Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009344.1 Hibiscus syriacus cultivar Beakdansim tig00113124_pilon, whole genome shotgun sequence
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: 4287485
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 24
Found at i:1622894 original size:50 final size:50
Alignment explanation
Indices: 1622781--1622951 Score: 270
Period size: 50 Copynumber: 3.4 Consensus size: 50
1622771 CAGTAAAGCA
* ** *
1622781 CCCCTGCACCGCGCTATACGATGATTTGGCTCCACGTAGGGTATAGCGCGC
1 CCCCTGCACCGCGCTATACGGTGAGCTGGCGCCACGT-GGGTATAGCGCGC
*
1622832 CCCCTGCACCGCGCTATACGGTGAGCTGACGCCACGTGGGTATAGCGCGC
1 CCCCTGCACCGCGCTATACGGTGAGCTGGCGCCACGTGGGTATAGCGCGC
*
1622882 CCCCTGCACCGCGCTATACGGTGAGCTGGCGCCACGTGGGTATAGCGCGG
1 CCCCTGCACCGCGCTATACGGTGAGCTGGCGCCACGTGGGTATAGCGCGC
*
1622932 CCCCTGCAGCGCGCTATACG
1 CCCCTGCACCGCGCTATACG
1622952 CCACGTAGGG
Statistics
Matches: 112, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
50 80 0.71
51 32 0.29
ACGTcount: A:0.16, C:0.36, G:0.31, T:0.18
Consensus pattern (50 bp):
CCCCTGCACCGCGCTATACGGTGAGCTGGCGCCACGTGGGTATAGCGCGC
Found at i:1625647 original size:64 final size:65
Alignment explanation
Indices: 1625574--1625735 Score: 161
Period size: 64 Copynumber: 2.5 Consensus size: 65
1625564 ATTGTTTAAA
* *** *
1625574 GGTGTATCGATGCACAAGTAGTGCATCGATGCACT-CTTTTAATCTAA-AAACATCGAATGCAAT
1 GGTGCATCGATGCACAAGTAGTGCATCGATGCACTCCCAGTAAT-AAACAAACATCGAATGCAAT
1625637 T
65 T
* * * *
1625638 GGTGCATCGATGCATAAGGCA-TGCATCGATGCA-TCCCAGTAATAAACAAACATCGAATGTATT
1 GGTGCATCGATGCACAA-GTAGTGCATCGATGCACTCCCAGTAATAAACAAACATCGAATGCAAT
1625701 T
65 T
** * *
1625702 TATGCACCGATGCACAGGTAGTGCATCGATGCAC
1 GGTGCATCGATGCACAAGTAGTGCATCGATGCAC
1625736 CGATAGGGAA
Statistics
Matches: 78, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
63 5 0.06
64 71 0.91
65 2 0.03
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (65 bp):
GGTGCATCGATGCACAAGTAGTGCATCGATGCACTCCCAGTAATAAACAAACATCGAATGCAATT
Found at i:1626747 original size:103 final size:103
Alignment explanation
Indices: 1626522--1626739 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
1626512 GTCGAGGGTC
1626522 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* * *
1626587 TTGATCCTTGGCATATGTATATGATTCTTAATGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
1626625 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
1626690 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
1626728 TATGTGGTCCTT
1 TATGTGGTCCTT
1626740 ATGGACATTA
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:1626787 original size:23 final size:23
Alignment explanation
Indices: 1626754--1626818 Score: 87
Period size: 22 Copynumber: 2.9 Consensus size: 23
1626744 ACATTATTAT
*
1626754 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
1626777 GGCACTCCGGTGCAA-TATACGT
1 GGCACTACGGTGCAATTATACGC
*
1626799 GGCACTTCGGTGCAATTATA
1 GGCACTACGGTGCAATTATA
1626819 TGAGCTGTGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
22 19 0.51
23 18 0.49
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:1628534 original size:110 final size:111
Alignment explanation
Indices: 1628340--1628560 Score: 372
Period size: 110 Copynumber: 2.0 Consensus size: 111
1628330 ATTACAAAAA
* * * *
1628340 TTAATTCTTAATCTAATAATCATGCATTAAATGAATCAACTAATTATTAATAATAATTTAAATTA
1 TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
*
1628405 AATTAAAACATTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACATTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
*
1628451 TTAATTATTAATATAATAATCATGCATTAAATAAAT-AACTAAATATTACTAATAATTTAAATTA
1 TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
*
1628515 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACATTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
1628561 ATGATTTCCA
Statistics
Matches: 103, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
110 70 0.68
111 33 0.32
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.36
Consensus pattern (111 bp):
TTAATTATTAATATAATAATCATGCATTAAATAAATCAACTAAATATTAATAATAATTTAAATTA
AATTAAAACATTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
Found at i:1628698 original size:12 final size:10
Alignment explanation
Indices: 1628684--1628724 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
1628674 ACATTAAAAA
*
1628684 GAGAGTATTT
1 GAGAGAATTT
1628694 GAGAGAAATTT
1 GAGAG-AATTT
1628705 -AGAGAATTT
1 GAGAGAATTT
1628714 GAGAGAATTT
1 GAGAGAATTT
1628724 G
1 G
1628725 GTGTGATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.18
10 19 0.68
11 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:1628940 original size:50 final size:50
Alignment explanation
Indices: 1628836--1628960 Score: 155
Period size: 50 Copynumber: 2.5 Consensus size: 50
1628826 GATATACAGG
* * ** *
1628836 TATAGCGCGCTGCAAGGAC-CGCGCTATACCCACGTGGCGCCAGCTCACCG
1 TATAGCGCGGTGC-AGGGCGCGCGCTATACCCACGTGGCGCCAAATCACCA
*
1628886 TATAGCGCGGTGCAGGGCGCGCGCTATACCCACGTGGCGCCAAATCATCA
1 TATAGCGCGGTGCAGGGCGCGCGCTATACCCACGTGGCGCCAAATCACCA
*
1628936 TATAGCGCGGTACAGAGG-GCGCGCT
1 TATAGCGCGGTGCAG-GGCGCGCGCT
1628961 TTATTGCTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
49 4 0.06
50 60 0.91
51 2 0.03
ACGTcount: A:0.21, C:0.33, G:0.31, T:0.15
Consensus pattern (50 bp):
TATAGCGCGGTGCAGGGCGCGCGCTATACCCACGTGGCGCCAAATCACCA
Found at i:1629537 original size:17 final size:17
Alignment explanation
Indices: 1629515--1629557 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
1629505 TTATGAGGTG
* *
1629515 AAAATATTATTATTTTA
1 AAAATATTACTATTTGA
*
1629532 AAAATATAACTATTTGA
1 AAAATATTACTATTTGA
1629549 AATAATATT
1 AA-AATATT
1629558 TAATTCTGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (17 bp):
AAAATATTACTATTTGA
Found at i:1629821 original size:22 final size:24
Alignment explanation
Indices: 1629757--1629821 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 24
1629747 TTAAACTTAG
*
1629757 ATAATGTAATAATTAAAATATTTTT
1 ATAATTTAATAATTAAAATA-TTTT
* *
1629782 ATAAATTT--TCATTCAAATA-TTT
1 AT-AATTTAATAATTAAAATATTTT
1629804 ATAATTTAAT-ATTAAAAT
1 ATAATTTAATAATTAAAAT
1629822 TTACTAGTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
21 5 0.15
22 12 0.36
23 1 0.03
24 9 0.27
25 2 0.06
26 4 0.12
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (24 bp):
ATAATTTAATAATTAAAATATTTT
Found at i:1634490 original size:20 final size:19
Alignment explanation
Indices: 1634440--1634495 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
1634430 AACCAATAAT
1634440 AATAAACATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
*
1634459 GATGAAAA-AAAATGAAATTG
1 AAT-AAAATAAAAT-AAATTG
1634479 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
1634496 AAAGACAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 11 0.35
20 15 0.48
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:1634616 original size:22 final size:23
Alignment explanation
Indices: 1634583--1634696 Score: 89
Period size: 24 Copynumber: 4.9 Consensus size: 23
1634573 AAAACTAAAA
1634583 ATATAATGAAAATAAATAAATAGT
1 ATATAAT-AAAATAAATAAATAGT
1634607 ATA-AATAAAAT-AATAAA-AGT
1 ATATAATAAAATAAATAAATAGT
1634627 ATATATATAAAAATATAA-AAAT-GT
1 ATATA-AT-AAAATA-AATAAATAGT
*
1634651 ATATAATATAATAAAATACTAAATAGT
1 ATATAATA-AA-ATAA-A-TAAATAGT
1634678 A-ATAATAATAAT-AATAAAT
1 ATATAATAA-AATAAATAAAT
1634697 GAAAAATAAA
Statistics
Matches: 75, Mismatches: 2, Indels: 28
0.71 0.02 0.27
Matches are distributed among these distances:
20 6 0.08
21 7 0.09
22 13 0.17
23 14 0.19
24 17 0.23
25 4 0.05
26 11 0.15
27 3 0.04
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (23 bp):
ATATAATAAAATAAATAAATAGT
Found at i:1634629 original size:20 final size:19
Alignment explanation
Indices: 1634580--1634706 Score: 71
Period size: 22 Copynumber: 6.2 Consensus size: 19
1634570 AAAAAAACTA
1634580 AAAATAT-AATGAAAATAAAT
1 AAAATATAAAT-AAAAT-AAT
1634600 AAATAGTATAAATAAAATAAT
1 AAA-A-TATAAATAAAATAAT
1634621 AAAAGTATATATATAAAA-ATAT
1 AAAA-TATA-A-ATAAAATA-AT
* * *
1634643 AAAAATGTATATAATATAAT
1 -AAAATATAAATAAAATAAT
*
1634663 AAAATACTAAATAGTAATAAT
1 AAAATA-TAAATA-AAATAAT
*
1634684 AATAATAATAAATGAAA-AAT
1 AA-AAT-ATAAATAAAATAAT
1634704 AAA
1 AAA
1634707 TACATATAAT
Statistics
Matches: 86, Mismatches: 9, Indels: 25
0.72 0.08 0.21
Matches are distributed among these distances:
19 6 0.07
20 26 0.30
21 19 0.22
22 27 0.31
23 8 0.09
ACGTcount: A:0.66, C:0.01, G:0.05, T:0.28
Consensus pattern (19 bp):
AAAATATAAATAAAATAAT
Found at i:1634871 original size:19 final size:18
Alignment explanation
Indices: 1634827--1634872 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
1634817 TAGATAAAAA
* *
1634827 ATAATATATAATATATAT
1 ATAATATATAATAGAAAT
1634845 ATATATATATAATAGGAAAT
1 ATA-ATATATAATA-GAAAT
1634865 ATAATATA
1 ATAATATA
1634873 ACACAAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 3 0.12
19 15 0.62
20 6 0.25
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (18 bp):
ATAATATATAATAGAAAT
Found at i:1635388 original size:37 final size:37
Alignment explanation
Indices: 1635347--1635431 Score: 107
Period size: 37 Copynumber: 2.3 Consensus size: 37
1635337 GGATCCTATC
* *
1635347 TTTAGGAGTTTAAATAATAGTAGAACTCTATCATATT
1 TTTAGGAGTTTAAATAATAGCAAAACTCTATCATATT
* * ** *
1635384 TTTAGAAGTTTGAATCCTAGCAAAATTCTATCATATT
1 TTTAGGAGTTTAAATAATAGCAAAACTCTATCATATT
1635421 TTTAGGAGTTT
1 TTTAGGAGTTT
1635432 GAATCCTAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.42
Consensus pattern (37 bp):
TTTAGGAGTTTAAATAATAGCAAAACTCTATCATATT
Found at i:1636385 original size:106 final size:106
Alignment explanation
Indices: 1636193--1637547 Score: 1818
Period size: 106 Copynumber: 13.0 Consensus size: 106
1636183 GCATTGTTCC
** * * * * * *
1636193 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTTTGGAATCGGGAAATTATTTGTTGACAA
1 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
* * * * *
1636258 CCAGCCGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1636299 TAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCCGAAATTGAGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
*
1636364 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
1636405 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGTCTCTGAAATT-AGGAA--GTTTGTTGACAA
1 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
1636467 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
1636508 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATTTTGTTTGTTGACA
1 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATTGTTTGTTGACA
* * *
1636573 ACCAGCGGTCCCTTTGTTGTGAAGTTGAACTTGCGATGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1636615 GAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGACATTGAGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
1636680 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
1636721 GAGTCCAATAT-C--T-TT-CGATG-TG-AA---G-T-TGAAATTGAGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
*
1636774 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
1636815 GAGTCCAATAT-CTTTCGCTATGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
1 GAGTCCAATATCCTTT-GTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACA
1636879 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
1636921 GAGTTCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
1636986 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1637027 GAGTCCAATAT-CTTTCGTTGTGAAGTTGAAATTGGATCTGAAATTGGGAAGTTGTTTGTTGACA
1 GAGTCCAATATCCTTT-GTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACA
*
1637091 ACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1637133 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT-TCGAAATTGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCT-GAAATTGAGAAATTGTTTGTTGACA
*
1637197 ACCAGCGGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * * *
1637239 GAGTCCAATATCTTTTGATGTGAAATTGAAATTGACTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
** *
1637304 CCAGCAATCCCTTCGTCGTGAAGTTGAACTTTCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
1637345 GAGTCCAATATACTTCGTTGTGAAGTTGAAATT-G---AG-AATT------TT-TTTGTTGACAA
1 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
* * *
1637398 CCAGCAGTCCCTTC-TCGTGAAGTTGAACTTGTGTTGTATG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * * *
1637438 GAGTCTAATATCATTTGCTGTGAAGTTGAAATTGGCTATGAATTTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
* * * *
1637503 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
1637544 GAGT
1 GAGT
1637548 GGCACGATAT
Statistics
Matches: 1119, Mismatches: 96, Indels: 68
0.87 0.07 0.05
Matches are distributed among these distances:
93 51 0.05
94 102 0.09
95 3 0.00
96 2 0.00
97 1 0.00
98 4 0.00
99 5 0.00
100 3 0.00
101 9 0.01
102 3 0.00
103 94 0.08
104 6 0.01
105 34 0.03
106 698 0.62
107 104 0.09
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (106 bp):
GAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:1638155 original size:115 final size:115
Alignment explanation
Indices: 1637953--1638172 Score: 440
Period size: 115 Copynumber: 1.9 Consensus size: 115
1637943 GTGGAGAATG
1637953 ATAAATATGATACTCTAAAATGTATGCATAAGATGCATGTAACATGATTTGGTTATATTTTATCT
1 ATAAATATGATACTCTAAAATGTATGCATAAGATGCATGTAACATGATTTGGTTATATTTTATCT
1638018 CCTGAAAAAGGTCTGATAATTTGCATTAGGATGTTGAATTTATGTGGAGA
66 CCTGAAAAAGGTCTGATAATTTGCATTAGGATGTTGAATTTATGTGGAGA
1638068 ATAAATATGATACTCTAAAATGTATGCATAAGATGCATGTAACATGATTTGGTTATATTTTATCT
1 ATAAATATGATACTCTAAAATGTATGCATAAGATGCATGTAACATGATTTGGTTATATTTTATCT
1638133 CCTGAAAAAGGTCTGATAATTTGCATTAGGATGTTGAATT
66 CCTGAAAAAGGTCTGATAATTTGCATTAGGATGTTGAATT
1638173 CCCAAATGAT
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
115 105 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (115 bp):
ATAAATATGATACTCTAAAATGTATGCATAAGATGCATGTAACATGATTTGGTTATATTTTATCT
CCTGAAAAAGGTCTGATAATTTGCATTAGGATGTTGAATTTATGTGGAGA
Found at i:1639279 original size:17 final size:17
Alignment explanation
Indices: 1639259--1639325 Score: 75
Period size: 17 Copynumber: 4.0 Consensus size: 17
1639249 TTGTCCCTTT
*
1639259 TTCTTTTTTGATTTTTG
1 TTCTTTTTTGTTTTTTG
*
1639276 TTCTTTTTT-TTGTTTTC
1 TTCTTTTTTGTT-TTTTG
* *
1639293 TTCTTTTTTGCTTCTT-
1 TTCTTTTTTGTTTTTTG
1639309 TTCTTTTTTGTTTTTTG
1 TTCTTTTTTGTTTTTTG
1639326 CCCTTTTTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
16 15 0.37
17 25 0.61
18 1 0.02
ACGTcount: A:0.01, C:0.10, G:0.09, T:0.79
Consensus pattern (17 bp):
TTCTTTTTTGTTTTTTG
Found at i:1639283 original size:34 final size:34
Alignment explanation
Indices: 1639244--1639319 Score: 84
Period size: 34 Copynumber: 2.3 Consensus size: 34
1639234 TTTGCATGTG
*
1639244 CTTTTTTGTCCCTTT-TTCTTTTTTGATTTTTGTT
1 CTTTTTTGTCCCTTTCTTCTTTTTTGATTCTT-TT
*** *
1639278 CTTTTTT-TTGTTTTCTTCTTTTTTGCTTCTTTT
1 CTTTTTTGTCCCTTTCTTCTTTTTTGATTCTTTT
1639311 CTTTTTTGT
1 CTTTTTTGT
1639320 TTTTTGCCCT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
33 13 0.37
34 22 0.63
ACGTcount: A:0.01, C:0.14, G:0.08, T:0.76
Consensus pattern (34 bp):
CTTTTTTGTCCCTTTCTTCTTTTTTGATTCTTTT
Found at i:1639299 original size:16 final size:14
Alignment explanation
Indices: 1639256--1639324 Score: 66
Period size: 16 Copynumber: 4.4 Consensus size: 14
1639246 TTTTTGTCCC
1639256 TTTTTCTTTTTTGATT
1 TTTTTCTTTTTTG--T
1639272 TTTGTTCTTTTTTTTGT
1 TTT-TTC--TTTTTTGT
1639289 TTTCTTCTTTTTTGCT
1 TTT-TTCTTTTTTG-T
1639305 TCTTTTCTTTTTTGT
1 T-TTTTCTTTTTTGT
1639320 TTTTT
1 TTTTT
1639325 GCCCTTTTTG
Statistics
Matches: 47, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
14 4 0.09
15 9 0.19
16 15 0.32
17 12 0.26
19 7 0.15
ACGTcount: A:0.01, C:0.10, G:0.07, T:0.81
Consensus pattern (14 bp):
TTTTTCTTTTTTGT
Found at i:1639332 original size:33 final size:34
Alignment explanation
Indices: 1639261--1639333 Score: 80
Period size: 33 Copynumber: 2.2 Consensus size: 34
1639251 GTCCCTTTTT
* *
1639261 CTTTTTTGATTTTTGTTCTTTTTTTTGTTTTCTT
1 CTTTTTTGATTCTTGTTCTTTTTTTTGTTTTCTC
*
1639295 CTTTTTTGCTTCTT-TTCTTTTTTGTT-TTTTGC-C
1 CTTTTTTGATTCTTGTTCTTTTTT-TTGTTTT-CTC
1639328 CTTTTT
1 CTTTTT
1639334 GTTCTGATTG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
33 19 0.56
34 15 0.44
ACGTcount: A:0.01, C:0.14, G:0.08, T:0.77
Consensus pattern (34 bp):
CTTTTTTGATTCTTGTTCTTTTTTTTGTTTTCTC
Found at i:1643633 original size:20 final size:19
Alignment explanation
Indices: 1643583--1643638 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
1643573 AACCAATAAT
1643583 AATAAACATAAAAT-AATTG
1 AATAAA-ATAAAATAAATTG
*
1643602 GATGAAAA-AAAATGAAATTG
1 AAT-AAAATAAAAT-AAATTG
1643622 AATAAAATAAAATAAAT
1 AATAAAATAAAATAAAT
1643639 GAAGATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 5 0.16
19 11 0.35
20 15 0.48
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (19 bp):
AATAAAATAAAATAAATTG
Found at i:1643768 original size:26 final size:26
Alignment explanation
Indices: 1643739--1643845 Score: 77
Period size: 23 Copynumber: 4.3 Consensus size: 26
1643729 TAATGAAAAT
*
1643739 AAATAAATAGTATAAATAAAATAATA
1 AAATAAATAGTATATATAAAATAATA
*
1643765 AAATATATA-TATATAT-AAA-AATA
1 AAATAAATAGTATATATAAAATAATA
* * *
1643788 TAA-AAAT-GTATGTATAATATAATAA
1 AAATAAATAGTATATATAAAATAAT-A
*
1643813 AATACTAAATAGTA-ATA-ATAATAAT-
1 AA-A-TAAATAGTATATATAAAATAATA
1643838 AAATAAAT
1 AAATAAAT
1643846 GAAAAATAAA
Statistics
Matches: 63, Mismatches: 10, Indels: 19
0.68 0.11 0.21
Matches are distributed among these distances:
22 9 0.14
23 13 0.21
24 7 0.11
25 10 0.16
26 9 0.14
27 6 0.10
28 6 0.10
29 3 0.05
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.32
Consensus pattern (26 bp):
AAATAAATAGTATATATAAAATAATA
Found at i:1644589 original size:37 final size:37
Alignment explanation
Indices: 1644491--1644592 Score: 125
Period size: 37 Copynumber: 2.8 Consensus size: 37
1644481 ATGCTTGTGG
* ** * *
1644491 ATCTTATCTTTAGGAGTTTAAATAATAGTAGAACTTT
1 ATCTTATTTTTAGGAGTTTAAATCCTAGCAGAAATTT
* *
1644528 ATCATATTTTTAGGAGTTTGAATCCTAGCA-AAATTCT
1 ATCTTATTTTTAGGAGTTTAAATCCTAGCAGAAATT-T
1644565 ATCTTATTTTTAGGAGTTTAAATCCTAG
1 ATCTTATTTTTAGGAGTTTAAATCCTAG
1644593 TAGGACAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
36 4 0.07
37 51 0.93
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (37 bp):
ATCTTATTTTTAGGAGTTTAAATCCTAGCAGAAATTT
Found at i:1651993 original size:22 final size:25
Alignment explanation
Indices: 1651957--1652001 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
1651947 AGTTTTAGAA
1651957 TATCGAATCTTTAAGT-GATTTTTT
1 TATCGAATCTTTAAGTGGATTTTTT
1651981 TATCG-AT-TTTAAGTGGATTTT
1 TATCGAATCTTTAAGTGGATTTT
1652002 ATGAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.24, C:0.07, G:0.16, T:0.53
Consensus pattern (25 bp):
TATCGAATCTTTAAGTGGATTTTTT
Found at i:1655058 original size:29 final size:30
Alignment explanation
Indices: 1655018--1655074 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
1655008 CCCTGAGTAG
*
1655018 CAAACGATAGCATTAAATTTCAAGAAAAAA
1 CAAACGATAGCATTAAATCTCAAGAAAAAA
* *
1655048 CAAAC-ATAGCATTTAATCTCAGGAAAA
1 CAAACGATAGCATTAAATCTCAAGAAAA
1655075 TAAACAGGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.53, C:0.16, G:0.11, T:0.21
Consensus pattern (30 bp):
CAAACGATAGCATTAAATCTCAAGAAAAAA
Found at i:1659699 original size:24 final size:24
Alignment explanation
Indices: 1659672--1659725 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
1659662 GATGGTGAAG
1659672 AAGGAGCTGCTCAAATTCGGTACA
1 AAGGAGCTGCTCAAATTCGGTACA
1659696 AAGGAGCTGCTCAAATTCGGTACA
1 AAGGAGCTGCTCAAATTCGGTACA
1659720 AAGGAG
1 AAGGAG
1659726 AAGGCATTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.35, C:0.19, G:0.28, T:0.19
Consensus pattern (24 bp):
AAGGAGCTGCTCAAATTCGGTACA
Found at i:1675256 original size:19 final size:19
Alignment explanation
Indices: 1675232--1675309 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
1675222 AATAGCCTGA
1675232 GTGCATCGATGCATGGCTT
1 GTGCATCGATGCATGGCTT
*
1675251 GTGCATCGATGCATCAAATGCATT
1 GTGCATCGATGCAT----GGC-TT
1675275 GAGTGCATCGATGCATGG-TAT
1 --GTGCATCGATGCATGGCT-T
1675296 GTGCATCGATGCAT
1 GTGCATCGATGCAT
1675310 AAAATGCATT
Statistics
Matches: 49, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
19 28 0.57
20 1 0.02
21 1 0.02
22 1 0.02
23 2 0.04
24 2 0.04
26 14 0.29
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.29
Consensus pattern (19 bp):
GTGCATCGATGCATGGCTT
Found at i:1675278 original size:45 final size:45
Alignment explanation
Indices: 1675229--1675319 Score: 157
Period size: 45 Copynumber: 2.0 Consensus size: 45
1675219 CAAAATAGCC
*
1675229 TGAGTGCATCGATGCATGGCT-TGTGCATCGATGCATCAAATGCAT
1 TGAGTGCATCGATGCATGG-TATGTGCATCGATGCATAAAATGCAT
1675274 TGAGTGCATCGATGCATGGTATGTGCATCGATGCATAAAATGCAT
1 TGAGTGCATCGATGCATGGTATGTGCATCGATGCATAAAATGCAT
1675319 T
1 T
1675320 CGATATTCAA
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 1 0.02
45 43 0.98
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (45 bp):
TGAGTGCATCGATGCATGGTATGTGCATCGATGCATAAAATGCAT
Found at i:1678047 original size:23 final size:22
Alignment explanation
Indices: 1678017--1678094 Score: 77
Period size: 23 Copynumber: 3.5 Consensus size: 22
1678007 GCATGGTCTT
1678017 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * * *
1678039 CGTGCATCGGTGTACCTTC-ATG
1 -GTGCATCGATGCACATTCAAGG
*
1678061 GTGTATCGATGCACATTCAAAGG
1 GTGCATCGATGCACATTC-AAGG
1678084 GATGCATCGAT
1 G-TGCATCGAT
1678095 ACACTGTTAA
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
21 14 0.33
22 2 0.05
23 18 0.43
24 8 0.19
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:1678079 original size:21 final size:22
Alignment explanation
Indices: 1678017--1678079 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 22
1678007 GCATGGTCTT
1678017 GTGCATCGATGCACATTCAAGGC
1 GTGCATCGATGCACATTC-AGGC
* * * *
1678040 GTGCATCGGTGTACCTTCATG-
1 GTGCATCGATGCACATTCAGGC
*
1678061 GTGTATCGATGCACATTCA
1 GTGCATCGATGCACATTCA
1678080 AAGGGATGCA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
21 15 0.47
22 2 0.06
23 15 0.47
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAGGC
Found at i:1679505 original size:201 final size:201
Alignment explanation
Indices: 1679160--1679561 Score: 804
Period size: 201 Copynumber: 2.0 Consensus size: 201
1679150 CATACTTAGC
1679160 TTGATTGATGAAGATGACATCTTTTCTTTGCTTGATTTGGAGTCCCAATAAAAATGAGAGCTCCC
1 TTGATTGATGAAGATGACATCTTTTCTTTGCTTGATTTGGAGTCCCAATAAAAATGAGAGCTCCC
1679225 CCATTATGCTTATCTCGAATTCACTTTGCATTAGCTTAGAAAATTCTTGGCAAAGAACATCATTA
66 CCATTATGCTTATCTCGAATTCACTTTGCATTAGCTTAGAAAATTCTTGGCAAAGAACATCATTA
1679290 GTAGAACCAAATATTATACCATCAACATAAATTTGAACTACTAATAAATCTTTACATTTATGCTT
131 GTAGAACCAAATATTATACCATCAACATAAATTTGAACTACTAATAAATCTTTACATTTATGCTT
1679355 TAAAAA
196 TAAAAA
1679361 TTGATTGATGAAGATGACATCTTTTCTTTGCTTGATTTGGAGTCCCAATAAAAATGAGAGCTCCC
1 TTGATTGATGAAGATGACATCTTTTCTTTGCTTGATTTGGAGTCCCAATAAAAATGAGAGCTCCC
1679426 CCATTATGCTTATCTCGAATTCACTTTGCATTAGCTTAGAAAATTCTTGGCAAAGAACATCATTA
66 CCATTATGCTTATCTCGAATTCACTTTGCATTAGCTTAGAAAATTCTTGGCAAAGAACATCATTA
1679491 GTAGAACCAAATATTATACCATCAACATAAATTTGAACTACTAATAAATCTTTACATTTATGCTT
131 GTAGAACCAAATATTATACCATCAACATAAATTTGAACTACTAATAAATCTTTACATTTATGCTT
1679556 TAAAAA
196 TAAAAA
1679562 CAATGTAGTG
Statistics
Matches: 201, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
201 201 1.00
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (201 bp):
TTGATTGATGAAGATGACATCTTTTCTTTGCTTGATTTGGAGTCCCAATAAAAATGAGAGCTCCC
CCATTATGCTTATCTCGAATTCACTTTGCATTAGCTTAGAAAATTCTTGGCAAAGAACATCATTA
GTAGAACCAAATATTATACCATCAACATAAATTTGAACTACTAATAAATCTTTACATTTATGCTT
TAAAAA
Found at i:1683648 original size:19 final size:19
Alignment explanation
Indices: 1683624--1683675 Score: 88
Period size: 19 Copynumber: 2.7 Consensus size: 19
1683614 AATAGCCTGA
1683624 GTGCATCGATGCATGGCT-T
1 GTGCATCGATGCATGG-TAT
1683643 GTGCATCGATGCATGGTAT
1 GTGCATCGATGCATGGTAT
1683662 GTGCATCGATGCAT
1 GTGCATCGATGCAT
1683676 AAAATGCATT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 1 0.03
19 31 0.97
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (19 bp):
GTGCATCGATGCATGGTAT
Found at i:1683728 original size:20 final size:20
Alignment explanation
Indices: 1683703--1683760 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
1683693 CAATTTATTC
*
1683703 ATTGGTGCATCGATGTATAG
1 ATTGGTGCATCGATGCATAG
* *
1683723 ATTGGTGCATCGGTGCATTG
1 ATTGGTGCATCGATGCATAG
*
1683743 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
1683761 CACTTTGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.19, C:0.14, G:0.33, T:0.34
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATAG
Found at i:1686799 original size:2 final size:2
Alignment explanation
Indices: 1686792--1686853 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
1686782 TAAAACTGTC
1686792 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA 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
1686834 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
1686854 AGAGATAGGA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1692359 original size:18 final size:19
Alignment explanation
Indices: 1692336--1692376 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
1692326 TTTTTAATTT
1692336 TTTTAAA-ATTATTA-TATA
1 TTTTAAACATT-TTATTATA
1692354 TTTTAAACATTTTATTATA
1 TTTTAAACATTTTATTATA
1692373 TTTT
1 TTTT
1692377 TTATTGATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTAAACATTTTATTATA
Found at i:1693360 original size:75 final size:75
Alignment explanation
Indices: 1693270--1693420 Score: 302
Period size: 75 Copynumber: 2.0 Consensus size: 75
1693260 AAGTGTGCAA
1693270 TTTGATCATCGTATTTTGAAACGTTATAATAAAGTCACTCAATTAGAAAATCATTTTTTGGATAA
1 TTTGATCATCGTATTTTGAAACGTTATAATAAAGTCACTCAATTAGAAAATCATTTTTTGGATAA
1693335 ATTTACATTT
66 ATTTACATTT
1693345 TTTGATCATCGTATTTTGAAACGTTATAATAAAGTCACTCAATTAGAAAATCATTTTTTGGATAA
1 TTTGATCATCGTATTTTGAAACGTTATAATAAAGTCACTCAATTAGAAAATCATTTTTTGGATAA
1693410 ATTTACATTT
66 ATTTACATTT
1693420 T
1 T
1693421 GATCACCCAC
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 76 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.43
Consensus pattern (75 bp):
TTTGATCATCGTATTTTGAAACGTTATAATAAAGTCACTCAATTAGAAAATCATTTTTTGGATAA
ATTTACATTT
Found at i:1699991 original size:18 final size:20
Alignment explanation
Indices: 1699946--1700019 Score: 73
Period size: 21 Copynumber: 3.7 Consensus size: 20
1699936 CCCTCGTTCC
*
1699946 TCTCTTACCAATTCTTCCTCAT
1 TCTCTT-CCGATTCTTCCTC-T
1699968 TC-CTT-C-ATTCTTCCTCT
1 TCTCTTCCGATTCTTCCTCT
1699985 TCTCTTCCGATTTCTTCCTCT
1 TCTCTTCCGA-TTCTTCCTCT
* *
1700006 TCTCCTCTGATTCT
1 TCTCTTCCGATTCT
1700020 GACAATACCC
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
17 3 0.07
18 13 0.28
19 2 0.04
20 5 0.11
21 21 0.46
22 2 0.04
ACGTcount: A:0.09, C:0.38, G:0.03, T:0.50
Consensus pattern (20 bp):
TCTCTTCCGATTCTTCCTCT
Found at i:1710860 original size:21 final size:20
Alignment explanation
Indices: 1710835--1710905 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 20
1710825 TGGGTGATGA
*
1710835 CATCTAAATCGACTGCGGTGG
1 CATCTAAA-CGACTGCGGTGC
* * *
1710856 TATCTAAAACGGCTGTGGTGC
1 CATCT-AAACGACTGCGGTGC
1710877 CATCTGAAACGACTGCGGTGC
1 CATCT-AAACGACTGCGGTGC
1710898 CATCTAAA
1 CATCTAAA
1710906 ATGGTTTCAA
Statistics
Matches: 41, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
20 3 0.07
21 35 0.85
22 3 0.07
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (20 bp):
CATCTAAACGACTGCGGTGC
Found at i:1716078 original size:26 final size:26
Alignment explanation
Indices: 1716038--1716087 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
1716028 AAATTAGTAA
1716038 ATTAAATAATAATAAAATAATAAACT
1 ATTAAATAATAATAAAATAATAAACT
* * *
1716064 ATTAAATGATTATAATATAATAAA
1 ATTAAATAATAATAAAATAATAAA
1716088 AAATTTATAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (26 bp):
ATTAAATAATAATAAAATAATAAACT
Found at i:1718344 original size:182 final size:181
Alignment explanation
Indices: 1718032--1718996 Score: 1249
Period size: 182 Copynumber: 5.3 Consensus size: 181
1718022 AGGTAAAAAT
* * * *
1718032 ATGACAAAACCGGTAAAACGCTACTGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATTGA
1 ATGACAAAACAGGTAAAA-ACTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGA
* * ** *
1718097 CAATTTAT-GAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGGCA-TTTTATGAAAA
65 CACTTT-TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTTA-AAAAA
* **
1718160 TGTATCAATCCATAACAATATAACAACTAAAAATATGACAAAACCGGTCTCAAA
128 TGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAA
* *** ** *
1718214 ATGACAAAACATGTAAATAACTATAAGATATGTTGAAAGTGTTAATACTTTAATATAAGTATCGA
1 ATGACAAAACAGGTAAA-AACTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGA
* **
1718279 CATTTTTGGAATTTAAAAGAGAAGAAGTTATAGATCCTATAAAGTGTCGATACTTTTAAAAAATG
65 CACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTTAAAAAATG
* * ** *
1718344 TATCGATTCATAACAATATAACAGGTAAAAATATGATAAAATAGGTCTAAAA
130 TATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAA
* * * * *
1718396 ATGACAAAACCGGTAAAAAGATATCAGATATGTTGAAAGTGTCGATAATTTAATATAAATATCGA
1 ATGACAAAACAGGTAAAAA-CTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGA
* * * * *
1718461 CACTTTTGGAATTTAAAAGAAAAGAAGTTATAGAGCCTAAAAAGTGTCGACAC-TTTATGAAAAT
65 CACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTTA-AAAAAT
* * *
1718525 GTATCGATACATAACAATATAACAGCTAAAAATATGAAAAAACCGGTCTCAAA
129 GTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAA
* * **
1718578 ATGACAAAA-ACGGTAAAACGCTACCGGATATGTTGAAAGTATCGATTCTTTAATATAAGTATCG
1 ATGACAAAACA-GGTAAAA-ACTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCG
*
1718642 ACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCAATACTTTTAAAAAAT
64 ACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTTAAAAAAT
* * **
1718707 GTATCGATCCGTAATAATATAACAGGTAAAAATATGACAAAACAAGTCTCAAAA
129 GTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTC-AAA
* * *
1718761 ATGACAAAATC-GGTAAAAAATTACCGGATATGTTGAAAGTGTGGATAATTTAATATAAGTATAG
1 ATGACAAAA-CAGGT-AAAAACTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCG
*
1718825 ACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTTATAAAGTGTCGATACTTTT-AAAAAT
64 ACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTTAAAAAAT
*
1718889 GTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCAAA
129 GTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAA
* ** * *
1718942 ATGACAAAACCGGTAAAGCGCTACGGGATATGTTGAAAGTGTCGATACTTTAATA
1 ATGACAAAACAGGTAAA-AACTACCGGATATGTTGAAAGTGTCGATAATTTAATA
1718997 AGTACGTGTA
Statistics
Matches: 682, Mismatches: 87, Indels: 29
0.85 0.11 0.04
Matches are distributed among these distances:
180 4 0.01
181 53 0.08
182 502 0.74
183 119 0.17
184 4 0.01
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (181 bp):
ATGACAAAACAGGTAAAAACTACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGAC
ACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTTAAAAAATGT
ATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCAAA
Found at i:1718701 original size:364 final size:364
Alignment explanation
Indices: 1718027--1718996 Score: 1421
Period size: 364 Copynumber: 2.7 Consensus size: 364
1718017 ATTACAGGTA
* *
1718027 AAAATATGACAAAACCGGTAAAACGCTACTGGATATGTTGAAAGTGTCGATAATTTAATATAAGT
1 AAAA-ATGACAAAACCGGTAAAAAGATAC-GGATATGTTGAAAGTGTCGATAATTTAATATAAGT
* * * *
1718092 ATTGACAATTTAT-GAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGGCATTTTATG
64 ATAGACACTTT-TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATG
* * *
1718156 AAAATGTATCAATCCATAACAATATAACAACTAAAAATATGACAAAACCGGTCTCAAAATGAC-A
128 AAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGAAAAAACCGGTCTCAAAATGACAA
* * * * ** *
1718220 AAACATGTAAATA-ACTATAAGATATGTTGAAAGTGTTAATACTTTAATATAAGTATCGACATTT
193 AAAC-GGTAAA-ACGCTACAGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTT
* *
1718284 TTGGAATTTAAAAGAGAAGAAGTTATAGATCCTATAAAGTGTCGATACTTTTAAAAAATGTATCG
256 TTGGAATTTAAAAGAGAAGAAGTTATAGAGCCTATAAAGTGTCAATACTTTTAAAAAATGTATCG
* * * *
1718349 ATTCATAACAATATAACAGGTAAAAATATGATAAAATAGGTCT-
321 ATCCATAACAATATAACAGGTAAAAATATGACAAAACAAGTCTC
* *
1718392 AAAAATGACAAAACCGGTAAAAAGATATCAGATATGTTGAAAGTGTCGATAATTTAATATAAATA
1 AAAAATGACAAAACCGGTAAAAAGATA-CGGATATGTTGAAAGTGTCGATAATTTAATATAAGTA
* * *
1718457 TCGACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGAGCCTAAAAAGTGTCGACACTTTATGAA
65 TAGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAA
*
1718522 AATGTATCGATACATAACAATATAACAGCTAAAAATATGAAAAAACCGGTCTCAAAATGACAAAA
130 AATGTATCGATCCATAACAATATAACAGCTAAAAATATGAAAAAACCGGTCTCAAAATGACAAAA
* * *
1718587 ACGGTAAAACGCTACCGGATATGTTGAAAGTATCGATTCTTTAATATAAGTATCGACACTTTTGG
195 ACGGTAAAACGCTACAGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGG
*
1718652 AATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCAATACTTTTAAAAAATGTATCGATCC
260 AATTTAAAAGAGAAGAAGTTATAGAGCCTATAAAGTGTCAATACTTTTAAAAAATGTATCGATCC
* *
1718717 GTAATAATATAACAGGTAAAAATATGACAAAACAAGTCTC
325 ATAACAATATAACAGGTAAAAATATGACAAAACAAGTCTC
* *
1718757 AAAAATGACAAAATCGGTAAAAA-ATTACCGGATATGTTGAAAGTGTGGATAATTTAATATAAGT
1 AAAAATGACAAAACCGGTAAAAAGA-TA-CGGATATGTTGAAAGTGTCGATAATTTAATATAAGT
* * * *
1718821 ATAGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCTTATAAAGTGTCGATACTTT-TAA
64 ATAGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGA
* *
1718885 AAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACCGGTCTCAAAATGACAAA
129 AAATGTATCGATCCATAACAATATAACAGCTAAAAATATGAAAAAACCGGTCTCAAAATGACAAA
* * *
1718950 ACCGGTAAAGCGCTACGGGATATGTTGAAAGTGTCGATACTTTAATA
194 AACGGTAAAACGCTACAGGATATGTTGAAAGTGTCGATACTTTAATA
1718997 AGTACGTGTA
Statistics
Matches: 546, Mismatches: 53, Indels: 13
0.89 0.09 0.02
Matches are distributed among these distances:
363 2 0.00
364 422 0.77
365 122 0.22
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.28
Consensus pattern (364 bp):
AAAAATGACAAAACCGGTAAAAAGATACGGATATGTTGAAAGTGTCGATAATTTAATATAAGTAT
AGACACTTTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAA
ATGTATCGATCCATAACAATATAACAGCTAAAAATATGAAAAAACCGGTCTCAAAATGACAAAAA
CGGTAAAACGCTACAGGATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTTTGGA
ATTTAAAAGAGAAGAAGTTATAGAGCCTATAAAGTGTCAATACTTTTAAAAAATGTATCGATCCA
TAACAATATAACAGGTAAAAATATGACAAAACAAGTCTC
Found at i:1719465 original size:20 final size:19
Alignment explanation
Indices: 1719429--1719497 Score: 111
Period size: 19 Copynumber: 3.6 Consensus size: 19
1719419 CTTTTATTTA
1719429 ATATTATAGGTAAAAAATG
1 ATATTATAGGTAAAAAATG
1719448 ATATTATAGGTAAAAAAATG
1 ATATTATAGGT-AAAAAATG
*
1719468 ATATTATAGGTAGAAAATG
1 ATATTATAGGTAAAAAATG
*
1719487 ATATTTTAGGT
1 ATATTATAGGT
1719498 TGTATAAATG
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
19 28 0.60
20 19 0.40
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.35
Consensus pattern (19 bp):
ATATTATAGGTAAAAAATG
Found at i:1721046 original size:9 final size:9
Alignment explanation
Indices: 1721032--1721085 Score: 54
Period size: 9 Copynumber: 6.0 Consensus size: 9
1721022 GTTATTGTCA
*
1721032 AGGAGGTAT
1 AGGAGGTAG
*
1721041 AGGAGGCAG
1 AGGAGGTAG
1721050 AGGAGGTAG
1 AGGAGGTAG
* *
1721059 AGGAAGCAG
1 AGGAGGTAG
*
1721068 AGGAGGCAG
1 AGGAGGTAG
*
1721077 TGGAGGTAG
1 AGGAGGTAG
1721086 TGGAAAAGGA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.33, C:0.06, G:0.52, T:0.09
Consensus pattern (9 bp):
AGGAGGTAG
Found at i:1721055 original size:18 final size:18
Alignment explanation
Indices: 1721032--1721073 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
1721022 GTTATTGTCA
* *
1721032 AGGAGGTATAGGAGGCAG
1 AGGAGGTAGAGGAAGCAG
1721050 AGGAGGTAGAGGAAGCAG
1 AGGAGGTAGAGGAAGCAG
1721068 AGGAGG
1 AGGAGG
1721074 CAGTGGAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.36, C:0.05, G:0.52, T:0.07
Consensus pattern (18 bp):
AGGAGGTAGAGGAAGCAG
Found at i:1721089 original size:9 final size:9
Alignment explanation
Indices: 1721041--1721082 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
1721031 AAGGAGGTAT
1721041 AGGAGGCAG
1 AGGAGGCAG
*
1721050 AGGAGGTAG
1 AGGAGGCAG
*
1721059 AGGAAGCAG
1 AGGAGGCAG
1721068 AGGAGGCAG
1 AGGAGGCAG
*
1721077 TGGAGG
1 AGGAGG
1721083 TAGTGGAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.33, C:0.07, G:0.55, T:0.05
Consensus pattern (9 bp):
AGGAGGCAG
Found at i:1721522 original size:18 final size:18
Alignment explanation
Indices: 1721499--1721533 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1721489 GAAAAAATTT
*
1721499 GAAGAAGAGAAGATGGAA
1 GAAGAAGAAAAGATGGAA
1721517 GAAGAAGAAAAGATGGA
1 GAAGAAGAAAAGATGGA
1721534 GGAAATGAGG
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:0.57, C:0.00, G:0.37, T:0.06
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAA
Found at i:1722939 original size:19 final size:19
Alignment explanation
Indices: 1722915--1722960 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
1722905 AAATGTAGGG
1722915 TTAATTTTGTATAAGATTT
1 TTAATTTTGTATAAGATTT
*
1722934 TTAATTTTGTATACGATTT
1 TTAATTTTGTATAAGATTT
*
1722953 ATAATTTT
1 TTAATTTT
1722961 TTATGTGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.59
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:1723829 original size:199 final size:199
Alignment explanation
Indices: 1723337--1724636 Score: 1945
Period size: 199 Copynumber: 6.5 Consensus size: 199
1723327 GTAAACTTAT
* * *
1723337 GTGTCGATACATTTATAACAAGTATCGCTCCCAAAAACATCGAAACTCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
*** *
1723402 GGTAAATTAACAATGTAACCGGTCTAAATATACTAATTTTTGAGAAAACAGGTGTACAAAAAATA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
1723467 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTTCAAAACCAAGTGCACT
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTA-TTTCAAAACCAAGTGCACT
1723532 AAAAA
195 AAAAA
1723537 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
** * *
1723602 GGTAAATTAACAATGTAACCAATCTAAATATATCGGTTTTTGAGAAAACAGGTGTACAAAAATTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* *
1723667 TCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGTGCACTA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
1723732 AAAA
196 AAAA
* *
1723736 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATTGAAACTCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * *
1723801 TGTAAATTAACAATGTGACCGGTCTAAATATACCGGTTTTTGAGAAAATATGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* * * *
1723866 TCGACACAAATTAAACAAGTGTCGATACTTATGGTCCAGAATGTCTTTCTAAACCAAGTGCAC-A
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
1723930 AAAA
196 AAAA
* * ** *
1723934 ATGTCGATACATTTATAACAAGTATAAATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* ** *
1723999 GGTAAATTAGCAATGTAACCGGTCTAAATATACCATTTTTTGAGAAAACAAGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* * * *
1724064 TCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATATACTTCAAAACCAAGTGCACAA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
1724129 AAAA
196 AAAA
* * *
1724133 ATGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1724198 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* *
1724263 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACTG
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
1724328 AAAA
196 AAAA
* *
1724332 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAATATCGAAACCCATAATTATAATGTAAGA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * *
1724397 GGTAAATTAACAATGTAACCGGTCTAAATATATCGGTTTATGAGAAAACATGTATACATAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
** * * * *
1724462 TCGACACAAATCCAACAAGTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCAGG
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTA-TTTCAAAACCAAGTGCA-C
*
1724527 AAAAAA
194 TAAAAA
* * * * * *
1724533 GTGTCGATACATTTATAACAAGTGTCGATCCTAAGAATATCAAAACCCAAAATTTTAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * *** * * *
1724598 GGTCATTTTGTAATGTAACCGATATAAATATACCAGTTT
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTT
1724637 AATTTGAAAA
Statistics
Matches: 1002, Mismatches: 95, Indels: 5
0.91 0.09 0.00
Matches are distributed among these distances:
198 179 0.18
199 552 0.55
200 178 0.18
201 93 0.09
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (199 bp):
GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGCACTA
AAAA
Found at i:1724116 original size:397 final size:398
Alignment explanation
Indices: 1723337--1724636 Score: 1981
Period size: 397 Copynumber: 3.3 Consensus size: 398
1723327 GTAAACTTAT
*
1723337 GTGTCGATACATTTATAACAAGTATCGCTCCCAAAAACATCGAAACTCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
*** *
1723402 GGTAAATTAACAATGTAACCGGTCTAAATATACTAATTTTTGAGAAAACAGGTGTACAAAAAATA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
*
1723467 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTTCAAAACCAAGTGCACT
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTA-TTTCTAAACCAAGTGCACT
1723532 AAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATG
195 AAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATG
** *
1723597 TAATAGGTAAATTAACAATGTAACCAATCTAAATATATCGGTTTTTGAGAAAACAGGTGTACAAA
260 TAATAGGTAAATTAACAATGTAACCGGTCTAAATATATCGGTTTTTGAGAAAACAAGTGTACAAA
* *
1723662 AATTATCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGTG
325 AAGTATCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTG
*
1723727 CACTAAAAA
390 CACAAAAAA
* *
1723736 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATTGAAACTCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
* * * *
1723801 TGTAAATTAACAATGTGACCGGTCTAAATATACCGGTTTTTGAGAAAATATGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* * *
1723866 TCGACACAAATTAAACAAGTGTCGATACTTATGGTCCAGAATGTCTTTCTAAACCAAGTGCAC-A
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACTA
* * ** *
1723930 AAAAATGTCGATACATTTATAACAAGTATAAATCCCAAAAACATCGAAACTCATAATTATAATGT
196 AAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGT
* * **
1723995 AATAGGTAAATTAGCAATGTAACCGGTCTAAATATACCATTTTTTGAGAAAACAAGTGTACAAAA
261 AATAGGTAAATTAACAATGTAACCGGTCTAAATATATCGGTTTTTGAGAAAACAAGTGTACAAAA
* *
1724060 AGTATCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATATACTTCAAAACCAAGTGC
326 AGTATCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGC
1724125 ACAAAAAA
391 ACAAAAAA
* * *
1724133 ATGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
1724198 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
*
1724263 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACTG
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACTA
*
1724328 AAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAATATCGAAACCCATAATTATAATGT
196 AAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGT
* * * * *
1724393 AAGAGGTAAATTAACAATGTAACCGGTCTAAATATATCGGTTTATGAGAAAACATGTATACATAA
261 AATAGGTAAATTAACAATGTAACCGGTCTAAATATATCGGTTTTTGAGAAAACAAGTGTACAAAA
** * * * *
1724458 AGTATCGACACAAATCCAACAAGTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTG
326 AGTATCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTA-TTTCAAAACCAAGTG
*
1724523 CAGGAAAAAA
390 CA-CAAAAAA
* * * * * * * *
1724533 GTGTCGATACATTTATAACAAGTGTCGATCCTAAGAATATCAAAACCCAAAATTTTAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
* * *** * * *
1724598 GGTCATTTTGTAATGTAACCGATATAAATATACCAGTTT
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTT
1724637 AATTTGAAAA
Statistics
Matches: 814, Mismatches: 84, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
397 368 0.45
398 175 0.21
399 176 0.22
400 95 0.12
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (398 bp):
GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACTA
AAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGT
AATAGGTAAATTAACAATGTAACCGGTCTAAATATATCGGTTTTTGAGAAAACAAGTGTACAAAA
AGTATCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATGTATTTCAAAACCAAGTGC
ACAAAAAA
Found at i:1724471 original size:596 final size:599
Alignment explanation
Indices: 1723337--1724632 Score: 2051
Period size: 596 Copynumber: 2.2 Consensus size: 599
1723327 GTAAACTTAT
*
1723337 GTGTCGATACATTTATAACAAGTATCGCTCCCAAAAACATCGAAACTCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
* * *
1723402 GGTAAATTAACAATGTAACCGGTCTAAATATACTAATTTTTGAGAAAACAGGTGTACAAAAAATA
66 GGTAAATTAGCAATGTAACCGGTCTAAATATACCAATTTTTGAGAAAACAAGTGTACAAAAAATA
* * *
1723467 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTTCAAAACCAAGTGCACT
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATATATCTTCAAAACCAAGTGCACA
* * *
1723532 AAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATG
196 AAAAAATGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATG
*
1723597 TAATAGGTAAATTAACAATGTAACCAATCTAAATATATCGGTTTTTGAGAAAACAGGTGTACAAA
261 TAATAGGTAAATTAACAATGTAACCAATCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAA
* *
1723662 AATTATCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGTG
326 AAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGTG
* *
1723727 CACTAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATTGAAACTCATAATTAT
391 CACTAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTAT
* * * * * *
1723792 AATGTAATATGTAAATTAACAATGTGACCGGTCTAAATATACCGGTTTTTGAGAAAATATGTGTA
456 AATGTAAGAGGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTATGAGAAAACATGTATA
* *
1723857 CAAAAAGTATCGACACAAATTAAACAAGTGTCGATACTTATGGTCCAGAATGTCTTTCT-AAACC
521 CAAAAAGTATCGACACAAATCAAACAAGTGTCGATACTTATGGTCCAGAATGTATTT-TAAAACC
1723921 AAGTGCA-CAAAAAA
585 AAGTGCAGCAAAAAA
**
1723935 -TGTCGATACATTTATAACAAGTATAAATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
* *
1723999 GGTAAATTAGCAATGTAACCGGTCTAAATATACCATTTTTTGAGAAAACAAGTGTACAAAAAGTA
66 GGTAAATTAGCAATGTAACCGGTCTAAATATACCAATTTTTGAGAAAACAAGTGTACAAAAAATA
*
1724064 TCGACACAAATAAAACAAGTGTTGATACTTTTGGTCCAGAATATA-CTTCAAAACCAAGTGCACA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATATATCTTCAAAACCAAGTGCACA
1724128 AAAAAATGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATG
196 AAAAAATGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATG
**
1724193 TAATAGGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAA
261 TAATAGGTAAATTAACAATGTAACCAATCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAA
* *
1724258 AAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTG
326 AAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGTG
* *
1724323 CACTGAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAATATCGAAACCCATAATTAT
391 CACTAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTAT
*
1724388 AATGTAAGAGGTAAATTAACAATGTAACCGGTCTAAATATATCGGTTTATGAGAAAACATGTATA
456 AATGTAAGAGGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTATGAGAAAACATGTATA
* * * * *
1724453 CATAAAGTATCGACACAAATCCAACAAGTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACC
521 CAAAAAGTATCGACACAAATCAAACAAGTGTCGATACTTATGGTCCAGAATGTATTTT-AAAACC
*
1724518 AAGTGCAGGAAAAAA
585 AAGTGCAGCAAAAAA
* * * * * * * *
1724533 GTGTCGATACATTTATAACAAGTGTCGATCCTAAGAATATCAAAACCCAAAATTTTAATGTAATA
1 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
* * * * * *
1724598 GGTCATTTTGTAATGTAACCGATATAAATATACCA
66 GGTAAATTAGCAATGTAACCGGTCTAAATATACCA
1724633 GTTTAATTTG
Statistics
Matches: 637, Mismatches: 57, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
595 1 0.00
596 371 0.58
597 176 0.28
598 6 0.01
599 83 0.13
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (599 bp):
GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
GGTAAATTAGCAATGTAACCGGTCTAAATATACCAATTTTTGAGAAAACAAGTGTACAAAAAATA
TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATATATCTTCAAAACCAAGTGCACA
AAAAAATGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATG
TAATAGGTAAATTAACAATGTAACCAATCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAA
AAGTATCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAAAATGTATTTCAAAACCAAGTG
CACTAAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTAT
AATGTAAGAGGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTATGAGAAAACATGTATA
CAAAAAGTATCGACACAAATCAAACAAGTGTCGATACTTATGGTCCAGAATGTATTTTAAAACCA
AGTGCAGCAAAAAA
Found at i:1725006 original size:15 final size:15
Alignment explanation
Indices: 1724986--1725043 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
1724976 TTTCTCAAAT
*
1724986 CTCTTCTTAACCCAC
1 CTCTTCTCAACCCAC
* *
1725001 CTCTTCCCAACCCAT
1 CTCTTCTCAACCCAC
1725016 CTCTTCTCAACCACAAC
1 CTCTTCTCAACC-C-AC
1725033 CTCATTCTCAA
1 CTC-TTCTCAA
1725044 ACAATCGCCC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 23 0.66
16 1 0.03
17 4 0.11
18 7 0.20
ACGTcount: A:0.24, C:0.47, G:0.00, T:0.29
Consensus pattern (15 bp):
CTCTTCTCAACCCAC
Found at i:1727623 original size:24 final size:24
Alignment explanation
Indices: 1727572--1727624 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
1727562 TTTCATTTAT
* * *
1727572 AATTAGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATGTA
1727596 AATTTGAGTTTGAATTTAAATGTA
1 AATTTGAGTTTGAATTTAAATGTA
1727620 AATTT
1 AATTT
1727625 CGGCTCCACT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.02, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATGTA
Found at i:1728141 original size:200 final size:198
Alignment explanation
Indices: 1727797--1728763 Score: 1326
Period size: 200 Copynumber: 4.8 Consensus size: 198
1727787 TTATTCATTC
* *
1727797 GTGTCGATACATGTTGTCCATAATGTA-TTTCCAAACCAAGTGCACGAAAAAAAGTGTCGATACA
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCAC---AAAAAGTGTCGATACA
* * *
1727861 TTTATAACAAGTGTCAATACTAAAAACATCGAAACACATAGATATAATGTAATAGGTAAAATAAC
63 TTTATAACAAGTGTCGATCCCAAAAACATCGAAACACATA-ATATAATGTAATAGGTAAAATAAC
* * *
1727926 AATGTAACCGGCCTAAATATATCGGTTTTTGAGAAAACATGTATACATAAAGTATCGACACAAAC
127 AATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTATACATAAAGTATCGACACAAAT
1727991 CCAACAA
192 CCAACAA
1727998 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGAAAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCAC-AAAAAGTGTCGATACATT
* ***
1728063 TATAACAAGTTTCGATAATAAAAACATCGAAACACATAGATATAATGTAATAGGTAAAATAACAA
65 TATAACAAGTGTCGATCCCAAAAACATCGAAACACATA-ATATAATGTAATAGGTAAAATAACAA
* * *
1728128 TGGAACCGGCCTAAATATACCAGTTTTTGAGAAAACATGTATACATAAAGTATCGACACAAATCC
129 TGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTATACATAAAGTATCGACACAAATCC
1728193 AACAA
194 AACAA
* * * * **
1728198 GTGTCAATACTTTTTGTCCAGAGTGTCTTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACAA-AAAGTGTCGATACATT
* *
1728263 TATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATATAATAGGTAAAATAACAA
65 TATAACAAGTGTCGATCCCAAAAACATCGAAACACATAA-TATAATGTAATAGGTAAAATAACAA
** * * * *
1728328 TGTAACCGGTCTAAATATAATGGTTTATGAGAAAATAGGTATACATAAAATATCGACACAAATCC
129 TGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTATACATAAAGTATCGACACAAATCC
1728393 AACAA
194 AACAA
* * **
1728398 GTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACAA-AAAGTGTCGATACATT
*
1728463 TATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAAAATAACAA
65 TATAACAAGTGTCGATCCCAAAAACATCGAAACACATAA-TATAATGTAATAGGTAAAATAACAA
* * * * *
1728528 TGTAAGCGGTCTAAATATACCAGTTTATGAGAAAACAAGTATACTTAAAGTATCGACACAAATCC
129 TGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTATACATAAAGTATCGACACAAATCC
*
1728593 AATAA
194 AACAA
* * *
1728598 GTGTCGATACTTTTTGTCCATATTGTATTTTCCAAATCTAGTGCACAAAAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCAC-AAAAAGTGTCGATACATT
* * * * ** *
1728663 TATAACATGTGTCGATCCCAAATACATCGAAACCTACA-ATTATAATGTAATAGGTCACTTTACA
65 TATAACAAGTGTCGATCCCAAAAACATCGAAA-C-ACATAATATAATGTAATAGGTAAAATAACA
* *
1728727 ATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAA
128 ATGTAACCGGTCTAAATATACCGGTTTT-TGAGAAAA
1728764 TAGGTCTAAG
Statistics
Matches: 697, Mismatches: 62, Indels: 14
0.90 0.08 0.02
Matches are distributed among these distances:
199 3 0.00
200 637 0.91
201 37 0.05
202 20 0.03
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (198 bp):
GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACAAAAAGTGTCGATACATTT
ATAACAAGTGTCGATCCCAAAAACATCGAAACACATAATATAATGTAATAGGTAAAATAACAATG
TAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTATACATAAAGTATCGACACAAATCCAA
CAA
Found at i:1728886 original size:201 final size:197
Alignment explanation
Indices: 1728447--1729214 Score: 682
Period size: 201 Copynumber: 3.8 Consensus size: 197
1728437 AGTGCACAAC
* * * * * * * * *
1728447 AAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTA
1 AAAGTTTCAATACATTTATAAAAAGTATCGACCCCAAATACATCGAGACCTAAAATTATAATGTA
* ** * * * * * * * * *
1728512 ATAGGTAAAATAACAATGTAAGCGGTCTAAATATACCAG-TTTATGAGAAAACAAGTATACTTAA
66 ATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTA-ATAA
* ** ** ** * * * * *
1728576 AGTATCGACACAAATCCAATAAGTGTCGATACTTTTTGTCCATATTGTATTTTCCAAATCTA-GT
130 TGTATCGACAC-TTTTTAATTTGTGTCGATACTTTTTATCCATAATG-A-ATCCCAAA-CGATGT
* **
1728640 GCACAAA
191 CCACGCA
* * * * * * * *
1728647 AAAGTGTCGATACATTTATAACATGTGTCGATCCCAAATACATCGAAACCTACAATTATAATGTA
1 AAAGTTTCAATACATTTATAAAAAGTATCGACCCCAAATACATCGAGACCTAAAATTATAATGTA
1728712 ATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTAAGTAA
66 ATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTAA-TAA
* * * *
1728777 TGTATCGACACTTTATTTATTTGTGTCGATACTTTTTATCCATGATGAATTCCCAAACTATGTGC
130 TGTATCGACACTTT-TTAATTTGTGTCGATACTTTTTATCCATAATGAA-TCCCAAACGATGTCC
*
1728842 ACGCTT
193 ACGC-A
* * * * *
1728848 AAAGTGTT-GATATATTTATTAAAATTAAT-GACCCCAAATACATCGAGACCAAAAATTATAATG
1 AAAGT-TTCAATACATTTATAAAAAGT-ATCGACCCCAAATACATCGAGACCTAAAATTATAATG
*
1728911 TAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGCAAATAGGTCTACAT
64 TAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTA-AT
* * * * * * * * * *
1728976 AATATATCGATACTTTGTACATTTATGTTGATACTTTATGTCCGTAATGAATGCCAACCGATGTC
128 AATGTATCGACACTTTTTA-ATTTGTGTCGATACTTTTTATCCATAATGAATCCCAAACGATGTC
1729041 CACGCA
192 CACGCA
1729047 AAAGTTTCAATACATTTATAAAAAGTATCGACCCCAAATACATCGAGACCTAAAATTATAATGTA
1 AAAGTTTCAATACATTTATAAAAAGTATCGACCCCAAATACATCGAGACCTAAAATTATAATGTA
* * * ** *
1729112 ATAGGTCAATTTACAATGTAACAGGTTGAAATTTACCGGTGTAAAT-AGAAAATAGGTCAACATA
66 ATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGT-TTTATGAGAAAATAGGTCTA-ATA
* * * *
1729176 ATGTGTCAACACTTTTTAAATTCGTGTCGACACTTTTTA
129 ATGTATCGACACTTTTT-AATTTGTGTCGATACTTTTTA
1729215 AAATTATGCG
Statistics
Matches: 472, Mismatches: 82, Indels: 29
0.81 0.14 0.05
Matches are distributed among these distances:
198 4 0.01
199 136 0.29
200 126 0.27
201 203 0.43
202 3 0.01
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.32
Consensus pattern (197 bp):
AAAGTTTCAATACATTTATAAAAAGTATCGACCCCAAATACATCGAGACCTAAAATTATAATGTA
ATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTAATAAT
GTATCGACACTTTTTAATTTGTGTCGATACTTTTTATCCATAATGAATCCCAAACGATGTCCACG
CA
Found at i:1729062 original size:600 final size:598
Alignment explanation
Indices: 1727845--1729133 Score: 1373
Period size: 600 Copynumber: 2.1 Consensus size: 598
1727835 AGTGCACGAA
* * * *
1727845 AAAAAGTGTCGATACATTTATAACAAGTGTCAATACTAAAAACATCGAAACACATAGA-TATAAT
1 AAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATA-ATTATAAT
* * * *
1727909 GTAATAGGTAAAATAACAATGTAACCGGCCTAAATATATCGGTTTTTGAGAAAACATGTATACAT
65 GTAATAGGTAAAATAACAATGTAACCGGCCTAAATATACCAGTTTATGAGAAAACAAGTATACAT
1727974 AAAGTATCGACACAAACCCAACAAGTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAG
130 AAAGTATCGACACAAACCCAACAAGTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAG
* * *
1728039 TGCACGAAAAAGTGTCGATACATTTATAACAAGTTTCGATAATAAAAACATCGAAACACATAGAT
195 TGCACAAAAAAGTGTCGATACATTTATAACAAGTGTCGATAACAAAAACATCGAAACACATAGAT
*
1728104 ATAATGTAATAGGTAAAATAACAATGGAACCGGCCTAAATATACCAGTTTTTGAGAAAACATGTA
260 ATAATGTAATAGGTAAAATAACAATGGAACCGGCCTAAATATACCAGTTTTTGAGAAAACAGGTA
* ** *
1728169 TACATAAAGTATCGACACAAATCCAACAAGTGTCAATACTTTTTGTCCAGAGTGTCTTTTAAAAA
325 TACATAAAGTATCGACACAAATCCAACAAGTGTCAATACTTTTTATCCAGAGTGTAATTCAAAAA
* * *
1728234 CCAAGTGCACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCA
390 CCAAGTGCACAACAAAGTGTCGATACATTTATAACAAGTATCGACCCCAAAAACATCGAAACCAA
* *
1728299 TAATTATAATATAATAGGTAAAATAACAATGTAACCGGTCTAAATATAATGGTTTATGAGAAAAT
455 AAATTATAATATAATAGGTAAAATAACAATGTAACCGGTCTAAATATAACGGTTTATGAGAAAAT
* * * *
1728364 AGGTATACATAAAATATCGACACAAATCCAACAAGTGTCGATACTTTTTGTCCAGAGTGTATTTT
520 AGGTATACATAAAATATCGACACAAATACAACAAGTGTCGATACTTTATGTCCAGAATGTA-TAT
*
1728429 AAAAACCAAGTGCAC
584 AAAAACCAAGTCCAC
1728444 AACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAAT
1 AA-AAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAAT
* * *
1728509 GTAATAGGTAAAATAACAATGTAAGCGGTCTAAATATACCAGTTTATGAGAAAACAAGTATACTT
65 GTAATAGGTAAAATAACAATGTAACCGGCCTAAATATACCAGTTTATGAGAAAACAAGTATACAT
* * * * *
1728574 AAAGTATCGACACAAATCCAATAAGTGTCGATACTTTTTGTCCATATTGTATTTTCCAAATCTAG
130 AAAGTATCGACACAAACCCAACAAGTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAG
* ** *
1728639 TGCACAAAAAAGTGTCGATACATTTATAACATGTGTCGATCCCAAATACATCGAAACCTACA-A-
195 TGCACAAAAAAGTGTCGATACATTTATAACAAGTGTCGATAACAAAAACATCGAAA-C-ACATAG
* * ** * * ** * * *
1728702 TTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAG
258 ATATAATGTAATAGGTAAAATAACAATGGAACCGGCCTAAATATACCAGTTTT-TGAGAAAACAG
* * ** ** *** *
1728767 GTCTA-AGTAATGTATCGACACTTTAT-TTATTTGTGTCGATACTTTTTATCCATGA-TG-AATT
322 GTATACA-TAAAGTATCGACAC-AAATCCAACAAGTGTCAATACTTTTTATCCA-GAGTGTAATT
** * * * * * * *
1728828 CCCAAACTATGTGCAC-GCTTAAAGTGTTGATATATTTATTAA-AATTAAT-GACCCCAAATACA
384 CAAAAACCAAGTGCACAAC--AAAGTGTCGATACATTTA-TAACAAGT-ATCGACCCCAAAAACA
* * * ** * * * *
1728890 TCGAGACCAAAAATTATAATGTAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTT
445 TCGAAACCAAAAATTATAATATAATAGGTAAAATAACAATGTAACCGGTCTAAATATAACGG-TT
* * * * *** *** *
1728955 TATGAGCAAATAGGTCTACATAATATATCGATACTTTGTACATTTA-TGTTGATACTTTATGTCC
509 TATGAGAAAATAGGTATACATAAAATATCGACAC-AAATACAACAAGTGTCGATACTTTATGTCC
*** *
1729019 -GTAATG-A-ATGCCAACCGATGTCCAC
573 AG-AATGTATATAAAAACC-AAGTCCAC
* * * * * * * * * *
1729044 GCAAAAGTTTCAATACATTTATAAAAAGTATCGACCCCAAATACATCGAGACCTAAAATTATAAT
1 -AAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAAT
* * *
1729109 GTAATAGGTCAATTTACAATGTAAC
65 GTAATAGGTAAAATAACAATGTAAC
1729134 AGGTTGAAAT
Statistics
Matches: 567, Mismatches: 106, Indels: 33
0.80 0.15 0.05
Matches are distributed among these distances:
599 9 0.02
600 360 0.63
601 132 0.23
602 62 0.11
603 4 0.01
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (598 bp):
AAAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATG
TAATAGGTAAAATAACAATGTAACCGGCCTAAATATACCAGTTTATGAGAAAACAAGTATACATA
AAGTATCGACACAAACCCAACAAGTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGT
GCACAAAAAAGTGTCGATACATTTATAACAAGTGTCGATAACAAAAACATCGAAACACATAGATA
TAATGTAATAGGTAAAATAACAATGGAACCGGCCTAAATATACCAGTTTTTGAGAAAACAGGTAT
ACATAAAGTATCGACACAAATCCAACAAGTGTCAATACTTTTTATCCAGAGTGTAATTCAAAAAC
CAAGTGCACAACAAAGTGTCGATACATTTATAACAAGTATCGACCCCAAAAACATCGAAACCAAA
AATTATAATATAATAGGTAAAATAACAATGTAACCGGTCTAAATATAACGGTTTATGAGAAAATA
GGTATACATAAAATATCGACACAAATACAACAAGTGTCGATACTTTATGTCCAGAATGTATATAA
AAACCAAGTCCAC
Found at i:1729167 original size:199 final size:201
Alignment explanation
Indices: 1728247--1729177 Score: 704
Period size: 200 Copynumber: 4.7 Consensus size: 201
1728237 AGTGCACAAC
* * * * * * * * *
1728247 AAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATATA
1 AAAGTTTCGATACATTTATAAAAAGTATCGACCCCAAATACATCGAGACCTAAAATTATAATGTA
* ** * * * ** *
1728312 ATAGGTAAAATAACAATGTAACCGGTCTAAATATAATGG-TTTATGAGAAAATAGGTATACATAA
66 ATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACATAA
* ** * *** * * * * * *** * *
1728376 AATATCGACAC-AAATCCAACAAGTGTCGATACTTTTTGTCCAGAGTGTATTTTAAAAACCAAGT
131 TATATCGACACTTTATACATTTA-TGTCGATACTTTATATCCATAATG-AATTCCCAAACGATGT
* *
1728440 GCA--CAA
194 CCACGCTA
* * * * * * * *
1728446 CAAAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGT
1 -AAAGTTTCGATACATTTATAAAAAGTATCGACCCCAAATACATCGAGACCTAAAATTATAATGT
* ** * * * * * * * * *
1728511 AATAGGTAAAATAACAATGTAAGCGGTCTAAATATACCAG-TTTATGAGAAAACAAGTATACTTA
65 AATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACATA
** * * * * * * * * *
1728575 A-AGTATCGACAC-AAATCCAATAAGTGTCGATACTTTTTGTCCATATTGTATTTTCCAAATCTA
130 ATA-TATCGACACTTTATACATTTA-TGTCGATACTTTATATCCATAATG-AATTCCCAAA-CGA
* **
1728638 -GTGCAC-AAA
191 TGTCCACGCTA
* * * * * * *
1728647 AAAGTGTCGATACATTTATAACATGTGTCGATCCCAAATACATCGAAACCTACAATTATAATGTA
1 AAAGTTTCGATACATTTATAAAAAGTATCGACCCCAAATACATCGAGACCTAAAATTATAATGTA
1728712 ATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTA-AGTA
66 ATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACA-TA
* ** * * * * *
1728776 ATGTATCGACACTTTATTTATTTGTGTCGATACTTTTTATCCATGATGAATTCCCAAACTATGTG
130 ATATATCGACACTTTATACATTTATGTCGATACTTTATATCCATAATGAATTCCCAAACGATGTC
*
1728841 CACGCTT
195 CACGCTA
* * * *
1728848 AAAGTGTT-GATATATTTATTAAAATTAAT-GACCCCAAATACATCGAGACCAAAAATTATAATG
1 AAAGT-TTCGATACATTTATAAAAAGT-ATCGACCCCAAATACATCGAGACCTAAAATTATAATG
*
1728911 TAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGCAAATAGGTCTACAT
64 TAATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACAT
* * * * * * *
1728976 AATATATCGATACTTTGTACATTTATGTTGATACTTTATGTCCGTAATGAA-TGCCAACCGATGT
129 AATATATCGACACTTTATACATTTATGTCGATACTTTATATCCATAATGAATTCCCAAACGATGT
1729040 CCACGC-A
194 CCACGCTA
*
1729047 AAAGTTTCAATACATTTATAAAAAGTATCGACCCCAAATACATCGAGACCTAAAATTATAATGTA
1 AAAGTTTCGATACATTTATAAAAAGTATCGACCCCAAATACATCGAGACCTAAAATTATAATGTA
* * * ** *
1729112 ATAGGTCAATTTACAATGTAACAGGTTGAAATTTACCGGTGTAAAT-AGAAAATAGGTCAACATA
66 ATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGT-TTTATGAGAAAATAGGTCTACATA
1729176 AT
130 AT
1729178 GTGTCAACAC
Statistics
Matches: 629, Mismatches: 87, Indels: 31
0.84 0.12 0.04
Matches are distributed among these distances:
198 4 0.01
199 113 0.18
200 301 0.48
201 204 0.32
202 7 0.01
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (201 bp):
AAAGTTTCGATACATTTATAAAAAGTATCGACCCCAAATACATCGAGACCTAAAATTATAATGTA
ATAGGTCACTTTACAATGTAACCGGTTTAAATTTACCGGTTTTATGAGAAAATAGGTCTACATAA
TATATCGACACTTTATACATTTATGTCGATACTTTATATCCATAATGAATTCCCAAACGATGTCC
ACGCTA
Found at i:1733377 original size:23 final size:23
Alignment explanation
Indices: 1733327--1733371 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1733317 TGCATATTTT
*
1733327 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
* *
1733350 ATTATATAAGTGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
1733372 TGTTATTGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:1733389 original size:87 final size:86
Alignment explanation
Indices: 1733243--1733409 Score: 289
Period size: 87 Copynumber: 1.9 Consensus size: 86
1733233 AAATAGGTCA
1733243 ATATAAGCGCTACATATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACATATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1733308 CCGGTTAAATGCATATTTTATT
66 CCGGTTAAATG-ATATTTTATT
* * * *
1733330 ATATAAGCGCTACCTATTACATTATATAAGTGTTACCTAATATGTTATTGTGCTTGATAATATTT
1 ATATAAGCGCTACATATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1733395 CCGGTTAAATGATAT
66 CCGGTTAAATGATAT
1733410 AACATAACCG
Statistics
Matches: 76, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
86 4 0.05
87 72 0.95
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (86 bp):
ATATAAGCGCTACATATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATGATATTTTATT
Found at i:1734225 original size:40 final size:40
Alignment explanation
Indices: 1734134--1734389 Score: 288
Period size: 40 Copynumber: 6.4 Consensus size: 40
1734124 AAATGACCAA
* * * **
1734134 CAAATTCGCAACGCGA-ACTCCAATTTCGCAACCCAG-TTT
1 CAAATTCGCAACGCGATAGT-CAAATTCGCAACACAGAAGT
* * *
1734173 CCAATTTCGCAACGTGAATATGT-AAA-TCGCAACATAGAAGT
1 -CAAATTCGCAACGCG-ATA-GTCAAATTCGCAACACAGAAGT
* *
1734214 CAAATTTGCAACGCGATAGTCAAATTCGCAACACAAAAGT
1 CAAATTCGCAACGCGATAGTCAAATTCGCAACACAGAAGT
* *
1734254 CAAATTCGTAACACGATAGTCAAATTCGCAACACAGAAGT
1 CAAATTCGCAACGCGATAGTCAAATTCGCAACACAGAAGT
* *
1734294 CAAATTCGCAACGCGATAGTCAAATTCGCAAAACAAAAGT
1 CAAATTCGCAACGCGATAGTCAAATTCGCAACACAGAAGT
* *
1734334 CAAATTCACAACGCGATAGTCAAATTCGCAACGC-GAAAGT
1 CAAATTCGCAACGCGATAGTCAAATTCGCAACACAG-AAGT
1734374 CAAATTCGCAACGCGA
1 CAAATTCGCAACGCGA
1734390 AATACAATAT
Statistics
Matches: 183, Mismatches: 26, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
38 2 0.01
39 6 0.03
40 169 0.92
41 4 0.02
42 1 0.01
43 1 0.01
ACGTcount: A:0.40, C:0.25, G:0.16, T:0.20
Consensus pattern (40 bp):
CAAATTCGCAACGCGATAGTCAAATTCGCAACACAGAAGT
Found at i:1734386 original size:20 final size:20
Alignment explanation
Indices: 1734210--1734391 Score: 222
Period size: 20 Copynumber: 9.1 Consensus size: 20
1734200 CGCAACATAG
*
1734210 AAGTCAAATTTGCAACGCGA
1 AAGTCAAATTCGCAACGCGA
* * *
1734230 TAGTCAAATTCGCAACACAA
1 AAGTCAAATTCGCAACGCGA
* *
1734250 AAGTCAAATTCGTAACACGA
1 AAGTCAAATTCGCAACGCGA
* *
1734270 TAGTCAAATTCGCAACAC-A
1 AAGTCAAATTCGCAACGCGA
1734289 GAAGTCAAATTCGCAACGCGA
1 -AAGTCAAATTCGCAACGCGA
* ** *
1734310 TAGTCAAATTCGCAAAACAA
1 AAGTCAAATTCGCAACGCGA
*
1734330 AAGTCAAATTCACAACGCGA
1 AAGTCAAATTCGCAACGCGA
*
1734350 TAGTCAAATTCGCAACGCGA
1 AAGTCAAATTCGCAACGCGA
1734370 AAGTCAAATTCGCAACGCGA
1 AAGTCAAATTCGCAACGCGA
1734390 AA
1 AA
1734392 TACAATATTA
Statistics
Matches: 137, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
19 1 0.01
20 135 0.99
21 1 0.01
ACGTcount: A:0.43, C:0.23, G:0.16, T:0.18
Consensus pattern (20 bp):
AAGTCAAATTCGCAACGCGA
Found at i:1734514 original size:22 final size:22
Alignment explanation
Indices: 1734489--1734536 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
1734479 ATCTCTCACT
* * *
1734489 ATCTACGGCGACATCCGTCCCC
1 ATCTACGACGAAATCCATCCCC
*
1734511 ATCTCCGACGAAATCCATCCCC
1 ATCTACGACGAAATCCATCCCC
1734533 ATCT
1 ATCT
1734537 CCGGGGAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.44, G:0.12, T:0.21
Consensus pattern (22 bp):
ATCTACGACGAAATCCATCCCC
Found at i:1736902 original size:21 final size:22
Alignment explanation
Indices: 1736870--1736968 Score: 107
Period size: 21 Copynumber: 4.7 Consensus size: 22
1736860 GATGTACCTA
* *
1736870 TCATCATTCAAGAGGCGCCTCC
1 TCATCGTTCAAGAGGCCCCTCC
*
1736892 T-ATCGTTCAAGAGGCCTCT-C
1 TCATCGTTCAAGAGGCCCCTCC
* * *
1736912 TCATCATTGAAGAAGCCCCTCC
1 TCATCGTTCAAGAGGCCCCTCC
*
1736934 -CACCGTTCAAGAGGCCCCT-C
1 TCATCGTTCAAGAGGCCCCTCC
1736954 TCATCGTTCAAGAGG
1 TCATCGTTCAAGAGG
1736969 TCCCGCCCGC
Statistics
Matches: 62, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
20 3 0.05
21 57 0.92
22 2 0.03
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (22 bp):
TCATCGTTCAAGAGGCCCCTCC
Found at i:1736933 original size:42 final size:42
Alignment explanation
Indices: 1736870--1736966 Score: 131
Period size: 42 Copynumber: 2.3 Consensus size: 42
1736860 GATGTACCTA
* * * * *
1736870 TCATCATTCAAGAGGCGCCTCCTATCGTTCAAGAGGCCTCTC
1 TCATCATTCAAGAAGCCCCTCCCACCGTTCAAGAGGCCCCTC
*
1736912 TCATCATTGAAGAAGCCCCTCCCACCGTTCAAGAGGCCCCTC
1 TCATCATTCAAGAAGCCCCTCCCACCGTTCAAGAGGCCCCTC
*
1736954 TCATCGTTCAAGA
1 TCATCATTCAAGA
1736967 GGTCCCGCCC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.24, C:0.35, G:0.18, T:0.24
Consensus pattern (42 bp):
TCATCATTCAAGAAGCCCCTCCCACCGTTCAAGAGGCCCCTC
Found at i:1738229 original size:24 final size:24
Alignment explanation
Indices: 1738197--1738249 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
1738187 ATTTGATGTT
1738197 TGTTGGTTTTAGATGTGTAGAAAG
1 TGTTGGTTTTAGATGTGTAGAAAG
1738221 TGTTGGTTTTAGATGTGTAGAAAG
1 TGTTGGTTTTAGATGTGTAGAAAG
1738245 TGTTG
1 TGTTG
1738250 TTTGAGCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.23, C:0.00, G:0.34, T:0.43
Consensus pattern (24 bp):
TGTTGGTTTTAGATGTGTAGAAAG
Found at i:1738422 original size:69 final size:67
Alignment explanation
Indices: 1738341--1738513 Score: 230
Period size: 66 Copynumber: 2.6 Consensus size: 67
1738331 TGGGGTACAC
1738341 TTTTTTTGCTTGTTTAATTGAATTT-TACATTGAAAGTTGATTTGTTTAA-TTGATGAGGAAATA
1 TTTTTTTGCTTGTTTAATTGAATTTGT--A---AAAGTTGATTTGTTTAATTTGATGAGGAAATA
1738404 AGAAATA
61 AGAAATA
* * *
1738411 -TTTTTTGCTTGTTTAATTG-ATTTGTAAAAGTTGATTTGTTTAATTTGATGTGTAAATAAGAAT
1 TTTTTTTGCTTGTTTAATTGAATTTGTAAAAGTTGATTTGTTTAATTTGATGAGGAAATAAGAAA
1738474 TA
66 TA
*
1738476 TTTTTTTGCTTATTTAATT-AATTTGTAAAAGTTGATTT
1 TTTTTTTGCTTGTTTAATTGAATTTGTAAAAGTTGATTT
1738514 ATTGTTTTAA
Statistics
Matches: 95, Mismatches: 4, Indels: 12
0.86 0.04 0.11
Matches are distributed among these distances:
64 17 0.18
65 18 0.19
66 35 0.37
67 1 0.01
68 4 0.04
69 20 0.21
ACGTcount: A:0.30, C:0.02, G:0.16, T:0.52
Consensus pattern (67 bp):
TTTTTTTGCTTGTTTAATTGAATTTGTAAAAGTTGATTTGTTTAATTTGATGAGGAAATAAGAAA
TA
Found at i:1738590 original size:20 final size:20
Alignment explanation
Indices: 1738565--1738605 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1738555 GACTTGTTGC
1738565 AGGTAAATTCGCAACGCGAA
1 AGGTAAATTCGCAACGCGAA
1738585 AGGTAAATTCGCAACGCGAA
1 AGGTAAATTCGCAACGCGAA
1738605 A
1 A
1738606 TAAGCGTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.20, G:0.24, T:0.15
Consensus pattern (20 bp):
AGGTAAATTCGCAACGCGAA
Found at i:1738697 original size:20 final size:19
Alignment explanation
Indices: 1738672--1738722 Score: 84
Period size: 20 Copynumber: 2.6 Consensus size: 19
1738662 CGGTTTACAA
1738672 TTTCGCGTTGAGAATTTGAC
1 TTTCGCGTTGA-AATTTGAC
1738692 TTTCGCGTTGCAAATTTGAC
1 TTTCGCGTTG-AAATTTGAC
1738712 TTTCGCGTTGA
1 TTTCGCGTTGA
1738723 TCGCAACATA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.41
Consensus pattern (19 bp):
TTTCGCGTTGAAATTTGAC
Found at i:1738997 original size:14 final size:14
Alignment explanation
Indices: 1738978--1739004 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1738968 TGAAAAATTA
1738978 TATATAAATAAAAT
1 TATATAAATAAAAT
1738992 TATATAAATAAAA
1 TATATAAATAAAA
1739005 ATGCCTTCCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TATATAAATAAAAT
Found at i:1739696 original size:18 final size:18
Alignment explanation
Indices: 1739673--1739709 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1739663 CGAAATTTAT
1739673 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
1739691 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
1739709 A
1 A
1739710 CTTCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:1740119 original size:25 final size:25
Alignment explanation
Indices: 1740091--1740140 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
1740081 CATTATTTTC
*
1740091 CAAATAATGTACCCATAACAATGTT
1 CAAATAATGTACCCACAACAATGTT
*
1740116 CAAATAATGTACCCACAATAATGTT
1 CAAATAATGTACCCACAACAATGTT
1740141 TAATTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.44, C:0.20, G:0.08, T:0.28
Consensus pattern (25 bp):
CAAATAATGTACCCACAACAATGTT
Found at i:1740135 original size:14 final size:13
Alignment explanation
Indices: 1740090--1740139 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
1740080 ACATTATTTT
1740090 CCAAATAATGTAC
1 CCAAATAATGTAC
*
1740103 CCATAACAATGT--
1 CCA-AATAATGTAC
*
1740115 TCAAATAATGTAC
1 CCAAATAATGTAC
1740128 CCACAATAATGT
1 CCA-AATAATGT
1740140 TTAATTGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
11 7 0.24
12 2 0.07
13 5 0.17
14 15 0.52
ACGTcount: A:0.44, C:0.22, G:0.08, T:0.26
Consensus pattern (13 bp):
CCAAATAATGTAC
Found at i:1740271 original size:20 final size:20
Alignment explanation
Indices: 1740243--1740291 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
1740233 CGCGTTGCGA
* *
1740243 TTTCGCGTTGTGAATTTTAC
1 TTTCGCGTTGCGAATTTGAC
*
1740263 TTTCACGTTGCGAATTTGAC
1 TTTCGCGTTGCGAATTTGAC
1740283 TTTCGCGTT
1 TTTCGCGTT
1740292 AATCGCAACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.14, C:0.18, G:0.20, T:0.47
Consensus pattern (20 bp):
TTTCGCGTTGCGAATTTGAC
Found at i:1742876 original size:24 final size:24
Alignment explanation
Indices: 1742842--1742895 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1742832 CCATCACATC
1742842 ATCAAAATCTGAGTATTGACCAAG
1 ATCAAAATCTGAGTATTGACCAAG
* *
1742866 ATCAAAGTCTGGGTATTGACCAAG
1 ATCAAAATCTGAGTATTGACCAAG
1742890 ATCAAA
1 ATCAAA
1742896 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.24
Consensus pattern (24 bp):
ATCAAAATCTGAGTATTGACCAAG
Found at i:1743759 original size:20 final size:19
Alignment explanation
Indices: 1743724--1743778 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
1743714 CTAAAACCTA
*
1743724 TTGCGAAATT-AAATTCATG
1 TTGCGAATTTGAAATTCA-G
1743743 TTGCGAATTTGAAATTCAG
1 TTGCGAATTTGAAATTCAG
*
1743762 TTGAGAATTTGAAATTC
1 TTGCGAATTTGAAATTC
1743779 CGCGTTGCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 26 0.79
20 7 0.21
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (19 bp):
TTGCGAATTTGAAATTCAG
Found at i:1743791 original size:21 final size:19
Alignment explanation
Indices: 1743734--1743794 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
1743724 TTGCGAAATT
*
1743734 AAATTCATGTTGCGAATTTG
1 AAATTCA-GTTGCAAATTTG
1743754 AAATTCAGTTG-AGAATTTG
1 AAATTCAGTTGCA-AATTTG
*
1743773 AAATTCCGCGTTGCAAATTTG
1 AAATT-C-AGTTGCAAATTTG
1743794 A
1 A
1743795 CTTTTGTGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
19 15 0.43
20 8 0.23
21 11 0.31
22 1 0.03
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.36
Consensus pattern (19 bp):
AAATTCAGTTGCAAATTTG
Found at i:1743811 original size:20 final size:20
Alignment explanation
Indices: 1743782--1743868 Score: 122
Period size: 20 Copynumber: 4.3 Consensus size: 20
1743772 GAAATTCCGC
* *
1743782 GTTGCAAATTTGACTTTTGT
1 GTTGCGAATTTGACTTCTGT
*
1743802 GTTGGGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTCTGT
*
1743822 GTTGCGAATTTGACTATC-GC
1 GTTGCGAATTTGACT-TCTGT
1743842 GTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTTCTGT
1743862 GTTGCGA
1 GTTGCGA
1743869 TTTACAGATT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
19 2 0.03
20 55 0.93
21 2 0.03
ACGTcount: A:0.17, C:0.14, G:0.26, T:0.43
Consensus pattern (20 bp):
GTTGCGAATTTGACTTCTGT
Found at i:1743811 original size:60 final size:59
Alignment explanation
Indices: 1743741--1743868 Score: 143
Period size: 60 Copynumber: 2.1 Consensus size: 59
1743731 ATTAAATTCA
*
1743741 TGTTGCGAATTTGAAATTC-AGTTGAGAATTTGAA-ATTCCGCGTTGCAAATTTGACTTTTG
1 TGTTGCGAATTTG-AATTCGAGTTGAGAATTTGAATA-T-CGCGTTGCAAATTTGACTTCTG
* * * * * *
1743801 TGTTGGGAATTTGACTTCTGTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTG
1 TGTTGCGAATTTGAATTC-GAGTTGAGAATTTGAATATCGCGTTGCAAATTTGACTTCTG
1743861 TGTTGCGA
1 TGTTGCGA
1743869 TTTACAGATT
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
59 4 0.07
60 39 0.68
61 13 0.23
62 1 0.02
ACGTcount: A:0.21, C:0.13, G:0.25, T:0.41
Consensus pattern (59 bp):
TGTTGCGAATTTGAATTCGAGTTGAGAATTTGAATATCGCGTTGCAAATTTGACTTCTG
Found at i:1743867 original size:40 final size:40
Alignment explanation
Indices: 1743782--1743889 Score: 130
Period size: 40 Copynumber: 2.7 Consensus size: 40
1743772 GAAATTCCGC
* * * * *
1743782 GTTGCAAATTTGACTTTTGTGTTGGGAATTTGACTTCTGT
1 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGT
1743822 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGT
1 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGT
*
1743862 GTTGCG-ATTT-ACAGATTCGCGTTGCGAA
1 GTTGCGAATTTGAC-TA-TCGCGTTGCGAA
1743890 ACTGGAAACT
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
38 2 0.03
39 5 0.08
40 53 0.88
ACGTcount: A:0.19, C:0.15, G:0.26, T:0.41
Consensus pattern (40 bp):
GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGT
Found at i:1743925 original size:20 final size:19
Alignment explanation
Indices: 1743902--1743950 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
1743892 TGGAAACTGA
*
1743902 GTTGCGAAATTGGAGTTCGC
1 GTTGCG-AATTGGAGATCGC
*
1743922 GTTGCGAATTTGAGATCGC
1 GTTGCGAATTGGAGATCGC
*
1743941 GTTGTGAATT
1 GTTGCGAATT
1743951 TGTTGGTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.20, C:0.12, G:0.33, T:0.35
Consensus pattern (19 bp):
GTTGCGAATTGGAGATCGC
Found at i:1745287 original size:24 final size:24
Alignment explanation
Indices: 1745255--1745305 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
1745245 ACCGATTGAA
1745255 CACTCCTAGGATAGGTGTACAGCC
1 CACTCCTAGGATAGGTGTACAGCC
1745279 CACTCCTAGGATAGGTGTACAGCC
1 CACTCCTAGGATAGGTGTACAGCC
1745303 CAC
1 CAC
1745306 GACAATGGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.20
Consensus pattern (24 bp):
CACTCCTAGGATAGGTGTACAGCC
Found at i:1749218 original size:17 final size:17
Alignment explanation
Indices: 1749196--1749241 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
1749186 TTTGCGTTGT
*
1749196 ATTTTTTTTAATTTTAA
1 ATTTTTTATAATTTTAA
1749213 ATTTTTATATAA-TTTAA
1 ATTTTT-TATAATTTTAA
*
1749230 ATATTTTATAAT
1 ATTTTTTATAAT
1749242 GATGAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 5 0.20
17 16 0.64
18 4 0.16
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
ATTTTTTATAATTTTAA
Found at i:1749392 original size:14 final size:14
Alignment explanation
Indices: 1749373--1749399 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1749363 CACAGGTTCT
1749373 TCTTAGCTAAGCCA
1 TCTTAGCTAAGCCA
1749387 TCTTAGCTAAGCC
1 TCTTAGCTAAGCC
1749400 GTCCGCAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.30
Consensus pattern (14 bp):
TCTTAGCTAAGCCA
Found at i:1757529 original size:31 final size:31
Alignment explanation
Indices: 1757493--1757555 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
1757483 GTATTTAATT
* *
1757493 GGCTCATTAGATCATCCAGAATTTTATTTAG
1 GGCTCATTAGATCACCCAAAATTTTATTTAG
1757524 GGCTCATTAGATCACCCAAAATTTTATTTAG
1 GGCTCATTAGATCACCCAAAATTTTATTTAG
1757555 G
1 G
1757556 ATCTACTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (31 bp):
GGCTCATTAGATCACCCAAAATTTTATTTAG
Found at i:1759836 original size:66 final size:66
Alignment explanation
Indices: 1759705--1759838 Score: 216
Period size: 65 Copynumber: 2.0 Consensus size: 66
1759695 TTTTTTTGTT
* * *
1759705 AGAATTGTTAGGTTCAAAATATTTTTTTGATGAAACAGACATGTGATTTCTGTTTAGGTCTAAAA
1 AGAATTGTTAAGTTCAAAATATGTTTTTGATGAAACAGACATCTGATTTCTGTTTAGGTCTAAAA
1759770 A
66 A
* *
1759771 AGAATTGTTAAGTTTAAAATA-GTTTTTGATGAAACAGACATCTGATTTGTGTTTAGGTCTAAAA
1 AGAATTGTTAAGTTCAAAATATGTTTTTGATGAAACAGACATCTGATTTCTGTTTAGGTCTAAAA
1759835 A
66 A
1759836 AGA
1 AGA
1759839 GTGAACTATA
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
65 44 0.70
66 19 0.30
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.38
Consensus pattern (66 bp):
AGAATTGTTAAGTTCAAAATATGTTTTTGATGAAACAGACATCTGATTTCTGTTTAGGTCTAAAA
A
Found at i:1759973 original size:30 final size:31
Alignment explanation
Indices: 1759924--1759990 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 31
1759914 ACTACGATTG
* *
1759924 AATTTAATTATCAAGTTAATGTTTTATTTAA
1 AATTTAATTATCAAATTAATGTTTTATCTAA
1759955 AATTTAA-TATCAAATTAATGTTTTATCTAA
1 AATTTAATTATCAAATTAATGTTTTATCTAA
*
1759985 ATTTTA
1 AATTTA
1759991 GGTCATATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 26 0.79
31 7 0.21
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (31 bp):
AATTTAATTATCAAATTAATGTTTTATCTAA
Found at i:1762192 original size:19 final size:18
Alignment explanation
Indices: 1762168--1762206 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
1762158 ATATTTTTTT
1762168 TATTATTGTAAATTAAATA
1 TATTATT-TAAATTAAATA
* *
1762187 TATTATTTGATTTAAATA
1 TATTATTTAAATTAAATA
1762205 TA
1 TA
1762207 ATTACTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (18 bp):
TATTATTTAAATTAAATA
Found at i:1762507 original size:20 final size:21
Alignment explanation
Indices: 1762482--1762520 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
1762472 ATTCAAGAAT
1762482 TTTTCTTCTC-TT-GAAAATTA
1 TTTTC-TCTCATTAGAAAATTA
1762502 TTTTCTCTCATTAGAAAAT
1 TTTTCTCTCATTAGAAAAT
1762521 ATTCTTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 7 0.41
21 6 0.35
ACGTcount: A:0.28, C:0.15, G:0.05, T:0.51
Consensus pattern (21 bp):
TTTTCTCTCATTAGAAAATTA
Found at i:1767934 original size:182 final size:182
Alignment explanation
Indices: 1767627--1768080 Score: 696
Period size: 182 Copynumber: 2.5 Consensus size: 182
1767617 ATTTTTTTAC
* *
1767627 TACCGGTTTTGTCATTTCGAGATCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCAA
1 TACCGGTTTTGTCATTTCGAGATCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
*
1767692 TACATTTTTATAAAGTATCGACACTTTATTGACGCTAAAACTTATTTTCTTTTAAATTCCAAAAG
66 TACATTTTTATAAAGTATCGACACTTTATTGACGCTAAAACTTATTCTCTTTTAAATTCCAAAAG
* * **
1767757 TGTCGATTCTTATAATAAAGTATCGACACTATCAACATATCTGGTA-TCTCTT
131 TATCGATACTTATAATAAAGTATCGACACTATCAACATATCCAGTAGTCT-TT
* *
1767809 TACCGGTTTTGTCATTTCGAAATCGGTTTTGTCATATTTTTACATGTTATATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGATCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
* * *
1767874 TACATTTTTATAAAGTATCGACACTTTATT-AGCGCTATAATTTCTTCTCTTTTAAATTCCAAAA
66 TACATTTTTATAAAGTATCGACACTTTATTGA-CGCTAAAACTTATTCTCTTTTAAATTCCAAAA
*
1767938 GTATCGATACTTATAATAAAGTATCGACACTATCAACATATCCAGTAGTGTTT
130 GTATCGATACTTATAATAAAGTATCGACACTATCAACATATCCAGTAGTCTTT
* * * * * *
1767991 TACCTGTTTTGCCATTTCTAGATCGGTTTTGTCATTTTTTTACCTATTTTATTGTTATGGATCGA
1 TACCGGTTTTGTCATTTCGAGATCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
*
1768056 TATATTTTTATAAAGTATCGACACT
66 TACATTTTTATAAAGTATCGACACT
1768081 ATCAACATAT
Statistics
Matches: 248, Mismatches: 22, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
181 1 0.00
182 245 0.99
183 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.13, T:0.44
Consensus pattern (182 bp):
TACCGGTTTTGTCATTTCGAGATCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
TACATTTTTATAAAGTATCGACACTTTATTGACGCTAAAACTTATTCTCTTTTAAATTCCAAAAG
TATCGATACTTATAATAAAGTATCGACACTATCAACATATCCAGTAGTCTTT
Found at i:1768302 original size:112 final size:112
Alignment explanation
Indices: 1767940--1768521 Score: 829
Period size: 112 Copynumber: 5.3 Consensus size: 112
1767930 TTCCAAAAGT
* * * * * * * *
1767940 ATCGATAC-TTATAATAAAGTATCGACACTATCAACATATCCAGTAGTGTTTTACCTGTTTTGCC
1 ATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTC
* * * *
1768004 ATTTCTAGATCGGTTTTGTCATTTTTTTACCTATTTTATTGTTATGG
66 ATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGG
* * *
1768051 ATCGATATATTTTTATAAAGTATCGACACTATCAACATATCCGGTAGCGCTTTACCTGTTTTGTC
1 ATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTC
1768116 ATTTATAGACCGGTTTTGTCA-TTTTTTACCTGTTATATTGTTATGG
66 ATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGG
* * *
1768162 ATCAATACATTTTTATAAAATATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTC
1 ATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTC
* * *
1768227 ATTTATA-ACCCGATTTTATCATTTTTTTACCTGTTATATTGTTATTG
66 ATTTATAGA-CCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGG
*
1768274 ATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGATAGCGCTTTACCTGTTTTGTC
1 ATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTC
1768339 ATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGG
66 ATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGG
* *
1768386 ATAGATACATTTTTAT--A--A-CGACACTTTCAATATACCCGGTAGCGCTTTACCTGTTTTGTC
1 ATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTC
* * *
1768446 ATTTATAGACAGATTTTGTCATTTTTTTACTTGTTATATTGTTATGG
66 ATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGG
** *
1768493 ATTAATATATTTTTATAAAGTATCGACAC
1 ATCGATACATTTTTATAAAGTATCGACAC
1768522 AAACCGACAA
Statistics
Matches: 426, Mismatches: 36, Indels: 17
0.89 0.08 0.04
Matches are distributed among these distances:
107 97 0.23
108 1 0.00
109 1 0.00
110 2 0.00
111 107 0.25
112 217 0.51
113 1 0.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (112 bp):
ATCGATACATTTTTATAAAGTATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTC
ATTTATAGACCGGTTTTGTCATTTTTTTACCTGTTATATTGTTATGG
Found at i:1768347 original size:223 final size:224
Alignment explanation
Indices: 1767953--1768521 Score: 848
Period size: 223 Copynumber: 2.6 Consensus size: 224
1767943 GATACTTATA
* * * * * * * * * *
1767953 ATAAAGTATCGACACTATCAACATATCCAGTAGTGTTTTACCTGTTTTGCCATTTCTAGATCGGT
1 ATAAAATATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
* *
1768018 TTTGTCATTTTTTTACCTATTTTATTGTTATGGATCGATATATTTTTATAAAGTATCGACACTAT
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACACTAT
*
1768083 CAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCA-TTTTTTACCT
131 CAACATATCCGATAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCT
1768147 GTTATATTGTTATGGATCA-ATACATTTTT
196 GTTATATTGTTATGGAT-AGATACATTTTT
*
1768176 ATAAAATATCGACACTTTCAATATATCTGGTAGCGCTTTACCTGTTTTGTCATTTATA-ACCCGA
1 ATAAAATATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGA-CCGA
* * * *
1768240 TTTTATCATTTTTTTACCTGTTATATTGTTATTGATCGATACATTTTTATAAAGTATCGACACTT
65 TTTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACACTA
*
1768305 TCAATATATCCGATAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACC
130 TCAACATATCCGATAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACC
1768370 TGTTATATTGTTATGGATAGATACATTTTT
195 TGTTATATTGTTATGGATAGATACATTTTT
* *
1768400 AT---A-A-CGACACTTTCAATATACCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACAGAT
1 ATAAAATATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
* **
1768460 TTTGTCATTTTTTTACTTGTTATATTGTTATGGATTAATATATTTTTATAAAGTATCGACAC
66 TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACAC
1768522 AAACCGACAA
Statistics
Matches: 314, Mismatches: 28, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
219 107 0.34
220 2 0.01
221 1 0.00
222 1 0.00
223 164 0.52
224 39 0.12
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.46
Consensus pattern (224 bp):
ATAAAATATCGACACTTTCAATATATCCGGTAGCGCTTTACCTGTTTTGTCATTTATAGACCGAT
TTTGTCATTTTTTTACCTGTTATATTGTTATGGATCGATATATTTTTATAAAGTATCGACACTAT
CAACATATCCGATAGCGCTTTACCTGTTTTGTCATTTATAGACCGGTTTTGTCATTTTTTTACCT
GTTATATTGTTATGGATAGATACATTTTT
Found at i:1770309 original size:20 final size:21
Alignment explanation
Indices: 1770274--1770352 Score: 151
Period size: 21 Copynumber: 3.8 Consensus size: 21
1770264 AAACTAATAA
1770274 AAAAATTAACATTTTTTTAAT
1 AAAAATTAACATTTTTTTAAT
1770295 AAAAATTAACATTTTTTTAAT
1 AAAAATTAACATTTTTTTAAT
1770316 AAAAATTAACA-TTTTTTAAT
1 AAAAATTAACATTTTTTTAAT
1770336 AAAAATTAACATTTTTT
1 AAAAATTAACATTTTTT
1770353 CTTCCCCACG
Statistics
Matches: 57, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
20 20 0.35
21 37 0.65
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (21 bp):
AAAAATTAACATTTTTTTAAT
Found at i:1770331 original size:41 final size:42
Alignment explanation
Indices: 1770274--1770352 Score: 151
Period size: 41 Copynumber: 1.9 Consensus size: 42
1770264 AAACTAATAA
1770274 AAAAATTAACATTTTTTTAATAAAAATTAACATTTTTTTAAT
1 AAAAATTAACATTTTTTTAATAAAAATTAACATTTTTTTAAT
1770316 AAAAATTAACA-TTTTTTAATAAAAATTAACATTTTTT
1 AAAAATTAACATTTTTTTAATAAAAATTAACATTTTTT
1770353 CTTCCCCACG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
41 26 0.70
42 11 0.30
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (42 bp):
AAAAATTAACATTTTTTTAATAAAAATTAACATTTTTTTAAT
Found at i:1785811 original size:35 final size:34
Alignment explanation
Indices: 1785726--1785812 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
1785716 AATATAATTT
*
1785726 TAAATACAACAAACTTACAATAAGAATTAAATGG
1 TAAATACAACAAAATTACAATAAGAATTAAATGG
* *
1785760 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--GA-ATTAAATGG
1785798 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
1785813 ACTTAAATAT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 5 0.11
38 10 0.22
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.26
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAATGG
Found at i:1785844 original size:24 final size:25
Alignment explanation
Indices: 1785817--1785881 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 25
1785807 AAATTAACTT
* **
1785817 AAATATATTAAAAAAAAGTCCA-AC
1 AAATATAATAAAAAAAAGTAAATAC
* *
1785841 AAATTTAATAAAATAAAGTAAATAC
1 AAATATAATAAAAAAAAGTAAATAC
1785866 AAATATAATAAAAAAA
1 AAATATAATAAAAAAA
1785882 TCTATCGATG
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
24 17 0.52
25 16 0.48
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.23
Consensus pattern (25 bp):
AAATATAATAAAAAAAAGTAAATAC
Found at i:1788070 original size:17 final size:18
Alignment explanation
Indices: 1788050--1788090 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1788040 AAATTATATT
1788050 AGTAAAAT-ATTAAATAA
1 AGTAAAATGATTAAATAA
*
1788067 AGTAAAATGTTTAAATAA
1 AGTAAAATGATTAAATAA
*
1788085 ATTAAA
1 AGTAAA
1788091 TACATAATAT
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:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (18 bp):
AGTAAAATGATTAAATAA
Found at i:1788145 original size:12 final size:12
Alignment explanation
Indices: 1788130--1788161 Score: 50
Period size: 10 Copynumber: 2.8 Consensus size: 12
1788120 ACCTTAAATA
1788130 GAGAGAATATTT
1 GAGAGAATATTT
1788142 GAGAG-A-ATTT
1 GAGAGAATATTT
1788152 GAGAGAATAT
1 GAGAGAATAT
1788162 GATGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 9 0.50
11 2 0.11
12 7 0.39
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (12 bp):
GAGAGAATATTT
Found at i:1789774 original size:20 final size:20
Alignment explanation
Indices: 1789749--1789802 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
1789739 AATTGGGAAA
*
1789749 ATCGCAATGTGATACTGACT
1 ATCGCAATGCGATACTGACT
*
1789769 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
1789789 ATCGCAATGCGATA
1 ATCGCAATGCGATA
1789803 ATACAAAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:1791135 original size:21 final size:21
Alignment explanation
Indices: 1791069--1791135 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
1791059 GTGAATCGGG
*
1791069 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
1791089 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
1791111 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
1791132 CTCT
1 CTCT
1791136 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:1791154 original size:42 final size:41
Alignment explanation
Indices: 1791069--1791191 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
1791059 GTGAATCGGG
* * * *
1791069 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
1791111 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
1791153 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
1791192 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:1793313 original size:20 final size:19
Alignment explanation
Indices: 1793280--1793444 Score: 143
Period size: 19 Copynumber: 9.1 Consensus size: 19
1793270 TCTTTTGGTT
* *
1793280 GAAATAAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
1793299 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
1793319 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
1793337 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
**
1793353 GAAATGACTATCGCAACGC
1 GAAATGAAAATCGCAACGC
1793372 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
1793391 GAAATGAAAATCTCAA--C
1 GAAATGAAAATCGCAACGC
*
1793408 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
1793424 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
1793443 GA
1 GA
1793445 TTTTGGTTTC
Statistics
Matches: 118, Mismatches: 16, Indels: 24
0.75 0.10 0.15
Matches are distributed among these distances:
14 18 0.15
15 2 0.02
16 4 0.03
17 3 0.03
18 3 0.03
19 60 0.51
20 26 0.22
21 2 0.02
ACGTcount: A:0.44, C:0.21, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:1793362 original size:33 final size:33
Alignment explanation
Indices: 1793305--1793439 Score: 162
Period size: 33 Copynumber: 3.9 Consensus size: 33
1793295 ACGAGATAAT
**
1793305 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGAAAATCGCAACGA
**
1793339 GAGAATCGCAACGCGAAATGACTATCGCAACGCGAAA
1 GAGAATCGCAACGCGAAATGAAAATCGCAA--CG--A
* *
1793376 TGAAAATCGCAACGCGAAATGAAAATCTCAACGA
1 -GAGAATCGCAACGCGAAATGAAAATCGCAACGA
1793410 GAGAATCGCAACGCGAAATGAAAATCGCAA
1 GAGAATCGCAACGCGAAATGAAAATCGCAA
1793440 TGCGATTTTG
Statistics
Matches: 90, Mismatches: 6, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
33 44 0.49
34 15 0.17
35 2 0.02
36 2 0.02
37 1 0.01
38 26 0.29
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGAAAATCGCAACGA
Found at i:1793393 original size:38 final size:38
Alignment explanation
Indices: 1793289--1793444 Score: 152
Period size: 33 Copynumber: 4.3 Consensus size: 38
1793279 TGAAATAAAA
*
1793289 ATCGCAACGAGATAATGAGAATCGCAACGCGGAAATGACT
1 ATCGCAACGCGA-AATGAGAATCGCAACGC-GAAATGACT
1793329 ATCGCAA--CG--A-GAGAATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGAGAATCGCAACGCGAAATGACT
* **
1793362 ATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAGAATCGCAACGCGAAATGACT
* **
1793400 ATCTCAA--CG--A-GAGAATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAGAATCGCAACGCGAAATGACT
*
1793433 ATCGCAATGCGA
1 ATCGCAACGCGA
1793445 TTTTGGTTTC
Statistics
Matches: 101, Mismatches: 7, Indels: 20
0.79 0.05 0.16
Matches are distributed among these distances:
33 44 0.44
34 15 0.15
35 5 0.05
36 2 0.02
37 1 0.01
38 27 0.27
40 7 0.07
ACGTcount: A:0.42, C:0.22, G:0.23, T:0.13
Consensus pattern (38 bp):
ATCGCAACGCGAAATGAGAATCGCAACGCGAAATGACT
Found at i:1793413 original size:71 final size:73
Alignment explanation
Indices: 1793280--1793445 Score: 237
Period size: 71 Copynumber: 2.3 Consensus size: 73
1793270 TCTTTTGGTT
* * * **
1793280 GAAATAAAAATCGCAACGAGATAATGAGAATCGCAACGCGGAAATGACTATCGCAACGAGAGAAT
1 GAAATGAAAATCGCAACGCGATAATGAAAATCGCAACGCGGAAATGAAAATCGCAACGAGAGAAT
1793345 CGCAACGC
66 CGCAACGC
** *
1793353 GAAATGACTATCGCAACGCGA-AATGAAAATCGCAACGC-GAAATGAAAATCTCAACGAGAGAAT
1 GAAATGAAAATCGCAACGCGATAATGAAAATCGCAACGCGGAAATGAAAATCGCAACGAGAGAAT
1793416 CGCAACGC
66 CGCAACGC
*
1793424 GAAATGAAAATCGCAATGCGAT
1 GAAATGAAAATCGCAACGCGAT
1793446 TTTGGTTTCA
Statistics
Matches: 81, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
71 48 0.59
72 16 0.20
73 17 0.21
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.13
Consensus pattern (73 bp):
GAAATGAAAATCGCAACGCGATAATGAAAATCGCAACGCGGAAATGAAAATCGCAACGAGAGAAT
CGCAACGC
Found at i:1793462 original size:19 final size:19
Alignment explanation
Indices: 1793440--1793484 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
1793430 AAAATCGCAA
*
1793440 TGCGATTTTGGTTTCACGT
1 TGCGATTTTGATTTCACGT
* *
1793459 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCACGT
1793478 TGCGATT
1 TGCGATT
1793485 CTCTCGTTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCACGT
Found at i:1794063 original size:20 final size:20
Alignment explanation
Indices: 1794038--1794088 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
1794028 GCGCTATGTA
1794038 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
1794058 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
1794078 TATCTCGTTGC
1 AATCGCGTTGC
1794089 AATTTTGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:1794273 original size:20 final size:20
Alignment explanation
Indices: 1794250--1794295 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
1794240 CAACACGAAT
* *
1794250 TTGCGATAATGGAGATCGCG
1 TTGCGATAATAGAGATCGCA
*
1794270 TTGCGA-ATTAGAGATCGCA
1 TTGCGATAATAGAGATCGCA
1794289 TTGCGAT
1 TTGCGAT
1794296 TTTGTTGGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.28
Consensus pattern (20 bp):
TTGCGATAATAGAGATCGCA
Found at i:1797338 original size:18 final size:18
Alignment explanation
Indices: 1797311--1797382 Score: 72
Period size: 18 Copynumber: 3.8 Consensus size: 18
1797301 CTGGAATTTG
1797311 TCCCGAAGGACCACTATA
1 TCCCGAAGGACCACTATA
*
1797329 TCCCGTAGGACCACTGTATTA
1 TCCCGAAGGACCAC--TA-TA
* * *
1797350 TACCAAAGGACCACTATG
1 TCCCGAAGGACCACTATA
*
1797368 TCCCGTAGGACCACT
1 TCCCGAAGGACCACT
1797383 GTAACCATCG
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
18 26 0.60
19 2 0.05
20 2 0.05
21 13 0.30
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (18 bp):
TCCCGAAGGACCACTATA
Found at i:1797870 original size:2 final size:2
Alignment explanation
Indices: 1797863--1797928 Score: 114
Period size: 2 Copynumber: 33.0 Consensus size: 2
1797853 AACATATAAG
1797863 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
* *
1797905 AT AT AT AT AT AT AT TT CT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
1797929 TAATACACAC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:1798242 original size:21 final size:21
Alignment explanation
Indices: 1798216--1798256 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1798206 TTTTTCATTT
*
1798216 AGGGGGGAATC-GATACCCCCC
1 AGGGGGAAATCTG-TACCCCCC
1798237 AGGGGGAAATCTGTACCCCC
1 AGGGGGAAATCTGTACCCCC
1798257 TGCGTATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.24, C:0.32, G:0.32, T:0.12
Consensus pattern (21 bp):
AGGGGGAAATCTGTACCCCCC
Found at i:1800196 original size:17 final size:17
Alignment explanation
Indices: 1800174--1800228 Score: 83
Period size: 17 Copynumber: 3.2 Consensus size: 17
1800164 TATAGTGAAA
1800174 CAGGCTTTTAAACAGGC
1 CAGGCTTTTAAACAGGC
* *
1800191 CAGGCTATTAAATAGGC
1 CAGGCTTTTAAACAGGC
*
1800208 CAGGCTTTTAAACAAGC
1 CAGGCTTTTAAACAGGC
1800225 CAGG
1 CAGG
1800229 TCGAGCCTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.22
Consensus pattern (17 bp):
CAGGCTTTTAAACAGGC
Found at i:1804216 original size:21 final size:21
Alignment explanation
Indices: 1804192--1804238 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
1804182 ATTGTAAATA
* *
1804192 TTATTGTTTCTATTAGTTTTG
1 TTATTGTTTATATTAATTTTG
*
1804213 TTATTTTTTATATTAATTTTG
1 TTATTGTTTATATTAATTTTG
1804234 TTATT
1 TTATT
1804239 ATTGAATACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.02, G:0.09, T:0.70
Consensus pattern (21 bp):
TTATTGTTTATATTAATTTTG
Found at i:1805677 original size:131 final size:132
Alignment explanation
Indices: 1805532--1805806 Score: 345
Period size: 131 Copynumber: 2.1 Consensus size: 132
1805522 TAATTTGTGA
* * *
1805532 ATGGCAGACCTTGGAAGTAAGATACACCAGTTCCATTGTGCTTTACGCCTTTGCCTTAGTTGGGG
1 ATGGCAGAACTTGGAAGTAAGATACACCAGTTCCATTGTGCTTTACGCCGTTGCCTTAGATGGGG
* ** * *
1805597 ATTTGATATGTTAGAA-CTGTAATAGAATATAATTTCCCATGATTTTCAATAATTTGTGAATACA
66 ATTTGATAGGGAAGAACCTGTAATAGAATAAAATTTCCCATGATTTTCAATAATTTGTGAAGACA
1805661 CT
131 CT
* ** * * * *
1805663 ATGGCAGAACTTGGAAGTAGGATTTATCGGTTTCATTGTGCTTTATGCCGTTGCCTTAGATGGGG
1 ATGGCAGAACTTGGAAGTAAGATACACCAGTTCCATTGTGCTTTACGCCGTTGCCTTAGATGGGG
* *
1805728 ATTTGATAGGGAAGAACTGTCCTGTAATAGACTAAAATTTCCCATGATTTTCAATGATTTGTGAA
66 ATTTGATAGGGAAGAA----CCTGTAATAGAATAAAATTTCCCATGATTTTCAATAATTTGTGAA
1805793 GACACT
127 GACACT
*
1805799 ATGTCAGA
1 ATGGCAGA
1805807 CATTTTAAGT
Statistics
Matches: 121, Mismatches: 18, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
131 68 0.56
136 53 0.44
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (132 bp):
ATGGCAGAACTTGGAAGTAAGATACACCAGTTCCATTGTGCTTTACGCCGTTGCCTTAGATGGGG
ATTTGATAGGGAAGAACCTGTAATAGAATAAAATTTCCCATGATTTTCAATAATTTGTGAAGACA
CT
Found at i:1805826 original size:136 final size:131
Alignment explanation
Indices: 1805565--1805890 Score: 339
Period size: 136 Copynumber: 2.4 Consensus size: 131
1805555 ACACCAGTTC
* * * ** *
1805565 CATTGTGCTTTACGCCTTTGCCTTAGTTGGGGATTTGATATGTTAGAACTGTAATAGAATATAAT
1 CATTGTGCTTTACGCCGTTGCCTTAGATGGGGATTTGATAGGGAAGAACTGTAATAGAATAAAAT
* *
1805630 TTCCCATGATTTTCAATAATTTGTGAATACACTATGGCAGAACTTGGAAGTAGGATTTATCGGTT
66 TTCCCATGATTTTCAATAATTTGTGAAGACACTATGGCAGAACTTGGAAGTAGGAATTATCGGTT
1805695 T
131 T
* *
1805696 CATTGTGCTTTATGCCGTTGCCTTAGATGGGGATTTGATAGGGAAGAACTGTCCTGTAATAGACT
1 CATTGTGCTTTACGCCGTTGCCTTAGATGGGGATTTGATAGGGAAGAA-----CTGTAATAGAAT
* * ** *
1805761 AAAATTTCCCATGATTTTCAATGATTTGTGAAGACACTATGTCAG-ACATTTTAAGTTGGAATTA
61 AAAATTTCCCATGATTTTCAATAATTTGTGAAGACACTATGGCAGAAC-TTGGAAGTAGGAATTA
* *
1805825 TCAGTTC
125 TCGGTTT
* * * * * * * * * *
1805832 CGTTTTTTCTTTACACCTTTGCCTTAAATGAGGATTTAATTGGGAGGAACTGTAATAGA
1 C-ATTGTGCTTTACGCCGTTGCCTTAGATGGGGATTTGATAGGGAAGAACTGTAATAGA
1805891 CTATAAGTTC
Statistics
Matches: 160, Mismatches: 28, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
131 42 0.26
132 10 0.06
135 2 0.01
136 70 0.44
137 36 0.22
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.38
Consensus pattern (131 bp):
CATTGTGCTTTACGCCGTTGCCTTAGATGGGGATTTGATAGGGAAGAACTGTAATAGAATAAAAT
TTCCCATGATTTTCAATAATTTGTGAAGACACTATGGCAGAACTTGGAAGTAGGAATTATCGGTT
T
Found at i:1811027 original size:2 final size:2
Alignment explanation
Indices: 1811020--1811045 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1811010 CATAAACGTG
1811020 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1811046 CTATTCAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1817077 original size:20 final size:20
Alignment explanation
Indices: 1817040--1817101 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
1817030 TGACCGGGTT
*
1817040 TTAT-ATTTATATTTTTATTA
1 TTATAATTTAT-TTATTATTA
1817060 TTATAATTTATTTATTATTA
1 TTATAATTTATTTATTATTA
*
1817080 TTAATAATTTCTTTATT-TTA
1 TT-ATAATTTATTTATTATTA
1817100 TT
1 TT
1817102 TTTTGTAGGA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
20 19 0.50
21 19 0.50
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (20 bp):
TTATAATTTATTTATTATTA
Found at i:1821613 original size:125 final size:125
Alignment explanation
Indices: 1821391--1821642 Score: 504
Period size: 125 Copynumber: 2.0 Consensus size: 125
1821381 TCGATTCAAA
1821391 AGCGCATTCGAAAATTGATGGTGGTAGCTCAACTTCACAGCGAAGGGGCGATTGACTGTCAACAA
1 AGCGCATTCGAAAATTGATGGTGGTAGCTCAACTTCACAGCGAAGGGGCGATTGACTGTCAACAA
1821456 ACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAATGATATTGGACTCG
66 ACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAATGATATTGGACTCG
1821516 AGCGCATTCGAAAATTGATGGTGGTAGCTCAACTTCACAGCGAAGGGGCGATTGACTGTCAACAA
1 AGCGCATTCGAAAATTGATGGTGGTAGCTCAACTTCACAGCGAAGGGGCGATTGACTGTCAACAA
1821581 ACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAATGATATTGGACTCG
66 ACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAATGATATTGGACTCG
1821641 AG
1 AG
1821643 ACAACACAAG
Statistics
Matches: 127, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 127 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (125 bp):
AGCGCATTCGAAAATTGATGGTGGTAGCTCAACTTCACAGCGAAGGGGCGATTGACTGTCAACAA
ACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAATGATATTGGACTCG
Found at i:1821770 original size:105 final size:106
Alignment explanation
Indices: 1821598--1822712 Score: 1648
Period size: 105 Copynumber: 10.5 Consensus size: 106
1821588 TTCAGTTTCA
* *
1821598 TTCAGAGTCAATTTCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCA
* * *
1821663 CAACGAAGGGACGGATGGTTGTCAACAAATAATTTCTCAAT
66 CAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
*
1821704 TTCATAGCCAATTTCAACTTCACAGCGAAGGAT-TTGGACTCGAGACAACACAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCA
*
1821768 CAACGAAGGGACGGCTGGTTGTCAACAAATAATTTCCCAAT
66 CAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
* * *
1821809 TTCATAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCA
* * * * *
1821874 CGACGAAGGGACCGCTGGTTGTCAATAAA-TACTTCCCAAT
66 CAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
* * *
1821914 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCA
* *
1821979 CGACGAAGGGATC-GCTGGTTGTCAAC-AACAACTTCCCAAT
66 CAACGAAGGGA-CGGCTGGTTGTCAACAAACAATTTCCCAAT
* * * * *
1822019 TTCAAAGCCAATTTCAACTTTACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCA
* * *
1822084 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAAT
66 CAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
* * *
1822125 TTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCA
* * * *
1822190 CGACGAAGGGACTGCTGGTTGTCAAC-AACAACTTCCCAAA
66 CAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
* *
1822230 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCA
* * * **
1822295 CGACGAAGGGACCGCTGGTTGTCAAC-AACAACTTCATAAT
66 CAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
*
1822335 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTTGAGACAACACAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCA
1822400 CAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
66 CAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
* * *
1822441 TTCGGAGCCAATTTCAACTTCACAGCGAATGATATTGGACTCGAGATAACACAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCA
* *
1822506 CAACGAAAGGACGGTTGGTTGTCAACAAACAATTTCCCAAT
66 CAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
* *
1822547 TTCAGAGCCAATTTTAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAAGTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGAC-A-AC-A---CAAGTTCA
1822612 ACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
60 ACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
* * *
1822659 TTCGGAGCCAATTTTAACTTCACAGCGAATGATATTGGACTCGAGACAACACAA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAA
1822713 CTTTCATTGG
Statistics
Matches: 941, Mismatches: 56, Indels: 24
0.92 0.05 0.02
Matches are distributed among these distances:
104 3 0.00
105 492 0.52
106 341 0.36
107 1 0.00
108 2 0.00
109 2 0.00
110 2 0.00
111 1 0.00
112 97 0.10
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (106 bp):
TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCA
CAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
Found at i:1821954 original size:211 final size:211
Alignment explanation
Indices: 1821598--1822708 Score: 1654
Period size: 211 Copynumber: 5.2 Consensus size: 211
1821588 TTCAGTTTCA
* * * *
1821598 TTCAGAGTCAATTTCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * * * *
1821663 CAACGAAGGGACGGATGGTTGTCAACAAATAATTTCTCAATTTCATAGCCAATTTCAACTTCACA
66 CGACGAAGGGACCGCTGGTTGTCAACAAA-AATTTCCCAATTTCAGAGCCAATTTCAACTTCACA
*
1821728 GCGAAGGAT-TTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCA
130 ACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCA
*
1821792 ACAAATAATTTCCCAAT
195 ACAAACAATTTCCCAAT
*
1821809 TTCATAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * *
1821874 CGACGAAGGGACCGCTGGTTGTCAATAAATACTTCCCAATTTCAGAGCCAATTTCAACTTCACAA
66 CGACGAAGGGACCGCTGGTTGTCAACAAAAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAA
* * *
1821939 CGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGATC-GCTGGTTGTCA
131 CGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGGCTGGTTGTCA
*
1822003 AC-AACAACTTCCCAAT
195 ACAAACAATTTCCCAAT
* * *
1822019 TTCAAAGCCAATTTCAACTTTACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
*
1822084 CGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACA
66 CGACGAAGGGACCGCTGGTTGTCAACAAA-AATTTCCCAATTTCAGAGCCAATTTCAACTTCACA
* * * * *
1822149 TCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCA
130 ACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCA
* *
1822214 AC-AACAACTTCCCAAA
195 ACAAACAATTTCCCAAT
1822230 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * ** *
1822295 CGACGAAGGGACCGCTGGTTGTCAACAACAACTTCATAATTTCAGAGCCAATTTCAACTTCACAG
66 CGACGAAGGGACCGCTGGTTGTCAACAAAAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAA
*
1822360 CGAAGGATATTGGACTTGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAA
131 CGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAA
1822425 CAAACAATTTCCCAAT
196 CAAACAATTTCCCAAT
* * * * *
1822441 TTCGGAGCCAATTTCAACTTCACAGCGAATGATATTGGACTCGAGATAACACAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * * * *
1822506 CAACGAAAGGACGGTTGGTTGTCAACAAACAATTTCCCAATTTCAGAGCCAATTTTAACTTCACA
66 CGACGAAGGGACCGCTGGTTGTCAACAAA-AATTTCCCAATTTCAGAGCCAATTTCAACTTCACA
1822571 ACGAAGGATATTGGACTCGAGACAACACAAGTTCAAGTTCAACTTCACAACGAAGGGACGGCTGG
130 ACGAAGGATATTGGACTCGAGAC-A-AC-A---CAAGTTCAACTTCACAACGAAGGGACGGCTGG
1822636 TTGTCAACAAACAATTTCCCAAT
189 TTGTCAACAAACAATTTCCCAAT
* * * *
1822659 TTCGGAGCCAATTTTAACTTCACAGCGAATGATATTGGACTCGAGACAAC
1 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAAC
1822709 ACAACTTTCA
Statistics
Matches: 828, Mismatches: 60, Indels: 17
0.91 0.07 0.02
Matches are distributed among these distances:
210 236 0.29
211 432 0.52
212 53 0.06
213 1 0.00
214 2 0.00
215 1 0.00
218 103 0.12
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (211 bp):
TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
CGACGAAGGGACCGCTGGTTGTCAACAAAAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAA
CGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAA
CAAACAATTTCCCAAT
Found at i:1822171 original size:316 final size:316
Alignment explanation
Indices: 1821598--1822712 Score: 1680
Period size: 316 Copynumber: 3.5 Consensus size: 316
1821588 TTCAGTTTCA
* * * * *
1821598 TTCAGAGTCAATTTCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * * * *
1821663 CAACGAAGGGACGGATGGTTGTCAACAAATAATTTCTCAATTTCATAGCCAATTTCAACTTCACA
66 CAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
1821728 GCGAAGGAT-TTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCA
131 GCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCA
* *
1821792 ACAAATAATTTCCCAATTTCATAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACA
196 ACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACA
*
1821857 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAATACTTCCCAAT
261 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAA-ACTTCCCAAT
1821914 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * *
1821979 CGACGAAGGGATC-GCTGGTTGTCAAC-AACAACTTCCCAATTTCAAAGCCAATTTCAACTTTAC
66 CAACGAAGGGA-CGGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCAC
* * * * *
1822042 AACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTC
130 AGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTC
* *
1822107 AATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACATCGAAGGATATTGGACTCCAGAC
195 AACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGAC
* *
1822172 AACGCAAGTTCAACTTCACGACGAAGGGACTGCTGGTTGTCAACAACAACTTCCCAAA
260 AACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAA-AACTTCCCAAT
*
1822230 TTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
* * **
1822295 CGACGAAGGGACCGCTGGTTGTCAAC-AACAACTTCATAATTTCAGAGCCAATTTCAACTTCACA
66 CAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
*
1822359 GCGAAGGATATTGGACTTGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCA
131 GCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCA
* * * *
1822424 ACAAACAATTTCCCAATTTCGGAGCCAATTTCAACTTCACAGCGAATGATATTGGACTCGAGATA
196 ACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACA
* * * * * *
1822489 ACACAAGTTCAACTTCACAACGAAAGGACGGTTGGTTGTCAACAAACAATTTCCCAAT
261 ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC-AA-AACTTCCCAAT
* *
1822547 TTCAGAGCCAATTTTAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAAGTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGAC-A-AC--G--CAAGTTCA
* * *
1822612 ACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGCCAATTTTAAC
60 ACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAAC
*
1822677 TTCACAGCGAATGATATTGGACTCGAGACAACACAA
125 TTCACAGCGAAGGATATTGGACTCGAGACAACACAA
1822713 CTTTCATTGG
Statistics
Matches: 727, Mismatches: 60, Indels: 16
0.91 0.07 0.02
Matches are distributed among these distances:
315 42 0.06
316 524 0.72
317 58 0.08
318 1 0.00
319 2 0.00
321 1 0.00
323 38 0.05
324 61 0.08
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (316 bp):
TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
CAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACA
GCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCA
ACAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACA
ACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAAACTTCCCAAT
Found at i:1822869 original size:124 final size:124
Alignment explanation
Indices: 1822718--1822962 Score: 382
Period size: 124 Copynumber: 2.0 Consensus size: 124
1822708 CACAACTTTC
* * *
1822718 ATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTCCACGACGGAGGGGCCA
1 ATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTCCACAACGAAGGGACCA
* * *
1822783 TCTACGGTTTCAACTTCACGATGAAGGGAATCGTACACACAAGCAACATTCATCTTTAG
66 TCCACGATTTCAACTTCACGACGAAGGGAATCGTACACACAAGCAACATTCATCTTTAG
* *
1822842 ATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATGGACCA
1 ATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTCCACAACGAAGGGACCA
* ** *
1822907 TCCACGATTTCAACTTCACGACGAAGGGAATCGTACCCACCGGCAATATTCATCTT
66 TCCACGATTTCAACTTCACGACGAAGGGAATCGTACACACAAGCAACATTCATCTT
1822963 CAGGAACAAG
Statistics
Matches: 109, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
124 109 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (124 bp):
ATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTCCACAACGAAGGGACCA
TCCACGATTTCAACTTCACGACGAAGGGAATCGTACACACAAGCAACATTCATCTTTAG
Done.