Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 186 of 276
Found at i:61168799 original size:43 final size:42
Alignment explanation
Indices: 61168714--61168816 Score: 109
Period size: 43 Copynumber: 2.4 Consensus size: 42
61168704 TTCGATTTGA
* *
61168714 GATTTACGTGTAAGACCATGTTTGGCACATCGCCATCATATTT
1 GATTT-CGTGTAAGACCATGTATGGCACATAGCCATCATATTT
* *
61168757 GATTTCGTGTAAGACCCTGTATGGGACAGTAG-CATCGATATTT
1 GATTTCGTGTAAGACCATGTATGGCACA-TAGCCATC-ATATTT
* * *
61168800 GGTTACATGTAAGACCA
1 GATTTCGTGTAAGACCA
61168817 CGTCTGGGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 24 0.48
43 26 0.52
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.32
Consensus pattern (42 bp):
GATTTCGTGTAAGACCATGTATGGCACATAGCCATCATATTT
Found at i:61169590 original size:23 final size:22
Alignment explanation
Indices: 61169553--61169595 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
61169543 TTATGAAACA
**
61169553 TATGATTTGTTATGACTTTGGCT
1 TATGATTTGGCATGA-TTTGGCT
61169576 TATGATTTGGCATGATTTGG
1 TATGATTTGGCATGATTTGG
61169596 TATGGATTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.19, C:0.07, G:0.26, T:0.49
Consensus pattern (22 bp):
TATGATTTGGCATGATTTGGCT
Found at i:61170166 original size:21 final size:23
Alignment explanation
Indices: 61170137--61170178 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
61170127 CCTGATGTTG
*
61170137 ATATTTGAC-TTTGA-TATGATA
1 ATATATGACTTTTGATTATGATA
61170158 ATATATGACTTTTGATTATGA
1 ATATATGACTTTTGATTATGA
61170179 AATGATTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 5 0.28
23 5 0.28
ACGTcount: A:0.33, C:0.05, G:0.14, T:0.48
Consensus pattern (23 bp):
ATATATGACTTTTGATTATGATA
Found at i:61171159 original size:40 final size:41
Alignment explanation
Indices: 61171080--61171163 Score: 134
Period size: 40 Copynumber: 2.1 Consensus size: 41
61171070 GAGTTACATG
61171080 TTGACATATTCAATTCGTTGAATGGTATATTTATAATCAAA
1 TTGACATATTCAATTCGTTGAATGGTATATTTATAATCAAA
* * *
61171121 TTGATATATTCAATTTGTTG-ATGGTATATTTATTATCAAA
1 TTGACATATTCAATTCGTTGAATGGTATATTTATAATCAAA
61171161 TTG
1 TTG
61171164 CATTTATTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
40 22 0.55
41 18 0.45
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.46
Consensus pattern (41 bp):
TTGACATATTCAATTCGTTGAATGGTATATTTATAATCAAA
Found at i:61178519 original size:40 final size:40
Alignment explanation
Indices: 61178475--61178589 Score: 185
Period size: 40 Copynumber: 2.9 Consensus size: 40
61178465 AGAATTGAGA
*
61178475 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCAGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
*
61178515 GTTATATCCAGGCTAAGTCCCGAAGAGCATTCGTACTGGT
1 GTTATATCCAGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
* * *
61178555 GTTACATCCAGGCTAAGTCCTGAAGGGCATTCGTG
1 GTTATATCCAGGCTAAGTCCCGAAGAGCATTCGTG
61178590 TCGGTGATGT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 69 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
GTTATATCCAGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
Found at i:61178665 original size:42 final size:42
Alignment explanation
Indices: 61178584--61178725 Score: 167
Period size: 43 Copynumber: 3.3 Consensus size: 42
61178574 CTGAAGGGCA
* ** *
61178584 TTCGTGTCGGTGATGTGTAACCAGGCCTTCATGCTTAGCAGGC
1 TTCGTGCCGGTGATGTGTATTC-GGCCTTCATGCCTAGCAGGC
* * *
61178627 TTTGTGCTGGTGATGTGTATTCGGCCTTCATTCCTAGCAGGC
1 TTCGTGCCGGTGATGTGTATTCGGCCTTCATGCCTAGCAGGC
* *
61178669 TTCGTGCCGGTGATGTGTATTTGGGCCTTCGTGCCTAGCAGGC
1 TTCGTGCCGGTGATGTGTA-TTCGGCCTTCATGCCTAGCAGGC
**
61178712 TTAATGCCGGTGAT
1 TTCGTGCCGGTGAT
61178726 TCGAGCAAAG
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 35 0.42
43 49 0.58
ACGTcount: A:0.13, C:0.22, G:0.31, T:0.34
Consensus pattern (42 bp):
TTCGTGCCGGTGATGTGTATTCGGCCTTCATGCCTAGCAGGC
Found at i:61180072 original size:20 final size:19
Alignment explanation
Indices: 61180026--61180072 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 19
61180016 GTAATTCATG
61180026 TTTAATTGCTGAATGGAGT
1 TTTAATTGCTGAATGGAGT
* *
61180045 TTTGAATTGGTAGAATTGAGT
1 TTT-AATTGCT-GAATGGAGT
61180066 TTTAATT
1 TTTAATT
61180073 TTAAGAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 10 0.42
21 11 0.46
ACGTcount: A:0.28, C:0.02, G:0.23, T:0.47
Consensus pattern (19 bp):
TTTAATTGCTGAATGGAGT
Found at i:61181962 original size:56 final size:56
Alignment explanation
Indices: 61181876--61181988 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
61181866 ATGATATATC
*
61181876 CGGACTTAAAGTCCCGCAGGCTTGGTACTGGTAACTGGATTCGGATTTTTTTTAAA
1 CGGACTTAAAGTCCCGCAGGCTTGGTACTGGTAACTGGATTCGGATTTTTGTTAAA
*
61181932 CGGACTTAAAGTCCTGCAGGCTTGGTACTGGTAACTGGATTCGGATTTTTGTTAAA
1 CGGACTTAAAGTCCCGCAGGCTTGGTACTGGTAACTGGATTCGGATTTTTGTTAAA
61181988 C
1 C
61181989 CTAGCAGGCT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (56 bp):
CGGACTTAAAGTCCCGCAGGCTTGGTACTGGTAACTGGATTCGGATTTTTGTTAAA
Found at i:61183759 original size:28 final size:29
Alignment explanation
Indices: 61183726--61183826 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
61183716 TATAGTAAGT
* * *
61183726 CCGCACACTTAGTGTTATATAA-TCGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
61183754 TCGCACACTTAGTGCTATACAACTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
*
61183783 CCGCACACTTAGTGCTATACAATTTGAAC
1 CCGCACACTTAGTGCTATACAACTTGAAC
61183812 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
61183827 CAATTTCATG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
28 19 0.29
29 47 0.71
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATACAACTTGAAC
Found at i:61190976 original size:35 final size:35
Alignment explanation
Indices: 61190937--61191007 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
61190927 TCTAAGATCA
*
61190937 CATATCTTTGAAGATCCCCTTCCATATTTTCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTTCCAAG
* *
61190972 CATATCTTTGAAGATTACTTTCCATATTTTCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTTCCAAG
61191007 C
1 C
61191008 TCTGGAGATA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.39
Consensus pattern (35 bp):
CATATCTTTGAAGATCACCTTCCATATTTTCCAAG
Found at i:61194338 original size:35 final size:35
Alignment explanation
Indices: 61194298--61194368 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
61194288 TCTAGGATCA
*
61194298 CATATCTTTGAAGATCCCCTTCCATATTTGCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
* * *
61194333 CATATCTTTGAAGATTACTTTCCATATTTTCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
61194368 C
1 C
61194369 TCCAGAGATG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (35 bp):
CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
Found at i:61195789 original size:34 final size:34
Alignment explanation
Indices: 61195746--61195812 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
61195736 TGTAGGACAT
*
61195746 CGGAAGAGATCTCAGTAGCAGTCGTCACGAATCG
1 CGGAAGAGATCTCAGTAGCAGTCATCACGAATCG
* * *
61195780 CGGAAGAGATCTCTGTAGTAGTCATCGCGAATC
1 CGGAAGAGATCTCAGTAGCAGTCATCACGAATC
61195813 AGGTGTGTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.21
Consensus pattern (34 bp):
CGGAAGAGATCTCAGTAGCAGTCATCACGAATCG
Found at i:61205371 original size:32 final size:32
Alignment explanation
Indices: 61205330--61205394 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
61205320 AGCTAGCTCG
61205330 AATTTGGGGATCATCAGAGACTTCATCACACT
1 AATTTGGGGATCATCAGAGACTTCATCACACT
*
61205362 AATTTGGGGATCATCAGAGACTTCATTACACT
1 AATTTGGGGATCATCAGAGACTTCATCACACT
61205394 A
1 A
61205395 TCCTACTATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.29
Consensus pattern (32 bp):
AATTTGGGGATCATCAGAGACTTCATCACACT
Found at i:61223892 original size:48 final size:48
Alignment explanation
Indices: 61223831--61223963 Score: 203
Period size: 48 Copynumber: 2.8 Consensus size: 48
61223821 TGTTACAACA
* *
61223831 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
* *
61223879 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
* * *
61223927 TTCACATTAGCCATTCGGCTTCACCACACATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATAT
61223964 ATTTATCTTG
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 77 1.00
ACGTcount: A:0.31, C:0.29, G:0.07, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
Found at i:61228995 original size:45 final size:42
Alignment explanation
Indices: 61228913--61229030 Score: 121
Period size: 45 Copynumber: 2.6 Consensus size: 42
61228903 TATCTGTGTT
*
61228913 GATGCCATGTCCCAGACATGGTCTTACACTGATCATCTCGTA-GCC
1 GATG-CATGTCCCAG-CAT-GTCTTACACTGATCATCTC-AAGGCC
* *
61228958 GATGCATGTCCCAGCATGTCTTACATTGGCTTACATCTCAAGGCC
1 GATGCATGTCCCAGCATGTCTTACACT-G-AT-CATCTCAAGGCC
*
61229003 GATGCATGTCCCAAACATGTCTTACACT
1 GATGCATGTCCC-AGCATGTCTTACACT
61229031 AGCGCACAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
42 9 0.14
43 4 0.06
44 12 0.19
45 25 0.40
46 13 0.21
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (42 bp):
GATGCATGTCCCAGCATGTCTTACACTGATCATCTCAAGGCC
Found at i:61232088 original size:10 final size:10
Alignment explanation
Indices: 61232052--61232094 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
61232042 CAAATTTGTC
* *
61232052 AAAAATAATC
1 AAAATTAATT
61232062 AAAATTAAGTAT
1 AAAATTAA-T-T
61232074 AAAATTAATT
1 AAAATTAATT
61232084 AAAATTAATT
1 AAAATTAATT
61232094 A
1 A
61232095 TGTTAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 19 0.66
11 2 0.07
12 8 0.28
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (10 bp):
AAAATTAATT
Found at i:61236070 original size:34 final size:34
Alignment explanation
Indices: 61235991--61236086 Score: 113
Period size: 34 Copynumber: 2.8 Consensus size: 34
61235981 CTGATACTGT
* * **
61235991 ACTGAAATGGACTAAGGCCCACACTAATATTGTT
1 ACTGAAATGGGCTAAGGCCCACACTGATATTGCG
*
61236025 ACT-ATATTGGGCTAAGGCCCACACTGATATTGCG
1 ACTGA-AATGGGCTAAGGCCCACACTGATATTGCG
* *
61236059 ACTGAAATGGGCTTAGGCCCAAACTGAT
1 ACTGAAATGGGCTAAGGCCCACACTGAT
61236087 CAACACTATA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
33 1 0.02
34 50 0.96
35 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (34 bp):
ACTGAAATGGGCTAAGGCCCACACTGATATTGCG
Found at i:61241154 original size:49 final size:50
Alignment explanation
Indices: 61240922--61241161 Score: 227
Period size: 49 Copynumber: 4.8 Consensus size: 50
61240912 ATCTATTGTG
* * *
61240922 AGGTCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
* * * **
61240972 -GGTCGCATGTGTAGTACTAAGTGCTGGCTACTATGCGTACCCAATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA-TT
* * ** *** * * **
61241022 CGATCATGTGTGTAGTACTAAGTGC-GGCTACTGCATGTATCAGATTGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
* * *
61241071 AGGTCACGA-GTGTAGTACTAAGCGTAGGCTACTATGTGTACTGGATAATT
1 AGGTCAC-ATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
*
61241121 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACC
61241162 ATATAGCTTT
Statistics
Matches: 146, Mismatches: 39, Indels: 11
0.74 0.20 0.06
Matches are distributed among these distances:
48 1 0.01
49 94 0.64
50 31 0.21
51 20 0.14
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT
Found at i:61245181 original size:10 final size:10
Alignment explanation
Indices: 61245166--61245197 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
61245156 ACACATATCA
*
61245166 CATTTTTAAT
1 CATTTTTCAT
61245176 CATTTTTCAT
1 CATTTTTCAT
61245186 CATTTTTCAT
1 CATTTTTCAT
61245196 CA
1 CA
61245198 ATACTCAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.25, C:0.19, G:0.00, T:0.56
Consensus pattern (10 bp):
CATTTTTCAT
Found at i:61245464 original size:46 final size:46
Alignment explanation
Indices: 61245406--61245525 Score: 213
Period size: 46 Copynumber: 2.6 Consensus size: 46
61245396 CATAAGCGAA
* * *
61245406 AACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTG
61245452 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTG
61245498 AACTCGGACTCAACTCAACGAGTTCGGA
1 AACTCGGACTCAACTCAACGAGTTCGGA
61245526 TGCTCAACCA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTG
Found at i:61245544 original size:46 final size:45
Alignment explanation
Indices: 61245406--61245544 Score: 138
Period size: 46 Copynumber: 3.0 Consensus size: 45
61245396 CATAAGCGAA
* ** * *
61245406 AACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGTG
*** *
61245452 AACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCATAAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGTG
61245498 AACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGTG
61245544 A
1 A
61245545 CATGTCACTT
Statistics
Matches: 84, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
46 78 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGTG
Found at i:61252062 original size:100 final size:100
Alignment explanation
Indices: 61251888--61252067 Score: 254
Period size: 100 Copynumber: 1.8 Consensus size: 100
61251878 TATTGTGAGG
* * *
61251888 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGGTAATTGTTCACATGAGTAGTACT
1 TCACGTGTGTAGTACAAAGTGCAAGCTACTACGTGTACCGGATAATTGGTCACATGAGTAGTACT
*
61251953 AAGTGCAGGCTACTATGCGTACCCGACAACTTCGA
66 AAGTCCAGGCTACTATGCGTACCCGACAACTTCGA
* * ** * *
61251988 TCACGTGTGTAGTACAAAGTGC-GGCTACTACGTGTATCGGATGGTTAGGTCATATGTGTAGTAC
1 TCACGTGTGTAGTACAAAGTGCAAGCTACTACGTGTACCGGATAATT-GGTCACATGAGTAGTAC
61252052 TAAGTCCAGGCTACTA
65 TAAGTCCAGGCTACTA
61252068 CGTGTACCGG
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
99 19 0.28
100 50 0.72
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (100 bp):
TCACGTGTGTAGTACAAAGTGCAAGCTACTACGTGTACCGGATAATTGGTCACATGAGTAGTACT
AAGTCCAGGCTACTATGCGTACCCGACAACTTCGA
Found at i:61252064 original size:50 final size:49
Alignment explanation
Indices: 61251886--61252116 Score: 248
Period size: 49 Copynumber: 4.7 Consensus size: 49
61251876 TCTATTGTGA
* * *
61251886 GGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGGTAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * * * *
61251935 GTTCACATGAGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAACTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * **
61251985 CGATCACGTGTGTAGTACAAAGTGC-GGCTACTACGTGTATCGGATGGTT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
61252034 AGGTCATATGTGTAGTACTAAGTCCAGGCTACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
61252084 GGTCGCAAGTGTAGTACTAAGTGCATGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
61252117 TGCGTACCAG
Statistics
Matches: 145, Mismatches: 34, Indels: 6
0.78 0.18 0.03
Matches are distributed among these distances:
49 87 0.60
50 38 0.26
51 20 0.14
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:61256996 original size:34 final size:34
Alignment explanation
Indices: 61256917--61257012 Score: 113
Period size: 34 Copynumber: 2.8 Consensus size: 34
61256907 CTAATACTGT
**
61256917 ACTGAAATGGGCTAAGGCCCACACTGATTCTGTT
1 ACTGAAATGGGCTAAGGCCCACACTGATTCTGCG
* *
61256951 ACTGTATTGGGCTAAGGCCCACACTGATAT-TGCG
1 ACTGAAATGGGCTAAGGCCCACACTGAT-TCTGCG
** *
61256985 ACTGAAATGGGCTTCGGCCCAAACTGAT
1 ACTGAAATGGGCTAAGGCCCACACTGAT
61257013 CAACACTGTA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
34 51 0.98
35 1 0.02
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (34 bp):
ACTGAAATGGGCTAAGGCCCACACTGATTCTGCG
Found at i:61263922 original size:40 final size:40
Alignment explanation
Indices: 61263867--61264090 Score: 252
Period size: 40 Copynumber: 5.5 Consensus size: 40
61263857 TATTCGGATG
*
61263867 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
61263907 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * *
61263950 ATACCCGGGCTAAGTCCCGGAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* ** * *
61263990 ATATCTGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *** *
61264030 ATATCCGGGCTAAGACCCGAAGGCATTTGTTTGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
61264070 ATA-CCCGGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
61264091 ATACTTGGGT
Statistics
Matches: 157, Mismatches: 24, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
39 15 0.10
40 105 0.67
41 1 0.01
43 36 0.23
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:61264013 original size:83 final size:80
Alignment explanation
Indices: 61263874--61264059 Score: 257
Period size: 83 Copynumber: 2.3 Consensus size: 80
61263864 ATGATATCCA
* **
61263874 GGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGC
61263939 GAGTAGTTG-CTATACCCG
66 ---TAG-TGACTATACCCG
* * *
61263957 GGCTAAGTCCCGGAGGCATTTGTGCTAGTGACTATATCTGGGCTAAGTCCCGAAGGCATTCATGC
1 GGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGC
*
61264022 TAGTGACTATATCCG
66 TAGTGACTATACCCG
*
61264037 GGCTAAGACCCGAAGGCATTTGT
1 GGCTAAGTCCCGAAGGCATTTGT
61264060 TTGAGTTGCT
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
79 2 0.02
80 32 0.34
83 59 0.63
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
GGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCATGC
TAGTGACTATACCCG
Found at i:61268458 original size:40 final size:40
Alignment explanation
Indices: 61268400--61268591 Score: 154
Period size: 40 Copynumber: 4.8 Consensus size: 40
61268390 ATAACCACAA
* * * *
61268400 GCACAATTGCCTTTGGGTCTTAACCTGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * *
61268440 GCACAAATGCCTTGGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * * *
61268480 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTC
* * * * * * *
61268520 GCATAAATTCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTC
* * * *
61268560 GCATAAATGCCTTCGGGACTTAGCTCGGATAT
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT
61268592 CATTCAAAAG
Statistics
Matches: 136, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 131 0.96
41 4 0.03
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:61275196 original size:40 final size:40
Alignment explanation
Indices: 61275141--61275335 Score: 257
Period size: 40 Copynumber: 4.8 Consensus size: 40
61275131 TATTCGGATG
* *
61275141 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACT
*
61275181 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AG-TGACT
* *
61275224 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACT
* ** *
61275264 ATATCCGGGCTAAGTCCTGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACT
*
61275304 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
61275336 GATTTGCTGT
Statistics
Matches: 136, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
39 2 0.01
40 98 0.72
41 1 0.01
43 34 0.25
44 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACT
Found at i:61275287 original size:83 final size:80
Alignment explanation
Indices: 61275145--61275335 Score: 258
Period size: 83 Copynumber: 2.4 Consensus size: 80
61275135 CGGATGATAT
* * **
61275145 CCGGGCTAAGTCCTGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCAAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCAAAGGCATTCA
61275210 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
* **
61275228 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCTGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCAAAGGCATTCA
*
61275293 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
*
61275308 CCGGGCTAAGACCCGAAGGCATTTGTGC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC
61275336 GATTTGCTGT
Statistics
Matches: 98, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
79 2 0.02
80 35 0.36
83 61 0.62
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCAAAGGCATTCA
TGCTAGTGACTATAC
Found at i:61275349 original size:40 final size:39
Alignment explanation
Indices: 61275141--61275364 Score: 234
Period size: 40 Copynumber: 5.6 Consensus size: 39
61275131 TATTCGGATG
* * *
61275141 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-TTGCT
*
61275181 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-A-TTGCT
* * *
61275224 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGATTG-CT
* ** * *
61275264 ATATCCGGGCTAAGTCCTGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGATTG-CT
*
61275304 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGA-TTGCT
* *
61275344 GTATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
61275365 ATACTTGGGT
Statistics
Matches: 158, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 15 0.09
40 105 0.66
41 2 0.01
43 36 0.23
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGATTGCT
Found at i:61275384 original size:123 final size:122
Alignment explanation
Indices: 61275141--61275365 Score: 321
Period size: 123 Copynumber: 1.9 Consensus size: 122
61275131 TATTCGGATG
** * *
61275141 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCAAAGGCA
1 ATATCCGGGCTAAGTCCTGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCAAAGGCA
* * *
61275206 TTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
66 TTTGTGCGAGTA-TTGCTATACCCGGGCTAAATCCCGAAGACATTTGTGCAAGTGACT
* *
61275264 ATATCCGGGCTAAGTCCTGAAGGCATTCATGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCTGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCAAAGGCA
* *
61275329 TTTGTGCGA-T-TTGCTGTATCC-GGCTAAATCCCGAAGA
66 TTTGTGCGAGTATTGCTATACCCGGGCTAAATCCCGAAGA
61275366 TACTTGGGTT
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
119 14 0.15
120 9 0.10
122 1 0.01
123 68 0.74
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (122 bp):
ATATCCGGGCTAAGTCCTGAAGGCATTCATGCAAGTGACTATATCCGGGCTAAGACCCAAAGGCA
TTTGTGCGAGTATTGCTATACCCGGGCTAAATCCCGAAGACATTTGTGCAAGTGACT
Found at i:61278692 original size:17 final size:19
Alignment explanation
Indices: 61278662--61278701 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
61278652 CGTAATGCAT
61278662 CCCATGTGGGCCCACAT-G
1 CCCATGTGGGCCCACATAG
61278680 CCCATGT-GGCCCACATAG
1 CCCATGTGGGCCCACATAG
61278698 CCCA
1 CCCA
61278702 GAAATAGCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.20, C:0.42, G:0.23, T:0.15
Consensus pattern (19 bp):
CCCATGTGGGCCCACATAG
Found at i:61283029 original size:9 final size:9
Alignment explanation
Indices: 61283015--61283040 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
61283005 ATCTGAGCCT
61283015 CAAGCTCCA
1 CAAGCTCCA
61283024 CAAGCTCCA
1 CAAGCTCCA
61283033 CAAGCTCC
1 CAAGCTCC
61283041 TTAGCTGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.31, C:0.46, G:0.12, T:0.12
Consensus pattern (9 bp):
CAAGCTCCA
Found at i:61286799 original size:32 final size:32
Alignment explanation
Indices: 61286713--61286792 Score: 133
Period size: 32 Copynumber: 2.5 Consensus size: 32
61286703 GTCTCAATTG
* *
61286713 GGCCTAGCCCATCTCAGAATCAATATCAGTTG
1 GGCCTAGCCCATTTCAGAATCAATATCAGTTA
61286745 GGCCTAGCCCATTTCAGAATCAATATCAGTTA
1 GGCCTAGCCCATTTCAGAATCAATATCAGTTA
*
61286777 GGCCCAGCCCATTTCA
1 GGCCTAGCCCATTTCA
61286793 ATATCAAACC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 45 1.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (32 bp):
GGCCTAGCCCATTTCAGAATCAATATCAGTTA
Found at i:61288854 original size:28 final size:28
Alignment explanation
Indices: 61288814--61288939 Score: 227
Period size: 28 Copynumber: 4.5 Consensus size: 28
61288804 TAAATTGTAC
61288814 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
61288842 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
61288870 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
61288898 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
61288925 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61288940 GACTTAATAT
Statistics
Matches: 96, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
27 23 0.24
28 73 0.76
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:61301850 original size:24 final size:24
Alignment explanation
Indices: 61301823--61301870 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
61301813 ACTTACCTTG
61301823 TTTTTAATAAATATCGAACTAACT
1 TTTTTAATAAATATCGAACTAACT
61301847 TTTTTAATAAATATCGAACTAACT
1 TTTTTAATAAATATCGAACTAACT
61301871 CATACTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (24 bp):
TTTTTAATAAATATCGAACTAACT
Found at i:61303547 original size:109 final size:109
Alignment explanation
Indices: 61303356--61303574 Score: 420
Period size: 109 Copynumber: 2.0 Consensus size: 109
61303346 AACATATTTT
61303356 GTATTGGAGTTTTTGATAATTTTGAGTAATTAGGAGTAAAATTGCAAAAATAATAATTTAAGGGA
1 GTATTGGAGTTTTTGATAATTTTGAGTAATTAGGAGTAAAATTGCAAAAATAATAATTTAAGGGA
*
61303421 CTAAAATTCGAAATAAATCGAATATATGGACTTGTTTGAGAGTG
66 CTAAAATTCAAAATAAATCGAATATATGGACTTGTTTGAGAGTG
*
61303465 GTATTGGAGTTTTTGATAATTTTGAGTAATTAGGAGTAAAATTGCAAAAATAATAATTTGAGGGA
1 GTATTGGAGTTTTTGATAATTTTGAGTAATTAGGAGTAAAATTGCAAAAATAATAATTTAAGGGA
61303530 CTAAAATTCAAAATAAATCGAATATATGGACTTGTTTGAGAGTG
66 CTAAAATTCAAAATAAATCGAATATATGGACTTGTTTGAGAGTG
61303574 G
1 G
61303575 GTAAAATTTG
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
109 108 1.00
ACGTcount: A:0.39, C:0.05, G:0.21, T:0.35
Consensus pattern (109 bp):
GTATTGGAGTTTTTGATAATTTTGAGTAATTAGGAGTAAAATTGCAAAAATAATAATTTAAGGGA
CTAAAATTCAAAATAAATCGAATATATGGACTTGTTTGAGAGTG
Found at i:61313493 original size:79 final size:81
Alignment explanation
Indices: 61313384--61313566 Score: 223
Period size: 79 Copynumber: 2.3 Consensus size: 81
61313374 TACTCGTTCA
* *
61313384 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
61313447 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
* **
61313464 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
61313527 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
61313543 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
61313567 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 58 0.65
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:61313566 original size:40 final size:40
Alignment explanation
Indices: 61313382--61313566 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
61313372 ACTACTCGTT
* *
61313382 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
61313422 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
61313462 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
61313501 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
61313542 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61313567 CATCATTCGA
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 2 0.02
39 31 0.25
40 79 0.64
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:61316351 original size:9 final size:9
Alignment explanation
Indices: 61316337--61316389 Score: 52
Period size: 9 Copynumber: 5.4 Consensus size: 9
61316327 ACAAACATGG
61316337 TATGTATGA
1 TATGTATGA
61316346 TATGTACATGA
1 TATGT--ATGA
*
61316357 CATGTATGA
1 TATGTATGA
*
61316366 TATGCACATGA
1 TATG--TATGA
61316377 TATGTATGA
1 TATGTATGA
61316386 TATG
1 TATG
61316390 CACATGATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
9 20 0.56
11 16 0.44
ACGTcount: A:0.34, C:0.08, G:0.21, T:0.38
Consensus pattern (9 bp):
TATGTATGA
Found at i:61316397 original size:20 final size:20
Alignment explanation
Indices: 61316331--61316397 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
61316321 ATTTTGACAA
* *
61316331 ACATGGTATGTATGATATGT
1 ACATGATATGTATGATATGC
*
61316351 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
61316371 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
61316391 ACATGAT
1 ACATGAT
61316398 GTATTCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:61316476 original size:25 final size:24
Alignment explanation
Indices: 61316447--61316638 Score: 248
Period size: 24 Copynumber: 8.0 Consensus size: 24
61316437 GAGGAAGTGT
61316447 AAAAGGGCTTATGCCCCAGTTATG
1 AAAAGGGCTTATGCCCCAGTTATG
61316471 ATAAAGGGCTTATGCCCCAGTTATG
1 A-AAAGGGCTTATGCCCCAGTTATG
61316496 ATAAAGGGC-TATGCCCCAGTTATG
1 A-AAAGGGCTTATGCCCCAGTTATG
* *
61316520 ATAAAGGGCTTATGCCTCAGTTATT
1 A-AAAGGGCTTATGCCCCAGTTATG
* *
61316545 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATG
*
61316569 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATG
*
61316592 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATG
*
61316615 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
61316639 ACGATAAAGC
Statistics
Matches: 157, Mismatches: 6, Indels: 9
0.91 0.03 0.05
Matches are distributed among these distances:
23 41 0.26
24 62 0.39
25 54 0.34
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATG
Found at i:61316521 original size:49 final size:47
Alignment explanation
Indices: 61316447--61316638 Score: 235
Period size: 49 Copynumber: 4.0 Consensus size: 47
61316437 GAGGAAGTGT
61316447 AAAAGGGCTTATGCCCCAGTTATGATAAAGGGCTTATGCCCCAGTTATG
1 AAAAGGGC-TATGCCCCAGTTATGA-AAAGGGCTTATGCCCCAGTTATG
* *
61316496 ATAAAGGGCTATGCCCCAGTTATGATAAAGGGCTTATGCCTCAGTTATT
1 A-AAAGGGCTATGCCCCAGTTATGA-AAAGGGCTTATGCCCCAGTTATG
* * *
61316545 AAAAGGGCTTATGCCCTAGTTATTAAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGC-TATGCCCCAGTTATGAAAAGGGCTTATGCCCCAGTTATG
* * *
61316592 AAAAGGGCTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTATGCCCCAGTTATGAAAAG-GGCTTATGCC-CCAGTTAT
61316639 ACGATAAAGC
Statistics
Matches: 130, Mismatches: 8, Indels: 11
0.87 0.05 0.07
Matches are distributed among these distances:
46 19 0.15
47 26 0.20
48 24 0.18
49 54 0.42
50 7 0.05
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (47 bp):
AAAAGGGCTATGCCCCAGTTATGAAAAGGGCTTATGCCCCAGTTATG
Found at i:61316867 original size:31 final size:31
Alignment explanation
Indices: 61316832--61316894 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
61316822 CGTTTACAGT
*
61316832 AAAGGCTTCGGCCCAGTAATATGAAGTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
61316863 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
61316894 A
1 A
61316895 GTGTGAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:61327106 original size:19 final size:19
Alignment explanation
Indices: 61327084--61327137 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
61327074 TAAATTTTGG
61327084 TATTTCTCTTAATTTTTTA
1 TATTTCTCTTAATTTTTTA
61327103 TATTTTCTCATT--TTTTTTA
1 TA-TTTCTC-TTAATTTTTTA
* *
61327122 TA-TCCTCGTAATTTTT
1 TATTTCTCTTAATTTTT
61327138 ACTATTCTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
16 1 0.03
17 4 0.14
18 5 0.17
19 11 0.38
20 6 0.21
21 2 0.07
ACGTcount: A:0.19, C:0.13, G:0.02, T:0.67
Consensus pattern (19 bp):
TATTTCTCTTAATTTTTTA
Found at i:61338146 original size:38 final size:38
Alignment explanation
Indices: 61338098--61338221 Score: 149
Period size: 38 Copynumber: 3.2 Consensus size: 38
61338088 GGCACGAAGG
* * * *
61338098 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
61338136 CCCTGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** * *
61338174 CCCGGATATTTTACCAGCACGAAGCTTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
61338213 GCCCGGATA
1 -CCCGGATA
61338222 CACATCAAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 61 0.82
39 5 0.07
40 8 0.11
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:61341864 original size:48 final size:48
Alignment explanation
Indices: 61341804--61341906 Score: 120
Period size: 48 Copynumber: 2.1 Consensus size: 48
61341794 GTCCAACTAT
* * * *
61341804 GGTCTTATACTAGCTCTGCTCT-GCCCGTGCTGATGCCTATTCCC-GATA
1 GGTCTTACACTAGCACT-CACTGGCCCGTGCCGATGCCTA-TCCCAGATA
* *
61341852 GGTCTTACACTAGCACTCACTGGGCTGTGCCGATGCCTATCCCAGATA
1 GGTCTTACACTAGCACTCACTGGCCCGTGCCGATGCCTATCCCAGATA
61341900 GGTCTTA
1 GGTCTTA
61341907 AGCTTAGCAC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 7 0.15
48 40 0.85
ACGTcount: A:0.17, C:0.30, G:0.22, T:0.30
Consensus pattern (48 bp):
GGTCTTACACTAGCACTCACTGGCCCGTGCCGATGCCTATCCCAGATA
Found at i:61343647 original size:38 final size:38
Alignment explanation
Indices: 61343604--61343707 Score: 147
Period size: 38 Copynumber: 2.7 Consensus size: 38
61343594 CGAAGGCCCG
* * *
61343604 GATATAATACCAGCACTAGGCCTGCGGGATTT-ATCCA
1 GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCA
61343641 TGATATAATACCAGCACGAAGCCTGCGGGATTTAACCCA
1 -GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCA
**
61343680 GATATTTTACCAGCACGAAGCCTGCGGG
1 GATATAATACCAGCACGAAGCCTGCGGG
61343708 TCTTTAAGCC
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
38 56 0.93
39 4 0.07
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (38 bp):
GATATAATACCAGCACGAAGCCTGCGGGATTTAACCCA
Found at i:61348627 original size:79 final size:80
Alignment explanation
Indices: 61348471--61348702 Score: 285
Period size: 79 Copynumber: 2.9 Consensus size: 80
61348461 TTGAATGATG
* * * * * *
61348471 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
61348534 TTGTACGAGTTACTAAA
64 TTGTACGAGTTACTAAA
*
61348551 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AATCC-GGTTAAGTCCCGAAGGCAT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCAT
*
61348613 TTGTGCGAGTTACTAAA
64 TTGTACGAGTTACTAAA
** *
61348630 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
*
61348695 GAACGAGT
66 GTACGAGT
61348703 AGCTATATCC
Statistics
Matches: 131, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
78 2 0.02
79 68 0.52
80 53 0.40
81 8 0.06
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTACGAGTTACTAAA
Found at i:61348689 original size:119 final size:119
Alignment explanation
Indices: 61348478--61348728 Score: 296
Period size: 119 Copynumber: 2.1 Consensus size: 119
61348468 ATGTCCGGGC
*
61348478 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTACGAG
1 TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTACGAG
**
61348543 TTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGT
66 TTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCTAAATCCGGT
* * * ** *
61348597 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTGTACG
* * *
61348660 AGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAGCTATATCCGGT
64 AGTTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGCTAAATCCGGT
* *
61348716 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
61348729 TACGTGATTT
Statistics
Matches: 113, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 100 0.88
120 9 0.08
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (119 bp):
TAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTACGAG
TTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTAAATCCGGT
Found at i:61348709 original size:40 final size:40
Alignment explanation
Indices: 61348471--61348695 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
61348461 TTGAATGATG
* * * *
61348471 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
61348511 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
61348551 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
61348591 TCC-GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
61348630 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
61348671 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
61348696 AACGAGTAGC
Statistics
Matches: 169, Mismatches: 11, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
38 1 0.01
39 35 0.21
40 124 0.73
41 9 0.05
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:61348717 original size:79 final size:79
Alignment explanation
Indices: 61348478--61348728 Score: 280
Period size: 79 Copynumber: 3.2 Consensus size: 79
61348468 ATGTCCGGGC
* * * * *
61348478 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGTACG
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATTTGTACG
*
61348541 AGTTACTAAATCCGGAC
64 AGTTACTAAATCCGG-T
* *
61348558 TAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AATCC-GGTTAAGTCCCGAAGGCATTTGTGCG
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATTTGTACG
61348620 AGTTACTAAATCCGGGT
64 AGTTACTAAATCC-GGT
* *
61348637 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAG
*
61348702 -TAGCTATATCCGGT
66 TTA-CTAAATCCGGT
* *
61348716 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
61348729 TACGTGATTT
Statistics
Matches: 147, Mismatches: 15, Indels: 19
0.81 0.08 0.10
Matches are distributed among these distances:
78 2 0.01
79 82 0.56
80 55 0.37
81 8 0.05
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAG
TTACTAAATCCGGT
Found at i:61356133 original size:25 final size:25
Alignment explanation
Indices: 61356104--61356151 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
61356094 TTATAATATG
* * *
61356104 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
61356129 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
61356152 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:61356218 original size:20 final size:20
Alignment explanation
Indices: 61356195--61356253 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
61356185 TAAACATGGT
61356195 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
61356215 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
61356235 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
61356254 GGTATTCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:61356235 original size:11 final size:11
Alignment explanation
Indices: 61356199--61356253 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
61356189 CATGGTATGT
61356199 ATGATATGCAC
1 ATGATATGCAC
* *
61356210 ATGACATG--T
1 ATGATATGCAC
61356219 ATGATATGCAC
1 ATGATATGCAC
*
61356230 ATGATATG--T
1 ATGATATGCAC
61356239 ATGATATGCAC
1 ATGATATGCAC
61356250 ATGA
1 ATGA
61356254 GGTATTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:61356331 original size:24 final size:24
Alignment explanation
Indices: 61356304--61356447 Score: 218
Period size: 24 Copynumber: 6.0 Consensus size: 24
61356294 GACGAAGTGC
61356304 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
61356328 AAAAGGGCTTCTGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
61356352 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
61356376 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
61356400 AAAAGGGCTTTTTCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
61356424 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
61356448 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
24 98 0.90
25 11 0.10
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:61358258 original size:39 final size:40
Alignment explanation
Indices: 61358141--61358258 Score: 168
Period size: 40 Copynumber: 3.0 Consensus size: 40
61358131 GCTACTCGTT
*
61358141 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
61358181 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
61358221 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGC
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGC
61358259 CTAAGTCCCG
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
39 21 0.30
40 47 0.67
41 2 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:61358337 original size:40 final size:39
Alignment explanation
Indices: 61358292--61358393 Score: 141
Period size: 39 Copynumber: 2.6 Consensus size: 39
61358282 AAGTGACCAT
*
61358292 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGATACTAA
* * *
61358332 TTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAA
*
61358371 ATCCGGGTTAAGTCCCGAAGGCA
1 ATCCGGGCTAAGT-CCGAAGGCA
61358394 ATCGGGACTT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 35 0.65
40 19 0.35
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATCCGGGCTAAGTCCGAAGGCATTTGTGCGAGATACTAA
Found at i:61358354 original size:39 final size:40
Alignment explanation
Indices: 61358259--61358393 Score: 152
Period size: 40 Copynumber: 3.4 Consensus size: 40
61358249 AGTATCTCGC
* * * *
61358259 CTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGA
1 CTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAATCCGGG
*
61358299 CTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTCCGGG
1 CTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAATCCGGG
*
61358339 CTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGG
1 CTAAGTCCCGAAGGCATTTGTGCGAGATACTAAATCCGGG
*
61358378 TTAAGTCCCGAAGGCA
1 CTAAGTCCCGAAGGCA
61358394 ATCGGGACTT
Statistics
Matches: 82, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
39 35 0.43
40 36 0.44
41 10 0.12
42 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
CTAAGTCCCGAAGGCATTTGTGCGAGATACTAAATCCGGG
Found at i:61367495 original size:20 final size:20
Alignment explanation
Indices: 61367472--61367530 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
61367462 TAAACATGGT
61367472 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
61367492 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
61367512 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
61367531 GGTATTCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:61367512 original size:11 final size:11
Alignment explanation
Indices: 61367476--61367530 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
61367466 CATGGTATGT
61367476 ATGATATGCAC
1 ATGATATGCAC
* *
61367487 ATGACATG--T
1 ATGATATGCAC
61367496 ATGATATGCAC
1 ATGATATGCAC
*
61367507 ATGATATG--T
1 ATGATATGCAC
61367516 ATGATATGCAC
1 ATGATATGCAC
61367527 ATGA
1 ATGA
61367531 GGTATTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:61367772 original size:25 final size:24
Alignment explanation
Indices: 61367581--61367772 Score: 260
Period size: 24 Copynumber: 8.0 Consensus size: 24
61367571 GAGGAAGTGC
61367581 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* * **
61367605 AAAAGGGCTTCTGCCCTAGTTACC
1 AAAAGGGCTTATGCCCCAGTTATT
*
61367629 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* * *
61367653 AAAAGGGCTTCTACCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
61367677 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
61367701 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
61367725 AAAAGGGCTTTTGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
61367749 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
61367773 ATGATAAAGT
Statistics
Matches: 147, Mismatches: 19, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
24 137 0.93
25 10 0.07
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:61381365 original size:40 final size:40
Alignment explanation
Indices: 61381310--61381451 Score: 207
Period size: 40 Copynumber: 3.6 Consensus size: 40
61381300 ATTCGGATTG
*
61381310 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT
*
61381350 ATATCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT
* *
61381390 ATATCCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CT
* *
61381430 ATATCC-GGTTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
61381452 TACTTGGCTT
Statistics
Matches: 94, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
39 15 0.16
40 79 0.84
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACT
Found at i:61393097 original size:125 final size:126
Alignment explanation
Indices: 61392767--61393084 Score: 457
Period size: 125 Copynumber: 2.5 Consensus size: 126
61392757 AGCTAGGTCT
* * * * *
61392767 CACACGGCCAAGA-CACACGCCCATGTTCTGGGCCGAGTAGT-ACACATGGCTAAGACACACGCC
1 CACACGACCAA-ACCACATGCCCATGTGCTAGGCCGTGTAGTCACACATGGCTAAGACACACGCC
*
61392830 CGTGTCTTTGCCCGTGTGCTCAATTCTGAGCATTCTATTTCTCAAATTTAAGTTGCAGGGGA
65 CGTGTCTTTGCCCGTGTGCTCAATTCTGAGCATTCTATTTCTCAAATTTAAGTTGCAAGGGA
* * * *
61392892 CACACGACCAAACCACATGCCCATGTGCTAAGCTGTGTAG-CACACATGGCTGAGACACACGCTC
1 CACACGACCAAACCACATGCCCATGTGCTAGGCCGTGTAGTCACACATGGCTAAGACACACGCCC
* *
61392956 ATGTCTTTGCCCGTGTGCTCAATTCTGAGCATTCTGTTTCTCAAATTTAAGTTGCAAGGGA
66 GTGTCTTTGCCCGTGTGCTCAATTCTGAGCATTCTATTTCTCAAATTTAAGTTGCAAGGGA
* *
61393017 CACACGACCAAACCACATGCCCATGTGCTAGGCCGTGT-GTCACAGATGG-TCAAGACACACACC
1 CACACGACCAAACCACATGCCCATGTGCTAGGCCGTGTAGTCACACATGGCT-AAGACACACGCC
61393080 CGTGT
65 CGTGT
61393085 GTCTACCAGT
Statistics
Matches: 170, Mismatches: 19, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
124 3 0.02
125 167 0.98
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (126 bp):
CACACGACCAAACCACATGCCCATGTGCTAGGCCGTGTAGTCACACATGGCTAAGACACACGCCC
GTGTCTTTGCCCGTGTGCTCAATTCTGAGCATTCTATTTCTCAAATTTAAGTTGCAAGGGA
Found at i:61398781 original size:26 final size:26
Alignment explanation
Indices: 61398745--61398800 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
61398735 ATTGATTGTT
61398745 ATCAATATCTTATTAACTGGAAGTCC
1 ATCAATATCTTATTAACTGGAAGTCC
61398771 ATCAATATCTTATTAACTGGAAGTCC
1 ATCAATATCTTATTAACTGGAAGTCC
61398797 ATCA
1 ATCA
61398801 TTATTAAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.34
Consensus pattern (26 bp):
ATCAATATCTTATTAACTGGAAGTCC
Found at i:61398805 original size:21 final size:23
Alignment explanation
Indices: 61398753--61398807 Score: 69
Period size: 26 Copynumber: 2.3 Consensus size: 23
61398743 TTATCAATAT
61398753 CTTATTAACTGGAAGTCCATCAATA
1 CTTATTAACTGGAAGTCCATC-A-A
61398778 TCTTATTAACTGGAAGTCCATC-A
1 -CTTATTAACTGGAAGTCCATCAA
61398801 -TTATTAA
1 CTTATTAA
61398808 GATAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 7 0.24
23 1 0.03
26 21 0.72
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (23 bp):
CTTATTAACTGGAAGTCCATCAA
Found at i:61400229 original size:42 final size:43
Alignment explanation
Indices: 61400177--61400299 Score: 126
Period size: 42 Copynumber: 2.9 Consensus size: 43
61400167 GTACTATCAA
* *
61400177 GATTCCGTATAAGACCATATCTGGGATATGGCATC-AGTATG-T
1 GATTTCGTATAAGACCATATCAGGGATATGGCATCGA-TATGAT
* * *
61400219 GATTTCGTATAAGATCATGTCAGGGATATGGTATCGATATGAT
1 GATTTCGTATAAGACCATATCAGGGATATGGCATCGATATGAT
* * * * *
61400262 -ATTTCATGTAAGACCATATCCGGGGTATGGCATTGATA
1 GATTTCGTATAAGACCATATCAGGGATATGGCATCGATA
61400300 CGGTACTAAG
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
42 64 0.97
43 2 0.03
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (43 bp):
GATTTCGTATAAGACCATATCAGGGATATGGCATCGATATGAT
Found at i:61403802 original size:65 final size:64
Alignment explanation
Indices: 61403695--61403826 Score: 169
Period size: 65 Copynumber: 2.0 Consensus size: 64
61403685 ATCATTACAA
* * *
61403695 AAGTTGGTCTTATTTTAGCATTTTATGTTGTTTTTAAGTATGTTTTGTTTTCTTGCAT-AAAGAA
1 AAGTTGGTCTTATTTTAGCATTTTATGTTGATTTTAAATATG-TTTATTTTCTTG-ATAAAAGAA
61403759 T
64 T
* *
61403760 AAGTTGGTGTTATTTTGGCATATTTATGTT-ATTTTAAATATGTTTATTTTCTTGATACAAAGAA
1 AAGTTGGTCTTATTTTAGCAT-TTTATGTTGATTTTAAATATGTTTATTTTCTTGATA-AAAGAA
61403824 T
64 T
61403825 AA
1 AA
61403827 AAACAAAGTA
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
63 2 0.03
64 11 0.19
65 38 0.64
66 8 0.14
ACGTcount: A:0.27, C:0.05, G:0.16, T:0.52
Consensus pattern (64 bp):
AAGTTGGTCTTATTTTAGCATTTTATGTTGATTTTAAATATGTTTATTTTCTTGATAAAAGAAT
Found at i:61409200 original size:40 final size:40
Alignment explanation
Indices: 61409078--61409203 Score: 198
Period size: 40 Copynumber: 3.1 Consensus size: 40
61409068 TATAGTGCCT
* * *
61409078 GGTTATACTAACTCTCCCAAATGCCTTCGGGACTTAGCCC
1 GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
* *
61409118 GGATATAGTAACTCGCACAAATGCATTCGGGACTTAGCCC
1 GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
*
61409158 GGTTATAGTAACTCGCACAAATGCCTTCGAGACTTAGCCC
1 GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
61409198 GGTTAT
1 GGTTAT
61409204 CATCTGAATA
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
GGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCC
Found at i:61411976 original size:37 final size:38
Alignment explanation
Indices: 61411918--61411995 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 38
61411908 TTACGAAGTC
* * *
61411918 TTACCCGGACATAATCTCCACACGAAGTTATCGGGT-T
1 TTACCCGGACAAAATCCCCACACGAAGTCATCGGGTCT
*
61411955 TTACCCGGACAAAATCCCCACACGTAGTCATCGGGTCT
1 TTACCCGGACAAAATCCCCACACGAAGTCATCGGGTCT
61411993 TTA
1 TTA
61411996 GAGCTCGGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 32 0.89
38 4 0.11
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (38 bp):
TTACCCGGACAAAATCCCCACACGAAGTCATCGGGTCT
Found at i:61412182 original size:47 final size:47
Alignment explanation
Indices: 61412111--61412333 Score: 313
Period size: 47 Copynumber: 4.7 Consensus size: 47
61412101 CCCTTCGGGA
* * * * * *
61412111 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
61412158 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
61412205 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61412252 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
61412299 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
61412334 AGAATCCTAA
Statistics
Matches: 162, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.01
47 161 0.99
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:61412189 original size:25 final size:25
Alignment explanation
Indices: 61412161--61412239 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
61412151 ACTCGGCCCT
61412161 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
61412186 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
61412208 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
61412233 ATCACAT
1 ATCACAT
61412240 CGGCTATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:61421779 original size:40 final size:40
Alignment explanation
Indices: 61421709--61421890 Score: 260
Period size: 40 Copynumber: 4.6 Consensus size: 40
61421699 AAACCAAGTA
* * *
61421709 CCTTCGGGAATTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
* *
61421748 CCTTCGGGATTTATCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
61421788 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
61421828 CCTTCGGGACTTAGCCCAGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
61421868 CCTTCGGGACTTAGCCCTGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
61421891 CATCCGAATA
Statistics
Matches: 129, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 13 0.10
40 116 0.90
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:61424465 original size:19 final size:21
Alignment explanation
Indices: 61424426--61424470 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
61424416 TCGCACTACA
*
61424426 GTGCCCCTGTTTGCACATTT-
1 GTGCCCCTGTCTGCACATTTG
*
61424446 GTGCCCTTGTCTGCAC-TTTG
1 GTGCCCCTGTCTGCACATTTG
61424466 GTGCC
1 GTGCC
61424471 TCTATTATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 19 0.86
ACGTcount: A:0.07, C:0.31, G:0.24, T:0.38
Consensus pattern (21 bp):
GTGCCCCTGTCTGCACATTTG
Found at i:61435321 original size:23 final size:23
Alignment explanation
Indices: 61435295--61435343 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
61435285 AAGAATTGAG
61435295 TTAAATCTATCTTAAGCAAGCAA
1 TTAAATCTATCTTAAGCAAGCAA
61435318 TTAAATCTATCTTAAGCAAGCAA
1 TTAAATCTATCTTAAGCAAGCAA
61435341 TTA
1 TTA
61435344 TTCCTTGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.33
Consensus pattern (23 bp):
TTAAATCTATCTTAAGCAAGCAA
Found at i:61437405 original size:48 final size:48
Alignment explanation
Indices: 61437342--61437471 Score: 242
Period size: 48 Copynumber: 2.7 Consensus size: 48
61437332 CATCTCCTAC
* *
61437342 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCACACAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACACATACATATCACACAT
61437390 ATATTTCACATTAGCCATTCGGCTTTACCACACATACATATCACACAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACACATACATATCACACAT
61437438 ATATTTCACATTAGCCATTCGGCTTTACCACACA
1 ATATTTCACATTAGCCATTCGGCTTTACCACACA
61437472 CATATATATT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 80 1.00
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.32
Consensus pattern (48 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACACATACATATCACACAT
Found at i:61439201 original size:23 final size:23
Alignment explanation
Indices: 61439175--61439249 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
61439165 CTATTTGAGC
61439175 ATTAAGCTCATGTTCTTTTCATT
1 ATTAAGCTCATGTTCTTTTCATT
* * **
61439198 ATTAAGC-AATG--CTATTTGAGC
1 ATTAAGCTCATGTTCT-TTTCATT
61439219 ATTAAGCTCATGTTCTTTTCATT
1 ATTAAGCTCATGTTCTTTTCATT
61439242 ATTAAGCT
1 ATTAAGCT
61439250 AGTATTATAA
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
20 2 0.05
21 11 0.28
22 6 0.15
23 19 0.47
24 2 0.05
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (23 bp):
ATTAAGCTCATGTTCTTTTCATT
Found at i:61439224 original size:21 final size:22
Alignment explanation
Indices: 61439161--61439226 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 22
61439151 TCCAAAGCCG
61439161 AATGCTATTTGAGCATTAAGCT
1 AATGCTATTTGAGCATTAAGCT
* * **
61439183 CATGTTCT-TTTCATTATTAAGC-
1 AATG--CTATTTGAGCATTAAGCT
61439205 AATGCTATTTGAGCATTAAGCT
1 AATGCTATTTGAGCATTAAGCT
61439227 CATGTTCTTT
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
20 2 0.06
21 11 0.34
22 6 0.19
23 11 0.34
24 2 0.06
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (22 bp):
AATGCTATTTGAGCATTAAGCT
Found at i:61439224 original size:44 final size:44
Alignment explanation
Indices: 61439161--61439248 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
61439151 TCCAAAGCCG
61439161 AATGCTATTTGAGCATTAAGCTCATGTTCTTTTCATTATTAAGC
1 AATGCTATTTGAGCATTAAGCTCATGTTCTTTTCATTATTAAGC
61439205 AATGCTATTTGAGCATTAAGCTCATGTTCTTTTCATTATTAAGC
1 AATGCTATTTGAGCATTAAGCTCATGTTCTTTTCATTATTAAGC
61439249 TAGTATTATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (44 bp):
AATGCTATTTGAGCATTAAGCTCATGTTCTTTTCATTATTAAGC
Found at i:61440960 original size:14 final size:14
Alignment explanation
Indices: 61440939--61440979 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
61440929 CTTACCTAAT
61440939 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTGA
* **
61440953 TTTGCAAGTTGCAA
1 TGTGCAAGTTGTGA
61440967 TGTGCAAGTTGTG
1 TGTGCAAGTTGTG
61440980 CAAGTAGCAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.22, C:0.10, G:0.32, T:0.37
Consensus pattern (14 bp):
TGTGCAAGTTGTGA
Found at i:61442620 original size:93 final size:93
Alignment explanation
Indices: 61442449--61442620 Score: 229
Period size: 93 Copynumber: 1.8 Consensus size: 93
61442439 AGGACATTTG
** * *
61442449 GGCATCCGAACTCGTTGAGTCAAGCCCGAGTTAACTTATGGATGTGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTCAAGCCCGAGTTAACTTATGGATGCAAACGCCCGAACTCGTTGAG
*
61442514 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCAAGTTCGAGAGATGTAACTA
* * * * *
61442542 GGCATCCGAGCTCGTTGAGTTC-AGTCCGAGTTCACTTATGGATGCAAACGCCCGAGCTTGTTGA
1 GGCATCCGAACTCGTTGAG-TCAAGCCCGAGTTAACTTATGGATGCAAACGCCCGAACTCGTTGA
*
61442606 GTTGAGTCTAAGTTC
65 GTTGAGTCCAAGTTC
61442621 ACTTATGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
93 65 0.97
94 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTCAAGCCCGAGTTAACTTATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCAAGTTCGAGAGATGTAACTA
Found at i:61447158 original size:42 final size:42
Alignment explanation
Indices: 61447042--61447159 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 42
61447032 ATCTGAAATA
** * *
61447042 TCGTGTAAGACGGTGTCTGGGACAAAGGCTTCGATTTGAGATT
1 TCGTGTAAGACCATGTCTGGGACAAAGGCATCGATCT-AGATT
* **
61447085 TACTTGTAAGACCATGTCTGGGACATCGGCATCGTATCT-GATT
1 T-CGTGTAAGACCATGTCTGGGACAAAGGCATCG-ATCTAGATT
* *
61447128 TCGTGTAAGACCCTGTCTGGGACAGAGGCATC
1 TCGTGTAAGACCATGTCTGGGACAAAGGCATC
61447160 AATATTGAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
42 27 0.44
43 6 0.10
44 26 0.42
45 3 0.05
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (42 bp):
TCGTGTAAGACCATGTCTGGGACAAAGGCATCGATCTAGATT
Found at i:61447192 original size:43 final size:42
Alignment explanation
Indices: 61447056--61447193 Score: 111
Period size: 42 Copynumber: 3.2 Consensus size: 42
61447046 GTAAGACGGT
* * *
61447056 GTCTGGGACAAAGGCTTCGAT-TTGAGATTTACTTGTAAGACCAT
1 GTCTGGGACAAAGGCATC-ATATTGA-A-TTACATGTAAGACCAC
** * * *
61447100 GTCTGGGACATCGGCATCGTATCTG-ATTTCGTGTAAGACC-C
1 GTCTGGGACAAAGGCATCATAT-TGAATTACATGTAAGACCAC
*
61447141 TGTCTGGGACAGAGGCATCAATATTGAATTACATGTAAGACCAC
1 -GTCTGGGACAAAGGCATC-ATATTGAATTACATGTAAGACCAC
*
61447185 ATCTGGGAC
1 GTCTGGGAC
61447194 GTTGGCATTG
Statistics
Matches: 75, Mismatches: 13, Indels: 13
0.74 0.13 0.13
Matches are distributed among these distances:
42 30 0.40
43 26 0.35
44 17 0.23
45 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (42 bp):
GTCTGGGACAAAGGCATCATATTGAATTACATGTAAGACCAC
Found at i:61450900 original size:14 final size:14
Alignment explanation
Indices: 61450879--61450919 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
61450869 CTTACCTAAT
61450879 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTGA
* **
61450893 TTTGCAAGTTGCAA
1 TGTGCAAGTTGTGA
61450907 TGTGCAAGTTGTG
1 TGTGCAAGTTGTG
61450920 CAAGTTGCAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.22, C:0.10, G:0.32, T:0.37
Consensus pattern (14 bp):
TGTGCAAGTTGTGA
Found at i:61455205 original size:18 final size:18
Alignment explanation
Indices: 61455174--61455208 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
61455164 AAATTCTCAA
*
61455174 TTAAAAATAGTTTATTTT
1 TTAAAAATAATTTATTTT
*
61455192 TTAAACATAATTTATTT
1 TTAAAAATAATTTATTT
61455209 GTTTGAAATT
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:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (18 bp):
TTAAAAATAATTTATTTT
Found at i:61463359 original size:40 final size:40
Alignment explanation
Indices: 61463276--61463533 Score: 342
Period size: 40 Copynumber: 6.5 Consensus size: 40
61463266 AAGCCAAGTA
* * * * *
61463276 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATA
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
61463315 CCTTCGGGACATAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
61463355 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
61463395 CCTTCGGAACTTAGCCCGCATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
61463435 CCTTCAGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
61463475 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
61463515 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
61463534 TTATCATCCA
Statistics
Matches: 194, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
39 13 0.07
40 181 0.93
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:61473006 original size:24 final size:25
Alignment explanation
Indices: 61472957--61473013 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
61472947 TATAATGTGT
* *
61472957 ATTGAATTGGTTCATTTGGTTGCAA
1 ATTGAATTGGTTCATTAGGGTGCAA
61472982 ATTGAATT-GTTCATATAGGGT-CAA
1 ATTGAATTGGTTCAT-TAGGGTGCAA
61473006 ATTTGAAT
1 A-TTGAAT
61473014 GTATTAGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 10 0.36
25 18 0.64
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (25 bp):
ATTGAATTGGTTCATTAGGGTGCAA
Found at i:61474884 original size:38 final size:38
Alignment explanation
Indices: 61474825--61474955 Score: 118
Period size: 38 Copynumber: 3.2 Consensus size: 38
61474815 TTTCAAATTA
* *
61474825 ACATGTATAACCGTGGCATATCCAGTTAGCACCACGTT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
* *
61474863 ACATGTTTAACCATGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACG-T--T
* **
61474904 GAATCGATATATGTAACTGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCATGGCATATCCACTTAGCACCACGTT
61474948 ACATGTAT
1 ACATGTAT
61474956 CAATTTGTGT
Statistics
Matches: 74, Mismatches: 10, Indels: 18
0.73 0.10 0.18
Matches are distributed among these distances:
38 33 0.45
39 1 0.01
40 4 0.05
41 2 0.03
42 1 0.01
43 1 0.01
44 2 0.03
45 3 0.04
46 1 0.01
47 26 0.35
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
Found at i:61474990 original size:48 final size:48
Alignment explanation
Indices: 61474876--61475003 Score: 161
Period size: 48 Copynumber: 2.7 Consensus size: 48
61474866 TGTTTAACCA
* *
61474876 TGGTATATCCACTTAGCACCACGTTA-ATGAATCGATATATGTAACTG
1 TGGTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAACTG
* * *
61474923 TGGCATATCCACTTAGCACCACGTTACATGTATCAATTTGTGTAA-TCG
1 TGGTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAACT-G
* * *
61474971 TGGTATATTCGCTTAGCACCACGTTACACGTAT
1 TGGTATATCCACTTAGCACCACGTTACATGTAT
61475004 AACCGTGGTA
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
47 26 0.37
48 44 0.63
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (48 bp):
TGGTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAACTG
Found at i:61483548 original size:28 final size:28
Alignment explanation
Indices: 61483472--61483551 Score: 81
Period size: 28 Copynumber: 2.9 Consensus size: 28
61483462 TGCATCTTCG
* *
61483472 ATATCTCGTACACTAAGTGCCATACTCA
1 ATATCTCGCACACTAAGTTCCATACTCA
* * * * *
61483500 ATATCTCGCACACCAAATTCCGTTCTTA
1 ATATCTCGCACACTAAGTTCCATACTCA
61483528 ATAT-TCTGCACACTAAGTTCCATA
1 ATATCTC-GCACACTAAGTTCCATA
61483552 TACATATATA
Statistics
Matches: 40, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
27 2 0.05
28 38 0.95
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.31
Consensus pattern (28 bp):
ATATCTCGCACACTAAGTTCCATACTCA
Found at i:61487126 original size:42 final size:42
Alignment explanation
Indices: 61487080--61487197 Score: 146
Period size: 42 Copynumber: 2.8 Consensus size: 42
61487070 GCCATGTCCC
* * * * *
61487080 AGACATGGTCTTATACGAAATCACATATTGATGTCGCATCCT
1 AGACATGGTCTTATACGAAATCTCATATCGAAGCCACATCCT
* *
61487122 AGACACGGTCTTATACGAAATCTCATATCGAAGCCATATCCT
1 AGACATGGTCTTATACGAAATCTCATATCGAAGCCACATCCT
* * *
61487164 AGATATGGTCTTACACGTAATCTCATATCGAAGC
1 AGACATGGTCTTATACGAAATCTCATATCGAAGC
61487198 TGATGTCATA
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.29
Consensus pattern (42 bp):
AGACATGGTCTTATACGAAATCTCATATCGAAGCCACATCCT
Found at i:61487341 original size:48 final size:48
Alignment explanation
Indices: 61487154--61487341 Score: 270
Period size: 48 Copynumber: 3.9 Consensus size: 48
61487144 TCATATCGAA
* * *
61487154 GCCATATCCTAGATATGGTCTTACACGTA-ATCTCATATCGAAGCTGAT
1 GCCATATCCCAGATATGGTCTTACAC-AAGATCTCATATCGATGCTGAT
* * * *
61487202 GTCATATCTCAGATATGGTCTAACACAAGATCTCATATAGATGCTGAT
1 GCCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCTGAT
* *
61487250 GCCAAATCCCAGATATGGTCGTACACAAGATCTCATATCGATGCTGAT
1 GCCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCTGAT
*
61487298 GCCATATCCCAGATATGGTCTTACACAAGATCTCATATTGATGC
1 GCCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGC
61487342 CATGTCCCAA
Statistics
Matches: 123, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
47 1 0.01
48 122 0.99
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (48 bp):
GCCATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCTGAT
Found at i:61510411 original size:15 final size:13
Alignment explanation
Indices: 61510388--61510426 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
61510378 TTCAATTAAT
61510388 ATTTTATATGAATTA
1 ATTTTATAT--ATTA
*
61510403 ATTTCATATATTA
1 ATTTTATATATTA
61510416 ATTTTATATAT
1 ATTTTATATAT
61510427 GTACAAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 14 0.64
15 8 0.36
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (13 bp):
ATTTTATATATTA
Found at i:61512724 original size:12 final size:14
Alignment explanation
Indices: 61512709--61512740 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
61512699 GTGAGAACAC
61512709 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
61512721 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
61512735 ATGTGT
1 ATGTGT
61512741 TTAAGATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:61512826 original size:50 final size:50
Alignment explanation
Indices: 61512706--61513000 Score: 245
Period size: 50 Copynumber: 5.9 Consensus size: 50
61512696 ATTGTGAGAA
* * * *** * *
61512706 CACATGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAGATGGTTTTAGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGT
* * *
61512758 CACGTGTGTAGTAATAAGTGTAGGCTACTACGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
** ** * * * * * * *
61512808 TGCATGTGTAGTACTAAGTGCAGGCTACTTTGCGTTCCCGACAACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTTAGGT
* * * *
61512859 CACATGTGTAGTACTTAGTCCAGGCTACTACGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * *
61512909 CACGTGTGTAGTACTAAGTGCAGGATACTACATGTACC-GAATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAGTTAGGT
* *
61512958 CACATGTGTA-TACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
61513001 CTTCGGTTAC
Statistics
Matches: 189, Mismatches: 51, Indels: 10
0.76 0.20 0.04
Matches are distributed among these distances:
48 26 0.14
49 14 0.07
50 77 0.41
51 36 0.19
52 36 0.19
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
Found at i:61512886 original size:101 final size:101
Alignment explanation
Indices: 61512755--61512937 Score: 267
Period size: 101 Copynumber: 1.8 Consensus size: 101
61512745 GATGGTTTTA
* ** **
61512755 GATCACGTGTGTAGTAATAAGTGTAGGCTACTACGTGTACCAGATAGTTAGGTTGCATGTGTAGT
1 GATCACATGTGTAGTAATAAGTCCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGT
*
61512820 ACTAAGTGCAGGCTACTTTGCGTTCCCGACAACTTC
66 ACTAAGTGCAGGATACTTTGCGTTCCCGACAACTTC
* * * * *
61512856 GATCACATGTGTAGTACTTAGTCCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGTGTAGT
1 GATCACATGTGTAGTAATAAGTCCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGT
61512921 ACTAAGTGCAGGATACT
66 ACTAAGTGCAGGATACT
61512938 ACATGTACCG
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 71 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (101 bp):
GATCACATGTGTAGTAATAAGTCCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGT
ACTAAGTGCAGGATACTTTGCGTTCCCGACAACTTC
Found at i:61513219 original size:16 final size:15
Alignment explanation
Indices: 61513198--61513227 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
61513188 GAATGGAGTA
61513198 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
61513214 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
61513228 TAAAATAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:61521419 original size:21 final size:21
Alignment explanation
Indices: 61521395--61521434 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
61521385 TTAATCCCTC
61521395 ACACAT-TTATACACATCAAAG
1 ACACATATTATA-ACATCAAAG
61521416 ACACATATTATAACATCAA
1 ACACATATTATAACATCAA
61521435 TTTAATGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.50, C:0.23, G:0.03, T:0.25
Consensus pattern (21 bp):
ACACATATTATAACATCAAAG
Found at i:61522543 original size:24 final size:24
Alignment explanation
Indices: 61522522--61522569 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
61522512 TTCTTTGACA
61522522 TAATCTTTGGATTACTCATTGAAC
1 TAATCTTTGGATTACTCATTGAAC
**
61522546 TTCTCTTTGGATTACTCATTGAAC
1 TAATCTTTGGATTACTCATTGAAC
61522570 ACTTAGAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.44
Consensus pattern (24 bp):
TAATCTTTGGATTACTCATTGAAC
Found at i:61537638 original size:21 final size:21
Alignment explanation
Indices: 61537604--61537643 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
61537594 ACATGCCTGT
* *
61537604 GTAGAAGGGTGACACGCCCAA
1 GTAGAAAGGCGACACGCCCAA
*
61537625 GTAGAAAGGCGACATGCCC
1 GTAGAAAGGCGACACGCCC
61537644 GTGTGTCTTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.25, G:0.33, T:0.10
Consensus pattern (21 bp):
GTAGAAAGGCGACACGCCCAA
Found at i:61538934 original size:48 final size:48
Alignment explanation
Indices: 61538853--61539837 Score: 1674
Period size: 48 Copynumber: 20.5 Consensus size: 48
61538843 CCGATGCTAA
* * *** *
61538853 ACATGGTCTTACACTGGCTCACTTGTCGAGGTCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
61538901 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
61538949 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
61538997 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
61539045 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
61539093 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
61539141 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
61539189 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
61539237 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
61539285 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
61539333 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
61539381 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
61539429 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
61539477 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
61539525 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
61539573 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
61539621 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
* * * * *
61539669 ACATGGTCTTACACTAGCACACATATCA-AT-GCCGATGCCATGTCCCAG
1 ACATGGTCTTACACTGGCTCTCATA--AGGTGGTCGATGCCATGTCCCAG
* *** * * * *
61539717 ACATGGTCTTACCCTGGCTCTCATGTTGTGGCCGATACTATGTCCCAA
1 ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
* * * *
61539765 ACATGGTCTTACACTAGCACACACATCAA--TGCT-GATGCCATGTCCCAG
1 ACATGGTCTTACACT-G-GCTCTCAT-AAGGTGGTCGATGCCATGTCCCAG
*
61539813 ACATGGTCTTACACTGGCACTCATA
1 ACATGGTCTTACACTGGCTCTCATA
61539838 TCACTCAAAT
Statistics
Matches: 896, Mismatches: 34, Indels: 17
0.95 0.04 0.02
Matches are distributed among these distances:
45 1 0.00
46 6 0.01
47 2 0.00
48 877 0.98
49 4 0.00
50 6 0.01
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (48 bp):
ACATGGTCTTACACTGGCTCTCATAAGGTGGTCGATGCCATGTCCCAG
Found at i:61545227 original size:49 final size:49
Alignment explanation
Indices: 61545072--61545491 Score: 703
Period size: 49 Copynumber: 8.7 Consensus size: 49
61545062 GAAATGATAG
*
61545072 TAAGGCCTAATGGCCGATGGGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
61545119 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
61545166 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
61545215 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
61545264 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
61545313 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * * *
61545360 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
61545407 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
61545456 TAAGGCCTAATGGCCGATGTGATGAATGTGATAAGT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGA-AAGT
61545492 CCCGAAGGGC
Statistics
Matches: 351, Mismatches: 15, Indels: 11
0.93 0.04 0.03
Matches are distributed among these distances:
47 161 0.46
48 2 0.01
49 184 0.52
50 4 0.01
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:61545679 original size:37 final size:37
Alignment explanation
Indices: 61545609--61545679 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 37
61545599 CTGAGCTCTA
* * ***
61545609 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATCACGTCCGGGT
*
61545646 AAGACCCGATAACTTCGTGTGGAGATCACGTCCG
1 AAGACCCGATAACTACGTGTGGAGATCACGTCCG
61545680 AGCTAAAGGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 28 1.00
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATCACGTCCGGGT
Found at i:61549902 original size:25 final size:25
Alignment explanation
Indices: 61549851--61549902 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
61549841 GTTTTATTTT
* *
61549851 ATTAACCTTAATACATAATTTACTAA
1 ATTAACCTTAATA-ATAATTCAATAA
61549877 ATTAACCTTTAAT-ATAATTCAATAA
1 ATTAACC-TTAATAATAATTCAATAA
61549902 A
1 A
61549903 ATCACTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 11 0.48
26 7 0.30
27 5 0.22
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.38
Consensus pattern (25 bp):
ATTAACCTTAATAATAATTCAATAA
Found at i:61557991 original size:68 final size:68
Alignment explanation
Indices: 61557846--61557997 Score: 172
Period size: 68 Copynumber: 2.3 Consensus size: 68
61557836 CACCTGGAAC
* * * *
61557846 CACACATGCAACCTAGCTACATC-T-A--TCTCGTAGCTCTCTTGTCTACATGGTGTACACATAG
1 CACACATGCGACCTAGCTACCTCATAATGTCTCGTAGCTCTCTTGTCTACATGGTATACACACAG
61557907 TAT
66 TAT
*
61557910 CACCCATGCGACCTAGCTACCTCATAATGTCTCGTAGCTCTCTTGTAC-ACATGGTATACATC-C
1 CACACATGCGACCTAGCTACCTCATAATGTCTCGTAGCTCTCTTGT-CTACATGGTATACA-CAC
*
61557973 CGTAT
64 AGTAT
* *
61557978 TACACATGTGACCTAGCTAC
1 CACACATGCGACCTAGCTAC
61557998 ATACCATCTG
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
64 20 0.27
65 1 0.01
66 1 0.01
68 49 0.67
69 2 0.03
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (68 bp):
CACACATGCGACCTAGCTACCTCATAATGTCTCGTAGCTCTCTTGTCTACATGGTATACACACAG
TAT
Found at i:61559398 original size:31 final size:31
Alignment explanation
Indices: 61559355--61559432 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
61559345 TTAACGATTG
61559355 CTGGGCCGAAGCCTTTTCAGAAATCATATCA
1 CTGGGCCGAAGCCTTTTCAGAAATCATATCA
* * * *
61559386 TTGGGCCAAAGCCTTTTCATAAATCATTTCA
1 CTGGGCCGAAGCCTTTTCAGAAATCATATCA
*
61559417 CTGGGCTGAAGCCTTT
1 CTGGGCCGAAGCCTTT
61559433 ACTGTAAACG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (31 bp):
CTGGGCCGAAGCCTTTTCAGAAATCATATCA
Found at i:61559503 original size:42 final size:42
Alignment explanation
Indices: 61559456--61559547 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
61559446 TGGCCCATAG
* **
61559456 GCCCATTTCAATATCACATGTAATGTCAATCG-ATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAAT-GAATGTATGCAA
61559498 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
61559540 GCCCATTT
1 GCCCATTT
61559548 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 1 0.02
42 45 0.98
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:61559735 original size:26 final size:26
Alignment explanation
Indices: 61559692--61559789 Score: 162
Period size: 26 Copynumber: 3.8 Consensus size: 26
61559682 CCTCTTTAAT
61559692 AACTGGGGCA-AAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGATA
* *
61559717 ACCTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
61559743 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
61559769 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
61559790 GCACTTCCTC
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 9 0.13
26 58 0.87
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGATA
Found at i:61560692 original size:27 final size:27
Alignment explanation
Indices: 61560597--61560675 Score: 133
Period size: 27 Copynumber: 2.9 Consensus size: 27
61560587 TATTCATCAT
*
61560597 TTTACCATACAGGGG-TATTACGGTCAC
1 TTTACCCTACAGGGGCT-TTACGGTCAC
61560624 TTTACCCTACAGGGGCTTTACGGTCAC
1 TTTACCCTACAGGGGCTTTACGGTCAC
61560651 TTTACCCTACAGGGGCTTTACGGTC
1 TTTACCCTACAGGGGCTTTACGGTC
61560676 TTTTTACCTA
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
27 49 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.27, G:0.23, T:0.30
Consensus pattern (27 bp):
TTTACCCTACAGGGGCTTTACGGTCAC
Found at i:61560767 original size:27 final size:27
Alignment explanation
Indices: 61560714--61561006 Score: 234
Period size: 27 Copynumber: 10.8 Consensus size: 27
61560704 TTTCATCCTA
* * * *
61560714 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
**
61560741 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * *
61560768 CAATGGTATTTTTA-TAATTTTTAGAAAGT
1 CAAGGGTA-TTTTAGTAA-TTTTACAAA-C
* ** *
61560797 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTACAAAC
* * *
61560824 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAC
** * *
61560851 TGAGGGTA-TTTCGATAATTTCACAAAC
1 CAAGGGTATTTTAG-TAATTTTACAAAC
* *
61560878 CAAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTACAAAC
** * *
61560905 TGAGGGTA-TTTCGATAATTTCACAAAC
1 CAAGGGTATTTTAG-TAATTTTACAAAC
*
61560932 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
* * *
61560959 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTACAAAC
61560986 CAAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTTAGTAATTTT
61561007 GTAAATCGAG
Statistics
Matches: 213, Mismatches: 43, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
26 9 0.04
27 164 0.77
28 29 0.14
29 11 0.05
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTACAAAC
Found at i:61560885 original size:54 final size:54
Alignment explanation
Indices: 61560827--61561020 Score: 300
Period size: 54 Copynumber: 3.6 Consensus size: 54
61560817 TGTAAATCAG
61560827 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAA
61560881 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAA
* * * *
61560935 GGGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGATAATTTCACAAACCAA
* ** *
61560989 GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGGTAATTTTACAAATTGAGGGTA
61561021 AAACAGTAAT
Statistics
Matches: 129, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
53 1 0.01
54 127 0.98
55 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAA
Found at i:61561018 original size:27 final size:27
Alignment explanation
Indices: 61560714--61561067 Score: 196
Period size: 27 Copynumber: 13.0 Consensus size: 27
61560704 TTTCATCCTA
* * * * * *
61560714 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *
61560741 CAAGGGTATTTTAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *
61560768 CAATGGTATTTTTA-TAATTTTTAGAAAGT
1 CAAGGGTA-TTTTAGTAA-TTTTATAAA-T
* *
61560797 CAAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTATAAAT
* * *
61560824 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
** * * * *
61560851 TGAGGGTA-TTTCGATAATTTCACAAAC
1 CAAGGGTATTTTAG-TAATTTTATAAAT
* *
61560878 CAAGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
** * * * *
61560905 TGAGGGTA-TTTCGATAATTTCACAAAC
1 CAAGGGTATTTTAG-TAATTTTATAAAT
* *
61560932 CAAGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * * *
61560958 CTAGGGGTATTTTGGTAATTTTACAAAC
1 C-AAGGGTATTTTAGTAATTTTATAAAT
*
61560986 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
* **** *
61561013 CGAGGGTAAAACAGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
*** *
61561040 CAAGGGTAAAATAGTAATTCTATAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
61561067 C
1 C
61561068 GATGGTAAAG
Statistics
Matches: 262, Mismatches: 53, Indels: 24
0.77 0.16 0.07
Matches are distributed among these distances:
26 10 0.04
27 211 0.81
28 30 0.11
29 11 0.04
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAT
Found at i:61561020 original size:81 final size:81
Alignment explanation
Indices: 61560715--61561006 Score: 282
Period size: 81 Copynumber: 3.6 Consensus size: 81
61560705 TTCATCCTAC
* * * ** *
61560715 AAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTTAGTAATTTTGTAAACCAATGGTATTTT
1 AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
* * *
61560780 TATAATTTTTAGAAAGT
66 GATAA-TTTTACAAACT
* ** * * * ***
61560797 CAAGGGTATTTCT-GTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATT
1 -AAGGGTATTT-TGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATT
* * *
61560861 TCGATAATTTCACAAACC
64 TTGATAATTTTACAAACT
*** * *
61560879 AAGGGTATTTTGGTAATTTTACAAATTGAGGGTA-TTTCGATAATTTCACAAACCAAGGGTATTT
1 AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG-TAATTTTACAAACCAAGGGTATTT
*
61560943 TGGTAATTTTACAAACT
65 TGATAATTTTACAAACT
*
61560960 AGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTT
1 AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTT
61561007 GTAAATCGAG
Statistics
Matches: 164, Mismatches: 41, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
80 5 0.03
81 95 0.58
82 11 0.07
83 52 0.32
84 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.39
Consensus pattern (81 bp):
AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACCAAGGGTATTTT
GATAATTTTACAAACT
Found at i:61561030 original size:54 final size:54
Alignment explanation
Indices: 61560827--61561139 Score: 196
Period size: 54 Copynumber: 5.8 Consensus size: 54
61560817 TGTAAATCAG
* * * *** * *
61560827 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAA
1 GGGTATTTTAGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTACAAACCAA
* * * *** * *
61560881 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAA
1 GGGTATTTTAGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTACAAACCAA
* * * ****
61560935 GGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACCAA
1 GGGTATTTTAGTAATTTTATAAATCGA-GGGTAAAACGGTAATTTTACAAACCAA
* * ** *
61560989 GGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTAAATCAA
1 GGGTATTTTAGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTACAAACCAA
*** * * * * ** * *
61561043 GGGTAAAATAGTAATTCTATAAATCGATGGTAAAGCGGTAATTATGTAAATCGA
1 GGGTATTTTAGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTACAAACCAA
**** * * *
61561097 GGGTAAAACAGTAATTATGTAAATCGAGGGTAAAACGATAATT
1 GGGTATTTTAGTAATTTTATAAATCGAGGGTAAAACGGTAATT
61561140 ATGTAAATTG
Statistics
Matches: 224, Mismatches: 33, Indels: 4
0.86 0.13 0.02
Matches are distributed among these distances:
53 1 0.00
54 221 0.99
55 2 0.01
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.35
Consensus pattern (54 bp):
GGGTATTTTAGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTACAAACCAA
Found at i:61561047 original size:81 final size:81
Alignment explanation
Indices: 61560972--61561131 Score: 203
Period size: 81 Copynumber: 2.0 Consensus size: 81
61560962 GGGTATTTTG
* **** * *
61560972 GTAATTTTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTTTGTA
1 GTAATTCTACAAACCAAGGGTAAAGCAGTAATTATGTAAATCGAGGGTAAAACAGTAATTATGTA
61561037 AATCAAGGGTAAAATA
66 AATCAAGGGTAAAATA
* * * * *
61561053 GTAATTCTATAAATCGATGGTAAAGCGGTAATTATGTAAATCGAGGGTAAAACAGTAATTATGTA
1 GTAATTCTACAAACCAAGGGTAAAGCAGTAATTATGTAAATCGAGGGTAAAACAGTAATTATGTA
*
61561118 AATCGAGGGTAAAA
66 AATCAAGGGTAAAA
61561132 CGATAATTAT
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (81 bp):
GTAATTCTACAAACCAAGGGTAAAGCAGTAATTATGTAAATCGAGGGTAAAACAGTAATTATGTA
AATCAAGGGTAAAATA
Found at i:61561209 original size:27 final size:27
Alignment explanation
Indices: 61560999--61561201 Score: 253
Period size: 27 Copynumber: 7.5 Consensus size: 27
61560989 GGGTATTTTA
* *
61560999 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTATGTAAATCGAGGGTAAAACG
* * **
61561026 GTAATTTTGTAAATCAAGGGTAAAATA
1 GTAATTATGTAAATCGAGGGTAAAACG
* * * *
61561053 GTAATTCTATAAATCGATGGTAAAGCG
1 GTAATTATGTAAATCGAGGGTAAAACG
*
61561080 GTAATTATGTAAATCGAGGGTAAAACA
1 GTAATTATGTAAATCGAGGGTAAAACG
61561107 GTAATTATGTAAATCGAGGGTAAAACG
1 GTAATTATGTAAATCGAGGGTAAAACG
* * * *
61561134 ATAATTATGTAAATTGGGGGTAAAATG
1 GTAATTATGTAAATCGAGGGTAAAACG
*
61561161 GTAATTATGTAAATCGGGGGTAAAACG
1 GTAATTATGTAAATCGAGGGTAAAACG
*
61561188 GTAATTCTGTAAAT
1 GTAATTATGTAAAT
61561202 TGGGGGTACT
Statistics
Matches: 153, Mismatches: 23, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 153 1.00
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.30
Consensus pattern (27 bp):
GTAATTATGTAAATCGAGGGTAAAACG
Found at i:61561236 original size:27 final size:27
Alignment explanation
Indices: 61561215--61561304 Score: 110
Period size: 27 Copynumber: 3.3 Consensus size: 27
61561205 GGGTACTTTG
*
61561215 GTAATTTTACAAGTCGAAGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
*
61561242 GTAATTTTACAAATCGAGGGTATTTCA
1 GTAATTTTACAAATCGAAGGTATTTCA
* * *
61561269 GTATTTTTACCAA-CTAAGGGTATTTCA
1 GTAATTTTACAAATCGAA-GGTATTTCA
*
61561296 ATAATTTTA
1 GTAATTTTA
61561305 GTAAACTAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
26 2 0.04
27 52 0.96
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (27 bp):
GTAATTTTACAAATCGAAGGTATTTCA
Found at i:61563969 original size:27 final size:28
Alignment explanation
Indices: 61563926--61564000 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 28
61563916 GGTCATTAAG
*
61563926 ACCCTTGT-TTGTAAAATTACT-AAAAT
1 ACCCTTGTAATGTAAAATTACTCAAAAT
*
61563952 ACCCTTGTAATGTAAAATTA-TCGAAAT
1 ACCCTTGTAATGTAAAATTACTCAAAAT
* **
61563979 ACCCCTGTAGGGTAAAATTACT
1 ACCCTTGTAATGTAAAATTACT
61564001 GTTTGCCCTC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 9 0.22
27 31 0.76
28 1 0.02
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.33
Consensus pattern (28 bp):
ACCCTTGTAATGTAAAATTACTCAAAAT
Found at i:61564325 original size:32 final size:32
Alignment explanation
Indices: 61564284--61564347 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
61564274 TCATATGAGT
* * *
61564284 TTGATTCTGATATGGGCTAGGCCCAACTGATA
1 TTGATTCTGAGATAGGCCAGGCCCAACTGATA
*
61564316 TTGATTCTGAGATAGGCCAGGCCCAATTGATA
1 TTGATTCTGAGATAGGCCAGGCCCAACTGATA
61564348 CTGTGATGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (32 bp):
TTGATTCTGAGATAGGCCAGGCCCAACTGATA
Found at i:61566038 original size:46 final size:47
Alignment explanation
Indices: 61565986--61566080 Score: 156
Period size: 47 Copynumber: 2.0 Consensus size: 47
61565976 GTTGAATTTA
* *
61565986 AAGCTTGTTAAA-TTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
*
61566032 AAGCTTGTTAAATTTGCCCTTATTATTTCCAGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
61566079 AA
1 AA
61566081 AGAAAATCTT
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
46 12 0.27
47 33 0.73
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCCCTTAATATTTCCAGATAAGTTACTTAGTT
Done.