Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 149 of 770
Found at i:43944127 original size:80 final size:80
Alignment explanation
Indices: 43943993--43944144 Score: 209
Period size: 80 Copynumber: 1.9 Consensus size: 80
43943983 AAATTGAATG
* *
43943993 ATATCCGGGCTAAGCCCCGAAGGCAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
43944058 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* ** *
43944073 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
*
43944136 CATTTGTGC
64 CAATTGTGC
43944145 ACGTGATTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
79 4 0.06
80 59 0.94
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:43951404 original size:49 final size:47
Alignment explanation
Indices: 43951287--43951603 Score: 465
Period size: 47 Copynumber: 6.7 Consensus size: 47
43951277 GATTTTACGC
* * *
43951287 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
43951334 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* *
43951381 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCGAATGGCCAATGT
* *
43951430 GATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGG-CAGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCGAATGGCCA-ATGT
43951479 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* * *
43951526 GATGAATGTGAAGGTGTATATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* * *
43951573 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAGGTGTATATATGTGATAAG
43951604 TCCCGAAGGG
Statistics
Matches: 250, Mismatches: 16, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
47 154 0.62
48 9 0.04
49 87 0.35
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.29
Consensus pattern (47 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:43951411 original size:96 final size:93
Alignment explanation
Indices: 43951287--43951603 Score: 465
Period size: 96 Copynumber: 3.3 Consensus size: 93
43951277 GATTTTACGC
43951287 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
43951352 TATATGTGATAAGGCCGAATGGCCAATGT
65 TATATGTGATAAGGCCGAATGGCCAATGT
43951381 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTG-AA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-G
* *
43951446 TATATATATGTGATAAGGCCTAATGG-CAGATGT
61 TGTATATATGTGATAAGGCCGAATGGCCA-ATGT
* *
43951479 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTGTA
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
* * *
43951544 TATATGTGATAGGGCCGAGTGGCCAACGT
65 TATATGTGATAAGGCCGAATGGCCAATGT
* *
43951573 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTG-AAGTGTATATATGTGATAAG
43951604 TCCCGAAGGG
Statistics
Matches: 204, Mismatches: 12, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
94 62 0.30
95 9 0.04
96 87 0.43
97 7 0.03
98 39 0.19
ACGTcount: A:0.32, C:0.08, G:0.32, T:0.29
Consensus pattern (93 bp):
GATGAATGTGAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTAT
ATATGTGATAAGGCCGAATGGCCAATGT
Found at i:43953596 original size:42 final size:41
Alignment explanation
Indices: 43953532--43953743 Score: 214
Period size: 40 Copynumber: 5.2 Consensus size: 41
43953522 CTCGACGATG
* * *
43953532 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGCGATATAT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTG-TATAT
* * * * *
43953574 ATCCGGGTTAAGTCCCGTAGAGCATTCGTGCTGGTGT-TAC
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
*
43953614 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTG-ATAT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
* *
43953654 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTAGTG-ATGT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
* * ** * * *
43953694 ATCCGGACCAGGTTCCGAAGAGCAGTCATGCTGGTGATATGT
1 ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTG-TATAT
*
43953736 ATTCGGGC
1 ATCCGGGC
43953744 CTTCGAGCCT
Statistics
Matches: 147, Mismatches: 20, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
40 103 0.70
41 1 0.01
42 43 0.29
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
ATCCGGGCTAAATCCCGAAGAGCATTCATGCTGGTGTATAT
Found at i:43953774 original size:43 final size:43
Alignment explanation
Indices: 43953726--43953903 Score: 302
Period size: 43 Copynumber: 4.1 Consensus size: 43
43953716 CAGTCATGCT
43953726 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
43953769 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
43953812 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
* * * * **
43953855 GGTGATATGCATTCGGGTCTTCGTGCTTAGCAGGCTTAATGCC
1 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
43953898 GGTGAT
1 GGTGAT
43953904 TCGAGCAAGG
Statistics
Matches: 129, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 129 1.00
ACGTcount: A:0.15, C:0.22, G:0.33, T:0.31
Consensus pattern (43 bp):
GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
Found at i:43957762 original size:49 final size:47
Alignment explanation
Indices: 43957645--43957961 Score: 447
Period size: 47 Copynumber: 6.7 Consensus size: 47
43957635 GATTTTACGC
* * *
43957645 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
43957692 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* *
43957739 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCGAATGGCCAATGT
* * *
43957788 GATGAATGTGAAAGTGTATATATATGTGACAAGGCCTAATGG-CAGATGT
1 GATGAATGTG-AAG-GTGTATATATGTGATAAGGCCGAATGGCCA-ATGT
43957837 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* * * *
43957884 GATGAATGTGAAGGTCTATATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
* * *
43957931 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAGGTGTATATATGTGATAAG
43957962 TCCCGAAGGG
Statistics
Matches: 246, Mismatches: 20, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
47 151 0.61
48 9 0.04
49 86 0.35
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:43957769 original size:96 final size:93
Alignment explanation
Indices: 43957645--43957961 Score: 447
Period size: 96 Copynumber: 3.3 Consensus size: 93
43957635 GATTTTACGC
*
43957645 GATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTA
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTATA
43957710 TATATGTGATAAGGCCGAATGGCCAATGT
65 TATATGTGATAAGGCCGAATGGCCAATGT
43957739 GATGAATGTGAAAGTGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 GATGAATGTG-AA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-G
* *
43957804 TATATATATGTGACAAGGCCTAATGG-CAGATGT
61 TATATATATGTGATAAGGCCGAATGGCCA-ATGT
* * *
43957837 GATGAATGTGAAGGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAGGTCTA
1 GATGAATGTGAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTATA
* * *
43957902 TATATGTGATAGGGCCGAGTGGCCAACGT
65 TATATGTGATAAGGCCGAATGGCCAATGT
* *
43957931 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTG-AAGTGTATATATGTGATAAG
43957962 TCCCGAAGGG
Statistics
Matches: 202, Mismatches: 14, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
94 61 0.30
95 9 0.04
96 87 0.43
97 7 0.03
98 38 0.19
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (93 bp):
GATGAATGTGAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTATAT
ATATGTGATAAGGCCGAATGGCCAATGT
Found at i:43962846 original size:80 final size:80
Alignment explanation
Indices: 43962712--43962863 Score: 200
Period size: 80 Copynumber: 1.9 Consensus size: 80
43962702 AAATTGAATG
* * *
43962712 ATATCCGGGCTAAGCCCCGAAGGCAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCTGGAAATTATATCCAGGCTAAGACCCGAAGGCA
43962777 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* ** *
43962792 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATTCTATCCAGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCAATT-ATGCTG-GAAATTATATCCAGGCTAAGACCCGAAGG
*
43962855 CATTTGTGC
64 CAATTGTGC
43962864 ACGTGATTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
79 4 0.06
80 58 0.94
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCTGGAAATTATATCCAGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:43962857 original size:40 final size:39
Alignment explanation
Indices: 43962712--43962879 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 39
43962702 AAATTGAATG
* * ** *
43962712 ATATCCGGGCTAAGCCCCGAAGGCAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTGTGC-GAGTGACT
* * *
43962752 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGACT
* *
43962792 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGACT
* * *
43962832 CTATCCAGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGACT
43962872 ATATCCGG
1 ATATCCGG
43962880 TTATATTCCG
Statistics
Matches: 106, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 4 0.04
40 100 0.94
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGACT
Found at i:43966212 original size:22 final size:23
Alignment explanation
Indices: 43966187--43966230 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
43966177 ACCAAACCAA
43966187 TTCA-ACATATTT-TCAAGATAAG
1 TTCATACATATTTAT-AAGATAAG
*
43966209 TTCATGCATATTTATAAGATAA
1 TTCATACATATTTATAAGATAA
43966231 CGTCATCACA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 4 0.21
23 14 0.74
24 1 0.05
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (23 bp):
TTCATACATATTTATAAGATAAG
Found at i:43973736 original size:22 final size:23
Alignment explanation
Indices: 43973711--43973756 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
43973701 CAACCAAACC
43973711 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
43973733 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
43973756 A
1 A
43973757 CGTCATCGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:43973762 original size:23 final size:24
Alignment explanation
Indices: 43973718--43973768 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
43973708 ACCAATTCAA
*
43973718 CATATTTTCAAGATAAATTCAT-G
1 CATATTTTCAAGATAAAGTCATCG
*
43973741 CATATTTAT-AAGATAACGTCATCG
1 CATATTT-TCAAGATAAAGTCATCG
43973765 CATA
1 CATA
43973769 CCCAAAACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 18 0.75
24 6 0.25
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (24 bp):
CATATTTTCAAGATAAAGTCATCG
Found at i:43978995 original size:40 final size:40
Alignment explanation
Indices: 43978922--43979018 Score: 142
Period size: 40 Copynumber: 2.5 Consensus size: 40
43978912 AACCCAAGTA
* * *
43978922 CCTTCGGGATTTAG-CCGGATATAGCAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGAATATAGCAACTCGCACAAATG
*
43978961 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGAATATAGCAACTCGCACAAATG
*
43979001 CCTTCGGGACTCAGCCCG
1 CCTTCGGGACTTAGCCCG
43979019 TGTAACACCC
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
39 13 0.25
40 39 0.75
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGAATATAGCAACTCGCACAAATG
Found at i:43980526 original size:39 final size:39
Alignment explanation
Indices: 43980448--43980599 Score: 241
Period size: 39 Copynumber: 3.9 Consensus size: 39
43980438 ATGGTAACCA
* *
43980448 GCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTC
1 GCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACTC
*
43980488 GCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACTC
1 GCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTC
*
43980527 GCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATTC
1 GCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTC
* *
43980566 ACACAATTGCCTTCGGGCTTAGCTCGGATATCAC
1 GCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
43980600 TCGAACATTC
Statistics
Matches: 105, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.85
40 16 0.15
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (39 bp):
GCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACTC
Found at i:43988436 original size:40 final size:39
Alignment explanation
Indices: 43988373--43988592 Score: 247
Period size: 39 Copynumber: 5.8 Consensus size: 39
43988363 GCTACTCGTT
* * ** *
43988373 CAAA-GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
* * *
43988412 CAAATGCCTTCGGGACTTAACCCGGATATCACAACTTGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATATCATAACTCGCA
*
43988452 CAATTGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
*
43988491 CAATTGCCTTCGGGCTTAGCCCGGATATC---A-T-GCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
* * *
43988525 CAATTGCCTTC-GGCTTAGCCCGGATATCACAATTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
*
43988563 CAATTGCCTTCGGGCTTAGCCCGGATATCA
1 CAAATGCCTTCGGGCTTAGCCCGGATATCA
43988593 CTCGAACATT
Statistics
Matches: 162, Mismatches: 12, Indels: 14
0.86 0.06 0.07
Matches are distributed among these distances:
33 17 0.10
34 14 0.09
35 1 0.01
36 2 0.01
37 1 0.01
38 14 0.09
39 73 0.45
40 40 0.25
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATCATAACTCGCA
Found at i:43988492 original size:39 final size:39
Alignment explanation
Indices: 43988408--43988593 Score: 276
Period size: 39 Copynumber: 4.9 Consensus size: 39
43988398 TATGGTAACC
* *
43988408 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
43988448 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
43988487 CGCACAATTGCCTTCGGGCTTAGCCCGGATAT--C-A-T
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
43988522 -GCACAATTGCCTTC-GGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
43988559 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
43988594 TCGAACATTC
Statistics
Matches: 134, Mismatches: 6, Indels: 13
0.88 0.04 0.08
Matches are distributed among these distances:
33 16 0.12
34 14 0.10
35 2 0.01
36 2 0.01
37 1 0.01
38 14 0.10
39 69 0.51
40 16 0.12
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:43988562 original size:72 final size:74
Alignment explanation
Indices: 43988408--43988594 Score: 279
Period size: 72 Copynumber: 2.5 Consensus size: 74
43988398 TATGGTAACC
* *
43988408 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTTGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATAT--C-AC-TGCACAATTGCCTTCGGGCTTAGCC
*
43988473 CGGATATCATAACT
61 CGGATATCACAACT
43988487 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCA-TGCACAATTGCCTTC-GGCTTAGCCCGGAT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACTGCACAATTGCCTTCGGGCTTAGCCCGGAT
*
43988550 ATCACAATT
66 ATCACAACT
43988559 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACT
43988595 CGAACATTCA
Statistics
Matches: 103, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
72 55 0.53
73 16 0.16
75 1 0.01
76 1 0.01
78 13 0.13
79 17 0.17
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (74 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACTGCACAATTGCCTTCGGGCTTAGCCCGGAT
ATCACAACT
Found at i:43990281 original size:40 final size:40
Alignment explanation
Indices: 43990224--43990299 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
43990214 GTCACAGCCC
*
43990224 GATATAGTAACTCGCACAAATGCCTTCGAGA-CTTAGCTCA
1 GATATAGTAACTAGCACAAATGCCTTCG-GATCTTAGCTCA
*
43990264 GATATAGTCACTAGCACAAATGCCTTCGGATCTTAG
1 GATATAGTAACTAGCACAAATGCCTTCGGATCTTAG
43990300 TCCGGTTATC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 2 0.06
40 31 0.94
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (40 bp):
GATATAGTAACTAGCACAAATGCCTTCGGATCTTAGCTCA
Found at i:43992053 original size:11 final size:11
Alignment explanation
Indices: 43992037--43992077 Score: 64
Period size: 11 Copynumber: 3.5 Consensus size: 11
43992027 TTAAAACATA
43992037 AAAAAATATAC
1 AAAAAATATAC
43992048 AAAAAATATAC
1 AAAAAATATAC
43992059 AAAAAAAATATAC
1 --AAAAAATATAC
43992072 AAAAAA
1 AAAAAA
43992078 AAAATTACCT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 17 0.61
13 11 0.39
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAAAATATAC
Found at i:43992064 original size:13 final size:13
Alignment explanation
Indices: 43992036--43992079 Score: 74
Period size: 13 Copynumber: 3.5 Consensus size: 13
43992026 ATTAAAACAT
43992036 AAAAAAATATAC-
1 AAAAAAATATACA
43992048 -AAAAAATATACA
1 AAAAAAATATACA
43992060 AAAAAAATATACA
1 AAAAAAATATACA
43992073 AAAAAAA
1 AAAAAAA
43992080 AATTACCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.37
13 19 0.63
ACGTcount: A:0.80, C:0.07, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAAAATATACA
Found at i:43992176 original size:11 final size:11
Alignment explanation
Indices: 43992160--43992194 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
43992150 CCGGATTCCC
43992160 CTCCCTTCTCT
1 CTCCCTTCTCT
43992171 CTCCCTTCTCT
1 CTCCCTTCTCT
43992182 CTTCCC-TCTCT
1 C-TCCCTTCTCT
43992193 CT
1 CT
43992195 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:43992677 original size:3 final size:3
Alignment explanation
Indices: 43992669--43992711 Score: 70
Period size: 3 Copynumber: 14.3 Consensus size: 3
43992659 TGCATTTCAA
43992669 TAT TAT TAT TAT TAT TAAT TAT TAT TAT TA- TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT T
43992712 TTAAATACAT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:43992691 original size:16 final size:16
Alignment explanation
Indices: 43992670--43992715 Score: 71
Period size: 14 Copynumber: 3.1 Consensus size: 16
43992660 GCATTTCAAT
43992670 ATTATTATTATTATTA
1 ATTATTATTATTATTA
43992686 ATTATTATTATTA-T-
1 ATTATTATTATTATTA
43992700 ATTATTATTATT-TTA
1 ATTATTATTATTATTA
43992715 A
1 A
43992716 ATACATTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
14 13 0.46
15 2 0.07
16 13 0.46
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
ATTATTATTATTATTA
Found at i:43992731 original size:30 final size:30
Alignment explanation
Indices: 43992668--43992723 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
43992658 TTGCATTTCA
* *
43992668 ATATTATTATTATTATTAATTATTATTATT
1 ATATTATTATTATTATTAAATATCATTATT
43992698 ATATTATTATTATT-TTAAATA-CATTA
1 ATATTATTATTATTATTAAATATCATTA
43992724 GTGTATATCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 6 0.25
30 14 0.58
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (30 bp):
ATATTATTATTATTATTAAATATCATTATT
Found at i:43992824 original size:3 final size:3
Alignment explanation
Indices: 43992816--43992869 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
43992806 TGTGTTTCAA
43992816 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
43992864 TAT TAT
1 TAT TAT
43992870 ATATATATCC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:43992939 original size:147 final size:146
Alignment explanation
Indices: 43992663--43992944 Score: 356
Period size: 147 Copynumber: 1.9 Consensus size: 146
43992653 ATTTTTTGCA
*
43992663 TTTCAATATTATTATTATTATTAATTATTATTATTATATTATTATTATTTTAAATACATTAGTGT
1 TTTCAATATTATTATTATTATTAATTATTATTATTATATTATTATTATTTT-AATACATTAGTAT
* * * * * *
43992728 ATATCTTCATGTATGTATATATATATATGTAGTAATGTTTCTATTACTTTATTTTAATATTTTTA
65 ATATATCCATGTAGGTATATACATATATATAGTAATGTTTCTAATACTTTATTTTAATATTTTTA
43992793 TTATAATGGCTTTTGTG
130 TTATAATGGCTTTTGTG
*
43992810 TTTCAATATTATTATTATTATT-ATTATTATTATTATTATTATTATTATTATT-AT-TATTA-TA
1 TTTCAATATTATTATTATTATTAATTATTATTATTA-TATTATTATTATT-TTAATACATTAGTA
* * * * * *
43992871 TATATATCCTTGTTAGGTGTATACATATGTATATTACTGTTTTTAATACTTTATTTTAATATCAT
64 TATATATCCATG-TAGGTATATACATATATATAGTAATGTTTCTAATACTTTATTTTAATAT--T
43992936 TTTATTATA
126 TTTATTATA
43992945 TTTACCTTTT
Statistics
Matches: 116, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
144 10 0.09
145 44 0.38
146 15 0.13
147 45 0.39
148 2 0.02
ACGTcount: A:0.32, C:0.05, G:0.06, T:0.57
Consensus pattern (146 bp):
TTTCAATATTATTATTATTATTAATTATTATTATTATATTATTATTATTTTAATACATTAGTATA
TATATCCATGTAGGTATATACATATATATAGTAATGTTTCTAATACTTTATTTTAATATTTTTAT
TATAATGGCTTTTGTG
Found at i:43993146 original size:33 final size:30
Alignment explanation
Indices: 43993088--43993160 Score: 83
Period size: 33 Copynumber: 2.3 Consensus size: 30
43993078 TAATATTATG
*
43993088 TATATATTTTAATATTATCAGTTATATATA
1 TATATATTTTAATACTATCAGTTATATATA
* *
43993118 CTATATGATTTCTAATACTATTATTTATATATA
1 -TATAT-ATTT-TAATACTATCAGTTATATATA
*
43993151 TATATTTTTT
1 TATATATTTT
43993161 TTCTTAGTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 1 0.03
31 8 0.22
32 9 0.25
33 18 0.50
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (30 bp):
TATATATTTTAATACTATCAGTTATATATA
Found at i:43997242 original size:12 final size:12
Alignment explanation
Indices: 43997221--43997259 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
43997211 AACATTTTGA
*
43997221 CATTCGTGCATT
1 CATTCATGCATT
43997233 CATTCATGCATT
1 CATTCATGCATT
* *
43997245 CATCCATACATT
1 CATTCATGCATT
43997257 CAT
1 CAT
43997260 ATCCCATACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.38
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:44005500 original size:14 final size:14
Alignment explanation
Indices: 44005481--44005509 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
44005471 CGCTGAGGTA
44005481 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
44005495 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
44005509 T
1 T
44005510 CGTCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:44005706 original size:166 final size:166
Alignment explanation
Indices: 44005432--44005738 Score: 569
Period size: 166 Copynumber: 1.8 Consensus size: 166
44005422 CCAAAGAATC
*
44005432 AACTCATATTGCGAGAAGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCAATTTCTGTTT
1 AACTCATATTGCGAGAAGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCAATTTCTATTT
* *
44005497 TTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTG
66 TTCAATTTCTGCTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTG
44005562 AGGTAATTTTAATTTCTGTTCATAAAAAAAAAAATT
131 AGGTAATTTTAATTTCTGTTCATAAAAAAAAAAATT
*
44005598 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCAATTTCTATTT
1 AACTCATATTGCGAGAAGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCAATTTCTATTT
44005663 TTCAATTTCTGCTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTG
66 TTCAATTTCTGCTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTG
*
44005728 AGGTATTTTTA
131 AGGTAATTTTA
44005739 GTTTTAAATT
Statistics
Matches: 136, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
166 136 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.33
Consensus pattern (166 bp):
AACTCATATTGCGAGAAGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCAATTTCTATTT
TTCAATTTCTGCTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTG
AGGTAATTTTAATTTCTGTTCATAAAAAAAAAAATT
Found at i:44005811 original size:53 final size:53
Alignment explanation
Indices: 44005750--44005947 Score: 173
Period size: 53 Copynumber: 3.5 Consensus size: 53
44005740 TTTTAAATTG
*
44005750 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTGTTCAAAATCA
1 ACTCATATTGCGAGAAGTGAGTTAAGCCTTTTTATTTTTGTTGTTCAAAATCA
* ** * * ** **
44005803 ACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTT-TAGTTTTAAATTG
1 ACTCATATTGCGAGAAGTGAGTTAAGCCT--------TTTTA--T-TTTTGTTGTTCAAAATCA
* *
44005866 ACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTCTGTTGTTCAAAATCA
1 ACTCATATTGCGAGAAGTGAGTTAAGCCTTTTTATTTTTGTTGTTCAAAATCA
*
44005919 ACTCATATTGCGAGAAGTGAGTTGAGCCT
1 ACTCATATTGCGAGAAGTGAGTTAAGCCT
44005948 CGGGGCACGC
Statistics
Matches: 110, Mismatches: 23, Indels: 24
0.70 0.15 0.15
Matches are distributed among these distances:
52 3 0.03
53 63 0.57
55 2 0.02
61 2 0.02
63 36 0.33
64 4 0.04
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (53 bp):
ACTCATATTGCGAGAAGTGAGTTAAGCCTTTTTATTTTTGTTGTTCAAAATCA
Found at i:44005882 original size:116 final size:116
Alignment explanation
Indices: 44005678--44006010 Score: 603
Period size: 116 Copynumber: 2.9 Consensus size: 116
44005668 TTTCTGCTCG
* ** *
44005678 TCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTAGTTT
1 TCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTT
*
44005743 TAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTTTGTTGT
66 TAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTCTGTTGT
44005794 TCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTT
1 TCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTT
44005859 TAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTCTGTTGT
66 TAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTCTGTTGT
*
44005910 TCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTAAGGTATTTTTAGTTT
1 TCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTT
*
44005975 TAAATTGACTCATATTGCGAGAGGTGAGTTGAGCCT
66 TAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
44006011 CAGCTCACGC
Statistics
Matches: 210, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
116 210 1.00
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (116 bp):
TCAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTT
TAAATTGACTCATATTGCGAGAGGTGAGTTAAGCCTTTTTATTTCTGTTGT
Found at i:44005886 original size:63 final size:62
Alignment explanation
Indices: 44005803--44006011 Score: 217
Period size: 63 Copynumber: 3.5 Consensus size: 62
44005793 TTCAAAATCA
44005803 ACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTTAAATTG
1 ACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT-AGGTATTTTTAGTTTTAAATTG
* * ** * **
44005866 ACTCATATTGCGAGAGGTGAGTTAAGCCT----------T-TTTATTTCT-GTTGTTCAAAATCA
1 ACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTAGGTATTTTTAGTT-TT--AAATTG
44005919 ACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTAAGGTATTTTTAGTTTTAAATTG
1 ACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCT-AGGTATTTTTAGTTTTAAATTG
*
44005982 ACTCATATTGCGAGAGGTGAGTTGAGCCTC
1 ACTCATATTGCGAGAAGTGAGTTGAGCCTC
44006012 AGCTCACGCG
Statistics
Matches: 115, Mismatches: 15, Indels: 32
0.71 0.09 0.20
Matches are distributed among these distances:
50 3 0.03
51 8 0.07
53 32 0.28
63 61 0.53
65 8 0.07
66 3 0.03
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (62 bp):
ACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCTAGGTATTTTTAGTTTTAAATTG
Found at i:44006049 original size:14 final size:14
Alignment explanation
Indices: 44006030--44006058 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
44006020 CGCTGAGGTA
44006030 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
44006044 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
44006058 T
1 T
44006059 CGTCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.66
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:44006171 original size:76 final size:77
Alignment explanation
Indices: 44006063--44006285 Score: 243
Period size: 76 Copynumber: 2.8 Consensus size: 77
44006053 TCTGTTCGTC
44006063 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTCT
44006128 GTTCATCAA-AA
66 GTTCATCAATAA
* * *
44006139 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGT-ATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGGTAATTTT-AATT
** **
44006203 TCTGTTTTTCAATTTTTGTTCGTC
63 TCTGTTCATCAA-------T--AA
* *
44006227 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTTA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTA
44006286 GTTTTAAATT
Statistics
Matches: 121, Mismatches: 12, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
76 38 0.31
77 5 0.04
78 25 0.21
86 12 0.10
87 4 0.03
88 37 0.31
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (77 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTTAATTTCT
GTTCATCAATAA
Found at i:44006253 original size:164 final size:164
Alignment explanation
Indices: 44005976--44006285 Score: 584
Period size: 164 Copynumber: 1.9 Consensus size: 164
44005966 TTTTAGTTTT
*
44005976 AAATTGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCAATTTC
1 AAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCAATTTC
*
44006041 TGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
66 TGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
44006106 CGCTGAGGTAATTTTAATTTCTGTTCATCAAAAA
131 CGCTGAGGTAATTTTAATTTCTGTTCATCAAAAA
44006140 AAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCAATTTC
1 AAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCAATTTC
*
44006205 TGTTTTTCAATTTTTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
66 TGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
44006270 CGCTGAGGTATTTTTA
131 CGCTGAGGTAATTTTA
44006286 GTTTTAAATT
Statistics
Matches: 142, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
164 142 1.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (164 bp):
AAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCTCACGCGCTGAGGTATTTTCAATTTC
TGTTTTTCAATTTCTGTTCGTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
CGCTGAGGTAATTTTAATTTCTGTTCATCAAAAA
Found at i:44008070 original size:3 final size:3
Alignment explanation
Indices: 44008062--44008116 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
44008052 TGCATTTCAA
44008062 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
44008110 TGT TAT T
1 TAT TAT T
44008117 GAAATACATT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:44008228 original size:3 final size:3
Alignment explanation
Indices: 44008220--44008279 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
44008210 TGTGTTTCAA
44008220 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
44008268 TAT TAT TAT TAT
1 TAT TAT TAT TAT
44008280 ATATCCTTGT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:44008336 original size:14 final size:16
Alignment explanation
Indices: 44008317--44008348 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
44008307 ATATTACTGT
44008317 TTTTAATA-C-TTTTA
1 TTTTAATATCATTTTA
44008331 TTTTAATATCATTTTA
1 TTTTAATATCATTTTA
44008347 TT
1 TT
44008349 ATATTTACCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 1 0.06
16 7 0.44
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTAATATCATTTTA
Found at i:44008555 original size:33 final size:30
Alignment explanation
Indices: 44008497--44008569 Score: 83
Period size: 33 Copynumber: 2.3 Consensus size: 30
44008487 TAATATTATG
*
44008497 TATATATTTTAATATTATCAGTTATATATA
1 TATATATTTTAATACTATCAGTTATATATA
* *
44008527 CTATATGATTTCTAATACTATTATTTATATATA
1 -TATAT-ATTT-TAATACTATCAGTTATATATA
*
44008560 TATATTTTTT
1 TATATATTTT
44008570 TCTTAGTACC
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 1 0.03
31 8 0.22
32 9 0.25
33 18 0.50
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (30 bp):
TATATATTTTAATACTATCAGTTATATATA
Found at i:44010556 original size:23 final size:23
Alignment explanation
Indices: 44010529--44010777 Score: 220
Period size: 23 Copynumber: 10.9 Consensus size: 23
44010519 TGGATGCTGT
* *
44010529 TGTTTAAATGCTGCAAATTAAAG
1 TGTTTAAATGCTGTAAATTGAAG
44010552 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
* * *
44010575 TATTTAAATGTTGTAAATTGCAG
1 TGTTTAAATGCTGTAAATTGAAG
*
44010598 TGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
* * *
44010621 TGTTTAAGTACTGCAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
** *
44010644 TGTTTAGTTGCTGGAAATTG-AG
1 TGTTTAAATGCTGTAAATTGAAG
* *
44010666 ATGTTTTATTGCTGT-AATTG-AG
1 -TGTTTAAATGCTGTAAATTGAAG
* * *
44010688 TTGTATAAATGTTGTTAATTG-AG
1 -TGTTTAAATGCTGTAAATTGAAG
* *
44010711 ATG-ATAAAGTGCTGCAAATTGAAG
1 -TGTTTAAA-TGCTGTAAATTGAAG
* *
44010735 TGTTTAAATACTATAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
* *
44010758 TGCTTAAATGTTGTAAATTG
1 TGTTTAAATGCTGTAAATTG
44010778 GCATCTGTTT
Statistics
Matches: 186, Mismatches: 35, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
22 24 0.13
23 156 0.84
24 6 0.03
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
TGTTTAAATGCTGTAAATTGAAG
Found at i:44011039 original size:19 final size:19
Alignment explanation
Indices: 44011016--44011062 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
44011006 ATTTAATCTA
*
44011016 ATTTTTATTATTTA-TTTT
1 ATTTTTATTATATATTTTT
* *
44011034 AGTTTTGATTCTATATTTTT
1 A-TTTTTATTATATATTTTT
44011054 ATTTTTATT
1 ATTTTTATT
44011063 TTAATATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 17 0.74
20 5 0.22
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.72
Consensus pattern (19 bp):
ATTTTTATTATATATTTTT
Found at i:44011387 original size:43 final size:43
Alignment explanation
Indices: 44011326--44011553 Score: 300
Period size: 43 Copynumber: 5.3 Consensus size: 43
44011316 TTAAATTTTG
* * ** *
44011326 TGACCTTTAGTGGCGTTTGTGGGATTAGCACCGCTAAAGGTCA
1 TGACCATTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCA
* *
44011369 TGACCATTAGCGACGTTTGTGGGAAAAGCGCCTCTAAAGGTCA
1 TGACCATTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCA
44011412 T-A-CATTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCA
1 TGACCA-TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCA
* * **
44011454 TGACCTTTAGCGGCGTTTGTCGGAAAAGCGCTACTAAAGGTCA
1 TGACCATTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCA
*
44011497 TGA-CATTTAGCGGCGTTTGTGGGAAAAGAGCCGCTAAAGGTCA
1 TGACCA-TTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCA
*
44011540 TGACCTTTAGCGGC
1 TGACCATTAGCGGC
44011554 ATTTTTTTAA
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
41 2 0.01
42 38 0.24
43 119 0.74
44 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (43 bp):
TGACCATTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCA
Found at i:44011445 original size:85 final size:86
Alignment explanation
Indices: 44011326--44011551 Score: 348
Period size: 85 Copynumber: 2.6 Consensus size: 86
44011316 TTAAATTTTG
* * ** * * *
44011326 TGACCTTTAGTGGCGTTTGTGGGATTAGCACCGCTAAAGGTCATGACCATTAGCGACGTTTGTGG
1 TGACATTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACCTTTAGCGACGTTTGTCG
44011391 GAAAAGCGCCT-CTAAAGGTCA
66 GAAAAGCG-CTACTAAAGGTCA
*
44011412 T-ACATTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACCTTTAGCGGCGTTTGTCG
1 TGACATTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACCTTTAGCGACGTTTGTCG
44011476 GAAAAGCGCTACTAAAGGTCA
66 GAAAAGCGCTACTAAAGGTCA
*
44011497 TGACATTTAGCGGCGTTTGTGGGAAAAGAGCCGCTAAAGGTCATGACCTTTAGCG
1 TGACATTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACCTTTAGCG
44011552 GCATTTTTTT
Statistics
Matches: 129, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
84 2 0.02
85 74 0.57
86 53 0.41
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (86 bp):
TGACATTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGACCTTTAGCGACGTTTGTCG
GAAAAGCGCTACTAAAGGTCA
Found at i:44011880 original size:43 final size:43
Alignment explanation
Indices: 44011741--44011868 Score: 229
Period size: 43 Copynumber: 3.0 Consensus size: 43
44011731 AAGAGCATTC
*
44011741 GTGCTGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT
1 GTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT
*
44011784 GTGCCGGTGATATGTATTCGGGCCTTTGTGCCTAGCAGGCTTT
1 GTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT
*
44011827 GTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGTAGGCTT
1 GTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTT
44011869 AACGCTGGTG
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 81 1.00
ACGTcount: A:0.12, C:0.21, G:0.33, T:0.34
Consensus pattern (43 bp):
GTGCCGGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTT
Found at i:44015555 original size:48 final size:48
Alignment explanation
Indices: 44015481--44016010 Score: 808
Period size: 48 Copynumber: 11.0 Consensus size: 48
44015471 AGATAAATAT
* *
44015481 ATATGTATATGTGGTAAAGCCTAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
44015529 ATATGTATATGCGGTAAAGCCGAATGGCTAATGTGAAATGTGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
44015577 ATATGTATATGTGATAAAGCAGAATGGCTAATGTGAAATGTGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* ** * *
44015625 ATATGTATATGTGATAAAGCCGAATCACTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
44015673 ATATGTATATTTGATAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
44015721 ATATGTATATGTGGTAAAGCCGAATAGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
44015769 ATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
44015817 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
44015865 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
44015913 ATATGTATATGTGGTAAAGCCGAATAGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
44015961 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
44016009 AT
1 AT
44016011 GTGCGTATAT
Statistics
Matches: 443, Mismatches: 39, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 443 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:44016201 original size:37 final size:37
Alignment explanation
Indices: 44016151--44016253 Score: 154
Period size: 37 Copynumber: 2.8 Consensus size: 37
44016141 GGAAATATAT
44016151 TCCGGGTAAGACCCGATGACTACGTGTGGAGAT-TATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATCT-TG
*
44016188 TCCGGGTAAGACCCGATGACTACGTGTAGAGATCTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATCTTG
* * *
44016225 TCCGGTTAAGACCCGATAACTGCGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
44016254 GGACTATTCG
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
37 59 0.98
38 1 0.02
ACGTcount: A:0.23, C:0.21, G:0.31, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATCTTG
Found at i:44022698 original size:30 final size:30
Alignment explanation
Indices: 44022664--44022723 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
44022654 AATAAGATTC
*
44022664 AGTGGGAGTTAGTGGGAATATAGGTGGTTT
1 AGTGGGAGTTAGAGGGAATATAGGTGGTTT
44022694 AGTGGGAGTTAGAGGGAATATAGGTGGTTT
1 AGTGGGAGTTAGAGGGAATATAGGTGGTTT
44022724 TAAAAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.25, C:0.00, G:0.43, T:0.32
Consensus pattern (30 bp):
AGTGGGAGTTAGAGGGAATATAGGTGGTTT
Found at i:44024090 original size:18 final size:18
Alignment explanation
Indices: 44024067--44024102 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
44024057 TATCACACTT
44024067 GAGTTTAATAATAGTCTC
1 GAGTTTAATAATAGTCTC
44024085 GAGTTTAATAATAGTCTC
1 GAGTTTAATAATAGTCTC
44024103 AACTTACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (18 bp):
GAGTTTAATAATAGTCTC
Found at i:44024113 original size:18 final size:18
Alignment explanation
Indices: 44024071--44024114 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
44024061 ACACTTGAGT
**
44024071 TTAATAATAGTCTCGAGT
1 TTAATAATAGTCTCGAAC
44024089 TTAATAATAGTCTC-AAC
1 TTAATAATAGTCTCGAAC
44024106 TTACATAAT
1 TTA-ATAAT
44024115 TTCCTTGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.39
Consensus pattern (18 bp):
TTAATAATAGTCTCGAAC
Found at i:44024597 original size:46 final size:46
Alignment explanation
Indices: 44024521--44024833 Score: 439
Period size: 46 Copynumber: 6.8 Consensus size: 46
44024511 TGATGTCATA
* * * * *
44024521 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACAC-ATTTCATATCATGTTGCCATG
** ***
44024567 GTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATG
* *
44024614 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
44024660 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
* *
44024706 GTATCTTTCAACCATGGCCTTACACATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
* *
44024752 GTATCTTTCAACCATGGTATTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
* *
44024798 GTATCTTTCAACTATGGTCTTACACATTCCATATCA
1 GTATCTTTCAACCATGGTCTTACACATTTCATATCA
44024834 GAGAGCACAC
Statistics
Matches: 245, Mismatches: 20, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
46 206 0.84
47 39 0.16
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.40
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATG
Found at i:44024714 original size:25 final size:25
Alignment explanation
Indices: 44024686--44024761 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
44024676 GTCTTACACA
44024686 TTTCATATCATGTTGCCATGGTATC
1 TTTCATATCATGTTGCCATGGTATC
* *
44024711 TTTCA-ACCATG--GCC-T--TACAC
1 TTTCATATCATGTTGCCATGGTA-TC
*
44024731 ATTTCATATCACGTTGCCATGGTATC
1 -TTTCATATCATGTTGCCATGGTATC
44024757 TTTCA
1 TTTCA
44024762 ACCATGGTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 16
0.64 0.08 0.27
Matches are distributed among these distances:
19 2 0.05
20 1 0.03
21 6 0.16
22 7 0.18
24 8 0.21
25 11 0.29
26 1 0.03
27 2 0.05
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.39
Consensus pattern (25 bp):
TTTCATATCATGTTGCCATGGTATC
Found at i:44026407 original size:26 final size:25
Alignment explanation
Indices: 44026368--44026477 Score: 148
Period size: 26 Copynumber: 4.2 Consensus size: 25
44026358 TAATACAAAT
44026368 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
*
44026394 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
* *
44026420 TGATAATGGGTTATGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
*
44026446 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGG-TTAGGTAAATGTTCCA
44026472 TGATAA
1 TGATAA
44026478 GAAATTCATG
Statistics
Matches: 76, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
25 4 0.05
26 70 0.92
27 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.38
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:44026425 original size:52 final size:52
Alignment explanation
Indices: 44026368--44026477 Score: 166
Period size: 52 Copynumber: 2.1 Consensus size: 52
44026358 TAATACAAAT
44026368 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* * * * * *
44026420 TGATAATGGGTTATGTAAATGTTTCATGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
44026472 TGATAA
1 TGATAA
44026478 GAAATTCATG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.38
Consensus pattern (52 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:44028504 original size:136 final size:137
Alignment explanation
Indices: 44028259--44028533 Score: 516
Period size: 136 Copynumber: 2.0 Consensus size: 137
44028249 GAGTAGTCTC
44028259 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
44028324 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACC
*
44028389 ACTGTTA
131 ACTATTA
*
44028396 CCCAAATGGGCTTGCATATG-TTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
44028460 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACC
44028525 ACTATTA
131 ACTATTA
44028532 CC
1 CC
44028534 TGAATAGGCT
Statistics
Matches: 135, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
136 115 0.85
137 20 0.15
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTAGCCCAGTACC
ACTATTA
Found at i:44035031 original size:11 final size:10
Alignment explanation
Indices: 44035010--44035093 Score: 60
Period size: 11 Copynumber: 7.6 Consensus size: 10
44035000 GGCAAAGGGC
44035010 AAAGCAAAAAA
1 AAAG-AAAAAA
44035021 AAATGAAAAAA
1 AAA-GAAAAAA
44035032 AAAGAAAAAAACA
1 AAAG--AAAAA-A
*
44035045 AAACACAAAAA
1 AAAGA-AAAAA
*
44035056 AAACACAAAAA
1 AAAGA-AAAAA
*
44035067 AAACAAAAAA
1 AAAGAAAAAA
*
44035077 AACGAAAAAA
1 AAAGAAAAAA
44035087 ACAAGAA
1 A-AAGAA
44035094 GCTAGGGCGA
Statistics
Matches: 63, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
10 15 0.24
11 34 0.54
12 10 0.16
13 4 0.06
ACGTcount: A:0.82, C:0.11, G:0.06, T:0.01
Consensus pattern (10 bp):
AAAGAAAAAA
Found at i:44035056 original size:9 final size:8
Alignment explanation
Indices: 44035028--44035090 Score: 56
Period size: 9 Copynumber: 7.2 Consensus size: 8
44035018 AAAAAATGAA
*
44035028 AAAAAAAG
1 AAAAAAAC
44035036 AAAAAAAC
1 AAAAAAAC
44035044 AAAACACAA-
1 AAAA-A-AAC
44035053 AAAAAACAC
1 AAAAAA-AC
44035062 AAAAAAAAC
1 -AAAAAAAC
44035071 AAAAAAAAC
1 -AAAAAAAC
44035080 GAAAAAAAC
1 -AAAAAAAC
44035089 AA
1 AA
44035091 GAAGCTAGGG
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
7 1 0.02
8 15 0.31
9 24 0.50
10 8 0.17
ACGTcount: A:0.84, C:0.13, G:0.03, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:44035067 original size:20 final size:20
Alignment explanation
Indices: 44035044--44035089 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
44035034 AGAAAAAAAC
44035044 AAAACACAAAAAAAAC-ACAA
1 AAAACACAAAAAAAACGA-AA
*
44035064 AAAAAACAAAAAAAACGAAA
1 AAAACACAAAAAAAACGAAA
44035084 AAAACA
1 AAAACA
44035090 AGAAGCTAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.00
Consensus pattern (20 bp):
AAAACACAAAAAAAACGAAA
Found at i:44036632 original size:68 final size:68
Alignment explanation
Indices: 44036523--44037012 Score: 680
Period size: 68 Copynumber: 7.2 Consensus size: 68
44036513 TTTCTTTTTC
* * * ** * * *
44036523 CCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAAATCTCCTTGAAGTTTCAAAGGATCTTTT
1 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCGAACCTCTT
44036588 CTT
66 CTT
*
44036591 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAATAGATCTCCTTGAAGTTTCAGCGAACCTCTT
1 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCGAACCTCTT
44036656 CTT
66 CTT
* * * *
44036659 CCTGAAATGGCGTTAGAGCTGCTAAAAGCCACAGCAGATCTTCTTGAAGTTTCAGCGAACCTCTT
1 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCGAACCTCTT
44036724 CTT
66 CTT
* * * * *
44036727 CCAGAAATGGCATTGGAGCGGCTAAAAGCCA-AAGCAGATCTCCTTGAAGTTTCAGCGGATCTTT
1 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAA-CAGATCTCCTTGAAGTTTCAGCGAACCTCT
44036791 TCTT
65 TCTT
44036795 CCTGAAATGGCGTTGGAG-GGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCGAACCTCTT
1 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCGAACCTCTT
44036859 CTT
66 CTT
* * *
44036862 CCTGAAATGGCTTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTAAAGTTTCAGTGAACCTCTT
1 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCGAACCTCTT
44036927 CTT
66 CTT
* ** * * *
44036930 CTTGAAATGGCGTTAAAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG-TAGATCTCT
1 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCGA-ACCTCT
*
44036994 TCTC
65 TCTT
*
44036998 CCTGAAATGACGTTG
1 CCTGAAATGGCGTTG
44037013 AAACGATTAA
Statistics
Matches: 375, Mismatches: 43, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
67 62 0.17
68 313 0.83
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (68 bp):
CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCGAACCTCTT
CTT
Found at i:44036902 original size:203 final size:204
Alignment explanation
Indices: 44036526--44037012 Score: 771
Period size: 203 Copynumber: 2.4 Consensus size: 204
44036516 CTTTTTCCCT
* *
44036526 GAAATGGCATTGGAGCGGCTAAAAGCCACAGCAAATCTCCTTGAAGTTTCAAAGGATCTTTTCTT
1 GAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGAGGATCTTTTCTT
*
44036591 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAATAGATCTCCTTGAAGTTTCAGCGAACCTCTT
66 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCGAACCTCTT
* * * *
44036656 CTTCCTGAAATGGCGTTAGAGCTGCTAAAAGCCACAGCAGATCTTCTTGAAGTTTCAGCGAACCT
131 CTTCCTGAAATGGCGTTAGAGCGGCTAAAAGCCACAACAGATCTCCTTAAAGTTTCAGCGAACCT
44036721 CTTCTTCCA
196 CTTCTTCCA
* *
44036730 GAAATGGCATTGGAGCGGCTAAAAGCCAAAGCAGATCTCCTTGAAGTTTCAGCGGATCTTTTCTT
1 GAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGAGGATCTTTTCTT
44036795 CCTGAAATGGCGTTGGAG-GGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCGAACCTCTT
66 CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCGAACCTCTT
* * *
44036859 CTTCCTGAAATGGCTTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTAAAGTTTCAGTGAACCT
131 CTTCCTGAAATGGCGTTAGAGCGGCTAAAAGCCACAACAGATCTCCTTAAAGTTTCAGCGAACCT
**
44036924 CTTCTTCTT
196 CTTCTTCCA
* ** *
44036933 GAAATGGCGTTAAAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGTA-GATCTCTTCT
1 GAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG-AGGATCTTTTCT
* *
44036997 CCCTGAAATGACGTTG
65 TCCTGAAATGGCGTTG
44037013 AAACGATTAA
Statistics
Matches: 260, Mismatches: 22, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
203 181 0.70
204 79 0.30
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.27
Consensus pattern (204 bp):
GAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGAGGATCTTTTCTT
CCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGCGAACCTCTT
CTTCCTGAAATGGCGTTAGAGCGGCTAAAAGCCACAACAGATCTCCTTAAAGTTTCAGCGAACCT
CTTCTTCCA
Found at i:44037036 original size:271 final size:271
Alignment explanation
Indices: 44036515--44037056 Score: 755
Period size: 271 Copynumber: 2.0 Consensus size: 271
44036505 ATTACAAATT
*
44036515 TCTTTTTCCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAAATCTCCTTGAAGTTTCAAAG
1 TCTTTTTCCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAACAAATCTCCTTGAAGTTTCAAAG
* * * * *
44036580 GATCTTTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAATAGATCTCCTTGAAGTTTCA
66 AACCTCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTAAAGTTTCA
* * *
44036645 GCGAACCTCTTCTTCCTGAAATGGCGTTAGAGCTGCTAAAAGCCACAGCAGATCTTCTTGAAGTT
131 GCGAACCTCTTCTTCCTGAAATGGCGTTAAAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTT
* * * * * * *
44036710 TCAGCGAACCTCTTCTTCCAGAAATGGCATTGGAGCGGCTAAAAGCCAAAGCAGATCTCCTTGAA
196 TCAGAGAACCTCTTCTCCCAGAAATGACATTGAAACGACTAAAAGCCAAAGCAGATCTCCTTAAA
*
44036775 GTTTCAGCGGA
261 ATTTCAGCGGA
* * * **
44036786 TCTTTTCTTCCTGAAATGGCGTTGGAG-GGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGC
1 TCTTTT-TCCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAACAAATCTCCTTGAAGTTTCAAA
*
44036850 GAACCTCTTCTTCCTGAAATGGCTTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTAAAGTTTC
65 GAACCTCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTAAAGTTTC
* *
44036915 AGTGAACCTCTTCTTCTTGAAATGGCGTTAAAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGT
130 AGCGAACCTCTTCTTCCTGAAATGGCGTTAAAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGT
* * * * ** * *
44036980 TTCAGTAG-ATCTCTTCTCCCTGAAATGACGTTGAAACGATTAAAAGTTACAGCAGATTTCCTTA
195 TTCAG-AGAACCTCTTCTCCCAGAAATGACATTGAAACGACTAAAAGCCAAAGCAGATCTCCTTA
44037044 AAATTTCAGCGGA
259 AAATTTCAGCGGA
44037057 AGAAGATCAA
Statistics
Matches: 236, Mismatches: 33, Indels: 4
0.86 0.12 0.01
Matches are distributed among these distances:
271 217 0.92
272 19 0.08
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (271 bp):
TCTTTTTCCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAACAAATCTCCTTGAAGTTTCAAAG
AACCTCTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTAAAGTTTCA
GCGAACCTCTTCTTCCTGAAATGGCGTTAAAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTT
TCAGAGAACCTCTTCTCCCAGAAATGACATTGAAACGACTAAAAGCCAAAGCAGATCTCCTTAAA
ATTTCAGCGGA
Found at i:44037659 original size:132 final size:132
Alignment explanation
Indices: 44037104--44038234 Score: 1976
Period size: 132 Copynumber: 8.6 Consensus size: 132
44037094 GGAGCAGACT
* * *
44037104 GAAGATAGCAGGTCTGACATTCCTATGCTTACAGTGAAGCAGATCGAAGATTTCGGCATGGCATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
* *
44037169 CCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACGGA
66 CCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
44037234 TC
131 TC
* *
44037236 GAAAATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCATGGCATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
* *
44037301 CCTGTGCTTATAGGGAACAAGTTGAAAACATCAAGATTTGGCATCCCTGTGCTTATCGGGAACAG
66 CCTGTGCTTATAGGGAACAAGTTGAAAACAGC-AGATTTGGCATCCCTGTGCTTATAGGGAACAG
44037366 ATC
130 ATC
* * *
44037369 GAAGGTAGCAGATCTGACATTCCTGTGCTTGCAATGAAGCAGATCGAAGATTTCAGCATGGCATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
* **
44037434 CCTGTGCTTATAGGGAACAAGTTGAAAA-AGCAGATTTGGCATCCCTGTACTTATAGGGAATGGA
66 CCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
44037498 TC
131 TC
* * *
44037500 GAAGATAGCAGATCTGACATTCCTGTGCTGACAGTAAAGCAGATCGAAGATTTCAGCATGACATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
44037565 CCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
66 CCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
44037630 TC
131 TC
*
44037632 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
44037697 CCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
66 CCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
44037762 TC
131 TC
* * *
44037764 AAAGATAGCATATCTGACATTCCTGTGCTTACAGTGAAGCAGATTGAAGATTTCAGCATGGCATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
*
44037829 CCTGTGCTTATAGGGAACAAGTTGAAAACAACAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
66 CCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
44037894 TC
131 TC
44037896 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
*
44037961 CCTGTGCTTATAGGGAACAAGTTGAAAATAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
66 CCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
44038026 TC
131 TC
*
44038028 AAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
* *
44038093 CCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACGGA
66 CCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
44038158 TC
131 TC
* * *
44038160 AAAGATAGTAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCATGGCATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
44038225 CCTGTGCTTA
66 CCTGTGCTTA
44038235 GACAGATCGA
Statistics
Matches: 951, Mismatches: 46, Indels: 4
0.95 0.05 0.00
Matches are distributed among these distances:
131 118 0.12
132 712 0.75
133 121 0.13
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (132 bp):
GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCATGGCATC
CCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
TC
Found at i:44039090 original size:14 final size:14
Alignment explanation
Indices: 44039071--44039097 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44039061 CCTTTTCAAA
44039071 TTTTTTTAAAAAAC
1 TTTTTTTAAAAAAC
44039085 TTTTTTTAAAAAA
1 TTTTTTTAAAAAA
44039098 ACAAGAGAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (14 bp):
TTTTTTTAAAAAAC
Found at i:44045902 original size:27 final size:27
Alignment explanation
Indices: 44045886--44046136 Score: 292
Period size: 27 Copynumber: 9.3 Consensus size: 27
44045876 CGACTTGTAA
44045886 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
*
44045913 AATTACCATTTTACCCTCAATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
**
44045940 AATTACTGTTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
*
44045967 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
** *
44045994 AATTACTGTTTTATCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
** *
44046021 AATTACTGTTTTCCCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* * *
44046048 AATTACTATTTTACCCTTGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
*
44046075 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* * **
44046102 AATTACCGTTTTACCTTTAATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
44046129 AATTACCA
1 AATTACCA
44046137 AAATACCCTT
Statistics
Matches: 198, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
26 3 0.02
27 192 0.97
28 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAG
Found at i:44046143 original size:27 final size:27
Alignment explanation
Indices: 44046086--44046280 Score: 156
Period size: 27 Copynumber: 7.2 Consensus size: 27
44046076 ATTACCGTTT
* * ****
44046086 TACCCTCAGTTTACAGAATTACCGTTT
1 TACCCTTAGTTTACAAAATTACCAAAA
* * *
44046113 TACCTTTAATTTACAGAATTACCAAAA
1 TACCCTTAGTTTACAAAATTACCAAAA
* * *
44046140 TACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTTAGTTTACAAAATTACCAAAA
* ** *
44046167 TACCCCTAGTTTGTAAAATTACTAAAA
1 TACCCTTAGTTTACAAAATTACCAAAA
*
44046194 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTAGTTTACAAAATTACCAAAA
* * ** * *
44046221 TACCCCTGGTTTGTAAAATTGCTAAAA
1 TACCCTTAGTTTACAAAATTACCAAAA
* * *
44046248 TACCCTTTGTTTATAAAATTACCGAAA
1 TACCCTTAGTTTACAAAATTACCAAAA
44046275 TACCCT
1 TACCCT
44046281 GTAGGGTAGA
Statistics
Matches: 134, Mismatches: 34, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 134 1.00
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (27 bp):
TACCCTTAGTTTACAAAATTACCAAAA
Found at i:44046152 original size:54 final size:54
Alignment explanation
Indices: 44045894--44046135 Score: 376
Period size: 54 Copynumber: 4.5 Consensus size: 54
44045884 AAAATTACCA
* *
44045894 TTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACTG
1 TTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTG
44045948 TTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTG
1 TTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTG
* * * *
44046002 TTTTATCCTCGATTTACAGAATTACTGTTTTCCCCTCAGTTTACAGAATTACTA
1 TTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTG
* * *
44046056 TTTTACCCTTGATTTATAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCG
1 TTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTG
* **
44046110 TTTTACCTTTAATTTACAGAATTACC
1 TTTTACCCTCGATTTACAGAATTACC
44046136 AAAATACCCT
Statistics
Matches: 172, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 172 1.00
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (54 bp):
TTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTG
Found at i:44046154 original size:81 final size:81
Alignment explanation
Indices: 44045886--44046136 Score: 344
Period size: 81 Copynumber: 3.1 Consensus size: 81
44045876 CGACTTGTAA
* *
44045886 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAATTTACAGAATTACTGTTT
1 AATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTT
*
44045951 TACCCTCGATTTACAG
66 TACCCTCAATTTACAG
* * *
44045967 AATTACCGTTTTACCCTC-AGTTTACAGAATTACTGTTTTATCCTC-GATTTACAGAATTACTGT
1 AATTACCATTTTACCCTCGA-TTTACAGAATTACCGTTTTACCCTCAG-TTTACAGAATTACTGT
* *
44046030 TTTCCCCTCAGTTTACAG
64 TTTACCCTCAATTTACAG
* * * *
44046048 AATTACTATTTTACCCTTGATTTATAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCGTTT
1 AATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTT
* *
44046113 TACCTTTAATTTACAG
66 TACCCTCAATTTACAG
44046129 AATTACCA
1 AATTACCA
44046137 AAATACCCTT
Statistics
Matches: 146, Mismatches: 20, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
80 1 0.01
81 143 0.98
82 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (81 bp):
AATTACCATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTGTTT
TACCCTCAATTTACAG
Found at i:44046171 original size:81 final size:81
Alignment explanation
Indices: 44046014--44046171 Score: 172
Period size: 81 Copynumber: 2.0 Consensus size: 81
44046004 TTATCCTCGA
* * * * *** * *
44046014 TTTACAGAATTACTGTTTTCCCCTCAGTTTACAGAATTACTATTTTACCCTTGATTTATAGAATT
1 TTTACAGAATTACCGTTTTACCCTCAATTTACAGAATTACCAAAATACCCTTGATTTATAAAATC
****
44046079 ACCGTTTTACCCTCAG
66 ACCAAAATACCCTCAG
* * *
44046095 TTTACAGAATTACCGTTTTACCTTTAATTTACAGAATTACCAAAATACCCTTGGTTTATAAAATC
1 TTTACAGAATTACCGTTTTACCCTCAATTTACAGAATTACCAAAATACCCTTGATTTATAAAATC
44046160 ACCAAAATACCC
66 ACCAAAATACCC
44046172 CTAGTTTGTA
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (81 bp):
TTTACAGAATTACCGTTTTACCCTCAATTTACAGAATTACCAAAATACCCTTGATTTATAAAATC
ACCAAAATACCCTCAG
Found at i:44046187 original size:54 final size:54
Alignment explanation
Indices: 44046129--44046279 Score: 239
Period size: 54 Copynumber: 2.8 Consensus size: 54
44046119 TAATTTACAG
* *
44046129 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
* *
44046183 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
* * *
44046237 AATTGCTAAAATACCCTTTGTTTATAAAATTACCGAAATACCC
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCC
44046280 TGTAGGGTAG
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 89 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTAGTTTGTAA
Found at i:44046187 original size:81 final size:81
Alignment explanation
Indices: 44046113--44046280 Score: 210
Period size: 81 Copynumber: 2.1 Consensus size: 81
44046103 ATTACCGTTT
* * *
44046113 TACCTTTAATTTACAGAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTAGTT
1 TACCCTTAATTTACAAAATTACCAAAATACCCCTGGTTTATAAAATCACCAAAATACCCCTAGTT
* **
44046178 TGTAAAATTACTAAAA
66 TATAAAATTACCGAAA
** * ** * * *
44046194 TACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTGCTAAAATACCCTTTGTT
1 TACCCTTAATTTACAAAATTACCAAAATACCCCTGGTTTATAAAATCACCAAAATACCCCTAGTT
44046259 TATAAAATTACCGAAA
66 TATAAAATTACCGAAA
44046275 TACCCT
1 TACCCT
44046281 GTAGGGTAGA
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 73 1.00
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.33
Consensus pattern (81 bp):
TACCCTTAATTTACAAAATTACCAAAATACCCCTGGTTTATAAAATCACCAAAATACCCCTAGTT
TATAAAATTACCGAAA
Found at i:44048573 original size:7 final size:6
Alignment explanation
Indices: 44048539--44048573 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
44048529 GATTTTCTCC
44048539 AAAATG AAAATG AAAATG AAAATGG AAAAATG AAA
1 AAAATG AAAATG AAAATG AAAAT-G -AAAATG AAA
44048574 TTATTTGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 20 0.74
7 2 0.07
8 5 0.19
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:44049547 original size:35 final size:35
Alignment explanation
Indices: 44049506--44049577 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
44049496 TCAGAGCACC
*
44049506 AAATTGTGTTTTGTTTATAGTGTAAA-CTGAGATTG
1 AAATTGTGCTTTGTTTATAGTGTAAATC-GAGATTG
44049541 AAATTGTGCTTTGTTTATAGTGTAAATCGAGATTG
1 AAATTGTGCTTTGTTTATAGTGTAAATCGAGATTG
44049576 AA
1 AA
44049578 TTCTCTCTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 34 0.97
36 1 0.03
ACGTcount: A:0.31, C:0.04, G:0.22, T:0.43
Consensus pattern (35 bp):
AAATTGTGCTTTGTTTATAGTGTAAATCGAGATTG
Found at i:44051056 original size:26 final size:26
Alignment explanation
Indices: 44051027--44051079 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
44051017 TGTAATGCAT
*
44051027 ATTGTAATGTTGCAAAATGTTTTCAA
1 ATTGTAATGTTGCAAAAAGTTTTCAA
44051053 ATTGTAATGTTGCAAAAAGTTTTCAA
1 ATTGTAATGTTGCAAAAAGTTTTCAA
44051079 A
1 A
44051080 CATTTTCTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.40
Consensus pattern (26 bp):
ATTGTAATGTTGCAAAAAGTTTTCAA
Found at i:44053565 original size:26 final size:26
Alignment explanation
Indices: 44053536--44053645 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
44053526 TGATACAAAT
44053536 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
44053562 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
44053588 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
44053614 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
44053640 TGATAA
1 TGATAA
44053646 GAAATTCATG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:44055672 original size:136 final size:136
Alignment explanation
Indices: 44055428--44055712 Score: 552
Period size: 136 Copynumber: 2.1 Consensus size: 136
44055418 GAGTAGTCTC
44055428 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
44055493 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
44055558 CTGTTA
131 CTGTTA
44055564 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
44055629 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
44055694 CTGTTA
131 CTGTTA
**
44055700 CCTGAATGGGCTT
1 CCCAAATGGGCTT
44055713 AGGCCCAATG
Statistics
Matches: 147, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 147 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:44056970 original size:12 final size:12
Alignment explanation
Indices: 44056953--44056983 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
44056943 ACTCGGGGAA
44056953 GAGGCCGTGGTC
1 GAGGCCGTGGTC
44056965 GAGGCCGTGGTC
1 GAGGCCGTGGTC
44056977 GAGGCCG
1 GAGGCCG
44056984 AGGTAGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.26, G:0.52, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:44059130 original size:12 final size:12
Alignment explanation
Indices: 44059113--44059155 Score: 86
Period size: 12 Copynumber: 3.6 Consensus size: 12
44059103 AGTACTACCT
44059113 CGGCCTCGACCA
1 CGGCCTCGACCA
44059125 CGGCCTCGACCA
1 CGGCCTCGACCA
44059137 CGGCCTCGACCA
1 CGGCCTCGACCA
44059149 CGGCCTC
1 CGGCCTC
44059156 TTCCCCGAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.14, C:0.51, G:0.26, T:0.09
Consensus pattern (12 bp):
CGGCCTCGACCA
Found at i:44060642 original size:136 final size:136
Alignment explanation
Indices: 44060398--44060682 Score: 543
Period size: 136 Copynumber: 2.1 Consensus size: 136
44060388 CATTGGGCCT
**
44060398 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
44060463 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
44060528 ATATGC
131 ATATGC
*
44060534 AAGCCTATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
44060599 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
44060664 ATATGC
131 ATATGC
44060670 AAGCCCATTTGGG
1 AAGCCCATTTGGG
44060683 GAGACTACTC
Statistics
Matches: 145, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
136 145 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
ATATGC
Found at i:44062500 original size:26 final size:26
Alignment explanation
Indices: 44062464--44062573 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
44062454 CATGAAATTC
44062464 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
44062490 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
44062516 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
44062542 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
44062568 TTATCA
1 TTATCA
44062574 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:44063984 original size:131 final size:129
Alignment explanation
Indices: 44063679--44064007 Score: 475
Period size: 131 Copynumber: 2.6 Consensus size: 129
44063669 GAAAAATCGA
* * *
44063679 AACCCAGCACGGTAGGGCACGATTCCCCGAATTTCCAAACATTGAACATTGCCTT-GTTTT-AGA
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAGA
** ** * * * *
44063742 ATTTAGAAAACATGAGTGAAATTTTAAAGGAATATTCGATTATTTTGAGCAAGCGGGAAATTGC
66 ATTTTTAAAACATGAGTGAAATTCCAAAGGAACATTCGATTATTTTGAACAAACAGGAAATTGC
*
44063806 AA-CCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTTCCTTCGTTTTGAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTT-AAG
*
44063870 AATTTTTAAAGACATGAGTGAAATTCCAAAGGAACATTTGATTATTTTGAACAAACAGGAAATTG
65 AATTTTTAAA-ACATGAGTGAAATTCCAAAGGAACATTCGATTATTTTGAACAAACAGGAAATTG
44063935 C
129 C
*
44063936 AACCCAGCACGATAGGACACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTT-AAG
*
44064001 AACTTTT
65 AATTTTT
44064008 GACTGAATAG
Statistics
Matches: 180, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
126 48 0.27
127 7 0.04
129 10 0.06
130 50 0.28
131 65 0.36
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.27
Consensus pattern (129 bp):
AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTGCCTTCGTTTTAAGA
ATTTTTAAAACATGAGTGAAATTCCAAAGGAACATTCGATTATTTTGAACAAACAGGAAATTGC
Found at i:44064645 original size:2 final size:2
Alignment explanation
Indices: 44064638--44064694 Score: 69
Period size: 2 Copynumber: 28.5 Consensus size: 2
44064628 TTAAAAGCAT
* * * *
44064638 AC AC AC AC AC AC AC GC AC AC AC GC GC GC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
44064680 AT AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC A
44064695 TATATATATA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.44, C:0.47, G:0.07, T:0.02
Consensus pattern (2 bp):
AC
Found at i:44064699 original size:2 final size:2
Alignment explanation
Indices: 44064694--44064724 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
44064684 ACACACACAC
44064694 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
44064725 AATTTAAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:44067051 original size:14 final size:14
Alignment explanation
Indices: 44067032--44067070 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
44067022 TTGTTTCACT
*
44067032 GAAAATGACTTT-TG
1 GAAAATGA-TTTCTA
44067046 GAAAATGATTTCTA
1 GAAAATGATTTCTA
44067060 GAAAATGATTT
1 GAAAATGATTT
44067071 ACATTTCTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 3 0.13
14 20 0.87
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (14 bp):
GAAAATGATTTCTA
Found at i:44067644 original size:15 final size:16
Alignment explanation
Indices: 44067624--44067654 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44067614 AATAATAATA
44067624 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
44067639 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
44067655 AAGATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:44067707 original size:22 final size:22
Alignment explanation
Indices: 44067679--44067722 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
44067669 ATGTTAAATA
44067679 ATTTATTAAAATAATAAATTAT
1 ATTTATTAAAATAATAAATTAT
* * *
44067701 ATTTATTATATTAATAATTTAT
1 ATTTATTAAAATAATAAATTAT
44067723 TATATGACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTATTAAAATAATAAATTAT
Found at i:44069419 original size:6 final size:7
Alignment explanation
Indices: 44069400--44069426 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
44069390 TGTTTAAACT
44069400 AGAAAAA
1 AGAAAAA
44069407 AGAAAAA
1 AGAAAAA
44069414 AGAAAAA
1 AGAAAAA
44069421 AGAAAA
1 AGAAAA
44069427 GCAATTTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (7 bp):
AGAAAAA
Found at i:44071125 original size:21 final size:20
Alignment explanation
Indices: 44071097--44071140 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
44071087 TTATATCAAA
44071097 TATTTTAT-TACGCATATTAT
1 TATTTTATATAC-CATATTAT
*
44071117 TATTGTTATATACTATATTAT
1 TATT-TTATATACCATATTAT
44071138 TAT
1 TAT
44071141 ATATTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 4 0.19
21 14 0.67
22 3 0.14
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.57
Consensus pattern (20 bp):
TATTTTATATACCATATTAT
Found at i:44080519 original size:18 final size:18
Alignment explanation
Indices: 44080487--44080524 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
44080477 TACAATATAG
44080487 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
44080506 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
44080523 TA
1 TA
44080525 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:44087151 original size:7 final size:7
Alignment explanation
Indices: 44087139--44087169 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
44087129 AGACATTTAA
44087139 AAATATT
1 AAATATT
44087146 AAATATT
1 AAATATT
44087153 AAATATT
1 AAATATT
44087160 AAATATT
1 AAATATT
44087167 AAA
1 AAA
44087170 ATCAATTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AAATATT
Found at i:44090852 original size:10 final size:10
Alignment explanation
Indices: 44090834--44090885 Score: 50
Period size: 10 Copynumber: 4.8 Consensus size: 10
44090824 ACCACTTTTC
*
44090834 ATATATATAT
1 ATATTTATAT
44090844 ATATTTATAT
1 ATATTTATAT
*
44090854 ATATTTTAAAAT
1 ATA-TTT-ATAT
44090866 AATAATTTATAT
1 -AT-ATTTATAT
44090878 ATATTTAT
1 ATATTTAT
44090886 CTTATATACA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 18 0.51
11 5 0.14
12 6 0.17
13 5 0.14
14 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
ATATTTATAT
Found at i:44090892 original size:15 final size:15
Alignment explanation
Indices: 44090872--44090903 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
44090862 AAATAATAAT
*
44090872 TTATATATATTTATC
1 TTATATACATTTATC
44090887 TTATATACATTTATC
1 TTATATACATTTATC
44090902 TT
1 TT
44090904 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:44091199 original size:96 final size:96
Alignment explanation
Indices: 44091035--44091228 Score: 388
Period size: 96 Copynumber: 2.0 Consensus size: 96
44091025 GATAACCCCT
44091035 AAACCAACCATAACTACTCCTAGACCATAAAGCCCAAACTATAAAGTACTTTAAAAACTGTTAAT
1 AAACCAACCATAACTACTCCTAGACCATAAAGCCCAAACTATAAAGTACTTTAAAAACTGTTAAT
44091100 CCTAAACGATAATTGTAAACATATTTTTGGG
66 CCTAAACGATAATTGTAAACATATTTTTGGG
44091131 AAACCAACCATAACTACTCCTAGACCATAAAGCCCAAACTATAAAGTACTTTAAAAACTGTTAAT
1 AAACCAACCATAACTACTCCTAGACCATAAAGCCCAAACTATAAAGTACTTTAAAAACTGTTAAT
44091196 CCTAAACGATAATTGTAAACATATTTTTGGG
66 CCTAAACGATAATTGTAAACATATTTTTGGG
44091227 AA
1 AA
44091229 TTCGATCGTG
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 98 1.00
ACGTcount: A:0.43, C:0.21, G:0.09, T:0.27
Consensus pattern (96 bp):
AAACCAACCATAACTACTCCTAGACCATAAAGCCCAAACTATAAAGTACTTTAAAAACTGTTAAT
CCTAAACGATAATTGTAAACATATTTTTGGG
Found at i:44091841 original size:18 final size:18
Alignment explanation
Indices: 44091793--44091841 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 18
44091783 CTTCAAATAC
*
44091793 TAGTTAACTCCTAAACCG
1 TAGTTAACTCATAAACCG
*
44091811 TA--T-A-TCTTAAACCG
1 TAGTTAACTCATAAACCG
44091825 TAGTTAACTCATAAACC
1 TAGTTAACTCATAAACC
44091842 TGCTTAAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
14 11 0.44
15 1 0.04
16 2 0.08
17 1 0.04
18 10 0.40
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.31
Consensus pattern (18 bp):
TAGTTAACTCATAAACCG
Found at i:44092085 original size:41 final size:41
Alignment explanation
Indices: 44092028--44092164 Score: 240
Period size: 41 Copynumber: 3.4 Consensus size: 41
44092018 GTTATATGAC
*
44092028 TTTTAGCGGCGTTTTACCAAAAGCGCCGTTAATGCTCCGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCGGT
*
44092069 TTTTAGCGGCGTTTTACCAAAAGCGCAGCTAATGCTCCGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCGGT
*
44092110 TTTTAGCGGCGTTTTACCAAAAGCGCCACTAATGCT-CGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCGGT
44092150 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
44092165 TTACTAAAAC
Statistics
Matches: 92, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
40 19 0.21
41 73 0.79
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.33
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCCGGT
Found at i:44092275 original size:12 final size:12
Alignment explanation
Indices: 44092260--44092297 Score: 76
Period size: 12 Copynumber: 3.2 Consensus size: 12
44092250 GTTTTTTGAT
44092260 AAAACGCCGCTA
1 AAAACGCCGCTA
44092272 AAAACGCCGCTA
1 AAAACGCCGCTA
44092284 AAAACGCCGCTA
1 AAAACGCCGCTA
44092296 AA
1 AA
44092298 CCCTATTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.45, C:0.32, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:44092851 original size:14 final size:14
Alignment explanation
Indices: 44092821--44092871 Score: 59
Period size: 14 Copynumber: 3.5 Consensus size: 14
44092811 AATCGTATAT
44092821 ATTATATATATTACAA
1 ATTATATATA-T-CAA
44092837 ATTATATATATCAA
1 ATTATATATATCAA
*
44092851 A-TATCATATATCAT
1 ATTAT-ATATATCAA
44092865 ATTATAT
1 ATTATAT
44092872 TATGTTATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 3 0.09
14 15 0.47
15 4 0.12
16 10 0.31
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTATATATATCAA
Found at i:44099022 original size:26 final size:26
Alignment explanation
Indices: 44098986--44099146 Score: 261
Period size: 26 Copynumber: 6.2 Consensus size: 26
44098976 TGATACAAAT
44098986 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
44099012 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
44099038 TGATAATGGGTTAGGTAAATGTT-TA
1 TGATAATAGGTTAGGTAAATGTTCCA
44099063 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
44099089 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
44099115 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
44099141 TGATAA
1 TGATAA
44099147 GAATTTCATG
Statistics
Matches: 128, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
25 23 0.18
26 105 0.82
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:44099072 original size:77 final size:78
Alignment explanation
Indices: 44098986--44099146 Score: 297
Period size: 77 Copynumber: 2.1 Consensus size: 78
44098976 TGATACAAAT
44098986 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
44099051 GGTAAATGTTT-A
66 GGTAAATGTTTCA
* *
44099063 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCATGATAATGGGTTA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
44099128 GGTAAATGTTTCA
66 GGTAAATGTTTCA
44099141 TGATAA
1 TGATAA
44099147 GAATTTCATG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
77 74 0.91
78 7 0.09
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (78 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
GGTAAATGTTTCA
Found at i:44101176 original size:137 final size:137
Alignment explanation
Indices: 44100930--44101216 Score: 538
Period size: 137 Copynumber: 2.1 Consensus size: 137
44100920 GAGTAGTCTC
44100930 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
44100995 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
44101060 ACTGTTA
131 ACTGTTA
44101067 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
44101132 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAATGGCTCTGGCCTAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
44101197 ACTGTTA
131 ACTGTTA
**
44101204 CCTGAATGGGCTT
1 CCCAAATGGGCTT
44101217 AGGCCCAATG
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 146 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:44102068 original size:42 final size:44
Alignment explanation
Indices: 44101999--44102098 Score: 118
Period size: 42 Copynumber: 2.3 Consensus size: 44
44101989 TATATCATTC
** * *
44101999 TATATATATATATT-TATTATTATTTTTATTTTAA-TTTTACTTT
1 TATAT-TATATATTATAAAATTATTTTTATTATAAGTATTACTTT
*
44102042 TATATTATATATTATAAAATTA-TTTTATTATAAGTATTATTTT
1 TATATTATATATTATAAAATTATTTTTATTATAAGTATTACTTT
44102085 TA-ATTATATATTAT
1 TATATTATATATTAT
44102099 TAGTACTTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
42 30 0.60
43 20 0.40
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (44 bp):
TATATTATATATTATAAAATTATTTTTATTATAAGTATTACTTT
Found at i:44102072 original size:16 final size:17
Alignment explanation
Indices: 44102051--44102084 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
44102041 TTATATTATA
44102051 TATTATAA-AATTATTT
1 TATTATAAGAATTATTT
*
44102067 TATTATAAGTATTATTT
1 TATTATAAGAATTATTT
44102084 T
1 T
44102085 TAATTATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TATTATAAGAATTATTT
Found at i:44102357 original size:15 final size:15
Alignment explanation
Indices: 44102337--44102379 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
44102327 GTATCACAAA
*
44102337 TTATATTATTTATGT
1 TTATATTATTTATAT
44102352 TTATATTATATATATAT
1 TTATATTAT-T-TATAT
*
44102369 ATATATTATTT
1 TTATATTATTT
44102380 TAAAAATGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 10 0.42
16 2 0.08
17 12 0.50
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (15 bp):
TTATATTATTTATAT
Found at i:44114501 original size:119 final size:119
Alignment explanation
Indices: 44114290--44114764 Score: 833
Period size: 119 Copynumber: 4.0 Consensus size: 119
44114280 CGAATTGAAA
*
44114290 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
* *
44114355 TTACAAGGAACAAATCGAGGACATAGCAGATTTAACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAAT
*
44114409 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATAATTTGGTATTCTTGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
*
44114474 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAAT
* *
44114528 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGATTTGGTATTCTCGTGT
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
*
44114593 TTACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAAT
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAAT
* *
44114647 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATCCTTGTGC
1 ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
* * *
44114712 TTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTCAAA
66 TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAA
44114765 CAGACTCAAA
Statistics
Matches: 340, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
119 340 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (119 bp):
ATAGCAGATCTAACCTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGT
TTACAAGGAACAAATCGAGGACATAGCAGATTTGACTCTCAAACGTTCTCAAAT
Found at i:44114798 original size:83 final size:83
Alignment explanation
Indices: 44114696--44114898 Score: 361
Period size: 83 Copynumber: 2.4 Consensus size: 83
44114686 TCCAAGATGA
*
44114696 TTTGGTATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCT
1 TTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCT
44114761 CAAACAGACTCAAAATGG
66 CAAACAGACTCAAAATGG
*
44114779 TTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTTAAATGTTCT
1 TTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCT
*
44114844 CAAATAGACTCAAAATGG
66 CAAACAGACTCAAAATGG
* *
44114862 TTTGGCATCCTTGTGCTTACAAAGAACAAATTGAGGA
1 TTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGA
44114899 TGTAACACCC
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 115 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (83 bp):
TTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCT
CAAACAGACTCAAAATGG
Found at i:44115649 original size:31 final size:31
Alignment explanation
Indices: 44115608--44115671 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
44115598 CCTTTTCATA
* *
44115608 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCAAAGCCT
**
44115639 TTTCAAATTTCATATTACTGGGCCAAAGCCT
1 TTTCAAATTTCATAACACTGGGCCAAAGCCT
44115670 TT
1 TT
44115672 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCAAAGCCT
Found at i:44115941 original size:47 final size:47
Alignment explanation
Indices: 44115886--44116006 Score: 170
Period size: 47 Copynumber: 2.6 Consensus size: 47
44115876 CCTAGCCTTT
* * *
44115886 TTTAATAACTGGGGCAAAATACCTTTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCAAAAGACCTTTTGATAACAGGGGCATAAGCCC
** *
44115933 TTTAATAACTGGGGCGTAAGCCCTTTTGATAACAGGGGCATAAGCCC
1 TTTAATAACTGGGGCAAAAGACCTTTTGATAACAGGGGCATAAGCCC
* *
44115980 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCAAAAGACCTTTT
44116007 TCACTTCCTC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (47 bp):
TTTAATAACTGGGGCAAAAGACCTTTTGATAACAGGGGCATAAGCCC
Found at i:44115944 original size:23 final size:23
Alignment explanation
Indices: 44115886--44116005 Score: 159
Period size: 23 Copynumber: 5.1 Consensus size: 23
44115876 CCTAGCCTTT
* * *
44115886 TTTAATAACTGGGGCAAAATACCT
1 TTTAATAACTGGGGCATAA-GCCC
*
44115910 TTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
44115933 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
44115956 TTTTGATAACAGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
44115980 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
44116003 TTT
1 TTT
44116006 TTCACTTCCT
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
23 47 0.56
24 37 0.44
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:44116085 original size:20 final size:20
Alignment explanation
Indices: 44116056--44116142 Score: 111
Period size: 20 Copynumber: 4.3 Consensus size: 20
44116046 TTATGAATAC
*
44116056 ATCAAGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
44116076 ATCATATGCATATTATACAT
1 ATCATGTGCATATCATACAT
* *
44116096 GTCATGTGCATATTATACAT
1 ATCATGTGCATATCATACAT
*
44116116 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
44116136 ACCATGT
1 ATCATGT
44116143 TTATCAAAAT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 59 1.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:44116142 original size:25 final size:20
Alignment explanation
Indices: 44116061--44116135 Score: 114
Period size: 20 Copynumber: 3.8 Consensus size: 20
44116051 AATACATCAA
* *
44116061 GTGCATATCATACATATCAT
1 GTGCATATTATACATGTCAT
*
44116081 ATGCATATTATACATGTCAT
1 GTGCATATTATACATGTCAT
44116101 GTGCATATTATACATGTCAT
1 GTGCATATTATACATGTCAT
*
44116121 GTGCATATCATACAT
1 GTGCATATTATACAT
44116136 ACCATGTTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.37
Consensus pattern (20 bp):
GTGCATATTATACATGTCAT
Found at i:44117438 original size:27 final size:27
Alignment explanation
Indices: 44117371--44117441 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 27
44117361 TCATACGAAA
*
44117371 CATA-AGGGCATATT-C-GTCATTTTAC
1 CATACAGGGC-TATTACGGTCACTTTAC
*
44117396 CATACAGGGGTATTACGGTCACTTTAC
1 CATACAGGGCTATTACGGTCACTTTAC
*
44117423 CCTACAGAGGCT-TTACGGT
1 CATACAG-GGCTATTACGGT
44117442 TTTTTTACCT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
25 8 0.21
26 5 0.13
27 22 0.58
28 3 0.08
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (27 bp):
CATACAGGGCTATTACGGTCACTTTAC
Found at i:44117524 original size:27 final size:27
Alignment explanation
Indices: 44117494--44117546 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
44117484 GGGTGTTTTG
44117494 GTAAATCTACAAACCAAAGGTATTTCA
1 GTAAATCTACAAACCAAAGGTATTTCA
* * **
44117521 GTAATTTTGTAAACCAAAGGTATTTC
1 GTAAATCTACAAACCAAAGGTATTTC
44117547 CATAATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (27 bp):
GTAAATCTACAAACCAAAGGTATTTCA
Found at i:44117552 original size:27 final size:27
Alignment explanation
Indices: 44117504--44117555 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
44117494 GTAAATCTAC
44117504 AAACCAAAGGTATTTCAGTAATTTTGT
1 AAACCAAAGGTATTTCAGTAATTTTGT
44117531 AAACCAAAGGTATTTCCA-TAATTTT
1 AAACCAAAGGTATTT-CAGTAATTTT
44117556 TAGAAAGTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
27 22 0.92
28 2 0.08
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (27 bp):
AAACCAAAGGTATTTCAGTAATTTTGT
Found at i:44117607 original size:27 final size:26
Alignment explanation
Indices: 44117592--44117772 Score: 168
Period size: 27 Copynumber: 6.8 Consensus size: 26
44117582 TTTGTAAATC
44117592 AGGGGTATTTTGGTAATTTTACAACT
1 AGGGGTATTTTGGTAATTTTACAACT
* * * *
44117618 TGAGGGTATTTCGGTAATTTCACAAACC
1 AG-GGGTATTTTGGTAATTTTAC-AACT
*
44117646 AGTGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTAC-AACT
*
44117673 AGGGGTATTTTGGTAATTTTACAAAT
1 AGGGGTATTTTGGTAATTTTACAACT
* * *
44117699 TGAGGGTATTTCT-GTAATTTTAAAAACC
1 AG-GGGTATTT-TGGTAATTTT-ACAACT
* * *
44117727 AAGGGTATTTTAGCAATTTTACAGACT
1 AGGGGTATTTTGGTAATTTTACA-ACT
*
44117754 A-GGGTATTTTAGTAATTTT
1 AGGGGTATTTTGGTAATTTT
44117773 GTAAATCGAG
Statistics
Matches: 127, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
26 25 0.20
27 94 0.74
28 8 0.06
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (26 bp):
AGGGGTATTTTGGTAATTTTACAACT
Found at i:44117687 original size:81 final size:81
Alignment explanation
Indices: 44117592--44117786 Score: 268
Period size: 81 Copynumber: 2.4 Consensus size: 81
44117582 TTTGTAAATC
* *
44117592 AGGGGTATTTTGGTAATTTTACAACTTGAGGGTATTTCGGTAATTTCACAAACC-AGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCAAAAACCAAG-GGTATTT
* *
44117656 TGGTAATTTTACAAACT
65 TAGCAATTTTACAAACT
* *
44117673 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTAAAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCAAAAACCAAGGGTATTTT
*
44117738 AGCAATTTTACAGACT
66 AGCAATTTTACAAACT
* ** *
44117754 A-GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTA
44117787 AAACAATAAT
Statistics
Matches: 102, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
80 28 0.27
81 72 0.71
82 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCAAAAACCAAGGGTATTTT
AGCAATTTTACAAACT
Found at i:44117796 original size:27 final size:27
Alignment explanation
Indices: 44117765--44117921 Score: 188
Period size: 27 Copynumber: 5.8 Consensus size: 27
44117755 GGGTATTTTA
* *
44117765 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
44117792 ATAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * *
44117819 ATAATTCTATAAATCAAAGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
44117846 GTACTTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
44117873 GTAATTTTGTAAGTCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
44117900 GTAATTATGTAAATCGGGGGTA
1 GTAATTCTGTAAATCGAGGGTA
44117922 CTTTGGTAAT
Statistics
Matches: 113, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 113 1.00
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:44117810 original size:80 final size:81
Alignment explanation
Indices: 44117592--44117813 Score: 180
Period size: 81 Copynumber: 2.8 Consensus size: 81
44117582 TTTGTAAATC
* * * *** ** *
44117592 AGGGGTATTTTGGTAATTTTACAACTTGAGGGTATTTCGGTAATT-TCACAAACC-AGTGGTATT
1 AGGGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACAATAATTCT-AAAAACCAAG-GGTATT
* *
44117655 TTGGTAATTTTACAAACT
64 TTAGCAATTTTACAAACT
* * *** ** *
44117673 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTAAAAACCAAGGGTATTTT
1 AGGGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACAATAATTCTAAAAACCAAGGGTATTTT
*
44117738 AGCAATTTTACAGACT
66 AGCAATTTTACAAACT
** ** *
44117754 A-GGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAATAATTCTGTAAATCAAGGGTA
1 AGGGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACAATAATTCTAAAAACCAAGGGTA
44117814 AAACAATAAT
Statistics
Matches: 120, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
80 46 0.38
81 71 0.59
82 3 0.03
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (81 bp):
AGGGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACAATAATTCTAAAAACCAAGGGTATTTT
AGCAATTTTACAAACT
Found at i:44117915 original size:54 final size:54
Alignment explanation
Indices: 44117765--44117948 Score: 188
Period size: 54 Copynumber: 3.4 Consensus size: 54
44117755 GGGTATTTTA
* ** * *
44117765 GTAATTTTGTAAATCGAGGGTAAAACAATAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * * *
44117819 ATAATTCTATAAATCAAAGGTAAAACGGTACTTCTGTAAATCGAGGGTAAAACG
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* * * * ****
44117873 GTAATTTTGTAAGTCGAGGGTAAAACGGTAATTATGTAAATCGGGGGTACTTTG
1 GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
* *
44117927 GTAATTTTACAAGTCGAGGGTA
1 GTAATTTTATAAATCGAGGGTA
44117949 TTTCAATAAT
Statistics
Matches: 105, Mismatches: 25, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 105 1.00
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (54 bp):
GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
Found at i:44120185 original size:18 final size:18
Alignment explanation
Indices: 44120146--44120278 Score: 200
Period size: 18 Copynumber: 7.5 Consensus size: 18
44120136 AATGATATGT
44120146 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
* *
44120163 AATCTTAAATATGATTGC
1 AATCTTAGATATGATTAC
44120181 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
44120198 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
44120216 AATCTTAGATATGA-TAC
1 AATCTTAGATATGATTAC
*
44120233 AATCTTAGATATGATTGC
1 AATCTTAGATATGATTAC
44120251 AATCTTAGATATGATATAC
1 AATCTTAGATATGAT-TAC
44120270 AATCTTAGA
1 AATCTTAGA
44120279 AGATATGATT
Statistics
Matches: 104, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
17 45 0.43
18 48 0.46
19 11 0.11
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (18 bp):
AATCTTAGATATGATTAC
Found at i:44120186 original size:35 final size:35
Alignment explanation
Indices: 44120137--44120278 Score: 239
Period size: 35 Copynumber: 4.0 Consensus size: 35
44120127 ATAATCTTCA
* *
44120137 ATGATATGTAATCTTAGATATGATACAATCTTAAAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
44120173 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
44120208 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
44120243 ATGATTGCAATCTTAGATATGATATACAATCTTAGA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTAGA
44120279 AGATATGATT
Statistics
Matches: 102, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
35 84 0.82
36 5 0.05
37 13 0.13
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.37
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAGAT
Found at i:44120820 original size:17 final size:17
Alignment explanation
Indices: 44120755--44120820 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
44120745 TCTAAACCAA
*
44120755 TATATTTTATATTTT-T
1 TATATATTATATTTTAT
44120771 TATATAATTATTATTCTTA-
1 TATAT-ATTA-TATT-TTAT
*
44120790 TAAATA-TAT-TTTTAT
1 TATATATTATATTTTAT
44120805 TATATATTATATTTTA
1 TATATATTATATTTTA
44120821 AATTTATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 13
0.71 0.05 0.23
Matches are distributed among these distances:
14 3 0.08
15 7 0.17
16 9 0.22
17 10 0.25
18 5 0.12
19 6 0.15
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.64
Consensus pattern (17 bp):
TATATATTATATTTTAT
Done.