
Alignment explanation
Indices: 33558326--33558413 Score: 70
Period size: 26 Copynumber: 3.2 Consensus size: 26
33558316 ACAACTATTT
33558326 TATTTATTTTATTACAAGGTAAATAA
1 TATTTATTTTATTACAAGGTAAATAA
* * **
33558352 TATTTTTAATATTAAATTA-AATTGTATTTAA
1 TA--TTT-AT-TT-TATTACAA-GGTAAATAA
*
33558383 AATTTATTTTATTACAAGGTAAATAA
1 TATTTATTTTATTACAAGGTAAATAA
33558409 TATTT
1 TATTT
33558414 TTAATATTAA
Statistics
Matches: 45, Mismatches: 10, Indels: 14
0.65 0.14 0.20
Matches are distributed among these distances:
26 16 0.36
27 4 0.09
28 5 0.11
29 5 0.11
30 4 0.09
31 11 0.24
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (26 bp):
TATTTATTTTATTACAAGGTAAATAA
Found at i:33558356 original size:31 final size:31
Alignment explanation
Indices: 33558321--33558414 Score: 76
Period size: 33 Copynumber: 3.2 Consensus size: 31
33558311 ATAGAACAAC
33558321 TATTTTATTTATTTTATTACAAGGTAAATAA
1 TATTTTATTTATTTTATTACAAGGTAAATAA
* * **
33558352 TA--TT-TTTA--ATATTA-AA-TTAAATTG
1 TATTTTATTTATTTTATTACAAGGTAAATAA
*
33558376 TATTTAAAATTTATTTTATTACAAGGTAAATAA
1 TATTT--TATTTATTTTATTACAAGGTAAATAA
33558409 TATTTT
1 TATTTT
33558415 TAATATTAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 18
0.61 0.14 0.25
Matches are distributed among these distances:
24 7 0.16
25 2 0.05
26 6 0.14
28 4 0.09
29 6 0.14
31 7 0.16
32 2 0.05
33 10 0.23
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.52
Consensus pattern (31 bp):
TATTTTATTTATTTTATTACAAGGTAAATAA
Found at i:33558400 original size:57 final size:57
Alignment explanation
Indices: 33558327--33558440 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
33558317 CAACTATTTT
33558327 ATTTATTTTATTACAAGGTAAATAATATTTTTAATATTAAATTAAATTGTATTTAAA
1 ATTTATTTTATTACAAGGTAAATAATATTTTTAATATTAAATTAAATTGTATTTAAA
33558384 ATTTATTTTATTACAAGGTAAATAATATTTTTAATATTAAATTAAATTGTATTTAAA
1 ATTTATTTTATTACAAGGTAAATAATATTTTTAATATTAAATTAAATTGTATTTAAA
33558441 GTTTTAAGTC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (57 bp):
ATTTATTTTATTACAAGGTAAATAATATTTTTAATATTAAATTAAATTGTATTTAAA
Found at i:33558800 original size:9 final size:9
Alignment explanation
Indices: 33558776--33558899 Score: 121
Period size: 9 Copynumber: 14.1 Consensus size: 9
33558766 ATGTTGATTC
33558776 ACATAACTT
1 ACATAACTT
*
33558785 A-ATAACTC
1 ACATAACTT
33558793 ACATAACTT
1 ACATAACTT
* *
33558802 AAATAACTC
1 ACATAACTT
33558811 ACATAACTT
1 ACATAACTT
33558820 ACATAACTT
1 ACATAACTT
* *
33558829 ACATACCTC
1 ACATAACTT
33558838 ACATAACTT
1 ACATAACTT
33558847 ACATAACTT
1 ACATAACTT
*
33558856 ACGTAA--T
1 ACATAACTT
*
33558863 ACATAA-AT
1 ACATAACTT
* * *
33558871 AAATATCAT
1 ACATAACTT
33558880 ATCATAACTT
1 A-CATAACTT
33558890 ACATAACTT
1 ACATAACTT
33558899 A
1 A
33558900 ATTATACTTA
Statistics
Matches: 94, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
7 6 0.06
8 12 0.13
9 70 0.74
10 6 0.06
ACGTcount: A:0.47, C:0.22, G:0.01, T:0.31
Consensus pattern (9 bp):
ACATAACTT
Found at i:33566666 original size:19 final size:19
Alignment explanation
Indices: 33566644--33566683 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
33566634 TTAATTTTTT
*
33566644 ATAAGTTAATTTAATTCTA
1 ATAAATTAATTTAATTCTA
*
33566663 ATAAATTAATTTAATTTTA
1 ATAAATTAATTTAATTCTA
33566682 AT
1 AT
33566684 TTAAAGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (19 bp):
ATAAATTAATTTAATTCTA
Found at i:33567236 original size:2 final size:2
Alignment explanation
Indices: 33567229--33567262 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
33567219 TATAGAAATT
*
33567229 TA TA TA TA TA TA TA TA TA TA TA TA -A TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33567263 TTAAGAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:33573869 original size:15 final size:14
Alignment explanation
Indices: 33573838--33573895 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 14
33573828 TTTAATTTAG
33573838 ATTTGATTTT-ATGT
1 ATTTGATTTTAAT-T
33573852 ATTTGATATTTAATT
1 ATTTGAT-TTTAATT
*
33573867 ATTT--TTTTAAAT
1 ATTTGATTTTAATT
*
33573879 ATTTTATTTTTAATT
1 ATTTGA-TTTTAATT
33573894 AT
1 AT
33573896 AGTAATTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
12 10 0.27
13 1 0.03
14 7 0.19
15 17 0.46
16 2 0.05
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (14 bp):
ATTTGATTTTAATT
Found at i:33579265 original size:39 final size:40
Alignment explanation
Indices: 33579151--33579333 Score: 225
Period size: 39 Copynumber: 4.7 Consensus size: 40
33579141 GCTACTCGTT
* *
33579151 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
33579191 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
33579231 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
33579270 C-AGTGCCTTC-GGATCTTAGTCCGGAA-TAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAATTAGTAAC-TCGCA
33579309 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
33579334 CATCATTCGA
Statistics
Matches: 127, Mismatches: 10, Indels: 13
0.85 0.07 0.09
Matches are distributed among these distances:
37 2 0.02
38 14 0.11
39 56 0.44
40 53 0.42
41 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:33587415 original size:40 final size:40
Alignment explanation
Indices: 33587282--33587464 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 40
33587272 GCTACTCGTT
* *
33587282 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
33587322 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
33587362 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
33587402 CGAATGCCTTC-GGATCTTAGTCCGGATTTAATCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
33587443 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
33587465 AGACATCATT
Statistics
Matches: 128, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 113 0.88
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:33590309 original size:23 final size:24
Alignment explanation
Indices: 33590278--33590323 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
33590268 AAAAAATTGA
*
33590278 ATTTCAAGTTAA-TCAAATCAAGTT
1 ATTTCAAGTCAATTCAAAT-AAGTT
33590302 ATTT-AAGTCAATTCAAATAAGT
1 ATTTCAAGTCAATTCAAATAAGT
33590324 AATTCGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (24 bp):
ATTTCAAGTCAATTCAAATAAGTT
Found at i:33590526 original size:19 final size:19
Alignment explanation
Indices: 33590467--33590534 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 19
33590457 ATTACAAAAT
*
33590467 AATTTAAAATAATTTTCAAA
1 AATTCAAAATAATTTT-AAA
* *
33590487 TATTCAAAATAATTTTTAA
1 AATTCAAAATAATTTTAAA
33590506 AATTCAAAAT-ATTTGTAAA
1 AATTCAAAATAATTT-TAAA
33590525 AATTCCAAAA
1 AATT-CAAAA
33590535 AAAAATTTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
18 4 0.10
19 18 0.44
20 19 0.46
ACGTcount: A:0.53, C:0.07, G:0.01, T:0.38
Consensus pattern (19 bp):
AATTCAAAATAATTTTAAA
Found at i:33590558 original size:24 final size:25
Alignment explanation
Indices: 33590511--33590560 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
33590501 TTTAAAATTC
* *
33590511 AAAATATTTGTAAAAATTCCAAAAA
1 AAAATATTTGAAAAAATTACAAAAA
*
33590536 AAAAT-TTTGAAAAAATTATAAAAA
1 AAAATATTTGAAAAAATTACAAAAA
33590560 A
1 A
33590561 TTCTAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (25 bp):
AAAATATTTGAAAAAATTACAAAAA
Found at i:33602848 original size:23 final size:22
Alignment explanation
Indices: 33602797--33602848 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
33602787 CCTCGTCTTT
*
33602797 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
33602819 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
33602842 TTCTTTT
1 TTCTTTT
33602849 TCAATTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:33602857 original size:12 final size:12
Alignment explanation
Indices: 33602806--33602860 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
33602796 TTTCTTTTGT
33602806 TTCTTTTTCTAAC
1 TTCTTTTTC-AAC
* *
33602819 -TCATTTTC-TC
1 TTCTTTTTCAAC
33602829 TTCTTTCTTCAAC
1 TTCTTT-TTCAAC
*
33602842 TTCTTTTTCAAT
1 TTCTTTTTCAAC
33602854 TTCTTTT
1 TTCTTTT
33602861 CTGTTTCACA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 1 0.03
11 4 0.12
12 22 0.65
13 7 0.21
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTTTTCAAC
Found at i:33602867 original size:17 final size:18
Alignment explanation
Indices: 33602842--33602879 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
33602832 TTTCTTCAAC
* *
33602842 TTCTTTTTCA-ATTTCTT
1 TTCTGTTTCACATTCCTT
33602859 TTCTGTTTCACATTCCTT
1 TTCTGTTTCACATTCCTT
33602877 TTC
1 TTC
33602880 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.11, C:0.24, G:0.03, T:0.63
Consensus pattern (18 bp):
TTCTGTTTCACATTCCTT
Found at i:33605205 original size:4 final size:4
Alignment explanation
Indices: 33605196--33605227 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
33605186 TTAAACTAAG
33605196 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
33605228 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:33608936 original size:19 final size:19
Alignment explanation
Indices: 33608914--33608964 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
33608904 TTTTTATCAT
33608914 TTTTTTACTTTTT-AAATAA
1 TTTTTTA-TTTTTAAAATAA
*
33608933 TTTTTTATTTTTAAAATTA
1 TTTTTTATTTTTAAAATAA
33608952 TTTTTTGATTTTT
1 TTTTTT-ATTTTT
33608965 TTTAAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 5 0.17
19 18 0.62
20 6 0.21
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (19 bp):
TTTTTTATTTTTAAAATAA
Found at i:33613249 original size:40 final size:40
Alignment explanation
Indices: 33613145--33613361 Score: 307
Period size: 40 Copynumber: 5.5 Consensus size: 40
33613135 AAGCCACGTA
* * *
33613145 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
33613184 CCTTC-GGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
33613223 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
33613263 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
33613303 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
33613343 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
33613362 TTATCATCCA
Statistics
Matches: 164, Mismatches: 10, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
38 6 0.04
39 32 0.20
40 126 0.77
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:33621344 original size:40 final size:40
Alignment explanation
Indices: 33621245--33621460 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
33621235 AAGCCAAGTA
* * *
33621245 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
33621283 CCTTC-GGACATAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
33621322 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
33621362 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
33621402 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
33621442 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
33621461 TTATCATCCA
Statistics
Matches: 164, Mismatches: 9, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
37 6 0.04
38 22 0.13
39 10 0.06
40 126 0.77
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:33628311 original size:27 final size:26
Alignment explanation
Indices: 33628275--33628397 Score: 126
Period size: 26 Copynumber: 4.7 Consensus size: 26
33628265 TTTCTATGGA
*
33628275 AAGTCTGTAAGGACTATCTTATAT-AGG
1 AAGTCTGCAAGGACTATC-TAT-TGAGG
* *
33628302 AAGTCTGTAAGGACTATCTATTGTGG
1 AAGTCTGCAAGGACTATCTATTGAGG
*
33628328 AAGTC-ACAAGGACTATCCTA-TGTAGG
1 AAGTCTGCAAGGACTAT-CTATTG-AGG
* *
33628354 AAGTCCGCAAGGACTGTCTATTGAGG
1 AAGTCTGCAAGGACTATCTATTGAGG
*
33628380 GAGTCTGCAAGGACTATC
1 AAGTCTGCAAGGACTATC
33628398 GGCTAAGGAA
Statistics
Matches: 82, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
25 12 0.15
26 41 0.50
27 29 0.35
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (26 bp):
AAGTCTGCAAGGACTATCTATTGAGG
Found at i:33628344 original size:52 final size:53
Alignment explanation
Indices: 33628283--33628397 Score: 151
Period size: 52 Copynumber: 2.2 Consensus size: 53
33628273 GAAAGTCTGT
* * * *
33628283 AAGGACTATCTTATATAGGAAGTCTGTAAGGACTATCTATTGTGGAAGTC-AC
1 AAGGACTATCCTATATAGGAAGTCCGCAAGGACTATCTATTGAGGAAGTCTAC
* * * *
33628335 AAGGACTATCCTATGTAGGAAGTCCGCAAGGACTGTCTATTGAGGGAGTCTGC
1 AAGGACTATCCTATATAGGAAGTCCGCAAGGACTATCTATTGAGGAAGTCTAC
33628388 AAGGACTATC
1 AAGGACTATC
33628398 GGCTAAGGAA
Statistics
Matches: 54, Mismatches: 8, Indels: 1
0.86 0.13 0.02
Matches are distributed among these distances:
52 43 0.80
53 11 0.20
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (53 bp):
AAGGACTATCCTATATAGGAAGTCCGCAAGGACTATCTATTGAGGAAGTCTAC
Found at i:33633446 original size:7 final size:7
Alignment explanation
Indices: 33633434--33633471 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
33633424 AGCGAGCAAC
33633434 ATGTGAT
1 ATGTGAT
33633441 ATGTGAT
1 ATGTGAT
33633448 ATGTGAT
1 ATGTGAT
33633455 ATGTGAT
1 ATGTGAT
33633462 ATGTGAT
1 ATGTGAT
33633469 ATG
1 ATG
33633472 AGGTAGCGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (7 bp):
ATGTGAT
Found at i:33633639 original size:23 final size:23
Alignment explanation
Indices: 33633609--33633656 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
33633599 GAAAATAAGT
33633609 TATGTTGTACAAGCGGGCACAGG
1 TATGTTGTACAAGCGGGCACAGG
*
33633632 TATGTTGTACAAGTGGGCACAGG
1 TATGTTGTACAAGCGGGCACAGG
33633655 TA
1 TA
33633657 ATCTCAATGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.25
Consensus pattern (23 bp):
TATGTTGTACAAGCGGGCACAGG
Found at i:33636523 original size:47 final size:47
Alignment explanation
Indices: 33636445--33636754 Score: 476
Period size: 47 Copynumber: 6.6 Consensus size: 47
33636435 CCCTTCGGGA
* * * * * *
33636445 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33636492 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33636539 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33636586 CTTATCACATATATACACTTTCACATTCATCACATCGGGCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33636633 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33636682 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33636729 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
33636755 CACAATTATC
Statistics
Matches: 241, Mismatches: 20, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
47 196 0.81
49 45 0.19
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:33636674 original size:96 final size:96
Alignment explanation
Indices: 33636445--33636754 Score: 488
Period size: 96 Copynumber: 3.3 Consensus size: 96
33636435 CCCTTCGGGA
* * * * * * * *
33636445 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
33636508 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
33636539 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
*
33636602 ACTTTCACATTCATCACATCGGGCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
33636633 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
33636698 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
33636729 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
33636755 CACAATTATC
Statistics
Matches: 200, Mismatches: 12, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
93 1 0.00
94 95 0.47
96 104 0.52
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:33636701 original size:143 final size:141
Alignment explanation
Indices: 33636445--33636755 Score: 478
Period size: 143 Copynumber: 2.2 Consensus size: 141
33636435 CCCTTCGGGA
* * * * *
33636445 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
33636510 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
*
33636575 GGCTATTAGGC
131 GGCCATTAGGC
* * * *
33636586 CTTATCACATATATACACTTTCACATTCATCACATCGGGCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCAC--ATATATAC
* *
33636651 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
33636716 TCGGCCATTAGGC
129 TCGGCCATTAGGC
* *
33636729 CTTATCACATATATATACATTCACATC
1 CTTATCACATATATACACTTTCACATC
33636756 ACAATTATCC
Statistics
Matches: 153, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
141 46 0.30
143 107 0.70
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:33640665 original size:57 final size:59
Alignment explanation
Indices: 33640598--33640729 Score: 152
Period size: 57 Copynumber: 2.3 Consensus size: 59
33640588 TGCCACTGAT
* * *
33640598 CGATCTCGCACACATAGTGCTTGGTT-GAAGAACTCG-CACACACAGTGCCTCAATTAC
1 CGATCTCGCACACATAATGCTCGGTTAAAAGAACTCGCCACACACAGTGCCTCAATTAC
* * *
33640655 CGATTTCGCACACATAATGCTCGGTTAAAAGAATTTGCCACACACAGTGCCTCTAA-T--
1 CGATCTCGCACACATAATGCTCGGTTAAAAGAACTCGCCACACACAGTGCCTC-AATTAC
33640712 C-AT-TCGCACACATAATGC
1 CGATCTCGCACACATAATGC
33640730 CCATATTCAT
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
55 15 0.23
56 2 0.03
57 24 0.36
58 7 0.11
59 16 0.24
60 2 0.03
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (59 bp):
CGATCTCGCACACATAATGCTCGGTTAAAAGAACTCGCCACACACAGTGCCTCAATTAC
Found at i:33640951 original size:40 final size:40
Alignment explanation
Indices: 33640919--33641267 Score: 513
Period size: 40 Copynumber: 8.8 Consensus size: 40
33640909 CCAGCATGAT
* * * *
33640919 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * * *
33640959 TGCTCTTCGAGG-TTTAGCACGGATATATTACTAGCACGAA
1 TGCTCTTCG-GGACTTAGCCCGGATACATCACTAGCACGAA
* *
33640999 TGCTCTTTGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
33641039 TGCTCTTCGGGACTTAGGCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
33641079 TGCTCTTCGGGACTTAGCCCGGGTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
33641119 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
33641159 TGCTCTTCGGGACTTAGCCCGGGTACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
33641199 TGCTCTTCGGGACTTAGCCCGGGTACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
33641239 TGCTCTTCGGGACTTAGCTCGGAT-CATCA
1 TGCTCTTCGGGACTTAGCCCGGATACATCA
33641268 TCGAGACCTT
Statistics
Matches: 285, Mismatches: 22, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
39 6 0.02
40 277 0.97
41 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:33643570 original size:47 final size:47
Alignment explanation
Indices: 33643492--33643800 Score: 458
Period size: 47 Copynumber: 6.6 Consensus size: 47
33643482 GCCCTTCGGA
* * * * * *
33643492 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33643539 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
33643586 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
33643633 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33643680 CTTATCACATATATATACACTTTCACATTCATCACATCGG-CTTTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
33643728 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
33643775 CTTATTACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
33643801 CACAATTATC
Statistics
Matches: 239, Mismatches: 20, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
46 29 0.12
47 165 0.69
48 15 0.06
49 30 0.13
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:33643773 original size:142 final size:141
Alignment explanation
Indices: 33643492--33643801 Score: 460
Period size: 142 Copynumber: 2.2 Consensus size: 141
33643482 GCCCTTCGGA
* * * * *
33643492 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
33643557 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
* *
33643622 GGCTATTAGGC
131 AGCCATTAGGC
* * *
33643633 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCAC--ATATATAC
* *
33643698 ACTTTCACATTCATCACATCGG-CTTTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
33643762 TCAGCCATTAGGC
129 TCAGCCATTAGGC
* * *
33643775 CTTATTACATATATATACATTCACATC
1 CTTATCACATATATACACTTTCACATC
33643802 ACAATTATCC
Statistics
Matches: 151, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
141 47 0.31
142 74 0.49
143 30 0.20
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
AGCCATTAGGC
Found at i:33655797 original size:29 final size:29
Alignment explanation
Indices: 33655763--33655831 Score: 120
Period size: 29 Copynumber: 2.4 Consensus size: 29
33655753 ATCATGACCC
*
33655763 AAAGCCAAATCATCCGATTTGCATGGCCT
1 AAAGCCAAATCATCCGATATGCATGGCCT
*
33655792 GAAGCCAAATCATCCGATATGCATGGCCT
1 AAAGCCAAATCATCCGATATGCATGGCCT
33655821 AAAGCCAAATC
1 AAAGCCAAATC
33655832 GGTAAAATAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (29 bp):
AAAGCCAAATCATCCGATATGCATGGCCT
Found at i:33656988 original size:10 final size:10
Alignment explanation
Indices: 33656975--33657032 Score: 82
Period size: 10 Copynumber: 5.8 Consensus size: 10
33656965 TTATTTTTGA
33656975 TTATCTTTAT
1 TTATCTTTAT
*
33656985 TTATCTTTAA
1 TTATCTTTAT
*
33656995 TTATCTTTAA
1 TTATCTTTAT
33657005 TTATCTTTAT
1 TTATCTTTAT
33657015 TTAT-TTGTAT
1 TTATCTT-TAT
33657025 TTATCTTT
1 TTATCTTT
33657033 TAAAATTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
9 2 0.05
10 40 0.91
11 2 0.05
ACGTcount: A:0.22, C:0.09, G:0.02, T:0.67
Consensus pattern (10 bp):
TTATCTTTAT
Found at i:33656988 original size:20 final size:20
Alignment explanation
Indices: 33656963--33657032 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
33656953 TAATTCTAGG
* *
33656963 ATTTATTTTTGATTATCTTT
1 ATTTATCTTTAATTATCTTT
33656983 ATTTATCTTTAATTATCTTT
1 ATTTATCTTTAATTATCTTT
* *
33657003 AATTATCTTTATTTAT-TTGT
1 ATTTATCTTTAATTATCTT-T
33657023 ATTTATCTTT
1 ATTTATCTTT
33657033 TAAAATTTTA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
19 2 0.05
20 42 0.95
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (20 bp):
ATTTATCTTTAATTATCTTT
Found at i:33657008 original size:30 final size:30
Alignment explanation
Indices: 33656965--33657032 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
33656955 ATTCTAGGAT
* *
33656965 TTATTTTTGATTATCTTTATTTATCTT-TAA
1 TTATCTTTAATTATCTTTATTTAT-TTGTAA
*
33656995 TTATCTTTAATTATCTTTATTTATTTGTAT
1 TTATCTTTAATTATCTTTATTTATTTGTAA
33657025 TTATCTTT
1 TTATCTTT
33657033 TAAAATTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 2 0.06
30 32 0.94
ACGTcount: A:0.22, C:0.07, G:0.03, T:0.68
Consensus pattern (30 bp):
TTATCTTTAATTATCTTTATTTATTTGTAA
Found at i:33657781 original size:17 final size:18
Alignment explanation
Indices: 33657749--33657782 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33657739 TTTTCCTCAT
33657749 TTTAATTTCTGCAATTTA
1 TTTAATTTCTGCAATTTA
33657767 TTTAATTTC-GCAATTT
1 TTTAATTTCTGCAATTT
33657783 CAATTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.12, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAATTTCTGCAATTTA
Found at i:33666464 original size:40 final size:40
Alignment explanation
Indices: 33666409--33666590 Score: 269
Period size: 40 Copynumber: 4.6 Consensus size: 40
33666399 TATTCGAATG
* *
33666409 ATATCCGAGCTAAGTCCCGAAGGCAATTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
33666449 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
33666489 AAATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
33666529 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
33666569 ATATCC-GGCTAAATCCTGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
33666591 TACTTGGGTT
Statistics
Matches: 130, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 13 0.10
40 115 0.88
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:33668633 original size:47 final size:47
Alignment explanation
Indices: 33668582--33668752 Score: 225
Period size: 47 Copynumber: 3.6 Consensus size: 47
33668572 TCGGCTTCGC
* * *
33668582 CACATATATACACATTCACGTTCATCACATTGGCCATCCTGCCTTAT
1 CACATATATACACATTCACATTCATCACATTGGCCATTCGGCCTTAT
* **
33668629 CACATATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
1 CACATATATACACATTCACATTCATCACATTGGCCATTCGGCCTTAT
* * ***
33668676 CTCATATATGCATGCTCACATTCATCACATTGGCCATTCGGCCTTAT
1 CACATATATACACATTCACATTCATCACATTGGCCATTCGGCCTTAT
* *
33668723 CTCATAAATACACATTCACATTCATCACAT
1 CACATATATACACATTCACATTCATCACAT
33668753 AAAATCCTAA
Statistics
Matches: 111, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 111 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CACATATATACACATTCACATTCATCACATTGGCCATTCGGCCTTAT
Found at i:33673210 original size:24 final size:24
Alignment explanation
Indices: 33673176--33673232 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
33673166 TTTTTGGGTA
*
33673176 CACACGACCTGTGAGATGGTCTAC
1 CACACGACCTGTGACATGGTCTAC
*
33673200 CACACGGCCTGTGACATGGTCTAC
1 CACACGACCTGTGACATGGTCTAC
33673224 CACACGACC
1 CACACGACC
33673233 GTGTACGGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.25, C:0.35, G:0.23, T:0.18
Consensus pattern (24 bp):
CACACGACCTGTGACATGGTCTAC
Found at i:33676004 original size:39 final size:39
Alignment explanation
Indices: 33675950--33676028 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
33675940 TTATCAAAGT
33675950 ATGGAAATTAGGTCATGGATGAATATGCTAAAAATTTGA
1 ATGGAAATTAGGTCATGGATGAATATGCTAAAAATTTGA
*
33675989 ATGGAAATTAGGTCATGGATGAATATGCTGAAAATTTGA
1 ATGGAAATTAGGTCATGGATGAATATGCTAAAAATTTGA
33676028 A
1 A
33676029 ATTTATGGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.41, C:0.05, G:0.24, T:0.30
Consensus pattern (39 bp):
ATGGAAATTAGGTCATGGATGAATATGCTAAAAATTTGA
Found at i:33683411 original size:28 final size:28
Alignment explanation
Indices: 33683346--33683444 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
33683336 CATGAGATTG
* * *
33683346 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
33683375 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
33683403 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
33683431 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
33683445 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:33692401 original size:28 final size:28
Alignment explanation
Indices: 33692336--33692434 Score: 119
Period size: 28 Copynumber: 3.5 Consensus size: 28
33692326 CATGAGATTG
* * *
33692336 GCACTAAGTGTGCGGGTTCAAATTGTATA
1 GCACTAAGTGTGCGAGTT-AGATTATATA
*
33692365 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTAGATTATATA
* *
33692393 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCGAGTTAGATTATAT-A
33692421 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
33692435 GGCTTATTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 1 0.02
28 45 0.71
29 17 0.27
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTAGATTATATA
Found at i:33699438 original size:48 final size:48
Alignment explanation
Indices: 33699359--33700061 Score: 563
Period size: 48 Copynumber: 14.9 Consensus size: 48
33699349 AGGATGAATT
* * * * *
33699359 GCCGATGCAATGTTCCAAACATGATCTTACACTAGCTCACATGTCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGAG
* * * * * *
33699407 GCCGATGCCATGTCCCAGACATGGTCCTACACTAGCTCTCGTCTCAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGAG
* * * * *
33699455 GTCGATACCATGTACCAAACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCAT-ATCGAG
* * * * * * *
33699503 GTCGATGCTATGTCCCAGACATGGTCTTACACTAGCGCACATATCAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGAG
* * * * * * *
33699551 GTCGATGCCATGTCTCAGACATGCTCTTACA-TTGACTCTCAT-TACAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAG-CTCTCATAT-CGAG
* *
33699599 GCCGATGCCATATTCCAAACATGGTCTTACACTAGCTCTCATATCGTA-
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCG-AG
* * *
33699647 GCCGATGCCAAGTTCCAAACATGGTCTTACACTGGCTCTCATATC-ATG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGA-G
* *
33699695 GCC-A----ATG--CCAAACATGGTCTTACACTGGCTCTCATATCGTG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGAG
* * * *
33699736 GTCGATGCCATGTACCAAACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCAT-ATCGAG
* * * * * * *
33699784 GTCGATGCTATGTCCCAGACATGGTCTTACACTAGCGCACATATCAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGAG
* * * * * * *
33699832 GTCGATGCCATGTCTCAGACATGCTCTTACA-TTGACTCTCAT-TACAAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAG-CTCTCATAT-CGAG
* *
33699880 GCCGATGCCATATTCCAAACATGGTCTTACACTAGCTCTCATATCGTA-
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCG-AG
* * *
33699928 GCCGATGCCAAGTTCCAAACATGGTCTTACACTGGCTCTCATATC-ATG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGA-G
* *
33699976 GCC-A----ATG--CCAAACATGGTCTTACACTGGCTCTCATATCGTG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGAG
* * *
33700017 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATC
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATC
33700062 ACCCAAATGT
Statistics
Matches: 538, Mismatches: 83, Indels: 68
0.78 0.12 0.10
Matches are distributed among these distances:
41 68 0.13
42 2 0.00
43 4 0.01
46 8 0.01
47 12 0.02
48 433 0.80
49 11 0.02
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCGAG
Found at i:33699537 original size:96 final size:96
Alignment explanation
Indices: 33699361--33700049 Score: 631
Period size: 96 Copynumber: 7.3 Consensus size: 96
33699351 GATGAATTGC
* * * * *
33699361 CGATGCAATGTTCCAAACATGATCTTACACTAGCTCACAT-GTCGA-GGCCGATGCCATGTCCCA
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAAT--ATGGCCGATGCCATGTCCCA
* * * *
33699424 GACATGGTCCTACACTAGCTCTCGTCTCA-ATGT
64 AACATGGTCTTACACTAGCTCTCATATCATA-GT
* * * * * *
33699457 CGATACCATGTACCAAACATGGTCTTACACTGGCTCTCATAATGTGGTCGATGCTATGTCCCAGA
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAATATGGCCGATGCCATGTCCCAAA
* *
33699522 CATGGTCTTACACTAGCGCACATATCA-ATGT
66 CATGGTCTTACACTAGCTCTCATATCATA-GT
* * * * * *
33699553 CGATGCCATG-TCTCAGACATGCTCTTACATTGACTCTCATTACA-AT-GCCGATGCCATATTCC
1 CGATGCCATGTTC-CAAACATGGTCTTACACTGGCTCTCA-TA-ATATGGCCGATGCCATGTCCC
* *
33699615 AAACATGGTCTTACACTAGCTCTCATATCGTAGC
63 AAACATGGTCTTACACTAGCTCTCATATCATAGT
*
33699649 CGATGCCAAGTTCCAAACATGGTCTTACACTGGCTCTCAT-ATCATGGCC-A----ATG--CCAA
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAAT-ATGGCCGATGCCATGTCCCAA
* * *
33699706 ACATGGTCTTACACTGGCTCTCATATCGTGGT
65 ACATGGTCTTACACTAGCTCTCATATCATAGT
* * * * *
33699738 CGATGCCATGTACCAAACATGGTCTTACACTGGCTCTCATAATGTGGTCGATGCTATGTCCCAGA
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAATATGGCCGATGCCATGTCCCAAA
* *
33699803 CATGGTCTTACACTAGCGCACATATCA-ATGT
66 CATGGTCTTACACTAGCTCTCATATCATA-GT
* * * * * *
33699834 CGATGCCATG-TCTCAGACATGCTCTTACATTGACTCTCATTACA-AT-GCCGATGCCATATTCC
1 CGATGCCATGTTC-CAAACATGGTCTTACACTGGCTCTCA-TA-ATATGGCCGATGCCATGTCCC
* *
33699896 AAACATGGTCTTACACTAGCTCTCATATCGTAGC
63 AAACATGGTCTTACACTAGCTCTCATATCATAGT
*
33699930 CGATGCCAAGTTCCAAACATGGTCTTACACTGGCTCTCAT-ATCATGGCC-A----ATG--CCAA
1 CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAAT-ATGGCCGATGCCATGTCCCAA
* * *
33699987 ACATGGTCTTACACTGGCTCTCATATCGTGGT
65 ACATGGTCTTACACTAGCTCTCATATCATAGT
*
33700019 CGATGCCATGTCCCAAACATGGTCTTACACT
1 CGATGCCATGTTCCAAACATGGTCTTACACT
33700050 AGCACACATA
Statistics
Matches: 490, Mismatches: 76, Indels: 61
0.78 0.12 0.10
Matches are distributed among these distances:
89 137 0.28
90 3 0.01
91 4 0.01
93 2 0.00
94 3 0.01
95 10 0.02
96 316 0.64
97 13 0.03
98 2 0.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (96 bp):
CGATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATAATATGGCCGATGCCATGTCCCAAA
CATGGTCTTACACTAGCTCTCATATCATAGT
Found at i:33699928 original size:281 final size:281
Alignment explanation
Indices: 33699455--33700049 Score: 1172
Period size: 281 Copynumber: 2.1 Consensus size: 281
33699445 TCGTCTCAAT
*
33699455 GTCGATACCATGTACCAAACATGGTCTTACACTGGCTCTCATAATGTGGTCGATGCTATGTCCCA
1 GTCGATGCCATGTACCAAACATGGTCTTACACTGGCTCTCATAATGTGGTCGATGCTATGTCCCA
33699520 GACATGGTCTTACACTAGCGCACATATCAATGTCGATGCCATGTCTCAGACATGCTCTTACATTG
66 GACATGGTCTTACACTAGCGCACATATCAATGTCGATGCCATGTCTCAGACATGCTCTTACATTG
33699585 ACTCTCATTACAATGCCGATGCCATATTCCAAACATGGTCTTACACTAGCTCTCATATCGTAGCC
131 ACTCTCATTACAATGCCGATGCCATATTCCAAACATGGTCTTACACTAGCTCTCATATCGTAGCC
33699650 GATGCCAAGTTCCAAACATGGTCTTACACTGGCTCTCATATCATGGCCAATGCCAAACATGGTCT
196 GATGCCAAGTTCCAAACATGGTCTTACACTGGCTCTCATATCATGGCCAATGCCAAACATGGTCT
33699715 TACACTGGCTCTCATATCGTG
261 TACACTGGCTCTCATATCGTG
33699736 GTCGATGCCATGTACCAAACATGGTCTTACACTGGCTCTCATAATGTGGTCGATGCTATGTCCCA
1 GTCGATGCCATGTACCAAACATGGTCTTACACTGGCTCTCATAATGTGGTCGATGCTATGTCCCA
33699801 GACATGGTCTTACACTAGCGCACATATCAATGTCGATGCCATGTCTCAGACATGCTCTTACATTG
66 GACATGGTCTTACACTAGCGCACATATCAATGTCGATGCCATGTCTCAGACATGCTCTTACATTG
33699866 ACTCTCATTACAATGCCGATGCCATATTCCAAACATGGTCTTACACTAGCTCTCATATCGTAGCC
131 ACTCTCATTACAATGCCGATGCCATATTCCAAACATGGTCTTACACTAGCTCTCATATCGTAGCC
33699931 GATGCCAAGTTCCAAACATGGTCTTACACTGGCTCTCATATCATGGCCAATGCCAAACATGGTCT
196 GATGCCAAGTTCCAAACATGGTCTTACACTGGCTCTCATATCATGGCCAATGCCAAACATGGTCT
33699996 TACACTGGCTCTCATATCGTG
261 TACACTGGCTCTCATATCGTG
*
33700017 GTCGATGCCATGTCCCAAACATGGTCTTACACT
1 GTCGATGCCATGTACCAAACATGGTCTTACACT
33700050 AGCACACATA
Statistics
Matches: 312, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
281 312 1.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.29
Consensus pattern (281 bp):
GTCGATGCCATGTACCAAACATGGTCTTACACTGGCTCTCATAATGTGGTCGATGCTATGTCCCA
GACATGGTCTTACACTAGCGCACATATCAATGTCGATGCCATGTCTCAGACATGCTCTTACATTG
ACTCTCATTACAATGCCGATGCCATATTCCAAACATGGTCTTACACTAGCTCTCATATCGTAGCC
GATGCCAAGTTCCAAACATGGTCTTACACTGGCTCTCATATCATGGCCAATGCCAAACATGGTCT
TACACTGGCTCTCATATCGTG
Found at i:33700026 original size:41 final size:41
Alignment explanation
Indices: 33699894--33700013 Score: 150
Period size: 41 Copynumber: 2.8 Consensus size: 41
33699884 ATGCCATATT
* * *
33699894 CCAAACATGGTCTTACACTAGCTCTCATATCGTAGCCGATGCCAAGTT
1 CCAAACATGGTCTTACACTGGCTCTCATATC--A--TG--GCCAA-TG
33699942 CCAAACATGGTCTTACACTGGCTCTCATATCATGGCCAATG
1 CCAAACATGGTCTTACACTGGCTCTCATATCATGGCCAATG
33699983 CCAAACATGGTCTTACACTGGCTCTCATATC
1 CCAAACATGGTCTTACACTGGCTCTCATATC
33700014 GTGGTCGATG
Statistics
Matches: 69, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
41 32 0.46
42 5 0.07
44 1 0.01
46 1 0.01
48 30 0.43
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.28
Consensus pattern (41 bp):
CCAAACATGGTCTTACACTGGCTCTCATATCATGGCCAATG
Found at i:33700060 original size:89 final size:89
Alignment explanation
Indices: 33699894--33700062 Score: 266
Period size: 89 Copynumber: 1.9 Consensus size: 89
33699884 ATGCCATATT
*
33699894 CCAAACATGGTCTTACACTAGCTCTCATATCGTAGCCGATGCCAAGTTCCAAACATGGTCTTACA
1 CCAAACATGGTCTTACACTAGCTCTCATATCGTAGCCGATGCCAAGTCCCAAACATGGTCTTACA
* * *
33699959 CTGGCTCTCATATCATGGCCAATG
66 CTAGCACACATATCATGGCCAATG
* * * *
33699983 CCAAACATGGTCTTACACTGGCTCTCATATCGTGGTCGATGCCATGTCCCAAACATGGTCTTACA
1 CCAAACATGGTCTTACACTAGCTCTCATATCGTAGCCGATGCCAAGTCCCAAACATGGTCTTACA
33700048 CTAGCACACATATCA
66 CTAGCACACATATCA
33700063 CCCAAATGTC
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 72 1.00
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (89 bp):
CCAAACATGGTCTTACACTAGCTCTCATATCGTAGCCGATGCCAAGTCCCAAACATGGTCTTACA
CTAGCACACATATCATGGCCAATG
Found at i:33701845 original size:51 final size:51
Alignment explanation
Indices: 33701785--33701887 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
33701775 ATCACCGGAG
33701785 AAGATTTACAAGGCATTTCCTATCATAGAACAACTTAAACAGACATTCACT
1 AAGATTTACAAGGCATTTCCTATCATAGAACAACTTAAACAGACATTCACT
33701836 AAGATTTACAAGGCATTTCCTATCATAGAACAACTTAAACAGACATTCACT
1 AAGATTTACAAGGCATTTCCTATCATAGAACAACTTAAACAGACATTCACT
33701887 A
1 A
33701888 CATTTTATAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.27
Consensus pattern (51 bp):
AAGATTTACAAGGCATTTCCTATCATAGAACAACTTAAACAGACATTCACT
Found at i:33703604 original size:18 final size:19
Alignment explanation
Indices: 33703581--33703618 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
33703571 CCGAATGTAC
33703581 TTTTCATATACA-CATATA
1 TTTTCATATACATCATATA
*
33703599 TTTTCATTTACATCATATA
1 TTTTCATATACATCATATA
33703618 T
1 T
33703619 AATTTGCATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTTCATATACATCATATA
Found at i:33703944 original size:86 final size:85
Alignment explanation
Indices: 33703788--33703956 Score: 200
Period size: 86 Copynumber: 2.0 Consensus size: 85
33703778 ATATCGTACA
* * * *
33703788 ATGCCAATGTCCCAGACCTGGTCTTACATGTAATCACATATCGATGCCACTGTCCCAAACAGGGT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAACCACATATCGATGCCACTATCCCAAACAGGGT
*
33703853 CTTACACGA-ATCAAATACG
66 CTTACACGAGAACAAATACG
* * * *
33703872 ATGCCGATGTCCCAGACATGGTCTTACACGTAGCCAAATATATCGATGCCAAC-ATCCCAGAC-G
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAACC--ACATATCGATGCC-ACTATCCCAAACAG
33703935 TGGTCTTACACGAGAACAAATA
63 -GGTCTTACACGAGAACAAATA
33703957 TTGGAAATCC
Statistics
Matches: 71, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
84 30 0.42
85 1 0.01
86 31 0.44
87 9 0.13
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (85 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAACCACATATCGATGCCACTATCCCAAACAGGGT
CTTACACGAGAACAAATACG
Found at i:33707100 original size:27 final size:28
Alignment explanation
Indices: 33707016--33707113 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
33707006 CATGAGATTG
* * * *
33707016 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
33707045 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
33707073 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
33707100 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
33707114 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:33707124 original size:27 final size:27
Alignment explanation
Indices: 33707044--33707126 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
33707034 TAAATTGTAC
* *
33707044 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
33707072 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
33707099 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
33707126 A
1 A
33707127 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:33707127 original size:29 final size:27
Alignment explanation
Indices: 33707016--33707127 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
33707006 CATGAGATTG
** * *
33707016 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
33707045 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
33707073 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
33707100 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
33707128 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:33723999 original size:20 final size:19
Alignment explanation
Indices: 33723976--33724019 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
33723966 AATAATGGCC
33723976 TTTTT-AGATTTTTATTTT
1 TTTTTGAGATTTTTATTTT
*
33723994 TATTTTGGGATTTTTATTTT
1 T-TTTTGAGATTTTTATTTT
33724014 TTTTTG
1 TTTTTG
33724020 GTTTATAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 1 0.04
19 9 0.39
20 13 0.57
ACGTcount: A:0.14, C:0.00, G:0.11, T:0.75
Consensus pattern (19 bp):
TTTTTGAGATTTTTATTTT
Found at i:33728103 original size:34 final size:34
Alignment explanation
Indices: 33728063--33728129 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
33728053 TAGTGCGGTA
*
33728063 ACCCGCTATACTGTTAGGTTGCAGTAAAACTGCC
1 ACCCGCTATACTATTAGGTTGCAGTAAAACTGCC
*
33728097 ACCCGCTATACTATTAGGTTGTAGTAAAACTGC
1 ACCCGCTATACTATTAGGTTGCAGTAAAACTGC
33728130 TAGTTCAGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (34 bp):
ACCCGCTATACTATTAGGTTGCAGTAAAACTGCC
Found at i:33729755 original size:9 final size:9
Alignment explanation
Indices: 33729741--33729765 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
33729731 GACTAAAATG
33729741 TGAAATAAA
1 TGAAATAAA
33729750 TGAAATAAA
1 TGAAATAAA
33729759 TGAAATA
1 TGAAATA
33729766 TGTGGGCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (9 bp):
TGAAATAAA
Found at i:33737851 original size:27 final size:27
Alignment explanation
Indices: 33737820--33737880 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
33737810 GCTTTCAGTC
*
33737820 TCTTTTTGCTCTCTTTCGTTCTCTTTT
1 TCTTTTTGCTCTCTTTCATTCTCTTTT
* * *
33737847 TCTTTTTGTTTTCTTTCATTCTTTTTT
1 TCTTTTTGCTCTCTTTCATTCTCTTTT
33737874 TCTTTTT
1 TCTTTTT
33737881 CTATTTCTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.02, C:0.20, G:0.05, T:0.74
Consensus pattern (27 bp):
TCTTTTTGCTCTCTTTCATTCTCTTTT
Found at i:33739022 original size:27 final size:25
Alignment explanation
Indices: 33738973--33739022 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
33738963 ATATGAACAC
*
33738973 TTTCAATCTCTTTTTTTTTAATAAT
1 TTTCAATCTCTTTTTTTTAAATAAT
*
33738998 TTTCAATTTCCTTTTTTTTCAAATA
1 TTTCAATCT-CTTTTTTTT-AAATA
33739023 CTTACTCCTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.38
26 9 0.43
27 4 0.19
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTCAATCTCTTTTTTTTAAATAAT
Found at i:33740345 original size:39 final size:39
Alignment explanation
Indices: 33740302--33740378 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
33740292 ATGCAAAACA
*
33740302 CATATTACTGATGTGCAAACTATGACATAATTAAAGACT
1 CATATTAATGATGTGCAAACTATGACATAATTAAAGACT
*
33740341 CATATTAATGATGTTCAAACTATGACATAATTAAAGAC
1 CATATTAATGATGTGCAAACTATGACATAATTAAAGAC
33740379 ACAAACTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.31
Consensus pattern (39 bp):
CATATTAATGATGTGCAAACTATGACATAATTAAAGACT
Found at i:33743827 original size:47 final size:47
Alignment explanation
Indices: 33743773--33744079 Score: 533
Period size: 47 Copynumber: 6.5 Consensus size: 47
33743763 TTTGGATAAT
33743773 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
33743820 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
33743867 TGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAA
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
33743914 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
33743961 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * * * * * *
33744008 TGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGA
1 TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
33744055 TGTGAAAGTGTATAAATGTGATAAG
1 TGTGAAAGTGTATATATGTGATAAG
33744080 TCCCGAAGGG
Statistics
Matches: 248, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 248 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:33744248 original size:37 final size:37
Alignment explanation
Indices: 33744198--33744276 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 37
33744188 CCGAGCTCTA
* *
33744198 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
*
33744235 AAGACCCTATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
33744272 AAGAC
1 AAGAC
33744277 TTCGTAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
Found at i:33748796 original size:19 final size:19
Alignment explanation
Indices: 33748772--33748808 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
33748762 AGGTTATTTA
*
33748772 AGTAAATTAAATAAAACAT
1 AGTAAAATAAATAAAACAT
*
33748791 AGTAAAATAAGTAAAACA
1 AGTAAAATAAATAAAACA
33748809 AAACAAATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.05, G:0.08, T:0.22
Consensus pattern (19 bp):
AGTAAAATAAATAAAACAT
Found at i:33751083 original size:12 final size:12
Alignment explanation
Indices: 33751066--33751095 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
33751056 TCAGAAAGTT
33751066 ACACGGGGTAGG
1 ACACGGGGTAGG
33751078 ACACGGGGTAGG
1 ACACGGGGTAGG
33751090 ACACGG
1 ACACGG
33751096 CTATGTGATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.27, C:0.20, G:0.47, T:0.07
Consensus pattern (12 bp):
ACACGGGGTAGG
Found at i:33754639 original size:48 final size:48
Alignment explanation
Indices: 33754575--33754715 Score: 185
Period size: 48 Copynumber: 3.0 Consensus size: 48
33754565 GGTTATGTGT
*
33754575 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGTTATGA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGTTACGA
* * ** *
33754623 GATCCCATGTAAGACCATGTATAGGACATGGCATTGGCATCGACACGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGTTACGA
* * * *
33754671 GATCCCACGCAAGACCATATCTGGGATATGGCATTGGCAT-GTTAC
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGTTAC
33754716 TACGTTTATG
Statistics
Matches: 79, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
47 3 0.04
48 76 0.96
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGTTACGA
Found at i:33755158 original size:117 final size:117
Alignment explanation
Indices: 33754952--33755306 Score: 647
Period size: 117 Copynumber: 3.0 Consensus size: 117
33754942 ACATAAATCA
* *
33754952 CACATTTGTACAATCGTCATTAAAAAACCCATTCATCTCAATCACTTTGTCCCTTATAAGGTCCT
1 CACATTTGTACAATCATCATTAAAAAACTCATTCATCTCAATCACTTTGTCCCTTATAAGGTCCT
*
33755017 ACGAGACCTTAAAACATACTTAGAAGTGGTTTGGGACTAAACCGATAACAAT
66 ACGAGACCTTAAAACATACTTAGAAGTGGTTTGGGACTAAACCGATAACATT
33755069 CACATTTGTACAATCATCATTAAAAAACTCATTCATCTCAATCACTTTGTCCCTTATAAGGTCCT
1 CACATTTGTACAATCATCATTAAAAAACTCATTCATCTCAATCACTTTGTCCCTTATAAGGTCCT
* *
33755134 ACAAGACCTTAAAACATACTTAGAAGTGGTTTGGGACTAAACCGGTAACATT
66 ACGAGACCTTAAAACATACTTAGAAGTGGTTTGGGACTAAACCGATAACATT
* *
33755186 CAGATTTGTACAATCATCGTTAAAAAACTCATTCATCTCAATCACTTTGTCCCTTATAAGGTCCT
1 CACATTTGTACAATCATCATTAAAAAACTCATTCATCTCAATCACTTTGTCCCTTATAAGGTCCT
33755251 ACGAGACCTTAAAACATACTTAGAAGTGGTTTGGGACTAAACCGATAACATT
66 ACGAGACCTTAAAACATACTTAGAAGTGGTTTGGGACTAAACCGATAACATT
33755303 CACA
1 CACA
33755307 AACTTTGAGA
Statistics
Matches: 228, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 228 1.00
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.30
Consensus pattern (117 bp):
CACATTTGTACAATCATCATTAAAAAACTCATTCATCTCAATCACTTTGTCCCTTATAAGGTCCT
ACGAGACCTTAAAACATACTTAGAAGTGGTTTGGGACTAAACCGATAACATT
Found at i:33755342 original size:17 final size:18
Alignment explanation
Indices: 33755306--33755343 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
33755296 TAACATTCAC
*
33755306 AAACTTTGAGAAACTTAA
1 AAACTTTCAGAAACTTAA
*
33755324 AAACTTTCA-AAATTTAA
1 AAACTTTCAGAAACTTAA
33755341 AAA
1 AAA
33755344 GTCATAGGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.29
Consensus pattern (18 bp):
AAACTTTCAGAAACTTAA
Found at i:33759963 original size:27 final size:28
Alignment explanation
Indices: 33759879--33759976 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
33759869 CATGAGATTG
* * * *
33759879 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
33759908 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
33759936 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
33759963 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
33759977 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:33759987 original size:27 final size:27
Alignment explanation
Indices: 33759907--33759989 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
33759897 TAAATTGTAC
* *
33759907 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
33759935 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
33759962 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
33759989 A
1 A
33759990 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:33759990 original size:29 final size:27
Alignment explanation
Indices: 33759879--33759990 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
33759869 CATGAGATTG
** * *
33759879 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
33759908 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
33759936 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
33759963 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
33759991 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:33764913 original size:40 final size:41
Alignment explanation
Indices: 33764779--33764917 Score: 133
Period size: 40 Copynumber: 3.4 Consensus size: 41
33764769 CGTAACAATC
* * *
33764779 TCGCACACTTAGTGCTATTTCAATAAACCGAAGCTATCTCAATA
1 TCGCACACTTAGTGCTATTT--AT-AGCCGAAGCTATTTCAACA
*
33764823 TCGCACACTTAGTGCCTCA--TATAGCCGAAGCTATTCCAACA
1 TCGCACACTTAGTG-CT-ATTTATAGCCGAAGCTATTTCAACA
* * * *
33764864 -AGCATACTTAGTGCTATTTGTAGCCAAAGCTATTTCAA-A
1 TCGCACACTTAGTGCTATTTATAGCCGAAGCTATTTCAACA
33764903 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
33764918 CGATCATAGT
Statistics
Matches: 79, Mismatches: 11, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
38 1 0.01
39 3 0.04
40 40 0.51
41 15 0.19
42 2 0.03
44 15 0.19
45 2 0.03
46 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (41 bp):
TCGCACACTTAGTGCTATTTATAGCCGAAGCTATTTCAACA
Found at i:33769049 original size:24 final size:24
Alignment explanation
Indices: 33769020--33769065 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
33769010 CAAAAATGAC
33769020 AATAATGATGAAAACGATAATAAT
1 AATAATGATGAAAACGATAATAAT
* * *
33769044 AATAATGTTGATAATGATAATA
1 AATAATGATGAAAACGATAATA
33769066 GTGGTGGTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.54, C:0.02, G:0.13, T:0.30
Consensus pattern (24 bp):
AATAATGATGAAAACGATAATAAT
Found at i:33769056 original size:18 final size:18
Alignment explanation
Indices: 33769035--33769101 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 18
33769025 TGATGAAAAC
33769035 GATAATAATAATAATGTT
1 GATAATAATAATAATGTT
* * *
33769053 GATAATGATAATAGTGGT
1 GATAATAATAATAATGTT
* *
33769071 GGTAA-AACT-ATAATATT
1 GATAATAA-TAATAATGTT
*
33769088 GATGATAATAATAA
1 GATAATAATAATAA
33769102 AAATAATAAT
Statistics
Matches: 36, Mismatches: 10, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
17 10 0.28
18 26 0.72
ACGTcount: A:0.48, C:0.01, G:0.16, T:0.34
Consensus pattern (18 bp):
GATAATAATAATAATGTT
Found at i:33769451 original size:23 final size:23
Alignment explanation
Indices: 33769425--33769472 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
33769415 TAAAAGAGGG
*
33769425 AAATATAATAACAATAATAGTAA
1 AAATACAATAACAATAATAGTAA
**
33769448 AAATACAATAGTAATAATAGTAA
1 AAATACAATAACAATAATAGTAA
33769471 AA
1 AA
33769473 GGTGTAACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (23 bp):
AAATACAATAACAATAATAGTAA
Found at i:33769622 original size:14 final size:14
Alignment explanation
Indices: 33769605--33769640 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
33769595 ATAAAATTAC
33769605 TATATATATATACA
1 TATATATATATACA
*
33769619 TATATCTATATACA
1 TATATATATATACA
33769633 TATATATA
1 TATATATA
33769641 AAACAAACAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.44
Consensus pattern (14 bp):
TATATATATATACA
Found at i:33769893 original size:12 final size:12
Alignment explanation
Indices: 33769872--33769927 Score: 53
Period size: 12 Copynumber: 4.7 Consensus size: 12
33769862 TACTAAGGCT
33769872 AGTA-AATAATA
1 AGTATAATAATA
33769883 AGTATAATAATA
1 AGTATAATAATA
33769895 A-TAATAATAATGA
1 AGT-ATAATAAT-A
* *
33769908 AATATAATAGTA
1 AGTATAATAATA
*
33769920 TGTATAAT
1 AGTATAAT
33769928 GTTAAAATTG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
11 5 0.13
12 23 0.61
13 9 0.24
14 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (12 bp):
AGTATAATAATA
Found at i:33771169 original size:18 final size:18
Alignment explanation
Indices: 33771142--33771182 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
33771132 TTGGGAGTTA
*
33771142 TTTGGGTAGGTTATTTGT
1 TTTGGATAGGTTATTTGT
33771160 TTTGGATAGGTTATTTGT
1 TTTGGATAGGTTATTTGT
33771178 TTTGG
1 TTTGG
33771183 GCCCAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.12, C:0.00, G:0.32, T:0.56
Consensus pattern (18 bp):
TTTGGATAGGTTATTTGT
Found at i:33771176 original size:13 final size:12
Alignment explanation
Indices: 33771126--33771158 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
33771116 TTGGGTCTGG
33771126 GGTTATTTGGGA
1 GGTTATTTGGGA
33771138 -GTTATTTGGGTA
1 GGTTATTTGGG-A
33771150 GGTTATTTG
1 GGTTATTTG
33771159 TTTTGGATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 10 0.53
12 1 0.05
13 8 0.42
ACGTcount: A:0.15, C:0.00, G:0.36, T:0.48
Consensus pattern (12 bp):
GGTTATTTGGGA
Found at i:33772209 original size:43 final size:44
Alignment explanation
Indices: 33772142--33772228 Score: 131
Period size: 43 Copynumber: 2.0 Consensus size: 44
33772132 GAAGACGAGA
* *
33772142 TCTGTAATTTTCAGCCTATTACCCTACTGCTTAGGGGGTTAAGG
1 TCTGTAAATTTCAACCTATTACCCTACTGCTTAGGGGGTTAAGG
* *
33772186 TCTGTAAATTT-AACCTGTTACCCTACTGCTTAGGGGTTTAAGG
1 TCTGTAAATTTCAACCTATTACCCTACTGCTTAGGGGGTTAAGG
33772229 CTTGGTGAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 29 0.74
44 10 0.26
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (44 bp):
TCTGTAAATTTCAACCTATTACCCTACTGCTTAGGGGGTTAAGG
Done.