Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 119 of 332
Found at i:38404704 original size:27 final size:27
Alignment explanation
Indices: 38404509--38404704 Score: 203
Period size: 27 Copynumber: 7.3 Consensus size: 27
38404499 TTGATTGTGA
* * *
38404509 AATTACTGAAATACCCCTGTAGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
** * * *
38404536 AATTTTCAAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
38404563 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
38404590 AATTACCAAAATACCCATGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
38404617 AATTATCAAAATACCCTTGAAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* *
38404644 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
38404671 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
38404698 AATTACC
1 AATTACC
38404705 ATTTTGCCTC
Statistics
Matches: 139, Mismatches: 30, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 139 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:38404946 original size:27 final size:26
Alignment explanation
Indices: 38404903--38404985 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 26
38404893 CGGAGGAAGC
*
38404903 GTTCTGGTGGCTATGCCACCAATATCT
1 GTTCTGGTAGCTATGCCA-CAATATCT
*
38404930 GTTCTGGTAGCTCTGCCACAATATCT
1 GTTCTGGTAGCTATGCCACAATATCT
* * *
38404956 GTATTTGGT-GACTTTGTCACAATATCT
1 GT-TCTGGTAG-CTATGCCACAATATCT
38404983 GTT
1 GTT
38404986 GACCGATCGA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
26 12 0.24
27 37 0.76
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (26 bp):
GTTCTGGTAGCTATGCCACAATATCT
Found at i:38405105 original size:22 final size:22
Alignment explanation
Indices: 38405073--38405131 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
38405063 CCCGTTATTA
*
38405073 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
38405095 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
38405117 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
38405132 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:38405318 original size:27 final size:27
Alignment explanation
Indices: 38405296--38405369 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
38405286 TAGGTGGGTT
*
38405296 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
38405323 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
38405350 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
38405370 CAGTCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:38405521 original size:6 final size:6
Alignment explanation
Indices: 38405512--38405673 Score: 156
Period size: 6 Copynumber: 26.8 Consensus size: 6
38405502 CTGTCACGTA
* * * *
38405512 ATTCTG ATTCTA ATTCTG ATTCTG -TTACTA ATACTG ATTCTG GTTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* *
38405560 ATTCTG -TTACTG ATTCTG ATTCTG ATTCTG -TCACCTA ATTCTG ATTCTG
1 ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
*
38405609 ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG ATTCTG ATTCTG -TTACTG
1 ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG
38405657 ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCT
38405674 CATTTTGGTT
Statistics
Matches: 129, Mismatches: 14, Indels: 26
0.76 0.08 0.15
Matches are distributed among these distances:
5 10 0.08
6 109 0.84
7 8 0.06
8 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:38405627 original size:85 final size:85
Alignment explanation
Indices: 38405487--38405673 Score: 329
Period size: 85 Copynumber: 2.2 Consensus size: 85
38405477 TTGCATTCAC
* *
38405487 ATTCTGATTCTAATTCTGTCACGTAATTCTGATTCTAATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTAATTCTGATTCTGTTACTAATACTGATTC
*
38405552 TGGTTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
* *
38405572 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTAATTCTGATTCTGTTACTAATACTGATTC
38405637 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
38405657 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
38405674 CATTTTGGTT
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 97 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTAATTCTGATTCTGTTACTAATACTGATTC
TGATTCTGATTCTGTTACTG
Found at i:38405691 original size:30 final size:30
Alignment explanation
Indices: 38405487--38405694 Score: 207
Period size: 30 Copynumber: 7.1 Consensus size: 30
38405477 TTGCATTCAC
* * *
38405487 ATTCTGATTCTAATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-CAATTCTG
* * *
38405518 ATTCTAATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
*
38405548 ATTCTGGTTCTGATTCTGTT----A--CTG
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
*
38405572 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACC-AATTCTG
*
38405603 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACCAAT-TCTG
**
38405633 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
* *
38405663 ATTCTGATTCTCATTTTGGTT-CCAATTCTG
1 ATTCTGATTCTGATTCT-GTTACCAATTCTG
38405693 AT
1 AT
38405695 AATGTTTCTT
Statistics
Matches: 152, Mismatches: 15, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
24 21 0.14
26 1 0.01
29 2 0.01
30 81 0.53
31 47 0.31
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACCAATTCTG
Found at i:38408721 original size:31 final size:30
Alignment explanation
Indices: 38408684--38408748 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 30
38408674 ATCCTAGCCT
38408684 ATTGAGCTTGATTCAGCTCGAA-TTTAAGCTC
1 ATTGAGCTTGATTCAGCTC-AACTTT-AGCTC
**
38408715 ATTGAGCTTGATTTGGCTCAACTTTAGCTC
1 ATTGAGCTTGATTCAGCTCAACTTTAGCTC
38408745 ATTG
1 ATTG
38408749 TGCTCGTTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 11 0.35
31 20 0.65
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.38
Consensus pattern (30 bp):
ATTGAGCTTGATTCAGCTCAACTTTAGCTC
Found at i:38410359 original size:40 final size:40
Alignment explanation
Indices: 38410285--38410503 Score: 345
Period size: 40 Copynumber: 5.5 Consensus size: 40
38410275 AACCCAAGTA
* *
38410285 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
38410324 CCTTCGGGACTTAGCCCGGATGTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
38410364 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
38410404 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
38410444 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
38410483 CCTTCGAGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
38410504 GTCATCTGAA
Statistics
Matches: 168, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
39 35 0.21
40 132 0.79
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:38418958 original size:39 final size:40
Alignment explanation
Indices: 38418789--38419025 Score: 291
Period size: 40 Copynumber: 6.0 Consensus size: 40
38418779 TAGCCAGATA
*
38418789 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCTGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
*
38418829 TAGTAACTCGGACAAATGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
* *
38418869 TAGTAACTCACACAAATGCCTTTGGGACTTAACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
* * *
38418909 TAGTAACTCGCACAAATGCCTTCAGG-CTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
* ** *
38418948 TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATA
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATT
* ** * *
38418988 TGGTCTCTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGA
38419026 CATCATTCGA
Statistics
Matches: 175, Mismatches: 18, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
38 2 0.01
39 33 0.19
40 129 0.74
41 11 0.06
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATT
Found at i:38419009 original size:119 final size:120
Alignment explanation
Indices: 38418789--38419025 Score: 300
Period size: 119 Copynumber: 2.0 Consensus size: 120
38418779 TAGCCAGATA
* * * *
38418789 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGGACAAATGCCTTCGG
1 TAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGGAATTAGTAACTCGCACAAATGCCTTCGG
* *
38418854 GACTTAACCCGGATTTAGTAACTCACACAAATGCCTTTGGGACTTAACCCGGATT
66 GACTTAACCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGATT
* *
38418909 TAGTAACTCGCACAAATGCCTTCAGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-G
1 TAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGGAATTAGTAACTCGCACAAATGCCTTCGG
** * ** * *
38418972 GATCTTAGTCCGGATATGGTCTCTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
66 GA-CTTAACCCGGATATAGTAACTCA-CACAAATGCCTTCGGGACTTAACCCGGA
38419026 CATCATTCGA
Statistics
Matches: 100, Mismatches: 15, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
118 3 0.03
119 66 0.66
120 31 0.31
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (120 bp):
TAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGGAATTAGTAACTCGCACAAATGCCTTCGG
GACTTAACCCGGATATAGTAACTCACACAAATGCCTTCGGGACTTAACCCGGATT
Found at i:38420218 original size:56 final size:56
Alignment explanation
Indices: 38420152--38420383 Score: 437
Period size: 56 Copynumber: 4.1 Consensus size: 56
38420142 TATTAGTTTA
38420152 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
38420208 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
38420264 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACACCATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
* *
38420320 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAGCATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
38420376 TTGCCCAT
1 TTGCCCAT
38420384 CATCCCTTGT
Statistics
Matches: 173, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 173 1.00
ACGTcount: A:0.22, C:0.24, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:38423330 original size:68 final size:67
Alignment explanation
Indices: 38423258--38423404 Score: 165
Period size: 67 Copynumber: 2.2 Consensus size: 67
38423248 TATCATGTGT
* * * *
38423258 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
38423320 ATGTAG
62 ATGTAG
** * *
38423326 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
38423391 AG
66 AG
38423393 ACAAGAGAGCTA
1 ACAAGAGAGCTA
38423405 TGAGATAAAC
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 24 0.35
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.22
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:38423363 original size:64 final size:64
Alignment explanation
Indices: 38423282--38423465 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
38423272 AGACATTATG
* *
38423282 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * * *
38423346 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTATGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
38423411 AA
63 AA
* * * *
38423413 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
38423466 CGAACTATAT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 21 0.22
65 8 0.08
66 16 0.16
67 30 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:38425448 original size:47 final size:47
Alignment explanation
Indices: 38425385--38425688 Score: 437
Period size: 47 Copynumber: 6.4 Consensus size: 47
38425375 CCCTTCGGGA
* * *
38425385 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
38425432 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
38425479 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* * *
38425526 CTTATCACATATATACACTTTCACATTCATCACGTTGGTCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
38425573 CCTATCACATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
38425620 CCTATCACATATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCACTCGGC
* *
38425669 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
38425689 GTACATCAAT
Statistics
Matches: 238, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
47 193 0.81
49 45 0.19
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGC
Found at i:38434516 original size:28 final size:26
Alignment explanation
Indices: 38434449--38434524 Score: 111
Period size: 24 Copynumber: 2.9 Consensus size: 26
38434439 TGCGAGTTAT
*
38434449 TAATTCCGGGTTAAGTCCCGAAGGCC
1 TAATTCCGGGTTAAGTCCCGAAGGAC
38434475 T--TTCCGGGTTAAGTCCCGAAGGATAC
1 TAATTCCGGGTTAAGTCCCGAAGG--AC
38434501 TAATTCCGGGTTAAGTCCCGAAGG
1 TAATTCCGGGTTAAGTCCCGAAGG
38434525 CATTCGTGCG
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
24 21 0.47
26 3 0.07
28 21 0.47
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (26 bp):
TAATTCCGGGTTAAGTCCCGAAGGAC
Found at i:38434589 original size:39 final size:39
Alignment explanation
Indices: 38434505--38434615 Score: 125
Period size: 40 Copynumber: 2.8 Consensus size: 39
38434495 GGATACTAAT
** *
38434505 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTTTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GAACGAGTTCTAAAA
* *
38434545 TCCGGGTTAAGTCCCGAAGGCATTGAATGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTT-CTAAAA
* *
38434585 -CCGGGCTATGTCCCGAAGGCACTTGAACGAG
1 TCCGGGTTAAGTCCCGAAGGCA-TTGAACGAG
38434616 GAGCTAAATC
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
39 25 0.41
40 36 0.59
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGAACGAGTTCTAAAA
Found at i:38442327 original size:40 final size:40
Alignment explanation
Indices: 38442272--38442413 Score: 130
Period size: 40 Copynumber: 3.9 Consensus size: 40
38442262 CGAAGGTATT
* *
38442272 TGCGAGTTATTAATTCCGGGTTAAGTCCCGAAGGCCTTTG
1 TGCGAGATACTAATTCCGGGTTAAGTCCCGAAGGCCTTTG
38442312 TGCGAGATACTAATTCC--G----GT-----AGGCCTTTG
1 TGCGAGATACTAATTCCGGGTTAAGTCCCGAAGGCCTTTG
* *
38442341 TGCGAGATACTAATTCCGGGTTAAGTCCCGAAGGCATTCG
1 TGCGAGATACTAATTCCGGGTTAAGTCCCGAAGGCCTTTG
** *
38442381 TGCGAG-TTTTAA-ACCGGGTTAAGTCCCGAAGGC
1 TGCGAGATACTAATTCCGGGTTAAGTCCCGAAGGC
38442414 ATTGAATGAG
Statistics
Matches: 84, Mismatches: 7, Indels: 24
0.73 0.06 0.21
Matches are distributed among these distances:
29 26 0.31
31 1 0.01
34 2 0.02
35 2 0.02
38 21 0.25
39 4 0.05
40 28 0.33
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
TGCGAGATACTAATTCCGGGTTAAGTCCCGAAGGCCTTTG
Found at i:38442345 original size:29 final size:29
Alignment explanation
Indices: 38442303--38442359 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
38442293 TAAGTCCCGA
38442303 AGGCCTTTGTGCGAGATACTAATTCCGGT
1 AGGCCTTTGTGCGAGATACTAATTCCGGT
38442332 AGGCCTTTGTGCGAGATACTAATTCCGG
1 AGGCCTTTGTGCGAGATACTAATTCCGG
38442360 GTTAAGTCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (29 bp):
AGGCCTTTGTGCGAGATACTAATTCCGGT
Found at i:38450492 original size:40 final size:40
Alignment explanation
Indices: 38450429--38450567 Score: 203
Period size: 40 Copynumber: 3.5 Consensus size: 40
38450419 AACCCAAGTA
* * *
38450429 CCTTCGGGATTTAG-TCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
38450468 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
38450508 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
38450547 CCTTCGGGACTTAGCCCGGAT
1 CCTTCGGGACTTAGCCCGGAT
38450568 GTCATCCGAA
Statistics
Matches: 92, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
39 36 0.39
40 55 0.60
41 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:38454781 original size:48 final size:48
Alignment explanation
Indices: 38454725--38454848 Score: 144
Period size: 48 Copynumber: 2.6 Consensus size: 48
38454715 CTCAATCGAT
* *
38454725 AAGTACCTATACCATGTCTCAAAGCCAAATCAAGGTAACTTATC-CCCA
1 AAGTACCTATACCATGGC-CAAAGCCAAATCAAGGTAACTCATCTCCCA
** * *
38454773 AAGTACCTATACCATGGCCTGTAGCCAAATCAAGGTAACTCATCTTCGA
1 AAGTACCTATACCATGGCC-AAAGCCAAATCAAGGTAACTCATCTCCCA
*
38454822 AA-TACATATACCATGGCCCAAAGCCAA
1 AAGTACCTATACCATGG-CCAAAGCCAA
38454849 CACAATACCC
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
47 1 0.02
48 57 0.89
49 6 0.09
ACGTcount: A:0.37, C:0.28, G:0.13, T:0.22
Consensus pattern (48 bp):
AAGTACCTATACCATGGCCAAAGCCAAATCAAGGTAACTCATCTCCCA
Found at i:38460729 original size:55 final size:54
Alignment explanation
Indices: 38460653--38460897 Score: 229
Period size: 55 Copynumber: 4.6 Consensus size: 54
38460643 ATTAGGGTTT
* * *
38460653 AAGGATACCATGGAAGACCATGTCAAGGCATGGCAATTGGTAAGGTTTTTAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGGTAAGGTTTATAAGGC
* * * *
38460708 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATT-GAAAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGTT--TATAAGGC
* * * * * *
38460763 AAAGG-TCCCATGTAAGACCATGCCAAGGCATCGCATTGGTGA-GTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGTTTATAAGGC
*
38460816 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAA-GTTTCA-AA--C
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGTTT-ATAAGGC
* * *
38460867 --GGATACCACGTAAGACCATGACAAGTCATGG
1 AAGGATACCATGTAAGACCATGTCAAGACATGG
38460898 AAATGGCAAG
Statistics
Matches: 158, Mismatches: 26, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
49 28 0.18
51 1 0.01
52 4 0.03
53 49 0.31
54 4 0.03
55 66 0.42
56 6 0.04
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGTTTATAAGGC
Found at i:38461125 original size:16 final size:16
Alignment explanation
Indices: 38461104--38461134 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38461094 ATAAATTTTA
38461104 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
38461120 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
38461135 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:38468312 original size:55 final size:54
Alignment explanation
Indices: 38468225--38468481 Score: 219
Period size: 55 Copynumber: 4.8 Consensus size: 54
38468215 ATTAGGGTTT
*
38468225 AAGGATACCATGTAAGACCATGCCAACG-CATGGAAATTGGTAAGGTTTTTAAGGC
1 AAGGATACCATGTAAGACCATGCCAA-GACATGG-AATTGGTAAGGTTTATAAGGC
* * * * * * *
38468280 AAGGAAATCATGTAAAACCATGTCAAGACATGGCATT-GAAAAGTTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGGTT--TATAAGGC
* * * * *
38468335 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGT-GGGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGGTTTATAAGGC
* *
38468388 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAA-GTTT-CAA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGG-AATTGGTAAGGTTTATAAGGC
* * * *
38468437 AAGGATACCACGTAAGACCATGACAAGTCATGGAAATGGTAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGGT
38468482 ACCCGTGTAT
Statistics
Matches: 164, Mismatches: 28, Indels: 25
0.76 0.13 0.12
Matches are distributed among these distances:
48 2 0.01
49 36 0.22
50 2 0.01
52 6 0.04
53 45 0.27
54 5 0.03
55 63 0.38
56 5 0.03
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGAATTGGTAAGGTTTATAAGGC
Found at i:38468691 original size:16 final size:16
Alignment explanation
Indices: 38468670--38468700 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38468660 ATAAATTTTA
38468670 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
38468686 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
38468701 AGTGAAGAAG
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:38480386 original size:29 final size:27
Alignment explanation
Indices: 38480368--38480437 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
38480358 ATATTAAGTC
38480368 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
38480395 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
38480423 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
38480438 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:38480431 original size:28 final size:28
Alignment explanation
Indices: 38480368--38480465 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
38480358 ATATTAAGTC
*
38480368 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
38480395 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
38480423 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
38480452 CGCACACTTAGTGC
1 CGCACACTTAGTGC
38480466 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:38483202 original size:51 final size:52
Alignment explanation
Indices: 38483110--38483227 Score: 170
Period size: 51 Copynumber: 2.3 Consensus size: 52
38483100 ATTGAAATGG
*
38483110 TGAAAATGGAGAAATGAGAAACATTTGCAAATGATTATGGTTTTCTCCAAAA
1 TGAAAATGGAGAAATGAGAAACATTTGCAAATGAATATGGTTTTCTCCAAAA
* * * *
38483162 TGAAAATGGAGAAATG-GAATCATTTGGAAATGAATGTGGTTTTCTCCTAAA
1 TGAAAATGGAGAAATGAGAAACATTTGCAAATGAATATGGTTTTCTCCAAAA
38483213 TGAAAAT-GA-AAATGA
1 TGAAAATGGAGAAATGA
38483228 AAATGAAAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
49 5 0.08
50 2 0.03
51 37 0.62
52 16 0.27
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.29
Consensus pattern (52 bp):
TGAAAATGGAGAAATGAGAAACATTTGCAAATGAATATGGTTTTCTCCAAAA
Found at i:38483221 original size:6 final size:6
Alignment explanation
Indices: 38483210--38483239 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
38483200 GTTTTCTCCT
38483210 AAATGA AAATGA AAATGA AAATGA AAATGA
1 AAATGA AAATGA AAATGA AAATGA AAATGA
38483240 CCTGGAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.17, T:0.17
Consensus pattern (6 bp):
AAATGA
Found at i:38485593 original size:17 final size:17
Alignment explanation
Indices: 38485573--38485608 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
38485563 ATGAGTCCGT
38485573 AATCCCGTAAAAGAATC
1 AATCCCGTAAAAGAATC
38485590 AATCCCGTAAAAGAATC
1 AATCCCGTAAAAGAATC
38485607 AA
1 AA
38485609 AGTGAGCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.50, C:0.22, G:0.11, T:0.17
Consensus pattern (17 bp):
AATCCCGTAAAAGAATC
Found at i:38488735 original size:38 final size:38
Alignment explanation
Indices: 38488680--38488778 Score: 135
Period size: 38 Copynumber: 2.6 Consensus size: 38
38488670 ATAATTTAAT
* * *
38488680 AATTATAATTACCATAACTATAATAATGTTTGACCGAA
1 AATTATAATTACAATAACTATAATAATATTCGACCGAA
* * *
38488718 AATTACAATTACAATAACTATAATAATATTCGATCGTA
1 AATTATAATTACAATAACTATAATAATATTCGACCGAA
*
38488756 AATTATAATTACAATAATTATAA
1 AATTATAATTACAATAACTATAA
38488779 CCAGGATTTC
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 53 1.00
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.35
Consensus pattern (38 bp):
AATTATAATTACAATAACTATAATAATATTCGACCGAA
Found at i:38490251 original size:31 final size:31
Alignment explanation
Indices: 38490208--38490286 Score: 133
Period size: 31 Copynumber: 2.5 Consensus size: 31
38490198 TTTAACGGTT
*
38490208 ACTGGGCTGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
38490239 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
38490270 A-TAGGGCCGAAGCCTTT
1 ACT-GGGCCGAAGCCTTT
38490287 ACTGTAAACG
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 1 0.02
31 45 0.98
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:38490569 original size:26 final size:26
Alignment explanation
Indices: 38490492--38490653 Score: 206
Period size: 26 Copynumber: 6.3 Consensus size: 26
38490482 CTGGAGGCCT
38490492 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
* **
38490516 AGCCTTTTTCGGTAAACTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
38490541 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
38490567 AGCCCTTTTCAATAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
** * *
38490593 AGCCCTTTTCGGTAAACTAGCGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
*
38490619 AGCCCTTTTCAATAAACTGAGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
38490645 AGCCCTTTT
1 AGCCCTTTT
38490654 GCACTTCCTC
Statistics
Matches: 120, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
23 4 0.03
24 5 0.04
25 32 0.27
26 79 0.66
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:38490600 original size:78 final size:74
Alignment explanation
Indices: 38490492--38490653 Score: 227
Period size: 78 Copynumber: 2.1 Consensus size: 74
38490482 CTGGAGGCCT
* * *
38490492 AGCCTCTTTTAATAACTGGGGCAAAGCCTTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCAATAA
1 AGCC-CTTTTAATAACTAGGGCAAAGCC-TTTTCGGTAAACTAGCGCATAAGCCCTTTTCAATAA
*
38490556 ACTGGGGCATA
64 ACTGAGGCATA
38490567 AGCCCTTTTCAATAAACTAGGGCATAAGCCCTTTTCGGTAAACTAGCGCATAAGCCCTTTTCAAT
1 AGCCCTTTT-AAT-AACTAGGGCA-AAG-CCTTTTCGGTAAACTAGCGCATAAGCCCTTTTCAAT
38490632 AAACTGAGGCATA
62 AAACTGAGGCATA
38490645 AGCCCTTTT
1 AGCCCTTTT
38490654 GCACTTCCTC
Statistics
Matches: 78, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
74 5 0.06
75 7 0.09
76 9 0.12
77 20 0.26
78 37 0.47
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.28
Consensus pattern (74 bp):
AGCCCTTTTAATAACTAGGGCAAAGCCTTTTCGGTAAACTAGCGCATAAGCCCTTTTCAATAAAC
TGAGGCATA
Found at i:38491552 original size:27 final size:27
Alignment explanation
Indices: 38491457--38491543 Score: 113
Period size: 27 Copynumber: 3.2 Consensus size: 27
38491447 TATTCGTCAT
* * *
38491457 TTTACCATATAGGGG-TATTACGGTCAC
1 TTTACCCTACAGGGGCT-TTACGGTCTC
*
38491484 TTTACCCTACAGAGGCTTTACGGTCTC
1 TTTACCCTACAGGGGCTTTACGGTCTC
*
38491511 TTTACCCTACAGGGGCTTTACGGTCTT
1 TTTACCCTACAGGGGCTTTACGGTCTC
38491538 TTTACC
1 TTTACC
38491544 TAATAGGGGT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.36
Consensus pattern (27 bp):
TTTACCCTACAGGGGCTTTACGGTCTC
Found at i:38491635 original size:27 final size:27
Alignment explanation
Indices: 38491601--38492053 Score: 224
Period size: 27 Copynumber: 16.7 Consensus size: 27
38491591 ATCTACAAAC
*
38491601 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
* * *
38491628 CAATGGTATTTCCA-TAATTTTTAGAAAAT
1 CAAGGGTATTT-TAGTAA-TTTTA-TAAAT
* * *
38491657 CGAGGGTATTTCT-GTAACTTTGTAAAT
1 CAAGGGTATTT-TAGTAATTTTATAAAT
* * *
38491684 CAGGGGTATTTTGGTAATTTTACAAATT
1 CAAGGGTATTTTAGTAATTTTATAAA-T
* * * *
38491712 GAA-GGTA-TTTCGATAATTTCACAAA-
1 CAAGGGTATTTTAG-TAATTTTATAAAT
* *
38491737 CCAGTGGTATTTTCGTAATTTTATAAA-
1 CAAG-GGTATTTTAGTAATTTTATAAAT
* * *
38491764 CTAGGGGTATTTTGGTAATTTTACAAAT
1 C-AAGGGTATTTTAGTAATTTTATAAAT
** * * *
38491792 TGAGGGTATTTTTGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *
38491819 CAAGGGTATTTTAGCAATTTTACAAA-
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *
38491845 CTAGGGTATTTTGGTAATTTTACT-AAT
1 CAAGGGTATTTTAGTAATTTTA-TAAAT
* * * *
38491872 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAT
* *
38491899 CGAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
* **** * *
38491926 CGAGGGTAAAACAGTAATTCTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
*** *
38491953 CAAGGGTAAAATAGTAATTCTATAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAT
* ** *
38491980 CGAGGG--TTAAACGGTAATTATATAAAT
1 CAAGGGTATTTTA--GTAATTTTATAAAT
* * * * *
38492007 CGAGGGTACTTTGGTAATTTTACAATT
1 CAAGGGTATTTTAGTAATTTTATAAAT
** *
38492034 TGAGGGTATTTCAGTAATTT
1 CAAGGGTATTTTAGTAATTT
38492054 GGTAAACTAA
Statistics
Matches: 338, Mismatches: 69, Indels: 38
0.76 0.16 0.09
Matches are distributed among these distances:
25 3 0.01
26 27 0.08
27 274 0.81
28 16 0.05
29 18 0.05
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAT
Found at i:38491781 original size:81 final size:80
Alignment explanation
Indices: 38491659--38491924 Score: 324
Period size: 81 Copynumber: 3.3 Consensus size: 80
38491649 TAGAAAATCG
* * *
38491659 AGGGTATTTCT-GTAACTTTGTAAA-TCAGGGGTATTTTGGTAATTTTACAAATTGAAGGTATTT
1 AGGGTATTT-TAGTAATTTTATAAACT-AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTT
* *
38491722 CGATAATTTCACAAACC-
64 TG-TAATTTTACAAACCA
*
38491739 AGTGGTATTTTCGTAATTTTATAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTT
1 AG-GGTATTTTAGTAATTTTATAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTA-TTT
38491804 TGTAATTTTACAAACCA
64 TGTAATTTTACAAACCA
* * * *
38491821 AGGGTATTTTAGCAATTTTACAAACTA-GGGTATTTTGGTAATTTTACTAATCGAGGGTATTTTG
1 AGGGTATTTTAGTAATTTTATAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTT-
** *
38491885 GTAATTTTGTAAACCG
65 GTAATTTTACAAACCA
*
38491901 AGGGTATTTTAGTAATTTTGTAAA
1 AGGGTATTTTAGTAATTTTATAAA
38491925 TCGAGGGTAA
Statistics
Matches: 164, Mismatches: 16, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
79 4 0.02
80 67 0.41
81 86 0.52
82 7 0.04
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (80 bp):
AGGGTATTTTAGTAATTTTATAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTG
TAATTTTACAAACCA
Found at i:38492051 original size:54 final size:54
Alignment explanation
Indices: 38491582--38492053 Score: 290
Period size: 54 Copynumber: 8.7 Consensus size: 54
38491572 TACAAAGGTG
* * * * * * * *
38491582 TTTTGGTAAATCTACAAACCAAGGGTATTTTAGTAATTTTGTAAATCAATGGTA
1 TTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTATAAATCGAGGGTA
*** * * * *
38491636 TTTCCATAATTTTTAGAAAATCGAGGGTATTTCTGTAACTTTGTAAATC-AGGGGTA
1 TTTTGGTAA-TTTTA-CAAATCGAGGGTATTTCAGTAATTTTATAAATCGA-GGGTA
* * * * *
38491692 TTTTGGTAATTTTACAAATTGAAGGTATTTC-GATAATTTCACAAA-CCAGTGGTA
1 TTTTGGTAATTTTACAAATCGAGGGTATTTCAG-TAATTTTATAAATCGAG-GGTA
* * * ** * *
38491746 TTTTCGTAATTTTATAAA-CTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTA
1 TTTTGGTAATTTTACAAATCGA-GGGTATTTCAGTAATTTTATAAATCGAGGGTA
* * * * * * *
38491800 TTTTTGTAATTTTACAAACCAAGGGTATTTTAGCAATTTTACAAA-CTAGGGTA
1 TTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTATAAATCGAGGGTA
* ** * *
38491853 TTTTGGTAATTTTACTAATCGAGGGTATTTTGGTAATTTTGTAAACCGAGGGTA
1 TTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTATAAATCGAGGGTA
* ** *** * * *
38491907 TTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTA
1 TTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTATAAATCGAGGGTA
*** * * * ** * *
38491961 AAATAGTAATTCTATAAATCGAGGGT-TAAACGGTAATTATATAAATCGAGGGTA
1 TTTTGGTAATTTTACAAATCGAGGGTAT-TTCAGTAATTTTATAAATCGAGGGTA
* * *
38492015 CTTTGGTAATTTTACAATTTGAGGGTATTTCAGTAATTT
1 TTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTT
38492054 GGTAAACTAA
Statistics
Matches: 324, Mismatches: 81, Indels: 26
0.75 0.19 0.06
Matches are distributed among these distances:
53 47 0.15
54 225 0.69
55 15 0.05
56 37 0.11
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTATAAATCGAGGGTA
Found at i:38494546 original size:44 final size:46
Alignment explanation
Indices: 38494496--38494617 Score: 146
Period size: 46 Copynumber: 2.7 Consensus size: 46
38494486 AATGTGTGCT
*
38494496 AGTGTAAGACATGTCTGGGACATGGATCGGCCACATT-GA-G-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTAGACGAAGCC
* * *
38494540 AGTGTAAGACATGTCTAGGACATGCATTGG--CATTAAGACGAAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCCATT-AGACG-AAGCC
38494586 AGTGTAAGACATGTCTGGGACATGCATCGGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCC
38494618 TCGAGATATA
Statistics
Matches: 65, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
41 4 0.06
43 2 0.03
44 28 0.43
46 31 0.48
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCCATTAGACGAAGCC
Found at i:38497272 original size:27 final size:27
Alignment explanation
Indices: 38497242--38497386 Score: 177
Period size: 27 Copynumber: 5.4 Consensus size: 27
38497232 GGCATAATCA
* *
38497242 TCATTTTACCATACAAGGATATTACGG
1 TCATTTTACCCTACAAGGGTATTACGG
* * *
38497269 TCATTTTATCCTACAGGGGAATTACGG
1 TCATTTTACCCTACAAGGGTATTACGG
*
38497296 -CAATTTTACCCTACAAGGGCATTACGG
1 TC-ATTTTACCCTACAAGGGTATTACGG
* *
38497323 TCATTTTACCCTACAGGGGTATTACGA
1 TCATTTTACCCTACAAGGGTATTACGG
38497350 TCATTTTACCCTAC-AGGGTCATTACGG
1 TCATTTTACCCTACAAGGGT-ATTACGG
*
38497377 TTATTTTACC
1 TCATTTTACC
38497387 AATTTTAGGG
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
26 5 0.05
27 95 0.94
28 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (27 bp):
TCATTTTACCCTACAAGGGTATTACGG
Found at i:38506501 original size:46 final size:46
Alignment explanation
Indices: 38506347--38506518 Score: 236
Period size: 47 Copynumber: 3.7 Consensus size: 46
38506337 CCCTTCAGGA
* * * * * *
38506347 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCAC-ATCGCCATTAGGC
* *
38506394 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATC-GCCATTAGGC
* *
38506441 CTCATCACATATATACACTTTCACATTCATCACATCGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGCCATTAGGC
38506487 CTTATCACATATATACACTTTCACATTCATCA
1 CTTATCACATATATACACTTTCACATTCATCA
38506519 ACACTTTCAC
Statistics
Matches: 111, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
46 41 0.37
47 70 0.63
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (46 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGCCATTAGGC
Found at i:38506524 original size:18 final size:18
Alignment explanation
Indices: 38506501--38506536 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
38506491 TCACATATAT
38506501 ACACTTTCACATTCATCA
1 ACACTTTCACATTCATCA
38506519 ACACTTTCACATTCATCA
1 ACACTTTCACATTCATCA
38506537 CATCGGCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (18 bp):
ACACTTTCACATTCATCA
Found at i:38506584 original size:67 final size:64
Alignment explanation
Indices: 38506455--38506585 Score: 226
Period size: 67 Copynumber: 2.0 Consensus size: 64
38506445 TCACATATAT
*
38506455 ACACTTTCACATTCATCACATCGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCA
1 ACACTTTCACATTCATCACATCGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
38506519 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
1 ACACTTTCACATTCATCACATC-GCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCAT
38506584 CA
63 CA
38506586 CATTGGCCAT
Statistics
Matches: 63, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
64 22 0.35
65 17 0.27
67 24 0.38
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (64 bp):
ACACTTTCACATTCATCACATCGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
Found at i:38506623 original size:160 final size:159
Alignment explanation
Indices: 38506361--38506679 Score: 514
Period size: 160 Copynumber: 2.0 Consensus size: 159
38506351 TCACATTTAT
* * * *
38506361 ACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTTTCACATTCATCA
1 ACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTTTCACATTCATCA
*
38506426 CATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC-GCTATTAGGCCTT
66 CATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
38506490 ATCACATATATACACTTTCACATTCATCA
131 ATCACATATATACACTTTCACATTCATCA
* * *
38506519 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
1 ACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCAC--ATATATACACTTTCACATTCAT
* * *
38506584 CACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
64 CACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
38506649 TTATCACATATATACACTTTCACATTCATCA
129 TTATCACATATATACACTTTCACATTCATCA
38506680 CATCGGCCAT
Statistics
Matches: 147, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
158 34 0.23
160 72 0.49
161 41 0.28
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (159 bp):
ACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACACTTTCACATTCATCA
CATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
ATCACATATATACACTTTCACATTCATCA
Found at i:38506631 original size:47 final size:47
Alignment explanation
Indices: 38506519--38506757 Score: 388
Period size: 47 Copynumber: 5.0 Consensus size: 47
38506509 ACATTCATCA
38506519 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
* *
38506568 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
38506615 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
38506662 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
* * * *
38506711 ACACTTTCACATTCATCACATTGGTCATTCGGCCTTATCACTTATAT
1 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
38506758 TATCATGTAT
Statistics
Matches: 180, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
47 97 0.54
49 83 0.46
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT
Found at i:38516491 original size:26 final size:25
Alignment explanation
Indices: 38516426--38516487 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 25
38516416 TTTACATCAT
38516426 TGCTCACACGA--GTGAAATAGGCC
1 TGCTCACACGAGTGTGAAATAGGCC
38516449 TGCTCACACGAGCTGTGAAATAGGCC
1 TGCTCACACGAG-TGTGAAATAGGCC
38516475 TGCTCACACGAGT
1 TGCTCACACGAGT
38516488 TGTGCATCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
23 11 0.31
25 1 0.03
26 24 0.67
ACGTcount: A:0.27, C:0.27, G:0.26, T:0.19
Consensus pattern (25 bp):
TGCTCACACGAGTGTGAAATAGGCC
Found at i:38518352 original size:19 final size:17
Alignment explanation
Indices: 38518328--38518362 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
38518318 TAGAAATATA
38518328 TAAAACATTACTAAAAAGG
1 TAAAAC-TTA-TAAAAAGG
38518347 TAAAACTTATAAAAAG
1 TAAAACTTATAAAAAG
38518363 AGTATTACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 3 0.19
19 6 0.38
ACGTcount: A:0.60, C:0.09, G:0.09, T:0.23
Consensus pattern (17 bp):
TAAAACTTATAAAAAGG
Found at i:38518632 original size:6 final size:6
Alignment explanation
Indices: 38518623--38518661 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
38518613 AAGAGTGAGT
*
38518623 TTAAAA TTAAAGA CTAAAA TTAAAA TTAAAA CTTAAAA T
1 TTAAAA TTAAA-A TTAAAA TTAAAA TTAAAA -TTAAAA T
38518662 AGAAACCATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 18 0.62
7 11 0.38
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (6 bp):
TTAAAA
Found at i:38518645 original size:19 final size:19
Alignment explanation
Indices: 38518623--38518661 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
38518613 AAGAGTGAGT
38518623 TTAAAATTAAAGAC-TAAAA
1 TTAAAATTAAA-ACTTAAAA
38518642 TTAAAATTAAAACTTAAAA
1 TTAAAATTAAAACTTAAAA
38518661 T
1 T
38518662 AGAAACCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 2 0.11
19 17 0.89
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (19 bp):
TTAAAATTAAAACTTAAAA
Found at i:38518661 original size:13 final size:12
Alignment explanation
Indices: 38518623--38518661 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
38518613 AAGAGTGAGT
38518623 TTAAAATTAAAGA
1 TTAAAATTAAA-A
*
38518636 CTAAAATTAAAA
1 TTAAAATTAAAA
38518648 TTAAAACTTAAAA
1 TTAAAA-TTAAAA
38518661 T
1 T
38518662 AGAAACCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 6 0.26
13 17 0.74
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (12 bp):
TTAAAATTAAAA
Found at i:38522312 original size:42 final size:41
Alignment explanation
Indices: 38522224--38522343 Score: 156
Period size: 42 Copynumber: 3.0 Consensus size: 41
38522214 CTCATTCAAT
* * * *
38522224 GCCTTTGGGACTTAACCCGGATTTTAA-A-ACTCGCACGAAT
1 GCCTTCGGGACTTAACCCGGA-ATTAATATACTCGCACAAAG
*
38522264 GCCTTCGGGACTTAACCCGGAATTAGTATATCTCGCACAAAG
1 GCCTTCGGGACTTAACCCGGAATTAATATA-CTCGCACAAAG
38522306 GCCTTCGGGACTTAACCCGGAATTAAT-TACTCGCACAA
1 GCCTTCGGGACTTAACCCGGAATTAATATACTCGCACAA
38522344 TACCTTCGGA
Statistics
Matches: 71, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
39 3 0.04
40 30 0.42
41 3 0.04
42 35 0.49
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (41 bp):
GCCTTCGGGACTTAACCCGGAATTAATATACTCGCACAAAG
Found at i:38522365 original size:39 final size:40
Alignment explanation
Indices: 38522220--38522352 Score: 148
Period size: 40 Copynumber: 3.3 Consensus size: 40
38522210 GTAACTCATT
* * *
38522220 CAATGCCTTTGGGACTTAACCCGGATTTTAA-A-ACTCGCA
1 CAATACCTTCGGGACTTAACCCGGA-ATTAATATACTCGCA
* *
38522259 CGAATGCCTTCGGGACTTAACCCGGAATTAGTATATCTCGCA
1 C-AATACCTTCGGGACTTAACCCGGAATTAATATA-CTCGCA
38522301 CAA-AGGCCTTCGGGACTTAACCCGGAATTAAT-TACTCGCA
1 CAATA--CCTTCGGGACTTAACCCGGAATTAATATACTCGCA
38522341 CAATACCTTCGG
1 CAATACCTTCGG
38522353 ATCTTAGTCC
Statistics
Matches: 82, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
39 11 0.13
40 33 0.40
41 6 0.07
42 32 0.39
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
CAATACCTTCGGGACTTAACCCGGAATTAATATACTCGCA
Found at i:38529181 original size:79 final size:80
Alignment explanation
Indices: 38529082--38529302 Score: 202
Period size: 80 Copynumber: 2.8 Consensus size: 80
38529072 CTCGTTCAAG
* * ** * *
38529082 TGCCTTCGGGACATAGCCCGGTCA-TAGTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGG-AATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
38529145 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * *
38529161 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
38529226 AATAACTCGCACAAA
66 AATAACTCGCACAAA
* * ** * * *
38529241 TACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGAAT-TAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
38529303 CAGCATTCAA
Statistics
Matches: 118, Mismatches: 18, Indels: 11
0.80 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 37 0.31
80 74 0.63
81 6 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:38529233 original size:80 final size:80
Alignment explanation
Indices: 38529122--38529302 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
38529112 CTCATTCAAT
* * *
38529122 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
38529185 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
38529201 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
38529265 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
38529282 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
38529303 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:38529262 original size:40 final size:40
Alignment explanation
Indices: 38529119--38529302 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
38529109 TAACTCATTC
* *
38529119 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
38529159 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
38529199 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
38529239 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
38529280 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
38529303 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:38531913 original size:39 final size:39
Alignment explanation
Indices: 38531863--38532047 Score: 289
Period size: 39 Copynumber: 4.7 Consensus size: 39
38531853 TTCCAACACA
* *
38531863 AATGCCTTCGGGACTTAGACCGGATATAACACCAGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* *
38531902 AATACCTTCGGGACTTAGCCCGGATATAACACTAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* *
38531941 AATACCTTCGGGACTTAGCCCGAATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* *
38531980 AATGCCTTCGGGACTTAGCCCGGATTTAACACTAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
*
38532019 AATGCCTTCGGGACTTAGCCCGAATATAA
1 AATGCCTTCGGGACTTAGCCCGGATATAA
38532048 ATCTCACATA
Statistics
Matches: 134, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 134 1.00
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
Found at i:38536939 original size:55 final size:55
Alignment explanation
Indices: 38536821--38536928 Score: 148
Period size: 55 Copynumber: 2.0 Consensus size: 55
38536811 GGGTTCAATA
* * *
38536821 ATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGG
1 ATACCATGTAAGACCATGCCAAGACATGGCAATTGATAAGGTTTATAAGGCAAGG
*
38536876 ATACCATGTAAGACCATGTCAAGACATGGC-ATTGATAA-GTTACTATAAGGCAA
1 ATACCATGTAAGACCATGCCAAGACATGGCAATTGATAAGGTT--TATAAGGCAA
38536929 AGGTCGCATG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
53 3 0.06
54 7 0.15
55 37 0.79
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (55 bp):
ATACCATGTAAGACCATGCCAAGACATGGCAATTGATAAGGTTTATAAGGCAAGG
Found at i:38545066 original size:9 final size:9
Alignment explanation
Indices: 38545054--38545152 Score: 60
Period size: 10 Copynumber: 10.6 Consensus size: 9
38545044 TTTTACAATT
38545054 TTTTTATAA
1 TTTTTATAA
38545063 TTTTTAATAA
1 TTTTT-ATAA
**
38545073 TTTTT-CCA
1 TTTTTATAA
*
38545081 TTTTAAT-A
1 TTTTTATAA
*
38545089 TTTTTTTACA
1 TTTTTATA-A
* *
38545099 CTTTTATAG
1 TTTTTATAA
38545108 TTTTTATAA
1 TTTTTATAA
38545117 TTTGATTAT-A
1 TTT--TTATAA
38545127 TTGTTTAATAA
1 TT-TTT-ATAA
38545138 TTTTTATAA
1 TTTTTATAA
38545147 GTTTTT
1 -TTTTT
38545153 GGCTTAAATA
Statistics
Matches: 69, Mismatches: 11, Indels: 19
0.70 0.11 0.19
Matches are distributed among these distances:
8 11 0.16
9 21 0.30
10 29 0.42
11 8 0.12
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:38545076 original size:20 final size:20
Alignment explanation
Indices: 38545021--38545097 Score: 56
Period size: 20 Copynumber: 4.0 Consensus size: 20
38545011 TACTAGTTTC
38545021 ATTTTTAATAATCTTTTTACT
1 ATTTTTAATAAT-TTTTTACT
* *
38545042 TTTTTTACA-ATTTTTTTA-T
1 ATTTTTA-ATAATTTTTTACT
*
38545061 AATTTTTAATAA-TTTTT-CC
1 -ATTTTTAATAATTTTTTACT
*
38545080 A-TTTTAATATTTTTTTAC
1 ATTTTTAATAATTTTTTAC
38545098 ACTTTTATAG
Statistics
Matches: 44, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
17 8 0.18
18 6 0.14
19 8 0.18
20 13 0.30
21 8 0.18
22 1 0.02
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTTTTAATAATTTTTTACT
Found at i:38546306 original size:15 final size:16
Alignment explanation
Indices: 38546283--38546317 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
38546273 ATTTTTACAT
38546283 TTTTAAATTTTTGTAA
1 TTTTAAATTTTTGTAA
*
38546299 TTTT-AATTTTTTTAA
1 TTTTAAATTTTTGTAA
38546314 TTTT
1 TTTT
38546318 TCTGATGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTTAAATTTTTGTAA
Found at i:38548895 original size:27 final size:27
Alignment explanation
Indices: 38548865--38548931 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 27
38548855 AATCTCATAT
* *
38548865 CTGTAGGCTAGTATTACTGAAATACCC
1 CTGTAGGCTAGAATTACTAAAATACCC
* * *
38548892 CTGTAGGGTAGAATTATTAAAATGCCC
1 CTGTAGGCTAGAATTACTAAAATACCC
* *
38548919 CTATAGGGTAGAA
1 CTGTAGGCTAGAA
38548932 ATACCCTCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.28
Consensus pattern (27 bp):
CTGTAGGCTAGAATTACTAAAATACCC
Found at i:38549013 original size:26 final size:26
Alignment explanation
Indices: 38548930--38549072 Score: 117
Period size: 27 Copynumber: 5.3 Consensus size: 26
38548920 TATAGGGTAG
* * *
38548930 AAATACCCTCAAATTGTAAAATTACTA
1 AAATACCCT-AATTTGGAAAATTACCA
* *
38548957 AAATACCCTCGATTTGTAAAATTACCA
1 AAATACCCT-AATTTGGAAAATTACCA
* * *
38548984 AAATACCCTAATTTGGAAAGTTATCG
1 AAATACCCTAATTTGGAAAATTACCA
*
38549010 AAATACCCTTAATTTGGAAAA-TAACA
1 AAATACCC-TAATTTGGAAAATTACCA
* ** *
38549036 GAAATACCCCTGATTTAAAAAATTACAA
1 -AAATA-CCCTAATTTGGAAAATTACCA
38549064 AAATACCCT
1 AAATACCCT
38549073 TAACTTTCAA
Statistics
Matches: 96, Mismatches: 16, Indels: 9
0.79 0.13 0.07
Matches are distributed among these distances:
26 27 0.28
27 63 0.66
28 6 0.06
ACGTcount: A:0.45, C:0.19, G:0.08, T:0.28
Consensus pattern (26 bp):
AAATACCCTAATTTGGAAAATTACCA
Found at i:38549051 original size:27 final size:27
Alignment explanation
Indices: 38548984--38549098 Score: 83
Period size: 27 Copynumber: 4.3 Consensus size: 27
38548974 AAAATTACCA
* *
38548984 AAATA-CCCTAATTTGGAAAGTTATC-G
1 AAATACCCCTAATTTGGAAA-ATAACAG
*
38549010 AAATACCCTTAATTTGGAAAATAACAG
1 AAATACCCCTAATTTGGAAAATAACAG
* ** * *
38549037 AAATACCCCTGATTTAAAAAATTACAA
1 AAATACCCCTAATTTGGAAAATAACAG
* **
38549064 AAATACCCTTAACTTTCAAAAATTAA-AG
1 AAATACCCCTAA-TTTGGAAAA-TAACAG
38549092 AAATACC
1 AAATACC
38549099 ATTGGTTTGC
Statistics
Matches: 71, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
26 8 0.11
27 45 0.63
28 16 0.23
29 2 0.03
ACGTcount: A:0.48, C:0.17, G:0.08, T:0.27
Consensus pattern (27 bp):
AAATACCCCTAATTTGGAAAATAACAG
Found at i:38549095 original size:28 final size:27
Alignment explanation
Indices: 38549009--38549128 Score: 102
Period size: 27 Copynumber: 4.4 Consensus size: 27
38548999 GAAAGTTATC
**
38549009 GAAATACCCTTAATTTGGAAAA-TAACA
1 GAAATACCCTTAATTTCAAAAATTAA-A
* * *
38549036 GAAATACCCCTGATTTAAAAAATTACAA
1 GAAATACCCTTAATTTCAAAAATTA-AA
38549064 -AAATACCCTTAACTTTCAAAAATTAAA
1 GAAATACCCTTAA-TTTCAAAAATTAAA
* ** *
38549091 GAAATACCATTGGTTTGC-AAAATTAAC
1 GAAATACCCTTAATTT-CAAAAATTAAA
38549118 GAAATACCCTT
1 GAAATACCCTT
38549129 GGTTTGTAGA
Statistics
Matches: 76, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
27 51 0.67
28 24 0.32
29 1 0.01
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.28
Consensus pattern (27 bp):
GAAATACCCTTAATTTCAAAAATTAAA
Found at i:38549113 original size:55 final size:54
Alignment explanation
Indices: 38549010--38549128 Score: 125
Period size: 55 Copynumber: 2.2 Consensus size: 54
38549000 AAAGTTATCG
** *
38549010 AAATACCCTTAATTTGGAAAATAACAGAAATACCCCTGATTTAAAAAATT-ACAA
1 AAATACCCTTAATTTCAAAAATAACAGAAATACCACTGATTTAAAAAATTAAC-A
* * ** *
38549064 AAATACCCTTAACTTTCAAAAATTAA-AGAAATACCATTGGTTTGCAAAATTAACG
1 AAATACCCTTAA-TTTCAAAAA-TAACAGAAATACCACTGATTTAAAAAATTAACA
38549119 AAATACCCTT
1 AAATACCCTT
38549129 GGTTTGTAGA
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
54 12 0.22
55 37 0.69
56 5 0.09
ACGTcount: A:0.47, C:0.18, G:0.08, T:0.28
Consensus pattern (54 bp):
AAATACCCTTAATTTCAAAAATAACAGAAATACCACTGATTTAAAAAATTAACA
Found at i:38549121 original size:27 final size:27
Alignment explanation
Indices: 38549082--38549134 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
38549072 TTAACTTTCA
38549082 AAAATTAAAGAAATACCATTGGTTTGC
1 AAAATTAAAGAAATACCATTGGTTTGC
* *
38549109 AAAATTAACGAAATACCCTTGGTTTG
1 AAAATTAAAGAAATACCATTGGTTTG
38549135 TAGATTTACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (27 bp):
AAAATTAAAGAAATACCATTGGTTTGC
Found at i:38549443 original size:41 final size:40
Alignment explanation
Indices: 38549394--38549516 Score: 147
Period size: 41 Copynumber: 3.0 Consensus size: 40
38549384 GGAGGAAGAA
*
38549394 ATTAAGGATCGCATGGTTGCTTAACAATCGTGGATCCACCG
1 ATTAAGGATCGCATGGTTGCTTGACAA-CGTGGATCCACCG
* * ** *
38549435 ATTGAGGATCGCATGGTTACTTGATGACTGTGGATCCACCA
1 ATTAAGGATCGCATGGTTGCTTGACAAC-GTGGATCCACCG
* *
38549476 ATTAAGGATCGCATGGTTGCTTGACTACCGTAGATCCACCG
1 ATTAAGGATCGCATGGTTGCTTGAC-AACGTGGATCCACCG
38549517 GTGGCTTTTA
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
40 1 0.01
41 65 0.97
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (40 bp):
ATTAAGGATCGCATGGTTGCTTGACAACGTGGATCCACCG
Found at i:38552769 original size:26 final size:25
Alignment explanation
Indices: 38552740--38552789 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
38552730 CATCTATGTA
*
38552740 GGGTAGAATTACTGAAATGCCCTTGT
1 GGGTAGAATTACTG-AATACCCTTGT
38552766 GGGTAGAATTACTGAATACCCTTG
1 GGGTAGAATTACTGAATACCCTTG
38552790 GTTTACAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (25 bp):
GGGTAGAATTACTGAATACCCTTGT
Found at i:38553063 original size:27 final size:27
Alignment explanation
Indices: 38552796--38553099 Score: 256
Period size: 27 Copynumber: 11.3 Consensus size: 27
38552786 CTTGGTTTAC
* * *
38552796 AAAATTACCAAAATACCCTCAATTAGA
1 AAAATTACCAAAATACCCTCGATTTGT
*
38552823 AAAATTACCAAAATACCCT-TAGTTTGT
1 AAAATTACCAAAATACCCTCGA-TTTGT
* * *
38552850 AAAATTACCAAAATACCTCTGGTTTTTT
1 AAAATTACCAAAATACC-CTCGATTTGT
*
38552878 AAGATTACCAAAATACCC-CTGATTTGT
1 AAAATTACCAAAATACCCTC-GATTTGT
* * * * * **
38552905 GAAATTATCGAAATACCTTTGACCTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* * *
38552932 GAAATTACCGAAATA-CCTCGACTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* * **
38552958 AAAATTATCGAAATACCCTCGACCTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* *
38552985 AAAATTACTAAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
*
38553012 AAAATTACCAAAATACCCTCTATTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* *
38553039 AAAATTATCAAAATACTCCT-GATTTGG
1 AAAATTACCAAAATAC-CCTCGATTTGT
* ** * *
38553066 AAAGTTACTGAAATACCCTTGATTTGA
1 AAAATTACCAAAATACCCTCGATTTGT
38553093 AAAATTA
1 AAAATTA
38553100 TAGAAATACC
Statistics
Matches: 228, Mismatches: 41, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
26 25 0.11
27 178 0.78
28 25 0.11
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGATTTGT
Found at i:38553105 original size:27 final size:27
Alignment explanation
Indices: 38552888--38553195 Score: 191
Period size: 27 Copynumber: 11.4 Consensus size: 27
38552878 AAGATTACCA
* * *
38552888 AAATACCCCTGATTTGTGAAATTATCG
1 AAATACCCTTGATTTGTAAAATTATAG
* ** * **
38552915 AAATACCTTTGACCTGTGAAATTACCG
1 AAATACCCTTGATTTGTAAAATTATAG
* * *
38552942 AAATA-CCTCGACTTGTAAAATTATCG
1 AAATACCCTTGATTTGTAAAATTATAG
* **
38552968 AAATACCCTCGACCTGTAAAATTACTA-
1 AAATACCCTTGATTTGTAAAATTA-TAG
* * *
38552995 AAATACCCTCGACTTGTAAAATTACCA-
1 AAATACCCTTGATTTGTAAAATTA-TAG
38553022 AAATACCCTCT-ATTTGTAAAATTATCA-
1 AAATACCCT-TGATTTGTAAAATTAT-AG
* *
38553049 AAATACTCC-TGATTTGGAAAGTTACT-G
1 AAATAC-CCTTGATTTGTAAAATTA-TAG
*
38553076 AAATACCCTTGATTTGAAAAATTATAG
1 AAATACCCTTGATTTGTAAAATTATAG
* ** * *
38553103 AAATACCCCTGATTTACAGAATTACAG
1 AAATACCCTTGATTTGTAAAATTATAG
* **
38553130 AAATTCCCTTGACTTTCAAAAATTATAG
1 AAATACCCTTGA-TTTGTAAAATTATAG
* * * *
38553158 AAATATCATT-ATTTTGCAAAATTATCG
1 AAATACCCTTGA-TTTGTAAAATTATAG
38553185 AAATACCCTTG
1 AAATACCCTTG
38553196 GATTGTAGAT
Statistics
Matches: 228, Mismatches: 41, Indels: 23
0.78 0.14 0.08
Matches are distributed among these distances:
26 25 0.11
27 181 0.79
28 22 0.10
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AAATACCCTTGATTTGTAAAATTATAG
Found at i:38553518 original size:41 final size:41
Alignment explanation
Indices: 38553460--38553582 Score: 183
Period size: 41 Copynumber: 3.0 Consensus size: 41
38553450 TGGAGGAAGA
*
38553460 AATTGAGGATCGTATGGTTGCTTGACGACCGTGGATCCACC
1 AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
*
38553501 AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACT
1 AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
* * * * *
38553542 GATTAAGGATCACATGGTTGCTTGACAATCGTGGATCCACC
1 AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
38553583 GGTGGCTTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 74 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (41 bp):
AATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACC
Found at i:38556129 original size:47 final size:47
Alignment explanation
Indices: 38556042--38556640 Score: 1009
Period size: 47 Copynumber: 12.6 Consensus size: 47
38556032 GTATATTTGA
*
38556042 ATGAATGTGAAAGCGTATATATATGTGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAA--GTGTATATA--TGTGATAAGGCCTAATGGCCGATGTG
38556093 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
38556140 ATGAATGTGAATGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
38556187 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
38556234 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG-CCGATGTG
* *
38556282 ATTAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
38556329 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
38556376 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
38556423 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
38556470 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
*
38556517 ATGAATGTGAAAGTGTATATATGTGGTAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* * * * * *
38556564 ATGAATGTGAAAGTGCATATATGTGATAGGGCCGAGTGGCCAACGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
* *
38556611 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
38556641 TCCCGAAGGG
Statistics
Matches: 524, Mismatches: 23, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
47 459 0.88
48 45 0.09
49 8 0.02
51 12 0.02
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:38556809 original size:37 final size:37
Alignment explanation
Indices: 38556759--38556903 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
38556749 CCGAGCTCTA
* *
38556759 AAGACCCGATGACTACGTGTGGAGAGTATGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
*
38556796 AAGACCCGATGACTACGTGTGGAGATTTTGCCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
38556833 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
* *
38556870 AAGACCCGATAACTTCGTGTGGAGATTTTGTCCG
1 AAGACCCGATGACTACGTGTGGAGATTTTGTCCG
38556904 AGCTAAAGGT
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.26
Consensus pattern (37 bp):
AAGACCCGATGACTACGTGTGGAGATTTTGTCCGGGT
Found at i:38558036 original size:22 final size:22
Alignment explanation
Indices: 38558006--38558057 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
38557996 TACTGCGATG
*
38558006 TTTACGGCTATGTGTTGTCCTA
1 TTTACGGCTATGTGATGTCCTA
* *
38558028 TTTATGGCTATGTGATGTCCTG
1 TTTACGGCTATGTGATGTCCTA
38558050 TTTACGGC
1 TTTACGGC
38558058 CTTGAGCTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.13, C:0.17, G:0.25, T:0.44
Consensus pattern (22 bp):
TTTACGGCTATGTGATGTCCTA
Found at i:38559575 original size:325 final size:324
Alignment explanation
Indices: 38558997--38559619 Score: 824
Period size: 325 Copynumber: 1.9 Consensus size: 324
38558987 ATTAATGCTC
* * * *
38558997 GGAAGGCGAGGTTAGTTACTTATTCTTTTGAACCTATATTAATTATGCAATGATTTGTAAAATAA
1 GGAAGGCGAGATTAGTTACTGATTATTTTGAACCTATATTAATTATGCAATGATTTGTAAAACAA
** * * * * ** *
38559062 AATTCTGTATATAACGGAATTCACAATTATGCACTTTAGTTTGAATGGATGTCATACGTTGGCAC
66 AATTCCATACATAACAGAATTCACAATTATGCACTTCAGTTTGAATGGATGCCATACGCCGACAC
* * *
38559127 CGATATCATATCTTGCATCTCGTCGAAATTGTTGGCCAATCAAAGGATATAGGACGTGAAGGTGT
131 CGATATCATATATTACATCTCGTCGAAATTGTTGGCCAATCAAA-GATATAGGACATGAAGGTGT
*
38559192 CGTTGATAGTGTATGCAATGGTGGAAATGCACAAATCAGACCGAGTGATATGGTAGTTCAGGTGG
195 CGTTGATAGTGTACGCAATGGTGGAAATGCACAAATCAGACCGAGTGATATGGTAGTTCAGGTGG
* ** *
38559257 AGGCAAAAAATTTCGTCGCCACCGCGAGACATGGAAGATATTAGGCTGCTGTTAGATCAACACTT
260 AGGCAAAAAATTCCACCGCCACCGCAAGACATGGAAGATATTAGGCTGCTGTTAGATCAACACTT
*
38559322 GGAAGGCGAGATTAGTTACTGATTATTTTGAACCTATATTAATTATGCAATTATTTGTAAAACAA
1 GGAAGGCGAGATTAGTTACTGATTATTTTGAACCTATATTAATTATGCAATGATTTGTAAAACAA
* * * **
38559387 AATTCCATCCATAACAGAATTTACAATTGTGCACTTCAGTTTGAATGGATGCCATGTGCCGACAC
66 AATTCCATACATAACAGAATTCACAATTATGCACTTCAGTTTGAATGGATGCCATACGCCGACAC
* *
38559452 CGATATCATATATTACATTTCGTC-AGAATTGTTGGCCAATCAGAA-ATTATGGGACATGAAGGT
131 CGATATCATATATTACATCTCGTCGA-AATTGTTGGCCAATCA-AAGA-TATAGGACATGAAGGT
* ** * *
38559515 GTCGTTGATAGTGCT-CGCAATGGTGGAAATGTACAAATTGGATCTAGTG-T-TGCTGTAGTTCA
193 GTCGTTGATAGTG-TACGCAATGGTGGAAATGCACAAATCAGACCGAGTGATATG--GTAGTTCA
* *
38559577 GGTGGAGGCCAAAAATTCCACCGCCATCGCAAGACATGGAAGA
255 GGTGGAGGCAAAAAATTCCACCGCCACCGCAAGACATGGAAGA
38559620 GCTGCACAAG
Statistics
Matches: 256, Mismatches: 36, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
323 2 0.01
324 3 0.01
325 248 0.97
326 3 0.01
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (324 bp):
GGAAGGCGAGATTAGTTACTGATTATTTTGAACCTATATTAATTATGCAATGATTTGTAAAACAA
AATTCCATACATAACAGAATTCACAATTATGCACTTCAGTTTGAATGGATGCCATACGCCGACAC
CGATATCATATATTACATCTCGTCGAAATTGTTGGCCAATCAAAGATATAGGACATGAAGGTGTC
GTTGATAGTGTACGCAATGGTGGAAATGCACAAATCAGACCGAGTGATATGGTAGTTCAGGTGGA
GGCAAAAAATTCCACCGCCACCGCAAGACATGGAAGATATTAGGCTGCTGTTAGATCAACACTT
Found at i:38566389 original size:13 final size:13
Alignment explanation
Indices: 38566371--38566408 Score: 60
Period size: 12 Copynumber: 3.0 Consensus size: 13
38566361 TGTGTAAACA
38566371 AAATAAAAAAATT
1 AAATAAAAAAATT
*
38566384 AAAT-AAAAAGTT
1 AAATAAAAAAATT
38566396 AAATAAAAAAATT
1 AAATAAAAAAATT
38566409 TCATTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (13 bp):
AAATAAAAAAATT
Found at i:38566529 original size:19 final size:19
Alignment explanation
Indices: 38566488--38566531 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
38566478 TTTTTTTAAA
*
38566488 AAAAATTATTAAATTTTTG
1 AAAAATTATTAAATTTATG
38566507 AAAAATTATTAAAATTTAT-
1 AAAAATTATT-AAATTTATG
38566526 AAAAAT
1 AAAAAT
38566532 AAAAAATACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
AAAAATTATTAAATTTATG
Found at i:38566858 original size:18 final size:18
Alignment explanation
Indices: 38566835--38566875 Score: 82
Period size: 18 Copynumber: 2.3 Consensus size: 18
38566825 GCCCGCGCGT
38566835 GTGGCGCCACCTAGATTA
1 GTGGCGCCACCTAGATTA
38566853 GTGGCGCCACCTAGATTA
1 GTGGCGCCACCTAGATTA
38566871 GTGGC
1 GTGGC
38566876 ATCAGTCACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.20, C:0.27, G:0.32, T:0.22
Consensus pattern (18 bp):
GTGGCGCCACCTAGATTA
Found at i:38567632 original size:104 final size:101
Alignment explanation
Indices: 38567439--38567940 Score: 550
Period size: 104 Copynumber: 4.9 Consensus size: 101
38567429 TTATTTGTTA
* * *
38567439 TGTTTTGTGAGTTTTCAGTAATGTAAATTTTTTT-AAAAAA-A-TTATAGTTATTTTGTTAGTAG
1 TGTTTTGTGATTTTTTAGTAATG-AAATTTTTTTAAAAAAATATTTATAGTTATTTTGTTAGTAA
38567501 TTTATGATTAGG-T-TATAAATTGTTAGTG-TTTT-G
65 TTTATGATTAGGTTATATAAATTGTTAGTGTTTTTAG
* *
38567534 TGTTTTGTTATTTTTTAGTAATGAAATTTCTTTTTAAAAAAATATTATAGTTATTTATTTTGTTA
1 TGTTTTGTGATTTTTTAGTAATGAAA-TT-TTTTTAAAAAAATATT-TA--TAGTTATTTTGTTA
38567599 GTAATTTATGGGATTAGG-T-TATAAATTGTTAGTGTTTAGTTTAG
61 GTAATTTAT--GATTAGGTTATATAAATTGTTAGTG-TT--TTTAG
* **
38567643 -GATTTTGTGATTTTTTAGTAATGTAA-TTTTCAAAAAAAATAATTTTATAGTTATTTTGTTAGT
1 TG-TTTTGTGATTTTTTAGTAATGAAATTTTTTTAAAAAAAT-A-TTTATAGTTATTTTGTTAGT
38567706 AATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAG
63 AATTTATGATTAGGTTATATAAATTGTTAGTG-TT--TTTAG
* * *
38567748 TGTTTTCT-ATTTTTTAGTAATGAACTTTTTTTAAAATTTAAT-TTTATAGTTATTTTGTTAGTA
1 TGTTTTGTGATTTTTTAGTAATGAAATTTTTTTAAAA--AAATATTTATAGTTATTTTGTTAGTA
38567811 ATTTATGATTAGGTTATATAAATTGTTAGTGTTTAATTCAG
64 ATTTATGATTAGGTTATATAAATTGTTAGTGTTT--TT-AG
* * *
38567852 TGTTTTGTGA-TTTTTAGTAATGTACA-TTTTTTAAAAATAAT-TTTATAATTATTTTGTTATTA
1 TGTTTTGTGATTTTTTAGTAATG-AAATTTTTTTAAAAA-AATATTTATAGTTATTTTGTTAGTA
38567914 ATTTATGATTAGGTTATATAAATTGTT
64 ATTTATGATTAGGTTATATAAATTGTT
38567941 TTTTTTGTTA
Statistics
Matches: 355, Mismatches: 22, Indels: 52
0.83 0.05 0.12
Matches are distributed among these distances:
94 3 0.01
95 22 0.06
96 5 0.01
97 6 0.02
98 1 0.00
99 1 0.00
100 2 0.01
101 1 0.00
102 21 0.06
103 60 0.17
104 122 0.34
105 62 0.17
106 13 0.04
107 7 0.02
108 6 0.02
109 23 0.06
ACGTcount: A:0.30, C:0.01, G:0.15, T:0.54
Consensus pattern (101 bp):
TGTTTTGTGATTTTTTAGTAATGAAATTTTTTTAAAAAAATATTTATAGTTATTTTGTTAGTAAT
TTATGATTAGGTTATATAAATTGTTAGTGTTTTTAG
Found at i:38567823 original size:207 final size:207
Alignment explanation
Indices: 38567439--38567940 Score: 622
Period size: 207 Copynumber: 2.4 Consensus size: 207
38567429 TTATTTGTTA
* * ** *
38567439 TGTTTTGTGAGTTTTCAGTAATGTAAATTTTTTTAAAAA-AA--TTATAGTTATTTTGTTAGTAG
1 TGTTTTGTGA-TTTTTAGTAATGTACA-TTTTAAAAAAATAATTTTATAGTTATTTTGTTAGTAA
* *
38567501 TTTATGATTAGG-T-TATAAATTGTTAGTGTTTTGTGTTTTGTTATTTTTTAGTAATGAAATTTC
64 TTTATGATTAGGTTATATAAATTGTTAGTGTTTTGTGTTTTGCTATTTTTTAGTAATGAAACTTC
*
38567564 TTTTTAAAAAAATATTATAGTTATTTATTTTGTTAGTAATTTATGGGATTAGG-T-TATAAATTG
129 TTTTTAAAAAAATATTATAG-TAGTTATTTTGTTAGTAATTTAT-GGATTAGGTTATATAAATTG
* *
38567627 TTAGTGTTTAGTTTAG
192 TTAGTGTTTAATTCAG
38567643 -GATTTTGTGATTTTTTAGTAATGTA-ATTTTCAAAAAAAATAATTTTATAGTTATTTTGTTAGT
1 TG-TTTTGTGA-TTTTTAGTAATGTACATTTT--AAAAAAATAATTTTATAGTTATTTTGTTAGT
38567706 AATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTTAGTGTTTT-CTATTTTTTAGTAATG
62 AATTTATGATTAGGTTATATAAATTGTTAGTG--T--TTT-GTGTTTTGCTATTTTTTAGTAATG
*
38567770 -AACTT-TTTTTAAAATTTAAT-TT-TA-TAGTTATTTTGTTAGTAATTTAT-GATTAGGTTATA
122 AAACTTCTTTTTAAAA--AAATATTATAGTAGTTATTTTGTTAGTAATTTATGGATTAGGTTATA
38567829 TAAATTGTTAGTGTTTAATTCAG
185 TAAATTGTTAGTGTTTAATTCAG
** * *
38567852 TGTTTTGTGATTTTTAGTAATGTACATTTTTTAAAAATAATTTTATAATTATTTTGTTATTAATT
1 TGTTTTGTGATTTTTAGTAATGTACATTTTAAAAAAATAATTTTATAGTTATTTTGTTAGTAATT
38567917 TATGATTAGGTTATATAAATTGTT
66 TATGATTAGGTTATATAAATTGTT
38567941 TTTTTTGTTA
Statistics
Matches: 264, Mismatches: 15, Indels: 35
0.84 0.05 0.11
Matches are distributed among these distances:
202 4 0.02
203 2 0.01
204 26 0.10
205 2 0.01
207 94 0.36
208 16 0.06
209 73 0.28
210 1 0.00
211 12 0.05
212 6 0.02
213 21 0.08
214 7 0.03
ACGTcount: A:0.30, C:0.01, G:0.15, T:0.54
Consensus pattern (207 bp):
TGTTTTGTGATTTTTAGTAATGTACATTTTAAAAAAATAATTTTATAGTTATTTTGTTAGTAATT
TATGATTAGGTTATATAAATTGTTAGTGTTTTGTGTTTTGCTATTTTTTAGTAATGAAACTTCTT
TTTAAAAAAATATTATAGTAGTTATTTTGTTAGTAATTTATGGATTAGGTTATATAAATTGTTAG
TGTTTAATTCAG
Found at i:38572994 original size:33 final size:33
Alignment explanation
Indices: 38572957--38573044 Score: 90
Period size: 33 Copynumber: 2.7 Consensus size: 33
38572947 ATCTCAGCTT
* *
38572957 GTATCCACCTCAGTACTTCACTCCT-CCTAGCCC
1 GTATCCACCACAGTACTCCACTCCTCCCT-GCCC
* * *
38572990 GTATCCATCACTGTACTCCATTCCTCCCTGCCC
1 GTATCCACCACAGTACTCCACTCCTCCCTGCCC
*
38573023 GTATCCAACATC-GTACTCCACT
1 GTATCCACCA-CAGTACTCCACT
38573045 AATTTCGGCT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
33 42 0.91
34 4 0.09
ACGTcount: A:0.19, C:0.43, G:0.09, T:0.28
Consensus pattern (33 bp):
GTATCCACCACAGTACTCCACTCCTCCCTGCCC
Found at i:38573339 original size:75 final size:74
Alignment explanation
Indices: 38573212--38573398 Score: 247
Period size: 75 Copynumber: 2.5 Consensus size: 74
38573202 AAACCATCAG
* * * * *
38573212 TTTTAGGGGGTTTTTGTAATTT-AA-ATAACTTTATATTTATGTAATGA-TTTTTTTTCCATTTT
1 TTTTAAGGGTTTTTTGTAATTTAAATATAACTTTGTATTTATGTAATGACTTTTTTTGCCATTTC
*
38573274 AGTTATTAA
66 AGCTATTAA
38573283 TTTTAAGGGTTTTTTGTAATTTAAATAGTCAACTTTGTATTTATGTAATGACTTTTTTTGCCATT
1 TTTTAAGGGTTTTTTGTAATTTAAATA-T-AACTTTGTATTTATGTAATGACTTTTTTTGCCATT
38573348 TCAGCTATTAA
64 TCAGCTATTAA
*
38573359 TTTTAA-GGTTTTTTGCAATTTAAATAATAAACTTTGTATT
1 TTTTAAGGGTTTTTTGTAATTTAAAT-AT-AACTTTGTATT
38573399 ATTTAAGTAA
Statistics
Matches: 102, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
71 20 0.20
72 2 0.02
73 1 0.01
74 1 0.01
75 50 0.49
76 28 0.27
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.53
Consensus pattern (74 bp):
TTTTAAGGGTTTTTTGTAATTTAAATATAACTTTGTATTTATGTAATGACTTTTTTTGCCATTTC
AGCTATTAA
Found at i:38582862 original size:22 final size:22
Alignment explanation
Indices: 38582834--38582876 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
38582824 TTAGTGTGTG
38582834 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
38582856 TAGGAATATTTTGTAGATATT
1 TAGGAATATTCTGTAAATATT
38582877 CTTTTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:38588460 original size:29 final size:29
Alignment explanation
Indices: 38588413--38588492 Score: 99
Period size: 29 Copynumber: 2.7 Consensus size: 29
38588403 CTTAATAATC
*
38588413 AACCACGCACACTTAAGTGCCATGTACTTT-A
1 AACC-CGCACACTT-AGTGCCATGCA-TTTCA
*
38588444 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
38588473 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
38588493 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
28 3 0.07
29 29 0.66
30 9 0.20
31 3 0.07
ACGTcount: A:0.29, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:38590974 original size:22 final size:22
Alignment explanation
Indices: 38590946--38590988 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
38590936 AGGGGGAGTG
38590946 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
38590968 TAGGAATATTTTGTAGATATT
1 TAGGAATATTCTGTAAATATT
38590989 CTTTTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:38594064 original size:64 final size:64
Alignment explanation
Indices: 38593924--38594050 Score: 155
Period size: 64 Copynumber: 2.0 Consensus size: 64
38593914 ATGACTAGCG
* * * * * * *
38593924 ACAATATTAATAGAATAACAACTATTTACAATTGAATCCAAATAGAATACAATCAAAATTACTA
1 ACAATATTAACAAAATAACAACTATTTACAACTAAATCCAAAGAGAATACAATCAAAATGAATA
** * *
38593988 ACCGTATTAACAAAATAACAATTATTTACAACTAAATCCAAAGAGAGTACAATCAAAATGAAT
1 ACAATATTAACAAAATAACAACTATTTACAACTAAATCCAAAGAGAATACAATCAAAATGAAT
38594051 TATAATTGTA
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.53, C:0.15, G:0.06, T:0.26
Consensus pattern (64 bp):
ACAATATTAACAAAATAACAACTATTTACAACTAAATCCAAAGAGAATACAATCAAAATGAATA
Found at i:38597790 original size:17 final size:18
Alignment explanation
Indices: 38597768--38597801 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
38597758 TTATGGGTCA
38597768 TGTGGGC-CACATGGGCG
1 TGTGGGCTCACATGGGCG
38597785 TGTGGGCTCACATGGGC
1 TGTGGGCTCACATGGGC
38597802 CCTTAATATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.12, C:0.24, G:0.44, T:0.21
Consensus pattern (18 bp):
TGTGGGCTCACATGGGCG
Found at i:38599845 original size:16 final size:16
Alignment explanation
Indices: 38599824--38599856 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
38599814 TTGTAACGCC
*
38599824 CCAAAAATCTCGAAAT
1 CCAAAAATCCCGAAAT
38599840 CCAAAAATCCCGAAAT
1 CCAAAAATCCCGAAAT
38599856 C
1 C
38599857 TTGAATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.30, G:0.06, T:0.15
Consensus pattern (16 bp):
CCAAAAATCCCGAAAT
Found at i:38601072 original size:19 final size:18
Alignment explanation
Indices: 38601050--38601086 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
38601040 AGAATTGGCC
38601050 AAATGGGCCGGAATGGGCT
1 AAATGGGCC-GAATGGGCT
*
38601069 AAATGGGCCTAATGGGCT
1 AAATGGGCCGAATGGGCT
38601087 GTTGGGCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.27, C:0.16, G:0.38, T:0.19
Consensus pattern (18 bp):
AAATGGGCCGAATGGGCT
Found at i:38601211 original size:29 final size:29
Alignment explanation
Indices: 38601167--38601277 Score: 109
Period size: 29 Copynumber: 3.9 Consensus size: 29
38601157 ATTATATGAT
*
38601167 TTGGGCCTAATAGGCCATATGAATGTGAA
1 TTGGGCCTAATGGGCCATATGAATGTGAA
* * *
38601196 TTGGGCCTAGTGGGCCATAAGAATATGAA
1 TTGGGCCTAATGGGCCATATGAATGTGAA
* * * *
38601225 CTAGGCCAAATGGGCCATAT-AATGAG-A
1 TTGGGCCTAATGGGCCATATGAATGTGAA
* * *
38601252 TTGGGCCCAGTGGGCCATATGCATGT
1 TTGGGCCTAATGGGCCATATGAATGT
38601278 ATGTAGGGGT
Statistics
Matches: 64, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
27 17 0.27
28 7 0.11
29 40 0.62
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATGAATGTGAA
Found at i:38604532 original size:42 final size:42
Alignment explanation
Indices: 38604486--38604579 Score: 138
Period size: 42 Copynumber: 2.2 Consensus size: 42
38604476 AGACTATGTG
*
38604486 TAAGACCATATCT-GGAATATGACATCATTATGAGATTTTC-TA
1 TAAGACCATATCTAGG-ATATGACATCAATATGAGA-TTTCGTA
*
38604528 TAAGACCATATCTAGGATATGACATCAATATGAGATTTCGTG
1 TAAGACCATATCTAGGATATGACATCAATATGAGATTTCGTA
38604570 TAAGACCATA
1 TAAGACCATA
38604580 GTTGGGCTAT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
41 4 0.08
42 42 0.88
43 2 0.04
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (42 bp):
TAAGACCATATCTAGGATATGACATCAATATGAGATTTCGTA
Found at i:38609411 original size:17 final size:17
Alignment explanation
Indices: 38609377--38609411 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
38609367 ATGGTAATTA
*
38609377 TAATTATTATATTCAAT
1 TAATTATTATAATCAAT
*
38609394 TAATTATTATAATGAAT
1 TAATTATTATAATCAAT
38609411 T
1 T
38609412 TTGATTCATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (17 bp):
TAATTATTATAATCAAT
Found at i:38610724 original size:28 final size:28
Alignment explanation
Indices: 38610693--38610766 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
38610683 ATATATATAT
* *
38610693 ATGGCACTTAGTGTGTGAAATATTGAGA
1 ATGGCACTTAGTATGCGAAATATTGAGA
* * *
38610721 ATGGCACTTGGTATGCGAGATATTGAGT
1 ATGGCACTTAGTATGCGAAATATTGAGA
**
38610749 ATGAAACTTAGTATGCGA
1 ATGGCACTTAGTATGCGA
38610767 GACATCGAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.31
Consensus pattern (28 bp):
ATGGCACTTAGTATGCGAAATATTGAGA
Found at i:38613512 original size:36 final size:36
Alignment explanation
Indices: 38613412--38613505 Score: 152
Period size: 37 Copynumber: 2.6 Consensus size: 36
38613402 TGGCAATACA
38613412 TGTGAGTACGTGTAAGACCATAGCTGGGCTATGGCAT
1 TGTGA-TACGTGTAAGACCATAGCTGGGCTATGGCAT
* *
38613449 CGTAATAGCGTGTAAGACCATAGCTGGGCTATGGCAT
1 TGTGATA-CGTGTAAGACCATAGCTGGGCTATGGCAT
38613486 TGTGATACGTGTAAGACCAT
1 TGTGATACGTGTAAGACCAT
38613506 GTCTGGGACA
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
36 15 0.29
37 37 0.71
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.27
Consensus pattern (36 bp):
TGTGATACGTGTAAGACCATAGCTGGGCTATGGCAT
Found at i:38613665 original size:42 final size:42
Alignment explanation
Indices: 38613614--38613720 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 42
38613604 ATGGTTTAGG
* ** *
38613614 TATGAGATTTCGTGTAAGACCGTGTCTGGGATGCGGCATTGA
1 TATGAGATTTCGTGTAAGACCATGTCTGGGACACGGCATCGA
* * * * *
38613656 TATGTGATTTTGTATTAGACCATGTCTGGGACATGGCATCGA
1 TATGAGATTTCGTGTAAGACCATGTCTGGGACACGGCATCGA
* *
38613698 TGTGAGACTTCGTGTAAGACCAT
1 TATGAGATTTCGTGTAAGACCAT
38613721 ATTTGGACTG
Statistics
Matches: 50, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (42 bp):
TATGAGATTTCGTGTAAGACCATGTCTGGGACACGGCATCGA
Found at i:38617531 original size:40 final size:43
Alignment explanation
Indices: 38617487--38617589 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 43
38617477 CGGCTAAGAA
38617487 TGGCACTTAGTGTGCGATTTGAAATAGCTTCGGC-T-A-AATG
1 TGGCACTTAGTGTGCGATTTGAAATAGCTTCGGCATAACAATG
* * *
38617527 TGGCACTTGGTGTGCGATTTGAGATAGCTTTGGCTATACATCAATG
1 TGGCACTTAGTGTGCGATTTGAAATAGCTTCGGC-ATA-A-CAATG
38617573 TGGCACTTAGTGTGCGA
1 TGGCACTTAGTGTGCGA
38617590 AATATTGAGA
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
40 31 0.58
42 1 0.02
44 1 0.02
46 20 0.38
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (43 bp):
TGGCACTTAGTGTGCGATTTGAAATAGCTTCGGCATAACAATG
Found at i:38617621 original size:27 final size:28
Alignment explanation
Indices: 38617573--38617638 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 28
38617563 TACATCAATG
*
38617573 TGGCACTTAGTGTGCGAAATATTGAGAA
1 TGGCACTTAGTGTACGAAATATTGAGAA
* * *
38617601 TGGCACTT-GTGTATGAGATATTGAGTA
1 TGGCACTTAGTGTACGAAATATTGAGAA
38617628 TGGCACTTAGT
1 TGGCACTTAGT
38617639 ATGCGAGACA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 23 0.70
28 10 0.30
ACGTcount: A:0.27, C:0.11, G:0.29, T:0.33
Consensus pattern (28 bp):
TGGCACTTAGTGTACGAAATATTGAGAA
Found at i:38619347 original size:32 final size:31
Alignment explanation
Indices: 38619311--38619378 Score: 100
Period size: 32 Copynumber: 2.2 Consensus size: 31
38619301 GACATGGGTA
*
38619311 TGTGTGACCACACGGCCTAACGCACACGGGAG
1 TGTGTGACCACACGGCCT-ACCCACACGGGAG
* *
38619343 TGTGTGACCACACGGCCTACCCACGCGGGCG
1 TGTGTGACCACACGGCCTACCCACACGGGAG
38619374 TGTGT
1 TGTGT
38619379 CCCTGTTTCA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 15 0.45
32 18 0.55
ACGTcount: A:0.19, C:0.32, G:0.32, T:0.16
Consensus pattern (31 bp):
TGTGTGACCACACGGCCTACCCACACGGGAG
Found at i:38623282 original size:25 final size:25
Alignment explanation
Indices: 38623248--38623298 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
38623238 TTTGGAAGTA
* *
38623248 TTTTGAAATGTTAGTACTGAATGTG
1 TTTTAAAATGTTACTACTGAATGTG
*
38623273 TTTTAAAATGTTTCTACTGAATGTG
1 TTTTAAAATGTTACTACTGAATGTG
38623298 T
1 T
38623299 GGTACACCGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.06, G:0.20, T:0.47
Consensus pattern (25 bp):
TTTTAAAATGTTACTACTGAATGTG
Found at i:38626569 original size:29 final size:29
Alignment explanation
Indices: 38626491--38626601 Score: 91
Period size: 29 Copynumber: 3.9 Consensus size: 29
38626481 AAATTCACAT
* * * *
38626491 ACATGTATCTGGCCCATTAAGCCC-ATTA
1 ACATGTATATGGCCCATTAGGCCCAAATC
* * *
38626519 ATAT-TCATATAGCCCATGAGGCCCAAATC
1 ACATGT-ATATGGCCCATTAGGCCCAAATC
* * *
38626548 ACCTGTATATGGCCTATTAGGCCCAAGTC
1 ACATGTATATGGCCCATTAGGCCCAAATC
* *
38626577 ACATTTATATGGCCCGTTAGGCCCA
1 ACATGTATATGGCCCATTAGGCCCA
38626602 GTCACATTCA
Statistics
Matches: 63, Mismatches: 17, Indels: 5
0.74 0.20 0.06
Matches are distributed among these distances:
27 1 0.02
28 17 0.27
29 44 0.70
30 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (29 bp):
ACATGTATATGGCCCATTAGGCCCAAATC
Found at i:38626614 original size:28 final size:29
Alignment explanation
Indices: 38626521--38626614 Score: 102
Period size: 29 Copynumber: 3.3 Consensus size: 29
38626511 GCCCATTAAT
* * *
38626521 ATTCATATAGCCCATGAGGCCCAAATCAC
1 ATTCATATGGCCCATTAGGCCCAAGTCAC
* *
38626550 CTGT-ATATGGCCTATTAGGCCCAAGTCAC
1 AT-TCATATGGCCCATTAGGCCCAAGTCAC
* *
38626579 ATTTATATGGCCCGTTAGGCCC-AGTCAC
1 ATTCATATGGCCCATTAGGCCCAAGTCAC
38626607 ATTCATAT
1 ATTCATAT
38626615 TCATGCTCAC
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
28 14 0.26
29 39 0.72
30 1 0.02
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (29 bp):
ATTCATATGGCCCATTAGGCCCAAGTCAC
Found at i:38626854 original size:24 final size:24
Alignment explanation
Indices: 38626825--38626875 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
38626815 GTAGCCAAAC
* *
38626825 TTTTGGCTTTTCGGCATTTCGACT
1 TTTTGGCATTTCGACATTTCGACT
38626849 TTTTGGCATTTCGACATTTCGACT
1 TTTTGGCATTTCGACATTTCGACT
38626873 TTT
1 TTT
38626876 GCTGATTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.12, C:0.20, G:0.18, T:0.51
Consensus pattern (24 bp):
TTTTGGCATTTCGACATTTCGACT
Found at i:38626856 original size:16 final size:16
Alignment explanation
Indices: 38626831--38626869 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
38626821 AAACTTTTGG
38626831 CTTTTCGGCATTTCGA
1 CTTTTCGGCATTTCGA
*
38626847 CTTTTTGGCATTTCGA
1 CTTTTCGGCATTTCGA
*
38626863 CATTTCG
1 CTTTTCG
38626870 ACTTTTGCTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.46
Consensus pattern (16 bp):
CTTTTCGGCATTTCGA
Found at i:38627497 original size:35 final size:34
Alignment explanation
Indices: 38627450--38627531 Score: 112
Period size: 35 Copynumber: 2.4 Consensus size: 34
38627440 ATTCGACTCC
*
38627450 AAGGAAAA-AGAAAGAAAAGTGAGCAATGAGGTA
1 AAGGAAAATAGAAAGAAAAGTGAGCAATGAAGTA
* *
38627483 TAGGAAGAATAGAAAGAAAAGTTAGCAATGAAGTA
1 AAGGAA-AATAGAAAGAAAAGTGAGCAATGAAGTA
38627518 AAGGAATAATAGAA
1 AAGGAA-AATAGAA
38627532 TTTGACACAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
33 5 0.12
34 2 0.05
35 35 0.83
ACGTcount: A:0.57, C:0.02, G:0.27, T:0.13
Consensus pattern (34 bp):
AAGGAAAATAGAAAGAAAAGTGAGCAATGAAGTA
Found at i:38628167 original size:16 final size:16
Alignment explanation
Indices: 38628146--38628177 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
38628136 AAGTTTAGGA
38628146 TTTCAGGATCTTTGGG
1 TTTCAGGATCTTTGGG
38628162 TTTCAGGATCTTTGGG
1 TTTCAGGATCTTTGGG
38628178 GCGTTACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.12, G:0.31, T:0.44
Consensus pattern (16 bp):
TTTCAGGATCTTTGGG
Found at i:38646114 original size:29 final size:29
Alignment explanation
Indices: 38646081--38646154 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
38646071 GTTGTGAGAT
* *
38646081 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
38646110 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
38646139 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
38646155 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:38650340 original size:41 final size:41
Alignment explanation
Indices: 38650248--38650440 Score: 230
Period size: 41 Copynumber: 4.8 Consensus size: 41
38650238 GGTTGTCACA
* * *
38650248 TCGGCTACATATGGCATTTAGTGTGC--GATTTGACATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCAAGA-TTGAGATAGCT
* *
38650288 TCAGCTGTATATGGCACTTAGTGTGCAAGATTGAGATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCAAGATTGAGATAGCT
* *
38650329 TCGGCTATATATGGCACTTAGGGTGCGAGATTGAGATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCAAGATTGAGATAGCT
* *
38650370 TCGGCTATATATGGCATTTAGTGTGCAA-TTTGAGATAGCT
1 TCGGCTATATATGGCACTTAGTGTGCAAGATTGAGATAGCT
* * * * *
38650410 TCAGCTATGTACGACACTTAGTGTGCGAGAT
1 TCGGCTATATATGGCACTTAGTGTGCAAGAT
38650441 ATTGAGTACT
Statistics
Matches: 130, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
40 55 0.42
41 73 0.56
42 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (41 bp):
TCGGCTATATATGGCACTTAGTGTGCAAGATTGAGATAGCT
Found at i:38650405 original size:81 final size:82
Alignment explanation
Indices: 38650248--38650440 Score: 255
Period size: 81 Copynumber: 2.4 Consensus size: 82
38650238 GGTTGTCACA
* * * *
38650248 TCGGCTACATATGGCATTTAGTGTGCGA-TTTGACATAGCTTCAGCTGTATATGGCACTTAGTGT
1 TCGGCTATATATGGCACTTAGTGTGCGAGATTGACATAGCTTCAGCTATATATGGCACTTAGTGT
38650312 GCAAGATTGAGATAGCT
66 GCAAGATTGAGATAGCT
* * * *
38650329 TCGGCTATATATGGCACTTAGGGTGCGAGATTGAGATAGCTTCGGCTATATATGGCATTTAGTGT
1 TCGGCTATATATGGCACTTAGTGTGCGAGATTGACATAGCTTCAGCTATATATGGCACTTAGTGT
*
38650394 GCAA-TTTGAGATAGCT
66 GCAAGATTGAGATAGCT
* * * *
38650410 TCAGCTATGTACGACACTTAGTGTGCGAGAT
1 TCGGCTATATATGGCACTTAGTGTGCGAGAT
38650441 ATTGAGTACT
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 62 0.64
82 35 0.36
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.33
Consensus pattern (82 bp):
TCGGCTATATATGGCACTTAGTGTGCGAGATTGACATAGCTTCAGCTATATATGGCACTTAGTGT
GCAAGATTGAGATAGCT
Found at i:38653278 original size:28 final size:28
Alignment explanation
Indices: 38653215--38653340 Score: 227
Period size: 28 Copynumber: 4.5 Consensus size: 28
38653205 ATATTAAGTC
* *
38653215 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
38653242 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
38653270 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
38653298 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
38653326 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
38653341 GTACAATTTA
Statistics
Matches: 96, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
27 21 0.22
28 75 0.78
ACGTcount: A:0.33, C:0.29, G:0.12, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:38659091 original size:27 final size:27
Alignment explanation
Indices: 38659060--38659237 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
38659050 TAAATTGTAC
38659060 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* **
38659087 TGCACTAAGTGTGCGAAATGA--ATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38659112 GATGCACTAAGTGTGCGAATTGACCATGC
1 -A-GCACTAAGTGTGCGATTTGACTATGT
*
38659141 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
38659169 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
38659196 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
38659223 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
38659238 GACTCAATAT
Statistics
Matches: 129, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
25 4 0.03
27 99 0.77
28 23 0.18
29 3 0.02
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:38659201 original size:82 final size:81
Alignment explanation
Indices: 38659061--38659216 Score: 226
Period size: 82 Copynumber: 1.9 Consensus size: 81
38659051 AAATTGTACA
* *
38659061 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATGTGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAAGTGT
38659126 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
**
38659142 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT-A-GCACTAAG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGA--ACGTGATGCACTAAG
*
38659205 TGTGCGAGTTGA
63 TGTGCGAATTGA
38659217 TTATATAGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
81 15 0.22
82 48 0.72
83 1 0.01
84 3 0.04
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:38659228 original size:82 final size:81
Alignment explanation
Indices: 38659057--38659237 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 81
38659047 GATTAAATTG
* *
38659057 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATGTGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAA
38659122 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * **
38659138 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT-A-GCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGA--ACGTGATGCAC
* **
38659201 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
38659220 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
38659238 GACTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 17 0.20
82 63 0.75
83 1 0.01
84 3 0.04
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAACGTGATGCACTAA
GTGTGCGAATTGACCA
Found at i:38660774 original size:28 final size:28
Alignment explanation
Indices: 38660737--38660888 Score: 119
Period size: 28 Copynumber: 5.4 Consensus size: 28
38660727 ACCTCTATAT
*
38660737 ACATACATATGGCCCA-CTAGGCCAAATC
1 ACATTCATATGGCCCATC-AGGCCAAATC
* * * *
38660765 TCATTTATATGGCCCATCCGGCCCAATCC
1 ACATTCATATGGCCCATCAGGCCAAAT-C
* * * *
38660794 ACACTCATATGGCCTATCCGGCCCAATTC
1 ACATTCATATGGCCCATCAGG-CCAAATC
* *
38660823 ACATTCATATGGCCCATTAGGCCCAATC
1 ACATTCATATGGCCCATCAGGCCAAATC
* * *
38660851 TCATTTATATGGCCCATCCGGCCCAAATC
1 ACATTCATATGGCCCATCAGG-CCAAATC
*
38660880 ATATT-ATAT
1 ACATTCATAT
38660889 TCATGCTCAC
Statistics
Matches: 96, Mismatches: 24, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
28 46 0.48
29 46 0.48
30 4 0.04
ACGTcount: A:0.28, C:0.33, G:0.13, T:0.26
Consensus pattern (28 bp):
ACATTCATATGGCCCATCAGGCCAAATC
Found at i:38660804 original size:29 final size:28
Alignment explanation
Indices: 38660737--38660876 Score: 147
Period size: 29 Copynumber: 4.9 Consensus size: 28
38660727 ACCTCTATAT
* * *
38660737 ACATACATATGGCCCA-CTAGGCCAAATC
1 ACATTCATATGGCCCATC-CGGCCCAATC
* *
38660765 TCATTTATATGGCCCATCCGGCCCAATCC
1 ACATTCATATGGCCCATCCGGCCCAAT-C
* *
38660794 ACACTCATATGGCCTATCCGGCCCAATTC
1 ACATTCATATGGCCCATCCGGCCCAA-TC
**
38660823 ACATTCATATGGCCCATTAGGCCCAATC
1 ACATTCATATGGCCCATCCGGCCCAATC
* *
38660851 TCATTTATATGGCCCATCCGGCCCAA
1 ACATTCATATGGCCCATCCGGCCCAA
38660877 ATCATATTAT
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
28 44 0.48
29 47 0.51
30 1 0.01
ACGTcount: A:0.26, C:0.35, G:0.14, T:0.24
Consensus pattern (28 bp):
ACATTCATATGGCCCATCCGGCCCAATC
Found at i:38660837 original size:58 final size:57
Alignment explanation
Indices: 38660766--38660876 Score: 150
Period size: 57 Copynumber: 1.9 Consensus size: 57
38660756 GGCCAAATCT
* * *
38660766 CATTTATATGGCCCATCCGGCCCAATCCACACTCATATGGCCTATCCGGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAAT-CACACTCATATGGCCCATCCGGCCCAATTCA
* * * *
38660824 CATTCATATGGCCCATTAGGCCCAATCTCATTTATATGGCCCATCCGGCCCAA
1 CATTCATATGGCCCATCAGGCCCAATCACACTCATATGGCCCATCCGGCCCAA
38660877 ATCATATTAT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 23 0.50
58 23 0.50
ACGTcount: A:0.24, C:0.36, G:0.14, T:0.25
Consensus pattern (57 bp):
CATTCATATGGCCCATCAGGCCCAATCACACTCATATGGCCCATCCGGCCCAATTCA
Found at i:38661142 original size:16 final size:16
Alignment explanation
Indices: 38661105--38661141 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
38661095 CAAACTTTCA
*
38661105 GCTTTTCGGCATTTTG
1 GCTTTTCGACATTTTG
38661121 GCTTTTCGACATTTTG
1 GCTTTTCGACATTTTG
38661137 G-TTTT
1 GCTTTT
38661142 TACCGATCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.08, C:0.16, G:0.22, T:0.54
Consensus pattern (16 bp):
GCTTTTCGACATTTTG
Found at i:38665287 original size:23 final size:22
Alignment explanation
Indices: 38665236--38665287 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
38665226 CCTCGTCTTT
*
38665236 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
38665258 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
38665281 TTCTTTT
1 TTCTTTT
38665288 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:38669036 original size:37 final size:37
Alignment explanation
Indices: 38668986--38669064 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
38668976 TTATTACGAC
* * *
38668986 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
38669023 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
38669060 GTCTT
1 GTCTT
38669065 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:38669357 original size:49 final size:48
Alignment explanation
Indices: 38669183--38669503 Score: 465
Period size: 47 Copynumber: 6.8 Consensus size: 48
38669173 CCCTTCGGGA
* * * * * *
38669183 CTTATCAC-ATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* **
38669230 CCTGCCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38669277 CTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCACTAGGC
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38669324 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
38669373 CTTATCAC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38669420 CTTATCACATATATATACACTTTCACATTCATTACATCGGCCATTAGGC
1 CTTATCACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
38669469 CTTATCAC-ATATATACA-TGTTCACATCCATCACAT
1 CTTATCACAATATATACACT-TTCACATTCATCACAT
38669504 AGAATCCTAA
Statistics
Matches: 252, Mismatches: 17, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
46 1 0.00
47 159 0.63
49 92 0.37
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (48 bp):
CTTATCACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:38669380 original size:96 final size:96
Alignment explanation
Indices: 38669183--38669503 Score: 513
Period size: 96 Copynumber: 3.4 Consensus size: 96
38669173 CCCTTCGGGA
* * * * * * *
38669183 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCT-GC-CACATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCTTATCACATATATATAC
38669246 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
38669277 CTTATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCTTATCACATATATATAC
38669342 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
38669373 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCTTATCACATATATATAC
*
38669438 ACTTTCACATTCATTACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
38669469 CTTATCACATATATACA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATCCATCACAT
38669504 AGAATCCTAA
Statistics
Matches: 213, Mismatches: 11, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
94 44 0.21
95 2 0.01
96 167 0.78
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Done.