Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 108 of 185
Found at i:34031736 original size:25 final size:25
Alignment explanation
Indices: 34031672--34031754 Score: 78
Period size: 25 Copynumber: 3.3 Consensus size: 25
34031662 GCTCTGCTCC
* *
34031672 GTTCCGTTCTA-TGCTGTTCCATCTT
1 GTTCTGTTCTACT-CTGTTCCATCCT
* *
34031697 GTTTTGTTCTGCTCTGTTCCATCCT
1 GTTCTGTTCTACTCTGTTCCATCCT
* ** *
34031722 GTTCTGTTCTACTCTATTCGGTTCT
1 GTTCTGTTCTACTCTGTTCCATCCT
34031747 GTTCTGTT
1 GTTCTGTT
34031755 TGAATTGCGT
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
25 46 0.98
26 1 0.02
ACGTcount: A:0.06, C:0.25, G:0.17, T:0.52
Consensus pattern (25 bp):
GTTCTGTTCTACTCTGTTCCATCCT
Found at i:34033328 original size:18 final size:18
Alignment explanation
Indices: 34033295--34033329 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34033285 TATAGAAATG
*
34033295 AAATGATTTACCAATATA
1 AAATGATTTAACAATATA
*
34033313 AAATGATTTAATAATAT
1 AAATGATTTAACAATAT
34033330 TTTTGTATGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (18 bp):
AAATGATTTAACAATATA
Found at i:34041992 original size:84 final size:85
Alignment explanation
Indices: 34041900--34042064 Score: 226
Period size: 85 Copynumber: 2.0 Consensus size: 85
34041890 AAATATAGGG
* * * *
34041900 ACCAATTTATGTT-AAAATTAATGTATAAAAATTAAAATTAAAATT-TAGACATTTTAGACTGAC
1 ACCAATTTATGTTAAAAATTAAAGAATAAAAATT-AAATTAAAATTATAGAAATTTTAGACAGAC
* *
34041963 CAATATTAAAATTTAATAGAA
65 CAAAACTAAAATTTAATAGAA
* *
34041984 ACCAATTTATGTTAAAAATTAAAGAATAATAATTAAATTTAAATTATAGAAATTTTAGACAGACC
1 ACCAATTTATGTTAAAAATTAAAGAATAAAAATTAAATTAAAATTATAGAAATTTTAGACAGACC
*
34042049 AAAACTGAAATTTAAT
66 AAAACTAAAATTTAAT
34042065 CAAATTGCAA
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
84 23 0.33
85 47 0.67
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (85 bp):
ACCAATTTATGTTAAAAATTAAAGAATAAAAATTAAATTAAAATTATAGAAATTTTAGACAGACC
AAAACTAAAATTTAATAGAA
Found at i:34062002 original size:40 final size:40
Alignment explanation
Indices: 34061813--34062036 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
34061803 TTGAATGATG
* * * *
34061813 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
34061853 TCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
34061893 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
34061933 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
34061973 TCCGGGTTAAGTCCCGAAGGCATTTGTGCG-GTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
34062013 -CCGGGCTATGTCCCGAA-GCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
34062037 AACAGTAACT
Statistics
Matches: 169, Mismatches: 11, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
38 7 0.04
39 23 0.14
40 132 0.78
41 7 0.04
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:34062048 original size:38 final size:39
Alignment explanation
Indices: 34061814--34062068 Score: 202
Period size: 40 Copynumber: 6.5 Consensus size: 39
34061804 TGAATGATGT
* * * *
34061814 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC--AGTTACTATAA
** *
34061854 CCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTA-AA
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGC-AGTTACTATAA
**
34061893 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
1 -CCGGGTTAAG-TCCCGAAGGCATTTGTGC-AGTTACTATAA
34061933 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
1 -CCGGGTTAAGTCCCGAAGGCATTTGTGC-AGTTACTATAA
*
34061973 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGGTTACTATAA
1 -CCGGGTTAAGTCCCGAAGGCATTTGTGCAGTTACTATAA
* * ** * *
34062013 CCGGGCTATGTCCCGAA-GCATTTGAACAGTAACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCAGTTACTATAA
* *
34062051 CC-GGTTAAATTCCGAAGG
1 CCGGGTTAAGTCCCGAAGG
34062069 TACGTGATTT
Statistics
Matches: 188, Mismatches: 21, Indels: 14
0.84 0.09 0.06
Matches are distributed among these distances:
37 10 0.05
38 19 0.10
39 24 0.13
40 128 0.68
41 7 0.04
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.26
Consensus pattern (39 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCAGTTACTATAA
Found at i:34065366 original size:76 final size:76
Alignment explanation
Indices: 34065234--34065390 Score: 190
Period size: 76 Copynumber: 2.1 Consensus size: 76
34065224 TCTGTGTGCT
* * * * * *
34065234 AGGCCATATGCTAGGCCATGTAACTCACTGAGTTAAAAAACTAGGAAACTCCCAAATGACATACG
1 AGGCCATATCCTAGGCCATGTAACTCACAGACTTAAAAAACTAAGAAACTCCCAAATGAAACACG
*
34065299 GGCGTGTCGCC
66 GGCATGTCGCC
* * * * *
34065310 AGGCCATGTCCTA-GCCTATGTAACTCACAGACTTGAAACACTAAGAAACTCTCAAATGAAACAT
1 AGGCCATATCCTAGGCC-ATGTAACTCACAGACTTAAAAAACTAAGAAACTCCCAAATGAAACAC
34065374 GGGCATGTCGCC
65 GGGCATGTCGCC
34065386 AGGCC
1 AGGCC
34065391 GTGTGTATCA
Statistics
Matches: 68, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
75 3 0.04
76 65 0.96
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (76 bp):
AGGCCATATCCTAGGCCATGTAACTCACAGACTTAAAAAACTAAGAAACTCCCAAATGAAACACG
GGCATGTCGCC
Found at i:34065890 original size:24 final size:24
Alignment explanation
Indices: 34065858--34065906 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
34065848 AAATAGACAT
*
34065858 CCATCTTAAGACATCCAAAACAAG
1 CCATATTAAGACATCCAAAACAAG
34065882 CCATATTAAGACATCCAAAACAAG
1 CCATATTAAGACATCCAAAACAAG
34065906 C
1 C
34065907 AAGAACAAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.47, C:0.29, G:0.08, T:0.16
Consensus pattern (24 bp):
CCATATTAAGACATCCAAAACAAG
Found at i:34066723 original size:16 final size:17
Alignment explanation
Indices: 34066692--34066724 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
34066682 TTATTCAAAT
*
34066692 TTCATATTCATGTATCA
1 TTCATATTCATATATCA
34066709 TTCAT-TTCATATATCA
1 TTCATATTCATATATCA
34066725 ATATATCATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.30, C:0.18, G:0.03, T:0.48
Consensus pattern (17 bp):
TTCATATTCATATATCA
Found at i:34066731 original size:24 final size:22
Alignment explanation
Indices: 34066690--34066733 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
34066680 AATTATTCAA
*
34066690 ATTTCATATTCATGTATCATTC
1 ATTTCATATTCATATATCATTC
34066712 ATTTCATATATCAATATATCAT
1 ATTTCATAT-TC-ATATATCAT
34066734 GTAAAATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 2 0.11
24 8 0.42
ACGTcount: A:0.34, C:0.16, G:0.02, T:0.48
Consensus pattern (22 bp):
ATTTCATATTCATATATCATTC
Found at i:34066955 original size:24 final size:25
Alignment explanation
Indices: 34066903--34066980 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
34066893 GTACATGTAT
* * *
34066903 GCTCATACGAGCTCTAAATTGGTAT
1 GCTCATACGAGCTGTAAATCGGTAA
*
34066928 GCTCTTACGAGCTGTAAA-CGGTAA
1 GCTCATACGAGCTGTAAATCGGTAA
34066952 GCTCATACGAGCTG-AATATCGGTAA
1 GCTCATACGAGCTGTAA-ATCGGTAA
34066977 GCTC
1 GCTC
34066981 TCTCAAGTTG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
23 2 0.04
24 18 0.39
25 26 0.57
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (25 bp):
GCTCATACGAGCTGTAAATCGGTAA
Found at i:34076876 original size:11 final size:10
Alignment explanation
Indices: 34076849--34076875 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
34076839 GTAGGTTCGT
34076849 AAAAAAATTC
1 AAAAAAATTC
34076859 AAAAAAATTC
1 AAAAAAATTC
34076869 AAAAAAA
1 AAAAAAA
34076876 AGAATAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAAATTC
Found at i:34078034 original size:36 final size:33
Alignment explanation
Indices: 34077970--34078050 Score: 81
Period size: 36 Copynumber: 2.3 Consensus size: 33
34077960 GAACAAAAAT
**
34077970 GTTAGAAAGAAGAGAAAATTGAAAAAGAAAATGA
1 GTTAGAAA-AAGAGAAAATAAAAAAAGAAAATGA
*
34078004 GTTAGAAAAAGAAGCAAAATAAAAAGAAGAAAGTGA
1 GTTAGAAAAAG-AG-AAAATAAAAA-AAGAAAATGA
**
34078040 GCGAGAAAAAG
1 GTTAGAAAAAG
34078051 CGAGAAATGT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
33 3 0.08
34 10 0.26
35 8 0.21
36 18 0.46
ACGTcount: A:0.62, C:0.02, G:0.25, T:0.11
Consensus pattern (33 bp):
GTTAGAAAAAGAGAAAATAAAAAAAGAAAATGA
Found at i:34090848 original size:15 final size:15
Alignment explanation
Indices: 34090828--34090860 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
34090818 AAAGAGGATC
34090828 AAAGTCGGATAGGGG
1 AAAGTCGGATAGGGG
34090843 AAAGTCGGATAGGGG
1 AAAGTCGGATAGGGG
34090858 AAA
1 AAA
34090861 AGAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.39, C:0.06, G:0.42, T:0.12
Consensus pattern (15 bp):
AAAGTCGGATAGGGG
Found at i:34091912 original size:47 final size:47
Alignment explanation
Indices: 34091858--34092309 Score: 769
Period size: 47 Copynumber: 9.6 Consensus size: 47
34091848 TATTTGAATA
*
34091858 AATGTGAAAGTGTATATATGTGATCAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
34091905 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
34091952 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
34092001 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
34092048 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
34092095 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
34092142 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
34092189 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
34092236 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
34092283 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
34092310 TCCCGAAGGG
Statistics
Matches: 384, Mismatches: 19, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 339 0.88
49 45 0.12
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:34093779 original size:40 final size:40
Alignment explanation
Indices: 34093729--34094285 Score: 875
Period size: 40 Copynumber: 14.0 Consensus size: 40
34093719 TTGAGAGTGA
* *
34093729 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * * *
34093769 TGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
34093809 TATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
34093849 TATATCCGGGCTAAGTCCCAAAGAGCATTCGAGTTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
34093889 TATACCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
34093929 TATATCCGGGCTAGGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
34093969 TATATCCGGGCTAAGTCCCAAAGAGCATTCGAGTTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
34094009 TATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
34094049 TATATCCGGGCTAAGTCCCGAAGAGCATTCGAGTTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
34094089 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
34094129 TATATCCGGGCTAGGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
34094169 TATATCCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
34094209 TATATCCGGGCTAGGTCCCGAAGAGCATTCGAGCTGGTG-
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
34094248 T-TATCCGGGCTAAGTCTCGAAGAGCATTCATGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
34094286 ATGTGTATTC
Statistics
Matches: 483, Mismatches: 34, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
38 33 0.07
39 1 0.00
40 449 0.93
ACGTcount: A:0.21, C:0.22, G:0.31, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:34097138 original size:47 final size:47
Alignment explanation
Indices: 34097084--34097629 Score: 921
Period size: 47 Copynumber: 11.6 Consensus size: 47
34097074 TATTTGAATA
34097084 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
34097131 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
34097178 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
34097227 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * *
34097274 AATGTGAAAGTGTATATATGAGATAAGGCCTAATAGTCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
34097321 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
34097368 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
34097415 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
34097462 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
34097509 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * * *
34097556 AATGTGAAAGTATATATATCTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
34097603 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
34097630 TCCCGAAAGG
Statistics
Matches: 471, Mismatches: 26, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 426 0.90
49 45 0.10
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:34103694 original size:21 final size:22
Alignment explanation
Indices: 34103644--34103694 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 22
34103634 AATATACAAG
* *
34103644 TAAAAT-AATAATAGTATAATA
1 TAAAATAAATAATAGTAAAACA
**
34103665 TAATGTAAATAATA-TAAAACA
1 TAAAATAAATAATAGTAAAACA
34103686 TAAAATAAA
1 TAAAATAAA
34103695 CAAAGCCATG
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (22 bp):
TAAAATAAATAATAGTAAAACA
Found at i:34104528 original size:28 final size:28
Alignment explanation
Indices: 34104488--34104641 Score: 227
Period size: 28 Copynumber: 5.5 Consensus size: 28
34104478 TGACTTTCGA
*
34104488 CACTAAGTGTGCGAATTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
*
34104516 CACTAAGTGTGCGAGTTTAATTGTAAAT
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* *
34104544 CACTAAGTGCGCGAGTTTAATTGTAAAT
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
*
34104572 CACTAAGTGTGCGAGTTTAATGGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * **
34104600 CACTAAGTGTGCGAGTTTGATTATTGAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
34104628 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
34104642 ACTTATTAAA
Statistics
Matches: 115, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 115 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:34105419 original size:47 final size:47
Alignment explanation
Indices: 34105368--34105767 Score: 387
Period size: 47 Copynumber: 8.6 Consensus size: 47
34105358 TTTTATGCTA
* * *
34105368 AAATGCTG-CTCAAATTGGTATATATATGCTACCCAATTTTGGTGAAT
1 AAATGCTGTC-CAAATTTGTATATATATGCTGCCAAATTTTGGTGAAT
** * ** *
34105415 AAATGCAATCCAATTTTGTATATACGTGCTGTCAAATTTT-GTGTAA-
1 AAATGCTGTCCAAATTTGTATATATATGCTGCCAAATTTTGGTG-AAT
* * * *
34105461 AAGTGTTGTCCAAATTGGTATATATATGCTGCCCAATTTTGGTGAAT
1 AAATGCTGTCCAAATTTGTATATATATGCTGCCAAATTTTGGTGAAT
* * ** * *
34105508 AAATGTTGTCCAATTTTGTATATGCATGCTGTCAAATTTT-GTGTAT
1 AAATGCTGTCCAAATTTGTATATATATGCTGCCAAATTTTGGTGAAT
* * * * * *
34105554 AAGTGCTATCCAAATTGGTATATATCTGCTGCCCAATTTTGGTGAGT
1 AAATGCTGTCCAAATTTGTATATATATGCTGCCAAATTTTGGTGAAT
* * * *
34105601 AAATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTT-GTGCAT
1 AAATGCTGTCCAAATTTGTATATATATGCTGCCAAATTTTGGTGAAT
* * * *
34105647 AAGTGCTGTCCAAATTGGTATTTATATGCTGCCCAATTTTGGTGAAT
1 AAATGCTGTCCAAATTTGTATATATATGCTGCCAAATTTTGGTGAAT
* * * * *
34105694 AAATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTGATGTAT
1 AAATGCTGTCCAAATTTGTATATATATGCTGCCAAATTTTGGTGAAT
* *
34105741 AAATGTTGTCCAACTTTGTATATATAT
1 AAATGCTGTCCAAATTTGTATATATAT
34105768 ATGCTGCTCA
Statistics
Matches: 278, Mismatches: 69, Indels: 12
0.77 0.19 0.03
Matches are distributed among these distances:
46 107 0.38
47 170 0.61
48 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (47 bp):
AAATGCTGTCCAAATTTGTATATATATGCTGCCAAATTTTGGTGAAT
Found at i:34105498 original size:93 final size:93
Alignment explanation
Indices: 34105366--34105781 Score: 604
Period size: 93 Copynumber: 4.5 Consensus size: 93
34105356 ATTTTTATGC
* **
34105366 TAAAA-TGCTG-CTCAAATTGGTATATATATGCTACCCAATTTTGGTGAATAAATGCAATCCAAT
1 TAAAAGTGCTGTC-CAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAAT
*
34105429 TTTGTATATACGTGCTGTCAAATTTTGTG
65 TTTGTATATACATGCTGTCAAATTTTGTG
* *
34105458 TAAAAGTGTTGTCCAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGTTGTCCAATT
1 TAAAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATT
*
34105523 TTGTATATGCATGCTGTCAAATTTTGTG
66 TTGTATATACATGCTGTCAAATTTTGTG
* * * *
34105551 TATAAGTGCTATCCAAATTGGTATATATCTGCTGCCCAATTTTGGTGAGTAAATGCTGTCCAATT
1 TAAAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATT
34105616 TTGTATATACATGCTGTCAAATTTTGTG
66 TTGTATATACATGCTGTCAAATTTTGTG
* * *
34105644 CATAAGTGCTGTCCAAATTGGTATTTATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATT
1 TAAAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATT
34105709 TTGTATATACATGCTGTCAAATTTTGATG
66 TTGTATATACATGCTGTCAAATTTTG-TG
* * * *
34105738 TATAAA-TGTTGTCCAACTTTGTATATATATATGCTGCTCAATTT
1 TA-AAAGTGCTGTCCAA-ATTG-GTATATATATGCTGCCCAATTT
34105782 CTGATGTATA
Statistics
Matches: 292, Mismatches: 26, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
92 5 0.02
93 250 0.86
94 13 0.04
95 5 0.02
96 19 0.07
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (93 bp):
TAAAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATT
TTGTATATACATGCTGTCAAATTTTGTG
Found at i:34105750 original size:24 final size:24
Alignment explanation
Indices: 34105400--34105792 Score: 202
Period size: 23 Copynumber: 16.7 Consensus size: 24
34105390 TATATGCTAC
* * **
34105400 CCAATTTTGGTGAATAAATGCAAT
1 CCAATTTTGATGTATAAATGCTGT
* **
34105424 CCAATTTTG-TATATACGTGCTGT
1 CCAATTTTGATGTATAAATGCTGT
* *
34105447 CAAATTTTG-TGTA-AAAGTGTTGT
1 CCAATTTTGATGTATAAA-TGCTGT
* * * * *
34105470 CCAA-ATTGGTATATATATGCTGC
1 CCAATTTTGATGTATAAATGCTGT
* * *
34105493 CCAATTTTGGTGAATAAATGTTGT
1 CCAATTTTGATGTATAAATGCTGT
* **
34105517 CCAATTTTG-TATATGCATGCTGT
1 CCAATTTTGATGTATAAATGCTGT
* * *
34105540 CAAATTTTG-TGTATAAGTGCTAT
1 CCAATTTTGATGTATAAATGCTGT
* * * ** *
34105563 CCAA-ATTGGTATATATCTGCTGC
1 CCAATTTTGATGTATAAATGCTGT
*
34105586 CCAATTTTGGTG-AGTAAATGCTGT
1 CCAATTTTGATGTA-TAAATGCTGT
* *
34105610 CCAATTTTG-TATATACATGCTGT
1 CCAATTTTGATGTATAAATGCTGT
* * *
34105633 CAAATTTTG-TGCATAAGTGCTGT
1 CCAATTTTGATGTATAAATGCTGT
* * * *
34105656 CCAAATTGGTAT-T-TATATGCTGC
1 CCAATTTTG-ATGTATAAATGCTGT
* *
34105679 CCAATTTTGGTGAATAAATGCTGT
1 CCAATTTTGATGTATAAATGCTGT
* *
34105703 CCAATTTTG-TATATACATGCTGT
1 CCAATTTTGATGTATAAATGCTGT
* *
34105726 CAAATTTTGATGTATAAATGTTGT
1 CCAATTTTGATGTATAAATGCTGT
* * *
34105750 CCAACTTTGTATATATATATGCTG-
1 CCAATTTTG-ATGTATAAATGCTGT
34105774 CTCAATTTCTGATGTATAA
1 C-CAATTT-TGATGTATAA
34105793 GAGCTGTTCA
Statistics
Matches: 272, Mismatches: 81, Indels: 31
0.71 0.21 0.08
Matches are distributed among these distances:
22 8 0.03
23 148 0.54
24 91 0.33
25 23 0.08
26 2 0.01
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (24 bp):
CCAATTTTGATGTATAAATGCTGT
Found at i:34111185 original size:29 final size:29
Alignment explanation
Indices: 34111122--34111189 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
34111112 TAATCACCCA
* *
34111122 CGCACACTCAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTACCATGCACTTTAAACT
* **
34111151 CACACACTTAGTACCATGCA-TTTCAAGTT
1 CGCACACTTAGTACCATGCACTTT-AAACT
34111180 CGCACACTTA
1 CGCACACTTA
34111190 CCTTTTTCCG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 3 0.09
29 29 0.91
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTACCATGCACTTTAAACT
Found at i:34111331 original size:29 final size:30
Alignment explanation
Indices: 34111292--34111370 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
34111282 CTTAATAATC
34111292 AACCGCGCACACTTAGTGCCATGTAC-TGTA
1 AACC-CGCACACTTAGTGCCATGTACATGTA
* *
34111322 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATGTA
34111351 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
34111371 ATCTCATGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 32 0.76
30 4 0.10
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.24
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATGTA
Found at i:34119232 original size:29 final size:29
Alignment explanation
Indices: 34119169--34119236 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
34119159 TAATCACCCA
* *
34119169 CGCACACTCAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTACCATGCACTTTAAACT
* **
34119198 CACACACTTAGTACCATGCA-TTTCAAGTT
1 CGCACACTTAGTACCATGCACTTT-AAACT
34119227 CGCACACTTA
1 CGCACACTTA
34119237 CCTTTTTCCG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 3 0.09
29 29 0.91
ACGTcount: A:0.29, C:0.32, G:0.12, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTACCATGCACTTTAAACT
Found at i:34119378 original size:29 final size:30
Alignment explanation
Indices: 34119339--34119417 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
34119329 CTTAATAATC
*
34119339 AACCGCGCACACTTAGTGCCATGTAC-TGTA
1 AACC-CGCACACTTAGTGCCATGTACATATA
*
34119369 AACTCGCACACTTAGTG-C-TGTACAATATA
1 AACCCGCACACTTAGTGCCATGTAC-ATATA
34119398 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
34119418 ATCTCATGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 32 0.76
30 4 0.10
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.23
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATATA
Found at i:34141443 original size:45 final size:45
Alignment explanation
Indices: 34141379--34141470 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 45
34141369 CTTTGGGGAG
*
34141379 TTATACAGTGAAATCGCGATATCTAAAGGAGGATATCGCAATTTC
1 TTATACAATGAAATCGCGATATCTAAAGGAGGATATCGCAATTTC
* * *
34141424 TTATACAATGAAATCGCGATATTTAAATGAGGATATCGCGATTTC
1 TTATACAATGAAATCGCGATATCTAAAGGAGGATATCGCAATTTC
34141469 TT
1 TT
34141471 CAACATATTC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (45 bp):
TTATACAATGAAATCGCGATATCTAAAGGAGGATATCGCAATTTC
Found at i:34141462 original size:22 final size:22
Alignment explanation
Indices: 34141391--34141465 Score: 60
Period size: 22 Copynumber: 3.4 Consensus size: 22
34141381 ATACAGTGAA
* *
34141391 ATCGCGATATCTAAAGGAGGAT
1 ATCGCGATATTTAAACGAGGAT
* * * * * *
34141413 ATCGCAATTTCTTATACAATGAA
1 ATCGCGATAT-TTAAACGAGGAT
*
34141436 ATCGCGATATTTAAATGAGGAT
1 ATCGCGATATTTAAACGAGGAT
34141458 ATCGCGAT
1 ATCGCGAT
34141466 TTCTTCAACA
Statistics
Matches: 37, Mismatches: 15, Indels: 2
0.69 0.28 0.04
Matches are distributed among these distances:
22 23 0.62
23 14 0.38
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (22 bp):
ATCGCGATATTTAAACGAGGAT
Found at i:34156168 original size:21 final size:21
Alignment explanation
Indices: 34156144--34156198 Score: 56
Period size: 27 Copynumber: 2.3 Consensus size: 21
34156134 CTTGTACAAC
34156144 ATTTAGTTGATTTAGATTTAA
1 ATTTAGTTGATTTAGATTTAA
34156165 ATTTAGTACTCGTTGATTTAGATTTAA
1 A-TT--TA---GTTGATTTAGATTTAA
34156192 ATTTAGT
1 ATTTAGT
34156199 ATTCTAACTC
Statistics
Matches: 28, Mismatches: 0, Indels: 12
0.70 0.00 0.30
Matches are distributed among these distances:
21 3 0.11
22 2 0.07
24 4 0.14
26 2 0.07
27 17 0.61
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.51
Consensus pattern (21 bp):
ATTTAGTTGATTTAGATTTAA
Found at i:34157203 original size:43 final size:46
Alignment explanation
Indices: 34157161--34157257 Score: 115
Period size: 49 Copynumber: 2.0 Consensus size: 46
34157151 TATGAAATTA
* * *
34157161 TATATAGTGTTGAGCTTTTGATTCATGATATTTAACTTAATTATAATTT
1 TATA-AGTGTTCACCTTTTGATTCATGATATTAAACTTAATTATAA--T
34157210 TATGAAGTGTTCACCTTTTGATTCATGATATTAAACTTAAATT-TAAT
1 TAT-AAGTGTTCACCTTTTGATTCATGATATTAAACTT-AATTATAAT
34157257 T
1 T
34157258 TGTTTTTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
47 2 0.05
49 36 0.84
50 5 0.12
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.48
Consensus pattern (46 bp):
TATAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTATAAT
Found at i:34158804 original size:91 final size:91
Alignment explanation
Indices: 34158489--34158794 Score: 542
Period size: 91 Copynumber: 3.4 Consensus size: 91
34158479 TGATTTTAGT
* * *
34158489 AAATTCATATAAGAATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
1 AAATTCATATAAGAAAATTTATTAGTAAGAATTTTATGAAATTATATATTATTATTAAATTATAT
34158554 TTAATAATAATTATTTTAAATTATAC
66 TTAATAATAATTATTTTAAATTATAC
34158580 AAATTCATATAAGAAAATTTATTA-TAAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 AAATTCATATAAGAAAATTTATTAGT-AAGAATTTTATGAAATTATATATTATTATTAAATTATA
*
34158644 TTTAATAATATTTATTTTAAATTATAC
65 TTTAATAATAATTATTTTAAATTATAC
*
34158671 AAATTCATATAAGAAAATTTATTAGTAAGAGTTTTATGAAATTATATATTATTATTAAATTATAT
1 AAATTCATATAAGAAAATTTATTAGTAAGAATTTTATGAAATTATATATTATTATTAAATTATAT
34158736 TTAATAATAATTATTTTAAATTATAC
66 TTAATAATAATTATTTTAAATTATAC
*
34158762 AAATTCATATAAGAAAATTTATTAGTAATAATT
1 AAATTCATATAAGAAAATTTATTAGTAAGAATT
34158795 ATTTTAAATT
Statistics
Matches: 206, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
90 1 0.00
91 204 0.99
92 1 0.00
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
AAATTCATATAAGAAAATTTATTAGTAAGAATTTTATGAAATTATATATTATTATTAAATTATAT
TTAATAATAATTATTTTAAATTATAC
Found at i:34158830 original size:18 final size:15
Alignment explanation
Indices: 34158802--34158852 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
34158792 ATTATTTTAA
34158802 ATTTTATTAAATCATAT
1 ATTTTATTAAA--ATAT
34158819 ATTTTAATTAAAATAT
1 ATTTT-ATTAAAATAT
* *
34158835 ATTTAATAAAAAT-T
1 ATTTTATTAAAATAT
34158849 ATTT
1 ATTT
34158853 CAAATTATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 8 0.26
17 5 0.16
18 6 0.19
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTTTATTAAAATAT
Found at i:34158836 original size:16 final size:16
Alignment explanation
Indices: 34158802--34158852 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 16
34158792 ATTATTTTAA
34158802 ATTTT-ATTAAATCATAT
1 ATTTTAATTAAA--ATAT
34158819 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
34158835 A-TTTAATAAAAAT-T
1 ATTTTAATTAAAATAT
34158849 ATTT
1 ATTT
34158853 CAAATTATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
14 2 0.06
15 13 0.42
16 5 0.16
17 5 0.16
18 6 0.19
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:34158850 original size:182 final size:182
Alignment explanation
Indices: 34158489--34158850 Score: 518
Period size: 182 Copynumber: 2.0 Consensus size: 182
34158479 TGATTTTAGT
* *
34158489 AAATTCATATAAGAATATTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
1 AAATTCATATAAGAAAATTTATTAGTAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
34158554 TTAATAATAATTATTTTAAATTATACAAATTCATATAAGAAAATTTATTATAAAGAATTTTATGA
66 TTAATAATAATTATTTTAAATTATACAAATTCATATAAGAAAATTTATTATAAAGAATTTTATGA
* * * * **
34158619 AATTATATATTATTATTAAATTATATTTAATAATATTTATTTTAAATTATAC
131 AATTATATATTATCATTAAATTATAATTAAAAATATTTAATAAAAATTATAC
* *
34158671 AAATTCATATAAGAAAATTTATTAGTAAGAGTTTTATGAAATTATATATTATTATTAAATTATAT
1 AAATTCATATAAGAAAATTTATTAGTAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
*
34158736 TTAATAATAATTATTTTAAATTATACAAATTCATATAAGAAAATTTATTAGT-AATAATTATT-T
66 TTAATAATAATTATTTTAAATTATACAAATTCATATAAGAAAATTTATTA-TAAAGAATT-TTAT
* * *
34158799 TAAATT-T-TATTAAATCA-TATATTTTAATTAAAATATATTTAATAAAAATTAT
129 GAAATTATATATT--ATCATTAAATTATAATTAAAA-ATATTTAATAAAAATTAT
34158851 TTCAAATTAT
Statistics
Matches: 161, Mismatches: 14, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
180 4 0.02
181 13 0.08
182 141 0.88
183 3 0.02
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (182 bp):
AAATTCATATAAGAAAATTTATTAGTAAGAATTTTATGAAATTATATATCATTATTAAATTATAT
TTAATAATAATTATTTTAAATTATACAAATTCATATAAGAAAATTTATTATAAAGAATTTTATGA
AATTATATATTATCATTAAATTATAATTAAAAATATTTAATAAAAATTATAC
Found at i:34158930 original size:120 final size:120
Alignment explanation
Indices: 34158801--34159090 Score: 544
Period size: 120 Copynumber: 2.4 Consensus size: 120
34158791 AATTATTTTA
* *
34158801 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAAAAATTATTTCAAATTATATTCT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTCT
34158866 ATAGTATCATACATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATACATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
*
34158921 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTCT
*
34158986 ATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATACATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
34159041 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
34159091 GTTAAAATAT
Statistics
Matches: 166, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 166 1.00
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.48
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTCT
ATAGTATCATACATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:34158950 original size:18 final size:17
Alignment explanation
Indices: 34158922--34158956 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34158912 ATTATTAAGA
*
34158922 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
34158939 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
34158957 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:34158998 original size:59 final size:59
Alignment explanation
Indices: 34158812--34159000 Score: 170
Period size: 59 Copynumber: 3.2 Consensus size: 59
34158802 ATTTTATTAA
*
34158812 ATCATATATTTTAATTAAAATATATTTAATAAAAATTATTTCAAATTATATTCTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATAAAAATTATTTCAAATTATATTTTATAGT
* * * ** * * * * * *
34158871 ATCATACATTATGATTTTAGTAAATTCATATAAGAATATTGATTAT-TAA-GA-ATTTTATTA-A
1 ATCATATATTTTAATTAAAATATATTTA-ATAA-AA-ATT-ATT-TCAAATTATATTTTA-TAGT
* *
34158932 ATTATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATAAAAATTATTTCAAATTATATTTTATAGT
34158991 ATCATATATT
1 ATCATATATT
34159001 ATGATTTTAG
Statistics
Matches: 94, Mismatches: 26, Indels: 20
0.67 0.19 0.14
Matches are distributed among these distances:
56 1 0.01
57 5 0.05
58 6 0.06
59 36 0.38
60 8 0.09
61 26 0.28
62 6 0.06
63 5 0.05
64 1 0.01
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (59 bp):
ATCATATATTTTAATTAAAATATATTTAATAAAAATTATTTCAAATTATATTTTATAGT
Found at i:34159058 original size:59 final size:59
Alignment explanation
Indices: 34158878--34159058 Score: 169
Period size: 57 Copynumber: 3.0 Consensus size: 59
34158868 AGTATCATAC
34158878 ATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTAT
1 ATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTAT
* * * * * * *
34158937 A-TAT--TTTAATTAAAATAT-ATTTAATAATAATT-ATT-TCAAATTATATTTTA-TAGTATCA
1 ATTATGATTTTAGT-AAAT-TCATATAAGAAT-ATTGATTAT-TAA-GA-ATTTTATTA-AAT--
34158995 TAT
57 TAT
34158998 ATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTAT
1 ATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTAT
34159057 AT
1 AT
34159059 ATTTTAATTA
Statistics
Matches: 92, Mismatches: 14, Indels: 32
0.67 0.10 0.23
Matches are distributed among these distances:
56 6 0.07
57 17 0.18
58 10 0.11
59 14 0.15
61 12 0.13
62 10 0.11
63 17 0.18
64 6 0.07
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (59 bp):
ATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTAT
Found at i:34159059 original size:61 final size:61
Alignment explanation
Indices: 34158878--34159061 Score: 189
Period size: 61 Copynumber: 3.0 Consensus size: 61
34158868 AGTATCATAC
34158878 ATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATAT
1 ATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATAT
* * ** * * * * * * * * *
34158939 ATTTTAATTAAAATATATTTA-ATAATAATTATTTCA-AATT-A-TATTTTA-TAGTATCATAT
1 ATTATGATTTTAGTAAATTCATATAAGAA-TA-TTGATTATTAAGAATTTTATTA-AATTATAT
34158998 ATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATAT
1 ATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATAT
34159059 ATT
1 ATT
34159062 TTAATTAAAA
Statistics
Matches: 89, Mismatches: 26, Indels: 16
0.68 0.20 0.12
Matches are distributed among these distances:
58 5 0.06
59 31 0.35
60 14 0.16
61 34 0.38
62 5 0.06
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (61 bp):
ATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATAT
Found at i:34159070 original size:18 final size:17
Alignment explanation
Indices: 34159042--34159076 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34159032 ATTATTAAGA
*
34159042 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
34159059 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
34159077 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:34167622 original size:26 final size:25
Alignment explanation
Indices: 34167582--34167631 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
34167572 TTGATTTAAA
*
34167582 TAGATTCACGGTGGAGTTTGTTTTTG
1 TAGATTCACGATGGAGTTT-TTTTTG
*
34167608 TAGATTCATGATGGAGTTTTTTTT
1 TAGATTCACGATGGAGTTTTTTTT
34167632 CTTTTTTGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.18, C:0.06, G:0.26, T:0.50
Consensus pattern (25 bp):
TAGATTCACGATGGAGTTTTTTTTG
Found at i:34169495 original size:18 final size:18
Alignment explanation
Indices: 34169472--34169523 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
34169462 GAAACTCTAT
*
34169472 ATCCTTAGGGGATTTTTA
1 ATCCTTAGAGGATTTTTA
**
34169490 ATCCTTTTAGGATTTTTA
1 ATCCTTAGAGGATTTTTA
34169508 ATCCTTCA-AGGATTTT
1 ATCCTT-AGAGGATTTT
34169524 CAGATAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.23, C:0.13, G:0.15, T:0.48
Consensus pattern (18 bp):
ATCCTTAGAGGATTTTTA
Found at i:34175334 original size:20 final size:21
Alignment explanation
Indices: 34175289--34175327 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
34175279 CAATATAAGT
34175289 ATATATTAATTATTATTTAAC
1 ATATATTAATTATTATTTAAC
34175310 ATATA-TAATTGATT-TTTA
1 ATATATTAATT-ATTATTTA
34175328 TAATATAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (21 bp):
ATATATTAATTATTATTTAAC
Found at i:34175566 original size:25 final size:24
Alignment explanation
Indices: 34175521--34175568 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
34175511 AATTTAAAGG
* * *
34175521 TTTAACTAAATTTAAACTATTTAC
1 TTTAACTAAAATAAAAATATTTAC
34175545 TTTAACTAAAATAAAATATATTTA
1 TTTAACTAAAATAAAA-ATATTTA
34175569 ATATCATAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (24 bp):
TTTAACTAAAATAAAAATATTTAC
Found at i:34176090 original size:21 final size:21
Alignment explanation
Indices: 34176064--34176114 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
34176054 ATCGGTGGCA
34176064 GTGAGATT-AATTACTGTAGCG
1 GTGAGATTGAA-TACTGTAGCG
* *
34176085 GTGAGATTGGATATTGTAGCG
1 GTGAGATTGAATACTGTAGCG
34176106 GTGAGATTG
1 GTGAGATTG
34176115 GAAACAATGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.25, C:0.06, G:0.35, T:0.33
Consensus pattern (21 bp):
GTGAGATTGAATACTGTAGCG
Found at i:34179465 original size:26 final size:26
Alignment explanation
Indices: 34179430--34179480 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
34179420 TAAAATAAAC
*
34179430 AGTTAATAGAATCAGTTGGTCAAATT
1 AGTTAATAGAATCAGTTGATCAAATT
* *
34179456 AGTTATTAGAATTAGTTGATCAAAT
1 AGTTAATAGAATCAGTTGATCAAAT
34179481 CAGTCACTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (26 bp):
AGTTAATAGAATCAGTTGATCAAATT
Found at i:34179687 original size:16 final size:17
Alignment explanation
Indices: 34179662--34179694 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
34179652 AAACTTGAAA
34179662 AGTATATATAA-ATATT
1 AGTATATATAATATATT
*
34179678 AGTATTTATAATATATT
1 AGTATATATAATATATT
34179695 TAAAAGTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (17 bp):
AGTATATATAATATATT
Found at i:34186264 original size:13 final size:13
Alignment explanation
Indices: 34186246--34186272 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34186236 AATTTTATAC
34186246 TTGTGCAAGTGGA
1 TTGTGCAAGTGGA
34186259 TTGTGCAAGTGGA
1 TTGTGCAAGTGGA
34186272 T
1 T
34186273 CCCTTCACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.37, T:0.33
Consensus pattern (13 bp):
TTGTGCAAGTGGA
Found at i:34192437 original size:29 final size:28
Alignment explanation
Indices: 34192401--34192478 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
34192391 TCATGAGATT
34192401 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
34192431 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
34192458 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
34192479 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:34192753 original size:173 final size:174
Alignment explanation
Indices: 34192431--34192757 Score: 557
Period size: 173 Copynumber: 1.9 Consensus size: 174
34192421 AAATTGTACA
* *
34192431 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* *
34192496 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
*
34192561 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAACGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
34192605 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
*
34192670 TGTGC-AACCCAGTATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
34192734 TTTTGGACAACGGAAAAGGTAAGT
131 TTTTGGACAACGGAAAAGGTAAGT
34192758 ACCTTGAGTT
Statistics
Matches: 143, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
173 79 0.55
174 64 0.45
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAACGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:34202350 original size:22 final size:22
Alignment explanation
Indices: 34202303--34202350 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
34202293 TTAGTCTTTT
* **
34202303 AAATTTCTAACTCTAATCTCTT
1 AAATTTCTAACTCTAATATCGG
34202325 AAATTTCTAACTCTAAGTAT-GG
1 AAATTTCTAACTCTAA-TATCGG
34202347 AAAT
1 AAAT
34202351 GACTTGAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.40
Consensus pattern (22 bp):
AAATTTCTAACTCTAATATCGG
Found at i:34206737 original size:17 final size:17
Alignment explanation
Indices: 34206715--34206767 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
34206705 TCTAAAAGAA
34206715 ACATAATTAAAAATCCT
1 ACATAATTAAAAATCCT
*
34206732 ACATAA-TAAATAT--T
1 ACATAATTAAAAATCCT
34206746 --ATAATTAAAAATCCT
1 ACATAATTAAAAATCCT
34206761 ACATAAT
1 ACATAAT
34206768 AAATATTAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
12 4 0.14
13 6 0.21
14 1 0.03
15 1 0.03
16 6 0.21
17 11 0.38
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (17 bp):
ACATAATTAAAAATCCT
Found at i:34206759 original size:29 final size:29
Alignment explanation
Indices: 34206717--34206775 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
34206707 TAAAAGAAAC
34206717 ATAATTAAAAATCCTACATAATAAATATT
1 ATAATTAAAAATCCTACATAATAAATATT
34206746 ATAATTAAAAATCCTACATAATAAATATT
1 ATAATTAAAAATCCTACATAATAAATATT
34206775 A
1 A
34206776 AGACAATCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (29 bp):
ATAATTAAAAATCCTACATAATAAATATT
Found at i:34210129 original size:17 final size:19
Alignment explanation
Indices: 34210098--34210132 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
34210088 TGGGGTAGCA
34210098 AAAAATATAATAATAAAAT
1 AAAAATATAATAATAAAAT
34210117 AAAAATA-AA-AATAAAA
1 AAAAATATAATAATAAAA
34210133 GGAAAAAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 2 0.12
19 7 0.44
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (19 bp):
AAAAATATAATAATAAAAT
Found at i:34210138 original size:17 final size:19
Alignment explanation
Indices: 34210098--34210139 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
34210088 TGGGGTAGCA
*
34210098 AAAAATATAATAATAAAAT
1 AAAAATATAATAATAAAAG
34210117 AAAAATA-AA-AATAAAAGG
1 AAAAATATAATAATAAAA-G
34210135 AAAAA
1 AAAAA
34210140 GAAAGGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 7 0.33
18 7 0.33
19 7 0.33
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.17
Consensus pattern (19 bp):
AAAAATATAATAATAAAAG
Found at i:34214874 original size:46 final size:46
Alignment explanation
Indices: 34214773--34215144 Score: 423
Period size: 46 Copynumber: 8.6 Consensus size: 46
34214763 TACATATGAT
* *
34214773 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
34214816 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
* * * *
34214862 CACTTACCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
34214908 CACTTATCACTTTGTCACTTGATCAGAT-A-AGTA--T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
* * *
34214944 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
*
34214990 CACTTATCACTTTGTCTCTTGATCAGAT-A-AGT-G-T-A-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
* *
34215026 CACTTATCACTTTTTCACTTGATCAGATAAGTA-TAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAG-AGTAGCTAAGGCTAC
* * *
34215072 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
*
34215118 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
34215145 AGTACTCAAA
Statistics
Matches: 285, Mismatches: 19, Indels: 47
0.81 0.05 0.13
Matches are distributed among these distances:
36 53 0.19
37 2 0.01
38 4 0.01
39 2 0.01
40 4 0.01
41 4 0.01
42 4 0.01
43 11 0.04
44 10 0.04
45 21 0.07
46 170 0.60
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
Found at i:34214949 original size:36 final size:36
Alignment explanation
Indices: 34214908--34215062 Score: 184
Period size: 36 Copynumber: 4.0 Consensus size: 36
34214898 CTAAGGCTAA
34214908 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
34214944 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG
* *
34214986 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
34215026 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
34215062 C
1 C
34215063 TAATGCTACC
Statistics
Matches: 102, Mismatches: 7, Indels: 20
0.79 0.05 0.16
Matches are distributed among these distances:
36 63 0.62
38 3 0.03
40 3 0.03
42 3 0.03
44 2 0.02
46 28 0.27
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:34214999 original size:82 final size:82
Alignment explanation
Indices: 34214862--34215108 Score: 413
Period size: 82 Copynumber: 3.0 Consensus size: 82
34214852 CTAAGGCTAC
* * * *
34214862 CACTTACCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
*
34214927 TGATCAGATAAGTATAG
66 TGATCAGATAAGTGTAG
*
34214944 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
34215009 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
* * *
34215026 CACTTATCACTTTTTCACTTGATCAGATAAGTATAGCTAATGCTACCACTTATCACTTTCTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
34215091 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
34215108 C
1 C
34215109 TAATGCTACC
Statistics
Matches: 155, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 155 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
TGATCAGATAAGTGTAG
Found at i:34215011 original size:128 final size:123
Alignment explanation
Indices: 34214908--34215144 Score: 349
Period size: 128 Copynumber: 1.9 Consensus size: 123
34214898 CTAAGGCTAA
*
34214908 CACTTATCACTTTGTCACTTGATCAGATAAG-TA-T-A-G-CACTTATCACTTTTTCACTTGATC
1 CACTTATCACTTTGTCACTTGATCAGATAAGATACTAATGCCACTTATCACTTTCTCACTTGATC
* *
34214968 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
66 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
*
34215026 CACTTATCACTTTTTCACTTGATCAGATAAGTATAGCTAATGCTACCACTTATCACTTTCTCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAG-ATA-CTAATG---CCACTTATCACTTTCTCACT
*
34215091 TGATCAGATAAGTGTAGCTAATGCTACCACTTATCACTTTATCACTTGATCAGA
61 TGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGA
34215145 AGTACTCAAA
Statistics
Matches: 104, Mismatches: 5, Indels: 10
0.87 0.04 0.08
Matches are distributed among these distances:
118 30 0.29
120 2 0.02
122 1 0.01
123 1 0.01
124 1 0.01
128 69 0.66
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (123 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGATACTAATGCCACTTATCACTTTCTCACTTGATC
AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTTGATCAGATAAGTGTAG
Found at i:34217831 original size:38 final size:38
Alignment explanation
Indices: 34217780--34217856 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
34217770 GATAACTCTA
* *
34217780 CAATCCTATATTTTCCTCCTAAAGTCACTCCAACACTC
1 CAATCCCATATTTTCCTCCTAAAATCACTCCAACACTC
*
34217818 CAATCCCATATTTTCCTCCTAAAATCACTCCAACGCTC
1 CAATCCCATATTTTCCTCCTAAAATCACTCCAACACTC
34217856 C
1 C
34217857 CCCACCAAGC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.29, C:0.39, G:0.03, T:0.30
Consensus pattern (38 bp):
CAATCCCATATTTTCCTCCTAAAATCACTCCAACACTC
Found at i:34220539 original size:11 final size:10
Alignment explanation
Indices: 34220511--34220565 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
34220501 AATTAAAATG
34220511 TTAAAATAAA
1 TTAAAATAAA
*
34220521 TTTAAATAAA
1 TTAAAATAAA
34220531 TTAACAAT--A
1 TTAA-AATAAA
* *
34220540 TTGAAATAAT
1 TTAAAATAAA
*
34220550 TTGAAATAAA
1 TTAAAATAAA
34220560 TTAAAA
1 TTAAAA
34220566 AATGTTAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
8 3 0.08
9 4 0.11
10 26 0.72
11 3 0.08
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (10 bp):
TTAAAATAAA
Found at i:34220548 original size:29 final size:28
Alignment explanation
Indices: 34220501--34220597 Score: 92
Period size: 29 Copynumber: 3.4 Consensus size: 28
34220491 ATAATATATG
*
34220501 AATTAAAATGTTAAAATAAATTT-AAATA
1 AATTAAAATATTAAAAT-AATTTGAAATA
*
34220529 AATTAACAATATTGAAATAATTTGAAATA
1 AATTAA-AATATTAAAATAATTTGAAATA
* *
34220558 AATTAAAAAATGTTAAAAT-ATTTGAAAGA
1 AATT--AAAATATTAAAATAATTTGAAATA
*
34220587 GA-TAAAATATT
1 AATTAAAATATT
34220598 TATATAACAA
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
26 7 0.12
28 12 0.21
29 28 0.48
30 9 0.16
31 2 0.03
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.34
Consensus pattern (28 bp):
AATTAAAATATTAAAATAATTTGAAATA
Found at i:34222025 original size:6 final size:7
Alignment explanation
Indices: 34222004--34222028 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
34221994 ATTTATATAA
34222004 TTTATTT
1 TTTATTT
34222011 TTTATTT
1 TTTATTT
34222018 TTTATTT
1 TTTATTT
34222025 TTTA
1 TTTA
34222029 CTACATCTTA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTATTT
Found at i:34222160 original size:3 final size:3
Alignment explanation
Indices: 34222154--34222178 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
34222144 ATTTTTTTAC
34222154 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
34222179 ATATACACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:34222673 original size:47 final size:47
Alignment explanation
Indices: 34222602--34222691 Score: 162
Period size: 47 Copynumber: 1.9 Consensus size: 47
34222592 CGTCGCACCA
34222602 TTTTCTTTCACTTTCCTCCCATCCAAACACCCACCACTTCATTATCG
1 TTTTCTTTCACTTTCCTCCCATCCAAACACCCACCACTTCATTATCG
* *
34222649 TTTTCTTTCACTTTCCTCCTATCCAAACACCGACCACTTCATT
1 TTTTCTTTCACTTTCCTCCCATCCAAACACCCACCACTTCATT
34222692 CCTAGCAACA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.21, C:0.39, G:0.02, T:0.38
Consensus pattern (47 bp):
TTTTCTTTCACTTTCCTCCCATCCAAACACCCACCACTTCATTATCG
Found at i:34223737 original size:118 final size:118
Alignment explanation
Indices: 34223529--34223755 Score: 427
Period size: 118 Copynumber: 1.9 Consensus size: 118
34223519 ACCTCATGCA
*
34223529 AAAATTAGATTAGAGAGCGTTGCAAGGTTTTAGGTTGTATTTTTCATTTAAAATTGTTTCTGTTA
1 AAAATTAGATTAGAGAGCGTTACAAGGTTTTAGGTTGTATTTTTCATTTAAAATTGTTTCTGTTA
34223594 AGTATGGCTCCTATTTTCAGTCAAATTTGAGAAATAATCTTTTAAAATTGTTT
66 AGTATGGCTCCTATTTTCAGTCAAATTTGAGAAATAATCTTTTAAAATTGTTT
* *
34223647 AAAATTAGATTAGAGAGCGTTATAAGGTTTTAGGTTGTATTTTTCGTTTAAAATTGTTTCTGTTA
1 AAAATTAGATTAGAGAGCGTTACAAGGTTTTAGGTTGTATTTTTCATTTAAAATTGTTTCTGTTA
34223712 AGTATGGCTCCTATTTTCAGTCAAATTTGAGAAATAATCTTTTA
66 AGTATGGCTCCTATTTTCAGTCAAATTTGAGAAATAATCTTTTA
34223756 GTTAAACTCT
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 106 1.00
ACGTcount: A:0.30, C:0.08, G:0.17, T:0.44
Consensus pattern (118 bp):
AAAATTAGATTAGAGAGCGTTACAAGGTTTTAGGTTGTATTTTTCATTTAAAATTGTTTCTGTTA
AGTATGGCTCCTATTTTCAGTCAAATTTGAGAAATAATCTTTTAAAATTGTTT
Found at i:34226636 original size:21 final size:19
Alignment explanation
Indices: 34226611--34226650 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
34226601 CCGGCCTGAT
34226611 TTTTAATAAACACAAAAAATA
1 TTTTAA-AAACA-AAAAAATA
*
34226632 TTTTAAAAATAAAAAAATA
1 TTTTAAAAACAAAAAAATA
34226651 AAAAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (19 bp):
TTTTAAAAACAAAAAAATA
Found at i:34226691 original size:8 final size:7
Alignment explanation
Indices: 34226674--34226714 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
34226664 AAAGTATTTT
*
34226674 AAAATTA
1 AAAAATA
34226681 AAAAATA
1 AAAAATA
34226688 AAAAATA
1 AAAAATA
34226695 AAAAAT-
1 AAAAATA
34226701 AAAAATA
1 AAAAATA
34226708 AAAAATA
1 AAAAATA
34226715 TATATTTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 6 0.19
7 26 0.81
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (7 bp):
AAAAATA
Found at i:34226696 original size:14 final size:14
Alignment explanation
Indices: 34226674--34226714 Score: 66
Period size: 13 Copynumber: 3.0 Consensus size: 14
34226664 AAAGTATTTT
*
34226674 AAAATTAAAAAATA
1 AAAAATAAAAAATA
34226688 AAAAATAAAAAAT-
1 AAAAATAAAAAATA
34226701 AAAAATAAAAAATA
1 AAAAATAAAAAATA
34226715 TATATTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (14 bp):
AAAAATAAAAAATA
Found at i:34230831 original size:119 final size:115
Alignment explanation
Indices: 34230573--34231031 Score: 390
Period size: 119 Copynumber: 3.9 Consensus size: 115
34230563 CACATGTCCA
* * * * * *
34230573 TGTACCATGACAAATTCGATTTATTGTCACTTTAAGATGTAAATATTTGAAATTTTTTATTTT--
1 TGTACAATGACAAATTCCATTTATTGTTACTTTAAAATGTAAATATTTG-AATTTATGATTTTGA
* * * * * *
34230636 CA-AAGG-AGCCAATATTTGATCTCTCTGTTAGACCAAGACATG-TGTGTGTC
65 CATAAGGTA-CCAATGTTTGATCTGTCTCTGAGACAAAGACA-GATATGTGTC
** *
34230686 TGTGTAGTATGACTAATTCCATTTATTGTTACTTTAAAATGTAAATATTTGAATTTCATGATTTT
1 --TGTACAATGACAAATTCCATTTATTGTTACTTTAAAATGTAAATATTTGAATTT-ATGA-TTT
* *
34230751 TGACATAAGGTACCAAGGTTTGATCTGTCTCTGAGACAAAGACAGAT-TCGCTTGTG
62 TGACATAAGGTACCAATGTTTGATCTGTCTCTGAGACAAAGACAGATAT-G--TGTC
* * * * *
34230807 TGTTCTATGGCAAATTCCATTTATTGTTGCTTTAAAATGTAAATATTTGAATTTTATCATTTTGA
1 TGTACAATGACAAATTCCATTTATTGTTACTTTAAAATGTAAATATTTGAA-TTTATGATTTTGA
* * * * *
34230872 CATAAAGTACCAATGTTTGGTCCGTGTCTCTTAGACCAAGGACATATATGTGTC
65 CATAAGGTACCAATGTTTGAT-C-TGTCTCTGAGA-CAAAGACAGATATGTGTC
* * * * *
34230926 TGTACAATGACAAATTCCTTTTATTATTACTTCAAAGTGTAAAGATTTGAAATTTATGATTTTGA
1 TGTACAATGACAAATTCCATTTATTGTTACTTTAAAATGTAAATATTTG-AATTTATGATTTTGA
* * * * *
34230991 GATAAGGTAGCATTGTTTGAGATGTGTCTCTGAGACCAAGA
65 CATAAGGTACCAATGTTT--GATCTGTCTCTGAGACAAAGA
34231032 ATTATGTCAT
Statistics
Matches: 279, Mismatches: 47, Indels: 33
0.78 0.13 0.09
Matches are distributed among these distances:
114 5 0.02
115 45 0.16
116 4 0.01
118 32 0.11
119 161 0.58
120 16 0.06
121 15 0.05
122 1 0.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (115 bp):
TGTACAATGACAAATTCCATTTATTGTTACTTTAAAATGTAAATATTTGAATTTATGATTTTGAC
ATAAGGTACCAATGTTTGATCTGTCTCTGAGACAAAGACAGATATGTGTC
Found at i:34238265 original size:15 final size:15
Alignment explanation
Indices: 34238245--34238312 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 15
34238235 ATACTATAAA
34238245 ATATTTATTATTAAT
1 ATATTTATTATTAAT
34238260 ATATTTA-TAGTTGTAAT
1 ATATTTATTA--T-TAAT
*
34238277 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
*
34238294 ATA-TTAATATTAA-
1 ATATTTATTATTAAT
34238307 ATATTT
1 ATATTT
34238313 TAATAAAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
13 3 0.07
14 13 0.30
15 10 0.23
16 1 0.02
17 7 0.16
18 1 0.02
19 7 0.16
20 2 0.05
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:34238315 original size:15 final size:15
Alignment explanation
Indices: 34238276--34238317 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
34238266 ATAGTTGTAA
*
34238276 TAAATA-TTTATTAT
1 TAAATATTTTAATAT
*
34238290 TAAA-ATATTAATAT
1 TAAATATTTTAATAT
34238304 TAAATATTTTAATA
1 TAAATATTTTAATA
34238318 AAATTTGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 1 0.04
14 14 0.61
15 8 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TAAATATTTTAATAT
Found at i:34238361 original size:16 final size:16
Alignment explanation
Indices: 34238330--34238366 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
34238320 ATTTGAAGAA
34238330 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
34238346 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
34238362 TATTA
1 TATTA
34238367 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:34238416 original size:27 final size:24
Alignment explanation
Indices: 34238361--34238418 Score: 80
Period size: 24 Copynumber: 2.3 Consensus size: 24
34238351 TTAAAATTTA
34238361 TTATTAAAATAAAAATTAAATAAT
1 TTATTAAAATAAAAATTAAATAAT
*
34238385 TTATTAAAATAATAAATTATATTAAT
1 TTATTAAAATAA-AAATTA-AATAAT
34238411 TATATTAA
1 T-TATTAA
34238419 TAATTTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 12 0.40
25 6 0.20
26 6 0.20
27 6 0.20
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TTATTAAAATAAAAATTAAATAAT
Found at i:34238420 original size:25 final size:25
Alignment explanation
Indices: 34238361--34238431 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 25
34238351 TTAAAATTTA
*
34238361 TTATTAAAATAA-AAATTA-AATAAT
1 TTATT-AAATAATAAATTATATTAAT
34238385 TTATTAAAATAATAAATTATATTAAT
1 TTATT-AAATAATAAATTATATTAAT
**
34238411 TATATT-AATAATTTATTATAT
1 T-TATTAAATAATAAATTATAT
34238432 GACTAAATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
24 12 0.29
25 19 0.46
26 6 0.15
27 4 0.10
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
TTATTAAATAATAAATTATATTAAT
Found at i:34240016 original size:66 final size:66
Alignment explanation
Indices: 34239945--34240073 Score: 231
Period size: 66 Copynumber: 2.0 Consensus size: 66
34239935 TCAATCATGC
* * *
34239945 ATCATACATATAACATAAATACACATTCATAAAGACTTTATTCATATCCATAATCGAATCATAAT
1 ATCATACATATAACATAAATACACATTCATAAAGACTTTACTCATACCCATAACCGAATCATAAT
34240010 G
66 G
34240011 ATCATACATATAACATAAATACACATTCATAAAGACTTTACTCATACCCATAACCGAATCATA
1 ATCATACATATAACATAAATACACATTCATAAAGACTTTACTCATACCCATAACCGAATCATA
34240074 CTTCTTTACA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.46, C:0.21, G:0.04, T:0.29
Consensus pattern (66 bp):
ATCATACATATAACATAAATACACATTCATAAAGACTTTACTCATACCCATAACCGAATCATAAT
G
Found at i:34241921 original size:21 final size:21
Alignment explanation
Indices: 34241879--34241921 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
34241869 TAATTAATTT
* * **
34241879 GGAATTAAATCTTTTTGTAAG
1 GGAATAAAATCTTTCTAAAAG
34241900 GGAATAAAATCTTTCTAAAAG
1 GGAATAAAATCTTTCTAAAAG
34241921 G
1 G
34241922 AAACCTAAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.35
Consensus pattern (21 bp):
GGAATAAAATCTTTCTAAAAG
Found at i:34244385 original size:63 final size:64
Alignment explanation
Indices: 34244285--34244461 Score: 200
Period size: 63 Copynumber: 2.8 Consensus size: 64
34244275 GGTTCTAAAC
* * * * *
34244285 CAATTTATTTGACACAAGCACCACAACACACACAATCATTCCTC-GGATCAAAACCTTCAGC-T
1 CAATTTATTTTACACAAGCACCACAACATACACAATCATTCCTCTGCATCAAAACATTCAGCAG
* * * * *
34244347 CTAATTTATTTTACACTAGCACTACAGCATGCACAATCATT-CTCTGCATCAACACATTCAGCAG
1 C-AATTTATTTTACACAAGCACCACAACATACACAATCATTCCTCTGCATCAAAACATTCAGCAG
* * *
34244411 CAGTTTATTTTACACAAGCACCACAACATACACAATTATTCAT-TGCATCAA
1 CAATTTATTTTACACAAGCACCACAACATACACAATCATTCCTCTGCATCAA
34244462 CACCTTCTCC
Statistics
Matches: 94, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
62 4 0.04
63 88 0.94
64 2 0.02
ACGTcount: A:0.36, C:0.29, G:0.08, T:0.27
Consensus pattern (64 bp):
CAATTTATTTTACACAAGCACCACAACATACACAATCATTCCTCTGCATCAAAACATTCAGCAG
Found at i:34272529 original size:44 final size:43
Alignment explanation
Indices: 34272466--34272548 Score: 130
Period size: 44 Copynumber: 1.9 Consensus size: 43
34272456 TATGTGATTG
* *
34272466 ATATTGAAATGGCAAATATGAGAATATGAATATGAGATGATAAA
1 ATATTGAAATGGAAAATATGAGAA-ACGAATATGAGATGATAAA
*
34272510 ATATTGAAATGGAAAATATGAGAAACGATTATGAGATGA
1 ATATTGAAATGGAAAATATGAGAAACGAATATGAGATGA
34272549 GAAATAAGAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
43 13 0.36
44 23 0.64
ACGTcount: A:0.49, C:0.02, G:0.22, T:0.27
Consensus pattern (43 bp):
ATATTGAAATGGAAAATATGAGAAACGAATATGAGATGATAAA
Found at i:34277645 original size:37 final size:37
Alignment explanation
Indices: 34277596--34277670 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
34277586 ATTTCACCAT
*
34277596 TTTTAACCATAAATCATGCTAGCCAGTTTTTACTTAA
1 TTTTAACCATAAATCATGCTAGCCAATTTTTACTTAA
*
34277633 TTTTAACCATAAATTATGCTAGCCAATTTTTACTTAA
1 TTTTAACCATAAATCATGCTAGCCAATTTTTACTTAA
34277670 T
1 T
34277671 CTTATAACAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (37 bp):
TTTTAACCATAAATCATGCTAGCCAATTTTTACTTAA
Found at i:34285752 original size:42 final size:39
Alignment explanation
Indices: 34285665--34285786 Score: 111
Period size: 40 Copynumber: 3.0 Consensus size: 39
34285655 CAAAATGCTA
* * ** *
34285665 CAAAAGGTAAGGCATTAGCGGCGTTTTTGAATAAACGCCG
1 CAAAAGGTTA-GCAATAGCGGCGTTTTTTCATAAAAGCCG
* *
34285705 CAAAAGAG-TAGAACCATAGCGGCGTTTTTCTCATAAAAGTCG
1 CAAAAG-GTTAG--CAATAGCGGCGTTTTT-TCATAAAAGCCG
* *
34285747 CAAAAGGTTAGCAATAGCGGCGCTTTTTCATAAACGCCG
1 CAAAAGGTTAGCAATAGCGGCGTTTTTTCATAAAAGCCG
34285786 C
1 C
34285787 GAATATGTAT
Statistics
Matches: 66, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
39 12 0.18
40 21 0.32
41 16 0.24
42 17 0.26
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (39 bp):
CAAAAGGTTAGCAATAGCGGCGTTTTTTCATAAAAGCCG
Found at i:34286671 original size:13 final size:13
Alignment explanation
Indices: 34286654--34286684 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
34286644 ATAGAAGGTA
34286654 AAAATTTTATTAG
1 AAAATTTTATTAG
*
34286667 GAAATTTTATTAG
1 AAAATTTTATTAG
34286680 AAAAT
1 AAAAT
34286685 AATTAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (13 bp):
AAAATTTTATTAG
Found at i:34286746 original size:23 final size:23
Alignment explanation
Indices: 34286720--34286790 Score: 124
Period size: 23 Copynumber: 3.1 Consensus size: 23
34286710 TGTTTATGAA
34286720 ATAGTTTATGAAAACAGGAATAT
1 ATAGTTTATGAAAACAGGAATAT
*
34286743 ATAGTTTATGAAAACAAGAATAT
1 ATAGTTTATGAAAACAGGAATAT
*
34286766 ATAGTTTATGAAAATAGGAATAT
1 ATAGTTTATGAAAACAGGAATAT
34286789 AT
1 AT
34286791 TAAATAAAGG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.49, C:0.03, G:0.15, T:0.32
Consensus pattern (23 bp):
ATAGTTTATGAAAACAGGAATAT
Found at i:34287869 original size:26 final size:26
Alignment explanation
Indices: 34287840--34287890 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
34287830 GAATTTTATA
*
34287840 TTTTTT-TAATTTGGTACTTAAATTT
1 TTTTTTCTAATTTGATACTTAAATTT
*
34287865 TTTTTTCTAATTTGATATTTAAATTT
1 TTTTTTCTAATTTGATACTTAAATTT
34287891 ATCAAACATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.25, C:0.04, G:0.06, T:0.65
Consensus pattern (26 bp):
TTTTTTCTAATTTGATACTTAAATTT
Found at i:34288576 original size:35 final size:35
Alignment explanation
Indices: 34288530--34288598 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
34288520 AGAATAAAAT
*
34288530 TTAATGATTATCATAACTTACATAAACATTTAAAG
1 TTAATGATTATCATAACTTACACAAACATTTAAAG
34288565 TTAATGATTATCATAACTTACACAAACATTTAAA
1 TTAATGATTATCATAACTTACACAAACATTTAAA
34288599 TAATATAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.46, C:0.13, G:0.04, T:0.36
Consensus pattern (35 bp):
TTAATGATTATCATAACTTACACAAACATTTAAAG
Found at i:34294900 original size:22 final size:23
Alignment explanation
Indices: 34294839--34294900 Score: 58
Period size: 22 Copynumber: 2.7 Consensus size: 23
34294829 TATTGTTTTT
*
34294839 AGCTCAT-TGAAGCTTACTGTTTC
1 AGCTCATATG-AGCTTACTGCTTC
* *
34294862 AGCTCGTATGAGGTTACT-CTTC
1 AGCTCATATGAGCTTACTGCTTC
34294884 AGCTCATCA-GAGCTTAC
1 AGCTCAT-ATGAGCTTAC
34294901 CATTTTAGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
22 16 0.50
23 14 0.44
24 2 0.06
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (23 bp):
AGCTCATATGAGCTTACTGCTTC
Found at i:34295122 original size:20 final size:20
Alignment explanation
Indices: 34295097--34295154 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
34295087 AAGATATGTA
*
34295097 TTTATATGGATGAATTATTG
1 TTTATATGGATGAATTACTG
* * *
34295117 TTTATACGGATGGACTACTG
1 TTTATATGGATGAATTACTG
* *
34295137 GTTATATGAATGAATTAC
1 TTTATATGGATGAATTAC
34295155 AGTTATACGA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (20 bp):
TTTATATGGATGAATTACTG
Found at i:34302051 original size:22 final size:23
Alignment explanation
Indices: 34301985--34302071 Score: 90
Period size: 23 Copynumber: 3.8 Consensus size: 23
34301975 CAGCTTATAA
*
34301985 GAGCTTACTGTTTTCAGCACGT-T
1 GAGCTTACTG-TTTCAGCTCGTAT
* *
34302008 GAAGCTTACCGTTTTAGCTCGTAT
1 G-AGCTTACTGTTTCAGCTCGTAT
34302032 GAGCTTACTG-TTCAGCTCGTCA-
1 GAGCTTACTGTTTCAGCTCGT-AT
*
34302054 GAGCTTACTGTTTTAGCT
1 GAGCTTACTGTTTCAGCT
34302072 TAATAGAGCC
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
22 19 0.35
23 25 0.46
24 10 0.19
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (23 bp):
GAGCTTACTGTTTCAGCTCGTAT
Found at i:34302283 original size:20 final size:20
Alignment explanation
Indices: 34302258--34302315 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
34302248 AAGATATGTA
*
34302258 TTTATATGGATGAATTATTG
1 TTTATATGGATGAATTACTG
* * *
34302278 TTTATACGGATGGACTACTG
1 TTTATATGGATGAATTACTG
* *
34302298 GTTATATGAATGAATTAC
1 TTTATATGGATGAATTAC
34302316 AGTTATACAA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.07, G:0.21, T:0.41
Consensus pattern (20 bp):
TTTATATGGATGAATTACTG
Found at i:34310280 original size:34 final size:34
Alignment explanation
Indices: 34310242--34310312 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
34310232 CCATGATTTC
34310242 TTTGAATAATATATTAGCCAATCGGGTAGTTGGT
1 TTTGAATAATATATTAGCCAATCGGGTAGTTGGT
34310276 TTTGAATAATATATTAGCCAATCGGGTAGTTGGT
1 TTTGAATAATATATTAGCCAATCGGGTAGTTGGT
34310310 TTT
1 TTT
34310313 CATTTGAGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.41
Consensus pattern (34 bp):
TTTGAATAATATATTAGCCAATCGGGTAGTTGGT
Found at i:34312453 original size:25 final size:24
Alignment explanation
Indices: 34312425--34312481 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 24
34312415 GGTAACTCCG
34312425 AAGAGCTATTATCAGGAAGCTCACA
1 AAGAGCTA-TATCAGGAAGCTCACA
* *
34312450 AAGAGCCTATATCAGGACGCTCATA
1 AAGAG-CTATATCAGGAAGCTCACA
34312475 AAGAGCT
1 AAGAGCT
34312482 GCGGTATGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 2 0.07
25 24 0.83
26 3 0.10
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (24 bp):
AAGAGCTATATCAGGAAGCTCACA
Found at i:34312542 original size:64 final size:64
Alignment explanation
Indices: 34312457--34312580 Score: 169
Period size: 64 Copynumber: 1.9 Consensus size: 64
34312447 ACAAAGAGCC
* * * * * *
34312457 TATATCAGGACGCTCATAAAGAGCTGCGGTATGTCCGCAATATATGCAGGATC-AATACCGGTCA
1 TATAGCAGGACGCTCACAAAGAGCTACAGTATATCCGCAACATATGCAGGA-CAAATACCGGTCA
*
34312521 TATAGCAGGACGCTCACAAAGAGCTACAGTATATCCGCAACATATGTAGGACAAATACCG
1 TATAGCAGGACGCTCACAAAGAGCTACAGTATATCCGCAACATATGCAGGACAAATACCG
34312581 ATCGAGATGC
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
63 1 0.02
64 51 0.98
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.21
Consensus pattern (64 bp):
TATAGCAGGACGCTCACAAAGAGCTACAGTATATCCGCAACATATGCAGGACAAATACCGGTCA
Found at i:34317751 original size:17 final size:17
Alignment explanation
Indices: 34317713--34317763 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
34317703 TATTAAATTT
*
34317713 ATAAAA-TAAA-ATAAA
1 ATAAAATTAAATATTAA
34317728 ATAAAATTAAATATTAA
1 ATAAAATTAAATATTAA
*
34317745 ATTAAATTAAATATTAA
1 ATAAAATTAAATATTAA
34317762 AT
1 AT
34317764 CTATTAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.19
16 4 0.12
17 22 0.69
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
ATAAAATTAAATATTAA
Found at i:34317753 original size:10 final size:10
Alignment explanation
Indices: 34317716--34317763 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
34317706 TAAATTTATA
*
34317716 AAATAAAATA
1 AAATAAAATT
34317726 AAATAAAATT
1 AAATAAAATT
34317736 AAATATTAAATT
1 AAATA--AAATT
34317748 AAATTAAATATT
1 AAA-TAAA-ATT
34317760 AAAT
1 AAAT
34317764 CTATTAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
10 14 0.42
11 3 0.09
12 14 0.42
13 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAATAAAATT
Found at i:34318409 original size:17 final size:18
Alignment explanation
Indices: 34318382--34318422 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
34318372 ACGAAAAACA
34318382 AAAACCAAAACC-AAGCCC
1 AAAA-CAAAACCAAAGCCC
*
34318400 AAAACAAAACCAAAGCCT
1 AAAACAAAACCAAAGCCC
34318418 AAAAC
1 AAAAC
34318423 TTAGTTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.61, C:0.32, G:0.05, T:0.02
Consensus pattern (18 bp):
AAAACAAAACCAAAGCCC
Found at i:34328872 original size:16 final size:17
Alignment explanation
Indices: 34328838--34328872 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
34328828 TTTTCGTTTA
*
34328838 AAAAATAAAATAATTTT
1 AAAAATAAAATAATATT
34328855 AAAAATAAAAT-ATATT
1 AAAAATAAAATAATATT
34328871 AA
1 AA
34328873 TTATTTAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAAATAAAATAATATT
Found at i:34329179 original size:13 final size:13
Alignment explanation
Indices: 34329145--34329183 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
34329135 AACAATAACT
34329145 ATTATTTA-ATAA
1 ATTATTTATATAA
*
34329157 A-TAATTATATAA
1 ATTATTTATATAA
34329169 ATTATTTATATAA
1 ATTATTTATATAA
34329182 AT
1 AT
34329184 AATTATTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
11 5 0.22
12 6 0.26
13 12 0.52
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
ATTATTTATATAA
Found at i:34329312 original size:16 final size:15
Alignment explanation
Indices: 34329270--34329326 Score: 69
Period size: 16 Copynumber: 3.5 Consensus size: 15
34329260 TCTATTATAT
34329270 TTAATTTATATAAATAA
1 TTAATTT-TATAAA-AA
34329287 TTTAAATTTTATAAAATA
1 -TT-AATTTTATAAAA-A
34329305 TTAATTTTATAAAAA
1 TTAATTTTATAAAAA
34329320 TTAATTT
1 TTAATTT
34329327 ATTTTAGCCG
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
15 8 0.22
16 12 0.32
17 3 0.08
18 9 0.24
19 5 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TTAATTTTATAAAAA
Found at i:34329332 original size:19 final size:18
Alignment explanation
Indices: 34329268--34329332 Score: 62
Period size: 19 Copynumber: 3.6 Consensus size: 18
34329258 TATCTATTAT
* *
34329268 ATTTAATTTATATAAATA
1 ATTTATTTTATAAAAATA
34329286 ATTTAAATTTTAT-AAAAT-
1 ATTT--ATTTTATAAAAATA
*
34329304 ATTAATTTTATAAAAATTA
1 ATTTATTTTATAAAAA-TA
34329323 ATTTATTTTA
1 ATTTATTTTA
34329333 GCCGATTGAG
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
16 7 0.18
17 4 0.11
18 8 0.21
19 13 0.34
20 6 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTTATTTTATAAAAATA
Found at i:34330006 original size:10 final size:10
Alignment explanation
Indices: 34329989--34330025 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
34329979 TTATTTTATG
34329989 ATATAAAATA
1 ATATAAAATA
*
34329999 AAATAAAATA
1 ATATAAAATA
*
34330009 ATATAATATA
1 ATATAAAATA
34330019 ATATAAA
1 ATATAAA
34330026 TTGATATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
ATATAAAATA
Found at i:34330032 original size:20 final size:20
Alignment explanation
Indices: 34329986--34330032 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
34329976 TATTTATTTT
34329986 ATGATATAAAATAAAATAAA
1 ATGATATAAAATAAAATAAA
* * *
34330006 ATAATATAATATAATATAAA
1 ATGATATAAAATAAAATAAA
*
34330026 TTGATAT
1 ATGATAT
34330033 TTTGAAAGAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (20 bp):
ATGATATAAAATAAAATAAA
Found at i:34330271 original size:15 final size:16
Alignment explanation
Indices: 34330247--34330281 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
34330237 TATTTTAATA
**
34330247 TTATTTTTTTGAAAAT
1 TTATTTTTTAAAAAAT
34330263 TTATTTTTTAAAAAAT
1 TTATTTTTTAAAAAAT
34330279 TTA
1 TTA
34330282 AAGAAAATAC
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:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (16 bp):
TTATTTTTTAAAAAAT
Found at i:34338378 original size:22 final size:22
Alignment explanation
Indices: 34338352--34338410 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
34338342 GAGAAATAAA
* *
34338352 AATTGAGTGAGAATTAAGAGGG
1 AATTGAGAGAGAATTAAAAGGG
34338374 AATTGAGAGA-AATTTAAAAGGG
1 AATTGAGAGAGAA-TTAAAAGGG
*
34338396 ATTTGAGAGAGAATT
1 AATTGAGAGAGAATT
34338411 GAGAATGTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 2 0.06
22 28 0.88
23 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.25
Consensus pattern (22 bp):
AATTGAGAGAGAATTAAAAGGG
Found at i:34339578 original size:9 final size:9
Alignment explanation
Indices: 34339564--34339600 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
34339554 TATAGTTTGA
34339564 TATTCGAAT
1 TATTCGAAT
34339573 TATTCGAAT
1 TATTCGAAT
* *
34339582 TAATCGAGT
1 TATTCGAAT
34339591 TATTCGAAT
1 TATTCGAAT
34339600 T
1 T
34339601 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (9 bp):
TATTCGAAT
Found at i:34350117 original size:19 final size:20
Alignment explanation
Indices: 34350083--34350133 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 20
34350073 GCGACACTTG
34350083 AATTGGATG-TCGCAACATC
1 AATTGGATGTTCGCAACATC
*
34350102 AATTGGATGTTC-CAACATT
1 AATTGGATGTTCGCAACATC
34350121 AGATTTGGATGTT
1 A-A-TTGGATGTT
34350134 GTGACACCGC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 16 0.57
20 3 0.11
21 9 0.32
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (20 bp):
AATTGGATGTTCGCAACATC
Found at i:34352264 original size:27 final size:26
Alignment explanation
Indices: 34352222--34352314 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 26
34352212 AAACACGTCA
34352222 GAAAGTAAAAGCCTTTGTGGCGTAATAT
1 GAAAG-AAAAG-CTTTGTGGCGTAATAT
*
34352250 GAAAGAAAAGTCTTTGTGACGTAATAT
1 GAAAGAAAAG-CTTTGTGGCGTAATAT
* * *
34352277 AAAAGAAAAGCTTTTGCGGCATAATAT
1 GAAAGAAAAGC-TTTGTGGCGTAATAT
34352304 GAAAGAAAAGC
1 GAAAGAAAAGC
34352315 CTGTGGAGGC
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
26 1 0.02
27 51 0.89
28 5 0.09
ACGTcount: A:0.43, C:0.10, G:0.23, T:0.25
Consensus pattern (26 bp):
GAAAGAAAAGCTTTGTGGCGTAATAT
Found at i:34362744 original size:18 final size:18
Alignment explanation
Indices: 34362723--34362757 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
34362713 TTCACTCTCT
34362723 TTTTTCGGTTTTACTTTA
1 TTTTTCGGTTTTACTTTA
*
34362741 TTTTTCGTTTTTACTTT
1 TTTTTCGGTTTTACTTT
34362758 TAAAACTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.09, C:0.11, G:0.09, T:0.71
Consensus pattern (18 bp):
TTTTTCGGTTTTACTTTA
Found at i:34363750 original size:19 final size:19
Alignment explanation
Indices: 34363726--34363857 Score: 219
Period size: 19 Copynumber: 6.8 Consensus size: 19
34363716 AATTTTTGAG
34363726 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
34363745 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
34363764 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
34363783 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
34363804 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
34363823 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
34363842 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
34363858 ATATATGATT
Statistics
Matches: 105, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
19 86 0.82
21 19 0.18
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:34363793 original size:59 final size:57
Alignment explanation
Indices: 34363726--34363864 Score: 219
Period size: 59 Copynumber: 2.4 Consensus size: 57
34363716 AATTTTTGAG
*
34363726 GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATAT
* *
34363783 GATATATGCAATCTTAGATATGATATGCAATCTTAGATATGATATATAATCTTAGATAT
1 G--ATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATAT
34363842 GATATGCAATCTTAGA-AT-ATATG
1 GATATGCAATCTTAGATATGATATG
34363865 ATTTTGTAAT
Statistics
Matches: 77, Mismatches: 3, Indels: 6
0.90 0.03 0.07
Matches are distributed among these distances:
55 5 0.06
56 2 0.03
57 16 0.21
59 54 0.70
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (57 bp):
GATATGCAATCTTAGATATGATATGCAATCCTAGATATGATATACAATCTTAGATAT
Found at i:34364651 original size:25 final size:26
Alignment explanation
Indices: 34364608--34364657 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
34364598 TGTACATGTA
34364608 TATATTTTTTAAAACGAATATTTTCC
1 TATATTTTTTAAAACGAATATTTTCC
* *
34364634 TATATTTTTT-TAATGAATATTTTC
1 TATATTTTTTAAAACGAATATTTTC
34364658 ATATTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (26 bp):
TATATTTTTTAAAACGAATATTTTCC
Found at i:34365449 original size:98 final size:98
Alignment explanation
Indices: 34365326--34365520 Score: 329
Period size: 98 Copynumber: 2.0 Consensus size: 98
34365316 AAAAATCATG
**
34365326 AAGGAAATATTCCGAGTTTGAGATTCTAAA-GGAATTGTGCCCTAACGTATTGGGTGTGATTTCT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAATGG-ATCATGCCCTAACGTATTGGGTGTGATTTCT
34365390 TAAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
65 TAAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
* *
34365424 AAGGAAATATTCCGAGTTTGGGATTCTAAATGGATCATGCTCTAACGTATTGGGTGTGATTTCTT
1 AAGGAAATATTCCGAGTTTGAGATTCTAAATGGATCATGCCCTAACGTATTGGGTGTGATTTCTT
*
34365489 AAATCTTGGATGAGTGGATGTTCTTTTAAAGT
66 AAATCTTGGATAAGTGGATGTTCTTTTAAAGT
34365521 TTTATTGTAT
Statistics
Matches: 91, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
98 89 0.98
99 2 0.02
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.37
Consensus pattern (98 bp):
AAGGAAATATTCCGAGTTTGAGATTCTAAATGGATCATGCCCTAACGTATTGGGTGTGATTTCTT
AAATCTTGGATAAGTGGATGTTCTTTTAAAGTA
Found at i:34370013 original size:8 final size:8
Alignment explanation
Indices: 34370000--34370043 Score: 65
Period size: 8 Copynumber: 5.8 Consensus size: 8
34369990 TTCAGATTCA
34370000 AAAAAAAC
1 AAAAAAAC
34370008 AAAAAAAC
1 AAAAAAAC
34370016 --AAAAAC
1 AAAAAAAC
*
34370022 AAAAAAAT
1 AAAAAAAC
34370030 AAAAAAAC
1 AAAAAAAC
34370038 AAAAAA
1 AAAAAA
34370044 TAAAAGTGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 6 0.19
8 26 0.81
ACGTcount: A:0.89, C:0.09, G:0.00, T:0.02
Consensus pattern (8 bp):
AAAAAAAC
Found at i:34370021 original size:14 final size:14
Alignment explanation
Indices: 34370002--34370048 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
34369992 CAGATTCAAA
*
34370002 AAAAACAAAAAAAC
1 AAAAACAAAAAAAT
34370016 AAAAACAAAAAAAT
1 AAAAACAAAAAAAT
*
34370030 AAAAAAACAAAAAAT
1 AAAAACA-AAAAAAT
34370045 AAAA
1 AAAA
34370049 GTGAAAGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 19 0.63
15 11 0.37
ACGTcount: A:0.87, C:0.09, G:0.00, T:0.04
Consensus pattern (14 bp):
AAAAACAAAAAAAT
Found at i:34370048 original size:22 final size:22
Alignment explanation
Indices: 34370000--34370042 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
34369990 TTCAGATTCA
34370000 AAAAAAACAAAAAAACAAAAAC
1 AAAAAAACAAAAAAACAAAAAC
*
34370022 AAAAAAATAAAAAAACAAAAA
1 AAAAAAACAAAAAAACAAAAA
34370043 ATAAAAGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.88, C:0.09, G:0.00, T:0.02
Consensus pattern (22 bp):
AAAAAAACAAAAAAACAAAAAC
Found at i:34371450 original size:44 final size:44
Alignment explanation
Indices: 34371375--34371582 Score: 129
Period size: 44 Copynumber: 4.7 Consensus size: 44
34371365 CCAAGCCTTG
* * * * *
34371375 TCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGATCTTA
* ** **
34371419 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGATCTTA
* * *** * *
34371463 TCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAGCCA-CCAAG-CCTTG
1 TC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAG--ATTGTAGATCTTA
* * * * *
34371507 TCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGATCTTA
*
34371551 TCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA
1 TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA
34371583 CGGCGGATCT
Statistics
Matches: 117, Mismatches: 37, Indels: 20
0.67 0.21 0.11
Matches are distributed among these distances:
42 5 0.04
43 8 0.07
44 94 0.80
45 7 0.06
46 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.23
Consensus pattern (44 bp):
TCTCCCTAAGCAGTAGTGGAGCAGATTGAAGATTGTAGATCTTA
Found at i:34371592 original size:44 final size:44
Alignment explanation
Indices: 34371412--34371597 Score: 137
Period size: 44 Copynumber: 4.2 Consensus size: 44
34371402 GAAGATTGTA
34371412 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCG
* ** ** *
34371456 GATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACC
1 GATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATCGAAGACGGCG
* * * * * * * * * ** **
34371499 AAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTA
1 GA-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCG
34371544 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCG
34371588 GATCTTATCT
1 GATCTTATCT
34371598 TTCCAAGATA
Statistics
Matches: 100, Mismatches: 34, Indels: 16
0.67 0.23 0.11
Matches are distributed among these distances:
42 4 0.04
43 9 0.09
44 78 0.78
45 7 0.07
46 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.24
Consensus pattern (44 bp):
GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCG
Found at i:34371729 original size:132 final size:132
Alignment explanation
Indices: 34371301--34371704 Score: 736
Period size: 132 Copynumber: 3.1 Consensus size: 132
34371291 CTGCATTGAC
* *
34371301 AGTGGAGCAGATCGAAGACGGTGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
*
34371366 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
34371431 GT
131 GT
34371433 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
34371498 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
34371563 GT
131 GT
34371565 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * *
34371630 CAAGCCTTGTCTCCCTCAGCAGCAGTGGAGAAGGTTGAAGATTGTAGATCCTATCTCCCTGAAGT
66 CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCT-AAGC
*
34371695 TGT
130 AGT
34371698 AGTGGAG
1 AGTGGAG
34371705 TGGATTAGAA
Statistics
Matches: 264, Mismatches: 7, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
132 252 0.95
133 12 0.05
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGACGGCGGATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTCAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
GT
Found at i:34371823 original size:44 final size:43
Alignment explanation
Indices: 34371681--34372277 Score: 372
Period size: 44 Copynumber: 13.8 Consensus size: 43
34371671 TTGTAGATCC
* ** * * *
34371681 TATCTCCCTGAAGTTGTAGTGGAGTGGA-TTAGAACCTTAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG-TCT
* * * * * *
34371725 TATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCT
34371765 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAG-AAGCAAGTCT
* * * *
34371809 TATC-CTCCTCAAGTTGCAGTGGGGCAGACTGAAGATGGCAAGTTT
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGA-AGCAAGTCT
* * *
34371854 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA-AAGCCGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAG-C-A-AGTCT
* * * * * *
34371898 TATCTCCCTAAAGTTGCAGTGGTGCGGATTAA-AACCTTAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC-AAG-TCT
* * * * * *
34371942 TATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CGCATCAAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCT
*
34371982 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAGCAAGTCT
* *
34372026 TATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAGTCT
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGACT-AAGA-AGCAAGTCT
* * *
34372071 TATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA-AAGCTGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGC--A-AGTCT
* * * *
34372115 TATCTCTCTGAAGTTACAGTGGAGCGGATTAA-AA-CATTAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCA--AG-TCT
** * * * * *
34372159 TATCTCTTTGAAGTTGCAG-AGAGCAGA-T-CGCATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCT
* *
34372199 TATCTCCCTGAAGTTGCAGTGAAGCAGACTAAATAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAGCAAGTCT
34372243 TATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGA
1 TATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGA
34372278 TGGCACTAAT
Statistics
Matches: 433, Mismatches: 85, Indels: 70
0.74 0.14 0.12
Matches are distributed among these distances:
40 62 0.14
41 29 0.07
42 15 0.03
43 30 0.07
44 220 0.51
45 75 0.17
46 2 0.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (43 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAGCAAGTCT
Found at i:34371936 original size:217 final size:217
Alignment explanation
Indices: 34371677--34372282 Score: 1059
Period size: 217 Copynumber: 2.8 Consensus size: 217
34371667 AAGATTGTAG
* * *
34371677 ATCCTATCTCCCTGAAGTTGTAGTGGAGTGGATTAGAACCTTAGATCTTATCTCTCTGAAGTTGC
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
*
34371742 AGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGT
66 AGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCAAGT
* *
34371807 CTTATCCTCCTCAAGTTGCAGTGGGGCAGACTGAAGATGGCAAGTTTTATCTCCCTGAAGTTGCA
131 CTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCA
34371872 GTGGAGCAGATTAAAGCCGATA
196 GTGGAGCAGATTAAAGCCGATA
* *
34371894 ATCCTATCTCCCTAAAGTTGCAGTGGTGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
* *
34371959 AGAGAGCAGATCGCATCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCAAGT
66 AGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCAAGT
34372024 CTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCA
131 CTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCA
*
34372089 GTGGAGCAGATTAAAGCTGATA
196 GTGGAGCAGATTAAAGCCGATA
* * * *
34372111 ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAACATTAGATCTTATCTCTTTGAAGTTGC
1 ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
*
34372176 AGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACTAAATAAGCAAGT
66 AGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCAAGT
*
34372241 CTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCA
131 CTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCA
34372283 CTAATTCCTA
Statistics
Matches: 368, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
217 368 1.00
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (217 bp):
ATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTGC
AGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCAAGT
CTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCA
GTGGAGCAGATTAAAGCCGATA
Found at i:34371985 original size:173 final size:172
Alignment explanation
Indices: 34371806--34372129 Score: 397
Period size: 173 Copynumber: 1.9 Consensus size: 172
34371796 AGTAAGCAAG
* * *
34371806 TCTTATC-CTCCTCAAGTTGCAGTGGGGCAGACTGAAGAT-GGCAAGTTTTAT-CTCCCTGAAGT
1 TCTTATCTC-CCTCAAGTTGCAGTGGAGCAGACT-AA-ATAAGCAAGTCTTATCCT-CCTGAAGT
* * * * *
34371868 TGCAGTGGAGCAGATTAAAGCCGATAA-TCCTATCTCCCTAAAGTTGCAGTGGTGCGGATTAAAA
62 TGCAGTGGAGCAGACTAAAGACGACAAGTCCTATCTCCCTAAAGTTGCAGTGGAGCAGATT-AAA
*
34371932 CCT-TAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCAAA
126 CCTATA-ATCCTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCAAA
*
34371979 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAATAAGCAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCCTCAAGTTGCAGTGGAGCAGACTAAATAAGCAAGTCTTATCCTCCTGAAGTTGCA
* * * * * * *
34372044 GTGGGGCAGACTGAAGATGGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTGA
66 GTGGAGCAGACTAAAGACGACAAGTCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAACCT-A
34372109 TAATCCTATCTCTCTGAAGTT
130 TAATCCTATCTCTCTGAAGTT
34372130 ACAGTGGAGC
Statistics
Matches: 128, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
171 2 0.02
172 45 0.35
173 78 0.61
174 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (172 bp):
TCTTATCTCCCTCAAGTTGCAGTGGAGCAGACTAAATAAGCAAGTCTTATCCTCCTGAAGTTGCA
GTGGAGCAGACTAAAGACGACAAGTCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAACCTAT
AATCCTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCAAA
Found at i:34372472 original size:19 final size:19
Alignment explanation
Indices: 34372448--34372541 Score: 161
Period size: 19 Copynumber: 4.8 Consensus size: 19
34372438 AATTTTTGAG
34372448 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
34372467 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
34372486 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
34372505 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
34372526 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
34372542 ATATATGATT
Statistics
Matches: 71, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
19 52 0.73
21 19 0.27
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Done.