Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 97 of 290
Found at i:32849993 original size:49 final size:49
Alignment explanation
Indices: 32849922--32850021 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 49
32849912 ACCAATGAGG
* *
32849922 AACAAACAAGACGGGGTATGGCTCATATCCCTTTTTGTGAACTATGTGA
1 AACAAACAAGACGAGGTATGGCTCATATCCCTTTTTATGAACTATGTGA
* *
32849971 AACAAACAAGATGAGGTATGGCTCATATCCCTTTTTATGACCTATGTGA
1 AACAAACAAGACGAGGTATGGCTCATATCCCTTTTTATGAACTATGTGA
32850020 AA
1 AA
32850022 GTGTGGAGTC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (49 bp):
AACAAACAAGACGAGGTATGGCTCATATCCCTTTTTATGAACTATGTGA
Found at i:32851547 original size:46 final size:46
Alignment explanation
Indices: 32851486--32851665 Score: 145
Period size: 47 Copynumber: 3.9 Consensus size: 46
32851476 TGTATATGTG
32851486 CTGATGCATGTCCCAGACAT-GTCTTACACTGGCACTCACCTCTAC
1 CTGATGCATGTCCCAGACATGGTCTTACACTGGCACTCACCTCTAC
* * * * *
32851531 CCGATGCCATGTCCCAGACGTGGTCTTACACGGGCTA-TCA--TGATGC
1 CTGATG-CATGTCCCAGACATGGTCTTACACTGGC-ACTCACCT-CTAC
* * * * * *
32851577 GGCTGATGCATGTCCCAGACAT-GTCTTACATTAGCCCTCATCTCAATG
1 --CTGATGCATGTCCCAGACATGGTCTTACACTGGCACTCACCTCTA-C
* *
32851625 CTGATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCAC
1 CTGATG-CATGTCCCAGACATGGTCTTACACTGGCACTCAC
32851666 ATAACCCAAT
Statistics
Matches: 103, Mismatches: 20, Indels: 21
0.72 0.14 0.15
Matches are distributed among these distances:
45 6 0.06
46 34 0.33
47 42 0.41
48 21 0.20
ACGTcount: A:0.21, C:0.32, G:0.20, T:0.27
Consensus pattern (46 bp):
CTGATGCATGTCCCAGACATGGTCTTACACTGGCACTCACCTCTAC
Found at i:32856978 original size:30 final size:30
Alignment explanation
Indices: 32856942--32857002 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
32856932 GGAATTTTAA
*
32856942 TGTTATTTCATTAAGGGCATAATACTAAAC
1 TGTTATTTCATTAAGGGAATAATACTAAAC
*
32856972 TGTTATTTCATTAAGGGAATAATAGTAAAC
1 TGTTATTTCATTAAGGGAATAATACTAAAC
32857002 T
1 T
32857003 ATGTATAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (30 bp):
TGTTATTTCATTAAGGGAATAATACTAAAC
Found at i:32858027 original size:43 final size:43
Alignment explanation
Indices: 32857893--32858045 Score: 163
Period size: 43 Copynumber: 3.6 Consensus size: 43
32857883 TGTGTTTTTG
32857893 TGTAAGACCATGTCTGGGAC-GTTGGCATCGAT-TTGTGATTTACA
1 TGTAAGACCATGTCTGGGACAGTT-GCATCGATATT-TGA-TTACA
* * * *
32857937 TGTAAGACCATGTCTGGGACA-TCAGTATC-ATATTTGATTTCG
1 TGTAAGACCATGTCTGGGACAGT-TGCATCGATATTTGATTACA
* * *
32857979 TGTAAGACCCTGTCTTGGACAGTTGCATCGATATTTGATCACA
1 TGTAAGACCATGTCTGGGACAGTTGCATCGATATTTGATTACA
*
32858022 TGTAAGACCACGTCTGGGAC-GTTG
1 TGTAAGACCATGTCTGGGACAGTTG
32858046 GCATTGTACG
Statistics
Matches: 90, Mismatches: 14, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
42 30 0.33
43 33 0.37
44 27 0.30
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGTTGCATCGATATTTGATTACA
Found at i:32862657 original size:47 final size:47
Alignment explanation
Indices: 32862594--32863123 Score: 853
Period size: 47 Copynumber: 11.3 Consensus size: 47
32862584 CCCTTCGGGA
* * * *
32862594 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
32862641 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
32862688 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
32862735 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
32862782 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
32862829 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
32862876 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
32862923 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
32862970 CTTGTCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
32863017 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
32863064 CTTATCTCATATATACACTTTCACATTCATCACATTGGTCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
32863111 CTTATCACATATA
1 CTTATCACATATA
32863124 CATATCTTGT
Statistics
Matches: 455, Mismatches: 28, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 455 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:32867013 original size:6 final size:6
Alignment explanation
Indices: 32867002--32867035 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
32866992 TTGTCTCATC
* *
32867002 GGAAGG GGAAGG GGAAGG TGAAGG GGAAAG GGAA
1 GGAAGG GGAAGG GGAAGG GGAAGG GGAAGG GGAA
32867036 AAAGGAAGGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.59, T:0.03
Consensus pattern (6 bp):
GGAAGG
Found at i:32869696 original size:40 final size:40
Alignment explanation
Indices: 32869652--32869746 Score: 154
Period size: 40 Copynumber: 2.4 Consensus size: 40
32869642 CTATACCATT
* *
32869652 TCGCACACTTAGTGCTATTTATAGCCGAAGCTATTTTGAA
1 TCGCACACTTAGTGCTATTTATAGCCAAAACTATTTTGAA
* *
32869692 TCGCACACTTAGTGTTGTTTATAGCCAAAACTATTTTGAA
1 TCGCACACTTAGTGCTATTTATAGCCAAAACTATTTTGAA
32869732 TCGCACACTTAGTGC
1 TCGCACACTTAGTGC
32869747 CAAATGTAGT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (40 bp):
TCGCACACTTAGTGCTATTTATAGCCAAAACTATTTTGAA
Found at i:32890630 original size:25 final size:25
Alignment explanation
Indices: 32890602--32890653 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
32890592 AAACTTCCTC
* *
32890602 TAAATATTACGTATATGTCATGTCA
1 TAAATATTACGTATATGTAAAGTCA
32890627 TAAATATTACGTATATGTAAAGTCA
1 TAAATATTACGTATATGTAAAGTCA
32890652 TA
1 TA
32890654 CTCAGTACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (25 bp):
TAAATATTACGTATATGTAAAGTCA
Found at i:32894395 original size:43 final size:41
Alignment explanation
Indices: 32894259--32894415 Score: 167
Period size: 43 Copynumber: 3.7 Consensus size: 41
32894249 TAAGCTATCA
* *
32894259 TGTAAGACCACGTCTGGGACGTCGGCATCGATTTGAGATTGACG
1 TGTAAGACCATGTCTGGGAAGTCGGCATCGATTT--GATT-ACG
*
32894303 TGTAAGACCATGTCTGGGACA-TCGACATCGTATTTGACTT-CG
1 TGTAAGACCATGTCTGGGA-AGTCGGCATCG-ATTTGA-TTACG
32894345 TGTAAGACCATGTCTGGGATAGT-GGCATCGACATTTGATTACG
1 TGTAAGACCATGTCTGGGA-AGTCGGCATCG--ATTTGATTACG
* *
32894388 TGTAAGACCATGTCTGGGACGTTGGCAT
1 TGTAAGACCATGTCTGGGAAGTCGGCAT
32894416 TGTATGAGCT
Statistics
Matches: 99, Mismatches: 7, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
42 32 0.32
43 35 0.35
44 28 0.28
45 4 0.04
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGAAGTCGGCATCGATTTGATTACG
Found at i:32895448 original size:27 final size:26
Alignment explanation
Indices: 32895411--32895477 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 26
32895401 AGCATGGCTG
*
32895411 CCAGAACAGATATTATGACAGAGTCA
1 CCAGAACAGATATTATGACAGAGCCA
* **
32895437 CCAGATACAGATATTGTGGTAGAGCCA
1 CCAGA-ACAGATATTATGACAGAGCCA
*
32895464 CTAGAACAGATATT
1 CCAGAACAGATATT
32895478 TGTGGCGTAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 14 0.40
27 21 0.60
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (26 bp):
CCAGAACAGATATTATGACAGAGCCA
Found at i:32895508 original size:28 final size:28
Alignment explanation
Indices: 32895443--32895524 Score: 107
Period size: 28 Copynumber: 3.0 Consensus size: 28
32895433 GTCACCAGAT
*
32895443 ACAGATA-TTGTGGTAG-AGCCACTAG-A
1 ACAGATATTTGTGG-CGTAGCCACTAGAA
32895469 ACAGATATTTGTGGCGTAGCCACTAGAA
1 ACAGATATTTGTGGCGTAGCCACTAGAA
* *
32895497 ACAGATATTTGTGGCATAGCCACCAGAA
1 ACAGATATTTGTGGCGTAGCCACTAGAA
32895525 TGCTTCCTCC
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
26 8 0.16
27 15 0.30
28 27 0.54
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.23
Consensus pattern (28 bp):
ACAGATATTTGTGGCGTAGCCACTAGAA
Found at i:32895665 original size:26 final size:26
Alignment explanation
Indices: 32895629--32895689 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
32895619 AAATTAACCC
* *
32895629 TAGGGGTATAATGGTCACTTTGCACT
1 TAGGGGTATAATGGTAACTTTACACT
* *
32895655 TAGGGGTATAATGGTAATTTTATACT
1 TAGGGGTATAATGGTAACTTTACACT
32895681 TAGGGGTAT
1 TAGGGGTAT
32895690 TTTAGTAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.26, C:0.08, G:0.28, T:0.38
Consensus pattern (26 bp):
TAGGGGTATAATGGTAACTTTACACT
Found at i:32895697 original size:26 final size:26
Alignment explanation
Indices: 32895629--32895702 Score: 67
Period size: 26 Copynumber: 2.8 Consensus size: 26
32895619 AAATTAACCC
* * * **
32895629 TAGGGGTATAATGGTCACTTTGCACT
1 TAGGGGTATAATAGTAAATTTATACT
* *
32895655 TAGGGGTATAATGGTAATTTTATACT
1 TAGGGGTATAATAGTAAATTTATACT
**
32895681 TAGGGGTATTTTAGTAAATTTA
1 TAGGGGTATAATAGTAAATTTA
32895703 CCATTTTAAG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (26 bp):
TAGGGGTATAATAGTAAATTTATACT
Found at i:32900359 original size:23 final size:22
Alignment explanation
Indices: 32900333--32900406 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 22
32900323 TTCACAAACA
32900333 ACACTGGTGCTCCCCACAGAGAC
1 ACACTGGTGCTCCCCAC-GAGAC
** *
32900356 ACACTATTGCTCCCTACGGAGAC
1 ACACTGGTGCTCCCCAC-GAGAC
*
32900379 ACACTGGTACTCCCCACGAAGAC
1 ACACTGGTGCTCCCCACG-AGAC
32900402 ACACT
1 ACACT
32900407 CGGCCAAATA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
22 1 0.02
23 41 0.98
ACGTcount: A:0.28, C:0.38, G:0.18, T:0.16
Consensus pattern (22 bp):
ACACTGGTGCTCCCCACGAGAC
Found at i:32903671 original size:27 final size:27
Alignment explanation
Indices: 32903654--32903708 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
32903644 GTCACTAGAT
32903654 ACAAATA-TTGTGGTAGAGCCACCAGA
1 ACAAATATTTGTGGTAGAGCCACCAGA
* *
32903680 ACAGATATTTGTGG-CGTAGCCACCAGA
1 ACAAATATTTGTGGTAG-AGCCACCAGA
32903707 AC
1 AC
32903709 GCTTCCTCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 7 0.28
27 18 0.72
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (27 bp):
ACAAATATTTGTGGTAGAGCCACCAGA
Found at i:32913306 original size:43 final size:43
Alignment explanation
Indices: 32913209--32913317 Score: 123
Period size: 42 Copynumber: 2.6 Consensus size: 43
32913199 AATTTGAGAT
* * *
32913209 TTACACGTAAGACCATGTCTGGGACATTGACATCGTATTTGAC
1 TTACATGTAAGACCATGTCTGGGACAGTGACATCGCATTTGAC
** * * *
32913252 TT-TGTGCAAGACCCTGTCTGGGACAGTGGCATCGACATTTGA-
1 TTACATGTAAGACCATGTCTGGGACAGTGACATCG-CATTTGAC
32913294 TTACATGTAAGACCATGTCTGGGA
1 TTACATGTAAGACCATGTCTGGGA
32913318 TGTTGGCATT
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
42 27 0.52
43 25 0.48
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (43 bp):
TTACATGTAAGACCATGTCTGGGACAGTGACATCGCATTTGAC
Found at i:32913325 original size:43 final size:43
Alignment explanation
Indices: 32913170--32913326 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 43
32913160 TGAGCTATCG
* * * *
32913170 TGTAAGACCACGTCTAGGACGTCGGCATC-AATTTGAGATTTACA
1 TGTAAGACCATGTCTGGGACGTTGGCATCGAATTT--GACTTACA
* * * * **
32913214 CGTAAGACCATGTCTGGGACATTGACATCGTATTTGACTT-TG
1 TGTAAGACCATGTCTGGGACGTTGGCATCGAATTTGACTTACA
* *
32913256 TGCAAGACCCTGTCTGGGACAG-TGGCATCGACATTTGA-TTACA
1 TGTAAGACCATGTCTGGGAC-GTTGGCATCGA-ATTTGACTTACA
*
32913299 TGTAAGACCATGTCTGGGATGTTGGCAT
1 TGTAAGACCATGTCTGGGACGTTGGCAT
32913327 TGTATGAGCT
Statistics
Matches: 87, Mismatches: 21, Indels: 11
0.73 0.18 0.09
Matches are distributed among these distances:
42 27 0.31
43 33 0.38
44 23 0.26
45 4 0.05
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACGTTGGCATCGAATTTGACTTACA
Found at i:32917409 original size:16 final size:16
Alignment explanation
Indices: 32917388--32917436 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
32917378 TTAGAATTGG
32917388 ATTGAAAATTTATTTA
1 ATTGAAAATTTATTTA
* *
32917404 ATTGAAAAATTAATTA
1 ATTGAAAATTTATTTA
* *
32917420 ATT-TAAATTAATTTA
1 ATTGAAAATTTATTTA
32917435 AT
1 AT
32917437 AAATAATGTC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
15 10 0.37
16 17 0.63
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (16 bp):
ATTGAAAATTTATTTA
Found at i:32920942 original size:10 final size:10
Alignment explanation
Indices: 32920927--32920957 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
32920917 ACATTGAATC
32920927 AAATGAATAG
1 AAATGAATAG
32920937 AAATGAATAG
1 AAATGAATAG
32920947 AAATGATATAG
1 AAATGA-ATAG
32920958 TTAGAGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 16 0.80
11 4 0.20
ACGTcount: A:0.58, C:0.00, G:0.19, T:0.23
Consensus pattern (10 bp):
AAATGAATAG
Found at i:32922742 original size:57 final size:57
Alignment explanation
Indices: 32922672--32922812 Score: 153
Period size: 57 Copynumber: 2.4 Consensus size: 57
32922662 CGTATTACAA
*
32922672 GATTACCAATCCAGACTAAATCCTTTTTGTAACATATACTC-AGAAGAGT-TTA-ATCAG
1 GATTACCAATCCAG-CTAAATCCTTTTTGTAACATACACTCGAG-AG-GTATTATATCAG
* * **
32922729 GATTACCAGTCCAGGCTAAACCCTAATTGTAACATACACTCGAGAGGTATTATATCAG
1 GATTACCAATCCA-GCTAAATCCTTTTTGTAACATACACTCGAGAGGTATTATATCAG
* *
32922787 GATTACTCATTCGAGCTAAATCCTTT
1 GATTAC-CAATCCAGCTAAATCCTTT
32922813 CCATAATGAG
Statistics
Matches: 69, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
56 2 0.03
57 39 0.57
58 23 0.33
59 5 0.07
ACGTcount: A:0.34, C:0.21, G:0.14, T:0.30
Consensus pattern (57 bp):
GATTACCAATCCAGCTAAATCCTTTTTGTAACATACACTCGAGAGGTATTATATCAG
Found at i:32926236 original size:40 final size:40
Alignment explanation
Indices: 32926192--32926534 Score: 291
Period size: 40 Copynumber: 8.6 Consensus size: 40
32926182 AAGCGAATAT
* * *
32926192 ATCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGATTAAG-TCCCGAAGGCATTCGTGCGAGATACTAA
* * *
32926232 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAA
1 ATCCGGATTAAGTCCCGAAGGCATTCGTGCGAGATACTAA
* **
32926272 ATCCGGATTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGATTAAGTCCCGAAGGCATTCGTGCGAGATACTAA
* * * *
32926312 ATCCGGGTTACGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGATTAAGTCCCGAAGGCATTCGTGCGAGATACTAA
* ** * * ** * *
32926351 AACCGGGCTATGTCCCGAAGGCATTTGAACGAGGA-GCTAT
1 ATCCGGATTAAGTCCCGAAGGCATTCGTGCGA-GATACTAA
* * * *
32926391 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTATTAA
1 ATCCGGATTAAGTCCCGAAGGCATTCGTGCGAGATACTAA
* * **
32926431 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGATTAAGTCCCGAAGGCATTCGTGCGAGATACTAA
* * *
32926471 ATCCGGGTTATA-TCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGATTA-AGTCCCGAAGGCATTCGTGCGAGATACTAA
* ** *
32926510 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGATTAAGTCCCGAAGGCATT
32926535 TGAACGAGGA
Statistics
Matches: 256, Mismatches: 41, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
39 67 0.26
40 187 0.73
41 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
ATCCGGATTAAGTCCCGAAGGCATTCGTGCGAGATACTAA
Found at i:32926495 original size:159 final size:159
Alignment explanation
Indices: 32926232--32926569 Score: 624
Period size: 159 Copynumber: 2.1 Consensus size: 159
32926222 GAGATACTAA
*
32926232 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGATTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTATTAAATCCGGATTAAGTCCCGAAGGCATT
*
32926297 CGTGCGAGTTGTTAAATCCGGGTTACGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTAT
66 CGTGCGAGTTGTTAAATCCGGGTTACATCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTAT
32926362 GTCCCGAAGGCATTTGAACGAGGAGCTAT
131 GTCCCGAAGGCATTTGAACGAGGAGCTAT
*
32926391 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTATTAAATCCGGATTAAGTCCCGAAGGCATT
*
32926456 CGTGCGAGTTGTTAAATCCGGGTTATATCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTAT
66 CGTGCGAGTTGTTAAATCCGGGTTACATCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTAT
32926521 GTCCCGAAGGCATTTGAACGAGGAGCTAT
131 GTCCCGAAGGCATTTGAACGAGGAGCTAT
*
32926550 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
32926570 TACGTGATTT
Statistics
Matches: 174, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
158 15 0.09
159 159 0.91
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (159 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTATTAAATCCGGATTAAGTCCCGAAGGCATT
CGTGCGAGTTGTTAAATCCGGGTTACATCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTAT
GTCCCGAAGGCATTTGAACGAGGAGCTAT
Found at i:32926554 original size:119 final size:118
Alignment explanation
Indices: 32926206--32926569 Score: 387
Period size: 119 Copynumber: 3.1 Consensus size: 118
32926196 GGACTAAGAT
* * *
32926206 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTA-AGTCCCGAAGGCATTCGTGCGAGTTATT
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTATA-TCCCGAAGGCATT-GTGCGAGTTACT
* * *
32926270 AAATCCGGATTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
63 AAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTAGTTAAATCCGGGTTAAGTC
* * * * *
32926326 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT-TGAACGAG-GAGCT
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATATCCCGAAGGCATTGTG--CGAGTTA-CT
* *
32926389 ATATCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTA-TTAAATCCGGGTTAAGTC
63 AAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG-TAGTTAAATCCGGGTTAAGTC
** *
32926445 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATATCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATATCCCGAAGGCATTGTGCGAGTTACTAA
* * * * ** * * * *
32926510 AACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCC-GGTTAAATC
65 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTAGTTAAATCCGGGTTAAGTC
32926563 CCGAAGG
1 CCGAAGG
32926570 TACGTGATTT
Statistics
Matches: 202, Mismatches: 33, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
117 2 0.01
118 17 0.08
119 139 0.69
120 42 0.21
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (118 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATATCCCGAAGGCATTGTGCGAGTTACTAAA
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTAGTTAAATCCGGGTTAAGTC
Found at i:32947575 original size:22 final size:22
Alignment explanation
Indices: 32947544--32947601 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
32947534 AATACGATTG
*
32947544 GCACAAAGCCATAATCAAGATA
1 GCACAGAGCCATAATCAAGATA
* * * * *
32947566 GCACAGAGCCATATTTAGGCTG
1 GCACAGAGCCATAATCAAGATA
32947588 GCACAGAGCCATAA
1 GCACAGAGCCATAA
32947602 ACAGATTAAG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.40, C:0.24, G:0.21, T:0.16
Consensus pattern (22 bp):
GCACAGAGCCATAATCAAGATA
Found at i:32950780 original size:15 final size:15
Alignment explanation
Indices: 32950760--32950791 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
32950750 TGTTGATCTA
32950760 AATATATTCAAAATT
1 AATATATTCAAAATT
32950775 AATATATTCAAAATT
1 AATATATTCAAAATT
32950790 AA
1 AA
32950792 CTCATTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (15 bp):
AATATATTCAAAATT
Found at i:32955031 original size:43 final size:43
Alignment explanation
Indices: 32954962--32955067 Score: 133
Period size: 43 Copynumber: 2.5 Consensus size: 43
32954952 TCCTAGATAT
* * * * *
32954962 GGTCTTACATGTTATCACATATCGATGTCACTGTCCCAGACAG
1 GGTCTTACACGTAATCACATAACGATGCCAATGTCCCAGACAG
* *
32955005 GGTCTTACAGGTAATCA-ATTAACGATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAATCACA-TAACGATGCCAATGTCCCAGACAG
32955048 GGTCTTACACGTAATCACAT
1 GGTCTTACACGTAATCACAT
32955068 CTCGATAACC
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
42 1 0.02
43 52 0.96
44 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAATCACATAACGATGCCAATGTCCCAGACAG
Found at i:32966809 original size:14 final size:15
Alignment explanation
Indices: 32966785--32966813 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
32966775 TGTTATAAAA
32966785 TAAATAAACAAAGAG
1 TAAATAAACAAAGAG
32966800 TAAA-AAACAAAGAG
1 TAAATAAACAAAGAG
32966814 AATGGGAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.07, G:0.14, T:0.10
Consensus pattern (15 bp):
TAAATAAACAAAGAG
Found at i:32968096 original size:20 final size:21
Alignment explanation
Indices: 32968073--32968115 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
32968063 TACATGTGTG
*
32968073 TTTTG-ATGTTTGATGATAGA
1 TTTTGAATGCTTGATGATAGA
*
32968093 TTTTGAATGCTTGTTGATAGA
1 TTTTGAATGCTTGATGATAGA
32968114 TT
1 TT
32968116 ACAAGTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.23, C:0.02, G:0.23, T:0.51
Consensus pattern (21 bp):
TTTTGAATGCTTGATGATAGA
Found at i:32983420 original size:40 final size:40
Alignment explanation
Indices: 32983365--32983459 Score: 156
Period size: 40 Copynumber: 2.4 Consensus size: 40
32983355 GTGTGACAAA
*
32983365 ACACGGAC-GTGTGATCGATGAGCCAGGCCGTGCGCTCATG
1 ACAC-GACTGTGTGATCGACGAGCCAGGCCGTGCGCTCATG
*
32983405 ACACGACTGTGTGATCGACGAGCCAGGCCGTGCGCTCGTG
1 ACACGACTGTGTGATCGACGAGCCAGGCCGTGCGCTCATG
32983445 ACACGACTGTGTGAT
1 ACACGACTGTGTGAT
32983460 GGCCAGGCAG
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
39 3 0.06
40 49 0.94
ACGTcount: A:0.20, C:0.27, G:0.34, T:0.19
Consensus pattern (40 bp):
ACACGACTGTGTGATCGACGAGCCAGGCCGTGCGCTCATG
Found at i:32985119 original size:64 final size:64
Alignment explanation
Indices: 32984916--32985201 Score: 245
Period size: 64 Copynumber: 4.4 Consensus size: 64
32984906 CATAATTTTG
* * ** * * * * *
32984916 GCTCTCTTGTAC-ACATAGTGAACACTTAGTACCACCCATGTGACCTAGCCAC-TTTATCTCGTA
1 GCTCTCTTGT-CTACATGGTGTACAAATAGTATCACCCATGCGACCTAGCTACATATATCCCGTA
* * ** * * * * * * *
32984979 GCTCTCTTGTTTACATGGTGTCCTTCACTTGGAACCACACATGCAACCTAGCTACATTTATCTCG
1 GCTCTCTTGTCTACATGGTG---TACAAATAGTATCACCCATGCGACCTAGCTACATATATCCCG
32985044 TA
63 TA
32985046 GCTCTCTTGTCTACATGGTGTACAAATAGTATCACCCATGCGACCTAGCTACATATATCCCGTA
1 GCTCTCTTGTCTACATGGTGTACAAATAGTATCACCCATGCGACCTAGCTACATATATCCCGTA
* * * *
32985110 GTTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCATAATGTCTC
1 GCTCTCTTGTCTACATGGTGTACAAATAGTATCACCCATGCGACCTAGCTA---CAT-ATATCCC
32985175 GTA
62 GTA
*
32985178 GCTCTCTTGTAC-ACATGGTATACA
1 GCTCTCTTGT-CTACATGGTGTACA
32985202 TCCCGTATTA
Statistics
Matches: 186, Mismatches: 27, Indels: 15
0.82 0.12 0.07
Matches are distributed among these distances:
63 17 0.09
64 83 0.45
66 24 0.13
67 33 0.18
68 28 0.15
69 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.32
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACAAATAGTATCACCCATGCGACCTAGCTACATATATCCCGTA
Found at i:32991143 original size:46 final size:46
Alignment explanation
Indices: 32991093--32991218 Score: 198
Period size: 46 Copynumber: 2.7 Consensus size: 46
32991083 TGGTTGAACA
*
32991093 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAG
*
32991139 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAG
* * * *
32991185 CCCGAGCTTGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
32991219 GGGGCGGGTT
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAG
Found at i:32997183 original size:43 final size:43
Alignment explanation
Indices: 32997136--32997230 Score: 154
Period size: 43 Copynumber: 2.2 Consensus size: 43
32997126 CGGCTAGAGT
*
32997136 ACACGCCCAGGTGGGTAGGCCTTGTCTCTCACACGGCCAAGAC
1 ACACGCCCAGGTGGGTAGGCCGTGTCTCTCACACGGCCAAGAC
* * *
32997179 ACACGCCCATGTGGGTAGGCGGTGTCTCTCACACGGCCAAGAT
1 ACACGCCCAGGTGGGTAGGCCGTGTCTCTCACACGGCCAAGAC
32997222 ACACGCCCA
1 ACACGCCCA
32997231 CGTCTAAGCC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.22, C:0.35, G:0.27, T:0.16
Consensus pattern (43 bp):
ACACGCCCAGGTGGGTAGGCCGTGTCTCTCACACGGCCAAGAC
Found at i:33006332 original size:82 final size:82
Alignment explanation
Indices: 33006227--33006473 Score: 485
Period size: 82 Copynumber: 3.0 Consensus size: 82
33006217 AACATGTCAT
*
33006227 AAGCATATACCTTTTATTTTAACTAAGTTTAGCCAAATATACTCATACATTGAACAACCTACCAT
1 AAGCTTATACCTTTTATTTTAACTAAGTTTAGCCAAATATACTCATACATTGAACAACCTACCAT
33006292 TTAACTCACAAATAACC
66 TTAACTCACAAATAACC
33006309 AAGCTTATACCTTTTATTTTAACTAAGTTTAGCCAAATATACTCATACATTGAACAACCTACCAT
1 AAGCTTATACCTTTTATTTTAACTAAGTTTAGCCAAATATACTCATACATTGAACAACCTACCAT
33006374 TTAACTCACAAATAACC
66 TTAACTCACAAATAACC
33006391 AAGCTTATACCTTTTATTTTAACTAAGTTTAGCCAAATATACTCATACATTGAACAACCTACCAT
1 AAGCTTATACCTTTTATTTTAACTAAGTTTAGCCAAATATACTCATACATTGAACAACCTACCAT
33006456 TTAACTCACAAATAACC
66 TTAACTCACAAATAACC
33006473 A
1 A
33006474 CATCAATTAC
Statistics
Matches: 164, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
82 164 1.00
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.32
Consensus pattern (82 bp):
AAGCTTATACCTTTTATTTTAACTAAGTTTAGCCAAATATACTCATACATTGAACAACCTACCAT
TTAACTCACAAATAACC
Found at i:33006832 original size:45 final size:44
Alignment explanation
Indices: 33006746--33006833 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 44
33006736 GGCTTTATAT
* * ** *
33006746 ATATACACTTTCAAACTCAAACACATGAAGACTAGCTTATACAC
1 ATATACACTTCCAAAATCAAACACACAAAGACTAGCCTATACAC
* *
33006790 ATATACACTTCCAAAATCAACCAACACAAAGGCTAGCCTATACA
1 ATATACACTTCCAAAATCAAAC-ACACAAAGACTAGCCTATACA
33006834 TGTCATATGT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 19 0.53
45 17 0.47
ACGTcount: A:0.44, C:0.27, G:0.07, T:0.22
Consensus pattern (44 bp):
ATATACACTTCCAAAATCAAACACACAAAGACTAGCCTATACAC
Found at i:33021196 original size:45 final size:44
Alignment explanation
Indices: 33021110--33021197 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 44
33021100 GGCTTTATAT
* * ** *
33021110 ATATACACTTTCAAACTCAAACACATTAAGACTAGCTTATACAC
1 ATATACACTTCCAAAATCAAACACACAAAGACTAGCCTATACAC
* *
33021154 ATATACACTTCCAAAATCAACCAACACAAAGGCTAGCCTATACA
1 ATATACACTTCCAAAATCAAAC-ACACAAAGACTAGCCTATACA
33021198 TGCCATATGT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
44 19 0.53
45 17 0.47
ACGTcount: A:0.44, C:0.27, G:0.06, T:0.23
Consensus pattern (44 bp):
ATATACACTTCCAAAATCAAACACACAAAGACTAGCCTATACAC
Found at i:33021812 original size:42 final size:43
Alignment explanation
Indices: 33021753--33021872 Score: 127
Period size: 44 Copynumber: 2.8 Consensus size: 43
33021743 GTAATCGACT
* * * *
33021753 ATCGATGCCACTATCCCAGACATGGTTTTACACG-AA-CTCAT
1 ATCGATGCCAATGTCCCAGACATGGTTTTACACGAAACCACAA
* *
33021794 ATACGATGCCGATGTCCCAGACATGGTCTTACACGTAAACCACAA
1 AT-CGATGCCAATGTCCCAGACATGGTTTTACACG-AAACCACAA
* **
33021839 ATCGATGTCAATGTCCCAGATGTGGTTTTACACG
1 ATCGATGCCAATGTCCCAGACATGGTTTTACACG
33021873 GATCACATAT
Statistics
Matches: 64, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
41 2 0.03
42 28 0.44
44 29 0.45
45 5 0.08
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (43 bp):
ATCGATGCCAATGTCCCAGACATGGTTTTACACGAAACCACAA
Found at i:33028970 original size:23 final size:23
Alignment explanation
Indices: 33028922--33028970 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
33028912 AACTTTGCTA
*
33028922 GTTGAGGAGTGTTTGAATGGGTG
1 GTTGAGGAGTGTTTGAATGGGGG
33028945 GTTGAGGAGATG-TTGAA-GGAGGG
1 GTTGAGGAG-TGTTTGAATGG-GGG
33028968 GTT
1 GTT
33028971 TTAGGAGGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 2 0.09
23 19 0.83
24 2 0.09
ACGTcount: A:0.20, C:0.00, G:0.49, T:0.31
Consensus pattern (23 bp):
GTTGAGGAGTGTTTGAATGGGGG
Found at i:33031994 original size:11 final size:11
Alignment explanation
Indices: 33031980--33032004 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
33031970 GTGAATAAAT
33031980 TGTGAAATTTA
1 TGTGAAATTTA
33031991 TGTGAAATTTA
1 TGTGAAATTTA
33032002 TGT
1 TGT
33032005 AACAATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (11 bp):
TGTGAAATTTA
Found at i:33032438 original size:138 final size:138
Alignment explanation
Indices: 33032190--33032472 Score: 485
Period size: 138 Copynumber: 2.1 Consensus size: 138
33032180 TAAAAATGTT
* * * *
33032190 TGGTATTAATGAATTGTCTAAAATAATTTTTTAGATCAAGAATTGAATCAAACCGAAGATAATCG
1 TGGTATTAATGAATTGTCTAAAATAATTGTTTAGATCAAGAACTAAATCAAACCAAAGATAATCG
**
33032255 GAGAAAAGGAAAAAATTGTCGAATAGTCTTTGGAGGTTCAATTTGCTTACTATTTTGACCAAGTA
66 GAGAAAAGGAAAAAATTGTCGAATAGTCCCTGGAGGTTCAATTTGCTTACTATTTTGACCAAGTA
33032320 AGTTCATA
131 AGTTCATA
33032328 TGGTATTAATGAATTGTCTAAAATAATTGTTTAGATCAAGAACTAAATCAAACCAAAGATAATCG
1 TGGTATTAATGAATTGTCTAAAATAATTGTTTAGATCAAGAACTAAATCAAACCAAAGATAATCG
* * *
33032393 GGGAAAAGGCAAAAATTGTTGAATAGTCCCTGGAGGTTCAATTTGCTTACTATTTTGACCAAGTA
66 GAGAAAAGGAAAAAATTGTCGAATAGTCCCTGGAGGTTCAATTTGCTTACTATTTTGACCAAGTA
33032458 AGTTCATA
131 AGTTCATA
33032466 TGGTATT
1 TGGTATT
33032473 TATAATTTAG
Statistics
Matches: 136, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
138 136 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.33
Consensus pattern (138 bp):
TGGTATTAATGAATTGTCTAAAATAATTGTTTAGATCAAGAACTAAATCAAACCAAAGATAATCG
GAGAAAAGGAAAAAATTGTCGAATAGTCCCTGGAGGTTCAATTTGCTTACTATTTTGACCAAGTA
AGTTCATA
Found at i:33033386 original size:44 final size:44
Alignment explanation
Indices: 33033325--33033408 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
33033315 TATGTATGAG
** **
33033325 GCATCCGAGCTTGTTGAGTTGGTTTGAGTTCATTATGGATGCGA
1 GCATCCGAGCTCATTGAGTTGGTCCGAGTTCATTATGGATGCGA
*
33033369 GCATCCGAGCTCATTGAGTTGGTCCGAGTTTATTATGGAT
1 GCATCCGAGCTCATTGAGTTGGTCCGAGTTCATTATGGAT
33033409 ACGGTACATG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.19, C:0.15, G:0.30, T:0.36
Consensus pattern (44 bp):
GCATCCGAGCTCATTGAGTTGGTCCGAGTTCATTATGGATGCGA
Found at i:33052061 original size:26 final size:25
Alignment explanation
Indices: 33052027--33052078 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
33052017 CTTTTTACTT
* *
33052027 AAAAAAAAGTTTAAAAATATTCATA
1 AAAAAAAAGTATAAAAACATTCATA
*
33052052 AAAAATAAAGTATAAAAACATTTATA
1 AAAAA-AAAGTATAAAAACATTCATA
33052078 A
1 A
33052079 TTTAAATCTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (25 bp):
AAAAAAAAGTATAAAAACATTCATA
Found at i:33060334 original size:6 final size:6
Alignment explanation
Indices: 33060311--33060346 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
33060301 CATATTTTAG
33060311 ATATAA A-AT-A AT-TAA ATATAA ATATAA ATATAA ATA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATA
33060347 ATTATATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
4 3 0.11
5 5 0.19
6 19 0.70
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAA
Found at i:33060342 original size:27 final size:27
Alignment explanation
Indices: 33060311--33060362 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
33060301 CATATTTTAG
33060311 ATATAAAATAATTA-AATATAAATATAA
1 ATAT-AAATAATTATAATATAAATATAA
*
33060338 ATATAAATAATTATATTATAAATAT
1 ATATAAATAATTATAATATAAATAT
33060363 TAATTATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (27 bp):
ATATAAATAATTATAATATAAATATAA
Found at i:33060357 original size:21 final size:21
Alignment explanation
Indices: 33060333--33060372 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
33060323 TAAATATAAA
33060333 TATAAATATAAATAATTATAT
1 TATAAATATAAATAATTATAT
* *
33060354 TATAAATATTAATTATTAT
1 TATAAATATAAATAATTAT
33060373 TAATTAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TATAAATATAAATAATTATAT
Found at i:33072122 original size:9 final size:9
Alignment explanation
Indices: 33072105--33072152 Score: 60
Period size: 9 Copynumber: 5.2 Consensus size: 9
33072095 TTTGACTGAC
*
33072105 TTAAATTAA
1 TTAATTTAA
33072114 TTAATTTAA
1 TTAATTTAA
*
33072123 TTGAATTGAA
1 TT-AATTTAA
*
33072133 TTAAATTAA
1 TTAATTTAA
33072142 TTAATTTAA
1 TTAATTTAA
33072151 TT
1 TT
33072153 TTAATCGAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
9 25 0.76
10 8 0.24
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (9 bp):
TTAATTTAA
Found at i:33072363 original size:13 final size:13
Alignment explanation
Indices: 33072341--33072371 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
33072331 TTCCATGAAC
33072341 AAAAAAAAAAAGG
1 AAAAAAAAAAAGG
*
33072354 AAAAACAAAAAGG
1 AAAAAAAAAAAGG
33072367 AAAAA
1 AAAAA
33072372 GCGTTGATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAGG
Found at i:33074691 original size:15 final size:16
Alignment explanation
Indices: 33074661--33074699 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
33074651 TAGTCAAAAT
33074661 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
*
33074678 ATAATTTA-TATTTTT
1 ATAATTTATTATTTTA
33074693 ATAATTT
1 ATAATTT
33074700 TTAAAAGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.62
16 4 0.19
17 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:33078852 original size:19 final size:18
Alignment explanation
Indices: 33078828--33078871 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
33078818 TAACAACGAG
*
33078828 ATTCTTTTCTCCTTCTCTT
1 ATTCTTTTC-CCTTCACTT
33078847 ATTC-TTTCCCTTCACTT
1 ATTCTTTTCCCTTCACTT
33078864 ATT-TTTTC
1 ATTCTTTTC
33078872 AAAAAATCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 15 0.65
18 4 0.17
19 4 0.17
ACGTcount: A:0.09, C:0.30, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTCTTTTCCCTTCACTT
Found at i:33092384 original size:30 final size:30
Alignment explanation
Indices: 33092336--33092395 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
33092326 AAGATTTAAG
*
33092336 AAAAAAGAGAGCTTAGATTAGAAACATACT
1 AAAAAAAAGAGCTTAGATTAGAAACATACT
*
33092366 AAAAAAAAGA-CTTCAGATTAGTAACATACT
1 AAAAAAAAGAGCTT-AGATTAGAAACATACT
33092396 TATTTTAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 3 0.11
30 24 0.89
ACGTcount: A:0.53, C:0.12, G:0.13, T:0.22
Consensus pattern (30 bp):
AAAAAAAAGAGCTTAGATTAGAAACATACT
Found at i:33098069 original size:72 final size:72
Alignment explanation
Indices: 33097952--33098207 Score: 494
Period size: 72 Copynumber: 3.6 Consensus size: 72
33097942 ACAACTTGAC
* *
33097952 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACGACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
33098017 ACTAACA
66 ACTAACA
33098024 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
33098089 ACTAACA
66 ACTAACA
33098096 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
33098161 ACTAACA
66 ACTAACA
33098168 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
33098208 AATAATAATA
Statistics
Matches: 182, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 182 1.00
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.27
Consensus pattern (72 bp):
AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCTACTAC
ACTAACA
Found at i:33098216 original size:3 final size:3
Alignment explanation
Indices: 33098208--33098245 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
33098198 ATTACATCCA
33098208 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
33098246 AACATGTGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:33099908 original size:8 final size:8
Alignment explanation
Indices: 33099895--33099923 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
33099885 AGAAATTTAA
33099895 ATTTATAT
1 ATTTATAT
33099903 ATTTATAT
1 ATTTATAT
33099911 ATTTATAT
1 ATTTATAT
33099919 ATTTA
1 ATTTA
33099924 AAAATTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
ATTTATAT
Found at i:33103037 original size:53 final size:53
Alignment explanation
Indices: 33102896--33103046 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
33102886 ATAAGTGCGC
* **
33102896 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
33102949 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
33103002 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
33103047 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:33110558 original size:53 final size:53
Alignment explanation
Indices: 33110417--33110567 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
33110407 ATAAGTGCGC
* **
33110417 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
33110470 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
33110523 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
33110568 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:33119060 original size:27 final size:27
Alignment explanation
Indices: 33119022--33119076 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
33119012 CATTACCTAA
33119022 CAACATTAAGTAACTTGATAAATATTG
1 CAACATTAAGTAACTTGATAAATATTG
33119049 CAACATTAAGTAACTTGATAAATATTG
1 CAACATTAAGTAACTTGATAAATATTG
33119076 C
1 C
33119077 TTGTACACAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.33
Consensus pattern (27 bp):
CAACATTAAGTAACTTGATAAATATTG
Found at i:33119706 original size:16 final size:16
Alignment explanation
Indices: 33119687--33119719 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
33119677 CTTGCAATTC
*
33119687 GACAGGCTCTCACTTT
1 GACAGGCTCGCACTTT
33119703 GACAGGCTCGCACTTT
1 GACAGGCTCGCACTTT
33119719 G
1 G
33119720 CTTACTGTCT
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:0.18, C:0.30, G:0.24, T:0.27
Consensus pattern (16 bp):
GACAGGCTCGCACTTT
Found at i:33122662 original size:73 final size:73
Alignment explanation
Indices: 33122580--33122761 Score: 355
Period size: 73 Copynumber: 2.5 Consensus size: 73
33122570 ACAACTTGAC
33122580 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
33122645 CACTAACA
66 CACTAACA
33122653 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
33122718 CACTAACA
66 CACTAACA
*
33122726 AACTTAGTTGGAATACAACTAAGTTACATCATTACA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACA
33122762 CCCAAATAAT
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 108 1.00
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:33122774 original size:3 final size:3
Alignment explanation
Indices: 33122766--33122803 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
33122756 ATTACACCCA
33122766 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
33122804 AACATGTGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:33127217 original size:3 final size:3
Alignment explanation
Indices: 33127209--33127237 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
33127199 ATTACACCCA
33127209 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
33127238 AACATGTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:33127219 original size:74 final size:74
Alignment explanation
Indices: 33127021--33127202 Score: 355
Period size: 74 Copynumber: 2.5 Consensus size: 74
33127011 ACAACTTGAC
33127021 AACTTAGTTGGAATACAACTAAGTTTCATCATTAAATCCACTTAAAAATAAATCACCACCTACTA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTAAATCCACTTAAAAATAAATCACCACCTACTA
33127086 CCACTAACA
66 CCACTAACA
33127095 AACTTAGTTGGAATACAACTAAGTTTCATCATTAAATCCACTTAAAAATAAATCACCACCTACTA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTAAATCCACTTAAAAATAAATCACCACCTACTA
33127160 CCACTAACA
66 CCACTAACA
*
33127169 AACTTAGTTGGAATACAACTAAGTTACATCATTA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTA
33127203 CACCCAAATA
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 107 1.00
ACGTcount: A:0.43, C:0.23, G:0.07, T:0.28
Consensus pattern (74 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTAAATCCACTTAAAAATAAATCACCACCTACTA
CCACTAACA
Found at i:33134626 original size:9 final size:9
Alignment explanation
Indices: 33134612--33134643 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
33134602 AAAGTTTGCC
33134612 AAAAAGGGA
1 AAAAAGGGA
33134621 AAAAAGGGA
1 AAAAAGGGA
33134630 AAAAAGGGA
1 AAAAAGGGA
33134639 AAAAA
1 AAAAA
33134644 TAATGGAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (9 bp):
AAAAAGGGA
Found at i:33137301 original size:2 final size:2
Alignment explanation
Indices: 33137294--33137322 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
33137284 GGTTAAGCGA
33137294 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
33137323 TCTTAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:33146687 original size:16 final size:16
Alignment explanation
Indices: 33146668--33146721 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
33146658 TATAAAAACT
33146668 AAAATTAATAAATTTA
1 AAAATTAATAAATTTA
33146684 AAAATTAA-AAAGTTT-
1 AAAATTAATAAA-TTTA
*
33146699 AAAATTAATTAGA-TTA
1 AAAATTAA-TAAATTTA
33146715 AAAATTA
1 AAAATTA
33146722 CGAATTTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
15 13 0.39
16 18 0.55
17 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (16 bp):
AAAATTAATAAATTTA
Found at i:33147354 original size:55 final size:53
Alignment explanation
Indices: 33147235--33147356 Score: 131
Period size: 55 Copynumber: 2.3 Consensus size: 53
33147225 TATAGTAGTA
* *
33147235 GTCACTCAATTATTAGTATTTTTTTGTCACCTAACTATGAAAATTTATAAAAT
1 GTCAATCAATTATTAATATTTTTTTGTCACCTAACTATGAAAATTTATAAAAT
* * * * *
33147288 ATCATTTAATTATTAATATTTTTTTTTGTCA-CTGAATTATGAAATTTTA-AAAAT
1 GTCAATCAATTATTAATA--TTTTTTTGTCACCT-AACTATGAAAATTTATAAAAT
33147342 GGTCAATCAATTATT
1 -GTCAATCAATTATT
33147357 CAATTTCATC
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
53 14 0.25
54 7 0.12
55 35 0.62
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.47
Consensus pattern (53 bp):
GTCAATCAATTATTAATATTTTTTTGTCACCTAACTATGAAAATTTATAAAAT
Found at i:33148679 original size:29 final size:28
Alignment explanation
Indices: 33148647--33148702 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
33148637 TTTTTCTTAT
*
33148647 TTTTAATGACTTTTTGGTAACAAATATTG
1 TTTTAATGA-ATTTTGGTAACAAATATTG
** *
33148676 TTTTCTTGAATTTTGGTAACAATTATT
1 TTTTAATGAATTTTGGTAACAAATATT
33148703 ATTAAACAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.52
Consensus pattern (28 bp):
TTTTAATGAATTTTGGTAACAAATATTG
Found at i:33151324 original size:46 final size:46
Alignment explanation
Indices: 33151271--33151446 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
33151261 TATTTGGGCA
33151271 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
* * *
33151317 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA-T--G
* * * *
33151362 CATCTGAGCTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
* *
33151410 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGG
33151447 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.58
47 26 0.24
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.18, G:0.30, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
Found at i:33152043 original size:231 final size:231
Alignment explanation
Indices: 33151638--33152099 Score: 879
Period size: 231 Copynumber: 2.0 Consensus size: 231
33151628 CCTCGGGTTG
33151638 AAAAATCGATATAACAACAATATGGTAAGATGATAAATGAAAATGTGATATGAATGTCTTGGTGA
1 AAAAATCGATATAACAACAATATGGTAAGATGATAAATGAAAATGTGATATGAATGTCTTGGTGA
33151703 TGATTATGCAAATGATGTTTTATGTTTGCTTATATGGTTATGTTACTTGCTATTTGCATGTGAAC
66 TGATTATGCAAATGATGTTTTATGTTTGCTTATATGGTTATGTTACTTGCTATTTGCATGTGAAC
* *
33151768 TTATTAAGCATTTATGCTTACTCCCTCATTTTTATTCGTTGTAGTTTTGACAAGCCAGCTCGGAA
131 TTATTAAGCATTTATGCTTACTCCCTCATTTTCATTCCTTGTAGTTTTGACAAGCCAGCTCGGAA
*
33151833 ATCAGGAACGGTCGGAGGCTCGCTCACACTATCCGT
196 ATCAGGAACGGTCGAAGGCTCGCTCACACTATCCGT
33151869 AAAAATCGATATAACAACAATATGGTAAGATGATAAATGAAAATGTGATATGAATGTCTTGGTGA
1 AAAAATCGATATAACAACAATATGGTAAGATGATAAATGAAAATGTGATATGAATGTCTTGGTGA
*
33151934 TGATTATGCAAATGATGTTTTATGTTTGCTTATATGGTTATGTTACTTTCTATTTGCATGTGAAC
66 TGATTATGCAAATGATGTTTTATGTTTGCTTATATGGTTATGTTACTTGCTATTTGCATGTGAAC
33151999 TTATTAAGCATTTATGCTTACTCCCTCATTTTCATTCCTTGTAGTTTTGACAAGCCAGCTCGGAA
131 TTATTAAGCATTTATGCTTACTCCCTCATTTTCATTCCTTGTAGTTTTGACAAGCCAGCTCGGAA
*
33152064 ATCGGGAACGGTCGAAGGCTCGCTCACACTATCCGT
196 ATCAGGAACGGTCGAAGGCTCGCTCACACTATCCGT
33152100 TTACCATCTT
Statistics
Matches: 226, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
231 226 1.00
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.36
Consensus pattern (231 bp):
AAAAATCGATATAACAACAATATGGTAAGATGATAAATGAAAATGTGATATGAATGTCTTGGTGA
TGATTATGCAAATGATGTTTTATGTTTGCTTATATGGTTATGTTACTTGCTATTTGCATGTGAAC
TTATTAAGCATTTATGCTTACTCCCTCATTTTCATTCCTTGTAGTTTTGACAAGCCAGCTCGGAA
ATCAGGAACGGTCGAAGGCTCGCTCACACTATCCGT
Found at i:33154633 original size:15 final size:15
Alignment explanation
Indices: 33154594--33154673 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
33154584 GTATCTTGGG
*
33154594 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
33154609 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
33154624 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
33154639 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
33154654 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
33154668 TTTCTT
1 TTTCTT
33154674 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:33154663 original size:30 final size:30
Alignment explanation
Indices: 33154585--33154672 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
33154575 CATAGTAGCG
* * *
33154585 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
33154615 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
33154645 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
33154673 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:33157211 original size:46 final size:46
Alignment explanation
Indices: 33157063--33157225 Score: 190
Period size: 46 Copynumber: 3.5 Consensus size: 46
33157053 GGGCATCCGA
* * * *
33157063 AGTTGAGTCCGAGTTTACTTATGGATGCGAATGTCCGAACTCGTTG
1 AGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTG
* * *
33157109 AGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCCGAGCTCGTTG
1 AGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC--CCGAGCTCGTTG
33157156 AGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTG
1 AGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTG
33157202 AGTTGAGTCCGAGTTCACTTATGG
1 AGTTGAGTCCGAGTTCACTTATGG
33157226 GCGGGTTACA
Statistics
Matches: 98, Mismatches: 10, Indels: 18
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 51 0.52
47 27 0.28
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
AGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTG
Found at i:33164647 original size:33 final size:32
Alignment explanation
Indices: 33164553--33164648 Score: 95
Period size: 34 Copynumber: 2.9 Consensus size: 32
33164543 TCAAGCCCAT
* **
33164553 TGGGCCTAAGCCCTATTCAGATAACAGTGGGTAC
1 TGGGCCTAAGCCCTTTTCAGATAACAGT--AAAC
* *
33164587 TGGGCCGAAGCCCTTTTCA-AAATACAGTAAAC
1 TGGGCCTAAGCCCTTTTCAGATA-ACAGTAAAC
*
33164619 TGGGCCTTAGCCCCTTTTCAGATAACAGTA
1 TGGGCCTAAG-CCCTTTTCAGATAACAGTA
33164649 TGGCCCATAG
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
32 10 0.20
33 17 0.33
34 24 0.47
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (32 bp):
TGGGCCTAAGCCCTTTTCAGATAACAGTAAAC
Found at i:33164978 original size:65 final size:65
Alignment explanation
Indices: 33164897--33165092 Score: 365
Period size: 65 Copynumber: 3.0 Consensus size: 65
33164887 AGTCCCATGC
* *
33164897 ATCAAATAATACTAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCATGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCATGTCAACCTT
33164962 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCATGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCATGTCAACCTT
*
33165027 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCATGTCAACCTT
33165092 A
1 A
33165093 ACCCTAGGGG
Statistics
Matches: 128, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 128 1.00
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.26
Consensus pattern (65 bp):
ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCATGTCAACCTT
Found at i:33164979 original size:35 final size:35
Alignment explanation
Indices: 33164940--33165045 Score: 102
Period size: 35 Copynumber: 3.2 Consensus size: 35
33164930 GTAACAGTCA
33164940 AACATGCATTCATGTCAACCTTATCAGATAATAAT
1 AACATGCATTCATGTCAACCTTATCAGATAATAAT
* * *
33164975 AACATGGCATGCA-GT-AA----AT-AG-TAACAGT
1 AACAT-GCATTCATGTCAACCTTATCAGATAATAAT
33165003 CAAACATGCATTCATGTCAACCTTATCAGATAATAAT
1 --AACATGCATTCATGTCAACCTTATCAGATAATAAT
33165040 AACATG
1 AACATG
33165046 GCATGCAGTA
Statistics
Matches: 54, Mismatches: 6, Indels: 22
0.66 0.07 0.27
Matches are distributed among these distances:
28 5 0.09
29 8 0.15
30 9 0.17
31 2 0.04
34 2 0.04
35 15 0.28
36 8 0.15
37 5 0.09
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (35 bp):
AACATGCATTCATGTCAACCTTATCAGATAATAAT
Found at i:33165128 original size:27 final size:27
Alignment explanation
Indices: 33165100--33165172 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 27
33165090 TTAACCCTAG
* *
33165100 GGGTATATCAGTAATTTTGCTCCTA-A
1 GGGTATATCAGTAATTTTCCACCTATA
* *
33165126 GGGTAAATCTGTAAATTTTCCACCTATAA
1 GGGTATATCAGT-AATTTTCCACCTAT-A
* *
33165155 AGGTATTTCAGTAATTTT
1 GGGTATATCAGTAATTTT
33165173 ATCAATTTTA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
26 10 0.28
27 11 0.31
28 6 0.17
29 9 0.25
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (27 bp):
GGGTATATCAGTAATTTTCCACCTATA
Found at i:33170099 original size:36 final size:36
Alignment explanation
Indices: 33170052--33170126 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
33170042 CCTGGGACAG
33170052 AGCGTCATCCCCTGCGGCCCGATCATACGGCCCATT
1 AGCGTCATCCCCTGCGGCCCGATCATACGGCCCATT
*
33170088 AGCGTCGTCCCCTGCGGCCCGATCATACGGCCCATT
1 AGCGTCATCCCCTGCGGCCCGATCATACGGCCCATT
33170124 AGC
1 AGC
33170127 ATCCACCAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.16, C:0.41, G:0.24, T:0.19
Consensus pattern (36 bp):
AGCGTCATCCCCTGCGGCCCGATCATACGGCCCATT
Found at i:33171901 original size:65 final size:65
Alignment explanation
Indices: 33171797--33171992 Score: 383
Period size: 65 Copynumber: 3.0 Consensus size: 65
33171787 AGTCCCATGC
33171797 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
33171862 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
*
33171927 ATCAGATAATAATAACATGGCATGTAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
33171992 A
1 A
33171993 ATCCTAGGGG
Statistics
Matches: 130, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 130 1.00
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (65 bp):
ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
Found at i:33175989 original size:17 final size:18
Alignment explanation
Indices: 33175958--33176000 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
33175948 GTTAATTCTG
*
33175958 GTATCTGTTAATCTGT-T
1 GTATCTGATAATCTGTCT
* *
33175975 TTATCTGATATTCTGTCT
1 GTATCTGATAATCTGTCT
33175993 GTATCTGA
1 GTATCTGA
33176001 CTATAGGGCG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.19, C:0.14, G:0.16, T:0.51
Consensus pattern (18 bp):
GTATCTGATAATCTGTCT
Found at i:33183788 original size:10 final size:10
Alignment explanation
Indices: 33183773--33183798 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
33183763 TTTAGGCTAT
33183773 TAATTAAGCC
1 TAATTAAGCC
33183783 TAATTAAGCC
1 TAATTAAGCC
33183793 TAATTA
1 TAATTA
33183799 GGTAAGACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (10 bp):
TAATTAAGCC
Found at i:33189487 original size:36 final size:36
Alignment explanation
Indices: 33189436--33189506 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
33189426 AGTAAACTCT
* * * *
33189436 ATTCAGTTCAGCAGCCTTTCGAGTCTATTCTAACTG
1 ATTCAATTCAACAGCCTTTCGAATCAATTCTAACTG
33189472 ATTCAATTCAACAGCCTTTCGAATCAATTCTAACT
1 ATTCAATTCAACAGCCTTTCGAATCAATTCTAACT
33189507 AATGTGCTCC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.35
Consensus pattern (36 bp):
ATTCAATTCAACAGCCTTTCGAATCAATTCTAACTG
Found at i:33193995 original size:41 final size:41
Alignment explanation
Indices: 33193933--33194030 Score: 135
Period size: 41 Copynumber: 2.4 Consensus size: 41
33193923 TTACAGACAC
* **
33193933 TTGACAGCTTGTGTGAACAGCACCGTGTAGCTACGTCTTGA
1 TTGACAGCTTATGTGAACAGCACCACGTAGCTACGTCTTGA
33193974 TTGACAGCTTATGT-AACCAGCACCACGTAGCTACGTCTTGA
1 TTGACAGCTTATGTGAA-CAGCACCACGTAGCTACGTCTTGA
* *
33194015 CTGACAGCTTGTGTGA
1 TTGACAGCTTATGTGA
33194031 GCAAGCCCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
40 2 0.04
41 47 0.94
42 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.29
Consensus pattern (41 bp):
TTGACAGCTTATGTGAACAGCACCACGTAGCTACGTCTTGA
Found at i:33195438 original size:19 final size:18
Alignment explanation
Indices: 33195412--33195463 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
33195402 GTTTAGTGGA
*
33195412 AAAATTTTCT-AAGTTTGT
1 AAAATTTTTTAAAG-TTGT
33195430 AAAATTTTTTAAAGTTGT
1 AAAATTTTTTAAAGTTGT
33195448 AAAATTTTTTAAAGTT
1 AAAATTTTTTAAAGTT
33195464 CTTGGTTTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
18 29 0.91
19 3 0.09
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (18 bp):
AAAATTTTTTAAAGTTGT
Found at i:33200964 original size:3 final size:3
Alignment explanation
Indices: 33200942--33200981 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
33200932 GGCCCAAATG
* * *
33200942 ATT ATT ATC ATT ACT GTT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
33200982 AATGTTATGA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:33201150 original size:12 final size:12
Alignment explanation
Indices: 33201133--33201160 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
33201123 ATTCTATTTC
33201133 TTTTTTTCTTTT
1 TTTTTTTCTTTT
33201145 TTTTTTTCTTTT
1 TTTTTTTCTTTT
33201157 TTTT
1 TTTT
33201161 CCATATACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (12 bp):
TTTTTTTCTTTT
Found at i:33205575 original size:13 final size:13
Alignment explanation
Indices: 33205557--33205585 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
33205547 TTTAGTTTAA
33205557 TTAGTTAATTAGT
1 TTAGTTAATTAGT
33205570 TTAGTTAATTAGT
1 TTAGTTAATTAGT
33205583 TTA
1 TTA
33205586 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:33207683 original size:40 final size:40
Alignment explanation
Indices: 33207423--33207807 Score: 369
Period size: 40 Copynumber: 9.7 Consensus size: 40
33207413 TTGAATGATG
* *
33207423 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGACAATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATA
* *
33207462 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
33207501 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-A
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* * * * * **
33207540 TTCCGGGCAAAGCCCCAAAGGCTTTTGTGCTAAGCGACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGATACTATA
* * * * *
33207582 TCCGGGCTAAGTCCTGAAGGCTTTTGTGCTAAGCTACTACA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGATACTATA
* * * **
33207623 TCCGGACTAAGAT-CCAAAGGCATTTGTGCTAGCGACTATA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA
33207663 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
* *
33207702 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
*
33207742 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTATA
* *
33207782 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33207808 AACGAGGAGC
Statistics
Matches: 294, Mismatches: 37, Indels: 29
0.82 0.10 0.08
Matches are distributed among these distances:
39 92 0.31
40 127 0.43
41 72 0.24
42 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA
Found at i:33207829 original size:79 final size:79
Alignment explanation
Indices: 33207475--33207840 Score: 289
Period size: 79 Copynumber: 4.6 Consensus size: 79
33207465 AGACTAAGAT
** *
33207475 CCGAAGGCATTTGTGCGAGAT-ACTA-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATAC
1 CCGAAGGCATTTGAACGAG-TGACTATA-TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATAC
* *
33207537 TAATTCCGGGCAAAGCC
64 TAATACCGGGCTAAG-C
* * ** * * * * * * *
33207554 CCAAAGGCTTTTGTGCTAAGCGACTATATCCGGGCTAAGTCCTGAAGGCTTTTGTGCTAAGCTAC
1 CCGAAGGCATTTGAAC-GAGTGACTATATCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGATAC
* *
33207619 TACAT-CCGGACTAAGAT
64 TA-ATACCGGGCTAAG-C
* ** * * *
33207636 CCAAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGAACGAGTGACTATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
*
33207701 ATTCCGGGCTAAGC
66 ATACCGGGCTAAGC
** * *
33207715 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACT
*
33207779 -ATAACCGGGCTATGTC
65 AAT-ACCGGGCTAAG-C
* *
33207795 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTATATCCGGGTTAAGTCCCGAAGG
33207841 TACGTGATTT
Statistics
Matches: 242, Mismatches: 34, Indels: 22
0.81 0.11 0.07
Matches are distributed among these distances:
78 3 0.01
79 96 0.40
80 58 0.24
81 53 0.22
82 30 0.12
83 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:33214169 original size:116 final size:116
Alignment explanation
Indices: 33213965--33214196 Score: 455
Period size: 116 Copynumber: 2.0 Consensus size: 116
33213955 GGGGGAGAGT
*
33213965 TGTGACAGCCCGAAATTGACCCTAGTCGGGAAGTGGTTTCGGGACCACAAAACTGAGTCATAAAA
1 TGTGACAGCCCGAAATTGACCCTAGTCGGGAAGTGGTTTCGGGACCACAAAACCGAGTCATAAAA
33214030 ATAATTGATTTCTATATTCTATGCTTATTATGTGTGTACATGAGTATGTGG
66 ATAATTGATTTCTATATTCTATGCTTATTATGTGTGTACATGAGTATGTGG
33214081 TGTGACAGCCCGAAATTGACCCTAGTCGGGAAGTGGTTTCGGGACCACAAAACCGAGTCATAAAA
1 TGTGACAGCCCGAAATTGACCCTAGTCGGGAAGTGGTTTCGGGACCACAAAACCGAGTCATAAAA
33214146 ATAATTGATTTCTATATTCTATGCTTATTATGTGTGTACATGAGTATGTGG
66 ATAATTGATTTCTATATTCTATGCTTATTATGTGTGTACATGAGTATGTGG
33214197 AAGTTTCATT
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 115 1.00
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.31
Consensus pattern (116 bp):
TGTGACAGCCCGAAATTGACCCTAGTCGGGAAGTGGTTTCGGGACCACAAAACCGAGTCATAAAA
ATAATTGATTTCTATATTCTATGCTTATTATGTGTGTACATGAGTATGTGG
Found at i:33215778 original size:39 final size:42
Alignment explanation
Indices: 33215683--33215866 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 42
33215673 TTGAATGATG
*
33215683 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGAGT-ACTAATA
*
33215722 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGAGTACTAATA
*
33215762 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAG-TTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGAGTACTAATA
* * *
33215801 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-AAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGAGTACTAATA
* *
33215841 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33215867 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 8, Indels: 21
0.81 0.05 0.14
Matches are distributed among these distances:
39 55 0.44
40 59 0.47
41 11 0.09
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (42 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGAGTACTAATA
Found at i:33215818 original size:79 final size:81
Alignment explanation
Indices: 33215683--33215866 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 81
33215673 TTGAATGATG
33215683 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
*
33215746 TGTGCGAGA-TACTA-A
66 TGTGC-AAATTACTATA
* * **
33215761 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
33215822 ATTTGTGCAAATTACTATA
63 ATTTGTGCAAATTACTATA
* *
33215841 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
33215867 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 12 0.13
79 56 0.62
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCAAATTACTATA
Found at i:33215888 original size:79 final size:79
Alignment explanation
Indices: 33215735--33215889 Score: 183
Period size: 79 Copynumber: 2.0 Consensus size: 79
33215725 GGACTAAGAT
* * ** *
33215735 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAAATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
33215800 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
*
33215814 CCGAAGGCATTTGTGC-AAATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAAA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
*
33215876 CTATATCC-GGTTAA
62 CTAAATCCGGGTTAA
33215890 ATTCTGAAGG
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
78 4 0.06
79 36 0.55
80 25 0.38
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAAATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAGTC
Found at i:33217730 original size:30 final size:30
Alignment explanation
Indices: 33217694--33217758 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
33217684 GTGGCTTGAC
*
33217694 CGTGTGTGACACATGGCCTTGGTACATAGT
1 CGTGTGTGACACATGGCCTTGGTACACAGT
* *
33217724 CGTGTGTGACACATGGCCTTTGTACACGGT
1 CGTGTGTGACACATGGCCTTGGTACACAGT
33217754 CGTGT
1 CGTGT
33217759 ATCCCCTGAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.17, C:0.22, G:0.31, T:0.31
Consensus pattern (30 bp):
CGTGTGTGACACATGGCCTTGGTACACAGT
Found at i:33219024 original size:13 final size:13
Alignment explanation
Indices: 33219006--33219040 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
33218996 GTGCAGGAAG
33219006 TTGGTATTGTAAT
1 TTGGTATTGTAAT
33219019 TTGGTATTGTAAT
1 TTGGTATTGTAAT
33219032 TTGGTATTG
1 TTGGTATTG
33219041 ATACCTTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.20, C:0.00, G:0.26, T:0.54
Consensus pattern (13 bp):
TTGGTATTGTAAT
Found at i:33232110 original size:29 final size:29
Alignment explanation
Indices: 33232078--33232161 Score: 91
Period size: 29 Copynumber: 2.9 Consensus size: 29
33232068 TAAGTGAGCT
33232078 TTTTTGGATATCTCTGTTATAAGGAAACC
1 TTTTTGGATATCTCTGTTATAAGGAAACC
* * **
33232107 TTTTTGGCA-ATCTCTATTCTAAGGAAGTC
1 TTTTTGG-ATATCTCTGTTATAAGGAAACC
*
33232136 TTTGTGG-TGATCTCTGTTATAAGGAA
1 TTTTTGGAT-ATCTCTGTTATAAGGAA
33232162 GTCTTTGTGG
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
29 44 0.98
30 1 0.02
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.42
Consensus pattern (29 bp):
TTTTTGGATATCTCTGTTATAAGGAAACC
Found at i:33232162 original size:29 final size:29
Alignment explanation
Indices: 33232087--33232376 Score: 211
Period size: 29 Copynumber: 10.1 Consensus size: 29
33232077 TTTTTTGGAT
* * *
33232087 ATCTCTGTTATAAGGAAACCTTTTTGGCA
1 ATCTCTGTTATAAGGAAGCCTTTGTGGCG
* * * *
33232116 ATCTCTATTCTAAGGAAGTCTTTGTGGTG
1 ATCTCTGTTATAAGGAAGCCTTTGTGGCG
*
33232145 ATCTCTGTTATAAGGAAGTCTTTGTGGCG
1 ATCTCTGTTATAAGGAAGCCTTTGTGGCG
* * * *
33232174 ATCTTTGTTAAAAGGATGCCTTTGTGGGCT
1 ATCTCTGTTATAAGGAAGCCTTTGT-GGCG
* * * *
33232204 ATCTATG--A-ATGGACGCTTTTGTGGC-
1 ATCTCTGTTATAAGGAAGCCTTTGTGGCG
* *
33232229 -TATCTG--A-AAAGAAGCCTCCTTTGTGGCG
1 ATCTCTGTTATAAGGAAG---CCTTTGTGGCG
* * * * * *
33232257 ATATATGTTATAATGAAACCTTTGTAGCT
1 ATCTCTGTTATAAGGAAGCCTTTGTGGCG
33232286 ATCTCTGTTATAAGGAAGCCTTTGTGGCG
1 ATCTCTGTTATAAGGAAGCCTTTGTGGCG
** * *
33232315 ATCTCCATTA-AATGAAAGCCTTTGTGGCT
1 ATCTCTGTTATAA-GGAAGCCTTTGTGGCG
*
33232344 ATCTCTGTTATAAGGAAGCCTTTGTGGCT
1 ATCTCTGTTATAAGGAAGCCTTTGTGGCG
33232373 ATCT
1 ATCT
33232377 ATTGATGAAT
Statistics
Matches: 207, Mismatches: 43, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
24 9 0.04
26 3 0.01
27 20 0.10
28 3 0.01
29 155 0.75
30 11 0.05
31 1 0.00
32 5 0.02
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (29 bp):
ATCTCTGTTATAAGGAAGCCTTTGTGGCG
Found at i:33238364 original size:18 final size:18
Alignment explanation
Indices: 33238343--33238380 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
33238333 ATTTTTTGAA
* *
33238343 AAAAATTAATATTAAAAT
1 AAAAAGTAATAGTAAAAT
33238361 AAAAAGTAATAGTAAAAT
1 AAAAAGTAATAGTAAAAT
33238379 AA
1 AA
33238381 TCAAAACAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.26
Consensus pattern (18 bp):
AAAAAGTAATAGTAAAAT
Found at i:33239363 original size:17 final size:17
Alignment explanation
Indices: 33239341--33239373 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
33239331 GAACAAATAT
*
33239341 TTAAAATTTATAAAAAA
1 TTAAAAGTTATAAAAAA
33239358 TTAAAAGTTATAAAAA
1 TTAAAAGTTATAAAAA
33239374 GTAAAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
TTAAAAGTTATAAAAAA
Found at i:33244878 original size:31 final size:30
Alignment explanation
Indices: 33244842--33244900 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
33244832 AAAAAGGTCA
33244842 TTTTTTACAAAATATTATCGGATTAGGCCTT
1 TTTTTTACAAAAT-TTATCGGATTAGGCCTT
* *
33244873 TTTTTTTCAAAATTTATCGGGTTAGGCC
1 TTTTTTACAAAATTTATCGGATTAGGCC
33244901 AATTTTGGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.46
Consensus pattern (30 bp):
TTTTTTACAAAATTTATCGGATTAGGCCTT
Found at i:33248650 original size:18 final size:18
Alignment explanation
Indices: 33248627--33248663 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
33248617 TGTCGGGGAA
33248627 TGCTGGGCACCCTATTTG
1 TGCTGGGCACCCTATTTG
33248645 TGCTGGGCACCCTATTTG
1 TGCTGGGCACCCTATTTG
33248663 T
1 T
33248664 AGATGACACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.11, C:0.27, G:0.27, T:0.35
Consensus pattern (18 bp):
TGCTGGGCACCCTATTTG
Found at i:33249822 original size:21 final size:21
Alignment explanation
Indices: 33249797--33249838 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
33249787 TTTTTATCAT
33249797 TTTTGAGC-TTTAGTATCGATA
1 TTTTG-GCATTTAGTATCGATA
*
33249818 TTTTGGCATTTGGTATCGATA
1 TTTTGGCATTTAGTATCGATA
33249839 CTTGACCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.21, C:0.10, G:0.21, T:0.48
Consensus pattern (21 bp):
TTTTGGCATTTAGTATCGATA
Found at i:33254913 original size:54 final size:54
Alignment explanation
Indices: 33254831--33254935 Score: 128
Period size: 54 Copynumber: 1.9 Consensus size: 54
33254821 CATGTGTCAC
* *
33254831 GACCGTGTAACTCTTTGCCTTGAGTCACAC-AGGCGTGTG-TCAGGTTGTGTGCCA
1 GACCGTGTAACTCTTTGACTTGAGTCACACGA-CCGTGTGAT-AGGTTGTGTGCCA
33254885 GACCGTGTAACTCTCTT-ACTTG-GATCACACGACCGTGTGATAGGTTGTGTG
1 GACCGTGTAACTCT-TTGACTTGAG-TCACACGACCGTGTGATAGGTTGTGTG
33254936 AGGCATTGAG
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
53 1 0.02
54 40 0.89
55 4 0.09
ACGTcount: A:0.18, C:0.23, G:0.29, T:0.30
Consensus pattern (54 bp):
GACCGTGTAACTCTTTGACTTGAGTCACACGACCGTGTGATAGGTTGTGTGCCA
Found at i:33258013 original size:51 final size:50
Alignment explanation
Indices: 33257925--33258273 Score: 619
Period size: 51 Copynumber: 6.8 Consensus size: 50
33257915 GAAATGATAG
33257925 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATATGTGA
1 TAAGGCCTAATGGCCGA-GTGATGAATGTGAAAGTG--TATATATATATGTGA
33257978 TAAGGCCTAATGGCCGA-TGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGAGTGATGAATGTGAAAGTGTATATATATATGTGA
33258027 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGA-GTGATGAATGTGAAAGTGTATATATATATGTGA
33258078 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGA-GTGATGAATGTGAAAGTGTATATATATATGTGA
33258129 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGA-GTGATGAATGTGAAAGTGTATATATATATGTGA
33258180 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGTGA
1 TAAGGCCTAATGGCCGA-GTGATGAATGTGAAAGTGTATATATATATGTGA
33258231 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 TAAGGCCTAATGGCCGA-GTGATGAATGTGAAAGTGTATATAT
33258274 GTGACAGGGC
Statistics
Matches: 294, Mismatches: 0, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
49 32 0.11
51 245 0.83
53 17 0.06
ACGTcount: A:0.34, C:0.08, G:0.27, T:0.31
Consensus pattern (50 bp):
TAAGGCCTAATGGCCGAGTGATGAATGTGAAAGTGTATATATATATGTGA
Found at i:33258503 original size:37 final size:37
Alignment explanation
Indices: 33258447--33258525 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
33258437 CCGAGCTCTA
* * *
33258447 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
33258484 AAGACCCGATAACTTCGTGTGGAGATTATGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
33258521 AAGAC
1 AAGAC
33258526 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:33262139 original size:46 final size:46
Alignment explanation
Indices: 33262089--33262256 Score: 182
Period size: 46 Copynumber: 3.6 Consensus size: 46
33262079 TGGTTGAGCA
* *
33262089 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTAAACG
* *
33262135 TCCGAACTCGTTGAGTTGAGTCCGAGTT---T-GTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATG-GATGTAA--A--CG
* * *
33262182 TCCAAACTCGTTAAGTTGAGTCCGAGTTCACTCATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTAAACG
* *
33262228 CCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
33262257 GCTTATGGGC
Statistics
Matches: 100, Mismatches: 13, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
42 2 0.02
43 7 0.07
45 1 0.01
46 54 0.54
47 26 0.26
48 1 0.01
50 7 0.07
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGTAAACG
Found at i:33262245 original size:93 final size:93
Alignment explanation
Indices: 33262086--33262255 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
33262076 GGATGGTTGA
* * * *
33262086 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCGTTAAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
33262151 TGAGTCCGAGTTTGTGAGATGTAACTAG
66 TGAGTCCGAGTTTGTGAGATGTAACTAG
** *
33262179 GCATCCAAACTCGTTAAGTTGAGTCCGAGTTCACTCATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCAAACTCGTTAAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
33262244 TGAGTCCGAGTT
66 TGAGTCCGAGTT
33262256 CGCTTATGGG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTAAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTTGTGAGATGTAACTAG
Found at i:33264616 original size:24 final size:24
Alignment explanation
Indices: 33264565--33264610 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
33264555 CCGTAGCAAT
*
33264565 TTGAATAGGTGCCTTAGCAGCACG
1 TTGAATAGGTGCCTTAGCAGAACG
* *
33264589 TTGAATGGGTGCTTTAGCAGAA
1 TTGAATAGGTGCCTTAGCAGAA
33264611 GCTTGAGTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.28
Consensus pattern (24 bp):
TTGAATAGGTGCCTTAGCAGAACG
Found at i:33269755 original size:36 final size:36
Alignment explanation
Indices: 33269708--33269778 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
33269698 GGAGCACATC
*
33269708 AGTCAGAATAGATCCAAAAGGCTACTGAACTGAATT
1 AGTCAGAATAGATCCAAAAGGATACTGAACTGAATT
*
33269744 AGTCAGAATAGATCCAAAAGGATACTGAGCTGAAT
1 AGTCAGAATAGATCCAAAAGGATACTGAACTGAAT
33269779 AGAGTTTACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.21
Consensus pattern (36 bp):
AGTCAGAATAGATCCAAAAGGATACTGAACTGAATT
Found at i:33280947 original size:98 final size:98
Alignment explanation
Indices: 33280778--33280971 Score: 388
Period size: 98 Copynumber: 2.0 Consensus size: 98
33280768 TTAAGGACGA
33280778 TGGCAATTGAGAATCTATAAATAGGCTCATTTGGCACATGTTATGGGACCTTTCATTCAATTGAG
1 TGGCAATTGAGAATCTATAAATAGGCTCATTTGGCACATGTTATGGGACCTTTCATTCAATTGAG
33280843 AACTAGTCTTTTAATTTTAGCTTCATTTTCTAG
66 AACTAGTCTTTTAATTTTAGCTTCATTTTCTAG
33280876 TGGCAATTGAGAATCTATAAATAGGCTCATTTGGCACATGTTATGGGACCTTTCATTCAATTGAG
1 TGGCAATTGAGAATCTATAAATAGGCTCATTTGGCACATGTTATGGGACCTTTCATTCAATTGAG
33280941 AACTAGTCTTTTAATTTTAGCTTCATTTTCT
66 AACTAGTCTTTTAATTTTAGCTTCATTTTCT
33280972 TTCTCTTTTA
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.27, C:0.15, G:0.17, T:0.40
Consensus pattern (98 bp):
TGGCAATTGAGAATCTATAAATAGGCTCATTTGGCACATGTTATGGGACCTTTCATTCAATTGAG
AACTAGTCTTTTAATTTTAGCTTCATTTTCTAG
Found at i:33288679 original size:46 final size:46
Alignment explanation
Indices: 33288618--33288981 Score: 307
Period size: 46 Copynumber: 7.8 Consensus size: 46
33288608 GATATTTGAG
* *
33288618 CATCCCAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * * * *
33288664 CATCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-A
* *
33288711 CATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * * * *
33288757 CATCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-A
* *
33288804 CATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * * * * *
33288850 CGTCTGAACTCGTTGAGTTGAGTCCAAGTTCA-TGA--GATGTAACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-A
33288897 CATCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * * *
33288943 CGTCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
33288982 GCGGGTTACG
Statistics
Matches: 249, Mismatches: 46, Indels: 46
0.73 0.13 0.13
Matches are distributed among these distances:
43 12 0.05
45 6 0.02
46 124 0.50
47 89 0.36
48 6 0.02
50 12 0.05
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:33288729 original size:93 final size:93
Alignment explanation
Indices: 33288630--33288974 Score: 609
Period size: 93 Copynumber: 3.7 Consensus size: 93
33288620 TCCCAACTTG
33288630 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCGAACTCGTTGAGTTGAGTCTGAGTTC
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCGAACTCGTTGAGTTGAGTCTGAGTTC
33288695 GTGAGATGTAACTAGGCATCCGAGCTCA
66 GTGAGATGTAACTAGGCATCCGAGCTCA
33288723 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCGAACTCGTTGAGTTGAGTCTGAGTTC
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCGAACTCGTTGAGTTGAGTCTGAGTTC
33288788 GTGAGATGTAACTAGGCATCCGAGCTCA
66 GTGAGATGTAACTAGGCATCCGAGCTCA
* * **
33288816 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAGTTGAGTCCAAGTTC
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCGAACTCGTTGAGTTGAGTCTGAGTTC
* * *
33288881 ATGAGATGTAACTAGGCATCCAAGCTCG
66 GTGAGATGTAACTAGGCATCCGAGCTCA
* *
33288909 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAGCTCGTTGAGTTGAGTCTGAGTTC
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCGAACTCGTTGAGTTGAGTCTGAGTTC
33288974 G
66 G
33288975 CTTATGGGCG
Statistics
Matches: 240, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 240 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (93 bp):
TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCGAACTCGTTGAGTTGAGTCTGAGTTC
GTGAGATGTAACTAGGCATCCGAGCTCA
Found at i:33288733 original size:47 final size:47
Alignment explanation
Indices: 33288664--33288927 Score: 242
Period size: 47 Copynumber: 5.7 Consensus size: 47
33288654 TGGATGCGAA
* *
33288664 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCCTGAGATGTAACTAGG
* * * * *
33288711 CATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-A
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTGA--GATGTAACTAGG
* *
33288757 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCCTGAGATGTAACTAGG
* * * *
33288804 CATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTGA--GATG-TAACTAGG
* * *
33288852 --TCTGAACTCGTTGAGTTGAGTCCAAGTTCATGAGATGTAACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCCTGAGATGTAACTAGG
33288897 CATCC-AAGCTCGTTGAGTTGAGTCCGAGTTC
1 CATCCGAA-CTCGTTGAGTTGAGTCCGAGTTC
33288928 ACTTATGGAT
Statistics
Matches: 171, Mismatches: 29, Indels: 34
0.73 0.12 0.15
Matches are distributed among these distances:
42 3 0.02
43 8 0.05
45 5 0.03
46 57 0.33
47 82 0.48
48 5 0.03
50 8 0.05
51 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (47 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCCTGAGATGTAACTAGG
Found at i:33301473 original size:17 final size:17
Alignment explanation
Indices: 33301447--33301481 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
33301437 GGGCCAAAAT
33301447 TGGCCATGTGGGCCCCA
1 TGGCCATGTGGGCCCCA
*
33301464 TGGCCTTGTGGGCCCCA
1 TGGCCATGTGGGCCCCA
33301481 T
1 T
33301482 AGGGGTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.09, C:0.34, G:0.34, T:0.23
Consensus pattern (17 bp):
TGGCCATGTGGGCCCCA
Found at i:33305541 original size:21 final size:21
Alignment explanation
Indices: 33305499--33305543 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
33305489 TTATTTCTAA
*
33305499 TATATATTATGTATATACTTT
1 TATATATCATGTATATACTTT
*
33305520 TATACTATCATGTATA-ATTTT
1 TATA-TATCATGTATATACTTT
33305541 TAT
1 TAT
33305544 GCATATACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (21 bp):
TATATATCATGTATATACTTT
Found at i:33306206 original size:23 final size:23
Alignment explanation
Indices: 33306195--33306253 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
33306185 CTTTAATACT
*
33306195 TTATGTATATATTCTTATATATA
1 TTATGTATATATACTTATATATA
* * *
33306218 TTATGTATATACATTTTTATATA
1 TTATGTATATATACTTATATATA
*
33306241 TTACGTATATATA
1 TTATGTATATATA
33306254 TACCTTTTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (23 bp):
TTATGTATATATACTTATATATA
Found at i:33308422 original size:24 final size:24
Alignment explanation
Indices: 33308340--33308429 Score: 81
Period size: 24 Copynumber: 3.7 Consensus size: 24
33308330 AAGAAATTTC
* **
33308340 AGCACTATGTGTGCGAGGTTATGC
1 AGCACTATGTGTGCGAGATTATAT
* * * * *
33308364 GGCACTATGTGTGCAAAAACTACAT
1 AGCACTATGTGTGC-GAGATTATAT
*
33308389 GGCACTATGTGTGCGAGATTATAT
1 AGCACTATGTGTGCGAGATTATAT
*
33308413 AGCACTATGTGTACGAG
1 AGCACTATGTGTGCGAG
33308430 GAAACACGGC
Statistics
Matches: 51, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
24 34 0.67
25 17 0.33
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (24 bp):
AGCACTATGTGTGCGAGATTATAT
Found at i:33316381 original size:21 final size:20
Alignment explanation
Indices: 33316313--33316382 Score: 63
Period size: 20 Copynumber: 3.4 Consensus size: 20
33316303 GCCTCTTGCC
33316313 TCTCTTTTCTTTCTATTTCATTT
1 TCTCTTTTCTTT-T-TTT-ATTT
**
33316336 TCT-TTTTCTTATTTTGCTTT
1 TCTCTTTTCTT-TTTTTATTT
33316356 T-TCTTTTCTTTTCTTTATTT
1 TCTCTTTTCTTTT-TTTATTT
33316376 TCTCTTT
1 TCTCTTT
33316383 ACAAGAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
19 3 0.08
20 17 0.44
21 7 0.18
22 8 0.21
23 4 0.10
ACGTcount: A:0.06, C:0.19, G:0.01, T:0.74
Consensus pattern (20 bp):
TCTCTTTTCTTTTTTTATTT
Found at i:33317328 original size:12 final size:12
Alignment explanation
Indices: 33317307--33317344 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
33317297 TTTTTTTCTA
*
33317307 TTCGATTTTTTT
1 TTCGAATTTTTT
*
33317319 TTTGAATTTTTT
1 TTCGAATTTTTT
33317331 TTCGAATTTTTT
1 TTCGAATTTTTT
33317343 TT
1 TT
33317345 GACTTGTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.13, C:0.05, G:0.08, T:0.74
Consensus pattern (12 bp):
TTCGAATTTTTT
Found at i:33319056 original size:30 final size:30
Alignment explanation
Indices: 33319022--33319118 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
33319012 TAAACTAAAA
33319022 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
33319052 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
33319082 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
33319112 TGAGCTA
1 TGAGCTA
33319119 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
29 2 0.04
30 42 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:33323955 original size:14 final size:14
Alignment explanation
Indices: 33323938--33323970 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
33323928 TCAAAAATCA
33323938 CTTAACAAAATACT
1 CTTAACAAAATACT
33323952 CTTAACAAAATACT
1 CTTAACAAAATACT
*
33323966 TTTAA
1 CTTAA
33323971 ATAACAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.33
Consensus pattern (14 bp):
CTTAACAAAATACT
Found at i:33326832 original size:24 final size:24
Alignment explanation
Indices: 33326805--33326853 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
33326795 ATTATGAACT
33326805 TTTATTCATACCCTCATGAGTTTC
1 TTTATTCATACCCTCATGAGTTTC
33326829 TTTATTCATACCCTCATGAGTTTC
1 TTTATTCATACCCTCATGAGTTTC
33326853 T
1 T
33326854 ACTCGTCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.24, G:0.08, T:0.47
Consensus pattern (24 bp):
TTTATTCATACCCTCATGAGTTTC
Found at i:33329540 original size:136 final size:136
Alignment explanation
Indices: 33329293--33329550 Score: 311
Period size: 136 Copynumber: 1.9 Consensus size: 136
33329283 AATGGGCCTG
* * * *
33329293 CTCACACGAGCTATCGGTCGGAACATAGCTACACGGTGTTGCTCCACAAGCTGTCAAGTATCCGC
1 CTCACACAAGCTATCGGTCGGAACATAACTACACGGTGCTACTCCACAAGCTGTCAAGTATCCGC
* ** *
33329358 AACAAACGTCGAAACTCAGCAACTGGTAGGACATTCATGACCAGCAC-CTGAAACATGGTAACCT
66 AACAAACGTCGAAACTCAGCAACCGACAGGACATTCAAGACCAGCACGC-GAAACATGGTAACCT
33329422 AGGTCTA
130 AGGTCTA
* * ** * *
33329429 CTCACACAAGCTGTCGGTCGGAACGTAACTACTTGGTGCTACTGCACAAGCTGTCGAGTATCCGC
1 CTCACACAAGCTATCGGTCGGAACATAACTACACGGTGCTACTCCACAAGCTGTCAAGTATCCGC
* * * * * * *
33329494 AACAAATGTTGGAACTCAGCCACCGACGGGACATTTAAGACTAGCACGCGAAACATG
66 AACAAACGTCGAAACTCAGCAACCGACAGGACATTCAAGACCAGCACGCGAAACATG
33329551 TAAACCCTAA
Statistics
Matches: 100, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
136 99 0.99
137 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (136 bp):
CTCACACAAGCTATCGGTCGGAACATAACTACACGGTGCTACTCCACAAGCTGTCAAGTATCCGC
AACAAACGTCGAAACTCAGCAACCGACAGGACATTCAAGACCAGCACGCGAAACATGGTAACCTA
GGTCTA
Done.