Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 131 of 343
Found at i:44165550 original size:54 final size:53
Alignment explanation
Indices: 44165474--44165584 Score: 150
Period size: 54 Copynumber: 2.1 Consensus size: 53
44165464 CGCATGGCTG
* * *
44165474 CCAGAACAGATAATGTGACAGTGTCATCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCA
* ** *
44165527 CCAGAACAGAAATATGTGGCAGTGCCACCAGATTAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCA
44165581 CCAG
1 CCAG
44165585 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 11 0.22
54 39 0.78
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (53 bp):
CCAGAACAGAAAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCA
Found at i:44167055 original size:24 final size:24
Alignment explanation
Indices: 44167017--44167117 Score: 157
Period size: 24 Copynumber: 4.2 Consensus size: 24
44167007 CCAACACTGT
* *
44167017 TCTCCCTAATTAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
44167041 TCTCCCTTATCAGCTCCTACATCC
1 TCTCCCTTATCAGCTCCTAAATCC
44167065 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
* *
44167089 TCTCCCTTATTAGCTCCTAAATCT
1 TCTCCCTTATCAGCTCCTAAATCC
44167113 TCTCC
1 TCTCC
44167118 TGACAGCCTT
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 71 1.00
ACGTcount: A:0.20, C:0.41, G:0.04, T:0.36
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:44169594 original size:36 final size:37
Alignment explanation
Indices: 44169547--44169619 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
44169537 TTCCAGAGAA
*
44169547 AACGACCATTCCGAC-CGAAATCTATGGCAAATCTAT
1 AACGACCATTCCAACACGAAATCTATGGCAAATCTAT
44169583 AACGACCATTCCAACACGAAATCTATGGCAAATCTAT
1 AACGACCATTCCAACACGAAATCTATGGCAAATCTAT
44169620 CTCACAACAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
36 14 0.40
37 21 0.60
ACGTcount: A:0.38, C:0.27, G:0.12, T:0.22
Consensus pattern (37 bp):
AACGACCATTCCAACACGAAATCTATGGCAAATCTAT
Found at i:44171057 original size:49 final size:49
Alignment explanation
Indices: 44170988--44171118 Score: 160
Period size: 49 Copynumber: 2.7 Consensus size: 49
44170978 AGTTTAAAGT
* * *
44170988 CGATGCCGTGTCCCAGACAGGTCTTACACTGACTTTTATAC-ATCGAG-GC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACCTTTAT-CTACCG-GTGC
* * *
44171037 CGATAG-CATGTCCCAAACAGGTCTTACACTGGCCTTTATCTACCGGTGT
1 CGAT-GCCATGTCCCAGACAGGTCTTACACTGACCTTTATCTACCGGTGC
44171086 CGATGCCATGTCCCAGACAGGTCTTACACTGAC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGAC
44171119 ACACCACAAG
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
48 3 0.04
49 66 0.94
50 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGACCTTTATCTACCGGTGC
Found at i:44171242 original size:46 final size:45
Alignment explanation
Indices: 44171178--44171301 Score: 153
Period size: 46 Copynumber: 2.7 Consensus size: 45
44171168 CATCGCAAGA
44171178 TCGATGCATGTTCCAGACATGTCTTACACTAGATCTCAT-CTTAATGC
1 TCGATGCATG-TCCAGACATGTCTTACACTAGATCTCATAC-T-ATGC
* * *
44171225 -CGATGCATGTCCTAGACATGTCTTACACTGGCTCTCATACTGTGC
1 TCGATGCATGTCC-AGACATGTCTTACACTAGATCTCATACTATGC
*
44171270 TTGATGCATGTCCCAGACATGTCTTACACTAG
1 TCGATGCATGT-CCAGACATGTCTTACACTAG
44171302 CACACATATC
Statistics
Matches: 68, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
45 6 0.09
46 59 0.87
47 3 0.04
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (45 bp):
TCGATGCATGTCCAGACATGTCTTACACTAGATCTCATACTATGC
Found at i:44182415 original size:19 final size:20
Alignment explanation
Indices: 44182391--44182431 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
44182381 AATCTCATTT
44182391 TCTTTTCTTTGTTT-TTCTC
1 TCTTTTCTTTGTTTCTTCTC
44182410 TCTTTTCTTTGTTTCTTCTC
1 TCTTTTCTTTGTTTCTTCTC
44182430 TC
1 TC
44182432 GATTTCATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.00, C:0.24, G:0.05, T:0.71
Consensus pattern (20 bp):
TCTTTTCTTTGTTTCTTCTC
Found at i:44184979 original size:47 final size:47
Alignment explanation
Indices: 44184883--44185414 Score: 910
Period size: 47 Copynumber: 11.4 Consensus size: 47
44184873 CAGCCAAGAC
*
44184883 AGTGTATATATGTGATAAGGCCTAAT-ACCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
44184929 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
44184976 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
44185023 AGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
44185069 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
44185116 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
44185163 AGTG--TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
44185208 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
44185255 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
44185302 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
44185349 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
44185396 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
44185415 TCCCGAAGGG
Statistics
Matches: 465, Mismatches: 17, Indels: 7
0.95 0.03 0.01
Matches are distributed among these distances:
45 44 0.09
46 72 0.15
47 349 0.75
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:44185260 original size:186 final size:186
Alignment explanation
Indices: 44184883--44185414 Score: 915
Period size: 186 Copynumber: 2.9 Consensus size: 186
44184873 CAGCCAAGAC
*
44184883 AGTGTATATATGTGATAAGGCCTAAT-ACCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
44184947 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATGTGATAAGGCCTAATAGCCGATGTG
44185012 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATGTGATGAATGTGAA
130 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATGTGATGAATGTGAA
44185069 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
44185134 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATGTGATAAGGCCTAATAGCCGATGTGA
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATGTGATAAGGCCTAATAGCCGATGTGA
44185198 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
131 TGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAA
*
44185255 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * * * * * *
44185320 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTG
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATGTGATAAGGCCTAATAGCCGATGTG
* * *
44185385 ATGGATGTGAAAGTGCATAAATGTGATAAG
130 ATGAATGTGAAAGTGTATATATGTGATAAG
44185415 TCCCGAAGGG
Statistics
Matches: 330, Mismatches: 12, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
185 67 0.20
186 143 0.43
187 70 0.21
188 50 0.15
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (186 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATGTGATAAGGCCTAATAGCCGATGTGA
TGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATGTGATGAATGTGAA
Found at i:44185589 original size:37 final size:37
Alignment explanation
Indices: 44185533--44185611 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
44185523 CCGAGCTCTA
* *
44185533 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
44185570 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
44185607 AAGAC
1 AAGAC
44185612 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:44187484 original size:40 final size:40
Alignment explanation
Indices: 44187429--44187734 Score: 434
Period size: 40 Copynumber: 7.5 Consensus size: 40
44187419 GAGAATTGAG
*
44187429 AGTGATATATCCGGGCTAAGCCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
44187469 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
44187509 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGA-G-G-A----GCATTCGTGCT
* **
44187556 AGTGATGTATCCCAGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
44187596 AGTGATATATCCAGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
44187636 AGTGATATATCCGGGCTAAGTCCCGAGTAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
44187676 AGTGA-AGTATCCAGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATA-TATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* *
44187716 AGTAATATATCCGTGCTAA
1 AGTGATATATCCGGGCTAA
44187735 ACCTCGAAGA
Statistics
Matches: 241, Mismatches: 16, Indels: 18
0.88 0.06 0.07
Matches are distributed among these distances:
39 1 0.00
40 199 0.83
41 2 0.01
42 1 0.00
43 1 0.00
44 1 0.00
45 1 0.00
46 1 0.00
47 34 0.14
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:44187604 original size:87 final size:86
Alignment explanation
Indices: 44187458--44187711 Score: 378
Period size: 87 Copynumber: 3.0 Consensus size: 86
44187448 GCCCCGAGGA
*
44187458 GCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCGG
1 GCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCAG
44187523 GCTAAGTCCCGAGGAGCATTCG
66 GCTAAGTCCCGA-GAGCATTCG
* **
44187545 GCATTCGTGCTAGTGATGTATCCCAGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCAG
1 GCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCAG
44187610 GCTAAGTCCCGAG-G-A----
66 GCTAAGTCCCGAGAGCATTCG
*
44187625 GCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGTAGCATTCGTGCTAGTGA-AGTATCCA
1 GCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATA-TATCCA
*
44187689 GGCTAAGTTCCGAAGAGCATTCG
65 GGCTAAGTCCCG-AGAGCATTCG
44187712 TGCTAGTAAT
Statistics
Matches: 150, Mismatches: 9, Indels: 16
0.86 0.05 0.09
Matches are distributed among these distances:
79 1 0.01
80 69 0.46
81 2 0.01
82 1 0.01
83 1 0.01
84 1 0.01
85 1 0.01
86 1 0.01
87 73 0.49
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (86 bp):
GCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCAG
GCTAAGTCCCGAGAGCATTCG
Found at i:44187655 original size:127 final size:120
Alignment explanation
Indices: 44187429--44187727 Score: 429
Period size: 127 Copynumber: 2.4 Consensus size: 120
44187419 GAGAATTGAG
* ** * *
44187429 AGTGATATATCCGGGCTAAGCCCCGAGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCG
1 AGTGATGTATCCCAGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCAGGCTAAGTCCCG
*
44187494 AGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGGCATTCGTGCT
66 AGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCC---GAG---T-AGCATTCGTGCT
44187556 AGTGATGTATCCCAGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCAGGCTAAGTCCCG
1 AGTGATGTATCCCAGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCAGGCTAAGTCCCG
44187621 AGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGTAGCATTCGTGCT
66 AGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGTAGCATTCGTGCT
* * * *
44187676 AGTGAAGTAT-CCAGGCTAAGTTCCGAAGAGCATTCGTGCTAGTAATATATCC
1 AGTGATGTATCCCA-GCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCC
44187728 GTGCTAAACC
Statistics
Matches: 161, Mismatches: 10, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
119 3 0.02
120 55 0.34
121 1 0.01
124 3 0.02
127 99 0.61
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (120 bp):
AGTGATGTATCCCAGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATATATCCAGGCTAAGTCCCG
AGGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGTAGCATTCGTGCT
Found at i:44191344 original size:47 final size:47
Alignment explanation
Indices: 44191286--44191774 Score: 834
Period size: 47 Copynumber: 10.4 Consensus size: 47
44191276 CAGCCAAGAC
**
44191286 AGTGTATATATGTGATAAGGCCTAATAACCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
44191333 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
44191380 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
44191427 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
44191474 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
44191521 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
44191568 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
44191615 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
44191662 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
44191709 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
44191756 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
44191775 TCCCGAAGGG
Statistics
Matches: 421, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 421 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:44191948 original size:37 final size:37
Alignment explanation
Indices: 44191892--44191970 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
44191882 CCGAGCTCTA
* *
44191892 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
44191929 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
44191966 AAGAC
1 AAGAC
44191971 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:44194270 original size:19 final size:19
Alignment explanation
Indices: 44194248--44194292 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
44194238 ATCACACACT
44194248 TTTTTTTTAATTTCGTATA
1 TTTTTTTTAATTTCGTATA
44194267 TTTTTTTTAATTTCGTATA
1 TTTTTTTTAATTTCGTATA
44194286 TTTTTTT
1 TTTTTTT
44194293 CTTTTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.73
Consensus pattern (19 bp):
TTTTTTTTAATTTCGTATA
Found at i:44195746 original size:10 final size:10
Alignment explanation
Indices: 44195731--44195791 Score: 52
Period size: 10 Copynumber: 6.0 Consensus size: 10
44195721 ATGAAGTAGG
44195731 AATGAGCTGA
1 AATGAGCTGA
44195741 AATGAGCT-A
1 AATGAGCTGA
*
44195750 AATTCGAGCTCA
1 AA-T-GAGCTGA
*
44195762 AACGAGCTGA
1 AATGAGCTGA
* *
44195772 ATTGAGCTCA
1 AATGAGCTGA
*
44195782 AGTGAGCTGA
1 AATGAGCTGA
44195792 TGGGAGCTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
9 3 0.07
10 30 0.73
11 5 0.12
12 3 0.07
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.21
Consensus pattern (10 bp):
AATGAGCTGA
Found at i:44195788 original size:20 final size:20
Alignment explanation
Indices: 44195733--44195791 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
44195723 GAAGTAGGAA
* *
44195733 TGAGCTGAAATGAGCTAAAT
1 TGAGCTCAAATGAGCTGAAT
*
44195753 TCGAGCTCAAACGAGCTGAAT
1 T-GAGCTCAAATGAGCTGAAT
*
44195774 TGAGCTCAAGTGAGCTGA
1 TGAGCTCAAATGAGCTGA
44195792 TGGGAGCTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (20 bp):
TGAGCTCAAATGAGCTGAAT
Found at i:44201564 original size:46 final size:48
Alignment explanation
Indices: 44201464--44201586 Score: 160
Period size: 46 Copynumber: 2.6 Consensus size: 48
44201454 AAGCTGACGC
* * * * *
44201464 CATGTCCCATACAGGTCTTACACTAGCTTGTATGTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTCTACGTCTCAAGGCCGATG
*
44201512 CATGTCCCAGACATGTCTTACACTAGC-TCT-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTCTACGTCTCAAGGCCGATG
* *
44201558 CATGTCCTAGACATGTCTTACACTGGCTT
1 CATGTCCCAGACATGTCTTACACTAGCTT
44201587 TTATAATGTC
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
46 38 0.58
47 3 0.05
48 25 0.38
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.30
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTAGCTTCTACGTCTCAAGGCCGATG
Found at i:44202291 original size:20 final size:18
Alignment explanation
Indices: 44202254--44202304 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
44202244 CTATAGCAAC
44202254 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
44202271 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
44202291 TTACAACTTTACAA
1 TCACAA-TTTACAA
44202305 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:44206584 original size:15 final size:17
Alignment explanation
Indices: 44206564--44206602 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
44206554 AGAGATGAAC
44206564 AAAAGAAAT-G-AAAGA
1 AAAAGAAATCGAAAAGA
44206579 AAAAGAAATCGAAAAAGA
1 AAAAGAAATCG-AAAAGA
44206597 AAAAGA
1 AAAAGA
44206603 GAGTGAGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 1 0.05
18 11 0.52
ACGTcount: A:0.74, C:0.03, G:0.18, T:0.05
Consensus pattern (17 bp):
AAAAGAAATCGAAAAGA
Found at i:44211737 original size:46 final size:46
Alignment explanation
Indices: 44211687--44211858 Score: 170
Period size: 46 Copynumber: 3.7 Consensus size: 46
44211677 TGAGCATCCA
*
44211687 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
1 AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
* * * * *
44211733 AACTCGTTGAGTTGAGTCCGAGTT-AGTGA--GATGTAACTAGGCATCCG
1 AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG--TCCG
* * * *
44211780 AACTCATTGAGTTGAGTTCGAGTTCACTCATGGATGCGAATGCCCG
1 AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
* * *
44211826 AGCTCATTGAGTTGAGTCTGAGTTCGCTTATGG
1 AACTCATTGAGTTGAGTCCGAGTTCACTTATGG
44211859 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 17, Indels: 14
0.77 0.13 0.11
Matches are distributed among these distances:
43 6 0.06
45 5 0.05
46 55 0.54
47 26 0.25
48 5 0.05
50 5 0.05
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (46 bp):
AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCG
Found at i:44211839 original size:93 final size:93
Alignment explanation
Indices: 44211680--44211849 Score: 259
Period size: 93 Copynumber: 1.8 Consensus size: 93
44211670 GGATGGTTGA
* * * *
44211680 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGCCCGAACTCATTGAGT
44211745 TGAGTCCGAGTTAGTGAGATGTAACTAG
66 TGAGTCCGAGTTAGTGAGATGTAACTAG
* * * *
44211773 GCATCCGAACTCATTGAGTTGAGTTCGAGTTCACTCATGGATGCGAATGCCCGAGCTCATTGAGT
1 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGCCCGAACTCATTGAGT
*
44211838 TGAGTCTGAGTT
66 TGAGTCCGAGTT
44211850 CGCTTATGGG
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACTCATGGATGCAAATGCCCGAACTCATTGAGT
TGAGTCCGAGTTAGTGAGATGTAACTAG
Found at i:44219273 original size:27 final size:27
Alignment explanation
Indices: 44219242--44219399 Score: 133
Period size: 27 Copynumber: 5.9 Consensus size: 27
44219232 TGTAGGGTAG
* * *
44219242 AATTACCAAAATACCTTTGGTTTATAA
1 AATTACCAAAATACCCTTGATTTGTAA
*
44219269 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
*
44219296 AATTACCAAAATA-CCTCTGATTTGTGA
1 AATTACCAAAATACCCT-TGATTTGTAA
** * ** *
44219323 AATTACTGAAATACCCTCGACCTATAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * *
44219350 AATTACTAAAATACCCTCGACTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
*
44219377 AATTACCAAAGTA-CCTTCGATTT
1 AATTACCAAAATACCCTT-GATTT
44219400 ACAGAATTAT
Statistics
Matches: 106, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
26 5 0.05
27 97 0.92
28 4 0.04
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGTAA
Found at i:44219418 original size:27 final size:26
Alignment explanation
Indices: 44219388--44219743 Score: 388
Period size: 27 Copynumber: 13.2 Consensus size: 26
44219378 ATTACCAAAG
* * *
44219388 TACCTTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTA-CATTT
*
44219415 TACCCTCGATTTATAAAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-ATTT
*
44219442 TACCCTCGATTTACAAAATTATCTTTT
1 TACCCTCGATTTACAAAATTA-CATTT
*
44219469 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTAC-ATTT
* *
44219496 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTA-CATTT
44219523 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-ATTT
44219550 TACCCTCGATTTACAAAATTATCATTT
1 TACCCTCGATTTACAAAATTA-CATTT
* * *
44219577 TACCCTCAATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-ATTT
*
44219604 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTA-CATTT
*
44219631 TACCCTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-ATTT
* * *
44219658 TATCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTA-CATTT
* * * * *
44219685 TACCCTCGATTTATAGAATAATCGTTC
1 TACCCTCGATTTACAAAATTA-CATTT
* *
44219712 TACCCTAGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTA-CATTT
44219739 TACCC
1 TACCC
44219744 CTAGGTGTGA
Statistics
Matches: 283, Mismatches: 36, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
26 5 0.02
27 273 0.96
28 5 0.02
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (26 bp):
TACCCTCGATTTACAAAATTACATTT
Found at i:44219419 original size:54 final size:54
Alignment explanation
Indices: 44219388--44219743 Score: 462
Period size: 54 Copynumber: 6.6 Consensus size: 54
44219378 ATTACCAAAG
* * * * *
44219388 TACCTTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
* * *
44219442 TACCCTCGATTTACAAAATTATCTTTTTACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
* *
44219496 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
* * * *
44219550 TACCCTCGATTTACAAAATTATCATTTTACCCTCAATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
* *
44219604 TACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
* * * * * * * *
44219658 TATCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAA-TAATCGTTC
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACT-ATTT
* *
44219712 TACCCTAGATTTATAAAATTACCATTTTACCC
1 TACCCTCGATTTACAAAATTACCATTTTACCC
44219744 CTAGGTGTGA
Statistics
Matches: 267, Mismatches: 34, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
53 3 0.01
54 264 0.99
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
Found at i:44219419 original size:81 final size:81
Alignment explanation
Indices: 44219334--44219743 Score: 437
Period size: 81 Copynumber: 5.1 Consensus size: 81
44219324 ATTACTGAAA
** *** * ** *** *
44219334 TACCCTCGACCTATAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCTTCGATT
1 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
*
44219399 TACAGAATTATCGTTT
66 TACAAAATTATCGTTT
* *
44219415 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAAAATTATCTTTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
44219480 TACAAAATTA-CTGTTT
66 TACAAAATTATC-GTTT
* * *
44219496 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
*
44219561 TACAAAATTATCATTT
66 TACAAAATTATCGTTT
* * * *
44219577 TACCCTCAATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATT
1 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
*
44219642 TACAAAATTA-CTATTT
66 TACAAAATTATC-GTTT
* * * ** * * * * * * *
44219658 TATCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATAATCGTTCTACCCTAGATT
1 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
* * *
44219723 TATAAAATTACCATTT
66 TACAAAATTATCGTTT
44219739 TACCC
1 TACCC
44219744 CTAGGTGTGA
Statistics
Matches: 283, Mismatches: 42, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
80 2 0.01
81 279 0.99
82 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
TACAAAATTATCGTTT
Found at i:44220022 original size:27 final size:26
Alignment explanation
Indices: 44219978--44220029 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
44219968 CTCGCTGCAA
*
44219978 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
44220005 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
44220030 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:44220281 original size:31 final size:31
Alignment explanation
Indices: 44220246--44220316 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
44220236 TTGCATTCAT
*
44220246 ATTCTGATTTTGATTCTATTACCTGATACTG
1 ATTCTGATTTTGATTCTATCACCTGATACTG
*
44220277 ATTCTGATTTTGATTCTATCACCTGATTCTG
1 ATTCTGATTTTGATTCTATCACCTGATACTG
44220308 ATTCTGATT
1 ATTCTGATT
44220317 CTAGTTCTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTATCACCTGATACTG
Found at i:44220285 original size:6 final size:6
Alignment explanation
Indices: 44220246--44220327 Score: 62
Period size: 6 Copynumber: 13.3 Consensus size: 6
44220236 TTGCATTCAT
* * *
44220246 ATTCTG ATTTTG ATTCT- ATTACCTG ATACTG ATTCTG ATTTTG ATTCT-
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
44220294 ATCACCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
44220328 AATGTTTCTT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
5 6 0.10
6 45 0.75
7 5 0.08
8 4 0.07
ACGTcount: A:0.21, C:0.17, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:44222230 original size:27 final size:27
Alignment explanation
Indices: 44222199--44222356 Score: 133
Period size: 27 Copynumber: 5.9 Consensus size: 27
44222189 TGTAGGGTAG
* * *
44222199 AATTACCAAAATACCTTTGGTTTATAA
1 AATTACCAAAATACCCTTGATTTGTAA
*
44222226 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
*
44222253 AATTACCAAAATA-CCTCTGATTTGTGA
1 AATTACCAAAATACCCT-TGATTTGTAA
** * ** *
44222280 AATTACTGAAATACCCTCGACCTATAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * *
44222307 AATTACTAAAATACCCTCGACTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
*
44222334 AATTACCAAAGTA-CCTTCGATTT
1 AATTACCAAAATACCCTT-GATTT
44222357 ACAGAATTAT
Statistics
Matches: 106, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
26 5 0.05
27 97 0.92
28 4 0.04
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGTAA
Found at i:44222375 original size:27 final size:26
Alignment explanation
Indices: 44222345--44222700 Score: 388
Period size: 27 Copynumber: 13.2 Consensus size: 26
44222335 ATTACCAAAG
* * *
44222345 TACCTTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAAAATTA-CATTT
*
44222372 TACCCTCGATTTATAAAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-ATTT
*
44222399 TACCCTCGATTTACAAAATTATCTTTT
1 TACCCTCGATTTACAAAATTA-CATTT
*
44222426 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTAC-ATTT
* *
44222453 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTA-CATTT
44222480 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-ATTT
44222507 TACCCTCGATTTACAAAATTATCATTT
1 TACCCTCGATTTACAAAATTA-CATTT
* * *
44222534 TACCCTCAATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-ATTT
*
44222561 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTA-CATTT
*
44222588 TACCCTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTAC-ATTT
* * *
44222615 TATCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTA-CATTT
* * * * *
44222642 TACCCTCGATTTATAGAATAATCGTTC
1 TACCCTCGATTTACAAAATTA-CATTT
* *
44222669 TACCCTAGATTTATAAAATTACCATTT
1 TACCCTCGATTTACAAAATTA-CATTT
44222696 TACCC
1 TACCC
44222701 CTAGGTGTGA
Statistics
Matches: 283, Mismatches: 36, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
26 5 0.02
27 273 0.96
28 5 0.02
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (26 bp):
TACCCTCGATTTACAAAATTACATTT
Found at i:44222376 original size:54 final size:54
Alignment explanation
Indices: 44222345--44222700 Score: 462
Period size: 54 Copynumber: 6.6 Consensus size: 54
44222335 ATTACCAAAG
* * * * *
44222345 TACCTTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
* * *
44222399 TACCCTCGATTTACAAAATTATCTTTTTACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
* *
44222453 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
* * * *
44222507 TACCCTCGATTTACAAAATTATCATTTTACCCTCAATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
* *
44222561 TACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
* * * * * * * *
44222615 TATCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAA-TAATCGTTC
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACT-ATTT
* *
44222669 TACCCTAGATTTATAAAATTACCATTTTACCC
1 TACCCTCGATTTACAAAATTACCATTTTACCC
44222701 CTAGGTGTGA
Statistics
Matches: 267, Mismatches: 34, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
53 3 0.01
54 264 0.99
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTATTT
Found at i:44222376 original size:81 final size:81
Alignment explanation
Indices: 44222291--44222700 Score: 437
Period size: 81 Copynumber: 5.1 Consensus size: 81
44222281 ATTACTGAAA
** *** * ** *** *
44222291 TACCCTCGACCTATAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAGTACCTTCGATT
1 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
*
44222356 TACAGAATTATCGTTT
66 TACAAAATTATCGTTT
* *
44222372 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAAAATTATCTTTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
44222437 TACAAAATTA-CTGTTT
66 TACAAAATTATC-GTTT
* * *
44222453 TACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTACAAAATTACTATTTTACCCTCGATT
1 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
*
44222518 TACAAAATTATCATTT
66 TACAAAATTATCGTTT
* * * *
44222534 TACCCTCAATTTATAGAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATT
1 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
*
44222599 TACAAAATTA-CTATTT
66 TACAAAATTATC-GTTT
* * * ** * * * * * * *
44222615 TATCCTTGATTTACAAAATTACCGTTTTACCCTCGATTTATAGAATAATCGTTCTACCCTAGATT
1 TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
* * *
44222680 TATAAAATTACCATTT
66 TACAAAATTATCGTTT
44222696 TACCC
1 TACCC
44222701 CTAGGTGTGA
Statistics
Matches: 283, Mismatches: 42, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
80 2 0.01
81 279 0.99
82 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.06, T:0.39
Consensus pattern (81 bp):
TACCCTCGATTTATAAAATTACTATTTTACCCTCGATTTACAAAATTACCATTTTACCCTCGATT
TACAAAATTATCGTTT
Found at i:44222979 original size:27 final size:26
Alignment explanation
Indices: 44222935--44222986 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
44222925 CTCGCTGCAA
*
44222935 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
44222962 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
44222987 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:44223234 original size:6 final size:6
Alignment explanation
Indices: 44223203--44223285 Score: 89
Period size: 6 Copynumber: 13.5 Consensus size: 6
44223193 TTGCATTCAC
* *
44223203 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
44223252 -TCACCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT
44223286 GTAGTTCTGA
Statistics
Matches: 65, Mismatches: 6, Indels: 12
0.78 0.07 0.14
Matches are distributed among these distances:
5 3 0.05
6 54 0.83
7 6 0.09
8 2 0.03
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:44223238 original size:31 final size:31
Alignment explanation
Indices: 44223203--44223282 Score: 133
Period size: 31 Copynumber: 2.6 Consensus size: 31
44223193 TTGCATTCAC
* *
44223203 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
*
44223234 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
44223265 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
44223283 ATTGTAGTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:44223296 original size:18 final size:18
Alignment explanation
Indices: 44223203--44223285 Score: 89
Period size: 19 Copynumber: 4.5 Consensus size: 18
44223193 TTGCATTCAC
*
44223203 ATTCTGATTTTGATTCTG
1 ATTCTGATTCTGATTCTG
*
44223221 -TTACCTGATACTGATTCTG
1 ATT--CTGATTCTGATTCTG
*
44223240 ATTCTGATTCTG-TCACCTG
1 ATTCTGATTCTGAT--TCTG
44223259 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
44223277 ATTCTGATT
1 ATTCTGATT
44223286 GTAGTTCTGA
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
17 3 0.06
18 20 0.37
19 28 0.52
20 3 0.06
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (18 bp):
ATTCTGATTCTGATTCTG
Found at i:44226978 original size:21 final size:22
Alignment explanation
Indices: 44226931--44226982 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
44226921 GCAAGTCCAG
44226931 TTCAGCTC-ACCAAGCTCACCA
1 TTCAGCTCAACCAAGCTCACCA
** *
44226952 CCCAGCTCAACTAAGCTCA-CA
1 TTCAGCTCAACCAAGCTCACCA
44226973 TTCAGCTCAA
1 TTCAGCTCAA
44226983 AACCAGCTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.31, C:0.40, G:0.10, T:0.19
Consensus pattern (22 bp):
TTCAGCTCAACCAAGCTCACCA
Found at i:44228329 original size:14 final size:14
Alignment explanation
Indices: 44228288--44228335 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
44228278 ACCTAAACTG
*
44228288 ACCAATTCATTCAT
1 ACCATTTCATTCAT
**
44228302 ACCCCTTCGA-TCAT
1 ACCATTTC-ATTCAT
44228316 ACCATTTCATTCAT
1 ACCATTTCATTCAT
44228330 ACCATT
1 ACCATT
44228336 CTTACCATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 1 0.04
14 26 0.93
15 1 0.04
ACGTcount: A:0.29, C:0.33, G:0.02, T:0.35
Consensus pattern (14 bp):
ACCATTTCATTCAT
Found at i:44230103 original size:49 final size:49
Alignment explanation
Indices: 44230041--44230228 Score: 225
Period size: 49 Copynumber: 3.8 Consensus size: 49
44230031 CAAGGCTATT
* * * *
44230041 TGGTACGCATAGTAGCCTGCACTTAATACTACACATGCGACTAATTATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACTAATTATC
* **
44230090 TGGTACACGTAGTAGCCTGCACTTGGTACTACACA-GTGACCTAACCATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGA-CTAATTATC
** * * *
44230139 TAATACACGTAGTAGCCTGCATTTAGTACTACACATGTAACCAATTATC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACTAATTATC
* * *
44230188 CGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGAC
1 TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGAC
44230229 ATCACAATAG
Statistics
Matches: 115, Mismatches: 22, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
48 3 0.03
49 109 0.95
50 3 0.03
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (49 bp):
TGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACTAATTATC
Found at i:44230219 original size:98 final size:99
Alignment explanation
Indices: 44230050--44230228 Score: 279
Period size: 98 Copynumber: 1.8 Consensus size: 99
44230040 TTGGTACGCA
* * * *
44230050 TAGTAGCCTGCACTTAATACTACACATGCGACTAATTATCTGGTACACGTAGTAGCCTGCACTTG
1 TAGTAGCCTGCACTTAATACTACACATGCAACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
44230115 GTACTACACA-GTGACCTAACCATCTAATACACG
66 GTACTACACACGTGACCTAACCATCTAATACACG
* * * *
44230148 TAGTAGCCTGCATTTAGTACTACACATGTAACCAATTATCCGGTACATGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAATACTACACATGCAACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
44230213 GTACTACACACGTGAC
66 GTACTACACACGTGAC
44230229 ATCACAATAG
Statistics
Matches: 72, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
98 67 0.93
99 5 0.07
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAATACTACACATGCAACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
GTACTACACACGTGACCTAACCATCTAATACACG
Found at i:44233395 original size:30 final size:30
Alignment explanation
Indices: 44233361--44233426 Score: 132
Period size: 30 Copynumber: 2.2 Consensus size: 30
44233351 TGACTCAGTT
44233361 GTGTGTGACACACGGTCAAGTTACACGGTC
1 GTGTGTGACACACGGTCAAGTTACACGGTC
44233391 GTGTGTGACACACGGTCAAGTTACACGGTC
1 GTGTGTGACACACGGTCAAGTTACACGGTC
44233421 GTGTGT
1 GTGTGT
44233427 ACCCTGGTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.26
Consensus pattern (30 bp):
GTGTGTGACACACGGTCAAGTTACACGGTC
Found at i:44237262 original size:45 final size:45
Alignment explanation
Indices: 44237205--44237384 Score: 297
Period size: 45 Copynumber: 4.0 Consensus size: 45
44237195 CGATATCATT
* *
44237205 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* * *
44237250 TCACCGGTATTATAGCCTGCTAGGCTCAAAGGCCAGAATAGTATC
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
44237295 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCTGAACAGTATC
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
44237340 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
44237385 GTATAATATT
Statistics
Matches: 126, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 126 1.00
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.22
Consensus pattern (45 bp):
TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:44248301 original size:41 final size:39
Alignment explanation
Indices: 44248256--44248357 Score: 116
Period size: 40 Copynumber: 2.5 Consensus size: 39
44248246 CAATATCTCA
*
44248256 CACACTAAGTGCCAAGGCATAGCCGAAGCTAT-TCTGATTCG
1 CACACTAAGTGCCAA--CATAGCCGAAGCTATCTC-GATACG
** *
44248297 CACACTAAGTGCTTTATATAGCCGAAGCTATCTCGATACG
1 CACACTAAGTGC-CAACATAGCCGAAGCTATCTCGATACG
44248337 CACACTAAGTGCCAAACATAG
1 CACACTAAGTGCC-AACATAG
44248358 TCGATTTATC
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
40 36 0.71
41 14 0.27
42 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (39 bp):
CACACTAAGTGCCAACATAGCCGAAGCTATCTCGATACG
Found at i:44250237 original size:27 final size:27
Alignment explanation
Indices: 44250111--44250231 Score: 170
Period size: 27 Copynumber: 4.5 Consensus size: 27
44250101 TGGATAAGTT
44250111 GTAGAATTACTGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* *
44250138 GTAGAATTATTGAAATACCCCTATAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* *
44250165 GTAAAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* * *
44250192 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
44250219 GTAGAAATACTGA
1 GTAGAATTACTGA
44250232 TTTACCGAAA
Statistics
Matches: 82, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 82 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (27 bp):
GTAGAATTACTGAAATACCCCTGTAGG
Found at i:44250636 original size:33 final size:32
Alignment explanation
Indices: 44250587--44250650 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
44250577 TTCGCTGTAA
* *
44250587 TCTGGTGGCTTTGCCACATATATATATATCTGT
1 TCTGGTGGCCTAGCCACA-ATATATATATCTGT
* *
44250620 TCTGGTGGCCTAGCCACAATATCTGTATCTG
1 TCTGGTGGCCTAGCCACAATATATATATCTG
44250651 GTGACTTCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (32 bp):
TCTGGTGGCCTAGCCACAATATATATATCTGT
Found at i:44250664 original size:27 final size:26
Alignment explanation
Indices: 44250612--44250671 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
44250602 ACATATATAT
*
44250612 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
44250638 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
44250665 ATATCTG
1 ATATCTG
44250672 GCAGCTTCAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:44258031 original size:40 final size:40
Alignment explanation
Indices: 44257976--44258053 Score: 156
Period size: 40 Copynumber: 1.9 Consensus size: 40
44257966 GTTAAGTGGG
44257976 ATTACCAAACATATCAAAACACTTCACATTCATTTCACGC
1 ATTACCAAACATATCAAAACACTTCACATTCATTTCACGC
44258016 ATTACCAAACATATCAAAACACTTCACATTCATTTCAC
1 ATTACCAAACATATCAAAACACTTCACATTCATTTCAC
44258054 AAACATCATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.41, C:0.29, G:0.01, T:0.28
Consensus pattern (40 bp):
ATTACCAAACATATCAAAACACTTCACATTCATTTCACGC
Found at i:44259211 original size:30 final size:31
Alignment explanation
Indices: 44259131--44259213 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
44259121 TCAGTCTCGA
44259131 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
44259161 CATATCACTGGGCTGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
44259192 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
44259214 ACTGTAAGCG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 17 0.34
31 33 0.66
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:44259458 original size:24 final size:25
Alignment explanation
Indices: 44259421--44259477 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
44259411 TGGAGGCCTA
44259421 CCCTCTTTTAAT-AATTGGGGCAAAG
1 CCCT-TTTTAATAAATTGGGGCAAAG
* *
44259446 CCTTTTTTGATAAATTGGGGCAAAG
1 CCCTTTTTAATAAATTGGGGCAAAG
44259471 CCCTTTT
1 CCCTTTT
44259478 CGGTAAACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 6 0.21
25 22 0.79
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (25 bp):
CCCTTTTTAATAAATTGGGGCAAAG
Found at i:44259484 original size:25 final size:25
Alignment explanation
Indices: 44259433--44259502 Score: 77
Period size: 25 Copynumber: 2.8 Consensus size: 25
44259423 CTCTTTTAAT
* *
44259433 AATTGGGGCAAAGCCTTTTTTGATA
1 AATTGGGGCAAAGCCCTTTTCGATA
*
44259458 AATTGGGGCAAAGCCCTTTTCGGTA
1 AATTGGGGCAAAGCCCTTTTCGATA
* * * *
44259483 AACTAGGACATAGCCCTTTT
1 AATTGGGGCAAAGCCCTTTT
44259503 AGCATTTCCT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (25 bp):
AATTGGGGCAAAGCCCTTTTCGATA
Found at i:44260460 original size:27 final size:27
Alignment explanation
Indices: 44260430--44260659 Score: 167
Period size: 27 Copynumber: 8.4 Consensus size: 27
44260420 GTAAATCTAC
*
44260430 AAACTAAGGGTATTTCAGTAATTTTGT
1 AAACTAAGGGTATTTCAGTAATTTTAT
* * *
44260457 AAACCAATGGTATTTCTA-TAATTTTTAG
1 AAACTAAGGGTATTTC-AGTAA-TTTTAT
* * *
44260485 AAAGTCAAGGGTATTTCTGTAATTTTGT
1 AAACT-AAGGGTATTTCAGTAATTTTAT
* * ** *
44260513 AAATTAGGGGTATTTTGGTAATTTTAC
1 AAACTAAGGGTATTTCAGTAATTTTAT
* * * *
44260540 AAATTAAGGGTGTTTCAGTAATTTCAC
1 AAACTAAGGGTATTTCAGTAATTTTAT
** *
44260567 AAACT-AGTGGTATTTTGGTAATTTTAC
1 AAACTAAG-GGTATTTCAGTAATTTTAT
* **
44260594 AAACTAGGGGTATTTTGGTAATTTTAT
1 AAACTAAGGGTATTTCAGTAATTTTAT
* * *
44260621 AAACCAAGGGTATTTTAGTAATTTTGT
1 AAACTAAGGGTATTTCAGTAATTTTAT
* *
44260648 AAATTGAGGGTA
1 AAACTAAGGGTA
44260660 AAACGGTAAT
Statistics
Matches: 162, Mismatches: 35, Indels: 12
0.78 0.17 0.06
Matches are distributed among these distances:
26 2 0.01
27 130 0.80
28 17 0.10
29 13 0.08
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.41
Consensus pattern (27 bp):
AAACTAAGGGTATTTCAGTAATTTTAT
Found at i:44260579 original size:54 final size:54
Alignment explanation
Indices: 44260415--44260645 Score: 223
Period size: 54 Copynumber: 4.2 Consensus size: 54
44260405 TACAAGGGTG
* * * * *
44260415 TTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTATAAACTAGTGGTA
* * * * * * *
44260469 TTTCT-ATAATTTTTAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATTAGGGGTA
1 TTT-TGGTAA-TTTTACAAACT-AAGGGTATTTCAGTAATTTTATAAACTAGTGGTA
* * * *
44260525 TTTTGGTAATTTTACAAATTAAGGGTGTTTCAGTAATTTCACAAACTAGTGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTATAAACTAGTGGTA
* ** *
44260579 TTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAAG-GGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTATAAA-CTAGTGGTA
*
44260633 TTTTAGTAATTTT
1 TTTTGGTAATTTT
44260646 GTAAATTGAG
Statistics
Matches: 143, Mismatches: 29, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
54 87 0.61
55 21 0.15
56 35 0.24
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAACTAAGGGTATTTCAGTAATTTTATAAACTAGTGGTA
Found at i:44260604 original size:81 final size:81
Alignment explanation
Indices: 44260427--44260644 Score: 217
Period size: 81 Copynumber: 2.7 Consensus size: 81
44260417 TTGGTAAATC
* ** ** * * *
44260427 TACAAACTAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTA-TAATTTTTAGAAAGTC
1 TACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTC-AGTAA-TTTCACAAA--C
*
44260491 AAG-GGTATTTCTGTAATTT
62 TAGTGGTATTTCTGTAATTT
** * ** *
44260510 TGTAAATTAGGGGTATTTTGGTAATTTTACAAATTAAGGGTGTTTCAGTAATTTCACAAACTAGT
1 TACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTCACAAACTAGT
44260575 GGTATTT-TGGTAATTT
66 GGTATTTCT-GTAATTT
* *
44260591 TACAAACTAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTT
1 TACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTT
44260645 TGTAAATTGA
Statistics
Matches: 109, Mismatches: 23, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
80 4 0.04
81 60 0.55
82 8 0.07
83 37 0.34
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (81 bp):
TACAAACTAGGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTCACAAACTAGT
GGTATTTCTGTAATTT
Found at i:44260668 original size:27 final size:27
Alignment explanation
Indices: 44260638--44260786 Score: 192
Period size: 27 Copynumber: 5.5 Consensus size: 27
44260628 GGGTATTTTA
*
44260638 GTAATTTTGTAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATTGAGGGTAAAACG
**
44260665 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATTGAGGGTAAAACG
* * *
44260692 ATAATTCCT-TAAATTGAGGGTAGAATG
1 GTAATT-CTGTAAATTGAGGGTAAAACG
* * *
44260719 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATTGAGGGTAAAACG
44260746 GTAATTCTGTAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATTGAGGGTAAAACG
*
44260773 GTAATTTTGTAAAT
1 GTAATTCTGTAAAT
44260787 CGAAGGTACT
Statistics
Matches: 105, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.02
27 101 0.96
28 2 0.02
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.32
Consensus pattern (27 bp):
GTAATTCTGTAAATTGAGGGTAAAACG
Found at i:44260668 original size:54 final size:53
Alignment explanation
Indices: 44260610--44260778 Score: 171
Period size: 54 Copynumber: 3.1 Consensus size: 53
44260600 GGGGTATTTT
* * *
44260610 GGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTGTAAATTGAGGGTAAAAC
1 GGTAATTCTATAAACCAAGGGTA-TATAGTAATTCTGTAAATTGAGGGTAAAAC
* * * * *
44260664 GGTAATTCTGTAAATCAAGGGTA-AAACGATAATTCCT-TAAATTGAGGGTAGAAT
1 GGTAATTCTATAAACCAAGGGTATATA-G-TAATT-CTGTAAATTGAGGGTAAAAC
* * * *
44260718 GGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATTGAGGGTAAAAC
1 GGTAATTCTATAAACCAAGGGT-ATATAGTAATTCTGTAAATTGAGGGTAAAAC
44260772 GGTAATT
1 GGTAATT
44260779 TTGTAAATCG
Statistics
Matches: 95, Mismatches: 14, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
52 1 0.01
53 3 0.03
54 87 0.92
55 3 0.03
56 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (53 bp):
GGTAATTCTATAAACCAAGGGTATATAGTAATTCTGTAAATTGAGGGTAAAAC
Found at i:44260670 original size:81 final size:79
Alignment explanation
Indices: 44260409--44260659 Score: 207
Period size: 81 Copynumber: 3.1 Consensus size: 79
44260399 TCATCCTACA
* * * * * ** * *
44260409 AGGGTGTTTTGGTAAATCTACAAACTAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCT
1 AGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTT-T
*
44260474 A-TAATTTTTAGAAAGTCA
65 AGTAATTTTT--AAA-T-T
* ** * * ** * *
44260492 AGGGTATTTCTGTAATTTTGTAAATTAGGGGTATTTTGGTAATTTTACAAATTAAGGGTGTTTCA
1 AGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTA
** *
44260557 GTAATTTCACAAACT
66 GTAATTT-TTAAATT
*
44260572 AGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTT
1 AG-GGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTT
44260637 AGTAATTTTGTAAATT
65 AGTAATTTT-TAAATT
44260653 GAGGGTA
1 -AGGGTA
44260660 AAACGGTAAT
Statistics
Matches: 128, Mismatches: 35, Indels: 12
0.73 0.20 0.07
Matches are distributed among these distances:
80 2 0.02
81 68 0.53
82 6 0.05
83 52 0.41
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.41
Consensus pattern (79 bp):
AGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTA
GTAATTTTTAAATT
Found at i:44260697 original size:81 final size:80
Alignment explanation
Indices: 44260612--44260818 Score: 209
Period size: 81 Copynumber: 2.5 Consensus size: 80
44260602 GGTATTTTGG
* * *
44260612 TAATTTTATAAACCAAGGGTATTTTAGTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTGTAA
1 TAATTTT-TAAACCAAGGGTACTTTGGTAATTTTATAAATTGAGGGTAAAACGGTAATTCTGTAA
44260677 ATCAAGGGTAAAACGA
65 ATCAAGGGTAAAACGA
* *** *** * * *
44260693 TAATTCCTTAAATTGAGGGTAGAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAA
1 TAATT-TTTAAACCAAGGGTACTTTGGTAATTTTATAAATTGAGGGTAAAACGGTAATTCTGTAA
** *
44260758 ATTGAGGGTAAAACGG
65 ATCAAGGGTAAAACGA
* *
44260774 TAATTTTGTAAATCGAA-GGTACTTTGGTAATTTTACAAATTGAGG
1 TAATTTT-TAAA-CCAAGGGTACTTTGGTAATTTTATAAATTGAGG
44260819 ATATTTTAGT
Statistics
Matches: 98, Mismatches: 25, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
80 1 0.01
81 95 0.97
82 2 0.02
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (80 bp):
TAATTTTTAAACCAAGGGTACTTTGGTAATTTTATAAATTGAGGGTAAAACGGTAATTCTGTAAA
TCAAGGGTAAAACGA
Found at i:44260786 original size:54 final size:54
Alignment explanation
Indices: 44260638--44260794 Score: 217
Period size: 54 Copynumber: 2.9 Consensus size: 54
44260628 GGGTATTTTA
* *
44260638 GTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * * *
44260692 ATAATTCCT-TAAATTGAGGGTAGAATGGTAATTCTATAAATCGAGGGTAAAATG
1 GTAATT-CTGTAAATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* *
44260746 GTAATTCTGTAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAAGGTA
1 GTAATTCTGTAAATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
44260795 CTTTGGTAAT
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
53 2 0.02
54 85 0.97
55 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (54 bp):
GTAATTCTGTAAATTGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
Found at i:44260814 original size:54 final size:55
Alignment explanation
Indices: 44260575--44260818 Score: 169
Period size: 54 Copynumber: 4.5 Consensus size: 55
44260565 ACAAACTAGT
* * **** * *
44260575 GGTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTATAAA-CCAAG
1 GGTAATTTGGTAATTTTACAAATTGA-GGGTAAAACGGTAATTCTATAAATCGAAG
* * ** *
44260629 GGTATTTTAGTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTGTAAATC-AAG
1 GGTAATTTGGTAATTTTACAAATTGAGGGTAAAACGGTAATTCTATAAATCGAAG
*** * * *
44260683 GGTAAAACGATAATTCCTT--AAATTGAGGGTAGAATGGTAATTCTATAAATCG-AG
1 GGTAATTTGGTAATT--TTACAAATTGAGGGTAAAACGGTAATTCTATAAATCGAAG
** * ** * *
44260737 GGTAAAATGGTAATTCTGTAAATTGAGGGTAAAACGGTAATTTTGTAAATCGAA-
1 GGTAATTTGGTAATTTTACAAATTGAGGGTAAAACGGTAATTCTATAAATCGAAG
*
44260791 GGTACTTTGGTAATTTTACAAATTGAGG
1 GGTAATTTGGTAATTTTACAAATTGAGG
44260819 ATATTTTAGT
Statistics
Matches: 150, Mismatches: 32, Indels: 16
0.76 0.16 0.08
Matches are distributed among these distances:
52 1 0.01
54 144 0.96
55 3 0.02
56 2 0.01
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (55 bp):
GGTAATTTGGTAATTTTACAAATTGAGGGTAAAACGGTAATTCTATAAATCGAAG
Found at i:44265548 original size:14 final size:15
Alignment explanation
Indices: 44265529--44265558 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44265519 GTTTATTATA
44265529 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
44265543 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
44265558 T
1 T
44265559 CTTAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:44267574 original size:43 final size:43
Alignment explanation
Indices: 44267442--44267577 Score: 138
Period size: 42 Copynumber: 3.2 Consensus size: 43
44267432 GCCTTTGAGC
*
44267442 CTAGCAGGCGTAATGCTGGTGAAATGATATCGAACTTAAAGGT
1 CTAGCAGGCGTAATGCTGGTGAAATGATATCGGACTTAAAGGT
* * *** *
44267485 CTAGC-GAGCTTTAA-GCTGGTG-AAT-ATTATCGGGCTCCGA-GC
1 CTAGCAG-GC-GTAATGCTGGTGAAATGA-TATCGGACTTAAAGGT
*
44267526 CTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGT
1 CTAGCAGGCGTAATGCTGGTGAAATGATATCGGACTTAAAGGT
44267569 CTAGCAGGC
1 CTAGCAGGC
44267578 TTATTGTCAG
Statistics
Matches: 71, Mismatches: 14, Indels: 16
0.70 0.14 0.16
Matches are distributed among these distances:
40 3 0.04
41 15 0.21
42 25 0.35
43 25 0.35
44 3 0.04
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (43 bp):
CTAGCAGGCGTAATGCTGGTGAAATGATATCGGACTTAAAGGT
Found at i:44274390 original size:27 final size:26
Alignment explanation
Indices: 44274355--44274466 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
44274345 AGCATGGCTG
* *
44274355 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
44274381 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
44274409 CCAGAATAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
44274436 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
44274463 CCAG
1 CCAG
44274467 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 51 0.69
28 17 0.23
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:44275725 original size:22 final size:22
Alignment explanation
Indices: 44275698--44275740 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
44275688 ACAGAAGAAG
* *
44275698 AAAAGAATAACAAATGGAGAGA
1 AAAAGAAAAACAAAAGGAGAGA
*
44275720 AAAAGAAAAATAAAAGGAGAG
1 AAAAGAAAAACAAAAGGAGAG
44275741 GAAGAGTGAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.67, C:0.02, G:0.23, T:0.07
Consensus pattern (22 bp):
AAAAGAAAAACAAAAGGAGAGA
Found at i:44276636 original size:43 final size:43
Alignment explanation
Indices: 44276501--44276636 Score: 138
Period size: 43 Copynumber: 3.2 Consensus size: 43
44276491 GCCTTTGAGC
* * *
44276501 CTAGAAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGT
1 CTAGCAGGCGTAATGCTGGTGAAATGATATCGAACTTAAAGGT
* * ** *
44276544 CTAGCAAGCTTTAA-GCTGGTG-AAT-ATTATC-AAGCTTCGA-GC
1 CTAGCAGGC-GTAATGCTGGTGAAATGA-TATCGAA-CTTAAAGGT
44276585 CTAGCAGGCGTAATGCTGGTGAAATGATATCGAACTTAAAGGT
1 CTAGCAGGCGTAATGCTGGTGAAATGATATCGAACTTAAAGGT
44276628 CTAGCAGGC
1 CTAGCAGGC
44276637 TTATTGCTAG
Statistics
Matches: 72, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
40 3 0.04
41 18 0.25
42 22 0.31
43 26 0.36
44 3 0.04
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (43 bp):
CTAGCAGGCGTAATGCTGGTGAAATGATATCGAACTTAAAGGT
Found at i:44282312 original size:25 final size:26
Alignment explanation
Indices: 44282278--44282347 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 26
44282268 CAGTTAATAA
*
44282278 ATTCTCACACATAGTGCATA-TATT-C
1 ATTCGCACACATAGTGC-TACTATTCC
*
44282303 ATTCGCACACATAGTGCTAGCTTTTCC
1 ATTCGCACACATAGTGCTA-CTATTCC
*
44282330 ATACGCACACATAGTGCT
1 ATTCGCACACATAGTGCT
44282348 GCCCCATTCG
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
24 2 0.05
25 16 0.41
26 3 0.08
27 18 0.46
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (26 bp):
ATTCGCACACATAGTGCTACTATTCC
Found at i:44284845 original size:30 final size:29
Alignment explanation
Indices: 44284794--44284860 Score: 107
Period size: 30 Copynumber: 2.3 Consensus size: 29
44284784 CCTCAAGGAA
* *
44284794 CCAAAGCTAGTTAAATTGCACACTTAGTT
1 CCAAAGCTAGTTAAATCGCACACTTAGTG
44284823 CCAAAGCTAGTTTAAATCGCACACTTAGTG
1 CCAAAGCTAG-TTAAATCGCACACTTAGTG
44284853 CCAAAGCT
1 CCAAAGCT
44284861 TCCGATTCAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 10 0.29
30 25 0.71
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (29 bp):
CCAAAGCTAGTTAAATCGCACACTTAGTG
Found at i:44287052 original size:41 final size:43
Alignment explanation
Indices: 44286961--44287089 Score: 129
Period size: 43 Copynumber: 3.0 Consensus size: 43
44286951 GTGTAAAATA
*
44286961 ATGTCTGGGACATTGGCATCGATATGAGATTACATGTAAGACC
1 ATGTCTAGGACATTGGCATCGATATGAGATTACATGTAAGACC
**
44287004 ATGTCTAGGACATTGGCATC-ATAT-ATGATT-TGTGTAAGACC
1 ATGTCTAGGACATTGGCATCGATATGA-GATTACATGTAAGACC
* ** * * * **
44287045 CTGTCTAGGACAGAGACATTGATATGTGAAAACATGTAAGACC
1 ATGTCTAGGACATTGGCATCGATATGAGATTACATGTAAGACC
44287088 AT
1 AT
44287090 ATCTGAGATA
Statistics
Matches: 68, Mismatches: 14, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
41 25 0.37
42 14 0.21
43 29 0.43
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.29
Consensus pattern (43 bp):
ATGTCTAGGACATTGGCATCGATATGAGATTACATGTAAGACC
Found at i:44293320 original size:14 final size:15
Alignment explanation
Indices: 44293296--44293324 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
44293286 AATAAAACAT
44293296 AAAGAAAAAAGAAAA
1 AAAGAAAAAAGAAAA
44293311 AAAG-AAAAAGAAAA
1 AAAGAAAAAAGAAAA
44293325 CCATGCATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAGAAAA
Found at i:44302511 original size:46 final size:46
Alignment explanation
Indices: 44302426--44302544 Score: 148
Period size: 46 Copynumber: 2.6 Consensus size: 46
44302416 CACCCCTAAG
* * * * *
44302426 TGAACTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAA
* * *
44302472 TGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATGAG
1 TGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAA
* *
44302518 TGAAATCGGACACAACTCAACGAGTTC
1 TGAACTCGGACTCAACTCAACGAGTTC
44302545 GGATGCTCAA
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 63 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAA
Found at i:44304898 original size:28 final size:26
Alignment explanation
Indices: 44304833--44304898 Score: 62
Period size: 28 Copynumber: 2.4 Consensus size: 26
44304823 AGCAAAGTTG
*
44304833 CTAATAACAGTAAACGTGGCAAAGCCA
1 CTAAT-ACAGTAAACATGGCAAAGCCA
* *
44304860 CCAGA-ATAGTAATTACATGGCAAAGCCA
1 CTA-ATACAGTAA--ACATGGCAAAGCCA
44304888 CTAATACAGTA
1 CTAATACAGTA
44304899 CTTCCTCCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
26 6 0.20
27 3 0.10
28 21 0.70
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.18
Consensus pattern (26 bp):
CTAATACAGTAAACATGGCAAAGCCA
Found at i:44309917 original size:23 final size:23
Alignment explanation
Indices: 44309887--44309931 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
44309877 AGTTTGCAAG
*
44309887 TATAGGACAATGAAGGCTTTAAA
1 TATAGGACAATAAAGGCTTTAAA
44309910 TATAGGACAATAAAGGCTTTAA
1 TATAGGACAATAAAGGCTTTAA
44309932 CAGTTTGCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.27
Consensus pattern (23 bp):
TATAGGACAATAAAGGCTTTAAA
Found at i:44314702 original size:19 final size:19
Alignment explanation
Indices: 44314678--44314715 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
44314668 TAAACGCCGC
*
44314678 TACTGCTTGACCTTTTGCG
1 TACTGCTTGACCTATTGCG
*
44314697 TACTGCTTTACCTATTGCG
1 TACTGCTTGACCTATTGCG
44314716 GCGTTTTTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.13, C:0.26, G:0.18, T:0.42
Consensus pattern (19 bp):
TACTGCTTGACCTATTGCG
Found at i:44323322 original size:47 final size:46
Alignment explanation
Indices: 44323016--44323329 Score: 193
Period size: 46 Copynumber: 6.7 Consensus size: 46
44323006 TTAATTATGT
*
44323016 GCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGACCACATT-ATGA-GA
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATCG---AC-TTGAGGATGA
* *
44323062 GCTAGTGTAAGACCATGTTTGGGACATGGCATC-AGCATTGAGACAAGA
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGA-C-TTGAG-GATGA
* *
44323110 GCTAGTGTAAGA-CATGTTTGGGACAT-GCATCAGCCTCGA-GATGTAA
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATC-GACTTGAGGATG--A
* * * ** * *
44323156 GCTAGTGTAA-AACATGTCTGGGACAT-GCATCGGCTACAAGATGT
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGACTTGAGGATGA
* * * *
44323200 GTTAGTGTAAGACCATGTCTGGGACATGGCTTCAGCAC-TGA-TATGTAA
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATC-G-ACTTGAGGATG--A
* * * * *
44323248 GAGTCATTGTAAGACTATGTCTAGGACATGGCATCGACTTGATGGATGA
1 G-CT-AGTGTAAGACCATGTTTGGGACATGGCATCGACTTGA-GGATGA
*
44323297 GCCAGTGTAAGACCATGTTTGGGACATGGCATC
1 GCTAGTGTAAGACCATGTTTGGGACATGGCATC
44323330 AGCATTATAC
Statistics
Matches: 214, Mismatches: 31, Indels: 45
0.74 0.11 0.16
Matches are distributed among these distances:
44 12 0.06
45 24 0.11
46 61 0.29
47 58 0.27
48 23 0.11
49 7 0.03
50 26 0.12
51 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (46 bp):
GCTAGTGTAAGACCATGTTTGGGACATGGCATCGACTTGAGGATGA
Found at i:44323857 original size:31 final size:31
Alignment explanation
Indices: 44323822--44323888 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
44323812 AATATTTGAC
44323822 TCATTTTGTATAAGGCCATGAAAAATGACTA
1 TCATTTTGTATAAGGCCATGAAAAATGACTA
*
44323853 TCATTTTGTATAAGGCCATGAAAAATGGCTA
1 TCATTTTGTATAAGGCCATGAAAAATGACTA
*
44323884 ACATT
1 TCATT
44323889 GAAAGTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (31 bp):
TCATTTTGTATAAGGCCATGAAAAATGACTA
Found at i:44327612 original size:40 final size:40
Alignment explanation
Indices: 44327451--44327605 Score: 258
Period size: 40 Copynumber: 3.9 Consensus size: 40
44327441 ATTCGGATTG
*
44327451 ATAATCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
44327490 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
44327530 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
44327570 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
44327606 AGCTATATCT
Statistics
Matches: 107, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 12 0.11
40 95 0.89
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:44338777 original size:44 final size:44
Alignment explanation
Indices: 44338720--44338806 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
44338710 TATCGTAACC
*
44338720 AAAATTCACATTTGCTAAACTTCACATACAGTTGCTTATCTCAA
1 AAAATTCACATTTGCTAAACTTCACATACAATTGCTTATCTCAA
* *
44338764 AAAATTCATATTTGCTAAACTTCGCATACAATTGCTTATCTCA
1 AAAATTCACATTTGCTAAACTTCACATACAATTGCTTATCTCA
44338807 CAAAGTTTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.36
Consensus pattern (44 bp):
AAAATTCACATTTGCTAAACTTCACATACAATTGCTTATCTCAA
Found at i:44353320 original size:44 final size:42
Alignment explanation
Indices: 44353228--44353341 Score: 104
Period size: 44 Copynumber: 2.6 Consensus size: 42
44353218 CAATGAACTC
* * * *
44353228 GCACACTTAGTGCCAATTTAATTAGCCGAAGTTATAATATTATT
1 GCACACTTAGTGCC-ATTT-ATTAACCGAACTTATAATAGTATA
*
44353272 GCACACTTAGTGCCATTTCATTAAACCGAACTTAT-ATCGGTATA
1 GCACACTTAGTGCCATTT-ATT-AACCGAACTTATAAT-AGTATA
* *
44353316 GCACACATAGTGCTATTTATTCAACC
1 GCACACTTAGTGCCATTTATT-AACC
44353342 ATCACTATTA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
43 16 0.27
44 43 0.73
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.33
Consensus pattern (42 bp):
GCACACTTAGTGCCATTTATTAACCGAACTTATAATAGTATA
Found at i:44358050 original size:17 final size:16
Alignment explanation
Indices: 44358028--44358059 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
44358018 ATGTAAAGAG
44358028 ACATAACAAATAGGCAC
1 ACATAACAAAT-GGCAC
44358045 ACATAACAAATGGCA
1 ACATAACAAATGGCA
44358060 ATCAACTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.53, C:0.22, G:0.12, T:0.12
Consensus pattern (16 bp):
ACATAACAAATGGCAC
Found at i:44358720 original size:33 final size:33
Alignment explanation
Indices: 44358676--44358738 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
44358666 CCTATAGAGT
* *
44358676 TTAATTTGGATTACCAGTCTAGGCTAAATCTAG
1 TTAATTAGGATTACCAGTCCAGGCTAAATCTAG
44358709 TTAATTAGGATTACCAGTCCAGGCTAAATC
1 TTAATTAGGATTACCAGTCCAGGCTAAATC
44358739 CTAATTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (33 bp):
TTAATTAGGATTACCAGTCCAGGCTAAATCTAG
Found at i:44361047 original size:35 final size:34
Alignment explanation
Indices: 44360985--44361071 Score: 86
Period size: 35 Copynumber: 2.5 Consensus size: 34
44360975 TAACCTTTTT
44360985 TAGTGTTTTCTTTAAAAAGTGAAAACAAT-TAACGA
1 TAGTG-TTTCTTTAAAAAGTGAAAACAATCTAAC-A
* ** *
44361020 TAGTGTTTCTTTAAAAATTTGGGAACAATCTAGCA
1 TAGTGTTTCTTTAAAAA-GTGAAAACAATCTAACA
* *
44361055 TAGTATTTCTTGAAAAA
1 TAGTGTTTCTTTAAAAA
44361072 CAAAAGTCAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
34 12 0.27
35 29 0.66
36 3 0.07
ACGTcount: A:0.39, C:0.09, G:0.15, T:0.37
Consensus pattern (34 bp):
TAGTGTTTCTTTAAAAAGTGAAAACAATCTAACA
Found at i:44364187 original size:55 final size:53
Alignment explanation
Indices: 44364042--44364238 Score: 157
Period size: 55 Copynumber: 3.7 Consensus size: 53
44364032 AACTTACCAT
* * * *
44364042 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACTAT
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATCAACTCACTAA
* * * *
44364095 TGCCATGCCTTGGCATGGTCTTACATGGGATAT--TTGCCTTATCATAGTTTA-TCAA
1 TGCCATGTCTTGACATGGTCTTACAT--GATATCCTTGCCTTATCA-A-CTCACT-AA
* * * * *
44364150 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAA
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAT-CAACTCACTAA
* * * * *
44364204 TGCCATGCCTTGGCATGGTTTTACTTGGTATCCTT
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTT
44364239 AAATCCTAAT
Statistics
Matches: 114, Mismatches: 21, Indels: 17
0.75 0.14 0.11
Matches are distributed among these distances:
53 37 0.32
54 36 0.32
55 40 0.35
56 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.39
Consensus pattern (53 bp):
TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATCAACTCACTAA
Found at i:44370827 original size:29 final size:28
Alignment explanation
Indices: 44370775--44370860 Score: 118
Period size: 28 Copynumber: 3.0 Consensus size: 28
44370765 GTGAGCATGA
* *
44370775 ATATGAATGTGACTGGGCCTAATGAGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
*
44370803 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
* *
44370832 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
44370860 A
1 A
44370861 GATACAGGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
28 27 0.53
29 24 0.47
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:44372402 original size:55 final size:54
Alignment explanation
Indices: 44372293--44372501 Score: 210
Period size: 55 Copynumber: 3.9 Consensus size: 54
44372283 CATTAGTGTT
* * *
44372293 TAAGGATACCATGTAAAACCATGCCAAGGCATGCCAATTGGTAAGGTT-TCTAAGG
1 TAAGGATACCATGTAAAACCATGCCAAGACATGGC-ATTGGTAA-GTTCTATAAGG
* *
44372348 TAAGGATACCATGTAAAACCATGTCAAGACATGGCATTGATAAGTTACTATAAGG
1 TAAGGATACCATGTAAAACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGG
* * ** * *
44372403 CAAAGG-T-CCTATGTAAGACCATGCCAAGGTATGACATTGGTGAGTTC-ATAAGG
1 -TAAGGATACC-ATGTAAAACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGG
* * * *
44372456 TAAGGATACCATGTAAGACCATGTCGAGACATGGCAATGGTAAGTT
1 TAAGGATACCATGTAAAACCATGCCAAGACATGGCATTGGTAAGTT
44372502 TCAAAAGGAT
Statistics
Matches: 127, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
52 4 0.03
53 39 0.31
54 12 0.09
55 68 0.54
56 4 0.03
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.24
Consensus pattern (54 bp):
TAAGGATACCATGTAAAACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGG
Found at i:44372500 original size:108 final size:110
Alignment explanation
Indices: 44372303--44372501 Score: 296
Period size: 108 Copynumber: 1.8 Consensus size: 110
44372293 TAAGGATACC
*
44372303 ATGTAAAACCATGCCAAGGCATGCCAATTGGTAAGGTTTCTAAGGTAAGGATACCATGTAAAACC
1 ATGTAAAACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGTAAGGATACCATGTAAAACC
*
44372368 ATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCT
66 ATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCT
* * * *
44372413 ATGTAAGACCATGCCAAGGTATGAC-ATTGGTGA-G-TTCATAAGGTAAGGATACCATGTAAGAC
1 ATGTAAAACCATGCCAAGGCATGACAATTGGTAAGGTTTC-TAAGGTAAGGATACCATGTAAAAC
* *
44372475 CATGTCGAGACATGGCAATGGTAAGTT
65 CATGTCAAGACATGGCAATGATAAGTT
44372502 TCAAAAGGAT
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
107 3 0.04
108 48 0.60
109 7 0.09
110 22 0.28
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (110 bp):
ATGTAAAACCATGCCAAGGCATGACAATTGGTAAGGTTTCTAAGGTAAGGATACCATGTAAAACC
ATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTCCT
Found at i:44376080 original size:53 final size:53
Alignment explanation
Indices: 44375999--44376212 Score: 214
Period size: 54 Copynumber: 4.0 Consensus size: 53
44375989 GGTACCTTTT
* *
44375999 CTTATTAAACTTACCATTTCCATGTCTTGACATGGTCTTACATGGTATCCTTGC
1 CTTA-TAAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGC
* * * * * *
44376053 CTTATGAACTCACCATTGTCATGTCTTGGCATGGTCTTACATGGGT-TCTTTGC
1 CTTATAAACTTACCAATGCCATGTCTTGACATGGTCTTACAT-GGTATCCTTGC
** * * *
44376106 CTTATCATAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGC
1 CTTAT-A-AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGC
* * * **
44376161 CTTGTAAAACTTACCAATGCCATGCCTTGGCATGGTCTTATTTGGTATCCTT
1 CTTAT-AAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
44376213 AAATCCTAAT
Statistics
Matches: 129, Mismatches: 27, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
53 44 0.34
54 45 0.35
55 40 0.31
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (53 bp):
CTTATAAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGC
Found at i:44376149 original size:55 final size:52
Alignment explanation
Indices: 44376006--44376200 Score: 194
Period size: 53 Copynumber: 3.6 Consensus size: 52
44375996 TTTCTTATTA
* *
44376006 AACTTACCATTTCCATGTCTTGACATGGTCTTACAT-GGTATCCTTGCCTTAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGT-TCCTTGCCTTAT
* * * * *
44376058 GAACTCACCATTGTCATGTCTTGGCATGGTCTTACATGGGTTCTTTGCCTTAT
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGTTCCTTGCCTTAT
* * ** *
44376111 CATAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -A-A-CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGTTCCTTGCC-T-TAT
* *
44376168 AACTTACCAATGCCATGCCTTGGCATGGTCTTA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTA
44376201 TTTGGTATCC
Statistics
Matches: 117, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
53 44 0.38
54 31 0.26
55 38 0.32
56 2 0.02
57 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (52 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGTTCCTTGCCTTAT
Found at i:44387359 original size:39 final size:40
Alignment explanation
Indices: 44387259--44387443 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
44387249 TCGAATGATG
* * *
44387259 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
44387298 ATCCGGACGAAGAT-CTGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
44387339 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
44387378 TCCGAGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
44387417 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
44387444 AACGAGTAGC
Statistics
Matches: 120, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 34 0.28
40 76 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:44387466 original size:79 final size:79
Alignment explanation
Indices: 44387314--44387466 Score: 204
Period size: 79 Copynumber: 1.9 Consensus size: 79
44387304 ACGAAGATCT
* **
44387314 GAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAAT
1 GAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAAT
44387379 CCGAGTTAAGTCCC
66 CCGAGTTAAGTCCC
* *
44387393 GAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTA
1 GAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTA
*
44387456 TATCCG-GTTAA
63 AATCCGAGTTAA
44387467 ATTTCGAAGG
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 38 0.58
80 25 0.38
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
GAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAAT
CCGAGTTAAGTCCC
Found at i:44390107 original size:18 final size:18
Alignment explanation
Indices: 44390084--44390133 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
44390074 GAGAAACATT
44390084 TTATCAATGTAGAGGTTG
1 TTATCAATGTAGAGGTTG
44390102 TTATCAA--TA-A---TG
1 TTATCAATGTAGAGGTTG
44390114 TTATCAATGTAGAGGTTG
1 TTATCAATGTAGAGGTTG
44390132 TT
1 TT
44390134 TCGAATAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 12
0.68 0.00 0.32
Matches are distributed among these distances:
12 9 0.35
14 2 0.08
15 2 0.08
16 2 0.08
18 11 0.42
ACGTcount: A:0.30, C:0.06, G:0.22, T:0.42
Consensus pattern (18 bp):
TTATCAATGTAGAGGTTG
Found at i:44390120 original size:30 final size:30
Alignment explanation
Indices: 44390084--44390141 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
44390074 GAGAAACATT
44390084 TTATCAATGTAGAGGTTGTTATC-AATAATG
1 TTATCAATGTAGAGGTTGTT-TCGAATAATG
44390114 TTATCAATGTAGAGGTTGTTTCGAATAA
1 TTATCAATGTAGAGGTTGTTTCGAATAA
44390142 GAGTTATTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.40
Consensus pattern (30 bp):
TTATCAATGTAGAGGTTGTTTCGAATAATG
Found at i:44394510 original size:38 final size:38
Alignment explanation
Indices: 44394429--44394551 Score: 149
Period size: 38 Copynumber: 3.2 Consensus size: 38
44394419 CAAACATAAC
* * * * *
44394429 ACCAGCACGAAGCCTACAGGACTTTAAACTCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGATATATT
* *
44394469 ACCAGCACTAGGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
44394507 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT-ATT
44394546 -CCAGCA
1 ACCAGCA
44394552 TATAACCTGC
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
38 50 0.68
39 6 0.08
40 17 0.23
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
Found at i:44394561 original size:38 final size:38
Alignment explanation
Indices: 44394429--44394580 Score: 128
Period size: 38 Copynumber: 3.9 Consensus size: 38
44394419 CAAACATAAC
* * * * * *
44394429 ACCAGCACGAAGCCTACAGGACTTTAAACTCAGATATAAT
1 ACCAGCACGAAACCTGCGGGA-TTT-AACCCGGATATATT
* **
44394469 ACCAGCACTAGGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACGAAACCTGCGGGATTTAACCCGGATATATT
*
44394507 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATT
1 ACCAGCACGAAACCTGCGGGATTTAACCCGGATAT-ATT
* *
44394546 -CCAGCA-TATAACCTGCGGGTCTTTAAGCCCGGATA
1 ACCAGCACGA-AACCTGCGGG-ATTTAA-CCCGGATA
44394581 CACATCAAAT
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
37 1 0.01
38 59 0.61
39 11 0.11
40 25 0.26
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (38 bp):
ACCAGCACGAAACCTGCGGGATTTAACCCGGATATATT
Found at i:44394562 original size:76 final size:80
Alignment explanation
Indices: 44394429--44394580 Score: 188
Period size: 78 Copynumber: 1.9 Consensus size: 80
44394419 CAAACATAAC
* **
44394429 ACCAGCACGAAGCCTACAGGACTTTAAACTCAGATATAATACCAGCACTAGGCCTGCGGG-ATTT
1 ACCAGCACGAAGCCTACAGGACTTTAAACCCAGATATAATACCAGCACTAAACCTGCGGGTATTT
44394493 AA-CCCGGATATATT
66 AAGCCCGGATATATT
* * * * *
44394507 ACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGATATAATTCCAGCA-TATAACCTGCGGGTCTT
1 ACCAGCACGAAGCCTACAGGACTTTAAACCCAGATATAATACCAGCACTA-AACCTGCGGGTATT
44394569 TAAGCCCGGATA
65 TAAGCCCGGATA
44394581 CACATCAAAT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
75 2 0.03
76 26 0.41
77 8 0.13
78 27 0.43
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (80 bp):
ACCAGCACGAAGCCTACAGGACTTTAAACCCAGATATAATACCAGCACTAAACCTGCGGGTATTT
AAGCCCGGATATATT
Found at i:44400976 original size:21 final size:21
Alignment explanation
Indices: 44400952--44400991 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
44400942 TTCCACCGTT
*
44400952 GAGACTTTTGAATCCAGTTGG
1 GAGACTTTAGAATCCAGTTGG
*
44400973 GAGACTTTAGAATCTAGTT
1 GAGACTTTAGAATCCAGTT
44400992 TCTTGAGAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (21 bp):
GAGACTTTAGAATCCAGTTGG
Found at i:44405041 original size:12 final size:12
Alignment explanation
Indices: 44405019--44405048 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
44405009 ACGATATTGT
44405019 AATTC-AAAAAA
1 AATTCAAAAAAA
44405030 AATTCAAAAAAA
1 AATTCAAAAAAA
44405042 AATTCAA
1 AATTCAA
44405049 TATCCATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (12 bp):
AATTCAAAAAAA
Found at i:44408959 original size:295 final size:298
Alignment explanation
Indices: 44408522--44409197 Score: 750
Period size: 295 Copynumber: 2.3 Consensus size: 298
44408512 AATAAAAAAT
* * * * * **
44408522 AAAAAGACTAAAATAACCTTGAATAACA-AACTT-TTTTTACTGCGGAAGGGTATATCGATAATT
1 AAAAAGACTAAAATACCCTTGAATAA-ATAACTTATTTTAATTACGGAAGGGTATGTCCTTAATT
* *
44408585 TGT-CTAACCGAGTTGGTGACCCCATTGAAGGTGACACCAACTCAGTCAAGAGCTTAAATAATAG
65 T-TCCTAACCGAGTTGGTAACCCCATTGAAGGTGACACCAACTCAGTCAAGAGCTTAAATAATAC
* * *
44408649 TAAGTGTATATATACAAATGATGTA-AGTAATAAAGTGTATATAATAAAATTAAAATACATAAAA
129 TAAGTATAGATATACAAATGATG-ACAGTAATAAAGTGTACATAATAAAATTAAAATACATAAAA
* * * **
44408713 ATATCAAAATAA-AGTTTTAGTTGAGTGGTAAATTAAAAATTTTATTAATGTAATTAATTTGGGT
193 ATATCAAAATAACA-TGTTAGTTGAGTGATAAATTAAAAATTTTACTAATACAATTAATTTGGGT
* *
44408777 TCAAAT-CTCACAATATGCATT-TTT-TATTGTT-TTTT-T-AA
257 CCAAATAC-CACAATATGC-TTATTTATATTATTCTTTTATAAA
* *
44408815 AAAAAGACTAAAATACCCTTGAATAATATAACTTATTTTAATTAAGGAATGGTATGTCCTTAATT
1 AAAAAGACTAAAATACCCTTGAATAA-ATAACTTATTTTAATTACGGAAGGGTATGTCCTTAATT
* * * *
44408880 TTCCTAACCGAGTTGGTAACTCGATTGAGGGTGACATCAACTCAGT-AAGGAGCTTAAATAATAC
65 TTCCTAACCGAGTTGGTAACCCCATTGAAGGTGACACCAACTCAGTCAA-GAGCTTAAATAATAC
* * * *** *
44408944 TATAG-ATAGATATACAGATGATGACAGTGATAAAGTGTGCATAATAAAATTAAAATGTTTAAAT
129 TA-AGTATAGATATACAAATGATGACAGTAATAAAGTGTACATAATAAAATTAAAATACATAAAA
* * ** *
44409008 ATATTAAAATAACATGTTATTTGAGTGATAAATTAAAGGTTTTACTAATACAATTAGTTTGGGTC
193 ATATCAAAATAACATGTTAGTTGAGTGATAAATTAAAAATTTTACTAATACAATTAATTTGGGTC
*
44409073 CAAATACCACCATATGCTTATTTATATTATTCTTTTAAATAAA
258 CAAATACCACAATATGCTTATTTATATTATTCTTTT--ATAAA
* * * *
44409116 AAAAAAACTAAAGTACCCTTGGATGAAATAATTTATTTTAATTACGGAAGGGTATG-CCTATAAT
1 AAAAAGACTAAAATACCCTTGAAT-AAATAACTTATTTTAATTACGGAAGGGTATGTCCT-TAAT
*
44409180 TTTCCTAACCAAGTTGGT
64 TTTCCTAACCGAGTTGGT
44409198 GGCTTTGTTG
Statistics
Matches: 320, Mismatches: 46, Indels: 26
0.82 0.12 0.07
Matches are distributed among these distances:
293 26 0.08
294 11 0.03
295 193 0.60
296 10 0.03
297 4 0.01
300 4 0.01
301 70 0.22
302 2 0.01
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.34
Consensus pattern (298 bp):
AAAAAGACTAAAATACCCTTGAATAAATAACTTATTTTAATTACGGAAGGGTATGTCCTTAATTT
TCCTAACCGAGTTGGTAACCCCATTGAAGGTGACACCAACTCAGTCAAGAGCTTAAATAATACTA
AGTATAGATATACAAATGATGACAGTAATAAAGTGTACATAATAAAATTAAAATACATAAAAATA
TCAAAATAACATGTTAGTTGAGTGATAAATTAAAAATTTTACTAATACAATTAATTTGGGTCCAA
ATACCACAATATGCTTATTTATATTATTCTTTTATAAA
Found at i:44410571 original size:31 final size:31
Alignment explanation
Indices: 44410485--44410575 Score: 89
Period size: 31 Copynumber: 3.0 Consensus size: 31
44410475 TTTGATACGT
* * *
44410485 AAACTTTGA-TTTGGTACAATTATACACATA
1 AAACTTTGATTTTGGTTCAATTGTATACATA
* *
44410515 AAAC-TTGAATTGTGGTTC-ATATGTATACATG
1 AAACTTTG-ATTTTGGTTCAAT-TGTATACATA
*
44410546 AAACTTTGATTTTGATTCAATTGTATACAT
1 AAACTTTGATTTTGGTTCAATTGTATACAT
44410576 TTAAAGAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
29 3 0.06
30 7 0.14
31 34 0.69
32 5 0.10
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (31 bp):
AAACTTTGATTTTGGTTCAATTGTATACATA
Found at i:44416417 original size:27 final size:26
Alignment explanation
Indices: 44416387--44416462 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 26
44416377 GGCTGCCAAA
* *
44416387 ACAGATATTGTGACAGAGTCACCAGAT
1 ACAGATATTGTGGCAGAGCCACCAG-T
44416414 ACAGATATTGTGGCAGAGCCACCAGT
1 ACAGATATTGTGGCAGAGCCACCAGT
44416440 ACAGATATTTGTGGCAGAGCCAC
1 ACAGATA-TTGTGGCAGAGCCAC
44416463 TAGAATACTT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
26 8 0.17
27 38 0.83
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (26 bp):
ACAGATATTGTGGCAGAGCCACCAGT
Found at i:44425395 original size:47 final size:47
Alignment explanation
Indices: 44425332--44425814 Score: 781
Period size: 47 Copynumber: 10.4 Consensus size: 47
44425322 ATGATAGTAT
44425332 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
44425379 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
44425426 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
44425473 GGCCTAATGGCCGATGTGATGAATGTGAATGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
44425520 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
44425567 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
*
44425616 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
44425663 TGCCTAATGG-C----------ATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
44425699 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
44425746 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
*
44425795 GGCCTAATGGCCAATGTGAT
1 GGCCTAATGGCCGATGTGAT
44425815 AAGTCCCGAA
Statistics
Matches: 411, Mismatches: 10, Indels: 28
0.92 0.02 0.06
Matches are distributed among these distances:
36 35 0.09
37 1 0.00
46 1 0.00
47 296 0.72
49 78 0.19
ACGTcount: A:0.31, C:0.09, G:0.29, T:0.31
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Found at i:44425503 original size:22 final size:22
Alignment explanation
Indices: 44425478--44425548 Score: 56
Period size: 22 Copynumber: 3.1 Consensus size: 22
44425468 GATAAGGCCT
44425478 AATGGCCGATGTGATGAATGTG
1 AATGGCCGATGTGATGAATGTG
***
44425500 AATGTGTATATATGTGAT-AATGCCT-
1 AATG-G--CCGATGTGATGAATG--TG
44425525 AATGGCCGATGTGATGAATGTG
1 AATGGCCGATGTGATGAATGTG
44425547 AA
1 AA
44425549 AGTGTATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
21 1 0.03
22 13 0.36
23 5 0.14
24 5 0.14
25 11 0.31
26 1 0.03
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.31
Consensus pattern (22 bp):
AATGGCCGATGTGATGAATGTG
Found at i:44425685 original size:36 final size:36
Alignment explanation
Indices: 44425638--44425709 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
44425628 GATGTGATGA
44425638 ATGTGAAAGTGTATATATGTGATAATGCCTAATGGC
1 ATGTGAAAGTGTATATATGTGATAATGCCTAATGGC
44425674 ATGTGAAAGTGTATATATGTGATAATGCCTAATGGC
1 ATGTGAAAGTGTATATATGTGATAATGCCTAATGGC
44425710 CGATGTGATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.33
Consensus pattern (36 bp):
ATGTGAAAGTGTATATATGTGATAATGCCTAATGGC
Found at i:44425702 original size:83 final size:84
Alignment explanation
Indices: 44425589--44425756 Score: 311
Period size: 83 Copynumber: 2.0 Consensus size: 84
44425579 GATGTGATGA
44425589 ATGTGAAAGTGTATATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG-ATATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
44425654 ATGTGATAATGCCTAATGGC
65 ATGTGATAAGGCCTAATGGC
44425674 ATGTGAAAGTG-TATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 ATGTGAAAGTGATATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
44425738 TGTGATAAGGCCTAATGGC
66 TGTGATAAGGCCTAATGGC
44425757 CGATGTGATG
Statistics
Matches: 82, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
83 71 0.87
85 11 0.13
ACGTcount: A:0.33, C:0.08, G:0.27, T:0.32
Consensus pattern (84 bp):
ATGTGAAAGTGATATATATGTGATAATGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGC
Found at i:44425992 original size:37 final size:37
Alignment explanation
Indices: 44425940--44426014 Score: 114
Period size: 37 Copynumber: 2.0 Consensus size: 37
44425930 GCTCTAAAGT
* * *
44425940 CCCGATGACTACGTGTGGGGATTTTGTCCGGGTAAGA
1 CCCGATAACTACGTGTGGAGATTATGTCCGGGTAAGA
*
44425977 CCCGATAACTTCGTGTGGAGATTATGTCCGGGTAAGA
1 CCCGATAACTACGTGTGGAGATTATGTCCGGGTAAGA
44426014 C
1 C
44426015 TTCGTAATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.21, C:0.20, G:0.32, T:0.27
Consensus pattern (37 bp):
CCCGATAACTACGTGTGGAGATTATGTCCGGGTAAGA
Found at i:44428564 original size:27 final size:26
Alignment explanation
Indices: 44428524--44428609 Score: 100
Period size: 27 Copynumber: 3.2 Consensus size: 26
44428514 AGCATGGCTG
*
44428524 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
* *
44428550 CCAGATACAAATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* **
44428577 CCAGAACAGATATTTATGGTAGAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCA
44428604 CCAGAA
1 CCAGAA
44428610 TACTTCCTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 11 0.21
27 41 0.79
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:44429871 original size:25 final size:25
Alignment explanation
Indices: 44429838--44429887 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
44429828 AACCAAAGAA
44429838 AATAAATGTGAAATAGAAGGAAAAG
1 AATAAATGTGAAATAGAAGGAAAAG
44429863 AATAAATGTGAAATAGAAGGAAAAG
1 AATAAATGTGAAATAGAAGGAAAAG
44429888 GAATTGCTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (25 bp):
AATAAATGTGAAATAGAAGGAAAAG
Found at i:44430475 original size:18 final size:18
Alignment explanation
Indices: 44430441--44430482 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
44430431 ACAATTCACT
*
44430441 AAAATTCTCAGAAATCCTG
1 AAAA-TCTCAGAAATCCCG
44430460 AAAATCTC-GAAGATCCCG
1 AAAATCTCAGAA-ATCCCG
44430478 AAAAT
1 AAAAT
44430483 TGGGGCATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 3 0.14
18 14 0.67
19 4 0.19
ACGTcount: A:0.45, C:0.21, G:0.12, T:0.21
Consensus pattern (18 bp):
AAAATCTCAGAAATCCCG
Found at i:44431437 original size:8 final size:8
Alignment explanation
Indices: 44431419--44431448 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
44431409 AAATAAACTT
44431419 AACATTATA
1 AACA-TATA
44431428 AACATATA
1 AACATATA
44431436 AACATATA
1 AACATATA
44431444 AACAT
1 AACAT
44431449 CATCAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 17 0.81
9 4 0.19
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (8 bp):
AACATATA
Found at i:44432770 original size:46 final size:43
Alignment explanation
Indices: 44432702--44432828 Score: 137
Period size: 46 Copynumber: 2.8 Consensus size: 43
44432692 TGATATGTAT
*
44432702 GCTAGTGTAAGACATGTCTGGGACATGCATTAGCCACATCATGAGA
1 GCTAGTGTAAGACATGTTTGGGACATGCATTAGCCACA-CA--AGA
*** *
44432748 GCTAGTGTAAGACATGTTTGGGACATGCATCTGTATTGAGACAAGA
1 GCTAGTGTAAGACATGTTTGGGACATGCA--T-TAGCCACACAAGA
* *
44432794 GCTAGTGTAAGAAATGTTTGGGACATGCATCAGCC
1 GCTAGTGTAAGACATGTTTGGGACATGCATTAGCC
44432829 TCGCGATATA
Statistics
Matches: 68, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 1 0.01
46 59 0.87
48 3 0.04
49 4 0.06
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.26
Consensus pattern (43 bp):
GCTAGTGTAAGACATGTTTGGGACATGCATTAGCCACACAAGA
Found at i:44433006 original size:49 final size:47
Alignment explanation
Indices: 44432888--44433022 Score: 148
Period size: 49 Copynumber: 2.8 Consensus size: 47
44432878 TATTGTGTGT
* * *
44432888 CAGTGTAAAACCTGTCTGGGACATGGCATCGACATCTATAGATGCGAGC
1 CAGTGTAAGACCTGTATGGGACATGGCATCGACATCTATAGA--CAAGC
44432937 CAGTGTAAGACCTGTATGGGACATGGCATCGAC-TGCCTATACGA-AAGC
1 CAGTGTAAGACCTGTATGGGACATGGCATCGACAT--CTATA-GACAAGC
* * *
44432985 CAGTGTAAGACCATGTTTGGGACATGGCGTCGGCATCT
1 CAGTGTAAGACC-TGTATGGGACATGGCATCGACATCT
44433023 TAACCCATGT
Statistics
Matches: 75, Mismatches: 6, Indels: 11
0.82 0.07 0.12
Matches are distributed among these distances:
48 18 0.24
49 49 0.65
50 6 0.08
51 2 0.03
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (47 bp):
CAGTGTAAGACCTGTATGGGACATGGCATCGACATCTATAGACAAGC
Found at i:44441838 original size:28 final size:29
Alignment explanation
Indices: 44441801--44441867 Score: 91
Period size: 28 Copynumber: 2.3 Consensus size: 29
44441791 AAGTCTACAT
* *
44441801 ACATGCATATGGCCCATTAGGCC-CAATC
1 ACATTCATATGGCCCATTAGGCCTAAATC
* *
44441829 TCATTCATATGGTCCATTAGGCCTAAATC
1 ACATTCATATGGCCCATTAGGCCTAAATC
44441858 ACATTCATAT
1 ACATTCATAT
44441868 ACATGCTTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
28 20 0.61
29 13 0.39
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCTAAATC
Found at i:44444660 original size:21 final size:20
Alignment explanation
Indices: 44444635--44444673 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
44444625 ATATAATGAC
44444635 CACACAGGCGTGTTGCCCTTA
1 CACACAGGCGTG-TGCCCTTA
*
44444656 CACACAGGTGTGTGCCCT
1 CACACAGGCGTGTGCCCT
44444674 ATTTTAAGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.18, C:0.33, G:0.26, T:0.23
Consensus pattern (20 bp):
CACACAGGCGTGTGCCCTTA
Found at i:44448651 original size:93 final size:93
Alignment explanation
Indices: 44448492--44448663 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
44448482 CGCCCATAAG
* * *
44448492 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
44448557 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
*
44448585 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
44448650 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
44448664 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:44448660 original size:46 final size:46
Alignment explanation
Indices: 44448485--44448660 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
44448475 TGTAACCCGC
* * *
44448485 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
44448531 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
44448581 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
44448624 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
44448661 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 62 0.58
47 29 0.27
48 1 0.01
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:44448679 original size:46 final size:45
Alignment explanation
Indices: 44448493--44448679 Score: 134
Period size: 46 Copynumber: 4.0 Consensus size: 45
44448483 GCCCATAAGC
* ** * *
44448493 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC--GCATCCATAGGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-C-TA-GT
* *
44448539 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATTTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AGT
* * * *
44448586 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCTAGT
44448632 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAGT
44448678 GA
1 GA
44448680 CATGTCACTT
Statistics
Matches: 113, Mismatches: 14, Indels: 28
0.73 0.09 0.18
Matches are distributed among these distances:
44 9 0.08
45 2 0.02
46 61 0.54
47 31 0.27
48 1 0.01
49 5 0.04
50 4 0.04
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAGT
Found at i:44459025 original size:8 final size:8
Alignment explanation
Indices: 44459012--44459036 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
44459002 AACTTAACTT
44459012 TATAAACA
1 TATAAACA
44459020 TATAAACA
1 TATAAACA
44459028 TATAAACA
1 TATAAACA
44459036 T
1 T
44459037 CATTAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (8 bp):
TATAAACA
Found at i:44464570 original size:21 final size:20
Alignment explanation
Indices: 44464531--44464575 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
44464521 TACTTGTGTA
44464531 TTATAAGGGTGTTTATATAT
1 TTATAAGGGTGTTTATATAT
44464551 TTAT-AGGGTGTTTATATAT
1 TTATAAGGGTGTTTATATAT
*
44464570 ATATAA
1 TTATAA
44464576 CAATGTGCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.78
20 5 0.22
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (20 bp):
TTATAAGGGTGTTTATATAT
Found at i:44466808 original size:26 final size:26
Alignment explanation
Indices: 44466778--44466852 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
44466768 TCTATTAGAG
*
44466778 ATTA-TATATAAGGTATATAAATAAAA
1 ATTATTATATAA-ATATATAAATAAAA
*
44466804 ATTATTATATAAATATTTAAATAAATAA
1 ATTATTATATAAATATATAAAT-AA-AA
* *
44466832 ATAATAATATAATATATATAA
1 ATTATTATATAA-ATATATAA
44466853 TATTTATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
26 12 0.30
27 9 0.22
28 12 0.30
29 7 0.17
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.39
Consensus pattern (26 bp):
ATTATTATATAAATATATAAATAAAA
Found at i:44466874 original size:20 final size:19
Alignment explanation
Indices: 44466806--44466875 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 19
44466796 AAATAAAAAT
44466806 TATTATATAAATATTTA-A
1 TATTATATAAATATTTATA
* * *
44466824 -A-TAAATAAATAATAATA
1 TATTATATAAATATTTATA
*
44466841 TAATATATATAATATTTATA
1 TATTATATA-AATATTTATA
44466861 TATTATATTAAATAT
1 TATTATA-TAAATAT
44466876 AAAAAATTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
16 11 0.28
17 2 0.05
18 1 0.03
19 5 0.12
20 19 0.47
21 2 0.05
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TATTATATAAATATTTATA
Found at i:44466949 original size:15 final size:16
Alignment explanation
Indices: 44466832--44466972 Score: 73
Period size: 17 Copynumber: 8.9 Consensus size: 16
44466822 AAATAAATAA
44466832 ATAATAA-TATAATATAT
1 ATAATAATTAT-ATAT-T
*
44466849 ATAATATTTATATATT
1 ATAATAATTATATATT
* *
44466865 ATATTAA--ATATA-A
1 ATAATAATTATATATT
* *
44466878 AAAATTAATAAT-TATT
1 ATAA-TAATTATATATT
* * *
44466894 A-AATAATGATAGATA
1 ATAATAATTATATATT
* *
44466909 ATAGTTAATTATAGATTT
1 ATA-ATAATTATATA-TT
44466927 ATAATAATTATATATT
1 ATAATAATTATATATT
44466943 A-AATAATTATATTTATT
1 ATAATAATTATA--TATT
44466960 ATAA-AATTATATA
1 ATAATAATTATATA
44466973 GTAAAAATAA
Statistics
Matches: 97, Mismatches: 15, Indels: 26
0.70 0.11 0.19
Matches are distributed among these distances:
13 2 0.02
14 14 0.14
15 19 0.20
16 13 0.13
17 40 0.41
18 9 0.09
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
ATAATAATTATATATT
Done.