Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 326 of 444
Found at i:94038860 original size:27 final size:27
Alignment explanation
Indices: 94038812--94038970 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
94038802 ACGAGGCTGC
* *
94038812 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
94038839 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
94038865 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
94038892 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
94038919 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
94038946 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
94038971 GATGCTTCCT
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 102 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:94038905 original size:54 final size:54
Alignment explanation
Indices: 94038830--94038970 Score: 248
Period size: 54 Copynumber: 2.6 Consensus size: 54
94038820 GTGACGAAGT
*
94038830 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
94038884 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
94038938 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
94038971 GATGCTTCCT
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 78 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:94039137 original size:28 final size:26
Alignment explanation
Indices: 94039075--94039148 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 26
94039065 AAATTAACCC
** *
94039075 TAGGGGTATAACGGTAATTTTACACC
1 TAGGGGTATAATAGTAATTTTACACA
*
94039101 TAGGGGTATAATAGTAATTTTCCATACA
1 TAGGGGTATAATAGTAATTTT--ACACA
*
94039129 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAATAGTAATTT
94039149 AGCTAATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 19 0.46
28 22 0.54
ACGTcount: A:0.32, C:0.09, G:0.22, T:0.36
Consensus pattern (26 bp):
TAGGGGTATAATAGTAATTTTACACA
Found at i:94040605 original size:26 final size:26
Alignment explanation
Indices: 94040574--94040681 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
94040564 TGAAATGCCC
*
94040574 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
94040600 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
94040626 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
94040652 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
94040678 ATCA
1 ATCA
94040682 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:94041144 original size:21 final size:21
Alignment explanation
Indices: 94041118--94041158 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
94041108 TGGACCAGGT
94041118 CAGTATATGTATACGTGTAAG
1 CAGTATATGTATACGTGTAAG
*
94041139 CAGTATATGTATATGTGTAA
1 CAGTATATGTATACGTGTAA
94041159 TACCGTAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.37
Consensus pattern (21 bp):
CAGTATATGTATACGTGTAAG
Found at i:94041679 original size:12 final size:12
Alignment explanation
Indices: 94041647--94041731 Score: 50
Period size: 12 Copynumber: 7.1 Consensus size: 12
94041637 ATAATTAAAC
* *
94041647 AAAATAAATAAA
1 AAAAGAAATAGA
94041659 AAAAG-AATAGA
1 AAAAGAAATAGA
94041670 AAAAGAAATAAGA
1 AAAAGAAAT-AGA
*
94041683 AGAATG-AATA-A
1 A-AAAGAAATAGA
* *
94041694 AGAAGAAAAAGGA
1 AAAAGAAATA-GA
* *
94041707 GAAAGAAAAAGA
1 AAAAGAAATAGA
*
94041719 AAAAGAAAAAGA
1 AAAAGAAATAGA
94041731 A
1 A
94041732 GGAGAAAATT
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
10 2 0.03
11 15 0.26
12 22 0.38
13 16 0.28
14 3 0.05
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (12 bp):
AAAAGAAATAGA
Found at i:94041727 original size:5 final size:6
Alignment explanation
Indices: 94041658--94041731 Score: 57
Period size: 6 Copynumber: 12.3 Consensus size: 6
94041648 AAATAAATAA
* *
94041658 AAAAAG -AATAG AAAAAG AAATAAG AAGAATG AATAAAG ---AAG AAAAAGG
1 AAAAAG AAAAAG AAAAAG AAA-AAG AA-AAAG AA-AAAG AAAAAG AAAAA-G
*
94041706 AGAAAG AAAAAG AAAAAG AAAAAG AA
1 AAAAAG AAAAAG AAAAAG AAAAAG AA
94041732 GGAGAAAATT
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
3 3 0.06
5 4 0.07
6 29 0.54
7 17 0.31
8 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.20, T:0.05
Consensus pattern (6 bp):
AAAAAG
Found at i:94042988 original size:22 final size:22
Alignment explanation
Indices: 94042953--94043017 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
94042943 CTGCGATATT
* *
94042953 TACGGCCTTTAGCCGTCTTGTC
1 TACGGCGTTGAGCCGTCTTGTC
*
94042975 TACGGCGTTGAGCCGTCCTGTC
1 TACGGCGTTGAGCCGTCTTGTC
* *
94042997 TAAC-GTGTTGAGCCGTTTTGT
1 T-ACGGCGTTGAGCCGTCTTGT
94043018 TGACTTAGTG
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
22 34 0.94
23 2 0.06
ACGTcount: A:0.11, C:0.26, G:0.28, T:0.35
Consensus pattern (22 bp):
TACGGCGTTGAGCCGTCTTGTC
Found at i:94045730 original size:21 final size:21
Alignment explanation
Indices: 94045705--94045745 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
94045695 TTTGAGGTAG
94045705 GGGTGTGTCCCATGGCCACAC
1 GGGTGTGTCCCATGGCCACAC
* *
94045726 GGGTGTGTCCCTTGGGCACA
1 GGGTGTGTCCCATGGCCACA
94045746 ATGGCCTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.29, G:0.37, T:0.22
Consensus pattern (21 bp):
GGGTGTGTCCCATGGCCACAC
Found at i:94046114 original size:2 final size:2
Alignment explanation
Indices: 94046107--94046132 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
94046097 TTGGATGCTG
94046107 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
94046133 TGTTTGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94051367 original size:48 final size:48
Alignment explanation
Indices: 94051296--94051391 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
94051286 ACTTCCGTCG
94051296 CCGGAATAGGGTTACAAGGTATTACCGATTAAAATATAACTCAGATCA
1 CCGGAATAGGGTTACAAGGTATTACCGATTAAAATATAACTCAGATCA
94051344 CCGGAAGT-GGGTTACAAGGTATTACCGATTAAAATATAACTCAGATCA
1 CCGGAA-TAGGGTTACAAGGTATTACCGATTAAAATATAACTCAGATCA
94051392 AATTCGATTA
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
48 46 0.98
49 1 0.02
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.25
Consensus pattern (48 bp):
CCGGAATAGGGTTACAAGGTATTACCGATTAAAATATAACTCAGATCA
Found at i:94057887 original size:44 final size:44
Alignment explanation
Indices: 94057831--94057918 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
94057821 TAGAATTATG
94057831 TTGAACTCATCAAATGGCAGCAACATCAAATCACCTAGAAAGCA
1 TTGAACTCATCAAATGGCAGCAACATCAAATCACCTAGAAAGCA
*
94057875 TTGAACTCATCAAATGGCAGCAACATCAAATCACCTGGAAAGCA
1 TTGAACTCATCAAATGGCAGCAACATCAAATCACCTAGAAAGCA
94057919 CAGATGTCGA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.42, C:0.25, G:0.15, T:0.18
Consensus pattern (44 bp):
TTGAACTCATCAAATGGCAGCAACATCAAATCACCTAGAAAGCA
Found at i:94067746 original size:39 final size:39
Alignment explanation
Indices: 94067691--94067808 Score: 227
Period size: 39 Copynumber: 3.0 Consensus size: 39
94067681 AATATTGTTG
*
94067691 TTAGGTCAAAGTTACTGGTAATTGCTGCTCTGTATGATC
1 TTAGGTCAAAGCTACTGGTAATTGCTGCTCTGTATGATC
94067730 TTAGGTCAAAGCTACTGGTAATTGCTGCTCTGTATGATC
1 TTAGGTCAAAGCTACTGGTAATTGCTGCTCTGTATGATC
94067769 TTAGGTCAAAGCTACTGGTAATTGCTGCTCTGTATGATC
1 TTAGGTCAAAGCTACTGGTAATTGCTGCTCTGTATGATC
94067808 T
1 T
94067809 AACCCTTGGT
Statistics
Matches: 78, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 78 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (39 bp):
TTAGGTCAAAGCTACTGGTAATTGCTGCTCTGTATGATC
Found at i:94071839 original size:55 final size:54
Alignment explanation
Indices: 94071729--94071861 Score: 169
Period size: 55 Copynumber: 2.4 Consensus size: 54
94071719 AGGATACTAA
* * *
94071729 GTAAGACCATGCCAAGGCATGACATTAGTAAGTTCTACAAGGCAAAGAAATCAT
1 GTAAGACCATGCCAAGGCATGGCATTAGTAAATTCTACAAGGCAAAGAAACCAT
* * * **
94071783 GTAAGACCATGTCAAGACATGGCATT-GATAAATTACTATAAGGCAAAGAGCCCAT
1 GTAAGACCATGCCAAGGCATGGCATTAG-TAAATT-CTACAAGGCAAAGAAACCAT
94071838 GTAAGACCATGCCAAGGCATGGCA
1 GTAAGACCATGCCAAGGCATGGCA
94071862 ATGGTGAGTT
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
53 1 0.01
54 28 0.42
55 38 0.57
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.20
Consensus pattern (54 bp):
GTAAGACCATGCCAAGGCATGGCATTAGTAAATTCTACAAGGCAAAGAAACCAT
Found at i:94071912 original size:53 final size:55
Alignment explanation
Indices: 94071767--94071912 Score: 143
Period size: 55 Copynumber: 2.7 Consensus size: 55
94071757 TAAGTTCTAC
* * * *
94071767 AAGGCAAAGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAATTACTAT
1 AAGGCAAAGAGACCACGTAAGACCATGTCAAGACATGGCAATGATAAATTACTAT
* * * * * * *
94071822 AAGGCAAAGAGCCCATGTAAGACCATGCCAAGGCATGGCAATGGTGAGTT-C-AT
1 AAGGCAAAGAGACCACGTAAGACCATGTCAAGACATGGCAATGATAAATTACTAT
* * * *
94071875 AAGGCAAGGATACCACGTAAGACCAAGTCAAAACATGG
1 AAGGCAAAGAGACCACGTAAGACCATGTCAAGACATGG
94071913 AAATTGTAAG
Statistics
Matches: 74, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
53 32 0.43
54 1 0.01
55 41 0.55
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.18
Consensus pattern (55 bp):
AAGGCAAAGAGACCACGTAAGACCATGTCAAGACATGGCAATGATAAATTACTAT
Found at i:94073226 original size:45 final size:45
Alignment explanation
Indices: 94073162--94073252 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
94073152 ATTTTTTATG
*
94073162 CTCTGAACAGGTAAGATAAGTCTGGTAACGCCTTGTGCTCGACTC
1 CTCTGAACAGGTAAGATAAGTCTGGTAACGCCTCGTGCTCGACTC
*
94073207 CTCTGAACAGGTAAGATAAGTCTGGTAACGCCTCGTGCTTGACTC
1 CTCTGAACAGGTAAGATAAGTCTGGTAACGCCTCGTGCTCGACTC
94073252 C
1 C
94073253 GACAACGGTC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.26
Consensus pattern (45 bp):
CTCTGAACAGGTAAGATAAGTCTGGTAACGCCTCGTGCTCGACTC
Found at i:94074679 original size:19 final size:20
Alignment explanation
Indices: 94074636--94074679 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
94074626 TAAAAACAAA
*
94074636 ATAATTAGGATTAATTAATC
1 ATAATTAGGATTAATTAAAC
* *
94074656 CTAATTA-GTTTAATTAAAC
1 ATAATTAGGATTAATTAAAC
94074675 ATAAT
1 ATAAT
94074680 GAAGAAATAC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (20 bp):
ATAATTAGGATTAATTAAAC
Found at i:94081652 original size:29 final size:29
Alignment explanation
Indices: 94081610--94081668 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
94081600 ATATGTGACA
94081610 TCACATTATGTTGCAAAAGCAATTTAGAC
1 TCACATTATGTTGCAAAAGCAATTTAGAC
94081639 TCACATTATGTTGCAAAAGCAATTTAGAC
1 TCACATTATGTTGCAAAAGCAATTTAGAC
94081668 T
1 T
94081669 AACTCGATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (29 bp):
TCACATTATGTTGCAAAAGCAATTTAGAC
Found at i:94083010 original size:30 final size:29
Alignment explanation
Indices: 94082976--94083039 Score: 101
Period size: 30 Copynumber: 2.2 Consensus size: 29
94082966 ATGAATCGGA
*
94082976 AGCTTTGGCACTAAGCGTGCGATTTAAACT
1 AGCTTTAGCACTAAGCGTGCGATTT-AACT
*
94083006 AGCTTTAGCACTAAGTGTGCGATTTAACT
1 AGCTTTAGCACTAAGCGTGCGATTTAACT
94083035 AGCTT
1 AGCTT
94083040 CGGTTACTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 9 0.28
30 23 0.72
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.33
Consensus pattern (29 bp):
AGCTTTAGCACTAAGCGTGCGATTTAACT
Found at i:94085988 original size:40 final size:40
Alignment explanation
Indices: 94085767--94085984 Score: 402
Period size: 40 Copynumber: 5.5 Consensus size: 40
94085757 AACCCAAGTA
* *
94085767 CCTTCGGGAATTAG-CCGGATATAGCAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
94085806 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
94085846 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
94085886 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
*
94085926 CCTTCGGGACTTAGCCCGGTTATAGTAACTAGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
94085966 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
94085985 TTATCATCCG
Statistics
Matches: 175, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
39 13 0.07
40 162 0.93
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAATTG
Found at i:94087513 original size:13 final size:13
Alignment explanation
Indices: 94087495--94087520 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
94087485 ATTTTTATTT
94087495 TTAACATAAAATA
1 TTAACATAAAATA
94087508 TTAACATAAAATA
1 TTAACATAAAATA
94087521 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:94092629 original size:40 final size:40
Alignment explanation
Indices: 94092581--94092786 Score: 333
Period size: 40 Copynumber: 5.2 Consensus size: 40
94092571 GGACTAAGAT
* *
94092581 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
94092621 TCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
94092661 TCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
94092701 CCGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* * *
94092741 CCGAAGGCATTTGTGCGAGTTGCTATATCC-AGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
94092780 CCGAAGG
1 CCGAAGG
94092787 TACTTGGGTT
Statistics
Matches: 157, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 14 0.09
40 143 0.91
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:94106216 original size:23 final size:23
Alignment explanation
Indices: 94106186--94106232 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
94106176 ATTAGCTTAG
94106186 TTAGTAATTAACAAATCATTTGA
1 TTAGTAATTAACAAATCATTTGA
94106209 TTAGTAATTAACAAATCATTTGA
1 TTAGTAATTAACAAATCATTTGA
94106232 T
1 T
94106233 CATCATTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.40
Consensus pattern (23 bp):
TTAGTAATTAACAAATCATTTGA
Found at i:94111929 original size:182 final size:182
Alignment explanation
Indices: 94111622--94111987 Score: 705
Period size: 182 Copynumber: 2.0 Consensus size: 182
94111612 ATTCCACTTC
94111622 TTGATTCAGAGGTAAACCCGGTAGCTCCTCAGGGAAGATGTCCTAAAAATCCCTTACAGTTCTGA
1 TTGATTCAGAGGTAAACCCGGTAGCTCCTCAGGGAAGATGTCCTAAAAATCCCTTACAGTTCTGA
* *
94111687 TGTCCTTTGCAGTAGAGTCCCTAGAAACGGAAATGCTAATATAGGCCAAGAACGCCTCACATCCC
66 TGTCCTTTACAGTAGAGTCCCCAGAAACGGAAATGCTAATATAGGCCAAGAACGCCTCACATCCC
*
94111752 TTACGAACCAGTTTCTCAGCCACTAGTGCAAAGATCACATTAGCCAAATAAT
131 TTACGAACCAGTTTCTCAGCCACTAGTACAAAGATCACATTAGCCAAATAAT
94111804 TTGATTCAGAGGTAAACCCGGTAGCTCCTCAGGGAAGATGTCCTAAAAATCCCTTACAGTTCTGA
1 TTGATTCAGAGGTAAACCCGGTAGCTCCTCAGGGAAGATGTCCTAAAAATCCCTTACAGTTCTGA
94111869 TGTCCTTTACAGTAGAGTCCCCAGAAACGGAAATGCTAATATAGGCCAAGAACGCCTCACATCCC
66 TGTCCTTTACAGTAGAGTCCCCAGAAACGGAAATGCTAATATAGGCCAAGAACGCCTCACATCCC
94111934 TTACGAACCAGTTTCTCAGCCACTAGTACAAAGATCACATTAGCCAAATAAT
131 TTACGAACCAGTTTCTCAGCCACTAGTACAAAGATCACATTAGCCAAATAAT
94111986 TT
1 TT
94111988 CGACGTTCTC
Statistics
Matches: 181, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
182 181 1.00
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (182 bp):
TTGATTCAGAGGTAAACCCGGTAGCTCCTCAGGGAAGATGTCCTAAAAATCCCTTACAGTTCTGA
TGTCCTTTACAGTAGAGTCCCCAGAAACGGAAATGCTAATATAGGCCAAGAACGCCTCACATCCC
TTACGAACCAGTTTCTCAGCCACTAGTACAAAGATCACATTAGCCAAATAAT
Found at i:94113778 original size:15 final size:15
Alignment explanation
Indices: 94113760--94113788 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
94113750 AGTTTGATGA
94113760 TTATTAGCTAAAATT
1 TTATTAGCTAAAATT
94113775 TTATTAGCTAAAAT
1 TTATTAGCTAAAAT
94113789 GATTATGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (15 bp):
TTATTAGCTAAAATT
Found at i:94117563 original size:38 final size:39
Alignment explanation
Indices: 94117516--94117589 Score: 89
Period size: 38 Copynumber: 1.9 Consensus size: 39
94117506 AACATAATAT
* **
94117516 AATATTAATT-AATAAAATTATAAATCTATAAAATCCTTG
1 AATATTAATTGAAT-AAATTAAAAATAAATAAAATCCTTG
*
94117555 AATA-TAATTGGATAAATTAAAAATAAATAAAATCC
1 AATATTAATTGAATAAATTAAAAATAAATAAAATCC
94117590 AAGTCTTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
38 24 0.80
39 6 0.20
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.34
Consensus pattern (39 bp):
AATATTAATTGAATAAATTAAAAATAAATAAAATCCTTG
Found at i:94117893 original size:24 final size:24
Alignment explanation
Indices: 94117851--94117911 Score: 97
Period size: 24 Copynumber: 2.6 Consensus size: 24
94117841 ATTATCACTT
*
94117851 AATTAATGTT-ATAATTATATATC
1 AATTAATATTAATAATTATATATC
94117874 AATTAATATTAATAATTATATATC
1 AATTAATATTAATAATTATATATC
*
94117898 AATTAATACTAATA
1 AATTAATATTAATA
94117912 TTTAGCATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
23 9 0.26
24 26 0.74
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (24 bp):
AATTAATATTAATAATTATATATC
Found at i:94121305 original size:11 final size:11
Alignment explanation
Indices: 94121289--94121314 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
94121279 GATATTAATT
94121289 ATATTATAAAA
1 ATATTATAAAA
94121300 ATATTATAAAA
1 ATATTATAAAA
94121311 ATAT
1 ATAT
94121315 AAAGGTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
ATATTATAAAA
Found at i:94121558 original size:13 final size:13
Alignment explanation
Indices: 94121540--94121566 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
94121530 GAAGAATCTC
94121540 ATAAAAAATAAAA
1 ATAAAAAATAAAA
94121553 ATAAAAAATAAAA
1 ATAAAAAATAAAA
94121566 A
1 A
94121567 CAGAAATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
ATAAAAAATAAAA
Found at i:94132968 original size:20 final size:20
Alignment explanation
Indices: 94132940--94133010 Score: 99
Period size: 20 Copynumber: 3.5 Consensus size: 20
94132930 TTCTTTTATT
94132940 TTATGTTTCATATTTAATTA
1 TTATGTTTCATATTTAATTA
* *
94132960 TTATTTTTCATTATTTTATT-
1 TTATGTTTCA-TATTTAATTA
94132980 TTATGTTTCATATTTAATTA
1 TTATGTTTCATATTTAATTA
*
94133000 TTATTTTTCAT
1 TTATGTTTCAT
94133011 TCTTCTTTCA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
19 8 0.18
20 28 0.64
21 8 0.18
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (20 bp):
TTATGTTTCATATTTAATTA
Found at i:94132988 original size:40 final size:40
Alignment explanation
Indices: 94132933--94133011 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
94132923 AGGAAGTTTC
94132933 TTTTATTTTATGTTTCATATTTAATTATTATTTTTCATTA
1 TTTTATTTTATGTTTCATATTTAATTATTATTTTTCATTA
94132973 TTTTATTTTATGTTTCATATTTAATTATTATTTTTCATT
1 TTTTATTTTATGTTTCATATTTAATTATTATTTTTCATT
94133012 CTTCTTTCAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (40 bp):
TTTTATTTTATGTTTCATATTTAATTATTATTTTTCATTA
Found at i:94137589 original size:49 final size:49
Alignment explanation
Indices: 94137534--94138826 Score: 2298
Period size: 49 Copynumber: 26.4 Consensus size: 49
94137524 TATTAAAATT
* *
94137534 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAA
1 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
94137583 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
94137632 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
94137681 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
94137730 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
94137779 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
94137828 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
94137877 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
94137926 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
94137975 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
94138024 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
94138073 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
94138122 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * *
94138171 TGTGAAAGTGTATGTATATGTGATACGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
94138220 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
94138269 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
94138318 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
94138367 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATATGATGAA
1 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
94138416 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
94138465 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
94138514 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
94138563 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
94138612 TGTGAAAGTGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
94138661 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
94138710 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
94138759 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAA
1 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
94138808 TGTGAAAGTGTATATATAT
1 TGTGAAAGTGTGTATATAT
94138827 ATGTGGTAAA
Statistics
Matches: 1186, Mismatches: 58, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 1186 1.00
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.31
Consensus pattern (49 bp):
TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:94137848 original size:27 final size:27
Alignment explanation
Indices: 94137818--94137900 Score: 68
Period size: 27 Copynumber: 3.3 Consensus size: 27
94137808 CTAATGGCCG
94137818 ATGTGATGAATGTGAAAGTGTGTATAT
1 ATGTGATGAATGTGAAAGTGTGTATAT
* *** ***
94137845 ATGTGAT-AAGGCCTAA-TG-GCCGA-
1 ATGTGATGAATGTGAAAGTGTGTATAT
94137868 -TGTGATGAATGTGAAAGTGTGTATAT
1 ATGTGATGAATGTGAAAGTGTGTATAT
94137894 ATGTGAT
1 ATGTGAT
94137901 AAGGCCTAAT
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
22 6 0.16
23 5 0.14
24 4 0.11
25 4 0.11
26 5 0.14
27 13 0.35
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.34
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGTGTATAT
Found at i:94137995 original size:27 final size:27
Alignment explanation
Indices: 94137965--94138047 Score: 68
Period size: 27 Copynumber: 3.3 Consensus size: 27
94137955 CTAATGGCCG
94137965 ATGTGATGAATGTGAAAGTGTGTATAT
1 ATGTGATGAATGTGAAAGTGTGTATAT
* *** ***
94137992 ATGTGAT-AAGGCCTAA-TG-GCCGA-
1 ATGTGATGAATGTGAAAGTGTGTATAT
94138015 -TGTGATGAATGTGAAAGTGTGTATAT
1 ATGTGATGAATGTGAAAGTGTGTATAT
94138041 ATGTGAT
1 ATGTGAT
94138048 AAGGCCTAAT
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
22 6 0.16
23 5 0.14
24 4 0.11
25 4 0.11
26 5 0.14
27 13 0.35
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.34
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGTGTATAT
Found at i:94138240 original size:27 final size:27
Alignment explanation
Indices: 94138210--94138292 Score: 68
Period size: 27 Copynumber: 3.3 Consensus size: 27
94138200 CTAATGGCCG
94138210 ATGTGATGAATGTGAAAGTGTGTATAT
1 ATGTGATGAATGTGAAAGTGTGTATAT
* *** ***
94138237 ATGTGAT-AAGGCCTAA-TG-GCCGA-
1 ATGTGATGAATGTGAAAGTGTGTATAT
94138260 -TGTGATGAATGTGAAAGTGTGTATAT
1 ATGTGATGAATGTGAAAGTGTGTATAT
94138286 ATGTGAT
1 ATGTGAT
94138293 AAGGCCTAAT
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
22 6 0.16
23 5 0.14
24 4 0.11
25 4 0.11
26 5 0.14
27 13 0.35
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.34
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGTGTATAT
Found at i:94138632 original size:27 final size:27
Alignment explanation
Indices: 94138602--94138684 Score: 70
Period size: 27 Copynumber: 3.3 Consensus size: 27
94138592 CTAATGGCCG
94138602 ATGTGATGAATGTGAAAGTGTGTATAT
1 ATGTGATGAATGTGAAAGTGTGTATAT
* * ***
94138629 ATGTGAT-AAGGCT-TAA-TG-G--CCG
1 ATGTGATGAATG-TGAAAGTGTGTATAT
94138651 ATGTGATGAATGTGAAAGTGTGTATAT
1 ATGTGATGAATGTGAAAGTGTGTATAT
94138678 ATGTGAT
1 ATGTGAT
94138685 AAGGCCTAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 14
0.62 0.16 0.22
Matches are distributed among these distances:
22 8 0.21
23 5 0.13
24 3 0.08
25 3 0.08
26 5 0.13
27 15 0.38
ACGTcount: A:0.31, C:0.04, G:0.30, T:0.35
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGTGTATAT
Found at i:94139316 original size:23 final size:19
Alignment explanation
Indices: 94139272--94139316 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
94139262 ACTGCTTAAA
94139272 ACTTACTAAGCATTGTAGT
1 ACTTACTAAGCATTGTAGT
94139291 ACTTACTAAGCATTGTAGT
1 ACTTACTAAGCATTGTAGT
*
94139310 GCTTACT
1 ACTTACT
94139317 CCGTTTACTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.38
Consensus pattern (19 bp):
ACTTACTAAGCATTGTAGT
Found at i:94140895 original size:40 final size:40
Alignment explanation
Indices: 94140847--94141167 Score: 570
Period size: 40 Copynumber: 8.0 Consensus size: 40
94140837 GAGAGTGATA
*
94140847 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
94140887 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
94140927 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
94140967 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
94141007 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
94141047 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
*
94141087 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
* * * * * *
94141127 TATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGACG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
94141167 T
1 T
94141168 GTATTCGGGC
Statistics
Matches: 272, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 272 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGACG
Found at i:94145010 original size:49 final size:49
Alignment explanation
Indices: 94144955--94145512 Score: 1017
Period size: 49 Copynumber: 11.4 Consensus size: 49
94144945 TATTAAAATT
* *
94144955 TGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGGTGAA
1 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
94145004 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * *
94145053 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
94145102 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
94145151 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
94145200 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* * *
94145249 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAA
1 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
94145298 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
94145347 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
* *
94145396 TGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
94145445 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
1 TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
*
94145494 TGTGAAAGTGTATATATAT
1 TGTGAAAGTGTATGTATAT
94145513 ATGTGGTAAA
Statistics
Matches: 490, Mismatches: 19, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 490 1.00
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.31
Consensus pattern (49 bp):
TGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAA
Found at i:94145171 original size:27 final size:27
Alignment explanation
Indices: 94145141--94145223 Score: 68
Period size: 27 Copynumber: 3.3 Consensus size: 27
94145131 CTAATGGCCG
94145141 ATGTGATGAATGTGAAAGTGTATGTAT
1 ATGTGATGAATGTGAAAGTGTATGTAT
* *** ***
94145168 ATGTGAT-AAGGCCTAA-TGGCCG-A-
1 ATGTGATGAATGTGAAAGTGTATGTAT
94145191 -TGTGATGAATGTGAAAGTGTATGTAT
1 ATGTGATGAATGTGAAAGTGTATGTAT
94145217 ATGTGAT
1 ATGTGAT
94145224 AAGGCCTAAT
Statistics
Matches: 37, Mismatches: 14, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
22 6 0.16
23 5 0.14
24 4 0.11
25 4 0.11
26 5 0.14
27 13 0.35
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.34
Consensus pattern (27 bp):
ATGTGATGAATGTGAAAGTGTATGTAT
Found at i:94147861 original size:10 final size:10
Alignment explanation
Indices: 94147846--94147872 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
94147836 GCAACCTGTT
94147846 AGCCAATATA
1 AGCCAATATA
94147856 AGCCAATATA
1 AGCCAATATA
94147866 AGCCAAT
1 AGCCAAT
94147873 TTATATGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.48, C:0.22, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCCAATATA
Found at i:94149047 original size:20 final size:20
Alignment explanation
Indices: 94149022--94149059 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
94149012 GTCACATATA
94149022 TCATGAACTCAGACCACAAC
1 TCATGAACTCAGACCACAAC
* *
94149042 TCATGAGCTCAGATCACA
1 TCATGAACTCAGACCACA
94149060 TAGTTCCTAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.32, G:0.13, T:0.18
Consensus pattern (20 bp):
TCATGAACTCAGACCACAAC
Found at i:94149186 original size:25 final size:25
Alignment explanation
Indices: 94149158--94149206 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
94149148 CTAGAGAACC
*
94149158 AATCACATAACTCATGATAATGATT
1 AATCACATAACTCATCATAATGATT
* *
94149183 AATCACATAATTCTTCATAATGAT
1 AATCACATAACTCATCATAATGAT
94149207 AATAATAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.35
Consensus pattern (25 bp):
AATCACATAACTCATCATAATGATT
Found at i:94153561 original size:37 final size:37
Alignment explanation
Indices: 94153487--94153561 Score: 87
Period size: 37 Copynumber: 2.0 Consensus size: 37
94153477 TCACTCATGT
* ** * *
94153487 TCACCCATGTTCATCTTTGTCTTTGTTTTATACGGAA
1 TCACCCATGTTCATCTTAGTCTTTACTTTACAAGGAA
* *
94153524 TCACCCCTGTTCATCTTAGTCTTTACTTTGCAAGGAA
1 TCACCCATGTTCATCTTAGTCTTTACTTTACAAGGAA
94153561 T
1 T
94153562 TCTCTAAAGG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.20, C:0.24, G:0.13, T:0.43
Consensus pattern (37 bp):
TCACCCATGTTCATCTTAGTCTTTACTTTACAAGGAA
Found at i:94155187 original size:46 final size:46
Alignment explanation
Indices: 94155137--94155312 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
94155127 TGTTTGGGCA
94155137 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
94155183 TCCGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
94155228 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
94155276 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
94155313 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:94155271 original size:93 final size:93
Alignment explanation
Indices: 94155133--94155305 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
94155123 AGGATGTTTG
* * *
94155133 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
94155198 TTGAGTCCAAGTTCGTGAGATGTAACTA
66 TTGAGTCCAAGTTCGTGAGATGTAACTA
*
94155226 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
*
94155291 TTGAGTCCGAGTTCG
66 TTGAGTCCAAGTTCG
94155306 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCAAGTTCGTGAGATGTAACTA
Found at i:94160858 original size:20 final size:22
Alignment explanation
Indices: 94160815--94160858 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
94160805 CAAAAGGTCC
* *
94160815 AACAGAAAATACAAAGAGACAA
1 AACAAAAAATACAAAGAGAAAA
94160837 AACAAAAAATA-AAAG-GAAAA
1 AACAAAAAATACAAAGAGAAAA
94160857 AA
1 AA
94160859 ATAACCCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 4 0.20
22 10 0.50
ACGTcount: A:0.75, C:0.09, G:0.11, T:0.05
Consensus pattern (22 bp):
AACAAAAAATACAAAGAGAAAA
Found at i:94165517 original size:12 final size:11
Alignment explanation
Indices: 94165473--94165526 Score: 54
Period size: 12 Copynumber: 4.6 Consensus size: 11
94165463 TATCTAATAT
94165473 TTGAAATGGAAA
1 TTGAAAT-GAAA
* *
94165485 ATGATATGAAA
1 TTGAAATGAAA
*
94165496 TTGAAGTGAAA
1 TTGAAATGAAA
94165507 TGTGAAATGAAA
1 T-TGAAATGAAA
94165519 TATGAAAT
1 T-TGAAAT
94165527 TGTGGAATGA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
11 13 0.38
12 21 0.62
ACGTcount: A:0.50, C:0.00, G:0.22, T:0.28
Consensus pattern (11 bp):
TTGAAATGAAA
Found at i:94165891 original size:21 final size:22
Alignment explanation
Indices: 94165866--94165917 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
94165856 TGAATGATAA
94165866 TGAAATGTTGAA-TAAGTGAAT
1 TGAAATGTTGAATTAAGTGAAT
94165887 TGAAATGTTGAATTAAGTGAAT
1 TGAAATGTTGAATTAAGTGAAT
94165909 TGAAATGTT
1 TGAAATGTT
94165918 ATATGATTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 12 0.40
22 18 0.60
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.37
Consensus pattern (22 bp):
TGAAATGTTGAATTAAGTGAAT
Found at i:94167815 original size:45 final size:45
Alignment explanation
Indices: 94167751--94167885 Score: 252
Period size: 45 Copynumber: 3.0 Consensus size: 45
94167741 TTGATCTGTC
94167751 AATTCATATACGGGGGTGCCCATTAGGGCACATAACCGGGAAGCA
1 AATTCATATACGGGGGTGCCCATTAGGGCACATAACCGGGAAGCA
94167796 AATTCATATACGGGGGTGCCCATTAGGGCACATAACCGGGAAGCA
1 AATTCATATACGGGGGTGCCCATTAGGGCACATAACCGGGAAGCA
* *
94167841 AATTCATATACGGGGGTGCCCATTGGGGCACATAACTGGGAAGCA
1 AATTCATATACGGGGGTGCCCATTAGGGCACATAACCGGGAAGCA
94167886 TACTCTCGAG
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 88 1.00
ACGTcount: A:0.30, C:0.21, G:0.30, T:0.19
Consensus pattern (45 bp):
AATTCATATACGGGGGTGCCCATTAGGGCACATAACCGGGAAGCA
Found at i:94168052 original size:23 final size:24
Alignment explanation
Indices: 94167977--94168068 Score: 100
Period size: 24 Copynumber: 3.9 Consensus size: 24
94167967 GGTATATAAT
*
94167977 GGGAAGCTTA-TAAGAGCCATAATC
1 GGGAAGCTTACAAAGAGCCAT-ATC
*
94168001 GGGAAG-TTCACAAAGAACCATATC
1 GGGAAGCTT-ACAAAGAGCCATATC
**
94168025 GGGAAGCTTATGAAGAGCC-TATC
1 GGGAAGCTTACAAAGAGCCATATC
*
94168048 AGGAAGCTTACAAAGAGCCAT
1 GGGAAGCTTACAAAGAGCCAT
94168069 GTAATGGGAA
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
23 22 0.39
24 24 0.43
25 10 0.18
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.18
Consensus pattern (24 bp):
GGGAAGCTTACAAAGAGCCATATC
Found at i:94168062 original size:47 final size:48
Alignment explanation
Indices: 94167977--94168068 Score: 127
Period size: 47 Copynumber: 1.9 Consensus size: 48
94167967 GGTATATAAT
*
94167977 GGGAAGCTTATAAGAGCCATAATCGGGAAGTTCACAAAGAACCATATC
1 GGGAAGCTTATAAGAGCCATAATCAGGAAGTTCACAAAGAACCATATC
*
94168025 GGGAAGCTTATGAAGAGCC-T-ATCAGGAAGCTT-ACAAAGAGCCAT
1 GGGAAGCTTAT-AAGAGCCATAATCAGGAAG-TTCACAAAGAACCAT
94168069 GTAATGGGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
47 19 0.47
48 14 0.35
49 7 0.17
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.18
Consensus pattern (48 bp):
GGGAAGCTTATAAGAGCCATAATCAGGAAGTTCACAAAGAACCATATC
Found at i:94170198 original size:18 final size:18
Alignment explanation
Indices: 94170172--94170207 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
94170162 GCCAAAACAG
* *
94170172 TATCCATACTTACTATAA
1 TATCAATACTTACCATAA
94170190 TATCAATACTTACCATAA
1 TATCAATACTTACCATAA
94170208 AAGTATCGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.22, G:0.00, T:0.36
Consensus pattern (18 bp):
TATCAATACTTACCATAA
Found at i:94171873 original size:24 final size:25
Alignment explanation
Indices: 94171841--94171937 Score: 119
Period size: 25 Copynumber: 4.0 Consensus size: 25
94171831 AAACTCTTAT
94171841 GAGCTTCCCGTTATATAGCTCGTA-
1 GAGCTTCCCGTTATATAGCTCGTAG
** *
94171865 GAGCTTCCCGTTAT-TCAGCTCACAT
1 GAGCTTCCCGTTATAT-AGCTCGTAG
* *
94171890 GAGCTTCCCGTTATTTAGCTCGGAG
1 GAGCTTCCCGTTATATAGCTCGTAG
94171915 GAGCTTCCCGTT-TATAGCTCGTA
1 GAGCTTCCCGTTATATAGCTCGTA
94171938 TGAGAATACA
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
23 1 0.02
24 29 0.46
25 32 0.51
26 1 0.02
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.33
Consensus pattern (25 bp):
GAGCTTCCCGTTATATAGCTCGTAG
Found at i:94179591 original size:40 final size:40
Alignment explanation
Indices: 94179388--94179579 Score: 294
Period size: 40 Copynumber: 4.8 Consensus size: 40
94179378 GAGAATTGAG
*
94179388 AGTGATATATTCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
94179428 AGTGATATATCCGGGTTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
94179468 AGTGATATATCCGGGCTAAGTCCTGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
94179508 AGTGATAAATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
94179548 GGTGTTATATCCAGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
94179580 ATTATGCTGG
Statistics
Matches: 139, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:94194730 original size:87 final size:87
Alignment explanation
Indices: 94194601--94194769 Score: 302
Period size: 87 Copynumber: 1.9 Consensus size: 87
94194591 AAGATAAGGC
* *
94194601 AGCGTTAAAATCTCCTATGATAAGCCAAGGAATGGGCTGGGCTAGGGAGACAGATTTTAACCCTT
1 AGCGTTAAAATCTCCCATGATAAGCCAAGGAATGGGCTGGGCTAGAGAGACAGATTTTAACCCTT
94194666 CCCAAAGAAGCTTGCGTAGGAT
66 CCCAAAGAAGCTTGCGTAGGAT
*
94194688 AGCGTTAAAATCTCCCATGATAAGCCAAGGAGTGGGCTGGGCTAGAGAGACAGATTTTAACCCTT
1 AGCGTTAAAATCTCCCATGATAAGCCAAGGAATGGGCTGGGCTAGAGAGACAGATTTTAACCCTT
*
94194753 CCTAAAGAAGCTTGCGT
66 CCCAAAGAAGCTTGCGT
94194770 TTCATCCTGC
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
87 78 1.00
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (87 bp):
AGCGTTAAAATCTCCCATGATAAGCCAAGGAATGGGCTGGGCTAGAGAGACAGATTTTAACCCTT
CCCAAAGAAGCTTGCGTAGGAT
Found at i:94197762 original size:46 final size:46
Alignment explanation
Indices: 94197695--94197959 Score: 240
Period size: 46 Copynumber: 5.7 Consensus size: 46
94197685 AACCCGCCCC
*
94197695 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGCCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCCGTTCGCATCCA
* *
94197741 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATACCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG---CC--GTTCGCATCCA
* * * * *
94197789 TCA-CGAACTCGGACTCAACTCAACGATTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCCGTTCGCATCCA
* * *
94197834 TAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCG--GCC--GTTCGCATCCA
* * * * *
94197882 TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCCGTTCGCATCCA
94197927 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
94197960 ATGCTCAACC
Statistics
Matches: 172, Mismatches: 29, Indels: 36
0.73 0.12 0.15
Matches are distributed among these distances:
42 4 0.02
43 6 0.03
44 3 0.02
45 4 0.02
46 83 0.48
47 53 0.31
48 4 0.02
49 4 0.02
50 6 0.03
51 5 0.03
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCCGTTCGCATCCA
Found at i:94197814 original size:47 final size:47
Alignment explanation
Indices: 94197746--94197911 Score: 203
Period size: 47 Copynumber: 3.6 Consensus size: 47
94197736 ATCCATAAGT
94197746 GAACTCGGACTCAACTCAACGAGTTCGGATACCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATACCTAGTTACATTTCAC
* * * * * * * *
94197793 GAACTCGGACTCAACTCAACGATTTCGGACA-TTCGCATCCA--TAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATACCTAG-TTACATTTCA-C
* *
94197839 GAACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAACGAGTTCGGATACCTAGTTACATTTCAC
94197886 GAACTCGGACTCAACTCAACGAGTTC
1 GAACTCGGACTCAACTCAACGAGTTC
94197912 AGACATTCGC
Statistics
Matches: 95, Mismatches: 19, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
45 2 0.02
46 32 0.34
47 59 0.62
48 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATACCTAGTTACATTTCAC
Found at i:94197962 original size:93 final size:93
Alignment explanation
Indices: 94197700--94197963 Score: 465
Period size: 93 Copynumber: 2.8 Consensus size: 93
94197690 GCCCCTAAGT
* * *
94197700 GAACTCGGACTCAACTCAACGAGCTCGGCCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
94197765 CGAGTTCGGATACCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
94197793 GAACTCGGACTCAACTCAACGATTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
94197858 CGAGTTTGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
94197886 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
94197951 CGAGTTCGGATGC
66 CGAGTTCGGATGC
94197964 TCAACCATCC
Statistics
Matches: 162, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 162 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:94200079 original size:22 final size:22
Alignment explanation
Indices: 94200051--94200092 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
94200041 TTCCAGTTAA
94200051 TCAAAGTCAGCATTGGAACTGG
1 TCAAAGTCAGCATTGGAACTGG
*
94200073 TCAAAGTCAGCCTTGGAACT
1 TCAAAGTCAGCATTGGAACT
94200093 TTGAAGGGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (22 bp):
TCAAAGTCAGCATTGGAACTGG
Found at i:94201192 original size:14 final size:13
Alignment explanation
Indices: 94201165--94201189 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94201155 AAATAGTAAA
94201165 AATTTGAGAAAAT
1 AATTTGAGAAAAT
94201178 AATTTGAGAAAA
1 AATTTGAGAAAA
94201190 ATAGTAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (13 bp):
AATTTGAGAAAAT
Found at i:94202545 original size:21 final size:21
Alignment explanation
Indices: 94202519--94202570 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
94202509 AAATGATAGC
94202519 AAAATAG-AG-AAAAAAAATAA
1 AAAATAGCAGTAAAAAAAA-AA
*
94202539 GAAAATAGCAGTAAAACAAAAA
1 -AAAATAGCAGTAAAAAAAAAA
94202561 AAAATAGCAG
1 AAAATAGCAG
94202571 CTTTTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 17 0.61
22 4 0.14
23 7 0.25
ACGTcount: A:0.71, C:0.06, G:0.13, T:0.10
Consensus pattern (21 bp):
AAAATAGCAGTAAAAAAAAAA
Found at i:94203671 original size:26 final size:24
Alignment explanation
Indices: 94203633--94203691 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
94203623 GAAATCATAA
*
94203633 AAAAAGTATAAAAAATTATTTAAAAAT
1 AAAAA-TACAAAAAATTA--TAAAAAT
*
94203660 AAAAATACAAAAAGTTATAAAAAT
1 AAAAATACAAAAAATTATAAAAAT
94203684 ATAAAATA
1 A-AAAATA
94203692 ATTACAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 8 0.28
25 6 0.21
26 10 0.34
27 5 0.17
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.25
Consensus pattern (24 bp):
AAAAATACAAAAAATTATAAAAAT
Found at i:94203766 original size:32 final size:33
Alignment explanation
Indices: 94203730--94203798 Score: 97
Period size: 32 Copynumber: 2.2 Consensus size: 33
94203720 TGGAAATTAT
* *
94203730 AAAAAATTATT-GAAAGTTATAGAAAA-TACAA
1 AAAAAATTATTCGAAAATAATAGAAAATTACAA
*
94203761 AAAAAATTATTCGAAAATAATATAAAATTACAA
1 AAAAAATTATTCGAAAATAATAGAAAATTACAA
94203794 AAAAA
1 AAAAA
94203799 CTCTATAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 11 0.33
32 12 0.36
33 10 0.30
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (33 bp):
AAAAAATTATTCGAAAATAATAGAAAATTACAA
Found at i:94204124 original size:19 final size:19
Alignment explanation
Indices: 94204097--94204142 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
94204087 TATGTGTTTA
* *
94204097 TAAT-ATTTTGCAA-ATTT
1 TAATAATTTTTCAATATTG
*
94204114 TAATAATTTTTTAATATTG
1 TAATAATTTTTCAATATTG
94204133 TAATAATTTT
1 TAATAATTTT
94204143 CTATGGTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 4 0.17
18 7 0.29
19 13 0.54
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (19 bp):
TAATAATTTTTCAATATTG
Found at i:94204558 original size:17 final size:17
Alignment explanation
Indices: 94204512--94204558 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
94204502 CCTTTAACCA
94204512 ACTTTTAATTTT-ATAT
1 ACTTTTAATTTTAATAT
**
94204528 AAATTT-ATTATTAATAT
1 ACTTTTAATT-TTAATAT
94204545 ACTTTTAATTTTAA
1 ACTTTTAATTTTAA
94204559 GGAATTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
15 3 0.12
16 6 0.25
17 12 0.50
18 3 0.12
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (17 bp):
ACTTTTAATTTTAATAT
Found at i:94204575 original size:32 final size:33
Alignment explanation
Indices: 94204512--94204576 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
94204502 CCTTTAACCA
* *
94204512 ACTTTTAATTTTATATAAATTTATTATTAATAT
1 ACTTTTAATTTTATAGAAATTTATTACTAATAT
*
94204545 ACTTTTAATTTTA-AGGAATTTATTACTAATAT
1 ACTTTTAATTTTATAGAAATTTATTACTAATAT
94204577 CATAATTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.55
33 13 0.45
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (33 bp):
ACTTTTAATTTTATAGAAATTTATTACTAATAT
Found at i:94205345 original size:2 final size:2
Alignment explanation
Indices: 94205338--94205373 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
94205328 CGAATTCATT
94205338 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
94205374 TATATATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:94205378 original size:2 final size:2
Alignment explanation
Indices: 94205373--94205404 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
94205363 ACACACACAC
94205373 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94205405 CGTTCTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:94205654 original size:39 final size:39
Alignment explanation
Indices: 94205611--94205742 Score: 192
Period size: 39 Copynumber: 3.4 Consensus size: 39
94205601 GGTTTTTAAC
* ** *
94205611 CCGGATATTTTTCCAGCACGTAGCCTGCGGACCTCAAGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
* * *
94205650 CCGGATATATTTCTAGCATATAGCCTGCGAATCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
*
94205689 CCGGATATTTTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
94205728 CCGGATATATTTCCA
1 CCGGATATATTTCCA
94205743 ATCTCATATA
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (39 bp):
CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:94206770 original size:2 final size:2
Alignment explanation
Indices: 94206763--94206813 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
94206753 TATAATCACG
94206763 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94206805 AT AT AT AT A
1 AT AT AT AT A
94206814 CAACCTAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:94207978 original size:60 final size:60
Alignment explanation
Indices: 94207912--94208026 Score: 212
Period size: 60 Copynumber: 1.9 Consensus size: 60
94207902 TAAAGGAAAC
* *
94207912 AGTAATACAACCACTACTAGTACAAACATTATTATTAAAGTTATTGACATAAAGTGCAAT
1 AGTAATACAACCACTACTAGTACAAACATTATTATTAAAGCTATTAACATAAAGTGCAAT
94207972 AGTAATACAACCACTACTAGTACAAACATTATTATTAAAGCTATTAACATAAAGT
1 AGTAATACAACCACTACTAGTACAAACATTATTATTAAAGCTATTAACATAAAGT
94208027 AGCTAGGTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
60 53 1.00
ACGTcount: A:0.46, C:0.16, G:0.09, T:0.30
Consensus pattern (60 bp):
AGTAATACAACCACTACTAGTACAAACATTATTATTAAAGCTATTAACATAAAGTGCAAT
Found at i:94217129 original size:40 final size:39
Alignment explanation
Indices: 94217065--94217263 Score: 218
Period size: 39 Copynumber: 5.1 Consensus size: 39
94217055 GCTACTCGTT
* * * ** *
94217065 CAAACGCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* * *
94217105 CAAATGCCTTCGGGACTTAACCCGGGTATCACAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
*
94217145 CAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
* * * *
94217184 CAATTGCCTTCGGGCTTAGCCCGGATATCACAATTTGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
** * *
94217223 CATTTGCCTTCGGGCTTAGCCCGGATATCACAATTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
94217262 CA
1 CA
94217264 TTCATACACA
Statistics
Matches: 142, Mismatches: 17, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 97 0.68
40 45 0.32
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
Found at i:94217232 original size:78 final size:79
Alignment explanation
Indices: 94217070--94217263 Score: 255
Period size: 78 Copynumber: 2.5 Consensus size: 79
94217060 TCGTTCAAAC
* * ** * *
94217070 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATGCCTTCGGGACTTAACCCGGGTATC
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATC
94217135 ACAACTCGCACAATT
65 ACAACTCGCACAATT
* *
94217150 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATCA
* * *
94217214 CAATTTGCACATTT
66 CAACTCGCACAATT
* *
94217228 GCCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
94217264 TTCATACACA
Statistics
Matches: 101, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
78 59 0.58
79 33 0.33
80 9 0.09
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (79 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATCA
CAACTCGCACAATT
Found at i:94217265 original size:39 final size:39
Alignment explanation
Indices: 94217101--94217263 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
94217091 TATGGTAACC
* * *
94217101 CGCACAAATGCCTTCGGGACTTAACCCGGGTATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
*
94217141 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
94217180 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* * *
94217219 TGCACATTTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
94217258 CGCACA
1 CGCACA
94217264 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:94230645 original size:46 final size:45
Alignment explanation
Indices: 94230595--94230770 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
94230585 TGGTTGAGCA
94230595 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
94230641 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
94230688 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
94230734 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
94230771 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:94230751 original size:93 final size:93
Alignment explanation
Indices: 94230592--94230762 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
94230582 GGATGGTTGA
* *
94230592 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
94230657 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* *
94230685 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
94230750 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
94230763 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:94233730 original size:13 final size:14
Alignment explanation
Indices: 94233712--94233761 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
94233702 CTTGGGTTTC
94233712 TTTATTCT-GATTT
1 TTTATTCTGGATTT
94233725 TTTATTCTGGATTT
1 TTTATTCTGGATTT
*
94233739 CTCTA-TCTTGGATTT
1 -TTTATTC-TGGATTT
94233754 CTTTATTC
1 -TTTATTC
94233762 GGTTTCTTGT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 8 0.26
14 7 0.23
15 14 0.45
16 2 0.06
ACGTcount: A:0.14, C:0.14, G:0.10, T:0.62
Consensus pattern (14 bp):
TTTATTCTGGATTT
Found at i:94233769 original size:13 final size:14
Alignment explanation
Indices: 94233706--94233769 Score: 62
Period size: 13 Copynumber: 4.6 Consensus size: 14
94233696 TCGTATCTTG
94233706 GGTTTCTTTATTCT
1 GGTTTCTTTATTCT
*
94233720 GATTT-TTTATTCT
1 GGTTTCTTTATTCT
*
94233733 GGATTTCTCTA-TCTT
1 GG-TTTCTTTATTC-T
94233748 GGATTTCTTTATTC-
1 GG-TTTCTTTATTCT
94233762 GGTTTCTT
1 GGTTTCTT
94233770 GTTATCTTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
13 15 0.36
14 11 0.26
15 14 0.33
16 2 0.05
ACGTcount: A:0.11, C:0.14, G:0.14, T:0.61
Consensus pattern (14 bp):
GGTTTCTTTATTCT
Found at i:94235853 original size:46 final size:46
Alignment explanation
Indices: 94235689--94235862 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 46
94235679 GGTTGAGCAT
* *
94235689 CCGAACTCGTTGAGTTGAGTCCGAGTTTACTTATGGATGCGAATG-
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *** * * * *
94235734 TCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-AC-TAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAACGC
*
94235779 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
94235827 CCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
94235863 GCGGGTTACA
Statistics
Matches: 104, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
44 2 0.02
45 27 0.26
46 45 0.43
47 27 0.26
48 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:94240290 original size:40 final size:40
Alignment explanation
Indices: 94240098--94240283 Score: 236
Period size: 40 Copynumber: 4.7 Consensus size: 40
94240088 TCGAATGATG
* * *
94240098 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
94240138 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
94240178 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
94240218 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
94240259 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
94240284 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 122 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:94240290 original size:80 final size:80
Alignment explanation
Indices: 94240098--94240316 Score: 245
Period size: 80 Copynumber: 2.8 Consensus size: 80
94240088 TCGAATGATG
* * **
94240098 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATATCCGGGTTAAGATCCGAAGGCATT
94240162 CGTGCGAGTTACTAAA
65 CGTGCGAGTTACTAAA
* *
94240178 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGAT-CCGAAGGCAT
*
94240241 TTGTGCGAGTTACTATAA
64 TCGTGCGAGTTACTA-AA
* **
94240259 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAA-ACTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGTTAAGA-TCCGAAGG
94240317 TACGTGATTC
Statistics
Matches: 119, Mismatches: 12, Indels: 17
0.80 0.08 0.11
Matches are distributed among these distances:
79 17 0.14
80 92 0.77
81 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGTTAAGATCCGAAGGCATTC
GTGCGAGTTACTAAA
Found at i:94250980 original size:25 final size:25
Alignment explanation
Indices: 94250923--94251015 Score: 107
Period size: 25 Copynumber: 3.7 Consensus size: 25
94250913 AGACTCACCA
* *
94250923 CAGCTTGTATGAGCTTACCGATT-TCT
1 CAGCTCGTAAGAGCTTACC-ATTAT-T
*
94250949 CAGCTCGTAAGAGCTTACTATTATT
1 CAGCTCGTAAGAGCTTACCATTATT
* *
94250974 CAGCTCGGAGGAGCTTACCATTATT
1 CAGCTCGTAAGAGCTTACCATTATT
*
94250999 CAGCTCGTATGAGCTTA
1 CAGCTCGTAAGAGCTTA
94251016 TTGTTTATCG
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
25 41 0.71
26 17 0.29
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (25 bp):
CAGCTCGTAAGAGCTTACCATTATT
Found at i:94252184 original size:21 final size:21
Alignment explanation
Indices: 94252158--94252205 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
94252148 CGGCCTGAAG
94252158 CACGGGCGTG-TCCCATAGT-CA
1 CACGGGCGTGTTCCC-TA-TCCA
94252179 CACGGGCGTGTTCCCTATCCA
1 CACGGGCGTGTTCCCTATCCA
94252200 CACGGG
1 CACGGG
94252206 TGTATGACCC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.04
21 20 0.80
22 4 0.16
ACGTcount: A:0.17, C:0.35, G:0.29, T:0.19
Consensus pattern (21 bp):
CACGGGCGTGTTCCCTATCCA
Found at i:94253912 original size:29 final size:30
Alignment explanation
Indices: 94253866--94253924 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
94253856 TTCCTGAGCC
* *
94253866 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATATAATTATGCAAAAGTT
* *
94253896 TAGGGG-AAAAATATAATTTTGCCAAAGTT
1 TAGGGGCAAAAATATAATTATGCAAAAGTT
94253925 CGTATTAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAAATATAATTATGCAAAAGTT
Found at i:94261787 original size:18 final size:19
Alignment explanation
Indices: 94261764--94261802 Score: 62
Period size: 20 Copynumber: 2.1 Consensus size: 19
94261754 ATATATTCAC
94261764 ACATTTTCA-CAATTCAAT
1 ACATTTTCATCAATTCAAT
94261782 ACATTTTCATTCAATTCAAT
1 ACATTTTCA-TCAATTCAAT
94261802 A
1 A
94261803 TCAATACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.47
20 10 0.53
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (19 bp):
ACATTTTCATCAATTCAAT
Found at i:94262472 original size:18 final size:18
Alignment explanation
Indices: 94262445--94262479 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
94262435 TTCCTAATTT
* *
94262445 CCTTTTTTTCTTTCTTTC
1 CCTTTCTTTCCTTCTTTC
94262463 CCTTTCTTTCCTTCTTT
1 CCTTTCTTTCCTTCTTT
94262480 TCTTCTCTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (18 bp):
CCTTTCTTTCCTTCTTTC
Found at i:94268595 original size:45 final size:45
Alignment explanation
Indices: 94268531--94268661 Score: 176
Period size: 45 Copynumber: 2.9 Consensus size: 45
94268521 GTTGTATAGT
* *
94268531 ATTATTCGGGCCTTGGAGCCTAGCAGGCTATAATGCTGGTGAGAC
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
* * *
94268576 ATTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCAGTGAGAT
1 ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
* *
94268621 ATTTTTCGGGGCC-TCGAGCCTAGCAGGC-AAAATGCCGGTGA
1 ATTATTC-GGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
94268662 ATAAATTCGG
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
44 11 0.14
45 61 0.79
46 5 0.06
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (45 bp):
ATTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGAC
Found at i:94275256 original size:40 final size:40
Alignment explanation
Indices: 94275212--94275399 Score: 326
Period size: 40 Copynumber: 4.7 Consensus size: 40
94275202 GCTACTTGCT
94275212 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
94275252 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
94275292 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
94275332 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
94275371 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
94275400 CATCCGAATA
Statistics
Matches: 141, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
38 1 0.01
39 34 0.24
40 105 0.74
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:94275398 original size:79 final size:80
Alignment explanation
Indices: 94275179--94275399 Score: 333
Period size: 80 Copynumber: 2.8 Consensus size: 80
94275169 AAACCAAGTA
* * * *
94275179 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATA
94275242 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
* *
94275258 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
94275323 TAACTCGCACAAATG
66 TAACTCGCACAAATG
*
94275338 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
94275400 CATCCGAATA
Statistics
Matches: 131, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
78 1 0.01
79 62 0.47
80 68 0.52
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:94276992 original size:20 final size:16
Alignment explanation
Indices: 94276944--94276976 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
94276934 CACATAAGTC
94276944 CTATTAACTAAATTCA
1 CTATTAACTAAATTCA
94276960 CTATTAACTAAATTCA
1 CTATTAACTAAATTCA
94276976 C
1 C
94276977 ATGCAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.21, G:0.00, T:0.36
Consensus pattern (16 bp):
CTATTAACTAAATTCA
Found at i:94283277 original size:40 final size:40
Alignment explanation
Indices: 94283233--94283420 Score: 326
Period size: 40 Copynumber: 4.7 Consensus size: 40
94283223 GCTACTTGCT
94283233 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
94283273 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
94283313 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
94283353 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
94283392 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
94283421 CATCCGAATA
Statistics
Matches: 141, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
38 1 0.01
39 34 0.24
40 105 0.74
41 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:94283419 original size:79 final size:80
Alignment explanation
Indices: 94283200--94283420 Score: 333
Period size: 80 Copynumber: 2.8 Consensus size: 80
94283190 AAACCAAGTA
* * * *
94283200 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATA
94283263 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
* *
94283279 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
94283344 TAACTCGCACAAATG
66 TAACTCGCACAAATG
*
94283359 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
94283421 CATCCGAATA
Statistics
Matches: 131, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
78 1 0.01
79 62 0.47
80 68 0.52
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAG
TAACTCGCACAAATG
Found at i:94284986 original size:20 final size:20
Alignment explanation
Indices: 94284961--94285015 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
94284951 CACACATAAG
94284961 TCCTATTAACTAAATTCACA
1 TCCTATTAACTAAATTCACA
94284981 TCCTATTAACTAAATTCACA
1 TCCTATTAACTAAATTCACA
94285001 TCCTATTAACTAAAT
1 TCCTATTAACTAAAT
94285016 CGAAGCTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (20 bp):
TCCTATTAACTAAATTCACA
Found at i:94285533 original size:46 final size:45
Alignment explanation
Indices: 94285446--94285618 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 45
94285436 ACATCTCGTT
* * *
94285446 GCCGATGCATGTCCCAGACATGTCTTACACTGGTTTACGTCTCAAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGTCT-CGTCTCAAG
* * *
94285492 GTCGATGCATGTCCCAAACATGTCTTACACTAGTACTCGTCTCTAT
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGT-CTCGTCTCAAG
*
94285538 GCCGATGTCATGTCCCAAACATGGTATTACACTAG-CTC-TCAT-AATGTG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAGTCTCGTC-TCAA---G
** *
94285586 GCTAATGCATGTCCCAGACATGTCTTACACTAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTAG
94285619 CTCACACAAG
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
45 3 0.03
46 59 0.56
47 28 0.26
48 16 0.15
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (45 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTAGTCTCGTCTCAAG
Found at i:94291589 original size:65 final size:65
Alignment explanation
Indices: 94291508--94291639 Score: 255
Period size: 65 Copynumber: 2.0 Consensus size: 65
94291498 GTATAACTAG
*
94291508 ACCCATACTCTAGCTAGGTTAGTCCCAGAACTGACTAAACCATAGCTCTGATACTACTAAATGTA
1 ACCCATACTCTAGCTAGGTTAGTCCCAGAACTGACTAAACCATAGCTCTAATACTACTAAATGTA
94291573 ACCCATACTCTAGCTAGGTTAGTCCCAGAACTGACTAAACCATAGCTCTAATACTACTAAATGTA
1 ACCCATACTCTAGCTAGGTTAGTCCCAGAACTGACTAAACCATAGCTCTAATACTACTAAATGTA
94291638 AC
1 AC
94291640 ACCCCAAATC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.35, C:0.27, G:0.13, T:0.26
Consensus pattern (65 bp):
ACCCATACTCTAGCTAGGTTAGTCCCAGAACTGACTAAACCATAGCTCTAATACTACTAAATGTA
Found at i:94293149 original size:46 final size:45
Alignment explanation
Indices: 94293054--94293271 Score: 158
Period size: 46 Copynumber: 4.7 Consensus size: 45
94293044 ATATTTATGT
*
94293054 CGATGACATGTCCCAGACATGGTCTTACACT-G-ACACGTCTCGTATC
1 CGATG-CATGTCCCA-ACAT-GTCTTACACTAGCACACGTCTCGTACC
* *
94293100 CGATGCATGTCCCATACATGTCTTACACTAGCATATGTCTCG-AGCC
1 CGATGCATGTCCCA-ACATGTCTTACACTAGCACACGTCTCGTA-CC
* *
94293146 CGATGCATGTCCCAAGCATGTCTTACACTAGCACTCGTCTCAATA-C
1 CGATGCATGTCCCAA-CATGTCTTACACTAGCACACGTCTC-GTACC
* * * * * * * ***
94293192 AGATGCCATGTCTCAGACATGGTCTTACACTGGCTCCCATAAT-GTGTT
1 CGATG-CATGTCCCA-ACAT-GTCTTACACTAGCACACGT-CTCGTACC
94293240 CGATGCATGTCCCAGACATGTCTTACACTAGC
1 CGATGCATGTCCCA-ACATGTCTTACACTAGC
94293272 TTACAAAAGT
Statistics
Matches: 140, Mismatches: 21, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
44 10 0.07
45 16 0.11
46 67 0.48
47 25 0.18
48 21 0.15
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCCAACATGTCTTACACTAGCACACGTCTCGTACC
Found at i:94304188 original size:16 final size:17
Alignment explanation
Indices: 94304167--94304200 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
94304157 TTAAAGGGAG
94304167 AAAATAAACAG-TTGGA
1 AAAATAAACAGATTGGA
*
94304183 AAAATAAATAGATTGGA
1 AAAATAAACAGATTGGA
94304200 A
1 A
94304201 CGAGTTCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.59, C:0.03, G:0.18, T:0.21
Consensus pattern (17 bp):
AAAATAAACAGATTGGA
Found at i:94307302 original size:93 final size:93
Alignment explanation
Indices: 94307195--94307365 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
94307185 GCCCCTAAGT
* *
94307195 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
94307260 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
*
94307288 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
94307353 CGAGTTCGGATGC
66 CGAGTTCGGATGC
94307366 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:94307362 original size:46 final size:46
Alignment explanation
Indices: 94307190--94307362 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
94307180 AACCCGCCCC
* * *
94307190 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
94307236 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
94307284 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
94307329 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
94307363 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.57
47 29 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:94313553 original size:4 final size:4
Alignment explanation
Indices: 94313544--94313640 Score: 194
Period size: 4 Copynumber: 24.2 Consensus size: 4
94313534 CTACTACTAA
94313544 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
94313592 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
94313640 T
1 T
94313641 GATTCGAATA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 93 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:94322430 original size:47 final size:47
Alignment explanation
Indices: 94322361--94322456 Score: 158
Period size: 47 Copynumber: 2.0 Consensus size: 47
94322351 AGTGGAAGGC
94322361 TTGTTAATTAGGAACTTTTAATG-GTTTTTAAAGGGTAAAATAATAAA
1 TTGTTAATTAGGAACTTTTAATGAG-TTTTAAAGGGTAAAATAATAAA
* *
94322408 TTGTTAATTAGGAGCTTTTAATGAGTTTTAAAGGGTAAAATACTAAA
1 TTGTTAATTAGGAACTTTTAATGAGTTTTAAAGGGTAAAATAATAAA
94322455 TT
1 TT
94322457 AATAATTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
47 45 0.98
48 1 0.02
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.41
Consensus pattern (47 bp):
TTGTTAATTAGGAACTTTTAATGAGTTTTAAAGGGTAAAATAATAAA
Found at i:94323594 original size:6 final size:6
Alignment explanation
Indices: 94323583--94323638 Score: 60
Period size: 6 Copynumber: 9.3 Consensus size: 6
94323573 TGTGTGCATA
* * *
94323583 TACAGT TACAGT TACAGT TACTA-T TATAGT TACGGT TACTGT TACAGT
1 TACAGT TACAGT TACAGT TAC-AGT TACAGT TACAGT TACAGT TACAGT
*
94323631 TATAGT TA
1 TACAGT TA
94323639 TATGCACACT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
5 1 0.02
6 40 0.95
7 1 0.02
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.41
Consensus pattern (6 bp):
TACAGT
Found at i:94323614 original size:24 final size:24
Alignment explanation
Indices: 94323586--94323638 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
94323576 GTGCATATAC
94323586 AGTTACAGTTACAGTTACTA-TTAT
1 AGTTACAGTTACAGTTAC-AGTTAT
* *
94323610 AGTTACGGTTACTGTTACAGTTAT
1 AGTTACAGTTACAGTTACAGTTAT
94323634 AGTTA
1 AGTTA
94323639 TATGCACACT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.42
Consensus pattern (24 bp):
AGTTACAGTTACAGTTACAGTTAT
Found at i:94324971 original size:46 final size:48
Alignment explanation
Indices: 94324882--94324971 Score: 130
Period size: 46 Copynumber: 1.9 Consensus size: 48
94324872 ATTTGTGTGA
** *
94324882 GCTAGTGTAAGACCATTTCTGGGACATTGCATCGGCATTGAGACAAGT
1 GCTAGTGTAAGACCAAGTCTGGGACATTGCATCGGCATCGAGACAAGT
*
94324930 GCTAGTGTAAGA-CAAGTCTGGGACA-TGCATCGGCCTCGAGAC
1 GCTAGTGTAAGACCAAGTCTGGGACATTGCATCGGCATCGAGAC
94324972 GTAAGCCAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
46 15 0.39
47 11 0.29
48 12 0.32
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (48 bp):
GCTAGTGTAAGACCAAGTCTGGGACATTGCATCGGCATCGAGACAAGT
Found at i:94324988 original size:46 final size:45
Alignment explanation
Indices: 94324899--94325003 Score: 113
Period size: 46 Copynumber: 2.3 Consensus size: 45
94324889 TAAGACCATT
* * *
94324899 TCTGGGACATTGCATCGGCATTGAGACAAGTGCTAGTGTAAGACAAG
1 TCTGGGACA-TGCATCGGCATCGAGACAAG-GCCAGTGCAAGACAAG
* *
94324946 TCTGGGACATGCATCGGCCTCGAGACGTAA-GCCAGTGCAAGACATG
1 TCTGGGACATGCATCGGCATCGAGAC--AAGGCCAGTGCAAGACAAG
*
94324992 TTTGGGACATGC
1 TCTGGGACATGC
94325004 GTTGGCTACG
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
46 39 0.78
47 9 0.18
48 2 0.04
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (45 bp):
TCTGGGACATGCATCGGCATCGAGACAAGGCCAGTGCAAGACAAG
Found at i:94326075 original size:12 final size:13
Alignment explanation
Indices: 94326058--94326087 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
94326048 AGGTTTTTGC
94326058 ACACGGGCTA-GG
1 ACACGGGCTATGG
94326070 ACACGGGCTATGG
1 ACACGGGCTATGG
94326083 ACACG
1 ACACG
94326088 CCGTGTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.27, C:0.27, G:0.37, T:0.10
Consensus pattern (13 bp):
ACACGGGCTATGG
Found at i:94326255 original size:21 final size:22
Alignment explanation
Indices: 94326216--94326257 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
94326206 TCAAATTGAT
94326216 CACACGGGCGTGTTGCCCCTTC
1 CACACGGGCGTGTTGCCCCTTC
94326238 CACACGGGCGTG-TGCCCCTT
1 CACACGGGCGTGTTGCCCCTT
94326258 GTCAAGTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.10, C:0.40, G:0.29, T:0.21
Consensus pattern (22 bp):
CACACGGGCGTGTTGCCCCTTC
Found at i:94335875 original size:46 final size:46
Alignment explanation
Indices: 94335774--94335988 Score: 256
Period size: 46 Copynumber: 4.6 Consensus size: 46
94335764 CATTTGTGTG
* *
94335774 AGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACATTGAGATG-A
1 AGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CGAGATGTA
*
94335821 ATGATAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGTA
1 A-GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGTA
*
94335868 AGCTAGTGTAAGACATATCTGGGACATGCATCGGCCACGAGATGTA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGTA
* * * *
94335914 AGCTAGTGTAAGACATGTCTGGGACATGCGTTGGCTACGAGAT-AA
1 AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGTA
* * *
94335959 TAGTTAGTGTGAGACCATGTCTAGGACATG
1 -AGCTAGTGTAAGA-CATGTCTGGGACATG
94335989 GCTTCGACTT
Statistics
Matches: 150, Mismatches: 13, Indels: 10
0.87 0.08 0.06
Matches are distributed among these distances:
45 1 0.01
46 104 0.69
47 34 0.23
48 11 0.07
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (46 bp):
AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGATGTA
Found at i:94337192 original size:21 final size:22
Alignment explanation
Indices: 94337153--94337193 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
94337143 TCAAATTGAT
94337153 CACACGGGCGTGCTGCCCCTTC
1 CACACGGGCGTGCTGCCCCTTC
94337175 CACACGGGCGTG-TGCCCCT
1 CACACGGGCGTGCTGCCCCT
94337194 GTGTCAAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.10, C:0.44, G:0.29, T:0.17
Consensus pattern (22 bp):
CACACGGGCGTGCTGCCCCTTC
Found at i:94337667 original size:13 final size:13
Alignment explanation
Indices: 94337625--94337668 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
94337615 TATTTAGATG
94337625 AAATGGTTATACA
1 AAATGGTTATACA
** *
94337638 AAAAAGTTATACG
1 AAATGGTTATACA
*
94337651 AAATGGTTATATA
1 AAATGGTTATACA
94337664 AAATG
1 AAATG
94337669 ATTACTTGAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.50, C:0.05, G:0.16, T:0.30
Consensus pattern (13 bp):
AAATGGTTATACA
Found at i:94340771 original size:298 final size:298
Alignment explanation
Indices: 94340235--94340817 Score: 932
Period size: 298 Copynumber: 2.0 Consensus size: 298
94340225 AAGTCGATAA
* * *
94340235 AAGTGGGACCAAAGATGCAGTAGATCAATCTGAAGCTCAAGCTCCTGCCAAAGTTTATGCGATCT
1 AAGTGGGACCAAAGATACAGTAGATCAATCTGAAGCTCAAGCTCCCGCCAAAGTTTATACGATCT
* * *
94340300 ATGCACACAAGGAGACCTCAACCCCTGATGTTATTATCAGTACCTTCTCTTTCTTTGATGTTACA
66 ATGAACACAAGGAGACCTCAACCCCTGATGTTATTATCAGTACCTTCTATTTATTTGATGTTACA
* * * *
94340365 GTATATGCATTAATTGACTCTAGTCGACACATTTGTATTTATGTACTAAGTCGGTAACATAAAGA
131 ATATATGCATTAATTGACTCTAGTCAACACATTTGTATATATGTACTAAGTCGGTAACAAAAAGA
* *
94340430 TTTTTCGGTCGAGTTGATTGATTATGTTATCAAAGTAATGAATCTTTAAGTTAAAGTATCATAGT
196 TTTTCCGGTCGAGTTGATTGATTATGTTATCAAAGTAATGAATCTTTAAGTTAAAGTATCACAGT
94340495 TGATATAGCTTACAAATAGTGTCCACTAGAGTCAGTAG
261 TGATATAGCTTACAAATAGTGTCCACTAGAGTCAGTAG
* * *
94340533 AAGTGGGACCAAAGGTACAGTATATCAATCTGAAGCTCAAGCTCCCGCCAAAGTTTATATGATCT
1 AAGTGGGACCAAAGATACAGTAGATCAATCTGAAGCTCAAGCTCCCGCCAAAGTTTATACGATCT
** * ** * *
94340598 ATGAACATGAGGAGACCTCAATCCCTGATGTTATTATTGGTACCTTTTATTTATTTTATGTTACA
66 ATGAACACAAGGAGACCTCAACCCCTGATGTTATTATCAGTACCTTCTATTTATTTGATGTTACA
* *
94340663 ATATATGCATTAATTGACTCTAGTCAACACATTTGTATATATGTACTAAGTTGGTAACAAAAATA
131 ATATATGCATTAATTGACTCTAGTCAACACATTTGTATATATGTACTAAGTCGGTAACAAAAAGA
*
94340728 TTTTCCGGTTGAGTTGATTGATTATGTTATCAAAGTAATGAATCTTTAAGTTAAAGTATCACAGT
196 TTTTCCGGTCGAGTTGATTGATTATGTTATCAAAGTAATGAATCTTTAAGTTAAAGTATCACAGT
*
94340793 TGATATATCTTACAAATAGTGTCCA
261 TGATATAGCTTACAAATAGTGTCCA
94340818 TTGGGAATTC
Statistics
Matches: 259, Mismatches: 26, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
298 259 1.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Consensus pattern (298 bp):
AAGTGGGACCAAAGATACAGTAGATCAATCTGAAGCTCAAGCTCCCGCCAAAGTTTATACGATCT
ATGAACACAAGGAGACCTCAACCCCTGATGTTATTATCAGTACCTTCTATTTATTTGATGTTACA
ATATATGCATTAATTGACTCTAGTCAACACATTTGTATATATGTACTAAGTCGGTAACAAAAAGA
TTTTCCGGTCGAGTTGATTGATTATGTTATCAAAGTAATGAATCTTTAAGTTAAAGTATCACAGT
TGATATAGCTTACAAATAGTGTCCACTAGAGTCAGTAG
Found at i:94342915 original size:44 final size:44
Alignment explanation
Indices: 94342843--94342973 Score: 172
Period size: 44 Copynumber: 3.0 Consensus size: 44
94342833 GCTAATGTAC
* * * * *
94342843 TCCAATGTATCTTATTTATATTAAAAAGTTTGTTCCAATTTTGT
1 TCCAATGAATCTAATTTAAATTACAAAGTTTGTTCCAAGTTTGT
* * *
94342887 TCCAATGAATCTGATTGAAATTACAAAGTTTATTCCAAGTTTGT
1 TCCAATGAATCTAATTTAAATTACAAAGTTTGTTCCAAGTTTGT
* *
94342931 TCCAATAAATCTAATTTAAATTGCAAAGTTTGTTCCAAGTTTG
1 TCCAATGAATCTAATTTAAATTACAAAGTTTGTTCCAAGTTTG
94342974 GTGCAACGTA
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 75 1.00
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (44 bp):
TCCAATGAATCTAATTTAAATTACAAAGTTTGTTCCAAGTTTGT
Found at i:94343048 original size:22 final size:23
Alignment explanation
Indices: 94343008--94343050 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
94342998 TGTAAGTAGA
94343008 TAATTTATATCTTAGACACCATC
1 TAATTTATATCTTAGACACCATC
94343031 TAATTTATATC-TAGACACCA
1 TAATTTATATCTTAGACACCA
94343051 AATTTGTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TAATTTATATCTTAGACACCATC
Found at i:94345838 original size:45 final size:45
Alignment explanation
Indices: 94345780--94345865 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 45
94345770 CATGTAGGTT
* * *
94345780 GTAGATAAACTGCCACGTAGGTTGTGGACGAAGCCACCAATATTC
1 GTAGACAAACTGCCACATAGGTTGTGGACAAAGCCACCAATATTC
* * *
94345825 GTAGACAAGCTGCCATATAGGTTGTGGACAAAGCTACCAAT
1 GTAGACAAACTGCCACATAGGTTGTGGACAAAGCCACCAAT
94345866 TCTTCCTCCT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (45 bp):
GTAGACAAACTGCCACATAGGTTGTGGACAAAGCCACCAATATTC
Found at i:94345854 original size:23 final size:23
Alignment explanation
Indices: 94345761--94345855 Score: 61
Period size: 23 Copynumber: 4.2 Consensus size: 23
94345751 ATATTAGCAA
* *
94345761 ACAAGTTGCCATGTAGGTTGTAG
1 ACAAGCTGCCATATAGGTTGTAG
* * ** *
94345784 ATAAACTGCCACGTAGGTTGTGG
1 ACAAGCTGCCATATAGGTTGTAG
**
94345807 ACGAAGCCACCA-ATA--TTCGTAG
1 AC-AAGCTGCCATATAGGTT-GTAG
*
94345829 ACAAGCTGCCATATAGGTTGTGG
1 ACAAGCTGCCATATAGGTTGTAG
94345852 ACAA
1 ACAA
94345856 AGCTACCAAT
Statistics
Matches: 53, Mismatches: 14, Indels: 10
0.69 0.18 0.13
Matches are distributed among these distances:
21 9 0.17
22 8 0.15
23 28 0.53
24 8 0.15
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (23 bp):
ACAAGCTGCCATATAGGTTGTAG
Found at i:94356514 original size:43 final size:41
Alignment explanation
Indices: 94356463--94356565 Score: 118
Period size: 43 Copynumber: 2.4 Consensus size: 41
94356453 TCCCGAAAAG
94356463 GGTCTTACATGAAATCAATTAACGA-TGCCAATGTCCCAGACAT
1 GGTCTTACATGAAATCAA-T-AC-ATTGCCAATGTCCCAGACAT
* * *
94356506 GGTTTTACACGTAATCTCAATACATTGCCAATGTCCCAGACAT
1 GGTCTTACATG-AA-ATCAATACATTGCCAATGTCCCAGACAT
*
94356549 GGTCTTACATGTAATCA
1 GGTCTTACATGAAATCA
94356566 CATCTTGATA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
41 3 0.06
42 2 0.04
43 38 0.76
44 3 0.06
45 4 0.08
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (41 bp):
GGTCTTACATGAAATCAATACATTGCCAATGTCCCAGACAT
Found at i:94364148 original size:46 final size:44
Alignment explanation
Indices: 94364095--94364222 Score: 152
Period size: 46 Copynumber: 2.8 Consensus size: 44
94364085 AAGACGAGAA
* *
94364095 CTAGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGATGTAAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAG-T-AAAG
*
94364141 -TCAGTGTAAGACATGTATGGGACATGCATCGGC-TACGAGTAAAG
1 CT-AGTGTAAGACATGTCTGGGACATGCATCGGCAT-CGAGTAAAG
*
94364185 CTAGTGTAAGACCATGTCTGAGACATGGCATCGGCATC
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATC
94364223 CTACCCCATA
Statistics
Matches: 71, Mismatches: 5, Indels: 12
0.81 0.06 0.14
Matches are distributed among these distances:
44 12 0.17
45 16 0.23
46 42 0.59
47 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (44 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGTAAAG
Found at i:94371692 original size:46 final size:44
Alignment explanation
Indices: 94371639--94371766 Score: 152
Period size: 46 Copynumber: 2.8 Consensus size: 44
94371629 AAGACGAGAA
* *
94371639 CTAGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGATGTAAG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAG-T-AAAG
*
94371685 -TCAGTGTAAGACATGTATGGGACATGCATCGGC-TACGAGTAAAG
1 CT-AGTGTAAGACATGTCTGGGACATGCATCGGCAT-CGAGTAAAG
*
94371729 CTAGTGTAAGACCATGTCTGAGACATGGCATCGGCATC
1 CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATC
94371767 CTACCCCATA
Statistics
Matches: 71, Mismatches: 5, Indels: 12
0.81 0.06 0.14
Matches are distributed among these distances:
44 12 0.17
45 16 0.23
46 42 0.59
47 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (44 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGTAAAG
Found at i:94378780 original size:30 final size:30
Alignment explanation
Indices: 94378706--94378781 Score: 127
Period size: 30 Copynumber: 2.5 Consensus size: 30
94378696 ACCTAAGGGT
*
94378706 AAAATGGTCATTTTACAAAAGTCTAGGCGC
1 AAAATGGTCATTTTGCAAAAGTCTAGGCGC
94378736 AAAATGGTCATTTTGCAAAAGTCTA-GCGGC
1 AAAATGGTCATTTTGCAAAAGTCTAGGC-GC
94378766 AAAATGGTCATTTTGC
1 AAAATGGTCATTTTGC
94378782 CCAAGTATAG
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
29 2 0.05
30 42 0.95
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (30 bp):
AAAATGGTCATTTTGCAAAAGTCTAGGCGC
Done.