Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 112 of 132
Found at i:33964979 original size:20 final size:20
Alignment explanation
Indices: 33964954--33964991 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
33964944 AAGTACAGGA
* *
33964954 AGAGAAGTTGTAACTACTCT
1 AGAGAAATTGAAACTACTCT
33964974 AGAGAAATTGAAACTACT
1 AGAGAAATTGAAACTACT
33964992 TGGCTTGAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.26
Consensus pattern (20 bp):
AGAGAAATTGAAACTACTCT
Found at i:33965434 original size:22 final size:22
Alignment explanation
Indices: 33965406--33965449 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
33965396 TAATGAAATT
33965406 CTGCATACTAGTTCTGATAGAA
1 CTGCATACTAGTTCTGATAGAA
* *
33965428 CTGCATACTAGTTTTGGTAGAA
1 CTGCATACTAGTTCTGATAGAA
33965450 TTACTACATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (22 bp):
CTGCATACTAGTTCTGATAGAA
Found at i:33966277 original size:39 final size:39
Alignment explanation
Indices: 33966218--33966929 Score: 448
Period size: 39 Copynumber: 18.4 Consensus size: 39
33966208 TGCCCCATGA
* * * * *
33966218 TCGGGGTAAGAGATTAGCTGATGGTGATCTACACTAAGC
1 TCGGGGTAAGAGATTGGCTGCTGGTGATCTGCCCTAGGC
* * *
33966257 TCGGGGTAAGAGATTGGCTGATGGTGATCTGCCCCAAGC
1 TCGGGGTAAGAGATTGGCTGCTGGTGATCTGCCCTAGGC
* * * * * * *
33966296 TCGGGGTAAAAGATCGGACGGCT-GTAATTTGCCTTTGGC
1 TCGGGGTAAGAGATTGG-CTGCTGGTGATCTGCCCTAGGC
* ***
33966335 TCGGGGTAAGAGATTGGCTACTGGTGATCTTTTC-AGGC
1 TCGGGGTAAGAGATTGGCTGCTGGTGATCTGCCCTAGGC
* * * * *
33966373 TTGGGGTAAGAGATTTGGTTGATGGTGATTTACCCTAGGC
1 TCGGGGTAAGAGA-TTGGCTGCTGGTGATCTGCCCTAGGC
* * * ** * * *
33966413 TCGAGGTAAGAGATTGGACAG-TTGCAATATGCCCCAAGC
1 TCGGGGTAAGAGATTGG-CTGCTGGTGATCTGCCCTAGGC
* * * *
33966452 TCGGGGTAAGAGATTGGCTGCTGATGATCAG-ACTCAAGC
1 TCGGGGTAAGAGATTGGCTGCTGGTGATCTGCCCT-AGGC
* * **
33966491 TC-GGGTAAGAGATCGGACAGCT-GCAATCTG-CCTAGGC
1 TCGGGGTAAGAGATTGG-CTGCTGGTGATCTGCCCTAGGC
* * * * * *
33966528 TCAGGGTAAGAGATTGGTTGATGATGATCTGCCCCAAGC
1 TCGGGGTAAGAGATTGGCTGCTGGTGATCTGCCCTAGGC
* * * * * * *
33966567 TC-GGGTAAGAGATCGAACAGCT-GTAATTTACCCTTGGC
1 TCGGGGTAAGAGATTG-GCTGCTGGTGATCTGCCCTAGGC
* * *
33966605 TCGGGGTAAGAGATTGGTTGATGGTGATCTG-CCTCAAGC
1 TCGGGGTAAGAGATTGGCTGCTGGTGATCTGCCCT-AGGC
* * *** *
33966644 TTGGGGTAAGAGATTGGACGGCT-ACAATCTGCCTTAGGC
1 TCGGGGTAAGAGATTGG-CTGCTGGTGATCTGCCCTAGGC
33966683 TCGGGGTAAGAGATTGGCTGCTGGTGATCTG-CCTCAGGC
1 TCGGGGTAAGAGATTGGCTGCTGGTGATCTGCCCT-AGGC
* * * * * *
33966722 TCGGGGTAAGAGATCGAACGGCT-GTAATCTGCCTTTGGC
1 TCGGGGTAAGAGATTG-GCTGCTGGTGATCTGCCCTAGGC
* * * *
33966761 TAGGGGGAAGAGATTGCCTGCTGGTGATCTGCCCCAGGC
1 TCGGGGTAAGAGATTGGCTGCTGGTGATCTGCCCTAGGC
* * *
33966800 TCGGGGTAAGAGATTGGCTGATGGTGA-CTACCCCAGGC
1 TCGGGGTAAGAGATTGGCTGCTGGTGATCTGCCCTAGGC
* * * * * *
33966838 TCGGGGTAAGAGATCGAAC-GGTTGTAACCTGCCCCT-GGC
1 TCGGGGTAAGAGATTG-GCTGCTGGTGATCTG-CCCTAGGC
* * *
33966877 TCGGGGTAAGAGATTGGCTGCTAGTGATCTGCCCCATGC
1 TCGGGGTAAGAGATTGGCTGCTGGTGATCTGCCCTAGGC
33966916 TCGGGGTAAGAGAT
1 TCGGGGTAAGAGAT
33966930 GAATGGCTGC
Statistics
Matches: 503, Mismatches: 143, Indels: 54
0.72 0.20 0.08
Matches are distributed among these distances:
37 7 0.01
38 130 0.26
39 334 0.66
40 32 0.06
ACGTcount: A:0.22, C:0.19, G:0.34, T:0.25
Consensus pattern (39 bp):
TCGGGGTAAGAGATTGGCTGCTGGTGATCTGCCCTAGGC
Found at i:33966752 original size:117 final size:117
Alignment explanation
Indices: 33966204--33966929 Score: 503
Period size: 117 Copynumber: 6.2 Consensus size: 117
33966194 AAATGAGTGC
* * * * *
33966204 AATCTGCCCCATGATCGGGGTAAGAGATTAGCTGATGGTGATCTACACT-AAGCTCGGGGTAAGA
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGCTGGTGATCTAC-CTCAGGCTCGGGGTAAGA
* * * * * * * * *
33966268 GATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATCGGACGGCTGT
65 GATCGACTGATGGTAATCTGCCTCAGGCTCGGGGTAAGAGATTGGACTGCTAT
* *** * ** *
33966321 AATTTGCCTTTGGCTCGGGGTAAGAGATTGGCTACTGGTGATCT-TTTCAGGCTTGGGGTAAGAG
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGCTGGTGATCTACCTCAGGCTCGGGGTAAGAG
* ** * * * * * * **
33966385 ATTTGGTTGATGGTGATTTACC-CTAGGCTCGAGGTAAGAGATTGGACAGTTGC
66 A-TCGACTGATGGTAATCTGCCTC-AGGCTCGGGGTAAGAGATTGGACTGCTAT
* * * * *
33966438 AATATGCCCCAAGCTCGGGGTAAGAGATTGGCTGCTGATGATC-AGACTCAAGCTC-GGGTAAGA
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGCTGGTGATCTA-CCTCAGGCTCGGGGTAAGA
* * * * * *
33966501 GATCGGACAGCT-GCAATCTGCCT-AGGCTCAGGGTAAGAGATTGG-TTGATGAT
65 GATC-GACTGATGGTAATCTGCCTCAGGCTCGGGGTAAGAGATTGGACTGCT-AT
* * * * * * * *
33966553 GATCTGCCCCAAGCTC-GGGTAAGAGATCGAACAGCT-GTAATTTACC-CTTGGCTCGGGGTAAG
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTG-GCTGCTGGTGATCTACCTC-AGGCTCGGGGTAAG
* ** * * * * *
33966615 AGATTGGTTGATGGTGATCTGCCTCAAGCTTGGGGTAAGAGATTGGACGGCTAC
64 AGATCGACTGATGGTAATCTGCCTCAGGCTCGGGGTAAGAGATTGGACTGCTAT
** *
33966669 AATCTGCCTTAGGCTCGGGGTAAGAGATTGGCTGCTGGTGATCTGCCTCAGGCTCGGGGTAAGAG
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGCTGGTGATCTACCTCAGGCTCGGGGTAAGAG
* * ** * * * *
33966734 ATCGAACGGCT-GTAATCTGCCTTTGGCTAGGGGGAAGAGATT-GCCTGCTGGT
66 ATCG-ACTGATGGTAATCTGCCTCAGGCTCGGGGTAAGAGATTGGACTGCT-AT
* * *
33966786 GATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGA-CTACCCCAGGCTCGGGGTAAGAG
1 AATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGCTGGTGATCTACCTCAGGCTCGGGGTAAGAG
* * * * *
33966850 ATCGAAC-GGTTGTAACCTGCCCCTGGCTCGGGGTAAGAGATTGG-CTGCTAGT
66 ATCG-ACTGATGGTAATCTGCCTCAGGCTCGGGGTAAGAGATTGGACTGCTA-T
* *
33966902 GATCTGCCCCATGCTCGGGGTAAGAGAT
1 AATCTGCCCCAGGCTCGGGGTAAGAGAT
33966930 GAATGGCTGC
Statistics
Matches: 471, Mismatches: 115, Indels: 47
0.74 0.18 0.07
Matches are distributed among these distances:
113 1 0.00
114 25 0.05
115 61 0.13
116 150 0.32
117 225 0.48
118 9 0.02
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.25
Consensus pattern (117 bp):
AATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGCTGGTGATCTACCTCAGGCTCGGGGTAAGAG
ATCGACTGATGGTAATCTGCCTCAGGCTCGGGGTAAGAGATTGGACTGCTAT
Found at i:33966888 original size:116 final size:117
Alignment explanation
Indices: 33966670--33966929 Score: 387
Period size: 116 Copynumber: 2.2 Consensus size: 117
33966660 GACGGCTACA
** * * *
33966670 ATCTGCCTTAGGCTCGGGGTAAGAGATTGGCTGCTGGTGATCTGCCTCAGGCTCGGGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTACCCCAGGCTCGGGGTAAGAGA
* ** *
33966735 TCGAACGGCTGTAATCTGCCTTTGGCTAGGGGGAAGAGATTGCCTGCTGGTG
66 TCGAACGGCTGTAACCTGCCCCTGGCTAGGGGGAAGAGATTGCCTGCTAGTG
33966787 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGA-CTACCCCAGGCTCGGGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTACCCCAGGCTCGGGGTAAGAGA
* * * *
33966851 TCGAACGGTTGTAACCTGCCCCTGGCTCGGGGTAAGAGATTGGCTGCTAGTG
66 TCGAACGGCTGTAACCTGCCCCTGGCTAGGGGGAAGAGATTGCCTGCTAGTG
*
33966903 ATCTGCCCCATGCTCGGGGTAAGAGAT
1 ATCTGCCCCAGGCTCGGGGTAAGAGAT
33966930 GAATGGCTGC
Statistics
Matches: 129, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
116 92 0.71
117 37 0.29
ACGTcount: A:0.19, C:0.22, G:0.35, T:0.23
Consensus pattern (117 bp):
ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTACCCCAGGCTCGGGGTAAGAGA
TCGAACGGCTGTAACCTGCCCCTGGCTAGGGGGAAGAGATTGCCTGCTAGTG
Found at i:33966947 original size:38 final size:38
Alignment explanation
Indices: 33966830--33966948 Score: 111
Period size: 39 Copynumber: 3.1 Consensus size: 38
33966820 ATGGTGACTA
* * * * *
33966830 CCCCAGGCTCGGGGTAAGAGATCGAACGGTTGTAACCTG
1 CCCCATGCTCGGGGTAAGAGAT-GAATGGCTGCAATCTG
33966869 CCCC-TGGCTCGGGGTAAGAGAT---TGGCTGCTAGTGATCTG
1 CCCCAT-GCTCGGGGTAAGAGATGAATGGCTGC-A---ATCTG
33966908 CCCCATGCTCGGGGTAAGAGATGAATGGCTGCAATCTG
1 CCCCATGCTCGGGGTAAGAGATGAATGGCTGCAATCTG
33966946 CCC
1 CCC
33966949 TTCTTGATGT
Statistics
Matches: 66, Mismatches: 5, Indels: 19
0.73 0.06 0.21
Matches are distributed among these distances:
35 4 0.06
36 1 0.02
38 8 0.12
39 44 0.67
40 1 0.02
41 1 0.02
42 7 0.11
ACGTcount: A:0.20, C:0.26, G:0.33, T:0.21
Consensus pattern (38 bp):
CCCCATGCTCGGGGTAAGAGATGAATGGCTGCAATCTG
Found at i:33966947 original size:77 final size:77
Alignment explanation
Indices: 33966787--33966948 Score: 227
Period size: 77 Copynumber: 2.1 Consensus size: 77
33966777 CCTGCTGGTG
*
33966787 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATGGTGACTACCCCAGGCTCGGGGTAAGAGAT
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATAGTGACTACCCCAGGCTCGGGGTAAGAGAT
* *
33966852 CGAACGGTTGTA
66 CGAACGGCTGCA
* * * * *
33966864 ACCTGCCCCTGGCTCGGGGTAAGAGATTGGCTGCTAGTGATCTGCCCCATGCTCGGGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATAGTGA-CTACCCCAGGCTCGGGGTAAGAGA
*
33966929 T-GAATGGCTGCA
65 TCGAACGGCTGCA
33966941 ATCTGCCC
1 ATCTGCCC
33966949 TTCTTGATGT
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
77 51 0.69
78 23 0.31
ACGTcount: A:0.20, C:0.25, G:0.33, T:0.22
Consensus pattern (77 bp):
ATCTGCCCCAGGCTCGGGGTAAGAGATTGGCTGATAGTGACTACCCCAGGCTCGGGGTAAGAGAT
CGAACGGCTGCA
Found at i:33978558 original size:30 final size:30
Alignment explanation
Indices: 33978469--33978755 Score: 253
Period size: 30 Copynumber: 9.7 Consensus size: 30
33978459 GTTCGAGGTC
* * *
33978469 AAAATGTAA-TTTTAAAAAGTTTATGGGTA
1 AAAATGTAATTTTTGAGAAGTTTAAGGGTA
* * * *
33978498 AAAATGTCAGTTTAG-GAATGTTT-GGGGTA
1 AAAATGTAATTTTTGAGAA-GTTTAAGGGTA
* **
33978527 AAAATGTGATTTTTGAGAAGTTCGAGGGTA
1 AAAATGTAATTTTTGAGAAGTTTAAGGGTA
* * *
33978557 AAAAAGTGATTTTT-AGAAGTTT-GGGGTA
1 AAAATGTAATTTTTGAGAAGTTTAAGGGTA
* *
33978585 AAAATGTAATTTTTAAGAAGTTTGAGGGTA
1 AAAATGTAATTTTTGAGAAGTTTAAGGGTA
*
33978615 AAAATGTAA-TTTTAAGAAGTTTAAGGGTA
1 AAAATGTAATTTTTGAGAAGTTTAAGGGTA
* * * *
33978644 AAAGTGTAGTTTTTAAGAAGTTTAGGGGTA
1 AAAATGTAATTTTTGAGAAGTTTAAGGGTA
* * *
33978674 AAAATGTAATTTTAGAAAAGTTTAAGGGTC
1 AAAATGTAATTTTTGAGAAGTTTAAGGGTA
* * * *
33978704 AAAATGCAATTTTGGAAAAGTTTAAGGGTT
1 AAAATGTAATTTTTGAGAAGTTTAAGGGTA
* * *
33978734 AAAATATGATTTTTGAAAAGTT
1 AAAATGTAATTTTTGAGAAGTT
33978756 CAGGGACATC
Statistics
Matches: 217, Mismatches: 34, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
28 17 0.08
29 71 0.33
30 129 0.59
ACGTcount: A:0.39, C:0.01, G:0.24, T:0.36
Consensus pattern (30 bp):
AAAATGTAATTTTTGAGAAGTTTAAGGGTA
Found at i:33978681 original size:59 final size:59
Alignment explanation
Indices: 33978469--33978709 Score: 242
Period size: 59 Copynumber: 4.1 Consensus size: 59
33978459 GTTCGAGGTC
* * * * * * *
33978469 AAAATGTA-ATTTTAAAAAGTTTA-TGGGTAAAAATGTCAGTTTAGGAATGTTTGGGGTA
1 AAAATGTAGTTTTTAAGAAGTTTAGAGGGTAAAAATGTAATTTTAAGAA-GTTTAGGGTA
* * * * * *
33978527 AAAATGT-GATTTTTGAGAAG-TTCGAGGGTAAAAAAGTGATTTTTAGAAGTTTGGGGTA
1 AAAATGTAG-TTTTTAAGAAGTTTAGAGGGTAAAAATGTAATTTTAAGAAGTTTAGGGTA
*
33978585 AAAATGTAATTTTTAAGAAGTTT-GAGGGTAAAAATGTAATTTTAAGAAGTTTAAGGGTA
1 AAAATGTAGTTTTTAAGAAGTTTAGAGGGTAAAAATGTAATTTTAAGAAGTTT-AGGGTA
* * *
33978644 AAAGTGTAGTTTTTAAGAAGTTTAG-GGGTAAAAATGTAATTTTAGAAAAGTTTAAGGGTC
1 AAAATGTAGTTTTTAAGAAGTTTAGAGGGTAAAAATGTAATTTTA-AGAAGTTT-AGGGTA
33978704 AAAATG
1 AAAATG
33978710 CAATTTTGGA
Statistics
Matches: 154, Mismatches: 21, Indels: 14
0.81 0.11 0.07
Matches are distributed among these distances:
58 62 0.40
59 73 0.47
60 19 0.12
ACGTcount: A:0.39, C:0.01, G:0.25, T:0.35
Consensus pattern (59 bp):
AAAATGTAGTTTTTAAGAAGTTTAGAGGGTAAAAATGTAATTTTAAGAAGTTTAGGGTA
Found at i:33980348 original size:23 final size:23
Alignment explanation
Indices: 33980302--33980349 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
33980292 AAAATCTGGA
**
33980302 TTTTGGATTTGGACTTTTGGAAT
1 TTTTGGATTTGGACTTTTAAAAT
*
33980325 TTTTGTATTTGGACTTTTAAAAT
1 TTTTGGATTTGGACTTTTAAAAT
33980348 TT
1 TT
33980350 AACTTTAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.21, C:0.04, G:0.19, T:0.56
Consensus pattern (23 bp):
TTTTGGATTTGGACTTTTAAAAT
Found at i:33980390 original size:33 final size:32
Alignment explanation
Indices: 33980353--33980432 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 32
33980343 AAAATTTAAC
*
33980353 TTTAATTTAAAATAAATTCAAACTCAAAATAAG
1 TTTAATTTAAAATAAATTCAAACT-AAAATAAA
* *
33980386 TTTAAATTTAAAATAAATTTAAACTTAAATAAA
1 TTT-AATTTAAAATAAATTCAAACTAAAATAAA
*
33980419 TTAAAATTTAAAAT
1 TT-TAATTTAAAAT
33980433 TGGGTTCCAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
33 21 0.51
34 20 0.49
ACGTcount: A:0.56, C:0.05, G:0.01, T:0.38
Consensus pattern (32 bp):
TTTAATTTAAAATAAATTCAAACTAAAATAAA
Found at i:33980394 original size:34 final size:33
Alignment explanation
Indices: 33980356--33980432 Score: 109
Period size: 34 Copynumber: 2.3 Consensus size: 33
33980346 ATTTAACTTT
* *
33980356 AATTTAAAATAAATTCAAACTCAAAATAAGTTTA
1 AATTTAAAATAAATTCAAACT-AAAATAAATTAA
* *
33980390 AATTTAAAATAAATTTAAACTTAAATAAATTAA
1 AATTTAAAATAAATTCAAACTAAAATAAATTAA
33980423 AATTTAAAAT
1 AATTTAAAAT
33980433 TGGGTTCCAT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 19 0.49
34 20 0.51
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.35
Consensus pattern (33 bp):
AATTTAAAATAAATTCAAACTAAAATAAATTAA
Found at i:33980432 original size:17 final size:17
Alignment explanation
Indices: 33980356--33980432 Score: 93
Period size: 17 Copynumber: 4.6 Consensus size: 17
33980346 ATTTAACTTT
*
33980356 AATTTAAAATAAATTCA
1 AATTTAAAATAAATTTA
* * *
33980373 AACTCAAAATAAGTTTA
1 AATTTAAAATAAATTTA
33980390 AATTTAAAATAAATTTA
1 AATTTAAAATAAATTTA
* *
33980407 AACTT-AAATAAATTAA
1 AATTTAAAATAAATTTA
33980423 AATTTAAAAT
1 AATTTAAAAT
33980433 TGGGTTCCAT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
16 14 0.29
17 35 0.71
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.35
Consensus pattern (17 bp):
AATTTAAAATAAATTTA
Found at i:33981901 original size:15 final size:15
Alignment explanation
Indices: 33981881--33981910 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33981871 AAACGATTAG
33981881 ATTCTTAAAAAATTT
1 ATTCTTAAAAAATTT
*
33981896 ATTCTTAAAATATTT
1 ATTCTTAAAAAATTT
33981911 TCACTTATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTCTTAAAAAATTT
Found at i:33982577 original size:19 final size:20
Alignment explanation
Indices: 33982543--33982584 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
33982533 TTTTGTACTC
*
33982543 ATCCATCCACTACACACCAT
1 ATCCAACCACTACACACCAT
33982563 ATCCAACCA-TACACACCAT
1 ATCCAACCACTACACACCAT
33982582 ATC
1 ATC
33982585 AAAAATAGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.38, C:0.43, G:0.00, T:0.19
Consensus pattern (20 bp):
ATCCAACCACTACACACCAT
Found at i:33989212 original size:21 final size:23
Alignment explanation
Indices: 33989162--33989205 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
33989152 TTTTATATAC
* *
33989162 ATATATCAAATTTTTAAAAATAT
1 ATATATCAAATTTGTAAAAAGAT
33989185 ATATATC-AATTTGTAAAAAGA
1 ATATATCAAATTTGTAAAAAGA
33989206 ATTTATCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.39
Consensus pattern (23 bp):
ATATATCAAATTTGTAAAAAGAT
Found at i:33996071 original size:19 final size:19
Alignment explanation
Indices: 33996047--33996117 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
33996037 TAGTTTTTGG
*
33996047 TTATTTTGATTTTATTTAT
1 TTATTTTCATTTTATTTAT
* * * *
33996066 TTATTTACATTATCTTTAA
1 TTATTTTCATTTTATTTAT
* * *
33996085 ATATTTTCAGTTAATTTAT
1 TTATTTTCATTTTATTTAT
33996104 TTATTTTCATTTTA
1 TTATTTTCATTTTA
33996118 AAAAGTTTAT
Statistics
Matches: 37, Mismatches: 15, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.27, C:0.06, G:0.03, T:0.65
Consensus pattern (19 bp):
TTATTTTCATTTTATTTAT
Found at i:33997246 original size:17 final size:17
Alignment explanation
Indices: 33997226--33997258 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
33997216 TTATTCTCTT
33997226 ATTCTCTTTGTTCTTTC
1 ATTCTCTTTGTTCTTTC
33997243 ATTCTCTTTGTTCTTT
1 ATTCTCTTTGTTCTTT
33997259 ACTCTCCATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.21, G:0.06, T:0.67
Consensus pattern (17 bp):
ATTCTCTTTGTTCTTTC
Found at i:33997647 original size:29 final size:29
Alignment explanation
Indices: 33997587--33997648 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
33997577 TATATGTCGT
* * *
33997587 TTTTTATAATTATTTAAGATTTTACATCA
1 TTTTTAAAATTATTTAAGAATATACATCA
* * *
33997616 TTTTTAAAATTATTTAGGAATATAGATTA
1 TTTTTAAAATTATTTAAGAATATACATCA
33997645 TTTT
1 TTTT
33997649 CAAAGAAAGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (29 bp):
TTTTTAAAATTATTTAAGAATATACATCA
Found at i:33998451 original size:17 final size:18
Alignment explanation
Indices: 33998429--33998462 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
33998419 ATAACAATTA
33998429 TGAAGATTTTGG-ATATG
1 TGAAGATTTTGGCATATG
33998446 TGAAGATTTTGGCATAT
1 TGAAGATTTTGGCATAT
33998463 TCTCTGAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.29, C:0.03, G:0.26, T:0.41
Consensus pattern (18 bp):
TGAAGATTTTGGCATATG
Found at i:34001710 original size:14 final size:16
Alignment explanation
Indices: 34001673--34001713 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
34001663 AAATATGTTC
34001673 TCTCTTTGTTCTCTTA
1 TCTCTTTGTTCTCTTA
34001689 TTCTCTTTGTTCT-TTA
1 -TCTCTTTGTTCTCTTA
34001705 -CTCTTTGTT
1 TCTCTTTGTT
34001714 TTTTTTTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.38
16 3 0.12
17 12 0.50
ACGTcount: A:0.05, C:0.22, G:0.07, T:0.66
Consensus pattern (16 bp):
TCTCTTTGTTCTCTTA
Found at i:34003173 original size:17 final size:17
Alignment explanation
Indices: 34003151--34003195 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
34003141 TGACACATTT
*
34003151 AATTAAATAAAAAATTA
1 AATTAAATAAAAAATAA
* *
34003168 AATTAAACAATAAATAA
1 AATTAAATAAAAAATAA
34003185 AATTAAATAAA
1 AATTAAATAAA
34003196 TATCATTTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (17 bp):
AATTAAATAAAAAATAA
Found at i:34010182 original size:21 final size:23
Alignment explanation
Indices: 34010158--34010218 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 23
34010148 TAAAAAATTA
34010158 TAAAATTTTAATTTAATC-AT-T
1 TAAAATTTTAATTTAATCTATCT
* *
34010179 TAAAA-ATTACATTTTA-CTATCT
1 TAAAATTTTA-ATTTAATCTATCT
34010201 TAAAATTTTTAATTTAAT
1 TAAAA-TTTTAATTTAAT
34010219 TTGAACACTT
Statistics
Matches: 30, Mismatches: 4, Indels: 9
0.70 0.09 0.21
Matches are distributed among these distances:
20 4 0.13
21 12 0.40
22 6 0.20
23 5 0.17
24 3 0.10
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.51
Consensus pattern (23 bp):
TAAAATTTTAATTTAATCTATCT
Found at i:34031859 original size:30 final size:30
Alignment explanation
Indices: 34031825--34031881 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
34031815 CAACCACCTT
34031825 TTGTTTACTCTCTATGCTCAACCTTGAAGG
1 TTGTTTACTCTCTATGCTCAACCTTGAAGG
*
34031855 TTGTTTACTCTCTATGCTCAATCTTGA
1 TTGTTTACTCTCTATGCTCAACCTTGA
34031882 TGGCTCTTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.44
Consensus pattern (30 bp):
TTGTTTACTCTCTATGCTCAACCTTGAAGG
Found at i:34033813 original size:43 final size:43
Alignment explanation
Indices: 34033765--34033850 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
34033755 GAGGACTGAA
34033765 GATAGCGGTTTAATATTGAAAAATAGTAAATAACTTGCTGTTG
1 GATAGCGGTTTAATATTGAAAAATAGTAAATAACTTGCTGTTG
34033808 GATAGCGGTTTAATATTGAAAAATAGTAAATAACTTGCTGTTG
1 GATAGCGGTTTAATATTGAAAAATAGTAAATAACTTGCTGTTG
34033851 AGAAATCTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.35
Consensus pattern (43 bp):
GATAGCGGTTTAATATTGAAAAATAGTAAATAACTTGCTGTTG
Found at i:34046899 original size:2 final size:2
Alignment explanation
Indices: 34046889--34046921 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
34046879 TTTTTGAGGA
34046889 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34046922 CTTTAAATAC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34051490 original size:32 final size:32
Alignment explanation
Indices: 34051454--34051519 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
34051444 ACATCATAAA
*
34051454 ATTATAAATTAATT-ATTTAAATTTGGTAACTC
1 ATTATAAATTAATTAATTT-AATTTGATAACTC
34051486 ATTATAAATTAATTAATTTAATTTGATAACTC
1 ATTATAAATTAATTAATTTAATTTGATAACTC
34051518 AT
1 AT
34051520 ATTGATTAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 28 0.88
33 4 0.12
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (32 bp):
ATTATAAATTAATTAATTTAATTTGATAACTC
Found at i:34052913 original size:11 final size:11
Alignment explanation
Indices: 34052897--34052924 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
34052887 TAATGAATAA
34052897 AAAAAGAAAAG
1 AAAAAGAAAAG
34052908 AAAAAGAAAAG
1 AAAAAGAAAAG
34052919 AAAAAG
1 AAAAAG
34052925 GCTTTCATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:34055581 original size:7 final size:7
Alignment explanation
Indices: 34055388--34055561 Score: 168
Period size: 7 Copynumber: 24.9 Consensus size: 7
34055378 CCTTTCTTCT
34055388 CCCGTTA
1 CCCGTTA
34055395 CCCGTTA
1 CCCGTTA
*
34055402 CTCGTTA
1 CCCGTTA
*
34055409 CTCGTTA
1 CCCGTTA
* *
34055416 CTCGTCA
1 CCCGTTA
34055423 CCCGTTA
1 CCCGTTA
*
34055430 CTCGTTA
1 CCCGTTA
* *
34055437 CTCGTCA
1 CCCGTTA
34055444 CCCGTTA
1 CCCGTTA
*
34055451 CTCGTTA
1 CCCGTTA
*
34055458 CCCGTCA
1 CCCGTTA
34055465 CCCGTTA
1 CCCGTTA
*
34055472 CTCGTTA
1 CCCGTTA
34055479 CCCGTTA
1 CCCGTTA
* *
34055486 CTCGTCA
1 CCCGTTA
*
34055493 CCCGTCA
1 CCCGTTA
*
34055500 CCCGTCA
1 CCCGTTA
*
34055507 CCCGTCA
1 CCCGTTA
*
34055514 CCCGTCA
1 CCCGTTA
*
34055521 CCCGTCA
1 CCCGTTA
*
34055528 CCCGTCA
1 CCCGTTA
*
34055535 CCCGTCA
1 CCCGTTA
*
34055542 CTCGTTA
1 CCCGTTA
34055549 CCCGTTA
1 CCCGTTA
34055556 CCCGTT
1 CCCGTT
34055562 TTCCATTTTC
Statistics
Matches: 147, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 147 1.00
ACGTcount: A:0.14, C:0.44, G:0.14, T:0.28
Consensus pattern (7 bp):
CCCGTTA
Found at i:34055595 original size:21 final size:21
Alignment explanation
Indices: 34055544--34055609 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 21
34055534 ACCCGTCACT
34055544 CGTTACCCGTTACCCGTTTTC
1 CGTTACCCGTTACCCGTTTTC
* **
34055565 CATTTTCCGTTACCCGTTTTC
1 CGTTACCCGTTACCCGTTTTC
* **
34055586 TGTTACCCGTTTTCCGTTTTC
1 CGTTACCCGTTACCCGTTTTC
34055607 CGT
1 CGT
34055610 GTTACATGTA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.08, C:0.33, G:0.14, T:0.45
Consensus pattern (21 bp):
CGTTACCCGTTACCCGTTTTC
Found at i:34055604 original size:7 final size:7
Alignment explanation
Indices: 34055557--34055609 Score: 52
Period size: 7 Copynumber: 7.6 Consensus size: 7
34055547 TACCCGTTAC
34055557 CCGTTTT
1 CCGTTTT
*
34055564 CCATTTT
1 CCGTTTT
**
34055571 CCGTTAC
1 CCGTTTT
34055578 CCGTTTT
1 CCGTTTT
* **
34055585 CTGTTAC
1 CCGTTTT
34055592 CCGTTTT
1 CCGTTTT
34055599 CCGTTTT
1 CCGTTTT
34055606 CCGT
1 CCGT
34055610 GTTACATGTA
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.06, C:0.32, G:0.13, T:0.49
Consensus pattern (7 bp):
CCGTTTT
Found at i:34055609 original size:14 final size:14
Alignment explanation
Indices: 34055544--34055603 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
34055534 ACCCGTCACT
**
34055544 CGTTACCCGTTACC
1 CGTTACCCGTTTTC
** *
34055558 CGTTTTCCATTTTC
1 CGTTACCCGTTTTC
34055572 CGTTACCCGTTTTC
1 CGTTACCCGTTTTC
*
34055586 TGTTACCCGTTTTC
1 CGTTACCCGTTTTC
34055600 CGTT
1 CGTT
34055604 TTCCGTGTTA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 36 1.00
ACGTcount: A:0.08, C:0.33, G:0.13, T:0.45
Consensus pattern (14 bp):
CGTTACCCGTTTTC
Found at i:34060013 original size:20 final size:21
Alignment explanation
Indices: 34059988--34060027 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
34059978 TCCGGCAGAG
*
34059988 CTACTC-AAATTAAGTGTTCA
1 CTACTCAAAAATAAGTGTTCA
34060008 CTACTCGAAAAATAAGTGTT
1 CTACTC-AAAAATAAGTGTT
34060028 TTAAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
22 11 0.65
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (21 bp):
CTACTCAAAAATAAGTGTTCA
Found at i:34061028 original size:101 final size:101
Alignment explanation
Indices: 34060853--34061056 Score: 372
Period size: 101 Copynumber: 2.0 Consensus size: 101
34060843 GCGCTACGAC
* *
34060853 AAACAACCTATTTACAATATTTGGAGTTGAAAATCTTTTAGAAGAGAGTTCTTGGATTGAGAGTC
1 AAACAACCTATTTACAATATTTGGAGTTGAAAATCTTTTAGAAGAAAGTTATTGGATTGAGAGTC
34060918 TTGTTGATATTGTGGTAGTATAACAACCCATCTATG
66 TTGTTGATATTGTGGTAGTATAACAACCCATCTATG
* *
34060954 AAACAACCTATTTGCAATATTTGTAGTTGAAAATCTTTTAGAAGAAAGTTATTGGATTGAGAGTC
1 AAACAACCTATTTACAATATTTGGAGTTGAAAATCTTTTAGAAGAAAGTTATTGGATTGAGAGTC
34061019 TTGTTGATATTGTGGTAGTATAACAACCCATCTATG
66 TTGTTGATATTGTGGTAGTATAACAACCCATCTATG
34061055 AA
1 AA
34061057 GAATGGTCCA
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (101 bp):
AAACAACCTATTTACAATATTTGGAGTTGAAAATCTTTTAGAAGAAAGTTATTGGATTGAGAGTC
TTGTTGATATTGTGGTAGTATAACAACCCATCTATG
Found at i:34063262 original size:16 final size:17
Alignment explanation
Indices: 34063234--34063265 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
34063224 AATATTATTT
34063234 ATTAAATTAATTTTCTA
1 ATTAAATTAATTTTCTA
34063251 ATTAAA-TAATTTTCT
1 ATTAAATTAATTTTCT
34063266 CAATCCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTAAATTAATTTTCTA
Found at i:34066018 original size:21 final size:21
Alignment explanation
Indices: 34065994--34066065 Score: 56
Period size: 21 Copynumber: 3.4 Consensus size: 21
34065984 GTGACATGTT
34065994 TCGGTAGAAGTCATACTTGTA
1 TCGGTAGAAGTCATACTTGTA
* * * **
34066015 TCGGTAGTATTGCCT-CAAGTA
1 TCGGTAGAAGT-CATACTTGTA
* **
34066036 CCGGTAGAAGTTTTACTTGTA
1 TCGGTAGAAGTCATACTTGTA
34066057 TCGGTAGAA
1 TCGGTAGAA
34066066 CTGTCATAGG
Statistics
Matches: 36, Mismatches: 13, Indels: 4
0.68 0.25 0.08
Matches are distributed among these distances:
20 1 0.03
21 33 0.92
22 2 0.06
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.33
Consensus pattern (21 bp):
TCGGTAGAAGTCATACTTGTA
Found at i:34067806 original size:96 final size:96
Alignment explanation
Indices: 34067634--34067833 Score: 348
Period size: 96 Copynumber: 2.1 Consensus size: 96
34067624 AATATTATTA
* * * *
34067634 AATT-AAATTATTTAAAAAATACAAATGTACATGAACGAAAATACTACACTTAAAAGCTTCAAAT
1 AATTGAAAATATTTAAAAAATACAAATGCACATGAACAAAAATACTACACTTAAAAGCATCAAAT
34067698 CCAATAAAACATTCTCATAAATTTTTAATAG
66 CCAATAAAACATTCTCATAAATTTTTAATAG
34067729 AATTGAAAATATTTAAAAAATACAAATGCACATGAACAAAAATACTACACTTAAAAGCATCAAAT
1 AATTGAAAATATTTAAAAAATACAAATGCACATGAACAAAAATACTACACTTAAAAGCATCAAAT
*
34067794 CCAATAAAACATTTTCATAAATTTTTAATAG
66 CCAATAAAACATTCTCATAAATTTTTAATAG
34067825 AATTGAAAA
1 AATTGAAAA
34067834 CTCGATTGAA
Statistics
Matches: 99, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
95 4 0.04
96 95 0.96
ACGTcount: A:0.53, C:0.13, G:0.06, T:0.29
Consensus pattern (96 bp):
AATTGAAAATATTTAAAAAATACAAATGCACATGAACAAAAATACTACACTTAAAAGCATCAAAT
CCAATAAAACATTCTCATAAATTTTTAATAG
Found at i:34071248 original size:17 final size:18
Alignment explanation
Indices: 34071211--34071249 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
34071201 AATACTTTTT
* *
34071211 AAAAATGCTTTTGAGTTA
1 AAAAATACTTTTGAGTAA
34071229 AAAAATACTTTTGAG-AA
1 AAAAATACTTTTGAGTAA
34071246 AAAA
1 AAAA
34071250 CTAAAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.51, C:0.05, G:0.13, T:0.31
Consensus pattern (18 bp):
AAAAATACTTTTGAGTAA
Found at i:34071392 original size:18 final size:18
Alignment explanation
Indices: 34071349--34071392 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
34071339 TTTGTTTAGT
*
34071349 AATAC-TTTTATCTCAAA
1 AATACTTTTTATCCCAAA
* *
34071366 AGTATTTTTTATCCCAAA
1 AATACTTTTTATCCCAAA
34071384 AATACTTTT
1 AATACTTTT
34071393 GAAAAGCAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.36, C:0.16, G:0.02, T:0.45
Consensus pattern (18 bp):
AATACTTTTTATCCCAAA
Found at i:34073253 original size:34 final size:34
Alignment explanation
Indices: 34073210--34073283 Score: 105
Period size: 34 Copynumber: 2.2 Consensus size: 34
34073200 AATAAAAACT
*
34073210 TTAATAATCGATCCATA-AGAGTCAAGACTTTTCA
1 TTAATAATCGATCCATACA-AGTCAAGACTTTTAA
* *
34073244 TTAATAATCGGTCCATACAATTCAAGACTTTTAA
1 TTAATAATCGATCCATACAAGTCAAGACTTTTAA
34073278 TTAATA
1 TTAATA
34073284 TTTTTATTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
34 35 0.97
35 1 0.03
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.35
Consensus pattern (34 bp):
TTAATAATCGATCCATACAAGTCAAGACTTTTAA
Found at i:34076119 original size:25 final size:23
Alignment explanation
Indices: 34076078--34076123 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
34076068 CCAATTAGAG
34076078 AATTATTATTTAGATTTAATTCT
1 AATTATTATTTAGATTTAATTCT
*
34076101 AATTATCTTTTTAGAATTTAATT
1 AATTAT-TATTTAG-ATTTAATT
34076124 TGGATCTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (23 bp):
AATTATTATTTAGATTTAATTCT
Found at i:34076912 original size:23 final size:23
Alignment explanation
Indices: 34076885--34076930 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
34076875 TACTGTTTGC
34076885 TTCTTGGTATTAAAACACTTGTT
1 TTCTTGGTATTAAAACACTTGTT
34076908 TTCTTGGTATTAAAACACTTGTT
1 TTCTTGGTATTAAAACACTTGTT
34076931 ATTTCCTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (23 bp):
TTCTTGGTATTAAAACACTTGTT
Found at i:34080964 original size:2 final size:2
Alignment explanation
Indices: 34080957--34081007 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
34080947 CACATATTAC
34080957 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34080999 AT AT AT AT A
1 AT AT AT AT A
34081008 ATCATATTCA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:34085806 original size:69 final size:68
Alignment explanation
Indices: 34085698--34085830 Score: 153
Period size: 69 Copynumber: 1.9 Consensus size: 68
34085688 TATTGATATT
* * *
34085698 TTTAAATATTTTTCACATATATATATTTATAATCAAATTTTTA-GTTTCATGATAAATT-ATATT
1 TTTAAATATTTTTCACACATACATATTTATAATCAAA-TTTTAGGTTTCATAATAAATTAATATT
34085761 GACA
65 GACA
* * * * *
34085765 TTTAAATGTTTTTCACAGACATACATATTTGTAGTCTAATTTTAGGTTTCTTAATAAATTAATAT
1 TTTAAATATTTTTCAC--ACATACATATTTATAATCAAATTTTAGGTTTCATAATAAATTAATAT
34085830 T
64 T
34085831 ATATACATAC
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
67 15 0.28
68 5 0.09
69 29 0.54
70 5 0.09
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.49
Consensus pattern (68 bp):
TTTAAATATTTTTCACACATACATATTTATAATCAAATTTTAGGTTTCATAATAAATTAATATTG
ACA
Found at i:34085856 original size:25 final size:25
Alignment explanation
Indices: 34085828--34085875 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
34085818 ATAAATTAAT
34085828 ATTATATACATACAAATATATTTCA
1 ATTATATACATACAAATATATTTCA
* *
34085853 ATTATATTCATATAAATATATTT
1 ATTATATACATACAAATATATTT
34085876 ATAAAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (25 bp):
ATTATATACATACAAATATATTTCA
Found at i:34088850 original size:6 final size:6
Alignment explanation
Indices: 34088839--34088866 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
34088829 TCGATTCATA
34088839 TATATG TATATG TATATG TATATG TATA
1 TATATG TATATG TATATG TATATG TATA
34088867 GATCAGATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:34100912 original size:3 final size:3
Alignment explanation
Indices: 34100904--34100934 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
34100894 AACATAACCC
34100904 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
34100935 GTAAATTGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:34103708 original size:12 final size:12
Alignment explanation
Indices: 34103691--34103715 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34103681 TTAAAATAAA
34103691 AACTTATTGCAC
1 AACTTATTGCAC
34103703 AACTTATTGCAC
1 AACTTATTGCAC
34103715 A
1 A
34103716 TCAAGTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (12 bp):
AACTTATTGCAC
Found at i:34105983 original size:74 final size:73
Alignment explanation
Indices: 34105833--34105985 Score: 191
Period size: 74 Copynumber: 2.1 Consensus size: 73
34105823 ACTAACAGCA
* * *
34105833 GATCTAAAACAAAAGCCATGAAATACGCAAATCATAAATTCGAAACCCTAATTGGAGGAAAAAGA
1 GATCTAAAACAAAAGCCATGAAATACGCAAATCATAAATTCAAAAACCTAATTGAAGGAAAAAGA
*
34105898 TTCAACTG
66 TTCAACCG
* * * * * *
34105906 GATCTAAAGCAAGAGCTATGAAAATACGCAAATCTTAAATTCAAAAACCTAATTGAAGGGAAAGG
1 GATCTAAAACAAAAGCCATG-AAATACGCAAATCATAAATTCAAAAACCTAATTGAAGGAAAAAG
34105971 AATT-AACCG
65 -ATTCAACCG
34105980 GATCTA
1 GATCTA
34105986 CAGAGCGCAA
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
73 17 0.25
74 48 0.71
75 3 0.04
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.20
Consensus pattern (73 bp):
GATCTAAAACAAAAGCCATGAAATACGCAAATCATAAATTCAAAAACCTAATTGAAGGAAAAAGA
TTCAACCG
Found at i:34106910 original size:13 final size:13
Alignment explanation
Indices: 34106892--34106916 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34106882 ATTTTCGATC
34106892 TCAAGTTCAATTT
1 TCAAGTTCAATTT
34106905 TCAAGTTCAATT
1 TCAAGTTCAATT
34106917 ACCCATTGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (13 bp):
TCAAGTTCAATTT
Found at i:34109698 original size:32 final size:32
Alignment explanation
Indices: 34109662--34109723 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
34109652 AGCTTTTGGT
34109662 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
1 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
*
34109694 TTTTTCGTGTTGTCAAAGAGTTGAACAATG
1 TTTTTCATGTTGTCAAAGAGTTGAACAATG
34109724 AAAATAGATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (32 bp):
TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
Found at i:34114589 original size:31 final size:29
Alignment explanation
Indices: 34114552--34114621 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 29
34114542 TTAAATTAGT
34114552 AATAATAAAA-TTACATTTTAACCCCTTAAAA
1 AATAATAAAATTTA-A-TTTAA-CCCTTAAAA
* *
34114583 AATAATAAAAATTTAATTTAACCTTTTAAA
1 AATAAT-AAAATTTAATTTAACCCTTAAAA
34114613 AATAATAAA
1 AATAATAAA
34114622 GATACAAACT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 3 0.09
30 13 0.37
31 11 0.31
32 5 0.14
33 3 0.09
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (29 bp):
AATAATAAAATTTAATTTAACCCTTAAAA
Found at i:34120478 original size:2 final size:2
Alignment explanation
Indices: 34120463--34120545 Score: 94
Period size: 2 Copynumber: 41.5 Consensus size: 2
34120453 AAATATTACT
* * * *
34120463 TA TA TA CA TC TA TA TA TA TA TA TA TA CA TC TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
34120505 TA TA GA TG TA TA TA TA TA GA TG TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
34120546 TGGTGTTGGT
Statistics
Matches: 65, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.46
Consensus pattern (2 bp):
TA
Found at i:34120488 original size:20 final size:20
Alignment explanation
Indices: 34120463--34120545 Score: 112
Period size: 20 Copynumber: 4.2 Consensus size: 20
34120453 AAATATTACT
34120463 TATATACATCTATATATATA
1 TATATACATCTATATATATA
34120483 TATATACATCTATATATATA
1 TATATACATCTATATATATA
* *
34120503 TATATAGATGTATATATATA
1 TATATACATCTATATATATA
* * * *
34120523 GATGTATATATATATATATA
1 TATATACATCTATATATATA
34120543 TAT
1 TAT
34120546 TGGTGTTGGT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 56 1.00
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.46
Consensus pattern (20 bp):
TATATACATCTATATATATA
Found at i:34120554 original size:6 final size:6
Alignment explanation
Indices: 34120545--34120587 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
34120535 TATATATATA
* *
34120545 TTGGTG TTGGTG TTGGT- TTCGGTG TCGGTG TCGGTG TTGGTG T
1 TTGGTG TTGGTG TTGGTG TT-GGTG TTGGTG TTGGTG TTGGTG T
34120588 GAGGTATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 2 0.06
6 30 0.91
7 1 0.03
ACGTcount: A:0.00, C:0.07, G:0.47, T:0.47
Consensus pattern (6 bp):
TTGGTG
Found at i:34131923 original size:17 final size:19
Alignment explanation
Indices: 34131891--34131977 Score: 70
Period size: 17 Copynumber: 4.3 Consensus size: 19
34131881 TAGAAAATGA
*
34131891 TTTTAAAATTATTAAATTT
1 TTTTAAAATTATTAAATAT
34131910 TTTTAAAA-TA-TAAATAT
1 TTTTAAAATTATTAAATAT
*
34131927 TTTTAAATATTTTTTAAATAT
1 TTTTAAA-A-TTATTAAATAT
*
34131948 AAAATTATTAAAATTATTAAATAA
1 ----TT-TTAAAATTATTAAATAT
34131972 TTTTAA
1 TTTTAA
34131978 TTTTCAATTT
Statistics
Matches: 55, Mismatches: 4, Indels: 18
0.71 0.05 0.23
Matches are distributed among these distances:
17 13 0.24
18 3 0.05
19 12 0.22
20 3 0.05
21 7 0.13
24 9 0.16
25 3 0.05
26 5 0.09
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TTTTAAAATTATTAAATAT
Found at i:34131933 original size:10 final size:10
Alignment explanation
Indices: 34131891--34131947 Score: 50
Period size: 10 Copynumber: 6.0 Consensus size: 10
34131881 TAGAAAATGA
34131891 TTTTAAA-AT
1 TTTTAAATAT
* *
34131900 TATTAAATTT
1 TTTTAAATAT
34131910 TTTTAAA-A-
1 TTTTAAATAT
*
34131918 -TATAAATAT
1 TTTTAAATAT
34131927 TTTTAAATATT
1 TTTTAAATA-T
34131938 TTTTAAATAT
1 TTTTAAATAT
34131948 AAAATTATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
7 5 0.14
8 1 0.03
9 6 0.16
10 15 0.41
11 10 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTTAAATAT
Found at i:34131961 original size:27 final size:26
Alignment explanation
Indices: 34131894--34131959 Score: 98
Period size: 27 Copynumber: 2.5 Consensus size: 26
34131884 AAAATGATTT
34131894 TAAAATTATTAAATTTTTTTAAAATA
1 TAAAATTATTAAATTTTTTTAAAATA
*
34131920 TAAATATTTTTAAATATTTTTT-AAATA
1 TAAA-ATTATTAAAT-TTTTTTAAAATA
34131947 TAAAATTATTAAA
1 TAAAATTATTAAA
34131960 ATTATTAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
26 12 0.33
27 18 0.50
28 6 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (26 bp):
TAAAATTATTAAATTTTTTTAAAATA
Found at i:34135492 original size:21 final size:23
Alignment explanation
Indices: 34135466--34135508 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
34135456 AAATAAATTT
34135466 AATAATTTT-AT-ATTTTAAAAA
1 AATAATTTTAATAATTTTAAAAA
34135487 AATAATTTTAATAATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
34135509 TCATTTGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 9 0.45
22 2 0.10
23 9 0.45
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
AATAATTTTAATAATTTTAAAAA
Found at i:34136671 original size:12 final size:12
Alignment explanation
Indices: 34136654--34136687 Score: 61
Period size: 11 Copynumber: 2.9 Consensus size: 12
34136644 TTACGAACAA
34136654 GCTCGTTTATTG
1 GCTCGTTTATTG
34136666 GCTCGTTTA-TG
1 GCTCGTTTATTG
34136677 GCTCGTTTATT
1 GCTCGTTTATT
34136688 TATTAATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.09, C:0.18, G:0.24, T:0.50
Consensus pattern (12 bp):
GCTCGTTTATTG
Found at i:34136804 original size:23 final size:22
Alignment explanation
Indices: 34136778--34136863 Score: 100
Period size: 23 Copynumber: 3.8 Consensus size: 22
34136768 CATTAACATT
*
34136778 GTTCGTGAACATGTTCAATTATA
1 GTTCGTGAACATGTTCGATTA-A
*
34136801 GTTCGTGAACATGTTCGTTTAA
1 GTTCGTGAACATGTTCGATTAA
*
34136823 TGTTTGTGAACATGTTCGATTAA
1 -GTTCGTGAACATGTTCGATTAA
**
34136846 GTTAAATGAACATGTTCG
1 GTT-CGTGAACATGTTCG
34136864 TGAACATTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
22 4 0.07
23 51 0.93
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.40
Consensus pattern (22 bp):
GTTCGTGAACATGTTCGATTAA
Found at i:34136856 original size:46 final size:46
Alignment explanation
Indices: 34136777--34136864 Score: 124
Period size: 46 Copynumber: 1.9 Consensus size: 46
34136767 TCATTAACAT
**
34136777 TGTTCGTGAACATGTTCAATTATAGTTCGTGAACATGTTCGTTTAA
1 TGTTCGTGAACATGTTCAATTATAGTTAATGAACATGTTCGTTTAA
* *
34136823 TGTTTGTGAACATGTTCGATTA-AGTTAAATGAACATGTTCGT
1 TGTTCGTGAACATGTTCAATTATAGTT-AATGAACATGTTCGT
34136865 GAACATTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
45 4 0.11
46 33 0.89
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.41
Consensus pattern (46 bp):
TGTTCGTGAACATGTTCAATTATAGTTAATGAACATGTTCGTTTAA
Found at i:34136873 original size:23 final size:23
Alignment explanation
Indices: 34136829--34136875 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
34136819 TTAATGTTTG
* *
34136829 TGAACATGTTCGATTAAGTTAAA
1 TGAACATGTTCGATGAAATTAAA
34136852 TGAACATGTTCG-TGAACATTAAA
1 TGAACATGTTCGATGAA-ATTAAA
34136875 T
1 T
34136876 AAACGAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (23 bp):
TGAACATGTTCGATGAAATTAAA
Found at i:34139540 original size:4 final size:4
Alignment explanation
Indices: 34139531--34139570 Score: 80
Period size: 4 Copynumber: 10.0 Consensus size: 4
34139521 ATTACTTATG
34139531 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
34139571 TATATATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:34141205 original size:2 final size:2
Alignment explanation
Indices: 34141198--34141226 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
34141188 TAGTTATCTT
34141198 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
34141227 GTGTGCGTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34142553 original size:19 final size:20
Alignment explanation
Indices: 34142529--34142568 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
34142519 CAATATCAAC
34142529 TTAATAAAAAT-TTTTATTA
1 TTAATAAAAATCTTTTATTA
*
34142548 TTAATAATAATCCTTTTATTA
1 TTAATAAAAAT-CTTTTATTA
34142569 AAAGATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAATAAAAATCTTTTATTA
Found at i:34143302 original size:27 final size:27
Alignment explanation
Indices: 34143264--34143315 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
34143254 TATTTTTGGG
* *
34143264 TGGTGCCTACCTAATAGGCGGCACCAA
1 TGGTGCCTACCTAACAGGCGACACCAA
34143291 TGGTGCCTACCTAACAGGCGACACC
1 TGGTGCCTACCTAACAGGCGACACC
34143316 TAGTCCCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.25, C:0.33, G:0.25, T:0.17
Consensus pattern (27 bp):
TGGTGCCTACCTAACAGGCGACACCAA
Found at i:34143661 original size:17 final size:17
Alignment explanation
Indices: 34143641--34143674 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
34143631 AAAAAAATTT
*
34143641 ATTTAAATGTTATTTAA
1 ATTTAAATATTATTTAA
34143658 ATTTAAATATTATTTAA
1 ATTTAAATATTATTTAA
34143675 TTATGTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTTAAATATTATTTAA
Found at i:34144131 original size:32 final size:32
Alignment explanation
Indices: 34144070--34144150 Score: 85
Period size: 32 Copynumber: 2.5 Consensus size: 32
34144060 TAAATAAATG
* *
34144070 AAAAAATATGTTTTTACTATATTACAATTT-AA
1 AAAAAATATATTTTTAC-ATATTAAAATTTGAA
34144102 AAAAAATATATTTTTGA-ATATTAAAAATTTGAA
1 AAAAAATATATTTTT-ACATATT-AAAATTTGAA
* *
34144135 ATAAAAGATATTTTTA
1 AAAAAATATATTTTTA
34144151 AATTTTTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
31 5 0.12
32 21 0.50
33 16 0.38
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (32 bp):
AAAAAATATATTTTTACATATTAAAATTTGAA
Found at i:34144162 original size:33 final size:32
Alignment explanation
Indices: 34144095--34144162 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 32
34144085 ACTATATTAC
* *
34144095 AATTTAAAAAAAATATATTTTTGAATATTAAA
1 AATTTAAAAAAAAGATATTTTTAAATATTAAA
* * *
34144127 AATTTGAAATAAAAGATATTTTTAAATTTTTAA
1 AATTT-AAAAAAAAGATATTTTTAAATATTAAA
34144160 AAT
1 AAT
34144163 GACAAATTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 5 0.17
33 25 0.83
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (32 bp):
AATTTAAAAAAAAGATATTTTTAAATATTAAA
Found at i:34145732 original size:26 final size:26
Alignment explanation
Indices: 34145677--34145752 Score: 71
Period size: 26 Copynumber: 2.8 Consensus size: 26
34145667 ACTAAACCTC
**
34145677 ATTAAATAAATTCAAACATAAAAATT
1 ATTAAATAAATTCAAACATAAAAAGA
** *
34145703 ATTAAATAAATTCAAATTTAAACAGA
1 ATTAAATAAATTCAAACATAAAAAGA
* *
34145729 ATTAATTCCAAATTCAATCATAAA
1 ATTAAAT--AAATTCAAACATAAA
34145753 CTTAATTAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
26 27 0.69
28 12 0.31
ACGTcount: A:0.57, C:0.11, G:0.01, T:0.32
Consensus pattern (26 bp):
ATTAAATAAATTCAAACATAAAAAGA
Found at i:34149124 original size:27 final size:27
Alignment explanation
Indices: 34149111--34149185 Score: 123
Period size: 27 Copynumber: 2.8 Consensus size: 27
34149101 CCTTTGGTGT
*
34149111 CGCCTGGCAGGTAGGCATCACTAGTGC
1 CGCCTGGCAGGTAGGCACCACTAGTGC
34149138 CGCCTGGCAGGTAGGCACCACTAGTGC
1 CGCCTGGCAGGTAGGCACCACTAGTGC
* *
34149165 CGCCTGTCAGATAGGCACCAC
1 CGCCTGGCAGGTAGGCACCAC
34149186 CCCTTGTACC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.20, C:0.33, G:0.31, T:0.16
Consensus pattern (27 bp):
CGCCTGGCAGGTAGGCACCACTAGTGC
Found at i:34149824 original size:7 final size:7
Alignment explanation
Indices: 34149809--34149901 Score: 75
Period size: 7 Copynumber: 13.1 Consensus size: 7
34149799 TTGAAAAAAA
34149809 ATATAAT
1 ATATAAT
*
34149816 ATGTAAT
1 ATATAAT
34149823 ATA-AAT
1 ATATAAT
34149829 ATATAAT
1 ATATAAT
34149836 ATATAAT
1 ATATAAT
34149843 ATATAAT
1 ATATAAT
*
34149850 AAACTAA-
1 ATA-TAAT
34149857 ATA-AAT
1 ATATAAT
* * *
34149863 TTGTGAT
1 ATATAAT
*
34149870 AAATAAAT
1 ATAT-AAT
34149878 ATCATAAT
1 AT-ATAAT
34149886 ATTATAAT
1 A-TATAAT
34149894 ATATAAT
1 ATATAAT
34149901 A
1 A
34149902 AACTAAATAA
Statistics
Matches: 67, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
5 2 0.03
6 7 0.10
7 39 0.58
8 16 0.24
9 3 0.04
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (7 bp):
ATATAAT
Found at i:34149834 original size:20 final size:21
Alignment explanation
Indices: 34149809--34149901 Score: 75
Period size: 20 Copynumber: 4.4 Consensus size: 21
34149799 TTGAAAAAAA
*
34149809 ATATAATATGTAATATA-AAT
1 ATATAATATATAATATATAAT
34149829 ATATAATATATAATATATAAT
1 ATATAATATATAATATATAAT
* * * *
34149850 AAACTAA-ATA-AATTTGTGAT
1 ATA-TAATATATAATATATAAT
*
34149870 AAATAAATATCATAATATTATAAT
1 ATAT-AATAT-ATAATA-TATAAT
34149894 ATATAATA
1 ATATAATA
34149902 AACTAAATAA
Statistics
Matches: 57, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
19 1 0.02
20 28 0.49
21 10 0.18
22 4 0.07
23 7 0.12
24 7 0.12
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (21 bp):
ATATAATATATAATATATAAT
Found at i:34149875 original size:27 final size:27
Alignment explanation
Indices: 34149845--34149926 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 27
34149835 TATATAATAT
34149845 ATAATAAACTAAATAAATTTGTGATAA
1 ATAATAAACTAAATAAATTTGTGATAA
* * * * *
34149872 ATAA-ATA-T-CAT-AATATTATAATAT
1 ATAATAAACTAAATAAAT-TTGTGATAA
34149896 ATAATAAACTAAATAAATTTGTGATAA
1 ATAATAAACTAAATAAATTTGTGATAA
34149923 ATAA
1 ATAA
34149927 ATATCATAAT
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
23 3 0.08
24 12 0.30
25 3 0.08
26 3 0.08
27 16 0.40
28 3 0.08
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.35
Consensus pattern (27 bp):
ATAATAAACTAAATAAATTTGTGATAA
Found at i:34149884 original size:24 final size:24
Alignment explanation
Indices: 34149857--34149935 Score: 81
Period size: 24 Copynumber: 3.2 Consensus size: 24
34149847 AATAAACTAA
34149857 ATAAATTTGTGATAAATAAATATC
1 ATAAATTTGTGATAAATAAATATC
* *
34149881 ATAATATTATAAT-ATATAATAAACTA-A
1 ATAA-ATT-T-GTGATA-AATAAA-TATC
34149908 ATAAATTTGTGATAAATAAATATC
1 ATAAATTTGTGATAAATAAATATC
34149932 ATAA
1 ATAA
34149936 TATTATATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 14
0.71 0.06 0.23
Matches are distributed among these distances:
23 2 0.05
24 15 0.34
25 7 0.16
26 7 0.16
27 11 0.25
28 2 0.05
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.37
Consensus pattern (24 bp):
ATAAATTTGTGATAAATAAATATC
Found at i:34149895 original size:51 final size:51
Alignment explanation
Indices: 34149823--34149942 Score: 226
Period size: 51 Copynumber: 2.4 Consensus size: 51
34149813 AATATGTAAT
34149823 ATAAATAT-ATAATA-TATAATATATAATAAACTAAATAAATTTGTGATAA
1 ATAAATATCATAATATTATAATATATAATAAACTAAATAAATTTGTGATAA
34149872 ATAAATATCATAATATTATAATATATAATAAACTAAATAAATTTGTGATAA
1 ATAAATATCATAATATTATAATATATAATAAACTAAATAAATTTGTGATAA
34149923 ATAAATATCATAATATTATA
1 ATAAATATCATAATATTATA
34149943 TTACTTTATT
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
49 8 0.12
50 6 0.09
51 55 0.80
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (51 bp):
ATAAATATCATAATATTATAATATATAATAAACTAAATAAATTTGTGATAA
Found at i:34149937 original size:27 final size:27
Alignment explanation
Indices: 34149856--34149937 Score: 77
Period size: 27 Copynumber: 3.1 Consensus size: 27
34149846 TAATAAACTA
34149856 AATAAATTTGTGATAAATAAATATCAT
1 AATAAATTTGTGATAAATAAATATCAT
* *
34149883 AAT--ATTATAAT-ATATAATAAA-CT-A-
1 AATAAATT-T-GTGATA-AATAAATATCAT
34149907 AATAAATTTGTGATAAATAAATATCAT
1 AATAAATTTGTGATAAATAAATATCAT
34149934 AATA
1 AATA
34149938 TTATATTACT
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
24 10 0.24
25 9 0.21
26 9 0.21
27 14 0.33
ACGTcount: A:0.55, C:0.04, G:0.05, T:0.37
Consensus pattern (27 bp):
AATAAATTTGTGATAAATAAATATCAT
Found at i:34150650 original size:126 final size:127
Alignment explanation
Indices: 34150484--34150742 Score: 326
Period size: 137 Copynumber: 2.0 Consensus size: 127
34150474 CTTATCATCG
*
34150484 ATCGACCCAAAACTTCTCCAACCATCTGAAAAAATCGTTCATCATCTCAGAGTGAAAA-ATCA-T
1 ATCGACCCAAAACTTCTCCAACCATCTGAAAAAATCGTTCATCATCTCAGAATGAAAATATCATT
* *
34150547 CATCATCGGTTACCCTAGTTTCATCTCACTGAAGTTGGATTCAAAACAAGATTACCCTATCA
66 CATCATCGATTACCCTAGTTTCATCTCACTGAAGTCGGATTCAAAACAAGATTACCCTATCA
* * *
34150609 ATCGACCCTAAAA-TATTTCCAACCATCTGAAAAAGTTGTTCATCATCTCAGAATGAAAATCTTC
1 ATCGACCC-AAAACT-TCTCCAACCATCTGAAAAAATCGTTCATCATCTCAGAATGAAAA---T-
* *
34150673 ATCATTGGTTTCATCATCGATTATCCTAGTTTCATCTCACTGAAGTCGGATTCAAATCAAGATTA
60 ATCA-----TTCATCATCGATTACCCTAGTTTCATCTCACTGAAGTCGGATTCAAAACAAGATTA
34150738 CCCTA
120 CCCTA
34150743 GTTTCATCAT
Statistics
Matches: 113, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
125 9 0.08
126 44 0.39
131 4 0.04
137 56 0.50
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (127 bp):
ATCGACCCAAAACTTCTCCAACCATCTGAAAAAATCGTTCATCATCTCAGAATGAAAATATCATT
CATCATCGATTACCCTAGTTTCATCTCACTGAAGTCGGATTCAAAACAAGATTACCCTATCA
Found at i:34151646 original size:6 final size:6
Alignment explanation
Indices: 34151635--34151684 Score: 100
Period size: 6 Copynumber: 8.3 Consensus size: 6
34151625 AAAAGGGAAT
34151635 AAGATG AAGATG AAGATG AAGATG AAGATG AAGATG AAGATG AAGATG
1 AAGATG AAGATG AAGATG AAGATG AAGATG AAGATG AAGATG AAGATG
34151683 AA
1 AA
34151685 AGGTGTGTGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.52, C:0.00, G:0.32, T:0.16
Consensus pattern (6 bp):
AAGATG
Found at i:34154482 original size:90 final size:90
Alignment explanation
Indices: 34154292--34154537 Score: 302
Period size: 90 Copynumber: 2.8 Consensus size: 90
34154282 AGAGTCTGTG
* * *
34154292 CAAGGCATTTATATGCCAACTGGATGAAAGAAAAT-CA--AGGAGACCAATAACCAA-CATTTTA
1 CAAGGCATTTATATGCCAACTGGAGGAAAGAAAATCCAGGAGGAGATCAACAA-CAAGCATTTTA
* * *
34154353 GGCAAAGGTGGAGCACAGAGTCTGTA
65 GGCAAAGGTGGAGCACAAAATCTATA
** *
34154379 CAAGATATTTATATGCCGACTGGAGGAAAGAAAATCCAGGAGGAGATCAACAACAAGCATTTTAG
1 CAAGGCATTTATATGCCAACTGGAGGAAAGAAAATCCAGGAGGAGATCAACAACAAGCATTTTAG
* * *
34154444 GCAAAGGTGTAGTACAAAATCTATT
66 GCAAAGGTGGAGCACAAAATCTATA
* * * * *
34154469 CAAGGCATTTATATGCCAAGTGGTGGAAAGAAAATCCAGGACGAGATCAACAATAAGCATTTTAA
1 CAAGGCATTTATATGCCAACTGGAGGAAAGAAAATCCAGGAGGAGATCAACAACAAGCATTTTAG
34154534 GCAA
66 GCAA
34154538 CATGCAAATC
Statistics
Matches: 135, Mismatches: 20, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
87 31 0.23
88 2 0.01
89 3 0.02
90 99 0.73
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.21
Consensus pattern (90 bp):
CAAGGCATTTATATGCCAACTGGAGGAAAGAAAATCCAGGAGGAGATCAACAACAAGCATTTTAG
GCAAAGGTGGAGCACAAAATCTATA
Found at i:34158273 original size:70 final size:67
Alignment explanation
Indices: 34158181--34158313 Score: 176
Period size: 70 Copynumber: 1.9 Consensus size: 67
34158171 TCCGAATAAG
* * *
34158181 AAAAGGCAAAACTACGTCATTTTGATAAAGGTTTACCCTTTCTAAAGTTAAAAGTCAAAACTATT
1 AAAAGGCAAAACTACGTCATTTTAATAAAGGTTTACCC-AT-T-AAGTTAAAAGTCAAAACCATT
34158246 AAGTT
63 AAGTT
* * * *
34158251 AAAAGGTAAAATTATGTCATTTTAATAAATGTTTACCCATTAAGTTAAAAGTCAAAACCATTA
1 AAAAGGCAAAACTACGTCATTTTAATAAAGGTTTACCCATTAAGTTAAAAGTCAAAACCATTA
34158314 TATTGTTTAT
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
67 21 0.38
68 1 0.02
69 1 0.02
70 33 0.59
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (67 bp):
AAAAGGCAAAACTACGTCATTTTAATAAAGGTTTACCCATTAAGTTAAAAGTCAAAACCATTAAG
TT
Found at i:34166028 original size:30 final size:32
Alignment explanation
Indices: 34165984--34166043 Score: 97
Period size: 30 Copynumber: 1.9 Consensus size: 32
34165974 TAATTTTAAT
34165984 AATTAATAATTTTATCATTTTTAA-AAGATTA
1 AATTAATAATTTTATCATTTTTAAGAAGATTA
*
34166015 AATTAA-ATTTTTATCATTTTTAAGAAGAT
1 AATTAATAATTTTATCATTTTTAAGAAGAT
34166044 CAAAGTGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 16 0.59
31 11 0.41
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.48
Consensus pattern (32 bp):
AATTAATAATTTTATCATTTTTAAGAAGATTA
Found at i:34172929 original size:11 final size:11
Alignment explanation
Indices: 34172895--34172970 Score: 82
Period size: 11 Copynumber: 6.8 Consensus size: 11
34172885 AACCATTTGA
*
34172895 AAATTAAATTT
1 AAATTTAATTT
*
34172906 -ATTTTAATCTT
1 AAATTTAAT-TT
*
34172917 AAATTTATTTT
1 AAATTTAATTT
*
34172928 AAATTCAATTT
1 AAATTTAATTT
34172939 AAATTTAAATTT
1 AAATTT-AATTT
*
34172951 GAATTTAATTT
1 AAATTTAATTT
34172962 AAATTTAAT
1 AAATTTAAT
34172971 ATTATTATAA
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
10 6 0.11
11 31 0.58
12 16 0.30
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (11 bp):
AAATTTAATTT
Found at i:34172967 original size:17 final size:16
Alignment explanation
Indices: 34172895--34172986 Score: 80
Period size: 17 Copynumber: 5.5 Consensus size: 16
34172885 AACCATTTGA
*
34172895 AAATTAAATTT-ATTT
1 AAATTTAATTTAATTT
* *
34172910 TAATCTTAAATTTATTTT
1 AAAT-TT-AATTTAATTT
*
34172928 AAATTCAATTTAAATTT
1 AAATTTAATTT-AATTT
34172945 AAATTTGAATTTAATTT
1 AAATTT-AATTTAATTT
34172962 AAATTTAATATT-ATTAT
1 AAATTTAAT-TTAATT-T
34172979 AAATTTAA
1 AAATTTAA
34172987 AAAGAAAAGT
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
15 3 0.05
16 12 0.19
17 37 0.59
18 11 0.17
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (16 bp):
AAATTTAATTTAATTT
Found at i:34172987 original size:6 final size:6
Alignment explanation
Indices: 34172898--34172969 Score: 64
Period size: 6 Copynumber: 12.7 Consensus size: 6
34172888 CATTTGAAAA
* * *
34172898 TTAAAT TT--AT TTTAAT CTTAAAT TT-ATT TTAAA- TTCAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT -TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
34172943 TTAAAT TTGAAT TT-AAT TTAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAA
34172970 TATTATTATA
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
4 4 0.07
5 13 0.24
6 32 0.59
7 5 0.09
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (6 bp):
TTAAAT
Found at i:34175022 original size:30 final size:30
Alignment explanation
Indices: 34174983--34175312 Score: 319
Period size: 30 Copynumber: 11.0 Consensus size: 30
34174973 CCCTAAATTG
34174983 TCCAGAAATTACATTTTGACCCCAAAAC-TT
1 TCCA-AAATTACATTTTGACCCCAAAACTTT
* * **
34175013 TCTGAAAATTATATTTTGACATCAAAAC-TT
1 TC-CAAAATTACATTTTGACCCCAAAACTTT
* * * *
34175043 TCTAAAAATTATATTTTGACCCTAAATCTTT
1 TC-CAAAATTACATTTTGACCCCAAAACTTT
*** *
34175074 TTGGAAATTACATTTTGACCCCTAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* * *
34175104 TCCAAAATTATATTTTAACCCTAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
34175134 TCCAAAATTATATTTTGACCCTAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
** *
34175164 TCCAAAATTACATTTCAACCCTAAAAC-TT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
34175193 TCTCAAAATTACATTTTGACCCTAAAACTTT
1 TC-CAAAATTACATTTTGACCCCAAAACTTT
*
34175224 TCCAAAATTACATTTTTGACTCCAAAACTTT
1 TCCAAAATTACA-TTTTGACCCCAAAACTTT
* * * *
34175255 TCCAAAATTATACTTTAACCCCGAAAC-TT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
34175284 TCAAAAATTACCATTTT-ACCCCCAAACTT
1 TCCAAAATTA-CATTTTGACCCCAAAACTT
34175313 CCCTAAATCC
Statistics
Matches: 253, Mismatches: 40, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
29 24 0.09
30 194 0.77
31 35 0.14
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.37
Consensus pattern (30 bp):
TCCAAAATTACATTTTGACCCCAAAACTTT
Found at i:34175331 original size:59 final size:56
Alignment explanation
Indices: 34175268--34175503 Score: 197
Period size: 59 Copynumber: 4.0 Consensus size: 56
34175258 AAAATTATAC
* *
34175268 TTTAACCCCGAAACTTT-CAAAAATTACCATTTTACCCCCAAACTTCCCTAAATCCCATT
1 TTTAACCCCG--A-TTTACAAAAATTACCATTTTACCCCCAAACTTTCC-AAATTCCATT
* * * * *
34175327 TTTAACCCCGATTTCACCAAAACTTATCATTTTGCCCCCGAACTTTCCAAAATTTCATT
1 TTTAACCCCGATTT-A-CAAAAATTACCATTTTACCCCCAAACTTTCC-AAATTCCATT
* ** * * *
34175386 TTTGACCTTGTTTTTACCAAAATTTACCATTTTATTCCCCAAACTTTCCAAATTCCATT
1 TTTAACCCCG-ATTTA-CAAAAATTACCATTTTA-CCCCCAAACTTTCCAAATTCCATT
* * **
34175445 TTTAGCCCCGATTTCACAAAAATTACCATTTTACCCCTAAA-AATCCAAATTACCATT
1 TTTAACCCCGATTT-ACAAAAATTACCATTTTACCCCCAAACTTTCCAAATT-CCATT
34175502 TT
1 TT
34175504 GCCCCCGGTA
Statistics
Matches: 142, Mismatches: 28, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
56 11 0.08
57 14 0.10
58 19 0.13
59 83 0.58
60 15 0.11
ACGTcount: A:0.31, C:0.29, G:0.03, T:0.36
Consensus pattern (56 bp):
TTTAACCCCGATTTACAAAAATTACCATTTTACCCCCAAACTTTCCAAATTCCATT
Found at i:34187036 original size:76 final size:76
Alignment explanation
Indices: 34186903--34187587 Score: 935
Period size: 76 Copynumber: 9.1 Consensus size: 76
34186893 CAGACCGCAC
* * * *
34186903 CAAGATTATTTCCTATCCACTTGAAATTGAAGTAAAGCTGGATATCAAGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAAT
34186968 TGAAGTAAGAG
66 TGAAGTAAGAG
* * *
34186979 CAACG-TCATTTCCTATCCGCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAAA
1 CAA-GATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAA
34187043 TTGAAGTAAGAG
65 TTGAAGTAAGAG
* * * * *
34187055 CAAGATCTTTTCCTATCCGCTGGAAATTGAAGTAGAGTTGGATAGCAAGTCTTTATCTCCGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAAT
34187120 TGAAGTAAGAG
66 TGAAGTAAGAG
* * *
34187131 CAAGATCAATTCCTATCCTCTTGAAAATGAAGTAAAGTTGGATATCAAGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAAT
34187196 TGAAGTAAGAG
66 TGAAGTAAGAG
* * * * *
34187207 CAAGACCTTTTCCTATCCTTTTGAAATTGAAGTAGAGTTGGATAGCACGTCTTTATCT-TCGAAA
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCT-GAAA
34187271 TTGAAGTAAG-G
65 TTGAAGTAAGAG
*
34187282 ACAACG-TCATTTCCTAT-CTGCTTGAAATTGAAGTAAAGTTGGATATCAAGTCTTTATCTCTGA
1 -CAA-GATCATTTCCTATCCT-CTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGA
34187345 AATTGAAGTAAGAG
63 AATTGAAGTAAGAG
* * * * * *
34187359 TAAGACCTTTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGCTAGCACGTCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAAT
34187424 TGAAGTAAGAG
66 TGAAGTAAGAG
* *
34187435 C-A-A-C--GT-C-ATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGCCTTTATCTCTGAAAT
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAAT
34187493 TGAAGTAAGAG
66 TGAAGTAAGAG
* *
34187504 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGCCTTTGTCTCTCTGAA
1 CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTC-TT-TATCTCTGAA
34187569 ATTGAAGTAAGAG
64 ATTGAAGTAAGAG
*
34187582 TAAGAT
1 CAAGAT
34187588 GAAGCACCAA
Statistics
Matches: 541, Mismatches: 49, Indels: 36
0.86 0.08 0.06
Matches are distributed among these distances:
69 59 0.11
70 2 0.00
71 2 0.00
72 1 0.00
73 1 0.00
74 2 0.00
75 8 0.01
76 431 0.80
77 8 0.01
78 27 0.05
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (76 bp):
CAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATATCAAGTCTTTATCTCTGAAAT
TGAAGTAAGAG
Found at i:34187933 original size:11 final size:11
Alignment explanation
Indices: 34187899--34187951 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
34187889 AACCATTTGA
*
34187899 AAATTAAATTT
1 AAATTTAATTT
*
34187910 -ATTTTAATCTT
1 AAATTTAAT-TT
*
34187921 AAATTTATTTT
1 AAATTTAATTT
*
34187932 AAATTCAATTT
1 AAATTTAATTT
34187943 AAATTTAAT
1 AAATTTAAT
34187952 ATTATTATAA
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
10 6 0.18
11 21 0.64
12 6 0.18
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (11 bp):
AAATTTAATTT
Found at i:34187950 original size:28 final size:28
Alignment explanation
Indices: 34187902--34187964 Score: 67
Period size: 28 Copynumber: 2.2 Consensus size: 28
34187892 CATTTGAAAA
* *
34187902 TTAAATTTATTTTAATCTTAA-ATTTATT
1 TTAAATTAATTTAAATCTTAATA-TTATT
34187930 TTAAATTCAATTTAAAT-TTAATATTATT
1 TTAAATT-AATTTAAATCTTAATATTATT
*
34187958 ATAAATT
1 TTAAATT
34187965 TAAAAAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 22 0.73
29 8 0.27
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (28 bp):
TTAAATTAATTTAAATCTTAATATTATT
Found at i:34190012 original size:30 final size:30
Alignment explanation
Indices: 34189975--34190301 Score: 297
Period size: 30 Copynumber: 10.9 Consensus size: 30
34189965 CTAAATTGTC
* *
34189975 CAAAAATTACATTTCGACCCCAAAAC-TTT
1 CAAAAATTATATTTTGACCCCAAAACTTTT
*
34190004 CTAAAAATTATATTTTAACCCCAAAAC-TTT
1 C-AAAAATTATATTTTGACCCCAAAACTTTT
*
34190034 CTAAAAATTATATTTTGACCCCAAATCTTTT
1 C-AAAAATTATATTTTGACCCCAAAACTTTT
*** * * *
34190065 TGGAAATTACATTTTAACCCCTAAACTTTT
1 CAAAAATTATATTTTGACCCCAAAACTTTT
* *
34190095 CCAAAATTATATTTTGACCTC-AAACTTTT
1 CAAAAATTATATTTTGACCCCAAAACTTTT
* * * *
34190124 CCAAAACTATATTTTAACCCTAAAACTTTT
1 CAAAAATTATATTTTGACCCCAAAACTTTT
* * *
34190154 CCAAAATTATATTTCGACCCTAAAAC-TTT
1 CAAAAATTATATTTTGACCCCAAAACTTTT
* *
34190183 CTAAAAATTACATTTTGACCCTAAAACTTTT
1 C-AAAAATTATATTTTGACCCCAAAACTTTT
* * *
34190214 CCAAAATTACATTTTTGACTCCAAAACTTTT
1 CAAAAATTATA-TTTTGACCCCAAAACTTTT
* * * *
34190245 CCAAAATTATACTTTAACCCCGAAAC-TTT
1 CAAAAATTATATTTTGACCCCAAAACTTTT
* *
34190274 CAAAAATTACCATTTT-ACCCCCAAACTT
1 CAAAAATTA-TATTTTGACCCCAAAACTT
34190302 CCCTAAATCC
Statistics
Matches: 250, Mismatches: 40, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
29 50 0.20
30 166 0.66
31 34 0.14
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.36
Consensus pattern (30 bp):
CAAAAATTATATTTTGACCCCAAAACTTTT
Found at i:34190072 original size:60 final size:60
Alignment explanation
Indices: 34189975--34190301 Score: 329
Period size: 60 Copynumber: 5.5 Consensus size: 60
34189965 CTAAATTGTC
* * *
34189975 CAAAAATTACATTTCGACCCCAAAACTTTCTAAAAATTATATTTTAACCCCAAAAC-TTT
1 CAAAAATTATATTTTGACCCCAAAACTTTTTAAAAATTATATTTTAACCCCAAAACTTTT
* ** * *
34190034 CTAAAAATTATATTTTGACCCCAAATCTTTTTGGAAATTACATTTTAACCCCTAAACTTTT
1 C-AAAAATTATATTTTGACCCCAAAACTTTTTAAAAATTATATTTTAACCCCAAAACTTTT
* * ** * *
34190095 CCAAAATTATATTTTGACCTC-AAACTTTTCCAAAACTATATTTTAACCCTAAAACTTTT
1 CAAAAATTATATTTTGACCCCAAAACTTTTTAAAAATTATATTTTAACCCCAAAACTTTT
* * * * * * *
34190154 CCAAAATTATATTTCGACCCTAAAACTTTCTAAAAATTACATTTTGACCCTAAAACTTTT
1 CAAAAATTATATTTTGACCCCAAAACTTTTTAAAAATTATATTTTAACCCCAAAACTTTT
* * * ** * *
34190214 CCAAAATTACATTTTTGACTCCAAAACTTTTCCAAAATTATACTTTAACCCCGAAAC-TTT
1 CAAAAATTATA-TTTTGACCCCAAAACTTTTTAAAAATTATATTTTAACCCCAAAACTTTT
* *
34190274 CAAAAATTACCATTTT-ACCCCCAAACTT
1 CAAAAATTA-TATTTTGACCCCAAAACTT
34190302 CCCTAAATCC
Statistics
Matches: 221, Mismatches: 42, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
59 59 0.27
60 122 0.55
61 40 0.18
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.36
Consensus pattern (60 bp):
CAAAAATTATATTTTGACCCCAAAACTTTTTAAAAATTATATTTTAACCCCAAAACTTTT
Found at i:34190210 original size:119 final size:120
Alignment explanation
Indices: 34189963--34190282 Score: 384
Period size: 119 Copynumber: 2.7 Consensus size: 120
34189953 CTTTGTAAGT
* * * *
34189963 CCCTAAA-TTGTCCAAAAATTACA-TTTCGACCCCAAAAC-TTTCTAAAAATTATATTTTAACCC
1 CCCTAAACTTTTCC-AAAATTACATTTTTGACTCCAAAACTTTTC-CAAAATTATATTTTAACCC
* * * **
34190025 CAAAACTTTCTAAAAATTATATTTTGACCCCAAATCTTTTTGGAAATTACATTTTAAC
64 CAAAACTTTC-AAAAATTATATTTCGACCCCAAAACTTTCTAAAAATTACATTTTAAC
* * *
34190083 CCCTAAACTTTTCCAAAATTATA-TTTTGAC-CTC-AAACTTTTCCAAAACTATATTTTAACCCT
1 CCCTAAACTTTTCCAAAATTACATTTTTGACTC-CAAAACTTTTCCAAAATTATATTTTAACCCC
* * *
34190145 AAAACTTTTCCAAAATTATATTTCGACCCTAAAACTTTCTAAAAATTACATTTTGA-
65 AAAAC-TTTCAAAAATTATATTTCGACCCCAAAACTTTCTAAAAATTACATTTTAAC
*
34190201 CCCTAAAACTTTTCCAAAATTACATTTTTGACTCCAAAACTTTTCCAAAATTATACTTTAACCCC
1 CCCT-AAACTTTTCCAAAATTACATTTTTGACTCCAAAACTTTTCCAAAATTATATTTTAACCCC
*
34190266 GAAACTTTCAAAAATTA
65 AAAACTTTCAAAAATTA
34190283 CCATTTTACC
Statistics
Matches: 172, Mismatches: 20, Indels: 16
0.83 0.10 0.08
Matches are distributed among these distances:
118 4 0.02
119 83 0.48
120 49 0.28
121 36 0.21
ACGTcount: A:0.38, C:0.23, G:0.03, T:0.36
Consensus pattern (120 bp):
CCCTAAACTTTTCCAAAATTACATTTTTGACTCCAAAACTTTTCCAAAATTATATTTTAACCCCA
AAACTTTCAAAAATTATATTTCGACCCCAAAACTTTCTAAAAATTACATTTTAAC
Found at i:34190337 original size:59 final size:58
Alignment explanation
Indices: 34190274--34190470 Score: 207
Period size: 59 Copynumber: 3.4 Consensus size: 58
34190264 CCGAAACTTT
* *
34190274 CAAAAATTACCATTTTACCCCCAAACTTCCCTAAATCCCATTTTTAACCCCGATTTCAC
1 CAAAAATTACCATTTTACCCCCAAACTTTCC-AAATTCCATTTTTAACCCCGATTTCAC
* * * * * * * ** * **
34190333 CAAAACTTATCATTTTGCCCCCGAACTTTCCAAAATTTCATTTTTGATCTTGTTTTTGC
1 CAAAAATTACCATTTTACCCCCAAACTTTCC-AAATTCCATTTTTAACCCCGATTTCAC
* * *
34190392 CAAAATTTACCATTTTATTCCCCAAACTTTCCAAATTCCATTTTTAGCCCCGATTTCA-
1 CAAAAATTACCATTTTA-CCCCCAAACTTTCCAAATTCCATTTTTAACCCCGATTTCAC
34190450 CAAAAATTACCATTTTACCCC
1 CAAAAATTACCATTTTACCCC
34190471 TAAAAACCCT
Statistics
Matches: 106, Mismatches: 31, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
57 3 0.03
58 16 0.15
59 75 0.71
60 12 0.11
ACGTcount: A:0.29, C:0.30, G:0.04, T:0.37
Consensus pattern (58 bp):
CAAAAATTACCATTTTACCCCCAAACTTTCCAAATTCCATTTTTAACCCCGATTTCAC
Found at i:34191795 original size:17 final size:16
Alignment explanation
Indices: 34191757--34191811 Score: 58
Period size: 17 Copynumber: 3.4 Consensus size: 16
34191747 GTATTTATGC
34191757 ATTTAATTAATTATTA
1 ATTTAATTAATTATTA
* *
34191773 ATTTTATTTATTTATTTA
1 A-TTTAATTAATTA-TTA
*
34191791 ATTTAAGTAATTATT-
1 ATTTAATTAATTATTA
34191806 ATTTAA
1 ATTTAA
34191812 ATATGCATGA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
15 6 0.19
16 3 0.09
17 19 0.59
18 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
ATTTAATTAATTATTA
Found at i:34192355 original size:14 final size:14
Alignment explanation
Indices: 34192336--34192368 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
34192326 ATATACACAT
34192336 TAAAAATATAAAAA
1 TAAAAATATAAAAA
34192350 TAAAAATA-AAAATA
1 TAAAAATATAAAA-A
34192364 TAAAA
1 TAAAA
34192369 TCTAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAAAATATAAAAA
Found at i:34200772 original size:23 final size:25
Alignment explanation
Indices: 34200723--34200773 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 25
34200713 AATCAATTGG
* * *
34200723 TTAAAATAATTAAATTGAGAATCAA
1 TTAAAATAATTAAATTAAAAATAAA
34200748 TTAAAAT-ATT-AATTAAAAATAAA
1 TTAAAATAATTAAATTAAAAATAAA
34200771 TTA
1 TTA
34200774 TTGTATTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 13 0.57
24 3 0.13
25 7 0.30
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
TTAAAATAATTAAATTAAAAATAAA
Found at i:34201042 original size:6 final size:6
Alignment explanation
Indices: 34201027--34201065 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
34201017 TGTCAGCTAC
* *
34201027 TACTACT TATTAT TATTAT TACTAT TACTAT TACTAT TA
1 TACTA-T TACTAT TACTAT TACTAT TACTAT TACTAT TA
34201066 GCCATTGGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 26 0.87
7 4 0.13
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.54
Consensus pattern (6 bp):
TACTAT
Found at i:34209238 original size:41 final size:41
Alignment explanation
Indices: 34209193--34209282 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 41
34209183 CATTAGGTCA
* *
34209193 AAGGAAAAACGCTC-CTACGTGGAGGCGTTTTTGTCTCATTC
1 AAGGAAAAACGCTCTC-ACGTGGAAGCGTTTTTATCTCATTC
** * *
34209234 AAGGAAAAGTGCTTTCACGTGGAAGCGTTTTTATCTCATTT
1 AAGGAAAAACGCTCTCACGTGGAAGCGTTTTTATCTCATTC
34209275 AAGGAAAA
1 AAGGAAAA
34209283 GGAAAAGCGC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
41 41 0.98
42 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (41 bp):
AAGGAAAAACGCTCTCACGTGGAAGCGTTTTTATCTCATTC
Found at i:34210669 original size:17 final size:18
Alignment explanation
Indices: 34210660--34210732 Score: 80
Period size: 17 Copynumber: 4.1 Consensus size: 18
34210650 TAAATTTTAA
*
34210660 TTTAGTTTAAGTTTAAACT
1 TTTAATTTAAGTTTAAA-T
**
34210679 TTTCTTTTAAGTTTAAAT
1 TTTAATTTAAGTTTAAAT
34210697 TTTAA-TTAAGTTTAAA-
1 TTTAATTTAAGTTTAAAT
34210713 TTTAATTTGAA-TTTAAAT
1 TTTAATTT-AAGTTTAAAT
34210731 TT
1 TT
34210733 AAAATTAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
16 5 0.11
17 19 0.40
18 8 0.17
19 15 0.32
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.56
Consensus pattern (18 bp):
TTTAATTTAAGTTTAAAT
Found at i:34210728 original size:23 final size:22
Alignment explanation
Indices: 34210684--34210742 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
34210674 AAACTTTTCT
* * *
34210684 TTTAAGTTTAAATTTTAATTAAG
1 TTTAAATTT-AATTTGAATTAAA
34210707 TTTAAATTTAATTTGAATTTAAA
1 TTTAAATTTAATTTGAA-TTAAA
*
34210730 TTTAAAATTAATT
1 TTTAAATTTAATT
34210743 AAAAAGTCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 7 0.23
23 24 0.77
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (22 bp):
TTTAAATTTAATTTGAATTAAA
Found at i:34210735 original size:6 final size:6
Alignment explanation
Indices: 34210684--34210740 Score: 55
Period size: 6 Copynumber: 9.8 Consensus size: 6
34210674 AAACTTTTCT
* * * *
34210684 TTTAAG TTTAAA TTTTAA -TTAAG TTTAAA TTT-AA TTTGAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
34210730 TTTAAA ATTAA
1 TTTAAA TTTAA
34210741 TTAAAAAGTC
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
5 8 0.19
6 34 0.81
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (6 bp):
TTTAAA
Found at i:34210742 original size:17 final size:17
Alignment explanation
Indices: 34210685--34210740 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 17
34210675 AACTTTTCTT
*
34210685 TTAAGTTTAAATTTTAA
1 TTAAGTTTAAATTTAAA
*
34210702 TTAAGTTTAAATTTAAT
1 TTAAGTTTAAATTTAAA
34210719 TTGAA-TTTAAATTTAAAA
1 TT-AAGTTTAAATTT-AAA
34210737 TTAA
1 TTAA
34210741 TTAAAAAGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 28 0.82
18 6 0.18
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (17 bp):
TTAAGTTTAAATTTAAA
Found at i:34211863 original size:17 final size:16
Alignment explanation
Indices: 34211825--34211867 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
34211815 TTAGTTTTAA
*
34211825 AAAAGAAAATAAAGAG
1 AAAAGAAAACAAAGAG
*
34211841 AGAAAGATAAACAAGGAG
1 A-AAAGA-AAACAAAGAG
34211859 AAAAGAAAA
1 AAAAGAAAA
34211868 GAAAAAGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 4 0.17
17 10 0.43
18 9 0.39
ACGTcount: A:0.72, C:0.02, G:0.21, T:0.05
Consensus pattern (16 bp):
AAAAGAAAACAAAGAG
Found at i:34212548 original size:29 final size:30
Alignment explanation
Indices: 34212502--34212616 Score: 126
Period size: 30 Copynumber: 3.8 Consensus size: 30
34212492 TTTTATAAGT
34212502 CCCT-AAACTTTCTAAAAATTAGATTTTGA
1 CCCTAAAACTTTCTAAAAATTAGATTTTGA
* *
34212531 CCCTAAAACTTGCTAAAAATTATATTTTGA
1 CCCTAAAACTTTCTAAAAATTAGATTTTGA
* * * *
34212561 CCCCAAAACTTTCTAAAAATCACATTTTAA
1 CCCTAAAACTTTCTAAAAATTAGATTTTGA
*
34212591 CCCCCCAAAACTTT-TCAAAAATTAGA
1 --CCCTAAAACTTTCT-AAAAATTAGA
34212617 ATTTACCTCC
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
29 4 0.05
30 48 0.66
31 1 0.01
32 20 0.27
ACGTcount: A:0.41, C:0.23, G:0.04, T:0.32
Consensus pattern (30 bp):
CCCTAAAACTTTCTAAAAATTAGATTTTGA
Found at i:34214594 original size:72 final size:72
Alignment explanation
Indices: 34214477--34214619 Score: 277
Period size: 72 Copynumber: 2.0 Consensus size: 72
34214467 CCAATAAATA
*
34214477 ATCTTTCGCATTCTGTAGGCCCATTAAGGGGGTGCATGCTGACCACAAGTTTTAAAGCTGCTTCA
1 ATCTTTCACATTCTGTAGGCCCATTAAGGGGGTGCATGCTGACCACAAGTTTTAAAGCTGCTTCA
34214542 CACCCAG
66 CACCCAG
34214549 ATCTTTCACATTCTGTAGGCCCATTAAGGGGGTGCATGCTGACCACAAGTTTTAAAGCTGCTTCA
1 ATCTTTCACATTCTGTAGGCCCATTAAGGGGGTGCATGCTGACCACAAGTTTTAAAGCTGCTTCA
34214614 CACCCA
66 CACCCA
34214620 AAGCAAGGAT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (72 bp):
ATCTTTCACATTCTGTAGGCCCATTAAGGGGGTGCATGCTGACCACAAGTTTTAAAGCTGCTTCA
CACCCAG
Found at i:34218125 original size:24 final size:26
Alignment explanation
Indices: 34218097--34218145 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
34218087 TTAGACCTGT
*
34218097 AAATATTATTATT-TATT-TTTTAAA
1 AAATATTAATATTATATTATTTTAAA
34218121 AAATATTAATATTATATTATTTTAA
1 AAATATTAATATTATATTATTTTAA
34218146 TATTTAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.55
25 4 0.18
26 6 0.27
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (26 bp):
AAATATTAATATTATATTATTTTAAA
Found at i:34222247 original size:25 final size:24
Alignment explanation
Indices: 34222190--34222247 Score: 57
Period size: 25 Copynumber: 2.4 Consensus size: 24
34222180 ATCCCTTCAC
* *
34222190 TTCCTCTTCTCTTCCTCTTTACAT
1 TTCCTCTTCTCTCCCACTTTACAT
34222214 TT-CTGCTTCTACTCCCACTTCT-CAT
1 TTCCT-CTTCT-CTCCCACTT-TACAT
34222239 TTCCTCTTC
1 TTCCTCTTC
34222248 CCCTGTTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
23 2 0.07
24 7 0.25
25 16 0.57
26 3 0.11
ACGTcount: A:0.09, C:0.40, G:0.02, T:0.50
Consensus pattern (24 bp):
TTCCTCTTCTCTCCCACTTTACAT
Found at i:34242173 original size:17 final size:18
Alignment explanation
Indices: 34242133--34242173 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
34242123 TTTTACTTTT
* *
34242133 ATTTTATTTTACCACAGT
1 ATTTTATTTTAACACAGA
34242151 ATTTTATTTTAACA-AGA
1 ATTTTATTTTAACACAGA
34242168 ATTTTA
1 ATTTTA
34242174 GTCACCCAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.34, C:0.10, G:0.05, T:0.51
Consensus pattern (18 bp):
ATTTTATTTTAACACAGA
Found at i:34243114 original size:56 final size:57
Alignment explanation
Indices: 34242964--34243116 Score: 193
Period size: 56 Copynumber: 2.7 Consensus size: 57
34242954 ATATTATGAC
* * *
34242964 TTTTATTAATTTATATTTTAATAATAATTATATTAAGAATATTATTAAATTATATACTA
1 TTTTATTAAATTATA-TTTAATAATAATTATATTAA-AATATAATTAAAATATATACTA
* * * *
34243023 TTTTATTAAATTGTATTTAATAATAATCA-AGTTAAAATATAATTAAAATATTTA-TT
1 TTTTATTAAATTATATTTAATAATAATTATA-TTAAAATATAATTAAAATATATACTA
*
34243079 TTTTATTAAATTATATTTAATAATAATTTTATTAAAAT
1 TTTTATTAAATTATATTTAATAATAATTATATTAAAAT
34243117 TTAACAATAA
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
56 34 0.41
57 18 0.22
58 17 0.21
59 13 0.16
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (57 bp):
TTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAAATATATACTA
Found at i:34257677 original size:13 final size:13
Alignment explanation
Indices: 34257659--34257685 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
34257649 TTGTATTGAT
34257659 ATCAATTCGGTTA
1 ATCAATTCGGTTA
34257672 ATCAATTCGGTTA
1 ATCAATTCGGTTA
34257685 A
1 A
34257686 AGCTTTATTT
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:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (13 bp):
ATCAATTCGGTTA
Found at i:34262502 original size:80 final size:80
Alignment explanation
Indices: 34262393--34262553 Score: 268
Period size: 80 Copynumber: 2.0 Consensus size: 80
34262383 AAAAAGCAAT
* * *
34262393 AAATTATCCGCAAAGAATAGGTGGAAGAGACCAGGCCCTCGTCGAGTTAACATGAGAGGCTCCCA
1 AAATCATCCGCAAAGAATAGGTGGAAGAGACCAGGCCCTCATCGAGATAACATGAGAGGCTCCCA
34262458 CGAACCATCATCAAC
66 CGAACCATCATCAAC
* * *
34262473 AAATCATCCGCAAAGAATAGGTGGGAGAGACCAGGCCCTTATCGAGATAGCATGAGAGGCTCCCA
1 AAATCATCCGCAAAGAATAGGTGGAAGAGACCAGGCCCTCATCGAGATAACATGAGAGGCTCCCA
34262538 CGAACCATCATCAAC
66 CGAACCATCATCAAC
34262553 A
1 A
34262554 GCAGCATCAA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 75 1.00
ACGTcount: A:0.35, C:0.26, G:0.23, T:0.16
Consensus pattern (80 bp):
AAATCATCCGCAAAGAATAGGTGGAAGAGACCAGGCCCTCATCGAGATAACATGAGAGGCTCCCA
CGAACCATCATCAAC
Found at i:34272085 original size:19 final size:20
Alignment explanation
Indices: 34272063--34272102 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
34272053 AAAGATAATA
34272063 TCTATCTGTTATAA-TAAAT
1 TCTATCTGTTATAATTAAAT
* *
34272082 TCTATTTTTTATAATTAAAT
1 TCTATCTGTTATAATTAAAT
34272102 T
1 T
34272103 AAATATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (20 bp):
TCTATCTGTTATAATTAAAT
Found at i:34273437 original size:6 final size:6
Alignment explanation
Indices: 34273413--34273500 Score: 66
Period size: 6 Copynumber: 15.8 Consensus size: 6
34273403 TAAGTTTAAG
* * *
34273413 TTAATT TTAAAT TT-TAT TTAGAT TTAAAT TT--AT CTTAAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT -TTAAAT TTAAAT
**
34273459 TT--AT TTAAAT TT-ACG TTAAAT TTAAAT TT-AAT TT-AAT TTAAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAA
34273501 AATTATATTA
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
4 6 0.09
5 19 0.29
6 39 0.59
7 2 0.03
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (6 bp):
TTAAAT
Found at i:34273438 original size:17 final size:16
Alignment explanation
Indices: 34273413--34273500 Score: 88
Period size: 17 Copynumber: 5.3 Consensus size: 16
34273403 TAAGTTTAAG
*
34273413 TTAATTTTAAATTTTAT
1 TTAAATTTAAA-TTTAT
*
34273430 TTAGATTTAAATTTAT
1 TTAAATTTAAATTTAT
34273446 CTTAAATTTAAATTTAT
1 -TTAAATTTAAATTTAT
** *
34273463 TTAAATTTACGTTAAAT
1 TTAAATTTAAATT-TAT
34273480 TTAAATTT-AATTTAAT
1 TTAAATTTAAATTT-AT
34273496 TTAAA
1 TTAAA
34273501 AATTATATTA
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
16 25 0.42
17 34 0.58
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (16 bp):
TTAAATTTAAATTTAT
Found at i:34273464 original size:27 final size:28
Alignment explanation
Indices: 34273419--34273498 Score: 105
Period size: 27 Copynumber: 2.9 Consensus size: 28
34273409 TAAGTTAATT
*
34273419 TTAAATTT-TATTTAGATTTAAATTTATC-
1 TTAAATTTAAATTTA-ATTTAAATTTA-CG
34273447 TTAAATTTAAATTT-ATTTAAATTTACG
1 TTAAATTTAAATTTAATTTAAATTTACG
34273474 TTAAATTTAAATTTAATTT-AATTTA
1 TTAAATTTAAATTTAATTTAAATTTA
34273499 AAAATTATAT
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
26 1 0.02
27 31 0.65
28 12 0.25
29 4 0.08
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (28 bp):
TTAAATTTAAATTTAATTTAAATTTACG
Found at i:34275558 original size:30 final size:30
Alignment explanation
Indices: 34275519--34276086 Score: 634
Period size: 30 Copynumber: 19.0 Consensus size: 30
34275509 CCCTAAATTG
*
34275519 TCCAGAAATTACATTTTGACCTTAAAACTTT
1 TCCA-AAATTACATTTTGACCCTAAAACTTT
*
34275550 TCCAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCTAAAACTTT
* *
34275580 TCCAAAATTATATTTTGACCTTAAAAC-TT
1 TCCAAAATTACATTTTGACCCTAAAACTTT
*
34275609 TCTAGAAATTACATTTTGACCCTAAAAC-TT
1 TCCA-AAATTACATTTTGACCCTAAAACTTT
* *
34275639 TCTAAAAATTACA-TTTCAGCCCTAAAACTTT
1 TC-CAAAATTACATTTTGA-CCCTAAAACTTT
34275670 TCCAAAATTACATTTTGACCCTAAAACTTT
1 TCCAAAATTACATTTTGACCCTAAAACTTT
* *
34275700 TCCAAAATTATATTTTAACCCTAAAACTTT
1 TCCAAAATTACATTTTGACCCTAAAACTTT
* * **
34275730 TCCAAAAATATATTTTGACCCCGAAACTTT
1 TCCAAAATTACATTTTGACCCTAAAACTTT
34275760 TCCAAAATTACATTTTGACCCTAAAACTTT
1 TCCAAAATTACATTTTGACCCTAAAACTTT
*
34275790 TCCAAAATTATA-TTTGACCCTAAAAC-TT
1 TCCAAAATTACATTTTGACCCTAAAACTTT
* *
34275818 TCTAGAAATTACATTTTAACCCTAAAAC-TT
1 TCCA-AAATTACATTTTGACCCTAAAACTTT
* * *
34275848 TCTAAAAATTACATTTCGACCCCAAAACTTT
1 TC-CAAAATTACATTTTGACCCTAAAACTTT
*
34275879 TCCAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCTAAAACTTT
* **
34275909 TCTAAAATTACATTTCAACCCTAAAACTTT
1 TCCAAAATTACATTTTGACCCTAAAACTTT
* *
34275939 TCCAAAATTATATTTCGACCCTAAAACTTT
1 TCCAAAATTACATTTTGACCCTAAAACTTT
* **
34275969 TCCAAAATTATATTTTGACAGTAAAACTTT
1 TCCAAAATTACATTTTGACCCTAAAACTTT
* * * *
34275999 TCCAAAATCATATTTTAACCCCAAAA--TT
1 TCCAAAATTACATTTTGACCCTAAAACTTT
* * **
34276027 TCAAAAAAATTACATTTTTACCCCGAAACTTT
1 TC--CAAAATTACATTTTGACCCTAAAACTTT
* * *
34276059 T-AAAAATTACCA-TTTCACCCTCAAACTT
1 TCCAAAATTA-CATTTTGACCCTAAAACTT
34276087 CCCTAAATTC
Statistics
Matches: 468, Mismatches: 55, Indels: 30
0.85 0.10 0.05
Matches are distributed among these distances:
28 9 0.02
29 51 0.11
30 387 0.83
31 18 0.04
32 3 0.01
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.36
Consensus pattern (30 bp):
TCCAAAATTACATTTTGACCCTAAAACTTT
Found at i:34287919 original size:68 final size:68
Alignment explanation
Indices: 34287809--34288587 Score: 1281
Period size: 68 Copynumber: 11.4 Consensus size: 68
34287799 ATTATTTCCT
* * *
34287809 ATCCTCTTGAAATTGAAGTAAAGTGGATAACACGTCTTTATCTCTGAAATTAAAGTAAGAGCAAT
1 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
*
34287874 ATC
66 GTC
* *
34287877 GTCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
34287942 GTC
66 GTC
* *
34287945 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGTAAC
1 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
34288010 GTC
66 GTC
* * *
34288013 ATCCGCTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGCAAT
1 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
34288078 GTC
66 GTC
*
34288081 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGCCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
34288146 GTC
66 GTC
*
34288149 ATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
34288214 GTC
66 GTC
* * *
34288217 ATCCGCTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGCAAT
1 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
34288282 GTC
66 GTC
*
34288285 ATCCTCTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
34288350 GTC
66 GTC
* * * *
34288353 ATCCGCTTGAAATTGAAGTTGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAT
1 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
34288418 GTC
66 GTC
* * *
34288421 ATCCTCTTGAAATTGAAGTAGAGTGGATAACATGTCTTTATCTTTGAAATTGAAGTAAGAGCAAT
1 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
34288486 GTC
66 GTC
* * *
34288489 ATCCGCTTGAAATTGAAGTTGAGTGGATAACAAGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
1 ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
34288554 GTC
66 GTC
*
34288557 ATCC-CTTTGAAATTGAAGTAAAGCTGGATAA
1 ATCCTC-TTGAAATTGAAGTAGAG-TGGATAA
34288588 TGAGCCTTCG
Statistics
Matches: 669, Mismatches: 40, Indels: 3
0.94 0.06 0.00
Matches are distributed among these distances:
67 1 0.00
68 661 0.99
69 7 0.01
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (68 bp):
ATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTCTTTATCTCTGAAATTGAAGTAAGAGCAAC
GTC
Found at i:34289009 original size:6 final size:6
Alignment explanation
Indices: 34288985--34289138 Score: 108
Period size: 6 Copynumber: 25.8 Consensus size: 6
34288975 TAAGTTTAAG
* * *
34288985 TTAATT TTAAAT TT-TAT TTAGAT TTAAAT TT--AT CTTAAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT -TTAAAT TTAAAT
* * * *
34289031 TTATTTAT TTAAAT TT-ACT TTAAAT TTAAAT TTATTTAT TTAAAT TT-ACT
1 TTA--AAT TTAAAT TTAAAT TTAAAT TTAAAT TTA--AAT TTAAAT TTAAAT
* *
34289081 TTAAAT TTAAAT TTATTTAT TTAAAT TT-ACT TTAAAT TTAAAT TT-AA-
1 TTAAAT TTAAAT TTA--AAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
34289128 TTAAAT TTAAA
1 TTAAAT TTAAA
34289139 AATAATATTA
Statistics
Matches: 117, Mismatches: 16, Indels: 30
0.72 0.10 0.18
Matches are distributed among these distances:
4 4 0.03
5 22 0.19
6 74 0.63
7 2 0.02
8 15 0.13
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (6 bp):
TTAAAT
Done.