Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 74 of 150
Found at i:22321697 original size:20 final size:20
Alignment explanation
Indices: 22321672--22321711 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
22321662 ATGCTCCTTT
22321672 GTACATCTG-TTTTCTTTTAA
1 GTACATCTGCTTTT-TTTTAA
*
22321692 GTACATGTGCTTTTTTTTAA
1 GTACATCTGCTTTTTTTTAA
22321712 CAAGCATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.20, C:0.12, G:0.12, T:0.55
Consensus pattern (20 bp):
GTACATCTGCTTTTTTTTAA
Found at i:22323904 original size:25 final size:25
Alignment explanation
Indices: 22323869--22323918 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
22323859 TTCTCAAAAT
*
22323869 TTTAATTAATATAAAATATTA-ATAA
1 TTTAATAAATATAAAA-ATTAGATAA
22323894 TTTAATAAATATAAAAATTAGATAA
1 TTTAATAAATATAAAAATTAGATAA
22323919 GTAAATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (25 bp):
TTTAATAAATATAAAAATTAGATAA
Found at i:22325040 original size:40 final size:39
Alignment explanation
Indices: 22324966--22325042 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 39
22324956 GAATCAGTTC
**
22324966 GGGCCTTAGCCCATTCAGATACAGTCTCAAAAATACATTA
1 GGGCCTTAGCCCATTCAGATACAGAATC-AAAATACATTA
*
22325006 GGGCCTTGGCCCATATCAGATACAGAATGC-AAATACA
1 GGGCCTTAGCCCAT-TCAGATACAGAAT-CAAAATACA
22325043 GTAAATCAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 20 0.62
41 11 0.34
42 1 0.03
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (39 bp):
GGGCCTTAGCCCATTCAGATACAGAATCAAAATACATTA
Found at i:22332419 original size:41 final size:40
Alignment explanation
Indices: 22332356--22332713 Score: 347
Period size: 41 Copynumber: 8.6 Consensus size: 40
22332346 CTTTAAATGT
* * *
22332356 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATCAAA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGAT-TAA
* *
22332397 AAGGGGTTGCTATGTGTTGATTCCCCGTATCATTGATTATA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTA-A
* * *
22332438 AGGGGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGA
1 AAGGGGTTGCTAAGTGCTGATTCC-CCGTATCATTGA-T-TAA
* * *
22332481 AAGAGGTTGCTATGTGCTGATTCCCCGTATCATTGATTAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAA
* * *
22332521 AAGGTGGTTGCTAAGTGCTGATTCTACCGTATCCTTGATTGTGA
1 AAGG-GGTTGCTAAGTGCTGATTC-CCCGTATCATTGA-T-TAA
* * * * * *
22332565 AAGGGCTTGCTATGTGTTGATTCTCCGTATAATTGATTAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAA
* * * *
22332605 AAGGTGGTTGGTAAGTGCTGATTCCACCATATGATTGATTGTGA
1 AAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGA-T-TAA
* *
22332649 AAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGATTAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAA
*
22332689 AAGGTGGTTGCTAAGTGTTGATTCC
1 AAGG-GGTTGCTAAGTGCTGATTCC
22332714 ACCGGGATCC
Statistics
Matches: 257, Mismatches: 47, Indels: 26
0.78 0.14 0.08
Matches are distributed among these distances:
40 15 0.06
41 109 0.42
42 63 0.25
43 59 0.23
44 11 0.04
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (40 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATTAA
Found at i:22332506 original size:84 final size:84
Alignment explanation
Indices: 22332355--22332717 Score: 534
Period size: 84 Copynumber: 4.4 Consensus size: 84
22332345 ACTTTAAATG
* * *** *
22332355 TAAGG-GGTTGCTAAGTGCAGATTCC-CCGAATCATTGA-TCAAAAAGGGGTTGCTATGTGTTGA
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCATTGATTGTGAAAGGGGTTGCTATGTGCTGA
22332417 TTCCCCGTATCATTGATTA
66 TTCCCCGTATCATTGATTA
* * *
22332436 TAAGGGGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGAGGTTGCTATGTGCTGA
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCATTGATTGTGAAAGGGGTTGCTATGTGCTGA
22332501 TTCCCCGTATCATTGATTA
66 TTCCCCGTATCATTGATTA
* * * *
22332520 TAAGGTGGTTGCTAAGTGCTGATTCTACCGTATCCTTGATTGTGAAAGGGCTTGCTATGTGTTGA
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCATTGATTGTGAAAGGGGTTGCTATGTGCTGA
* *
22332585 TTCTCCGTATAATTGATTA
66 TTCCCCGTATCATTGATTA
* * *
22332604 TAAGGTGGTTGGTAAGTGCTGATTCCACCATATGATTGATTGTGAAAGGGGTTGCTATGTGCTGA
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCATTGATTGTGAAAGGGGTTGCTATGTGCTGA
22332669 TTCCCCGTATCATTGATTA
66 TTCCCCGTATCATTGATTA
*
22332688 TAAGGTGGTTGCTAAGTGTTGATTCCACCG
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCG
22332718 GGATCCTTTG
Statistics
Matches: 252, Mismatches: 27, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
81 5 0.02
82 19 0.08
83 10 0.04
84 218 0.87
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (84 bp):
TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCATTGATTGTGAAAGGGGTTGCTATGTGCTGA
TTCCCCGTATCATTGATTA
Found at i:22338867 original size:30 final size:30
Alignment explanation
Indices: 22338810--22338871 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
22338800 GCTTTTCAAA
* * *
22338810 AATATTTACAAAATGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCACCAAATTTTT
22338840 AATATTTACAAAAAGA-GCAACCAAATTTTT
1 AATATTTACAAAAAGAGGC-ACCAAATTTTT
22338870 AA
1 AA
22338872 AAATAATTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCACCAAATTTTT
Found at i:22341264 original size:50 final size:50
Alignment explanation
Indices: 22341189--22341288 Score: 200
Period size: 50 Copynumber: 2.0 Consensus size: 50
22341179 TGTTTCAACA
22341189 CCAGGATGAGTTTCTCTTCTTGCTCAGTGGCTAATTTTGCTGAAACAATC
1 CCAGGATGAGTTTCTCTTCTTGCTCAGTGGCTAATTTTGCTGAAACAATC
22341239 CCAGGATGAGTTTCTCTTCTTGCTCAGTGGCTAATTTTGCTGAAACAATC
1 CCAGGATGAGTTTCTCTTCTTGCTCAGTGGCTAATTTTGCTGAAACAATC
22341289 ACTGGCATAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (50 bp):
CCAGGATGAGTTTCTCTTCTTGCTCAGTGGCTAATTTTGCTGAAACAATC
Found at i:22350649 original size:71 final size:71
Alignment explanation
Indices: 22350570--22350729 Score: 257
Period size: 71 Copynumber: 2.3 Consensus size: 71
22350560 TAAAACAGTT
* ** * *
22350570 CAGTCATCAAACAAGGACTAATCTGAATAAATTACAAAAATTCTAGGTTAAAATTGTAAATTTTG
1 CAGTCATCAAACAAGGACTAATCTGAACAAATTACAAAAATTCTAGGGCAAAATTATAAACTTTG
22350635 AGTACA
66 AGTACA
* *
22350641 CAGTCATCAAACAAGGACTAATCTGAACAAATTACAAAAATTTTGGGGCAAAATTATAAACTTTG
1 CAGTCATCAAACAAGGACTAATCTGAACAAATTACAAAAATTCTAGGGCAAAATTATAAACTTTG
22350706 AGTACA
66 AGTACA
22350712 CAGTCATCAAACAAGGAC
1 CAGTCATCAAACAAGGAC
22350730 CGTGTGATCG
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 82 1.00
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.26
Consensus pattern (71 bp):
CAGTCATCAAACAAGGACTAATCTGAACAAATTACAAAAATTCTAGGGCAAAATTATAAACTTTG
AGTACA
Found at i:22364136 original size:31 final size:31
Alignment explanation
Indices: 22364069--22364137 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 31
22364059 ATCCAATGCT
* *
22364069 CAAATC-AATTCGACAATATATATCCATATA
1 CAAATCAAATTCGAAAATATATATCCACATA
* * * *
22364099 CGAATCAAATTCGAAAATTTATATCTACATG
1 CAAATCAAATTCGAAAATATATATCCACATA
22364130 CAAATCAA
1 CAAATCAA
22364138 TGTATATCCA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
30 5 0.16
31 26 0.84
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.29
Consensus pattern (31 bp):
CAAATCAAATTCGAAAATATATATCCACATA
Found at i:22364186 original size:52 final size:53
Alignment explanation
Indices: 22364082--22364189 Score: 137
Period size: 52 Copynumber: 2.1 Consensus size: 53
22364072 ATCAATTCGA
* * * *
22364082 CAATATATATCCATATACGAATCAAATTCGAAAATTTATATCTACATGCAAAT
1 CAATATATATCCATATACGAAACAAATTCGAAAATTTATAACCACATACAAAT
* ** *
22364135 CAATGTATATCCATATAC-AAACAAATTCGGCAATTTATAACCATATACAAAT
1 CAATATATATCCATATACGAAACAAATTCGAAAATTTATAACCACATACAAAT
22364187 CAA
1 CAA
22364190 ATTTGGCAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
52 30 0.64
53 17 0.36
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.30
Consensus pattern (53 bp):
CAATATATATCCATATACGAAACAAATTCGAAAATTTATAACCACATACAAAT
Found at i:22364198 original size:31 final size:31
Alignment explanation
Indices: 22364135--22364266 Score: 167
Period size: 31 Copynumber: 4.3 Consensus size: 31
22364125 ACATGCAAAT
22364135 CAATGTATATCCATATACAAA-CAAATTCGG
1 CAATGTATATCCATATACAAATCAAATTCGG
* * *
22364165 CAATTTATAACCATATACAAATCAAATTTGG
1 CAATGTATATCCATATACAAATCAAATTCGG
* * *
22364196 CAATGTATATCTATAAACAATTCAAATTCGG
1 CAATGTATATCCATATACAAATCAAATTCGG
** * *
22364227 CAATGTATATCTTTATAAAAATCAAATTCGA
1 CAATGTATATCCATATACAAATCAAATTCGG
22364258 CAATGTATA
1 CAATGTATA
22364267 AAACATATAC
Statistics
Matches: 87, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
30 19 0.22
31 68 0.78
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (31 bp):
CAATGTATATCCATATACAAATCAAATTCGG
Found at i:22379021 original size:37 final size:37
Alignment explanation
Indices: 22378971--22379045 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
22378961 TTTTACGGTT
*
22378971 GACGGAGGAGTTCCGTAGAGTACTGGCGGCATATTAA
1 GACGGAGAAGTTCCGTAGAGTACTGGCGGCATATTAA
22379008 GACGGAGAAGTTCCGTAGAGTACTGGCGGCATATTAA
1 GACGGAGAAGTTCCGTAGAGTACTGGCGGCATATTAA
22379045 G
1 G
22379046 TTCGCATTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.28, C:0.16, G:0.35, T:0.21
Consensus pattern (37 bp):
GACGGAGAAGTTCCGTAGAGTACTGGCGGCATATTAA
Found at i:22386260 original size:40 final size:40
Alignment explanation
Indices: 22386215--22386341 Score: 102
Period size: 40 Copynumber: 3.2 Consensus size: 40
22386205 GGTATGTGAT
22386215 TATTGAGGACATGCTGAGCATGTCAAATGAATGTGAAAAG
1 TATTGAGGACATGCTGAGCATGTCAAATGAATGTGAAAAG
* * * * * **
22386255 TATTGA-GATATGATTATGTATG--AGATTG--TGTGACATATTT
1 TATTGAGGACATGCTGA-GCATGTCA-AATGAATGTGA-A-A-AG
*
22386295 TATTAAGGACATGCTGAGCATGTCAAATGAATGTGAAAAG
1 TATTGAGGACATGCTGAGCATGTCAAATGAATGTGAAAAG
22386335 TATTGAG
1 TATTGAG
22386342 ATATGATTAT
Statistics
Matches: 61, Mismatches: 16, Indels: 20
0.63 0.16 0.21
Matches are distributed among these distances:
37 5 0.08
38 2 0.03
39 11 0.18
40 25 0.41
41 11 0.18
42 2 0.03
43 5 0.08
ACGTcount: A:0.35, C:0.07, G:0.25, T:0.32
Consensus pattern (40 bp):
TATTGAGGACATGCTGAGCATGTCAAATGAATGTGAAAAG
Found at i:22386304 original size:80 final size:80
Alignment explanation
Indices: 22386214--22386373 Score: 311
Period size: 80 Copynumber: 2.0 Consensus size: 80
22386204 AGGTATGTGA
*
22386214 TTATTGAGGACATGCTGAGCATGTCAAATGAATGTGAAAAGTATTGAGATATGATTATGTATGAG
1 TTATTAAGGACATGCTGAGCATGTCAAATGAATGTGAAAAGTATTGAGATATGATTATGTATGAG
22386279 ATTGTGTGACATATT
66 ATTGTGTGACATATT
22386294 TTATTAAGGACATGCTGAGCATGTCAAATGAATGTGAAAAGTATTGAGATATGATTATGTATGAG
1 TTATTAAGGACATGCTGAGCATGTCAAATGAATGTGAAAAGTATTGAGATATGATTATGTATGAG
22386359 ATTGTGTGACATATT
66 ATTGTGTGACATATT
22386374 GCATATGCAT
Statistics
Matches: 79, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 79 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.35
Consensus pattern (80 bp):
TTATTAAGGACATGCTGAGCATGTCAAATGAATGTGAAAAGTATTGAGATATGATTATGTATGAG
ATTGTGTGACATATT
Found at i:22391568 original size:215 final size:216
Alignment explanation
Indices: 22391155--22391582 Score: 635
Period size: 215 Copynumber: 2.0 Consensus size: 216
22391145 TAAACTGAAT
* * * * * * *
22391155 CTAATTCTGAAAATGTTGGATTAGTTGGATTGAAATTGAATGATATAAGCGTGTATTTGACCGAA
1 CTAATTCTAAAAAGGTTGGATTAGTTAGACTGAAATTGAATGATACAAGCGGGTATTCGACCGAA
* * * *
22391220 TACTTGCAGCAGACTCTAGACATAGAGCAGCGTTTGTATAGAATGAAGACAAATTAGTGCAGGGT
66 TACTTGCAGCAGACTCTAGACATAAAGCAGCGTTTGTATAGAATGAAGACAAAATAGTACACGGT
* * * * *
22391285 ATCGTGCTAAGGCCTATAGACATAGGCCAGGTAACTTGAGATCTTGCTCTTGAAAGAAGCAAGTC
131 ACCATGCTAAGGACTATAGACACAGGCCAGGTAACTTGAGATCTTGCTCTTAAAAGAAGCAAGTC
22391350 ACTTTAGGTCTCTTCTAAACC
196 ACTTTAGGTCTCTTCTAAACC
*
22391371 CTAATTCTAAAAAGGTTGGA-TAGTTAGACTGAAATTGAATGATACAAGCGGGTATTCGACTGAA
1 CTAATTCTAAAAAGGTTGGATTAGTTAGACTGAAATTGAATGATACAAGCGGGTATTCGACCGAA
* * *
22391435 TACTTGCAGCAGACTCTAGACATAAAGCAGTGTTTGTATAGAATTAAGACAAAATATTACACGGT
66 TACTTGCAGCAGACTCTAGACATAAAGCAGCGTTTGTATAGAATGAAGACAAAATAGTACACGGT
* *
22391500 ACCATGCTAAGGACTATAGACACAGGCCAGGTAACTTGAGATCTTGCT-TTCAAAAGAATCAGGT
131 ACCATGCTAAGGACTATAGACACAGGCCAGGTAACTTGAGATCTTGCTCTT-AAAAGAAGCAAGT
22391564 CACTTTAGGTCTCTTCTAA
195 CACTTTAGGTCTCTTCTAA
22391583 GTAGTAGAAT
Statistics
Matches: 189, Mismatches: 22, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
214 2 0.01
215 169 0.89
216 18 0.10
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (216 bp):
CTAATTCTAAAAAGGTTGGATTAGTTAGACTGAAATTGAATGATACAAGCGGGTATTCGACCGAA
TACTTGCAGCAGACTCTAGACATAAAGCAGCGTTTGTATAGAATGAAGACAAAATAGTACACGGT
ACCATGCTAAGGACTATAGACACAGGCCAGGTAACTTGAGATCTTGCTCTTAAAAGAAGCAAGTC
ACTTTAGGTCTCTTCTAAACC
Found at i:22392091 original size:26 final size:26
Alignment explanation
Indices: 22392045--22392144 Score: 110
Period size: 26 Copynumber: 3.8 Consensus size: 26
22392035 GGCACATTCC
* * *
22392045 ATCATAGTATCACACCCAAGTGTGTA
1 ATCACAGTATCACACCGAAGTGTGCA
* * **
22392071 ATCTCAATATCACACCGAAGTACGCA
1 ATCACAGTATCACACCGAAGTGTGCA
*
22392097 ATCGCAGTATCACACCGAAGTGTGCA
1 ATCACAGTATCACACCGAAGTGTGCA
**
22392123 ATCACAGTATTGCACCGAAGTG
1 ATCACAGTATCACACCGAAGTG
22392145 CTCATCAATT
Statistics
Matches: 60, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 60 1.00
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (26 bp):
ATCACAGTATCACACCGAAGTGTGCA
Found at i:22398845 original size:51 final size:51
Alignment explanation
Indices: 22398787--22398973 Score: 200
Period size: 51 Copynumber: 3.7 Consensus size: 51
22398777 CTGGTTGACA
* * * *
22398787 TAGTAGCCTACACATAGTACAACACATGTGACCATCA-CTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT-AGCTATCCGGTACACG
* * *
22398838 TAGTAGCCTGCACATAGTACTACACACGTGATCGA-AGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATAGCTATCCGGTACACG
* * * * * *
22398889 TAGTAGCCTGCACATAGTACTACTCATGCGACC-TATCTTTCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATAGCTATCCGGTACACG
* *
22398939 TAGTAGCCTGCACATAGTATTACACACGTGGCCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
22398974 CACTTTCACT
Statistics
Matches: 111, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
50 41 0.37
51 68 0.61
52 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATAGCTATCCGGTACACG
Found at i:22398945 original size:101 final size:101
Alignment explanation
Indices: 22398785--22398968 Score: 271
Period size: 101 Copynumber: 1.8 Consensus size: 101
22398775 TACTGGTTGA
*
22398785 CATAGTAGCCTACACATAGTACAACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACAACACATGCGACCAT-ACTATCCGATACACGTAGTAGCCTGCA
22398850 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
65 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
* * * * * *
22398887 CATAGTAGCCTGCACATAGTACTACTCATGCGACC-TATCTTTCTGGTACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACAACACATGCGACCATA-CTATCCGATACACGTAGTAGCCTGCA
*
22398951 CATAGTATTACACACGTG
65 CATAGTACTACACACGTG
22398969 GCCATCACTT
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
100 1 0.01
101 41 0.56
102 31 0.42
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (101 bp):
CATAGTAGCCTACACATAGTACAACACATGCGACCATACTATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:22407291 original size:15 final size:15
Alignment explanation
Indices: 22407257--22407293 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
22407247 TCAATGCATA
*
22407257 AACATGAA-AGAAGT
1 AACATGAATAAAAGT
22407271 AA-ATGAATAAAAGT
1 AACATGAATAAAAGT
22407285 AACATGAAT
1 AACATGAAT
22407294 GCAATTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 5 0.25
14 9 0.45
15 6 0.30
ACGTcount: A:0.59, C:0.05, G:0.16, T:0.19
Consensus pattern (15 bp):
AACATGAATAAAAGT
Found at i:22411946 original size:20 final size:20
Alignment explanation
Indices: 22411921--22412003 Score: 73
Period size: 19 Copynumber: 4.1 Consensus size: 20
22411911 GCGAAAATAC
22411921 AAAAGAAAAGAAAAATGAAA
1 AAAAGAAAAGAAAAATGAAA
* *
22411941 AAAAG-AAAGAAAATTCAAA
1 AAAAGAAAAGAAAAATGAAA
*
22411960 AAAAGAGAATGAAAAA--AAA
1 AAAAGA-AAAGAAAAATGAAA
*
22411979 AATGAGAAAAGCAAAAGATGAAA
1 AA-AAGAAAAG-AAAA-ATGAAA
22412002 AA
1 AA
22412004 GAAAAAGTGA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
19 25 0.50
20 12 0.24
21 8 0.16
23 5 0.10
ACGTcount: A:0.75, C:0.02, G:0.16, T:0.07
Consensus pattern (20 bp):
AAAAGAAAAGAAAAATGAAA
Found at i:22412008 original size:14 final size:13
Alignment explanation
Indices: 22411921--22412009 Score: 55
Period size: 13 Copynumber: 6.8 Consensus size: 13
22411911 GCGAAAATAC
22411921 AAAAG-AAAA-GA
1 AAAAGAAAAATGA
22411932 AAAATGAAAAA--A
1 AAAA-GAAAAATGA
* *
22411944 AGAAAGAAAATTCA
1 A-AAAGAAAAATGA
22411958 AAAA-AAGAGAATGA
1 AAAAGAA-A-AATGA
22411972 AAAA-AAAAATGA
1 AAAAGAAAAATGA
22411984 GAAAAGCAAAAGATGA
1 -AAAAG-AAAA-ATGA
22412000 AAAAGAAAAA
1 AAAAGAAAAA
22412010 GTGATTGAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 20
0.74 0.03 0.23
Matches are distributed among these distances:
11 4 0.06
12 15 0.23
13 17 0.27
14 15 0.23
15 9 0.14
16 4 0.06
ACGTcount: A:0.75, C:0.02, G:0.16, T:0.07
Consensus pattern (13 bp):
AAAAGAAAAATGA
Found at i:22412010 original size:15 final size:16
Alignment explanation
Indices: 22411970--22412010 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
22411960 AAAAGAGAAT
22411970 GAAAA-AAAAA-ATGA
1 GAAAAGAAAAAGATGA
*
22411984 GAAAAGCAAAAGATGA
1 GAAAAGAAAAAGATGA
22412000 -AAAAGAAAAAG
1 GAAAAGAAAAAG
22412011 TGATTGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 5 0.22
15 14 0.61
16 4 0.17
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.05
Consensus pattern (16 bp):
GAAAAGAAAAAGATGA
Found at i:22416958 original size:17 final size:16
Alignment explanation
Indices: 22416916--22416960 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
22416906 CTCACAAGAC
*
22416916 TTTTCACTTCTTTTTT
1 TTTTCACTTCATTTTT
*
22416932 TTTTATACTTCGATTTTT
1 TTTT-CACTTC-ATTTTT
22416950 TTTTCACTTCA
1 TTTTCACTTCA
22416961 AATACAATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 5 0.21
17 10 0.42
18 9 0.38
ACGTcount: A:0.13, C:0.18, G:0.02, T:0.67
Consensus pattern (16 bp):
TTTTCACTTCATTTTT
Found at i:22417032 original size:12 final size:12
Alignment explanation
Indices: 22417015--22417049 Score: 61
Period size: 12 Copynumber: 2.8 Consensus size: 12
22417005 CCTCTTCTCT
22417015 TTTTTTTTTCAA
1 TTTTTTTTTCAA
22417027 TTTTTTTTTCAA
1 TTTTTTTTTCAA
22417039 TTTTTTCTTTC
1 TTTTTT-TTTC
22417050 TCTCTCTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 18 0.82
13 4 0.18
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTTTTTCAA
Found at i:22417113 original size:55 final size:57
Alignment explanation
Indices: 22417016--22417121 Score: 137
Period size: 55 Copynumber: 1.9 Consensus size: 57
22417006 CTCTTCTCTT
* *
22417016 TTTTTTTTCAATTTTTTTTTCAATTTTTTCTTTCTCTCTCTTT-TTTTTTTGCTCGA
1 TTTTTTTTCAACTTTTTTTTCAATTTTTTCTTTATCTCTCTTTCTTTTTTTGCTCGA
* * *
22417072 TTTTTTTTC-ACTTTTTTTTGAATTTTTTTTTTGAT-TTTCTTTCTTTTTTT
1 TTTTTTTTCAACTTTTTTTTCAATTTTTTCTTT-ATCTCTCTTTCTTTTTTT
22417122 AATCCAATAC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
55 26 0.60
56 17 0.40
ACGTcount: A:0.08, C:0.12, G:0.04, T:0.75
Consensus pattern (57 bp):
TTTTTTTTCAACTTTTTTTTCAATTTTTTCTTTATCTCTCTTTCTTTTTTTGCTCGA
Found at i:22422108 original size:22 final size:22
Alignment explanation
Indices: 22422065--22422129 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
22422055 CCTTTTTGAA
*
22422065 CCATTTCCATTTTCGTACCAAAT
1 CCATTACCA-TTTCGTACCAAAT
**
22422088 CCATTACCATTTCGTTTCAAAT
1 CCATTACCATTTCGTACCAAAT
* * *
22422110 CCCTTACCGTTTCATACCAA
1 CCATTACCATTTCGTACCAA
22422130 TTCCCAAATA
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
22 26 0.76
23 8 0.24
ACGTcount: A:0.26, C:0.32, G:0.05, T:0.37
Consensus pattern (22 bp):
CCATTACCATTTCGTACCAAAT
Found at i:22430859 original size:23 final size:23
Alignment explanation
Indices: 22430789--22430861 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
22430779 AATTTGTCTT
* *
22430789 TTCTGTGGAAGCCTTTATGGCTA
1 TTCTGTGGAAGCCTTTGTGGCTG
* *
22430812 TTATGTGGAAGCCTTTGTGGTTG
1 TTCTGTGGAAGCCTTTGTGGCTG
* *
22430835 TTCTGTGGAAGCCTTCGTAGCTG
1 TTCTGTGGAAGCCTTTGTGGCTG
22430858 TTCT
1 TTCT
22430862 AAATTGTGGA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.14, C:0.16, G:0.29, T:0.41
Consensus pattern (23 bp):
TTCTGTGGAAGCCTTTGTGGCTG
Found at i:22431086 original size:29 final size:30
Alignment explanation
Indices: 22430964--22431087 Score: 72
Period size: 30 Copynumber: 4.2 Consensus size: 30
22430954 ATAATCTAAC
* * * * *
22430964 ATGTGAGCCCTTGTGATGGGAACTTGCTAT
1 ATGTGAGCCCTTGTGGTAGAAACCTGGTAT
* * * * * *
22430994 GTGTGATCCCTTGTGGCA-AGAACTTGTTAC
1 ATGTGAGCCCTTGTGGTAGA-AACCTGGTAT
* *
22431024 ACGTGAGCCCTTGTGGTAGAAATCTGGTAT
1 ATGTGAGCCCTTGTGGTAGAAACCTGGTAT
* * * *
22431054 ATGTGAGCCTTTGTGGT-GGAACCTGTTGT
1 ATGTGAGCCCTTGTGGTAGAAACCTGGTAT
22431083 ATGTG
1 ATGTG
22431088 GAAGCCTTAT
Statistics
Matches: 70, Mismatches: 22, Indels: 5
0.72 0.23 0.05
Matches are distributed among these distances:
29 13 0.19
30 56 0.80
31 1 0.01
ACGTcount: A:0.19, C:0.16, G:0.31, T:0.34
Consensus pattern (30 bp):
ATGTGAGCCCTTGTGGTAGAAACCTGGTAT
Found at i:22431575 original size:20 final size:21
Alignment explanation
Indices: 22431550--22431589 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
22431540 ATGTTTGTTA
22431550 TGTATGCATGTAT-ATAATGT
1 TGTATGCATGTATGATAATGT
*
22431570 TGTATGTATGTATGATAATG
1 TGTATGCATGTATGATAATG
22431590 CCTTGCTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.30, C:0.03, G:0.23, T:0.45
Consensus pattern (21 bp):
TGTATGCATGTATGATAATGT
Found at i:22432974 original size:30 final size:29
Alignment explanation
Indices: 22432940--22433005 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 29
22432930 AGAAAGATGG
*
22432940 AAAATGGCAACTCT-GTTATGTCTGTAACGA
1 AAAATGGC-ACTCTCGTTATGTCTATAA-GA
* *
22432970 AAAATGGCAGTTTCGTTATGTCTATAAGA
1 AAAATGGCACTCTCGTTATGTCTATAAGA
22432999 AAAATGG
1 AAAATGG
22433006 TTAGTGTTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 12 0.38
30 20 0.62
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.30
Consensus pattern (29 bp):
AAAATGGCACTCTCGTTATGTCTATAAGA
Found at i:22433985 original size:21 final size:21
Alignment explanation
Indices: 22433961--22434005 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
22433951 AAATAAAAAC
* *
22433961 AAAATAATA-ATGACAATACTA
1 AAAATAAAATATG-CAATAATA
22433982 AAAATAAAATATGCAATAATA
1 AAAATAAAATATGCAATAATA
22434003 AAA
1 AAA
22434006 GCATGTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.67, C:0.07, G:0.04, T:0.22
Consensus pattern (21 bp):
AAAATAAAATATGCAATAATA
Found at i:22434217 original size:8 final size:8
Alignment explanation
Indices: 22434204--22434290 Score: 58
Period size: 8 Copynumber: 10.8 Consensus size: 8
22434194 AAGGAATAAT
22434204 AAATAAGA
1 AAATAAGA
*
22434212 AAATAAGT
1 AAATAAGA
22434220 AAATAA-A
1 AAATAAGA
22434227 TAAATAA-A
1 -AAATAAGA
22434235 AGAAT--GA
1 A-AATAAGA
22434242 AAATAAGA
1 AAATAAGA
22434250 AAATAAGCGA
1 AAATAA--GA
*
22434260 AGGAATAA-T
1 A--AATAAGA
22434269 AAATAAGA
1 AAATAAGA
*
22434277 AAATAAGT
1 AAATAAGA
22434285 AAATAA
1 AAATAA
22434291 ACAAATAAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 20
0.72 0.06 0.22
Matches are distributed among these distances:
6 3 0.05
7 8 0.12
8 44 0.69
9 1 0.02
10 3 0.05
12 5 0.08
ACGTcount: A:0.69, C:0.01, G:0.13, T:0.17
Consensus pattern (8 bp):
AAATAAGA
Found at i:22434259 original size:65 final size:65
Alignment explanation
Indices: 22434184--22434306 Score: 228
Period size: 65 Copynumber: 1.9 Consensus size: 65
22434174 ATTAAATATT
*
22434184 AAAAGAAGCGAAGGAATAATAAATAAGAAAATAAGTAAATAAATAAATAAAAGAATGAAAATAAG
1 AAAAGAAGCGAAGGAATAATAAATAAGAAAATAAGTAAATAAACAAATAAAAGAATGAAAATAAG
*
22434249 AAAATAAGCGAAGGAATAATAAATAAGAAAATAAGTAAATAAACAAATAAAAGAATGA
1 AAAAGAAGCGAAGGAATAATAAATAAGAAAATAAGTAAATAAACAAATAAAAGAATGA
22434307 TAATGAATAA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 56 1.00
ACGTcount: A:0.67, C:0.02, G:0.15, T:0.15
Consensus pattern (65 bp):
AAAAGAAGCGAAGGAATAATAAATAAGAAAATAAGTAAATAAACAAATAAAAGAATGAAAATAAG
Found at i:22434281 original size:12 final size:12
Alignment explanation
Indices: 22434201--22434282 Score: 60
Period size: 12 Copynumber: 6.4 Consensus size: 12
22434191 GCGAAGGAAT
22434201 AATAAATAAGAA
1 AATAAATAAGAA
*
22434213 AATAAGTAA-ATA
1 AATAAATAAGA-A
22434225 AATAAATAA-AA
1 AATAAATAAGAA
22434236 GAATGAAAATAAGAA
1 -AAT--AAATAAGAA
**
22434251 AATAAGCGAAGGAA
1 AATAA-ATAA-GAA
22434265 TAATAAATAAGAA
1 -AATAAATAAGAA
22434278 AATAA
1 AATAA
22434283 GTAAATAAAC
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
11 2 0.04
12 28 0.50
13 5 0.09
14 14 0.25
15 7 0.12
ACGTcount: A:0.70, C:0.01, G:0.12, T:0.17
Consensus pattern (12 bp):
AATAAATAAGAA
Found at i:22434298 original size:16 final size:15
Alignment explanation
Indices: 22434198--22434290 Score: 66
Period size: 16 Copynumber: 5.8 Consensus size: 15
22434188 GAAGCGAAGG
22434198 AATAATAAATAAGAA
1 AATAATAAATAAGAA
22434213 AATAAGTAAATAA-ATA
1 AATAA-TAAATAAGA-A
*
22434229 AATAA-AAGA-ATGAA
1 AATAATAA-ATAAGAA
*
22434243 AATAAGAAAATAAGCGAA
1 AATAA-TAAATAA--GAA
22434261 GGAATAATAAATAAGAA
1 --AATAATAAATAAGAA
22434278 AATAAGTAAATAA
1 AATAA-TAAATAA
22434291 ACAAATAAAA
Statistics
Matches: 63, Mismatches: 3, Indels: 23
0.71 0.03 0.26
Matches are distributed among these distances:
14 9 0.14
15 14 0.22
16 23 0.37
17 3 0.05
18 3 0.05
19 6 0.10
20 5 0.08
ACGTcount: A:0.69, C:0.01, G:0.12, T:0.18
Consensus pattern (15 bp):
AATAATAAATAAGAA
Found at i:22435537 original size:14 final size:14
Alignment explanation
Indices: 22435520--22435562 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
22435510 TATTTTTTTT
22435520 GTTTGGGTTGATTG
1 GTTTGGGTTGATTG
22435534 GTTT-GG-T--TT-
1 GTTTGGGTTGATTG
22435543 GTTTGGGTTGATTG
1 GTTTGGGTTGATTG
22435557 GTTTGG
1 GTTTGG
22435563 TTTATTTGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
9 4 0.17
10 4 0.17
11 1 0.04
12 1 0.04
13 4 0.17
14 10 0.42
ACGTcount: A:0.05, C:0.00, G:0.42, T:0.53
Consensus pattern (14 bp):
GTTTGGGTTGATTG
Found at i:22435547 original size:23 final size:23
Alignment explanation
Indices: 22435517--22435595 Score: 140
Period size: 23 Copynumber: 3.4 Consensus size: 23
22435507 ATCTATTTTT
22435517 TTTGTTTGGGTTGATTGGTTTGG
1 TTTGTTTGGGTTGATTGGTTTGG
22435540 TTTGTTTGGGTTGATTGGTTTGG
1 TTTGTTTGGGTTGATTGGTTTGG
* *
22435563 TTTATTTGGGCTGATTGGTTTGG
1 TTTGTTTGGGTTGATTGGTTTGG
22435586 TTTGTTTGGG
1 TTTGTTTGGG
22435596 CTCAGAAAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 53 1.00
ACGTcount: A:0.05, C:0.01, G:0.38, T:0.56
Consensus pattern (23 bp):
TTTGTTTGGGTTGATTGGTTTGG
Found at i:22436158 original size:44 final size:44
Alignment explanation
Indices: 22436014--22436238 Score: 243
Period size: 44 Copynumber: 5.1 Consensus size: 44
22436004 TTTGTAACTC
* *
22436014 GTAGCTTTAATCTGTTCCACTGCAACTTTTTGGGAAATAAGATTT
1 GTAGCTTTAATCTGCTCCACTGCAAC-TTTAGGGAAATAAGATTT
* * * *
22436059 GTAGCTTTAATCTACTCCACTACAACTTTCAAGGAAATAAGGTTT
1 GTAGCTTTAATCTGCTCCACTGCAACTTT-AGGGAAATAAGATTT
* *
22436104 GTAGCTTTAATCTGCTCCATTGCAACTTTAGGGAGATAAGATTT
1 GTAGCTTTAATCTGCTCCACTGCAACTTTAGGGAAATAAGATTT
* * * *
22436148 GTAGCTTTAATATGCTCCACTGTAACTTCAGGGAAATAAGATTC
1 GTAGCTTTAATCTGCTCCACTGCAACTTTAGGGAAATAAGATTT
* * * * * * ** *
22436192 GCAACTTCAATCCGCTCCACTACAACTTCAAAGAGATAAGATTT
1 GTAGCTTTAATCTGCTCCACTGCAACTTTAGGGAAATAAGATTT
22436236 GTA
1 GTA
22436239 ACTCCAATCT
Statistics
Matches: 149, Mismatches: 30, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
44 88 0.59
45 61 0.41
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.33
Consensus pattern (44 bp):
GTAGCTTTAATCTGCTCCACTGCAACTTTAGGGAAATAAGATTT
Found at i:22436809 original size:29 final size:25
Alignment explanation
Indices: 22436749--22436799 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
22436739 TTTTAGAATA
22436749 TTTAAGAATAGCATTGTCCTTTCTT
1 TTTAAGAATAGCATTGTCCTTTCTT
*
22436774 TTTAAGAATAGCATTGTCGTTTCTT
1 TTTAAGAATAGCATTGTCCTTTCTT
22436799 T
1 T
22436800 CTCTAGAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (25 bp):
TTTAAGAATAGCATTGTCCTTTCTT
Found at i:22441678 original size:20 final size:20
Alignment explanation
Indices: 22441627--22441683 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
22441617 CAACAACATC
22441627 AAAAAATA-AA-AATAAAAT
1 AAAAAATACAATAATAAAAT
* *
22441645 -AATAATGACGATAATAAAAT
1 AAAAAAT-ACAATAATAAAAT
22441665 AAAAAATACAATAATAAAA
1 AAAAAATACAATAATAAAA
22441684 GCATGTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
17 5 0.16
18 1 0.03
19 1 0.03
20 19 0.61
21 5 0.16
ACGTcount: A:0.74, C:0.04, G:0.04, T:0.19
Consensus pattern (20 bp):
AAAAAATACAATAATAAAAT
Found at i:22443083 original size:23 final size:23
Alignment explanation
Indices: 22443056--22443101 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
22443046 TTTTTTTGGA
22443056 TGATTGGTTTGGTTTCTTTGGGC
1 TGATTGGTTTGGTTTCTTTGGGC
22443079 TGATTGGTTTGGTTTCTTTGGGC
1 TGATTGGTTTGGTTTCTTTGGGC
22443102 CCAGATAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.04, C:0.09, G:0.35, T:0.52
Consensus pattern (23 bp):
TGATTGGTTTGGTTTCTTTGGGC
Found at i:22452429 original size:18 final size:18
Alignment explanation
Indices: 22452406--22452442 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
22452396 GGAAAAAGAA
*
22452406 ACATATAAGGGTTAGGAT
1 ACATATAAGGGCTAGGAT
22452424 ACATATAAGGGCTAGGAT
1 ACATATAAGGGCTAGGAT
22452442 A
1 A
22452443 TGCACCTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.41, C:0.08, G:0.27, T:0.24
Consensus pattern (18 bp):
ACATATAAGGGCTAGGAT
Found at i:22457664 original size:2 final size:2
Alignment explanation
Indices: 22457657--22457682 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22457647 AGGTCTTTTC
22457657 AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG
22457683 GTTTGTTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22460791 original size:6 final size:6
Alignment explanation
Indices: 22460782--22460809 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
22460772 AGGATTAAGA
22460782 CATGCT CATGCT CATGCT CATGCT CATG
1 CATGCT CATGCT CATGCT CATGCT CATG
22460810 TTACAGTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.32, G:0.18, T:0.32
Consensus pattern (6 bp):
CATGCT
Found at i:22461201 original size:135 final size:134
Alignment explanation
Indices: 22460960--22461202 Score: 432
Period size: 135 Copynumber: 1.8 Consensus size: 134
22460950 AACTGTTGAC
* *
22460960 TGCCAAAGCCAGCATTTGGATCTGATCATTATATAAAAACTTCGTCTTTCAGTTTTATCAGTCAA
1 TGCCAAAGCCAGCATTTGAATCTGATCATTATATAAAAACTTCGTCTATCAGTTTTATCAGTCAA
*
22461025 TGAGACAAAGATGTCAATTTCACTTTAGTTCGGGTTTTTGCATGACTTTCATATTCTCTCCCTTT
66 TGAGACAAAGATGTCAATTTCACTTTAGATCGGGTTTTTGCATGACTTTCATATTCTCTCCCTTT
22461090 TTTA
131 TTTA
*
22461094 TGCCAAAGCCAGCTTTTGAATCTGATCATTATATAAAAACTTCCGTCTATCAGTTTTATCAGTCA
1 TGCCAAAGCCAGCATTTGAATCTGATCATTATATAAAAACTT-CGTCTATCAGTTTTATCAGTCA
*
22461159 ATGAGACAAAGATGTCAATTTTACTTTAGATCGGGTTTTTGCAT
65 ATGAGACAAAGATGTCAATTTCACTTTAGATCGGGTTTTTGCAT
22461203 TTTGTTTTAG
Statistics
Matches: 103, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
134 40 0.39
135 63 0.61
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.39
Consensus pattern (134 bp):
TGCCAAAGCCAGCATTTGAATCTGATCATTATATAAAAACTTCGTCTATCAGTTTTATCAGTCAA
TGAGACAAAGATGTCAATTTCACTTTAGATCGGGTTTTTGCATGACTTTCATATTCTCTCCCTTT
TTTA
Found at i:22461619 original size:9 final size:9
Alignment explanation
Indices: 22461605--22461630 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
22461595 TTTATTTTTA
22461605 AAAATATTT
1 AAAATATTT
22461614 AAAATATTT
1 AAAATATTT
22461623 AAAATATT
1 AAAATATT
22461631 AATATAAAAT
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AAAATATTT
Found at i:22461719 original size:29 final size:30
Alignment explanation
Indices: 22461687--22461743 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
22461677 ATTATTTATT
22461687 TTTAGATA-TTTAATAAATTA-TTAATATAA
1 TTTA-ATATTTTAATAAATTATTTAATATAA
* *
22461716 TTTATTATTTTAGTAAATTATTTAATAT
1 TTTAATATTTTAATAAATTATTTAATAT
22461744 TTTAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 15 0.62
30 7 0.29
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (30 bp):
TTTAATATTTTAATAAATTATTTAATATAA
Found at i:22461893 original size:15 final size:15
Alignment explanation
Indices: 22461828--22461895 Score: 50
Period size: 15 Copynumber: 4.4 Consensus size: 15
22461818 ATATTATTTA
22461828 AAATAT-TTAAT-AT
1 AAATATATTAATAAT
* * *
22461841 TAATATTTTGATAAT
1 AAATATATTAATAAT
*
22461856 AAATATTTATTACAATTAT
1 AAATA--TATT--AATAAT
22461875 AAATATATTAATAAT
1 AAATATATTAATAAT
22461890 AAATAT
1 AAATAT
22461896 TTTGTAGTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
13 5 0.12
14 4 0.10
15 17 0.40
17 7 0.17
19 9 0.21
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (15 bp):
AAATATATTAATAAT
Found at i:22466742 original size:22 final size:21
Alignment explanation
Indices: 22466714--22466765 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
22466704 AAGGTGGAAG
* *
22466714 TTATGTGGTAGTTTATCTACGA
1 TTATGTGGTAG-TTATCGACAA
**
22466736 TTATGTGGCCGTTATCGACAA
1 TTATGTGGTAGTTATCGACAA
22466757 TTATGTGGT
1 TTATGTGGT
22466766 GGCTTGTCCA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.21, C:0.12, G:0.25, T:0.42
Consensus pattern (21 bp):
TTATGTGGTAGTTATCGACAA
Found at i:22481870 original size:21 final size:21
Alignment explanation
Indices: 22481837--22481897 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
22481827 ATTGGGTGAA
*
22481837 TCAACTTTTACGAGCTTCTGT
1 TCAACTCTTACGAGCTTCTGT
*
22481858 TCAGCTCTTACGAGCTTCTGT
1 TCAACTCTTACGAGCTTCTGT
22481879 TCAACTCTTACGAGCTTCT
1 TCAACTCTTACGAGCTTCT
22481898 ATTGACATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.18, C:0.28, G:0.15, T:0.39
Consensus pattern (21 bp):
TCAACTCTTACGAGCTTCTGT
Found at i:22484679 original size:21 final size:22
Alignment explanation
Indices: 22484650--22484694 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
22484640 CTGATTGTAG
*
22484650 TTCTGCTA-CTGTTGATTATAAT
1 TTCTGCTACCTG-GGATTATAAT
22484672 TTCT-CTACCTGGGATTATAAT
1 TTCTGCTACCTGGGATTATAAT
22484693 TT
1 TT
22484695 TCCTAAGTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.22, C:0.16, G:0.13, T:0.49
Consensus pattern (22 bp):
TTCTGCTACCTGGGATTATAAT
Found at i:22488235 original size:15 final size:16
Alignment explanation
Indices: 22488215--22488244 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22488205 AACTAATATA
22488215 TATATAAT-TATATTT
1 TATATAATATATATTT
22488230 TATATAATATATATT
1 TATATAATATATATT
22488245 AATTGTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATAATATATATTT
Found at i:22496620 original size:44 final size:43
Alignment explanation
Indices: 22496572--22496659 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 43
22496562 AGGGTAAATC
* * *
22496572 CAACAACCCATGTTTATCTTTTCCTATTTTTAAATTCTTCTTTT
1 CAACAACCCAAGATTATCTTCTCCTATTTTTAAATTCTT-TTTT
*
22496616 CAACAACCCAAGATTATCTTCTCCTATTTTTTAATTCTTTTTT
1 CAACAACCCAAGATTATCTTCTCCTATTTTTAAATTCTTTTTT
22496659 C
1 C
22496660 TAGGATAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 5 0.12
44 35 0.88
ACGTcount: A:0.24, C:0.24, G:0.02, T:0.50
Consensus pattern (43 bp):
CAACAACCCAAGATTATCTTCTCCTATTTTTAAATTCTTTTTT
Found at i:22505544 original size:17 final size:17
Alignment explanation
Indices: 22505522--22505579 Score: 116
Period size: 17 Copynumber: 3.4 Consensus size: 17
22505512 AGCAATGATG
22505522 CATTGCTAGATGCCACT
1 CATTGCTAGATGCCACT
22505539 CATTGCTAGATGCCACT
1 CATTGCTAGATGCCACT
22505556 CATTGCTAGATGCCACT
1 CATTGCTAGATGCCACT
22505573 CATTGCT
1 CATTGCT
22505580 TGTATTATTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 41 1.00
ACGTcount: A:0.22, C:0.29, G:0.17, T:0.31
Consensus pattern (17 bp):
CATTGCTAGATGCCACT
Found at i:22505979 original size:49 final size:50
Alignment explanation
Indices: 22505884--22505986 Score: 118
Period size: 51 Copynumber: 2.1 Consensus size: 50
22505874 AAATATGGTA
** * *
22505884 GTTATAATTCTCTTTGGAAAGAATATAATGTTTTTTTAATATTTTCCACAT
1 GTTATAATTCTCTTTGGAAAGAATATAA-GCATGTTTAATACTTTCCACAT
* * * *
22505935 GTTATAATTCTTTTTGGAAAGAGTATAA-CATGTTTAATGCTTTCCATAT
1 GTTATAATTCTCTTTGGAAAGAATATAAGCATGTTTAATACTTTCCACAT
22505984 GTT
1 GTT
22505987 CTCTATAAGA
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
49 18 0.41
51 26 0.59
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.48
Consensus pattern (50 bp):
GTTATAATTCTCTTTGGAAAGAATATAAGCATGTTTAATACTTTCCACAT
Found at i:22510748 original size:12 final size:11
Alignment explanation
Indices: 22510731--22510787 Score: 53
Period size: 12 Copynumber: 4.9 Consensus size: 11
22510721 AAAATCATTT
22510731 TATTTAAACTAA
1 TATTTAAA-TAA
22510743 TATTTAAAT-A
1 TATTTAAATAA
**
22510753 TATTTATTAATTC
1 TATTTA--AATAA
22510766 TATTTAAACTAA
1 TATTTAAA-TAA
22510778 TATTTAAATA
1 TATTTAAATA
22510788 TTTAAATATG
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.18
11 5 0.13
12 20 0.53
13 6 0.16
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (11 bp):
TATTTAAATAA
Found at i:22510805 original size:35 final size:35
Alignment explanation
Indices: 22510722--22510810 Score: 117
Period size: 35 Copynumber: 2.5 Consensus size: 35
22510712 TTTCGAGCAA
*
22510722 AAATCATTTTATTTAAACTAATATTTAAATATATT
1 AAATAATTTTATTTAAACTAATATTTAAATATATT
* * *
22510757 TATTAATTCTATTTAAACTAATATTTAAATAT-TT
1 AAATAATTTTATTTAAACTAATATTTAAATATATT
*
22510791 AAATATGTTTTATTTAAACT
1 AAATA-ATTTTATTTAAACT
22510811 TAATTATTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
34 5 0.11
35 40 0.89
ACGTcount: A:0.43, C:0.06, G:0.01, T:0.51
Consensus pattern (35 bp):
AAATAATTTTATTTAAACTAATATTTAAATATATT
Found at i:22510818 original size:58 final size:57
Alignment explanation
Indices: 22510743--22510954 Score: 305
Period size: 58 Copynumber: 3.8 Consensus size: 57
22510733 TTTAAACTAA
22510743 TATTTAAA-TATATTTATTAATTCTATTTAAACTAATATTTAAATATTTAAATATGTTT
1 TATTTAAACT-TATTTATTAATTCTATTTAAACTAATATTTAAATATTTAAATAT-TTT
* *
22510801 TATTTAAACTTAATTATTATTTCTATTTAAACTAATATTTAAATATTTAAATATATTT
1 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATATTTAAATAT-TTT
*
22510859 TATTTAAAATTATTTATTAATTCTATTTAAACTAATATTT-AA-A--T--ATA-TTT
1 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATATTTAAATATTTT
*
22510909 TATTTAAACTTATTTATTAATTCTATTTAAATTAATATTTAAATAT
1 TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATAT
22510955 ATCAAATGGT
Statistics
Matches: 142, Mismatches: 8, Indels: 13
0.87 0.05 0.08
Matches are distributed among these distances:
50 41 0.29
51 2 0.01
52 4 0.03
54 1 0.01
56 1 0.01
57 2 0.01
58 90 0.63
59 1 0.01
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (57 bp):
TATTTAAACTTATTTATTAATTCTATTTAAACTAATATTTAAATATTTAAATATTTT
Found at i:22510844 original size:50 final size:50
Alignment explanation
Indices: 22510784--22510956 Score: 229
Period size: 50 Copynumber: 3.3 Consensus size: 50
22510774 CTAATATTTA
* * *
22510784 AATATTTAAATATGTTTTATTTAAACTTAATTATTATTTCTATTTAAACTAATATTT
1 AATATTTAAATATATTTTATTTAAACTTATTTATTAATTCTATTTAAAC-------T
*
22510841 AAATATTTAAATATATTTTATTTAAAATTATTTATTAATTCTATTTAAACT
1 -AATATTTAAATATATTTTATTTAAACTTATTTATTAATTCTATTTAAACT
*
22510892 AATATTTAAATATATTTTATTTAAACTTATTTATTAATTCTATTTAAATT
1 AATATTTAAATATATTTTATTTAAACTTATTTATTAATTCTATTTAAACT
22510942 AATATTTAAATATAT
1 AATATTTAAATATAT
22510957 CAAATGGTTT
Statistics
Matches: 109, Mismatches: 6, Indels: 8
0.89 0.05 0.07
Matches are distributed among these distances:
50 63 0.58
51 1 0.01
58 45 0.41
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.54
Consensus pattern (50 bp):
AATATTTAAATATATTTTATTTAAACTTATTTATTAATTCTATTTAAACT
Found at i:22510863 original size:23 final size:23
Alignment explanation
Indices: 22510836--22510956 Score: 77
Period size: 25 Copynumber: 4.9 Consensus size: 23
22510826 TTTAAACTAA
22510836 TATTTAAATATTTAAATATATTT
1 TATTTAAATATTTAAATATATTT
* *
22510859 TATTTAAAATTATTT-ATTA-ATTC
1 TATTT-AAA-TATTTAAATATATTT
22510882 TATTTAAACTAATATTTAAATATATTT
1 TATTT--A--AATATTTAAATATATTT
*
22510909 TATTTAAACTTATTTATTAATTCTATTT
1 TATTTAAA--TATTTA--AA-TATATTT
* *
22510937 AAATT-AATATTTAAATATAT
1 TATTTAAATATTTAAATATAT
22510957 CAAATGGTTT
Statistics
Matches: 78, Mismatches: 8, Indels: 25
0.70 0.07 0.23
Matches are distributed among these distances:
22 4 0.05
23 17 0.22
24 8 0.10
25 23 0.29
26 5 0.06
27 12 0.15
28 9 0.12
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTTAAATATTTAAATATATTT
Found at i:22511357 original size:27 final size:27
Alignment explanation
Indices: 22511326--22511381 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
22511316 CCAACCATTA
**
22511326 AACCCCTAAACCCTAACCTGAATCCCT
1 AACCCCTAAACCCTAACCCAAATCCCT
*
22511353 AACCCCTAAACTCTAACCCAAATCCCT
1 AACCCCTAAACCCTAACCCAAATCCCT
22511380 AA
1 AA
22511382 ACCAATTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.43, G:0.02, T:0.18
Consensus pattern (27 bp):
AACCCCTAAACCCTAACCCAAATCCCT
Found at i:22511363 original size:35 final size:36
Alignment explanation
Indices: 22511281--22511374 Score: 97
Period size: 35 Copynumber: 2.7 Consensus size: 36
22511271 CCCATAAAGT
*
22511281 CTAACCCCCAAACCCCTAACCCAAAACCTTAAATCC
1 CTAACCCCTAAACCCCTAACCCAAAACCTTAAATCC
** * *
22511317 C-AACCATTAAACCCCTAAACCC-TAACC-TGAATCC
1 CTAACCCCTAAACCCCT-AACCCAAAACCTTAAATCC
*
22511351 CTAACCCCTAAA-CTCTAACCCAAA
1 CTAACCCCTAAACCCCTAACCCAAA
22511375 TCCCTAAACC
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
33 5 0.11
34 11 0.24
35 24 0.52
36 6 0.13
ACGTcount: A:0.39, C:0.44, G:0.01, T:0.16
Consensus pattern (36 bp):
CTAACCCCTAAACCCCTAACCCAAAACCTTAAATCC
Found at i:22511462 original size:81 final size:74
Alignment explanation
Indices: 22511351--22511516 Score: 188
Period size: 74 Copynumber: 2.1 Consensus size: 74
22511341 ACCTGAATCC
* * * * *
22511351 CTAACCCCTAAACTCTAACCCAAATCCCTAAACCAATTAAATAAGCTTATTTAATATATAAATTA
1 CTAAACCCTAAACCCTAACCCAAATACCT-AACC-ACT--A-AACCTTATTT-A-ATATAAATTA
22511416 AAAAACACTAATTAAT
59 AAAAACACTAATTAAT
* * * *
22511432 CTAAACCCTAAACCCTAACCCGAATACCTAACCCCTAAACCTTATTTAATATAAATTAAAACATA
1 CTAAACCCTAAACCCTAACCCAAATACCTAACCACTAAACCTTATTTAATATAAATTAAAAAACA
22511497 CTAATTAAT
66 CTAATTAAT
22511506 CTAAACCCTAA
1 CTAAACCCTAA
22511517 CCTAACATCA
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
74 35 0.46
75 1 0.01
76 9 0.12
77 1 0.01
79 1 0.01
80 4 0.05
81 25 0.33
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.27
Consensus pattern (74 bp):
CTAAACCCTAAACCCTAACCCAAATACCTAACCACTAAACCTTATTTAATATAAATTAAAAAACA
CTAATTAAT
Found at i:22511617 original size:14 final size:15
Alignment explanation
Indices: 22511598--22511630 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
22511588 CTTAAACCAA
22511598 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
22511612 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
22511627 AATC
1 AATC
22511631 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:22512090 original size:41 final size:41
Alignment explanation
Indices: 22512027--22512385 Score: 406
Period size: 41 Copynumber: 8.7 Consensus size: 41
22512017 AAATTTTTTT
* *
22512027 GCGGCACTTTTTCAAAAACGCCGCTAAAGCACCGAGAATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGAGCATTA
* * * *
22512068 GCGGTGCTTTTCCAAAAACGCCGCAAAAAG-ACTAGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGC-TAAAGCAC-CGAGCATTA
* *
22512110 GCGGCGC-TTTTCTAAAAATGCCGCTAAAG-ACTAGAGCATTA
1 GCGGCGCTTTTTC-AAAAACGCCGCTAAAGCAC-CGAGCATTA
* *
22512151 GCGGCGCTTTTTTAAAAACGCCGCCAAAGTC-CCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAG-CACCGAGCATTA
**
22512192 GCGGCGCTTTTTCAAAAACATCGCTAAAG-ACCAGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCACC-GAGCATTA
* * *
22512233 ACGGTGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGAGCATTA
* *
22512274 GCGGTGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGAGCATTA
* * * *
22512315 GCGGTGCTTTTTCAAAAATGCCGCTAACGTC-CGGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAG-CACCGAGCATTA
* *
22512356 GCGGCGCTTTTTCAAAAACACCTCTAAAGC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGC
22512386 CTAGAAAGGT
Statistics
Matches: 276, Mismatches: 32, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
40 3 0.01
41 238 0.86
42 35 0.13
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGAGCATTA
Found at i:22512283 original size:123 final size:122
Alignment explanation
Indices: 22512027--22512386 Score: 461
Period size: 123 Copynumber: 2.9 Consensus size: 122
22512017 AAATTTTTTT
* * *
22512027 GCGGCACTTTTTCAAAAACGCCGCTAAAGCACCGAGAATTAGCGGTGCTTTTCCAAAAACGCCGC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGC-CCGAGCATTAGCGGTGCTTTTTCAAAAACGCCGC
* * * * *
22512092 AAAAAGACTAGAGCATTAGCGGCGC-TTTTCTAAAAATGCCGCTAAAGACTAGAGCATTA
65 -TAAAGACCAGAGCATTAGCGGCGCTTTTTC-AAAAACGCCGCTAAAGCCCAGAGCATTA
* * * **
22512151 GCGGCGCTTTTTTAAAAACGCCGCCAAAGTCCCGAGCATTAGCGGCGCTTTTTCAAAAACATCGC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAG-CCCGAGCATTAGCGGTGCTTTTTCAAAAACGCCGC
* * *
22512216 TAAAGACCAGAGCATTAACGGTGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
65 TAAAGACCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCAGAGCATTA
* *
22512274 GCGGTGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGTGCTTTTTCAAAAATGCCGC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAG-CCCGAGCATTAGCGGTGCTTTTTCAAAAACGCCGC
* * * * *
22512339 TAACGTCCGGAGCATTAGCGGCGCTTTTTCAAAAACACCTCTAAAGCC
65 TAAAGACCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCC
22512387 TAGAAAGGTC
Statistics
Matches: 203, Mismatches: 31, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
123 142 0.70
124 60 0.30
125 1 0.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (122 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCGAGCATTAGCGGTGCTTTTTCAAAAACGCCGCT
AAAGACCAGAGCATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCAGAGCATTA
Found at i:22512385 original size:82 final size:82
Alignment explanation
Indices: 22512027--22512386 Score: 454
Period size: 82 Copynumber: 4.4 Consensus size: 82
22512017 AAATTTTTTT
* * *
22512027 GCGGCACTTTTTCAAAAACGCCGCTAAAGCACC-GAGAATTAGCGGTGCTTTTCCAAAAACGCCG
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGC-CCAGAGCATTAGCGGTGCTTTTTCAAAAACGCCG
* * **
22512091 CAAAAAGACTAGAGCATTA
65 C-TAAAGTCCCGAGCATTA
* * * * *
22512110 GCGGCGC-TTTTCTAAAAATGCCGCTAAAGACTAGAGCATTAGCGGCGCTTTTTTAAAAACGCCG
1 GCGGCGCTTTTTC-AAAAACGCCGCTAAAGCCCAGAGCATTAGCGGTGCTTTTTCAAAAACGCCG
*
22512174 CCAAAGTCCCGAGCATTA
65 CTAAAGTCCCGAGCATTA
** * *
22512192 GCGGCGCTTTTTCAAAAACATCGCTAAAGACCAGAGCATTAACGGTGCTTTTTCAAAAACGCCGC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCAGAGCATTAGCGGTGCTTTTTCAAAAACGCCGC
*
22512257 TAAAGCCCCGAGCATTA
66 TAAAGTCCCGAGCATTA
* * *
22512274 GCGGTGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGGTGCTTTTTCAAAAATGCCGC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCAGAGCATTAGCGGTGCTTTTTCAAAAACGCCGC
* *
22512339 TAACGTCCGGAGCATTA
66 TAAAGTCCCGAGCATTA
* *
22512356 GCGGCGCTTTTTCAAAAACACCTCTAAAGCC
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCC
22512387 TAGAAAGGTC
Statistics
Matches: 240, Mismatches: 34, Indels: 7
0.85 0.12 0.02
Matches are distributed among these distances:
82 186 0.77
83 54 0.22
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (82 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCAGAGCATTAGCGGTGCTTTTTCAAAAACGCCGC
TAAAGTCCCGAGCATTA
Found at i:22519691 original size:19 final size:18
Alignment explanation
Indices: 22519669--22519722 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 18
22519659 GGATGAGCAA
22519669 GAAAAGAAAAATGAAAAAT
1 GAAAAGAAAAA-GAAAAAT
*
22519688 GAAAAG-AAGAGAAAAAT
1 GAAAAGAAAAAGAAAAAT
22519705 GACAAAGAAAAAGAAAAA
1 GA-AAAGAAAAAGAAAAA
22519723 GAGTCAGAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 9 0.29
18 7 0.23
19 15 0.48
ACGTcount: A:0.74, C:0.02, G:0.19, T:0.06
Consensus pattern (18 bp):
GAAAAGAAAAAGAAAAAT
Found at i:22519694 original size:24 final size:24
Alignment explanation
Indices: 22519667--22519721 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
22519657 ACGGATGAGC
22519667 AAGAAAAGAAAAATGAAAAATG-AA
1 AAGAAAAGAAAAATGAAAAA-GAAA
* *
22519691 AAGAAGAGAAAAATGACAAAGAAA
1 AAGAAAAGAAAAATGAAAAAGAAA
22519715 AAGAAAA
1 AAGAAAA
22519722 AGAGTCAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 1 0.04
24 26 0.96
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.05
Consensus pattern (24 bp):
AAGAAAAGAAAAATGAAAAAGAAA
Found at i:22519722 original size:6 final size:6
Alignment explanation
Indices: 22519670--22519724 Score: 51
Period size: 6 Copynumber: 9.0 Consensus size: 6
22519660 GATGAGCAAG
* *
22519670 AAAAGA AAAATGA AAAATG- AAAAG- AAGAGA AAAATGA CAAAGA AAAAGA
1 AAAAGA AAAA-GA AAAA-GA AAAAGA AAAAGA AAAA-GA AAAAGA AAAAGA
22519719 AAAAGA
1 AAAAGA
22519725 GTCAGAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
5 5 0.12
6 24 0.57
7 13 0.31
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.05
Consensus pattern (6 bp):
AAAAGA
Found at i:22521913 original size:20 final size:20
Alignment explanation
Indices: 22521885--22521924 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
22521875 TTAAATAGGT
*
22521885 GGCTAGACATTCATTTATGC
1 GGCTAGACATTCATTCATGC
*
22521905 GGCTGGACATTCATTCATGC
1 GGCTAGACATTCATTCATGC
22521925 ATGTTGCCGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.33
Consensus pattern (20 bp):
GGCTAGACATTCATTCATGC
Found at i:22529643 original size:14 final size:14
Alignment explanation
Indices: 22529624--22529656 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
22529614 TTGCCATTTT
22529624 CCAATATTTAATTA
1 CCAATATTTAATTA
22529638 CCAATATTTAATTA
1 CCAATATTTAATTA
22529652 CCAAT
1 CCAAT
22529657 TGTAACACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (14 bp):
CCAATATTTAATTA
Found at i:22531077 original size:22 final size:22
Alignment explanation
Indices: 22531046--22531093 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
22531036 AATCTTTAAA
*
22531046 ATTAATTTTTTTAAAATATTTT
1 ATTAAATTTTTTAAAATATTTT
* *
22531068 ATTAAATTTTTTAGATTATTTT
1 ATTAAATTTTTTAAAATATTTT
22531090 -TTAA
1 ATTAA
22531094 TCGATTTTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
ATTAAATTTTTTAAAATATTTT
Found at i:22534711 original size:37 final size:36
Alignment explanation
Indices: 22534636--22534762 Score: 123
Period size: 37 Copynumber: 3.4 Consensus size: 36
22534626 AGTACAGTAG
* *
22534636 TTCAGTATATTTAATAGATAATACTCGATTGAGC-TTA
1 TTCAGTATA-TCAATAGATAACACTCG-TTGAGCTTTA
*
22534673 TTCAGTATATCAATAAATAACACTCAGTTGAGCTTTA
1 TTCAGTATATCAATAGATAACACTC-GTTGAGCTTTA
* * * *
22534710 TTCAGTATATTAGTAGATATCGCTCGGTTGAGCTTTA
1 TTCAGTATATCAATAGATAACACTC-GTTGAGCTTTA
*
22534747 GTC-GATATATCAATAG
1 TTCAG-TATATCAATAG
22534763 GTAATGCTCA
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
36 20 0.27
37 55 0.73
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (36 bp):
TTCAGTATATCAATAGATAACACTCGTTGAGCTTTA
Found at i:22534777 original size:37 final size:37
Alignment explanation
Indices: 22534664--22534778 Score: 110
Period size: 37 Copynumber: 3.1 Consensus size: 37
22534654 TAATACTCGA
* * * *
22534664 TTGAGC-TTATTCAGTATATCAATAAATAACACTCAG
1 TTGAGCTTTAGTCAGTATATCAATAGATATCGCTCAG
* * * *
22534700 TTGAGCTTTATTCAGTATATTAGTAGATATCGCTCGG
1 TTGAGCTTTAGTCAGTATATCAATAGATATCGCTCAG
*
22534737 TTGAGCTTTAGTC-GATATATCAATAGGTAAT-GCTCAG
1 TTGAGCTTTAGTCAG-TATATCAATAGAT-ATCGCTCAG
22534774 TTGAG
1 TTGAG
22534779 TAACACTCAA
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
36 7 0.11
37 56 0.86
38 2 0.03
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (37 bp):
TTGAGCTTTAGTCAGTATATCAATAGATATCGCTCAG
Found at i:22536249 original size:40 final size:40
Alignment explanation
Indices: 22536174--22536258 Score: 118
Period size: 41 Copynumber: 2.1 Consensus size: 40
22536164 AAATTGGCAA
* *
22536174 GGGAGGAGAGCATTGAAAAAAGAAAATAGAAGAATAAATAG
1 GGGATGAGAGAATTGAAAAAAGAAAATAGAAGAATAAAT-G
* *
22536215 GGGATGAGAGAATTGAAAAAAGATAAT-GAGGAATAAATG
1 GGGATGAGAGAATTGAAAAAAGAAAATAGAAGAATAAATG
22536254 GGGAT
1 GGGAT
22536259 AATACGTAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
39 6 0.15
40 10 0.25
41 24 0.60
ACGTcount: A:0.52, C:0.01, G:0.32, T:0.15
Consensus pattern (40 bp):
GGGATGAGAGAATTGAAAAAAGAAAATAGAAGAATAAATG
Found at i:22536345 original size:22 final size:22
Alignment explanation
Indices: 22536313--22536360 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
22536303 ATTAATATTT
22536313 TAATATATTAAATCA-TTAAATA
1 TAATATATTAAAT-ATTTAAATA
* *
22536335 TAATATTTTAAATATTTTAATA
1 TAATATATTAAATATTTAAATA
22536357 TAAT
1 TAAT
22536361 TCAATATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
TAATATATTAAATATTTAAATA
Found at i:22536385 original size:39 final size:39
Alignment explanation
Indices: 22536302--22536385 Score: 102
Period size: 39 Copynumber: 2.2 Consensus size: 39
22536292 AGTATTGAAT
*
22536302 TATT-AATATTTTAATATATTAAATCATTAAATATAATA
1 TATTAAATATTTTAATATATTAAATCATTAAAAATAATA
* *
22536340 TTTTAAATATTTTAATATAATTCAAT-A-TAAAAATAACTA
1 TATTAAATATTTTAATAT-ATTAAATCATTAAAAATAA-TA
22536379 TATTAAA
1 TATTAAA
22536386 AATATTATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
38 11 0.28
39 22 0.56
40 6 0.15
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (39 bp):
TATTAAATATTTTAATATATTAAATCATTAAAAATAATA
Found at i:22541147 original size:126 final size:126
Alignment explanation
Indices: 22540623--22541145 Score: 773
Period size: 126 Copynumber: 4.2 Consensus size: 126
22540613 TAAGGTCAAG
* *
22540623 CAAGAACTACTGTAGAAAAAGAGCGTCCACA-TGAGAGTTTTTTTTAATACTTTTGCTGACAGTG
1 CAAGAACTACTGTAGAAAAAGAGCGTCCA-AGTGGGAGCTTTTTTTAATACTTTTGCTGACAGTG
* *
22540687 CATCCTGCTTGAAGCATTTTTGACGCTATTTTTTCAGAACCGTCTTTTCAAAATTATTTTTT
65 CATCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
* ** * * *
22540749 CAGGAACTACT-TAGAAAAAGAGCGTTTAAGTGGGAGCTTTTTTCAATACTTTTGTTGACAATGC
1 CAAGAACTACTGTAGAAAAAGAGCGTCCAAGTGGGAGCTTTTTTTAATACTTTTGCTGACAGTGC
*
22540813 ATCCTACTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * * * *
22540874 CAAGAACTATTGTAGAAAAAGAGCGTCTAAGTGGGAGCTTTTTTGAGTTCTTTTGCTGACAGTGC
1 CAAGAACTACTGTAGAAAAAGAGCGTCCAAGTGGGAGCTTTTTTTAATACTTTTGCTGACAGTGC
* * *
22540939 ATCCTGCTTGAAGCGTTTTTGTCACTATTTTTTCAAAACCGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * * * *
22541000 CAAGAACTACTGTAGAAAAAAAGTGTCCAAGTGGGAGATTTTTTTAGTACTTTTGCTTACAGTGC
1 CAAGAACTACTGTAGAAAAAGAGCGTCCAAGTGGGAGCTTTTTTTAATACTTTTGCTGACAGTGC
* *
22541065 ATCCTGCTTGAAGCGTTTTTGTCACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
66 ATCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
22541126 C-AGAAACTACTGTAGAAAAA
1 CAAG-AACTACTGTAGAAAAA
22541146 AACAAAATCC
Statistics
Matches: 362, Mismatches: 32, Indels: 6
0.90 0.08 0.01
Matches are distributed among these distances:
124 1 0.00
125 113 0.31
126 248 0.69
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.38
Consensus pattern (126 bp):
CAAGAACTACTGTAGAAAAAGAGCGTCCAAGTGGGAGCTTTTTTTAATACTTTTGCTGACAGTGC
ATCCTGCTTGAAGCATTTTTGACACTATTTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
Found at i:22541283 original size:34 final size:35
Alignment explanation
Indices: 22541244--22541328 Score: 145
Period size: 34 Copynumber: 2.4 Consensus size: 35
22541234 TTTAAAATTT
22541244 CTAAACCCTAATTTAATTAATTTTT-AAAAAAATC
1 CTAAACCCTAATTTAATTAATTTTTAAAAAAAATC
*
22541278 TTAAACCCTAATTTAATTAATTTTTAAAAAAAAATC
1 CTAAACCCTAATTTAATTAATTTTT-AAAAAAAATC
22541314 CTAAACCCTAATTTA
1 CTAAACCCTAATTTA
22541329 TTTTTTAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
34 24 0.51
36 23 0.49
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.38
Consensus pattern (35 bp):
CTAAACCCTAATTTAATTAATTTTTAAAAAAAATC
Found at i:22541338 original size:27 final size:28
Alignment explanation
Indices: 22541308--22541367 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
22541298 TTTTTAAAAA
22541308 AAAAT-CCTAAACCCTAATTTATTTTTT
1 AAAATCCCTAAACCCTAATTTATTTTTT
*
22541335 AAAATCCCTAAACCTTAATTTATTTTTT
1 AAAATCCCTAAACCCTAATTTATTTTTT
22541363 AAAAT
1 AAAAT
22541368 ATCTAACCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 5 0.16
28 26 0.84
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (28 bp):
AAAATCCCTAAACCCTAATTTATTTTTT
Found at i:22541375 original size:27 final size:28
Alignment explanation
Indices: 22541308--22541384 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
22541298 TTTTTAAAAA
*
22541308 AAAAT-CCTAAACCCTAATTTATTTTTT
1 AAAATACCTAAACCATAATTTATTTTTT
* *
22541335 AAAATCCCTAAACCTTAATTTATTTTTT
1 AAAATACCTAAACCATAATTTATTTTTT
* *
22541363 AAAATATCT-AACCATAAATTAT
1 AAAATACCTAAACCATAATTTAT
22541385 AAACTCTAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 16 0.36
28 28 0.64
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (28 bp):
AAAATACCTAAACCATAATTTATTTTTT
Found at i:22554179 original size:41 final size:41
Alignment explanation
Indices: 22554122--22554203 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
22554112 GGTGAGACAT
22554122 CCTTTATTACCTTCATATTCTTTTATCCTCCACTTGTATGA
1 CCTTTATTACCTTCATATTCTTTTATCCTCCACTTGTATGA
22554163 CCTTTATTACCTTCATATTCTTTTATCCTCCACTTGTATGA
1 CCTTTATTACCTTCATATTCTTTTATCCTCCACTTGTATGA
22554204 TCATCTTTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.20, C:0.27, G:0.05, T:0.49
Consensus pattern (41 bp):
CCTTTATTACCTTCATATTCTTTTATCCTCCACTTGTATGA
Found at i:22558386 original size:11 final size:10
Alignment explanation
Indices: 22558336--22558386 Score: 50
Period size: 10 Copynumber: 4.8 Consensus size: 10
22558326 TAACATGTTG
*
22558336 AATTTTAATT
1 AATTTTGATT
22558346 AATTTT-ATAAT
1 AATTTTGAT--T
22558357 AAATTTTGATT
1 -AATTTTGATT
22558368 AATTTTGATT
1 AATTTTGATT
22558378 AAGTTTTGA
1 AA-TTTTGA
22558387 CATATTCGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
9 2 0.06
10 18 0.50
11 8 0.22
12 6 0.17
13 2 0.06
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (10 bp):
AATTTTGATT
Found at i:22563375 original size:41 final size:42
Alignment explanation
Indices: 22563280--22563440 Score: 132
Period size: 41 Copynumber: 3.8 Consensus size: 42
22563270 AGCTCATACA
* * * * * *
22563280 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAGACATGGGCTTACACGTAA-CACAAATCG
* *
22563323 ATGCCACTGTCCCAGATA-GGGTCTTACACG-AA-ACAAATACG
1 ATGCCAATGTCCCAGACATGGG-CTTACACGTAACACAAAT-CG
* * *
22563364 ATGCCAATGTCCCAAACATGGGCTTACACGTAACACAAGTTG
1 ATGCCAATGTCCCAGACATGGGCTTACACGTAACACAAATCG
* * *
22563406 ATGCCAA-GTCCCAGACGTGGTCTTAGACGATAACA
1 ATGCCAATGTCCCAGACATGGGCTTACACG-TAACA
22563441 TATATTGAAA
Statistics
Matches: 95, Mismatches: 17, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
40 5 0.05
41 43 0.45
42 22 0.23
43 25 0.26
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGGCTTACACGTAACACAAATCG
Found at i:22566296 original size:41 final size:41
Alignment explanation
Indices: 22566172--22566358 Score: 241
Period size: 41 Copynumber: 4.6 Consensus size: 41
22566162 TTATTTCCTA
* * * *
22566172 AATTTCACATACGTGTCCCTATTTGTACCTTGGTACCCCTG
1 AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTG
* * * * *
22566213 AATTGCACATACGTG-TCCTATTTTTACTTCGGTACCCTTG
1 AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTG
*
22566253 AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACACCTG
1 AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTG
* * *
22566294 AATTGCACATATGTGCCCCTGTTTGTACTTTTGTACCCCTA
1 AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTG
*
22566335 AATTGCACATACGTGCCCATGTTT
1 AATTGCACATACGTGCCCCTGTTT
22566359 ACATTCTGGT
Statistics
Matches: 127, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
40 35 0.28
41 92 0.72
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (41 bp):
AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTG
Found at i:22566380 original size:82 final size:81
Alignment explanation
Indices: 22566168--22566358 Score: 222
Period size: 81 Copynumber: 2.3 Consensus size: 81
22566158 TTAATTATTT
* * * * * *
22566168 CCTAAATTTCACATACGTGTCCC-TATTTGTACCTTGGTACCCCTGAATTGCACATACGTGTCCT
1 CCTAAATTGCACATACGTG-CCCATGTTTGTACTTTGGTACACCTAAATTGCACATACGTGCCCT
*
22566232 ATTTTTACTTCGGTACC
65 ATTTGTACTTCGGTACC
* * * * *
22566249 CTTGAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACACCTGAATTGCACATATGTGCCCCT
1 CCTAAATTGCACATACGTGCCCATGTTTGTACTTTGGTACACCTAAATTGCACATACGTG-CCCT
* **
22566314 GTTTGTACTTTTGTACC
65 ATTTGTACTTCGGTACC
22566331 CCTAAATTGCACATACGTGCCCATGTTT
1 CCTAAATTGCACATACGTGCCCATGTTT
22566359 ACATTCTGGT
Statistics
Matches: 93, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
80 3 0.03
81 49 0.53
82 41 0.44
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (81 bp):
CCTAAATTGCACATACGTGCCCATGTTTGTACTTTGGTACACCTAAATTGCACATACGTGCCCTA
TTTGTACTTCGGTACC
Found at i:22573046 original size:18 final size:18
Alignment explanation
Indices: 22573020--22573078 Score: 82
Period size: 18 Copynumber: 3.3 Consensus size: 18
22573010 AAATTGAAAG
* *
22573020 AAAACAAAAAGAAAACGA
1 AAAAGAAAAAGAAATCGA
* *
22573038 AAAAGAAAAAGAAATTGC
1 AAAAGAAAAAGAAATCGA
22573056 AAAAGAAAAAGAAATCGA
1 AAAAGAAAAAGAAATCGA
22573074 AAAAG
1 AAAAG
22573079 TGAGAGAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.73, C:0.07, G:0.15, T:0.05
Consensus pattern (18 bp):
AAAAGAAAAAGAAATCGA
Found at i:22573048 original size:6 final size:6
Alignment explanation
Indices: 22573016--22573108 Score: 62
Period size: 6 Copynumber: 15.3 Consensus size: 6
22573006 AAAGAAATTG
* * ** *
22573016 AAAG-A AAACAA AAAGAA AACGAA AAAGAA AAAGAA ATTGCA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
** ** * *
22573063 AAAGAA ATCGAA AAAGTG AGAGAA AAAGAA AATGAAGA AAAGAA AA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAG-A-A AAAGAA AA
22573109 TTGAAAAGGA
Statistics
Matches: 63, Mismatches: 22, Indels: 5
0.70 0.24 0.06
Matches are distributed among these distances:
5 3 0.05
6 54 0.86
7 2 0.03
8 4 0.06
ACGTcount: A:0.72, C:0.04, G:0.18, T:0.05
Consensus pattern (6 bp):
AAAGAA
Found at i:22573139 original size:18 final size:18
Alignment explanation
Indices: 22573108--22573142 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22573098 AGAAAAGAAA
**
22573108 ATTGAAAAGGAAATTGAG
1 ATTGAAAAAAAAATTGAG
22573126 ATTGAAAAAAAAATTGA
1 ATTGAAAAAAAAATTGA
22573143 AAAAGTAAAA
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:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAAAAAAAAATTGAG
Found at i:22580421 original size:27 final size:27
Alignment explanation
Indices: 22580374--22580518 Score: 166
Period size: 27 Copynumber: 5.4 Consensus size: 27
22580364 CCCCAAAATA
* * *
22580374 GGTAAAATAACCAAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
22580401 GGTAAAATGACCGAAACACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
22580428 GGTAGAATGATCGAAATA-CCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * ** *
22580454 AGTAGAATGATTGAAATACCCCCATCG
1 GGTAAAATGACCGAAATACCCCCATAG
*
22580481 GGTAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
22580508 GATAAAATGAC
1 GGTAAAATGAC
22580519 TGTTATACCC
Statistics
Matches: 101, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 24 0.24
27 77 0.76
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCCATAG
Found at i:22580453 original size:53 final size:53
Alignment explanation
Indices: 22580387--22580518 Score: 174
Period size: 53 Copynumber: 2.5 Consensus size: 53
22580377 AAAATAACCA
*
22580387 AAATACCCTCATAGGGTAAAATGACCGAAACACCCCCATAGGGTAGAATGATCG
1 AAATACCC-CATAGGGTAAAATGACCGAAACACCCCCATAGGGTAAAATGATCG
* * ** * *
22580441 AAATACCCCATAGAGTAGAATGATTGAAATACCCCCATCGGGTAAAATGATCG
1 AAATACCCCATAGGGTAAAATGACCGAAACACCCCCATAGGGTAAAATGATCG
*
22580494 AAATACCCCCATAGGATAAAATGAC
1 AAATA-CCCCATAGGGTAAAATGAC
22580519 TGTTATACCC
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
53 43 0.65
54 23 0.35
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.18
Consensus pattern (53 bp):
AAATACCCCATAGGGTAAAATGACCGAAACACCCCCATAGGGTAAAATGATCG
Found at i:22587713 original size:91 final size:91
Alignment explanation
Indices: 22587565--22587746 Score: 256
Period size: 91 Copynumber: 2.0 Consensus size: 91
22587555 GAAATGATGG
** * * * * * *
22587565 ACGTCCCAACCTCGTTCGAAAGAAAAGTTATGTCGACATCTAGACAAGTAAGAAGGGAGAGCAGT
1 ACGTCCCAACCTCACTCAAAAGAAAAGTTATATCAACATCTAAACAAGAAAGAAGGGAGAGAAGT
*
22587630 AGTGCAATAAATCGATGGAATGATAA
66 AGTGCAAAAAATCGATGGAATGATAA
* * *
22587656 ACGTCCCAACCTCACTCAAAAGAAAAGTTATATCAAGATCTAAAGAAGAAAGGAGGGAGAGAAGT
1 ACGTCCCAACCTCACTCAAAAGAAAAGTTATATCAACATCTAAACAAGAAAGAAGGGAGAGAAGT
22587721 AGTGCAAAAAATCGATGGAATGATAA
66 AGTGCAAAAAATCGATGGAATGATAA
22587747 TATGAATGCA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
91 79 1.00
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.18
Consensus pattern (91 bp):
ACGTCCCAACCTCACTCAAAAGAAAAGTTATATCAACATCTAAACAAGAAAGAAGGGAGAGAAGT
AGTGCAAAAAATCGATGGAATGATAA
Found at i:22590102 original size:590 final size:587
Alignment explanation
Indices: 22589223--22590408 Score: 2327
Period size: 590 Copynumber: 2.0 Consensus size: 587
22589213 TGCATTTATG
22589223 ACTGTTTGTGTTCTACTAGGATAATGAAATTACATGTATGATTTGTTGATGGATGCATATGTTTG
1 ACTGTTTGTGTTCTACTAGGATAATGAAATTACATGTATGATTTGTTGATGGATGCATATGTTTG
*
22589288 AAAACCTTAATGCTTGTGTACTTTGTACGATAATGAACTTAGGTATTTGATATTGAAAGTGGTAA
66 AAAACCTTAATGCTTGTGTACTTTGTACAATAATGAACTTAGGTATTTGATATTGAAAGTGGTAA
22589353 GTTGTTTACATATGCTAGGATTATGTTTAAATATGAAAATGCTTAGTTATGTACTCCAACACTAA
131 GTTGTTTACATATGCTAGGATTATGTTTAAATATGAAAATGCTTAGTTATGTACTCCAACACTAA
22589418 TCTTTGTATCATACTTGCTCATGGGATGTCTTTTACTTTTTATTTTTCTTTCGCTTTACTTGGGA
196 TCTTTGTATCATACTTGCTCATGGGATGTCTTTTACTTTTTATTTTTCTTTCGCTTTACTTGGGA
22589483 ACAAGCAATGACTTAAGTGTGGGGGAGTTTGATCTACTGTAATTTGGTGTAGTAGATTAAACTAG
261 ACAAGCAATGACTTAAGTGTGGGGGAGTTTGATCTACTGTAATTTGGTGTAGTAGATTAAACTAG
22589548 TTTTTGTACTTGAGAAGCTTGAATATGAGAAATTTTAGTATTTTAGTATTTATGTTTTCTTAGTT
326 TTTTTGTACTTGAGAAGCTTGAATATGAGAAATTTTAGTATTTTAGTATTTATGTTTTCTTAGTT
22589613 TAGATTAAATTTAATAAAAAGTGTATTTTGAGTCTTTTGTTAACCTTAGGTGCCGAATGAAGCTT
391 TAGATTAAATTTAATAAAAAGTGTATTTTGAGTCTTTTGTTAACCTTAGGTGCCGAATGAAGCTT
22589678 AAAAGTGAGATAACATTTTTAGTGAGTGTGTAGGAGACCAGTCAAAAGCATAGGAACTCAAAGGT
456 AAAAGTGAGATAACATTTTTAGTGAGTGTGTAGGAGACCAGTCAAAAGCATAGGAACTCAAAGGT
22589743 GGTCGCTATGTTGCAACACAGAGAGATTGATGTCGCAACATAGGGAGCAGAATGCTAGAACCACT
521 GGTCGCTATGTTGCAACACAGAGAGATTGATGTCGCAACATAGGGAGCAGAATGCTAGAACCACT
22589808 AT
586 AT
22589810 ACTGTTTGTGTTCTACTAGGATAATGAAATTACATGTATGATTTGTTGATGGATGCATATGTTTG
1 ACTGTTTGTGTTCTACTAGGATAATGAAATTACATGTATGATTTGTTGATGGATGCATATGTTTG
22589875 AAAACCTTAATGCTTGTGTACTTTGTACAATAATGAACTTAGGTATTTGATATTGAAAGTGGTAA
66 AAAACCTTAATGCTTGTGTACTTTGTACAATAATGAACTTAGGTATTTGATATTGAAAGTGGTAA
22589940 GTTGTTTACATATCATGCTAGGATTATGTTTAAATATGAAAATGCTTAGTTATGTACTCCAACAC
131 GTTGTTTAC--AT-ATGCTAGGATTATGTTTAAATATGAAAATGCTTAGTTATGTACTCCAACAC
22590005 TAATCTTTGTATCATACTTGCTCATGGGATGTCTTTTACTTTTTATTTTTCTTTCGCTTTACTTG
193 TAATCTTTGTATCATACTTGCTCATGGGATGTCTTTTACTTTTTATTTTTCTTTCGCTTTACTTG
22590070 GGAACAAGCAATGACTTAAGTGTGGGGGAGTTTGATCTACTGTAATTTGGTGTAGTAGATTAAAC
258 GGAACAAGCAATGACTTAAGTGTGGGGGAGTTTGATCTACTGTAATTTGGTGTAGTAGATTAAAC
22590135 TAGTTTTTGTACTTGAGAAGCTTGAATATGAGAAATTTTAGTATTTTAGTATTTATGTTTTCTTA
323 TAGTTTTTGTACTTGAGAAGCTTGAATATGAGAAATTTTAGTATTTTAGTATTTATGTTTTCTTA
22590200 GTTTAGATTAAATTTAATAAAAAGTGTATTTTGAGTCTTTTGTTAACCTTAGGTGCCGAATGAAG
388 GTTTAGATTAAATTTAATAAAAAGTGTATTTTGAGTCTTTTGTTAACCTTAGGTGCCGAATGAAG
22590265 CTTAAAAGTGAGATAACATTTTTAGTGAGTGTGTAGGAGACCAGTCAAAAGCATAGGAACTCAAA
453 CTTAAAAGTGAGATAACATTTTTAGTGAGTGTGTAGGAGACCAGTCAAAAGCATAGGAACTCAAA
22590330 GGTGGTCGCTATGTTGCAACACAGAGAGATTGATGTCGCAACATAGGGAGCAGAATGCTAGAACC
518 GGTGGTCGCTATGTTGCAACACAGAGAGATTGATGTCGCAACATAGGGAGCAGAATGCTAGAACC
22590395 ACTAT
583 ACTAT
22590400 ACTGCTTTG
1 ACTG-TTTG
22590409 GATGTCACGA
Statistics
Matches: 594, Mismatches: 1, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
587 138 0.23
589 2 0.00
590 450 0.76
591 4 0.01
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (587 bp):
ACTGTTTGTGTTCTACTAGGATAATGAAATTACATGTATGATTTGTTGATGGATGCATATGTTTG
AAAACCTTAATGCTTGTGTACTTTGTACAATAATGAACTTAGGTATTTGATATTGAAAGTGGTAA
GTTGTTTACATATGCTAGGATTATGTTTAAATATGAAAATGCTTAGTTATGTACTCCAACACTAA
TCTTTGTATCATACTTGCTCATGGGATGTCTTTTACTTTTTATTTTTCTTTCGCTTTACTTGGGA
ACAAGCAATGACTTAAGTGTGGGGGAGTTTGATCTACTGTAATTTGGTGTAGTAGATTAAACTAG
TTTTTGTACTTGAGAAGCTTGAATATGAGAAATTTTAGTATTTTAGTATTTATGTTTTCTTAGTT
TAGATTAAATTTAATAAAAAGTGTATTTTGAGTCTTTTGTTAACCTTAGGTGCCGAATGAAGCTT
AAAAGTGAGATAACATTTTTAGTGAGTGTGTAGGAGACCAGTCAAAAGCATAGGAACTCAAAGGT
GGTCGCTATGTTGCAACACAGAGAGATTGATGTCGCAACATAGGGAGCAGAATGCTAGAACCACT
AT
Found at i:22596674 original size:29 final size:29
Alignment explanation
Indices: 22596603--22596791 Score: 145
Period size: 29 Copynumber: 6.6 Consensus size: 29
22596593 GGCGATCATT
*
22596603 GAATATGAAAAGGGATAGCTTCGGC-ATC
1 GAATATGAAAAGGGATAGCTTCGACTATC
* * *
22596631 GATTATGAAACGGGATAGCTTCGGCTATC
1 GAATATGAAAAGGGATAGCTTCGACTATC
** *
22596660 GAATATGAAAAGGGATAGCTTTAAATATC
1 GAATATGAAAAGGGATAGCTTCGACTATC
** * * * * *
22596689 GGTTACGAAAAGGGAT-GGTGACGACCAAC
1 GAATATGAAAAGGGATAGCT-TCGACTATC
*
22596718 -AACTATGAAAAGGGAT-GGTGAT-GACTATC
1 GAA-TATGAAAAGGGATAGCT--TCGACTATC
* *
22596747 GAATATGAAAAGGGATAGCTTTGGCTATC
1 GAATATGAAAAGGGATAGCTTCGACTATC
*
22596776 GATTATGAAAAGGGAT
1 GAATATGAAAAGGGAT
22596792 GGGGATGACC
Statistics
Matches: 126, Mismatches: 28, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
28 26 0.21
29 96 0.76
30 4 0.03
ACGTcount: A:0.37, C:0.12, G:0.28, T:0.24
Consensus pattern (29 bp):
GAATATGAAAAGGGATAGCTTCGACTATC
Found at i:22596754 original size:87 final size:87
Alignment explanation
Indices: 22596655--22596829 Score: 260
Period size: 87 Copynumber: 2.0 Consensus size: 87
22596645 ATAGCTTCGG
* *
22596655 CTATCGAATATGAAAAGGGATAGCTTTAAATATCGGTTACGAAAAGGGATGGTGACGACCAACAA
1 CTATCGAATATGAAAAGGGATAGCTTTAAATATCGATTACGAAAAGGGATGGGGACGACCAACAA
22596720 CTATGAAAAGGGATGGTGATGA
66 CTATGAAAAGGGATGGTGATGA
*** * * * *
22596742 CTATCGAATATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGGGATGACCATCAT
1 CTATCGAATATGAAAAGGGATAGCTTTAAATATCGATTACGAAAAGGGATGGGGACGACCAACAA
*
22596807 CTATGAAAGGGGATGGTGATGA
66 CTATGAAAAGGGATGGTGATGA
22596829 C
1 C
22596830 CATCAATTAA
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 78 1.00
ACGTcount: A:0.36, C:0.11, G:0.29, T:0.23
Consensus pattern (87 bp):
CTATCGAATATGAAAAGGGATAGCTTTAAATATCGATTACGAAAAGGGATGGGGACGACCAACAA
CTATGAAAAGGGATGGTGATGA
Found at i:22596811 original size:29 final size:29
Alignment explanation
Indices: 22596686--22596877 Score: 158
Period size: 29 Copynumber: 6.6 Consensus size: 29
22596676 AGCTTTAAAT
* * *
22596686 ATCGGTTACGAAAAGGGATGGTGACGACC
1 ATCGATTATGAAAAGGGATGGTGATGACC
* * * *
22596715 AACAACTATGAAAAGGGATGGTGATGACT
1 ATCGATTATGAAAAGGGATGGTGATGACC
* * * * *
22596744 ATCGAATATGAAAAGGGATAGCT-TTGGCT
1 ATCGATTATGAAAAGGGAT-GGTGATGACC
*
22596773 ATCGATTATGAAAAGGGATGGGGATGACC
1 ATCGATTATGAAAAGGGATGGTGATGACC
*
22596802 ATC-ATCTATGAAAGGGGATGGTGATGACC
1 ATCGAT-TATGAAAAGGGATGGTGATGACC
* * *
22596831 ATCAATTAATG-AAAGGGATGGT-TTCAACC
1 ATCGATT-ATGAAAAGGGATGGTGAT-GACC
*
22596860 ATCGAATATGAAAAGGGA
1 ATCGATTATGAAAAGGGA
22596878 CGGTTACAAC
Statistics
Matches: 130, Mismatches: 26, Indels: 14
0.76 0.15 0.08
Matches are distributed among these distances:
28 7 0.05
29 116 0.89
30 7 0.05
ACGTcount: A:0.36, C:0.12, G:0.29, T:0.22
Consensus pattern (29 bp):
ATCGATTATGAAAAGGGATGGTGATGACC
Found at i:22596864 original size:87 final size:87
Alignment explanation
Indices: 22596657--22596877 Score: 259
Period size: 87 Copynumber: 2.5 Consensus size: 87
22596647 AGCTTCGGCT
** * * *
22596657 ATCGAATATGAAAAGGGATAGCTTTAAATATCGGTTACGAAAAGGGATGGTGACGACCAACAACT
1 ATCGAATATGAAAAGGGATAGCTTTAACCATCGATTATGAAAAGGGATGGGGACGACCAACAACT
*
22596722 ATGAAAAGGGATGGTGATGACT
66 ATGAAAAGGGATGGTGATGACC
** * * * *
22596744 ATCGAATATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGGGATGACCATCATCT
1 ATCGAATATGAAAAGGGATAGCTTTAACCATCGATTATGAAAAGGGATGGGGACGACCAACAACT
*
22596809 ATGAAAGGGGATGGTGATGACC
66 ATGAAAAGGGATGGTGATGACC
* *
22596831 ATC-AATTAATG-AAAGGGAT-GGTTTCAACCATCGAATATGAAAAGGGA
1 ATCGAA-T-ATGAAAAGGGATAGCTTT-AACCATCGATTATGAAAAGGGA
22596878 CGGTTACAAC
Statistics
Matches: 115, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
86 6 0.05
87 106 0.92
88 3 0.03
ACGTcount: A:0.38, C:0.11, G:0.28, T:0.23
Consensus pattern (87 bp):
ATCGAATATGAAAAGGGATAGCTTTAACCATCGATTATGAAAAGGGATGGGGACGACCAACAACT
ATGAAAAGGGATGGTGATGACC
Found at i:22602479 original size:45 final size:45
Alignment explanation
Indices: 22602415--22602559 Score: 281
Period size: 45 Copynumber: 3.2 Consensus size: 45
22602405 NNNNNNNNNN
22602415 AATGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCA
1 AATGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCA
22602460 AATGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCA
1 AATGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCA
*
22602505 AATGCTTCCTCAAATTCTCCCATGAATTATGCATGATGTTGGTCA
1 AATGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCA
22602550 AATGCTTCCT
1 AATGCTTCCT
22602560 TAATTTCATG
Statistics
Matches: 99, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
45 99 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.37
Consensus pattern (45 bp):
AATGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCA
Found at i:22608783 original size:45 final size:45
Alignment explanation
Indices: 22608734--22608921 Score: 331
Period size: 45 Copynumber: 4.2 Consensus size: 45
22608724 TCGGCCATGG
* * * *
22608734 TGCTTCCTCAATTTGTTCCATAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
22608779 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
22608824 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
22608869 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
22608914 TGCTTCCT
1 TGCTTCCT
22608922 TAATTTCATG
Statistics
Matches: 137, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 137 1.00
ACGTcount: A:0.26, C:0.20, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
Found at i:22609481 original size:44 final size:43
Alignment explanation
Indices: 22609433--22609536 Score: 102
Period size: 44 Copynumber: 2.4 Consensus size: 43
22609423 CCGCTTCAAC
* *
22609433 GCAACTTTAGGAAGATAGGACTAGTAATTTCAATATGCTCCACT
1 GCAACTTTAGGAAGATAGG-CTAGTAATTTCAAGATGCCCCACT
* ** * * *
22609477 GCAACTTCAGGGGGATAAGGTTAGTGATTTCAAGCTGCCCCACT
1 GCAACTTTAGGAAGAT-AGGCTAGTAATTTCAAGATGCCCCACT
*
22609521 GCAAC-TTGGGAAGATA
1 GCAACTTTAGGAAGATA
22609537 AGATTTACCG
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
42 1 0.02
43 6 0.13
44 37 0.79
45 3 0.06
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (43 bp):
GCAACTTTAGGAAGATAGGCTAGTAATTTCAAGATGCCCCACT
Found at i:22609721 original size:46 final size:46
Alignment explanation
Indices: 22609657--22609861 Score: 329
Period size: 46 Copynumber: 4.5 Consensus size: 46
22609647 TCATTGCCAG
* *
22609657 TACAAGAAGACAAGATCTGCTATCTTCGATCCAATCCGCTGCCAAA
1 TACAGGAAGACAAGATCTGCTATCTTCGATCCACTCCGCTGCCAAA
* *
22609703 TACAGGAAGACAATATCTGCTATCTTTGATCCACTCCGCTGCCAAA
1 TACAGGAAGACAAGATCTGCTATCTTCGATCCACTCCGCTGCCAAA
* * *
22609749 TACAGGAAGACAAGATCTTCTATCTTCGATCTACTCCGCTACCAAA
1 TACAGGAAGACAAGATCTGCTATCTTCGATCCACTCCGCTGCCAAA
*
22609795 TACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAA
1 TACAGGAAGACAAGATCTGCTATCTTCGATCCACTCCGCTGCCAAA
*
22609841 TACAAGAAGACAAGATCTGCT
1 TACAGGAAGACAAGATCTGCT
22609862 GCTTTTAGTC
Statistics
Matches: 147, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 147 1.00
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (46 bp):
TACAGGAAGACAAGATCTGCTATCTTCGATCCACTCCGCTGCCAAA
Found at i:22611128 original size:103 final size:103
Alignment explanation
Indices: 22610820--22611169 Score: 504
Period size: 107 Copynumber: 3.3 Consensus size: 103
22610810 CAAAGAAATT
* * * *
22610820 AATCAGGATAGAAAATTTTGCTAAGATTCAAAATGAATAAGATGAAAAGGATTATCACAATGGAC
1 AATCAAGATAGCAAATTTTGCTAAGATACAAAATGAATAAGAT-AAAAAGATTATCACAATGGAC
*
22610885 AAGATGGAATTTTATTGAGAACAAAGCTCGAAATAAATA
65 AAGATGGAATTTTATTGAGAACAAAGCTCGAAATGAATA
** * * *
22610924 AATAAACAAGATAGCAAATTTTGCTAAGATATGAACTGAATAAGATGAAAAGTATTATGACAATG
1 AAT---CAAGATAGCAAATTTTGCTAAGATACAAAATGAATAAGATAAAAAG-ATTATCACAATG
* *
22610989 G-CTAAGATAGAATTTTATTGAGAACAAGGCTCGAAATGAATA
62 GAC-AAGATGGAATTTTATTGAGAACAAAGCTCGAAATGAATA
*
22611031 AATCAAGATAGCAAATTTTGCTAAGATACAAATTGAATAAGATAAAAAGATTATCACAATGGACA
1 AATCAAGATAGCAAATTTTGCTAAGATACAAAATGAATAAGATAAAAAGATTATCACAATGGACA
* *
22611096 ATATGGAATTTTATTGAGAACAAAGCTGGAAATGAATA
66 AGATGGAATTTTATTGAGAACAAAGCTCGAAATGAATA
22611134 AATCAAGATAGCAAATTTTGCTAAGATACAAAATGA
1 AATCAAGATAGCAAATTTTGCTAAGATACAAAATGA
22611170 GAATAAATTA
Statistics
Matches: 218, Mismatches: 22, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
103 82 0.38
104 46 0.21
106 5 0.02
107 85 0.39
ACGTcount: A:0.48, C:0.09, G:0.17, T:0.26
Consensus pattern (103 bp):
AATCAAGATAGCAAATTTTGCTAAGATACAAAATGAATAAGATAAAAAGATTATCACAATGGACA
AGATGGAATTTTATTGAGAACAAAGCTCGAAATGAATA
Found at i:22611506 original size:1 final size:1
Alignment explanation
Indices: 22611502--22611578 Score: 55
Period size: 1 Copynumber: 77.0 Consensus size: 1
22611492 TTCTTTCTTC
* * * * * * * * * *
22611502 TTTTTTCTTTCTTTTCTTTTTTCTTTTCTTTTTTTTTGTTTTTTGTTTTTTTGTTTTTGTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
22611567 TTTGTTTTTTTT
1 TTTTTTTTTTTT
22611579 GAACATTCTT
Statistics
Matches: 54, Mismatches: 22, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.00, C:0.06, G:0.08, T:0.86
Consensus pattern (1 bp):
T
Found at i:22611524 original size:12 final size:12
Alignment explanation
Indices: 22611490--22611535 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
22611480 GGCCTCTCCT
*
22611490 TTTTCTTTCTTC
1 TTTTCTTTTTTC
*
22611502 TTTT-TTCTTTC
1 TTTTCTTTTTTC
22611513 TTTTCTTTTTTC
1 TTTTCTTTTTTC
22611525 TTTTCTTTTTT
1 TTTTCTTTTTT
22611536 TTTGTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
11 9 0.30
12 21 0.70
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:22611527 original size:7 final size:7
Alignment explanation
Indices: 22611489--22611565 Score: 66
Period size: 7 Copynumber: 10.6 Consensus size: 7
22611479 TGGCCTCTCC
22611489 TTTTTCT
1 TTTTTCT
*
22611496 TTCTTCT
1 TTTTTCT
22611503 TTTTTCTT
1 TTTTTC-T
22611511 TCTTTTCT
1 T-TTTTCT
22611519 TTTTTCT
1 TTTTTCT
*
22611526 TTTCTTTT
1 TTT-TTCT
*
22611534 TTTTTGT
1 TTTTTCT
*
22611541 TTTTTGT
1 TTTTTCT
22611548 TTTTT-T
1 TTTTTCT
*
22611554 GTTTTTGT
1 -TTTTTCT
22611562 TTTT
1 TTTT
22611566 GTTTGTTTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
6 1 0.02
7 44 0.72
8 11 0.18
9 5 0.08
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.84
Consensus pattern (7 bp):
TTTTTCT
Found at i:22611543 original size:21 final size:20
Alignment explanation
Indices: 22611488--22611578 Score: 78
Period size: 21 Copynumber: 4.5 Consensus size: 20
22611478 TTGGCCTCTC
* * *
22611488 CTTTTTCTTTCTTCTTTTTT
1 CTTTTTTTTTGTTTTTTTTT
*
22611508 CTTTCTTTTCTT-TTTTCTTTT
1 CTTT-TTTT-TTGTTTTTTTTT
22611529 CTTTTTTTTTGTTTTTTGTTT
1 CTTTTTTTTTGTTTTTT-TTT
*
22611550 -TTTTGTTTTTGTTTTTGTTT
1 CTTTT-TTTTTGTTTTTTTTT
*
22611570 GTTTTTTTT
1 CTTTTTTTT
22611579 GAACATTCTT
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
19 2 0.03
20 24 0.40
21 32 0.53
22 2 0.03
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.84
Consensus pattern (20 bp):
CTTTTTTTTTGTTTTTTTTT
Found at i:22611544 original size:16 final size:16
Alignment explanation
Indices: 22611489--22611575 Score: 81
Period size: 16 Copynumber: 5.3 Consensus size: 16
22611479 TGGCCTCTCC
22611489 TTTTTCTTTCTTCTTTT-
1 TTTTTCTTT-TT-TTTTG
22611506 TTCTTTCTTTTCTTTTT-
1 TT-TTTCTTTT-TTTTTG
22611523 TCTTTTCTTTTTTTTTG
1 T-TTTTCTTTTTTTTTG
*
22611540 TTTTT-TGTTTTTTTG
1 TTTTTCTTTTTTTTTG
* *
22611555 TTTTTGTTTTTGTTTG
1 TTTTTCTTTTTTTTTG
22611571 TTTTT
1 TTTTT
22611576 TTTGAACATT
Statistics
Matches: 62, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
15 14 0.23
16 22 0.35
17 17 0.27
18 9 0.15
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (16 bp):
TTTTTCTTTTTTTTTG
Found at i:22611545 original size:12 final size:12
Alignment explanation
Indices: 22611513--22611579 Score: 64
Period size: 12 Copynumber: 5.4 Consensus size: 12
22611503 TTTTTCTTTC
* *
22611513 TTTTCTTTTTTC
1 TTTTGTTTTTTT
*
22611525 TTTTCTTTTTTT
1 TTTTGTTTTTTT
22611537 TTGTT-TTTTGTTT
1 TT-TTGTTTT-TTT
*
22611550 TTTTGTTTTTGT
1 TTTTGTTTTTTT
22611562 TTTTGTTTGTTTT
1 TTTTGTTT-TTTT
22611575 TTTTG
1 TTTTG
22611580 AACATTCTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
12 29 0.60
13 19 0.40
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.85
Consensus pattern (12 bp):
TTTTGTTTTTTT
Found at i:22611553 original size:31 final size:30
Alignment explanation
Indices: 22611489--22611576 Score: 51
Period size: 30 Copynumber: 2.9 Consensus size: 30
22611479 TGGCCTCTCC
* *
22611489 TTTTTCTTTCTTCTTTT-TTCTTTCTTTT-CT
1 TTTTTCTTTTTTCTTTTCTT-TTT-TTTTGTT
22611519 TTTTTCTTTTCTT-TTTT-TTTGTTTTTTGTT
1 TTTTTCTTTT-TTCTTTTCTTT-TTTTTTGTT
* *
22611549 TTTTTGTTTTTGT-TTTTGTTTGTTTTTT
1 TTTTTCTTTTT-TCTTTTCTTT-TTTTTT
22611577 TTGAACATTC
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
29 6 0.12
30 32 0.64
31 12 0.24
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (30 bp):
TTTTTCTTTTTTCTTTTCTTTTTTTTTGTT
Found at i:22611577 original size:24 final size:25
Alignment explanation
Indices: 22611525--22611577 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
22611515 TTCTTTTTTC
* *
22611525 TTTTCTTTTTTTTTGTTTTTTGTTT
1 TTTTCTTTTTGTTTGTTGTTTGTTT
*
22611550 TTTTGTTTTTGTTT-TTGTTTGTTT
1 TTTTCTTTTTGTTTGTTGTTTGTTT
22611574 TTTT
1 TTTT
22611578 TGAACATTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.87
Consensus pattern (25 bp):
TTTTCTTTTTGTTTGTTGTTTGTTT
Found at i:22615950 original size:13 final size:13
Alignment explanation
Indices: 22615932--22615957 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22615922 AGATATGTAT
22615932 TAAAATATATATA
1 TAAAATATATATA
22615945 TAAAATATATATA
1 TAAAATATATATA
22615958 AATATATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATATATATA
Found at i:22619455 original size:26 final size:26
Alignment explanation
Indices: 22619419--22619468 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
22619409 ACTTACTAAT
22619419 TTAATTATAACTCGAGTTATGAAAAG
1 TTAATTATAACTCGAGTTATGAAAAG
22619445 TTAATTATAACTCGAGTTATGAAA
1 TTAATTATAACTCGAGTTATGAAA
22619469 CTTGAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (26 bp):
TTAATTATAACTCGAGTTATGAAAAG
Found at i:22620414 original size:20 final size:20
Alignment explanation
Indices: 22620389--22620427 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
22620379 TTGCTTCATC
22620389 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
22620409 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
22620428 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:22620694 original size:50 final size:50
Alignment explanation
Indices: 22620628--22620821 Score: 201
Period size: 50 Copynumber: 3.8 Consensus size: 50
22620618 TGATACTAAC
* * **
22620628 ATGCCAAAGCCGTGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* ** *
22620678 ATGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* * *
22620728 GTGCCAACGCCATGTCCTAGACATGGTCTTACGA-GGGACCTCTCATAACCTCAG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCAT-A--TC-G
* *
22620782 TAATTCCAATGCCATTTCCCAGACATGGTCTTACATGGGA
1 --ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
22620822 TCTCATCCCC
Statistics
Matches: 117, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
50 82 0.70
53 2 0.02
54 1 0.01
55 1 0.01
56 31 0.26
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.25
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
Found at i:22628250 original size:50 final size:50
Alignment explanation
Indices: 22628191--22628327 Score: 186
Period size: 50 Copynumber: 2.7 Consensus size: 50
22628181 ATGCGAAAGT
* ** * *
22628191 CATGTCCTAGACATGGTCTTACATGGGAGTTCTCATATTGGTG-CACATGC
1 CATGTCCTAGACATGGTCTTACGTGGGACCTCTCATATCGGTGCCA-ACGC
* *
22628241 CATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGC
1 CATGTCCTAGACATGGTCTTACGTGGGACCTCTCATATCGGTGCCAACGC
*
22628291 CATGTCCCAGACATGGTCTTACGTGGGACCTCTCATA
1 CATGTCCTAGACATGGTCTTACGTGGGACCTCTCATA
22628328 ACCTCAATAA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
50 74 0.97
51 2 0.03
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.28
Consensus pattern (50 bp):
CATGTCCTAGACATGGTCTTACGTGGGACCTCTCATATCGGTGCCAACGC
Found at i:22655253 original size:43 final size:43
Alignment explanation
Indices: 22655115--22655369 Score: 268
Period size: 43 Copynumber: 6.0 Consensus size: 43
22655105 TTATGTGAAA
* **
22655115 AAACGCCGCTATAA-AACATGACATTTAGCGGCGCTTTTAT-AA
1 AAACGCCGCTA-AAGAACATGACCTTTAGCGGCGCTTTTATCGC
* * * * * *
22655157 AAATGCCACTAAAGAACATAACCATTAGTGGCGC-TTTA-CCC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCGC
* * *
22655198 ATAAACGTCGCTATAA-AACATGATCTTTAGCGGCTCTTTTATCGC
1 --AAACGCCGCTA-AAGAACATGACCTTTAGCGGCGCTTTTATCGC
*
22655243 AAACGCCGCTAAAGAACATGACCTTTAGCAGCGCTTTTATCGC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCGC
* * * * *
22655286 AAACACCACTAAAGAATATGACCTTTAGCAGTGCTTTTATCGC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCGC
*
22655329 AAACGCCGCTAAAGAACATGACCTTTGGCGGCGCTTTTATC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATC
22655370 AGAAATGCTG
Statistics
Matches: 174, Mismatches: 31, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
41 6 0.03
42 27 0.16
43 133 0.76
44 6 0.03
45 2 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCGC
Found at i:22656513 original size:17 final size:20
Alignment explanation
Indices: 22656475--22656514 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 20
22656465 ATGTGAGCAT
22656475 CACTTCTCCTACTTTGAAAA
1 CACTTCTCCTACTTTGAAAA
22656495 CACTT-TCC-ACTTT-AAAA
1 CACTTCTCCTACTTTGAAAA
22656512 CAC
1 CAC
22656515 AATAGAATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 5 0.25
19 3 0.15
20 5 0.25
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.33
Consensus pattern (20 bp):
CACTTCTCCTACTTTGAAAA
Found at i:22658483 original size:40 final size:41
Alignment explanation
Indices: 22658439--22658564 Score: 150
Period size: 40 Copynumber: 3.1 Consensus size: 41
22658429 TTTTGCGGCA
* * * *
22658439 TTTTTCAAAAAGCGTCGCTTATGGTCGACCTATAGCGGTGT
1 TTTTTCAAAAAGCGTCGCTAATGCTCGATCTATAGCGGCGT
*
22658480 TTTTTGAAAAATGC-T-GCTAATGCTCGATCTATAGCGGCG-
1 TTTTTCAAAAA-GCGTCGCTAATGCTCGATCTATAGCGGCGT
* * *
22658519 TTTTTCAAAATGCGTCGCTAATGCTCGATCTATAGTGGCAT
1 TTTTTCAAAAAGCGTCGCTAATGCTCGATCTATAGCGGCGT
22658560 TTTTT
1 TTTTT
22658565 ATCCAAACGC
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
38 2 0.03
39 10 0.14
40 42 0.58
41 16 0.22
42 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.37
Consensus pattern (41 bp):
TTTTTCAAAAAGCGTCGCTAATGCTCGATCTATAGCGGCGT
Found at i:22658896 original size:138 final size:138
Alignment explanation
Indices: 22658613--22658896 Score: 405
Period size: 138 Copynumber: 2.1 Consensus size: 138
22658603 TGCTGTAGTG
* *
22658613 AATTATAT-TTTTTTCAAAAGAATATTAATTTCCTTATCTTTTATATTTTGATTGAAATTAATTA
1 AATTATATATTTTTCCAAAAGAATATTAATTTCCTTATATTTTATATTTTGATTGAAATTAATTA
* * * * *
22658677 ATATAACTGTTTATATTAATAAATTCATTAAAATATATACAATTAATATTCCATTTGGATCAAAT
66 ATATAACTGTTAATATTAATAAATTCAGT-AAATATATACAATTAATATTCCATATGAAACAAAT
22658742 TCATATATT
130 TCATATATT
*
22658751 AATTATAT-TATTTCCAAAAGAATATTAATTTCCATT-TATTTTATATTTTGATTGAAATTAATT
1 AATTATATATTTTTCCAAAAGAATATTAATTTCC-TTATATTTTATATTTTGATTGAAATTAATT
* * ***
22658814 AATATAACTGTTAATATTAATAAATTCGGT-AATATATATAATTAATATTTTGTATGAAACAAAT
65 AATATAACTGTTAATATTAATAAATTCAGTAAATATATACAATTAATATTCCATATGAAACAAAT
22658878 TCATATATT
130 TCATATATT
22658887 AATTATATAT
1 AATTATATAT
22658897 ATGTTCTCTA
Statistics
Matches: 131, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
136 44 0.34
137 1 0.01
138 84 0.64
139 2 0.02
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (138 bp):
AATTATATATTTTTCCAAAAGAATATTAATTTCCTTATATTTTATATTTTGATTGAAATTAATTA
ATATAACTGTTAATATTAATAAATTCAGTAAATATATACAATTAATATTCCATATGAAACAAATT
CATATATT
Done.