Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 296 of 335
Found at i:88451215 original size:3 final size:3
Alignment explanation
Indices: 88451209--88451268 Score: 61
Period size: 3 Copynumber: 20.3 Consensus size: 3
88451199 ATTTTTTTAA
* * *
88451209 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT ATT AAA AAA AATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
*
88451254 ATT AAT AA- AAT AAT A
1 AAT AAT AAT AAT AAT A
88451269 TGTCGCGCCT
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 4 0.08
3 43 0.90
4 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:88451258 original size:13 final size:13
Alignment explanation
Indices: 88451207--88451269 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 13
88451197 GGATTTTTTT
*
88451207 AAAATAATAATAA
1 AAAATATTAATAA
*
88451220 TAATAATAATAATAA
1 -AA-AATATTAATAA
88451235 TAAAATATTAA-AA
1 -AAAATATTAATAA
88451248 AAAATTATTAATAA
1 AAAA-TATTAATAA
88451262 AATAATAT
1 AA-AATAT
88451270 GTCGCGCCTG
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
12 4 0.09
13 8 0.18
14 16 0.36
15 16 0.36
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATATTAATAA
Found at i:88455372 original size:3 final size:3
Alignment explanation
Indices: 88455364--88455394 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
88455354 AGATATTTAC
88455364 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
88455395 AATATTTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:88455561 original size:16 final size:16
Alignment explanation
Indices: 88455537--88455567 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
88455527 TAAGTAAATA
*
88455537 AAATGAAATAAAGAAT
1 AAATAAAATAAAGAAT
88455553 AAATAAAATAAAGAA
1 AAATAAAATAAAGAA
88455568 ACAAAAGAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (16 bp):
AAATAAAATAAAGAAT
Found at i:88455630 original size:19 final size:18
Alignment explanation
Indices: 88455594--88455641 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
88455584 AGAAAGTTAC
*
88455594 AGAGAAAGAAACGTGAAA
1 AGAGAAAGAAACGAGAAA
88455612 GAGAGAAAGAAA-GAAGAAA
1 -AGAGAAAGAAACG-AGAAA
*
88455631 AGAAAAAGAAA
1 AGAGAAAGAAA
88455642 AAAGGGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.69, C:0.02, G:0.27, T:0.02
Consensus pattern (18 bp):
AGAGAAAGAAACGAGAAA
Found at i:88457989 original size:92 final size:93
Alignment explanation
Indices: 88457877--88458047 Score: 290
Period size: 92 Copynumber: 1.8 Consensus size: 93
88457867 CGCCCATAAG
* *
88457877 CGAACTCGGACTCAACTCAACGAGCTCGGGCGCTCGCATCCATAAGTGAACTCGGACTCAACT-A
1 CGAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCA
88457941 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
88457969 CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCA
88458034 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
88458048 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 58 0.79
93 15 0.21
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACACTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:88458044 original size:46 final size:46
Alignment explanation
Indices: 88457870--88458044 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
88457860 TGTAACCCGC
* * **
88457870 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
88457916 CCATAAGTGAACTCGGACTCAACT-AACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
88457965 -C-TCA-CGAACTTGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
88458008 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
88458045 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 12 0.11
46 66 0.62
47 14 0.13
48 2 0.02
49 3 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:88459794 original size:13 final size:13
Alignment explanation
Indices: 88459773--88459803 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
88459763 TTTGGTGTGA
*
88459773 ATTTATATGTATG
1 ATTTGTATGTATG
88459786 ATTTGTATGTATG
1 ATTTGTATGTATG
88459799 ATTTG
1 ATTTG
88459804 CTAATTATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.55
Consensus pattern (13 bp):
ATTTGTATGTATG
Found at i:88460359 original size:20 final size:20
Alignment explanation
Indices: 88460334--88460407 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 20
88460324 CATGGACAGA
*
88460334 CCACACGGGCATGTTCCAGG
1 CCACACGGGCATGTCCCAGG
*
88460354 CCACACGGGCGTGTCCCAGG
1 CCACACGGGCATGTCCCAGG
* *
88460374 CCGCACGGGCATGTCCCAGA
1 CCACACGGGCATGTCCCAGG
*
88460394 CCGCACGGGCATGT
1 CCACACGGGCATGT
88460408 GCCCTTATCT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.18, C:0.38, G:0.32, T:0.12
Consensus pattern (20 bp):
CCACACGGGCATGTCCCAGG
Found at i:88461991 original size:30 final size:30
Alignment explanation
Indices: 88461951--88462023 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 30
88461941 TTGTATATAT
*
88461951 AAACTTTAATTTGGTAT-AATTGTACACGTG
1 AAACTTTAATTTGGT-TCAAATGTACACGTG
* * *
88461981 AAACTCTAATTGTGGTTCAAATGTATACTTG
1 AAACTTTAATT-TGGTTCAAATGTACACGTG
88462012 AAACTTTAATTT
1 AAACTTTAATTT
88462024 TAATTTAATC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 12 0.33
31 24 0.67
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (30 bp):
AAACTTTAATTTGGTTCAAATGTACACGTG
Found at i:88462209 original size:29 final size:30
Alignment explanation
Indices: 88462166--88462224 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
88462156 GAATTGGATC
*
88462166 AAATCTAAATTTCATATATAAAATTACACA
1 AAATCTAAAATTCATATATAAAATTACACA
*
88462196 AAATC-AAAATTCATATATACAATTACACA
1 AAATCTAAAATTCATATATAAAATTACACA
88462225 TTAAATCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (30 bp):
AAATCTAAAATTCATATATAAAATTACACA
Found at i:88462938 original size:26 final size:28
Alignment explanation
Indices: 88462903--88462955 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
88462893 GGTAATTTTC
* *
88462903 TTTCATTTGCTTCCTTCGTGAC-ATGCT
1 TTTCATTTGCTTCATTCATGACTATGCT
88462930 TTTC-TTTGCTTCATTCATGACTATGC
1 TTTCATTTGCTTCATTCATGACTATGC
88462956 AATGATTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 15 0.65
27 8 0.35
ACGTcount: A:0.13, C:0.25, G:0.13, T:0.49
Consensus pattern (28 bp):
TTTCATTTGCTTCATTCATGACTATGCT
Found at i:88468313 original size:26 final size:28
Alignment explanation
Indices: 88468278--88468330 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 28
88468268 GGTAATTTTC
*
88468278 TTTCATTTGCTTCATTCATGAC-ATGCT
1 TTTCATTTGCTTAATTCATGACTATGCT
88468305 TTTC-TTTGCTTAATTCATGACTATGC
1 TTTCATTTGCTTAATTCATGACTATGC
88468331 AATGATTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.19, C:0.21, G:0.11, T:0.49
Consensus pattern (28 bp):
TTTCATTTGCTTAATTCATGACTATGCT
Found at i:88470279 original size:15 final size:14
Alignment explanation
Indices: 88470259--88470288 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
88470249 ATAACCTTCT
88470259 AAATATTTATTATTA
1 AAATATTTA-TATTA
88470274 AAATATTTATATTA
1 AAATATTTATATTA
88470288 A
1 A
88470289 TCAAAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AAATATTTATATTA
Found at i:88471688 original size:13 final size:13
Alignment explanation
Indices: 88471670--88471695 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88471660 GGTTATAATG
88471670 ACCATATTACTCT
1 ACCATATTACTCT
88471683 ACCATATTACTCT
1 ACCATATTACTCT
88471696 TTGTGGCGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.00, T:0.38
Consensus pattern (13 bp):
ACCATATTACTCT
Found at i:88477438 original size:20 final size:20
Alignment explanation
Indices: 88477401--88477438 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
88477391 TCATTGATTA
* *
88477401 AATTTAATTTAATTTTATCT
1 AATTTAATTCAATATTATCT
88477421 AATTTAATTCAATATTAT
1 AATTTAATTCAATATTAT
88477439 AAACATAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
AATTTAATTCAATATTATCT
Found at i:88478720 original size:2 final size:2
Alignment explanation
Indices: 88478713--88478747 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
88478703 GCAATAAAGT
88478713 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
88478748 ATTTTTGTAG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:88478968 original size:24 final size:24
Alignment explanation
Indices: 88478941--88478987 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
88478931 CTAACTGTTT
88478941 TAGTAATGTTGAATTATAATATTC
1 TAGTAATGTTGAATTATAATATTC
88478965 TAGTAATGTTGAATTATAATATT
1 TAGTAATGTTGAATTATAATATT
88478988 TTACGTCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (24 bp):
TAGTAATGTTGAATTATAATATTC
Found at i:88479652 original size:22 final size:21
Alignment explanation
Indices: 88479617--88479658 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
88479607 TCAATAATTT
88479617 TTATTAATATATTAT-TAAAA
1 TTATTAATATATTATATAAAA
88479637 TTATTATATTATATTATATAAA
1 TTATTA-A-TATATTATATAAA
88479659 CATAAATCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 1 0.05
22 8 0.42
23 4 0.21
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
TTATTAATATATTATATAAAA
Found at i:88482754 original size:13 final size:12
Alignment explanation
Indices: 88482729--88482762 Score: 61
Period size: 11 Copynumber: 2.9 Consensus size: 12
88482719 TATTTATAAA
88482729 ATAGAAAAATAT
1 ATAGAAAAATAT
88482741 ATAGAAAAAT-T
1 ATAGAAAAATAT
88482752 ATAGAAAAATA
1 ATAGAAAAATA
88482763 AAATATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.24
Consensus pattern (12 bp):
ATAGAAAAATAT
Found at i:88483779 original size:3 final size:3
Alignment explanation
Indices: 88483771--88483797 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
88483761 ATACTTTCCC
88483771 ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG
88483798 TTACAATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:88483905 original size:40 final size:40
Alignment explanation
Indices: 88483850--88483929 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
88483840 GTCCAGAATG
88483850 AATGGAAAGAACATTTCCATGGATTTTAGACCTCATATCT
1 AATGGAAAGAACATTTCCATGGATTTTAGACCTCATATCT
*
88483890 AATGGAAAGGACATTTCCATGGATTTTAGACCTCATATCT
1 AATGGAAAGAACATTTCCATGGATTTTAGACCTCATATCT
88483930 TCCAAATTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (40 bp):
AATGGAAAGAACATTTCCATGGATTTTAGACCTCATATCT
Found at i:88489002 original size:27 final size:28
Alignment explanation
Indices: 88488965--88489104 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
88488955 AGCATGGCTG
* *
88488965 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
88488991 CCAGATACAGATA-ATTGTGGCAGAGCCA
1 CCAGATACAGATATA-TGTGGCAGAGCCA
88489019 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
88489046 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
88489073 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
88489100 CCAGA
1 CCAGA
88489105 ACGCTTCCTA
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:88489234 original size:26 final size:27
Alignment explanation
Indices: 88489205--88489279 Score: 98
Period size: 26 Copynumber: 2.8 Consensus size: 27
88489195 CAAAATTAAC
*
88489205 CCTAGGGGTATAACGGTAATTTT-ACA
1 CCTAGGGGTATAACAGTAATTTTCACA
*
88489231 CCTAGGGGTATAACAGTAATTTTCATA
1 CCTAGGGGTATAACAGTAATTTTCACA
* * *
88489258 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAACAGTAATTT
88489280 AGCTACTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 22 0.51
27 21 0.49
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (27 bp):
CCTAGGGGTATAACAGTAATTTTCACA
Found at i:88489275 original size:27 final size:26
Alignment explanation
Indices: 88489207--88489279 Score: 92
Period size: 27 Copynumber: 2.8 Consensus size: 26
88489197 AAATTAACCC
* *
88489207 TAGGGGTATAACGGTAATTTTACACC
1 TAGGGGTATAACAGTAATTTTACACA
*
88489233 TAGGGGTATAACAGTAATTTTCATACA
1 TAGGGGTATAACAGTAATTTT-ACACA
* *
88489260 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAACAGTAATTT
88489280 AGCTACTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
26 20 0.49
27 21 0.51
ACGTcount: A:0.33, C:0.10, G:0.22, T:0.36
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTACACA
Found at i:88490775 original size:25 final size:25
Alignment explanation
Indices: 88490718--88490824 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 25
88490708 CATGAAATTC
88490718 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAA-CCA
88490744 TTATCATGAAACATTTACCTAACCA
1 TTATCATGAAACATTTACCTAACCA
88490769 TTATCATG-AACATTTACCTAACCA
1 TTATCATGAAACATTTACCTAACCA
*
88490793 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACC-A
88490819 TTATCA
1 TTATCA
88490825 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
24 24 0.30
25 26 0.33
26 29 0.37
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (25 bp):
TTATCATGAAACATTTACCTAACCA
Found at i:88494782 original size:27 final size:28
Alignment explanation
Indices: 88494745--88494884 Score: 184
Period size: 27 Copynumber: 5.2 Consensus size: 28
88494735 AGCATGGCTG
* *
88494745 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
88494771 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
88494799 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
*
88494826 CCAGAT-CAGATATTTGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
88494853 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
88494880 CCAGA
1 CCAGA
88494885 ACGCTTCCTC
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
26 5 0.05
27 84 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:88496532 original size:26 final size:26
Alignment explanation
Indices: 88496496--88496604 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
88496486 CATGATATTC
88496496 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
88496522 TTATCATGAAACA-TTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
88496547 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
88496573 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
88496599 TTATCA
1 TTATCA
88496605 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
25 24 0.31
26 54 0.69
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:88496572 original size:51 final size:52
Alignment explanation
Indices: 88496496--88496604 Score: 202
Period size: 51 Copynumber: 2.1 Consensus size: 52
88496486 CATGATATTC
88496496 TTATCATGAAACATTTACCTAACCCATTATCATGAAACA-TTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCTA
*
88496547 TTATCATGAAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCTA
88496599 TTATCA
1 TTATCA
88496605 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
51 38 0.68
52 18 0.32
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.33
Consensus pattern (52 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCTA
Found at i:88497472 original size:90 final size:89
Alignment explanation
Indices: 88497309--88497477 Score: 241
Period size: 90 Copynumber: 1.9 Consensus size: 89
88497299 ATCAAAGGGC
* * * *
88497309 CTTTTTGATGTATTTGATAGTTCAAGTATCCAATTGAGTGCAAAAAAAAAATCAGGGGCTTAATT
1 CTTTTCGATGTATTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAACCAGGGGCTTAATT
88497374 ACCTTTTTTAAAAAGTTTGATGGT
66 ACCTTTTTTAAAAAGTTTGATGGT
* *
88497398 CTTTTCGATGTATTTTGAAAGTTCAAGTACCCGATTGAGTGC-AAAAGAAAACCAGGGGCTTAAT
1 CTTTTCGATGTA-TTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAACCAGGGGCTTAAT
* *
88497462 TGCTTCTTTTTAAAAA
65 TACCT-TTTTTAAAAA
88497478 AAATATTTGA
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
89 34 0.49
90 36 0.51
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.36
Consensus pattern (89 bp):
CTTTTCGATGTATTTGAAAGTTCAAGTACCCAATTGAGTGCAAAAAAAAAACCAGGGGCTTAATT
ACCTTTTTTAAAAAGTTTGATGGT
Found at i:88497535 original size:94 final size:91
Alignment explanation
Indices: 88497306--88497560 Score: 266
Period size: 94 Copynumber: 2.8 Consensus size: 91
88497296 ACGATCAAAG
* *
88497306 GGCCTTTTTGATGTA-TTTGATAGTTCAAGTATCCAATTGAGTGCAAAAAAAAAATCAGGGGCTT
1 GGCCTTTTTGATGTATTTTGAAAGTTCAAGTATCCAATTGAGTGC-AAAAAAAAACCAGGGGCTT
* * *
88497370 AATTAC--CTTTTTTAAAAAGTTTGAT
65 AATTGCTTCTTTTTAAAAAAATTTGAT
* * * * *
88497395 GGTCTTTTCGATGTATTTTGAAAGTTCAAGTACCCGATTGAGTGCAAAAGAAAACCAGGGGCTTA
1 GGCCTTTTTGATGTATTTTGAAAGTTCAAGTATCCAATTGAGTGCAAAAAAAAACCAGGGGCTTA
88497460 ATTGCTTCTTTTTAAAAAAAATATTTGA-
66 ATTGCTTCTTTTT--AAAAAA-ATTTGAT
* * * * * * ** *
88497488 GTGCCTTTTTGATGCATTTTAAAAGTTCAAGTATCTAAGTGAATGCAAAATAAAAGTAGGGGTTT
1 G-GCCTTTTTGATGTATTTTGAAAGTTCAAGTATCCAATTGAGTGCAAAAAAAAACCAGGGGCTT
88497553 AATTGCTT
65 AATTGCTT
88497561 TTCTTGAAAA
Statistics
Matches: 136, Mismatches: 23, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
89 35 0.26
90 26 0.19
91 6 0.04
93 6 0.04
94 63 0.46
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.36
Consensus pattern (91 bp):
GGCCTTTTTGATGTATTTTGAAAGTTCAAGTATCCAATTGAGTGCAAAAAAAAACCAGGGGCTTA
ATTGCTTCTTTTTAAAAAAATTTGAT
Found at i:88512223 original size:25 final size:24
Alignment explanation
Indices: 88512195--88512242 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
88512185 AAACGGTTTA
88512195 AAACAGTAAATAAAAGTTCAAAACC
1 AAACAG-AAATAAAAGTTCAAAACC
** *
88512220 AAACAGACCTAAATGTTCAAAAC
1 AAACAGAAATAAAAGTTCAAAAC
88512243 AGTCCAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.56, C:0.19, G:0.08, T:0.17
Consensus pattern (24 bp):
AAACAGAAATAAAAGTTCAAAACC
Found at i:88512889 original size:30 final size:30
Alignment explanation
Indices: 88512855--88512943 Score: 91
Period size: 30 Copynumber: 3.2 Consensus size: 30
88512845 TTTATTACAG
88512855 AACATACTTATCATGTTATTGATCAAACAT
1 AACATACTTATCATGTTATTGATCAAACAT
* * * * *
88512885 AACATGC--AACATATT-TT-AT--TACAG
1 AACATACTTATCATGTTATTGATCAAACAT
88512909 AACATACTTATCATGTTATTGATCAAACAT
1 AACATACTTATCATGTTATTGATCAAACAT
88512939 AACAT
1 AACAT
88512944 GCAACATAAT
Statistics
Matches: 43, Mismatches: 10, Indels: 12
0.66 0.15 0.18
Matches are distributed among these distances:
24 9 0.21
26 8 0.19
27 4 0.09
28 8 0.19
30 14 0.33
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (30 bp):
AACATACTTATCATGTTATTGATCAAACAT
Found at i:88512908 original size:54 final size:54
Alignment explanation
Indices: 88512842--88512951 Score: 220
Period size: 54 Copynumber: 2.0 Consensus size: 54
88512832 ATATTATGCT
88512842 TATTTTATTACAGAACATACTTATCATGTTATTGATCAAACATAACATGCAACA
1 TATTTTATTACAGAACATACTTATCATGTTATTGATCAAACATAACATGCAACA
88512896 TATTTTATTACAGAACATACTTATCATGTTATTGATCAAACATAACATGCAACA
1 TATTTTATTACAGAACATACTTATCATGTTATTGATCAAACATAACATGCAACA
88512950 TA
1 TA
88512952 ATAATCTTAC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.35
Consensus pattern (54 bp):
TATTTTATTACAGAACATACTTATCATGTTATTGATCAAACATAACATGCAACA
Found at i:88512927 original size:24 final size:24
Alignment explanation
Indices: 88512846--88512928 Score: 69
Period size: 24 Copynumber: 3.2 Consensus size: 24
88512836 TATGCTTATT
88512846 TTATTACAGAACATACTTATCATG
1 TTATTACAGAACATACTTATCATG
* * *
88512870 TTATTGATCA-AACATAACATGCAACATATT
1 TTATT-A-CAGAACAT-AC-T-TATC--ATG
88512900 TTATTACAGAACATACTTATCATG
1 TTATTACAGAACATACTTATCATG
88512924 TTATT
1 TTATT
88512929 GATCAAACAT
Statistics
Matches: 45, Mismatches: 6, Indels: 16
0.67 0.09 0.24
Matches are distributed among these distances:
24 12 0.27
25 6 0.13
26 6 0.13
27 2 0.04
28 6 0.13
29 6 0.13
30 7 0.16
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.39
Consensus pattern (24 bp):
TTATTACAGAACATACTTATCATG
Found at i:88519915 original size:44 final size:43
Alignment explanation
Indices: 88519869--88519960 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
88519859 ATTTGTGGCG
*
88519869 TTTATTTAAAAAAATGCCGCTAAAGACCATGACTTTTAGCAGCGT
1 TTTATTTAAAAAAA--CCGCTAAAGACCATGACCTTTAGCAGCGT
* * * *
88519914 TTTTTTTACAAACACCGCTAAAGACCATGACCTTTAGCGGCGCT
1 TTTATTTAAAAAAACCGCTAAAGACCATGACCTTTAGCAGCG-T
88519958 TTT
1 TTT
88519961 TCCGCAAACG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
43 26 0.63
44 4 0.10
45 11 0.27
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (43 bp):
TTTATTTAAAAAAACCGCTAAAGACCATGACCTTTAGCAGCGT
Found at i:88519969 original size:43 final size:43
Alignment explanation
Indices: 88519885--88519977 Score: 116
Period size: 43 Copynumber: 2.2 Consensus size: 43
88519875 TAAAAAAATG
* * **
88519885 CCGCTAAAGACCATGACTTTTAGCAGCGTTTTTTTTACAAACA
1 CCGCTAAAGACCATGACCTTTAGCAGCGCTTTTTCCACAAACA
* * *
88519928 CCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTCCGCAAACG
1 CCGCTAAAGACCATGACCTTTAGCAGCGCTTTTTCCACAAACA
88519971 CC-CTAAA
1 CCGCTAAA
88519978 AATCATGAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 5 0.12
43 38 0.88
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (43 bp):
CCGCTAAAGACCATGACCTTTAGCAGCGCTTTTTCCACAAACA
Found at i:88523278 original size:9 final size:8
Alignment explanation
Indices: 88523255--88523300 Score: 56
Period size: 8 Copynumber: 5.4 Consensus size: 8
88523245 TATTGTTTAA
*
88523255 TTTTAATT
1 TTTTATTT
88523263 TTTTATTT
1 TTTTATTT
88523271 TTTATATTTT
1 TTT-TA-TTT
88523281 TTTCTATTT
1 TTT-TATTT
88523290 TTTTATTT
1 TTTTATTT
88523298 TTT
1 TTT
88523301 CTTTCAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
8 18 0.53
9 8 0.24
10 8 0.24
ACGTcount: A:0.15, C:0.02, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTATTT
Found at i:88523283 original size:10 final size:10
Alignment explanation
Indices: 88523268--88523300 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
88523258 TAATTTTTTA
88523268 TTTTTTATAT
1 TTTTTTATAT
*
88523278 TTTTTTCTAT
1 TTTTTTATAT
88523288 TTTTTTAT-T
1 TTTTTTATAT
88523297 TTTT
1 TTTT
88523301 CTTTCAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 5 0.24
10 16 0.76
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTATAT
Found at i:88523399 original size:7 final size:7
Alignment explanation
Indices: 88523387--88523421 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
88523377 ATATGGACTA
88523387 AAATATT
1 AAATATT
88523394 AAATATT
1 AAATATT
88523401 AAATATT
1 AAATATT
88523408 AAATATT
1 AAATATT
88523415 AAATATT
1 AAATATT
88523422 TAAGTTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAATATT
Found at i:88523457 original size:15 final size:15
Alignment explanation
Indices: 88523420--88523472 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
88523410 ATATTAAATA
*
88523420 TTTAAGTTTTTTATT
1 TTTAAATTTTTTATT
* *
88523435 TTT-TATTTTTCATT
1 TTTAAATTTTTTATT
*
88523449 TTTAAATTTTTTAAT
1 TTTAAATTTTTTATT
88523464 TTTAAATTT
1 TTTAAATTT
88523473 AAATTTTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
14 11 0.35
15 20 0.65
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (15 bp):
TTTAAATTTTTTATT
Found at i:88523478 original size:29 final size:29
Alignment explanation
Indices: 88523406--88523480 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 29
88523396 ATATTAAATA
* * *
88523406 TTAAATATTAAATATTTAAGTTTTTTATTT
1 TTAAAT-TTAAATTTTTAAATTTTTTAATT
* * **
88523436 TTTATTTTTCATTTTTAAATTTTTTAATT
1 TTAAATTTAAATTTTTAAATTTTTTAATT
88523465 TTAAATTTAAATTTTT
1 TTAAATTTAAATTTTT
88523481 TTGAAGATTT
Statistics
Matches: 34, Mismatches: 11, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
29 30 0.88
30 4 0.12
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (29 bp):
TTAAATTTAAATTTTTAAATTTTTTAATT
Found at i:88524626 original size:41 final size:41
Alignment explanation
Indices: 88524581--88524757 Score: 180
Period size: 41 Copynumber: 4.3 Consensus size: 41
88524571 TTATATAACT
* *
88524581 TTTAGTGGAGTTTTACCAAAAGCGCCGCTATTGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGGTC
* *
88524622 TTTAGCGGCGTTTTACCAAAAGCGCCGTTAATGCTCTGGTC
1 TTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGGTC
* * * *
88524663 TTTAGCGGCGTTTTAACAAAAAACGCCGCTATTGCTC-AGTT
1 TTTAGCGGCGTTTT-ACCAAAAGCGCCGCTATTGCTCTGGTC
* *** * *
88524704 TTTAGCAGCGTTTTTGTTAAAA-CGCCGCTATTGCTC-AGTT
1 TTTAGCGGCG-TTTTACCAAAAGCGCCGCTATTGCTCTGGTC
*
88524744 TTTAGCAGCGTTTT
1 TTTAGCGGCGTTTT
88524758 TGTTAAAACG
Statistics
Matches: 120, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 4 0.03
40 28 0.23
41 66 0.55
42 22 0.18
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.36
Consensus pattern (41 bp):
TTTAGCGGCGTTTTACCAAAAGCGCCGCTATTGCTCTGGTC
Found at i:88524734 original size:40 final size:40
Alignment explanation
Indices: 88524682--88524776 Score: 190
Period size: 40 Copynumber: 2.4 Consensus size: 40
88524672 GTTTTAACAA
88524682 AAAACGCCGCTATTGCTCAGTTTTTAGCAGCGTTTTTGTT
1 AAAACGCCGCTATTGCTCAGTTTTTAGCAGCGTTTTTGTT
88524722 AAAACGCCGCTATTGCTCAGTTTTTAGCAGCGTTTTTGTT
1 AAAACGCCGCTATTGCTCAGTTTTTAGCAGCGTTTTTGTT
88524762 AAAACGCCGCTATTG
1 AAAACGCCGCTATTG
88524777 TTCTGTGTTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (40 bp):
AAAACGCCGCTATTGCTCAGTTTTTAGCAGCGTTTTTGTT
Found at i:88531030 original size:46 final size:46
Alignment explanation
Indices: 88530978--88531102 Score: 162
Period size: 46 Copynumber: 2.7 Consensus size: 46
88530968 TAAAATGTGT
* *
88530978 AAGACCATGGTTGAAAGATACCATGGCAACGTGATATG-AAATGAAC
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAAC
**
88531024 AAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAAC
* * * *
88531070 AAGACCATAGTTGAAAGACACTATGGCATCATG
1 AAGACCATGGTTGAAAGATACCATGGCAACATG
88531103 TCAAAGATAA
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
45 1 0.01
46 69 0.99
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (46 bp):
AAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAAC
Found at i:88534177 original size:3 final size:3
Alignment explanation
Indices: 88534169--88534194 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
88534159 AGGGTTCGAG
88534169 CCT CCT CCT CCT CCT CCT CCT CCT CC
1 CCT CCT CCT CCT CCT CCT CCT CCT CC
88534195 CCTTTCATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (3 bp):
CCT
Found at i:88535756 original size:54 final size:54
Alignment explanation
Indices: 88535653--88535757 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 54
88535643 AAAATGTATA
* *
88535653 ATAATATGAATTATATAATATATAATATATAAAAATAATATGTACTAAAAACAT
1 ATAATATAAATTAAATAATATATAATATATAAAAATAATATGTACTAAAAACAT
88535707 ATAATATAAATATAAATAATATATATATATATAATAAAT-ATATG-A-TAAAAA
1 ATAATATAAAT-TAAATAATATATA-ATATATAA-AAATAATATGTACTAAAAA
88535758 TTAAAAATGT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
54 16 0.35
55 13 0.28
56 13 0.28
57 4 0.09
ACGTcount: A:0.60, C:0.02, G:0.03, T:0.35
Consensus pattern (54 bp):
ATAATATAAATTAAATAATATATAATATATAAAAATAATATGTACTAAAAACAT
Found at i:88535790 original size:72 final size:69
Alignment explanation
Indices: 88535640--88535817 Score: 175
Period size: 70 Copynumber: 2.5 Consensus size: 69
88535630 TAAATTTTTA
* * *
88535640 AATAAAATGTATAATAATATGA-AT-TATATAATATATAATATATAAAAATAATATGTACTAAAA
1 AATAAAATATA-AATAATAT-ATATATATATAATAAATAATATATAAAAATAAAATGTACTAAAA
88535703 ACATAT
64 ACATAT
88535709 AATATAAATATAAATAATATATATATATATAATAAAT-ATATGATAAAAATTAAAAATGTA-TAA
1 AATA-AAATATAAATAATATATATATATATAATAAATAATAT-ATAAAAA-T-AAAATGTACTAA
* *
88535772 TAATATAAT
62 AAACAT-AT
88535781 AGATAAAATATAGTAAATATATATATATATATATAAT
1 A-AT-AAA-ATA-TAAATA-ATATATATATATATAAT
88535818 GAAAATACAT
Statistics
Matches: 92, Mismatches: 5, Indels: 17
0.81 0.04 0.15
Matches are distributed among these distances:
68 1 0.01
69 18 0.20
70 24 0.26
71 8 0.09
72 10 0.11
73 4 0.04
74 4 0.04
75 6 0.07
76 17 0.18
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.36
Consensus pattern (69 bp):
AATAAAATATAAATAATATATATATATATAATAAATAATATATAAAAATAAAATGTACTAAAAAC
ATAT
Found at i:88539110 original size:21 final size:23
Alignment explanation
Indices: 88539084--88539141 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 23
88539074 ATCAGTATAT
88539084 GACACATAAAGTGCCT-AAA-AC
1 GACACATAAAGTGCCTGAAATAC
** *
88539105 GACACACGAGGTGCCTGAAATAC
1 GACACATAAAGTGCCTGAAATAC
*
88539128 AACACATAAAGTGC
1 GACACATAAAGTGC
88539142 TTGATCGGTA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
21 13 0.46
22 3 0.11
23 12 0.43
ACGTcount: A:0.43, C:0.24, G:0.19, T:0.14
Consensus pattern (23 bp):
GACACATAAAGTGCCTGAAATAC
Found at i:88540668 original size:2 final size:2
Alignment explanation
Indices: 88540663--88540708 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
88540653 TTTATTATTT
88540663 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
88540704 -A TA TA
1 TA TA TA
88540709 ATAACATTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 40 0.95
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:88540853 original size:16 final size:16
Alignment explanation
Indices: 88540829--88540903 Score: 55
Period size: 16 Copynumber: 4.5 Consensus size: 16
88540819 TTTTATTTAT
*
88540829 TTATCATATAAATATC
1 TTATAATATAAATATC
*
88540845 TTATAATATAATTAT-
1 TTATAATATAAATATC
*
88540860 TTAATTAATA-AATATATT
1 TT-A-TAATATAA-ATATC
88540878 TTATAAATAATAAATATC
1 TTAT-AAT-ATAAATATC
*
88540896 TTTTAATA
1 TTATAATA
88540904 ATTAAATACA
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
15 2 0.04
16 18 0.38
17 15 0.32
18 10 0.21
19 2 0.04
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (16 bp):
TTATAATATAAATATC
Found at i:88541895 original size:43 final size:43
Alignment explanation
Indices: 88541822--88541905 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
88541812 AACGGAGGAA
88541822 GTTTGAGCAATTTATCTACACCATTAAGTGGTTTATCCACATT
1 GTTTGAGCAATTTATCTACACCATTAAGTGGTTTATCCACATT
* * ** *
88541865 GTTTGAGCAGTTTATCTGCACTGTTGAGTGGTTTATCCACA
1 GTTTGAGCAATTTATCTACACCATTAAGTGGTTTATCCACA
88541906 CCGTACTAGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.39
Consensus pattern (43 bp):
GTTTGAGCAATTTATCTACACCATTAAGTGGTTTATCCACATT
Found at i:88543547 original size:15 final size:15
Alignment explanation
Indices: 88543527--88543561 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
88543517 CTAAAAAGAA
88543527 AAATAAAATAAAAAT
1 AAATAAAATAAAAAT
* *
88543542 AAATAAACTAAAATT
1 AAATAAAATAAAAAT
88543557 AAATA
1 AAATA
88543562 TCATATCTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (15 bp):
AAATAAAATAAAAAT
Found at i:88545232 original size:22 final size:21
Alignment explanation
Indices: 88545214--88545252 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
88545204 ATAAAATTAC
88545214 ATATAA-ATCATTCCGAAATA
1 ATATAACATCATTCCGAAATA
*
88545234 GTATAACATCATTCCGAAA
1 ATATAACATCATTCCGAAA
88545253 ATTATGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.46, C:0.18, G:0.08, T:0.28
Consensus pattern (21 bp):
ATATAACATCATTCCGAAATA
Found at i:88556671 original size:6 final size:6
Alignment explanation
Indices: 88556662--88556703 Score: 66
Period size: 6 Copynumber: 6.7 Consensus size: 6
88556652 AAAATATTTT
88556662 TAAATA TAAATA TAAATA TAAATA TAAATA TATTAATA TAAA
1 TAAATA TAAATA TAAATA TAAATA TAAATA TA--AATA TAAA
88556704 ATTATATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 28 0.82
8 6 0.18
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
TAAATA
Found at i:88558666 original size:126 final size:126
Alignment explanation
Indices: 88558489--88558746 Score: 313
Period size: 126 Copynumber: 2.0 Consensus size: 126
88558479 CTAAGACGAT
* * * *
88558489 ACTTTTCTAAGTGTCGGGATAGACTTGTCAATATACGCTTTGACTAACTCTTTGTATAAATGTTG
1 ACTTTTCTAAGTGTCGAGATAGACTTGTCAACATACACTTTGACTAACTCTTTGTATAAAGGTTG
* * * *
88558554 AGATATGTATGCCTAAGATAACTCTTAAATAAGAGTCGGCTTTTTCCAACACTATGCCAAC
66 AGATATGCATACCTAAGATAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCAAC
* * * *
88558615 ACTTTT-TAAAGTGTTGAGATAGACTTGTCGACATACACTTTG-GTCAACTCTTTGTATAAGGGT
1 ACTTTTCT-AAGTGTCGAGATAGACTTGTCAACATACACTTTGACT-AACTCTTTGTATAAAGGT
* * * * * * *
88558678 TGGGATATGCATATCTAAGGTAACACTTAAATAAGAGTCTGCTTTGTCCAATACTATGTCGAC
64 TGAGATATGCATACCTAAGATAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCAAC
88558741 ACTTTT
1 ACTTTT
88558747 GGGCCAACAC
Statistics
Matches: 111, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
125 2 0.02
126 109 0.98
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (126 bp):
ACTTTTCTAAGTGTCGAGATAGACTTGTCAACATACACTTTGACTAACTCTTTGTATAAAGGTTG
AGATATGCATACCTAAGATAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCAAC
Found at i:88560089 original size:16 final size:18
Alignment explanation
Indices: 88560062--88560097 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
88560052 TTAGATTTGG
88560062 ATTGAGAAAATT-ATTTA
1 ATTGAGAAAATTAATTTA
88560079 ATTGA-AAAATTAATTTA
1 ATTGAGAAAATTAATTTA
88560096 AT
1 AT
88560098 AAATGATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (18 bp):
ATTGAGAAAATTAATTTA
Found at i:88562246 original size:21 final size:21
Alignment explanation
Indices: 88562220--88562266 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
88562210 TTTAATTAAT
88562220 ATTATTAATGAAATACATATA
1 ATTATTAATGAAATACATATA
88562241 ATTATTAATGAAATACATATA
1 ATTATTAATGAAATACATATA
88562262 ATTAT
1 ATTAT
88562267 GTTTTTCGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (21 bp):
ATTATTAATGAAATACATATA
Found at i:88562694 original size:29 final size:29
Alignment explanation
Indices: 88562652--88562709 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
88562642 GAAATTTACT
88562652 GAATTTTTATCTTAGCATACCTAACATAA
1 GAATTTTTATCTTAGCATACCTAACATAA
88562681 GAATTTTTATCTTAGCATACCTAACATAA
1 GAATTTTTATCTTAGCATACCTAACATAA
88562710 CTTTTTTTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.38
Consensus pattern (29 bp):
GAATTTTTATCTTAGCATACCTAACATAA
Found at i:88564470 original size:18 final size:18
Alignment explanation
Indices: 88564447--88564484 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
88564437 TAGCCAATTT
88564447 CATTTAC-AAATTAAAACC
1 CATTTACTAAATT-AAACC
*
88564465 CATTTACTAACTTAAACC
1 CATTTACTAAATTAAACC
88564483 CA
1 CA
88564485 CCAGACCCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (18 bp):
CATTTACTAAATTAAACC
Found at i:88565636 original size:3 final size:3
Alignment explanation
Indices: 88565630--88565680 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
88565620 TTTTATATAC
88565630 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
88565678 TAT
1 TAT
88565681 ATGTTAGTGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:88566374 original size:26 final size:26
Alignment explanation
Indices: 88566324--88566396 Score: 69
Period size: 26 Copynumber: 2.8 Consensus size: 26
88566314 AATACTATAT
**
88566324 TATATTTTTACATATTATATCATGTTTA
1 TATATTTTT-CATA-TATATCATGTACA
* *
88566352 TATATTTTTCATATATGTTATGTACA
1 TATATTTTTCATATATATCATGTACA
*
88566378 TACATTTTTCA-ATAT-TCAT
1 TATATTTTTCATATATATCAT
88566397 TTTATACATA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 3 0.08
25 4 0.10
26 19 0.49
27 4 0.10
28 9 0.23
ACGTcount: A:0.32, C:0.10, G:0.04, T:0.55
Consensus pattern (26 bp):
TATATTTTTCATATATATCATGTACA
Found at i:88577732 original size:25 final size:24
Alignment explanation
Indices: 88577702--88577756 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
88577692 GGCATCTTAA
88577702 AAAAAAAGGGATTAAGG-TGAAAACCC
1 AAAAAAA--GATT-AGGATGAAAACCC
88577728 GAAAAAAAGATTAGGATGAAAACCC
1 -AAAAAAAGATTAGGATGAAAACCC
88577753 AAAA
1 AAAA
88577757 GGGCATTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 7 0.26
25 13 0.48
27 7 0.26
ACGTcount: A:0.58, C:0.11, G:0.20, T:0.11
Consensus pattern (24 bp):
AAAAAAAGATTAGGATGAAAACCC
Found at i:88578675 original size:74 final size:72
Alignment explanation
Indices: 88578542--88578693 Score: 209
Period size: 74 Copynumber: 2.1 Consensus size: 72
88578532 GATGTTTTTC
* *
88578542 TGTTTTCAAAATTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACATCGAGGTATTTT
1 TGTTTTCAAAAGTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACATCGAGGTAATTT
88578607 CAATTAT
66 CAATTAT
* * *
88578614 TGTTTGTCAAAAAGTCAACTCATATTGCGAGAGGTGAGTTGAGCTTCGGGGCAC-GCTGAGGTAA
1 TGTTT-TC-AAAAGTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACATC-GAGGTAA
88578678 TTTCAATT-T
63 TTTCAATTAT
88578687 CTGTTTT
1 -TGTTTT
88578694 TCAATTTCTG
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
72 5 0.07
73 5 0.07
74 61 0.86
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.34
Consensus pattern (72 bp):
TGTTTTCAAAAGTCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACATCGAGGTAATTT
CAATTAT
Found at i:88578697 original size:14 final size:14
Alignment explanation
Indices: 88578678--88578711 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
88578668 GCTGAGGTAA
88578678 TTTCAATTTCTGTT
1 TTTCAATTTCTGTT
88578692 TTTCAATTTCTGTT
1 TTTCAATTTCTGTT
88578706 TTTCAA
1 TTTCAA
88578712 AAAAGTCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.18, C:0.15, G:0.06, T:0.62
Consensus pattern (14 bp):
TTTCAATTTCTGTT
Found at i:88578842 original size:54 final size:54
Alignment explanation
Indices: 88578702--88578906 Score: 340
Period size: 54 Copynumber: 3.8 Consensus size: 54
88578692 TTTCAATTTC
* * *
88578702 TGTTTTTCAAAAAAGTCAACTCATAGTGTGAGAGGTGAGTTGAGCCTTTTACTTCA
1 TGTTTTTC-AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTCA
*
88578758 TG-TTTTCAAAAATCAACTAATATTGCGAGAGGTGAGTTGAGCCTTTTAATTCA
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTCA
*
88578811 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTA
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTCA
88578865 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
88578907 TCTCGAGACA
Statistics
Matches: 142, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
53 39 0.27
54 96 0.68
55 5 0.04
56 2 0.01
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.36
Consensus pattern (54 bp):
TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTCA
Found at i:88579621 original size:18 final size:18
Alignment explanation
Indices: 88579598--88579635 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
88579588 TAGCCGATTT
88579598 CATTTAC-AAATTAAAACC
1 CATTTACTAAATT-AAACC
*
88579616 CATTTACTAACTTAAACC
1 CATTTACTAAATTAAACC
88579634 CA
1 CA
88579636 CCAGACCTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.29
Consensus pattern (18 bp):
CATTTACTAAATTAAACC
Found at i:88580804 original size:3 final size:3
Alignment explanation
Indices: 88580798--88580844 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
88580788 TTTATATACA
88580798 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
88580845 ATGTTAGTGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:88582718 original size:24 final size:25
Alignment explanation
Indices: 88582675--88582727 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
88582665 TGGGTTAGTG
* *
88582675 ATTTAATGTATATATATAAT-TATT
1 ATTTAATATATATATATAATATAAT
88582699 ATTTAATATATATA-ATTAATATAAT
1 ATTTAATATATATATA-TAATATAAT
88582724 ATTT
1 ATTT
88582728 TTTATAACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 1 0.04
24 17 0.68
25 7 0.28
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (25 bp):
ATTTAATATATATATATAATATAAT
Found at i:88582723 original size:18 final size:19
Alignment explanation
Indices: 88582684--88582725 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
88582674 GATTTAATGT
*
88582684 ATATATATAATTATTATTTA
1 ATATATATAATTA-TATATA
88582704 ATATATATAATTA-ATATA
1 ATATATATAATTATATATA
88582722 ATAT
1 ATAT
88582726 TTTTTATAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
20 13 0.62
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATATATAATTATATATA
Found at i:88584693 original size:29 final size:29
Alignment explanation
Indices: 88584651--88584708 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
88584641 CCTTTGTGGA
88584651 ACCTGCCATTGACTTCATAATTTCCCTGT
1 ACCTGCCATTGACTTCATAATTTCCCTGT
88584680 ACCTGCCATTGACTTCATAATTTCCCTGT
1 ACCTGCCATTGACTTCATAATTTCCCTGT
88584709 TTTTATCTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.21, C:0.31, G:0.10, T:0.38
Consensus pattern (29 bp):
ACCTGCCATTGACTTCATAATTTCCCTGT
Found at i:88590703 original size:17 final size:17
Alignment explanation
Indices: 88590681--88590714 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
88590671 AAAATCATAA
88590681 ATAGTGATTGGTATTTT
1 ATAGTGATTGGTATTTT
88590698 ATAGTGATTGGTATTTT
1 ATAGTGATTGGTATTTT
88590715 TGTCACCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.53
Consensus pattern (17 bp):
ATAGTGATTGGTATTTT
Found at i:88597873 original size:2 final size:2
Alignment explanation
Indices: 88597866--88597892 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
88597856 CCTAGCTTTC
88597866 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
88597893 TAAATTAGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:88599350 original size:18 final size:18
Alignment explanation
Indices: 88599297--88599354 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
88599287 GTTAGCAAAT
* *
88599297 AATTTAAAAATTATAAAA
1 AATTTAAAAAATATATAA
88599315 ATATTTAAAAAA-AT-TAA
1 A-ATTTAAAAAATATATAA
*
88599332 AATTCAAAAAATATATAA
1 AATTTAAAAAATATATAA
88599350 AATTT
1 AATTT
88599355 TCATAAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 9 0.27
17 5 0.15
18 10 0.30
19 9 0.27
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (18 bp):
AATTTAAAAAATATATAA
Found at i:88605426 original size:14 final size:14
Alignment explanation
Indices: 88605407--88605436 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
88605397 AAAGCAATAA
88605407 AAATTCAAGGAAAG
1 AAATTCAAGGAAAG
88605421 AAATTCAAGGAAAG
1 AAATTCAAGGAAAG
88605435 AA
1 AA
88605437 CCTCAAGCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.60, C:0.07, G:0.20, T:0.13
Consensus pattern (14 bp):
AAATTCAAGGAAAG
Found at i:88607102 original size:105 final size:106
Alignment explanation
Indices: 88606992--88607478 Score: 373
Period size: 105 Copynumber: 4.4 Consensus size: 106
88606982 AGTATTTAAA
88606992 AAAAAAATTGGTGTTGGCCTGCCAATGGCCGGCACCAGTATTTAAAAAAAAATTCAATTTTTTTT
1 AAAAAAATTGGTGTTGGCCTGCCAATGGCCGGCACCAGTATTT-AAAAAAAATTCAATTTTTTTT
* * *
88607057 GGTGCTGGCCTGTCAATGGCTTGCACTAGAATACGAGTTTTA
65 GGTGCTGGCCTGTCAATGGCTGGCACCAGAATACGAGTTTTT
* * * * *
88607099 AAAAAATATTTGGTGCTGGCCAGTCAATGGACGGCACCAGTA-TT-AAAAAAA-TCAAATTTTTT
1 AAAAAA-A-TTGGTGTTGGCCTGCCAATGGCCGGCACCAGTATTTAAAAAAAATTCAATTTTTTT
* *
88607161 TGGTGCTAGCCTGTCAATGGCTGGCACCACAATACGAGTTTTT
64 TGGTGCTGGCCTGTCAATGGCTGGCACCAGAATACGAGTTTTT
* * * *
88607204 AAAAAAAAATTGTTGCTAGG-CT-CTCAATGGCTGGCACCAAAATACGAGTTTTTAAAAAAAATT
1 --AAAAAAATTGGTG-TTGGCCTGC-CAATGGCCGGCA-C------C-AGTATTTAAAAAAAATT
*
88607267 CAATTTTTTTT--TGCTGGCCTGTCAATGGCCGGCACCAGAATACGAGTTTTT
54 CAATTTTTTTTGGTGCTGGCCTGTCAATGGCTGGCACCAGAATACGAGTTTTT
** * * *
88607318 AAAAAAAATCAATTTCTTTTTGTGCTGACTTGTCAATGGCCGGCACTAGTA-TT-AAAAAAATTC
1 ---AAAAA--AA-TTGGTGTTG-GC---C-TGCCAATGGCCGGCACCAGTATTTAAAAAAAATTC
** * *
88607381 AAAATTTTTTGTTGCTAGCCTGT-ATATGGCTGGCACCAGAATACGAGTTTTTT
55 AATTTTTTTTGGTGCTGGCCTGTCA-ATGGCTGGCACCAGAATACGAG-TTTTT
* * ** *
88607434 AAAAAAAAATTAGTGCTGGCCTATCAATGCCCGGCACCAGTATTT
1 --AAAAAAATTGGTGTTGGCCTGCCAATGGCCGGCACCAGTATTT
88607479 TAGTTTTTTT
Statistics
Matches: 307, Mismatches: 40, Indels: 65
0.75 0.10 0.16
Matches are distributed among these distances:
105 64 0.21
106 11 0.04
107 30 0.10
108 6 0.02
109 29 0.09
111 2 0.01
112 6 0.02
113 23 0.07
114 42 0.14
115 55 0.18
116 16 0.05
117 4 0.01
118 5 0.02
122 2 0.01
123 12 0.04
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (106 bp):
AAAAAAATTGGTGTTGGCCTGCCAATGGCCGGCACCAGTATTTAAAAAAAATTCAATTTTTTTTG
GTGCTGGCCTGTCAATGGCTGGCACCAGAATACGAGTTTTT
Found at i:88607232 original size:53 final size:53
Alignment explanation
Indices: 88607164--88607325 Score: 180
Period size: 61 Copynumber: 2.9 Consensus size: 53
88607154 ATTTTTTTGG
* *
88607164 TGCTAGCCTGTCAATGGCTGGCACCACAATACGAGTTTTTAAAAAAAAATTGT
1 TGCTAGCCTCTCAATGGCTGGCACCAAAATACGAGTTTTTAAAAAAAAATTGT
* *
88607217 TGCTAGGCTCTCAATGGCTGGCACCAAAATACGAGTTTTTAAAAAAAATTCAATTTTTTTT
1 TGCTAGCCTCTCAATGGCTGGCACCAAAATACGAGTTTTT-AAAAAAA---AA----TTGT
* * * *
88607278 TGCTGGCCTGTCAATGGCCGGCACCAGAATACGAGTTTTTAAAAAAAA
1 TGCTAGCCTCTCAATGGCTGGCACCAAAATACGAGTTTTTAAAAAAAA
88607326 TCAATTTCTT
Statistics
Matches: 92, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
53 37 0.40
54 7 0.08
57 3 0.03
60 7 0.08
61 38 0.41
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (53 bp):
TGCTAGCCTCTCAATGGCTGGCACCAAAATACGAGTTTTTAAAAAAAAATTGT
Found at i:88607311 original size:61 final size:61
Alignment explanation
Indices: 88607227--88607441 Score: 220
Period size: 61 Copynumber: 3.6 Consensus size: 61
88607217 TGCTAGGCTC
* *
88607227 TCAATGGCTGGCACCAAAATACGAGTTTTTAAAAAAAATTCAATTTTTTTTTGCTGGCCTG
1 TCAATGGCCGGCACCAGAATACGAGTTTTTAAAAAAAATTCAATTTTTTTTTGCTGGCCTG
* *
88607288 TCAATGGCCGGCACCAGAATACGAGTTTTTAAAAAAAA-TCAATTTCTTTTTGTGCTGACTTG
1 TCAATGGCCGGCACCAGAATACGAGTTTTTAAAAAAAATTCAATTT-TTTTT-TGCTGGCCTG
* * *
88607350 TCAATGGCCGGCA-C----T---AG-TATT-AAAAAAATTCAAAATTTTTTGTTGCTAGCCTG
1 TCAATGGCCGGCACCAGAATACGAGTTTTTAAAAAAAATTC--AATTTTTTTTTGCTGGCCTG
*
88607403 T-ATATGGCTGGCACCAGAATACGAGTTTTTTAAAAAAAA
1 TCA-ATGGCCGGCACCAGAATACGAG-TTTTTAAAAAAAA
88607442 ATTAGTGCTG
Statistics
Matches: 126, Mismatches: 11, Indels: 31
0.75 0.07 0.18
Matches are distributed among these distances:
52 8 0.06
53 22 0.17
54 7 0.06
55 5 0.04
57 1 0.01
58 1 0.01
60 7 0.06
61 44 0.35
62 21 0.17
63 3 0.02
64 7 0.06
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (61 bp):
TCAATGGCCGGCACCAGAATACGAGTTTTTAAAAAAAATTCAATTTTTTTTTGCTGGCCTG
Found at i:88610318 original size:33 final size:33
Alignment explanation
Indices: 88610281--88610346 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
88610271 TCCGGACACA
88610281 ATCGATCAACATGCCCACATCGTGTCTATGTTT
1 ATCGATCAACATGCCCACATCGTGTCTATGTTT
88610314 ATCGATCAACATGCCCACATCGTGTCTATGTTT
1 ATCGATCAACATGCCCACATCGTGTCTATGTTT
88610347 CCAGTCAATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.27, G:0.15, T:0.33
Consensus pattern (33 bp):
ATCGATCAACATGCCCACATCGTGTCTATGTTT
Found at i:88610501 original size:21 final size:21
Alignment explanation
Indices: 88610459--88610519 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 21
88610449 TTCTATGAGA
* * *
88610459 AAAAATTGA-AAATTACACGG
1 AAAAATTGATAATTTAAATGG
*
88610479 AAAAATTGATCATTTAAATGG
1 AAAAATTGATAATTTAAATGG
* *
88610500 AAAGATTGGTAATTTAAATG
1 AAAAATTGATAATTTAAATG
88610520 AAATGAGAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
20 9 0.27
21 24 0.73
ACGTcount: A:0.49, C:0.05, G:0.16, T:0.30
Consensus pattern (21 bp):
AAAAATTGATAATTTAAATGG
Found at i:88610584 original size:27 final size:26
Alignment explanation
Indices: 88610554--88610698 Score: 113
Period size: 27 Copynumber: 5.6 Consensus size: 26
88610544 AAAAATTGGT
88610554 AATTTAAATGAAATGGCAAAAAAAATA
1 AATTTAAATGAAATGG-AAAAAAAATA
** * *
88610581 AATTGGAATGAAATGG----TACA-A
1 AATTTAAATGAAATGGAAAAAAAATA
*
88610602 AATTTAAATGAAAATTGAAAAAAAGATA
1 AATTTAAATG-AAATGGAAAAAAA-ATA
* * *
88610630 AATTTAAATGAAATGAGGAAAAAATTT
1 AATTTAAATGAAATG-GAAAAAAAATA
*
88610657 AATTAAAATGAAATGAGAAAAAAAATTA
1 AATTTAAATGAAATG-GAAAAAAAA-TA
88610685 AA-TTAAATGAAATG
1 AATTTAAATGAAATG
88610699 AGAGAAACTT
Statistics
Matches: 91, Mismatches: 18, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
21 9 0.10
22 7 0.08
26 1 0.01
27 53 0.58
28 21 0.23
ACGTcount: A:0.60, C:0.01, G:0.14, T:0.25
Consensus pattern (26 bp):
AATTTAAATGAAATGGAAAAAAAATA
Found at i:88610598 original size:44 final size:43
Alignment explanation
Indices: 88610506--88610644 Score: 127
Period size: 44 Copynumber: 3.0 Consensus size: 43
88610496 ATGGAAAGAT
* * **
88610506 TGGTAATTTAAATGAAATGAGAAAAAAATTACA-TGAAAAAAAA
1 TGGTAATTTAAATGAAATG-GAAAAAAAATAAATTGAAATGAAA
*
88610549 TTGGTAATTTAAATGAAATGGCAAAAAAAATAAATTGGAATGAAA
1 -TGGTAATTTAAATGAAATGG-AAAAAAAATAAATTGAAATGAAA
* *
88610594 TGGTACAAAATTTAAATGAAAATTGAAAAAAAGATAAATTTAAATGAAA
1 TGGT----AATTTAAATG-AAATGGAAAAAAA-ATAAATTGAAATGAAA
88610643 TG
1 TG
88610645 AGGAAAAAAT
Statistics
Matches: 79, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
43 1 0.01
44 33 0.42
45 7 0.09
48 17 0.22
49 21 0.27
ACGTcount: A:0.57, C:0.02, G:0.15, T:0.26
Consensus pattern (43 bp):
TGGTAATTTAAATGAAATGGAAAAAAAATAAATTGAAATGAAA
Found at i:88610631 original size:49 final size:49
Alignment explanation
Indices: 88610554--88610705 Score: 141
Period size: 55 Copynumber: 3.0 Consensus size: 49
88610544 AAAAATTGGT
* * *
88610554 AATTTAAATGAAATGGCAAAAAAAATAAATTGGAATGAAATG-GTACAA
1 AATTTAAATGAAATGGCAAAAAAAATAAATTGAAATGAAATGAGGAAAA
* *
88610602 AATTTAAATGAAAATTG-AAAAAAAGATAAATTTAAATGAAATGAGGAAAA
1 AATTTAAATG-AAATGGCAAAAAAA-ATAAATTGAAATGAAATGAGGAAAA
88610652 AATTTAATTAAAATGAAATGAG-AAAAAAAATTAAATT-AAATGAAATGAGAGAAA
1 AA--T--TT-AAATGAAATG-GCAAAAAAAA-TAAATTGAAATGAAATGAG-GAAA
88610706 CTTTTAATTT
Statistics
Matches: 87, Mismatches: 6, Indels: 15
0.81 0.06 0.14
Matches are distributed among these distances:
48 17 0.20
49 21 0.24
50 6 0.07
52 1 0.01
54 19 0.22
55 23 0.26
ACGTcount: A:0.61, C:0.01, G:0.14, T:0.24
Consensus pattern (49 bp):
AATTTAAATGAAATGGCAAAAAAAATAAATTGAAATGAAATGAGGAAAA
Found at i:88610712 original size:27 final size:27
Alignment explanation
Indices: 88610628--88610719 Score: 98
Period size: 27 Copynumber: 3.4 Consensus size: 27
88610618 GAAAAAAAGA
88610628 TAAATTTAAATGAAATGAG-GAAAAAATT
1 TAAA-TTAAATGAAATGAGAG-AAAAATT
* *
88610656 T-AATTAAAATGAAATGAGAAAAAAAAT
1 TAAATT-AAATGAAATGAGAGAAAAATT
**
88610683 TAAATTAAATGAAATGAGAGAAACTTT
1 TAAATTAAATGAAATGAGAGAAAAATT
*
88610710 TAATTTAAAT
1 TAAATTAAAT
88610720 AGTATGAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
26 2 0.04
27 47 0.87
28 5 0.09
ACGTcount: A:0.58, C:0.01, G:0.12, T:0.29
Consensus pattern (27 bp):
TAAATTAAATGAAATGAGAGAAAAATT
Found at i:88610733 original size:54 final size:54
Alignment explanation
Indices: 88610543--88610705 Score: 142
Period size: 49 Copynumber: 3.1 Consensus size: 54
88610533 ATTACATGAA
* ** ** *
88610543 AAAAAATTGGTAATTTAAATGAAATGGCAAAAAAAATAAATTGGAATGAAATG-GT
1 AAAAAATT--TAATTAAAATGAAATGAAAAAAAAAATAAATTTAAATGAAATGAGG
* * *
88610598 ACAAAATTTAAATGAAAAT----TG-AAAAAAAGATAAATTTAAATGAAATGAGG
1 AAAAAATTT-AATTAAAATGAAATGAAAAAAAAAATAAATTTAAATGAAATGAGG
*
88610648 AAAAAATTTAATTAAAATGAAATGAGAAAAAAAATTAAA-TTAAATGAAATGAGAG
1 AAAAAATTTAATTAAAATGAAATGA-AAAAAAAAATAAATTTAAATGAAATGAG-G
88610703 AAA
1 AAA
88610706 CTTTTAATTT
Statistics
Matches: 87, Mismatches: 12, Indels: 18
0.74 0.10 0.15
Matches are distributed among these distances:
49 30 0.34
50 11 0.13
53 3 0.03
54 21 0.24
55 22 0.25
ACGTcount: A:0.60, C:0.01, G:0.15, T:0.24
Consensus pattern (54 bp):
AAAAAATTTAATTAAAATGAAATGAAAAAAAAAATAAATTTAAATGAAATGAGG
Found at i:88610891 original size:5 final size:5
Alignment explanation
Indices: 88610883--88610957 Score: 51
Period size: 5 Copynumber: 13.8 Consensus size: 5
88610873 AATATAATTT
* * * *
88610883 AAATG AAATAG AAATGG GAATGG AAATG AAATT AGAATA AAATG AAGTTG
1 AAATG AAAT-G AAAT-G AAAT-G AAATG AAATG A-AATG AAATG AA-ATG
*
88610933 AAATG AAATA AAATG AAAATG AAAT
1 AAATG AAATG AAATG -AAATG AAAT
88610958 AAACAAAAAA
Statistics
Matches: 56, Mismatches: 10, Indels: 8
0.76 0.14 0.11
Matches are distributed among these distances:
5 29 0.52
6 27 0.48
ACGTcount: A:0.59, C:0.00, G:0.20, T:0.21
Consensus pattern (5 bp):
AAATG
Found at i:88610944 original size:21 final size:22
Alignment explanation
Indices: 88610909--88610949 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
88610899 GGAATGGAAA
*
88610909 TGAAATTAGAATAAAATGAAGT
1 TGAAATGAGAATAAAATGAAGT
88610931 TGAAATGA-AATAAAATGAA
1 TGAAATGAGAATAAAATGAA
88610950 AATGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.59, C:0.00, G:0.17, T:0.24
Consensus pattern (22 bp):
TGAAATGAGAATAAAATGAAGT
Found at i:88611212 original size:21 final size:21
Alignment explanation
Indices: 88611188--88611230 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
88611178 TTTTAAATTT
*
88611188 AAATTGACAAAAAAAATTTAA
1 AAATAGACAAAAAAAATTTAA
**
88611209 AAATAGATGAAAAAAATTTAA
1 AAATAGACAAAAAAAATTTAA
88611230 A
1 A
88611231 TGACCTTGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.23
Consensus pattern (21 bp):
AAATAGACAAAAAAAATTTAA
Found at i:88611231 original size:19 final size:19
Alignment explanation
Indices: 88611182--88611231 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 19
88611172 AACGAATTTT
*
88611182 AAATTTAAATTGACAAAAA
1 AAATTTAAATAGACAAAAA
**
88611201 AAATTTAAAAATAGATGAAAA
1 AAATTT--AAATAGACAAAAA
88611222 AAATTTAAAT
1 AAATTTAAAT
88611232 GACCTTGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.38
21 16 0.62
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (19 bp):
AAATTTAAATAGACAAAAA
Found at i:88611301 original size:14 final size:14
Alignment explanation
Indices: 88611275--88611312 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
88611265 GATAAAATAT
88611275 AAAATGAAT-TGAAA
1 AAAAT-AATATGAAA
88611289 AAAATAATATGAAA
1 AAAATAATATGAAA
88611303 AAAATAATAT
1 AAAATAATAT
88611313 TAAATTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 3 0.13
14 20 0.87
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (14 bp):
AAAATAATATGAAA
Found at i:88611323 original size:38 final size:38
Alignment explanation
Indices: 88611270--88611357 Score: 108
Period size: 38 Copynumber: 2.3 Consensus size: 38
88611260 AATTTGATAA
* *
88611270 AATATAAAATGAATTGAAAAAAATAATATGAAA-AAAAT
1 AATATAAAATTAATTGAAAAAAACAAT-TGAAATAAAAT
* *
88611308 AATATTAAATTAATTGAAAAAAACAATTGAAATGAAAT
1 AATATAAAATTAATTGAAAAAAACAATTGAAATAAAAT
*
88611346 AAT-TGAAATTAA
1 AATATAAAATTAA
88611358 ATTAAATTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
37 13 0.30
38 31 0.70
ACGTcount: A:0.64, C:0.01, G:0.08, T:0.27
Consensus pattern (38 bp):
AATATAAAATTAATTGAAAAAAACAATTGAAATAAAAT
Found at i:88611351 original size:14 final size:14
Alignment explanation
Indices: 88611318--88611374 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
88611308 AATATTAAAT
*
88611318 TAATTGAAA-AAAA
1 TAATTGAAATGAAA
*
88611331 CAATTGAAATGAAA
1 TAATTGAAATGAAA
*
88611345 TAATTGAAATTAAA
1 TAATTGAAATGAAA
*
88611359 TTAAATTAAAATGAAA
1 -T-AATTGAAATGAAA
88611375 AAAAAAAGTT
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
13 8 0.23
14 15 0.43
15 1 0.03
16 11 0.31
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.28
Consensus pattern (14 bp):
TAATTGAAATGAAA
Found at i:88612309 original size:38 final size:40
Alignment explanation
Indices: 88612242--88612319 Score: 124
Period size: 38 Copynumber: 2.0 Consensus size: 40
88612232 TAACCAATTA
*
88612242 ATTTTTTCATATTATTTTTTTTTTCAATTCATTTAATATT
1 ATTTTTTCATATTATGTTTTTTTTCAATTCATTTAATATT
*
88612282 ATTTTTTCATA-T-TGTTTTTTTTCAATTCATTTTATATT
1 ATTTTTTCATATTATGTTTTTTTTCAATTCATTTAATATT
88612320 TTGTCAAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
38 24 0.67
39 1 0.03
40 11 0.31
ACGTcount: A:0.23, C:0.08, G:0.01, T:0.68
Consensus pattern (40 bp):
ATTTTTTCATATTATGTTTTTTTTCAATTCATTTAATATT
Found at i:88612321 original size:20 final size:20
Alignment explanation
Indices: 88612260--88612326 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 20
88612250 ATATTATTTT
*
88612260 TTTTTTCAATTCATTTAATA
1 TTTTTTCAATTCATTTTATA
* * *
88612280 TTATTTT---TTCATATTGTT
1 TT-TTTTCAATTCATTTTATA
88612298 TTTTTTCAATTCATTTTATA
1 TTTTTTCAATTCATTTTATA
*
88612318 TTTTGTCAA
1 TTTTTTCAA
88612327 ATTAATTAGA
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
17 4 0.11
18 9 0.26
20 18 0.51
21 4 0.11
ACGTcount: A:0.24, C:0.09, G:0.03, T:0.64
Consensus pattern (20 bp):
TTTTTTCAATTCATTTTATA
Found at i:88612656 original size:11 final size:11
Alignment explanation
Indices: 88612637--88612693 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
88612627 AACTTTTTTT
*
88612637 TTTTCATTTCA
1 TTTTAATTTCA
*
88612648 TTTTAATTTTA
1 TTTTAATTTCA
88612659 TTTT-ATTTCA
1 TTTTAATTTCA
** *
88612669 ACTTCATTTCA
1 TTTTAATTTCA
*
88612680 TTCTAATTTCA
1 TTTTAATTTCA
88612691 TTT
1 TTT
88612694 ACATTCCCAT
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
10 7 0.20
11 28 0.80
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (11 bp):
TTTTAATTTCA
Found at i:88612711 original size:6 final size:5
Alignment explanation
Indices: 88612638--88612716 Score: 50
Period size: 5 Copynumber: 14.6 Consensus size: 5
88612628 ACTTTTTTTT
* * * * *
88612638 TTTCA TTTCA TTTTAA TTTTA TTTTA TTTCAA CTTCA TTTCA TTCTAA
1 TTTCA TTTCA -TTTCA TTTCA TTTCA TTTC-A TTTCA TTTCA TT-TCA
*
88612686 TTTCA TTTACA TTCCCA TTTCCA TTTCA TTT
1 TTTCA TTT-CA TT-TCA TTT-CA TTTCA TTT
88612717 AAATTATATT
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
5 34 0.58
6 25 0.42
ACGTcount: A:0.23, C:0.19, G:0.00, T:0.58
Consensus pattern (5 bp):
TTTCA
Found at i:88612734 original size:22 final size:22
Alignment explanation
Indices: 88612709--88612761 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
88612699 CCCATTTCCA
*
88612709 TTTC-ATTTAAATTATATTTTTT
1 TTTCAATTCAAATT-TATTTTTT
*
88612731 TTTCAATTCCAATTTA-TTTTT
1 TTTCAATTCAAATTTATTTTTT
88612752 TTTCAATTCA
1 TTTCAATTCA
88612762 TTTATATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.52
22 6 0.22
23 7 0.26
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTCAATTCAAATTTATTTTTT
Found at i:88612769 original size:21 final size:22
Alignment explanation
Indices: 88612718--88612779 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
88612708 ATTTCATTTA
88612718 AATTATATTTTTTTTTCAATTCC
1 AATTATA-TTTTTTTTCAATTCC
88612741 AATT-TATTTTTTTTCAATT-C
1 AATTATATTTTTTTTCAATTCC
* *
88612761 ATTTATATTATTTTT-AATT
1 AATTATATTTTTTTTCAATT
88612780 TTAATTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
20 8 0.22
21 22 0.61
22 2 0.06
23 4 0.11
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (22 bp):
AATTATATTTTTTTTCAATTCC
Found at i:88612931 original size:27 final size:28
Alignment explanation
Indices: 88612896--88612985 Score: 105
Period size: 27 Copynumber: 3.3 Consensus size: 28
88612886 TTCTCATACT
*
88612896 ATTTAAATTAAAAGTTTTCTCTCATTTC
1 ATTTAAATTAAAATTTTTCTCTCATTTC
* *
88612924 ATTT-AATT-TAATTTTTTTCTCATTTC
1 ATTTAAATTAAAATTTTTCTCTCATTTC
* **
88612950 ATTTCAATTAATTTTTTTC-CTCATTTC
1 ATTTAAATTAAAATTTTTCTCTCATTTC
88612977 ATTTAAATT
1 ATTTAAATT
88612986 TATCTTTCTT
Statistics
Matches: 52, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
26 19 0.37
27 24 0.46
28 9 0.17
ACGTcount: A:0.28, C:0.13, G:0.01, T:0.58
Consensus pattern (28 bp):
ATTTAAATTAAAATTTTTCTCTCATTTC
Found at i:88612939 original size:26 final size:27
Alignment explanation
Indices: 88612874--88613014 Score: 119
Period size: 26 Copynumber: 5.1 Consensus size: 27
88612864 CTATCTTTCT
* *
88612874 ATTTAATTTTTTTTCTCA-TACTATTTAA
1 ATTTAA-TTTTTCTCTCATTTC-ATTTAA
* *
88612902 ATTAAAAGTTTTCTCTCATTTCATTT-A
1 ATT-TAATTTTTCTCTCATTTCATTTAA
* *
88612929 ATTTAATTTTTTTCTCATTTCATTTCA
1 ATTTAATTTTTCTCTCATTTCATTTAA
*
88612956 A-TTAATTTTTTTCCTCATTTCATTTAA
1 ATTTAATTTTTCT-CTCATTTCATTTAA
* *
88612983 ATTT-ATCTTTCTTTCAATTTTCATTTAA
1 ATTTAATTTTTCTCTC-A-TTTCATTTAA
88613011 ATTT
1 ATTT
88613015 TGTACCATTT
Statistics
Matches: 95, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
26 32 0.34
27 27 0.28
28 32 0.34
29 4 0.04
ACGTcount: A:0.26, C:0.13, G:0.01, T:0.60
Consensus pattern (27 bp):
ATTTAATTTTTCTCTCATTTCATTTAA
Found at i:88612959 original size:54 final size:55
Alignment explanation
Indices: 88612874--88612987 Score: 144
Period size: 54 Copynumber: 2.1 Consensus size: 55
88612864 CTATCTTTCT
88612874 ATTTAATTTTTTTTCTCATACTATTTAAATTAAAAGTTTTCTCTCATTTCATTT-A
1 ATTTAATTTTTTTTCTCATACTATTTAAATTAAAAGTTTTC-CTCATTTCATTTAA
* * ***
88612929 ATTTAA-TTTTTTTCTCAT-TTCATTTCAATTAATTTTTTTCCTCATTTCATTTAA
1 ATTTAATTTTTTTTCTCATACT-ATTTAAATTAAAAGTTTTCCTCATTTCATTTAA
88612983 ATTTA
1 ATTTA
88612988 TCTTTCTTTC
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
53 13 0.25
54 33 0.63
55 6 0.12
ACGTcount: A:0.27, C:0.13, G:0.01, T:0.59
Consensus pattern (55 bp):
ATTTAATTTTTTTTCTCATACTATTTAAATTAAAAGTTTTCCTCATTTCATTTAA
Found at i:88613061 original size:27 final size:25
Alignment explanation
Indices: 88612918--88613058 Score: 105
Period size: 26 Copynumber: 5.5 Consensus size: 25
88612908 AGTTTTCTCT
88612918 CATTTCATTTAATTTAATTTTTTTC
1 CATTTCATTTAATTTAATTTTTTTC
88612943 TCATTTCATTTCAA-TTAATTTTTTTCC
1 -CATTTCATTT-AATTTAATTTTTTT-C
88612970 TCATTTCATTTAAATTT-ATCTTTCTTTC
1 -CATTTCATTT-AATTTAAT-TTT-TTTC
* * *
88612998 AATTTTCATTT-A---AATTTTGTAC
1 CA-TTTCATTTAATTTAATTTTTTTC
* *
88613020 CATTTCATTCCAATTTATTTTTTTTGC
1 CATTTCATT-TAATTTAATTTTTTT-C
88613047 CATTTCATTTAA
1 CATTTCATTTAA
88613059 ATTACCAATC
Statistics
Matches: 92, Mismatches: 10, Indels: 26
0.72 0.08 0.20
Matches are distributed among these distances:
21 7 0.08
22 3 0.03
23 4 0.04
24 2 0.02
26 30 0.33
27 29 0.32
28 14 0.15
29 3 0.03
ACGTcount: A:0.24, C:0.16, G:0.01, T:0.59
Consensus pattern (25 bp):
CATTTCATTTAATTTAATTTTTTTC
Found at i:88616574 original size:108 final size:109
Alignment explanation
Indices: 88616105--88616574 Score: 563
Period size: 109 Copynumber: 4.3 Consensus size: 109
88616095 AAAAAATTAA
* * * ** *
88616105 AATATTGGTGCC-GCGCATTGACAGGCCAACA-CTAATTTTTTTAAAAAAAACTCGTATTCTAGT
1 AATACTGGTGCCGGC-CATTGACAGGCCAGCACCAAATTTTTTTTTAAAAAACTCGTATTCTGGT
* ** *
88616168 GTCGGTTATTGACAGGCCAGCAACAAAAAAATTTGAATTTTTTTTT
65 GCCGGCCATTGACAGGCCAGCACCAAAAAAATTTGAA-TTTTTTTT
* * * *
88616214 AATACTGGTGCTGGCCATTGACAAGCCAGCACCGAA-TTTTTTTTAAAAAACTCGTATTTTGGTG
1 AATACTGGTGCCGGCCATTGACAGGCCAGCACCAAATTTTTTTTTAAAAAACTCGTATTCTGGTG
* * * *
88616278 CCGTCCATTGACAGACGAGCACCAAAAAATTTTG-ATTTTTTTT
66 CCGGCCATTGACAGGCCAGCACCAAAAAAATTTGAATTTTTTTT
*** * * * * * *
88616321 TGGACTTGGTGCCGGTCATTAACAAGCCAGTACCAATTTTTTTTTTAAAAAACTCGTATTGTGGT
1 AATAC-TGGTGCCGGCCATTGACAGGCCAGCACCAAATTTTTTTTTAAAAAACTCGTATTCTGGT
* * *
88616386 GCCAGCCATTGACAGGCTAGCACCAAAAAAATTTAAATTTTTTTT
65 GCCGGCCATTGACAGGCCAGCACCAAAAAAATTTGAATTTTTTTT
* * *
88616431 AATACTGGTGCCGACCATTGACTGGCCAGCACCAAATTTTTTTTTAAAAAACTCATATTCTGGTG
1 AATACTGGTGCCGGCCATTGACAGGCCAGCACCAAATTTTTTTTTAAAAAACTCGTATTCTGGTG
* *
88616496 CCGGCAATTGACAGGCCAGCACCAAAAAATTTTGAA-TTTTTTT
66 CCGGCCATTGACAGGCCAGCACCAAAAAAATTTGAATTTTTTTT
88616539 AATACTGGTGCCGGCCATTGACAGGCCAGCACCAAA
1 AATACTGGTGCCGGCCATTGACAGGCCAGCACCAAA
88616575 AAAATTTAAA
Statistics
Matches: 304, Mismatches: 52, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
107 10 0.03
108 67 0.22
109 211 0.69
110 16 0.05
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.32
Consensus pattern (109 bp):
AATACTGGTGCCGGCCATTGACAGGCCAGCACCAAATTTTTTTTTAAAAAACTCGTATTCTGGTG
CCGGCCATTGACAGGCCAGCACCAAAAAAATTTGAATTTTTTTT
Found at i:88616603 original size:55 final size:54
Alignment explanation
Indices: 88616382--88616628 Score: 264
Period size: 55 Copynumber: 4.6 Consensus size: 54
88616372 ACTCGTATTG
* *
88616382 TGGTGCCAGCCATTGACAGGCTAGCACCAAAAAAATTTAAATTTTTTTTAATAC
1 TGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTTAAATTTTTTTTAATAC
* * **** **** ** *
88616436 TGGTGCCGACCATTGACTGGCCAGCACCAAATTTTTTTTTAAAAAACTCAT-ATTC
1 TGGTGCCGGCCATTGACAGGCCAGCACCAAA--AAAATTTAAATTTTTTTTAATAC
* * *
88616491 TGGTGCCGGCAATTGACAGGCCAGCACCAAAAAATTTTGAA-TTTTTTTAATAC
1 TGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTTAAATTTTTTTTAATAC
88616544 TGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTTAAATTTTTTTTAAATAC
1 TGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTTAAATTTTTTTT-AATAC
* * *
88616599 TGGTGCCGACCATTGACATGTCAGCACCAA
1 TGGTGCCGGCCATTGACAGGCCAGCACCAA
88616629 CATTTTTTTT
Statistics
Matches: 154, Mismatches: 34, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
52 2 0.01
53 47 0.31
54 34 0.22
55 63 0.41
56 8 0.05
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (54 bp):
TGGTGCCGGCCATTGACAGGCCAGCACCAAAAAAATTTAAATTTTTTTTAATAC
Found at i:88617113 original size:17 final size:21
Alignment explanation
Indices: 88617079--88617125 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 21
88617069 AATTGATCAA
88617079 ATTTAATTATTAATATTATT-
1 ATTTAATTATTAATATTATTC
88617099 ATTTAATTA-T-A-ATTATTC
1 ATTTAATTATTAATATTATTC
*
88617117 ATTAAATTA
1 ATTTAATTA
88617126 ATTCTAAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 6 0.24
18 9 0.36
19 1 0.04
20 9 0.36
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTAATTATTAATATTATTC
Found at i:88617115 original size:20 final size:21
Alignment explanation
Indices: 88617079--88617120 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
88617069 AATTGATCAA
88617079 ATTTAATTATTAATATT-ATT
1 ATTTAATTATTAATATTCATT
88617099 ATTTAATTA-TAATTATTCATT
1 ATTTAATTATTAA-TATTCATT
88617120 A
1 A
88617121 AATTAATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.15
20 13 0.65
21 4 0.20
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTTAATTATTAATATTCATT
Found at i:88619560 original size:36 final size:37
Alignment explanation
Indices: 88619520--88619618 Score: 148
Period size: 36 Copynumber: 2.7 Consensus size: 37
88619510 CAATGATATG
*
88619520 CAATCTTAGATGTGATATGCAATCTTAGATATGA-TA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATTA
*
88619556 CAATCTTAGATATGAT-TGCAATCTTAGATATGATTG
1 CAATCTTAGATATGATATGCAATCTTAGATATGATTA
**
88619592 CAATCTTAGATATGATATATAATCTTA
1 CAATCTTAGATATGATATGCAATCTTA
88619619 AAAGATATGA
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
35 17 0.30
36 32 0.56
37 8 0.14
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.38
Consensus pattern (37 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGATTA
Found at i:88619579 original size:18 final size:18
Alignment explanation
Indices: 88619512--88619607 Score: 149
Period size: 18 Copynumber: 5.3 Consensus size: 18
88619502 ATAATCTTCA
88619512 ATGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
*
88619531 GTGATATGCAATCTTAGAT
1 ATGAT-TGCAATCTTAGAT
*
88619550 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
88619567 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
88619585 ATGATTGCAATCTTAGAT
1 ATGATTGCAATCTTAGAT
88619603 ATGAT
1 ATGAT
88619608 ATATAATCTT
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
17 16 0.22
18 35 0.49
19 21 0.29
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (18 bp):
ATGATTGCAATCTTAGAT
Found at i:88626277 original size:6 final size:6
Alignment explanation
Indices: 88626268--88626334 Score: 59
Period size: 6 Copynumber: 10.8 Consensus size: 6
88626258 GAAAAAATGA
*
88626268 AAAAAG -AAAA- AAAAAG AAAGAG AAAAAG AAAAAG AAAAAAAGG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG --AAAAA-G AAAAAG
88626317 AAAAAAGG AAAAA- AAAAA
1 -AAAAA-G AAAAAG AAAAA
88626335 TGGAGAAGCC
Statistics
Matches: 52, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
5 13 0.25
6 17 0.33
7 15 0.29
8 6 0.12
9 1 0.02
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:88626287 original size:14 final size:14
Alignment explanation
Indices: 88626255--88626334 Score: 62
Period size: 14 Copynumber: 5.8 Consensus size: 14
88626245 TGTGACCTTC
88626255 AAAGAAAAAATGAAA-
1 AAAGAAAAAA--AAAG
88626270 AAAGAAAAAAAAAG
1 AAAGAAAAAAAAAG
*
88626284 AAAGAGAAAAAGAA-
1 AAAGA-AAAAAAAAG
*
88626298 AAAG-AAAAAAAGG
1 AAAGAAAAAAAAAG
*
88626311 AAA-AAGAAAAAAGG
1 AAAGAA-AAAAAAAG
88626325 AAA-AAAAAAA
1 AAAGAAAAAAA
88626335 TGGAGAAGCC
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
12 6 0.11
13 12 0.21
14 22 0.39
15 17 0.30
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.01
Consensus pattern (14 bp):
AAAGAAAAAAAAAG
Found at i:88626298 original size:29 final size:27
Alignment explanation
Indices: 88626256--88626334 Score: 79
Period size: 29 Copynumber: 2.8 Consensus size: 27
88626246 GTGACCTTCA
* *
88626256 AAGAAAAAATGAAAAAAGAAAAAAAAAGA
1 AAGAAAAAAAG-AAAAAGAAAAAAGAA-A
*
88626285 AAGAGAAAAAGAAAAAGAAAAAAAGGAAA
1 AAGAAAAAAAGAAAAAG-AAAAAA-GAAA
*
88626314 AAGAAAAAAGGAAAAA-AAAAA
1 AAGAAAAAAAGAAAAAGAAAAA
88626335 TGGAGAAGCC
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
27 5 0.12
28 6 0.14
29 30 0.70
30 2 0.05
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.01
Consensus pattern (27 bp):
AAGAAAAAAAGAAAAAGAAAAAAGAAA
Found at i:88626323 original size:22 final size:22
Alignment explanation
Indices: 88626255--88626331 Score: 95
Period size: 22 Copynumber: 3.5 Consensus size: 22
88626245 TGTGACCTTC
* *
88626255 AAAGAAAAAATGAAAAAAGAAA
1 AAAGAAAAAAAGGAAAAAGAAA
*
88626277 AAA-AAAGAAAGAGAAAAAG-AA
1 AAAGAAAAAAAG-GAAAAAGAAA
88626298 AAAGAAAAAAAGGAAAAAGAAA
1 AAAGAAAAAAAGGAAAAAGAAA
88626320 AAAGGAAAAAAA
1 AAA-GAAAAAAA
88626332 AAATGGAGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
21 18 0.38
22 21 0.45
23 8 0.17
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.01
Consensus pattern (22 bp):
AAAGAAAAAAAGGAAAAAGAAA
Found at i:88627556 original size:44 final size:43
Alignment explanation
Indices: 88627508--88627612 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 43
88627498 CTTGACTTCC
*
88627508 TGAGTTTGCAGTGAAGCAGATCAAAAATTTCAGCATGGCGTTCA
1 TGAGTTTGCAG-GAAGCAGATCAAAAATTTCAGCATGGCGTCCA
* * ** * *
88627552 TGAGTTTGCAGGGAGCAGGTTGAAGATTTCAGCATGGCGTCCT
1 TGAGTTTGCAGGAAGCAGATCAAAAATTTCAGCATGGCGTCCA
88627595 TGAGTTTGCAAGG-AGCAG
1 TGAGTTTGC-AGGAAGCAG
88627613 GTTGAAAAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
43 39 0.74
44 14 0.26
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (43 bp):
TGAGTTTGCAGGAAGCAGATCAAAAATTTCAGCATGGCGTCCA
Found at i:88627557 original size:88 final size:85
Alignment explanation
Indices: 88627407--88627839 Score: 272
Period size: 88 Copynumber: 5.0 Consensus size: 85
88627397 TCGAAGATAT
* * * ** * * * *
88627407 CAGCATGACGTCTCTGAATTTGCAGGAAACAGGTTGAAGATATCAGCATGGCATCCTTGAGTTTG
1 CAGCATGACTTC-CTGAGTTTGCAGGAAGCAGGTCAAAAATTTCAGCATGGCGTTCTTGAGTTTG
88627472 CAAGGAGCAGGTTGAAGAAAG
65 CAAGGAGCAGGTTGAAGAAAG
* * *
88627493 CAGATCTTGACTTCCTGAGTTTGCAGTGAAGCAGATCAAAAATTTCAGCATGGCGTTCATGAGTT
1 CAG--CATGACTTCCTGAGTTTGCAG-GAAGCAGGTCAAAAATTTCAGCATGGCGTTCTTGAGTT
* ***
88627558 TGCAGGGAGCAGGTTGAAGATTT
63 TGCAAGGAGCAGGTTGAAGAAAG
* * * ** * *
88627581 CAGCATGGCGTCCTTGAGTTTGCAAGG-AGCAGGTTGAAAAA-AGCAGATCTTGAC-TTCTTGAG
1 CAGCATGACTTCC-TGAGTTTGC-AGGAAGCAGG-TCAAAAATTTCAG--CATGGCGTTCTTGAG
* * * * *
88627643 -TT-CACAGTAAAGCAGATCGAAGATAT
61 TTTGCA-AG--GAGCAGGTTGAAGAAAG
* * ** *
88627669 CAGCATGGCGTTCCTGAGTTTGTAGGAAGCAGGTTGAAGATTTCAGCATGGCG-TCTTTGAGTTT
1 CAGCATGAC-TTCCTGAGTTTGCAGGAAGCAGGTCAAAAATTTCAGCATGGCGTTC-TTGAGTTT
88627733 GCAA-GAGGCAGGTTGAAGAAAG
64 GCAAGGA-GCAGGTTGAAGAAAG
* * * *
88627755 CAG-ATTTTGACTTCCTGAGTTCGCAGTGAAGCAGGTCGAAGATATT-AGCATGGCGTTCCTGAG
1 CAGCA---TGACTTCCTGAGTTTGCAG-GAAGCAGGTCAAAAAT-TTCAGCATGGCGTTCTTGAG
* *
88627818 TTTGCAGGGAGCAGGTTAAAGA
61 TTTGCAAGGAGCAGGTTGAAGA
88627840 TTTCATCATG
Statistics
Matches: 269, Mismatches: 52, Indels: 50
0.73 0.14 0.13
Matches are distributed among these distances:
85 4 0.01
86 41 0.15
87 59 0.22
88 154 0.57
89 11 0.04
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.26
Consensus pattern (85 bp):
CAGCATGACTTCCTGAGTTTGCAGGAAGCAGGTCAAAAATTTCAGCATGGCGTTCTTGAGTTTGC
AAGGAGCAGGTTGAAGAAAG
Found at i:88627958 original size:131 final size:131
Alignment explanation
Indices: 88627263--88627939 Score: 1000
Period size: 131 Copynumber: 5.2 Consensus size: 131
88627253 GGGACAATGT
* * * *
88627263 AGATCGAAAATTTCATCATGGCATTCTTGAGTTTGCAGGAAGCAGATTGAAGATTTCAGCATGGC
1 AGATCGAAAATTTCAGCATGGCGTTCCTGAGTTTGCAGGAAGCAGGTTGAAGATTTCAGCATGGC
* * *
88627328 GTCCTTGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAGATCTTAACTTTCTGAGTTCGCAGTAAAG
66 GTCCTTGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAGATCTTGACTTCCTGAGTTCGCAGTGAAG
88627393 C
131 C
* * * * * *
88627394 AGATCGAAGATATCAGCATGACG-TCTCTGAATTTGCAGGAAACAGGTTGAAGATATCAGCATGG
1 AGATCGAAAATTTCAGCATGGCGTTC-CTGAGTTTGCAGGAAGCAGGTTGAAGATTTCAGCATGG
* *
88627458 CATCCTTGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAGATCTTGACTTCCTGAGTTTGCAGTGAA
65 CGTCCTTGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAGATCTTGACTTCCTGAGTTCGCAGTGAA
88627523 GC
130 GC
* * *
88627525 AGATCAAAAATTTCAGCATGGCGTTCATGAGTTTGCAGGGAGCAGGTTGAAGATTTCAGCATGGC
1 AGATCGAAAATTTCAGCATGGCGTTCCTGAGTTTGCAGGAAGCAGGTTGAAGATTTCAGCATGGC
* * * *
88627590 GTCCTTGAGTTTGCAAGGAGCAGGTTGAAAAAAGCAGATCTTGACTTCTTGAGTTCACAGTAAAG
66 GTCCTTGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAGATCTTGACTTCCTGAGTTCGCAGTGAAG
88627655 C
131 C
* * *
88627656 AGATCGAAGATATCAGCATGGCGTTCCTGAGTTTGTAGGAAGCAGGTTGAAGATTTCAGCATGGC
1 AGATCGAAAATTTCAGCATGGCGTTCCTGAGTTTGCAGGAAGCAGGTTGAAGATTTCAGCATGGC
* *
88627721 GTCTTTGAGTTTGCAA-GAGGCAGGTTGAAGAAAGCAGATTTTGACTTCCTGAGTTCGCAGTGAA
66 GTCCTTGAGTTTGCAAGGA-GCAGGTTGAAGAAAGCAGATCTTGACTTCCTGAGTTCGCAGTGAA
88627785 GC
130 GC
* * * * *
88627787 AGGTCGAAGATATT-AGCATGGCGTTCCTGAGTTTGCAGGGAGCAGGTTAAAGATTTCATCATGG
1 AGATCGAAAAT-TTCAGCATGGCGTTCCTGAGTTTGCAGGAAGCAGGTTGAAGATTTCAGCATGG
* *
88627851 CGTCCTTGAGTTTGCAAGGAGCAGGTTGAAGAATGCAGATCTTGACTTCCTGAGTTTGCAGTGAA
65 CGTCCTTGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAGATCTTGACTTCCTGAGTTCGCAGTGAA
88627916 GC
130 GC
88627918 AGATCGAAAATTTCAGCATGGC
1 AGATCGAAAATTTCAGCATGGC
88627940 ATCCCTGTGC
Statistics
Matches: 486, Mismatches: 54, Indels: 12
0.88 0.10 0.02
Matches are distributed among these distances:
130 6 0.01
131 475 0.98
132 5 0.01
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (131 bp):
AGATCGAAAATTTCAGCATGGCGTTCCTGAGTTTGCAGGAAGCAGGTTGAAGATTTCAGCATGGC
GTCCTTGAGTTTGCAAGGAGCAGGTTGAAGAAAGCAGATCTTGACTTCCTGAGTTCGCAGTGAAG
C
Found at i:88628540 original size:18 final size:19
Alignment explanation
Indices: 88628472--88628597 Score: 183
Period size: 19 Copynumber: 6.9 Consensus size: 19
88628462 ATAATCTTCA
88628472 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
88628491 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
88628510 ATGATAT--AATCTTAGAT
1 ATGATATGCAATCTTAGAT
88628527 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
88628545 ATG--ATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
88628562 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
**
88628580 ATGATATATAATCTTAGA
1 ATGATATGCAATCTTAGA
88628598 AGATATGATT
Statistics
Matches: 97, Mismatches: 4, Indels: 12
0.86 0.04 0.11
Matches are distributed among these distances:
16 1 0.01
17 31 0.32
18 31 0.32
19 34 0.35
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:88628541 original size:35 final size:35
Alignment explanation
Indices: 88628472--88628597 Score: 180
Period size: 35 Copynumber: 3.5 Consensus size: 35
88628462 ATAATCTTCA
*
88628472 ATGATATGCAATCTTAGATGTGATATGCAATCTTAGAT
1 ATGATAT--AATCTTAGATATGAT-TGCAATCTTAGAT
88628510 ATGATATAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATAATCTTAGATATGATTGCAATCTTAGAT
**
88628545 ATGATGCAATCTTAGATATGATTGCAATCTTAGAT
1 ATGATATAATCTTAGATATGATTGCAATCTTAGAT
88628580 ATGATATATAATCTTAGA
1 ATG--ATATAATCTTAGA
88628598 AGATATGATT
Statistics
Matches: 81, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
35 49 0.60
36 14 0.17
37 11 0.14
38 7 0.09
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (35 bp):
ATGATATAATCTTAGATATGATTGCAATCTTAGAT
Found at i:88628604 original size:22 final size:22
Alignment explanation
Indices: 88628576--88628623 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
88628566 TTGCAATCTT
88628576 AGATATGA-TATATAATCTTAGA
1 AGATATGATTATATAATCTT-GA
* *
88628598 AGATATGATTTTGTAATCTTGA
1 AGATATGATTATATAATCTTGA
88628620 AGAT
1 AGAT
88628624 TTAATTTGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.40, C:0.04, G:0.17, T:0.40
Consensus pattern (22 bp):
AGATATGATTATATAATCTTGA
Found at i:88628630 original size:22 final size:23
Alignment explanation
Indices: 88628588--88628630 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
88628578 ATATGATATA
*
88628588 TAATCTTAGAAGATATGATTTTG
1 TAATCTTAGAAGATATAATTTTG
*
88628611 TAATCTT-GAAGATTTAATTT
1 TAATCTTAGAAGATATAATTT
88628631 GTAGATATCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.47
Consensus pattern (23 bp):
TAATCTTAGAAGATATAATTTTG
Found at i:88642620 original size:30 final size:30
Alignment explanation
Indices: 88642586--88642656 Score: 115
Period size: 30 Copynumber: 2.3 Consensus size: 30
88642576 GTTAGGAAAG
*
88642586 TATTGTAAAAGGATATAATAATTTTTAATT
1 TATTGTAAAAAGATATAATAATTTTTAATT
88642616 TATTGTAAAAAGATATAATAATTTTTAATT
1 TATTGTAAAAAGATATAATAATTTTTAATT
*
88642646 TACATGTAAAA
1 TA-TTGTAAAA
88642657 TTTCAGGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
30 31 0.82
31 7 0.18
ACGTcount: A:0.46, C:0.01, G:0.08, T:0.44
Consensus pattern (30 bp):
TATTGTAAAAAGATATAATAATTTTTAATT
Done.