Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr10
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: 57797951
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 1092422 characters in sequence are not A, C, G, or T
File 36 of 187
Found at i:10478902 original size:15 final size:16
Alignment explanation
Indices: 10478868--10478903 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
10478858 TTTGAAAAAC
*
10478868 TTAAATTTGATTTGTT
1 TTAAATTTAATTTGTT
10478884 TTAAATTTAATTT-TT
1 TTAAATTTAATTTGTT
10478899 TTAAA
1 TTAAA
10478904 AAAAACTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (16 bp):
TTAAATTTAATTTGTT
Found at i:10479803 original size:62 final size:61
Alignment explanation
Indices: 10479728--10479860 Score: 146
Period size: 61 Copynumber: 2.2 Consensus size: 61
10479718 TTACACATTA
* * *
10479728 TATCAATTT-GCTTGTAAATATAAAATATTT-AACAAATTTATCCCTCAATGTTTAC-AAAATT
1 TATCAATTTAGCTTG-AAATAT-AAATATTTCAACAAATTAAGCCCTCAATATTTACTAAAA-T
* * * * *
10479789 TATCATTTTAGCTTGAATTCTAAATTTTTCAATAAATTAAGCCCTCAATATTTACTAAAAT
1 TATCAATTTAGCTTGAAATATAAATATTTCAACAAATTAAGCCCTCAATATTTACTAAAAT
10479850 TATCAATTTAG
1 TATCAATTTAG
10479861 TTCTAATTCT
Statistics
Matches: 60, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
60 7 0.12
61 44 0.73
62 9 0.15
ACGTcount: A:0.39, C:0.14, G:0.05, T:0.42
Consensus pattern (61 bp):
TATCAATTTAGCTTGAAATATAAATATTTCAACAAATTAAGCCCTCAATATTTACTAAAAT
Found at i:10480529 original size:233 final size:233
Alignment explanation
Indices: 10480122--10480803 Score: 1364
Period size: 233 Copynumber: 2.9 Consensus size: 233
10480112 CAAAGTTTGT
10480122 AAATTATGTGAACTTTCTGGAATTTGAACTAAAATGGCAAAGTTTGTAAATACTGAAGGCTAAAT
1 AAATTATGTGAACTTTCTGGAATTTGAACTAAAATGGCAAAGTTTGTAAATACTGAAGGCTAAAT
10480187 TTGTTGAATATTTTATATTTAGGATCAAATTGATATAACGTGTAAACATTAAAGAGCTAAATTTG
66 TTGTTGAATATTTTATATTTAGGATCAAATTGATATAACGTGTAAACATTAAAGAGCTAAATTTG
10480252 TTATTAGAAATAATAATAAAAAAACCCGAATCAACTTTGAGTGATGAAAATATTTGATTTCTAAA
131 TTATTAGAAATAATAATAAAAAAACCCGAATCAACTTTGAGTGATGAAAATATTTGATTTCTAAA
10480317 AATTTAGTGATTAAATTAAAATTGTTTAGTTATAGGTA
196 AATTTAGTGATTAAATTAAAATTGTTTAGTTATAGGTA
10480355 AAATTATGTGAACTTTCTGGAATTTGAACTAAAATGGCAAAGTTTGTAAATACTGAAGGCTAAAT
1 AAATTATGTGAACTTTCTGGAATTTGAACTAAAATGGCAAAGTTTGTAAATACTGAAGGCTAAAT
10480420 TTGTTGAATATTTTATATTTAGGATCAAATTGATATAACGTGTAAACATTAAAGAGCTAAATTTG
66 TTGTTGAATATTTTATATTTAGGATCAAATTGATATAACGTGTAAACATTAAAGAGCTAAATTTG
10480485 TTATTAGAAATAATAATAAAAAAACCCGAATCAACTTTGAGTGATGAAAATATTTGATTTCTAAA
131 TTATTAGAAATAATAATAAAAAAACCCGAATCAACTTTGAGTGATGAAAATATTTGATTTCTAAA
10480550 AATTTAGTGATTAAATTAAAATTGTTTAGTTATAGGTA
196 AATTTAGTGATTAAATTAAAATTGTTTAGTTATAGGTA
10480588 AAATTATGTGAACTTTCTGGAATTTGAACTAAAATGGCAAAGTTTGTAAATACTGAAGGCTAAAT
1 AAATTATGTGAACTTTCTGGAATTTGAACTAAAATGGCAAAGTTTGTAAATACTGAAGGCTAAAT
10480653 TTGTTGAATATTTTATATTTAGGATCAAATTGATATAACGTGTAAACATTAAAGAGCTAAATTTG
66 TTGTTGAATATTTTATATTTAGGATCAAATTGATATAACGTGTAAACATTAAAGAGCTAAATTTG
10480718 TTATTAGAAATAATAATAAAAAAACCCGAATCAACTTTGAGTGATGAAAATATTTGATTTCTAAA
131 TTATTAGAAATAATAATAAAAAAACCCGAATCAACTTTGAGTGATGAAAATATTTGATTTCTAAA
10480783 AATTTAGTGATTAAATTAAAA
196 AATTTAGTGATTAAATTAAAA
10480804 AAATTAATAG
Statistics
Matches: 449, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
233 449 1.00
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.36
Consensus pattern (233 bp):
AAATTATGTGAACTTTCTGGAATTTGAACTAAAATGGCAAAGTTTGTAAATACTGAAGGCTAAAT
TTGTTGAATATTTTATATTTAGGATCAAATTGATATAACGTGTAAACATTAAAGAGCTAAATTTG
TTATTAGAAATAATAATAAAAAAACCCGAATCAACTTTGAGTGATGAAAATATTTGATTTCTAAA
AATTTAGTGATTAAATTAAAATTGTTTAGTTATAGGTA
Found at i:10484331 original size:18 final size:18
Alignment explanation
Indices: 10484308--10484345 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
10484298 ACTGCCGGAA
10484308 CATCGACTGGTGTTAAAC
1 CATCGACTGGTGTTAAAC
10484326 CATCGACTGGTGTTAAAC
1 CATCGACTGGTGTTAAAC
10484344 CA
1 CA
10484346 CTGCTGATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (18 bp):
CATCGACTGGTGTTAAAC
Found at i:10486515 original size:87 final size:87
Alignment explanation
Indices: 10486353--10486568 Score: 265
Period size: 87 Copynumber: 2.4 Consensus size: 87
10486343 TTAAGGCCGT
* * *
10486353 AAAAAACCCTCAAACTTTTCAAAAGAAATAATTAAGTCTCTCTCTTTTTTTTTGCACTCAATTAA
1 AAAAAACCCTCAAACTTTTCAAAA-AAACAATTAAG-C-CCCTCTCTTTTTTTGCACTCAATTAA
10486418 GTACTTGAACTTTCAAAATGCAT-A
63 GTACTTGAACTTTCAAAATGCATCA
* * **
10486442 AAAAAACCCTCAAACTTCTTCAAAAAAAGCAATTAAGCCCCTGTCTTTTTTT-CATTCAATTGGG
1 AAAAAACCCTCAAACTT-TTCAAAAAAA-CAATTAAGCCCCTCTCTTTTTTTGCACTCAATTAAG
*
10486506 TACTTGAACTTTTAAAATGCATCA
64 TACTTGAACTTTCAAAATGCATCA
* * *
10486530 AAAAGACCCTTAAAATTTTTCAAAAAAACAATTAAGCCC
1 AAAAAACCC-TCAAACTTTTCAAAAAAACAATTAAGCCC
10486569 TTACTCTTAT
Statistics
Matches: 112, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
87 41 0.37
88 30 0.27
89 27 0.24
90 14 0.12
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.32
Consensus pattern (87 bp):
AAAAAACCCTCAAACTTTTCAAAAAAACAATTAAGCCCCTCTCTTTTTTTGCACTCAATTAAGTA
CTTGAACTTTCAAAATGCATCA
Found at i:10486953 original size:8 final size:9
Alignment explanation
Indices: 10486941--10487068 Score: 77
Period size: 9 Copynumber: 14.0 Consensus size: 9
10486931 ACTTTATAAA
10486941 ATTTTATA-
1 ATTTTATAT
*
10486949 ATTTTTTAT
1 ATTTTATAT
*
10486958 ATTTCTACAT
1 ATTT-TATAT
10486968 ATTTTATAAT
1 ATTTTAT-AT
10486978 ATTTTATA-
1 ATTTTATAT
*
10486986 ATTTTATAAA
1 ATTTTAT-AT
*
10486996 ATTTTACA-
1 ATTTTATAT
10487004 ATTTTTATAT
1 A-TTTTATAT
* *
10487014 ATTTTTTACG
1 ATTTTATA-T
10487024 ATTTTATAT
1 ATTTTATAT
* *
10487033 ATTTTTTCT
1 ATTTTATAT
10487042 AATTTT-TAAT
1 -ATTTTAT-AT
*
10487052 ATTTTAAAT
1 ATTTTATAT
10487061 -TTTTATAT
1 ATTTTATAT
10487069 TAAAATTTAA
Statistics
Matches: 94, Mismatches: 15, Indels: 22
0.72 0.11 0.17
Matches are distributed among these distances:
8 22 0.23
9 36 0.38
10 36 0.38
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (9 bp):
ATTTTATAT
Found at i:10486955 original size:10 final size:10
Alignment explanation
Indices: 10486942--10487048 Score: 57
Period size: 10 Copynumber: 11.3 Consensus size: 10
10486932 CTTTATAAAA
10486942 TTTTATAATT
1 TTTTATAATT
10486952 TTTTAT-A-T
1 TTTTATAATT
* * *
10486960 TTCTA-CATA
1 TTTTATAATT
*
10486969 TTTTATAATA
1 TTTTATAATT
10486979 TTTTATAA--
1 TTTTATAATT
**
10486987 TTTTATAAAA
1 TTTTATAATT
*
10486997 TTTTACAA-T
1 TTTTATAATT
10487006 TTTTATATATT
1 TTTTATA-ATT
**
10487017 TTTTACGATT
1 TTTTATAATT
*
10487027 TTATAT-ATT
1 TTTTATAATT
*
10487036 TTTTCTAATT
1 TTTTATAATT
10487046 TTT
1 TTT
10487049 AATATTTTAA
Statistics
Matches: 76, Mismatches: 13, Indels: 16
0.72 0.12 0.15
Matches are distributed among these distances:
8 14 0.18
9 18 0.24
10 38 0.50
11 6 0.08
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:10487010 original size:37 final size:37
Alignment explanation
Indices: 10486933--10487063 Score: 112
Period size: 38 Copynumber: 3.6 Consensus size: 37
10486923 TTCTTACAAC
* * *
10486933 TTTATAAAATTTTATAATTTT-TTATATTTCTAC-ATAT
1 TTTATAATATTTTATAATTTTATAAAATTT-TACAAT-T
10486970 TTTATAATATTTTATAATTTTATAAAATTTTACAATT
1 TTTATAATATTTTATAATTTTATAAAATTTTACAATT
* * * *
10487007 TTTAT-ATATTTTTTACGATTTTATATATTTTTTCTAA-T
1 TTTATAATATTTTATA--ATTTTATAAAATTTTAC-AATT
10487045 TTT-TAATATTTTA-AATTTT
1 TTTATAATATTTTATAATTTT
10487064 TATATTAAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
35 5 0.06
36 9 0.11
37 31 0.39
38 33 0.41
39 2 0.03
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.62
Consensus pattern (37 bp):
TTTATAATATTTTATAATTTTATAAAATTTTACAATT
Found at i:10487016 original size:56 final size:55
Alignment explanation
Indices: 10486897--10487068 Score: 181
Period size: 55 Copynumber: 3.1 Consensus size: 55
10486887 TTATGAAATT
* *
10486897 TATATTTCTTTACAT-TTTGTATAATTTTCTTACAACTTTATAAAATTTTATAATTTTT-
1 TATATTTC--TACATATTT-TATAATTTT-TTATAATTTTATAAAATTTTA-AATTTTTA
*
10486955 TATATTTCTACATATTTTATAATATTTTATAATTTTATAAAATTTTACAATTTTTA
1 TATATTTCTACATATTTTATAATTTTTTATAATTTTATAAAATTTTA-AATTTTTA
* * * *
10487011 TATATTTTTTAC-GATTTTATATATTTTTTCTAATTTT-TAATATTTTAAATTTTTA
1 TATA-TTTCTACATATTTTATA-ATTTTTTATAATTTTATAAAATTTTAAATTTTTA
10487066 TAT
1 TAT
10487069 TAAAATTTAA
Statistics
Matches: 101, Mismatches: 9, Indels: 11
0.83 0.07 0.09
Matches are distributed among these distances:
55 37 0.37
56 34 0.34
57 22 0.22
58 8 0.08
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (55 bp):
TATATTTCTACATATTTTATAATTTTTTATAATTTTATAAAATTTTAAATTTTTA
Found at i:10487346 original size:89 final size:88
Alignment explanation
Indices: 10487134--10487352 Score: 291
Period size: 89 Copynumber: 2.4 Consensus size: 88
10487124 TAATAAAATA
* *
10487134 AGGGGCTTAATTATTTTTTTAAAAAAAGTTTGAGAGTCTTTTTGATGCATTTTAAAAGTTCAAGC
1 AGGGGCTTAATT-TTTTTTT-TAAAAAGTTTGAG-GGCTTTTTGATGCATTTTAAAAGTTCAAGC
*
10487199 ACCCAATTGAGTGCAAAAAAAATAGT
63 ACCCAAATGAGTGCAAAAAAAATAGT
* * * *
10487225 AGGGGCTTAA-TTTTTTTTTGAAAAGATTTGAGGGCCTTTTTGATGCATTTTGAAAGTTTAAGTA
1 AGGGGCTTAATTTTTTTTTTAAAAAG-TTTGAGGG-CTTTTTGATGCATTTTAAAAGTTCAAGCA
10487289 CCCAAATGAGTGC-AAAAAAA-AGT
64 CCCAAATGAGTGCAAAAAAAATAGT
10487312 AGGGGCTTAATTGCTTTTTTTTAAAAAGTTTGAGGGCTTTT
1 AGGGGCTTAATT--TTTTTTTTAAAAAGTTTGAGGGCTTTT
10487353 GCACCCTTAA
Statistics
Matches: 115, Mismatches: 8, Indels: 13
0.85 0.06 0.10
Matches are distributed among these distances:
87 13 0.11
88 19 0.17
89 59 0.51
90 14 0.12
91 10 0.09
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (88 bp):
AGGGGCTTAATTTTTTTTTTAAAAAGTTTGAGGGCTTTTTGATGCATTTTAAAAGTTCAAGCACC
CAAATGAGTGCAAAAAAAATAGT
Found at i:10489003 original size:16 final size:16
Alignment explanation
Indices: 10488984--10489018 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10488974 AAAATGTTCA
*
10488984 ACAGAATAGAAAAACC
1 ACAGAAAAGAAAAACC
*
10489000 ACAGAAAAGAAAAAGC
1 ACAGAAAAGAAAAACC
10489016 ACA
1 ACA
10489019 AAGAGTTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.66, C:0.17, G:0.14, T:0.03
Consensus pattern (16 bp):
ACAGAAAAGAAAAACC
Found at i:10489198 original size:23 final size:23
Alignment explanation
Indices: 10489170--10489214 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
10489160 GGCAATCTAC
10489170 AAATCAAATCTTTTAAGATTACA
1 AAATCAAATCTTTTAAGATTACA
*
10489193 AAATCAAATCTTTTTAGATTAC
1 AAATCAAATCTTTTAAGATTAC
10489215 GAATCTTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.38
Consensus pattern (23 bp):
AAATCAAATCTTTTAAGATTACA
Found at i:10491067 original size:45 final size:45
Alignment explanation
Indices: 10490917--10491067 Score: 146
Period size: 45 Copynumber: 3.4 Consensus size: 45
10490907 AGGTGGATGT
* * ** *
10490917 TATGTGCTGATTCCA-CCGGATATTAATGAAAATAAAAGTGATTGC
1 TATGTGCTGATTTCACCCGG-TATCAATGAGTATAAAGGTGATTGC
* * * *
10490962 TATGTGTTGATTTCACCAGATACCAATG-GTTATATAA-GTGATTGC
1 TATGTGCTGATTTCACCCGGTATCAATGAG-TATA-AAGGTGATTGC
* * *
10491007 TATGTGCTGAATTCACCCGGTATCATTGAGTATAAAGGTGGTTGC
1 TATGTGCTGATTTCACCCGGTATCAATGAGTATAAAGGTGATTGC
10491052 TATGTGCTGATTTCAC
1 TATGTGCTGATTTCAC
10491068 TGAGTACTAT
Statistics
Matches: 85, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
44 2 0.02
45 78 0.92
46 5 0.06
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (45 bp):
TATGTGCTGATTTCACCCGGTATCAATGAGTATAAAGGTGATTGC
Found at i:10491080 original size:45 final size:45
Alignment explanation
Indices: 10490907--10491106 Score: 122
Period size: 45 Copynumber: 4.5 Consensus size: 45
10490897 TTGGAAATAT
* * * * * **
10490907 AGGTGGATGTTATGTGCTGATTCCA-CCGGATATTAATGAAAATAA
1 AGGTGGTTGCTATGTGCTGATTTCACCCGG-TATCATTGACTATAA
* * * * * * * **
10490952 AAGTGATTGCTATGTGTTGATTTCACCAGATACCAATGGTTATATA
1 AGGTGGTTGCTATGTGCTGATTTCACCCGGTATCATTGACTATA-A
* * *
10490998 A-GTGATTGCTATGTGCTGAATTCACCCGGTATCATTGAGTATAA
1 AGGTGGTTGCTATGTGCTGATTTCACCCGGTATCATTGACTATAA
*
10491042 AGGTGGTTGCTATGTGCTGATTTCA-CTGAGTA-CTATTGACTATAA
1 AGGTGGTTGCTATGTGCTGATTTCACCCG-GTATC-ATTGACTATAA
* * *
10491087 GGGTGG-TACTGTGTGCTGAT
1 AGGTGGTTGCTATGTGCTGAT
10491107 CCACCGTGTA
Statistics
Matches: 122, Mismatches: 28, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
44 17 0.14
45 101 0.83
46 4 0.03
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (45 bp):
AGGTGGTTGCTATGTGCTGATTTCACCCGGTATCATTGACTATAA
Found at i:10496495 original size:47 final size:48
Alignment explanation
Indices: 10496326--10496558 Score: 292
Period size: 47 Copynumber: 4.8 Consensus size: 48
10496316 GGCAGTGAGT
*
10496326 GTGCCAATGTAAGACCATGTCT-GAGACATGGCATCGGCACAGACCGAGGA
1 GTGCCAGTGTAAGACCATGTCTAG-GACATGGCATCGGCACAGA--GAGGA
* * * * *
10496376 CTGCTAGTGTATGACCATGTCTGGGACATGGCATCGGCACGGAAGAGGA
1 GTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACAG-AGAGGA
* * * * *
10496425 GAGTCAGTATAAGACCATGTCTAGGACATGGCATCGGCTC-GAGATGA
1 GTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACAGAGAGGA
* *
10496472 GTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCTC-GAGATGA
1 GTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACAGAGAGGA
10496519 GTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCAC
1 GTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCAC
10496559 CAATATGTGA
Statistics
Matches: 163, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
47 88 0.54
48 1 0.01
49 37 0.23
50 35 0.21
51 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.31, T:0.20
Consensus pattern (48 bp):
GTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCACAGAGAGGA
Found at i:10501184 original size:76 final size:76
Alignment explanation
Indices: 10501037--10501185 Score: 210
Period size: 76 Copynumber: 2.0 Consensus size: 76
10501027 ATCTCGGACC
* * * **
10501037 ACCATAGACGTAGGACGGCGAGAATTGACTATGGATATCGAAGGAGAAACTAAAGTTTTCAAATG
1 ACCATAGACGTAAGACGGCGAGAATTAACTATGGACATCGAAGGAGAAACTAAAGTTTTCAAAAA
*
10501102 TGTCAAACTAG
66 TATCAAACTAG
* *
10501113 ACCATAGACGTAAGACGGGGAGAATTAACTATGGACATCG-AGAGAGAAACTGAAGTTTTCAAAA
1 ACCATAGACGTAAGACGGCGAGAATTAACTATGGACATCGAAG-GAGAAACTAAAGTTTTCAAAA
10501177 ATATCAAAC
65 ATATCAAAC
10501186 CTGAGTGTAG
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
75 2 0.03
76 62 0.97
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (76 bp):
ACCATAGACGTAAGACGGCGAGAATTAACTATGGACATCGAAGGAGAAACTAAAGTTTTCAAAAA
TATCAAACTAG
Found at i:10504090 original size:44 final size:42
Alignment explanation
Indices: 10504009--10504096 Score: 124
Period size: 44 Copynumber: 2.0 Consensus size: 42
10503999 TTCAAAAAAA
*
10504009 TTCAAAAATCCCAAAAATGTTTTCCATTTTTATTTTTAATTT
1 TTCAAAAATCCAAAAAATGTTTTCCATTTTTATTTTTAATTT
*
10504051 TTCAAAAATCCAAAAATATTTGTTTTCC-TTTTTGTTTTTAATTT
1 TTCAAAAATCCAAAAA-A--TGTTTTCCATTTTTATTTTTAATTT
10504095 TT
1 TT
10504097 GTTATAGCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
42 15 0.37
43 1 0.02
44 17 0.41
45 8 0.20
ACGTcount: A:0.31, C:0.12, G:0.03, T:0.53
Consensus pattern (42 bp):
TTCAAAAATCCAAAAAATGTTTTCCATTTTTATTTTTAATTT
Found at i:10504853 original size:36 final size:33
Alignment explanation
Indices: 10504787--10504853 Score: 82
Period size: 32 Copynumber: 1.9 Consensus size: 33
10504777 TGTAAGAGAA
10504787 AAGAACAAACAAAATGTAAAAATACTCAAAAAC
1 AAGAACAAACAAAATGTAAAAATACTCAAAAAC
*
10504820 AAGAA-AAAGAAAATAGTATAAAATAGTCTCAAAA
1 AAGAACAAACAAAAT-GTA-AAAATA--CTCAAAA
10504854 TCATAGTGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
32 8 0.28
33 8 0.28
34 6 0.21
36 7 0.24
ACGTcount: A:0.66, C:0.10, G:0.09, T:0.15
Consensus pattern (33 bp):
AAGAACAAACAAAATGTAAAAATACTCAAAAAC
Found at i:10512473 original size:17 final size:17
Alignment explanation
Indices: 10512447--10512481 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
10512437 AATCGGGTTC
10512447 AGAAAATTATTTACTTA
1 AGAAAATTATTTACTTA
* *
10512464 AGAAATTTATTTATTTA
1 AGAAAATTATTTACTTA
10512481 A
1 A
10512482 ATTAACTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (17 bp):
AGAAAATTATTTACTTA
Found at i:10518950 original size:7 final size:7
Alignment explanation
Indices: 10518940--10518964 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
10518930 AATGATTGAT
10518940 GATCGGA
1 GATCGGA
10518947 GATCGGA
1 GATCGGA
10518954 GATCGGA
1 GATCGGA
10518961 GATC
1 GATC
10518965 CAATTGCAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.16, G:0.40, T:0.16
Consensus pattern (7 bp):
GATCGGA
Found at i:10519117 original size:3 final size:3
Alignment explanation
Indices: 10519104--10519139 Score: 54
Period size: 3 Copynumber: 11.3 Consensus size: 3
10519094 CCGTTATGAA
10519104 AAT AGAT AAT AAT AAT AAT AAT AAT AAT AATT AAT A
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AA-T AAT A
10519140 GAAGTAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 25 0.81
4 6 0.19
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10522312 original size:42 final size:42
Alignment explanation
Indices: 10522248--10522333 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
10522238 CTGAAATCAG
* *
10522248 ATTGAATAAAGGATCCAGGCTCCAGGTATGCACCAGCCGGGA
1 ATTGAATAAAAGATCCAAGCTCCAGGTATGCACCAGCCGGGA
10522290 ATTGAATAAAAGATCCAAGCTCCAGGTATGCACCAGCCGGGA
1 ATTGAATAAAAGATCCAAGCTCCAGGTATGCACCAGCCGGGA
10522332 AT
1 AT
10522334 CGAACCCGGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.17
Consensus pattern (42 bp):
ATTGAATAAAAGATCCAAGCTCCAGGTATGCACCAGCCGGGA
Found at i:10526848 original size:2 final size:2
Alignment explanation
Indices: 10526841--10526865 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10526831 CGACAAATTT
10526841 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
10526866 GTTTCAATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10555598 original size:15 final size:15
Alignment explanation
Indices: 10555578--10555607 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10555568 CTTTGTTTTT
*
10555578 GATAAAAGAAAATAA
1 GATAAAACAAAATAA
10555593 GATAAAACAAAATAA
1 GATAAAACAAAATAA
10555608 AACAAAATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.03, G:0.10, T:0.13
Consensus pattern (15 bp):
GATAAAACAAAATAA
Found at i:10556630 original size:45 final size:44
Alignment explanation
Indices: 10556560--10557377 Score: 333
Period size: 44 Copynumber: 18.2 Consensus size: 44
10556550 GCCAATGAAA
* * *
10556560 ACAAGGTCTGTTGTCTTCGATCTACTCCCCCACCAGTATAGGGAG
1 ACAAGATCTGTTATCTTTGATCTACT-CCCCACCAGTATAGGGAG
* * * * * * * * *
10556605 ACAAAATCTGTTGTCTTTGATCTACTTCACGCCAATACATGAAG
1 ACAAGATCTGTTATCTTTGATCTACTCCCCACCAGTATAGGGAG
* * *
10556649 ACAAGATCTGCTTTTCCCTTCGATCTACTTCGCCACCAGTAT-GGGAAG
1 ACAAGATCTG-TTAT--CTTTGATCTAC-TCCCCACCAGTATAGGG-AG
* * * * * * *
10556697 ACAAGATCTATTATCTTTGATCTACTTCACGCCAGTACATGAAG
1 ACAAGATCTGTTATCTTTGATCTACTCCCCACCAGTATAGGGAG
* * * ** * *
10556741 ATAAGATCTACTT-TCTTCGATCTGTTTCGCCACGAGTAT-GGGAAG
1 ACAAGATCT-GTTATCTTTGATCT-ACTCCCCACCAGTATAGGG-AG
* * * * * * *
10556786 ACAAGATCTGTTACCTTTGATCTACTTCACGCCAGTACATGAAG
1 ACAAGATCTGTTATCTTTGATCTACTCCCCACCAGTATAGGGAG
* * ** * *
10556830 ACAAGATCTACTT-TCTTCGATCTGTTTCGCCACCAGTATGGGGAG
1 ACAAGATCT-GTTATCTTTGATCT-ACTCCCCACCAGTATAGGGAG
* * * * * * * *
10556875 ACAAAATCTGTTGTCTTTGATCTACTTCACGCCAGTACATGAAG
1 ACAAGATCTGTTATCTTTGATCTACTCCCCACCAGTATAGGGAG
* *
10556919 ACAAGATCTGTTTTCTTCT-ATTTACTCCACCACCAGTATAGGGAG
1 ACAAGATCTGTTATCTT-TGATCTACTCC-CCACCAGTATAGGGAG
* * * * * * * *
10556964 ACAAGATCTGGTATTTTTGATCTACTTCACGCCAGTACATGAAG
1 ACAAGATCTGTTATCTTTGATCTACTCCCCACCAGTATAGGGAG
* ** * *
10557008 ACAAGATCTGTTTTTCTTCAATCTGCTCCACCACCAGTATGGGGAG
1 ACAAGATCTG-TTATCTTTGATCTACTCC-CCACCAGTATAGGGAG
* * * * * * * * *
10557054 GCAAGATATGTTACCTTTGATCTACTTCACGCCAGTACATGAAG
1 ACAAGATCTGTTATCTTTGATCTACTCCCCACCAGTATAGGGAG
* * * *
10557098 ACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAGTAT-GGGAAG
1 ACAAGATCTGTTATCTTTGATCTAC-TCCCCACCAGTATAGGG-AG
* * * * * * *
10557143 ACAAGATCTACTT-TCTTTGATCTACTTCACGCCAGTACATGAAG
1 ACAAGATCT-GTTATCTTTGATCTACTCCCCACCAGTATAGGGAG
* * * * * *
10557187 ACAAAATCTACTTTTTCCTTCGATCTGCTTCGCCACCAGTAT-GGGAAG
1 ACAAGATCT--GTTAT-CTTTGATCTAC-TCCCCACCAGTATAGGG-AG
* * * * * * * *
10557235 GCAAGATCTGTTATCTCTGATCTACTTCACGCCAGTAGATGAAG
1 ACAAGATCTGTTATCTTTGATCTACTCCCCACCAGTATAGGGAG
* * *
10557279 GCAAGATCTGCTT-TCTTTGATCTGCTTCGCCACCAGTAT-GGGAAG
1 ACAAGATCTG-TTATCTTTGATCTAC-TCCCCACCAGTATAGGG-AG
* * * * * * * * *
10557324 GCAAGATCTGGTATCTCTGATCTACTTCACGCCAGTACATGAAG
1 ACAAGATCTGTTATCTTTGATCTACTCCCCACCAGTATAGGGAG
10557368 ACAAGATCTG
1 ACAAGATCTG
10557378 CTTTCTCCTT
Statistics
Matches: 540, Mismatches: 199, Indels: 69
0.67 0.25 0.09
Matches are distributed among these distances:
44 232 0.43
45 225 0.42
46 24 0.04
47 24 0.04
48 35 0.06
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.31
Consensus pattern (44 bp):
ACAAGATCTGTTATCTTTGATCTACTCCCCACCAGTATAGGGAG
Found at i:10556804 original size:89 final size:89
Alignment explanation
Indices: 10556554--10557383 Score: 1101
Period size: 89 Copynumber: 9.2 Consensus size: 89
10556544 CTTCACGCCA
* * * * * *
10556554 ATGAAAACAAGGTCTG-TTGTCTTCGATCTACTCCCCCACCAGTATAGGG-AGACAAAATCTGTT
1 ATGAAGACAAGATCTGCTT-TCTTCGATCTGCTTCGCCACCAGTAT-GGGAAGACAAGATCTGTT
* *
10556617 GTCTTTGATCTACTTCACGCCAATAC
64 ATCTTTGATCTACTTCACGCCAGTAC
* *
10556643 ATGAAGACAAGATCTGCTTTTCCCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTAT
1 ATGAAGACAAGATCTGC-TTT--CTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGT
10556708 TATCTTTGATCTACTTCACGCCAGTAC
63 TATCTTTGATCTACTTCACGCCAGTAC
* * * * *
10556735 ATGAAGATAAGATCTACTTTCTTCGATCTGTTTCGCCACGAGTATGGGAAGACAAGATCTGTTAC
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGTTAT
10556800 CTTTGATCTACTTCACGCCAGTAC
66 CTTTGATCTACTTCACGCCAGTAC
* * * * *
10556824 ATGAAGACAAGATCTACTTTCTTCGATCTGTTTCGCCACCAGTATGGGGAGACAAAATCTGTTGT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGTTAT
10556889 CTTTGATCTACTTCACGCCAGTAC
66 CTTTGATCTACTTCACGCCAGTAC
* * * * * * *
10556913 ATGAAGACAAGATCTGTTTTCTTCTATTTACTCCACCACCAGTATAGGG-AGACAAGATCTGGTA
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTAT-GGGAAGACAAGATCTGTTA
*
10556977 TTTTTGATCTACTTCACGCCAGTAC
65 TCTTTGATCTACTTCACGCCAGTAC
* * * * * * *
10557002 ATGAAGACAAGATCTGTTTTTCTTCAATCTGCTCCACCACCAGTATGGGGAGGCAAGATATGTTA
1 ATGAAGACAAGATCTG-CTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGTTA
*
10557067 CCTTTGATCTACTTCACGCCAGTAC
65 TCTTTGATCTACTTCACGCCAGTAC
* *
10557092 ATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTACTT-
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCT-GTTA
10557156 TCTTTGATCTACTTCACGCCAGTAC
65 TCTTTGATCTACTTCACGCCAGTAC
* * *
10557181 ATGAAGACAAAATCTACTTTTTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGT
1 ATGAAGACAAGATCTGC--TTT-CTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGT
* *
10557246 TATCTCTGATCTACTTCACGCCAGTAG
63 TATCTTTGATCTACTTCACGCCAGTAC
* * * *
10557273 ATGAAGGCAAGATCTGCTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTAT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGTTAT
*
10557338 CTCTGATCTACTTCACGCCAGTAC
66 CTTTGATCTACTTCACGCCAGTAC
10557362 ATGAAGACAAGATCTGCTTTCT
1 ATGAAGACAAGATCTGCTTTCT
10557384 CCTTCGCCCC
Statistics
Matches: 665, Mismatches: 63, Indels: 26
0.88 0.08 0.03
Matches are distributed among these distances:
89 416 0.63
90 86 0.13
91 13 0.02
92 150 0.23
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (89 bp):
ATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGTTAT
CTTTGATCTACTTCACGCCAGTAC
Found at i:10557303 original size:181 final size:180
Alignment explanation
Indices: 10556554--10557389 Score: 1105
Period size: 181 Copynumber: 4.6 Consensus size: 180
10556544 CTTCACGCCA
* * * * * *
10556554 ATGAAAACAAGGTCTG-TTGTCTTCGATCTACTCCCCCACCAGTATAGGG-AGACAAAATCTGTT
1 ATGAAGACAAGATCTGCTT-TCTTCGATCTGCTTCGCCACCAGTAT-GGGAAGACAAGATCTGTT
* * * *
10556617 GTCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTTCCCTTCGATCTACTTCGC
64 -TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTTTCCTTCGATCTGCTTCGC
*
10556682 CACCAGTATGGGAAGACAAGATCTATTATCTTTGATCTACTTCACGCCAGTAC
128 CACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTAC
* * * * *
10556735 ATGAAGATAAGATCTACTTTCTTCGATCTGTTTCGCCACGAGTATGGGAAGACAAGATCTGTTAC
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGTT-T
*
10556800 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTAC--TTT-CTTCGATCTGTTTCGCCA
65 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTTTCCTTCGATCTGCTTCGCCA
* * *
10556862 CCAGTATGGGGAGACAAAATCTGTTGTCTTTGATCTACTTCACGCCAGTAC
130 CCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTAC
* * * * * *
10556913 ATGAAGACAAGATCTGTTTTCTTCTATTTACTCCACCACCAGTATAGGG-AGACAAGATCTGGTA
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTAT-GGGAAGACAAGATCT-GT-
* * * *
10556977 TT-TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCT-GTTTTT-CTTCAATCTGCTCCAC
63 TTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTTTCCTTCGATCTGCTTCGC
* * * *
10557039 CACCAGTATGGGGAGGCAAGATATGTTACCTTTGATCTACTTCACGCCAGTAC
128 CACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTAC
* *
10557092 ATGAAGACAAGATCTGTTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTACTTT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCT-GTTT
*
10557157 CTTTGATCTACTTCACGCCAGTACATGAAGACAAAATCTACTTTTTCCTTCGATCTGCTTCGCCA
65 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTTTCCTTCGATCTGCTTCGCCA
* * *
10557222 CCAGTATGGGAAGGCAAGATCTGTTATCTCTGATCTACTTCACGCCAGTAG
130 CCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTAC
* * * *
10557273 ATGAAGGCAAGATCTGCTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGGTAT
1 ATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCT-GTTT
* * *
10557338 CTCTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTCCTTCG
65 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTTTCCTTCG
10557390 CCCCCTAGTA
Statistics
Matches: 574, Mismatches: 70, Indels: 22
0.86 0.11 0.03
Matches are distributed among these distances:
178 152 0.26
179 159 0.28
180 9 0.02
181 252 0.44
182 2 0.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (180 bp):
ATGAAGACAAGATCTGCTTTCTTCGATCTGCTTCGCCACCAGTATGGGAAGACAAGATCTGTTTC
TTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTTTCCTTCGATCTGCTTCGCCAC
CAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCCAGTAC
Found at i:10565768 original size:21 final size:21
Alignment explanation
Indices: 10565744--10565784 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
10565734 GCTTCTCCCA
*
10565744 TAATGTCAGCCTATATTGCCC
1 TAATATCAGCCTATATTGCCC
10565765 TAATATCAGCCTATATTGCC
1 TAATATCAGCCTATATTGCC
10565785 AAAGTCTGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.34
Consensus pattern (21 bp):
TAATATCAGCCTATATTGCCC
Found at i:10569851 original size:16 final size:15
Alignment explanation
Indices: 10569827--10569856 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
10569817 ATGTACCTAT
10569827 TTATATATTATTTTA
1 TTATATATTATTTTA
10569842 TTATACTATTATTTT
1 TTATA-TATTATTTT
10569857 TTTAACTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATATTATTTTA
Found at i:10571947 original size:237 final size:237
Alignment explanation
Indices: 10571532--10572243 Score: 1397
Period size: 237 Copynumber: 3.0 Consensus size: 237
10571522 GTTCCCAAAA
10571532 ATGATTTTTGGTGCTCGTGTATTTAAAATAAAGAATATCCTCGGTAATTTGAAATCAGCAAAGAA
1 ATGATTTTTGGTGCTCGTGTATTTAAAATAAAGAATATCCTCGGTAATTTGAAATCAGCAAAGAA
*
10571597 AATCAGAACACAATACGTTAGGGCTCAATTTTCCTCGAAAATCCCAAAACCTTGAATATTGTTTT
66 AATCAGAACCCAATACGTTAGGGCTCAATTTTCCTCGAAAATCCCAAAACCTTGAATATTGTTTT
10571662 TTATTCACAAAAACTCATGAATTGAGAAAAATTGATTTTAAGGCTTTGATAAAACCCAAAAAAAA
131 TTATTCACAAAAACTCATGAATTGAGAAAAATTGATTTTAAGGCTTTGATAAAACCCAAAAAAAA
10571727 ATTTCTAAAAGGTATGTTGAAAACCTCAATGTACAATTATGT
196 ATTTCTAAAAGGTATGTTGAAAACCTCAATGTACAATTATGT
10571769 ATGATTTTTGGTGCTCGTGTATTTAAAATAAAGAATATCCTCGGTAATTTGAAATCAGCAAAGAA
1 ATGATTTTTGGTGCTCGTGTATTTAAAATAAAGAATATCCTCGGTAATTTGAAATCAGCAAAGAA
*
10571834 AATCAGAACCCAATACGTTAGGGCTCAATTTTCCTCGAAAATTCCAAAACCTTGAATATTGTTTT
66 AATCAGAACCCAATACGTTAGGGCTCAATTTTCCTCGAAAATCCCAAAACCTTGAATATTGTTTT
10571899 TTATTCACAAAAACTCATGAATTGAGAAAAATTGATTTTAAGGCTTTGATAAAACCCAAAAAAAA
131 TTATTCACAAAAACTCATGAATTGAGAAAAATTGATTTTAAGGCTTTGATAAAACCCAAAAAAAA
10571964 ATTTCTAAAAGGTATGTTGAAAACCTCAATGTACAATTATGT
196 ATTTCTAAAAGGTATGTTGAAAACCTCAATGTACAATTATGT
10572006 ATGATTTTTGGTGCTCGTGTATTTAAAATAAAGAATATCCTCGGTAATTTGAAATCAGCAAAGAA
1 ATGATTTTTGGTGCTCGTGTATTTAAAATAAAGAATATCCTCGGTAATTTGAAATCAGCAAAGAA
10572071 AATCAGAACCCAATACGTTAGGGCTCAATTTTCCTCGAAAATCCCAAAACCTTGAATATTGTTTT
66 AATCAGAACCCAATACGTTAGGGCTCAATTTTCCTCGAAAATCCCAAAACCTTGAATATTGTTTT
10572136 TTATTCACAAAAACTCATGAATTGAGAAAAATTGATTTTAAGGCTTTGATAAAACCCAAAAAAAA
131 TTATTCACAAAAACTCATGAATTGAGAAAAATTGATTTTAAGGCTTTGATAAAACCCAAAAAAAA
10572201 ATTTTCTAAAAGGTATGTTGAAAACCTCAATGTACAATTATGT
196 A-TTTCTAAAAGGTATGTTGAAAACCTCAATGTACAATTATGT
10572244 GGCAGATACT
Statistics
Matches: 471, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
237 430 0.91
238 41 0.09
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (237 bp):
ATGATTTTTGGTGCTCGTGTATTTAAAATAAAGAATATCCTCGGTAATTTGAAATCAGCAAAGAA
AATCAGAACCCAATACGTTAGGGCTCAATTTTCCTCGAAAATCCCAAAACCTTGAATATTGTTTT
TTATTCACAAAAACTCATGAATTGAGAAAAATTGATTTTAAGGCTTTGATAAAACCCAAAAAAAA
ATTTCTAAAAGGTATGTTGAAAACCTCAATGTACAATTATGT
Found at i:10573448 original size:15 final size:15
Alignment explanation
Indices: 10573428--10573457 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10573418 CTTTGTTTTT
10573428 GATAAAAGAAAATAA
1 GATAAAAGAAAATAA
*
10573443 GATAAAATAAAATAA
1 GATAAAAGAAAATAA
10573458 AACAAAATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (15 bp):
GATAAAAGAAAATAA
Found at i:10574360 original size:154 final size:150
Alignment explanation
Indices: 10573893--10574586 Score: 888
Period size: 154 Copynumber: 4.6 Consensus size: 150
10573883 GCCTGCTACA
* * *
10573893 AAAATAATGTAAAATAATAAAATTAAAAAATTGTAT-TTTTTTTAAATTAAT-AAA------AAA
1 AAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTTTTAAAGTAATAAAATCTGGGAAA
* * * *
10573950 AATACGAACAAATGGCCGAAATAAGGATTTTTTACTAAATTTATTTAAAAACCACATTAAATTAA
66 AATACGAACAAATGGCCGAAATAAGGGTTTTTT--TAAATTTATTTAAAAAACACACTAAATGAA
10574015 TACATTTCAAACATAATGTACT
129 TACATTTCAAACATAATGTACT
* *
10574037 AAAATAATGTAAAATAATAAAA-TACAAAAATAATATATTTTTATTGAAAGTAATAAAAT-TCGG
1 AAAATAATGTAAAATAATAAAATTA-GAAAATAGTATATTTTT-TT-AAAGTAATAAAATCT-GG
* * * *
10574100 GAAAAATACGAACAAAAGGCTGAAATAAGAGTTTTTTTAATTTTATTTAAAAAAACACACTAAAT
62 GAAAAATACGAACAAATGGCCGAAATAAGGGTTTTTTTAAATTTATTT-AAAAAACACACTAAAT
*
10574165 GGATACATTTCAAACATAATGTACT
126 GAATACATTTCAAACATAATGTACT
*
10574190 AAAATAATGTAAAATAATAAAATTAGAAAGTAGTATATTTTTTTAAAGTAATAAAATCTGGGGAC
1 AAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTTTTAAAGTAATAAAATCT-GGGA-
* * *
10574255 AAAATACGAACAAATGGCCAAAATAAGGGTTTTTTTAAAAATTTATTTAAAAAACACAGTAAATT
64 AAAATACGAACAAATGGCCGAAATAAGGGTTTTTTT--AAATTTATTTAAAAAACACACTAAATG
10574320 AATACATTTCAAACATAATGTACT
127 AATACATTTCAAACATAATGTACT
*
10574344 AAAATAATGTAAAATAATAAAA-TACGAAAATAATATATTTTTATTAAAAGTAATAAAATCCTGG
1 AAAATAATGTAAAATAATAAAATTA-GAAAATAGTATATTTTT-TT-AAAGTAATAAAAT-CTGG
* * * **
10574408 GAAAAAATACGAATAAAGGGCCGAAATAAGGGTTTTTTTTAATTTAAATAAAAAACACACTAAAT
62 G-AAAAATACGAACAAATGGCCGAAATAAGGGTTTTTTTAAATTTATTTAAAAAACACACTAAAT
* *
10574473 GAATACATTTCAAACATAGTGTATT
126 GAATACATTTCAAACATAATGTACT
* *
10574498 AAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTTTTAAAGTAATAAAATCCGGAAAA
1 AAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTTTTAAAGTAATAAAATCTGG-GAA
* *
10574563 AAATACGAACAAAGGGCTGAAATA
65 AAATACGAACAAATGGCCGAAATA
10574587 CGAACATGTT
Statistics
Matches: 485, Mismatches: 41, Indels: 41
0.86 0.07 0.07
Matches are distributed among these distances:
143 2 0.00
144 31 0.06
145 5 0.01
146 2 0.00
147 7 0.01
148 3 0.01
151 40 0.08
152 30 0.06
153 109 0.22
154 191 0.39
155 13 0.03
156 49 0.10
157 3 0.01
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.31
Consensus pattern (150 bp):
AAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTTTTAAAGTAATAAAATCTGGGAAA
AATACGAACAAATGGCCGAAATAAGGGTTTTTTTAAATTTATTTAAAAAACACACTAAATGAATA
CATTTCAAACATAATGTACT
Found at i:10574568 original size:307 final size:305
Alignment explanation
Indices: 10573893--10574575 Score: 1019
Period size: 307 Copynumber: 2.3 Consensus size: 305
10573883 GCCTGCTACA
* * *
10573893 AAAATAATGTAAAATAATAAAATTAAAAAATTGTAT-TTTTTTTAAA-T--T--AAT--AAAAAA
1 AAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTTTTAAAGTAATAAAATCGGAAAAA
* * * *
10573950 AATACGAACAAATGGCCGAAATAAGGATTTTTTACTAAATTTATTTAAAAACCACATTAAATTAA
66 AATACGAACAAATGGCCAAAATAAGGATTTTTTACAAAATTTATTTAAAAAACACAGTAAATTAA
10574015 TACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACAAAAATAATATATTTTTA
131 TACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACAAAAATAATATATTTTTA
* * *
10574080 TTGAAAGTAATAAAATTCGGGAAAAATACGAACAAAAGGCTGAAATAAGAGTTTTTTTAATTTTA
196 TTAAAAGTAATAAAATCCGGGAAAAATACGAACAAAAGGCCGAAATAAGAGTTTTTTTAATTTTA
** *
10574145 TTTAAAAAAACACACTAAATGGATACATTTCAAACATAATGTACT
261 AATAAAAAAACACACTAAATGAATACATTTCAAACATAATGTACT
* * *
10574190 AAAATAATGTAAAATAATAAAATTAGAAAGTAGTATATTTTTTTAAAGTAATAAAATCTGGGGAC
1 AAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTTTTAAAGTAATAAAATC--GGAAA
*
10574255 AAAATACGAACAAATGGCCAAAATAAGGGTTTTTTTA-AAAATTTATTTAAAAAACACAGTAAAT
64 AAAATACGAACAAATGGCCAAAATAA-GGATTTTTTACAAAATTTATTTAAAAAACACAGTAAAT
*
10574319 TAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAATAATATATTT
128 TAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACAAAAATAATATATTT
* * *
10574384 TTATTAAAAGTAATAAAATCCTGGGAAAAAATACGAATAAAGGGCCGAAATAAGGGTTTTTTTTA
193 TTATTAAAAGTAATAAAATCC-GGG-AAAAATACGAACAAAAGGCCGAAATAAGAG-TTTTTTTA
* *
10574449 A-TTTAAAT-AAAAAACACACTAAATGAATACATTTCAAACATAGTGTATT
255 ATTTTAAATAAAAAAACACACTAAATGAATACATTTCAAACATAATGTACT
10574498 AAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTTTTAAAGTAATAAAATCCGGAAAA
1 AAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTTTTAAAGTAATAAAAT-CGGAAAA
10574563 AAATACGAACAAA
65 AAATACGAACAAA
10574576 GGGCTGAAAT
Statistics
Matches: 345, Mismatches: 26, Indels: 20
0.88 0.07 0.05
Matches are distributed among these distances:
297 33 0.10
298 10 0.03
299 1 0.00
301 1 0.00
303 3 0.01
307 150 0.43
308 106 0.31
309 32 0.09
310 9 0.03
ACGTcount: A:0.52, C:0.08, G:0.10, T:0.31
Consensus pattern (305 bp):
AAAATAATGTAAAATAATAAAATTAGAAAATAGTATATTTTTTTAAAGTAATAAAATCGGAAAAA
AATACGAACAAATGGCCAAAATAAGGATTTTTTACAAAATTTATTTAAAAAACACAGTAAATTAA
TACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACAAAAATAATATATTTTTA
TTAAAAGTAATAAAATCCGGGAAAAATACGAACAAAAGGCCGAAATAAGAGTTTTTTTAATTTTA
AATAAAAAAACACACTAAATGAATACATTTCAAACATAATGTACT
Found at i:10577105 original size:18 final size:18
Alignment explanation
Indices: 10577087--10577120 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10577077 TGATGGATAT
10577087 TTTA-TATTTGAAATTTA
1 TTTAGTATTTGAAATTTA
*
10577104 TTTAGTATTTGATATTT
1 TTTAGTATTTGAAATTT
10577121 GTAAACATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (18 bp):
TTTAGTATTTGAAATTTA
Found at i:10579308 original size:31 final size:31
Alignment explanation
Indices: 10579273--10579332 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
10579263 CAAAACTTGG
*
10579273 AAAGTACAGAGACTAAATTTTACCAATTTGA
1 AAAGTACAGAGACTAAAATTTACCAATTTGA
* * *
10579304 AAAGTACAGGGATTAAAATTTATCAATTT
1 AAAGTACAGAGACTAAAATTTACCAATTT
10579333 AAATTATATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.32
Consensus pattern (31 bp):
AAAGTACAGAGACTAAAATTTACCAATTTGA
Found at i:10580913 original size:25 final size:25
Alignment explanation
Indices: 10580885--10580932 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
10580875 ACATATCGCA
*
10580885 GCTCTTTATGAGCGTCCTGATATAG
1 GCTCTTTATGAGCGTCCTAATATAG
* *
10580910 GCTCTTTGTGAGCTTCCTAATAT
1 GCTCTTTATGAGCGTCCTAATAT
10580933 GTCTCACTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.40
Consensus pattern (25 bp):
GCTCTTTATGAGCGTCCTAATATAG
Found at i:10582637 original size:34 final size:34
Alignment explanation
Indices: 10582589--10582656 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
10582579 TTTAGTCACT
10582589 CAAGCGTTAAATCTCTAATGACAGTGGACTGTAC
1 CAAGCGTTAAATCTCTAATGACAGTGGACTGTAC
* * *
10582623 CAAGTGTTAAATCTCTAATGACGGTTGACTGTAC
1 CAAGCGTTAAATCTCTAATGACAGTGGACTGTAC
10582657 ATGCTGCATC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (34 bp):
CAAGCGTTAAATCTCTAATGACAGTGGACTGTAC
Found at i:10583553 original size:15 final size:15
Alignment explanation
Indices: 10583535--10583596 Score: 76
Period size: 15 Copynumber: 4.3 Consensus size: 15
10583525 CAAGTTACAG
10583535 AAACCCAACTAGCCT
1 AAACCCAACTAGCCT
*
10583550 AAACCCAATTAGCCT
1 AAACCCAACTAGCCT
*
10583565 AAGCCCAA-TA-CCT
1 AAACCCAACTAGCCT
*
10583578 -AGCCCAACTAGCCT
1 AAACCCAACTAGCCT
10583592 AAACC
1 AAACC
10583597 AGAAATCAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
12 7 0.17
13 5 0.12
14 5 0.12
15 24 0.59
ACGTcount: A:0.39, C:0.39, G:0.08, T:0.15
Consensus pattern (15 bp):
AAACCCAACTAGCCT
Found at i:10587377 original size:22 final size:22
Alignment explanation
Indices: 10587349--10587393 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
10587339 CTTCAATGTT
**
10587349 TAGTTTGGTACTTAAGTTTTTC
1 TAGTTTGACACTTAAGTTTTTC
*
10587371 TAGTTTGACACTTGAGTTTTTC
1 TAGTTTGACACTTAAGTTTTTC
10587393 T
1 T
10587394 TTATCCCATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.53
Consensus pattern (22 bp):
TAGTTTGACACTTAAGTTTTTC
Found at i:10588505 original size:16 final size:17
Alignment explanation
Indices: 10588470--10588503 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
10588460 TATATTTAAT
10588470 ATATATTTGATTAAAAA
1 ATATATTTGATTAAAAA
10588487 ATATATTTGATTAAAAA
1 ATATATTTGATTAAAAA
10588504 TAAAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
ATATATTTGATTAAAAA
Found at i:10591043 original size:16 final size:16
Alignment explanation
Indices: 10591002--10591044 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
10590992 ATTTTTCATC
10591002 CTTCCAGTTTTCCACCT
1 CTTCCA-TTTTCCACCT
* *
10591019 CTTCAATTTTCCATCT
1 CTTCCATTTTCCACCT
*
10591035 TTTCCATTTT
1 CTTCCATTTT
10591045 TTCCCTTCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.14, C:0.33, G:0.02, T:0.51
Consensus pattern (16 bp):
CTTCCATTTTCCACCT
Found at i:10596724 original size:88 final size:90
Alignment explanation
Indices: 10596578--10596744 Score: 284
Period size: 88 Copynumber: 1.9 Consensus size: 90
10596568 GTAATGAATG
* *
10596578 GTTGACTTGCTCAACCTCACTCCAAGAGGAATGCCATTAGTGCAAAATTGCTATTTTTTAACTGA
1 GTTGACTTGCTCAACCTCACTCCAAGAGGAATGCCATTAGTGCAAAATTGCCAGTTTTTAACTGA
10596643 ATTT-ATCACCTCCGAGTCTTTGAA
66 ATTTGATCACCTCCGAGTCTTTGAA
* *
10596667 GTTGACTTGCTCAACCTCACTCC-AGAGGAATGTCATTAGTGCAAATTTGCCAGTTTTTAACTGA
1 GTTGACTTGCTCAACCTCACTCCAAGAGGAATGCCATTAGTGCAAAATTGCCAGTTTTTAACTGA
10596731 ATTTGATCACCTCC
66 ATTTGATCACCTCC
10596745 AGTGTACTGT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
88 41 0.56
89 32 0.44
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (90 bp):
GTTGACTTGCTCAACCTCACTCCAAGAGGAATGCCATTAGTGCAAAATTGCCAGTTTTTAACTGA
ATTTGATCACCTCCGAGTCTTTGAA
Found at i:10607115 original size:6 final size:6
Alignment explanation
Indices: 10607106--10607131 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
10607096 GTGTTGGTGG
10607106 CACTGC CACTGC CACTGC CACTGC CA
1 CACTGC CACTGC CACTGC CACTGC CA
10607132 TTTCTGGTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.19, C:0.50, G:0.15, T:0.15
Consensus pattern (6 bp):
CACTGC
Found at i:10620532 original size:41 final size:42
Alignment explanation
Indices: 10620461--10620548 Score: 115
Period size: 41 Copynumber: 2.1 Consensus size: 42
10620451 TCCTACAAAC
* * *
10620461 GCCGCAAAAGTTAAAGCAATAGCG-GGGTTTTGCCCATAAAT
1 GCCGCAAAAGGTAAAGCAATAGCGACGTTTTTGCCCATAAAT
* *
10620502 GCCGCAAAAGGTAAAGCAATAGTGACGTTTTTTCCCATAAAT
1 GCCGCAAAAGGTAAAGCAATAGCGACGTTTTTGCCCATAAAT
*
10620544 ACCGC
1 GCCGC
10620549 TAATTTATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
41 22 0.55
42 18 0.45
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.23
Consensus pattern (42 bp):
GCCGCAAAAGGTAAAGCAATAGCGACGTTTTTGCCCATAAAT
Found at i:10630797 original size:32 final size:32
Alignment explanation
Indices: 10630761--10630839 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 32
10630751 ACAACTTTTT
** ** *
10630761 CAGAAAATATTTTCAGGGAATCTGTCAAACAG
1 CAGAAAATATTTTCACAGAATCAATCAAACAC
*
10630793 CAGAAAATATTTTACACAGATTCAATCAAACAC
1 CAGAAAATATTTT-CACAGAATCAATCAAACAC
10630826 CAGAAAATATTTTC
1 CAGAAAATATTTTC
10630840 CAGTAAATCA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
32 14 0.35
33 26 0.65
ACGTcount: A:0.44, C:0.18, G:0.11, T:0.27
Consensus pattern (32 bp):
CAGAAAATATTTTCACAGAATCAATCAAACAC
Found at i:10630847 original size:14 final size:15
Alignment explanation
Indices: 10630825--10630901 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
10630815 CAATCAAACA
10630825 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
10630839 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
10630854 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
10630874 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
10630888 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
10630902 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:10630866 original size:20 final size:20
Alignment explanation
Indices: 10630841--10630880 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10630831 AATATTTTCC
*
10630841 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
10630861 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
10630881 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:10630886 original size:34 final size:35
Alignment explanation
Indices: 10630829--10630895 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
10630819 CAAACACCAG
*
10630829 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
10630864 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
10630896 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:10631286 original size:37 final size:37
Alignment explanation
Indices: 10631237--10631311 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 37
10631227 CTTTGAGAGT
*
10631237 GTTGAATCTTAAG-GTTTGGGTAGAAAC-CTTAAGGGA
1 GTTGAATATTAAGAGTTTGGGTAG-AACTCTTAAGGGA
*
10631273 GTTGCAATATTAAGATTTTGGGTAGAACTCTTAAGGGA
1 GTTG-AATATTAAGAGTTTGGGTAGAACTCTTAAGGGA
10631311 G
1 G
10631312 ATTGTAAGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 4 0.12
37 11 0.32
38 19 0.56
ACGTcount: A:0.31, C:0.08, G:0.29, T:0.32
Consensus pattern (37 bp):
GTTGAATATTAAGAGTTTGGGTAGAACTCTTAAGGGA
Found at i:10633127 original size:25 final size:25
Alignment explanation
Indices: 10633098--10633156 Score: 86
Period size: 23 Copynumber: 2.4 Consensus size: 25
10633088 TTTATATATT
10633098 AAATATATATTTTTTATTTTTAATC
1 AAATATATATTTTTTATTTTTAATC
*
10633123 AAATATATA--TTTTATTTTTAATT
1 AAATATATATTTTTTATTTTTAATC
*
10633146 TAATATATATT
1 AAATATATATT
10633157 ATATATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 21 0.70
25 9 0.30
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (25 bp):
AAATATATATTTTTTATTTTTAATC
Found at i:10634203 original size:20 final size:20
Alignment explanation
Indices: 10634145--10634205 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
10634135 AAAATGATAA
*
10634145 AATCAAGTTAAAA-TGGTTTC
1 AATCAAGTTAAAACT-GTTTT
**
10634165 AATTGAGTT-AAACAT-TTTT
1 AATCAAGTTAAAAC-TGTTTT
10634184 AATCAAGTTAAAACTGTTTT
1 AATCAAGTTAAAACTGTTTT
10634204 AA
1 AA
10634206 AACAAGTCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
19 14 0.44
20 17 0.53
21 1 0.03
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.39
Consensus pattern (20 bp):
AATCAAGTTAAAACTGTTTT
Found at i:10636207 original size:43 final size:43
Alignment explanation
Indices: 10636160--10636242 Score: 157
Period size: 43 Copynumber: 1.9 Consensus size: 43
10636150 CTTGTTAATT
*
10636160 TTATTAGTAATTGTATTATCAAATACTTGTTTGGATCAACATA
1 TTATTAGTAATCGTATTATCAAATACTTGTTTGGATCAACATA
10636203 TTATTAGTAATCGTATTATCAAATACTTGTTTGGATCAAC
1 TTATTAGTAATCGTATTATCAAATACTTGTTTGGATCAAC
10636243 CATTAATGAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (43 bp):
TTATTAGTAATCGTATTATCAAATACTTGTTTGGATCAACATA
Found at i:10636537 original size:21 final size:22
Alignment explanation
Indices: 10636500--10636547 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
10636490 ATTTTACTTG
10636500 AAAT-AATATTATCTATACAT-
1 AAATAAATATTATCTATACATC
10636520 AAATAAATAATTAT-TATACATC
1 AAATAAAT-ATTATCTATACATC
10636542 AAATAA
1 AAATAA
10636548 TTTTATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.16
21 10 0.40
22 11 0.44
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATAAATATTATCTATACATC
Found at i:10636629 original size:2 final size:2
Alignment explanation
Indices: 10636624--10636671 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
10636614 AAATATTAAT
10636624 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
10636666 GA GA GA
1 GA GA GA
10636672 CGCTCGATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:10637023 original size:12 final size:12
Alignment explanation
Indices: 10637008--10637046 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
10636998 AAAAATAAAA
10637008 TAAAATTATTTT
1 TAAAATTATTTT
10637020 T-AAA--A-TTT
1 TAAAATTATTTT
10637028 TAAAATTATTTT
1 TAAAATTATTTT
10637040 TAAAATT
1 TAAAATT
10637047 TTAAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
8 4 0.17
9 4 0.17
11 4 0.17
12 11 0.48
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TAAAATTATTTT
Found at i:10637030 original size:8 final size:8
Alignment explanation
Indices: 10637017--10637105 Score: 52
Period size: 8 Copynumber: 10.0 Consensus size: 8
10637007 ATAAAATTAT
10637017 TTTTAAAA
1 TTTTAAAA
10637025 TTTTAAAATTA
1 TTTT-AAA--A
10637036 TTTTTAAAA
1 -TTTTAAAA
10637045 TTTTAAAATA
1 TTTT-AAA-A
10637055 TTTATAAAA
1 TTT-TAAAA
* *
10637064 ATTTCAAA
1 TTTTAAAA
* *
10637072 TTTTATAT
1 TTTTAAAA
10637080 TTTTAGAAAA
1 TTTT--AAAA
*
10637090 TTATAAAA
1 TTTTAAAA
10637098 TTTTAAAA
1 TTTTAAAA
10637106 AATTCTAAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
8 31 0.50
9 10 0.16
10 12 0.19
11 5 0.08
12 4 0.06
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (8 bp):
TTTTAAAA
Found at i:10637056 original size:19 final size:20
Alignment explanation
Indices: 10637008--10637073 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
10636998 AAAAATAAAA
10637008 TAAAATTATTTTTAAAATTT
1 TAAAATTATTTTTAAAATTT
10637028 TAAAATTATTTTTAAAATTT
1 TAAAATTATTTTTAAAATTT
* *
10637048 TAAAA-TATTTATAAAAATT
1 TAAAATTATTTTTAAAATTT
*
10637067 TCAAATT
1 TAAAATT
10637074 TTATATTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
19 16 0.38
20 26 0.62
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
TAAAATTATTTTTAAAATTT
Found at i:10637067 original size:10 final size:9
Alignment explanation
Indices: 10637015--10637149 Score: 64
Period size: 9 Copynumber: 14.6 Consensus size: 9
10637005 AAATAAAATT
*
10637015 ATTTTTAAA
1 ATTTTAAAA
10637024 ATTTTAAAA
1 ATTTTAAAA
*
10637033 TTATTTTTAAA
1 --ATTTTAAAA
10637044 ATTTTAAAA
1 ATTTTAAAA
10637053 TATTTATAAAA
1 -ATTT-TAAAA
*
10637064 A-TTT-CAA
1 ATTTTAAAA
*
10637071 ATTTT-ATA
1 ATTTTAAAA
*
10637079 TTTTTAGAAA
1 ATTTTA-AAA
*
10637089 ATTAT-AAA
1 ATTTTAAAA
10637097 ATTTTAAAAA
1 ATTTT-AAAA
*
10637107 ATTCTAAAAA
1 ATT-TTAAAA
*
10637117 ATATATAAAGA
1 AT-TTTAAA-A
**
10637128 AAATT-AAA
1 ATTTTAAAA
10637136 ATTTTAAAA
1 ATTTTAAAA
10637145 ATTTT
1 ATTTT
10637150 CTAAAATAAT
Statistics
Matches: 94, Mismatches: 19, Indels: 26
0.68 0.14 0.19
Matches are distributed among these distances:
7 3 0.03
8 20 0.21
9 28 0.30
10 26 0.28
11 17 0.18
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:10637538 original size:20 final size:19
Alignment explanation
Indices: 10637510--10637572 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
10637500 TCAACAAAAA
10637510 TTATAAAAAATTCAAAATAAT
1 TTAT-AAAAATTCAAAAT-AT
*
10637531 TT-TCAAAAATTTAAAATAT
1 TTAT-AAAAATTCAAAATAT
*
10637550 TTATAAAAATTCCAAA-AT
1 TTATAAAAATTCAAAATAT
10637568 TTATA
1 TTATA
10637573 TTTTTAGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 7 0.19
19 14 0.38
20 14 0.38
21 2 0.05
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (19 bp):
TTATAAAAATTCAAAATAT
Found at i:10637551 original size:19 final size:20
Alignment explanation
Indices: 10637510--10637567 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
10637500 TCAACAAAAA
10637510 TTATAAAAAATTCAAAATAAT
1 TTAT-AAAAATTCAAAATAAT
*
10637531 TT-TCAAAAATTTAAAAT-AT
1 TTAT-AAAAATTCAAAATAAT
10637550 TTATAAAAATTCCAAAAT
1 TTATAAAAATT-CAAAAT
10637568 TTATATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
19 11 0.34
20 19 0.59
21 2 0.06
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (20 bp):
TTATAAAAATTCAAAATAAT
Found at i:10647137 original size:18 final size:18
Alignment explanation
Indices: 10647104--10647161 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 18
10647094 AAGGTTTTCT
10647104 TATTGATGATA-T--CGA
1 TATTGATGATAGTGACGA
10647119 TATTGATGATAGTGACGA
1 TATTGATGATAGTGACGA
* *
10647137 TATTGATGCTAGTGACGC
1 TATTGATGATAGTGACGA
10647155 TATTGAT
1 TATTGAT
10647162 AGTGACCTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
15 11 0.29
16 1 0.03
18 26 0.68
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (18 bp):
TATTGATGATAGTGACGA
Found at i:10647166 original size:15 final size:15
Alignment explanation
Indices: 10647125--10647167 Score: 50
Period size: 18 Copynumber: 2.7 Consensus size: 15
10647115 TCGATATTGA
10647125 TGATAGTGACGATAT
1 TGATAGTGACGATAT
*
10647140 TGATGCTAGTGACGCTAT
1 TGA---TAGTGACGATAT
10647158 TGATAGTGAC
1 TGATAGTGAC
10647168 CTTGATACGG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
15 10 0.42
18 14 0.58
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.33
Consensus pattern (15 bp):
TGATAGTGACGATAT
Found at i:10647852 original size:147 final size:147
Alignment explanation
Indices: 10647585--10647862 Score: 529
Period size: 147 Copynumber: 1.9 Consensus size: 147
10647575 TACTAATGGA
10647585 TTCGGGTCCATAACCGTGGGTTCCAATGCACGAGATCTTGTAGCACTTACCAATGAGGCCCTATC
1 TTCGGGTCCATAACCGTGGGTTCCAATGCACGAGATCTTGTAGCACTTACCAATGAGGCCCTATC
*
10647650 GATTAGTATTACACAGAAGAAATCAATTATAGACACTAATACAATTAGATCTGCTCTTCATAGAC
66 GATTAGTATTACACAAAAGAAATCAATTATAGACACTAATACAATTAGATCTGCTCTTCATAGAC
10647715 AGCAATTAAATCTGCTC
131 AGCAATTAAATCTGCTC
*
10647732 TTCGGGTCCATAACCGTGGGTTCCAATGCAGGAGATCTTGTAGCACTTACCAATGAGGCCCTATC
1 TTCGGGTCCATAACCGTGGGTTCCAATGCACGAGATCTTGTAGCACTTACCAATGAGGCCCTATC
*
10647797 GATTAGTATTACACAAAAGAAATCAATTATAGACACTAATACAATTAGATCTGCTCTTCCTAGAC
66 GATTAGTATTACACAAAAGAAATCAATTATAGACACTAATACAATTAGATCTGCTCTTCATAGAC
10647862 A
131 A
10647863 AACTTGGGAT
Statistics
Matches: 128, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
147 128 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (147 bp):
TTCGGGTCCATAACCGTGGGTTCCAATGCACGAGATCTTGTAGCACTTACCAATGAGGCCCTATC
GATTAGTATTACACAAAAGAAATCAATTATAGACACTAATACAATTAGATCTGCTCTTCATAGAC
AGCAATTAAATCTGCTC
Found at i:10649256 original size:15 final size:15
Alignment explanation
Indices: 10649236--10649268 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
10649226 TATGGGTTCT
10649236 TTTACTTCATTT-TTA
1 TTTACTT-ATTTATTA
10649251 TTTACTTATTTATTA
1 TTTACTTATTTATTA
10649266 TTT
1 TTT
10649269 TTATTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTACTTATTTATTA
Found at i:10649821 original size:18 final size:18
Alignment explanation
Indices: 10649798--10649834 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10649788 AGCTCTTTTC
10649798 TTTCTATTATATCAGTAT
1 TTTCTATTATATCAGTAT
* *
10649816 TTTCTATTCTATTAGTAT
1 TTTCTATTATATCAGTAT
10649834 T
1 T
10649835 ACATTAGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.11, G:0.05, T:0.59
Consensus pattern (18 bp):
TTTCTATTATATCAGTAT
Found at i:10649863 original size:6 final size:6
Alignment explanation
Indices: 10649852--10649895 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
10649842 TATTTTGTTC
10649852 TATTAG TATTAG -ATTAG TATTAG --TTAG -ATTAG -ATTAG TATTAG
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
10649895 T
1 T
10649896 TAGTGATCTC
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
4 4 0.11
5 14 0.40
6 17 0.49
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (6 bp):
TATTAG
Found at i:10649869 original size:11 final size:11
Alignment explanation
Indices: 10649853--10649899 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
10649843 ATTTTGTTCT
10649853 ATTAGTATTAG
1 ATTAGTATTAG
10649864 ATTAGTATTAG
1 ATTAGTATTAG
10649875 -TTAG-ATTAG
1 ATTAGTATTAG
10649884 ATTAGTATTAG
1 ATTAGTATTAG
10649895 -TTAGT
1 ATTAGT
10649900 GATCTCGGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.15
10 13 0.38
11 16 0.47
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (11 bp):
ATTAGTATTAG
Found at i:10649884 original size:20 final size:21
Alignment explanation
Indices: 10649854--10649899 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
10649844 TTTTGTTCTA
10649854 TTAGTATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
10649875 TTAG-ATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
10649895 TTAGT
1 TTAGT
10649900 GATCTCGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (21 bp):
TTAGTATTAGATTAGTATTAG
Found at i:10649898 original size:15 final size:14
Alignment explanation
Indices: 10649860--10649889 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
10649850 TCTATTAGTA
10649860 TTAGATTAGTATTAG
1 TTAGATTAG-ATTAG
10649875 TTAGATTAGATTAG
1 TTAGATTAGATTAG
10649889 T
1 T
10649890 ATTAGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (14 bp):
TTAGATTAGATTAG
Found at i:10651224 original size:5 final size:6
Alignment explanation
Indices: 10651209--10651242 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
10651199 AAAGAGAGAA
*
10651209 AAAAAT AAAAAT AAAAAC AAAAAT AGAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT A-AAAAT AAA
10651243 TAATTTAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:10651489 original size:39 final size:39
Alignment explanation
Indices: 10651435--10651534 Score: 182
Period size: 39 Copynumber: 2.6 Consensus size: 39
10651425 TGTCAGCAAG
10651435 TCGCGTCCACGTCAGCGCGATTACTTACATGGCAACAAA
1 TCGCGTCCACGTCAGCGCGATTACTTACATGGCAACAAA
10651474 TCGCGTCCACGTCAGCGCGATTACTTACATGGCAACAAA
1 TCGCGTCCACGTCAGCGCGATTACTTACATGGCAACAAA
* *
10651513 TCGCGTCCACGTAAGCACGATT
1 TCGCGTCCACGTCAGCGCGATT
10651535 TGCTGACGTG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 59 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.21
Consensus pattern (39 bp):
TCGCGTCCACGTCAGCGCGATTACTTACATGGCAACAAA
Found at i:10660482 original size:37 final size:41
Alignment explanation
Indices: 10660392--10660491 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 41
10660382 AACACACCAG
* * *
10660392 TTTGGCACCTAGTGCCTCATC-AGATAATTCGAAGTAATAA
1 TTTGGCACCCAGTGCCTCATCGACAAAATTCGAAGTAATAA
*
10660432 TTTGGCACCCAGTGTCTCATCGACAAAATT-GAAGT-A-AA
1 TTTGGCACCCAGTGCCTCATCGACAAAATTCGAAGTAATAA
10660470 -TTGGCACCCAGTGCCTCATCGA
1 TTTGGCACCCAGTGCCTCATCGA
10660492 ATTAATCTGA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
37 21 0.39
38 2 0.04
39 1 0.02
40 24 0.44
41 6 0.11
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (41 bp):
TTTGGCACCCAGTGCCTCATCGACAAAATTCGAAGTAATAA
Found at i:10660702 original size:24 final size:24
Alignment explanation
Indices: 10660675--10660721 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
10660665 TATATATACC
10660675 AATTCAATCA-ATA-TAAATTCAATA
1 AATTC-ATCACATACTAAA-TCAATA
10660699 AATTCATCACATACTAAATCAAT
1 AATTCATCACATACTAAATCAAT
10660722 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCATCACATACTAAATCAATA
Found at i:10662062 original size:24 final size:22
Alignment explanation
Indices: 10662031--10662075 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
10662021 CTTTATTTCT
10662031 TTTCTTTCTTTCTTTTCTTTTTG
1 TTTCTTTCTTTC-TTTCTTTTTG
10662054 TTTCGTTTCTTTCTTTCTTTTT
1 TTTC-TTTCTTTCTTTCTTTTT
10662076 ATTTATTCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.00, C:0.18, G:0.04, T:0.78
Consensus pattern (22 bp):
TTTCTTTCTTTCTTTCTTTTTG
Found at i:10662105 original size:5 final size:5
Alignment explanation
Indices: 10662097--10662140 Score: 88
Period size: 5 Copynumber: 8.8 Consensus size: 5
10662087 ATTTTATCAT
10662097 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATA
10662141 CTTAATAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:10663716 original size:18 final size:18
Alignment explanation
Indices: 10663671--10663718 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
10663661 ACTCTGTAAT
* *
10663671 TAGTTTAAACTTAAACTT
1 TAGTTTAAATTTAAACTC
*
10663689 TAGTTTAAATTTAATCTC
1 TAGTTTAAATTTAAACTC
10663707 TAGTTTAAATTT
1 TAGTTTAAATTT
10663719 GATTTTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.50
Consensus pattern (18 bp):
TAGTTTAAATTTAAACTC
Found at i:10663754 original size:23 final size:23
Alignment explanation
Indices: 10663735--10663779 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
10663725 TAAATTTTGT
10663735 ATTATTTAGTGATAATATTTAGA
1 ATTATTTAGTGATAATATTTAGA
10663758 ATTATTTAGTGATAATATTTAG
1 ATTATTTAGTGATAATATTTAG
10663780 GAAAAATCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (23 bp):
ATTATTTAGTGATAATATTTAGA
Found at i:10663755 original size:13 final size:13
Alignment explanation
Indices: 10663737--10663779 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
10663727 AATTTTGTAT
10663737 TATTTAGTGATAA
1 TATTTAGTGATAA
*
10663750 TATTTA--GA-AT
1 TATTTAGTGATAA
10663760 TATTTAGTGATAA
1 TATTTAGTGATAA
10663773 TATTTAG
1 TATTTAG
10663780 GAAAAATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
12 2 0.08
13 14 0.56
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:10665886 original size:8 final size:9
Alignment explanation
Indices: 10665831--10665893 Score: 58
Period size: 9 Copynumber: 6.9 Consensus size: 9
10665821 AAATAAAAAG
10665831 AGAAAG-AA
1 AGAAAGAAA
*
10665839 AGAAACAAA
1 AGAAAGAAA
10665848 ACGAAACGAAA
1 A-GAAA-GAAA
* *
10665859 CTGAAAGGAA
1 -AGAAAGAAA
10665869 AGAAAGAAA
1 AGAAAGAAA
10665878 AGAAA-AAA
1 AGAAAGAAA
10665886 AGAAAGAA
1 AGAAAGAA
10665894 GAAATGCAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
8 13 0.30
9 17 0.39
10 7 0.16
11 7 0.16
ACGTcount: A:0.71, C:0.06, G:0.21, T:0.02
Consensus pattern (9 bp):
AGAAAGAAA
Found at i:10666765 original size:41 final size:39
Alignment explanation
Indices: 10666717--10666829 Score: 131
Period size: 37 Copynumber: 2.9 Consensus size: 39
10666707 CTTCGACTTC
* *
10666717 AAGTCGATGAGACACTGGGTTTCAATTTACTACTTCGGATT
1 AAGTCGATGAGACATTGGGTGTCAATTTA-TACTTCGG-TT
* * *
10666758 AATTCGATGAGGCATTGGGTGCCAA-TT-TACTTCGGTT
1 AAGTCGATGAGACATTGGGTGTCAATTTATACTTCGGTT
*
10666795 TAGTCGATGAGACATTGGGTGTCAATTTATTACTT
1 AAGTCGATGAGACATTGGGTGTCAATTTA-TACTT
10666830 TAAATTATCC
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
37 23 0.38
38 10 0.17
40 7 0.12
41 20 0.33
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (39 bp):
AAGTCGATGAGACATTGGGTGTCAATTTATACTTCGGTT
Found at i:10669923 original size:18 final size:18
Alignment explanation
Indices: 10669900--10669945 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
10669890 GTGTGGAAAA
*
10669900 AGGATACATATAAGGGTT
1 AGGATACACATAAGGGTT
10669918 AGGATACACATAAGGGTT
1 AGGATACACATAAGGGTT
*
10669936 AAGATACACA
1 AGGATACACA
10669946 CTTGACATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (18 bp):
AGGATACACATAAGGGTT
Found at i:10677633 original size:17 final size:17
Alignment explanation
Indices: 10677611--10677645 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
10677601 GAGATTACTA
*
10677611 TGTGTCATTATATTATT
1 TGTGTCATTATACTATT
10677628 TGTGTCATTATACTATT
1 TGTGTCATTATACTATT
10677645 T
1 T
10677646 ATCGCCAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.23, C:0.09, G:0.11, T:0.57
Consensus pattern (17 bp):
TGTGTCATTATACTATT
Found at i:10677844 original size:26 final size:29
Alignment explanation
Indices: 10677808--10677873 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 29
10677798 TTAAAAAATA
10677808 ACCAAAATATTAT-A-ACTTTT-TTATTT
1 ACCAAAATATTATAATACTTTTATTATTT
*
10677834 ACCAAAATATTATAATTATTTTTATTATTT
1 ACCAAAATATTATAA-TACTTTTATTATTT
10677864 ACCAAAATAT
1 ACCAAAATAT
10677874 ATCAAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
26 13 0.37
27 1 0.03
29 5 0.14
30 16 0.46
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (29 bp):
ACCAAAATATTATAATACTTTTATTATTT
Found at i:10678035 original size:22 final size:22
Alignment explanation
Indices: 10678010--10678074 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
10678000 TGGGGGGGAG
**
10678010 AAGGAGAGGGAAGAAAGAAAGA
1 AAGGAGAGCAAAGAAAGAAAGA
*
10678032 AAGGAGAGCAAAGAAAGAAAAA
1 AAGGAGAGCAAAGAAAGAAAGA
* *
10678054 GAAGGAAAGAAAAGGAAAGAA
1 -AAGGAGAGCAAA-GAAAGAA
10678075 GAAGAAGAGG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
22 19 0.53
23 10 0.28
24 7 0.19
ACGTcount: A:0.65, C:0.02, G:0.34, T:0.00
Consensus pattern (22 bp):
AAGGAGAGCAAAGAAAGAAAGA
Found at i:10678062 original size:18 final size:18
Alignment explanation
Indices: 10678022--10678065 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
10678012 GGAGAGGGAA
*
10678022 GAAAGAAAGAAAGGAGAG
1 GAAAGAAAGAAAAGAGAG
*
10678040 CAAAGAAAGAAAA-AGAAG
1 GAAAGAAAGAAAAGAG-AG
10678058 GAAAGAAA
1 GAAAGAAA
10678066 AGGAAAGAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 2 0.09
18 20 0.91
ACGTcount: A:0.68, C:0.02, G:0.30, T:0.00
Consensus pattern (18 bp):
GAAAGAAAGAAAAGAGAG
Found at i:10678074 original size:42 final size:42
Alignment explanation
Indices: 10678022--10678119 Score: 106
Period size: 42 Copynumber: 2.2 Consensus size: 42
10678012 GGAGAGGGAA
*
10678022 GAAAGAAAGAAAGGAGAGCAAAGAAAGAAAAAGAAGGAAAGAAAAG
1 GAAAG-AAG-AAGAAGAGCAAAG-AAGAAAAA-AAGGAAAGAAAAG
* * * *
10678068 GAAAGAAGAAGAAGAGGAAAGGAGAAGAAAATGAAAGAAAAG
1 GAAAGAAGAAGAAGAGCAAAGAAGAAAAAAAGGAAAGAAAAG
*
10678110 GAAAGGAGAA
1 GAAAGAAGAA
10678120 AGAAAAAAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 21 0.46
43 6 0.13
44 11 0.24
45 3 0.07
46 5 0.11
ACGTcount: A:0.65, C:0.01, G:0.33, T:0.01
Consensus pattern (42 bp):
GAAAGAAGAAGAAGAGCAAAGAAGAAAAAAAGGAAAGAAAAG
Found at i:10678141 original size:60 final size:54
Alignment explanation
Indices: 10678030--10678174 Score: 146
Period size: 60 Copynumber: 2.5 Consensus size: 54
10678020 AAGAAAGAAA
* **
10678030 GAAAGGAGAGCAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGAAGAAGAAGAG
1 GAAAGGAGAGAAAAGAAAGAAAAAGAAGGAAAGAAAAAAAAAGAAGAAGAAGAG
*
10678084 GAAAGGAGAAGAAAATGAAAGAAAAGGAAAGGAGAAAGAAAAAAAGAAGAAGAAGAAGAG
1 GAAAGGAG-AGAAAA-GAAAGAAAAAG-AA-G-GAAAGAAAAAAA-AAGAAGAAGAAGAG
* * * *
10678144 GGAAGGAAGGAAAAAAAAAAGAAAAAAAAGG
1 GAAAGG-A-GAGAAAAGAAAGAAAAAGAAGG
10678175 TAATTTTTTA
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
54 8 0.11
55 5 0.07
56 10 0.14
57 3 0.04
58 2 0.03
59 12 0.16
60 27 0.36
61 6 0.08
62 1 0.01
ACGTcount: A:0.67, C:0.01, G:0.32, T:0.01
Consensus pattern (54 bp):
GAAAGGAGAGAAAAGAAAGAAAAAGAAGGAAAGAAAAAAAAAGAAGAAGAAGAG
Found at i:10678166 original size:32 final size:32
Alignment explanation
Indices: 10678054--10678166 Score: 87
Period size: 32 Copynumber: 3.6 Consensus size: 32
10678044 GAAAGAAAAA
*
10678054 GAAGGAAAGAAAAGGAAAGAAGAAGAAGAGGAAAG
1 GAAGGAAA-AAAA--AAAGAAGAAGAAGAGGGAAG
*
10678089 G-A-GAAGAAAATGAAAGAA-AAGGAA-A-GG-A-
1 GAAGGAA-AAAA-AAAAGAAGAA-GAAGAGGGAAG
* *
10678117 GAAAGAAAAAAAGAAGAAGAAGAAGAGGGAAG
1 GAAGGAAAAAAAAAAGAAGAAGAAGAGGGAAG
10678149 GAAGGAAAAAAAAAAGAA
1 GAAGGAAAAAAAAAAGAA
10678167 AAAAAAGGTA
Statistics
Matches: 62, Mismatches: 6, Indels: 23
0.68 0.07 0.25
Matches are distributed among these distances:
28 9 0.15
29 9 0.15
30 6 0.10
31 4 0.06
32 25 0.40
33 6 0.10
34 2 0.03
35 1 0.02
ACGTcount: A:0.66, C:0.00, G:0.33, T:0.01
Consensus pattern (32 bp):
GAAGGAAAAAAAAAAGAAGAAGAAGAGGGAAG
Found at i:10678600 original size:14 final size:14
Alignment explanation
Indices: 10678581--10678610 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10678571 TACTTTTTAA
*
10678581 AATAATAAAATGCG
1 AATAATAAAATACG
10678595 AATAATAAAATACG
1 AATAATAAAATACG
10678609 AA
1 AA
10678611 CAAATGGTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.07, G:0.10, T:0.20
Consensus pattern (14 bp):
AATAATAAAATACG
Found at i:10682597 original size:18 final size:18
Alignment explanation
Indices: 10682574--10682618 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
10682564 ATCCCAATGA
10682574 TCGCCACCACCTTCTTCT
1 TCGCCACCACCTTCTTCT
*
10682592 TCGCCAGCACCTTCTTCT
1 TCGCCACCACCTTCTTCT
*
10682610 TCACCACCA
1 TCGCCACCA
10682619 ACCATATCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.16, C:0.49, G:0.07, T:0.29
Consensus pattern (18 bp):
TCGCCACCACCTTCTTCT
Found at i:10683387 original size:23 final size:23
Alignment explanation
Indices: 10683342--10683387 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
10683332 TAACTAACAA
* ***
10683342 TAATAATAATACTAGTTTTTTAC
1 TAATAATAATACTACTAAGTTAC
10683365 TAATAATAATACTACTAAGTTAC
1 TAATAATAATACTACTAAGTTAC
10683388 ATCTTAATAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.41
Consensus pattern (23 bp):
TAATAATAATACTACTAAGTTAC
Found at i:10683579 original size:11 final size:11
Alignment explanation
Indices: 10683559--10683598 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
10683549 TAAAAAATAC
10683559 CTTCTTTTTCT
1 CTTCTTTTTCT
*
10683570 CTTCTCTTTCT
1 CTTCTTTTTCT
10683581 C-TCTTTTTCT
1 CTTCTTTTTCT
*
10683591 TTTCTTTT
1 CTTCTTTT
10683599 CCGCAACACC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 8 0.32
11 17 0.68
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (11 bp):
CTTCTTTTTCT
Found at i:10683586 original size:21 final size:20
Alignment explanation
Indices: 10683561--10683599 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
10683551 AAAAATACCT
10683561 TCTTTTTCTCTTCTCTTTCTC
1 TCTTTTTCTCTTCT-TTTCTC
*
10683582 TCTTTTTCTTTTCTTTTC
1 TCTTTTTCTCTTCTTTTC
10683600 CGCAACACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (20 bp):
TCTTTTTCTCTTCTTTTCTC
Found at i:10683727 original size:27 final size:27
Alignment explanation
Indices: 10683681--10683781 Score: 89
Period size: 27 Copynumber: 3.7 Consensus size: 27
10683671 AACACGAGTA
10683681 GTGCCGCCAAT--CTGTATGGCACCATTG
1 GTGCCGCCAATACCT-T-TGGCACCATTG
* *
10683708 GTGCTGCCAATACCTTTGGCACAATTG
1 GTGCCGCCAATACCTTTGGCACCATTG
*** *
10683735 GTGCCGCCAATGGTTTTGGCACCTTTG
1 GTGCCGCCAATACCTTTGGCACCATTG
* * *
10683762 GTGCCACCAATGCCATTGGC
1 GTGCCGCCAATACCTTTGGC
10683782 CTGATCAGGC
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
27 57 0.95
28 1 0.02
29 2 0.03
ACGTcount: A:0.18, C:0.29, G:0.26, T:0.28
Consensus pattern (27 bp):
GTGCCGCCAATACCTTTGGCACCATTG
Found at i:10683888 original size:27 final size:27
Alignment explanation
Indices: 10683828--10683899 Score: 101
Period size: 30 Copynumber: 2.6 Consensus size: 27
10683818 CAGGTTTTTT
10683828 TTTATATATTTTGGTAAATAATAAAAA
1 TTTATATATTTTGGTAAATAATAAAAA
10683855 TAATTATAATATTTTGGTAAATAA-AAAAA
1 T--TTAT-ATATTTTGGTAAATAATAAAAA
10683884 TTTATCATATTTTGGT
1 TTTAT-ATATTTTGGT
10683900 TATTTTTTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
27 15 0.37
29 10 0.24
30 16 0.39
ACGTcount: A:0.44, C:0.01, G:0.08, T:0.46
Consensus pattern (27 bp):
TTTATATATTTTGGTAAATAATAAAAA
Found at i:10691298 original size:12 final size:11
Alignment explanation
Indices: 10691283--10691329 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
10691273 GAAATTTTTT
10691283 TTAAAATAATTA
1 TTAAAA-AATTA
10691295 TTAAAAAATT-
1 TTAAAAAATTA
10691305 TTAAAAAATTA
1 TTAAAAAATTA
* *
10691316 TTTAAAAGTTA
1 TTAAAAAATTA
10691327 TTA
1 TTA
10691330 TGAATTATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
10 10 0.32
11 15 0.48
12 6 0.19
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (11 bp):
TTAAAAAATTA
Found at i:10691310 original size:10 final size:10
Alignment explanation
Indices: 10691281--10691314 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
10691271 CTGAAATTTT
10691281 TTTTAAAATAA
1 TTTTAAAA-AA
10691292 TTATTAAAAAA
1 TT-TTAAAAAA
10691303 TTTTAAAAAA
1 TTTTAAAAAA
10691313 TT
1 TT
10691315 ATTTAAAAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 6 0.27
12 6 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
TTTTAAAAAA
Found at i:10691316 original size:21 final size:22
Alignment explanation
Indices: 10691281--10691322 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
10691271 CTGAAATTTT
10691281 TTTTAAAATAATTATTAAAAAA
1 TTTTAAAATAATTATTAAAAAA
*
10691303 TTTTAAAA-AATTATTTAAAA
1 TTTTAAAATAATTATTAAAAA
10691323 GTTATTATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTTAAAATAATTATTAAAAAA
Found at i:10691601 original size:10 final size:11
Alignment explanation
Indices: 10691563--10691618 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
10691553 TATTAATTTA
*
10691563 TAATAATT-CT
1 TAATAATTATT
10691573 TAATAACTT-TT
1 TAATAA-TTATT
* *
10691584 AAATAATTTTT
1 TAATAATTATT
10691595 TAA-AATTATT
1 TAATAATTATT
10691605 TAATAATTATT
1 TAATAATTATT
10691616 TAA
1 TAA
10691619 GAAATCACTC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
10 17 0.44
11 22 0.56
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.52
Consensus pattern (11 bp):
TAATAATTATT
Found at i:10694689 original size:22 final size:21
Alignment explanation
Indices: 10694654--10694749 Score: 74
Period size: 19 Copynumber: 4.7 Consensus size: 21
10694644 AAATGGTATC
* *
10694654 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
10694675 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
*
10694698 TACATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
** *
10694717 TGTATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
10694736 TGCATATCATATCT
1 TACAAATCATATCT
10694750 AAGATTGCAT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
19 35 0.54
21 4 0.06
22 15 0.23
23 11 0.17
ACGTcount: A:0.41, C:0.16, G:0.06, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:10694697 original size:23 final size:22
Alignment explanation
Indices: 10694654--10694711 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
10694644 AAATGGTATC
* *
10694654 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
10694675 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
10694698 TACATATCATATCT
1 TACAAATCATATCT
10694712 AAGATTGTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:10694714 original size:19 final size:19
Alignment explanation
Indices: 10694690--10694762 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
10694680 AATCATATCT
*
10694690 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
10694709 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
10694728 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
10694747 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
10694763 CCTGAAGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 51 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:10695888 original size:16 final size:16
Alignment explanation
Indices: 10695856--10695899 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
10695846 CCCGATATAA
*
10695856 TAAATTTATTTATTTTT
1 TAAATTT-TTTAATTTT
10695873 TAAATTTTTTAATTTT
1 TAAATTTTTTAATTTT
*
10695889 AAAATATTTTT
1 TAAAT-TTTTT
10695900 TAAAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 12 0.50
17 12 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TAAATTTTTTAATTTT
Found at i:10705587 original size:19 final size:20
Alignment explanation
Indices: 10705555--10705592 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
10705545 GTGGCAAGCT
10705555 AGCGAAGATGGCGAACTAGG
1 AGCGAAGATGGCGAACTAGG
*
10705575 AGCGAAG-TGGCGAGCTAG
1 AGCGAAGATGGCGAACTAG
10705593 ATGATATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.32, C:0.16, G:0.42, T:0.11
Consensus pattern (20 bp):
AGCGAAGATGGCGAACTAGG
Found at i:10705938 original size:23 final size:24
Alignment explanation
Indices: 10705902--10705954 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 24
10705892 GCGTATATAG
*
10705902 AAAAA-TTAGACGAGCTGTACAAT
1 AAAAATTTAGACGAGCTGTACAAC
*
10705925 AAAAATTTAG-CGAGCTGTACAGC
1 AAAAATTTAGACGAGCTGTACAAC
10705948 AAAAATT
1 AAAAATT
10705955 CAAGGAGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 23 0.85
24 4 0.15
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (24 bp):
AAAAATTTAGACGAGCTGTACAAC
Found at i:10706383 original size:54 final size:54
Alignment explanation
Indices: 10706318--10706523 Score: 261
Period size: 54 Copynumber: 3.8 Consensus size: 54
10706308 GGCAAATTGT
* * * * *
10706318 AAGATTCGAAAAATCTTTTAAGTATGAGGCTGCGATATTAAATCGATGAGTCAC
1 AAGATTCGAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCGACGAGCCAC
*
10706372 AAGATTCGAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATTGACGAGCCAC
1 AAGATTCGAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCGACGAGCCAC
* * * ** *
10706426 AAGATTC-AGAAAATCTTATAAGTATACGGTTATGATCTTAAATCGGCGAGCCAC
1 AAGATTCGA-AAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCGACGAGCCAC
* * *
10706480 AAGATTTGAAAAATCTTGTAAGTATAAGGCTACAATCTTAAATC
1 AAGATTCGAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATC
10706524 AGCAAATCGG
Statistics
Matches: 131, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 129 0.98
55 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (54 bp):
AAGATTCGAAAAATCTTGTAAGTATAAGGCTGCGATCTTAAATCGACGAGCCAC
Found at i:10706567 original size:26 final size:26
Alignment explanation
Indices: 10706514--10706574 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
10706504 TAAGGCTACA
* *
10706514 ATCTTAAATCAGCAAATCGGGCTGTG
1 ATCTTAAATCAGCAAATCGGACTATG
* * *
10706540 ATCTTAAATCAGCGAGTTGGACTATG
1 ATCTTAAATCAGCAAATCGGACTATG
10706566 ATCTTAAAT
1 ATCTTAAAT
10706575 TGACAAGCCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (26 bp):
ATCTTAAATCAGCAAATCGGACTATG
Found at i:10707803 original size:192 final size:192
Alignment explanation
Indices: 10707476--10707863 Score: 749
Period size: 192 Copynumber: 2.0 Consensus size: 192
10707466 ATGGCCGTAG
10707476 GTCCCTTCTTCCCTCGAAAACCTCTTTTGGCACTTTAAACTCTAAAGGTAAATCCACCACTACAA
1 GTCCCTTCTTCCCTCGAAAACCTCTTTTGGCACTTTAAACTCTAAAGGTAAATCCACCACTACAA
*
10707541 TTTCTATGGCTAAAAGATTGTTAGAACAAAAGACTTAATCCATGTCCTCGACATCAAGATGTAGT
66 TTTCTATAGCTAAAAGATTGTTAGAACAAAAGACTTAATCCATGTCCTCGACATCAAGATGTAGT
*
10707606 GTCTATATGTCTCGGCACAAGGCATCCATTTTCTATTACCATGGCCTTGCATATACTCCATA
131 GTCTATATGTCTCGGCACAAGACATCCATTTTCTATTACCATGGCCTTGCATATACTCCATA
10707668 GTCCCTTCTTCCCTCGAAAACCTCTTTTGGCACTTTAAACTCTAAAGGTAAATCCACCACTACAA
1 GTCCCTTCTTCCCTCGAAAACCTCTTTTGGCACTTTAAACTCTAAAGGTAAATCCACCACTACAA
10707733 TTTCTATAGCTAAAAGATTGTTAGAACAAAAGACTTAATCCATGTCCTCGACATCAAGATGTAGT
66 TTTCTATAGCTAAAAGATTGTTAGAACAAAAGACTTAATCCATGTCCTCGACATCAAGATGTAGT
*
10707798 GTCTATATGTCTCGGCACAAGACATCCATTTTCTATTGCCATGGCCTTGCATATACTCCATA
131 GTCTATATGTCTCGGCACAAGACATCCATTTTCTATTACCATGGCCTTGCATATACTCCATA
10707860 GTCC
1 GTCC
10707864 TCCTCCTATA
Statistics
Matches: 193, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
192 193 1.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (192 bp):
GTCCCTTCTTCCCTCGAAAACCTCTTTTGGCACTTTAAACTCTAAAGGTAAATCCACCACTACAA
TTTCTATAGCTAAAAGATTGTTAGAACAAAAGACTTAATCCATGTCCTCGACATCAAGATGTAGT
GTCTATATGTCTCGGCACAAGACATCCATTTTCTATTACCATGGCCTTGCATATACTCCATA
Found at i:10708581 original size:17 final size:17
Alignment explanation
Indices: 10708539--10708582 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
10708529 GCGAGACGTC
*
10708539 GGTGGCAAGCTAGCGGA
1 GGTGGCAAGCTAGCGAA
* *
10708556 -GTGGTAAGCTAGTGAA
1 GGTGGCAAGCTAGCGAA
10708572 GGTGGCAAGCT
1 GGTGGCAAGCT
10708583 GGAAGTGACG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.25, C:0.14, G:0.43, T:0.18
Consensus pattern (17 bp):
GGTGGCAAGCTAGCGAA
Found at i:10709583 original size:13 final size:13
Alignment explanation
Indices: 10709540--10709584 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
10709530 CTGGTTTGAC
10709540 TAACTGATTCTAT
1 TAACTGATTCTAT
*
10709553 TAACTAATT-TGAT
1 TAACTGATTCT-AT
*
10709566 CAACTGATTCTAT
1 TAACTGATTCTAT
10709579 TAACTG
1 TAACTG
10709585 TTTATTTAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 1 0.04
13 24 0.92
14 1 0.04
ACGTcount: A:0.33, C:0.16, G:0.09, T:0.42
Consensus pattern (13 bp):
TAACTGATTCTAT
Found at i:10712133 original size:19 final size:19
Alignment explanation
Indices: 10712109--10712181 Score: 137
Period size: 19 Copynumber: 3.8 Consensus size: 19
10712099 AATCTTCAAG
10712109 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
10712128 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
10712147 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
10712166 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
10712182 AGATATGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 52 1.00
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:10713892 original size:23 final size:23
Alignment explanation
Indices: 10713848--10713892 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
10713838 TCTTATTTTG
* *
10713848 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
10713871 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
10713893 CAAATTTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:10718654 original size:23 final size:23
Alignment explanation
Indices: 10718610--10718654 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
10718600 TCTTATTTTG
* *
10718610 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
10718633 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
10718655 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:10721389 original size:21 final size:21
Alignment explanation
Indices: 10721363--10721414 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
10721353 ACCACGAGAC
* *
10721363 TGCAAAAGGATATGGGAGTCA
1 TGCAAAAGGACATGGGACTCA
* *
10721384 TGCAAAAAGACATGGGACTGA
1 TGCAAAAGGACATGGGACTCA
*
10721405 TGCAACAGGA
1 TGCAAAAGGA
10721415 ACTCGTTCAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.40, C:0.13, G:0.31, T:0.15
Consensus pattern (21 bp):
TGCAAAAGGACATGGGACTCA
Found at i:10726849 original size:18 final size:18
Alignment explanation
Indices: 10726822--10726945 Score: 116
Period size: 18 Copynumber: 7.2 Consensus size: 18
10726812 CTGTTTCTCT
*
10726822 TCTTCTTTCTTTGGCTCC
1 TCTTCCTTCTTTGGCTCC
* *
10726840 TCTTCCTTCTTGGGTTCC
1 TCTTCCTTCTTTGGCTCC
*
10726858 TCTTCCTTC-TTGGGT--
1 TCTTCCTTCTTTGGCTCC
*
10726873 TCTTCTTTCTTTGGCTCC
1 TCTTCCTTCTTTGGCTCC
*
10726891 TCTTCCTTC-TTGGGT--
1 TCTTCCTTCTTTGGCTCC
* *
10726906 TCTTCTTTCTTCGGCTCC
1 TCTTCCTTCTTTGGCTCC
* *
10726924 TCCTCCTTCTTGGGCTCC
1 TCTTCCTTCTTTGGCTCC
10726942 TCTT
1 TCTT
10726946 TCTTGGGTTC
Statistics
Matches: 84, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
15 16 0.19
16 9 0.11
17 9 0.11
18 50 0.60
ACGTcount: A:0.00, C:0.34, G:0.15, T:0.52
Consensus pattern (18 bp):
TCTTCCTTCTTTGGCTCC
Found at i:10726883 original size:33 final size:33
Alignment explanation
Indices: 10726840--10726964 Score: 166
Period size: 33 Copynumber: 3.9 Consensus size: 33
10726830 CTTTGGCTCC
* *
10726840 TCTTCCTTCTTGGGTTCCTCTTCCTTCTTGGGT
1 TCTTCTTTCTTGGGCTCCTCTTCCTTCTTGGGT
*
10726873 TCTTCTTTCTTTGGCTCCTCTTCCTTCTTGGGT
1 TCTTCTTTCTTGGGCTCCTCTTCCTTCTTGGGT
* * *
10726906 TCTTCTTTCTTCGGCTCCTCCTCCTTCTTGGGC
1 TCTTCTTTCTTGGGCTCCTCTTCCTTCTTGGGT
*
10726939 TCCTCTTTCTTGGG-T--TCTTCCTTCTT
1 TCTTCTTTCTTGGGCTCCTCTTCCTTCTT
10726965 CGGCTCCTCC
Statistics
Matches: 83, Mismatches: 9, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
30 10 0.12
32 1 0.01
33 72 0.87
ACGTcount: A:0.00, C:0.33, G:0.15, T:0.52
Consensus pattern (33 bp):
TCTTCTTTCTTGGGCTCCTCTTCCTTCTTGGGT
Found at i:10726934 original size:51 final size:51
Alignment explanation
Indices: 10726828--10726975 Score: 180
Period size: 51 Copynumber: 3.0 Consensus size: 51
10726818 CTCTTCTTCT
* * * * *
10726828 TTCTTTGGCTCCTCTTCCTTCTTGGGTTCCTCTTCCTTCTTGGGT--TCTTCT
1 TTCTTTGGCTCCTCTTCCTTCTTGGGTTCTTCTTTCTTC--GGCTCCTCCTCC
10726879 TTCTTTGGCTCCTCTTCCTTCTTGGGTTCTTCTTTCTTCGGCTCCTCCTCC
1 TTCTTTGGCTCCTCTTCCTTCTTGGGTTCTTCTTTCTTCGGCTCCTCCTCC
* *
10726930 TTCTTGGGCTCCTC-T--TTCTTGGGTTCTTCCTTCTTCGGCTCCTCCT
1 TTCTTTGGCTCCTCTTCCTTCTTGGGTTCTTCTTTCTTCGGCTCCTCCT
10726976 TCTCCGGCGG
Statistics
Matches: 88, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
48 30 0.34
49 3 0.03
50 1 0.01
51 54 0.61
ACGTcount: A:0.00, C:0.34, G:0.16, T:0.50
Consensus pattern (51 bp):
TTCTTTGGCTCCTCTTCCTTCTTGGGTTCTTCTTTCTTCGGCTCCTCCTCC
Found at i:10726960 original size:18 final size:17
Alignment explanation
Indices: 10726843--10726978 Score: 85
Period size: 15 Copynumber: 8.4 Consensus size: 17
10726833 TGGCTCCTCT
*
10726843 TCCTTCTTGGGTTCCTCT
1 TCCTTCTTGGGTT-CTCC
10726861 TCCTTCTTGGGTTCT--
1 TCCTTCTTGGGTTCTCC
* * * *
10726876 TCTTTCTTTGGCTCCTCT
1 TCCTTC-TTGGGTTCTCC
10726894 TCCTTCTTGGGTTCT--
1 TCCTTCTTGGGTTCTCC
* * *
10726909 TCTTTCTTCGGCTCCTCC
1 TCCTTCTT-GGGTTCTCC
10726927 TCCTTCTTGGG--CTCC
1 TCCTTCTTGGGTTCTCC
*
10726942 TCTTTCTTGGGTTCT--
1 TCCTTCTTGGGTTCTCC
*
10726957 TCCTTCTTCGG--CTCC
1 TCCTTCTTGGGTTCTCC
10726972 TCCTTCT
1 TCCTTCT
10726979 CCGGCGGTTT
Statistics
Matches: 94, Mismatches: 14, Indels: 23
0.72 0.11 0.18
Matches are distributed among these distances:
13 2 0.02
15 42 0.45
16 12 0.13
17 13 0.14
18 25 0.27
ACGTcount: A:0.00, C:0.35, G:0.15, T:0.50
Consensus pattern (17 bp):
TCCTTCTTGGGTTCTCC
Found at i:10737527 original size:22 final size:22
Alignment explanation
Indices: 10737470--10737527 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
10737460 AAATAATATT
* *
10737470 ATTTTAATAG-ATTTAATATTT
1 ATTTTAATAGTATTTAATAATC
* *
10737491 AATTTAAT-TTAATTTAATAATC
1 ATTTTAATAGT-ATTTAATAATC
10737513 ATTTTAATAGTATTT
1 ATTTTAATAGTATTT
10737528 TATTAATTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
21 7 0.25
22 20 0.71
23 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (22 bp):
ATTTTAATAGTATTTAATAATC
Found at i:10737552 original size:25 final size:26
Alignment explanation
Indices: 10737516--10737564 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
10737506 AATAATCATT
10737516 TTAATAGTATTTTATTAAT-TTAATA
1 TTAATAGTATTTTATTAATATTAATA
*
10737541 TTAA-AGTGATTTTCTTAATATTAA
1 TTAATAGT-ATTTTATTAATATTAA
10737565 ATTTAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 14 0.67
26 4 0.19
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (26 bp):
TTAATAGTATTTTATTAATATTAATA
Done.