Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 154 of 186
Found at i:51174878 original size:29 final size:28
Alignment explanation
Indices: 51174827--51175085 Score: 270
Period size: 29 Copynumber: 9.0 Consensus size: 28
51174817 GTGTGCTACA
*
51174827 TGATGGTCGTAACCATCCCTTTTCATAT
1 TGATGGTCGTCACCATCCCTTTTCATAT
* * * *
51174855 TCAATGGTTGTCACCAACCATTTTCATAT
1 T-GATGGTCGTCACCATCCCTTTTCATAT
**
51174884 TCGATGGTCGAAACCATCCCTTTTCATTAAT
1 T-GATGGTCGTCACCATCCCTTTTCA-T-AT
51174915 TGATGGTCGTCACCATCCCTTTTCATAGT
1 TGATGGTCGTCACCATCCCTTTTCATA-T
*
51174944 TGATGGTCGTCACCATCCTTTTTCATAGT
1 TGATGGTCGTCACCATCCCTTTTCATA-T
*
51174973 TGATGGTCATCACCATCCCTTTTCATAGT
1 TGATGGTCGTCACCATCCCTTTTCATA-T
* ** *
51175002 TGA-GAGTAGAAATCATCCCTTTTCATATT
1 TGATG-GTCGTCACCATCCCTTTTCATA-T
* *
51175031 TGATGGTCGTCA-CACCCCTTCTCATAGT
1 TGATGGTCGTCACCATCCCTTTTCATA-T
*
51175059 TGATGGTCATCACCATCCCTTTTCATA
1 TGATGGTCGTCACCATCCCTTTTCATA
51175086 ATCGATAGTC
Statistics
Matches: 193, Mismatches: 31, Indels: 13
0.81 0.13 0.05
Matches are distributed among these distances:
28 27 0.14
29 139 0.72
30 24 0.12
31 3 0.02
ACGTcount: A:0.22, C:0.26, G:0.14, T:0.37
Consensus pattern (28 bp):
TGATGGTCGTCACCATCCCTTTTCATAT
Found at i:51174964 original size:58 final size:58
Alignment explanation
Indices: 51174827--51175096 Score: 305
Period size: 58 Copynumber: 4.7 Consensus size: 58
51174817 GTGTGCTACA
* * * *
51174827 TGATGGTCGTAACCATCCCTTTTCAT-ATTCAATGGTTGTCACCAACCATTTTCATA-T
1 TGATGGTCGTAACCATCCCTTTTCATAATT-GATGGTCGTCACCATCCCTTTTCATAGT
*
51174884 TCGATGGTCGAAACCATCCCTTTTCATTAATTGATGGTCGTCACCATCCCTTTTCATAGT
1 T-GATGGTCGTAACCATCCCTTTTCA-TAATTGATGGTCGTCACCATCCCTTTTCATAGT
* * * *
51174944 TGATGGTCGTCACCATCCTTTTTCATAGTTGATGGTCATCACCATCCCTTTTCATAGT
1 TGATGGTCGTAACCATCCCTTTTCATAATTGATGGTCGTCACCATCCCTTTTCATAGT
* * * * * *
51175002 TGA-GAGTAGAAATCATCCCTTTTCATATTTGATGGTCGTCA-CACCCCTTCTCATAGT
1 TGATG-GTCGTAACCATCCCTTTTCATAATTGATGGTCGTCACCATCCCTTTTCATAGT
* * * *
51175059 TGATGGTCATCACCATCCCTTTTCATAATCGATAGTCG
1 TGATGGTCGTAACCATCCCTTTTCATAATTGATGGTCG
51175097 AAACTATCCA
Statistics
Matches: 180, Mismatches: 27, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
57 44 0.24
58 87 0.48
59 44 0.24
60 5 0.03
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.37
Consensus pattern (58 bp):
TGATGGTCGTAACCATCCCTTTTCATAATTGATGGTCGTCACCATCCCTTTTCATAGT
Found at i:51174978 original size:88 final size:87
Alignment explanation
Indices: 51174827--51175111 Score: 312
Period size: 88 Copynumber: 3.3 Consensus size: 87
51174817 GTGTGCTACA
* *
51174827 TGATGGTCGTAACCATCCCTTTTCATATTCAATGGTTGTCACCAACCATTTTCATA-TTCGATGG
1 TGATGGTCGTAACCATCCCTTTTCATATT-GATGGTCGTCACCAACCATTTTCATAGTT-GATGG
*
51174891 TCGA-AACCATCCCTTTTCATTAAT
64 TC-ATCACCATCCCTTTTCATTAAT
* * *
51174915 TGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCTTTTTCATAGTTGATGGT
1 TGATGGTCGTAACCATCCCTTTTCATA-TTGATGGTCGTCACCAACCATTTTCATAGTTGATGGT
*
51174980 CATCACCATCCCTTTTCA-TAGT
65 CATCACCATCCCTTTTCATTAAT
* * * * * *
51175002 TGA-GAGTAGAAATCATCCCTTTTCATATTTGATGGTCGTCA-CACCCCTTCTCATAGTTGATGG
1 TGATG-GTCGTAACCATCCCTTTTCATA-TTGATGGTCGTCACCAACCATTTTCATAGTTGATGG
51175065 TCATCACCATCCCTTTTCA-TAAT
64 TCATCACCATCCCTTTTCATTAAT
* * * * *
51175088 CGATAGTCGAAACTATCCATTTTC
1 TGATGGTCGTAACCATCCCTTTTC
51175112 TTTAATCGAT
Statistics
Matches: 170, Mismatches: 22, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
86 59 0.35
87 38 0.22
88 69 0.41
89 4 0.02
ACGTcount: A:0.23, C:0.26, G:0.14, T:0.37
Consensus pattern (87 bp):
TGATGGTCGTAACCATCCCTTTTCATATTGATGGTCGTCACCAACCATTTTCATAGTTGATGGTC
ATCACCATCCCTTTTCATTAAT
Found at i:51177890 original size:16 final size:18
Alignment explanation
Indices: 51177858--51177890 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
51177848 ATATATTATA
51177858 ATAATTAAAATGAAAGAT
1 ATAATTAAAATGAAAGAT
51177876 ATAA-TAAAA-GAAAGA
1 ATAATTAAAATGAAAGA
51177891 AAAATAGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 5 0.33
18 4 0.27
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (18 bp):
ATAATTAAAATGAAAGAT
Found at i:51178400 original size:19 final size:18
Alignment explanation
Indices: 51178373--51178413 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
51178363 AGAATAAGCA
51178373 AAATATAATGCGAAAATTG
1 AAATATAATGCG-AAATTG
* *
51178392 AAATTTAATGTGAAATTG
1 AAATATAATGCGAAATTG
51178410 AAAT
1 AAAT
51178414 GTGTAATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.51, C:0.02, G:0.15, T:0.32
Consensus pattern (18 bp):
AAATATAATGCGAAATTG
Found at i:51178691 original size:25 final size:25
Alignment explanation
Indices: 51178643--51178691 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
51178633 CATAATTGAA
* * *
51178643 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
51178668 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
51178692 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:51179141 original size:43 final size:43
Alignment explanation
Indices: 51179077--51179162 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
51179067 TATGTGATTG
*
51179077 ATATTGAAATGAAAAAGATGAGAAATGAATATGAGATTAGAAA
1 ATATTGAAATGAAAAAGATGAGAAATGAATATGAGATGAGAAA
** * *
51179120 ATATTGAAATGGCAAATATGAGAAATGATTATGAGATGAGAAA
1 ATATTGAAATGAAAAAGATGAGAAATGAATATGAGATGAGAAA
51179163 TGAAATATGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.52, C:0.01, G:0.22, T:0.24
Consensus pattern (43 bp):
ATATTGAAATGAAAAAGATGAGAAATGAATATGAGATGAGAAA
Found at i:51185048 original size:78 final size:78
Alignment explanation
Indices: 51184919--51185073 Score: 292
Period size: 78 Copynumber: 2.0 Consensus size: 78
51184909 CATGCCCTAC
51184919 AAAATGTTCAAACAATTAGGTCTTGGGAAACCCAAACAGACTAGGATGAGCATTTAATTAGCAGA
1 AAAATGTTCAAACAATTAGGTCTTGGGAAACCCAAACAGACTAGGATGAGCATTTAATTAGCAGA
51184984 TAAAATCATAAGT
66 TAAAATCATAAGT
* *
51184997 AAAATGTTTAAATAATTAGGTCTTGGGAAACCCAAACAGACTAGGATGAGCATTTAATTAGCAGA
1 AAAATGTTCAAACAATTAGGTCTTGGGAAACCCAAACAGACTAGGATGAGCATTTAATTAGCAGA
51185062 TAAAATCATAAG
66 TAAAATCATAAG
51185074 ATTTCCTAGG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.25
Consensus pattern (78 bp):
AAAATGTTCAAACAATTAGGTCTTGGGAAACCCAAACAGACTAGGATGAGCATTTAATTAGCAGA
TAAAATCATAAGT
Found at i:51189087 original size:40 final size:39
Alignment explanation
Indices: 51189043--51189147 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
51189033 AGTGACCATA
*
51189043 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
51189083 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
51189121 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
51189148 AACGAGGAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:51189104 original size:39 final size:40
Alignment explanation
Indices: 51189003--51189147 Score: 165
Period size: 40 Copynumber: 3.6 Consensus size: 40
51188993 TTGAATGATG
* *
51189003 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
*
51189043 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
*
51189082 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* *
51189122 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
51189148 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
39 34 0.37
40 46 0.51
41 10 0.11
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:51189161 original size:40 final size:39
Alignment explanation
Indices: 51189004--51189166 Score: 100
Period size: 40 Copynumber: 4.1 Consensus size: 39
51188994 TGAATGATGT
** * * *
51189004 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTGACTATAA
* * ** *
51189044 CCGGACTAAGATCCGAAGGCATTTGTGCGAGAT-ACTA-ATT
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAG-TGACTATA-A
** *
51189084 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTATAA
* *
51189123 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATAT
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTATAA
51189163 CCGG
1 CCGG
51189167 TTAAATTCCG
Statistics
Matches: 103, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
38 1 0.01
39 34 0.33
40 60 0.58
41 8 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTATAA
Found at i:51189166 original size:79 final size:80
Alignment explanation
Indices: 51189003--51189153 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
51188993 TTGAATGATG
*
51189003 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
51189068 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * * *
51189083 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTATG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
51189145 TTGAACGAG
64 TTGAACGAG
51189154 GAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:51189950 original size:29 final size:29
Alignment explanation
Indices: 51189914--51189971 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
51189904 CCAAAAATAG
51189914 TAGGAATGGAATTAAATAGTGAATAAATT
1 TAGGAATGGAATTAAATAGTGAATAAATT
51189943 TAGGAATGGAATTAAATAGTGAATAAATT
1 TAGGAATGGAATTAAATAGTGAATAAATT
51189972 ATGTAAACGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.31
Consensus pattern (29 bp):
TAGGAATGGAATTAAATAGTGAATAAATT
Found at i:51189966 original size:17 final size:17
Alignment explanation
Indices: 51189917--51189966 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
51189907 AAAATAGTAG
51189917 GAATGGAATTAAATAGT
1 GAATGGAATTAAATAGT
*
51189934 GAAT-AAATT---TAG-
1 GAATGGAATTAAATAGT
51189946 GAATGGAATTAAATAGT
1 GAATGGAATTAAATAGT
51189963 GAAT
1 GAAT
51189967 AAATTATGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
12 4 0.15
13 7 0.27
16 7 0.27
17 8 0.31
ACGTcount: A:0.48, C:0.00, G:0.22, T:0.30
Consensus pattern (17 bp):
GAATGGAATTAAATAGT
Found at i:51196298 original size:29 final size:28
Alignment explanation
Indices: 51196265--51196367 Score: 100
Period size: 28 Copynumber: 3.6 Consensus size: 28
51196255 TTGCTAAACA
** * *
51196265 ATGGTTGTAACTGTCTCTTTTCATATTCG
1 ATGGTTGTAACCATC-CCTTTCACATTCG
*
51196294 ATGGTTGTCACCATCCCTTTCACATTCG
1 ATGGTTGTAACCATCCCTTTCACATTCG
*
51196322 ATGGTTGAAACCATCCCTTTC-CATTAATCG
1 ATGGTTGTAACCATCCCTTTCACA-T--TCG
*
51196352 ATGGTTGTCACCATCC
1 ATGGTTGTAACCATCC
51196368 TTTTTCATAG
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
27 2 0.03
28 31 0.50
29 12 0.19
30 17 0.27
ACGTcount: A:0.20, C:0.26, G:0.16, T:0.38
Consensus pattern (28 bp):
ATGGTTGTAACCATCCCTTTCACATTCG
Found at i:51196355 original size:30 final size:28
Alignment explanation
Indices: 51196283--51196367 Score: 109
Period size: 28 Copynumber: 3.0 Consensus size: 28
51196273 AACTGTCTCT
*
51196283 TTTCATATTCGATGGTTGTCACCATCCC
1 TTTCACATTCGATGGTTGTCACCATCCC
**
51196311 TTTCACATTCGATGGTTGAAACCATCCC
1 TTTCACATTCGATGGTTGTCACCATCCC
51196339 TTTC-CATTAATCGATGGTTGTCACCATCC
1 TTTCACA-T--TCGATGGTTGTCACCATCC
51196368 TTTTTCATAG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
27 2 0.04
28 30 0.61
30 17 0.35
ACGTcount: A:0.21, C:0.28, G:0.14, T:0.36
Consensus pattern (28 bp):
TTTCACATTCGATGGTTGTCACCATCCC
Found at i:51196384 original size:29 final size:29
Alignment explanation
Indices: 51196352--51196430 Score: 122
Period size: 29 Copynumber: 2.7 Consensus size: 29
51196342 CCATTAATCG
* *
51196352 ATGGTTGTCACCATCCTTTTTCATAGTTA
1 ATGGTCGTCACCATCCCTTTTCATAGTTA
*
51196381 ATGGTCGTCATCATCCCTTTTCATAGTTA
1 ATGGTCGTCACCATCCCTTTTCATAGTTA
*
51196410 ATGGTCATCACCATCCCTTTT
1 ATGGTCGTCACCATCCCTTTT
51196431 GTAACACCCC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.20, C:0.25, G:0.13, T:0.42
Consensus pattern (29 bp):
ATGGTCGTCACCATCCCTTTTCATAGTTA
Found at i:51197411 original size:27 final size:28
Alignment explanation
Indices: 51197367--51197421 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
51197357 ATTACAGTCA
51197367 TACATACATAAGGGCATAACAGTCATTT
1 TACATACATAAGGGCATAACAGTCATTT
* *
51197395 TACAT-CAT-AGGGACATAATAGTTATTT
1 TACATACATAAGGG-CATAACAGTCATTT
51197422 ATCAATTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 4 0.17
27 15 0.62
28 5 0.21
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.33
Consensus pattern (28 bp):
TACATACATAAGGGCATAACAGTCATTT
Found at i:51198643 original size:314 final size:315
Alignment explanation
Indices: 51198065--51198697 Score: 1018
Period size: 314 Copynumber: 2.0 Consensus size: 315
51198055 ACCATACACG
*
51198065 CAAATAATTGAACCAAGTATAGCAACTTACCCAAAACGTAGAACTAAGATTGAGAGACAAAAGTA
1 CAAATAATTGAACCAAGTATAGCAACTTACCCAAAACATAGAACTAAGATTGAGAGACAAAAGTA
* * * *
51198130 TTCGGCCACCCTCAAAACACACCCTTAAATTGAGGCACGAGAAGGAATAGTCACACTCCCTAGCA
66 TTCGACCACCCCCAAAACACACCCTTAAACTGAGGCACGAGAAGGAATAATCACACTCCCTAGCA
51198195 AAAAAAAGGGTAGAAAAGAGGGGTGTTAAATAAAAAGCTATTACGGTAGAAGGGGAGAAAAGATA
131 AAAAAAAGGGTAGAAAAGAGGGGTGTTAAATAAAAAGCTATTACGGTAGAAGGGGAGAAAAGATA
* * *
51198260 AAAACTGAGCATCCAAACCTGAGATGAAGTATTTGGCTAACACAGAAGTTGAGAGGGTATTCGAC
196 AAAACGGAGCATCCAAACCTGAGATGAAGTATTTGACTAACACAGAAGTTGAGAGGGTATTCAAC
* *
51198325 TCTAGCAAAGGAGAAGGGGAATTGAAGAATGCCGAAAGGGTAAAGAGAAGAGAAGA
261 TCTAGCAAAGGAGAA-GGGAATTGAAGAAAGCCAAAAGGGTAAAGAGAAGAGAAGA
* * * * *
51198381 CAAATAATTGAACCAAGTGTATCAACTTACCCAGAACATAGAACTAATATTGAGAGACAGAAGTA
1 CAAATAATTGAACCAAGTATAGCAACTTACCCAAAACATAGAACTAAGATTGAGAGACAAAAGTA
* * * *
51198446 TTCGACCACCCCCAACACACACCCTTAAACTGAGGCACGAGAGGGAATAATCATACTCCCT-G-G
66 TTCGACCACCCCCAAAACACACCCTTAAACTGAGGCACGAGAAGGAATAATCACACTCCCTAGCA
* * *
51198509 TAGAAAATGGTAGAAAAGAGGGGTGTTAAATAAAAAGCTATTACGGTAGAAGGGGAGAAAAGATA
131 AAAAAAAGGGTAGAAAAGAGGGGTGTTAAATAAAAAGCTATTACGGTAGAAGGGGAGAAAAGATA
*
51198574 AAAACGGAGCATCCAAATCTGAGATGAAGTATTTGACTAACACAGAAGTTGAGAGGGTATTCAAC
196 AAAACGGAGCATCCAAACCTGAGATGAAGTATTTGACTAACACAGAAGTTGAGAGGGTATTCAAC
* *
51198639 TCTAGCAAAGGAGAAGGGAATTGAGGAAAGCCAAAAGGGTAAAGAGAAGGGAAGA
261 TCTAGCAAAGGAGAAGGGAATTGAAGAAAGCCAAAAGGGTAAAGAGAAGAGAAGA
51198694 CAAA
1 CAAA
51198698 GTGTTCGGGC
Statistics
Matches: 292, Mismatches: 25, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
313 40 0.14
314 138 0.47
315 1 0.00
316 113 0.39
ACGTcount: A:0.43, C:0.16, G:0.24, T:0.17
Consensus pattern (315 bp):
CAAATAATTGAACCAAGTATAGCAACTTACCCAAAACATAGAACTAAGATTGAGAGACAAAAGTA
TTCGACCACCCCCAAAACACACCCTTAAACTGAGGCACGAGAAGGAATAATCACACTCCCTAGCA
AAAAAAAGGGTAGAAAAGAGGGGTGTTAAATAAAAAGCTATTACGGTAGAAGGGGAGAAAAGATA
AAAACGGAGCATCCAAACCTGAGATGAAGTATTTGACTAACACAGAAGTTGAGAGGGTATTCAAC
TCTAGCAAAGGAGAAGGGAATTGAAGAAAGCCAAAAGGGTAAAGAGAAGAGAAGA
Found at i:51208893 original size:26 final size:26
Alignment explanation
Indices: 51208864--51208940 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 26
51208854 CCAACACACC
* *
51208864 AATATCGTAGCAAAGTTGCCAGTAAT
1 AATATCGCAGCAAAGATGCCAGTAAT
* * *
51208890 AATATTGCAGCAAA-ACTACCAGTATT
1 AATATCGCAGCAAAGA-TGCCAGTAAT
* *
51208916 AGTAACGCAGCAAAGATGCCAGTAA
1 AATATCGCAGCAAAGATGCCAGTAA
51208941 CAGAATATGT
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
26 38 0.97
27 1 0.03
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (26 bp):
AATATCGCAGCAAAGATGCCAGTAAT
Found at i:51211452 original size:45 final size:45
Alignment explanation
Indices: 51211363--51211569 Score: 267
Period size: 45 Copynumber: 4.6 Consensus size: 45
51211353 TTGGTATTTT
* * * *
51211363 GCCTGCTAGCCTCGAA-GCCCG-ATA-TCATTTCACTGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCTCACCGGCATTATA
* * *
51211406 GCCTGCTAGGCTCGAAGGCCCTAATAGTATCTCACTGGCATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
*
51211451 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGAATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
* * **
51211496 ACCTACTAGGCTCAAAGGCCCGAATAGTATCTCACCGATATTATA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
*
51211541 GCCTGCTGGGCTCAAAGGCCCGAATAGTA
1 GCCTGCTAGGCTCAAAGGCCCGAATAGTA
51211570 CTATACGATA
Statistics
Matches: 147, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
43 15 0.10
44 4 0.03
45 127 0.86
46 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (45 bp):
GCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACCGGCATTATA
Found at i:51224216 original size:42 final size:40
Alignment explanation
Indices: 51224121--51224394 Score: 431
Period size: 40 Copynumber: 6.8 Consensus size: 40
51224111 ATTTGAATAC
*
51224121 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
51224161 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGACATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG--ATAT
51224203 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGACATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG--ATAT
*
51224245 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* *
51224285 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* *
51224325 ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
* * *
51224365 ACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
51224395 TTGTGGTTAT
Statistics
Matches: 220, Mismatches: 12, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
40 139 0.63
42 81 0.37
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.23
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
Found at i:51224285 original size:82 final size:80
Alignment explanation
Indices: 51224121--51224394 Score: 440
Period size: 82 Copynumber: 3.4 Consensus size: 80
51224111 ATTTGAATAC
*
51224121 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
51224186 TGTGCGAGTTGACATAT
66 TGTGCGAGTTG--ATAT
* *
51224203 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGACATATATCCGGGCTAAGACCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTG--ATATATCCGGGCTAAGACCCGAAGGCA
*
51224268 TTTGTGCTAGTTGATAT
64 TTTGTGCGAGTTGATAT
51224285 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
* *
51224350 CGTGCGAGTTGCTAT
66 TGTGCGAGTTGATAT
* *
51224365 ACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATCCGGGCTAAGACCCGAAGGCAATTGTGC
51224395 TTGTGGTTAT
Statistics
Matches: 181, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
80 69 0.38
82 73 0.40
84 39 0.22
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.23
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTGATATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGTTGATAT
Found at i:51225862 original size:25 final size:25
Alignment explanation
Indices: 51225802--51225885 Score: 100
Period size: 26 Copynumber: 3.4 Consensus size: 25
51225792 AGGAAGTGCA
* *
51225802 AAAAGGGCTTTTGCTCCAGTTTACC
1 AAAAGGGCTTTTGCCCCAGTTTATC
51225827 GAAAAGGGCTTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTTGCCCCAGTTTATC
* *
51225853 AAAAGGGC-TTTGCCCTAG-TTATT
1 AAAAGGGCTTTTGCCCCAGTTTATC
51225876 AAAAGAGGCT
1 AAAAG-GGCT
51225886 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
23 9 0.17
24 12 0.23
25 8 0.15
26 23 0.44
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTATC
Found at i:51241656 original size:79 final size:81
Alignment explanation
Indices: 51241554--51241738 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
51241544 GCTCCTCGTT
* *
51241554 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
51241617 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
51241634 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
51241698 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
51241714 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51241739 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:51241738 original size:40 final size:40
Alignment explanation
Indices: 51241554--51241738 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
51241544 GCTCCTCGTT
* *
51241554 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
51241594 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
51241634 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
51241673 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
51241714 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51241739 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:51243478 original size:43 final size:45
Alignment explanation
Indices: 51243402--51243526 Score: 145
Period size: 45 Copynumber: 2.9 Consensus size: 45
51243392 CAATTTTAAA
* *
51243402 CCCGAATT-CAT-TCACCAACATT-TCGCCTGCTAGGCTCGAA-G
1 CCCGAATTGCATCTCACCAGCATTATAGCCTGCTAGGCTCGAAGG
* *
51243443 CCCG-ATAT-CATTTCACCGGCATTATAGCCTGCTAGGCTCGAAGG
1 CCCGAAT-TGCATCTCACCAGCATTATAGCCTGCTAGGCTCGAAGG
* *
51243487 CCCGAATTGTATCTCACCAGCATTATAGCCTCCTAGGCTC
1 CCCGAATTGCATCTCACCAGCATTATAGCCTGCTAGGCTC
51243527 AGTAGCCCAA
Statistics
Matches: 71, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
40 2 0.03
41 8 0.11
42 9 0.13
43 17 0.24
44 6 0.08
45 29 0.41
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.26
Consensus pattern (45 bp):
CCCGAATTGCATCTCACCAGCATTATAGCCTGCTAGGCTCGAAGG
Found at i:51246639 original size:50 final size:50
Alignment explanation
Indices: 51246564--51246698 Score: 207
Period size: 50 Copynumber: 2.7 Consensus size: 50
51246554 CCAACCAAGT
*
51246564 ACACGCCTAGGCACCAAGTGCCTAGCCCGTAGGCTAACATCCCTCTAGAA
1 ACACGTCTAGGCACCAAGTGCCTAGCCCGTAGGCTAACATCCCTCTAGAA
*
51246614 ACACGTCTAGGCACCAAGTGCCTAGCCTGTAGGCTAACATCCCTCTAGAA
1 ACACGTCTAGGCACCAAGTGCCTAGCCCGTAGGCTAACATCCCTCTAGAA
* * * * *
51246664 ACACGTTTAGGAACCAAGTGACAAGCCCATAGGCT
1 ACACGTCTAGGCACCAAGTGCCTAGCCCGTAGGCT
51246699 TTACATCTAC
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 77 1.00
ACGTcount: A:0.30, C:0.32, G:0.21, T:0.18
Consensus pattern (50 bp):
ACACGTCTAGGCACCAAGTGCCTAGCCCGTAGGCTAACATCCCTCTAGAA
Found at i:51256079 original size:40 final size:40
Alignment explanation
Indices: 51256048--51256295 Score: 330
Period size: 40 Copynumber: 6.3 Consensus size: 40
51256038 GGACTAAGAT
51256048 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGTTAAGTC
* *
51256088 CCGATGGCATTTGTGCGAGTTACTAATTCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGTTAAGTC
* * *
51256128 CCGATGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGTTAAGTC
* *
51256168 CCGATGGCATTTGTGCGAG----TAATTCCGGGCTAAG-C
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGTTAAGTC
*
51256203 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGTTAAGTC
* * *
51256243 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGTTAAGTC
51256283 CCGAAGGCATTTG
1 CCGAAGGCATTTG
51256296 AACGAGGAGC
Statistics
Matches: 189, Mismatches: 12, Indels: 14
0.88 0.06 0.07
Matches are distributed among these distances:
35 19 0.10
36 13 0.07
39 15 0.08
40 142 0.75
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGTTAAGTC
Found at i:51256309 original size:40 final size:38
Alignment explanation
Indices: 51255996--51256295 Score: 224
Period size: 40 Copynumber: 7.7 Consensus size: 38
51255986 TGAATGGTGT
* * *
51255996 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC---GAGACTATAA
*
51256036 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGACTA-TAA
* * *
51256074 TTCCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTA-ATT
1 --CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG--ACTATA-A
* *
51256116 CCGGGTTAAGTCCCGATGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG--ACTATAA
* * *
51256155 TCCGGGTTAAGTCCCGATGGCATTTGTGCGAG--TA-ATT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGACTATA-A
51256192 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGACTA-T-AA
* *
51256230 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCG-A-GACTATAA
*
51256271 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
51256296 AACGAGGAGC
Statistics
Matches: 222, Mismatches: 17, Indels: 42
0.79 0.06 0.15
Matches are distributed among these distances:
35 19 0.09
36 14 0.06
37 1 0.00
38 5 0.02
39 11 0.05
40 153 0.69
41 12 0.05
42 3 0.01
43 4 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (38 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGACTATAA
Found at i:51261387 original size:43 final size:42
Alignment explanation
Indices: 51261340--51261431 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 42
51261330 TCCCAAACGT
* * * *
51261340 GGTCTTACATGTAATTAAATATCAATGCCACTGTCCCAGACAG
1 GGTCTTACACGAAATCAAATA-CAATGCCAATGTCCCAGACAG
* * * *
51261383 GGTCTTACGCGAAATCAAATACGATGTCAATGTCCCAGACAT
1 GGTCTTACACGAAATCAAATACAATGCCAATGTCCCAGACAG
51261425 GGTCTTA
1 GGTCTTA
51261432 TGTAAATCAC
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 24 0.59
43 17 0.41
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATACAATGCCAATGTCCCAGACAG
Found at i:51261429 original size:42 final size:42
Alignment explanation
Indices: 51261364--51261474 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
51261354 TTAAATATCA
* *
51261364 ATGCCACTGTCCCAGACAGGGTCTTACGCGAAAT--CAAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACG-GAAATCACAAAT-CG
* * *
51261406 ATGTCAATGTCCCAGACATGGTCTTATGTAAATCACAAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACGGAAATCACAAATCG
** *
51261448 ATGCCAACATCCCAAACATGGTCTTAC
1 ATGCCAATGTCCCAGACATGGTCTTAC
51261475 ACGATAATAC
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
41 4 0.07
42 48 0.84
43 5 0.09
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.23
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTACGGAAATCACAAATCG
Found at i:51264354 original size:66 final size:65
Alignment explanation
Indices: 51264283--51264428 Score: 222
Period size: 66 Copynumber: 2.2 Consensus size: 65
51264273 ACGGCTTAGA
* *
51264283 CACACGGGCGTGTGATTGACTGTGTGACATAAG-TCAGTATGCCCCCCTAAATGGCACATGGCCT
1 CACACGGGCGTGTGATTGACCGTGTGACATAAGCT-AGTAT-ACCCCCTAAATGGCACATGGCCT
51264347 AG
64 AG
* *
51264349 CACACGGGCGTGTGATTGACCGTGTGACATAAGCTAGTATATCCTCTAAATGGCACATGGCCTAG
1 CACACGGGCGTGTGATTGACCGTGTGACATAAGCTAGTATACCCCCTAAATGGCACATGGCCTAG
*
51264414 CAAACGGGCGTGTGA
1 CACACGGGCGTGTGA
51264429 GGCCATTTTG
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
65 36 0.49
66 37 0.50
67 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (65 bp):
CACACGGGCGTGTGATTGACCGTGTGACATAAGCTAGTATACCCCCTAAATGGCACATGGCCTAG
Found at i:51270204 original size:28 final size:28
Alignment explanation
Indices: 51270169--51270268 Score: 121
Period size: 28 Copynumber: 3.5 Consensus size: 28
51270159 CTGACTGATT
51270169 TCGCACACATAGTGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
* * * *
51270197 TCGTACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTG-CTCGATTA-AAGAAC
* *
51270226 TCGCATACATAGTGCTCGATTGAAGAAC
1 TCGCACACATAGTGCTCGATTAAAGAAC
51270254 TCGCACACATAGTGC
1 TCGCACACATAGTGC
51270269 CTCAACTACT
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
27 1 0.02
28 35 0.60
29 21 0.36
30 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (28 bp):
TCGCACACATAGTGCTCGATTAAAGAAC
Found at i:51270235 original size:29 final size:29
Alignment explanation
Indices: 51270203--51270297 Score: 95
Period size: 29 Copynumber: 3.3 Consensus size: 29
51270193 GAACTCGTAC
51270203 ACATAGTGCCTCAATTACCAATCTCGCAT
1 ACATAGTGCCTCAATTACCAATCTCGCAT
* ** *
51270232 ACATAGTG-CTCGATTGAAGAA-CTCGCAC
1 ACATAGTGCCTCAATT-ACCAATCTCGCAT
* ** *
51270260 ACATAGTGCCTCAACTACTGATCTGGCAT
1 ACATAGTGCCTCAATTACCAATCTCGCAT
51270289 ACATAGTGC
1 ACATAGTGC
51270298 TCGGTTGAAG
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
28 22 0.42
29 30 0.58
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (29 bp):
ACATAGTGCCTCAATTACCAATCTCGCAT
Found at i:51270236 original size:57 final size:57
Alignment explanation
Indices: 51270169--51270329 Score: 205
Period size: 57 Copynumber: 2.8 Consensus size: 57
51270159 CTGACTGATT
* * *
51270169 TCGCACACATAGTGCTCGATTAAAGAACTCGTACACATAGTGCCTCAATTACCAATC
1 TCGCATACATAGTGCTCGATTAAAGAACTCGCACACATAGTGCCTCAACTACCAATC
* **
51270226 TCGCATACATAGTGCTCGATTGAAGAACTCGCACACATAGTGCCTCAACTACTGATC
1 TCGCATACATAGTGCTCGATTAAAGAACTCGCACACATAGTGCCTCAACTACCAATC
* * * * * * *
51270283 TGGCATACATAGTGCTCGGTTGAAGAGCTTGCACACACAGTGACTCA
1 TCGCATACATAGTGCTCGATTAAAGAACTCGCACACATAGTGCCTCA
51270330 TAATTCCAGC
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 92 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (57 bp):
TCGCATACATAGTGCTCGATTAAAGAACTCGCACACATAGTGCCTCAACTACCAATC
Found at i:51270402 original size:40 final size:40
Alignment explanation
Indices: 51270335--51270530 Score: 306
Period size: 40 Copynumber: 4.9 Consensus size: 40
51270325 ACTCATAATT
* *
51270335 CCAGCACGAATGC-CTTCGAGG-TTTAGCCCGGATATATCA
1 CCAGCACGAATGCTCTTCG-GGACTTAGCCCGGATATAACA
*
51270374 CTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
51270414 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
** *
51270454 CCAGCACGAATGCTCTTTAGGACTTAGCCTGGATATAACA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
*
51270494 TCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
1 CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
51270531 TAACTCTCAA
Statistics
Matches: 144, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 14 0.10
40 130 0.90
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAACA
Found at i:51271426 original size:69 final size:69
Alignment explanation
Indices: 51271315--51271517 Score: 379
Period size: 69 Copynumber: 2.9 Consensus size: 69
51271305 CTGACGATTC
* * *
51271315 CCGAGGCTGTAGCTTCCAAATGAGCTCTATAAAACAGAGGAAACAAAGTAAACGGAGTAAGCATT
1 CCGAGTCTGTATCTTCCAAATGAGATCTATAAAACAGAGGAAACAAAGTAAACGGAGTAAGCATT
51271380 GTTT
66 GTTT
51271384 CCGAGTCTGTATCTTCCAAATGAGATCTATAAAACAGAGGAAACAAAGTAAACGGAGTAAGCATT
1 CCGAGTCTGTATCTTCCAAATGAGATCTATAAAACAGAGGAAACAAAGTAAACGGAGTAAGCATT
51271449 GTTT
66 GTTT
51271453 CCGAGTCTGTATCTTCCAAATGAGATCTATAAAACAGAGGAAACAAAGTAAACGGAGTAAGCATT
1 CCGAGTCTGTATCTTCCAAATGAGATCTATAAAACAGAGGAAACAAAGTAAACGGAGTAAGCATT
51271518 ACAATGCTTA
Statistics
Matches: 131, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
69 131 1.00
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (69 bp):
CCGAGTCTGTATCTTCCAAATGAGATCTATAAAACAGAGGAAACAAAGTAAACGGAGTAAGCATT
GTTT
Found at i:51271794 original size:126 final size:123
Alignment explanation
Indices: 51271572--51271819 Score: 433
Period size: 126 Copynumber: 2.0 Consensus size: 123
51271562 CCGAGACCGT
51271572 CACCGGAGTCGAACACGAGGTGTTAACAAACTTTAAAAATTTTCCAGACACTGCCAATCTGCGTA
1 CACCGGAGTCGAACACGAGGTGTTAACAAACTTTAAAAATTTTCCAGACACTGCCAATCTGCGTA
*
51271637 ATAGTCGCTTTAAAAATCATATCTTGAGTTCAGAAACTCGGAATCCAGTTTCGTAAAA
66 ATAGTCGCTTTAAAAATCATATCTTGAGTTCAGAAACTCGGAATCCAGTTCCGTAAAA
*
51271695 CACCGGAGTCGAACACGAGGTGTTAACAGACTTTAAAAATAATTTCCCAGACACTGCCAATCTGC
1 CACCGGAGTCGAACACGAGGTGTTAACAAACTTTAAAAAT--TTT-CCAGACACTGCCAATCTGC
* *
51271760 GTACTAGTCGTTTTAAAAATCATATCTTGAGTTCAGAAACTCGGAATCCAGTTCCGTAAA
63 GTAATAGTCGCTTTAAAAATCATATCTTGAGTTCAGAAACTCGGAATCCAGTTCCGTAAA
51271820 TTTTCCCTGA
Statistics
Matches: 118, Mismatches: 4, Indels: 3
0.94 0.03 0.02
Matches are distributed among these distances:
123 39 0.33
125 3 0.03
126 76 0.64
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (123 bp):
CACCGGAGTCGAACACGAGGTGTTAACAAACTTTAAAAATTTTCCAGACACTGCCAATCTGCGTA
ATAGTCGCTTTAAAAATCATATCTTGAGTTCAGAAACTCGGAATCCAGTTCCGTAAAA
Found at i:51273142 original size:79 final size:81
Alignment explanation
Indices: 51273041--51273225 Score: 209
Period size: 79 Copynumber: 2.3 Consensus size: 81
51273031 GCTACTCGTT
* * *
51273041 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
51273104 GAATTTAGTAAC-TCGCA
64 GAATATAGTAACTTAGCA
* * ** *
51273121 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTTGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGA
* *
51273185 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
51273201 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51273226 CATCATTCAA
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.03
79 52 0.58
80 34 0.38
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGA
ATATAGTAACTTAGCA
Found at i:51273225 original size:40 final size:40
Alignment explanation
Indices: 51273022--51273225 Score: 211
Period size: 40 Copynumber: 5.1 Consensus size: 40
51273012 CGGAATTTAA
** *
51273022 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
51273062 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
51273102 CCGAATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
51273141 CCGGA-ATTAGTATCTTGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
51273181 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
51273221 CCGGA
1 CCGGA
51273226 CATCATTCAA
Statistics
Matches: 136, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.01
39 31 0.23
40 91 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:51281507 original size:43 final size:42
Alignment explanation
Indices: 51281445--51281567 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 42
51281435 TACCATACCA
*
51281445 ATGCCATATCCTAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCTAGATATGGTCTTACATGGAATCTCATATCG
* * * * *
51281487 ATGCCAATAGCCTAGCTATGGTCTTACA-CGAAGTCTCGTATTG
1 ATGCC-ATATCCTAGATATGGTCTTACATGGAA-TCTCATATCG
* * *
51281530 ATGCCATATCCCAGGTATGGTCTTACATGTAATCTCAT
1 ATGCCATATCCTAGATATGGTCTTACATGGAATCTCAT
51281568 CTAACACTAA
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
42 31 0.47
43 35 0.53
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCTAGATATGGTCTTACATGGAATCTCATATCG
Found at i:51289898 original size:39 final size:40
Alignment explanation
Indices: 51289798--51290021 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
51289788 TCGAATGATG
* *
51289798 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* **
51289837 ACCCGTACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
51289878 TCCAGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
51289917 TCCGGGCTAAG-CCTGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
51289956 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
51289995 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
51290022 AACGAGTAGC
Statistics
Matches: 158, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
39 73 0.46
40 75 0.47
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:51290044 original size:79 final size:79
Alignment explanation
Indices: 51289805--51290021 Score: 255
Period size: 79 Copynumber: 2.7 Consensus size: 79
51289795 ATGTCCGGGC
* * * **
51289805 TAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATACCCGTACTAAGAT-CCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATTTGTGCG
*
51289868 AGTTACTAATTCCAGGC
64 AGTTACTAA-TCCAGGT
* * *
51289885 TAAG-CCCGAAGGCATTTGTGCGAGTTACTA-ATTCCGGGCTAAG-CCTGAAGGCATTGGTGCGA
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGA
*
51289947 GTTACTAAATCCGGGT
65 GTTACT-AATCCAGGT
*
51289963 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
51290022 AACGAGTAGC
Statistics
Matches: 117, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
78 32 0.27
79 61 0.52
80 24 0.21
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
TTACTAATCCAGGT
Found at i:51290054 original size:79 final size:79
Alignment explanation
Indices: 51289798--51290046 Score: 204
Period size: 79 Copynumber: 3.2 Consensus size: 79
51289788 TCGAATGATG
* * * * ** *
51289798 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-ATACCCGTACTAAGATCCGAAGGCAT
1 TCCGGGTTAAATCCCGAAGGCATTTGTGC-GAGTTACTAATA-CCGGGCTAAG-CCCGAAGGCAT
* ** *
51289861 TTGTGCGAGTTACTAAT
63 TGGAACGAGTTACTAAA
* * * * *
51289878 TCCAGGCT-AAGCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCTGAAGGCATTGG
1 TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGG
**
51289942 TGCGAGTTACTAAA
66 AACGAGTTACTAAA
* *
51289956 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATT
* *
51290020 TGAACGAG-TAGCTATA
64 GGAACGAGTTA-CTAAA
51290036 TCC-GGTTAAAT
1 TCCGGGTTAAAT
51290047 TCTGAAGGTA
Statistics
Matches: 139, Mismatches: 24, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
78 32 0.23
79 68 0.49
80 39 0.28
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (79 bp):
TCCGGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGG
AACGAGTTACTAAA
Found at i:51299050 original size:39 final size:40
Alignment explanation
Indices: 51298936--51299119 Score: 204
Period size: 40 Copynumber: 4.7 Consensus size: 40
51298926 GCTCCTCGTT
*
51298936 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGT-ATCTCGCA
*
51298976 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
*
51299016 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
* * *
51299055 CAAATGCCTTC-AGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGT-ATC-TCGCA
51299096 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51299120 CATCATTCAA
Statistics
Matches: 126, Mismatches: 10, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
38 1 0.01
39 52 0.41
40 63 0.50
41 10 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
Found at i:51299080 original size:79 final size:82
Alignment explanation
Indices: 51298936--51299119 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 82
51298926 GCTCCTCGTT
* * *
51298936 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGAGACTTAACCCG
*
51299000 GAT-TTAGT-A-TCTCGCA
66 GATATT-GTCACT-TAGCA
**
51299016 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-AGATCTTAGTC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAAT-TCGCACAAATGCCTTCGAGA-CTTAACC
51299077 CGGATATTGTCACTTAGCA
64 CGGATATTGTCACTTAGCA
51299096 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
51299120 CATCATTCAA
Statistics
Matches: 91, Mismatches: 6, Indels: 15
0.81 0.05 0.13
Matches are distributed among these distances:
78 13 0.14
79 54 0.59
80 23 0.25
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGAGACTTAACCCG
GATATTGTCACTTAGCA
Found at i:51316424 original size:38 final size:37
Alignment explanation
Indices: 51316335--51316631 Score: 197
Period size: 38 Copynumber: 7.9 Consensus size: 37
51316325 TTTGAATTAG
* * * **
51316335 GTGTTATTCAAGCTTACTGCCTAGCTGGCTCAATGCC-
1 GTGTTATTCAGGCTTAGTGCCTAGCAGGCTTTAT-CCT
* * *
51316372 GATGTTA-TCAGGCTTAGTGGCTAGTAGGCTTTGTACCT
1 G-TGTTATTCAGGCTTAGTGCCTAGCAGGCTTTAT-CCT
* *
51316410 GTGTTATTCAGGCTTAGTGCCTAGCAGGCTTTTTGCCA
1 GTGTTATTCAGGCTTAGTGCCTAGCAGGCTTTAT-CCT
* * * * * *
51316448 GTGTTATTCAAGCTTAGTGTCGAGAAGGC-TCAGTGCT
1 GTGTTATTCAGGCTTAGTGCCTAGCAGGCTTTA-TCCT
* * * *
51316485 AGTGTTATTTAGGCTTAGTGGCTAGCAGGCTTCATGCT
1 -GTGTTATTCAGGCTTAGTGCCTAGCAGGCTTTATCCT
* * * *
51316523 GGTGTTGTTCAGGCTTAGGGCCTAGCAGGCTTCATTCCG
1 -GTGTTATTCAGGCTTAGTGCCTAGCAGGCTTTA-TCCT
* * ** *
51316562 GTGTTATTCAAGCTTAGTGCCTAGTAGGCTCAATGCCG
1 GTGTTATTCAGGCTTAGTGCCTAGCAGGCTTTAT-CCT
* *
51316600 GTGTTATTCAAGCTTAGCGCCTA-CTAGGCTTT
1 GTGTTATTCAGGCTTAGTGCCTAGC-AGGCTTT
51316632 GTGTCAGTGT
Statistics
Matches: 207, Mismatches: 44, Indels: 17
0.77 0.16 0.06
Matches are distributed among these distances:
37 30 0.14
38 172 0.83
39 5 0.02
ACGTcount: A:0.18, C:0.20, G:0.27, T:0.34
Consensus pattern (37 bp):
GTGTTATTCAGGCTTAGTGCCTAGCAGGCTTTATCCT
Found at i:51316622 original size:76 final size:76
Alignment explanation
Indices: 51316334--51316630 Score: 269
Period size: 76 Copynumber: 3.9 Consensus size: 76
51316324 ATTTGAATTA
* * * * * *
51316334 GGTGTTATTCAAGCTTACTGCCTAGCTGGCTCAATGCCGATGTTA-TCAGGCTTAGTGGCTAGTA
1 GGTGTTATTCAAGCTTAGTGCCTAGCAGGCTCAATGCCGGTGTTATTCAAGCTTAGTGCCTAGCA
**
51316398 GGCTTTGTACC
66 GGCTTCATACC
* * *** * * * *
51316409 TGTGTTATTCAGGCTTAGTGCCTAGCAGGCTTTTTGCCAGTGTTATTCAAGCTTAGTGTCGAGAA
1 GGTGTTATTCAAGCTTAGTGCCTAGCAGGCTCAATGCCGGTGTTATTCAAGCTTAGTGCCTAGCA
* *
51316474 GGC-TCAGTGCT
66 GGCTTCA-TACC
* * * * * * * *
51316485 AGTGTTATTTAGGCTTAGTGGCTAGCAGGCTTC-ATGCTGGTGTTGTTCAGGCTTAGGGCCTAGC
1 GGTGTTATTCAAGCTTAGTGCCTAGCAGGC-TCAATGCCGGTGTTATTCAAGCTTAGTGCCTAGC
*
51316549 AGGCTTCATTCC
65 AGGCTTCATACC
* *
51316561 GGTGTTATTCAAGCTTAGTGCCTAGTAGGCTCAATGCCGGTGTTATTCAAGCTTAGCGCCTA-CT
1 GGTGTTATTCAAGCTTAGTGCCTAGCAGGCTCAATGCCGGTGTTATTCAAGCTTAGTGCCTAGC-
51316625 AGGCTT
65 AGGCTT
51316631 TGTGTCAGTG
Statistics
Matches: 175, Mismatches: 41, Indels: 11
0.77 0.18 0.05
Matches are distributed among these distances:
75 40 0.23
76 131 0.75
77 4 0.02
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.34
Consensus pattern (76 bp):
GGTGTTATTCAAGCTTAGTGCCTAGCAGGCTCAATGCCGGTGTTATTCAAGCTTAGTGCCTAGCA
GGCTTCATACC
Found at i:51316629 original size:114 final size:114
Alignment explanation
Indices: 51316334--51316630 Score: 343
Period size: 114 Copynumber: 2.6 Consensus size: 114
51316324 ATTTGAATTA
* * *
51316334 GGTGTTATTCAAGCTTACTGCCTAGCT-GGCTCAATGCCGATGTTA-TCAGGCTTAGTGGCTAGT
1 GGTGTTATTCAAGCTTAGTGCCTAG-TAGGCTCAATGCCGGTGTTATTCAGGCTTAGTGGCTACT
** * *
51316397 AGGCTTTGTACCTGTGTTATTCAGGCTTAGTGCCTAGCAGGCTTTTTGCC
65 AGGCTTCATACCTGTGTTATTCAGGCTTAGGGCCTAGCAGGCTTATTGCC
* * * * * ** *
51316447 AGTGTTATTCAAGCTTAGTGTCGAGAAGGCTCAGTGCTAGTGTTATTTAGGCTTAGTGGCTAGC-
1 GGTGTTATTCAAGCTTAGTGCCTAGTAGGCTCAATGCCGGTGTTATTCAGGCTTAGTGGCTA-CT
* *
51316511 AGGCTTCAT-GCTGGTGTTGTTCAGGCTTAGGGCCTAGCAGGCTTCATT-CC
65 AGGCTTCATACCT-GTGTTATTCAGGCTTAGGGCCTAGCAGGCTT-ATTGCC
* * *
51316561 GGTGTTATTCAAGCTTAGTGCCTAGTAGGCTCAATGCCGGTGTTATTCAAGCTTAGCGCCTACTA
1 GGTGTTATTCAAGCTTAGTGCCTAGTAGGCTCAATGCCGGTGTTATTCAGGCTTAGTGGCTACTA
51316626 GGCTT
66 GGCTT
51316631 TGTGTCAGTG
Statistics
Matches: 150, Mismatches: 28, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
113 38 0.25
114 110 0.73
115 2 0.01
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.34
Consensus pattern (114 bp):
GGTGTTATTCAAGCTTAGTGCCTAGTAGGCTCAATGCCGGTGTTATTCAGGCTTAGTGGCTACTA
GGCTTCATACCTGTGTTATTCAGGCTTAGGGCCTAGCAGGCTTATTGCC
Found at i:51319626 original size:17 final size:16
Alignment explanation
Indices: 51319596--51319630 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
51319586 GATTTAAATA
51319596 AATTAATAAATTTCTC
1 AATTAATAAATTTCTC
*
51319612 AATTACATAATTTTCTC
1 AATTA-ATAAATTTCTC
51319629 AA
1 AA
51319631 CTCGATTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (16 bp):
AATTAATAAATTTCTC
Found at i:51323477 original size:59 final size:59
Alignment explanation
Indices: 51323385--51323503 Score: 220
Period size: 59 Copynumber: 2.0 Consensus size: 59
51323375 GAAGTCATGC
51323385 ATACATAGTCCATAACCCACTTAAGAGTAAGGTATGCCACACTATAAATCTTATGTAAT
1 ATACATAGTCCATAACCCACTTAAGAGTAAGGTATGCCACACTATAAATCTTATGTAAT
* *
51323444 ATACATAGTCCATAATCCACTTAAGAGTAAGGTATGTCACACTATAAATCTTATGTAAT
1 ATACATAGTCCATAACCCACTTAAGAGTAAGGTATGCCACACTATAAATCTTATGTAAT
51323503 A
1 A
51323504 CCCCGCCCAG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.30
Consensus pattern (59 bp):
ATACATAGTCCATAACCCACTTAAGAGTAAGGTATGCCACACTATAAATCTTATGTAAT
Found at i:51323859 original size:192 final size:192
Alignment explanation
Indices: 51323532--51323922 Score: 746
Period size: 192 Copynumber: 2.0 Consensus size: 192
51323522 TGTTAACGGA
51323532 TTTATGTTGTACTCGCCAGTATAGTACTTGTTTAAGTTGTGCACCATGAGTGGCGGATTTTATGA
1 TTTATGTTGTACTCGCCAGTATAGTACTTGTTTAAGTTGTGCACCATGAGTGGCGGATTTTATGA
* *
51323597 TTTATAATTTTGTTAAGGGATGTTGCTTAAGGCAAAGTATAAGTTTTATTTTATGTTCATGTGTG
66 TTTATAAGTTTGTTAAGGGATGTTGCTTAAGGCAAAGTATAAGTTTTATTTTATGTTCAAGTGTG
51323662 TTGTGGTGAAGAACCTGCTAATCAATGTTTCTTTTAAAAAGTCTGTTTGTTAAGACCTTTTG
131 TTGTGGTGAAGAACCTGCTAATCAATGTTTCTTTTAAAAAGTCTGTTTGTTAAGACCTTTTG
*
51323724 TTTATGTTGTACTCGCCAGTATAGTACTTGTTTAAGTTGTGCACCATGAGTGGCGGTTTTTATGA
1 TTTATGTTGTACTCGCCAGTATAGTACTTGTTTAAGTTGTGCACCATGAGTGGCGGATTTTATGA
*
51323789 TTTATAAGTTTGTTAAGGTATGTTGCTTAAGGCAAAGTATAAGTTTTATTTTATGTTCAAGTGTG
66 TTTATAAGTTTGTTAAGGGATGTTGCTTAAGGCAAAGTATAAGTTTTATTTTATGTTCAAGTGTG
51323854 TTGTGGTGAAGAACCTGCTAATCAATGTTTCTTTTAAAAAGTCTGTTTGTTAAGACCTTTTG
131 TTGTGGTGAAGAACCTGCTAATCAATGTTTCTTTTAAAAAGTCTGTTTGTTAAGACCTTTTG
51323916 TTTATGT
1 TTTATGT
51323923 ACGCTAATAA
Statistics
Matches: 195, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
192 195 1.00
ACGTcount: A:0.24, C:0.10, G:0.22, T:0.44
Consensus pattern (192 bp):
TTTATGTTGTACTCGCCAGTATAGTACTTGTTTAAGTTGTGCACCATGAGTGGCGGATTTTATGA
TTTATAAGTTTGTTAAGGGATGTTGCTTAAGGCAAAGTATAAGTTTTATTTTATGTTCAAGTGTG
TTGTGGTGAAGAACCTGCTAATCAATGTTTCTTTTAAAAAGTCTGTTTGTTAAGACCTTTTG
Found at i:51324666 original size:41 final size:41
Alignment explanation
Indices: 51324623--51324751 Score: 168
Period size: 41 Copynumber: 3.1 Consensus size: 41
51324613 AAAAATGGCG
* *
51324623 CTAAAAACCAGAACATTAGCGGCGCTTTTTGTAAAACGCCG
1 CTAAAAACCAGATCATTAGCGGCGCTTTTTGTAAAACGCCA
* *
51324664 CTAAAAGCTAGATCATTAGCGGCGCTTTTTGTAAAACGCCA
1 CTAAAAACCAGATCATTAGCGGCGCTTTTTGTAAAACGCCA
* * * * * *
51324705 CTAAAAATCGGATCATTGGCAGCGCTTTTGGTAAAATGCCA
1 CTAAAAACCAGATCATTAGCGGCGCTTTTTGTAAAACGCCA
51324746 CTAAAA
1 CTAAAA
51324752 GTCATATAAC
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 76 1.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (41 bp):
CTAAAAACCAGATCATTAGCGGCGCTTTTTGTAAAACGCCA
Found at i:51325361 original size:21 final size:22
Alignment explanation
Indices: 51325317--51325365 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
51325307 GTTTAAGGAT
*
51325317 GGGGTTTAAGGTTTAGGTGTTA
1 GGGGTTTAAGGTTAAGGTGTTA
51325339 GGGG-TTATAGGTTAAGG-GTTA
1 GGGGTTTA-AGGTTAAGGTGTTA
51325360 GGGGTT
1 GGGGTT
51325366 CATGATTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.18, C:0.00, G:0.45, T:0.37
Consensus pattern (22 bp):
GGGGTTTAAGGTTAAGGTGTTA
Found at i:51325532 original size:7 final size:7
Alignment explanation
Indices: 51325522--51325578 Score: 51
Period size: 7 Copynumber: 8.1 Consensus size: 7
51325512 TATATTTATA
51325522 GTTTAGG
1 GTTTAGG
51325529 GTTTAGG
1 GTTTAGG
*
51325536 GTTTAAG
1 GTTTAGG
** *
51325543 ACTTATG
1 GTTTAGG
51325550 GTTTAGG
1 GTTTAGG
*
51325557 GTTTAGT
1 GTTTAGG
* *
51325564 TTTTAGT
1 GTTTAGG
51325571 GTTTAGG
1 GTTTAGG
51325578 G
1 G
51325579 ATAAATATGG
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
7 39 1.00
ACGTcount: A:0.18, C:0.02, G:0.33, T:0.47
Consensus pattern (7 bp):
GTTTAGG
Found at i:51325540 original size:21 final size:21
Alignment explanation
Indices: 51325516--51325578 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
51325506 GTTAATTATA
51325516 TTTATAGTTTAGGGTTTAGGG
1 TTTATAGTTTAGGGTTTAGGG
* *
51325537 TTTA-AGACTTATGGTTTAGGG
1 TTTATAG-TTTAGGGTTTAGGG
* *
51325558 TTTAGT-TTTTAGTGTTTAGGG
1 TTTA-TAGTTTAGGGTTTAGGG
51325579 ATAAATATGG
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
20 2 0.06
21 31 0.94
ACGTcount: A:0.19, C:0.02, G:0.30, T:0.49
Consensus pattern (21 bp):
TTTATAGTTTAGGGTTTAGGG
Found at i:51326349 original size:3 final size:3
Alignment explanation
Indices: 51326258--51326329 Score: 112
Period size: 3 Copynumber: 24.7 Consensus size: 3
51326248 AATAGATTTT
51326258 GAA G-A GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* *
51326305 GAA GAA GAG GAA GAG GAA G-A GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
51326330 GGGGGGAGGA
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
2 4 0.06
3 59 0.94
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:51330782 original size:21 final size:21
Alignment explanation
Indices: 51330725--51330785 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 21
51330715 CAAATTCAAA
* *
51330725 AATTAAACATAATATAATATTT
1 AATTAAA-ATAAAATATTATTT
*
51330747 ATCATAAAAAT-AAATATTATTT
1 A--ATTAAAATAAAATATTATTT
51330769 AATTAAAATAAAATATT
1 AATTAAAATAAAATATT
51330786 TTTTTAAAGG
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
20 7 0.22
21 7 0.22
22 11 0.34
23 2 0.06
24 5 0.16
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.39
Consensus pattern (21 bp):
AATTAAAATAAAATATTATTT
Found at i:51330935 original size:43 final size:43
Alignment explanation
Indices: 51330790--51331025 Score: 147
Period size: 43 Copynumber: 5.5 Consensus size: 43
51330780 AATATTTTTT
* * * *
51330790 TAAAGGTAATGGTCTTTAGCGGCGTTTGTGAGAAAAGCGTCAC
1 TAAAGGTCATGGTCTTTAGCGGTGTTTGTGGGAAAAGCGTCGC
* * * *
51330833 TAAAGGT--TTGTTTTATAGCGGTGTTTGTAGGAAAAGCGCCGC
1 TAAAGGTCATGGTCTT-TAGCGGTGTTTGTGGGAAAAGCGTCGC
** **
51330875 TAAAGACCATGACCTTTAGCGGTGTTT-TCGGGAAAAGCGTCGC
1 TAAAGGTCATGGTCTTTAGCGGTGTTTGT-GGGAAAAGCGTCGC
* * * * ** ** *
51330918 TAAAGGTCGTGGTCTTTAGTGGCGTTTGAGAAAAAAGCACCAC
1 TAAAGGTCATGGTCTTTAGCGGTGTTTGTGGGAAAAGCGTCGC
* * * * * * *
51330961 TAAAAGTCATGGTCTTTTGCGGCGTTTG-AGAAAATAACATCGC
1 TAAAGGTCATGGTCTTTAGCGGTGTTTGTGGGAAA-AGCGTCGC
* *
51331004 TAAAAGTCGTGGTCTTTAGCGG
1 TAAAGGTCATGGTCTTTAGCGG
51331026 CGCTTGTGAA
Statistics
Matches: 148, Mismatches: 39, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
41 5 0.03
42 32 0.22
43 108 0.73
44 3 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (43 bp):
TAAAGGTCATGGTCTTTAGCGGTGTTTGTGGGAAAAGCGTCGC
Found at i:51331026 original size:43 final size:43
Alignment explanation
Indices: 51330907--51331036 Score: 163
Period size: 43 Copynumber: 3.0 Consensus size: 43
51330897 TGTTTTCGGG
* * *
51330907 AAAAGCGTCGCTAAAGGTCGTGGTCTTTAGTGGCGTTTGAGAA
1 AAAAGCATCGCTAAAAGTCGTGGTCTTTAGCGGCGTTTGAGAA
* * * *
51330950 AAAAGCACCACTAAAAGTCATGGTCTTTTGCGGCGTTTGAGAA
1 AAAAGCATCGCTAAAAGTCGTGGTCTTTAGCGGCGTTTGAGAA
* *
51330993 AATAA-CATCGCTAAAAGTCGTGGTCTTTAGCGGCGCTTGTGAA
1 AA-AAGCATCGCTAAAAGTCGTGGTCTTTAGCGGCGTTTGAGAA
51331036 A
1 A
51331037 CGCCGCTAAC
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
43 71 0.97
44 2 0.03
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (43 bp):
AAAAGCATCGCTAAAAGTCGTGGTCTTTAGCGGCGTTTGAGAA
Found at i:51341424 original size:40 final size:40
Alignment explanation
Indices: 51341369--51341527 Score: 259
Period size: 40 Copynumber: 4.0 Consensus size: 40
51341359 NNNNNNNNNN
51341369 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TC
51341409 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
**
51341449 CGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
51341489 CGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
51341528 GCTTTGACTT
Statistics
Matches: 113, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
39 2 0.02
40 110 0.97
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:51348487 original size:40 final size:40
Alignment explanation
Indices: 51348292--51348489 Score: 172
Period size: 40 Copynumber: 5.0 Consensus size: 40
51348282 GATGATAACC
* * * * *
51348292 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATA-TCT
* * * * * *
51348332 GAGATAAG-CCCGAAGGCAATT-GTGCGAGTTATTATACCC
1 GGGCTATGTCCCGAAGGC-ATTCGTGCGAGTTACTATATCT
* * *
51348371 GGGCTAAT-TCCCGAAGGCATCCGTGCGAGTTATTATGTCT
1 GGGCT-ATGTCCCGAAGGCATTCGTGCGAGTTACTATATCT
* *
51348411 GGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATCT
1 GGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATATCT
*
51348451 GGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATC
1 GGGCTATGTCCCGAAGGCATTCGTGCGAGTTA-CTATATC
51348490 CGGTTAAATC
Statistics
Matches: 130, Mismatches: 21, Indels: 14
0.79 0.13 0.08
Matches are distributed among these distances:
39 29 0.22
40 101 0.78
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTATGTCCCGAAGGCATTCGTGCGAGTTACTATATCT
Found at i:51349542 original size:71 final size:71
Alignment explanation
Indices: 51349457--51349596 Score: 228
Period size: 71 Copynumber: 2.0 Consensus size: 71
51349447 GATAATTAGG
* * *
51349457 AGTCATGCCCTATATGTATAGATTCC-TCTCTGAGTCTAGTTTCTATAGAAATAAACGGAATCAG
1 AGTCATGCCATATATGTACAGATTCCTTCTC-GAGTCTAGTTGCTATAGAAATAAACGGAATCAG
51349521 TATTGTA
65 TATTGTA
*
51349528 AGTCATGCCATATATGTACAGATTCCTTTTCGAGTCTAGTTGCTATAGAAATAAACGGAATCAGT
1 AGTCATGCCATATATGTACAGATTCCTTCTCGAGTCTAGTTGCTATAGAAATAAACGGAATCAGT
51349593 ATTG
66 ATTG
51349597 AAGCCCTGTA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
71 61 0.95
72 3 0.05
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.34
Consensus pattern (71 bp):
AGTCATGCCATATATGTACAGATTCCTTCTCGAGTCTAGTTGCTATAGAAATAAACGGAATCAGT
ATTGTA
Found at i:51351514 original size:40 final size:40
Alignment explanation
Indices: 51351459--51351556 Score: 137
Period size: 40 Copynumber: 2.5 Consensus size: 40
51351449 NNNNNNNNNN
*
51351459 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTA-CTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCG-ACTAGCTATAT
*
51351499 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGACTAGCTATAT
* *
51351539 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
51351557 TACTTGGTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
39 17 0.32
40 36 0.68
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCGACTAGCTATAT
Found at i:51355409 original size:26 final size:26
Alignment explanation
Indices: 51355354--51355429 Score: 73
Period size: 26 Copynumber: 2.9 Consensus size: 26
51355344 TCTTATCCCT
* * * *
51355354 ATTTTACCCCAAGCAAAATTTTGACG
1 ATTTTACCACTAGTAAAATTTTGACA
*
51355380 ATTTTACCACTAGTAAAATTTTGATA
1 ATTTTACCACTAGTAAAATTTTGACA
* *
51355406 ATTTTTCCTA-TCGTAAAATTTTGA
1 ATTTTACC-ACTAGTAAAATTTTGA
51355430 GAAAATATGT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 41 0.98
27 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (26 bp):
ATTTTACCACTAGTAAAATTTTGACA
Found at i:51358200 original size:2 final size:2
Alignment explanation
Indices: 51358193--51358251 Score: 82
Period size: 2 Copynumber: 29.5 Consensus size: 2
51358183 CGAATTTACT
* *
51358193 TC TC TC TC TC TC TC TC TC TC TC TC TC CC TC TC CC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* *
51358235 CC TC CC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC T
51358252 TTATTGATTG
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (2 bp):
TC
Found at i:51363001 original size:47 final size:47
Alignment explanation
Indices: 51362795--51363112 Score: 197
Period size: 47 Copynumber: 6.7 Consensus size: 47
51362785 GGGTTAAGTT
* * * * *
51362795 GCCGATGCCATGTCCCAGACATGGTATTACACTAGCTATCTTCATCGAG
1 GCCGATG-CATGTCCCAGACA-CGTCTTACACTAGCTACCATCATTGAG
* * * *
51362844 GCCGATGCCATGTCCTAGACACGGTCTTACACTAGCT-CTCGT-GTATAAG
1 GCCGATG-CATGTCCCAGACAC-GTCTTACACTAGCTAC-CATCAT-TGAG
* * *
51362893 TGCTGATGCATGTCCCAGACATGTCTTACACTAGCATGA--AGC-TT-A-
1 -GCCGATGCATGTCCCAGACACGTCTTACACTAGC-T-ACCATCATTGAG
* *
51362938 GCTGATGCATGTCCCAGACACGTCTTACACTGGCTACCATCATTGAG
1 GCCGATGCATGTCCCAGACACGTCTTACACTAGCTACCATCATTGAG
* * * * *
51362985 GCCGATGCATGTCCCAGATACGTCTTAAACTGGC-ACTCATC-TTTAC
1 GCCGATGCATGTCCCAGACACGTCTTACACTAGCTAC-CATCATTGAG
* * * *** * *
51363031 GCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTATTGT-AATGTG
1 GCCGATG-CATGTCCCAGACA-CGTCTTACACTAGCTACCATCATTGAG
* *
51363079 GCTGATCCATGTCCCAGACACGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACACGTCTTACACTAGC
51363113 GCTCGTATCA
Statistics
Matches: 214, Mismatches: 37, Indels: 39
0.74 0.13 0.13
Matches are distributed among these distances:
42 1 0.00
43 1 0.00
44 34 0.16
45 2 0.01
46 25 0.12
47 61 0.29
48 33 0.15
49 51 0.24
50 6 0.03
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACACGTCTTACACTAGCTACCATCATTGAG
Found at i:51363543 original size:30 final size:30
Alignment explanation
Indices: 51363503--51363559 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
51363493 ATTTCACATC
* *
51363503 TTTGGTAAAATGACCATTTTACCCCTAGGT
1 TTTGGCAAAATGACCATTTTAACCCTAGGT
*
51363533 TTTGGCAAAATGACTATTTTAACCCTA
1 TTTGGCAAAATGACCATTTTAACCCTA
51363560 TATTCAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (30 bp):
TTTGGCAAAATGACCATTTTAACCCTAGGT
Found at i:51370561 original size:94 final size:94
Alignment explanation
Indices: 51370318--51370632 Score: 300
Period size: 94 Copynumber: 3.4 Consensus size: 94
51370308 TTAAGTTGTT
* * * * * *
51370318 GATGCCATGTCCCAAACATGATCTTACACTAGCTCTCGTGTATAAGT-GCTGATGCATGTCCCAG
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATC-AGTA-ATGTGGCTGATGCATGTCCCAG
* * * ** *
51370382 GCATGTTTTACACTAGCACGAAGCT-TAGCC
64 ACACGTCTTACACTAGCACTCATCTCTAGCC
* * * * * ** *
51370412 GATG-CATGTCCCAGACA-CGTCTTACACTGGCTACCATTATTGAGGCAAATGCATGTCCCAAAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAGTAATGTGGCTGATGCATGTCCCAGAC
* *
51370475 ACGTCTTACATTGGCACTCATCTCTACGCC
66 ACGTCTTACACTAGCACTCATCTCTA-GCC
*
51370505 GATGCCATGTCCCA-ATCATGGTCTTACACTGGCTATC-GTAATGTGGCTGATGCATGTCCTAGA
1 GATGCCATGTCCCAGA-CATGGTCTTACACTGGCTATCAGTAATGTGGCTGATGCATGTCCCAGA
* * *
51370568 CACGTCTTACACTAGCCCTCGTCTCAATGCC
65 CACGTCTTACACTAGCACTCATCTCTA-GCC
*
51370599 GATGCCATGTCCTAGACATGGTCTTACACTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT
51370633 CTCACATCAC
Statistics
Matches: 176, Mismatches: 38, Indels: 14
0.77 0.17 0.06
Matches are distributed among these distances:
90 1 0.01
91 33 0.19
92 15 0.09
93 20 0.11
94 90 0.51
95 17 0.10
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (94 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTATCAGTAATGTGGCTGATGCATGTCCCAGAC
ACGTCTTACACTAGCACTCATCTCTAGCC
Found at i:51371277 original size:74 final size:74
Alignment explanation
Indices: 51371156--51371303 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
51371146 ATGGTTCCTT
51371156 TAGGTGTTTTCAAGCTAACACCTTTTTCAAAAGTTGCTTATAACACAACTAAGACTCATATTCCT
1 TAGGTGTTTTCAAGCTAACACCTTTTTCAAAAGTTGCTTATAACACAACTAAGACTCATATTCCT
51371221 CCATAAAAA
66 CCATAAAAA
51371230 TAGGTGTTTTCAAGCTAACACCTTTTTCAAAAGTTGCTTATAACACAACTAAGACTCATATTCCT
1 TAGGTGTTTTCAAGCTAACACCTTTTTCAAAAGTTGCTTATAACACAACTAAGACTCATATTCCT
51371295 CCATAAAAA
66 CCATAAAAA
51371304 ATCAGCATCT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.36, C:0.22, G:0.09, T:0.32
Consensus pattern (74 bp):
TAGGTGTTTTCAAGCTAACACCTTTTTCAAAAGTTGCTTATAACACAACTAAGACTCATATTCCT
CCATAAAAA
Found at i:51372144 original size:28 final size:29
Alignment explanation
Indices: 51372113--51372168 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
51372103 ACGGGTGAGC
*
51372113 ACACGGGCGTGT-CTAGGCCGTGTGAAAG
1 ACACGGGCGTGTGCTAGGCCATGTGAAAG
*
51372141 ACACGGGCGTGTGCTTGGCCATGTGAAA
1 ACACGGGCGTGTGCTAGGCCATGTGAAA
51372169 ACCCCTGTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.21, C:0.21, G:0.38, T:0.20
Consensus pattern (29 bp):
ACACGGGCGTGTGCTAGGCCATGTGAAAG
Found at i:51374251 original size:21 final size:23
Alignment explanation
Indices: 51374227--51374283 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
51374217 TTTATATAAG
51374227 TATA-ATAAAATATTAAAA-ATA
1 TATATATAAAATATTAAAATATA
51374248 TATATATAATAAT-TTAAAATATA
1 TATATATAA-AATATTAAAATATA
*
51374271 TATATATCAAATA
1 TATATATAAAATA
51374284 CTCATCATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 4 0.13
22 13 0.42
23 14 0.45
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (23 bp):
TATATATAAAATATTAAAATATA
Found at i:51379955 original size:4 final size:4
Alignment explanation
Indices: 51379946--51379989 Score: 88
Period size: 4 Copynumber: 11.0 Consensus size: 4
51379936 CAACACTAGA
51379946 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
51379990 TAATTATCTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:51380470 original size:20 final size:20
Alignment explanation
Indices: 51380447--51380488 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
51380437 ACATCTAAAA
*
51380447 ATTATTTTACACAT-TATTTT
1 ATTAGTTTAC-CATATATTTT
51380467 ATTAGTTTACCATATATTTT
1 ATTAGTTTACCATATATTTT
51380487 AT
1 AT
51380489 AAAGTTTACA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.31, C:0.10, G:0.02, T:0.57
Consensus pattern (20 bp):
ATTAGTTTACCATATATTTT
Found at i:51380496 original size:21 final size:20
Alignment explanation
Indices: 51380452--51380498 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
51380442 TAAAAATTAT
*
51380452 TTTACACATTATTTTATTAG
1 TTTACACATTATTTTATAAG
51380472 TTTAC-CATATATTTTATAAAG
1 TTTACACAT-TATTTTAT-AAG
51380493 TTTACA
1 TTTACA
51380499 TTTTAGACCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 3 0.13
20 13 0.57
21 7 0.30
ACGTcount: A:0.34, C:0.11, G:0.04, T:0.51
Consensus pattern (20 bp):
TTTACACATTATTTTATAAG
Found at i:51384249 original size:13 final size:13
Alignment explanation
Indices: 51384231--51384255 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
51384221 AATAAACATT
51384231 ATTTATTAAATTA
1 ATTTATTAAATTA
51384244 ATTTATTAAATT
1 ATTTATTAAATT
51384256 TTCAATTAAA
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTTATTAAATTA
Found at i:51389390 original size:26 final size:26
Alignment explanation
Indices: 51389361--51389468 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
51389351 TGGTACAAAT
51389361 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
51389387 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51389413 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
51389439 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
51389465 TGAT
1 TGAT
51389469 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:51391171 original size:54 final size:53
Alignment explanation
Indices: 51391089--51391229 Score: 228
Period size: 54 Copynumber: 2.6 Consensus size: 53
51391079 AGGAAACGTC
*
51391089 CTGGTAGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
51391143 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
51391197 CTGGTGGCTCTGCCACAATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACATTATCTG-ATCTGGTG
51391230 ACTTCGTCAC
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 7 0.09
54 75 0.91
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (53 bp):
CTGGTGGCTATGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:51391240 original size:27 final size:27
Alignment explanation
Indices: 51391089--51391247 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
51391079 AGGAAACGTC
* *
51391089 CTGGTAGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
51391116 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
51391143 CTGGTGGCTATGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
51391170 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
51391197 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
51391224 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
51391248 GCAGCCTCAC
Statistics
Matches: 116, Mismatches: 8, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 104 0.90
28 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:51396526 original size:26 final size:26
Alignment explanation
Indices: 51396497--51396815 Score: 539
Period size: 26 Copynumber: 12.3 Consensus size: 26
51396487 TCATGGTACA
51396497 CCATGATAATGGGTTAGGTAAATGTT
1 CCATGATAATGGGTTAGGTAAATGTT
* *
51396523 CCATGATAATGGATTAGGTAAATATT
1 CCATGATAATGGGTTAGGTAAATGTT
51396549 CCATGATAATGGGTTAGGTAAATGTT
1 CCATGATAATGGGTTAGGTAAATGTT
* *
51396575 CCATGATAATGGATTAGGTAAATATT
1 CCATGATAATGGGTTAGGTAAATGTT
51396601 CCATGATAATGGGTTAGGTAAATGTT
1 CCATGATAATGGGTTAGGTAAATGTT
* *
51396627 CCATGATAATGGATTAGGTAAATATT
1 CCATGATAATGGGTTAGGTAAATGTT
51396653 CCATGATAATGGGTTAGGTAAATGTT
1 CCATGATAATGGGTTAGGTAAATGTT
* *
51396679 CCATGATAATGGATTAGGTAAATATT
1 CCATGATAATGGGTTAGGTAAATGTT
51396705 CCATGATAATGGGTTAGGTAAATGTT
1 CCATGATAATGGGTTAGGTAAATGTT
* *
51396731 CCATGATAATGGATTAGGTAAATATT
1 CCATGATAATGGGTTAGGTAAATGTT
51396757 CCATGATAATGGGTTAGGTAAATGTT
1 CCATGATAATGGGTTAGGTAAATGTT
*
51396783 CCATGATAATGGTTTAGGTAAATGTT
1 CCATGATAATGGGTTAGGTAAATGTT
51396809 CCATGAT
1 CCATGAT
51396816 GGGCATTTCA
Statistics
Matches: 272, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 272 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (26 bp):
CCATGATAATGGGTTAGGTAAATGTT
Found at i:51396559 original size:52 final size:52
Alignment explanation
Indices: 51396497--51396815 Score: 620
Period size: 52 Copynumber: 6.1 Consensus size: 52
51396487 TCATGGTACA
51396497 CCATGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATT
1 CCATGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATT
51396549 CCATGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATT
1 CCATGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATT
51396601 CCATGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATT
1 CCATGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATT
51396653 CCATGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATT
1 CCATGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATT
51396705 CCATGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATT
1 CCATGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATT
* *
51396757 CCATGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTT
1 CCATGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATT
51396809 CCATGAT
1 CCATGAT
51396816 GGGCATTTCA
Statistics
Matches: 265, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 265 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (52 bp):
CCATGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATT
Found at i:51398470 original size:27 final size:26
Alignment explanation
Indices: 51398430--51398570 Score: 165
Period size: 27 Copynumber: 5.2 Consensus size: 26
51398420 AGGAAGCGTC
*
51398430 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
51398457 CTGGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
51398484 CTGGTGGCTATGCCACGATTATATGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
51398511 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
51398538 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
*
51398565 TTGGTG
1 CTGGTG
51398571 ACTTCGTCAC
Statistics
Matches: 98, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
26 10 0.10
27 86 0.88
28 2 0.02
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:51398512 original size:54 final size:54
Alignment explanation
Indices: 51398430--51398556 Score: 218
Period size: 54 Copynumber: 2.4 Consensus size: 54
51398420 AGGAAGCGTC
* *
51398430 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTATGCCACAATTATATGATCTGGTGGCTCTGCCACATATATCTGTT
*
51398484 CTGGTGGCTATGCCACGATTATATGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATATGATCTGGTGGCTCTGCCACATATATCTGTT
*
51398538 CTGGTGGCTCTGCCACAAT
1 CTGGTGGCTATGCCACAAT
51398557 ATCTGTATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.35
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATATGATCTGGTGGCTCTGCCACATATATCTGTT
Found at i:51418808 original size:48 final size:48
Alignment explanation
Indices: 51418736--51418830 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
51418726 GGGTTATGTG
* *
51418736 TGATCCCATGTAAGACCATGTCTGGAACATGGCATTGGCATCGATATT
1 TGATCCCATGTAAGACCATATCTGGAACATAGCATTGGCATCGATATT
* * *
51418784 TGATCCCATGTAAGAGCATATCTGGGATATAGCATTGGCATCGATAT
1 TGATCCCATGTAAGACCATATCTGGAACATAGCATTGGCATCGATAT
51418831 GAGACATCGT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATATCTGGAACATAGCATTGGCATCGATATT
Found at i:51426769 original size:40 final size:40
Alignment explanation
Indices: 51426451--51426755 Score: 429
Period size: 40 Copynumber: 7.7 Consensus size: 40
51426441 TTGAATGATG
* * * * *
51426451 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
51426491 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
51426531 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
51426570 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
51426610 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
51426650 TCCGGGTTAAGGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
51426690 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
51426731 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
51426756 AACGAGTAGC
Statistics
Matches: 245, Mismatches: 15, Indels: 10
0.91 0.06 0.04
Matches are distributed among these distances:
39 35 0.14
40 200 0.82
41 10 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:51428678 original size:39 final size:40
Alignment explanation
Indices: 51428578--51428762 Score: 175
Period size: 40 Copynumber: 4.7 Consensus size: 40
51428568 TCGAATGATG
* * * *
51428578 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
** *
51428617 ATCCGTACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
*
51428658 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAT
* *
51428698 T-CGGGTTAAGTTCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
51428736 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
51428763 AACGAATAGC
Statistics
Matches: 119, Mismatches: 18, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 77 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:51428784 original size:79 final size:79
Alignment explanation
Indices: 51428625--51428795 Score: 195
Period size: 79 Copynumber: 2.2 Consensus size: 79
51428615 ATATCCGTAC
* * ** *
51428625 TAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGT
1 TAAGTTCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGA
*
51428690 TACTAAATTCGGGT
66 TACTAAATTCCGGT
* * *
51428704 TAAGTTCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGA
1 TAAGTTCCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGA
*
51428768 -ATAGCTATA-TCCGGT
64 GATA-CTAAATTCCGGT
*
51428783 TAAATTCCGAAGG
1 TAAGTTCCGAAGG
51428796 TACGTGATTC
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
78 2 0.03
79 56 0.72
80 20 0.26
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (79 bp):
TAAGTTCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGA
TACTAAATTCCGGT
Found at i:51429198 original size:40 final size:40
Alignment explanation
Indices: 51429134--51429401 Score: 324
Period size: 40 Copynumber: 6.7 Consensus size: 40
51429124 AGGTCTTGAC
*
51429134 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
51429173 GATGTATCCGGGCTAAG-CCCTGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCC-GAAGAGCATTCGTGCTAGT
* * * *
51429213 GATGTGTCCGGACTAAGTTCCGAAGAGCATTTGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * *
51429253 GATATATCCGGGCTAAATCCCAAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * *
51429293 GATGTATCCAGACTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * * *
51429333 GATATATCCGTGCTAAGTTCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * ** *
51429373 GTTATATTTGGGCTAGGTCCCGAAGAGCA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCA
51429402 ATCATGCTGG
Statistics
Matches: 197, Mismatches: 29, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
39 7 0.04
40 188 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:51458205 original size:22 final size:22
Alignment explanation
Indices: 51458174--51458263 Score: 128
Period size: 22 Copynumber: 4.1 Consensus size: 22
51458164 TATGCAGTAT
*
51458174 TAAACAGAGATCACTAAA-GTGC
1 TAAACAGAGAGCAC-AAATGTGC
*
51458196 TATACAGAGAGCACAAATGTGC
1 TAAACAGAGAGCACAAATGTGC
*
51458218 TAAAAAGAGAGCACAAATGTGC
1 TAAACAGAGAGCACAAATGTGC
*
51458240 TAAACAGAGAGCACTAATGTGC
1 TAAACAGAGAGCACAAATGTGC
51458262 TA
1 TA
51458264 GTAAATGGAG
Statistics
Matches: 61, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
21 3 0.05
22 58 0.95
ACGTcount: A:0.44, C:0.17, G:0.21, T:0.18
Consensus pattern (22 bp):
TAAACAGAGAGCACAAATGTGC
Found at i:51458247 original size:44 final size:44
Alignment explanation
Indices: 51458174--51458289 Score: 135
Period size: 44 Copynumber: 2.6 Consensus size: 44
51458164 TATGCAGTAT
* * *
51458174 TAAACAGAGATCACTAAAGTGCTATACAGAGAGCACAAATGTGC
1 TAAAAAGAGAGCACTAAAGTGCTAAACAGAGAGCACAAATGTGC
*
51458218 TAAAAAGAGAGCAC-AAATGTGCTAAACAGAGAGCACTAATGTGC
1 TAAAAAGAGAGCACTAAA-GTGCTAAACAGAGAGCACAAATGTGC
* *
51458262 TAGTAAATGGAGAGCACTAACGTGCTAA
1 TA--AAA-AGAGAGCACTAAAGTGCTAA
51458290 TTATCAAAGA
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
43 3 0.05
44 38 0.62
46 3 0.05
47 15 0.25
48 2 0.03
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.18
Consensus pattern (44 bp):
TAAAAAGAGAGCACTAAAGTGCTAAACAGAGAGCACAAATGTGC
Found at i:51465912 original size:30 final size:30
Alignment explanation
Indices: 51465877--51465933 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
51465867 GGACAAGCTC
51465877 GTGTGGTCAGGCTGTGTACTACACACGTCT
1 GTGTGGTCAGGCTGTGTACTACACACGTCT
51465907 GTGTGGTCAGGCTGTGTACTACACACG
1 GTGTGGTCAGGCTGTGTACTACACACG
51465934 CCCGTGTCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.18, C:0.23, G:0.32, T:0.28
Consensus pattern (30 bp):
GTGTGGTCAGGCTGTGTACTACACACGTCT
Found at i:51476613 original size:13 final size:13
Alignment explanation
Indices: 51476595--51476620 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
51476585 AGGGATTTGT
51476595 TTATCTAAACTAA
1 TTATCTAAACTAA
51476608 TTATCTAAACTAA
1 TTATCTAAACTAA
51476621 GGGTGCACGG
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:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:51479075 original size:40 final size:39
Alignment explanation
Indices: 51478977--51479199 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
51478967 TCCTCGTTCA
* * * *
51478977 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
51479016 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
51479055 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA-C
* * * *
51479096 AAGGCCTTCGGGGCTTAACCTGGAATTT-GTATCTCGCAC
1 AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
51479135 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
51479176 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
51479200 CAGCATTCAA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 41 0.27
40 100 0.65
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:51479208 original size:41 final size:41
Alignment explanation
Indices: 51479131--51479208 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
51479121 TTTGTATCTC
* * *
51479131 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
51479172 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
51479209 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:51482022 original size:6 final size:6
Alignment explanation
Indices: 51481996--51482165 Score: 96
Period size: 6 Copynumber: 27.7 Consensus size: 6
51481986 TACCAGATGG
* * * * *
51481996 GAATTA GAATCA AAATGA GAATTA GAATCA GAATCA GAATCA G-GTGACA
1 GAATCA GAATCA GAATCA GAATCA GAATCA GAATCA GAATCA GAAT--CA
* * * * *
51482045 GAATCA GAATCA GAAACA GAATTA GAATTA G-GTGACA GAATTA GAATCA
1 GAATCA GAATCA GAATCA GAATCA GAATCA GAAT--CA GAATCA GAATCA
* * * * *
51482094 GAAACA GAATCA GAATTA G-GTGACA GAATTA GAATCA GAATCA GTATCA
1 GAATCA GAATCA GAATCA GAAT--CA GAATCA GAATCA GAATCA GAATCA
*
51482143 GGTAA-CA GAATCA AAATCA GAAT
1 -G-AATCA GAATCA GAATCA GAAT
51482166 ATGAATGCAA
Statistics
Matches: 124, Mismatches: 28, Indels: 24
0.70 0.16 0.14
Matches are distributed among these distances:
5 5 0.04
6 105 0.85
7 10 0.08
8 4 0.03
ACGTcount: A:0.49, C:0.11, G:0.20, T:0.20
Consensus pattern (6 bp):
GAATCA
Found at i:51482048 original size:19 final size:19
Alignment explanation
Indices: 51482024--51482131 Score: 121
Period size: 19 Copynumber: 5.8 Consensus size: 19
51482014 GAATTAGAAT
51482024 CAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGGTGA
**
51482043 CAGAATCAGAATCA-GAAA
1 CAGAATCAGAATCAGGTGA
* *
51482061 CAGAATTAGAATTAGGTGA
1 CAGAATCAGAATCAGGTGA
* **
51482080 CAGAATTAGAATCA-GAAA
1 CAGAATCAGAATCAGGTGA
*
51482098 CAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGGTGA
*
51482117 CAGAATTAGAATCAG
1 CAGAATCAGAATCAG
51482132 AATCAGTATC
Statistics
Matches: 72, Mismatches: 15, Indels: 4
0.79 0.16 0.04
Matches are distributed among these distances:
18 28 0.39
19 44 0.61
ACGTcount: A:0.47, C:0.12, G:0.22, T:0.19
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTGA
Found at i:51482054 original size:31 final size:31
Alignment explanation
Indices: 51482013--51482165 Score: 117
Period size: 31 Copynumber: 4.5 Consensus size: 31
51482003 AATCAAAATG
*
51482013 AGAATTAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTGAC
* *
51482044 AGAATCAGAATCAGAAACAGAATTAGAATTAGGTGAC
1 AGAATCAGAAT------CAGAATCAGAATCAGGTGAC
* *
51482081 AGAATTAGAATCAGAAACAGAATCAGAATTAGGTGAC
1 ------AGAATCAGAATCAGAATCAGAATCAGGTGAC
* * *
51482118 AGAATTAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTGAC
*
51482149 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
51482166 ATGAATGCAA
Statistics
Matches: 98, Mismatches: 12, Indels: 24
0.73 0.09 0.18
Matches are distributed among these distances:
31 51 0.52
37 37 0.38
43 10 0.10
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:51482065 original size:37 final size:37
Alignment explanation
Indices: 51482013--51482143 Score: 199
Period size: 37 Copynumber: 3.5 Consensus size: 37
51482003 AATCAAAATG
* * * *
51482013 AGAATTAGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAAACAGAATCAGAATTAGGTGACAGAATT
*
51482050 AGAATCAGAAACAGAATTAGAATTAGGTGACAGAATT
1 AGAATCAGAAACAGAATCAGAATTAGGTGACAGAATT
51482087 AGAATCAGAAACAGAATCAGAATTAGGTGACAGAATT
1 AGAATCAGAAACAGAATCAGAATTAGGTGACAGAATT
* *
51482124 AGAATCAGAATCAGTATCAG
1 AGAATCAGAAACAGAATCAG
51482144 GTAACAGAAT
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 86 1.00
ACGTcount: A:0.47, C:0.11, G:0.21, T:0.20
Consensus pattern (37 bp):
AGAATCAGAAACAGAATCAGAATTAGGTGACAGAATT
Found at i:51482699 original size:27 final size:27
Alignment explanation
Indices: 51482669--51482862 Score: 253
Period size: 27 Copynumber: 7.2 Consensus size: 27
51482659 AACACCCTAG
* *
51482669 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
** * *
51482696 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
51482723 GGGTAAAACAATAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
51482750 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
51482777 GGGTAAAATAGTAATTTTGTAAACCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
51482804 GGGTAAAATAGTAATTTTGTAAATCAA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
51482831 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
51482858 GGGTA
1 GGGTA
51482863 TTTCAGTAAT
Statistics
Matches: 147, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 147 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.29
Consensus pattern (27 bp):
GGGTAAAATAGTAATTTTGTAAATCGA
Found at i:51482738 original size:54 final size:54
Alignment explanation
Indices: 51482669--51482862 Score: 280
Period size: 54 Copynumber: 3.6 Consensus size: 54
51482659 AACACCCTAG
** * *
51482669 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGA
*
51482723 GGGTAAAACAATAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGA
* * * * * *
51482777 GGGTAAAATAGTAATTTTGTAAACCGAGGGTAAAATAGTAATTTTGTAAATCAA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGA
*
51482831 GGGTAAAACAGTAATTCTGTAAATCGAGGGTA
1 GGGTAAAACAGTAATTTTGTAAATCGAGGGTA
51482863 TTTCAGTAAT
Statistics
Matches: 125, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 125 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.29
Consensus pattern (54 bp):
GGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGA
Found at i:51482765 original size:81 final size:81
Alignment explanation
Indices: 51482669--51482862 Score: 280
Period size: 81 Copynumber: 2.4 Consensus size: 81
51482659 AACACCCTAG
* * *
51482669 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAACAA
1 GGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAACCGAGGGTAAAACAA
*
51482734 TAATTTTGTAAATCGA
66 TAATTTTGTAAATCAA
* * * * *
51482750 GGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTAAACCGAGGGTAAAATAG
1 GGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAACCGAGGGTAAAACAA
51482815 TAATTTTGTAAATCAA
66 TAATTTTGTAAATCAA
** *
51482831 GGGTAAAACAGTAATTCTGTAAATCGAGGGTA
1 GGGTAAAATGGTAATTCTATAAATCGAGGGTA
51482863 TTTCAGTAAT
Statistics
Matches: 101, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 101 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.29
Consensus pattern (81 bp):
GGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAACCGAGGGTAAAACAA
TAATTTTGTAAATCAA
Found at i:51484877 original size:6 final size:6
Alignment explanation
Indices: 51484856--51484983 Score: 55
Period size: 6 Copynumber: 20.8 Consensus size: 6
51484846 TACCAGAACT
* * * * *
51484856 AGAATC AAAATG AGAATC AGAATC AAAATC AAAATC A-AGTGAC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC
* * * * * * *
51484905 AGAATC AAAAAC AAAATC AGAATT AG-GTGAC AGAATT AGAATC AGAATT
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
* *
51484954 AGTATC ACGTAAT- AGAATC AAAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
51484984 ATGAATGCAA
Statistics
Matches: 90, Mismatches: 23, Indels: 18
0.69 0.18 0.14
Matches are distributed among these distances:
5 6 0.07
6 73 0.81
7 6 0.07
8 5 0.06
ACGTcount: A:0.53, C:0.12, G:0.15, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:51484910 original size:19 final size:19
Alignment explanation
Indices: 51484882--51484948 Score: 64
Period size: 19 Copynumber: 3.6 Consensus size: 19
51484872 TCAGAATCAA
*
51484882 AATCAAAATCAAGTGACAG
1 AATCAGAATCAAGTGACAG
** *
51484901 AATCAGAATCAA-AAACAA
1 AATCAGAATCAAGTGACAG
* *
51484919 AATCAGAATTAGGTGACAG
1 AATCAGAATCAAGTGACAG
*
51484938 AATTAGAATCA
1 AATCAGAATCA
51484949 GAATTAGTAT
Statistics
Matches: 36, Mismatches: 11, Indels: 2
0.73 0.22 0.04
Matches are distributed among these distances:
18 13 0.36
19 23 0.64
ACGTcount: A:0.54, C:0.13, G:0.15, T:0.18
Consensus pattern (19 bp):
AATCAGAATCAAGTGACAG
Found at i:51484920 original size:37 final size:37
Alignment explanation
Indices: 51484868--51484948 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
51484858 AATCAAAATG
* *
51484868 AGAATCAGAATCAAAATCAAAATCAAGTGACAGAATC
1 AGAATCAAAAACAAAATCAAAATCAAGTGACAGAATC
* * * *
51484905 AGAATCAAAAACAAAATCAGAATTAGGTGACAGAATT
1 AGAATCAAAAACAAAATCAAAATCAAGTGACAGAATC
51484942 AGAATCA
1 AGAATCA
51484949 GAATTAGTAT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.54, C:0.14, G:0.15, T:0.17
Consensus pattern (37 bp):
AGAATCAAAAACAAAATCAAAATCAAGTGACAGAATC
Found at i:51485150 original size:27 final size:28
Alignment explanation
Indices: 51485120--51485181 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 28
51485110 GTAACGAAGT
*
51485120 CACCAGATACAGATAT-TGTGGCTAGGC
1 CACCAGATACAGATATATGTGGCGAGGC
*
51485147 CACCAGA-ACAGATATATGTTGCGAGGC
1 CACCAGATACAGATATATGTGGCGAGGC
*
51485174 TACCAGAT
1 CACCAGAT
51485182 TGCAGCGAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 8 0.27
27 22 0.73
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.21
Consensus pattern (28 bp):
CACCAGATACAGATATATGTGGCGAGGC
Found at i:51485446 original size:27 final size:27
Alignment explanation
Indices: 51485416--51485609 Score: 226
Period size: 27 Copynumber: 7.2 Consensus size: 27
51485406 AACACCCTAT
* *
51485416 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATAGTAATTCTATAAATCGA
*
51485443 GGGTAAAACAGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTCTATAAATCGA
* * *
51485470 GGGTAAAATAATAATTCTGTAAATAGA
1 GGGTAAAATAGTAATTCTATAAATCGA
*
51485497 GGGTAAAATGGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTCTATAAATCGA
* * *
51485524 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTCTATAAATCGA
* * **
51485551 GGGTAAAATAGTAATTTTGTAAATAAA
1 GGGTAAAATAGTAATTCTATAAATCGA
* * * *
51485578 GGGTAAAACAATAATTCTGTAAATCAA
1 GGGTAAAATAGTAATTCTATAAATCGA
51485605 GGGTA
1 GGGTA
51485610 TTTCAGTAAT
Statistics
Matches: 145, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 145 1.00
ACGTcount: A:0.44, C:0.06, G:0.21, T:0.29
Consensus pattern (27 bp):
GGGTAAAATAGTAATTCTATAAATCGA
Found at i:51485485 original size:54 final size:54
Alignment explanation
Indices: 51485435--51485609 Score: 251
Period size: 54 Copynumber: 3.2 Consensus size: 54
51485425 GGTAATTTTA
* *
51485435 TAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATAATAATTCTG
1 TAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAATAATTCTG
* * * *
51485489 TAAATAGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTG
1 TAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAATAATTCTG
* * **
51485543 TAAATCGAGGGTAAAATAGTAATTTTGTAAATAAAGGGTAAAACAATAATTCTG
1 TAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAATAATTCTG
*
51485597 TAAATCAAGGGTA
1 TAAATCGAGGGTA
51485610 TTTCAGTAAT
Statistics
Matches: 106, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 106 1.00
ACGTcount: A:0.45, C:0.07, G:0.20, T:0.29
Consensus pattern (54 bp):
TAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACAATAATTCTG
Found at i:51485551 original size:81 final size:81
Alignment explanation
Indices: 51485416--51485628 Score: 291
Period size: 81 Copynumber: 2.6 Consensus size: 81
51485406 AACACCCTAT
* * *
51485416 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATAA
1 GGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATAA
*
51485481 TAATTCTGTAAATAGA
66 TAATTCTGTAAATAAA
*
51485497 GGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATAG
1 GGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATAA
*
51485562 TAATTTTGTAAATAAA
66 TAATTCTGTAAATAAA
*** * * *** *
51485578 GGGTAAAACAATAATTCTGTAAATCAAGGGTATTTCAGTAATTTGGTAAAT
1 GGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAAT
51485629 TAAAGTATTC
Statistics
Matches: 117, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 117 1.00
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.31
Consensus pattern (81 bp):
GGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAATAA
TAATTCTGTAAATAAA
Found at i:51485627 original size:54 final size:55
Alignment explanation
Indices: 51485435--51485633 Score: 169
Period size: 54 Copynumber: 3.7 Consensus size: 55
51485425 GGTAATTTTA
* * * ** *
51485435 TAAATCGAGGGTAAAACAGTAATTCT-ATAAA-TCGAGGGTAAAATAATAATTCTG
1 TAAATCAAGGGTAAAATAGTAATT-TGGTAAATTAAAGGGTAAAACAATAATTCTG
* * ** * *
51485489 TAAAT-AGAGGGTAAAATGGTAATTCT-ATAAA-TCGAGGGTAAAACAGTAATTTTG
1 TAAATCA-AGGGTAAAATAGTAATT-TGGTAAATTAAAGGGTAAAACAATAATTCTG
* *
51485543 TAAATCGAGGGTAAAATAGTAATTTTGTAAA-TAAAGGGTAAAACAATAATTCTG
1 TAAATCAAGGGTAAAATAGTAATTTGGTAAATTAAAGGGTAAAACAATAATTCTG
**
51485597 TAAATCAAGGGT-ATTTCAGTAATTTGGTAAATTAAAG
1 TAAATCAAGGGTAAAAT-AGTAATTTGGTAAATTAAAG
51485634 TATTCTAAAC
Statistics
Matches: 123, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
53 3 0.02
54 115 0.93
55 5 0.04
ACGTcount: A:0.44, C:0.07, G:0.20, T:0.30
Consensus pattern (55 bp):
TAAATCAAGGGTAAAATAGTAATTTGGTAAATTAAAGGGTAAAACAATAATTCTG
Found at i:51486722 original size:15 final size:17
Alignment explanation
Indices: 51486692--51486723 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
51486682 TTGATACTTG
51486692 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
51486709 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
51486724 AATTATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:51489025 original size:32 final size:32
Alignment explanation
Indices: 51488989--51489056 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
51488979 AATTGCGCCT
* * *
51488989 AGCCCATCTCAGAATCAATATCAGTTTGGCCA
1 AGCCCATATCAGAACCAATATCAGTTGGGCCA
* *
51489021 AGCCCATATCAGAACCAGTATCAGTTGGGCCT
1 AGCCCATATCAGAACCAATATCAGTTGGGCCA
51489053 AGCC
1 AGCC
51489057 TATTTCAATA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (32 bp):
AGCCCATATCAGAACCAATATCAGTTGGGCCA
Found at i:51489313 original size:16 final size:16
Alignment explanation
Indices: 51489289--51489319 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51489279 CCAATCCCAA
*
51489289 GCAGTATGTCATGTAT
1 GCAGAATGTCATGTAT
51489305 GCAGAATGTCATGTA
1 GCAGAATGTCATGTA
51489320 CAAAATCAAT
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:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (16 bp):
GCAGAATGTCATGTAT
Found at i:51496174 original size:48 final size:48
Alignment explanation
Indices: 51496103--51496561 Score: 491
Period size: 48 Copynumber: 9.6 Consensus size: 48
51496093 GATATTTGGG
* * *
51496103 TGATATGTGTGCTAGTGAAAGACCATGTCTGGGATATGGCATCGGCAT
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
* *
51496151 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCTGCCA-
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCAT
* * *
51496199 TGATAT-TAGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCAA
1 TGATATGT-GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
* * * * *
51496247 TG-TAGTGCGAGCCAGTGCAAGACCATGTTTGGGACATGGCATCGACAT
1 TGATA-TGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
* *
51496295 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACAT
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
* * *
51496343 TGATATGTGCGCTAGTGTAAGACCATGTCTGGGACATGGCATCGCCACC
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-T
* * * *
51496392 T--TATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGTCACC
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CA-T
* * * * *
51496440 T--TATGAGAGCCAGTGTAAGACCATGTCTTGGACATGGCATCAGCGT
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
* * * * * *
51496486 TGAGACGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCT
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
* * *
51496534 CGAGATGTGAGCCAGTGTAAGACCATGT
1 TGATATGTGAGCTAGTGTAAGACCATGT
51496562 TTAGAACTTG
Statistics
Matches: 362, Mismatches: 39, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
46 1 0.00
47 44 0.12
48 311 0.86
49 6 0.02
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (48 bp):
TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT
Found at i:51500083 original size:37 final size:37
Alignment explanation
Indices: 51500033--51500111 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
51500023 TTATTACGAA
* * *
51500033 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
51500070 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
51500107 GTCTT
1 GTCTT
51500112 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:51500308 original size:47 final size:47
Alignment explanation
Indices: 51500230--51500640 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
51500220 CCCTTCGGGA
* * * * * *
51500230 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
51500277 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51500324 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51500371 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51500418 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51500465 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51500512 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51500559 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
51500606 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
51500641 AGAATCCTAA
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:51516629 original size:25 final size:28
Alignment explanation
Indices: 51516577--51516630 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 28
51516567 TTATCTCTAT
* *
51516577 TATGTGTTGAATGATCGATTTTGCATAA
1 TATGTGTTGAATGATCGATTATGAATAA
51516605 TATG-GTTGAATG-T-GATTATGAATAA
1 TATGTGTTGAATGATCGATTATGAATAA
51516630 T
1 T
51516631 GCATGATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 11 0.46
26 1 0.04
27 8 0.33
28 4 0.17
ACGTcount: A:0.31, C:0.04, G:0.22, T:0.43
Consensus pattern (28 bp):
TATGTGTTGAATGATCGATTATGAATAA
Found at i:51516777 original size:48 final size:46
Alignment explanation
Indices: 51516719--51517035 Score: 280
Period size: 48 Copynumber: 6.6 Consensus size: 46
51516709 TATGTGTGCT
51516719 AGTGTAAGACCATGCTTGGAACATGGCATCGACCATGATATGAGAGCC
1 AGTGTAAGACCATG-TTGGAACATGGCATCG-CCATGATATGAGAGCC
*
51516767 AGTGTAAGACCATGTTTGGAACATGGCATCGGCAATG-TAGTGAGAGCC
1 AGTGTAAGACCATG-TTGGAACATGGCATC-GCCATGATA-TGAGAGCC
* * * * * *
51516815 AGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGATATGTGCGCT
1 AGTGTAAGACCATGT-TGGAACATGGCATCGCCA-TGATATGAGAGCC
* * ***
51516863 AGTGTAAGACCATGTCTGGTACATGGCATAGACCACCTTATGAGAGCC
1 AGTGTAAGACCATGT-TGGAACATGGCATCG-CCATGATATGAGAGCC
* * * * * *
51516911 AGTGTAAGACCACGTCTGGGACATGGCATCGGCATTGAGACGAG-GCT
1 AGTGTAAGACCATGT-TGGAACATGGCATCGCCA-TGATATGAGAGCC
* * * *
51516958 AGTGTAAGACCATGTTTGAGACATGGCATCGGCC-TCGACATGTGAGCT
1 AGTGTAAGACCATGTTGGA-ACATGGCATC-GCCAT-GATATGAGAGCC
51517006 AGTGTAAGACCATGTTTGGAACATGGCATC
1 AGTGTAAGACCATG-TTGGAACATGGCATC
51517036 AGCAATTAAC
Statistics
Matches: 221, Mismatches: 36, Indels: 24
0.79 0.13 0.09
Matches are distributed among these distances:
46 3 0.01
47 38 0.17
48 171 0.77
49 9 0.04
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCATGTTGGAACATGGCATCGCCATGATATGAGAGCC
Found at i:51516854 original size:96 final size:94
Alignment explanation
Indices: 51516719--51517035 Score: 347
Period size: 96 Copynumber: 3.3 Consensus size: 94
51516709 TATGTGTGCT
* *
51516719 AGTGTAAGACCATG-CTTGGAACATGGCATCGACCA-TGATATGAGAGCCAGTGTAAGACCATGT
1 AGTGTAAGACCATGTC-TGGAACATGGCATCG-GCATTGATATGAG-GCTAGTGTAAGACCATGT
*
51516782 TTGGAACATGGCATCGGCAATGTAGTGAGAGCC
63 TTGGAACATGGCATCGGCACTGTA-TGAGAGCC
* * * *
51516815 AGTGTAAGACCATGTCTGGGACATGGCATTGGCATTGATATGTGCGCTAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGATATGAG-GCTAGTGTAAGACCATGTTT
* * *
51516880 GGTACATGGCATAGACCACCT-TATGAGAGCC
65 GGAACATGGCATCG-GCA-CTGTATGAGAGCC
* * * *
51516911 AGTGTAAGACCACGTCTGGGACATGGCATCGGCATTGAGACGAGGCTAGTGTAAGACCATGTTT-
1 AGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGATATGAGGCTAGTGTAAGACCATGTTTG
* * *
51516975 GAGACATGGCATCGGC-CTCGACATGTGAGCT
66 GA-ACATGGCATCGGCACT-G-TATGAGAGCC
*
51517006 AGTGTAAGACCATGTTTGGAACATGGCATC
1 AGTGTAAGACCATGTCTGGAACATGGCATC
51517036 AGCAATTAAC
Statistics
Matches: 187, Mismatches: 26, Indels: 17
0.81 0.11 0.07
Matches are distributed among these distances:
92 2 0.01
94 2 0.01
95 65 0.35
96 112 0.60
97 5 0.03
98 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (94 bp):
AGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGATATGAGGCTAGTGTAAGACCATGTTTG
GAACATGGCATCGGCACTGTATGAGAGCC
Found at i:51523622 original size:30 final size:30
Alignment explanation
Indices: 51523555--51523623 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
51523545 CTGTGTACTA
* *
51523555 GGCCGTGTCCTCCATATGATTGGGACACAC
1 GGCCGTGTCCTCCACACGATTGGGACACAC
* * * *
51523585 GGTCGTGTCCTCCACACGATTGGTATACAT
1 GGCCGTGTCCTCCACACGATTGGGACACAC
51523615 GGCCGTGTC
1 GGCCGTGTC
51523624 TCTGCCCGTG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.17, C:0.29, G:0.28, T:0.26
Consensus pattern (30 bp):
GGCCGTGTCCTCCACACGATTGGGACACAC
Done.