Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 747 of 770
Found at i:236694365 original size:39 final size:39
Alignment explanation
Indices: 236694247--236694429 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
236694237 TCGTTCAAAC
* * ** * **
236694247 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
236694287 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
236694327 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
236694366 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
236694405 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
236694430 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:236702253 original size:39 final size:39
Alignment explanation
Indices: 236702135--236702317 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
236702125 TCGTTCAAAC
* * ** * **
236702135 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
236702175 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
236702215 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
236702254 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
236702293 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
236702318 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:236710127 original size:38 final size:39
Alignment explanation
Indices: 236710011--236710153 Score: 216
Period size: 39 Copynumber: 3.7 Consensus size: 39
236710001 CCGCACAAAG
* *
236710011 GCCTTTGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAATTTGCACAATT
* * * *
236710051 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
236710090 GCCTTCGGGCTTAGCCCGG-TATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
236710128 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
236710154 TCGAACATTC
Statistics
Matches: 92, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
38 34 0.37
39 50 0.54
40 8 0.09
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:236712900 original size:40 final size:40
Alignment explanation
Indices: 236712851--236713002 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
236712841 ACAACCACAA
* * *** *
236712851 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
*
236712891 GCACCATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
* *
236712931 GCACGAA-TGCCTTCGGGTCTTAGCCCGGACATAATC-ACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* * *
236712971 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
236713003 CATTCAAATG
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
39 2 0.02
40 92 0.96
41 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:236720892 original size:40 final size:40
Alignment explanation
Indices: 236720843--236720994 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
236720833 ACAACCACAA
* * *** *
236720843 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
*
236720883 GCACCATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
* *
236720923 GCACGAA-TGCCTTCGGGTCTTAGCCCGGACATAATC-ACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAA-CAACTC
* * *
236720963 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
236720995 CATTCAAATG
Statistics
Matches: 96, Mismatches: 13, Indels: 6
0.83 0.11 0.05
Matches are distributed among these distances:
39 2 0.02
40 92 0.96
41 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACTC
Found at i:236728903 original size:39 final size:38
Alignment explanation
Indices: 236728773--236728960 Score: 173
Period size: 41 Copynumber: 4.7 Consensus size: 38
236728763 GCTACTCGTT
* * *
236728773 CAAATGCCTTCGGGACATAGCTCCCGTTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGC-CCGGAT-TAGTAACTCGCA
* *
236728814 CAAATGCCTTCGGGACTTAACCCGGACTTTGTAAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGA-TTAGT-AACTCGCA
236728855 CCAAATGCCTTCGG-CTTTAGCCCGGATTAGTAACTCGCA
1 -CAAATGCCTTCGGAC-TTAGCCCGGATTAGTAACTCGCA
* * *
236728894 CAAATTGCCTTCGGATTCTTAGTCCGGATATAGTCACTTAGCA
1 CAAA-TGCCTTCGGA--CTTAGCCCGGAT-TAGTAAC-TCGCA
236728937 CAAA-GCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGACTTAGCCCGGA
236728961 CATCATTCGA
Statistics
Matches: 126, Mismatches: 11, Indels: 22
0.79 0.07 0.14
Matches are distributed among these distances:
38 4 0.03
39 27 0.21
40 11 0.09
41 58 0.46
42 18 0.14
43 8 0.06
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.26
Consensus pattern (38 bp):
CAAATGCCTTCGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:236731784 original size:40 final size:40
Alignment explanation
Indices: 236731729--236731911 Score: 309
Period size: 40 Copynumber: 4.6 Consensus size: 40
236731719 CGGATGATAA
* *
236731729 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
236731769 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
236731809 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
236731849 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
236731888 CCGGGCTAAGT-CCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
236731912 AGCAAGTAGT
Statistics
Matches: 138, Mismatches: 3, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
39 51 0.37
40 86 0.62
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:236731864 original size:39 final size:39
Alignment explanation
Indices: 236731730--236731942 Score: 290
Period size: 40 Copynumber: 5.4 Consensus size: 39
236731720 GGATGATAAC
* *
236731730 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
236731769 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
236731809 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 -CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
236731849 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
* * *
236731889 CGGGCTAAGT-CCGAAGGCATTTGAGCAAG-TAGTTATAT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
236731927 C-GGCTAAATCCCGAAG
1 CGGGCTAAGTCCCGAAG
236731943 ATGCTTGGGT
Statistics
Matches: 161, Mismatches: 8, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
37 7 0.04
38 10 0.06
39 57 0.35
40 86 0.53
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:236731876 original size:79 final size:79
Alignment explanation
Indices: 236731725--236731942 Score: 318
Period size: 79 Copynumber: 2.8 Consensus size: 79
236731715 TATTCGGATG
* *
236731725 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATA-T-CGGGCTAAGTCCCGAAGGC
236731789 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
* *
236731805 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCGGGCTAAGTCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCGGGCTAAGTCCCGAAGGCAT
236731870 TTGTGCGAGTTACT
66 TTGTGCGAGTTACT
* * *
236731884 ATAACCGGGCTAAGT-CCGAAGGCATTTGAGCAAG-TAGTTATATC-GGCTAAATCCCGAAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CTATATCGGGCTAAGTCCCGAAG
236731943 ATGCTTGGGT
Statistics
Matches: 128, Mismatches: 8, Indels: 7
0.90 0.06 0.05
Matches are distributed among these distances:
77 16 0.12
78 23 0.18
79 49 0.38
80 39 0.30
81 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCGGGCTAAGTCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:236732210 original size:22 final size:21
Alignment explanation
Indices: 236732169--236732212 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
236732159 GAATGTGCAT
236732169 ATATGAAGTTATCCATTTAGCC
1 ATATGAAGTTATCCA-TTAGCC
236732191 ATATGAATGTTATACC-TTAGCC
1 ATATGAA-GTTAT-CCATTAGCC
236732213 GAAACTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 13 0.65
23 5 0.25
24 2 0.10
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCC
Found at i:236738337 original size:40 final size:40
Alignment explanation
Indices: 236738292--236738458 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
236738282 CGGAATATAA
236738292 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
236738332 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
236738372 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
236738412 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
236738451 CCGGATAT
1 CCGGATAT
236738459 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:236746300 original size:40 final size:40
Alignment explanation
Indices: 236746255--236746421 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
236746245 CGGAATATAA
236746255 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
236746295 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
236746335 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
236746375 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
236746414 CCGGATAT
1 CCGGATAT
236746422 TTCAATTTCT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:236750512 original size:40 final size:39
Alignment explanation
Indices: 236750347--236750530 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
236750337 AAATTGAATG
* * *
236750347 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
236750387 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
236750427 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
236750467 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
236750506 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
236750531 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:236750555 original size:80 final size:81
Alignment explanation
Indices: 236750387--236750575 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
236750377 GCTGGAAATT
* * * *
236750387 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
236750452 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
236750468 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
236750531 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
236750547 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
236750576 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:236758542 original size:40 final size:40
Alignment explanation
Indices: 236758440--236758623 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
236758430 AAATTGAATG
* * * * * *
236758440 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
236758480 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
236758520 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
236758560 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
236758600 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
236758624 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:236758648 original size:80 final size:80
Alignment explanation
Indices: 236758480--236758668 Score: 175
Period size: 80 Copynumber: 2.4 Consensus size: 80
236758470 GCTGGAAATT
* * *
236758480 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
***
236758545 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTTACC
* * * * *
236758560 A-AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGG
1 ATAA-CCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGG
* * **
236758623 CCTTGGTGCGGGTTACC
64 CATTCGTGCAAGTTACC
* * * *
236758640 ATAACCGGGCCATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
236758669 AACGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
79 3 0.03
80 81 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTACC
Found at i:236761429 original size:19 final size:19
Alignment explanation
Indices: 236761407--236761444 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
236761397 GTTTTCATCA
*
236761407 TTTTCTTTCTCC-TTTCTT
1 TTTTTTTTCTCCATTTCTT
*
236761425 TTTTTTTTTTCCATTTCTT
1 TTTTTTTTCTCCATTTCTT
236761444 T
1 T
236761445 ATTACTAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTTTTTCTCCATTTCTT
Found at i:236768726 original size:29 final size:30
Alignment explanation
Indices: 236768694--236768772 Score: 106
Period size: 30 Copynumber: 2.7 Consensus size: 30
236768684 ATACCCTCCG
**
236768694 AGCTCGCACACCCAGTGCCGTAT-TTTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTTCC
* *
236768723 AGCTTGCACACTTAGTGCCATATATTTTCC
1 AGCTCGCACACTTAGTGCCGTATATTTTCC
*
236768753 AGCACGCACACTTAGTGCCG
1 AGCTCGCACACTTAGTGCCG
236768773 ATCTCGTCAC
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 19 0.45
30 23 0.55
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.28
Consensus pattern (30 bp):
AGCTCGCACACTTAGTGCCGTATATTTTCC
Found at i:236776556 original size:29 final size:29
Alignment explanation
Indices: 236776528--236776629 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
236776518 CCTCCGAGCT
** * * *
236776528 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
236776557 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
236776586 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
236776615 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
236776630 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:236780392 original size:9 final size:9
Alignment explanation
Indices: 236780373--236780418 Score: 83
Period size: 9 Copynumber: 5.0 Consensus size: 9
236780363 TTTAGTACCT
236780373 AGAACTTGAA
1 AGAA-TTGAA
236780383 AGAATTGAA
1 AGAATTGAA
236780392 AGAATTGAA
1 AGAATTGAA
236780401 AGAATTGAA
1 AGAATTGAA
236780410 AGAATTGAA
1 AGAATTGAA
236780419 CGGTCAGTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
9 32 0.89
10 4 0.11
ACGTcount: A:0.54, C:0.02, G:0.22, T:0.22
Consensus pattern (9 bp):
AGAATTGAA
Found at i:236787202 original size:38 final size:38
Alignment explanation
Indices: 236787150--236787326 Score: 121
Period size: 40 Copynumber: 4.5 Consensus size: 38
236787140 GAATCACGTA
236787150 CCTTCGGGAT-TTA-ACCGGATATAACCAAAGCACAATTG
1 CCTTCGGG-TCTTAGACCGGATATAA-CAAAGCACAATTG
* **
236787188 CCTTCGGGTCTTA-ACCCGGATTTGGTAAC-TTGCACAATTG
1 CCTTCGGGTCTTAGA-CCGGA--T-ATAACAAAGCACAATTG
* *
236787228 CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TG
1 CCTTCGGGTCTTAGACCGGATATAACAA--AGCAC-AATTG
* * * *
236787268 CCTTCGGGTCTTAGCCCGGATATAATAACTAGCATAAATG
1 CCTTCGGGTCTTAGACCGGATATAACAA--AGCACAATTG
* *
236787308 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGTCTTAGACCGG
236787327 GTATCATTCA
Statistics
Matches: 117, Mismatches: 11, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
37 5 0.04
38 13 0.11
39 7 0.06
40 85 0.73
41 4 0.03
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (38 bp):
CCTTCGGGTCTTAGACCGGATATAACAAAGCACAATTG
Found at i:236787232 original size:40 final size:40
Alignment explanation
Indices: 236787178--236787326 Score: 192
Period size: 40 Copynumber: 3.7 Consensus size: 40
236787168 ATATAACCAA
* * **
236787178 AGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACT
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGATATAATAACT
* *
236787218 TGCACAATTGCCTTCGGGTCTTAGCCCGGATATAACAACT
1 AGCACAATTGCCTTCGGGTCTTAGCCCGGATATAATAACT
*
236787258 CGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAATAACT
1 AGCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATAACT
* * *
236787298 AGCATAAATGCCTTCGGGACTTAGCCCGG
1 AGCACAATTGCCTTCGGGTCTTAGCCCGG
236787327 GTATCATTCA
Statistics
Matches: 96, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 2 0.02
40 92 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
AGCACAATTGCCTTCGGGTCTTAGCCCGGATATAATAACT
Found at i:236795171 original size:40 final size:40
Alignment explanation
Indices: 236795111--236795274 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
236795101 CGGGATTTAA
* ** *
236795111 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
236795151 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
236795191 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
236795231 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
236795271 CCGG
1 CCGG
236795275 GTATCATTCA
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
39 2 0.02
40 100 0.95
41 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:236795258 original size:80 final size:80
Alignment explanation
Indices: 236795097--236795274 Score: 207
Period size: 80 Copynumber: 2.2 Consensus size: 80
236795087 GAATCACGTA
* * * * **
236795097 CCTTCGGGATTTA-ACCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGG
1 CCTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAA
* *
236795161 TAACTTGCACAATTG
66 TAACTAGCACAAATG
* ** *
236795176 CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAACAACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATA
* *
236795240 ATCACTAGCATAAATG
65 ATAACTAGCACAAATG
236795256 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
236795275 GTATCATTCA
Statistics
Matches: 82, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 11 0.13
80 69 0.84
81 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAA
TAACTAGCACAAATG
Found at i:236797023 original size:27 final size:27
Alignment explanation
Indices: 236796993--236797099 Score: 85
Period size: 27 Copynumber: 3.9 Consensus size: 27
236796983 GTAAATCTAC
236796993 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
236797020 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* * *
236797046 AGAAAGTCAAGGGTA-TTCTGTAACTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
236797075 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
236797100 AAAAATTGAG
Statistics
Matches: 64, Mismatches: 9, Indels: 14
0.74 0.10 0.16
Matches are distributed among these distances:
26 9 0.14
27 34 0.53
28 13 0.20
29 8 0.12
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:236797105 original size:27 final size:27
Alignment explanation
Indices: 236797075--236797207 Score: 148
Period size: 27 Copynumber: 4.9 Consensus size: 27
236797065 GTAACTTTGT
*
236797075 AAATCAGGGGTATTTTGGTAATTTTAA
1 AAATCAGGGGTATTTTGGTAATTTTAC
* *
236797102 AAAT-TGAGGGTATTTTGGTAATTTCAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
* *
236797129 AAACCAGTGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
236797156 AAA-CTAGGGGTATTTTGGTAATTTTAC
1 AAATC-AGGGGTATTTTGGTAATTTTAC
*
236797183 AAAT-TGAGGGTATTTCT-GTAATTTT
1 AAATCAG-GGGTATTT-TGGTAATTTT
236797208 GTAAATCGAG
Statistics
Matches: 91, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
26 3 0.03
27 86 0.95
28 2 0.02
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
AAATCAGGGGTATTTTGGTAATTTTAC
Found at i:236797144 original size:54 final size:54
Alignment explanation
Indices: 236797083--236797185 Score: 163
Period size: 54 Copynumber: 1.9 Consensus size: 54
236797073 GTAAATCAGG
*
236797083 GGTATTTTGGTAATTTTAAAAA-TTGAGGGTATTTTGGTAATTTCACAAACCAGT
1 GGTATTTTGGTAATTTTAAAAACTAG-GGGTATTTTGGTAATTTCACAAACCAGT
* *
236797137 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA
1 GGTATTTTGGTAATTTTAAAAACTAGGGGTATTTTGGTAATTTCACAAA
236797186 TTGAGGGTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
54 43 0.96
55 2 0.04
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (54 bp):
GGTATTTTGGTAATTTTAAAAACTAGGGGTATTTTGGTAATTTCACAAACCAGT
Found at i:236797213 original size:27 final size:27
Alignment explanation
Indices: 236797055--236797221 Score: 146
Period size: 27 Copynumber: 6.2 Consensus size: 27
236797045 TAGAAAGTCA
* * *
236797055 AGGGTATTCT-GTAACTTTGTAAATC-
1 AGGGTATTTTGGTAATTTTATAAATCG
* *
236797080 AGGGGTATTTTGGTAATTTTAAAAATTG
1 A-GGGTATTTTGGTAATTTTATAAATCG
* * *
236797108 AGGGTATTTTGGTAATTTCACAAA-CC
1 AGGGTATTTTGGTAATTTTATAAATCG
* *
236797134 AGTGGTATTTTGGTAATTTTACAAA-CT
1 AG-GGTATTTTGGTAATTTTATAAATCG
* *
236797161 AGGGGTATTTTGGTAATTTTACAAATTG
1 A-GGGTATTTTGGTAATTTTATAAATCG
*
236797189 AGGGTATTTCT-GTAATTTTGTAAATCG
1 AGGGTATTT-TGGTAATTTTATAAATCG
236797216 AGGGTA
1 AGGGTA
236797222 AAATAGTAAT
Statistics
Matches: 119, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
25 1 0.01
26 10 0.08
27 104 0.87
28 4 0.03
ACGTcount: A:0.29, C:0.07, G:0.23, T:0.41
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAATCG
Found at i:236797230 original size:27 final size:27
Alignment explanation
Indices: 236797200--236797469 Score: 186
Period size: 27 Copynumber: 9.6 Consensus size: 27
236797190 GGGTATTTCT
* *
236797200 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * *
236797227 GTAATTCTATAAATCAAGGGTTAAAATA
1 GTAATTCTGTAAATCGAGGG-TAAAACA
* *
236797255 GTAATTCTATAAATCGACGGTAAAAC-
1 GTAATTCTGTAAATCGAGGGTAAAACA
* *
236797281 GATAATTTTGTAAATCGAGGGTAAAACG
1 G-TAATTCTGTAAATCGAGGGTAAAACA
* *
236797309 GTAATTCTGTAAGTCAAGGGTAAAACGGGGGTAAAA
1 GTAATTCTGTAAATCGAGGGTAAAAC---------A
* * *
236797345 TGGTAATTATGAAAATCGGGGGTAAAA-A
1 --GTAATTCTGTAAATCGAGGGTAAAACA
*
236797373 TGGTAATT-TGTAAATCAAGGGTAAAACA
1 --GTAATTCTGTAAATCGAGGGTAAAACA
* * *
236797401 GTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
* * *
236797428 GTACTTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACA
*
236797455 GTAATTATGTAAATC
1 GTAATTCTGTAAATC
236797470 CGGGGTACTT
Statistics
Matches: 199, Mismatches: 28, Indels: 32
0.77 0.11 0.12
Matches are distributed among these distances:
26 7 0.04
27 136 0.68
28 36 0.18
38 20 0.10
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACA
Found at i:236797231 original size:81 final size:81
Alignment explanation
Indices: 236797080--236797232 Score: 193
Period size: 81 Copynumber: 1.9 Consensus size: 81
236797070 TTTGTAAATC
***
236797080 AGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTTGGTAATTTCACAAACCAGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTTGGTAATTTCACAAACCAGTGGTAAAAT
*
236797145 GGTAATTTTACAAACT
66 AGTAATTTTACAAACT
* *** *
236797161 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCT-GTAATTTTGTAAATCGAG-GGTAAA
1 AGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTT-TGGTAATTTCACAAA-CCAGTGGTAAA
236797224 ATAGTAATT
64 ATAGTAATT
236797233 CTATAAATCA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
81 57 0.93
82 4 0.07
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.41
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTAAAAATTGAGGGTATTTTGGTAATTTCACAAACCAGTGGTAAAAT
AGTAATTTTACAAACT
Found at i:236797331 original size:54 final size:55
Alignment explanation
Indices: 236797200--236797469 Score: 208
Period size: 54 Copynumber: 4.8 Consensus size: 55
236797190 GGGTATTTCT
* * * * **
236797200 GTAATTTTGTAAATCGAGGGTAAAA-TAGTAATTCTATAAATCAAGGGTTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACGAGTAATTATGTAAATCAAGGG-TAAAACG
* * * *
236797255 GTAATTCTATAAATCGACGGTAAAACGA-TAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGAGTAATTATGTAAATCAAGGGTAAAACG
* * * ** *
236797309 GTAATTCTGTAAGTCAAGGGTAAAACGGGGGTAAAATGGTAATTATGAAAATCGGGGGTAAAAAT
1 GTAATTCTGTAAATCGAGGGTAAAAC----G----A--GTAATTATGTAAATCAAGGGT-AAAAC
236797374 G
55 G
* * *
236797375 GTAATT-TGTAAATCAAGGGTAAAAC-AGTAATTCTATAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACGAGTAATTATGTAAATCAAGGGTAAAACG
* *
236797428 GTACTTCTATAAATCGAGGGTAAAACG-GTAATTATGTAAATC
1 GTAATTCTGTAAATCGAGGGTAAAACGAGTAATTATGTAAATC
236797470 CGGGGTACTT
Statistics
Matches: 171, Mismatches: 29, Indels: 31
0.74 0.13 0.13
Matches are distributed among these distances:
53 10 0.06
54 73 0.43
55 38 0.22
56 2 0.01
58 1 0.01
62 1 0.01
65 35 0.20
66 11 0.06
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (55 bp):
GTAATTCTGTAAATCGAGGGTAAAACGAGTAATTATGTAAATCAAGGGTAAAACG
Found at i:236797368 original size:38 final size:38
Alignment explanation
Indices: 236797290--236797371 Score: 92
Period size: 38 Copynumber: 2.2 Consensus size: 38
236797280 CGATAATTTT
* * * *
236797290 GTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCAAGG
1 GTAAAACGAGGGTAAAACGGTAATTATGAAAATCAAGG
* * **
236797328 GTAAAACGGGGGTAAAATGGTAATTATGAAAATCGGGG
1 GTAAAACGAGGGTAAAACGGTAATTATGAAAATCAAGG
236797366 GTAAAA
1 GTAAAA
236797372 ATGGTAATTT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.40, C:0.07, G:0.30, T:0.22
Consensus pattern (38 bp):
GTAAAACGAGGGTAAAACGGTAATTATGAAAATCAAGG
Found at i:236797385 original size:65 final size:65
Alignment explanation
Indices: 236797273--236797399 Score: 175
Period size: 65 Copynumber: 2.0 Consensus size: 65
236797263 ATAAATCGAC
* * *
236797273 GGTAAAACGATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCAAGGGTAAAACGGG
1 GGTAAAACGATAATTATGAAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGGG
* * * *
236797338 GGTAAAATGGTAATTATGAAAATCGGGGGTAAAAATGGTAATT-TGTAAATCAAGGGTAAAAC
1 GGTAAAACGATAATTATGAAAATCGAGGGT-AAAACGGTAATTCTGTAAATCAAGGGTAAAAC
236797400 AGTAATTCTA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
65 43 0.80
66 11 0.20
ACGTcount: A:0.41, C:0.07, G:0.27, T:0.25
Consensus pattern (65 bp):
GGTAAAACGATAATTATGAAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGGG
Found at i:236797455 original size:146 final size:147
Alignment explanation
Indices: 236797200--236797466 Score: 394
Period size: 146 Copynumber: 1.8 Consensus size: 147
236797190 GGGTATTTCT
* * *
236797200 GTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTTAAAATAGTAATTCTAT
1 GTAATTATGAAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTTAAAACAGTAATTCTAT
* * * *
236797265 AAATCGACGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTCAAGGGT
66 AAATCAACGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAGTCAAGGGT
236797330 AAAACGGGGGTAAAATG
131 AAAACGGGGGTAAAATG
* * *
236797347 GTAATTATGAAAATCGGGGGTAAAAATGGTAATT-TGTAAATCAAGGG-TAAAACAGTAATTCTA
1 GTAATTATGAAAATCGAGGGT-AAAATAGTAATTCTATAAATCAAGGGTTAAAACAGTAATTCTA
* * *
236797410 TAAATCAAGGGTAAAACGGTACTTCTATAAATCGAGGGTAAAACGGTAATTATGTAA
65 TAAATCAACGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAA
236797467 ATCCGGGGTA
Statistics
Matches: 106, Mismatches: 13, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
146 65 0.61
147 30 0.28
148 11 0.10
ACGTcount: A:0.42, C:0.08, G:0.22, T:0.28
Consensus pattern (147 bp):
GTAATTATGAAAATCGAGGGTAAAATAGTAATTCTATAAATCAAGGGTTAAAACAGTAATTCTAT
AAATCAACGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTATGTAAGTCAAGGGT
AAAACGGGGGTAAAATG
Found at i:236800317 original size:31 final size:31
Alignment explanation
Indices: 236800276--236800339 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
236800266 CCTTTTCATA
*
236800276 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
236800307 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
236800338 TT
1 TT
236800340 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:236800594 original size:24 final size:24
Alignment explanation
Indices: 236800530--236800643 Score: 180
Period size: 24 Copynumber: 4.8 Consensus size: 24
236800520 CTGCTTTATC
*
236800530 ACTGGGGCA-AATCCCTTTTAATA
1 ACTGGGGCATAAGCCCTTTTAATA
236800553 ACTGGGGCA-AAGCCCTTTTAATA
1 ACTGGGGCATAAGCCCTTTTAATA
236800576 ACTGGGGCATAAGCCCTTTTAATA
1 ACTGGGGCATAAGCCCTTTTAATA
*
236800600 ACTAGGGCATAAGCCCTTTTAAATA
1 ACTGGGGCATAAGCCCTTTT-AATA
236800625 AC-GGGGCATAAGCCCTTTT
1 ACTGGGGCATAAGCCCTTTT
236800644 TGCACTTCCT
Statistics
Matches: 86, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
23 31 0.36
24 49 0.57
25 6 0.07
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (24 bp):
ACTGGGGCATAAGCCCTTTTAATA
Found at i:236800721 original size:18 final size:19
Alignment explanation
Indices: 236800698--236800776 Score: 108
Period size: 18 Copynumber: 4.2 Consensus size: 19
236800688 GAACATCTCG
236800698 TGTGCATATCAT-ATATCA
1 TGTGCATATCATAATATCA
*
236800716 TGTGCATATCAT-ATGTCA
1 TGTGCATATCATAATATCA
*
236800734 TATGCATATCATACATATCA
1 TGTGCATATCATA-ATATCA
236800754 TGTGCATATCATACATATCA
1 TGTGCATATCATA-ATATCA
236800774 TGT
1 TGT
236800777 TTATCAAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
18 28 0.51
20 27 0.49
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (19 bp):
TGTGCATATCATAATATCA
Found at i:236800841 original size:25 final size:25
Alignment explanation
Indices: 236800813--236800860 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
236800803 ATATATAAAC
* * *
236800813 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
236800838 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
236800861 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:236802088 original size:27 final size:27
Alignment explanation
Indices: 236801997--236802080 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
236801987 GGGCATATTC
*
236801997 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCATACAGGGGCT-TTACG
*
236802024 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
*
236802051 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
236802078 GTC
1 GTC
236802081 TTTTTACCTA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTTACG
Found at i:236802097 original size:27 final size:26
Alignment explanation
Indices: 236801997--236802090 Score: 118
Period size: 27 Copynumber: 3.5 Consensus size: 26
236801987 GGGCATATTC
*
236801997 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACC-TACAGGGGCT-TTACG
236802024 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACC-TACAGGGGCTTTACG
236802051 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTA-CCTACAGGGGCTTTACG
**
236802078 GTCTTTTTACCTA
1 GTCACTTTACCTA
236802091 ATAGGGGTAT
Statistics
Matches: 61, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
26 4 0.07
27 54 0.89
28 3 0.05
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.35
Consensus pattern (26 bp):
GTCACTTTACCTACAGGGGCTTTACG
Found at i:236802172 original size:27 final size:27
Alignment explanation
Indices: 236802142--236802398 Score: 128
Period size: 27 Copynumber: 9.4 Consensus size: 27
236802132 GTAAATCTAC
*
236802142 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCGGTAATTTTGT
* **
236802169 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCGGTAATTTTGT
* * *
236802195 AGAAAGTCAAGGGTATTTCTGTAACTTTGT
1 --AAA-CCAAGGGTATTTCGGTAATTTTGT
* * *
236802225 AAATCAGGGGTATTTTGGTAA-TTT-T
1 AAACCAAGGGTATTTCGGTAATTTTGT
* ***
236802250 AAACATTAAGGGTATTTCGGTAATTTCAC
1 AAAC--CAAGGGTATTTCGGTAATTTTGT
* **
236802279 AAACC-AGTGGTATTTTGGTAATTTTAC
1 AAACCAAG-GGTATTTCGGTAATTTTGT
* * * **
236802306 AAACTAGGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCGGTAATTTTGT
*** *
236802333 AAATTGAGGGTATTTCTGTAATTTTGT
1 AAACCAAGGGTATTTCGGTAATTTTGT
* * ** *
236802360 AAATCGAGGGTAAAAT-AGTAATTTTGT
1 AAACCAAGGGT-ATTTCGGTAATTTTGT
*
236802387 AAATCAAGGGTA
1 AAACCAAGGGTA
236802399 AATAGTAATT
Statistics
Matches: 186, Mismatches: 33, Indels: 23
0.77 0.14 0.10
Matches are distributed among these distances:
25 4 0.02
26 7 0.04
27 141 0.76
28 11 0.06
29 22 0.12
30 1 0.01
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
AAACCAAGGGTATTTCGGTAATTTTGT
Found at i:236802291 original size:54 final size:54
Alignment explanation
Indices: 236802127--236802335 Score: 172
Period size: 54 Copynumber: 3.8 Consensus size: 54
236802117 TACAAGGGTG
* * * * *** *
236802127 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTA
* * * * ** * *
236802181 TTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAACTTT-GTAAATCAGGGGTA
1 TTT-TGGTAA-TTTTACAAACT-AAGGGTATTTCGGTAA-TTTCACAAACCAGTGGTA
*
236802237 TTTTGGTAATTTTA-AACATTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTA
1 TTTTGGTAATTTTACAA-ACTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTA
* * *
236802291 TTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAA
236802336 TTGAGGGTAT
Statistics
Matches: 126, Mismatches: 21, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
53 3 0.02
54 71 0.56
55 17 0.13
56 32 0.25
57 3 0.02
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTCACAAACCAGTGGTA
Found at i:236802345 original size:54 final size:53
Alignment explanation
Indices: 236802232--236802357 Score: 148
Period size: 54 Copynumber: 2.3 Consensus size: 53
236802222 TGTAAATCAG
*
236802232 GGGTATTTTGGTAATTTTAAACATTAAGGGTATTTCGGTAATTTCACAAACCA
1 GGGTATTTTGGTAATTTTAAACACTAAGGGTATTTCGGTAATTTCACAAACCA
* * * **
236802285 GTGGTATTTTGGTAATTTTACAA-ACTAGGGGTATTTTGGTAATTTTACAAATTGA
1 G-GGTATTTTGGTAATTTTA-AACACTAAGGGTATTTCGGTAATTTCACAAA-CCA
236802340 GGGTATTTCT-GTAATTTT
1 GGGTATTT-TGGTAATTTT
236802358 GTAAATCGAG
Statistics
Matches: 63, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
53 1 0.02
54 57 0.90
55 5 0.08
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.43
Consensus pattern (53 bp):
GGGTATTTTGGTAATTTTAAACACTAAGGGTATTTCGGTAATTTCACAAACCA
Found at i:236802398 original size:81 final size:81
Alignment explanation
Indices: 236802215--236802398 Score: 194
Period size: 81 Copynumber: 2.3 Consensus size: 81
236802205 GGGTATTTCT
*
236802215 GTAACTTTGTAAATCAGGGGTATTTTGGTAATTTTAAACATTAAGGGTATTTCGGTAATTTCACA
1 GTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTAAACATTAAGGGTATTTCGGTAATTTCACA
*** *
236802280 AACCAGTGGTATTTTG
66 AACCAGTGGTAAAATA
** * * **
236802296 GTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAA-ATTGAGGGTATTTCTGTAATTTTG
1 GTAATTTTGTAAATC-AGGGGTATTTTGGTAATTTTA-AACATTAAGGGTATTTCGGTAATTTCA
* *
236802359 TAAATCGAG-GGTAAAATA
64 CAAA-CCAGTGGTAAAATA
*
236802377 GTAATTTTGTAAATCAAGGGTA
1 GTAATTTTGTAAATCAGGGGTA
236802399 AATAGTAATT
Statistics
Matches: 83, Mismatches: 16, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
80 1 0.01
81 76 0.92
82 6 0.07
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (81 bp):
GTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTAAACATTAAGGGTATTTCGGTAATTTCACA
AACCAGTGGTAAAATA
Found at i:236802399 original size:27 final size:27
Alignment explanation
Indices: 236802350--236802572 Score: 114
Period size: 26 Copynumber: 8.0 Consensus size: 27
236802340 GGGTATTTCT
*
236802350 GTAATTTTGTAAATCGAGGGTAAAATA
1 GTAATTTTGTAAATCAAGGGTAAAATA
236802377 GTAATTTTGTAAATCAAGGGT-AAATA
1 GTAATTTTGTAAATCAAGGGTAAAATA
* * * ** *
236802403 GTAATTCTATAAAT-GACCGTAAAA-C
1 GTAATTTTGTAAATCAAGGGTAAAATA
* **
236802428 GATAATTTTGTAAATTAAGGG-AAAACG
1 G-TAATTTTGTAAATCAAGGGTAAAATA
* * *
236802455 GTAATTCTGTAAGTCGAGGGTAAAACGGGGGTAAAA
1 GTAATTTTGTAAATCAAGGGTAAAA------T---A
* ** *
236802491 TGGTAATTATGTAAATCGGGGGTAAAATG
1 --GTAATTTTGTAAATCAAGGGTAAAATA
* *
236802520 GTAATTTTGTAAATCAAGGGTATAACA
1 GTAATTTTGTAAATCAAGGGTAAAATA
* *
236802547 GTAATTCTAT-AATCAAGGGTAAAATA
1 GTAATTTTGTAAATCAAGGGTAAAATA
236802573 CTTCTATAAA
Statistics
Matches: 147, Mismatches: 33, Indels: 33
0.69 0.15 0.15
Matches are distributed among these distances:
25 4 0.03
26 64 0.44
27 56 0.38
32 1 0.01
38 22 0.15
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (27 bp):
GTAATTTTGTAAATCAAGGGTAAAATA
Found at i:236802581 original size:23 final size:25
Alignment explanation
Indices: 236802520--236802594 Score: 82
Period size: 24 Copynumber: 3.0 Consensus size: 25
236802510 GGGTAAAATG
* *
236802520 GTAATTTTGTAAATCAAGGGTATAACA
1 GTAATTCTATAAATCAAGGGTA-AA-A
236802547 GTAATTCTAT-AATCAAGGGTAAAA
1 GTAATTCTATAAATCAAGGGTAAAA
* *
236802571 -TACTTCTATAAATCGAGGGTAAAA
1 GTAATTCTATAAATCAAGGGTAAAA
236802595 CGGTAATTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
23 8 0.19
24 14 0.33
25 2 0.05
26 11 0.26
27 8 0.19
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.31
Consensus pattern (25 bp):
GTAATTCTATAAATCAAGGGTAAAA
Found at i:236805182 original size:17 final size:18
Alignment explanation
Indices: 236805140--236805188 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
236805130 AGTTGAAAAG
236805140 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
236805159 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
236805176 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
236805189 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:236806077 original size:40 final size:40
Alignment explanation
Indices: 236806011--236806177 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
236806001 AAATTGAATG
* * *
236806011 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
236806050 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
236806090 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
236806130 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
236806170 ATATCCGG
1 ATATCCGG
236806178 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:236813174 original size:17 final size:18
Alignment explanation
Indices: 236813132--236813180 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
236813122 AGTTGAAAAG
236813132 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
236813151 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
236813168 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
236813181 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:236814129 original size:40 final size:37
Alignment explanation
Indices: 236814042--236814150 Score: 128
Period size: 38 Copynumber: 2.8 Consensus size: 37
236814032 CTGGAAATTA
* * *
236814042 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGT
1 TATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTAGT
* *
236814080 TATCCGGGCTAAGGCCCGAAGGCATTCGTGCGAGTTATT
1 TATCCGGGCTAAGACCCGAAGGCATT-GTGCGAG-TAGT
236814119 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 -TATCCGGGCTAAGACCCGAAGGCA-TTGTGC
236814151 ACGTGATTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
37 3 0.05
38 27 0.44
39 2 0.03
40 27 0.44
41 2 0.03
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (37 bp):
TATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTAGT
Found at i:236814164 original size:40 final size:40
Alignment explanation
Indices: 236814002--236814166 Score: 162
Period size: 40 Copynumber: 4.2 Consensus size: 40
236813992 AAATTGAATG
* * **
236814002 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGATT
* * *
236814041 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG-GT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
* *
236814080 -TATCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGATT
* *
236814119 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGATT
236814159 ATATCCGG
1 ATATCCGG
236814167 TTATATTCCG
Statistics
Matches: 103, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
37 3 0.03
38 28 0.27
39 16 0.16
40 54 0.52
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATT
Found at i:236827753 original size:40 final size:40
Alignment explanation
Indices: 236827687--236827853 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
236827677 AAATTGAATG
* * *
236827687 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
236827726 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
236827766 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
236827806 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
236827846 ATATCCGG
1 ATATCCGG
236827854 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:236833085 original size:40 final size:40
Alignment explanation
Indices: 236833019--236833185 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
236833009 AAATTGAATG
* * *
236833019 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
236833058 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
236833098 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
236833138 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
236833178 ATATCCGG
1 ATATCCGG
236833186 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:236842562 original size:11 final size:11
Alignment explanation
Indices: 236842546--236842605 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
236842536 GTAATATTAA
236842546 AAAATATATAT
1 AAAATATATAT
236842557 AAAATATATATT
1 AAAATATATA-T
*
236842569 AAAAGACTTATAT
1 AAAATA--TATAT
* *
236842582 ACAACATATAT
1 AAAATATATAT
236842593 GAAAA-ATATAT
1 -AAAATATATAT
236842604 AA
1 AA
236842606 TATTAAACAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
10 2 0.05
11 21 0.51
12 9 0.22
13 5 0.12
14 4 0.10
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (11 bp):
AAAATATATAT
Found at i:236842572 original size:25 final size:25
Alignment explanation
Indices: 236842539--236842615 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 25
236842529 ATAACTAGTA
*
236842539 ATATTAAAAAATATATATAAAATAT
1 ATATTAAAAAATATATATAAAACAT
* *
236842564 ATATTAAAAGACT-TATATACAACAT
1 ATATTAAAA-AATATATATAAAACAT
* *
236842589 ATATGAAAAATATATAATATTAAACAT
1 ATATTAAAAA-ATAT-ATATAAAACAT
236842616 TTACATAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
24 1 0.02
25 28 0.68
26 3 0.07
27 9 0.22
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (25 bp):
ATATTAAAAAATATATATAAAACAT
Found at i:236844697 original size:68 final size:65
Alignment explanation
Indices: 236844505--236844681 Score: 185
Period size: 68 Copynumber: 2.6 Consensus size: 65
236844495 AAGTGAACTG
** * * * *
236844505 AGGCTCAACTCATTTCTCGCAATATGGGTTGATTTTTGAAACGTAGAAATTAAAAGAAGAAATTA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAGTA-AAA-TAAAAAAAGAAATTA
236844570 GA
64 GA
* * ** * *
236844572 AGGCTCAACTCACCTCTCGCAACATGAGTTAATACTTTGAAAAGTAGATTTTGAAAAACGAAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAT-CTTTGAAAAGTA-A-AATAAAAAAAG-AAAT
236844637 TA-A
62 TAGA
236844640 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAA
236844682 ATTAAAAAAA
Statistics
Matches: 93, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
67 37 0.40
68 50 0.54
69 6 0.06
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (65 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTGAAAAGTAAAATAAAAAAAGAAATTAGA
Found at i:236845088 original size:53 final size:54
Alignment explanation
Indices: 236844984--236845093 Score: 127
Period size: 53 Copynumber: 2.0 Consensus size: 54
236844974 ATGTGAACCC
236844984 AAGGCTCAACTCACATCTCGCAATACGAGTTGATTTTGAAAAAGTAGAAATT-AA
1 AAGGCTCAACTCACATCTCGCAATACGAGTTGATTTTGAAAAAGTA-AAATTGAA
* * * * *
236845038 AAGGTTCAAC-CACCTCTCGTAATATGAGTTGATTCTTGAACAACGT-AAATTGAA
1 AAGGCTCAACTCACATCTCGCAATACGAGTTGATT-TTGAA-AAAGTAAAATTGAA
236845092 AA
1 AA
236845094 CAGAAATTGA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
53 26 0.54
54 18 0.38
55 4 0.08
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.27
Consensus pattern (54 bp):
AAGGCTCAACTCACATCTCGCAATACGAGTTGATTTTGAAAAAGTAAAATTGAA
Found at i:236845273 original size:71 final size:71
Alignment explanation
Indices: 236845182--236845429 Score: 334
Period size: 71 Copynumber: 3.5 Consensus size: 71
236845172 ATTAAAAGGT
* *
236845182 TCAACCCACCTCTCGTAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
236845247 TGAGGC
66 TGAGGC
** ** * * *
236845253 TCAACTCACCTCTCGCAATATGAGTTGATGAACTAAAAAGCAGAAATTGAAAATACCTCAGCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGAT--TTTTGAAA-CATAAATTGAAATTACCTCAACGTG
* *
236845318 CCCTGAGGC
63 TCTTGAGGC
*
236845327 TCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
236845392 TGAGGC
66 TGAGGC
* * *
236845398 TCAACTTACCTCTCGCAATATGGGCTGATTTT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTT
236845430 CTTGGAAAAC
Statistics
Matches: 149, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
71 84 0.56
72 4 0.03
73 4 0.03
74 57 0.38
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (71 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCT
TGAGGC
Found at i:236845550 original size:160 final size:160
Alignment explanation
Indices: 236845280--236845680 Score: 766
Period size: 160 Copynumber: 2.5 Consensus size: 160
236845270 ATATGAGTTG
* *
236845280 ATGAACTAAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAA
1 ATGAATTAAAAAGTAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAA
*
236845345 TATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTTACCTC
66 TATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
236845410 TCGCAATATGGGCTGATTTTCTTGGAAAAC
131 TCGCAATATGGGCTGATTTTCTTGGAAAAC
236845440 ATGAATTAAAAAGTAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAA
1 ATGAATTAAAAAGTAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAA
236845505 TATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
66 TATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
236845570 TCGCAATATGGGCTGATTTTCTTGGAAAAC
131 TCGCAATATGGGCTGATTTTCTTGGAAAAC
236845600 ATGAATTAAAAAGTAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAA
1 ATGAATTAAAAAGTAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAA
*
236845665 TATGAGCTGATTTTTG
66 TATGAGTTGATTTTTG
236845681 GAAAAAACAA
Statistics
Matches: 237, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
160 237 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (160 bp):
ATGAATTAAAAAGTAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAA
TATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
TCGCAATATGGGCTGATTTTCTTGGAAAAC
Found at i:236845572 original size:71 final size:71
Alignment explanation
Indices: 236845456--236845589 Score: 205
Period size: 71 Copynumber: 1.9 Consensus size: 71
236845446 TAAAAAGTAG
* * *
236845456 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
236845521 AAACAT
66 AAACAT
* * * *
236845527 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGGGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
236845590 CTTGGAAAAC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 56 1.00
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
AAACAT
Found at i:236857997 original size:20 final size:20
Alignment explanation
Indices: 236857972--236858013 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
236857962 ACATGCATAT
236857972 ATATATAAATACAAGTATTAGA
1 ATATAT-AATACAA-TATTAGA
*
236857994 ATATATAATATAATATTAGA
1 ATATATAATACAATATTAGA
236858014 GGTATACATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 6 0.32
22 6 0.32
ACGTcount: A:0.55, C:0.02, G:0.07, T:0.36
Consensus pattern (20 bp):
ATATATAATACAATATTAGA
Found at i:236858062 original size:11 final size:11
Alignment explanation
Indices: 236858046--236858105 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
236858036 GTAATATTAA
236858046 AAAATATATAT
1 AAAATATATAT
236858057 AAAATATATATT
1 AAAATATATA-T
*
236858069 AAAAGACTTATAT
1 AAAATA--TATAT
* *
236858082 ACAACATATAT
1 AAAATATATAT
236858093 GAAAA-ATATAT
1 -AAAATATATAT
236858104 AA
1 AA
236858106 TATTAAACAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
10 2 0.05
11 21 0.51
12 9 0.22
13 5 0.12
14 4 0.10
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (11 bp):
AAAATATATAT
Found at i:236858072 original size:25 final size:25
Alignment explanation
Indices: 236858039--236858115 Score: 75
Period size: 25 Copynumber: 3.0 Consensus size: 25
236858029 ATAACTAGTA
*
236858039 ATATTAAAAAATATATATAAAATAT
1 ATATTAAAAAATATATATAAAACAT
* *
236858064 ATATTAAAAGACT-TATATACAACAT
1 ATATTAAAA-AATATATATAAAACAT
* *
236858089 ATATGAAAAATATATAATATTAAACAT
1 ATATTAAAAA-ATAT-ATATAAAACAT
236858116 TTACATAAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
24 1 0.02
25 28 0.68
26 3 0.07
27 9 0.22
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (25 bp):
ATATTAAAAAATATATATAAAACAT
Found at i:236858313 original size:26 final size:25
Alignment explanation
Indices: 236858284--236858332 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
236858274 ATATATATAT
236858284 TAAGATATAT-ATATATATATAAATGA
1 TAAGATATATAATA-ATA-ATAAATGA
*
236858310 TAAGATCTATAATAATAATAAAT
1 TAAGATATATAATAATAATAAAT
236858333 ACAATACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 6 0.29
26 12 0.57
27 3 0.14
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.37
Consensus pattern (25 bp):
TAAGATATATAATAATAATAAATGA
Found at i:236860070 original size:29 final size:29
Alignment explanation
Indices: 236860032--236860095 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
236860022 ATATTTCTTC
* * *
236860032 TATTTGTATATCATACATTATTTGATTAT
1 TATTTTTATATCATACATCATTTAATTAT
* *
236860061 TGTTTTTATATCATGCATCATTTAATTAT
1 TATTTTTATATCATACATCATTTAATTAT
236860090 TATTTT
1 TATTTT
236860096 AGATGTTGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.28, C:0.08, G:0.06, T:0.58
Consensus pattern (29 bp):
TATTTTTATATCATACATCATTTAATTAT
Found at i:236871756 original size:119 final size:119
Alignment explanation
Indices: 236871591--236872308 Score: 1098
Period size: 119 Copynumber: 6.0 Consensus size: 119
236871581 TAGGCTGCAG
*
236871591 TATAGCAGATCT-AGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTC-TGC
1 TATAGCAGATCTAAAC-TTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG-
* **
236871654 TGTTTATAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACATTCTCAGA
64 TGTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGA
*
236871710 TATAGCAGATCTAAACTTCAGATGTTTATACTAAAGCAGATCCAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
* * * *
236871775 TTTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAA
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGA
* * *
236871829 TATAGCAGATCTAAACTTTAGAAGTTTATACTGAAGCAGATCCAAAATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
* *
236871894 TTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACA
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAG--A
* * * **
236871950 CATGGCAGATCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGT
1 TATAGCAGATCTAAACTTCAGATGTTTATACTGAAG-CAGATCCAAGATGATTTGGTATTCTTGT
*
236872015 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAAATGTTCTCAGA
65 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGA
*
236872070 TATAGCAGATCTAAGCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
* *
236872135 TTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACA
66 TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAG--A
* * * **
236872191 CATGGCAGATCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGT
1 TATAGCAGATCTAAACTTCAGATGTTTATACTGAAG-CAGATCCAAGATGATTTGGTATTCTTGT
236872256 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCA
65 GTTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCA
236872309 AACAGACTCA
Statistics
Matches: 550, Mismatches: 41, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
119 293 0.53
120 38 0.07
121 66 0.12
122 153 0.28
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (119 bp):
TATAGCAGATCTAAACTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
TTTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAGA
Found at i:236872079 original size:241 final size:241
Alignment explanation
Indices: 236871591--236872310 Score: 1216
Period size: 241 Copynumber: 3.0 Consensus size: 241
236871581 TAGGCTGCAG
236871591 TATAGCAGATCT-AGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTC-TGC
1 TATAGCAGATCTAAGCTTT-AGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTG-
* * * ** * *
236871654 TGTTTATAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACATTCTCAG--ATATAGCA
64 TGTTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGGCA
* * **
236871717 GATCTAAACTTCAGATGTTTATACTAAAG-CAGATCCAAGATGATTTGGTATTCTTGTGTTTACA
129 GATCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACA
* *
236871781 AGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAA
194 AGAAACAAATCGAGGACATAGCAGATTTGACTCTCAAATGTTCTCAAA
* * *
236871829 TATAGCAGATCTAAACTTTAGAAGTTTATACTGAAGCAGATCCAAAATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAAGCTTTAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
236871894 TTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGGCAGA
66 TTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGGCAGA
236871959 TCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACAAG
131 TCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACAAG
*
236872024 AAACAAATCGAGGACATAGCAGATTTGACTCTCAAATGTTCTCAGA
196 AAACAAATCGAGGACATAGCAGATTTGACTCTCAAATGTTCTCAAA
*
236872070 TATAGCAGATCTAAGCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
1 TATAGCAGATCTAAGCTTTAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
236872135 TTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGGCAGA
66 TTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGGCAGA
236872200 TCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACAAG
131 TCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACAAG
*
236872265 AAACAAATCGAGGACATAGCAGATTTGACTCTCAGATGTTCTCAAA
196 AAACAAATCGAGGACATAGCAGATTTGACTCTCAAATGTTCTCAAA
236872311 CAGACTCAAG
Statistics
Matches: 454, Mismatches: 23, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
238 101 0.22
239 7 0.02
240 33 0.07
241 313 0.69
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (241 bp):
TATAGCAGATCTAAGCTTTAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTG
TTTACAAGGAACAAATCGAGGATATAGCAGATTTGACTCTCAGATGTTCTCAGACACATGGCAGA
TCTAACCTTCAGATGTTTATACTGAAGCCAGATCCAAGATGATTTGACATTCTTGTGTTTACAAG
AAACAAATCGAGGACATAGCAGATTTGACTCTCAAATGTTCTCAAA
Found at i:236874003 original size:35 final size:35
Alignment explanation
Indices: 236873964--236874129 Score: 190
Period size: 35 Copynumber: 4.6 Consensus size: 35
236873954 CCATGGAAAG
236873964 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
* *
236873999 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
236874034 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
** * * *
236874074 TAAGAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACTGAGT
**
236874109 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
236874130 TTCAATGAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 79 0.70
37 2 0.02
38 3 0.03
40 28 0.25
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:236874082 original size:75 final size:75
Alignment explanation
Indices: 236873964--236874134 Score: 221
Period size: 75 Copynumber: 2.4 Consensus size: 75
236873954 CCATGGAAAG
** *
236873964 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTAT-
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATT-TC
*
236874023 CCATACTGAGC
65 CCATACCGAGC
236874034 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
1 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
*
236874099 CATACCGAGT
66 CATACCGAGC
**
236874109 TGAAAAATGTAGGTATGGTATT-TCAA
1 TGTGAAATGTAGGTATGGTATTATCAA
236874135 TGAGGAAAAC
Statistics
Matches: 88, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
70 18 0.20
73 4 0.05
74 5 0.06
75 61 0.69
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (75 bp):
TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCC
CATACCGAGC
Found at i:236876785 original size:18 final size:17
Alignment explanation
Indices: 236876713--236876788 Score: 55
Period size: 18 Copynumber: 4.3 Consensus size: 17
236876703 TTTATAAGTG
236876713 TTATTTTTATATGTATTA
1 TTATTTTTATAT-TATTA
* *
236876731 TGATTGTT-TATTATATA
1 TTATTTTTATATTAT-TA
* * * *
236876748 TTAATTCTCTCATAATTA
1 TTATTTTTAT-ATTATTA
236876766 TTATTTTTATATTATATA
1 TTATTTTTATATTAT-TA
236876784 TTATT
1 TTATT
236876789 ATATTTTTAC
Statistics
Matches: 43, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
16 3 0.07
17 13 0.30
18 23 0.53
19 4 0.09
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (17 bp):
TTATTTTTATATTATTA
Found at i:236876807 original size:14 final size:14
Alignment explanation
Indices: 236876788--236876837 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
236876778 TATATATTAT
236876788 TATATTTTTACATA
1 TATATTTTTACATA
*
236876802 TATATTATATACATA
1 TATATT-TTTACATA
236876817 T-TA-TTTTACATA
1 TATATTTTTACATA
*
236876829 TAAATTTTT
1 TATATTTTT
236876838 CATTATTACA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 8 0.27
13 2 0.07
14 12 0.40
15 8 0.27
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (14 bp):
TATATTTTTACATA
Found at i:236882803 original size:40 final size:40
Alignment explanation
Indices: 236882748--236882928 Score: 276
Period size: 40 Copynumber: 4.5 Consensus size: 40
236882738 TATTCGGATG
* *
236882748 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
236882788 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
**
236882828 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
236882868 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
236882908 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
236882929 ATACTTGGGT
Statistics
Matches: 130, Mismatches: 10, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 13 0.10
40 115 0.88
41 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:236890132 original size:40 final size:40
Alignment explanation
Indices: 236890077--236890300 Score: 306
Period size: 40 Copynumber: 5.5 Consensus size: 40
236890067 TATTCGGATG
236890077 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
236890117 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
236890160 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
236890200 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
236890240 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
236890280 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
236890301 ATACTTGGGT
Statistics
Matches: 165, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
39 13 0.08
40 114 0.69
41 1 0.01
43 37 0.22
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:236890220 original size:83 final size:80
Alignment explanation
Indices: 236890081--236890300 Score: 302
Period size: 83 Copynumber: 2.7 Consensus size: 80
236890071 CGGATGATAT
* **
236890081 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
236890146 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
236890164 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
236890229 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
236890244 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
236890301 ATACTTGGGT
Statistics
Matches: 127, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
79 16 0.13
80 45 0.35
81 2 0.02
83 64 0.50
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:236903300 original size:18 final size:19
Alignment explanation
Indices: 236903279--236903314 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
236903269 AATAAAGAAA
*
236903279 GGAATTAAA-AAGAAAAGG
1 GGAATAAAATAAGAAAAGG
236903297 GGAATAAAATAAGAAAAG
1 GGAATAAAATAAGAAAAG
236903315 AAAAAGGGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.25, T:0.11
Consensus pattern (19 bp):
GGAATAAAATAAGAAAAGG
Found at i:236904678 original size:25 final size:25
Alignment explanation
Indices: 236904649--236904696 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
236904639 GTGTGGGTTT
236904649 AAAATTGTACAGCACTAAGTGTGTG
1 AAAATTGTACAGCACTAAGTGTGTG
236904674 AAAATTGTACAGCACTAAGTGTG
1 AAAATTGTACAGCACTAAGTGTG
236904697 CGAGTGATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAATTGTACAGCACTAAGTGTGTG
Found at i:236904745 original size:29 final size:29
Alignment explanation
Indices: 236904684--236904810 Score: 210
Period size: 29 Copynumber: 4.5 Consensus size: 29
236904674 AAAATTGTAC
236904684 AGCACTAAGTGTGCGAG-TG---ATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
236904709 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
236904738 AGCACTAA-TGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
236904767 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
236904796 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
236904811 GATTCACTAT
Statistics
Matches: 96, Mismatches: 0, Indels: 8
0.92 0.00 0.08
Matches are distributed among these distances:
25 17 0.18
26 2 0.02
28 15 0.16
29 47 0.49
30 15 0.16
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:236911052 original size:18 final size:19
Alignment explanation
Indices: 236911031--236911066 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
236911021 AATAAAGAAA
*
236911031 GGAATTAAA-AAGAAAAGG
1 GGAATAAAATAAGAAAAGG
236911049 GGAATAAAATAAGAAAAG
1 GGAATAAAATAAGAAAAG
236911067 AAAAAGGGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.64, C:0.00, G:0.25, T:0.11
Consensus pattern (19 bp):
GGAATAAAATAAGAAAAGG
Found at i:236912493 original size:30 final size:29
Alignment explanation
Indices: 236912407--236912537 Score: 237
Period size: 29 Copynumber: 4.5 Consensus size: 29
236912397 AAAATTGTAC
*
236912407 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
236912436 AGCACTAAGTGTGCGA-CTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
236912464 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
236912494 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
236912523 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
236912538 GATTCACTAT
Statistics
Matches: 100, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
28 28 0.28
29 43 0.43
30 29 0.29
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:236912524 original size:87 final size:88
Alignment explanation
Indices: 236912377--236912537 Score: 261
Period size: 87 Copynumber: 1.8 Consensus size: 88
236912367 GACAAGATTG
* * *
236912377 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
236912442 AAGTGTGCGACTGAAAATATATA
66 AAGTGTGCGACTGAAAATATATA
* * *
236912465 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATAGCACT
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
236912529 AAGTGTGCG
66 AAGTGTGCG
236912538 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
87 52 0.78
88 15 0.22
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.25
Consensus pattern (88 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATAGCACT
AAGTGTGCGACTGAAAATATATA
Found at i:236918799 original size:47 final size:49
Alignment explanation
Indices: 236918738--236918867 Score: 135
Period size: 47 Copynumber: 2.7 Consensus size: 49
236918728 TATAATGTCG
* * *
236918738 ATGCCATGTTCCAGATATGGTCTTACACTGGCTCATC-CATTAAG-TCA
1 ATGCCAAGTCCCAGATATGGTCTTACACTGGCTCATCACATCAAGATCA
* * * *
236918785 ATGCCAAGTCCCAGACATGGTCTTACACTGACT-ATCGAGATCGAGATCA
1 ATGCCAAGTCCCAGATATGGTCTTACACTGGCTCATC-ACATCAAGATCA
236918834 A--CACAATGTCCCAGATATGGTCTTACACTGGCTC
1 ATGC-CAA-GTCCCAGATATGGTCTTACACTGGCTC
236918868 TCATCTCTCC
Statistics
Matches: 68, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
46 3 0.04
47 30 0.44
48 7 0.10
49 28 0.41
ACGTcount: A:0.28, C:0.27, G:0.18, T:0.27
Consensus pattern (49 bp):
ATGCCAAGTCCCAGATATGGTCTTACACTGGCTCATCACATCAAGATCA
Found at i:236924254 original size:17 final size:17
Alignment explanation
Indices: 236924213--236924254 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
236924203 TTTGAGTCCA
236924213 TTTATTTTCACTTTGTT
1 TTTATTTTCACTTTGTT
**
236924230 TTGCTTTTC-CTTTTGTT
1 TTTATTTTCAC-TTTGTT
236924247 TTTATTTT
1 TTTATTTT
236924255 AAAAGTTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
16 1 0.05
17 19 0.95
ACGTcount: A:0.07, C:0.12, G:0.07, T:0.74
Consensus pattern (17 bp):
TTTATTTTCACTTTGTT
Found at i:236925830 original size:30 final size:30
Alignment explanation
Indices: 236925794--236925854 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
236925784 TCGAAGACAT
236925794 GGCATTGGTAGGATATTGATAGACAGGAAC
1 GGCATTGGTAGGATATTGATAGACAGGAAC
236925824 GGCATTGGTAGGATATTGATAGACAGGAAC
1 GGCATTGGTAGGATATTGATAGACAGGAAC
236925854 G
1 G
236925855 ACCCTAGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.10, G:0.34, T:0.23
Consensus pattern (30 bp):
GGCATTGGTAGGATATTGATAGACAGGAAC
Found at i:236928201 original size:25 final size:25
Alignment explanation
Indices: 236928172--236928219 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
236928162 TTATAATATG
* * *
236928172 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
236928197 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
236928220 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:236928289 original size:20 final size:20
Alignment explanation
Indices: 236928264--236928322 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
236928254 TAAATATGGT
236928264 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
236928284 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
236928304 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
236928323 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:236928442 original size:47 final size:48
Alignment explanation
Indices: 236928373--236928491 Score: 172
Period size: 47 Copynumber: 2.5 Consensus size: 48
236928363 GAGGAAGTGA
236928373 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTAT-GCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTT-TGGCCCCAGTTATT
*
236928420 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTGGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
*
236928468 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
236928492 ATGATAAAGC
Statistics
Matches: 66, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
46 1 0.02
47 43 0.65
48 11 0.17
49 11 0.17
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCGAAAGGGCTTTGGCCCCAGTTATT
Found at i:236928467 original size:24 final size:24
Alignment explanation
Indices: 236928373--236928491 Score: 154
Period size: 24 Copynumber: 5.0 Consensus size: 24
236928363 GAGGAAGTGA
*
236928373 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
236928397 GAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
236928420 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
236928444 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
236928468 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
236928492 ATGATAAAGC
Statistics
Matches: 84, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
23 22 0.26
24 51 0.61
25 11 0.13
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:236928718 original size:31 final size:31
Alignment explanation
Indices: 236928683--236928746 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
236928673 CGTTTACAGT
236928683 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
236928714 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
236928745 AA
1 AA
236928747 CATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:236928752 original size:38 final size:39
Alignment explanation
Indices: 236928700--236928808 Score: 184
Period size: 38 Copynumber: 2.8 Consensus size: 39
236928690 TCGGCCCAGT
236928700 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA-
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGAG
*
236928738 AATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGAG
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGAG
*
236928777 AATATGAAATATGAAAAGGGCTACGGCCCAGT
1 AATATGAAATATGAAAA-GGCTTCGGCCCAGT
236928809 GCATGATTGA
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
38 37 0.56
39 16 0.24
40 13 0.20
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (39 bp):
AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGAG
Found at i:236932313 original size:22 final size:22
Alignment explanation
Indices: 236932285--236932330 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
236932275 GAAGCAGATG
236932285 AGCATCTTCGTGTAGTGCTGCA
1 AGCATCTTCGTGTAGTGCTGCA
236932307 AGCATCTTCGTGTAGTGCTGCA
1 AGCATCTTCGTGTAGTGCTGCA
236932329 AG
1 AG
236932331 TGTTAAGGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.20, C:0.22, G:0.28, T:0.30
Consensus pattern (22 bp):
AGCATCTTCGTGTAGTGCTGCA
Found at i:236935765 original size:40 final size:40
Alignment explanation
Indices: 236935710--236935934 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
236935700 TATTCGGATG
236935710 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
236935750 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
236935793 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
236935833 ATTTCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
236935873 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGCG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
236935913 ATATCC-GGCTAAATCTCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
236935935 TACTTGGTTT
Statistics
Matches: 162, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 13 0.08
40 111 0.69
41 1 0.01
43 37 0.23
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:236935853 original size:83 final size:80
Alignment explanation
Indices: 236935714--236935904 Score: 283
Period size: 83 Copynumber: 2.4 Consensus size: 80
236935704 CGGATGATAT
* * *
236935714 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCAGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCAGGCTAAGACCCGAAGGCATGTG
236935779 TGCGAGTAGTTACTATAC
66 TGC--G-AGTTACTATAC
* * *
236935797 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATTTCCGGGCTAAGACCCGAAGGCATGTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCAGGCTAAGACCCGAAGGCATGTG
*
236935862 TGCGAGTTACTATAT
66 TGCGAGTTACTATAC
*
236935877 CCGGGTTAAGTCCCGAAGGCATTTGTGC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC
236935905 GAGTTGCGAT
Statistics
Matches: 100, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
80 37 0.37
81 1 0.01
83 62 0.62
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCAGGCTAAGACCCGAAGGCATGTG
TGCGAGTTACTATAC
Found at i:236947197 original size:40 final size:40
Alignment explanation
Indices: 236947142--236947366 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
236947132 TATTCGGATG
236947142 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
236947182 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
236947225 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
236947265 ATTTCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
236947305 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGCG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
236947345 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
236947367 TACTTGGTTT
Statistics
Matches: 165, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
39 14 0.08
40 112 0.68
41 1 0.01
43 38 0.23
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:236947285 original size:83 final size:80
Alignment explanation
Indices: 236947146--236947366 Score: 295
Period size: 83 Copynumber: 2.7 Consensus size: 80
236947136 CGGATGATAT
* * *
236947146 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
236947211 TGCGAGTAGTTACTATAC
66 TGC--G-AGTTACTATAC
* *
236947229 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATTTCCGGGCTAAGACCCGAAGGCATGTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
*
236947294 TGCGAGTTACTATAT
66 TGCGAGTTACTATAC
* * *
236947309 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTG-CGATATCC-GGCTAA-ATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGA-CCCGAAGG
236947367 TACTTGGTTT
Statistics
Matches: 126, Mismatches: 10, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
78 1 0.01
79 14 0.11
80 45 0.36
81 3 0.02
83 63 0.50
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
TGCGAGTTACTATAC
Found at i:236953319 original size:43 final size:43
Alignment explanation
Indices: 236953255--236953341 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 43
236953245 ATATGTGATT
236953255 TCGATATGTGTGTACGAGTAAGACC-CTATCTGGGACAATGGCA
1 TCGATATGTGTGTACGAGTAAGACCAC-ATCTGGGACAATGGCA
* *
236953298 TCGATATGTG-GCTAC-ATGTAAGACCACGTCTGGGACATTGGCA
1 TCGATATGTGTG-TACGA-GTAAGACCACATCTGGGACAATGGCA
236953341 T
1 T
236953342 TGTACGATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
42 2 0.05
43 36 0.92
44 1 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (43 bp):
TCGATATGTGTGTACGAGTAAGACCACATCTGGGACAATGGCA
Found at i:236957399 original size:25 final size:25
Alignment explanation
Indices: 236957371--236957421 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
236957361 ACGGATTAAA
236957371 GGTGTTATAGTCAACCAAATTGATC
1 GGTGTTATAGTCAACCAAATTGATC
236957396 GGTGTTATAGTCAACCAAATTGATC
1 GGTGTTATAGTCAACCAAATTGATC
236957421 G
1 G
236957422 CACTATCTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (25 bp):
GGTGTTATAGTCAACCAAATTGATC
Found at i:236959548 original size:40 final size:40
Alignment explanation
Indices: 236959503--236959669 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
236959493 CGGAATATAA
236959503 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
236959543 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
236959583 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
236959623 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
236959662 CCGGATAT
1 CCGGATAT
236959670 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:236967503 original size:40 final size:40
Alignment explanation
Indices: 236967458--236967625 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
236967448 CGGAATACAA
236967458 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
236967498 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
236967538 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
236967578 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
236967618 CCGGATAT
1 CCGGATAT
236967626 CATTCAATTG
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 100 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:236976299 original size:122 final size:122
Alignment explanation
Indices: 236976079--236976299 Score: 318
Period size: 122 Copynumber: 1.8 Consensus size: 122
236976069 GAATTATGTG
* * * * * *
236976079 AAATGAAATATGGATGTGTAATGATTATTGATTTATGTGTGTATGAGTATTTGAATGATACCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
** **
236976144 GCTAAGTCCCGAAGGCGATTATGCTAGTGATTATTTGTGTTTGAGCCTTAGTAACGA
66 GCTAAGTCCCGAAGAAGATTATGCTAGAAATTATTTGTGTTTGAGCCTTAGTAACGA
*
236976201 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGG
1 AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
*
236976266 GCTAAGTCCCGAAGAAG-TTATTGCTGGAAATTAT
66 GCTAAGTCCCGAAGAAGATTA-TGCTAGAAATTAT
236976300 ATCCGGGTTA
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
121 3 0.03
122 83 0.97
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.34
Consensus pattern (122 bp):
AAATGAAATATGAATGTCTAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATACCCGG
GCTAAGTCCCGAAGAAGATTATGCTAGAAATTATTTGTGTTTGAGCCTTAGTAACGA
Found at i:236976423 original size:40 final size:40
Alignment explanation
Indices: 236976296--236976425 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
236976286 TTGCTGGAAA
* * *
236976296 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * *
236976336 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
236976376 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
236976416 TTATATCCGG
1 TTATATCCGG
236976426 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:236978671 original size:2 final size:2
Alignment explanation
Indices: 236978664--236978692 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
236978654 TGTGTATTCC
236978664 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
236978693 CACATTAATG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:236980873 original size:40 final size:40
Alignment explanation
Indices: 236980818--236981039 Score: 349
Period size: 40 Copynumber: 5.6 Consensus size: 40
236980808 TATTCGGATG
*
236980818 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
236980858 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
236980898 ATATCCGGGCTATGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
236980938 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
236980978 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
236981018 ATATCC-GGCTAATTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
236981040 TACTTGGGTT
Statistics
Matches: 170, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 14 0.08
40 154 0.91
41 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:236993368 original size:27 final size:28
Alignment explanation
Indices: 236993312--236993381 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
236993302 AAATTTGTAC
236993312 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
236993340 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
236993367 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
236993382 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:237004410 original size:27 final size:28
Alignment explanation
Indices: 237004354--237004423 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
237004344 AAATTTGTAC
237004354 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
237004382 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
237004409 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
237004424 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:237013218 original size:24 final size:24
Alignment explanation
Indices: 237012974--237013216 Score: 432
Period size: 24 Copynumber: 10.1 Consensus size: 24
237012964 GCAAAGACCA
*
237012974 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
237012998 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
237013022 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
237013046 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
237013070 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
237013094 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
237013118 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
237013142 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
237013166 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
237013190 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
237013214 TAT
1 TAT
237013217 AGTCACATTC
Statistics
Matches: 214, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 214 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.37
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:237021204 original size:24 final size:24
Alignment explanation
Indices: 237020985--237021202 Score: 375
Period size: 24 Copynumber: 9.1 Consensus size: 24
237020975 GCAAAGACCA
237020985 TATGGCACTATGTGTGCGA-TTAC
1 TATGGCACTATGTGTGCGATTTAC
*
237021008 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
237021032 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
237021056 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
*
237021080 TATGGCACTATGTGTGCGATTCAC
1 TATGGCACTATGTGTGCGATTTAC
237021104 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
237021128 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
*
237021152 TATGGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
* *
237021176 TATAGCACTATGTGTGCGATTTGC
1 TATGGCACTATGTGTGCGATTTAC
237021200 TAT
1 TAT
237021203 AGTCACATTC
Statistics
Matches: 188, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
23 19 0.10
24 169 0.90
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:237023098 original size:56 final size:58
Alignment explanation
Indices: 237023010--237023138 Score: 142
Period size: 56 Copynumber: 2.3 Consensus size: 58
237023000 GTGTAGAGTT
* * *
237023010 CGCACACATAGTG-CTTAATACTCAATCACGCACACTT-GTGCCATATGATT-CAAGCC
1 CGCACACATAGTGCCATAATACTCAAACACGCACACTTAGTGCCATA-CATTACAAGCC
* * * *
237023066 CGCACACATAGTGCCAT-ATAGTCAAACTCGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACATAGTGCCATAATACTCAAACACGCACACTTAGTGCCATACATTACAAGCC
237023123 CGCACAC-TCAGTGCCA
1 CGCACACAT-AGTGCCA
237023139 ATCTTGTCAC
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
56 34 0.55
57 28 0.45
ACGTcount: A:0.30, C:0.32, G:0.16, T:0.22
Consensus pattern (58 bp):
CGCACACATAGTGCCATAATACTCAAACACGCACACTTAGTGCCATACATTACAAGCC
Found at i:237023128 original size:29 final size:28
Alignment explanation
Indices: 237023038--237023138 Score: 105
Period size: 28 Copynumber: 3.6 Consensus size: 28
237023028 TACTCAATCA
* *
237023038 CGCACACTT-GTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATA-CATTCAAGCT
* * * *
237023066 CGCACACATAGTGCCATATAGTCAAACT
1 CGCACACTTAGTGCCATACATTCAAGCT
*
237023094 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATACATT-CAAGCT
*
237023123 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
237023139 ATCTTGTCAC
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
28 32 0.54
29 27 0.46
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.22
Consensus pattern (28 bp):
CGCACACTTAGTGCCATACATTCAAGCT
Found at i:237028390 original size:94 final size:94
Alignment explanation
Indices: 237028260--237028523 Score: 429
Period size: 94 Copynumber: 2.7 Consensus size: 94
237028250 TTTGAGTACT
237028260 TCTGATCAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACA
237028325 AATGATAAGTGGTAGCTTAGCTACTCTTA
66 AATGATAAGTGGTAGCTTAGCTACTCTTA
237028354 TCTGATCAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACA
1 TCTGATCAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACA
237028419 AATGATAAGTGGTAGCTTAGCTACTCTTA
66 AATGATAAGTGGTAGCTTAGCTACTCTTA
* * *
237028448 TCTGATCAGTGACAAGTGATAAGTGTTAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 TCTGATCAGTGACAAGTG---A----TAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
*
237028513 AGTGATAAATG
59 AGTGACAAATG
237028524 TGATCAGTGT
Statistics
Matches: 159, Mismatches: 4, Indels: 7
0.94 0.02 0.04
Matches are distributed among these distances:
94 112 0.70
97 1 0.01
101 46 0.29
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (94 bp):
TCTGATCAGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACA
AATGATAAGTGGTAGCTTAGCTACTCTTA
Found at i:237028520 original size:51 final size:50
Alignment explanation
Indices: 237028361--237028517 Score: 242
Period size: 51 Copynumber: 3.1 Consensus size: 50
237028351 TTATCTGATC
* *
237028361 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAGTGACA
* *
237028412 AGTGACAAATGATAAGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
* *
237028462 AGTGATAAGTGTTAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACA
237028513 AGTGA
1 AGTGA
237028518 TAAATGTGAT
Statistics
Matches: 97, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
50 45 0.46
51 52 0.54
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (50 bp):
AGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACA
Found at i:237036243 original size:101 final size:101
Alignment explanation
Indices: 237036112--237036375 Score: 474
Period size: 101 Copynumber: 2.6 Consensus size: 101
237036102 TACTTTGATC
*
237036112 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
1 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
237036177 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
66 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
*
237036213 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATTAGTGATAAGTGACAAATGATA
1 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
237036278 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
66 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
* * * *
237036314 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAATG
1 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATG
237036376 TGATCAGTGT
Statistics
Matches: 156, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 156 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (101 bp):
AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
Found at i:237036261 original size:51 final size:51
Alignment explanation
Indices: 237036112--237036369 Score: 394
Period size: 51 Copynumber: 5.1 Consensus size: 51
237036102 TACTTTGATC
* *
237036112 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
* *
237036163 AGTGACAAATGATAAGTGGTAG-CTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
* * * *
237036213 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATTAGTGATA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
* *
237036264 AGTGACAAATGATAAGTGGTAG-CTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
* *
237036314 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
237036365 AGTGA
1 AGTGA
237036370 TAAATGTGAT
Statistics
Matches: 185, Mismatches: 20, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
50 89 0.48
51 96 0.52
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
Found at i:237040493 original size:21 final size:21
Alignment explanation
Indices: 237040467--237040508 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
237040457 GTTACTCTTG
237040467 TAATTTAGTTCATTTTGAACT
1 TAATTTAGTTCATTTTGAACT
237040488 TAATTTAGTTCATTTTGAACT
1 TAATTTAGTTCATTTTGAACT
237040509 ATGTTTGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.10, T:0.52
Consensus pattern (21 bp):
TAATTTAGTTCATTTTGAACT
Found at i:237042871 original size:30 final size:30
Alignment explanation
Indices: 237042837--237042898 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
237042827 TTGCTATTTC
237042837 AAAAGAATTTACCTAAGACTATGTGGGCTG
1 AAAAGAATTTACCTAAGACTATGTGGGCTG
237042867 AAAAGAATTTACCTAAGACTATGTGGGCTG
1 AAAAGAATTTACCTAAGACTATGTGGGCTG
237042897 AA
1 AA
237042899 GCAGTTAACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.39, C:0.13, G:0.23, T:0.26
Consensus pattern (30 bp):
AAAAGAATTTACCTAAGACTATGTGGGCTG
Found at i:237045435 original size:49 final size:47
Alignment explanation
Indices: 237045261--237045577 Score: 465
Period size: 47 Copynumber: 6.7 Consensus size: 47
237045251 CCCTTCGGGA
* * * * * *
237045261 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
* *
237045308 CCTATCACATATATACACCTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
237045355 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTAGGC
* *
237045402 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACCTTCACATTCATCACATTGGCCATTAGGC
*
237045451 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATTAGGC
*
237045500 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
*
237045547 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
237045578 GCGTAAAATC
Statistics
Matches: 248, Mismatches: 16, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
47 158 0.64
48 2 0.01
49 88 0.35
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
Found at i:237045457 original size:96 final size:94
Alignment explanation
Indices: 237045261--237045577 Score: 483
Period size: 96 Copynumber: 3.3 Consensus size: 94
237045251 CCCTTCGGGA
* * * * * *
237045261 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* *
237045326 CTTCACATTCATCACATTGGCCATTCGGC
66 CTTCACATTCATCACATCGGCCATTAGGC
*
237045355 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGCCTTATCACATATATATA
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTCGGCCTTATCAC--ATATATA
*
237045419 CACTTTCACATTCATCACATCGGCCATTAGGC
63 CACCTTCACATTCATCACATCGGCCATTAGGC
237045451 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
237045516 ACCTTCACATTCATCACATCGGCCATTAGGC
64 ACCTTCACATTCATCACATCGGCCATTAGGC
*
237045547 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
237045578 GCGTAAAATC
Statistics
Matches: 204, Mismatches: 13, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
94 58 0.28
95 1 0.00
96 110 0.54
97 2 0.01
98 33 0.16
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
CTTCACATTCATCACATCGGCCATTAGGC
Found at i:237049526 original size:43 final size:43
Alignment explanation
Indices: 237049343--237049649 Score: 508
Period size: 43 Copynumber: 7.4 Consensus size: 43
237049333 CTGCTAAGCA
*
237049343 CCGAA-ACATATCACCGGCA-AAAG-C--CTA--CTCGAAGGC
1 CCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGC
*
237049379 CCGAATACATATCACCGGCACAAAGCCTGCTAGGCTCGAA-G-
1 CCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGC
237049420 CCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGC
1 CCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGC
*
237049463 CC-AATACATATCACCGGCACAAAGCCTGCTAGGCTCGAAGGC
1 CCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGC
237049505 CCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGC
1 CCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGC
237049548 CCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGC
1 CCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGC
*
237049591 CCGAATACATATCACTGGCACAAAGCCTGCTAGGCACGAAGGC
1 CCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGC
237049634 CCGAATACATATCACC
1 CCGAATACATATCACC
237049650 AGCATGACTG
Statistics
Matches: 256, Mismatches: 5, Indels: 13
0.93 0.02 0.05
Matches are distributed among these distances:
36 5 0.02
37 14 0.05
38 4 0.02
39 1 0.00
41 42 0.16
42 43 0.17
43 147 0.57
ACGTcount: A:0.33, C:0.33, G:0.21, T:0.13
Consensus pattern (43 bp):
CCGAATACATATCACCGGCACAAAGCCTGCTAGGCACGAAGGC
Found at i:237049823 original size:42 final size:42
Alignment explanation
Indices: 237049632--237049843 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 42
237049622 AGGCACGAAG
* * * * * * *
237049632 GCCCGAATACATATCACCAGCATGACTGCTCTTCGGAACCTG
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* * * * *
237049674 GTCCGG--ATACATCACTAGCATGAATGCTCTTCGGGATTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* * *
237049714 GCCCGG--ATATATCACTAGCATGAATGCTCTTCGGGATTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* *
237049754 GCCCGGATGTA-A-CACCAGCACGAATGCTCTACGGGACTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* *
237049794 ACCCGGATATATATCGCCAGCACGAATGCTCTTCGGGACTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
237049836 GCCCGGAT
1 GCCCGGAT
237049844 CATCGTCGAG
Statistics
Matches: 144, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
40 103 0.72
41 2 0.01
42 39 0.27
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (42 bp):
GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
Found at i:237051943 original size:49 final size:47
Alignment explanation
Indices: 237051769--237052085 Score: 465
Period size: 47 Copynumber: 6.7 Consensus size: 47
237051759 CCCTTCGGGA
* * * * * *
237051769 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
* *
237051816 CCTATCACATATATACACCTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
237051863 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTAGGC
* *
237051910 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACCTTCACATTCATCACATTGGCCATTAGGC
*
237051959 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATTAGGC
*
237052008 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
*
237052055 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
237052086 GCGTAAAATC
Statistics
Matches: 248, Mismatches: 16, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
47 158 0.64
48 2 0.01
49 88 0.35
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
Found at i:237051965 original size:96 final size:94
Alignment explanation
Indices: 237051769--237052085 Score: 483
Period size: 96 Copynumber: 3.3 Consensus size: 94
237051759 CCCTTCGGGA
* * * * * *
237051769 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCACATATATACAC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* *
237051834 CTTCACATTCATCACATTGGCCATTCGGC
66 CTTCACATTCATCACATCGGCCATTAGGC
*
237051863 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGCCTTATCACATATATATA
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTCGGCCTTATCAC--ATATATA
*
237051927 CACTTTCACATTCATCACATCGGCCATTAGGC
63 CACCTTCACATTCATCACATCGGCCATTAGGC
237051959 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
237052024 ACCTTCACATTCATCACATCGGCCATTAGGC
64 ACCTTCACATTCATCACATCGGCCATTAGGC
*
237052055 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
237052086 GCGTAAAATC
Statistics
Matches: 204, Mismatches: 13, Indels: 12
0.89 0.06 0.05
Matches are distributed among these distances:
94 58 0.28
95 1 0.00
96 110 0.54
97 2 0.01
98 33 0.16
ACGTcount: A:0.29, C:0.32, G:0.08, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
CTTCACATTCATCACATCGGCCATTAGGC
Done.