Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 124 of 173
Found at i:37985248 original size:16 final size:15
Alignment explanation
Indices: 37985227--37985256 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
37985217 GTGAGTTGGA
37985227 TATATATATGTATAAT
1 TATATATA-GTATAAT
37985243 TATATATAGTATAA
1 TATATATAGTATAA
37985257 ATGTGAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (15 bp):
TATATATAGTATAAT
Found at i:37987253 original size:24 final size:24
Alignment explanation
Indices: 37987225--37987274 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
37987215 ATGAAGCTTG
37987225 AAATTATGTTAAACAACTTTTGCT
1 AAATTATGTTAAACAACTTTTGCT
37987249 AAATTATGTTAAACAACTTTTGCT
1 AAATTATGTTAAACAACTTTTGCT
37987273 AA
1 AA
37987275 GCGATTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.12, G:0.08, T:0.40
Consensus pattern (24 bp):
AAATTATGTTAAACAACTTTTGCT
Found at i:37987284 original size:24 final size:24
Alignment explanation
Indices: 37987230--37987284 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
37987220 GCTTGAAATT
**
37987230 ATGTTAAACAACTTTTGCTAAATT
1 ATGTTAAACAACTTTTGCTAAACG
*
37987254 ATGTTAAACAACTTTTGCTAAGCG
1 ATGTTAAACAACTTTTGCTAAACG
*
37987278 ATTTTAA
1 ATGTTAA
37987285 GTGAAAACGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (24 bp):
ATGTTAAACAACTTTTGCTAAACG
Found at i:37987938 original size:50 final size:50
Alignment explanation
Indices: 37987830--37988126 Score: 299
Period size: 50 Copynumber: 5.8 Consensus size: 50
37987820 ATTTGGATAA
* * *
37987830 AGAGATCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
*
37987886 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
37987936 AGAGGTCCCATGTAAGACCATGTCTGGGACATAGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * *
37987986 AGAGGTCCCCCGTAAGACCATATCTGGGACATGGCATGGGCACCGATATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * *** * *
37988036 AGAACTCCCATGTAAGACCATATCTGGGATATGACATTGG-AAATACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* ** * *
37988085 AAACATCCCATGTAAGACCATGTCTGGGATATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
37988127 TGTTATTATC
Statistics
Matches: 208, Mismatches: 32, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
49 37 0.18
50 128 0.62
53 3 0.01
55 1 0.00
56 39 0.19
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:37991312 original size:57 final size:58
Alignment explanation
Indices: 37991213--37991338 Score: 166
Period size: 57 Copynumber: 2.2 Consensus size: 58
37991203 AAGGCATCGC
* *
37991213 AACACATCCCTTCTAAACACACCAAAGCGCACCTAAGTGCTAAACCCAAAGGCAAGAG
1 AACACATCCCTTCTAAACACACCAAAGAGCACCTAAGTGCTAAACCCAAAGGCAACAG
* *** *
37991271 ATCACATCCCTTC-AAACACACTTGAGAGCACAC-AAGTGCTAAACCCGAAGGCAACAG
1 AACACATCCCTTCTAAACACACCAAAGAGCAC-CTAAGTGCTAAACCCAAAGGCAACAG
37991328 AACACATCCCT
1 AACACATCCCT
37991339 ATTGGCATGC
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
57 46 0.78
58 13 0.22
ACGTcount: A:0.40, C:0.33, G:0.13, T:0.13
Consensus pattern (58 bp):
AACACATCCCTTCTAAACACACCAAAGAGCACCTAAGTGCTAAACCCAAAGGCAACAG
Found at i:37992174 original size:20 final size:20
Alignment explanation
Indices: 37992151--37992195 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
37992141 AAGATGTTCA
37992151 ATAATCCAATAAGAAATTCT
1 ATAATCCAATAAGAAATTCT
***
37992171 ATAATTTTATAAGAAATTCT
1 ATAATCCAATAAGAAATTCT
37992191 ATAAT
1 ATAAT
37992196 TTTTAATAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.38
Consensus pattern (20 bp):
ATAATCCAATAAGAAATTCT
Found at i:37992195 original size:40 final size:40
Alignment explanation
Indices: 37992119--37992195 Score: 91
Period size: 40 Copynumber: 1.9 Consensus size: 40
37992109 TTATAATATG
* * **
37992119 ATAAGAGATTCAATAATGTTGTAAGATGTTCAATAATCCA
1 ATAAGAAATTCAATAATGTTATAAGAAATTCAATAATCCA
* * *
37992159 ATAAGAAATTCTATAATTTTATAAGAAATTCTATAAT
1 ATAAGAAATTCAATAATGTTATAAGAAATTCAATAAT
37992196 TTTTAATAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.36
Consensus pattern (40 bp):
ATAAGAAATTCAATAATGTTATAAGAAATTCAATAATCCA
Found at i:37992196 original size:20 final size:20
Alignment explanation
Indices: 37992159--37992198 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
37992149 CAATAATCCA
37992159 ATAAGAAATTCTATAATTTT
1 ATAAGAAATTCTATAATTTT
37992179 ATAAGAAATTCTATAATTTT
1 ATAAGAAATTCTATAATTTT
37992199 TAATAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (20 bp):
ATAAGAAATTCTATAATTTT
Found at i:37992207 original size:30 final size:30
Alignment explanation
Indices: 37992171--37992227 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
37992161 AAGAAATTCT
*
37992171 ATAATTTTATAA-GAAATTCTATAATTTTTA
1 ATAATTTTA-AAGGAAATTCAATAATTTTTA
*
37992201 ATAATTTTAAAGGAGATTCAATAATTT
1 ATAATTTTAAAGGAAATTCAATAATTT
37992228 ACAAAATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.46
Consensus pattern (30 bp):
ATAATTTTAAAGGAAATTCAATAATTTTTA
Found at i:37993707 original size:11 final size:11
Alignment explanation
Indices: 37993678--37993710 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
37993668 AAAGAAAAAA
*
37993678 TTATAAAATTA
1 TTATAAAATTT
37993689 TT-TAAAATTT
1 TTATAAAATTT
37993699 TTATAAAATTT
1 TTATAAAATTT
37993710 T
1 T
37993711 AACATTTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TTATAAAATTT
Found at i:37993877 original size:19 final size:19
Alignment explanation
Indices: 37993853--37993908 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 19
37993843 GTAGATTATG
37993853 AATTTTTTAATTTTTTAAT
1 AATTTTTTAATTTTTTAAT
** *
37993872 AATTTTCGAA-GTTTTAAT
1 AATTTTTTAATTTTTTAAT
*
37993890 -ATTTTTTGAGTTTTTTAAT
1 AATTTTTT-AATTTTTTAAT
37993909 TTTTTAAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
17 5 0.18
18 8 0.29
19 15 0.54
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (19 bp):
AATTTTTTAATTTTTTAAT
Found at i:37993904 original size:18 final size:18
Alignment explanation
Indices: 37993854--37993913 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 18
37993844 TAGATTATGA
* *
37993854 ATTTTTTAATTTTTTAAT
1 ATTTTTTGAGTTTTTAAT
* *
37993872 AATTTTCGAAG-TTTTAAT
1 ATTTTTTG-AGTTTTTAAT
37993890 ATTTTTTGAGTTTTTTAAT
1 ATTTTTTGAG-TTTTTAAT
37993909 -TTTTT
1 ATTTTT
37993914 AAAAACTTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
17 2 0.06
18 23 0.70
19 8 0.24
ACGTcount: A:0.25, C:0.02, G:0.07, T:0.67
Consensus pattern (18 bp):
ATTTTTTGAGTTTTTAAT
Found at i:37997232 original size:74 final size:74
Alignment explanation
Indices: 37997111--37997260 Score: 300
Period size: 74 Copynumber: 2.0 Consensus size: 74
37997101 CATATGCCTT
37997111 AGCATCATCAACAAATAAACTAGCATCTGACATAAACAGTTCACGACCGCTGCCACCAAGCACAA
1 AGCATCATCAACAAATAAACTAGCATCTGACATAAACAGTTCACGACCGCTGCCACCAAGCACAA
37997176 AGAACAGCA
66 AGAACAGCA
37997185 AGCATCATCAACAAATAAACTAGCATCTGACATAAACAGTTCACGACCGCTGCCACCAAGCACAA
1 AGCATCATCAACAAATAAACTAGCATCTGACATAAACAGTTCACGACCGCTGCCACCAAGCACAA
37997250 AGAACAGCA
66 AGAACAGCA
37997259 AG
1 AG
37997261 TTTAGAAAAT
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 76 1.00
ACGTcount: A:0.43, C:0.29, G:0.14, T:0.13
Consensus pattern (74 bp):
AGCATCATCAACAAATAAACTAGCATCTGACATAAACAGTTCACGACCGCTGCCACCAAGCACAA
AGAACAGCA
Found at i:38001162 original size:40 final size:40
Alignment explanation
Indices: 38001073--38001296 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
38001063 GCTACTCGTT
*
38001073 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAA-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
38001112 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
38001152 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
38001192 CAAATGCCTTC-GGATCTTAGTCCGGA-TTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
38001231 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
38001272 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38001297 CATCATTCAA
Statistics
Matches: 168, Mismatches: 11, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
39 70 0.42
40 88 0.52
41 10 0.06
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:38001176 original size:79 final size:78
Alignment explanation
Indices: 38001073--38001296 Score: 267
Period size: 79 Copynumber: 2.8 Consensus size: 78
38001063 GCTACTCGTT
* *
38001073 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATCGCACAAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATCGCACAAATGCCTTCGGGACTTAGCCCGGA
38001138 TTTAGTAACTCGCA
66 -TTAGTAACTCGCA
* *
38001152 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAA-TCGCACAAATGCCTTCGGGA-CTTAGCCC
*
38001215 GGATTAGTAACTCGTA
63 GGATTAGTAACTCGCA
* * * * *
38001231 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGT-A-ATCGCACAAATGCCTTCGGGACTTAGCCC
38001294 GGA
63 GGA
38001297 CATCATTCAA
Statistics
Matches: 125, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
78 4 0.03
79 82 0.66
80 39 0.31
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATCGCACAAATGCCTTCGGGACTTAGCCCGGA
TTAGTAACTCGCA
Found at i:38009129 original size:39 final size:40
Alignment explanation
Indices: 38009055--38009277 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
38009045 GCTACTCGTT
*
38009055 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
38009095 CAAATGCCTTC-GGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
38009134 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
38009174 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGT-ACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
38009212 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
38009253 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38009278 CATCATTCAA
Statistics
Matches: 166, Mismatches: 10, Indels: 14
0.87 0.05 0.07
Matches are distributed among these distances:
37 2 0.01
38 18 0.11
39 62 0.37
40 73 0.44
41 11 0.07
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:38009158 original size:79 final size:78
Alignment explanation
Indices: 38009055--38009277 Score: 290
Period size: 79 Copynumber: 2.8 Consensus size: 78
38009045 GCTACTCGTT
* *
38009055 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGA
*
38009120 TTTAGTAACTCGCA
66 ATTAGT-ACTCGCA
* *
38009134 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGG
38009198 AATTAGTACTCGCA
65 AATTAGTACTCGCA
* * * * *
38009212 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCACAAATGCCTTC-GGACTTAGCCC
38009275 GGA
63 GGA
38009278 CATCATTCAA
Statistics
Matches: 127, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
77 4 0.03
78 37 0.29
79 84 0.66
80 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGACTTAGCCCGGA
ATTAGTACTCGCA
Found at i:38013122 original size:21 final size:21
Alignment explanation
Indices: 38013097--38013144 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
38013087 CTAAACATGG
*
38013097 CCGTGTGGCTA-TCTCACACAC
1 CCGTGTGACTACTC-CACACAC
38013118 CCGTGTGACTACTCCACACAC
1 CCGTGTGACTACTCCACACAC
38013139 CCGTGT
1 CCGTGT
38013145 ATCCAACCGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.19, C:0.40, G:0.19, T:0.23
Consensus pattern (21 bp):
CCGTGTGACTACTCCACACAC
Found at i:38013158 original size:147 final size:147
Alignment explanation
Indices: 38012903--38013191 Score: 488
Period size: 147 Copynumber: 2.0 Consensus size: 147
38012893 ACACGCCGTC
* *
38012903 TGTCCAGAACGTTTGATAGAGCCCAGACCGTATGGCTCCAAACATGGCTGTGTGGTTATCCCACA
1 TGTCCAGAACGTTTGATAGAGCCCAGACCGTATGGCTCCAAACATGGCCGTGTGGCTATCCCACA
* * * *
38012968 CGCCTGTGTGACTACTCCACACACCCATGTGTCCAACCGTGTGCTTACCTGTGTAACTCACTGAC
66 CACCCGTGTGACTACTCCACACACCCATGTATCCAACCGTGTGCTTACCCGTGTAACTCACTGAC
38013033 TTGGCTCACACGTCATG
131 TTGGCTCACACGTCATG
* * *
38013050 TGTCCAGAACGTTTGATAGAGCCCAGACTGTATGGCTCTAAACATGGCCGTGTGGCTATCTCACA
1 TGTCCAGAACGTTTGATAGAGCCCAGACCGTATGGCTCCAAACATGGCCGTGTGGCTATCCCACA
*
38013115 CACCCGTGTGACTACTCCACACACCCGTGTATCCAACCGTGTGCTTACCCGTGTAACTCACTGAC
66 CACCCGTGTGACTACTCCACACACCCATGTATCCAACCGTGTGCTTACCCGTGTAACTCACTGAC
38013180 TTGGCTCACACG
131 TTGGCTCACACG
38013192 CCCGTGTCTT
Statistics
Matches: 132, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
147 132 1.00
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.25
Consensus pattern (147 bp):
TGTCCAGAACGTTTGATAGAGCCCAGACCGTATGGCTCCAAACATGGCCGTGTGGCTATCCCACA
CACCCGTGTGACTACTCCACACACCCATGTATCCAACCGTGTGCTTACCCGTGTAACTCACTGAC
TTGGCTCACACGTCATG
Found at i:38017986 original size:90 final size:89
Alignment explanation
Indices: 38017827--38018078 Score: 233
Period size: 90 Copynumber: 2.8 Consensus size: 89
38017817 ATAAGCTCAT
* * * * * * *
38017827 TGCTCTTAATAAGTTCATAGCCCAGATTTTGGGTGGTCTTGCT-AGGACGGACTTGATGAATTCA
1 TGCTCTTAATGAGTTCATAACCCAG-GTTTGGGTGGTCCTACTGA-GACGAACTTGATGAACTCA
* *
38017891 CCGAATTTATAAGATGAAG-TACTAGA
64 CCGAATTTATAAGAT-AAGCCACTAAA
*
38017917 TGCTCTTAATGAGTTCATAACCCATGGTTTGGGTGGTCCTATTGAGACGAACTTGATGAAC-CTA
1 TGCTCTTAATGAGTTCATAACCCA-GGTTTGGGTGGTCCTACTGAGACGAACTTGATGAACTC-A
* * *
38017981 TCGAATTTATAGGGTAAGCCACTAAA
64 CCGAATTTATAAGATAAGCCACTAAA
* * * * * *
38018007 TGTTCTTAATGAATTCATATCCCAGGCTTTAGGTGGTCCTAGTGAGAC-AGACTTGATGAATTCA
1 TGCTCTTAATGAGTTCATAACCCAGG-TTTGGGTGGTCCTACTGAGACGA-ACTTGATGAACTCA
*
38018071 CTGAATTT
64 CCGAATTT
38018079 TTAAACTGAG
Statistics
Matches: 134, Mismatches: 21, Indels: 14
0.79 0.12 0.08
Matches are distributed among these distances:
89 7 0.05
90 124 0.93
91 3 0.02
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (89 bp):
TGCTCTTAATGAGTTCATAACCCAGGTTTGGGTGGTCCTACTGAGACGAACTTGATGAACTCACC
GAATTTATAAGATAAGCCACTAAA
Found at i:38018958 original size:45 final size:46
Alignment explanation
Indices: 38018907--38019012 Score: 112
Period size: 44 Copynumber: 2.4 Consensus size: 46
38018897 TTTTTAAGTA
*
38018907 TGTATTAATTAGGGTTATAAG-GTTTGTTAAATTATGGTTAATGATT
1 TGTATTAATTAGGGTTATAAGTGTTTGTT-AATTAGGGTTAATGATT
* * * * *
38018953 T-TATT-ATTATGGTCATTAGTGTTTGTTAATTAGGGTTTATGGTT
1 TGTATTAATTAGGGTTATAAGTGTTTGTTAATTAGGGTTAATGATT
*
38018997 TGT-TAAATTAGGGTTA
1 TGTATTAATTAGGGTTA
38019013 ATGATTTTAT
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
44 27 0.56
45 20 0.42
46 1 0.02
ACGTcount: A:0.26, C:0.01, G:0.23, T:0.50
Consensus pattern (46 bp):
TGTATTAATTAGGGTTATAAGTGTTTGTTAATTAGGGTTAATGATT
Found at i:38018997 original size:21 final size:21
Alignment explanation
Indices: 38018911--38019011 Score: 71
Period size: 23 Copynumber: 4.6 Consensus size: 21
38018901 TAAGTATGTA
*
38018911 TTAATTAGGGTTATAAGGTTTG
1 TTAATTAGGGTT-TATGGTTTG
* * *
38018933 TTAAATTATGGTTAATGATTT-
1 TT-AATTAGGGTTTATGGTTTG
* *
38018954 TATTATTATGGTCATTA-GTGTTTG
1 T-TAATTAGGGT--TTATG-GTTTG
38018978 TTAATTAGGGTTTATGGTTTG
1 TTAATTAGGGTTTATGGTTTG
38018999 TTAAATTAGGGTT
1 TT-AATTAGGGTT
38019012 AATGATTTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
21 19 0.31
22 20 0.32
23 22 0.35
24 1 0.02
ACGTcount: A:0.26, C:0.01, G:0.23, T:0.50
Consensus pattern (21 bp):
TTAATTAGGGTTTATGGTTTG
Found at i:38019004 original size:66 final size:66
Alignment explanation
Indices: 38018909--38019094 Score: 237
Period size: 66 Copynumber: 2.8 Consensus size: 66
38018899 TTTAAGTATG
* *
38018909 TATTAATTAGGGTTATAAGGTTTGTTAAATTATGGTTAATGATTTTATTATTATGGTCATTAGTG
1 TATTAATTAGGGTT-TAAGGTTTGTTAAATTAAGGTTAATGATTTTATTATTAGGGTCATTAGTG
38018974 TT
65 TT
* * * * **
38018976 TGTTAATTAGGGTTTATGGTTTGTTAAATTAGGGTTAATGATTTTATTATGAGGGTTTTTAGTGT
1 TATTAATTAGGGTTTAAGGTTTGTTAAATTAAGGTTAATGATTTTATTATTAGGGTCATTAGTGT
38019041 T
66 T
* * * * * *
38019042 TATAAATTAAGGTTTAAAGTTTATTAATTTAAGATTAATGATTTTATTATTAG
1 TATTAATTAGGGTTTAAGGTTTGTTAAATTAAGGTTAATGATTTTATTATTAG
38019095 AGTTTTAGGG
Statistics
Matches: 102, Mismatches: 17, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
66 89 0.87
67 13 0.13
ACGTcount: A:0.30, C:0.01, G:0.19, T:0.51
Consensus pattern (66 bp):
TATTAATTAGGGTTTAAGGTTTGTTAAATTAAGGTTAATGATTTTATTATTAGGGTCATTAGTGT
T
Found at i:38019646 original size:36 final size:36
Alignment explanation
Indices: 38019595--38019666 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
38019585 TTTTAGAAGA
*
38019595 ATAGAAGTTCGTAGGGAAGACATAAGTTGGAGCAAT
1 ATAGAAGTTCATAGGGAAGACATAAGTTGGAGCAAT
*
38019631 ATAGAAGTTCATAGGGAAGGCATAAGTTGGAGCAAT
1 ATAGAAGTTCATAGGGAAGACATAAGTTGGAGCAAT
38019667 GGTACTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.39, C:0.08, G:0.31, T:0.22
Consensus pattern (36 bp):
ATAGAAGTTCATAGGGAAGACATAAGTTGGAGCAAT
Found at i:38026040 original size:50 final size:50
Alignment explanation
Indices: 38025937--38026126 Score: 193
Period size: 50 Copynumber: 3.7 Consensus size: 50
38025927 GGGAATGAGA
* *
38025937 TCCCATGTAAGACCATGTCTGGGACATGGAATTGGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCA-C--TGAG---ATGAGAGG
*
38025993 TCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACTGAGATGAGAGG
1 TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACTGAGATGAGAGG
* * * * **
38026043 TCCC-TCGTAAGACCATGTTTGGGACATGACATGGGCACCGATATGAGAAC
1 TCCCAT-GTAAGACCATGTTTGGGACATGGCATTGGCACTGAGATGAGAGG
* * * *
38026093 TCCCATGTAAGACCATATCTGGGATATGACATTG
1 TCCCATGTAAGACCATGTTTGGGACATGGCATTG
38026127 CCGGTACAAG
Statistics
Matches: 118, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
49 1 0.01
50 77 0.65
51 1 0.01
53 4 0.03
55 1 0.01
56 34 0.29
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.25
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTTTGGGACATGGCATTGGCACTGAGATGAGAGG
Found at i:38026336 original size:22 final size:22
Alignment explanation
Indices: 38026310--38026354 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
38026300 TTATAAGAGT
38026310 TAAGAACATATTCTGTTATCAA
1 TAAGAACATATTCTGTTATCAA
38026332 TAAGAACATATTCTGTTATCAA
1 TAAGAACATATTCTGTTATCAA
38026354 T
1 T
38026355 TGAAAACCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (22 bp):
TAAGAACATATTCTGTTATCAA
Found at i:38032388 original size:16 final size:17
Alignment explanation
Indices: 38032364--38032396 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
38032354 CAAAATCTAA
*
38032364 CCATTTTAACC-TAAAT
1 CCATGTTAACCATAAAT
38032380 CCATGTTAACCATAAAT
1 CCATGTTAACCATAAAT
38032397 ACAAGGGACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.24, G:0.03, T:0.33
Consensus pattern (17 bp):
CCATGTTAACCATAAAT
Found at i:38041523 original size:12 final size:12
Alignment explanation
Indices: 38041506--38041537 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
38041496 GCTTAAATTA
38041506 AATTAATTATAG
1 AATTAATTATAG
38041518 AATTAATTATAG
1 AATTAATTATAG
38041530 AATTAATT
1 AATTAATT
38041538 TAATTGGGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (12 bp):
AATTAATTATAG
Found at i:38043333 original size:43 final size:43
Alignment explanation
Indices: 38043285--38043381 Score: 108
Period size: 43 Copynumber: 2.3 Consensus size: 43
38043275 TTGACATCAC
***
38043285 AGTGCATCATCGAATAAACCTAAA-CAAAT-ATATTGGCACACAT
1 AGTGCATCATCGAATAAACC-AAAGC-AATCATACCAGCACACAT
* * *
38043328 AGTGCATAATCGGATAAACCAAAGCAATCATACCAGTACACAT
1 AGTGCATCATCGAATAAACCAAAGCAATCATACCAGCACACAT
38043371 AGTGCATCATC
1 AGTGCATCATC
38043382 AGACAAGTCG
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
42 6 0.13
43 39 0.87
ACGTcount: A:0.42, C:0.23, G:0.13, T:0.22
Consensus pattern (43 bp):
AGTGCATCATCGAATAAACCAAAGCAATCATACCAGCACACAT
Found at i:38043420 original size:42 final size:41
Alignment explanation
Indices: 38043371--38043499 Score: 134
Period size: 42 Copynumber: 3.1 Consensus size: 41
38043361 CAGTACACAT
38043371 AGTGCATCATCAGACAAGTCGAAGCAAATATACTAGCACGTA
1 AGTGCATCATCAGACAA-TCGAAGCAAATATACTAGCACGTA
* * * *
38043413 AGTGCATCATCAGATGAATTGAAGCAAATATACTAGTACATA
1 AGTGCATCATCAGA-CAATCGAAGCAAATATACTAGCACGTA
* * * * *
38043455 AGTGAATCATC-GAATAAACCAAAACAAATATACTAGCACGTA
1 AGTGCATCATCAG-A-CAATCGAAGCAAATATACTAGCACGTA
38043497 AGT
1 AGT
38043500 ACATTATCGG
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
41 1 0.01
42 70 0.96
43 2 0.03
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.22
Consensus pattern (41 bp):
AGTGCATCATCAGACAATCGAAGCAAATATACTAGCACGTA
Found at i:38043514 original size:42 final size:42
Alignment explanation
Indices: 38043289--38043516 Score: 129
Period size: 42 Copynumber: 5.4 Consensus size: 42
38043279 CATCACAGTG
* * * * ** *
38043289 CATCATCGAATAAACCTAAACAAATATATTGGCACACATAGTG
1 CATCATCGGATAAACCAAAACAAATATACTAGCACGTA-AGTA
* * * * *
38043332 CATAATCGGATAAACCAAAGC-AATCATACCAGTACACAT-AGTG
1 CATCATCGGATAAACCAAAACAAAT-ATACTAG--CACGTAAGTA
* * ** * * *
38043375 CATCATCAGACAAGTCGAAGCAAATATACTAGCACGTAAGTG
1 CATCATCGGATAAACCAAAACAAATATACTAGCACGTAAGTA
* * *** * * *
38043417 CATCATCAGATGAATTGAAGCAAATATACTAGTACATAAGTGA
1 CATCATCGGATAAACCAAAACAAATATACTAGCACGTAAGT-A
*
38043460 -ATCATCGAATAAACCAAAACAAATATACTAGCACGTAAGTA
1 CATCATCGGATAAACCAAAACAAATATACTAGCACGTAAGTA
*
38043501 CATTATCGGATAAACC
1 CATCATCGGATAAACC
38043517 GAATATAAAC
Statistics
Matches: 144, Mismatches: 34, Indels: 15
0.75 0.18 0.08
Matches are distributed among these distances:
41 5 0.03
42 86 0.60
43 46 0.32
44 3 0.02
45 4 0.03
ACGTcount: A:0.44, C:0.20, G:0.14, T:0.21
Consensus pattern (42 bp):
CATCATCGGATAAACCAAAACAAATATACTAGCACGTAAGTA
Found at i:38045385 original size:17 final size:17
Alignment explanation
Indices: 38045363--38045395 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
38045353 TAATTTCTCA
38045363 TTATTTATTTCTTTTTG
1 TTATTTATTTCTTTTTG
38045380 TTATTTATTTCTTTTT
1 TTATTTATTTCTTTTT
38045396 ATTCCTCTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.03, T:0.79
Consensus pattern (17 bp):
TTATTTATTTCTTTTTG
Found at i:38048008 original size:19 final size:20
Alignment explanation
Indices: 38047968--38048007 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
38047958 GGGATGATGA
*
38047968 TGATGATTTTAAAATCATTT
1 TGATAATTTTAAAATCATTT
*
38047988 TGATAATTTTAAATTCATTT
1 TGATAATTTTAAAATCATTT
38048008 GCTGACGTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (20 bp):
TGATAATTTTAAAATCATTT
Found at i:38054227 original size:16 final size:16
Alignment explanation
Indices: 38054206--38054238 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
38054196 ACTATAGTGG
*
38054206 AATGAGTTTATGATTA
1 AATGAGTTTATAATTA
38054222 AATGAGTTTATAATTA
1 AATGAGTTTATAATTA
38054238 A
1 A
38054239 TAGTAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (16 bp):
AATGAGTTTATAATTA
Found at i:38056660 original size:18 final size:18
Alignment explanation
Indices: 38056639--38056673 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
38056629 TTAAAAATTC
*
38056639 ATATTTTTTATTTTTAAT
1 ATATTTTTTAATTTTAAT
38056657 ATATTTTTTAATTTTAA
1 ATATTTTTTAATTTTAA
38056674 AATACATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
ATATTTTTTAATTTTAAT
Found at i:38066215 original size:5 final size:5
Alignment explanation
Indices: 38066207--38066237 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
38066197 CAACATTTGG
38066207 TATAT TATAT TATAT TATAT TATAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT TATAT T
38066238 TAAAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:38067935 original size:7 final size:7
Alignment explanation
Indices: 38067923--38067954 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
38067913 AGTCGATTGA
38067923 TATTTAG
1 TATTTAG
38067930 TATTTAG
1 TATTTAG
38067937 TATTTAG
1 TATTTAG
38067944 TATTTAG
1 TATTTAG
38067951 TATT
1 TATT
38067955 ATGTATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:38068632 original size:18 final size:18
Alignment explanation
Indices: 38068606--38068640 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
38068596 AGGTGCGTTT
*
38068606 CCTAGCCCTTATATGTAC
1 CCTAACCCTTATATGTAC
38068624 CCTAACCCTTATATGTA
1 CCTAACCCTTATATGTA
38068641 TCATTTTTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.34
Consensus pattern (18 bp):
CCTAACCCTTATATGTAC
Found at i:38069119 original size:43 final size:45
Alignment explanation
Indices: 38069061--38069146 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 45
38069051 ATATTTTGAA
*
38069061 TATTTTGAAACTATTTTATGTAA-AAAAAAGAAATTT-TTTGAGT
1 TATTTTGAAACTATTTGATGTAATAAAAAAGAAATTTATTTGAGT
* * * *
38069104 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 TATTTTGAAACTATTTGATGTAATAAAAAAGAAATTTATTTGA
38069147 TGTAATAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
43 20 0.56
44 11 0.31
45 5 0.14
ACGTcount: A:0.40, C:0.01, G:0.13, T:0.47
Consensus pattern (45 bp):
TATTTTGAAACTATTTGATGTAATAAAAAAGAAATTTATTTGAGT
Found at i:38069148 original size:25 final size:25
Alignment explanation
Indices: 38069114--38069226 Score: 123
Period size: 25 Copynumber: 4.7 Consensus size: 25
38069104 TATTTTGATA
38069114 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
38069139 TTATTTGATGTAATAAAATAGAAAT
1 TTATTTGATGTAATAAAATAGAAGT
** *
38069164 TT-TTTCGA-GT--T-ATTTTG-A-T
1 TTATTT-GATGTAATAAAATAGAAGT
38069183 ATTATTTGATGTAATAAAATAGAAGT
1 -TTATTTGATGTAATAAAATAGAAGT
38069209 TTATTTGATGTAATAAAA
1 TTATTTGATGTAATAAAA
38069227 ACCCTAACCT
Statistics
Matches: 72, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
19 1 0.01
20 5 0.07
21 8 0.11
22 1 0.01
23 1 0.01
24 8 0.11
25 47 0.65
26 1 0.01
ACGTcount: A:0.41, C:0.01, G:0.14, T:0.44
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:38069180 original size:70 final size:69
Alignment explanation
Indices: 38069072--38069227 Score: 278
Period size: 70 Copynumber: 2.3 Consensus size: 69
38069062 ATTTTGAAAC
*
38069072 TATTTTATGTAA-AAAAAAGAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGA
1 TATTTGATGTAATAAAAAAGAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGA
38069136 AGTT
66 AGTT
*
38069140 TATTTGATGTAATAAAATAGAAATTTTTTCGAGTTATTTTGATATTATTTGATGTAATAAAATAG
1 TATTTGATGTAATAAAAAAGAAATTTTTT-GAGTTATTTTGATATTATTTGATGTAATAAAATAG
38069205 AAGTT
65 AAGTT
38069210 TATTTGATGTAATAAAAA
1 TATTTGATGTAATAAAAA
38069228 CCCTAACCTA
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
68 11 0.13
69 15 0.18
70 57 0.69
ACGTcount: A:0.41, C:0.01, G:0.13, T:0.45
Consensus pattern (69 bp):
TATTTGATGTAATAAAAAAGAAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGA
AGTT
Found at i:38069263 original size:30 final size:30
Alignment explanation
Indices: 38069236--38069318 Score: 150
Period size: 29 Copynumber: 2.8 Consensus size: 30
38069226 AACCCTAACC
38069236 TAATTAAAAACCCTAAACCCTAACCTAATT
1 TAATTAAAAACCCTAAACCCTAACCTAATT
38069266 TAATTAAAAACCCT-AACCCTAACCTAATT
1 TAATTAAAAACCCTAAACCCTAACCTAATT
*
38069295 TAATTAAAAACCCTAAACCTTAAC
1 TAATTAAAAACCCTAAACCCTAAC
38069319 TTTAAAAACC
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
29 29 0.57
30 22 0.43
ACGTcount: A:0.47, C:0.27, G:0.00, T:0.27
Consensus pattern (30 bp):
TAATTAAAAACCCTAAACCCTAACCTAATT
Found at i:38069280 original size:23 final size:23
Alignment explanation
Indices: 38069250--38069659 Score: 206
Period size: 29 Copynumber: 16.5 Consensus size: 23
38069240 TAAAAACCCT
38069250 AAACCCTAACCTAATTTAATTAAAA
1 AAACCCTAACCTAATTTAATT--AA
38069275 ACCCTAACCCTAACCTAATTTAATTAA
1 A----AACCCTAACCTAATTTAATTAA
*
38069302 AAACCCTAAACCTTAA-CT--TTAA
1 AAACCCT-AACC-TAATTTAATTAA
38069324 AAACCCTAACCTAATTTAATTAA
1 AAACCCTAACCTAATTTAATTAA
*
38069347 AAATCCTAAACC----TTAACTTAA
1 AAACCCT-AACCTAATTTAA-TTAA
*
38069368 AAACCCTAAACCTTAA-CT--TTAA
1 AAACCCT-AACC-TAATTTAATTAA
38069390 AAACCCTAACCTAATTTAA-TACA
1 AAACCCTAACCTAATTTAATTA-A
*
38069413 AAACTCTAACCTAATTTAATT-A
1 AAACCCTAACCTAATTTAATTAA
38069435 AAACCCTAAACC----TTAACTTAA
1 AAACCCT-AACCTAATTTAA-TTAA
38069456 AAACCCTAACCTAATTTAA-TACA
1 AAACCCTAACCTAATTTAATTA-A
**
38069479 AAACCCTAACCTAAACCCTAATTAA
1 AAACCCTAACCT-AA-TTTAATTAA
38069504 AAACCCTAACCCTAACCTAAATTAATTAA
1 AAACCCTAA-CCTAA--T---TTAATTAA
*
38069533 AAACCTTAACCCTAACATAAATTAATTAAAA
1 AAACCCTAA-CCT-A-AT---TTAATT--AA
38069564 ACCCTAACCCTAACCTAATTTAATTAAA
1 A----AACCCTAACCTAATTTAATT-AA
38069592 AATCCTACCCCTAACCTAATTTAATTAA
1 AA----A-CCCTAACCTAATTTAATTAA
38069620 AAACCCTAACCCTAACCTAAATTAATTAA
1 AAACCCTAA-CCTAA--T---TTAATTAA
38069649 AAACCCTAACC
1 AAACCCTAACC
38069660 CTAACCCTAA
Statistics
Matches: 316, Mismatches: 14, Indels: 107
0.72 0.03 0.24
Matches are distributed among these distances:
19 4 0.01
20 16 0.05
21 33 0.10
22 33 0.10
23 58 0.18
24 23 0.07
25 20 0.06
26 7 0.02
27 3 0.01
28 11 0.03
29 90 0.28
30 1 0.00
31 4 0.01
32 2 0.01
33 1 0.00
34 3 0.01
35 7 0.02
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (23 bp):
AAACCCTAACCTAATTTAATTAA
Found at i:38069331 original size:45 final size:45
Alignment explanation
Indices: 38069280--38069514 Score: 265
Period size: 45 Copynumber: 5.2 Consensus size: 45
38069270 TAAAAACCCT
38069280 AACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAACTTTAAA
1 AACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAACTTTAAA
*
38069325 AACCCTAACCTAATTTAATTAAAAATCCTAAACCTTAAC-TTAAA
1 AACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAACTTTAAA
* *
38069369 AACCCTAAACCTTAA-CT--TTAAAAACCCT-AACC-TAATTTAATACAA
1 AACCCT-AACC-TAATTTAATTAAAAACCCTAAACCTTAACTT--TA-AA
*
38069414 AACTCTAACCTAATTTAATT-AAAACCCTAAACCTTAAC-TTAAA
1 AACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAACTTTAAA
*
38069457 AACCCTAACCTAATTTAA-TACAAAACCCT-AACCTAAACCCTAATTAAA
1 AACCCTAACCTAATTTAATTA-AAAACCCTAAACCTTAA--CT--TTAAA
38069505 AACCCTAACC
1 AACCCTAACC
38069515 CTAACCTAAA
Statistics
Matches: 163, Mismatches: 9, Indels: 33
0.80 0.04 0.16
Matches are distributed among these distances:
41 3 0.02
42 6 0.04
43 39 0.24
44 28 0.17
45 59 0.36
46 10 0.06
47 3 0.02
48 15 0.09
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.27
Consensus pattern (45 bp):
AACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAACTTTAAA
Found at i:38069395 original size:88 final size:87
Alignment explanation
Indices: 38069298--38069492 Score: 263
Period size: 88 Copynumber: 2.2 Consensus size: 87
38069288 CCTAATTTAA
*
38069298 TTAAAAACCCTAAACCTTAACTT-TA-AAAACCCTAACCTAATTTAATTAAAAATCCTAAACCTT
1 TTAAAAACCCT-AACC-TAACTTATACAAAACCCTAACCTAATTTAATT-AAAACCCTAAACCTT
38069361 AACTTAAAAACCCTAAACCTTAACT
63 AACTTAAAAACCCTAAACCTTAACT
* *
38069386 TTAAAAACCCTAACCTAATTTAATACAAAACTCTAACCTAATTTAATTAAAACCCTAAACCTTAA
1 TTAAAAACCCTAACCTAACTT-ATACAAAACCCTAACCTAATTTAATTAAAACCCTAAACCTTAA
*
38069451 CTTAAAAACCCT-AACC-TAATT
65 CTTAAAAACCCTAAACCTTAACT
38069472 TAATACAAAACCCTAACCTAA
1 T--TA-AAAACCCTAACCTAA
38069493 ACCCTAATTA
Statistics
Matches: 97, Mismatches: 4, Indels: 11
0.87 0.04 0.10
Matches are distributed among these distances:
86 10 0.10
87 8 0.08
88 43 0.44
89 36 0.37
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (87 bp):
TTAAAAACCCTAACCTAACTTATACAAAACCCTAACCTAATTTAATTAAAACCCTAAACCTTAAC
TTAAAAACCCTAAACCTTAACT
Found at i:38069491 original size:66 final size:67
Alignment explanation
Indices: 38069280--38069492 Score: 328
Period size: 66 Copynumber: 3.2 Consensus size: 67
38069270 TAAAAACCCT
38069280 AACCCTAACCTAATTTAATTAAAAACCCTAAACCTTAACTTTAAAAACCCTAACCTAATTTAATT
1 AACCCTAACCTAATTTAATT-AAAACCCTAAACCTTAACTTTAAAAACCCTAACCTAATTTAA-T
38069345 A-AA
64 ACAA
* *
38069348 AATCCTAAACCTTAACTT-A--AAAACCCTAAACCTTAACTTTAAAAACCCTAACCTAATTTAAT
1 AACCCT-AACC-TAATTTAATTAAAACCCTAAACCTTAACTTTAAAAACCCTAACCTAATTTAAT
38069410 ACAA
64 ACAA
*
38069414 AACTCTAACCTAATTTAATTAAAACCCTAAACCTTAAC-TTAAAAACCCTAACCTAATTTAATAC
1 AACCCTAACCTAATTTAATTAAAACCCTAAACCTTAACTTTAAAAACCCTAACCTAATTTAATAC
38069478 AA
66 AA
38069480 AACCCTAACCTAA
1 AACCCTAACCTAA
38069493 ACCCTAATTA
Statistics
Matches: 133, Mismatches: 6, Indels: 14
0.87 0.04 0.09
Matches are distributed among these distances:
64 5 0.04
65 7 0.05
66 88 0.66
67 18 0.14
68 5 0.04
69 5 0.04
70 5 0.04
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (67 bp):
AACCCTAACCTAATTTAATTAAAACCCTAAACCTTAACTTTAAAAACCCTAACCTAATTTAATAC
AA
Found at i:38069503 original size:29 final size:29
Alignment explanation
Indices: 38069457--38070070 Score: 820
Period size: 29 Copynumber: 21.1 Consensus size: 29
38069447 TTAACTTAAA
38069457 AACCCTAACCTAATTTAA-TACAAAACCCT
1 AACCCTAACCTAATTTAATTA-AAAACCCT
*
38069486 AA-CCTAAACC----CTAATTAAAAACCCT
1 AACCCT-AACCTAATTTAATTAAAAACCCT
* *
38069511 AACCCTAACCTAAATTAATTAAAAACCTT
1 AACCCTAACCTAATTTAATTAAAAACCCT
* *
38069540 AACCCTAACATAAATTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
38069569 AACCCTAACCTAATTTAATTAAAAATCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
38069598 ACCCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
38069627 AACCCTAACCTAAATTAATTAAAAACCCTAACCCT
1 AACCCTAACCTAATTTAATT--AAA----AACCCT
* *
38069662 AACCCTAACCTAATTTAATTAGAAACCTT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
38069691 AACCCTAACCTAATTTAATTAAAAAACCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
* *
38069720 AACACTAACCTAATTTAATTAAAGACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
38069749 AACCCTAACCTAAATTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
* *
38069778 AATCCTAACCTAAATTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
38069807 AAACCCTAACCTAATTTAATTAAAGACCCT
1 -AACCCTAACCTAATTTAATTAAAAACCCT
*
38069837 AACCCTAACCTAATTTAATTAAAAAACCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
*
38069866 AACCCTAACCTAATTTAATTAAAGACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
38069895 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
38069924 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
* *
38069953 ACCCCTAACTTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
38069982 AACCCTAACCTAATTTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
38070011 AACCCTAACCCCAACCTAATTTAATTAAAAACCCT
1 AACCCT------AACCTAATTTAATTAAAAACCCT
38070046 AA-CCT-A---AA-TTAATTAAAAACCCT
1 AACCCTAACCTAATTTAATTAAAAACCCT
38070069 AA
1 AA
38070071 ACTAAGTTAA
Statistics
Matches: 528, Mismatches: 37, Indels: 46
0.86 0.06 0.08
Matches are distributed among these distances:
23 17 0.03
24 2 0.00
25 17 0.03
26 5 0.01
27 1 0.00
28 3 0.01
29 399 0.76
30 26 0.05
31 3 0.01
33 2 0.00
34 3 0.01
35 50 0.09
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.27
Consensus pattern (29 bp):
AACCCTAACCTAATTTAATTAAAAACCCT
Found at i:38070049 original size:23 final size:23
Alignment explanation
Indices: 38070017--38070080 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
38070007 CCCTAACCCT
* *
38070017 AACCCCAACCTAATTTAATTAAA
1 AACCCTAACCTAAATTAATTAAA
38070040 AACCCTAACCTAAATTAATTAAA
1 AACCCTAACCTAAATTAATTAAA
* *
38070063 AACCCTAAACTAAGTTAA
1 AACCCTAACCTAAATTAA
38070081 CAATGTTACA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.50, C:0.23, G:0.02, T:0.25
Consensus pattern (23 bp):
AACCCTAACCTAAATTAATTAAA
Found at i:38070223 original size:116 final size:116
Alignment explanation
Indices: 38070077--38070430 Score: 645
Period size: 116 Copynumber: 3.1 Consensus size: 116
38070067 CTAAACTAAG
* * *
38070077 TTAACAATGTTACATTCACGTAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAA
1 TTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAA
38070142 TAATTTTACATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAC
66 TAATTTTACATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAC
*
38070193 TTAATAATTTTACATTCACATAATGGTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAA
1 TTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAA
38070258 TAATTTTACATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAC
66 TAATTTTACATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAC
* *
38070309 TTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGATTGGTACTAGCAATTAA
1 TTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAA
*
38070374 TAATTTTATATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAC
66 TAATTTTACATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAC
38070425 TTAATA
1 TTAATA
38070431 CAATTTATCA
Statistics
Matches: 230, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 230 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.43
Consensus pattern (116 bp):
TTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAATTAA
TAATTTTACATAATTTGATAATTTTACTAACCATTAATACAATTTTTTGAC
Found at i:38070447 original size:17 final size:18
Alignment explanation
Indices: 38070406--38070447 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
38070396 TTTACTAACC
* *
38070406 ATTAATACAATTTTTTGA
1 ATTAATACAATTTTATCA
*
38070424 CTTAATACAA-TTTATCA
1 ATTAATACAATTTTATCA
38070441 ATTAATA
1 ATTAATA
38070448 ATTTCACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAATACAATTTTATCA
Found at i:38073618 original size:124 final size:126
Alignment explanation
Indices: 38073459--38073809 Score: 553
Period size: 124 Copynumber: 2.8 Consensus size: 126
38073449 CCCAAACATG
38073459 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
38073524 TAGAAGCGATTTTATACTATTTGCTCAGAAACGT-TAAAAAAT-TTTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTAAAAAAAATAATTATTTCTTACATGAC
* * * * *
38073583 CTACTGTAGCAAAAGTGTGTCCACAAGGCCACGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* *
38073648 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATAATTATTTCTTCCGTGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGT-AAAAAAAATAATTATTTCTTACATGAC
* *
38073710 CTACTGTAGCAAAAACGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAAGCATCCTT
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAAT-AGCATCCTG
**
38073775 CTAGAAGCGATTTTATACTATTTTATCAGAAACGT
65 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGT
38073810 CAACTCGAAA
Statistics
Matches: 205, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
124 94 0.46
126 7 0.03
127 63 0.31
128 41 0.20
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.30
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTAAAAAAAATAATTATTTCTTACATGAC
Found at i:38075108 original size:17 final size:17
Alignment explanation
Indices: 38075086--38075119 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
38075076 ATATTTATCA
38075086 ATAAAATAAAAATAATT
1 ATAAAATAAAAATAATT
38075103 ATAAAATAAAAATAATT
1 ATAAAATAAAAATAATT
38075120 TTTTTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAATAAAAATAATT
Found at i:38081625 original size:19 final size:19
Alignment explanation
Indices: 38081603--38081649 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
38081593 ATTGGAACGT
* *
38081603 AAAGTGCATATTGGCGCAC
1 AAAGTGCATACTGGCACAC
*
38081622 AAAGCGCATACTGGCACAC
1 AAAGTGCATACTGGCACAC
*
38081641 GAAGTGCAT
1 AAAGTGCAT
38081650 CTTGACGTGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.17
Consensus pattern (19 bp):
AAAGTGCATACTGGCACAC
Found at i:38088533 original size:41 final size:41
Alignment explanation
Indices: 38088471--38088641 Score: 204
Period size: 41 Copynumber: 4.2 Consensus size: 41
38088461 ATTATTGCTT
*
38088471 AATTGCACATATGTGCTCC-TGTTTGTACTTCGGTACCCCTA
1 AATTGCACATACGTGC-CCTTGTTTGTACTTCGGTACCCCTA
* * *
38088512 AATTGAACATACGTGTCCC-TGTTAGTACTTCGGTAACCCTA
1 AATTGCACATACGTG-CCCTTGTTTGTACTTCGGTACCCCTA
* * *
38088553 AATTGCACATATGTGCCCTTATTTGTACTTCGGTACCCCTG
1 AATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCTA
* * * *
38088594 AATTGCACATACATGCCCTTTTTTATACTTCGGTACCTCTA
1 AATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCTA
38088635 AA-TGCAC
1 AATTGCAC
38088642 TTTTTTCCTG
Statistics
Matches: 112, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
40 8 0.07
41 103 0.92
42 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.35
Consensus pattern (41 bp):
AATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCCCTA
Found at i:38088623 original size:82 final size:82
Alignment explanation
Indices: 38088471--38088641 Score: 226
Period size: 82 Copynumber: 2.1 Consensus size: 82
38088461 ATTATTGCTT
* *
38088471 AATTGCACATATGTGCTCCTGTTTGTACTTCGGTACCCCTAAATTGAACATACGTGTCCCTGTTA
1 AATTGCACATATGTGCTCCTATTTGTACTTCGGTACCCCTAAATTGAACATACATGTCCCTGTTA
38088536 GTACTTCGGTAACC-CTA
66 GTACTTCGGT-ACCTCTA
* * *
38088553 AATTGCACATATGTGC-CCTTATTTGTACTTCGGTACCCCTGAATTGCACATACATG-CCCTTTT
1 AATTGCACATATGTGCTCC-TATTTGTACTTCGGTACCCCTAAATTGAACATACATGTCCC--TG
38088616 TTA-TACTTCGGTACCTCTA
63 TTAGTACTTCGGTACCTCTA
38088635 AA-TGCAC
1 AATTGCAC
38088642 TTTTTTCCTG
Statistics
Matches: 80, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
81 13 0.16
82 63 0.79
83 4 0.05
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.35
Consensus pattern (82 bp):
AATTGCACATATGTGCTCCTATTTGTACTTCGGTACCCCTAAATTGAACATACATGTCCCTGTTA
GTACTTCGGTACCTCTA
Found at i:38096089 original size:102 final size:102
Alignment explanation
Indices: 38095909--38096241 Score: 522
Period size: 102 Copynumber: 3.3 Consensus size: 102
38095899 ATTGAATATA
* * *
38095909 AAGGGGGTTGCTAAGTGCTTATTCCCCCAAGGGGTTTCTAAGTGCTGATTCCCCGAATCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
* *
38095974 GGTTGTTAAGTGCTGATTCCGCCGTATTTTAAATGTG
66 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
* *
38096011 AAGGGGGTTGCTAAGTGCTGATTCCCGCAAGGGGTTGCTAAGTGTTGATTCCCCGACTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
* *
38096076 GGTTACTATGTGCTGATTCCACCGTATTTTAAATGTG
66 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
* *
38096113 ATGGGGGTTGCTAAGTGCTGATTCCCCCAAGAGGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
* * *
38096178 GGTTGCTAAGTGCTGATCCCATCGTATCTTAAATGTG
66 GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
* *
38096215 AAAGGGGTTGCTAAGTGTTGATTCCCC
1 AAGGGGGTTGCTAAGTGCTGATTCCCC
38096242 GAATCACTGG
Statistics
Matches: 210, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 210 1.00
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.33
Consensus pattern (102 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
GGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTG
Found at i:38096187 original size:33 final size:33
Alignment explanation
Indices: 38096145--38096277 Score: 106
Period size: 33 Copynumber: 3.7 Consensus size: 33
38096135 TCCCCCAAGA
38096145 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
* *
38096178 GGTTGCTAAGTGCTGA-TCCCATCGTATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCC--CG-A-C-T-CAT-TG---GT
* * *
38096220 GGTTGCTAAGTGTTGATTCCCCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
*
38096253 GGTTGCTAAGTGCTGAATCCACCGA
1 GGTTGCTAAGTGCTGATTCC-CCGA
38096278 TAACGGACAA
Statistics
Matches: 79, Mismatches: 9, Indels: 23
0.71 0.08 0.21
Matches are distributed among these distances:
32 4 0.05
33 35 0.44
34 6 0.08
35 1 0.01
36 3 0.04
37 2 0.03
38 3 0.04
39 2 0.03
40 1 0.01
41 2 0.03
42 16 0.20
43 4 0.05
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGACTCATTGGT
Found at i:38101023 original size:5 final size:5
Alignment explanation
Indices: 38101013--38101039 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
38101003 GCGACCTCGA
38101013 CACAT CACAT CACAT CACAT CACAT CA
1 CACAT CACAT CACAT CACAT CACAT CA
38101040 TCAAGGCTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.19
Consensus pattern (5 bp):
CACAT
Found at i:38101276 original size:22 final size:22
Alignment explanation
Indices: 38101248--38101297 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
38101238 GGGTCATGTC
*
38101248 TTGTCTCAAGACATAAGAC-CAT
1 TTGTCTCAAGACAT-ACACTCAT
*
38101270 TTGTCTCAAGATATACACTCAT
1 TTGTCTCAAGACATACACTCAT
38101292 TTGTCT
1 TTGTCT
38101298 TGAGATAGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.36
Consensus pattern (22 bp):
TTGTCTCAAGACATACACTCAT
Found at i:38103569 original size:12 final size:13
Alignment explanation
Indices: 38103543--38103571 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
38103533 TGCGAAATTC
38103543 AAATAGTGAAATG
1 AAATAGTGAAATG
38103556 AAATAGTG-AATG
1 AAATAGTGAAATG
38103568 AAAT
1 AAAT
38103572 TATATTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.55, C:0.00, G:0.21, T:0.24
Consensus pattern (13 bp):
AAATAGTGAAATG
Found at i:38109080 original size:24 final size:23
Alignment explanation
Indices: 38109035--38109080 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
38109025 TACCTTTTCA
**
38109035 TTATACTTTATTTTGATTAATTT
1 TTATACTTTATTTTGAAAAATTT
*
38109058 TTATAACTTTATTTTTAAAAATT
1 TTAT-ACTTTATTTTGAAAAATT
38109081 CGATTTTCGT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (23 bp):
TTATACTTTATTTTGAAAAATTT
Found at i:38121953 original size:24 final size:24
Alignment explanation
Indices: 38121913--38121974 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
38121903 GAATAAAAAT
*
38121913 AATAAACATAATG-AAACAAATAAA
1 AATAAAAATAA-GAAAACAAATAAA
* * *
38121937 AATAAAAATAAGAAAACACATGAT
1 AATAAAAATAAGAAAACAAATAAA
*
38121961 AATAAATATAAGAA
1 AATAAAAATAAGAA
38121975 TAATAGAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 1 0.03
24 31 0.97
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.18
Consensus pattern (24 bp):
AATAAAAATAAGAAAACAAATAAA
Found at i:38121977 original size:15 final size:15
Alignment explanation
Indices: 38121959--38121998 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
38121949 AAAACACATG
38121959 ATAATAAATATAAGA
1 ATAATAAATATAAGA
38121974 ATAATAGAA-ATAAGA
1 ATAATA-AATATAAGA
*
38121989 ATAACAAATA
1 ATAATAAATA
38121999 AATAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 2 0.09
15 18 0.82
16 2 0.09
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.23
Consensus pattern (15 bp):
ATAATAAATATAAGA
Found at i:38121992 original size:21 final size:19
Alignment explanation
Indices: 38121961--38122023 Score: 54
Period size: 21 Copynumber: 3.1 Consensus size: 19
38121951 AACACATGAT
*
38121961 AATAAATATAAGAATAATAGA
1 AATAAAAATAA-AATAA-AGA
* *
38121982 AATAAGAATAACAAATAAATA
1 AATAAAAAT-A-AAATAAAGA
*
38122003 AATAAAAATAAAATAAGGA
1 AATAAAAATAAAATAAAGA
38122022 AA
1 AA
38122024 AAGAAGGGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
19 9 0.26
20 1 0.03
21 17 0.50
22 6 0.18
23 1 0.03
ACGTcount: A:0.71, C:0.02, G:0.08, T:0.19
Consensus pattern (19 bp):
AATAAAAATAAAATAAAGA
Found at i:38129103 original size:16 final size:17
Alignment explanation
Indices: 38129072--38129105 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
38129062 CCATTATCTT
*
38129072 TTTTTTCCATTATTTAA
1 TTTTTTCCACTATTTAA
38129089 TTTTTTCCACT-TTTAA
1 TTTTTTCCACTATTTAA
38129105 T
1 T
38129106 CGTAGCTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.21, C:0.15, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTTCCACTATTTAA
Found at i:38143552 original size:10 final size:10
Alignment explanation
Indices: 38143533--38143562 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
38143523 AGGTGGTTGG
38143533 TTAGTGGGAT
1 TTAGTGGGAT
*
38143543 TTAGTAGGAT
1 TTAGTGGGAT
38143553 TTAGTGGGAT
1 TTAGTGGGAT
38143563 ATGGGTAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (10 bp):
TTAGTGGGAT
Found at i:38144371 original size:36 final size:36
Alignment explanation
Indices: 38144292--38144390 Score: 117
Period size: 36 Copynumber: 2.8 Consensus size: 36
38144282 GTAAGCTGTG
* * * *
38144292 TGAGGCACACGACCATGTGAAATCATGTAGTCCGTG
1 TGAGGCACACGACCGTGTGAAATCATATAGGCCGTA
*
38144328 TGAGGCACACGACCGTGTGAAATCATATAGGCCTTA
1 TGAGGCACACGACCGTGTGAAATCATATAGGCCGTA
* * **
38144364 TGGGGCACATGGTCGTGTGAAATCATA
1 TGAGGCACACGACCGTGTGAAATCATA
38144391 CAGATCGTGT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (36 bp):
TGAGGCACACGACCGTGTGAAATCATATAGGCCGTA
Found at i:38154427 original size:41 final size:43
Alignment explanation
Indices: 38154320--38154478 Score: 135
Period size: 41 Copynumber: 3.7 Consensus size: 43
38154310 CTATCGAACA
* * * * **
38154320 ATGCCAACGTCCCAGACGTGGTCTTACATGCTATCTCATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGCAATCAAATATCG
* * *
38154363 ATGCCACTGTCCCGGACAGGGTCTTACACG-AATCAAATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACGCAATCAAATATCG
* ** *
38154404 ATGCCAATGTCCTAGACATGGTCTTACACATAATCGCATATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGCAAT--CAAATATCG
* *
38154449 ATGCC-ATCATCCCAGACTTGGTCTTACACG
1 ATGCCAAT-GTCCCAGACATGGTCTTACACG
38154479 AGAACACATA
Statistics
Matches: 92, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
41 27 0.29
42 9 0.10
43 24 0.26
44 7 0.08
45 25 0.27
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGCAATCAAATATCG
Found at i:38158997 original size:28 final size:28
Alignment explanation
Indices: 38158957--38159038 Score: 137
Period size: 28 Copynumber: 2.9 Consensus size: 28
38158947 AAAACGTATA
* *
38158957 AAAATGGAAGCCTTTATCGCAATCTATG
1 AAAATGGAAGCCTTTGTGGCAATCTATG
*
38158985 AAAATAGAAGCCTTTGTGGCAATCTATG
1 AAAATGGAAGCCTTTGTGGCAATCTATG
38159013 AAAATGGAAGCCTTTGTGGCAATCTA
1 AAAATGGAAGCCTTTGTGGCAATCTA
38159039 AGGAAAGGAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (28 bp):
AAAATGGAAGCCTTTGTGGCAATCTATG
Found at i:38159053 original size:28 final size:28
Alignment explanation
Indices: 38158957--38159054 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
38158947 AAAACGTATA
* * *
38158957 AAAATGGAAGCCTTTATCGCAATCTATG
1 AAAATGGAAGCCTTTGTGGCAATCTAAG
* *
38158985 AAAATAGAAGCCTTTGTGGCAATCTATG
1 AAAATGGAAGCCTTTGTGGCAATCTAAG
38159013 AAAATGGAAGCCTTTGTGGCAATCTAAG
1 AAAATGGAAGCCTTTGTGGCAATCTAAG
*
38159041 GAAA-GGAACGCCTT
1 AAAATGGAA-GCCTT
38159055 CATGGTGCAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 4 0.06
28 59 0.94
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (28 bp):
AAAATGGAAGCCTTTGTGGCAATCTAAG
Found at i:38160386 original size:66 final size:66
Alignment explanation
Indices: 38160293--38160424 Score: 264
Period size: 66 Copynumber: 2.0 Consensus size: 66
38160283 GATAACTAAA
38160293 AAAATTGGAACAACCTTATGTGTAAATAGGAAACCTATCCTGGCATTATAAAAGTTGAAAATAGA
1 AAAATTGGAACAACCTTATGTGTAAATAGGAAACCTATCCTGGCATTATAAAAGTTGAAAATAGA
38160358 T
66 T
38160359 AAAATTGGAACAACCTTATGTGTAAATAGGAAACCTATCCTGGCATTATAAAAGTTGAAAATAGA
1 AAAATTGGAACAACCTTATGTGTAAATAGGAAACCTATCCTGGCATTATAAAAGTTGAAAATAGA
38160424 T
66 T
38160425 CAATATAGAT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.27
Consensus pattern (66 bp):
AAAATTGGAACAACCTTATGTGTAAATAGGAAACCTATCCTGGCATTATAAAAGTTGAAAATAGA
T
Found at i:38160677 original size:18 final size:17
Alignment explanation
Indices: 38160637--38160679 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
38160627 AATACTTTAA
*
38160637 ATAT-AAAATTATAAAT
1 ATATAAAAATAATAAAT
*
38160653 GTATAAAAATAATATAAT
1 ATATAAAAATAATA-AAT
38160671 ATATAAAAA
1 ATATAAAAA
38160680 AACTGCCACG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 3 0.14
17 8 0.36
18 11 0.50
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
ATATAAAAATAATAAAT
Found at i:38161399 original size:22 final size:21
Alignment explanation
Indices: 38161366--38161413 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
38161356 AAAGTAATTG
38161366 ACTAAAATATAAATGTAAAAAA
1 ACTAAAATATAAATG-AAAAAA
*
38161388 ACTAGAAA-ATAAGTGAAAAAA
1 ACTA-AAATATAAATGAAAAAA
38161409 A-TAAA
1 ACTAAA
38161414 CTGAATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 2 0.08
20 2 0.08
21 7 0.29
22 10 0.42
23 3 0.12
ACGTcount: A:0.69, C:0.04, G:0.08, T:0.19
Consensus pattern (21 bp):
ACTAAAATATAAATGAAAAAA
Found at i:38188999 original size:16 final size:18
Alignment explanation
Indices: 38188964--38189001 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
38188954 ATTCTTATTT
*
38188964 AAATAAAATACATTAGTA
1 AAATAAAATACATAAGTA
38188982 AAATAAAATA-A-AAGTA
1 AAATAAAATACATAAGTA
38188998 AAAT
1 AAAT
38189002 CCATATAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 10 0.53
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (18 bp):
AAATAAAATACATAAGTA
Found at i:38195354 original size:33 final size:33
Alignment explanation
Indices: 38195312--38195395 Score: 123
Period size: 33 Copynumber: 2.5 Consensus size: 33
38195302 AATCAGCAGG
*
38195312 TTGGGCCTGGTCATGGTGGTACCAGATAACAGA
1 TTGGGCCTGGTCATGGTGGTACCAGACAACAGA
* *
38195345 TTGGGCCTGGTCATGGTGGTACCTGGCAACAGA
1 TTGGGCCTGGTCATGGTGGTACCAGACAACAGA
* *
38195378 TTGGGCCTGCTAATGGTG
1 TTGGGCCTGGTCATGGTG
38195396 CAGTTGGGTT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.19, C:0.19, G:0.36, T:0.26
Consensus pattern (33 bp):
TTGGGCCTGGTCATGGTGGTACCAGACAACAGA
Found at i:38207360 original size:120 final size:120
Alignment explanation
Indices: 38207147--38207384 Score: 449
Period size: 120 Copynumber: 2.0 Consensus size: 120
38207137 AGACTATTAT
*
38207147 AGAAATATATTAAATTTTGGTCTAATAATTTTATTTAATTGATAGTTAATTAAGATACAAGTGTA
1 AGAAATATATTAAAGTTTGGTCTAATAATTTTATTTAATTGATAGTTAATTAAGATACAAGTGTA
*
38207212 ATGATCATAAAGTTAGTGATATCGAAAAATACAGTTTTAGAACCCCATTTTCAAA
66 ATGATCATAAAGTTAGTGATATCGAAAAATACAGTTTTAGAACACCATTTTCAAA
*
38207267 AGAAATATATTAAAGTTTGGTCTAATAATTTTATTTAATTGATAGTTAATTAAGGTACAAGTGTA
1 AGAAATATATTAAAGTTTGGTCTAATAATTTTATTTAATTGATAGTTAATTAAGATACAAGTGTA
38207332 ATGATCATAAAGTTAGTGATATCGAAAAATACAGTTTTAGAACACCATTTTCA
66 ATGATCATAAAGTTAGTGATATCGAAAAATACAGTTTTAGAACACCATTTTCA
38207385 TAAACTGAGA
Statistics
Matches: 115, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 115 1.00
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.37
Consensus pattern (120 bp):
AGAAATATATTAAAGTTTGGTCTAATAATTTTATTTAATTGATAGTTAATTAAGATACAAGTGTA
ATGATCATAAAGTTAGTGATATCGAAAAATACAGTTTTAGAACACCATTTTCAAA
Found at i:38209570 original size:22 final size:22
Alignment explanation
Indices: 38209490--38209572 Score: 71
Period size: 22 Copynumber: 3.8 Consensus size: 22
38209480 AATTGGTTGA
* *
38209490 GTTTGGTTAGTTAATGAACTAT
1 GTTTGTTTAGTTGATGAACTAT
* * *
38209512 GTTTGCTTAGTTGATG-AGTTT
1 GTTTGTTTAGTTGATGAACTAT
**
38209533 GTGTT-TATTAAATGATGAACTAT
1 GT-TTGT-TTAGTTGATGAACTAT
38209556 GTTTGTTTAGTTGATGA
1 GTTTGTTTAGTTGATGA
38209573 GTACATAGGT
Statistics
Matches: 46, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
21 5 0.11
22 35 0.76
23 6 0.13
ACGTcount: A:0.24, C:0.04, G:0.24, T:0.48
Consensus pattern (22 bp):
GTTTGTTTAGTTGATGAACTAT
Found at i:38219215 original size:7 final size:7
Alignment explanation
Indices: 38219205--38219262 Score: 52
Period size: 7 Copynumber: 8.4 Consensus size: 7
38219195 TTTAAATTAA
38219205 AAATATT
1 AAATATT
38219212 AAAT-TT
1 AAATATT
*
38219218 AAAGTA-A
1 AAA-TATT
38219225 AAATA-T
1 AAATATT
38219231 AAAT-TT
1 AAATATT
38219237 ATAATATT
1 A-AATATT
38219245 AAATATT
1 AAATATT
38219252 AAAATATT
1 -AAATATT
38219260 AAA
1 AAA
38219263 AAAGACTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
6 13 0.30
7 20 0.47
8 10 0.23
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (7 bp):
AAATATT
Found at i:38219233 original size:19 final size:20
Alignment explanation
Indices: 38219194--38219237 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
38219184 AATTAGGTTT
*
38219194 ATTTAAATTAAAAATATTAA
1 ATTTAAAGTAAAAATATTAA
38219214 ATTTAAAGTAAAAATA-TAA
1 ATTTAAAGTAAAAATATTAA
38219233 ATTTA
1 ATTTA
38219238 TAATATTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
ATTTAAAGTAAAAATATTAA
Found at i:38219495 original size:23 final size:23
Alignment explanation
Indices: 38219456--38219509 Score: 76
Period size: 21 Copynumber: 2.3 Consensus size: 23
38219446 AAAAATAAAA
38219456 TATAAAAAATTAATTTA-AA-TT
1 TATAAAAAATTAATTTAGAATTT
38219477 TATAAAAAATTATATTTTAGAATTT
1 TATAAAAAATTA-A-TTTAGAATTT
38219502 TATAAAAA
1 TATAAAAA
38219510 TATTTTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 12 0.41
22 1 0.03
23 4 0.14
24 2 0.07
25 10 0.34
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (23 bp):
TATAAAAAATTAATTTAGAATTT
Found at i:38219520 original size:11 final size:11
Alignment explanation
Indices: 38219504--38219532 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
38219494 TAGAATTTTA
38219504 TAAAAATATTT
1 TAAAAATATTT
38219515 TAAAAATATTT
1 TAAAAATATTT
38219526 TAAAAAT
1 TAAAAAT
38219533 TTTATATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TAAAAATATTT
Found at i:38219532 original size:22 final size:21
Alignment explanation
Indices: 38219488--38219532 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
38219478 ATAAAAAATT
*
38219488 ATATTTTAGAATTTTATAAAA
1 ATATTTTAAAATTTTATAAAA
38219509 ATATTTTAAAAATATTT-TAAAA
1 ATATTTT-AAAAT-TTTATAAAA
38219531 AT
1 AT
38219533 TTTATATGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 7 0.33
22 11 0.52
23 3 0.14
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
ATATTTTAAAATTTTATAAAA
Found at i:38219817 original size:21 final size:21
Alignment explanation
Indices: 38219791--38219845 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
38219781 AACAGCGGTG
*
38219791 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
* *
38219812 GCGGTGAAATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
**
38219833 GTAGTGAGATTAG
1 GCGGTGAGATTAG
38219846 AAACAGCGGT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.25, C:0.07, G:0.36, T:0.31
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:38228028 original size:15 final size:15
Alignment explanation
Indices: 38228008--38228038 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
38227998 CCAACCTTCA
38228008 AATTTTACCTCAATT
1 AATTTTACCTCAATT
38228023 AATTTTACCTCAATT
1 AATTTTACCTCAATT
38228038 A
1 A
38228039 TACATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTTACCTCAATT
Found at i:38230236 original size:11 final size:11
Alignment explanation
Indices: 38230220--38230246 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
38230210 TAGAAATTAG
38230220 TTTGTGAAACT
1 TTTGTGAAACT
38230231 TTTGTGAAACT
1 TTTGTGAAACT
38230242 TTTGT
1 TTTGT
38230247 ATTGATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.22, C:0.07, G:0.19, T:0.52
Consensus pattern (11 bp):
TTTGTGAAACT
Found at i:38231778 original size:92 final size:92
Alignment explanation
Indices: 38231642--38231835 Score: 286
Period size: 92 Copynumber: 2.1 Consensus size: 92
38231632 TTGATTTTAG
* *
38231642 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
*
38231706 TAT-TAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
38231733 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
38231798 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
38231826 CAAATTCATA
1 TAAATTCATA
38231836 AACTATAATC
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
91 17 0.18
92 43 0.46
93 30 0.32
94 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:38231883 original size:48 final size:52
Alignment explanation
Indices: 38231813--38231911 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 52
38231803 AATAATTATT
38231813 ATTTTAAATTATACAAATTCATA-AACT-A-T-AATCATATTAGTTATAATA
1 ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
* * **
38231861 ATTTTAAATTTTATTAAA-TCATATATTTAATTAAATCATATTAGTTATAAT
1 ATTTTAAATTATA-CAAATTCATATAACTAATTAAATCATATTAGTTATAAT
38231912 CATATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
48 17 0.40
49 5 0.12
50 1 0.02
51 1 0.02
52 18 0.43
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (52 bp):
ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
Found at i:38231893 original size:17 final size:17
Alignment explanation
Indices: 38231868--38231901 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
38231858 ATAATTTTAA
*
38231868 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
38231885 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
38231902 TAGTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:38231918 original size:17 final size:16
Alignment explanation
Indices: 38231873--38231920 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
38231863 TTTAAATTTT
38231873 ATTAAATCATATATTTA
1 ATTAAATCATATA-TTA
38231890 ATTAAATC--ATATTA
1 ATTAAATCATATATTA
*
38231904 GTTATAATCATATATTA
1 ATTA-AATCATATATTA
38231921 TGATTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
17 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAAATCATATATTA
Found at i:38231988 original size:13 final size:14
Alignment explanation
Indices: 38231965--38231999 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
38231955 TTAAGAATTT
*
38231965 TATTAAATTATATA
1 TATTTAATTATATA
38231979 T-TTTAATTATATA
1 TATTTAATTATATA
38231992 TATTTAAT
1 TATTTAAT
38232000 AATAATTATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTTAATTATATA
Found at i:38232055 original size:127 final size:128
Alignment explanation
Indices: 38231908--38232138 Score: 428
Period size: 127 Copynumber: 1.8 Consensus size: 128
38231898 ATATTAGTTA
*
38231908 TAATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 TAATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
*
38231973 TATATATTTTAATTATATATATTTAATAATAATTATGTTATTTATATTTTACAGTATCATATT
66 TATATATTTTAATTAAATATATTTAATAATAATTATGTTATTTATATTTTACAGTATCATATT
*
38232036 TAATAATA-ATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 TAATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
38232100 TATATATTTTAATTAAATATATTTAATAATAATTATGTT
66 TATATATTTTAATTAAATATATTTAATAATAATTATGTT
38232139 TAAATATGAT
Statistics
Matches: 100, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
127 93 0.93
128 7 0.07
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (128 bp):
TAATAATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
TATATATTTTAATTAAATATATTTAATAATAATTATGTTATTTATATTTTACAGTATCATATT
Found at i:38232108 original size:17 final size:17
Alignment explanation
Indices: 38232088--38232121 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
38232078 ATTATTAAGA
38232088 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA-TATAT
38232105 ATTTTAATTAAATATAT
1 ATTTTAATTAAATATAT
38232122 TTAATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Found at i:38232259 original size:18 final size:17
Alignment explanation
Indices: 38232231--38232265 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
38232221 ATTATTAAGA
*
38232231 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
38232248 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
38232266 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:38232303 original size:144 final size:146
Alignment explanation
Indices: 38232076--38232346 Score: 476
Period size: 144 Copynumber: 1.9 Consensus size: 146
38232066 ATAAGAATAT
*
38232076 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATATATTTAATAATAATTATGTTTA
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATATATTAAATAATAATTATGTTTA
38232141 AATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAA-AATAATTTAC
66 AATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTAC
38232203 CAAAACAAATTTCTGC
131 CAAAACAAATTTCTGC
38232219 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATT-AAATATATTAAATAATAATTATGTTT
*
38232284 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
65 AAATATGATTAAATTATTTATTATTGATAAT--ATAATCTTATTAAAATTTAAATAACAATAA
38232347 CAATAATCAT
Statistics
Matches: 120, Mismatches: 2, Indels: 6
0.94 0.02 0.05
Matches are distributed among these distances:
143 38 0.32
144 52 0.43
145 2 0.02
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (146 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATATATTAAATAATAATTATGTTTA
AATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTAC
CAAAACAAATTTCTGC
Found at i:38232476 original size:44 final size:45
Alignment explanation
Indices: 38232427--38232521 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
38232417 TTACACCTCT
* *
38232427 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
38232471 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
38232516 ATTACA
1 ATTACA
38232522 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:38232521 original size:16 final size:16
Alignment explanation
Indices: 38232500--38232532 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
38232490 TTGATTTGCT
*
38232500 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
38232516 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
38232532 A
1 A
38232533 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:38232542 original size:21 final size:21
Alignment explanation
Indices: 38232513--38232555 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
38232503 ACACCTCTAT
*
38232513 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
38232534 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
38232555 T
1 T
38232556 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:38232704 original size:8 final size:8
Alignment explanation
Indices: 38232691--38232736 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
38232681 TAGTAAAATA
38232691 ATATTTAT
1 ATATTTAT
*
38232699 ATATTTAA
1 ATATTTAT
* *
38232707 AAATAATAT
1 ATAT-TTAT
38232716 ATATTTAT
1 ATATTTAT
38232724 ATATTTAT
1 ATATTTAT
38232732 ATATT
1 ATATT
38232737 CAAACCCCCC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
8 26 0.84
9 5 0.16
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
ATATTTAT
Found at i:38238520 original size:11 final size:11
Alignment explanation
Indices: 38238504--38238542 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
38238494 ACTACTATAT
38238504 ATTACTATTAA
1 ATTACTATTAA
*
38238515 ATTACTACTCTAT
1 ATTACTA-T-TAA
38238528 ATTACTATTAA
1 ATTACTATTAA
38238539 ATTA
1 ATTA
38238543 AGTTAGAGCG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 13 0.54
12 2 0.08
13 9 0.38
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (11 bp):
ATTACTATTAA
Found at i:38238528 original size:24 final size:24
Alignment explanation
Indices: 38238493--38238542 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
38238483 GGATCAACCC
38238493 TACTACTATATATTACTATTAAAT
1 TACTACTATATATTACTATTAAAT
*
38238517 TACTACTCTATATTACTATTAAAT
1 TACTACTATATATTACTATTAAAT
38238541 TA
1 TA
38238543 AGTTAGAGCG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.14, G:0.00, T:0.46
Consensus pattern (24 bp):
TACTACTATATATTACTATTAAAT
Found at i:38238533 original size:13 final size:12
Alignment explanation
Indices: 38238493--38238534 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
38238483 GGATCAACCC
38238493 TACTACTATATAT
1 TACTACT-TATAT
*
38238506 TACTA-TTAAAT
1 TACTACTTATAT
38238517 TACTACTCTATAT
1 TACTACT-TATAT
38238530 TACTA
1 TACTA
38238535 TTAAATTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
11 9 0.36
12 2 0.08
13 14 0.56
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.45
Consensus pattern (12 bp):
TACTACTTATAT
Found at i:38245519 original size:21 final size:22
Alignment explanation
Indices: 38245478--38245519 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
38245468 AACTTGGTCA
* *
38245478 TTTTCCTATAAAATAAGTTTTT
1 TTTTCCTATAAAACAACTTTTT
38245500 TTTTCCTAT-AAACAACTTTT
1 TTTTCCTATAAAACAACTTTT
38245520 AAAGCGTAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.31, C:0.14, G:0.02, T:0.52
Consensus pattern (22 bp):
TTTTCCTATAAAACAACTTTTT
Found at i:38245719 original size:26 final size:26
Alignment explanation
Indices: 38245689--38245758 Score: 70
Period size: 29 Copynumber: 2.5 Consensus size: 26
38245679 ATACATATCT
38245689 AATTATTTATATTTAGTCA-TATAATA
1 AATTATTTATATTTA-TCATTATAATA
* *
38245715 AATTATTAATATAATTTATTATTTTAATA
1 AATTATT--TAT-ATTTATCATTATAATA
38245744 AATTATTTAATATTT
1 AATTATTT-ATATTT
38245759 CAATTTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
26 7 0.19
27 5 0.14
28 7 0.19
29 18 0.49
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (26 bp):
AATTATTTATATTTATCATTATAATA
Found at i:38245728 original size:16 final size:16
Alignment explanation
Indices: 38245707--38245756 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 16
38245697 ATATTTAGTC
38245707 ATATAATAAATTATTA
1 ATATAATAAATTATTA
38245723 ATATAAT---TTATTA
1 ATATAATAAATTATTA
* *
38245736 TTTTAATAAATTATTTA
1 ATATAATAAATTA-TTA
38245753 ATAT
1 ATAT
38245757 TTCAATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 11 0.42
16 10 0.38
17 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATATAATAAATTATTA
Found at i:38245732 original size:29 final size:30
Alignment explanation
Indices: 38245699--38245756 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
38245689 AATTATTTAT
38245699 ATTTAGTCA-TATAATAAATTA-TTAATATA
1 ATTTA-TCATTATAATAAATTATTTAATATA
* *
38245728 ATTTATTATTTTAATAAATTATTTAATAT
1 ATTTATCATTATAATAAATTATTTAATAT
38245757 TTCAATTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 2 0.08
29 16 0.64
30 7 0.28
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (30 bp):
ATTTATCATTATAATAAATTATTTAATATA
Found at i:38246110 original size:7 final size:7
Alignment explanation
Indices: 38246098--38246135 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
38246088 GCAAAAAAAT
38246098 ATATAAA
1 ATATAAA
38246105 ATATAAA
1 ATATAAA
38246112 ATATAAA
1 ATATAAA
38246119 AT-TATAA
1 ATATA-AA
38246126 ATATAAA
1 ATATAAA
38246133 ATA
1 ATA
38246136 AACTCAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 2 0.07
7 25 0.86
8 2 0.07
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
ATATAAA
Found at i:38255584 original size:16 final size:15
Alignment explanation
Indices: 38255558--38255588 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
38255548 TTCATCTAAC
38255558 ATATTTATGATTTTG
1 ATATTTATGATTTTG
38255573 ATATTATATGATTTTG
1 ATATT-TATGATTTTG
38255589 GTACATGCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (15 bp):
ATATTTATGATTTTG
Found at i:38257881 original size:25 final size:25
Alignment explanation
Indices: 38257853--38257902 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
38257843 CTCGTTTCCA
*
38257853 TTTCTCTTATTTGCCATTTCAATAT
1 TTTCTCATATTTGCCATTTCAATAT
*
38257878 TTTCTCATCTTTGCCATTTCAATAT
1 TTTCTCATATTTGCCATTTCAATAT
38257903 CAATCACATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.20, C:0.22, G:0.04, T:0.54
Consensus pattern (25 bp):
TTTCTCATATTTGCCATTTCAATAT
Found at i:38259008 original size:15 final size:14
Alignment explanation
Indices: 38258988--38259018 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
38258978 TTCCCCTTTC
38258988 TTCTTTCTTTCTCTT
1 TTCTTTCTTT-TCTT
38259003 TTCTTTCTTTTCTT
1 TTCTTTCTTTTCTT
38259017 TT
1 TT
38259019 AAATTTGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
TTCTTTCTTTTCTT
Found at i:38261609 original size:50 final size:50
Alignment explanation
Indices: 38261534--38261726 Score: 233
Period size: 50 Copynumber: 3.8 Consensus size: 50
38261524 ATTTGGGTAA
*
38261534 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
38261584 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*** * * * * * *
38261634 AGAGGTCCCCCATAAGATCGTGTCTGGGACATGGCATGGGCATCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * *
38261684 AGAACATCCCATGTAAGACCATGTCTGGGACATAGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
38261727 TGTTATTATC
Statistics
Matches: 118, Mismatches: 24, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
50 88 0.75
51 30 0.25
ACGTcount: A:0.26, C:0.22, G:0.30, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:38262403 original size:12 final size:12
Alignment explanation
Indices: 38262386--38262418 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
38262376 TGGCCCGCCC
38262386 ATATTAATTTTT
1 ATATTAATTTTT
38262398 ATATT-ATTTTT
1 ATATTAATTTTT
38262409 ATA-TAATTTT
1 ATATTAATTTT
38262419 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:38271792 original size:44 final size:43
Alignment explanation
Indices: 38271705--38272044 Score: 226
Period size: 44 Copynumber: 7.8 Consensus size: 43
38271695 GACTTGATGC
* * *
38271705 AATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGACTTT
* * *
38271749 AATCCGCTCCACTACAACTTCAGGGAGATAGGATTATCGACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GACTTT
*
38271793 AATCTGCTCCACTGCAACCTCAGGGAGATAAGATT-TG-CTTCTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGAC-T-TT
** * ** * * **
38271836 CGTTCTGCCCCACTGTGACTTCAGGGGGATAAGACT-TGTTTTCT
1 -AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGACTT-T
* * * *
38271880 CAGTCTGCTCTACTGCAACCTCAGGGAGATAAGACCTAATG-C---
1 -AATCTGCTCCACTGCAACTTCAGGGAGATAAGA--TTATGACTTT
** ** * *
38271922 AATCCACTTTACTGCAACTTCAGAGAGATAAGATCTATTACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TATGACTTT
* * * * * * *
38271966 AATCCGCTACACTACAACTTTAGGGAGATAGGATTATCGGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAT-GACTTT
*
38272010 AATATGCTCCACTGCAACTTCAGGGAGATAAGATT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
38272045 TGCCATCTTC
Statistics
Matches: 227, Mismatches: 54, Indels: 30
0.73 0.17 0.10
Matches are distributed among these distances:
39 1 0.00
40 2 0.01
41 29 0.13
42 2 0.01
43 10 0.04
44 181 0.80
47 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.29
Consensus pattern (43 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTATGACTTT
Found at i:38272191 original size:128 final size:127
Alignment explanation
Indices: 38272035--38272571 Score: 812
Period size: 128 Copynumber: 4.2 Consensus size: 127
38272025 AACTTCAGGG
*
38272035 AGATAAGATTTGCCATCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
1 AGATAAGATTTGCC-GCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
* * * **
38272100 ACCTATTCCACAGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTTTTTACACTTGA
65 ACCTACTCCACTGCTGACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
* * * *
38272163 AGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAAGGAGACAAGATTTGTAATTTCTA
1 AGATAAGATTTGCCG-CTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
*
38272228 ACCTACTCCACTGCTGACCAGGGACATAGGACTTGTGGCTTAAATTTGCTTCCTTACACTTGA
65 ACCTACTCCACTGCTGACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
38272291 AGATAAGATTTGCCGCTTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
1 AGATAAGATTTGCCGC-TTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
* * * *
38272356 A-CT--T-CACTGCTGACCAGGGACATAGGACTTGAGGCTTAAATTTACTTTCTTACACTTGA
65 ACCTACTCCACTGCTGACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
* * *
38272415 AGATAAGATTTGCCGCTTTCGATCTACTCCGTTACCGCTTAGGGAGACAAGATCTGTAATTTCCA
1 AGATAAGATTTGCCGC-TTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
* * *
38272480 ACCTACTCCACTGCTAACCAGGGACATAGGACTTGTAGCTTGAATCTGCTTCCTTACACTTGA
65 ACCTACTCCACTGCTGACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
38272543 AGATAAGATTTGCCGCTTCCGATCTGCTC
1 AGATAAGATTTGCCGCTT-CGATCTGCTC
38272572 TGTAATTTCC
Statistics
Matches: 373, Mismatches: 29, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
124 115 0.31
125 3 0.01
127 6 0.02
128 249 0.67
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (127 bp):
AGATAAGATTTGCCGCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAA
CCTACTCCACTGCTGACCAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGA
Found at i:38272485 original size:252 final size:255
Alignment explanation
Indices: 38272035--38272571 Score: 841
Period size: 252 Copynumber: 2.1 Consensus size: 255
38272025 AACTTCAGGG
*
38272035 AGATAAGATTTGCC-ATCTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCC
1 AGATAAGATTTGCCGCT-TTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCC
* * * *
38272099 AACCTATTCCACAGCTGACCAGGGATATAGGACTTGTGGCTTAAATCTGCTTTTTTACACTTGAA
65 AACC-ATTCCACAGCTGACCAGGGACATAGGACTTGAGGCTTAAATCTACTTTCTTACACTTGAA
* * * *
38272164 GATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGCTTAAGGAGACAAGATTTGTAATTTCTAA
129 GATAAGATTCGCCGTCTTCGATCTACTCCGCTACCGCTTAAGGAGACAAGATCTGTAATTTCCAA
* * *
38272229 CCTACTCCACTGCTGACCAGGGACATAGGACTTGTGGCTTAAATTTGCTTCCTTACACTTGA
194 CCTACTCCACTGCTAACCAGGGACATAGGACTTGTAGCTTAAATCTGCTTCCTTACACTTGA
38272291 AGATAAGATTTGCCGCTTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
1 AGATAAGATTTGCCGCTTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
* *
38272356 A-C-TT-CACTGCTGACCAGGGACATAGGACTTGAGGCTTAAATTTACTTTCTTACACTTGAAGA
66 ACCATTCCACAGCTGACCAGGGACATAGGACTTGAGGCTTAAATCTACTTTCTTACACTTGAAGA
* * *
38272418 TAAGATTTGCCG-CTTTCGATCTACTCCGTTACCGCTTAGGGAGACAAGATCTGTAATTTCCAAC
131 TAAGATTCGCCGTC-TTCGATCTACTCCGCTACCGCTTAAGGAGACAAGATCTGTAATTTCCAAC
*
38272482 CTACTCCACTGCTAACCAGGGACATAGGACTTGTAGCTTGAATCTGCTTCCTTACACTTGA
195 CTACTCCACTGCTAACCAGGGACATAGGACTTGTAGCTTAAATCTGCTTCCTTACACTTGA
*
38272543 AGATAAGATTTGCCGCTTCCGATCTGCTC
1 AGATAAGATTTGCCGCTTTCGATCTGCTC
38272572 TGTAATTTCC
Statistics
Matches: 260, Mismatches: 19, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
251 1 0.00
252 192 0.74
253 2 0.01
255 1 0.00
256 63 0.24
257 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (255 bp):
AGATAAGATTTGCCGCTTTCGATCTGCTCCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCA
ACCATTCCACAGCTGACCAGGGACATAGGACTTGAGGCTTAAATCTACTTTCTTACACTTGAAGA
TAAGATTCGCCGTCTTCGATCTACTCCGCTACCGCTTAAGGAGACAAGATCTGTAATTTCCAACC
TACTCCACTGCTAACCAGGGACATAGGACTTGTAGCTTAAATCTGCTTCCTTACACTTGA
Found at i:38272646 original size:103 final size:103
Alignment explanation
Indices: 38272467--38272655 Score: 351
Period size: 103 Copynumber: 1.8 Consensus size: 103
38272457 GGAGACAAGA
*
38272467 TCTGTAATTTCCAACCTACTCCACTGCTAACCAGGGACATAGGACTTGTAGCTTGAATCTGCTTC
1 TCTGTAATTTCCAACCTACTCCACTACTAACCAGGGACATAGGACTTGTAGCTTGAATCTGCTTC
38272532 CTTACACTTGAAGATAAGATTTGCCGCTTCCGATCTGC
66 CTTACACTTGAAGATAAGATTTGCCGCTTCCGATCTGC
*
38272570 TCTGTAATTTCCAACCTACTCCACTACTAACCAGGGACATAGGACTTGTGGCTTGAATCTGCTTC
1 TCTGTAATTTCCAACCTACTCCACTACTAACCAGGGACATAGGACTTGTAGCTTGAATCTGCTTC
*
38272635 CTTACACTTGAAGGTAAGATT
66 CTTACACTTGAAGATAAGATT
38272656 CACCGTCTTT
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 83 1.00
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (103 bp):
TCTGTAATTTCCAACCTACTCCACTACTAACCAGGGACATAGGACTTGTAGCTTGAATCTGCTTC
CTTACACTTGAAGATAAGATTTGCCGCTTCCGATCTGC
Found at i:38274038 original size:14 final size:15
Alignment explanation
Indices: 38274019--38274084 Score: 93
Period size: 14 Copynumber: 4.5 Consensus size: 15
38274009 TTAGCCTCTC
*
38274019 CATTTTTAC-TTTTT
1 CATTTTTTCATTTTT
38274033 CATTTTTTCATTTTT
1 CATTTTTTCATTTTT
38274048 CA-TTTTTCA-TTTT
1 CATTTTTTCATTTTT
38274061 CATTTTTTCATTTTT
1 CATTTTTTCATTTTT
38274076 CATATTTTT
1 CAT-TTTTT
38274085 TTGACTCAGA
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
13 6 0.13
14 22 0.47
15 14 0.30
16 5 0.11
ACGTcount: A:0.15, C:0.14, G:0.00, T:0.71
Consensus pattern (15 bp):
CATTTTTTCATTTTT
Found at i:38274039 original size:8 final size:7
Alignment explanation
Indices: 38274019--38274083 Score: 80
Period size: 7 Copynumber: 9.0 Consensus size: 7
38274009 TTAGCCTCTC
38274019 CATTTTT
1 CATTTTT
38274026 -ACTTTTT
1 CA-TTTTT
38274033 CATTTTTT
1 CA-TTTTT
38274041 CATTTTT
1 CATTTTT
38274048 CATTTTT
1 CATTTTT
38274055 CA-TTTT
1 CATTTTT
38274061 CATTTTTT
1 CA-TTTTT
38274069 CATTTTT
1 CATTTTT
38274076 CATATTTT
1 CAT-TTTT
38274084 TTTGACTCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 9
0.84 0.02 0.15
Matches are distributed among these distances:
6 7 0.13
7 27 0.52
8 18 0.35
ACGTcount: A:0.15, C:0.14, G:0.00, T:0.71
Consensus pattern (7 bp):
CATTTTT
Found at i:38274988 original size:6 final size:6
Alignment explanation
Indices: 38274960--38275024 Score: 62
Period size: 6 Copynumber: 11.2 Consensus size: 6
38274950 CTTCTCTCTT
* * * * **
38274960 TTTTCA TTTTCA TTTTGG CTTTGA TTTTGA TTTTGA TTTTGA TTTTTC
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
38275008 TTTT-- TTTTGA TTTTGA T
1 TTTTGA TTTTGA TTTTGA T
38275025 CTTTTTTTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
4 4 0.08
6 46 0.92
ACGTcount: A:0.12, C:0.06, G:0.12, T:0.69
Consensus pattern (6 bp):
TTTTGA
Found at i:38275017 original size:16 final size:17
Alignment explanation
Indices: 38274996--38275033 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 17
38274986 TTGATTTTGA
38274996 TTTTGATTTT-TCTTTT
1 TTTTGATTTTATCTTTT
38275012 TTTTGATTTTGATCTTTT
1 TTTTGATTTT-ATCTTTT
38275030 TTTT
1 TTTT
38275034 TGGATTGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.50
18 10 0.50
ACGTcount: A:0.08, C:0.05, G:0.08, T:0.79
Consensus pattern (17 bp):
TTTTGATTTTATCTTTT
Found at i:38275018 original size:22 final size:21
Alignment explanation
Indices: 38274990--38275034 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
38274980 TTGATTTTGA
*
38274990 TTTTGATTTTGATTTTTCTTTT
1 TTTTGATTTTGATCTTT-TTTT
38275012 TTTTGATTTTGATCTTTTTTT
1 TTTTGATTTTGATCTTTTTTT
38275033 TT
1 TT
38275035 GGATTGGATC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.09, C:0.04, G:0.09, T:0.78
Consensus pattern (21 bp):
TTTTGATTTTGATCTTTTTTT
Done.