Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 95 of 131
Found at i:31751888 original size:11 final size:11
Alignment explanation
Indices: 31751869--31751899 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
31751859 AAAAGCAGTT
*
31751869 AACACGTTGAC
1 AACATGTTGAC
31751880 AACATGTTGAC
1 AACATGTTGAC
31751891 AACATGTTG
1 AACATGTTG
31751900 TCAGCTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (11 bp):
AACATGTTGAC
Found at i:31760731 original size:18 final size:18
Alignment explanation
Indices: 31760708--31760761 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
31760698 TTTGGTTAAA
31760708 AATTACCCGAATTAATCG
1 AATTACCCGAATTAATCG
** **
31760726 AATTACATGAATTACCCG
1 AATTACCCGAATTAATCG
*
31760744 AATTAACCGAATTGAATC
1 AATTACCCGAATT-AATC
31760762 ACTATATAAT
Statistics
Matches: 26, Mismatches: 9, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
18 24 0.92
19 2 0.08
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (18 bp):
AATTACCCGAATTAATCG
Found at i:31761934 original size:11 final size:11
Alignment explanation
Indices: 31761915--31761945 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
31761905 AAAAGCAGTT
*
31761915 AACACGTTGAC
1 AACATGTTGAC
31761926 AACATGTTGAC
1 AACATGTTGAC
31761937 AACATGTTG
1 AACATGTTG
31761946 TCAGCTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.26
Consensus pattern (11 bp):
AACATGTTGAC
Found at i:31767248 original size:16 final size:16
Alignment explanation
Indices: 31767227--31767279 Score: 106
Period size: 16 Copynumber: 3.3 Consensus size: 16
31767217 TTGGTTCGCT
31767227 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
31767243 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
31767259 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
31767275 GTAAT
1 GTAAT
31767280 AGGTAATTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.38, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:31767348 original size:44 final size:46
Alignment explanation
Indices: 31767259--31767349 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
31767249 GAATAGAGGC
*
31767259 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
31767305 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
31767349 G
1 G
31767350 GAATAGAGGT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 20 0.45
45 3 0.07
46 21 0.48
ACGTcount: A:0.26, C:0.04, G:0.31, T:0.38
Consensus pattern (46 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
Found at i:31767350 original size:39 final size:44
Alignment explanation
Indices: 31767259--31767366 Score: 145
Period size: 46 Copynumber: 2.5 Consensus size: 44
31767249 GAATAGAGGC
*
31767259 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTT--AT
31767305 GTAATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
*
31767345 G-AATGGAATAGAGGTGTAATAG
1 GTAATGGAATAGAGGCGTAATAG
31767367 CATAAGGAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
39 18 0.31
40 3 0.05
43 1 0.02
44 13 0.22
45 3 0.05
46 21 0.36
ACGTcount: A:0.29, C:0.04, G:0.31, T:0.36
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTAT
Found at i:31767528 original size:15 final size:15
Alignment explanation
Indices: 31767508--31767546 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
31767498 CATAATTGTT
31767508 ATAAAATATAATTTA
1 ATAAAATATAATTTA
31767523 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
31767540 ATAAAAT
1 ATAAAAT
31767547 TGTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:31767553 original size:17 final size:17
Alignment explanation
Indices: 31767513--31767546 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
31767503 TTGTTATAAA
31767513 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
31767530 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
31767547 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:31767618 original size:20 final size:21
Alignment explanation
Indices: 31767579--31767618 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
31767569 AATTTACTAA
*
31767579 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
31767600 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
31767619 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:31775308 original size:13 final size:13
Alignment explanation
Indices: 31775290--31775314 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31775280 AACATTCGGC
31775290 CGGTGGGAATAAT
1 CGGTGGGAATAAT
31775303 CGGTGGGAATAA
1 CGGTGGGAATAA
31775315 ACAAATAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.40, T:0.20
Consensus pattern (13 bp):
CGGTGGGAATAAT
Found at i:31776157 original size:15 final size:15
Alignment explanation
Indices: 31776137--31776193 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
31776127 ATTCAAAATT
31776137 AATATTTTAATAATA
1 AATATTTTAATAATA
*
31776152 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
31776171 AATATATTAATAATA
1 AATATTTTAATAATA
*
31776186 AATGTTTT
1 AATATTTT
31776194 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:31776730 original size:17 final size:18
Alignment explanation
Indices: 31776711--31776745 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
31776701 ATATATGATA
31776711 TTTATTATTACAAAATAT
1 TTTATTATTACAAAATAT
* *
31776729 TTTCTTATTATAAAATA
1 TTTATTATTACAAAATA
31776746 AATTTCGATT
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:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATTATTACAAAATAT
Found at i:31779076 original size:31 final size:31
Alignment explanation
Indices: 31778993--31779091 Score: 110
Period size: 31 Copynumber: 3.2 Consensus size: 31
31778983 CAACACAATG
* * * *
31778993 GGTCACGCCTAGGGAAGAGGCGACACCTAAT
1 GGTCACGCCTTGGGCAGAGGCGACACCCACT
* *
31779024 GGTCACGACTTGGGCATAGGCGACACCCACT
1 GGTCACGCCTTGGGCAGAGGCGACACCCACT
* * *
31779055 GGTCACGCCTTTGGCAGAGGCGGCA-CCACC
1 GGTCACGCCTTGGGCAGAGGCGACACCCACT
31779085 GGTCACG
1 GGTCACG
31779092 TCATCTCCAT
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
30 11 0.19
31 46 0.81
ACGTcount: A:0.22, C:0.31, G:0.32, T:0.14
Consensus pattern (31 bp):
GGTCACGCCTTGGGCAGAGGCGACACCCACT
Found at i:31781598 original size:14 final size:14
Alignment explanation
Indices: 31781579--31781606 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
31781569 GAACAAACTT
31781579 TGTAATATAAATTA
1 TGTAATATAAATTA
31781593 TGTAATATAAATTA
1 TGTAATATAAATTA
31781607 AATACATTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (14 bp):
TGTAATATAAATTA
Found at i:31781648 original size:48 final size:48
Alignment explanation
Indices: 31781593--31781802 Score: 357
Period size: 48 Copynumber: 4.3 Consensus size: 48
31781583 ATATAAATTA
31781593 TGTAATATAAATTAAATACATTACAATATTAAAACTTGGAACAAACTT
1 TGTAATATAAATTAAATACATTACAATATTAAAACTTGGAACAAACTT
31781641 TGTAATATAAATTAAATACATTACAATATTAAAACTTGGAACAAACTT
1 TGTAATATAAATTAAATACATTACAATATTAAAACTTGGAACAAACTT
31781689 TGTAATATAAATTAAATACATTACAATATTAAAACTTGGAACAAACTT
1 TGTAATATAAATTAAATACATTACAATATTAAAACTTGGAACAAACTT
* *
31781737 TGTAATATAAATTAAATTTAAATACATACAATATTAAAAATTGGAACAAACTT
1 TGTAATATAAATTAAA--TACAT---TACAATATTAAAACTTGGAACAAACTT
31781790 TGTAATATAAATT
1 TGTAATATAAATT
31781803 TTGTTATATA
Statistics
Matches: 155, Mismatches: 2, Indels: 5
0.96 0.01 0.03
Matches are distributed among these distances:
48 112 0.72
50 4 0.03
53 39 0.25
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.34
Consensus pattern (48 bp):
TGTAATATAAATTAAATACATTACAATATTAAAACTTGGAACAAACTT
Found at i:31784948 original size:14 final size:14
Alignment explanation
Indices: 31784929--31784978 Score: 66
Period size: 14 Copynumber: 3.4 Consensus size: 14
31784919 TAATAATACA
31784929 TTTTCTTTCTTCTC
1 TTTTCTTTCTTCTC
31784943 TTTTCTTTCTT-TC
1 TTTTCTTTCTTCTC
31784956 TTTTCTTCTCTCTCTC
1 TTTTCTT-TCT-TCTC
31784972 TTGTTCT
1 TT-TTCT
31784979 GTTATTTGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 9 0.28
14 14 0.44
15 1 0.03
16 4 0.12
17 4 0.12
ACGTcount: A:0.00, C:0.28, G:0.02, T:0.70
Consensus pattern (14 bp):
TTTTCTTTCTTCTC
Found at i:31785082 original size:27 final size:27
Alignment explanation
Indices: 31785044--31785121 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
31785034 AATGCTACTG
*
31785044 GTGCTGCCTATCAGATAGGCACCACTA
1 GTGCCGCCTATCAGATAGGCACCACTA
*** *
31785071 GTGCCGCCTATCAGATAGGGGTCACTG
1 GTGCCGCCTATCAGATAGGCACCACTA
* *
31785098 GTGCCACCTATCTGATAGGCACCA
1 GTGCCGCCTATCAGATAGGCACCA
31785122 TACCCTGATA
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (27 bp):
GTGCCGCCTATCAGATAGGCACCACTA
Found at i:31785209 original size:31 final size:31
Alignment explanation
Indices: 31785167--31785227 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
31785157 ATATACCAGG
* *
31785167 ATGGACTAAGTGGTGCCGCCTATTACTTTGA
1 ATGGACAAAGTGGTGCCGCCTATCACTTTGA
* *
31785198 ATGGACAAAGTGGTGTCGCTTATCACTTTG
1 ATGGACAAAGTGGTGCCGCCTATCACTTTG
31785228 GCACCACTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (31 bp):
ATGGACAAAGTGGTGCCGCCTATCACTTTGA
Found at i:31785644 original size:16 final size:16
Alignment explanation
Indices: 31785610--31785656 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
31785600 AATATACTGG
31785610 TTTAAG-TTTTTA-G-
1 TTTAAGTTTTTTATGT
31785623 TTTAAGTTTTTTATGT
1 TTTAAGTTTTTTATGT
31785639 TTTAAGTTTTTTATGT
1 TTTAAGTTTTTTATGT
31785655 TT
1 TT
31785657 AAAATATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.19
14 6 0.19
15 1 0.03
16 18 0.58
ACGTcount: A:0.19, C:0.00, G:0.13, T:0.68
Consensus pattern (16 bp):
TTTAAGTTTTTTATGT
Found at i:31787893 original size:21 final size:21
Alignment explanation
Indices: 31787860--31787905 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
31787850 AAAAACAGCG
*
31787860 GTAGGAGTAAGATTAGTTATT
1 GTAGGAGTAAGATTAGATATT
* * *
31787881 GTAGTAGTGAGATTGGATATT
1 GTAGGAGTAAGATTAGATATT
31787902 GTAG
1 GTAG
31787906 CGGTGAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.37
Consensus pattern (21 bp):
GTAGGAGTAAGATTAGATATT
Found at i:31789119 original size:28 final size:28
Alignment explanation
Indices: 31789077--31789232 Score: 86
Period size: 28 Copynumber: 5.2 Consensus size: 28
31789067 TTAGAAAGTC
31789077 ATAATACAAAGAAATACTAAAATTACTA
1 ATAATACAAAGAAATACTAAAATTACTA
* * * *
31789105 ATAATATAAATAAAT-C-AACAATCTTAGAAAGTC
1 ATAATACAAAGAAATACTAA-AA--TT----ACTA
31789138 ATAATACAAAGAAATACTAAAATTACTA
1 ATAATACAAAGAAATACTAAAATTACTA
* * * *
31789166 ATAATATAAATAAAT-C-AACAATCTTAGAAAGTC
1 ATAATACAAAGAAATACTAA-AA--TT----ACTA
31789199 ATAATACAAAGAAATACTAAAATTACTA
1 ATAATACAAAGAAATACTAAAATTACTA
31789227 ATAATA
1 ATAATA
31789233 TAAATAAAGG
Statistics
Matches: 94, Mismatches: 16, Indels: 36
0.64 0.11 0.25
Matches are distributed among these distances:
26 4 0.04
27 6 0.06
28 36 0.38
29 4 0.04
32 4 0.04
33 30 0.32
34 6 0.06
35 4 0.04
ACGTcount: A:0.58, C:0.11, G:0.04, T:0.26
Consensus pattern (28 bp):
ATAATACAAAGAAATACTAAAATTACTA
Found at i:31789148 original size:61 final size:61
Alignment explanation
Indices: 31789053--31789240 Score: 376
Period size: 61 Copynumber: 3.1 Consensus size: 61
31789043 AACCTAGTCG
31789053 ATAAATCAACAATCTTAGAAAGTCATAATACAAAGAAATACTAAAATTACTAATAATATAA
1 ATAAATCAACAATCTTAGAAAGTCATAATACAAAGAAATACTAAAATTACTAATAATATAA
31789114 ATAAATCAACAATCTTAGAAAGTCATAATACAAAGAAATACTAAAATTACTAATAATATAA
1 ATAAATCAACAATCTTAGAAAGTCATAATACAAAGAAATACTAAAATTACTAATAATATAA
31789175 ATAAATCAACAATCTTAGAAAGTCATAATACAAAGAAATACTAAAATTACTAATAATATAA
1 ATAAATCAACAATCTTAGAAAGTCATAATACAAAGAAATACTAAAATTACTAATAATATAA
31789236 ATAAA
1 ATAAA
31789241 GGGGTGGTAA
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 127 1.00
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.26
Consensus pattern (61 bp):
ATAAATCAACAATCTTAGAAAGTCATAATACAAAGAAATACTAAAATTACTAATAATATAA
Found at i:31790370 original size:12 final size:12
Alignment explanation
Indices: 31790337--31790363 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
31790327 ACTTACATGG
31790337 CCTACCACACGA
1 CCTACCACACGA
31790349 CCTACCACACGA
1 CCTACCACACGA
31790361 CCT
1 CCT
31790364 GGCACACAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.52, G:0.07, T:0.11
Consensus pattern (12 bp):
CCTACCACACGA
Found at i:31794663 original size:475 final size:475
Alignment explanation
Indices: 31793771--31794724 Score: 1692
Period size: 475 Copynumber: 2.0 Consensus size: 475
31793761 AATAACAAAA
31793771 ATTAATCTTGGAGAAAATAGATGCCCCACGAAACTGGTCGAATAAGTCGTCGATCTTCGATAGCG
1 ATTAATCTTGGAGAAAATAGATGCCCCACGAAACTGGTCGAATAAGTCGTCGATCTTCGATAGCG
31793836 GATACTTATTTTTCACTGTCAACTTGTTCAGCTGTCGGTAATCTATACACATTCTCATCGATTTG
66 GATACTTATTTTTCACTGTCAACTTGTTCAGCTGTCGGTAATCTATACACATTCTCATCGATTTG
31793901 TCCTTCTTCTTAACAAAAAATACCAGTGCCCCCCACGAAGACACACTCGGTCGGATGAACCCTCT
131 TCCTTCTTCTTAACAAAAAATACCAGTGCCCCCCACGAAGACACACTCGGTCGGATGAACCCTCT
* *
31793966 ATCGAGAAGTTCTTAGAGTTGAGCTTTTAGCTCCACAAGTTCTTTCAGTGCCATTCGGTAAGGTA
196 ATCGAGAAGTTCTTAGAGCTGAGCTTTTAACTCCACAAGTTCTTTCAGTGCCATTCGGTAAGGTA
31794031 CAATAAACACAGGAGCGATACCCGATAACAAATCAATACCGAATTTAACCTTTTTATCTAGAGGT
261 CAATAAACACAGGAGCGATACCCGATAACAAATCAATACCGAATTTAACCTTTTTATCTAGAGGT
*
31794096 ATTTCGAGCAATTCCTCAAGAAAGACGTCTAAAAAGTCATTCACAATATGAATATTTTCTACAGA
326 ATTTCGAGCAATTCCTCAAGAAAGACGTCTAAAAAGTCACTCACAATATGAATATTTTCTACAGA
* * * *
31794161 AAGCTTTGTAGGAACAGAATCAGATACGAAGGCAAGGTATGCCTCACATCCTTTCTAAACTAGCT
391 AAGCTTTATAAGAACAGAATCAGATACGAAAGCAAGGTATGCCTCACATCCTTTCCAAACTAGCT
*
31794226 TATCAACTACAAGGGTGGAG
456 TATCAACTACAAGGGCGGAG
31794246 ATTAATCTTGGAGAAAATAGATGCCCCACGAAACTGGTCGAATAAGTCGTCGATCTTCGATAGCG
1 ATTAATCTTGGAGAAAATAGATGCCCCACGAAACTGGTCGAATAAGTCGTCGATCTTCGATAGCG
*
31794311 GATACTTATTTTTTACTGTCAACTTGTTCAGCTGTCGGTAATCTATACACATTCTCATCGATTTG
66 GATACTTATTTTTCACTGTCAACTTGTTCAGCTGTCGGTAATCTATACACATTCTCATCGATTTG
* * *
31794376 TCCTTCTTCTTAACAAAAAATACCAGTGCCCCCCACGAAGACACACTTGGTCGGATGAACCTTTT
131 TCCTTCTTCTTAACAAAAAATACCAGTGCCCCCCACGAAGACACACTCGGTCGGATGAACCCTCT
31794441 ATCGAGAAGTTCTTAGAGCTGAGCTTTTAACTCCACAAGTTCTTTCAGTGCCATTCGGTAAGGTA
196 ATCGAGAAGTTCTTAGAGCTGAGCTTTTAACTCCACAAGTTCTTTCAGTGCCATTCGGTAAGGTA
* * * * *
31794506 CAATAGACACATGAGTGGTACCCGATAACAAATCAATACCGAATTTAACCTTTTTATCTGGAGGT
261 CAATAAACACAGGAGCGATACCCGATAACAAATCAATACCGAATTTAACCTTTTTATCTAGAGGT
* * * *
31794571 ATTTCGAGCAATTCCTCGAGAAAGACGTCTGAAAAGTCCCTCACAATATGAATATTTTCTATAGA
326 ATTTCGAGCAATTCCTCAAGAAAGACGTCTAAAAAGTCACTCACAATATGAATATTTTCTACAGA
* * *
31794636 AAGCTTTATAAGAACAGAATTAGATACGAAAGCAAGGTATGCTTCGCATCCTTTCCAAACTAGCT
391 AAGCTTTATAAGAACAGAATCAGATACGAAAGCAAGGTATGCCTCACATCCTTTCCAAACTAGCT
31794701 TATCAACTACAAGGGCGGAG
456 TATCAACTACAAGGGCGGAG
31794721 ATTA
1 ATTA
31794725 CATTGGAAAG
Statistics
Matches: 455, Mismatches: 24, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
475 455 1.00
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.29
Consensus pattern (475 bp):
ATTAATCTTGGAGAAAATAGATGCCCCACGAAACTGGTCGAATAAGTCGTCGATCTTCGATAGCG
GATACTTATTTTTCACTGTCAACTTGTTCAGCTGTCGGTAATCTATACACATTCTCATCGATTTG
TCCTTCTTCTTAACAAAAAATACCAGTGCCCCCCACGAAGACACACTCGGTCGGATGAACCCTCT
ATCGAGAAGTTCTTAGAGCTGAGCTTTTAACTCCACAAGTTCTTTCAGTGCCATTCGGTAAGGTA
CAATAAACACAGGAGCGATACCCGATAACAAATCAATACCGAATTTAACCTTTTTATCTAGAGGT
ATTTCGAGCAATTCCTCAAGAAAGACGTCTAAAAAGTCACTCACAATATGAATATTTTCTACAGA
AAGCTTTATAAGAACAGAATCAGATACGAAAGCAAGGTATGCCTCACATCCTTTCCAAACTAGCT
TATCAACTACAAGGGCGGAG
Found at i:31798565 original size:21 final size:21
Alignment explanation
Indices: 31798539--31798579 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
31798529 AAAAGAACAA
31798539 AAAGAA-AAAGACGAAAAAAAG
1 AAAGAAGAAA-ACGAAAAAAAG
*
31798560 AAAGAAGAAAAGGAAAAAAA
1 AAAGAAGAAAACGAAAAAAA
31798580 TGGCAATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (21 bp):
AAAGAAGAAAACGAAAAAAAG
Found at i:31801122 original size:30 final size:30
Alignment explanation
Indices: 31801088--31801173 Score: 72
Period size: 30 Copynumber: 2.9 Consensus size: 30
31801078 TTATTCAAAA
31801088 ATCAATCTGATGAAGAAAAAACTTCAACAG
1 ATCAATCTGATGAAGAAAAAACTTCAACAG
* * **
31801118 ATCAA---GATGAAGACATAAAAGTCTCTACCT
1 ATCAATCTGATGAAGA-A-AAAACT-TCAACAG
31801148 AT-AATTCTGATGAAGAAAAAACTTCA
1 ATCAA-TCTGATGAAGAAAAAACTTCA
31801174 TCTGAAGAGG
Statistics
Matches: 43, Mismatches: 6, Indels: 14
0.68 0.10 0.22
Matches are distributed among these distances:
27 8 0.19
28 1 0.02
29 7 0.16
30 13 0.30
31 5 0.12
32 1 0.02
33 8 0.19
ACGTcount: A:0.48, C:0.16, G:0.13, T:0.23
Consensus pattern (30 bp):
ATCAATCTGATGAAGAAAAAACTTCAACAG
Found at i:31802475 original size:13 final size:15
Alignment explanation
Indices: 31802438--31802478 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
31802428 TATACAGATT
*
31802438 AAAGAATTATTAGAA
1 AAAGAATTAATAGAA
31802453 AAAGAATTAATAG-A
1 AAAGAATTAATAGAA
31802467 AAA-AATTAATAG
1 AAAGAATTAATAG
31802479 TCCACATTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 9 0.36
14 4 0.16
15 12 0.48
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.24
Consensus pattern (15 bp):
AAAGAATTAATAGAA
Found at i:31804012 original size:40 final size:40
Alignment explanation
Indices: 31803911--31804042 Score: 142
Period size: 40 Copynumber: 3.3 Consensus size: 40
31803901 GGCGTTTGGA
* * * *
31803911 TAAAAAACGCCGCTAAAAATCAAGCATTAGCGGCACTTTT
1 TAAAAAACGCCGCTAAAGATTAAGTATTAGCGGCGCTTTT
*
31803951 AAAAAAACGCCGCTAAAGATTAAGTATTAGCGGCGCTTTT
1 TAAAAAACGCCGCTAAAGATTAAGTATTAGCGGCGCTTTT
* * * * *
31803991 TTAAAAACGCCGGTAATGATT-ATTTTTAGCGGCG-TTTT
1 TAAAAAACGCCGCTAAAGATTAAGTATTAGCGGCGCTTTT
*
31804029 TCAAAAAGCGCCGC
1 T-AAAAAACGCCGC
31804043 AAAAAATCTA
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
38 5 0.06
39 20 0.26
40 52 0.68
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.27
Consensus pattern (40 bp):
TAAAAAACGCCGCTAAAGATTAAGTATTAGCGGCGCTTTT
Found at i:31805847 original size:17 final size:17
Alignment explanation
Indices: 31805825--31805859 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
31805815 TAGCTTTGTG
31805825 TGCTAGTATATTTTAAA
1 TGCTAGTATATTTTAAA
31805842 TGCTAGTATATTTTAAA
1 TGCTAGTATATTTTAAA
31805859 T
1 T
31805860 TAGACTGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.49
Consensus pattern (17 bp):
TGCTAGTATATTTTAAA
Found at i:31807835 original size:16 final size:16
Alignment explanation
Indices: 31807814--31807844 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
31807804 TGTAACCTAT
31807814 CTGATGTTTACAATAA
1 CTGATGTTTACAATAA
31807830 CTGATGTTTACAATA
1 CTGATGTTTACAATA
31807845 GTTTGGGACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (16 bp):
CTGATGTTTACAATAA
Found at i:31808895 original size:43 final size:43
Alignment explanation
Indices: 31808802--31809136 Score: 487
Period size: 43 Copynumber: 7.8 Consensus size: 43
31808792 TTTTTGCTAG
* * * * **
31808802 AAGCGCCGCTAAAGGT-TTGTTCTTTAACGGCGTTTTTGATAA
1 AAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGAA
* * *
31808844 AAGTGCCGCTAAAGGTCATGGT-TTATAGCGCCGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCCTGGTCTT-TAGCGGCGTTTGTGGGAA
*
31808887 AAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTATGGGAA
1 AAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGAA
*
31808930 AAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTATGGGAA
1 AAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGAA
* *
31808973 AAGCGCCGCTAAAGGTCCTGGTCTTTAGTGGCGTTTGTGTGAA
1 AAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGAA
*
31809016 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGG-A
1 AAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGAA
*
31809058 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGAA
* *
31809101 AAGCACCGCTAAAGGTCTTGGTCTTTAGCGGCGTTT
1 AAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTT
31809137 TTTTCTAAAA
Statistics
Matches: 270, Mismatches: 19, Indels: 7
0.91 0.06 0.02
Matches are distributed among these distances:
42 59 0.22
43 209 0.77
44 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.29
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCCTGGTCTTTAGCGGCGTTTGTGGGAA
Found at i:31813538 original size:24 final size:24
Alignment explanation
Indices: 31813510--31813561 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
31813500 TTAGTAGGTC
* *
31813510 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
31813534 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
31813558 AAAT
1 AAAT
31813562 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:31813755 original size:16 final size:16
Alignment explanation
Indices: 31813731--31813770 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
31813721 ATATTTTATT
* *
31813731 TTCATTCTCTGTAACA
1 TTCAATCTCTATAACA
31813747 TTCAATCTCTATAACA
1 TTCAATCTCTATAACA
31813763 TTCAATCT
1 TTCAATCT
31813771 ATAAGAACAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.30, C:0.25, G:0.03, T:0.42
Consensus pattern (16 bp):
TTCAATCTCTATAACA
Found at i:31813773 original size:14 final size:15
Alignment explanation
Indices: 31813737--31813774 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
31813727 TATTTTCATT
*
31813737 CTCTGTAACATTCAA
1 CTCTATAACATTCAA
31813752 TCTCTATAACATTCAA
1 -CTCTATAACATTCAA
31813768 -TCTATAA
1 CTCTATAA
31813775 GAACAGCCCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 7 0.33
16 14 0.67
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.37
Consensus pattern (15 bp):
CTCTATAACATTCAA
Found at i:31814234 original size:6 final size:6
Alignment explanation
Indices: 31814219--31814253 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
31814209 TTATTTTCCA
31814219 TTCT-C TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC
1 TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC
31814254 CCCAGTTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 4 0.14
6 25 0.86
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (6 bp):
TTCTCC
Found at i:31815333 original size:18 final size:18
Alignment explanation
Indices: 31815312--31815367 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
31815302 GAAAAAAATT
31815312 AAATTGCCCAAAACAAAA
1 AAATTGCCCAAAACAAAA
31815330 AAATATG---AAAA-AAAA
1 AAAT-TGCCCAAAACAAAA
*
31815345 TAAATTACCCAAAACAAAA
1 -AAATTGCCCAAAACAAAA
31815364 AAAT
1 AAAT
31815368 ATGAAAGTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
15 5 0.16
16 8 0.26
18 12 0.39
19 6 0.19
ACGTcount: A:0.68, C:0.14, G:0.04, T:0.14
Consensus pattern (18 bp):
AAATTGCCCAAAACAAAA
Found at i:31815341 original size:17 final size:17
Alignment explanation
Indices: 31815321--31815373 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
31815311 TAAATTGCCC
31815321 AAAACAAAAAAATATGA
1 AAAACAAAAAAATATGA
* ***
31815338 AAAA-AAATAAATTACCC
1 AAAACAAA-AAAATATGA
31815355 AAAACAAAAAAATATGA
1 AAAACAAAAAAATATGA
31815372 AA
1 AA
31815374 GTCAATTGTA
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
16 3 0.12
17 20 0.77
18 3 0.12
ACGTcount: A:0.74, C:0.09, G:0.04, T:0.13
Consensus pattern (17 bp):
AAAACAAAAAAATATGA
Found at i:31815342 original size:35 final size:34
Alignment explanation
Indices: 31815293--31815373 Score: 126
Period size: 34 Copynumber: 2.4 Consensus size: 34
31815283 AAAACAAAAT
* * *
31815293 AAAAATAAAGAAAAAAATTAAATTGCCCAAAACAA
1 AAAAAT-ATGAAAAAAAATAAATTACCCAAAACAA
31815328 AAAAATATGAAAAAAAATAAATTACCCAAAACAA
1 AAAAATATGAAAAAAAATAAATTACCCAAAACAA
31815362 AAAAATATGAAA
1 AAAAATATGAAA
31815374 GTCAATTGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
34 37 0.86
35 6 0.14
ACGTcount: A:0.70, C:0.10, G:0.05, T:0.15
Consensus pattern (34 bp):
AAAAATATGAAAAAAAATAAATTACCCAAAACAA
Found at i:31817652 original size:131 final size:131
Alignment explanation
Indices: 31817418--31817680 Score: 490
Period size: 131 Copynumber: 2.0 Consensus size: 131
31817408 TATGTATGAG
* *
31817418 GCCAAAACACTTCTATGGTCCATCTCGATGCCCAAACTTTTCAACCTAAAGCTTTACCTGACGGT
1 GCCAAAACACTTCTATGGTCCATCTCAATGCCCAAACTTTTCAACCTAAAGCTTTACCTGACAGT
*
31817483 CCTGACCTCATTTTTCAGCTTAAAACCTACTACAAATTATAACCATCTCTCCAACTTCAGCTGAT
66 CCAGACCTCATTTTTCAGCTTAAAACCTACTACAAATTATAACCATCTCTCCAACTTCAGCTGAT
31817548 T
131 T
*
31817549 GCCAAAACACTTCTATGGTCCATCTCAATGCCCAAACTTTTCAGCCTAAAGCTTTACCTGACAGT
1 GCCAAAACACTTCTATGGTCCATCTCAATGCCCAAACTTTTCAACCTAAAGCTTTACCTGACAGT
31817614 CCAGACCTCATTTTTCAGCTTAAAACCTACTACAAATTATAACCATCTCTCCAACTTCAGCTGAT
66 CCAGACCTCATTTTTCAGCTTAAAACCTACTACAAATTATAACCATCTCTCCAACTTCAGCTGAT
31817679 T
131 T
31817680 G
1 G
31817681 AAAAGTGCCT
Statistics
Matches: 128, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
131 128 1.00
ACGTcount: A:0.30, C:0.30, G:0.10, T:0.30
Consensus pattern (131 bp):
GCCAAAACACTTCTATGGTCCATCTCAATGCCCAAACTTTTCAACCTAAAGCTTTACCTGACAGT
CCAGACCTCATTTTTCAGCTTAAAACCTACTACAAATTATAACCATCTCTCCAACTTCAGCTGAT
T
Found at i:31819322 original size:2 final size:2
Alignment explanation
Indices: 31819315--31819344 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
31819305 TTAACCTGAA
31819315 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31819345 TTTAAATTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31821861 original size:24 final size:24
Alignment explanation
Indices: 31821834--31821879 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
31821824 CTAATTAAAT
* *
31821834 TTTATAAATAATTAATATTTATTG
1 TTTAAAAATAATTAAAATTTATTG
*
31821858 TTTAAAAATATTTAAAATTTAT
1 TTTAAAAATAATTAAAATTTAT
31821880 ATTTCATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
TTTAAAAATAATTAAAATTTATTG
Found at i:31822539 original size:26 final size:26
Alignment explanation
Indices: 31822531--31822585 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
31822521 CTTAATATTT
31822531 AAGTAAATATATATAATATAATAATA
1 AAGTAAATATATATAATATAATAATA
*
31822557 AAGTAAATATA-ATAAAATAAATAAGTA
1 AAGTAAATATATATAATAT-AATAA-TA
31822584 AA
1 AA
31822586 TGAAATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 6 0.23
26 16 0.62
27 4 0.15
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.29
Consensus pattern (26 bp):
AAGTAAATATATATAATATAATAATA
Found at i:31822569 original size:22 final size:22
Alignment explanation
Indices: 31822530--31822599 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 22
31822520 ACTTAATATT
*
31822530 TAAGTAAATATATATAATATAATAA
1 TAAGTAAATATA-ATAAAAT-A-AA
31822555 TAAAGTAAATATAATAAAATAAA
1 T-AAGTAAATATAATAAAATAAA
*
31822578 TAAGTAAATGA-AATAAATTAAA
1 TAAGTAAAT-ATAATAAAATAAA
31822600 AAAGAAAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
22 18 0.44
23 4 0.10
24 1 0.02
25 7 0.17
26 11 0.27
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (22 bp):
TAAGTAAATATAATAAAATAAA
Found at i:31825321 original size:15 final size:15
Alignment explanation
Indices: 31825297--31825346 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
31825287 TCCATTTGTT
31825297 ACACACGCTCGTGTC
1 ACACACGCTCGTGTC
*
31825312 ACACATGCTCGTGTC
1 ACACACGCTCGTGTC
*
31825327 ACACACCCAT-GTGTC
1 ACACACGC-TCGTGTC
31825342 ACACA
1 ACACA
31825347 TTAAAACCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
15 30 0.97
16 1 0.03
ACGTcount: A:0.26, C:0.38, G:0.16, T:0.20
Consensus pattern (15 bp):
ACACACGCTCGTGTC
Found at i:31826667 original size:138 final size:138
Alignment explanation
Indices: 31826477--31826753 Score: 495
Period size: 138 Copynumber: 2.0 Consensus size: 138
31826467 GCATAAGCTT
31826477 AATTGTAACACCCCTTACCCGAGACCGTTTCCGGAGTCGAGCACGAGGCATTACTTAGCTTATCT
1 AATTGTAACACCCCTTACCCGAGACCGTTTCCGGAGTCGAGCACGAGGCATTACTTAGCTTATCT
* *
31826542 TACCAATTCGGAGCATAAAAATTTACTTTTGCAAAATT-TATTTCACTATTTACAGCAAATCTGT
66 TACCAATTCGGAGCATAAAAATTTACCTTTGC-AAATTAT-TTTCACTATTTACAGCAAAGCTGT
31826606 CCAATCGCGC
129 CCAATCGCGC
31826616 AATTGTAACA-CCCTTACCCGAGACCGTTTCCGGAGTCGAGCACGAGGCATTACTTAGCTTATCT
1 AATTGTAACACCCCTTACCCGAGACCGTTTCCGGAGTCGAGCACGAGGCATTACTTAGCTTATCT
31826680 TACCAATTCGGAGCATAAAAATTTACCTTTGCAAATTATTTTCACTATTTACAGCAAAGCTGTCC
66 TACCAATTCGGAGCATAAAAATTTACCTTTGCAAATTATTTTCACTATTTACAGCAAAGCTGTCC
*
31826745 AATTGCGC
131 AATCGCGC
31826753 A
1 A
31826754 GCGGTCACTA
Statistics
Matches: 134, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
137 38 0.28
138 86 0.64
139 10 0.07
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.30
Consensus pattern (138 bp):
AATTGTAACACCCCTTACCCGAGACCGTTTCCGGAGTCGAGCACGAGGCATTACTTAGCTTATCT
TACCAATTCGGAGCATAAAAATTTACCTTTGCAAATTATTTTCACTATTTACAGCAAAGCTGTCC
AATCGCGC
Found at i:31832744 original size:15 final size:15
Alignment explanation
Indices: 31832724--31832756 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
31832714 TTATGTGTCG
*
31832724 TATGTAATTATTATT
1 TATGTAAATATTATT
31832739 TATGTAAATATTATT
1 TATGTAAATATTATT
31832754 TAT
1 TAT
31832757 CCATAGAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (15 bp):
TATGTAAATATTATT
Found at i:31836644 original size:21 final size:22
Alignment explanation
Indices: 31836615--31836674 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
31836605 ACTTTCACCG
*
31836615 CGTTATGGATGAACCACTT-AT
1 CGTTGTGGATGAACCACTTCAT
31836636 CGTTGTGGATGAACCA-TTCAT
1 CGTTGTGGATGAACCACTTCAT
** *
31836657 TATTGTGGATGACCCACT
1 CGTTGTGGATGAACCACT
31836675 AGTAGTAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 2 0.06
21 30 0.91
22 1 0.03
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (22 bp):
CGTTGTGGATGAACCACTTCAT
Found at i:31845969 original size:26 final size:26
Alignment explanation
Indices: 31845922--31845976 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
31845912 TTGATTAGAG
* *
31845922 ATGTTGAAGGTAGAAAGGTGTTCAAC
1 ATGTTGAAGGCAGAAAGATGTTCAAC
*
31845948 ATGTTGAAGGCAGAGAGATGTTCAAC
1 ATGTTGAAGGCAGAAAGATGTTCAAC
31845974 ATG
1 ATG
31845977 AAAATGAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.25
Consensus pattern (26 bp):
ATGTTGAAGGCAGAAAGATGTTCAAC
Found at i:31850675 original size:43 final size:43
Alignment explanation
Indices: 31850585--31850675 Score: 101
Period size: 43 Copynumber: 2.1 Consensus size: 43
31850575 TAATAATTTG
* * * *
31850585 CAAACACTGGTGGTTCATCCACAACCTACTAACAATTTATTTG
1 CAAACACTAGTGGTTCATCCACAACCTACTAACAATCTATCTA
* * * * *
31850628 CAAACATTAGTGGTTCATCCATATCTTACTAGCAATCTATCTA
1 CAAACACTAGTGGTTCATCCACAACCTACTAACAATCTATCTA
31850671 CAAAC
1 CAAAC
31850676 TTTTTTTAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.34, C:0.25, G:0.10, T:0.31
Consensus pattern (43 bp):
CAAACACTAGTGGTTCATCCACAACCTACTAACAATCTATCTA
Found at i:31850740 original size:21 final size:21
Alignment explanation
Indices: 31850714--31850755 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
31850704 CAATTTTTAC
*
31850714 TATTGGCAGTTTATCTACAAA
1 TATTGGCAGTTTATCCACAAA
**
31850735 TATTGGTGGTTTATCCACAAA
1 TATTGGCAGTTTATCCACAAA
31850756 CTGGAGTGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (21 bp):
TATTGGCAGTTTATCCACAAA
Found at i:31864659 original size:44 final size:44
Alignment explanation
Indices: 31864609--31864701 Score: 152
Period size: 44 Copynumber: 2.1 Consensus size: 44
31864599 TAAACTATGT
*
31864609 TATTAGTTTCTCACTTAAACT-TTGATTAGTGTAGATTATTTTAA
1 TATTAGTTTCCCACTTAAACTCTT-ATTAGTGTAGATTATTTTAA
*
31864653 TATTAGTTTCCCACTTAAACTCTTATTAGTGTAGGTTATTTTAA
1 TATTAGTTTCCCACTTAAACTCTTATTAGTGTAGATTATTTTAA
31864697 TATTA
1 TATTA
31864702 TTTGACCTAC
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 44 0.96
45 2 0.04
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (44 bp):
TATTAGTTTCCCACTTAAACTCTTATTAGTGTAGATTATTTTAA
Found at i:31867404 original size:33 final size:33
Alignment explanation
Indices: 31867367--31867432 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
31867357 AGTCTCTTTA
31867367 GAATTTGCTGAAGCTGCAATGGTTTATTGTGCT
1 GAATTTGCTGAAGCTGCAATGGTTTATTGTGCT
31867400 GAATTTGCTGAAGCTGCAATGGTTTATTGTGCT
1 GAATTTGCTGAAGCTGCAATGGTTTATTGTGCT
31867433 TCCTATTGAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.12, G:0.27, T:0.39
Consensus pattern (33 bp):
GAATTTGCTGAAGCTGCAATGGTTTATTGTGCT
Found at i:31874778 original size:30 final size:30
Alignment explanation
Indices: 31874742--31874803 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
31874732 ACTTATTTTA
31874742 TTGTTAATTTTATTATTATTTTAAAGACAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
* *
31874772 TTGTTAATTTTATTATTATTTTAGAGGCAT
1 TTGTTAATTTTATTATTATTTTAAAGACAT
31874802 TT
1 TT
31874804 TCTTGTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.03, G:0.10, T:0.58
Consensus pattern (30 bp):
TTGTTAATTTTATTATTATTTTAAAGACAT
Found at i:31875768 original size:41 final size:41
Alignment explanation
Indices: 31875721--31875857 Score: 186
Period size: 41 Copynumber: 3.3 Consensus size: 41
31875711 NNNNNNNNNN
**
31875721 AATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTTT
1 AATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTAA
*
31875762 AATTTTAAAATATTTTTAAAATACTTTTTTTAA-TTTTAAA
1 AATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTAA
* * *
31875802 ATATTTTAAAAAAAATTTTAAAATCCTTTTTTTAATTTTTTAA
1 A-ATTTT-AAAATATTTTTAAAATACTTTTTTTAATTTTTTAA
31875845 AATTTTTAAAATA
1 AA-TTTTAAAATA
31875858 AAAATGGGCC
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
40 5 0.06
41 38 0.45
42 30 0.36
43 11 0.13
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (41 bp):
AATTTTAAAATATTTTTAAAATACTTTTTTTAATTTTTTAA
Found at i:31875809 original size:30 final size:31
Alignment explanation
Indices: 31875734--31875813 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 31
31875724 TTTAAAATAT
**
31875734 TTTTAAAATACTTTTTTTAAT--TTTTTTTAA
1 TTTTAAAATA-TTTTTAAAATACTTTTTTTAA
31875764 TTTTAAAATATTTTTAAAATACTTTTTTTAA
1 TTTTAAAATATTTTTAAAATACTTTTTTTAA
*
31875795 TTTTAAAATATTTTAAAAA
1 TTTTAAAATATTTTTAAAA
31875814 AAATTTTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 8 0.18
30 10 0.22
31 27 0.60
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.59
Consensus pattern (31 bp):
TTTTAAAATATTTTTAAAATACTTTTTTTAA
Found at i:31876999 original size:16 final size:16
Alignment explanation
Indices: 31876978--31877008 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31876968 TTATTTTATG
31876978 TTTAAATTTAGTATAT
1 TTTAAATTTAGTATAT
*
31876994 TTTAAATTTATTATA
1 TTTAAATTTAGTATA
31877009 ATACTATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TTTAAATTTAGTATAT
Found at i:31882537 original size:19 final size:19
Alignment explanation
Indices: 31882513--31882549 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
31882503 TTTTTCAAGA
31882513 TATTTTCATTTTCATTTTT
1 TATTTTCATTTTCATTTTT
* *
31882532 TATTTTTATTTTTATTTT
1 TATTTTCATTTTCATTTT
31882550 GGAGAAAACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.78
Consensus pattern (19 bp):
TATTTTCATTTTCATTTTT
Found at i:31882626 original size:57 final size:58
Alignment explanation
Indices: 31882539--31882650 Score: 142
Period size: 57 Copynumber: 1.9 Consensus size: 58
31882529 TTTTATTTTT
* *
31882539 ATTTTTATTTTGGAGAAAACTACATTCATTTGCAAATGATTT-C-ATTTCTCCATTCTC
1 ATTTTCATTTTGGAGAAAACTACATCCATTTGCAAATG-TTTCCTATTTCTCCATTCTC
*
31882596 ATTTTCATTTTGGAGAAAACCTTA-A-CCATTTTCAAATGTTTCCTATTTCTCCATT
1 ATTTTCATTTTGGAGAAAA-C-TACATCCATTTGCAAATGTTTCCTATTTCTCCATT
31882651 TCACCAACTA
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
56 3 0.06
57 30 0.62
58 13 0.27
59 2 0.04
ACGTcount: A:0.28, C:0.19, G:0.08, T:0.46
Consensus pattern (58 bp):
ATTTTCATTTTGGAGAAAACTACATCCATTTGCAAATGTTTCCTATTTCTCCATTCTC
Found at i:31883005 original size:71 final size:71
Alignment explanation
Indices: 31882889--31883030 Score: 248
Period size: 71 Copynumber: 2.0 Consensus size: 71
31882879 ACTAGTGCTA
31882889 GTCCAATGACCTTGTTATAAATGAGTGACTCTCATAGGATATGCTTAATCTCTTTAGGATAATAT
1 GTCCAATGACCTTGTTATAAATGAGTGACTCTCATAGGATATGCTTAATCTCTTTAGGATAATAT
31882954 TCATTC
66 TCATTC
* * * *
31882960 GTCCAATGACCTTGTTATAAATGAGTTACTCTCATAGGGTATGCTTAGTCTCTTTGGGATAATAT
1 GTCCAATGACCTTGTTATAAATGAGTGACTCTCATAGGATATGCTTAATCTCTTTAGGATAATAT
31883025 TCATTC
66 TCATTC
31883031 TCCCTATATG
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 67 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.39
Consensus pattern (71 bp):
GTCCAATGACCTTGTTATAAATGAGTGACTCTCATAGGATATGCTTAATCTCTTTAGGATAATAT
TCATTC
Found at i:31884634 original size:191 final size:191
Alignment explanation
Indices: 31884310--31884691 Score: 624
Period size: 191 Copynumber: 2.0 Consensus size: 191
31884300 GACGTCGTGA
* *
31884310 CGAGCTAAGACTTGTCGTCTCGTTGCGACGTGACATAATGTAATTGCCATGTCGTGACAAGCACT
1 CGAGCTAAGACTTGTCGTCTCGTTGCAACGTGACATAATGTAATTGCCATGTCGTGACAAACACT
*
31884375 AGATGAAGTCACAACGTCAAACCATACATTTGCAAAACTTTACAATTTGATCCTATTTCGTGCTC
66 AGATGAAGTCACAACGTCAAACCATACATTTGCAAAACTTTACAATTTGATCATATTTCGTGCTC
*
31884440 GGGTTAATATAAAAGCATTGGTAAGCTCAATTAAGACTTAGAT-T-GATTGTTTATCATGAAT
131 GGGTTAATATAAAAGCATTGGTAAGCTCAATTAA-ACTTAGATCTAG-CTGTTTATCATGAAT
* *
31884501 CGAGCTAAGACTTGTCGTGTCGTTGCAACGTGACATACTGTAATTGCCATGTCGTGACAAACACT
1 CGAGCTAAGACTTGTCGTCTCGTTGCAACGTGACATAATGTAATTGCCATGTCGTGACAAACACT
** * * *
31884566 AGATGAAGTCATGACGTCAAACCATACATTTGTAAAACTTTACAATTTGGTTATATTTCGTGCTC
66 AGATGAAGTCACAACGTCAAACCATACATTTGCAAAACTTTACAATTTGATCATATTTCGTGCTC
*
31884631 GGGTTAATATAAGAGCATTGGTAAGCTCAATTAAACTTAGATCTAGCTGTTTATCATGAAT
131 GGGTTAATATAAAAGCATTGGTAAGCTCAATTAAACTTAGATCTAGCTGTTTATCATGAAT
31884692 TGAATGTATT
Statistics
Matches: 177, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
190 8 0.05
191 168 0.95
192 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (191 bp):
CGAGCTAAGACTTGTCGTCTCGTTGCAACGTGACATAATGTAATTGCCATGTCGTGACAAACACT
AGATGAAGTCACAACGTCAAACCATACATTTGCAAAACTTTACAATTTGATCATATTTCGTGCTC
GGGTTAATATAAAAGCATTGGTAAGCTCAATTAAACTTAGATCTAGCTGTTTATCATGAAT
Found at i:31886262 original size:22 final size:22
Alignment explanation
Indices: 31886232--31886304 Score: 128
Period size: 22 Copynumber: 3.3 Consensus size: 22
31886222 CTCTCTAATC
*
31886232 CTCTTAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
31886254 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
*
31886276 CTTTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
31886298 CTCTCAA
1 CTCTCAA
31886305 ACCCATATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.42
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:31886340 original size:51 final size:51
Alignment explanation
Indices: 31886279--31886388 Score: 202
Period size: 51 Copynumber: 2.2 Consensus size: 51
31886269 CAAAATTCTT
*
31886279 TCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTCCTC
1 TCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTCCCC
*
31886330 TCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATTTCCCC
1 TCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTCCCC
31886381 TCAATTTC
1 TCAATTTC
31886389 ATTTTTGTAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (51 bp):
TCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATTTCCCC
Found at i:31892342 original size:123 final size:126
Alignment explanation
Indices: 31891996--31892346 Score: 559
Period size: 123 Copynumber: 2.8 Consensus size: 126
31891986 CCCAAACTTG
*
31891996 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCCCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* *
31892061 TAGAGGCGATTTTATACTATTTGCTCAGAAACTTAAAAAATATATATATTTCTTACATAAC
66 TAGAGGCGATTTTATACTATTTGCTCAGAAACGTCAAAAATATATATATTTCTTACATAAC
* * **
31892122 CTACTGTAGCAAAATCGCGTCCACTAGGGCACGATTTCACAATTTCTTCTCAAATATAATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* *
31892187 TAGAGGCGATTTTATACTATTCT-CTCAAAAACGTCAAAAA-A-AT-TATTTCTTACATGAC
66 TAGAGGCGATTTTATACTATT-TGCTCAGAAACGTCAAAAATATATATATTTCTTACATAAC
*
31892245 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCAATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
31892310 TAGAGGCGATTTTATACTATTTGAC-CAGAAACGTCAA
66 TAGAGGCGATTTTATACTATTTG-CTCAGAAACGTCAA
31892347 CTCAAAATAA
Statistics
Matches: 207, Mismatches: 15, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
122 1 0.00
123 106 0.51
124 3 0.01
125 1 0.00
126 95 0.46
127 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.30
Consensus pattern (126 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAGGCGATTTTATACTATTTGCTCAGAAACGTCAAAAATATATATATTTCTTACATAAC
Found at i:31897187 original size:13 final size:15
Alignment explanation
Indices: 31897168--31897205 Score: 55
Period size: 13 Copynumber: 2.7 Consensus size: 15
31897158 TATTTATTTC
31897168 CTATTTTAATT-ATT
1 CTATTTTAATTGATT
31897182 -TATTTTAATTGATT
1 CTATTTTAATTGATT
31897196 CTA-TTTAATT
1 CTATTTTAATT
31897206 TTTTCTAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.45
14 10 0.45
15 2 0.09
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.63
Consensus pattern (15 bp):
CTATTTTAATTGATT
Found at i:31897630 original size:16 final size:16
Alignment explanation
Indices: 31897583--31897633 Score: 75
Period size: 16 Copynumber: 3.2 Consensus size: 16
31897573 GGTTGGGGAG
*
31897583 AATAGAATAGAGCTGT
1 AATAGAATAGAGTTGT
*
31897599 AATGGAATAGAGTTGT
1 AATAGAATAGAGTTGT
*
31897615 AATAGAATAGAATTGT
1 AATAGAATAGAGTTGT
31897631 AAT
1 AAT
31897634 TAGCAATTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.45, C:0.02, G:0.24, T:0.29
Consensus pattern (16 bp):
AATAGAATAGAGTTGT
Found at i:31897708 original size:44 final size:46
Alignment explanation
Indices: 31897615--31897710 Score: 126
Period size: 44 Copynumber: 2.1 Consensus size: 46
31897605 ATAGAGTTGT
*
31897615 AATAGAATAGAATTGTAATTAGCAATTCAGTTGTTTGGTTGAATGG
1 AATAGAATAGAATTGTAATTAGCAATTCAGTTGTTTAGTTGAATGG
* * *
31897661 AATAGAATAGAGTTGTAA-TAG-TATTC-TTGTGTTTAGTTGAATGG
1 AATAGAATAGAATTGTAATTAGCAATTCAGT-TGTTTAGTTGAATGG
31897705 AATAGA
1 AATAGA
31897711 TGTTGTAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 24 0.53
45 3 0.07
46 17 0.38
ACGTcount: A:0.35, C:0.03, G:0.24, T:0.38
Consensus pattern (46 bp):
AATAGAATAGAATTGTAATTAGCAATTCAGTTGTTTAGTTGAATGG
Found at i:31897959 original size:24 final size:23
Alignment explanation
Indices: 31897932--31897981 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
31897922 TATTATTAAA
*
31897932 ATATGAAT-TAATAAAAATCATAAT
1 ATAT-AATATAATAAAAATAAT-AT
*
31897956 ATATAATATTATAAAAATAATAT
1 ATATAATATAATAAAAATAATAT
31897979 ATA
1 ATA
31897982 ACCTACTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
ATATAATATAATAAAAATAATAT
Found at i:31900907 original size:16 final size:16
Alignment explanation
Indices: 31900886--31900952 Score: 89
Period size: 16 Copynumber: 4.2 Consensus size: 16
31900876 GGTTCACTAG
*
31900886 AATGGAATAGGGCTGT
1 AATGGAATAGAGCTGT
*
31900902 AATGGAATAGAGTTGT
1 AATGGAATAGAGCTGT
* *
31900918 AATGTAATAAAGCTGT
1 AATGGAATAGAGCTGT
*
31900934 AATGGAATAGAGCTAT
1 AATGGAATAGAGCTGT
31900950 AAT
1 AAT
31900953 CAGTAATTCA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.40, C:0.04, G:0.27, T:0.28
Consensus pattern (16 bp):
AATGGAATAGAGCTGT
Found at i:31900987 original size:46 final size:44
Alignment explanation
Indices: 31900931--31901022 Score: 123
Period size: 46 Copynumber: 2.0 Consensus size: 44
31900921 GTAATAAAGC
* *
31900931 TGTAATGGAATAGAGCTATAATCAGTAATTCAAT-TGTTTGGTTGAA
1 TGTAACGGAATAGAACTATAAT-AGT-ATT-AATGTGTTTGGTTGAA
*
31900977 TGTAACGGAATAGAACTATAATAGTATTATTGTGTTTGGTTGAA
1 TGTAACGGAATAGAACTATAATAGTATTAATGTGTTTGGTTGAA
31901021 TG
1 TG
31901023 GAATAGATAT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 2 0.05
44 17 0.40
45 3 0.07
46 20 0.48
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.38
Consensus pattern (44 bp):
TGTAACGGAATAGAACTATAATAGTATTAATGTGTTTGGTTGAA
Found at i:31901180 original size:21 final size:20
Alignment explanation
Indices: 31901154--31901222 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 20
31901144 ATAAAAATAA
31901154 ATAATTTAATCATATTTTAAT
1 ATAATTTAAT-ATATTTTAAT
*
31901175 ATAA-TT-AT-TA-TTAAAT
1 ATAATTTAATATATTTTAAT
*
31901191 ATAATTTAATAACATTCTTAAT
1 ATAATTTAAT-ATATT-TTAAT
31901213 AT-ATTTAATA
1 ATAATTTAATA
31901223 ACATTCCCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 13
0.71 0.05 0.24
Matches are distributed among these distances:
16 9 0.23
17 4 0.10
18 2 0.05
19 2 0.05
20 4 0.10
21 12 0.31
22 6 0.15
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.49
Consensus pattern (20 bp):
ATAATTTAATATATTTTAAT
Found at i:31901223 original size:21 final size:22
Alignment explanation
Indices: 31901188--31901239 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
31901178 ATTATTATTA
31901188 AATATAATTTAATAACATTCTT
1 AATATAATTTAATAACATTCTT
**
31901210 AATAT-ATTTAATAACATTCCC
1 AATATAATTTAATAACATTCTT
31901231 AATATAATT
1 AATATAATT
31901240 ATTTTCATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (22 bp):
AATATAATTTAATAACATTCTT
Found at i:31910714 original size:62 final size:60
Alignment explanation
Indices: 31910586--31910878 Score: 198
Period size: 62 Copynumber: 4.8 Consensus size: 60
31910576 TGAGCCGGGT
* * * * * * * * * **
31910586 GGAACCAAATTTTCAAAAAT-GTTATTAGGCAAAACTAGGATTTTTGAAACGAACCTAGGT
1 GGAACCAAACTTTCAAAAATACTTACTAGGTAGAACCAGAACTTTTGAAA-GAAACTAGAC
* * * * * *
31910646 GAAACCAAAGTTTCATAAATACGTACTAAGCAGAACCAGAACTTTTGAAAGCAAACCTAGAC
1 GGAACCAAACTTTCAAAAATACTTACTAGGTAGAACCAGAACTTTTGAAAG-AAA-CTAGAC
** * * * * *
31910708 GGAACCAGTCTTTCAAAAATACCTACTAGGTGGAACTAGAACTTTTGAAAATAAACTTG-C
1 GGAACCAAACTTTCAAAAATACTTACTAGGTAGAACCAGAACTTTTG-AAAGAAACTAGAC
* *
31910768 GGAACCAAACTTTCAAAAATACTTACT-GGATAGAACCAAAACTTTTGAAAATGAAAC-AGGAT
1 GGAACCAAACTTTCAAAAATACTTACTAGG-TAGAACCAGAACTTTTG-AAA-GAAACTA-GAC
** * * * *
31910830 AAAACCAAAGTTGCATAAATACTTACTAGGTGGAACCAGAACTTTTGAA
1 GGAACCAAACTTTCAAAAATACTTACTAGGTAGAACCAGAACTTTTGAA
31910879 GATGAGTTTT
Statistics
Matches: 182, Mismatches: 42, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
59 2 0.01
60 61 0.34
61 33 0.18
62 81 0.45
63 5 0.03
ACGTcount: A:0.43, C:0.17, G:0.16, T:0.24
Consensus pattern (60 bp):
GGAACCAAACTTTCAAAAATACTTACTAGGTAGAACCAGAACTTTTGAAAGAAACTAGAC
Found at i:31910811 original size:60 final size:61
Alignment explanation
Indices: 31910648--31910878 Score: 207
Period size: 62 Copynumber: 3.8 Consensus size: 61
31910638 ACCTAGGTGA
* * * * * **
31910648 AACCAAAGTTTCATAAATACGTACTAAGCAGAACCAGAACTTTTGAAAGCAAACCTAGACGG
1 AACCAAACTTTCAAAAATACCTACTAGGTAGAACCAGAACTTTTGAAAATAAA-CTAGACGG
** * * *
31910710 AACCAGTCTTTCAAAAATACCTACTAGGTGGAACTAGAACTTTTGAAAATAAACTTG-CGG
1 AACCAAACTTTCAAAAATACCTACTAGGTAGAACCAGAACTTTTGAAAATAAACTAGACGG
* * ***
31910770 AACCAAACTTTCAAAAATACTTACT-GGATAGAACCAAAACTTTTGAAAATGAAAC-AGGATAA
1 AACCAAACTTTCAAAAATACCTACTAGG-TAGAACCAGAACTTTTGAAAAT-AAACTA-GACGG
* * * * *
31910832 AACCAAAGTTGCATAAATACTTACTAGGTGGAACCAGAACTTTTGAA
1 AACCAAACTTTCAAAAATACCTACTAGGTAGAACCAGAACTTTTGAA
31910879 GATGAGTTTT
Statistics
Matches: 137, Mismatches: 27, Indels: 10
0.79 0.16 0.06
Matches are distributed among these distances:
59 2 0.01
60 44 0.32
61 8 0.06
62 81 0.59
63 2 0.01
ACGTcount: A:0.43, C:0.18, G:0.15, T:0.23
Consensus pattern (61 bp):
AACCAAACTTTCAAAAATACCTACTAGGTAGAACCAGAACTTTTGAAAATAAACTAGACGG
Found at i:31910976 original size:31 final size:31
Alignment explanation
Indices: 31910917--31910976 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
31910907 GAAAATGAAC
* *
31910917 TTGGTTGAAACCAGACTTTCAAAAATACTTA
1 TTGGGTGAAACCAAACTTTCAAAAATACTTA
*
31910948 TTGGGTGAAACCAAAACTTT-AAAGATACT
1 TTGGGTGAAACC-AAACTTTCAAAAATACT
31910977 ACGGCGTTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 19 0.76
32 6 0.24
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (31 bp):
TTGGGTGAAACCAAACTTTCAAAAATACTTA
Found at i:31911963 original size:18 final size:20
Alignment explanation
Indices: 31911932--31911970 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
31911922 CAAGTTTGAA
31911932 TTATAACATATTTTATAATT
1 TTATAACATATTTTATAATT
*
31911952 TTAT-ACAT-TTTTATTATT
1 TTATAACATATTTTATAATT
31911970 T
1 T
31911971 ATTTTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 10 0.56
19 4 0.22
20 4 0.22
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (20 bp):
TTATAACATATTTTATAATT
Found at i:31923611 original size:18 final size:17
Alignment explanation
Indices: 31923588--31923626 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
31923578 TAATAAAAAC
31923588 AAACAAAGAAAAAATATA
1 AAACAAA-AAAAAATATA
*
31923606 AAAC-AATAAAAATATA
1 AAACAAAAAAAAATATA
31923622 AAACA
1 AAACA
31923627 TATACATGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 13 0.68
17 2 0.11
18 4 0.21
ACGTcount: A:0.77, C:0.08, G:0.03, T:0.13
Consensus pattern (17 bp):
AAACAAAAAAAAATATA
Found at i:31924451 original size:20 final size:19
Alignment explanation
Indices: 31924401--31924442 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
31924391 AAATAAACAA
* * *
31924401 AAAATAAAATAAAATAAAT
1 AAAATAGAAGAAAGTAAAT
31924420 AAAATAGAAGAAAGTAAAT
1 AAAATAGAAGAAAGTAAAT
31924439 AAAA
1 AAAA
31924443 ACGCAAGAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (19 bp):
AAAATAGAAGAAAGTAAAT
Found at i:31925294 original size:44 final size:44
Alignment explanation
Indices: 31925246--31926116 Score: 318
Period size: 44 Copynumber: 19.8 Consensus size: 44
31925236 CTGTGGTTTT
* * * *
31925246 AATCTGCTCCGCTGCAA-CTTCAAGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCGCTGTAATC-TCAGGGAGATAAGATTACTATCTTC
** *
31925290 AATCTATTCCACTGTAATCTCAGGGAGATAAGATTACTATCTTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTACTATCTTC
* * * *
31925334 AATCTGTTCTGCTATAATCTCAGGGAGATAAGATTACTATCTTT
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTACTATCTTC
* * * *
31925378 GATCTGCTCCGTTGTAATCTCAGGGAGATAAGATCTGCAATTCTTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-TACTA-TCTTC
** * * * *
31925424 GGTCTACTCCACTGTAATCTCAGGGAGATAAGA--CCTGA--TAC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTACT-ATCTTC
* ** ** * *
31925465 GATCCACTCTACTGTAA-CTTCAGAGAGATAAGA-T-C---CTTT
1 AATCTGCTCCGCTGTAATC-TCAGGGAGATAAGATTACTATCTTC
* * * * *
31925504 AATCAGCTCCACTGTAATCTCAAGGAGATAGGATTACTATCTTT
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTACTATCTTC
* * *
31925548 GATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-TACTA-TCTTC
** * * * *
31925594 GGTCTGCTCCACTGTAATCTCAGGGAGAAAAGA--CCTGA--TAC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTACT-ATCTTC
* ** ** * * *
31925635 GATCCACTCTACTGTAA-CTTCAGAGAGATAAGATCTATTAT-TTT
1 AATCTGCTCCGCTGTAATC-TCAGGGAGATAAGAT-TACTATCTTC
* * * * * *
31925679 AATCCGCCCCACTGTAA-CTTCAGGGAGATAGGA-TAGTGTCTTC
1 AATCTGCTCCGCTGTAATC-TCAGGGAGATAAGATTACTATCTTC
* * * **
31925722 GATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTACTATCTTC
* * *
31925766 AATCTGATGCGATCTACTCTACTGTAA-CTTCAGAGAGATAAGA-T-C---CTTT
1 AATC---T--G--CT-C-C-GCTGTAATC-TCAGGGAGATAAGATTACTATCTTC
* * * * * *
31925815 AATCCGCTCCACTGTAATCTCAGAGAGATAGGA-TAGTGTCTTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTACTATCTTC
* * * **
31925858 GATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGCTTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTACTATCTTC
* * *
31925902 AATCTGATGCGATCTACTCTACTGTAA-CTTCAGAGAGATAAGA-T-C---CTTT
1 AATC---T--G--CT-C-C-GCTGTAATC-TCAGGGAGATAAGATTACTATCTTC
* * * * * *
31925951 AATCCGCTCCACTGTAATCTCAGAGAGATAGGA-TAGTGTCTTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTACTATCTTC
* * **
31925994 GATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT-CTGGCTTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-TACTATCTTC
* *
31926038 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGA-TATTCTTC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT-T-ACTA-TCTTC
** * *
31926084 GGTCTACTCCACTGTAATCTCAGGGAGATAAGA
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGA
31926117 CCTGTATAAT
Statistics
Matches: 652, Mismatches: 113, Indels: 122
0.74 0.13 0.14
Matches are distributed among these distances:
39 67 0.10
40 8 0.01
41 60 0.09
42 8 0.01
43 98 0.15
44 232 0.36
45 9 0.01
46 100 0.15
47 2 0.00
49 16 0.02
51 4 0.01
52 4 0.01
53 6 0.01
54 38 0.06
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTACTATCTTC
Found at i:31925541 original size:170 final size:171
Alignment explanation
Indices: 31925348--31925751 Score: 634
Period size: 170 Copynumber: 2.4 Consensus size: 171
31925338 TGTTCTGCTA
* *
31925348 TAATCTCAGGGAGATAAGATTACTATCTTTGATCTGCTCCGTTGTAATCTCAGGGAGATAAGATC
1 TAATCTCAGGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATC
*
31925413 TGCAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGACCTGATACGATCCACTCTACT
66 TGCAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGAAAAGACCTGATACGATCCACTCTACT
*
31925478 GTAACTTCAGAGAGATAAGATC-CTTTAATCAGCTCCACTG
131 GTAACTTCAGAGAGATAAGATCTCTTTAATCAGCCCCACTG
*
31925518 TAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATC
1 TAATCTCAGGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATC
*
31925583 TGCAATTCTTCGGTCTGCTCCACTGTAATCTCAGGGAGAAAAGACCTGATACGATCCACTCTACT
66 TGCAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGAAAAGACCTGATACGATCCACTCTACT
* *
31925648 GTAACTTCAGAGAGATAAGATCTATTATTTTAATCCGCCCCACTG
131 GTAACTTCAGAGAGATAAGATC---T-CTTTAATCAGCCCCACTG
* * * *
31925693 TAA-CTTCAGGGAGATAGGA-TAGTGTCTTCGATCTGCTCCACTGTAATCTCAGGGAGATA
1 TAATC-TCAGGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATA
31925752 GGATTACTGG
Statistics
Matches: 215, Mismatches: 13, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
170 147 0.68
174 37 0.17
175 31 0.14
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (171 bp):
TAATCTCAGGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATC
TGCAATTCTTCGGTCTACTCCACTGTAATCTCAGGGAGAAAAGACCTGATACGATCCACTCTACT
GTAACTTCAGAGAGATAAGATCTCTTTAATCAGCCCCACTG
Found at i:31925695 original size:214 final size:214
Alignment explanation
Indices: 31925194--31925771 Score: 553
Period size: 214 Copynumber: 2.7 Consensus size: 214
31925184 GGATATAAGG
* ** * *
31925194 CCTGATACGATCCACTCTACTGTAACTTCAGAGAGATAAGATCTGTGGTTTTAATCTGCTCCGCT
1 CCTGATACGATCCACTCTACTGTAACTTCAGAGAGATAAGATCTATTATTTTAATCCGCTCCACT
* * * * *
31925259 GCAACTTCA-AGGAGATAGGATTACTAGCTTCAATCTA-TTCCACTGTAATCTCAGGGAGATAAG
66 GTAACTTCAGA-GAGATAAGAGTAC---CTTCAATC-AGCTCCACTGTAATCTCAGGGAGATAGG
* * * *
31925322 ATTACTATCTTCAATCTGTTCTGCTATAATCTCAGGGAGATAAGATTACTATCTTTGATCTGCTC
126 ATTACTATCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGATTACAATCTTCGATCTGCTC
** *
31925387 CGTTGTAATCTCAGGGAGATAAGA
191 CACTGTAATCTCAGGGAGAAAAGA
* * * * * * * ** *
31925411 TCTGCAATTCTTCGGTCTACTCCACTGTAA-TCTCAGGGAGATAAGACCTGA-TA---CGATCCA
1 CCTG--A---TACGATCCACTCTACTGTAACT-TCAGAGAGATAAGATCT-ATTATTTTAATCCG
* * *
31925471 CTCTACTGTAACTTCAGAGAGATAAGA-T-CCTTTAATCAGCTCCACTGTAATCTCAAGGAGATA
59 CTCCACTGTAACTTCAGAGAGATAAGAGTACCTTCAATCAGCTCCACTGTAATCTCAGGGAGATA
** * * *
31925534 GGATTACTATCTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGGTCT
124 GGATTACTATCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGAT-TACAA-TCTTCGATCT
31925599 GCTCCACTGTAATCTCAGGGAGAAAAGA
187 GCTCCACTGTAATCTCAGGGAGAAAAGA
*
31925627 CCTGATACGATCCACTCTACTGTAACTTCAGAGAGATAAGATCTATTATTTTAATCCGCCCCACT
1 CCTGATACGATCCACTCTACTGTAACTTCAGAGAGATAAGATCTATTATTTTAATCCGCTCCACT
* * ** * *
31925692 GTAACTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCACTGTAATCTCAGGGAGATAGGATT
66 GTAACTTCAGAGAGATA--AGAGTACCTTCAATCAGCTCCACTGTAATCTCAGGGAGATAGGATT
**
31925757 ACTGGCTTCAATCTG
129 ACTATCTTCAATCTG
31925772 ATGCGATCTA
Statistics
Matches: 284, Mismatches: 57, Indels: 39
0.75 0.15 0.10
Matches are distributed among these distances:
210 1 0.00
211 33 0.12
212 1 0.00
213 1 0.00
214 97 0.34
215 3 0.01
216 38 0.13
217 5 0.02
218 47 0.17
219 25 0.09
220 1 0.00
221 1 0.00
222 31 0.11
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (214 bp):
CCTGATACGATCCACTCTACTGTAACTTCAGAGAGATAAGATCTATTATTTTAATCCGCTCCACT
GTAACTTCAGAGAGATAAGAGTACCTTCAATCAGCTCCACTGTAATCTCAGGGAGATAGGATTAC
TATCTTCAATCTGCTCCGCTATAATCTCAGGGAGATAAGATTACAATCTTCGATCTGCTCCACTG
TAATCTCAGGGAGAAAAGA
Found at i:31925858 original size:136 final size:136
Alignment explanation
Indices: 31925628--31926043 Score: 701
Period size: 136 Copynumber: 3.0 Consensus size: 136
31925618 GAGAAAAGAC
* * * *
31925628 CTGATACGATCCACTCTACTGTAACTTCAGAGAGATAAGATCTATTATTTTAATCCGCCCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATC-----CTTTAATCCGCTCCACTG
*
31925693 TAA-CTTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCCACTGTAATCTCAGGGAGATAGGATT
61 TAATC-TCAGAGAGATAGGATAGTGTCTTCGATCTGCTCCACTGTAATCTCAGGGAGATAGGATT
31925757 ACTGGCTTCAAT
125 ACTGGCTTCAAT
31925769 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATC
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATC
31925834 TCAGAGAGATAGGATAGTGTCTTCGATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGC
66 TCAGAGAGATAGGATAGTGTCTTCGATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGC
31925899 TTCAAT
131 TTCAAT
31925905 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATC
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATC
*
31925970 TCAGAGAGATAGGATAGTGTCTTCGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCT-CTGG
66 TCAGAGAGATAGGATAGTGTCTTCGATCTGCTCCACTGTAATCTCAGGGAGATAGGAT-TACTGG
31926034 CTTCAAT
130 CTTCAAT
31926041 CTG
1 CTG
31926044 CTCCACTGTA
Statistics
Matches: 267, Mismatches: 6, Indels: 9
0.95 0.02 0.03
Matches are distributed among these distances:
136 225 0.84
137 2 0.01
141 40 0.15
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.30
Consensus pattern (136 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATC
TCAGAGAGATAGGATAGTGTCTTCGATCTGCTCCACTGTAATCTCAGGGAGATAGGATTACTGGC
TTCAAT
Found at i:31926106 original size:90 final size:82
Alignment explanation
Indices: 31925911--31926116 Score: 234
Period size: 90 Copynumber: 2.4 Consensus size: 82
31925901 CAATCTGATG
* * *
31925911 CGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTAATCCGCTCCACTGTAATCTCAGA
1 CGATCTACTCCACTGTAATC-TCAGGGAGATAAGATCCTTTAATCCGCTCCACTGTAACCTCAGA
*
31925975 GAGATAGGATAGTGTCTT
65 GAGATAAGATAGTGTCTT
* *
31925993 CGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCT
1 CGATCTACTCCACTGTAATCTCAGGGAGATAAGATC-CT---TT-AATCCGCTCCACTGTAACCT
* * *
31926058 CAGGGAGATAAGATCTGATATTCTT
61 CAGAGAGATAAGAT-AG-T-GTCTT
*
31926083 CGGTCTACTCCACTGTAATCTCAGGGAGATAAGA
1 CGATCTACTCCACTGTAATCTCAGGGAGATAAGA
31926117 CCTGTATAAT
Statistics
Matches: 104, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
82 31 0.30
83 3 0.03
86 2 0.02
87 30 0.29
88 1 0.01
89 1 0.01
90 36 0.35
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (82 bp):
CGATCTACTCCACTGTAATCTCAGGGAGATAAGATCCTTTAATCCGCTCCACTGTAACCTCAGAG
AGATAAGATAGTGTCTT
Found at i:31940436 original size:16 final size:17
Alignment explanation
Indices: 31940405--31940438 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
31940395 AAAAAAACGG
31940405 GTTCGGGAGTTGGTTAC
1 GTTCGGGAGTTGGTTAC
31940422 GTTCGGGAG-TGGTTAC
1 GTTCGGGAGTTGGTTAC
31940438 G
1 G
31940439 CACGAGGAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.12, C:0.12, G:0.44, T:0.32
Consensus pattern (17 bp):
GTTCGGGAGTTGGTTAC
Found at i:31941573 original size:3 final size:3
Alignment explanation
Indices: 31941567--31941612 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
31941557 AGTAGTAGTG
31941567 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
31941613 AGTTGCTAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:31942395 original size:21 final size:19
Alignment explanation
Indices: 31942342--31942387 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
31942332 GAGTTGTAGA
31942342 AAATAAACAAA-AA-AAA-T
1 AAATAAA-AAAGAAGAAAGT
*
31942359 AAATAAAATAGAAGAAAGT
1 AAATAAAAAAGAAGAAAGT
31942378 AAATAAAAAA
1 AAATAAAAAA
31942388 CGCAAGAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 2 0.08
17 9 0.38
18 3 0.12
19 10 0.42
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.13
Consensus pattern (19 bp):
AAATAAAAAAGAAGAAAGT
Found at i:31949075 original size:22 final size:22
Alignment explanation
Indices: 31949050--31949095 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
31949040 TAAATCCTTC
* *
31949050 CTCTC-AATTTCTCTCTAATATT
1 CTCTCAAATTCCTCTCAAAT-TT
31949072 CTCTCAAATTCCTCTCAAATTT
1 CTCTCAAATTCCTCTCAAATTT
31949094 CT
1 CT
31949096 ATTTAAAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.24, C:0.30, G:0.00, T:0.46
Consensus pattern (22 bp):
CTCTCAAATTCCTCTCAAATTT
Found at i:31949088 original size:11 final size:11
Alignment explanation
Indices: 31949047--31949092 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
31949037 AACTAAATCC
31949047 TTCCTCTC-AA
1 TTCCTCTCAAA
*
31949057 TTTCTCTCTAATA
1 TTCCTCTC-AA-A
31949070 TT-CTCTCAAA
1 TTCCTCTCAAA
31949080 TTCCTCTCAAA
1 TTCCTCTCAAA
31949091 TT
1 TT
31949093 TCTATTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
10 10 0.32
11 12 0.39
12 6 0.19
13 3 0.10
ACGTcount: A:0.24, C:0.30, G:0.00, T:0.46
Consensus pattern (11 bp):
TTCCTCTCAAA
Found at i:31951245 original size:21 final size:21
Alignment explanation
Indices: 31951206--31951263 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
31951196 CCAACACCGA
*
31951206 CAACCAG-ATCCCCTACCGGATG
1 CAACCAGAATCCCC-GCCGGA-G
31951228 -AACCAGAATCCCCGCCGGAG
1 CAACCAGAATCCCCGCCGGAG
* *
31951248 CAACCACAACCCCCGC
1 CAACCAGAATCCCCGC
31951264 TAGAAGCTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 1 0.03
21 24 0.77
22 6 0.19
ACGTcount: A:0.29, C:0.47, G:0.17, T:0.07
Consensus pattern (21 bp):
CAACCAGAATCCCCGCCGGAG
Found at i:31951526 original size:25 final size:25
Alignment explanation
Indices: 31951498--31951545 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
31951488 TATTTTGATA
*
31951498 TTATTTGATGTAATGAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
31951523 TTATTTGATGTAATAAAATAGAA
1 TTATTTGATGTAATAAAATAGAA
31951546 ATTTTTTTAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.40
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:31951586 original size:69 final size:66
Alignment explanation
Indices: 31951418--31951590 Score: 213
Period size: 69 Copynumber: 2.5 Consensus size: 66
31951408 TTATTTGGAA
* * * *
31951418 TATTTTGATATTATTTGATGTTATAAAATTCAAAATAGTTTATTTTGAATAGATAGAATTTTTTT
1 TATTTTGATATTATTTGATGTAATAAAA-T--AGA-AGTTTATTTTGAATAAATAGAATATTTTT
31951483 TTAGT
62 TTAGT
*
31951488 TATTTTGATATTATTTGATGTAATGAAATAGAAGTTTATTTGATGTAATAAAATAGAA-ATTTTT
1 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTT--TG-AAT-AAATAGAATATTTTT
31951552 TTAGT
62 TTAGT
*
31951557 TATTTTGATATTATTTGATGTGATAAAATAGAAG
1 TATTTTGATATTATTTGATGTAATAAAATAGAAG
31951591 GAACACTTGG
Statistics
Matches: 92, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
66 9 0.10
67 2 0.02
68 2 0.02
69 46 0.50
70 33 0.36
ACGTcount: A:0.36, C:0.01, G:0.14, T:0.49
Consensus pattern (66 bp):
TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTTGAATAAATAGAATATTTTTTTAG
T
Found at i:31955011 original size:125 final size:124
Alignment explanation
Indices: 31954751--31955037 Score: 430
Period size: 125 Copynumber: 2.3 Consensus size: 124
31954741 CCGAAACATG
* * * *
31954751 CTACTGTAGTAAAAACGCATCCATGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* * *
31954816 TTGAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCTGGAC
66 CTCAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
* *
31954875 CTACTGTAGCAAAAGCGCGTCTACGTGGGAGCGATTTTAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
* * *
31954940 CTCAAGCGTTTTTTATACTATTTGCTTAGAAGCGTCAACTCGAAATTATTTTTTCAGGAC
66 CTCAAGCG-TTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
* * *
31955000 CTACTGTAGCAAAAGCACGTCCACATGTGAGCGATTTC
1 CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTC
31955038 CTTAATAAAA
Statistics
Matches: 145, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
124 65 0.45
125 80 0.55
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTGATAAAGCATCCTGC
CTCAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
Found at i:31958633 original size:35 final size:35
Alignment explanation
Indices: 31958587--31958714 Score: 184
Period size: 35 Copynumber: 3.6 Consensus size: 35
31958577 ACTTTCTGTT
*
31958587 TTGGTGTGTTTCAAATGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTTCAGATGGATTAGCTCTTATGAGCA
*
31958622 TTGGTGTGTTTCGGATGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTTCAGATGGATTAGCTCTTATGAGCA
* *
31958657 TTGGTGTGTTTCAGATAGATTAGCTGTTATGAGCA
1 TTGGTGTGTTTCAGATGGATTAGCTCTTATGAGCA
* * *
31958692 TTTTGTGTGTTTCGGTTGGATTA
1 -TTGGTGTGTTTCAGATGGATTA
31958715 TCGATGTACT
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
35 65 0.78
36 18 0.22
ACGTcount: A:0.19, C:0.09, G:0.29, T:0.43
Consensus pattern (35 bp):
TTGGTGTGTTTCAGATGGATTAGCTCTTATGAGCA
Found at i:31960177 original size:43 final size:44
Alignment explanation
Indices: 31960086--31960177 Score: 116
Period size: 43 Copynumber: 2.1 Consensus size: 44
31960076 GAGACATGGG
* ** *
31960086 CGTGTGACTTAGTTGTGTGTGACACACGGCCTGGCAACGCGGGT
1 CGTGTGACTCAGCCGTGTGTGACACACGGCCTGGCAACACGGGT
* *
31960130 -GTGTGACTCAGCCGTGTGTGACACATGGCCTGGCGACAC-GGT
1 CGTGTGACTCAGCCGTGTGTGACACACGGCCTGGCAACACGGGT
31960172 CGTGTG
1 CGTGTG
31960178 CCCTCTGTAG
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 3 0.07
43 38 0.93
ACGTcount: A:0.15, C:0.24, G:0.37, T:0.24
Consensus pattern (44 bp):
CGTGTGACTCAGCCGTGTGTGACACACGGCCTGGCAACACGGGT
Found at i:31963288 original size:31 final size:32
Alignment explanation
Indices: 31963251--31963326 Score: 93
Period size: 33 Copynumber: 2.4 Consensus size: 32
31963241 TCTATTTATG
31963251 TTTATTGTTCC-A-AAACTATCTCTATTTTGTA
1 TTTATTG-TCCTAGAAACTATCTCTATTTTGTA
* *
31963282 TTTATTGTCCTAGTAGACTATCTCTATTTTGTG
1 TTTATTGTCCTAG-AAACTATCTCTATTTTGTA
*
31963315 TTTACTGTCCTA
1 TTTATTGTCCTA
31963327 ATGGACTACC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
30 3 0.08
31 8 0.21
33 28 0.72
ACGTcount: A:0.21, C:0.17, G:0.11, T:0.51
Consensus pattern (32 bp):
TTTATTGTCCTAGAAACTATCTCTATTTTGTA
Found at i:31963334 original size:33 final size:33
Alignment explanation
Indices: 31963265--31963334 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
31963255 TTGTTCCAAA
* *
31963265 ACTATCTCTATTTTGTATTTATTGTCCTAGTAG
1 ACTATCTCTATTTTGTATTTACTGTCCTAATAG
* *
31963298 ACTATCTCTATTTTGTGTTTACTGTCCTAATGG
1 ACTATCTCTATTTTGTATTTACTGTCCTAATAG
31963331 ACTA
1 ACTA
31963335 CCTTTGTGGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (33 bp):
ACTATCTCTATTTTGTATTTACTGTCCTAATAG
Found at i:31967210 original size:3 final size:3
Alignment explanation
Indices: 31967204--31967229 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
31967194 ATCATCATCA
31967204 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
31967230 AGTATCTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:31976105 original size:21 final size:23
Alignment explanation
Indices: 31976079--31976128 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
31976069 TTTTTTAAAG
*
31976079 ATTTTTAAATT-ATATTT-ATATT
1 ATTTTGAAATTAATATTTAATA-T
*
31976101 ATTTTGAATTTAATATTTAATAT
1 ATTTTGAAATTAATATTTAATAT
31976124 ATTTT
1 ATTTT
31976129 TTTTAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 9 0.38
23 12 0.50
24 3 0.12
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
ATTTTGAAATTAATATTTAATAT
Found at i:31977385 original size:164 final size:164
Alignment explanation
Indices: 31977104--31977431 Score: 584
Period size: 164 Copynumber: 2.0 Consensus size: 164
31977094 TTTAACAAAA
31977104 GTCTTATTGCTTTTGGTCTGATGGAAGAAGAATATTGACATATAATGCTGATGTTGGATATCGCC
1 GTCTTATTGCTTTTGGTCTGATGGAAGAAGAATATTGACATATAATGCTGATGTTGGATATCGCC
* * * * *
31977169 AAGATGATAGATGTAAATAATCCTTTCAACTATTAAAAAAGATAATTGACATGAAGATTGATGAT
66 AAGATGATAGATGTAAATAATCCATTCAACTATTAAAAAAAACAACTGACATGAAGATTGACGAT
*
31977234 TTTCCTCGCACATAATTGAAGAAATAAAAAATAC
131 TTTCCTCACACATAATTGAAGAAATAAAAAATAC
*
31977268 GTCTTATTGCTTTTGGTCTGATGGAAGAAGAATATTGGCATATAATGCTGATGTTGGATATCGCC
1 GTCTTATTGCTTTTGGTCTGATGGAAGAAGAATATTGACATATAATGCTGATGTTGGATATCGCC
*
31977333 AGGATGATAGATGTAAATAATCCATTCAACTATTAAAAAAAACAACTGACATGAAGATTGACGAT
66 AAGATGATAGATGTAAATAATCCATTCAACTATTAAAAAAAACAACTGACATGAAGATTGACGAT
31977398 TTTCCTCACACATAATTGAAGAAATAAAAAATAC
131 TTTCCTCACACATAATTGAAGAAATAAAAAATAC
31977432 ATGGGAAAGG
Statistics
Matches: 156, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
164 156 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (164 bp):
GTCTTATTGCTTTTGGTCTGATGGAAGAAGAATATTGACATATAATGCTGATGTTGGATATCGCC
AAGATGATAGATGTAAATAATCCATTCAACTATTAAAAAAAACAACTGACATGAAGATTGACGAT
TTTCCTCACACATAATTGAAGAAATAAAAAATAC
Found at i:31977518 original size:45 final size:45
Alignment explanation
Indices: 31977462--31977579 Score: 197
Period size: 45 Copynumber: 2.7 Consensus size: 45
31977452 GAAAAGCAAT
*
31977462 AAGGAAGCAACGTGTGGAAGCAACCACATCTATGTCCA-AGCAAAA
1 AAGGAAGCAACGTGTGGAAGCAACCACATCTACGTCCAGA-CAAAA
31977507 AAGGAAGCAACGTGTGGAAGCAACCACATCTACGTCCAGACAAAA
1 AAGGAAGCAACGTGTGGAAGCAACCACATCTACGTCCAGACAAAA
31977552 AAGGAAGCAAC--GTGGAAGCAACCACATC
1 AAGGAAGCAACGTGTGGAAGCAACCACATC
31977580 AGGACAAAAA
Statistics
Matches: 71, Mismatches: 1, Indels: 4
0.93 0.01 0.05
Matches are distributed among these distances:
43 17 0.24
45 53 0.75
46 1 0.01
ACGTcount: A:0.42, C:0.24, G:0.23, T:0.11
Consensus pattern (45 bp):
AAGGAAGCAACGTGTGGAAGCAACCACATCTACGTCCAGACAAAA
Found at i:31978589 original size:43 final size:42
Alignment explanation
Indices: 31978475--31978589 Score: 151
Period size: 41 Copynumber: 2.7 Consensus size: 42
31978465 AAGAAAAGAT
* * *
31978475 AAAGGAAGCAATGTGTGGAAGCAATCACATCTATATCCAGACAAA
1 AAAGGAAGCAA---GTGGAAGCAACCACATTTATATCCAAACAAA
*
31978520 AAAGGAAGCAA-TGGAAGCAACCACATTTATGTCCAAACAAA
1 AAAGGAAGCAAGTGGAAGCAACCACATTTATATCCAAACAAA
31978561 AAAGGAAGCAACGTGGAAGCAACCACATT
1 AAAGGAAGCAA-GTGGAAGCAACCACATT
31978590 AGGACAAAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
41 37 0.58
43 16 0.25
45 11 0.17
ACGTcount: A:0.46, C:0.19, G:0.20, T:0.15
Consensus pattern (42 bp):
AAAGGAAGCAAGTGGAAGCAACCACATTTATATCCAAACAAA
Found at i:31983008 original size:11 final size:11
Alignment explanation
Indices: 31982993--31983027 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
31982983 ATTGTAATAT
*
31982993 AATAGTAAAAT
1 AATAGTAAAAC
*
31983004 GATAGTAAAAC
1 AATAGTAAAAC
31983015 AATAGTAAAAC
1 AATAGTAAAAC
31983026 AA
1 AA
31983028 CAGACTTGGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.63, C:0.06, G:0.11, T:0.20
Consensus pattern (11 bp):
AATAGTAAAAC
Found at i:31992972 original size:30 final size:29
Alignment explanation
Indices: 31992937--31993005 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 29
31992927 TAAATAATTA
* *
31992937 AATTTTTAAAAATATTTTTTTATAATTTCT
1 AATTTTTAAAAATATATTTTCAT-ATTTCT
*
31992967 AATTTTTAAAAATATATTTTCATATTTTT
1 AATTTTTAAAAATATATTTTCATATTTCT
*
31992996 ATTTTTTAAA
1 AATTTTTAAA
31993006 TTTTAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
29 14 0.40
30 21 0.60
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (29 bp):
AATTTTTAAAAATATATTTTCATATTTCT
Found at i:32003753 original size:17 final size:17
Alignment explanation
Indices: 32003733--32003790 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
32003723 CATTTTCTGT
32003733 GAGTATATCTTTTGTAC
1 GAGTATATCTTTTGTAC
* *
32003750 GAGTATTTGATTTAATGT--
1 GAGTATAT-CTTT--TGTAC
32003768 GAGTATATCTTTTGTAC
1 GAGTATATCTTTTGTAC
32003785 GAGTAT
1 GAGTAT
32003791 TTGATTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 3 0.09
17 16 0.50
18 10 0.31
20 3 0.09
ACGTcount: A:0.26, C:0.07, G:0.21, T:0.47
Consensus pattern (17 bp):
GAGTATATCTTTTGTAC
Found at i:32003776 original size:35 final size:35
Alignment explanation
Indices: 32003730--32003800 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
32003720 CAACATTTTC
32003730 TGTGAGTATATCTTTTGTACGAGTATTTGATTTAA
1 TGTGAGTATATCTTTTGTACGAGTATTTGATTTAA
32003765 TGTGAGTATATCTTTTGTACGAGTATTTGATTTAA
1 TGTGAGTATATCTTTTGTACGAGTATTTGATTTAA
32003800 T
1 T
32003801 CTGCTAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.06, G:0.20, T:0.49
Consensus pattern (35 bp):
TGTGAGTATATCTTTTGTACGAGTATTTGATTTAA
Found at i:32008313 original size:18 final size:20
Alignment explanation
Indices: 32008282--32008318 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
32008272 CATTAACCCT
*
32008282 AAACATTTTTTATT-TGCTC
1 AAACATTTTCTATTATGCTC
32008301 AAAC-TTTTCTATTATGCT
1 AAACATTTTCTATTATGCT
32008319 ATGTGTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.27, C:0.16, G:0.05, T:0.51
Consensus pattern (20 bp):
AAACATTTTCTATTATGCTC
Found at i:32012760 original size:17 final size:17
Alignment explanation
Indices: 32012740--32012780 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
32012730 TAAAATTGAA
*
32012740 TTTTTTATA-AAAAATAC
1 TTTTTGATAGAAAAA-AC
32012757 TTTTTGATAGAAAAAAC
1 TTTTTGATAGAAAAAAC
32012774 TTTTTGA
1 TTTTTGA
32012781 ACTAATTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.46
Consensus pattern (17 bp):
TTTTTGATAGAAAAAAC
Found at i:32016011 original size:42 final size:42
Alignment explanation
Indices: 32015965--32016052 Score: 97
Period size: 42 Copynumber: 2.1 Consensus size: 42
32015955 GAATCCCGAA
* * *
32015965 GGTTGCACAGAAGCACATAAGTA-CTAAATGGAAACCCATAAG
1 GGTTGAACAGAAGCACAT-AGGAGCTAAACGGAAACCCATAAG
* * * *
32016007 GGTTGAACGGAAGCTCATAGGAGCTGAACGGAAACCCATTAG
1 GGTTGAACAGAAGCACATAGGAGCTAAACGGAAACCCATAAG
32016049 GGTT
1 GGTT
32016053 AAACTGGAGC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 3 0.08
42 35 0.92
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.18
Consensus pattern (42 bp):
GGTTGAACAGAAGCACATAGGAGCTAAACGGAAACCCATAAG
Found at i:32016018 original size:21 final size:20
Alignment explanation
Indices: 32015994--32016052 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 20
32015984 AGTACTAAAT
32015994 GGAAACCCATAAGGGTTGAAC
1 GGAAACCCAT-AGGGTTGAAC
* * *
32016015 GGAAGCTCATAGGAGCTGAAC
1 GGAAACCCATAGG-GTTGAAC
32016036 GGAAACCCATTAGGGTT
1 GGAAACCCA-TAGGGTT
32016053 AAACTGGAGC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
20 3 0.10
21 23 0.77
22 4 0.13
ACGTcount: A:0.34, C:0.19, G:0.31, T:0.17
Consensus pattern (20 bp):
GGAAACCCATAGGGTTGAAC
Found at i:32016077 original size:42 final size:42
Alignment explanation
Indices: 32015994--32016096 Score: 109
Period size: 42 Copynumber: 2.5 Consensus size: 42
32015984 AGTACTAAAT
* * *
32015994 GGAAACCCATAAGGGTTGAACGGAAGCTCATAGGAGCTGAAC
1 GGAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAAC
* *
32016036 GGAAACCCATTAGGGTTAAACTGG-AGCTCAAAAGAGTTGAAC
1 GGAAACCCATAAGGGTTAAAC-GGAAGCTCAAAAGAGCTGAAC
** **
32016078 TAAAACCCGGAAGGGTTAA
1 GGAAACCCATAAGGGTTAA
32016097 TCTGAAACTC
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
42 48 0.96
43 2 0.04
ACGTcount: A:0.38, C:0.17, G:0.28, T:0.17
Consensus pattern (42 bp):
GGAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTGAAC
Found at i:32022293 original size:118 final size:119
Alignment explanation
Indices: 32022154--32022390 Score: 467
Period size: 118 Copynumber: 2.0 Consensus size: 119
32022144 GTCTAACCTA
32022154 TGTACCCTCATTGGTACCACAATTATATACAATTTTACAACAAAATAAACATTGATTCAATTCAT
1 TGTACCCTCATTGGTACCACAATTATATACAATTTTACAACAAAATAAACATTGATTCAATTCAT
32022219 CAATTCACTCAAGCAATACCTAATCAAAATACCTATCAAAGGTACCACAATCAC
66 CAATTCACTCAAGCAATACCTAATCAAAATACCTATCAAAGGTACCACAATCAC
32022273 TGTACCCTCA-TGGTACCACAATTATATACAATTTTACAACAAAATAAACATTGATTCAATTCAT
1 TGTACCCTCATTGGTACCACAATTATATACAATTTTACAACAAAATAAACATTGATTCAATTCAT
32022337 CAATTCACTCAAGCAATACCTAATCAAAATACCTATCAAAGGTACCACAATCAC
66 CAATTCACTCAAGCAATACCTAATCAAAATACCTATCAAAGGTACCACAATCAC
32022391 AACAATTCAA
Statistics
Matches: 118, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
118 108 0.92
119 10 0.08
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.27
Consensus pattern (119 bp):
TGTACCCTCATTGGTACCACAATTATATACAATTTTACAACAAAATAAACATTGATTCAATTCAT
CAATTCACTCAAGCAATACCTAATCAAAATACCTATCAAAGGTACCACAATCAC
Found at i:32025023 original size:5 final size:5
Alignment explanation
Indices: 32025013--32025037 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
32025003 AATTACTTAA
32025013 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
32025038 TTAATTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:32029574 original size:31 final size:31
Alignment explanation
Indices: 32029527--32029597 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
32029517 TAAAAAACTT
* *
32029527 AATAACTTAATGACTTAAAT-AAAATTTTTTG
1 AATAATTTAATAACTTAAATGAAAA-TTTTTG
* *
32029558 AATAGTTTAATAACTTAAATGGAAATTTTTG
1 AATAATTTAATAACTTAAATGAAAATTTTTG
32029589 AATAATTTA
1 AATAATTTA
32029598 GTGACCAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
31 31 0.91
32 3 0.09
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.42
Consensus pattern (31 bp):
AATAATTTAATAACTTAAATGAAAATTTTTG
Found at i:32036598 original size:367 final size:368
Alignment explanation
Indices: 32035766--32037240 Score: 2386
Period size: 367 Copynumber: 4.0 Consensus size: 368
32035756 ATAACTCGTG
* * * * *
32035766 TTTAGGAGAAAAGATGATATGAAATTGTGATTTTACATAATTTTTATCTCTTTTTAATAGGAGAA
1 TTTAGGAGAAAAGATAATATGAAATTGTGATTTCACGTCATTTTTATCTCTTTCTAATAGGAGAA
* * *
32035831 TGATAAATCAGATTTTTT-TCTTCTAATTTTTAGTATTTTTAGTTGGATTTGAATTTTTTTAAG-
66 TGACAAATCAGATTTTTTCTCTCCTAATTTTTAGTATTTTTAGTTGGATTTGAATTTTTTCAAGA
* * *
32035894 AGGAAAAGCTAAAAATCAGGAGAAAAAATTTGATTTGTCATTCTCCCATTGGAAAGAGATAAAAA
131 AGAAAAAGCTAAAAATCAGGAAAAAAAATCTGATTTGTCATTCTCCCATTGGAAAGAGATAAAAA
32035959 TGACGTGGAACCACAATTTTATACAATCATTTCTCTAGATGAGATGGTAATTTCACATTCTGTCA
196 TGACGTGGAACCACAATTTTATACAATCATTTCTCTAGATGAGATGGTAATTTCACATTCTGTCA
*
32036024 ATATTTTAGAATATAAGAATTAATATCAATAGTATCTCTTAAGAAATTTTACATTCTTGTTGAAA
261 ATATTTCAGAATATAAGAATTAATATCAATAGTATCTCTTAAGAAATTTTACATTCTTGTTGAAA
*
32036089 TATGAAATTTTAGAAAATATTGCCTTATTCTATTATAATAAAT
326 TATGAAATTTTAGAAAATTTTGCCTTATTCTATTATAATAAAT
*
32036132 TTTAGGAGAAAAGATAATATGAAATTGTGATTTCACGTCATTTTTATCTCTTTCTAATTGGAGAA
1 TTTAGGAGAAAAGATAATATGAAATTGTGATTTCACGTCATTTTTATCTCTTTCTAATAGGAGAA
* *
32036197 TGACAAATCATATTTTTTCTCTCCTAATTTTTAGTAGTTTTAGTTGGATTTGAATTTTTTCAAGA
66 TGACAAATCAGATTTTTTCTCTCCTAATTTTTAGTATTTTTAGTTGGATTTGAATTTTTTCAAGA
* *
32036262 AGAAAAAGCTAAAAATCAGGAAAAAAAATCTGATTTGTCATTCTCCCATTGGAAAGGGATAAAGA
131 AGAAAAAGCTAAAAATCAGGAAAAAAAATCTGATTTGTCATTCTCCCATTGGAAAGAGATAAAAA
* *
32036327 TGACGTGGAATCACAGTTTTATACAATCATTTCTCTAGATGAGATGGTAATTTCACATTCTGTCA
196 TGACGTGGAACCACAATTTTATACAATCATTTCTCTAGATGAGATGGTAATTTCACATTCTGTCA
* * * *
32036392 ATATTTCAGAATATAGGAATTAATATCAATATTATCTCTTAAGAAAATTTACATTCTTGTTAAAA
261 ATATTTCAGAATATAAGAATTAATATCAATAGTATCTCTTAAGAAATTTTACATTCTTGTTGAAA
* * *
32036457 TATGAAATTTTAGAAAATTTTGCCTT-TTTTATTTTAATAAAA
326 TATGAAATTTTAGAAAATTTTGCCTTATTCTATTATAATAAAT
* * *
32036499 TTTAGGAGAAAAGATGATATGAAATTGTAATTTCACGTCATTTTTATCTCTTTCTAATAAGAGAA
1 TTTAGGAGAAAAGATAATATGAAATTGTGATTTCACGTCATTTTTATCTCTTTCTAATAGGAGAA
* *
32036564 TGACAAATCAGATTTTTAT-TTTCCTGATTTTTAGTATTTTTAGTTGGATTTGAATTTTTTCAAG
66 TGACAAATCAGATTTTT-TCTCTCCTAATTTTTAGTATTTTTAGTTGGATTTGAATTTTTTCAAG
* *
32036628 AGGAAAAAGCTAAAAATCAGGAGAAAAAATCTGATTTGTCATTCTCCCATTGGAAAGAGATAAAA
130 AAGAAAAAGCTAAAAATCAGGAAAAAAAATCTGATTTGTCATTCTCCCATTGGAAAGAGATAAAA
* * *
32036693 ATAACGTGGAATCACAATTTTATACAATTATTTCTCTAGATGAGATGGTAATTTCACATTCTGTC
195 ATGACGTGGAACCACAATTTTATACAATCATTTCTCTAGATGAGATGGTAATTTCACATTCTGTC
*
32036758 AATATTTTAGAATATAAGAATTAATATCAATAGTATCTCTTAAGAAATTTTACATTCTTGTTGAA
260 AATATTTCAGAATATAAGAATTAATATCAATAGTATCTCTTAAGAAATTTTACATTCTTGTTGAA
32036823 ATATGAAATTTTAGAAAATTTTGCCTTATTCTATTATAATAAAT
325 ATATGAAATTTTAGAAAATTTTGCCTTATTCTATTATAATAAAT
*
32036867 TTTAGGAGAAAAGATAATATGAAATTGTGATTTCACGTCATTTTTATCTCTTTCTAATGGGAGAA
1 TTTAGGAGAAAAGATAATATGAAATTGTGATTTCACGTCATTTTTATCTCTTTCTAATAGGAGAA
* * *
32036932 TGAAAAATCATATTTTTTCTCTCC-ATATTTTTAGTATTTTTAGTTGGATTTGAATTTTTTCAAA
66 TGACAAATCAGATTTTTTCTCTCCTA-ATTTTTAGTATTTTTAGTTGGATTTGAATTTTTTCAAG
* *
32036996 AAGAAAAAGCTAAAAATCAGGAAAAAAAAAATCTAATTTGTCATTCTCCCATTGGAAAAGGGATA
130 AAGAAAAAGCTAAAAATCAGG--AAAAAAAATCTGATTTGTCATTCTCCCATTGG-AAAGAGATA
* * * *
32037061 AAGATGACGTGGAACCACAGTTTCATACAATCGTTTCTCTAGATGAGATGGTAATTTCACATTCT
192 AAAATGACGTGGAACCACAATTTTATACAATCATTTCTCTAGATGAGATGGTAATTTCACATTCT
* * *
32037126 ATCAATATTTCAAAATATAGGAATTAATATCAATAGTATCTCTTAAGAAATTTTACATTCTTGTT
257 GTCAATATTTCAGAATATAAGAATTAATATCAATAGTATCTCTTAAGAAATTTTACATTCTTGTT
* *
32037191 GAAATATGAAATTTTAGAAAATTTTGCCTT-TTTTATTTTAATAAAT
322 GAAATATGAAATTTTAGAAAATTTTGCCTTATTCTATTATAATAAAT
32037237 TTTA
1 TTTA
32037241 TTTTCTTTTT
Statistics
Matches: 1024, Mismatches: 76, Indels: 14
0.92 0.07 0.01
Matches are distributed among these distances:
366 75 0.07
367 385 0.38
368 359 0.35
370 48 0.05
371 157 0.15
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.39
Consensus pattern (368 bp):
TTTAGGAGAAAAGATAATATGAAATTGTGATTTCACGTCATTTTTATCTCTTTCTAATAGGAGAA
TGACAAATCAGATTTTTTCTCTCCTAATTTTTAGTATTTTTAGTTGGATTTGAATTTTTTCAAGA
AGAAAAAGCTAAAAATCAGGAAAAAAAATCTGATTTGTCATTCTCCCATTGGAAAGAGATAAAAA
TGACGTGGAACCACAATTTTATACAATCATTTCTCTAGATGAGATGGTAATTTCACATTCTGTCA
ATATTTCAGAATATAAGAATTAATATCAATAGTATCTCTTAAGAAATTTTACATTCTTGTTGAAA
TATGAAATTTTAGAAAATTTTGCCTTATTCTATTATAATAAAT
Found at i:32046959 original size:2 final size:2
Alignment explanation
Indices: 32046952--32046980 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
32046942 TGATAATGAC
32046952 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32046981 AATAAACCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32047401 original size:457 final size:457
Alignment explanation
Indices: 32046547--32047437 Score: 1782
Period size: 457 Copynumber: 1.9 Consensus size: 457
32046537 GGCCAAGTCA
32046547 CACGCCTATGTGCTAGGCCGTGTGAAAATATCTGAGCATTCTGTTTTGAAATTTTGAAGATGTGG
1 CACGCCTATGTGCTAGGCCGTGTGAAAATATCTGAGCATTCTGTTTTGAAATTTTGAAGATGTGG
32046612 GGGACACACAACCAAACCACATGCCCATGTGCTAGGTCGTGTGTCACACATGACAGAGACATACG
66 GGGACACACAACCAAACCACATGCCCATGTGCTAGGTCGTGTGTCACACATGACAGAGACATACG
32046677 TCCGTGTCTCTACCTGTGTGGATGAAAATAGACTATTTTCCAAGCCACATTTCTCACCCAATTTG
131 TCCGTGTCTCTACCTGTGTGGATGAAAATAGACTATTTTCCAAGCCACATTTCTCACCCAATTTG
32046742 TCTTCCACCTATATTAACACTTTAACACATCCAAAAGCCAATACAAGATCTTTAATTCAAGCCAA
196 TCTTCCACCTATATTAACACTTTAACACATCCAAAAGCCAATACAAGATCTTTAATTCAAGCCAA
32046807 AATCTAGTTTTTGATACTTAACATTTCATAACTTATATTCAAATATCCAAGCTTACCAATTTCAC
261 AATCTAGTTTTTGATACTTAACATTTCATAACTTATATTCAAATATCCAAGCTTACCAATTTCAC
32046872 TAACTCTAACCATGCCTCAATATACCTATTGTTTAACCATCATTTAACCATTTCAAACACATATT
326 TAACTCTAACCATGCCTCAATATACCTATTGTTTAACCATCATTTAACCATTTCAAACACATATT
32046937 AAGCATGATAATGACATATATATATATATATATATATATATATAAATAAACCAAGCACACACAAT
391 AAGCATGATAATGACATATATATATATATATATATATATATATAAATAAACCAAGCACACACAAT
32047002 CT
456 CT
32047004 CACGCCTATGTGCTAGGCCGTGTGAAAATATCTGAGCATTCTGTTTTGAAATTTTGAAGATGTGG
1 CACGCCTATGTGCTAGGCCGTGTGAAAATATCTGAGCATTCTGTTTTGAAATTTTGAAGATGTGG
32047069 GGGACACACAACCAAACCACATGCCCATGTGCTAGGTCGTGTGTCACACATGACAGAGACATACG
66 GGGACACACAACCAAACCACATGCCCATGTGCTAGGTCGTGTGTCACACATGACAGAGACATACG
32047134 TCCGTGTCTCTACCTGTGTGGATGAAAATAGACTATTTTCCAAGCCACATTTCTCACCCAATTTG
131 TCCGTGTCTCTACCTGTGTGGATGAAAATAGACTATTTTCCAAGCCACATTTCTCACCCAATTTG
32047199 TCTTCCACCTATATTAACACTTTAACACATCCAAAAGCCAATACAAGATCTTTAATTCAAGCCAA
196 TCTTCCACCTATATTAACACTTTAACACATCCAAAAGCCAATACAAGATCTTTAATTCAAGCCAA
32047264 AATCTAGTTTTTGATACTTAACATTTCATAACTTATATTCAAATATCCAAGCTTACCAATTTCAC
261 AATCTAGTTTTTGATACTTAACATTTCATAACTTATATTCAAATATCCAAGCTTACCAATTTCAC
32047329 TAACTCTAACCATGCCTCAATATACCTATTGTTTAACCATCATTTAACCATTTCAAACACATATT
326 TAACTCTAACCATGCCTCAATATACCTATTGTTTAACCATCATTTAACCATTTCAAACACATATT
32047394 AAGCATGATAATGACATATATATATATATATATATATATATATA
391 AAGCATGATAATGACATATATATATATATATATATATATATATA
32047438 TCAAAATGCA
Statistics
Matches: 434, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
457 434 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.31
Consensus pattern (457 bp):
CACGCCTATGTGCTAGGCCGTGTGAAAATATCTGAGCATTCTGTTTTGAAATTTTGAAGATGTGG
GGGACACACAACCAAACCACATGCCCATGTGCTAGGTCGTGTGTCACACATGACAGAGACATACG
TCCGTGTCTCTACCTGTGTGGATGAAAATAGACTATTTTCCAAGCCACATTTCTCACCCAATTTG
TCTTCCACCTATATTAACACTTTAACACATCCAAAAGCCAATACAAGATCTTTAATTCAAGCCAA
AATCTAGTTTTTGATACTTAACATTTCATAACTTATATTCAAATATCCAAGCTTACCAATTTCAC
TAACTCTAACCATGCCTCAATATACCTATTGTTTAACCATCATTTAACCATTTCAAACACATATT
AAGCATGATAATGACATATATATATATATATATATATATATATAAATAAACCAAGCACACACAAT
CT
Found at i:32047416 original size:2 final size:2
Alignment explanation
Indices: 32047409--32047438 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
32047399 TGATAATGAC
32047409 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32047439 CAAAATGCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32048188 original size:25 final size:25
Alignment explanation
Indices: 32048147--32048229 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
32048137 AAGTTTAAAC
* *
32048147 GAGCCAAT-ATCAAGAAGCTCCAAA
1 GAGCCATTAATCAGGAAGCTCCAAA
32048171 GAGCCATTAATCAGGAAGCTCACAAAA
1 GAGCCATTAATCAGGAAGCTC-C-AAA
* ** * *
32048198 GAGCCTTTAATTGGGCAGCTCTAAA
1 GAGCCATTAATCAGGAAGCTCCAAA
32048223 GAGCCAT
1 GAGCCAT
32048230 ATATCGGGAC
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
24 7 0.15
25 20 0.42
26 1 0.02
27 20 0.42
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (25 bp):
GAGCCATTAATCAGGAAGCTCCAAA
Found at i:32048207 original size:27 final size:25
Alignment explanation
Indices: 32048147--32048208 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 25
32048137 AAGTTTAAAC
*
32048147 GAGCCAAT-ATCAAGAAGCTCCAAA
1 GAGCCATTAATCAAGAAGCTCCAAA
*
32048171 GAGCCATTAATCAGGAAGCTCACAAAA
1 GAGCCATTAATCAAGAAGCTC-C-AAA
*
32048198 GAGCCTTTAAT
1 GAGCCATTAAT
32048209 TGGGCAGCTC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 7 0.22
25 11 0.34
26 1 0.03
27 13 0.41
ACGTcount: A:0.42, C:0.23, G:0.18, T:0.18
Consensus pattern (25 bp):
GAGCCATTAATCAAGAAGCTCCAAA
Found at i:32049264 original size:13 final size:13
Alignment explanation
Indices: 32049246--32049271 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32049236 TTTTATTTTA
32049246 TTATTTATCATCT
1 TTATTTATCATCT
32049259 TTATTTATCATCT
1 TTATTTATCATCT
32049272 ATCAAATTTT
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:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (13 bp):
TTATTTATCATCT
Found at i:32049274 original size:20 final size:21
Alignment explanation
Indices: 32049237--32049275 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
32049227 GATATTTTGT
* *
32049237 TTTATTTTATTATTTATCATC
1 TTTATTTTATCATCTATCATC
32049258 TTTA-TTTATCATCTATCA
1 TTTATTTTATCATCTATCA
32049276 AATTTTATCC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTATTTTATCATCTATCATC
Done.