Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 61 of 253
Found at i:17105267 original size:19 final size:19
Alignment explanation
Indices: 17105243--17105280 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
17105233 TTGAGATTGC
*
17105243 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
17105262 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
17105281 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:17117429 original size:29 final size:27
Alignment explanation
Indices: 17117411--17117480 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
17117401 ATACTAAGTC
17117411 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
17117438 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
17117466 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
17117481 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:17117474 original size:28 final size:28
Alignment explanation
Indices: 17117411--17117508 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
17117401 ATACTAAGTC
*
17117411 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
17117438 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
17117466 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
17117495 CGCACACTTAGTGC
1 CGCACACTTAGTGC
17117509 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:17120793 original size:44 final size:44
Alignment explanation
Indices: 17120737--17121116 Score: 607
Period size: 44 Copynumber: 8.6 Consensus size: 44
17120727 AATCCAAGAT
**
17120737 GATTTGGCGTCTCTGTAGCGGTAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* *
17120781 GATTTGGTGTCTCTGTAGCGGCGGAGAGTAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
17120825 GATTTGGCGTCTCTGTAGCGACGGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
17120869 GATTTGGCGTCTCTGTAGCGGTGGAGAGCAGGTCCAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
17120913 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAATA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* **
17120957 GATTTGGCGTCTCTGTAGCGGCGAAGAGTGGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
* * *
17121001 GATTTGGCGTCTCTGTAGTGGCGGATAGCAGATTGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
17121045 GATTTGGCGTCTCTGTAGCGGCAGAGAGCAGATCGAAGATAACA
1 GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
*
17121089 GATTTGGCATCTCTGTAGCGGCGGAGAG
1 GATTTGGCGTCTCTGTAGCGGCGGAGAG
17121117 TGTAACACCC
Statistics
Matches: 305, Mismatches: 31, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 305 1.00
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.23
Consensus pattern (44 bp):
GATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGATAACA
Found at i:17122037 original size:37 final size:37
Alignment explanation
Indices: 17121929--17122038 Score: 175
Period size: 37 Copynumber: 3.0 Consensus size: 37
17121919 TAGCTCAGAA
* * *
17121929 AAAATCTCCACACGAAGTTATCGGGTCTTACCCGCAC
1 AAAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
17121966 AAAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
1 AAAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
* *
17122003 ATAATCTTCACACGTAGTCATCGGGTCTTACCCGGA
1 AAAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
17122039 ATATATTTCC
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (37 bp):
AAAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
Found at i:17122471 original size:47 final size:47
Alignment explanation
Indices: 17122242--17122473 Score: 365
Period size: 47 Copynumber: 4.9 Consensus size: 47
17122232 TACATATATT
* * * *
17122242 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
17122289 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
17122336 TCACATTGGCCATTCGGCCTTATCATATATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
17122383 TCACATTGGCCATTCGGTCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
**
17122430 TCACATTGGCCATTCGGCCTTATCACATATATGCACATTCACAT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
17122474 CACAATTATC
Statistics
Matches: 171, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 171 1.00
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:17126375 original size:25 final size:25
Alignment explanation
Indices: 17126340--17126389 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
17126330 GGAATTCGCA
17126340 CACACACAGTGC-CTCTAATCATTCG
1 CACACACAGTGCTCT-TAATCATTCG
* *
17126365 CACACATAGTGCTCTTATTCATTCG
1 CACACACAGTGCTCTTAATCATTCG
17126390 TTATTGCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.30
Consensus pattern (25 bp):
CACACACAGTGCTCTTAATCATTCG
Found at i:17126628 original size:40 final size:40
Alignment explanation
Indices: 17126567--17126836 Score: 362
Period size: 40 Copynumber: 6.8 Consensus size: 40
17126557 AGCATGATTA
** * ** *
17126567 CTCTTCGGGACCCAGCCCGGATATAAAACCAGCACGAATG
1 CTCTTCGGGACTTAGCACGGATATATCACTAGCACGAATG
**
17126607 CTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCACGGATATATCACTAGCACGAATG
** *
17126647 CTCTTCGGGGTTTAGCACAGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCACGGATATATCACTAGCACGAATG
* * *
17126687 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCACGGATATATCACTAGCACGAATG
*
17126727 CTCTTCGGGACTTAGC-CGGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCAC-GGATATATCACTAGCACGAATG
*
17126767 CTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCACGGATATATCACTAGCACGAATG
* *
17126807 CTCTTCGGAACTTAGCCCGGATATATCACT
1 CTCTTCGGGACTTAGCACGGATATATCACT
17126837 CTCAATTCTC
Statistics
Matches: 210, Mismatches: 18, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
39 1 0.00
40 208 0.99
41 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTCTTCGGGACTTAGCACGGATATATCACTAGCACGAATG
Found at i:17128214 original size:37 final size:37
Alignment explanation
Indices: 17128103--17128215 Score: 147
Period size: 37 Copynumber: 3.1 Consensus size: 37
17128093 CTTTAGCTCA
* *
17128103 GACAAAATCTCCACACGA-AGTTATCGGGTCTTACCTG
1 GACAAAATCTCCACAC-ATAGTCATCGGGTCTTACCCG
* *
17128140 CACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACATAGTCATCGGGTCTTACCCG
* * *
17128177 GACATAATCTTCACACATAGTCATCGGTTCTTACCCG
1 GACAAAATCTCCACACATAGTCATCGGGTCTTACCCG
17128214 GA
1 GA
17128216 ATATATTTCC
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (37 bp):
GACAAAATCTCCACACATAGTCATCGGGTCTTACCCG
Found at i:17128648 original size:47 final size:47
Alignment explanation
Indices: 17128419--17128650 Score: 365
Period size: 47 Copynumber: 4.9 Consensus size: 47
17128409 TACATATATT
* * * * * *
17128419 TCACATTAGCCATTCGACTTTACCACGTATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
17128466 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
17128513 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
17128560 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
**
17128607 TCACATTGGCCATTCGGCCTTATCACATATATGCACATTCACAT
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACAT
17128651 CACAATTATC
Statistics
Matches: 173, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 173 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:17132160 original size:20 final size:20
Alignment explanation
Indices: 17132130--17132181 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
17132120 TATAGTACAA
17132130 ATATAATAAATTTATATATTT
1 ATAT-ATAAATTTATATATTT
*
17132151 ATATATAAATATATATATTT
1 ATATATAAATTTATATATTT
17132171 AT-TATAAATTT
1 ATATATAAATTT
17132182 TAGTTAACTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 8 0.28
20 17 0.59
21 4 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATATAAATTTATATATTT
Found at i:17134039 original size:19 final size:19
Alignment explanation
Indices: 17134015--17134052 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
17134005 TTGAGATTGC
*
17134015 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCCTGAAAT
17134034 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
17134053 TATTCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.34
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:17137014 original size:38 final size:38
Alignment explanation
Indices: 17136963--17137039 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
17136953 CCATCACATG
* *
17136963 TAATTTCTCCCGTTGATGTAGAGGTATAGTCTGATTTA
1 TAATTTCTCCCGTTGATGTAGAGATACAGTCTGATTTA
17137001 TAATTTCTCCCGTTGATGTAGAGATACAGTCTGATTTA
1 TAATTTCTCCCGTTGATGTAGAGATACAGTCTGATTTA
17137039 T
1 T
17137040 CGTATAACAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (38 bp):
TAATTTCTCCCGTTGATGTAGAGATACAGTCTGATTTA
Found at i:17137979 original size:40 final size:40
Alignment explanation
Indices: 17137934--17138086 Score: 252
Period size: 40 Copynumber: 3.8 Consensus size: 40
17137924 TGAGAATTAG
*
17137934 GGAGCATTCGTGCTAGTGATATATCCGAGCTAAGTCCCGA
1 GGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
17137974 GGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
1 GGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
* *
17138014 GGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGA
1 GGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
* * *
17138054 AGAGCATTCGTGCTAGTAATATATCCGTGCTAA
1 GGAGCATTCGTGCTAGTGATATATCCGGGCTAA
17138087 ACCTTGAAGA
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 106 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
GGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
Found at i:17142170 original size:40 final size:39
Alignment explanation
Indices: 17142126--17142230 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
17142116 AGTGACCATA
*
17142126 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
17142166 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
17142204 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
17142231 AACGAGTAGC
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:17142187 original size:39 final size:40
Alignment explanation
Indices: 17142089--17142230 Score: 150
Period size: 40 Copynumber: 3.6 Consensus size: 40
17142079 AATGATGTCT
* * *
17142089 GGGCTAAGTCCCGAAGGC-TTTGTGCCA-AGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATAACC
* *
17142129 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-ACC
*
17142169 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACC
*
17142208 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
17142231 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 7, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
39 34 0.39
40 43 0.49
41 10 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACC
Found at i:17142249 original size:79 final size:80
Alignment explanation
Indices: 17142089--17142236 Score: 185
Period size: 79 Copynumber: 1.9 Consensus size: 80
17142079 AATGATGTCT
* **
17142089 GGGCTAAGTCCCGAAGGCTTTGTGCCAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCTTTGTGCCAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGAA
17142154 CGAGATACTAATTCC
66 CGAGATACTAATTCC
* * * * *
17142169 GGGCTAAG-CCCGAAGGCATTTGTG-CGAGTTACTATAACCGGGCTATG-TCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGC-TTTGTGCCAAGTGACCATAACCGGACTAAGAT-CCGAAGGCATTTG
17142231 AACGAG
64 AACGAG
17142237 TAGCTATATC
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 43 0.74
80 14 0.24
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCTTTGTGCCAAGTGACCATAACCGGACTAAGATCCGAAGGCATTTGAA
CGAGATACTAATTCC
Found at i:17142524 original size:47 final size:47
Alignment explanation
Indices: 17142455--17142622 Score: 255
Period size: 47 Copynumber: 3.6 Consensus size: 47
17142445 AAGGGTTGGT
17142455 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
17142502 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
17142549 AATGTGAAAGTGTATATATGTAACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
17142596 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
17142623 TCCCGAAGGG
Statistics
Matches: 109, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 109 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:17146952 original size:19 final size:19
Alignment explanation
Indices: 17146928--17146968 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
17146918 TTCCAGAGTT
*
17146928 TGTTTCTAGATGCTTGATC
1 TGTTTCTAAATGCTTGATC
17146947 TGTTTCTAAATGCTTGATC
1 TGTTTCTAAATGCTTGATC
17146966 TGT
1 TGT
17146969 CAATAGGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.15, G:0.20, T:0.49
Consensus pattern (19 bp):
TGTTTCTAAATGCTTGATC
Found at i:17152267 original size:16 final size:16
Alignment explanation
Indices: 17152248--17152278 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17152238 CTTCTTCACT
17152248 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
17152264 TACTTACTTACTTAA
1 TACTCACTTACTTAA
17152279 TCAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:17152284 original size:20 final size:20
Alignment explanation
Indices: 17152245--17152284 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
17152235 AAACTTCTTC
* *
17152245 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
17152265 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
17152285 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:17152658 original size:55 final size:53
Alignment explanation
Indices: 17152517--17152724 Score: 204
Period size: 55 Copynumber: 3.8 Consensus size: 53
17152507 ATCCTTTCGA
* * *
17152517 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
1 AACTTAACAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * *
17152570 AACTCAACAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAG
1 AACTTAACAATGCCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G
* ***
17152624 TAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTA-G
1 -AACTTAACAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
* * * * *
17152677 AAACCTTACCAATTTCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -AA-CTTAACAA-TGCCATGTCTTGACATGGTCTTACATGGGATCCTT
17152725 AAACCCTAAT
Statistics
Matches: 127, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
52 2 0.02
53 45 0.35
54 8 0.06
55 70 0.55
56 2 0.02
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (53 bp):
AACTTAACAATGCCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG
Found at i:17152669 original size:108 final size:110
Alignment explanation
Indices: 17152517--17152717 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
17152507 ATCCTTTCGA
* *
17152517 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCAACAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCAACAA
17152580 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
* * * *
17152625 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCAACAAT
*
17152690 TTCCATGCCTTGGCATGGTCTTACATGG
66 TGCCATGCCTTGGCATGGTCTTACATGG
17152718 TATCCTTAAA
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.59
109 6 0.07
110 27 0.33
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCAACAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTTCCTTATAGT
Found at i:17157576 original size:43 final size:41
Alignment explanation
Indices: 17157470--17157586 Score: 121
Period size: 43 Copynumber: 2.8 Consensus size: 41
17157460 GTAGTACAGT
*
17157470 ATCGATGCCTTTGTCCCAGACAAGGTCTTACACGAAATTAG
1 ATCGATGCCTGTGTCCCAGACAAGGTCTTACACGAAATTAG
* * *
17157511 ATACGATGCC-GATGTCCTAGACATGGTCTTATACGTAAATCTCA-
1 AT-CGATGCCTG-TGTCCCAGACAAGGTCTTACACG-AAAT-T-AG
* *
17157555 ATCGAGGCCTGTGTCCCAGACACGGTCTTACA
1 ATCGATGCCTGTGTCCCAGACAAGGTCTTACA
17157587 TGATGTCTGA
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
41 2 0.03
42 27 0.44
43 28 0.45
44 4 0.06
45 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (41 bp):
ATCGATGCCTGTGTCCCAGACAAGGTCTTACACGAAATTAG
Found at i:17170585 original size:24 final size:24
Alignment explanation
Indices: 17170553--17170605 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
17170543 TTCCGAAATA
17170553 GTAGTCGCTTTTCTATTCATCCGG
1 GTAGTCGCTTTTCTATTCATCCGG
17170577 GTAGTCGCTTTTCTATTCATCCGG
1 GTAGTCGCTTTTCTATTCATCCGG
17170601 GTAGT
1 GTAGT
17170606 ACTAAGATGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.13, C:0.23, G:0.23, T:0.42
Consensus pattern (24 bp):
GTAGTCGCTTTTCTATTCATCCGG
Found at i:17173146 original size:22 final size:23
Alignment explanation
Indices: 17173106--17173202 Score: 112
Period size: 22 Copynumber: 4.3 Consensus size: 23
17173096 ATAGCTTGTA
* *
17173106 AGAGCTTACTGTTTTAGCTCATT
1 AGAGCTTACTGATTTAGCTCAAT
*
17173129 GGAGCTTAC-GATTTAGCTCAAT
1 AGAGCTTACTGATTTAGCTCAAT
*
17173151 AGAGCTTACTG-TTCAGCTC-AT
1 AGAGCTTACTGATTTAGCTCAAT
*
17173172 TGAGCTTACT-ATTTCAGCTCAAT
1 AGAGCTTACTGATTT-AGCTCAAT
17173195 AGAGCTTA
1 AGAGCTTA
17173203 TTGTTCAGCT
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
21 13 0.21
22 31 0.50
23 18 0.29
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.36
Consensus pattern (23 bp):
AGAGCTTACTGATTTAGCTCAAT
Found at i:17173191 original size:44 final size:44
Alignment explanation
Indices: 17173106--17173212 Score: 162
Period size: 44 Copynumber: 2.4 Consensus size: 44
17173096 ATAGCTTGTA
*
17173106 AGAGCTTACTGTTTTAGCTCATTGGAGCTTACGATTTAGCTCAAT
1 AGAGCTTACTG-TTCAGCTCATTGGAGCTTACGATTTAGCTCAAT
*
17173151 AGAGCTTACTGTTCAGCTCATT-GAGCTTACTATTTCAGCTCAAT
1 AGAGCTTACTGTTCAGCTCATTGGAGCTTACGATTT-AGCTCAAT
*
17173195 AGAGCTTATTGTTCAGCT
1 AGAGCTTACTGTTCAGCT
17173213 TGAAGGAGCT
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
43 12 0.21
44 35 0.60
45 11 0.19
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (44 bp):
AGAGCTTACTGTTCAGCTCATTGGAGCTTACGATTTAGCTCAAT
Found at i:17173209 original size:22 final size:22
Alignment explanation
Indices: 17173143--17173212 Score: 90
Period size: 22 Copynumber: 3.2 Consensus size: 22
17173133 CTTACGATTT
*
17173143 AGCTCAATAGAGCTTACTGTTC
1 AGCTCAATAGAGCTTATTGTTC
*
17173165 AGCTC-ATTGAGCTTACTAT-TTC
1 AGCTCAATAGAGCTTA-T-TGTTC
17173187 AGCTCAATAGAGCTTATTGTTC
1 AGCTCAATAGAGCTTATTGTTC
17173209 AGCT
1 AGCT
17173213 TGAAGGAGCT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
21 10 0.24
22 21 0.51
23 10 0.24
ACGTcount: A:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (22 bp):
AGCTCAATAGAGCTTATTGTTC
Found at i:17177272 original size:17 final size:18
Alignment explanation
Indices: 17177231--17177273 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
17177221 TGTATTTACT
17177231 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
17177249 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
17177266 TATTATAT
1 TATTATAT
17177274 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:17191634 original size:40 final size:40
Alignment explanation
Indices: 17191583--17191858 Score: 329
Period size: 40 Copynumber: 6.9 Consensus size: 40
17191573 GGATATAGCT
* *
17191583 ACTCGCCCAAATGCCTTCGGGACTTAGCCCGGTCATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * *
17191623 ACTCGCACAAATGCCTTCGGGACTTAACCTGGTTATTGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * * * *
17191663 GCTCTCACAAATGCCTTCGGGACTTAACTCGGTTATTGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * * * *
17191703 GCTCGCACAATTGCCTTCGAGACTTAACCCGGTTATTGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * *
17191743 GCTCGCACAATTGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * *
17191783 ACTCGCACAATTGCCTTCGGGACTTAGCCCGG-AATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* *
17191823 ACTAGCACAAATGCCTTCGGGACTTAGCCCAGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
17191859 TATCCGAATA
Statistics
Matches: 210, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 1 0.00
40 208 0.99
41 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:17191708 original size:80 final size:80
Alignment explanation
Indices: 17191584--17191858 Score: 374
Period size: 80 Copynumber: 3.4 Consensus size: 80
17191574 GATATAGCTA
* * *
17191584 CTCGCCCAAATGCCTTCGGGACTTAGCCCGGTCATAGTAACTCGCACAAATGCCTTCGGGACTTA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTA
*
17191649 ACCTGGTTATTGTAG
66 ACCCGGTTATTGTAG
* * * * * *
17191664 CTCTCACAAATGCCTTCGGGACTTAACTCGGTTATTGTAGCTCGCACAATTGCCTTCGAGACTTA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTA
17191729 ACCCGGTTATTGTAG
66 ACCCGGTTATTGTAG
* *
17191744 CTCGCACAATTGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAATTGCCTTCGGGACTTA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTA
* *
17191809 GCCCGG-AATTAGTCA-
66 ACCCGGTTATT-GT-AG
* *
17191824 CTAGCACAAATGCCTTCGGGACTTAGCCCAGTTAT
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
17191859 TATCCGAATA
Statistics
Matches: 169, Mismatches: 24, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
79 3 0.02
80 165 0.98
81 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.27
Consensus pattern (80 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTA
ACCCGGTTATTGTAG
Found at i:17201351 original size:40 final size:40
Alignment explanation
Indices: 17201298--17201613 Score: 427
Period size: 40 Copynumber: 7.9 Consensus size: 40
17201288 GGATATAGCT
* *
17201298 ACTCGCCCAAATGCCTTCGGGACTTAGCCCGGTCATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
*
17201338 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTCATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* *
17201378 ACTCGCACAAATGCCTTCGGGACTTAACCCGGTTATTGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * * *
17201418 GCTCGCACAAATGCCTTCGGGACTTAACCCGATTATTGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * * *
17201458 GCTCGCACAATTGCCTTCGGGACTTAACCCGGTTATTGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * *
17201498 GCTCGCACAATTGCCTTCGGGACTTAGCCCGGATATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
* * *
17201538 ACTCGCACAATTGCCTTCGGGACTTAGCCCGG-AATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTA
* *
17201578 ACTAGCACAAATGCCTTTGGGACTTAGCCCGGTTAT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
17201614 TATCCGAATA
Statistics
Matches: 256, Mismatches: 18, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
39 1 0.00
40 254 0.99
41 1 0.00
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTA
Found at i:17205255 original size:43 final size:43
Alignment explanation
Indices: 17205180--17205267 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 43
17205170 AATTCAATGA
* * *
17205180 TTAATATATAGTGTTTATGTTTTGCCTATTCTAACTATTTTTC
1 TTAATATATAGTGTTCATATTTTACCTATTCTAACTATTTTTC
* * * *
17205223 TTAATATATTGTGTTCCTATTTTACCTGTTCTATCTATTTTTC
1 TTAATATATAGTGTTCATATTTTACCTATTCTAACTATTTTTC
17205266 TT
1 TT
17205268 TCTTTTATTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.20, C:0.14, G:0.08, T:0.58
Consensus pattern (43 bp):
TTAATATATAGTGTTCATATTTTACCTATTCTAACTATTTTTC
Found at i:17214662 original size:21 final size:21
Alignment explanation
Indices: 17214633--17214708 Score: 57
Period size: 21 Copynumber: 3.5 Consensus size: 21
17214623 CTAGGAATTA
*
17214633 TGTGATCTGAAGTCATTGAGT
1 TGTGGTCTGAAGTCATTGAGT
*
17214654 TGTGGTCTG-AGTTCA-TGATAT
1 TGTGGTCTGAAG-TCATTGA-GT
* *
17214675 ATGTGACCTCTGAACTCATTGAGT
1 -TGTG--GTCTGAAGTCATTGAGT
17214699 TGTGGTCTGA
1 TGTGGTCTGA
17214709 GTTCATGATA
Statistics
Matches: 42, Mismatches: 6, Indels: 14
0.68 0.10 0.23
Matches are distributed among these distances:
20 5 0.12
21 17 0.40
22 4 0.10
23 4 0.10
24 8 0.19
25 4 0.10
ACGTcount: A:0.21, C:0.13, G:0.28, T:0.38
Consensus pattern (21 bp):
TGTGGTCTGAAGTCATTGAGT
Found at i:17214686 original size:24 final size:24
Alignment explanation
Indices: 17214659--17214726 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 24
17214649 TGAGTTGTGG
17214659 TCTGAGTTCATGATATATGTGACC
1 TCTGAGTTCATGATATATGTGACC
** * *
17214683 TCTGAACTCATTGA-GT-TGTG--G
1 TCTGAGTTCA-TGATATATGTGACC
17214704 TCTGAGTTCATGATATATGTGAC
1 TCTGAGTTCATGATATATGTGAC
17214727 ACATGTTTTG
Statistics
Matches: 32, Mismatches: 7, Indels: 10
0.65 0.14 0.20
Matches are distributed among these distances:
20 3 0.09
21 9 0.28
22 4 0.12
23 4 0.12
24 9 0.28
25 3 0.09
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.38
Consensus pattern (24 bp):
TCTGAGTTCATGATATATGTGACC
Found at i:17214694 original size:45 final size:44
Alignment explanation
Indices: 17214631--17214726 Score: 167
Period size: 45 Copynumber: 2.2 Consensus size: 44
17214621 CACTAGGAAT
*
17214631 TATGTGA-TCTGAAGTCATTGAGTTGTGGTCTGAGTTCATGATA
1 TATGTGACTCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATA
17214674 TATGTGACCTCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATA
1 TATGTGA-CTCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATA
17214719 TATGTGAC
1 TATGTGAC
17214727 ACATGTTTTG
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
43 7 0.14
44 1 0.02
45 42 0.84
ACGTcount: A:0.23, C:0.12, G:0.26, T:0.39
Consensus pattern (44 bp):
TATGTGACTCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATA
Found at i:17214714 original size:21 final size:21
Alignment explanation
Indices: 17214645--17214714 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
17214635 TGATCTGAAG
17214645 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
* * **
17214666 TCA-TGATATATGTGACCTCTGAAC
1 TCATTGA-GT-TGTG--GTCTGAGT
17214690 TCATTGAGTTGTGGTCTGAGT
1 TCATTGAGTTGTGGTCTGAGT
17214711 TCAT
1 TCAT
17214715 GATATATGTG
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
20 3 0.08
21 13 0.36
22 4 0.11
23 4 0.11
24 9 0.25
25 3 0.08
ACGTcount: A:0.20, C:0.14, G:0.26, T:0.40
Consensus pattern (21 bp):
TCATTGAGTTGTGGTCTGAGT
Found at i:17231456 original size:24 final size:24
Alignment explanation
Indices: 17231424--17231474 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
17231414 CCCTACTGGT
17231424 CTAGTTAGTAATTCTATTTTTGAA
1 CTAGTTAGTAATTCTATTTTTGAA
17231448 CTAGTTAGTAATTCTATTTTTGAA
1 CTAGTTAGTAATTCTATTTTTGAA
17231472 CTA
1 CTA
17231475 ATCAAAGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.49
Consensus pattern (24 bp):
CTAGTTAGTAATTCTATTTTTGAA
Found at i:17232932 original size:14 final size:15
Alignment explanation
Indices: 17232913--17232941 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
17232903 CAACTTGATC
17232913 ACCATCT-ATTTTTT
1 ACCATCTCATTTTTT
17232927 ACCATCTCATTTTTT
1 ACCATCTCATTTTTT
17232942 TCGCATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.21, C:0.24, G:0.00, T:0.55
Consensus pattern (15 bp):
ACCATCTCATTTTTT
Found at i:17235358 original size:24 final size:24
Alignment explanation
Indices: 17235343--17235394 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
17235333 AATCAAAGTC
*
17235343 AAATATATTATGCTAATAAATACT
1 AAATATATTATACTAATAAATACT
*
17235367 AAATATATTATACTAATAAATGCT
1 AAATATATTATACTAATAAATACT
17235391 AAAT
1 AAAT
17235395 CTTCTAGAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:17244809 original size:27 final size:27
Alignment explanation
Indices: 17244779--17244856 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
17244769 ATTATTGAAT
*
17244779 TACCCTTGTAGGGTAGAAATACTAAAA
1 TACCCTTGTAGGGTAGAAATACCAAAA
* * * *
17244806 TACCCCTGTAGGGTAGAATTACCGAGA
1 TACCCTTGTAGGGTAGAAATACCAAAA
*
17244833 TACCCTTGTGGGGTA-AAATTACCA
1 TACCCTTGTAGGGTAGAAA-TACCA
17244857 TTTTGCCCCT
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
26 2 0.05
27 39 0.95
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (27 bp):
TACCCTTGTAGGGTAGAAATACCAAAA
Found at i:17245810 original size:31 final size:31
Alignment explanation
Indices: 17245775--17245878 Score: 138
Period size: 31 Copynumber: 3.4 Consensus size: 31
17245765 TTGCATTCAC
* * *
17245775 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATTCTG
* *
17245806 ATTCTGATTCTAATTCTAG-CACCTAATTCTG
1 ATTCTGATTCTGATTCT-GTCACCTGATTCTG
17245837 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATTCTG
*
17245868 ATTCTAATTCT
1 ATTCTGATTCT
17245879 CATTTTGATT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
30 1 0.02
31 61 0.97
32 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.46
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATTCTG
Found at i:17245814 original size:6 final size:6
Alignment explanation
Indices: 17245775--17245890 Score: 76
Period size: 6 Copynumber: 18.8 Consensus size: 6
17245765 TTGCATTCAC
* * *
17245775 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTA ATTCTAG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCT-G
* * * *
17245825 CA-CCTA ATTCTG ATTCTG ATTCTG ATTCTG -TCACCTG ATTCTG ATTCTA
1 -ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
17245874 ATTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCT
17245891 AGTTCTAATA
Statistics
Matches: 84, Mismatches: 17, Indels: 18
0.71 0.14 0.15
Matches are distributed among these distances:
5 4 0.05
6 69 0.82
7 8 0.10
8 3 0.04
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:17255421 original size:24 final size:24
Alignment explanation
Indices: 17255389--17255444 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
17255379 AACCTAATTG
* *
17255389 TAATCAATGTCAAATATATTATGC
1 TAATAAATGTCAAATATATTATAC
* *
17255413 TAATAAATGTTAAATATATTGTAC
1 TAATAAATGTCAAATATATTATAC
17255437 TAATAAAT
1 TAATAAAT
17255445 ATTATATCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (24 bp):
TAATAAATGTCAAATATATTATAC
Found at i:17260110 original size:25 final size:25
Alignment explanation
Indices: 17260067--17260119 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
17260057 AGTTATTCAG
*
17260067 AAAGGATAACAAATTAAAATG-TTGA
1 AAAGGATAACAAATGAAAA-GATTGA
*
17260092 AAAGGATAACAAGTGAAAAGATTGA
1 AAAGGATAACAAATGAAAAGATTGA
17260117 AAA
1 AAA
17260120 TGATGTTATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.58, C:0.04, G:0.19, T:0.19
Consensus pattern (25 bp):
AAAGGATAACAAATGAAAAGATTGA
Found at i:17265043 original size:49 final size:46
Alignment explanation
Indices: 17264971--17265242 Score: 219
Period size: 49 Copynumber: 5.7 Consensus size: 46
17264961 GGTATATGTT
17264971 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATCATCAAG
1 GCTGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATC-TCAAG
* * * *
17265020 GCTGATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCGTCT-ATATG
1 GCTGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATCTCA-A-G
* * * *
17265069 TGCTGATGCATGTCCCAAACATGTCTTACACTAGC-A-CAACTCTTA-
1 -GCTGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTC-AAG
* * * *
17265114 GCCGATGCGTGTCCCAGACACGTCTTACACTGGCTATCATCGTCGAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGCTATCATC-TCAAG
** ** * *
17265161 GCCAATGCATGTCCCAGACATGTCTTACACTGGCGCTCATTCTCTAC
1 GCTGATGCATGTCCCAGACATGTCTTACACTGGCTATCA-TCTCAAG
* * *
17265208 ACTAATGCCATGTCCCAGACATGTCTTAAACTGGC
1 GCTGATG-CATGTCCCAGACATGTCTTACACTGGC
17265243 ACACAAGTAA
Statistics
Matches: 185, Mismatches: 27, Indels: 23
0.79 0.11 0.10
Matches are distributed among these distances:
44 29 0.16
45 1 0.01
46 7 0.04
47 46 0.25
48 42 0.23
49 53 0.29
50 7 0.04
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTGGCTATCATCTCAAG
Found at i:17265233 original size:48 final size:47
Alignment explanation
Indices: 17265118--17265242 Score: 144
Period size: 47 Copynumber: 2.6 Consensus size: 47
17265108 CTCTTAGCCG
* * * **
17265118 ATGCGTGTCCCAGACACGTCTTACACTGGCTATCATCGTCGAGGCCA
1 ATGCATGTCCCAGACATGTCTTACACTGGCGATCATCGTCGACACCA
* * *
17265165 ATGCATGTCCCAGACATGTCTTACACTGGCGCTCATTC-TCTACACTA
1 ATGCATGTCCCAGACATGTCTTACACTGGCGATCA-TCGTCGACACCA
*
17265212 ATGCCATGTCCCAGACATGTCTTAAACTGGC
1 ATG-CATGTCCCAGACATGTCTTACACTGGC
17265243 ACACAAGTAA
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
47 39 0.58
48 28 0.42
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (47 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCGATCATCGTCGACACCA
Found at i:17270294 original size:39 final size:39
Alignment explanation
Indices: 17270169--17270351 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 39
17270159 GCTACTCGTT
* *
17270169 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGATT-TAGTAACTCGCA
*
17270209 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-GATTTAGTAACTCGCA
* * *
17270249 TC-AATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCACA
1 -CAAATGCCTTCGGGACTTAGCCCG-ATTTAGTAACTCGCA
* * * * *
17270288 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAG-CCCGATTTAGTAAC-TCGCA
17270329 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
17270352 GACATCATTC
Statistics
Matches: 118, Mismatches: 16, Indels: 19
0.77 0.10 0.12
Matches are distributed among these distances:
38 4 0.03
39 31 0.26
40 66 0.56
41 17 0.14
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGATTTAGTAACTCGCA
Found at i:17270313 original size:79 final size:80
Alignment explanation
Indices: 17270171--17270351 Score: 199
Period size: 79 Copynumber: 2.3 Consensus size: 80
17270161 TACTCGTTCA
* ** *
17270171 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
* *
17270236 TTAGTAAC-TCGCATC
66 ATAGTAACTTAGCA-C
* **
17270251 AATGCCTTCGGG-CTTAGCCCGAA-ATTAGTATCTCACACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGAATA-TAGTAACTCACACAAATGCCTTCGGGA-CTTAACCCGG
* *
17270313 ATATGGTCACTTAGCAC
64 ATATAGTAACTTAGCAC
*
17270330 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
17270352 GACATCATTC
Statistics
Matches: 85, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 4 0.05
79 56 0.66
80 25 0.29
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGAATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCAC
Found at i:17274081 original size:45 final size:45
Alignment explanation
Indices: 17274017--17274108 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
17274007 GATATTGAAA
17274017 ATGGAAATAATCTATGTTTGATAATAAGTGATGAATAAGTTTAGT
1 ATGGAAATAATCTATGTTTGATAATAAGTGATGAATAAGTTTAGT
17274062 ATGGAAATAATCTATGTTTGATAATAAGTGATGAATAAGTTTAGT
1 ATGGAAATAATCTATGTTTGATAATAAGTGATGAATAAGTTTAGT
17274107 AT
1 AT
17274109 TAAAGGTGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.40, C:0.02, G:0.20, T:0.38
Consensus pattern (45 bp):
ATGGAAATAATCTATGTTTGATAATAAGTGATGAATAAGTTTAGT
Found at i:17274411 original size:56 final size:56
Alignment explanation
Indices: 17274344--17274603 Score: 405
Period size: 56 Copynumber: 4.7 Consensus size: 56
17274334 GAAGTATATG
* * *
17274344 TGGCATCGATATGTGACTCTGATATATATGTGCGAGTAAGTCCACGTTTAATACGT
1 TGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
* * * *
17274400 TGGCATCGATATGTGACTCCGATATATATGTGCAAGTAAGTCCACGTTTAATATGT
1 TGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
17274456 TGGCATCGATATGTGACTCCGATATATGTGTG-GAGTAAGACCACGTTTAATACGT
1 TGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
* * *
17274511 TGGCATCAATATGTGACTCCGATATATGTGTTCTAGTAAGACCACGTTTAATACGT
1 TGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
* *
17274567 TGGCATCGATATATGACTCCGATATATGTGTACGAGT
1 TGGCATCGATATGTGACTCCGATATATGTGTGCGAGT
17274604 GTGACCCTGT
Statistics
Matches: 189, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
55 50 0.26
56 139 0.74
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.33
Consensus pattern (56 bp):
TGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
Found at i:17274503 original size:111 final size:112
Alignment explanation
Indices: 17274339--17274603 Score: 417
Period size: 111 Copynumber: 2.4 Consensus size: 112
17274329 ACCTGGAAGT
* * *
17274339 ATATG-TGGCATCGATATGTGACTCTGATATATATGTGCGAGTAAGTCCACGTTTAATACGTTGG
1 ATATGTTGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGG
* *
17274403 CATCGATATGTGACTCCGATATATATGTGCAAGTAAGTCCACGTTTA
66 CATCAATATGTGACTCCGATATATATGTGCAAGTAAGACCACGTTTA
17274450 ATATGTTGGCATCGATATGTGACTCCGATATATGTGTG-GAGTAAGACCACGTTTAATACGTTGG
1 ATATGTTGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGG
* * *
17274514 CATCAATATGTGACTCCGATATATGTGTTCTAGTAAGACCACGTTTA
66 CATCAATATGTGACTCCGATATATATGTGCAAGTAAGACCACGTTTA
* * *
17274561 ATACGTTGGCATCGATATATGACTCCGATATATGTGTACGAGT
1 ATATGTTGGCATCGATATGTGACTCCGATATATGTGTGCGAGT
17274604 GTGACCCTGT
Statistics
Matches: 141, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
111 107 0.76
112 34 0.24
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (112 bp):
ATATGTTGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGG
CATCAATATGTGACTCCGATATATATGTGCAAGTAAGACCACGTTTA
Found at i:17275816 original size:36 final size:36
Alignment explanation
Indices: 17275776--17275846 Score: 133
Period size: 36 Copynumber: 2.0 Consensus size: 36
17275766 ATGACATGTA
17275776 TGTTCTTTGATGATCTATGGGGGAATATGAAAGTTT
1 TGTTCTTTGATGATCTATGGGGGAATATGAAAGTTT
*
17275812 TGTTCTTTGATGATTTATGGGGGAATATGAAAGTT
1 TGTTCTTTGATGATCTATGGGGGAATATGAAAGTT
17275847 AGATGTGTGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.25, C:0.04, G:0.28, T:0.42
Consensus pattern (36 bp):
TGTTCTTTGATGATCTATGGGGGAATATGAAAGTTT
Found at i:17277629 original size:32 final size:30
Alignment explanation
Indices: 17277586--17277656 Score: 106
Period size: 30 Copynumber: 2.3 Consensus size: 30
17277576 CACACAGATA
*
17277586 GACACACGGGTGTGTGTGTCTAGGCTGTCTTT
1 GACACAC-GG-GTGTGTGTCTAGGCTGTCTGT
*
17277618 GACACATGGGTGTGTGTCTAGGCTGTCTGT
1 GACACACGGGTGTGTGTCTAGGCTGTCTGT
17277648 GACACACGG
1 GACACACGG
17277657 TCAGCCCCAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 28 0.78
31 2 0.06
32 6 0.17
ACGTcount: A:0.15, C:0.20, G:0.35, T:0.30
Consensus pattern (30 bp):
GACACACGGGTGTGTGTCTAGGCTGTCTGT
Found at i:17289041 original size:15 final size:15
Alignment explanation
Indices: 17289021--17289095 Score: 53
Period size: 15 Copynumber: 4.7 Consensus size: 15
17289011 CTTTCTCACA
17289021 TCTTTTTCTTTCTCT
1 TCTTTTTCTTTCTCT
17289036 TCTTTTTCTTTTCTCGAT
1 TCTTTTTC-TTTCTC--T
*
17289054 TCCTTTTCACTTTCT-T
1 T-CTTTT-TCTTTCTCT
* *
17289070 TTTTTGTTTTTTCTCT
1 TCTTT-TTCTTTCTCT
*
17289086 TTTTTTTCTT
1 TCTTTTTCTT
17289096 AATTTTATTT
Statistics
Matches: 48, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
15 20 0.42
16 15 0.31
18 2 0.04
19 10 0.21
20 1 0.02
ACGTcount: A:0.03, C:0.21, G:0.03, T:0.73
Consensus pattern (15 bp):
TCTTTTTCTTTCTCT
Found at i:17296220 original size:44 final size:44
Alignment explanation
Indices: 17296157--17296244 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
17296147 AAGATTATTG
* *
17296157 ATAGATAAACAACTTTTACAAAGTTATTTTTGATGAAAATATGA
1 ATAGATAAACAACTTTTACAAAATAATTTTTGATGAAAATATGA
*
17296201 ATAGATAAACAACTTTTACAAAATAATTTTTGATGAAAGTATGA
1 ATAGATAAACAACTTTTACAAAATAATTTTTGATGAAAATATGA
17296245 TTTAGGGACT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (44 bp):
ATAGATAAACAACTTTTACAAAATAATTTTTGATGAAAATATGA
Found at i:17298295 original size:20 final size:20
Alignment explanation
Indices: 17298270--17298307 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
17298260 CTATATAATG
17298270 AAAAATTTTCT-AAGTTCTGT
1 AAAAA-TTTCTAAAGTTCTGT
17298290 AAAAATTTCTAAAGTTCT
1 AAAAATTTCTAAAGTTCT
17298308 TCGTTTAGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (20 bp):
AAAAATTTCTAAAGTTCTGT
Found at i:17300301 original size:40 final size:39
Alignment explanation
Indices: 17300246--17300425 Score: 154
Period size: 40 Copynumber: 4.6 Consensus size: 39
17300236 GCTACTCATT
* *
17300246 CAAATGCCTTTGGGACATAGCCCGGTTATATTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATA-TAACTCGCA
* * *
17300286 CAAATGCCTTCGGGACTTAACCCGGATT-TAATGACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTAT-ATAACTCGCA
* *
17300326 CCAATGCCTTCGGG-CTTAGCCCGGAATTA-GTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG--TTATATAACTCGCA
* * * * *
17300365 AAAATGCCTTC-GGATCTTAGTCCGGATATATCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATATAAC-TCGCA
17300405 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
17300426 GGACATCATT
Statistics
Matches: 112, Mismatches: 19, Indels: 19
0.75 0.13 0.13
Matches are distributed among these distances:
38 4 0.04
39 40 0.36
40 65 0.58
41 3 0.03
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATATAACTCGCA
Found at i:17300346 original size:79 final size:79
Alignment explanation
Indices: 17300248--17300425 Score: 202
Period size: 79 Copynumber: 2.3 Consensus size: 79
17300238 TACTCATTCA
* * * * *
17300248 AATGCCTTTGGGACATAGCCCGG-TTATATTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCAAAAATGCCTTC-GGATCTTAACCCGG
* *
17300311 ATTTAATGACTT-GCACC
64 ATAT-ATCACTTAGCA-C
**
17300328 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCAAAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAAAAATGCCTTCGGATCTTAACCCGGAT
17300392 ATATCACTTAGCAC
66 ATATCACTTAGCAC
*
17300406 AAAGCCTTCGGGACTTAGCC
1 AATGCCTTCGGGACTTAGCC
17300426 GGACATCATT
Statistics
Matches: 84, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
78 21 0.25
79 51 0.61
80 12 0.14
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCAAAAATGCCTTCGGATCTTAACCCGGAT
ATATCACTTAGCAC
Found at i:17308509 original size:79 final size:80
Alignment explanation
Indices: 17308410--17308592 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 80
17308400 TACTCATTCA
* * * *
17308410 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTTGTACAAATGCCTTCGAGA-CTTAACCCGA
1 AATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCG-GATCTTAACCCGA
* *
17308473 ATTTAGTGAC-TCGCACC
64 ATATAGTGACTTAGCA-C
** *
17308490 AATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGAAT
17308554 ATAGTGACTTAGCAC
66 ATAGTGACTTAGCAC
*
17308569 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
17308593 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 2 0.02
79 59 0.66
80 28 0.31
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGAAT
ATAGTGACTTAGCAC
Found at i:17308592 original size:40 final size:40
Alignment explanation
Indices: 17308408--17308592 Score: 198
Period size: 40 Copynumber: 4.7 Consensus size: 40
17308398 GCTACTCATT
* * * *
17308408 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTTGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * * *
17308448 CAAATGCCTTCGAGACTTAACCCGAATTTAGTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
17308488 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * *
17308527 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTGACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
17308568 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
17308593 CATCATTCGA
Statistics
Matches: 119, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 75 0.63
41 12 0.10
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:17311088 original size:23 final size:24
Alignment explanation
Indices: 17311044--17311089 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
17311034 AGCTTCGGAT
*
17311044 AGCCATATAACAGGAAGTTCAAGCG
1 AGCCATAT-ACAGGAAGCTCAAGCG
17311069 AGCCATAT-CAGGAAGCTCAAG
1 AGCCATATACAGGAAGCTCAAG
17311090 AAGAGCCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.60
25 8 0.40
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.15
Consensus pattern (24 bp):
AGCCATATACAGGAAGCTCAAGCG
Found at i:17311106 original size:25 final size:23
Alignment explanation
Indices: 17311044--17311106 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 23
17311034 AGCTTCGGAT
* *
17311044 AGCCATATAACAGGAAGTTCAAGCG
1 AGCCATAT--CAGGAAGCTCAAGAG
17311069 AGCCATATCAGGAAGCTCAAGAAG
1 AGCCATATCAGGAAGCTCAAG-AG
*
17311093 AGCCTATATTAGGA
1 AGCC-ATATCAGGA
17311107 CTCTTATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 12 0.36
24 5 0.15
25 16 0.48
ACGTcount: A:0.40, C:0.19, G:0.24, T:0.17
Consensus pattern (23 bp):
AGCCATATCAGGAAGCTCAAGAG
Found at i:17314269 original size:49 final size:49
Alignment explanation
Indices: 17314212--17314584 Score: 397
Period size: 49 Copynumber: 7.5 Consensus size: 49
17314202 CTAGTACGCA
*
17314212 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * * *** ** * * *
17314261 CAGTAGCCTACACTTAATACTACACACATGACCTAACCATCTGATACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
* * * * * *
17314311 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAATTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACACG
* *
17314362 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTACCCGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * * * ** ** *
17314411 TAGTAGTCTGCGCTTAGTACTACACACGTGACCTAACCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
* * * *
17314461 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCTGGTACGCC
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
17314510 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
17314559 TAGTAAG-CTGCACTTAGTACTACACA
1 TAGT-AGCCTGCACTTAGTACTACACA
17314585 CGTGAGCTCA
Statistics
Matches: 261, Mismatches: 58, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
49 143 0.55
50 81 0.31
51 37 0.14
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:17314389 original size:99 final size:96
Alignment explanation
Indices: 17314212--17314584 Score: 397
Period size: 99 Copynumber: 3.8 Consensus size: 96
17314202 CTAGTACGCA
* * *
17314212 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACACAGTAGCCTACACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
* ** *
17314277 ATACTACACACATGACCTAACCATCTGATACATG
66 GTACT--ACACATGACC-AATTATCTGGTACATG
* * * *
17314311 TAGTAGCCTGCACTTAGTACTACACACGTGATCAAATTTATCGGGTACGCATAGTAGCCTGCACT
1 TAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
* *
17314376 TAGTACTACACATGCGACCAATTACCCGGTACATG
64 TAGTACTACACAT--GACCAATTATCTGGTACATG
* * * ** ** * *
17314411 TAGTAGTCTGCGCTTAGTACTACACACGTGACCTAACCATTTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTATCCGGTACACATAGTAGCCTGCACTT
***
17314476 AGTACTACACATGCAACCAATTATCTGGTACGCC
65 AGTACTACACATG--ACCAATTATCTGGTACATG
* *
17314510 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAAG-CTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGT-AGCCTGCACTT
17314574 AGTACTACACA
65 AGTACTACACA
17314585 CGTGAGCTCA
Statistics
Matches: 229, Mismatches: 37, Indels: 17
0.81 0.13 0.06
Matches are distributed among these distances:
97 1 0.00
98 34 0.15
99 115 0.50
100 45 0.20
101 34 0.15
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (96 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACATGACCAATTATCTGGTACATG
Found at i:17314437 original size:150 final size:147
Alignment explanation
Indices: 17314205--17314585 Score: 575
Period size: 150 Copynumber: 2.6 Consensus size: 147
17314195 AGGCTATCTA
**
17314205 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACACAGTAGCCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAG-CT
* * *
17314270 ACACTTAATACTACACACATGACCTAACCATCTGATACATGTAGTAGCCTGCACTTAGTACTACA
65 GCACTTAGTACTACACACATGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTACA
*
17314335 CACGTG-ATCAAATTTATCGG
130 CA--TGCAACAAA-TTATCGG
* *
17314355 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTACCCGGTACATGTAGTAGTCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAG-CT
* * *
17314420 GCGCTTAGTACTACACACGTGACCTAACCATTTGATACACGTAGTAGCCTGCACTTAGTACTACA
65 GCACTTAGTACTACACACATGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTACA
* *
17314485 CATGCAACCAATTATCTG
130 CATGCAACAAATTATCGG
*
17314503 GTACGCCTAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAAGCT
1 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGT-AGCT
17314568 GCACTTAGTACTACACAC
65 GCACTTAGTACTACACAC
17314586 GTGAGCTCAC
Statistics
Matches: 211, Mismatches: 18, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
148 84 0.40
149 6 0.03
150 121 0.57
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (147 bp):
GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCTG
CACTTAGTACTACACACATGACCTAACCATCTGATACACGTAGTAGCCTGCACTTAGTACTACAC
ATGCAACAAATTATCGG
Found at i:17318274 original size:132 final size:133
Alignment explanation
Indices: 17318113--17318358 Score: 352
Period size: 133 Copynumber: 1.9 Consensus size: 133
17318103 TCTGCCCATA
* *
17318113 TGACCAATTCTAAGCATTCTGTTTCTCAA-TTTTAAGATGCAGGGGACACACGGCCAAACCACAC
1 TGACCAATTCTAAACATTCTGTTTCTCAATTTTTAAGATGCAAGGGACACACGGCCAAACCACAC
* ** * *
17318177 GCCTATGCGTATGGTCGTGTGTGACACATGGTTGAGACACACAAACCACGCCCGTATTTCTACCC
66 GCCCATGCGTATGACCGTGTGTCACACACGGTTGAGACACACAAACCACGCCCGTATTTCTACCC
17318242 GTG
131 GTG
* * * *
17318245 TGACCAATTCTAAATAGTT-TGTTTCTCAATTTTTAAGATGCAAGGGACACATGGCCAAAGCATA
1 TGACCAATTCTAAACA-TTCTGTTTCTCAATTTTTAAGATGCAAGGGACACACGGCCAAACCACA
* *
17318309 CGCCCGTGTGTATGACCGTGTGTCACACACGGTTGAGACACACAAACCAC
65 CGCCCATGCGTATGACCGTGTGTCACACACGGTTGAGACACACAAACCAC
17318359 ATACACATGC
Statistics
Matches: 99, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
132 24 0.24
133 75 0.76
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (133 bp):
TGACCAATTCTAAACATTCTGTTTCTCAATTTTTAAGATGCAAGGGACACACGGCCAAACCACAC
GCCCATGCGTATGACCGTGTGTCACACACGGTTGAGACACACAAACCACGCCCGTATTTCTACCC
GTG
Found at i:17323629 original size:21 final size:21
Alignment explanation
Indices: 17323590--17323630 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
17323580 GAATTTAACG
**
17323590 TCAATTTAATCCATTTCACAC
1 TCAATTTAATCCAACTCACAC
*
17323611 TCAATTTAATTCAACTCACA
1 TCAATTTAATCCAACTCACA
17323631 TCTTGGCAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.27, G:0.00, T:0.37
Consensus pattern (21 bp):
TCAATTTAATCCAACTCACAC
Found at i:17327618 original size:24 final size:24
Alignment explanation
Indices: 17327574--17327619 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
17327564 ATGCTAATCC
*
17327574 ATTATGACTTCTATTAGTTTTATT
1 ATTATGACTTCTATTAATTTTATT
*
17327598 ATTATTACTT-TATTATATTTTA
1 ATTATGACTTCTATTA-ATTTTA
17327620 ATAAAAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (24 bp):
ATTATGACTTCTATTAATTTTATT
Found at i:17344082 original size:12 final size:12
Alignment explanation
Indices: 17344065--17344089 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17344055 CACATTCGGC
17344065 TATATATATAAA
1 TATATATATAAA
17344077 TATATATATAAA
1 TATATATATAAA
17344089 T
1 T
17344090 GTATGCCCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TATATATATAAA
Found at i:17344671 original size:28 final size:28
Alignment explanation
Indices: 17344639--17344708 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
17344629 AATGAGATTG
*
17344639 GCACTAAGTGTGCGAGTTTAATT-GTATA
1 GCACTAAGTGTGCGAGTTTAATTATTA-A
*
17344667 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTATTAA
17344695 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
17344709 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATTAA
Found at i:17352539 original size:27 final size:28
Alignment explanation
Indices: 17352509--17352577 Score: 113
Period size: 27 Copynumber: 2.5 Consensus size: 28
17352499 AATGAGATTG
17352509 GCACTAAGTGTGCGAGTTTAATT-GTAA
1 GCACTAAGTGTGCGAGTTTAATTAGTAA
* *
17352536 GCACTAAGTGTGCGAGTTTGATTATTAA
1 GCACTAAGTGTGCGAGTTTAATTAGTAA
17352564 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
17352578 GACTTACTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTAGTAA
Found at i:17361736 original size:87 final size:82
Alignment explanation
Indices: 17361637--17362034 Score: 227
Period size: 87 Copynumber: 4.6 Consensus size: 82
17361627 CGACGGAGGG
*
17361637 CAGACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGAT-GATTTGGCAT
1 CAGAGACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATAGATTTGGCAT
*
17361701 TCTTGTGTTTACAAGGAA
66 TCTTAT-TTTACAAGGAA
* * * * **
17361719 CAAATCGAAGACATAGCAGATTTGA-CTTCGGATGTTCTCACACCAAAGCAGATCCAAGATAACA
1 C--A--G-AGACATAGCAGATCTAACCTTCAGATGTT-T-ATACTGAAGCAGATCCAAGAT---A
* * * *
17361783 GATCTAGCA-TCTTCATTTCGACAGAGG-G
56 GATTTGGCATTCTT-ATTT-TACA-AGGAA
* * *
17361811 CAGATACATAGCAGATCTAACCTTCAGATGATTT-TACTGAATCAGATCTAAGATAATAGATTTG
1 CAGAGACATAGCAGATCTAACCTTCAGATG-TTTATACTGAAGCAGATCCAAG---ATAGATTTG
* * *
17361875 GC-GTCTCTATATT-CGACGGAGA
62 GCATTCT-TATTTTAC-AAGGA-A
* * * * *
17361897 GCAGACACATAGCAGATTTAACCTTCAGATATTTATACTGAAGTAGATCCAAGATA-ATTTGGTA
1 -CAGAGACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATAGATTTGGCA
* **
17361961 TCCTCGTGTTTACAAGGAGCAAA
65 TTCTTAT-TTTACAA-G-G--AA
* **
17361984 TCAAAGACATAGCAGATCTAACCTTCAGATGTTTACGCTGAAGCAGATCCA
1 -CAGAGACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCA
17362035 TTTACTGTAA
Statistics
Matches: 235, Mismatches: 48, Indels: 61
0.68 0.14 0.18
Matches are distributed among these distances:
82 1 0.00
83 7 0.03
84 12 0.05
85 3 0.01
86 41 0.17
87 116 0.49
88 29 0.12
89 4 0.02
90 1 0.00
91 6 0.03
92 12 0.05
93 3 0.01
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (82 bp):
CAGAGACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATAGATTTGGCAT
TCTTATTTTACAAGGAA
Found at i:17361837 original size:174 final size:179
Alignment explanation
Indices: 17361460--17361884 Score: 508
Period size: 174 Copynumber: 2.4 Consensus size: 179
17361450 CAAACCAAAG
** *
17361460 CATAGCAGATCTGGCCTTCACG-TGTTTACACTGAAGCAGATCCAAGATAACAAGATTTGGCTTC
1 CATAGCAGATCTAACCTTCA-GATGTTTATACTGAAGCAGATCCAAGAT----AGATTTGGCTTC
* * * *
17361524 TCTATCTTCAACGAGGAGAAAATCAAAGACATAGCAGATTTGACTTTTAGATGTTTTTCACATCA
61 TCTATCTTCAACAAGGAGAAAATCAAAGACATAGCAGATTTGACTTTCAGATGTTTCTCACACCA
* * *
17361589 AAGTAGATCCAAGATAACAGATCTGGCATCTCCATATTCGACGGAGGGCAGACA
126 AAGCAGATCCAAGATAACAGATCTAGCATCTCCATATTCGACAGAGGGCAGACA
*
17361643 CATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGAT-GATTTGGCATTCT-TG
1 CATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATAGATTTGGC-TTCTCTA
* * * *
17361706 TGTT-TACAAGGA-ACAAATCGAAGACATAGCAGATTTGAC-TTCGGATG-TTCTCACACCAAAG
65 TCTTCAACAAGGAGA-AAATCAAAGACATAGCAGATTTGACTTTCAGATGTTTCTCACACCAAAG
* *
17361767 CAGATCCAAGATAACAGATCTAGCATCTTCAT-TTCGACAGAGGGCAGATA
129 CAGATCCAAGATAACAGATCTAGCATCTCCATATTCGACAGAGGGCAGACA
* * *
17361817 CATAGCAGATCTAACCTTCAGATGATTT-TACTGAATCAGATCTAAGATAATAGATTTGGCGTCT
1 CATAGCAGATCTAACCTTCAGATG-TTTATACTGAAGCAGATCCAAG---ATAGATTTGGCTTCT
17361881 CTAT
62 CTAT
17361885 ATTCGACGGA
Statistics
Matches: 212, Mismatches: 21, Indels: 23
0.83 0.08 0.09
Matches are distributed among these distances:
174 56 0.26
175 44 0.21
176 7 0.03
177 35 0.17
178 22 0.10
179 4 0.02
182 1 0.00
183 43 0.20
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (179 bp):
CATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATAGATTTGGCTTCTCTAT
CTTCAACAAGGAGAAAATCAAAGACATAGCAGATTTGACTTTCAGATGTTTCTCACACCAAAGCA
GATCCAAGATAACAGATCTAGCATCTCCATATTCGACAGAGGGCAGACA
Found at i:17362111 original size:42 final size:42
Alignment explanation
Indices: 17362060--17362193 Score: 232
Period size: 42 Copynumber: 3.2 Consensus size: 42
17362050 TGGCCCTTAG
* * *
17362060 GCCCATTTCAAAATCACATGTAATGTCAATGGATGTATGGAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
*
17362102 GCCTATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
17362144 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
17362186 GCCCATTT
1 GCCCATTT
17362194 GGGGAACCCA
Statistics
Matches: 87, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 87 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:17362359 original size:25 final size:23
Alignment explanation
Indices: 17362304--17362375 Score: 72
Period size: 25 Copynumber: 3.0 Consensus size: 23
17362294 GCTTTATCAT
**
17362304 ATAACTGTAGGCCTAGCCTCTTTTA
1 ATAACTG-AGGCAAAGCC-CTTTTA
17362329 ATAACTGAGGCAAAGCCCTTTCTA
1 ATAACTGAGGCAAAGCCCTTT-TA
* *
17362353 ATAAACTGGGGCAAAGGCCTTTT
1 AT-AACTGAGGCAAAGCCCTTTT
17362376 CGGTACACTG
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
23 4 0.10
24 13 0.32
25 24 0.59
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (23 bp):
ATAACTGAGGCAAAGCCCTTTTA
Found at i:17363240 original size:27 final size:27
Alignment explanation
Indices: 17363210--17363274 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
17363200 GGGCATATTC
*
17363210 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACA
* * *
17363237 GTCACTTTACCCTACAGGGGCTTTACA
1 GTCATTTTACCATACAAGGGCTTTACA
*
17363264 GTCTTTTTACC
1 GTCATTTTACC
17363275 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACA
Found at i:17363441 original size:27 final size:26
Alignment explanation
Indices: 17363304--17363541 Score: 156
Period size: 27 Copynumber: 8.8 Consensus size: 26
17363294 ATTTCATCCT
* * *
17363304 ACAAGGGTGTTTTGGTAAATCTACAA
1 ACAAGGGTATTTTGGTAATTTTACAA
* * **
17363330 ACCAATGGTATTTTAGTAATTTTGTAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* * *
17363357 ACCAATGGTATTTCT-ATAATTTTTAGAA
1 A-CAAGGGTATTT-TGGTAA-TTTTACAA
* **
17363385 AGTCAAGGGTATTTCT-GAAATTTTGTAA
1 A--CAAGGGTATTT-TGGTAATTTTACAA
17363413 ATCAAGGGTATTTTGGTAATTTTACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
** * *
17363440 ATTTAGGGTATTTCGGTAATTTCACAA
1 A-CAAGGGTATTTTGGTAATTTTACAA
* **
17363467 ACCAGTGGTATTTCAGTAATTTTACAA
1 ACAAG-GGTATTTTGGTAATTTTACAA
*
17363494 ACTAGGGGTATTTTGGTAATTTTACAA
1 AC-AAGGGTATTTTGGTAATTTTACAA
*
17363521 ACTAGGGGTATTTTGGTAATT
1 AC-AAGGGTATTTTGGTAATT
17363542 CTATCCTACA
Statistics
Matches: 174, Mismatches: 31, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
26 4 0.02
27 140 0.80
28 16 0.09
29 14 0.08
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (26 bp):
ACAAGGGTATTTTGGTAATTTTACAA
Found at i:17363611 original size:27 final size:27
Alignment explanation
Indices: 17363572--17363742 Score: 182
Period size: 27 Copynumber: 6.3 Consensus size: 27
17363562 GTAATTTCAC
*
17363572 AATCGAGGATAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
17363599 AA-CTGAGGGTAAAATGATAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* * *
17363626 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
17363653 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * * *
17363680 AATTGATGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * **
17363707 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTGTA
17363734 AATCGAGGG
1 AATCGAGGG
17363743 CATTTCAGTA
Statistics
Matches: 121, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 1 0.01
27 119 0.98
28 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:17363632 original size:54 final size:53
Alignment explanation
Indices: 17363572--17363728 Score: 208
Period size: 54 Copynumber: 2.9 Consensus size: 53
17363562 GTAATTTCAC
* *
17363572 AATCGAGGATAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATGATAATTTTGTA
1 AATCGAGG-TAAAACGGTAATTCTATAAATC-GAGGGTAAAATGATAATTTTGTA
* *
17363626 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTA
1 AATCGA-GGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGATAATTTTGTA
* * *
17363680 AATTGATGGTGAAACGGTAATTCTATAAATCGAGGGTAAAATGGTAATT
1 AATCGA-GGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGATAATT
17363729 CTACAAATCG
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
54 88 0.97
55 3 0.03
ACGTcount: A:0.40, C:0.06, G:0.23, T:0.31
Consensus pattern (53 bp):
AATCGAGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGATAATTTTGTA
Found at i:17363674 original size:81 final size:81
Alignment explanation
Indices: 17363572--17363742 Score: 252
Period size: 81 Copynumber: 2.1 Consensus size: 81
17363562 GTAATTTCAC
* * * * *
17363572 AATCGAGGATAAAACGGTAATTTTGTAAACTGAGGGTAAAATGATAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTAAAACGATAATTCTATAAATCGAGGGTA
*
17363637 AAATGGTAATTCTATA
66 AAATGGTAATTCTACA
* * * *
17363653 AATCGAGGGTAAAACGATAATTTTGTAAATTGATGGTGAAACGGTAATTCTATAAATCGAGGGTA
1 AATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTAAAACGATAATTCTATAAATCGAGGGTA
17363718 AAATGGTAATTCTACA
66 AAATGGTAATTCTACA
17363734 AATCGAGGG
1 AATCGAGGG
17363743 CATTTCAGTA
Statistics
Matches: 80, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAACGATAATTTTGTAAACTGAGGGTAAAACGATAATTCTATAAATCGAGGGTA
AAATGGTAATTCTACA
Found at i:17370980 original size:32 final size:32
Alignment explanation
Indices: 17370936--17370998 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
17370926 TGTGGGTACA
17370936 ATAACTCAACATTCACTTGTCACTTTATTACG
1 ATAACTCAACATTCACTTGTCACTTTATTACG
* *
17370968 ATAACTCGACATTTACTTGTCACTTTATTAC
1 ATAACTCAACATTCACTTGTCACTTTATTAC
17370999 TTGTTGTGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.30, C:0.24, G:0.06, T:0.40
Consensus pattern (32 bp):
ATAACTCAACATTCACTTGTCACTTTATTACG
Found at i:17372959 original size:81 final size:80
Alignment explanation
Indices: 17372822--17373016 Score: 300
Period size: 81 Copynumber: 2.4 Consensus size: 80
17372812 TTATTCAAAT
* *
17372822 GATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACTATATCCGGGTTAAGTCCCGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCA-TTTGTGCTAGTGACTATATCCAGGCTAAGTCCCGAAGG
* *
17372887 CATTTGCGCTAGTGAC
65 CATTTGCACGAGTGAC
17372903 GATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACTATATCCAGGCTAAGTCCCGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCA-TTTGTGCTAGTGACTATATCCAGGCTAAGTCCCGAAGG
* *
17372968 CATTTGTACGAGTTAC
65 CATTTGCACGAGTGAC
* *
17372984 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GATATCCGGGCTAAGACCCGAAGGCATTTGTGC
17373017 GATTTGCTAT
Statistics
Matches: 105, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
80 7 0.07
81 98 0.93
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
GATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCAGGCTAAGTCCCGAAGGC
ATTTGCACGAGTGAC
Found at i:17373032 original size:40 final size:40
Alignment explanation
Indices: 17372823--17373016 Score: 289
Period size: 40 Copynumber: 4.8 Consensus size: 40
17372813 TATTCAAATG
*
17372823 ATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* * *
17372864 ATATCCGGGTTAAGTCCCGAAGGCATTTGCGCTAGTGACG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
17372904 ATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* * * *
17372945 ATATCCAGGCTAAGTCCCGAAGGCATTTGTACGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
17372985 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
17373017 GATTTGCTAT
Statistics
Matches: 137, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
40 78 0.57
41 59 0.43
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:17380162 original size:81 final size:80
Alignment explanation
Indices: 17380025--17380219 Score: 309
Period size: 81 Copynumber: 2.4 Consensus size: 80
17380015 TTATTCGGAT
* *
17380025 GATATCCTGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACTATATCCGGGTTAAGTCCCGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCA-TTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
*
17380090 CATTTGCGCTAGTGAC
65 CATTTGCGCGAGTGAC
17380106 GATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCA-TTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGG
* *
17380171 CATTTGTGCGAGTTAC
65 CATTTGCGCGAGTGAC
* *
17380187 TATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GATATCCGGGCTAAGACCCGAAGGCATTTGTGC
17380220 GATTTTCTAT
Statistics
Matches: 106, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
80 7 0.07
81 99 0.93
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
GATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGC
ATTTGCGCGAGTGAC
Found at i:17380235 original size:40 final size:40
Alignment explanation
Indices: 17380026--17380219 Score: 298
Period size: 40 Copynumber: 4.8 Consensus size: 40
17380016 TATTCGGATG
* *
17380026 ATATCCTGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* * *
17380067 ATATCCGGGTTAAGTCCCGAAGGCATTTGCGCTAGTGACG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
17380107 ATATCCGGGCTAAGACCCGAAGGCATTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* *
17380148 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
17380188 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
17380220 GATTTTCTAT
Statistics
Matches: 140, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
40 81 0.58
41 59 0.42
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:17395382 original size:22 final size:22
Alignment explanation
Indices: 17395339--17395380 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
17395329 TGATAATCAT
17395339 TAATATATAATTATATCTATTA
1 TAATATATAATTATATCTATTA
17395361 TAATATAT-ATTA-AT-TATTA
1 TAATATATAATTATATCTATTA
17395380 T
1 T
17395381 TAACTTTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TAATATATAATTATATCTATTA
Found at i:17409789 original size:36 final size:36
Alignment explanation
Indices: 17409738--17409806 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
17409728 GACAAGTTAT
* *
17409738 AGCCAGGGCAGAATCACAGATTGAGACCTCTACCGA
1 AGCCAGGGCACAATCACAGATTGAGACCGCTACCGA
17409774 AGCCAGGGCACAATCACAGATTGAGACCGCTAC
1 AGCCAGGGCACAATCACAGATTGAGACCGCTAC
17409807 GGAATAGCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.33, C:0.29, G:0.25, T:0.13
Consensus pattern (36 bp):
AGCCAGGGCACAATCACAGATTGAGACCGCTACCGA
Found at i:17411822 original size:37 final size:37
Alignment explanation
Indices: 17411780--17411858 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
17411770 TTATTACGAA
* * *
17411780 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
17411817 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
17411854 GTCTT
1 GTCTT
17411859 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:17412064 original size:47 final size:47
Alignment explanation
Indices: 17412021--17412449 Score: 671
Period size: 47 Copynumber: 9.1 Consensus size: 47
17412011 TTGGCCACTC
* *
17412021 GGCCTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
* * **
17412068 GGCCTTATCACATATATACACTTTCACATTCATCACATCAGCTGTTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
* * *
17412115 GGCCTTATCACACACATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
* *
17412162 GGCCTTATCACACACATACACTTTCACATTCATCACATCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
* *
17412209 GGCC-TATCACACATATACACTTTCACATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
* * *
17412255 GGCCTTATCACACATATACACTTTCGCATTCATCACGTCGGCTATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
*
17412302 GGCCTTATCACACATATACACTTTCGCATTCATCACATCGGCCATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
**
17412349 GGCCTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
*
17412396 GGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
17412443 GGCCTTA
1 GGCCTTA
17412450 CTATCATTTC
Statistics
Matches: 362, Mismatches: 19, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
46 44 0.12
47 318 0.88
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.31
Consensus pattern (47 bp):
GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTA
Found at i:17412398 original size:234 final size:234
Alignment explanation
Indices: 17412021--17412447 Score: 692
Period size: 234 Copynumber: 1.8 Consensus size: 234
17412011 TTGGCCACTC
* * *
17412021 GGCCTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATA
**
17412086 CACTTTCACATTCATCACATCAGCTGTTAGGCCTTATCACACACATACACTTTCACATTCATCAC
66 CACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACACACATACACTTTCACATTCATCAC
* * *
17412151 GTCGGCTATTAGGCCTTATCACACACATACACTTTCACATTCATCACATCGGCTATTAGGCCTAT
131 ATCGGCCATTAGGCCTTATCACACACATACACTTTCACATTCATCACATCGGCCATTAGGCCTAT
17412216 CACACATATACACTTTCACATTCATCACGTCGGCTATTA
196 CACACATATACACTTTCACATTCATCACGTCGGCTATTA
* * *
17412255 GGCCTTATCACACATATACACTTTCGCATTCATCACGTCGGCTATTAGGCCTTATCACACATATA
1 GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATA
* * ** *
17412320 CACTTTCGCATTCATCACATCGGCCATTAGGCCTTATCACGTATATACACTTTCACATTCATCAC
66 CACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACACACATACACTTTCACATTCATCAC
* *
17412385 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
131 ATCGGCCATTAGGCCTTATCACACACATACACTTTCACATTCATCACATCGGCCATTAGGCCT
17412448 TACTATCATT
Statistics
Matches: 175, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
234 175 1.00
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.31
Consensus pattern (234 bp):
GGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATATA
CACTTTCACATTCATCACATCAGCCATTAGGCCTTATCACACACATACACTTTCACATTCATCAC
ATCGGCCATTAGGCCTTATCACACACATACACTTTCACATTCATCACATCGGCCATTAGGCCTAT
CACACATATACACTTTCACATTCATCACGTCGGCTATTA
Found at i:17415899 original size:40 final size:40
Alignment explanation
Indices: 17415854--17416048 Score: 257
Period size: 40 Copynumber: 4.9 Consensus size: 40
17415844 CGAATACACG
* * * *
17415854 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGACATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
* * * ** *
17415894 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
* * *
17415934 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
*
17415974 TCACTAGCATGAATGCTCTTC-GGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
17416013 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGA
17416049 CATCATTCAA
Statistics
Matches: 137, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
39 38 0.28
40 99 0.72
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATATA
Found at i:17416446 original size:43 final size:43
Alignment explanation
Indices: 17416385--17416487 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
17416375 TGCATTTCAA
17416385 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
17416428 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
17416471 GCTCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
17416488 TGAAAACCAA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:17418388 original size:37 final size:37
Alignment explanation
Indices: 17418338--17418416 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
17418328 TTATTACGAA
* * *
17418338 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
17418375 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
17418412 GTCTT
1 GTCTT
17418417 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:17418622 original size:47 final size:47
Alignment explanation
Indices: 17418535--17419053 Score: 794
Period size: 47 Copynumber: 11.1 Consensus size: 47
17418525 CCTTTCGGGA
* * * * * * * * *
17418535 CTTATCACATTTATGCACTTCCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17418582 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17418629 CTTATCACATATATACACTTTCACATTC-TCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
17418674 CTTATCAC--ACATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17418719 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
17418766 CTTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
17418813 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17418860 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
17418907 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17418954 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17419001 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
17419050 CTTA
1 CTTA
17419054 CTATCATTTC
Statistics
Matches: 444, Mismatches: 22, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
43 17 0.04
44 8 0.02
45 31 0.07
46 9 0.02
47 336 0.76
49 43 0.10
ACGTcount: A:0.28, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:17424785 original size:40 final size:40
Alignment explanation
Indices: 17424737--17424942 Score: 299
Period size: 40 Copynumber: 5.2 Consensus size: 40
17424727 GGACTAAGAT
17424737 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * * *
17424777 CCGAAGGCATTTGTGCTAGTTACTATGTCTGGGCTACGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * *
17424817 TCGGAGGCATTTGTGCTAGTGACTATATCCGAGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
17424857 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
17424897 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
17424936 CCGAAGG
1 CCGAAGG
17424943 TACTTGGGTT
Statistics
Matches: 147, Mismatches: 18, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
39 15 0.10
40 130 0.88
41 2 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:17431474 original size:13 final size:13
Alignment explanation
Indices: 17431456--17431482 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17431446 GCATATTATA
17431456 AACATTTTGTGTT
1 AACATTTTGTGTT
17431469 AACATTTTGTGTT
1 AACATTTTGTGTT
17431482 A
1 A
17431483 GAAATAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.26, C:0.07, G:0.15, T:0.52
Consensus pattern (13 bp):
AACATTTTGTGTT
Found at i:17432961 original size:40 final size:40
Alignment explanation
Indices: 17432876--17433080 Score: 344
Period size: 40 Copynumber: 5.2 Consensus size: 40
17432866 GGACTAAGAT
*
17432876 CCGAAGGCATTTGTGCTAGTGACTATAT-CTGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
17432915 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
17432955 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
17432995 CCGAAGGCATTTGTGCTAGTGATTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
17433035 CCGAAGGCATTTGTGCTAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
17433074 CCGAAGG
1 CCGAAGG
17433081 TACTTCTGTT
Statistics
Matches: 158, Mismatches: 6, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
39 42 0.27
40 114 0.72
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.26, T:0.29
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:17434649 original size:31 final size:31
Alignment explanation
Indices: 17434608--17434691 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
17434598 CTAGTCTTGA
17434608 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
* * *
17434638 CATATCACTGGGTCGCAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTCCATAAAT
17434669 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
17434692 ATGTAAACGG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.10
31 43 0.90
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTCCATAAAT
Found at i:17434761 original size:42 final size:42
Alignment explanation
Indices: 17434714--17434805 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
17434704 TGGCCCTTAG
*
17434714 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
17434756 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
17434798 GCCCATTT
1 GCCCATTT
17434806 GGGGAGACTA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.32
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:17435920 original size:33 final size:33
Alignment explanation
Indices: 17435883--17435949 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
17435873 TATAGGGACT
17435883 TTACGGTCTTTTTACCTATTAAGGGTATTTTAG
1 TTACGGTCTTTTTACCTATTAAGGGTATTTTAG
*
17435916 TTACGGTCTTTTTACCTATTAGGGGTATTTTAG
1 TTACGGTCTTTTTACCTATTAAGGGTATTTTAG
17435949 T
1 T
17435950 CATTTCATCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.49
Consensus pattern (33 bp):
TTACGGTCTTTTTACCTATTAAGGGTATTTTAG
Found at i:17436123 original size:27 final size:27
Alignment explanation
Indices: 17435963--17436198 Score: 199
Period size: 27 Copynumber: 8.7 Consensus size: 27
17435953 TTCATCCTAC
* * * * *
17435963 AAGGGTGTTTTCGTAAATCTACAAACC
1 AAGGGTATTTTGGTAATTTTACAAACT
* **
17435990 AAGGGTATTTTAGTAATTTTGTAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
* * * *
17436017 AATGGTATTTCT-ATAATTTTTAGAAAGTT
1 AAGGGTATTT-TGGTAA-TTTTACAAA-CT
* ** *
17436046 AATGGTATTTCT-GTAATTTTGTAAACC
1 AAGGGTATTT-TGGTAATTTTACAAACT
* *
17436073 AGGGGTATTTTGGTAATTTTACAAATT
1 AAGGGTATTTTGGTAATTTTACAAACT
* *
17436100 AAGGGTATTTCGGTAATTTCACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
*
17436127 -AGTGGTATTTCGGTAATTTTACAAACT
1 AAG-GGTATTTTGGTAATTTTACAAACT
*
17436154 AGGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTTGGTAATTTTACAAACT
*
17436181 AGGGGTATTTTGGTAATT
1 AAGGGTATTTTGGTAATT
17436199 CTATCCTATA
Statistics
Matches: 173, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
26 3 0.02
27 138 0.80
28 16 0.09
29 16 0.09
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.41
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTACAAACT
Found at i:17436134 original size:54 final size:54
Alignment explanation
Indices: 17436034--17436238 Score: 214
Period size: 54 Copynumber: 3.8 Consensus size: 54
17436024 TTTCTATAAT
* * * *** *
17436034 TTTTAGAAAGTTAATGGTATTTCTGTAATTTTGTAAACCAGGGGTATTTTGGTAA
1 TTTTACAAA-TTAAGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTTGGTAA
* *
17436089 TTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACTAGTGGTATTTCGGTAA
1 TTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTTGGTAA
* * * *
17436143 TTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAA
1 TTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTTGGTAA
* ** * * *
17436197 TTCTATCCTA-TAGGGGTATTTCAGTAATTTCACAATCTAGGG
1 TTTTA-CAAATTAAGGGTATTTCGGTAATTTCACAAACTAGGG
17436239 TAAAACGATA
Statistics
Matches: 127, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
54 117 0.92
55 10 0.08
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.40
Consensus pattern (54 bp):
TTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACTAGGGGTATTTTGGTAA
Found at i:17436166 original size:81 final size:81
Alignment explanation
Indices: 17435982--17436198 Score: 254
Period size: 81 Copynumber: 2.7 Consensus size: 81
17435972 TTCGTAAATC
* * ** * ** * * *
17435982 TACAAACCAAGGGTATTTTAGTAATTTTGTAAACTAATGGTATTTCTATAATTTTTAGAAAGTTA
1 TACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAA-TTTCACAAA-CTA
* *
17436047 ATGGTATTTCTGTAATTT
64 GTGGTATTTCGGTAATTT
** *
17436065 TGTAAACCAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACTAGT
1 TACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACTAGT
17436130 GGTATTTCGGTAATTT
66 GGTATTTCGGTAATTT
* * *
17436146 TACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATT
1 TACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATT
17436199 CTATCCTATA
Statistics
Matches: 113, Mismatches: 21, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
81 65 0.58
82 7 0.06
83 41 0.36
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.41
Consensus pattern (81 bp):
TACAAACCAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACTAGT
GGTATTTCGGTAATTT
Found at i:17436215 original size:81 final size:81
Alignment explanation
Indices: 17436049--17436238 Score: 231
Period size: 81 Copynumber: 2.3 Consensus size: 81
17436039 GAAAGTTAAT
* ** * *
17436049 GGTATTTCTGTAATTTTGTAAACCAGGGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGT
1 GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGT
*
17436114 AATTTCACAAACTAGT
66 AATTTCACAAACTAGG
* * *
17436130 GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGT
1 GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGT
**
17436195 AA-TTCTATCCTA-TAGG
66 AATTTC-A-CAAACTAGG
* *
17436211 GGTATTTCAGTAATTTCACAATCTAGGG
1 GGTATTTCAGTAATTTTACAAACTAGGG
17436239 TAAAACGATA
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
80 3 0.03
81 89 0.95
82 2 0.02
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (81 bp):
GGTATTTCAGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAAGGGTATTTCGGT
AATTTCACAAACTAGG
Found at i:17436237 original size:27 final size:27
Alignment explanation
Indices: 17436049--17436238 Score: 186
Period size: 27 Copynumber: 7.0 Consensus size: 27
17436039 GAAAGTTAAT
* *** *
17436049 GGTATTTCTGTAATTTTGTAAACCAGG
1 GGTATTTCGGTAATTTCACAAACTAGG
* * * *
17436076 GGTATTTTGGTAATTTTACAAATTAAG
1 GGTATTTCGGTAATTTCACAAACTAGG
*
17436103 GGTATTTCGGTAATTTCACAAACTAGT
1 GGTATTTCGGTAATTTCACAAACTAGG
*
17436130 GGTATTTCGGTAATTTTACAAACTAGG
1 GGTATTTCGGTAATTTCACAAACTAGG
* *
17436157 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTCGGTAATTTCACAAACTAGG
* **
17436184 GGTATTTTGGTAA-TTCTATCCTA-TAGG
1 GGTATTTCGGTAATTTC-A-CAAACTAGG
* *
17436211 GGTATTTCAGTAATTTCACAATCTAGG
1 GGTATTTCGGTAATTTCACAAACTAGG
17436238 G
1 G
17436239 TAAAACGATA
Statistics
Matches: 136, Mismatches: 23, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
26 3 0.02
27 128 0.94
28 5 0.04
ACGTcount: A:0.28, C:0.11, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTATTTCGGTAATTTCACAAACTAGG
Found at i:17436250 original size:26 final size:25
Alignment explanation
Indices: 17436221--17436305 Score: 73
Period size: 27 Copynumber: 3.2 Consensus size: 25
17436211 GGTATTTCAG
*
17436221 TAATTTCACAATCTAGGGTAAAACGA
1 TAATTTTA-AATCTAGGGTAAAACGA
* *
17436247 TAATTTTGTAAA-CTGAGGGTAAAATGG
1 TAA-TTT-TAAATCT-AGGGTAAAACGA
*
17436274 TAATTTTGTAAATCGAGGGTAAAACGA
1 TAA-TTT-TAAATCTAGGGTAAAACGA
17436301 TAATT
1 TAATT
17436306 CTATAAATTG
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
26 7 0.14
27 40 0.82
28 2 0.04
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (25 bp):
TAATTTTAAATCTAGGGTAAAACGA
Found at i:17436267 original size:27 final size:26
Alignment explanation
Indices: 17436235--17436321 Score: 111
Period size: 27 Copynumber: 3.2 Consensus size: 26
17436225 TTCACAATCT
17436235 AGGGTAAAACGATAATTTTGTAAACTG
1 AGGGTAAAACGATAATTTTGTAAA-TG
* *
17436262 AGGGTAAAATGGTAATTTTGTAAATCG
1 AGGGTAAAACGATAATTTTGTAAAT-G
* *
17436289 AGGGTAAAACGATAATTCTATAAATTG
1 AGGGTAAAACGATAATTTTGTAAA-TG
17436316 AGGGTA
1 AGGGTA
17436322 CTTTGGTAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.02
27 50 0.96
28 1 0.02
ACGTcount: A:0.40, C:0.06, G:0.24, T:0.30
Consensus pattern (26 bp):
AGGGTAAAACGATAATTTTGTAAATG
Found at i:17436344 original size:54 final size:53
Alignment explanation
Indices: 17436220--17436346 Score: 148
Period size: 54 Copynumber: 2.4 Consensus size: 53
17436210 GGGTATTTCA
* * * *
17436220 GTAATTTCACAATCTAGGGTAAAACGATAATTTTGTAAACTGAGGGTAAAATG
1 GTAATTTTACAATCGAGGGTAAAACGATAATTCTATAAACTGAGGGTAAAATG
* ***
17436273 GTAATTTTGTA-AATCGAGGGTAAAACGATAATTCTATAAATTGAGGGTACTTTG
1 GTAA-TTT-TACAATCGAGGGTAAAACGATAATTCTATAAACTGAGGGTAAAATG
17436327 GTAATTTTACAAGTCGAGGG
1 GTAATTTTACAA-TCGAGGG
17436347 CATTTCAATA
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
52 2 0.03
53 9 0.15
54 50 0.81
55 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (53 bp):
GTAATTTTACAATCGAGGGTAAAACGATAATTCTATAAACTGAGGGTAAAATG
Found at i:17452966 original size:50 final size:49
Alignment explanation
Indices: 17452900--17453142 Score: 204
Period size: 50 Copynumber: 4.9 Consensus size: 49
17452890 CATTGTGAGT
* * * * *
17452900 ACACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCATATTGTTAAG
1 ACACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTGTT-GG
* * * * *
17452950 ACGCATGTGTAGTACTAAGTGCATGCTACTATGCGTATTCA-A-TGACTTCG
1 ACACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATTG--TTGG
* * * *
17453000 ATCACGTGTGTAGTACTAAGCGCAGGCTACTACGTGTATCAGATGGTGAGG
1 A-CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTGT-TGG
* *
17453051 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAGGATTGTTGG
1 ACACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA-GATTGTTGG
* * * * * *
17453100 TCGCATGTGTACTACTAAGTGCAGGCTACCATGCGTATCAGAT
1 ACACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
17453143 AGCTTCGGCT
Statistics
Matches: 157, Mismatches: 27, Indels: 19
0.77 0.13 0.09
Matches are distributed among these distances:
49 40 0.25
50 80 0.51
51 36 0.23
52 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
ACACATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATTGTTGG
Found at i:17460445 original size:50 final size:50
Alignment explanation
Indices: 17460370--17460595 Score: 226
Period size: 50 Copynumber: 4.5 Consensus size: 50
17460360 TGAGTACACG
* *
17460370 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACTGTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
* * * * *
17460420 TGTGTAGTACTAAGTGCAGGCTACTATGCGTATTCAATGACT-TCAA-TCACG
1 TGTGTAGTACTAAGTGCAGGCTACTA--CGTGTACCA-GACTGTTAAGTCACA
* * * * * **
17460471 TGTGTAGTACTAACTGCAGGCTACTACATGTATCAGA-TGGTGAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GTTAAGTCACA
* * * *
17460521 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
17460570 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
17460596 TGCGTATCAG
Statistics
Matches: 145, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 36 0.25
50 65 0.45
51 29 0.20
52 9 0.06
53 3 0.02
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTAAGTCACA
Found at i:17461746 original size:13 final size:13
Alignment explanation
Indices: 17461728--17461754 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17461718 TAAGGTCAAG
17461728 TAAATGTGTGAAT
1 TAAATGTGTGAAT
17461741 TAAATGTGTGAAT
1 TAAATGTGTGAAT
17461754 T
1 T
17461755 CATGTTTTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (13 bp):
TAAATGTGTGAAT
Found at i:17466066 original size:48 final size:48
Alignment explanation
Indices: 17465995--17466366 Score: 498
Period size: 48 Copynumber: 7.8 Consensus size: 48
17465985 ACTGTATTAA
**
17465995 ATGTGCCTA-TGTAAGACCATGTCTGGGACATGGCATCAACGATGATAT
1 ATGTGCC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* *
17466043 ATGTGCCAGTGTAAGACTATGTCTAGGACATGGCATCGGCGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* *
17466091 ATGTGCCTGTGTAAGACCATGTCTGGGGCATGGCATCGGCGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* *
17466139 GTGTGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGCGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* *
17466187 ATGTTCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * * *
17466235 ATGTGCCTGTGTAAGACCATGTCTAGGACATGGCATCGACAATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * * *
17466283 GTATGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
* * * *
17466331 GTG-GATTCA-TGTAAGACCATGTCGGGGATATGGCAT
1 ATGTG--CCAGTGTAAGACCATGTCTGGGACATGGCAT
17466367 TGGTACTTTA
Statistics
Matches: 288, Mismatches: 33, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
47 2 0.01
48 285 0.99
49 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (48 bp):
ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATAT
Found at i:17475067 original size:48 final size:48
Alignment explanation
Indices: 17474988--17475301 Score: 416
Period size: 48 Copynumber: 6.5 Consensus size: 48
17474978 ACTGTGCTAA
*
17474988 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
* **
17475036 ATGTACCAGTGTAAGACCATGTCCAGGACATGGCATC-AGCGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA-CGATGATAT
* * **
17475084 ACGTGCCAGTGTAAGATCATGTCTGGGATGTGGCATCGACGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
* *
17475132 ATGTGCCAGTGTAAGACCATGTGTGGGACATGGCATCGGCGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
**
17475180 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
* * * ** * *
17475228 GTATGCCTGCATAAGAACATGTCTGGGACATGGCATCTG-CAATGATAT
1 ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACGATGATAT
*
17475276 GTGTGCCAGTGTAAGACCATGTCTGG
1 ATGTGCCAGTGTAAGACCATGTCTGG
17475302 TGTAACACCC
Statistics
Matches: 231, Mismatches: 32, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
47 1 0.00
48 228 0.99
49 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (48 bp):
ATGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
Found at i:17484100 original size:39 final size:40
Alignment explanation
Indices: 17483890--17484120 Score: 315
Period size: 40 Copynumber: 5.8 Consensus size: 40
17483880 GGATATAACT
* * *
17483890 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
17483930 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
17483970 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
17484010 ATTCGCACAAATGCCTTCGGGACTTAGCCCAGG-TTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCC-GGATTTAGTA
* * *
17484050 ACTCGCACAGATGCCTTCGGCACTTAGCCCGGA-TTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* ** *
17484089 ACTAGTGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
17484121 TTTTCATCCA
Statistics
Matches: 174, Mismatches: 14, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 35 0.20
40 135 0.78
41 4 0.02
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:17488775 original size:43 final size:42
Alignment explanation
Indices: 17488657--17488793 Score: 161
Period size: 43 Copynumber: 3.2 Consensus size: 42
17488647 CCTTACATAC
* *
17488657 AATCACATATCGATGCCATTGTCCCAGACAG-GGTCTTATACG
1 AATCACATATCGATGCCAATGTCCCAGAC-GTGGTCTTACACG
* * *
17488699 AATCAAATA-CGATGTCAATGTCCCAGACATGGTCTTACACG
1 AATCACATATCGATGCCAATGTCCCAGACGTGGTCTTACACG
* *
17488740 TAATCACATATCGATGCCAACGTCCCAAACGTGGTCTTACACG
1 -AATCACATATCGATGCCAATGTCCCAGACGTGGTCTTACACG
*
17488783 AGAACACATAT
1 A-ATCACATAT
17488794 GTATCCTAGC
Statistics
Matches: 80, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
41 27 0.34
42 17 0.21
43 36 0.45
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (42 bp):
AATCACATATCGATGCCAATGTCCCAGACGTGGTCTTACACG
Found at i:17494010 original size:46 final size:46
Alignment explanation
Indices: 17493957--17494129 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
17493947 TGGTTGAGCA
*
17493957 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * * * *
17494003 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
**
17494048 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* *
17494096 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
17494130 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 4 0.04
45 4 0.04
46 60 0.58
47 28 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:17494113 original size:93 final size:93
Alignment explanation
Indices: 17493954--17494124 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
17493944 GGATGGTTGA
* *** *
17493954 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
17494019 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
17494047 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
17494112 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
17494125 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:17514513 original size:18 final size:18
Alignment explanation
Indices: 17514490--17514524 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
17514480 TAAGTCGAAC
17514490 TGGGCTGTGT-GGGCCCAA
1 TGGGCT-TGTAGGGCCCAA
17514508 TGGGCTTGTAGGGCCCA
1 TGGGCTTGTAGGGCCCA
17514525 CGTGGATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.11, C:0.23, G:0.43, T:0.23
Consensus pattern (18 bp):
TGGGCTTGTAGGGCCCAA
Found at i:17526286 original size:46 final size:46
Alignment explanation
Indices: 17526216--17526387 Score: 165
Period size: 46 Copynumber: 3.7 Consensus size: 46
17526206 TCGACATCCA
17526216 AACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCG
1 AACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCG
* * * * *
17526262 AACTCATTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAAC---G--TCCG
* * * *
17526309 AGCTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCC
1 AACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCG
*
17526354 AAGCTCGTTGAGTTGAGTCCAAGTTCGCTTATGG
1 AA-CTCGTTGAGTTGAGTCCAAGTTCACTTATGG
17526388 GCGGGTTACA
Statistics
Matches: 100, Mismatches: 16, Indels: 20
0.74 0.12 0.15
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 6 0.06
46 51 0.51
47 26 0.26
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGTCCG
Done.