Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 89
Found at i:4163787 original size:21 final size:21
Alignment explanation
Indices: 4163750--4163789 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4163740 AAGACTTTAT
*
4163750 TTTCAAAATATATAAATGATA
1 TTTCAAAATATAAAAATGATA
4163771 TTTCAAAAT-TGAAAAATGA
1 TTTCAAAATAT-AAAAATGA
4163790 AAATAGTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (21 bp):
TTTCAAAATATAAAAATGATA
Found at i:4167617 original size:21 final size:22
Alignment explanation
Indices: 4167588--4167630 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
4167578 CTGTGCGCTA
* *
4167588 GGTATCGATGCCCT-TTTGAAT
1 GGTACCGATACCCTCTTTGAAT
4167609 GGTACCGATACCCTCTTTGAAT
1 GGTACCGATACCCTCTTTGAAT
4167631 AATTATCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (22 bp):
GGTACCGATACCCTCTTTGAAT
Found at i:4168153 original size:13 final size:14
Alignment explanation
Indices: 4168130--4168169 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
4168120 AAAACTATAT
4168130 ATTGATTTTCAAAC
1 ATTGATTTTCAAAC
4168144 ATTG-TTTTCAAAC
1 ATTGATTTTCAAAC
* *
4168157 ATAGTTTTTCAAA
1 ATTGATTTTCAAA
4168170 ATTTGCCCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.45
Consensus pattern (14 bp):
ATTGATTTTCAAAC
Found at i:4171787 original size:37 final size:36
Alignment explanation
Indices: 4171624--4171779 Score: 118
Period size: 31 Copynumber: 4.6 Consensus size: 36
4171614 CACACACATA
* *
4171624 AGCACCAAATCATATTATTTTGGGTGACTCGCACGGG
1 AGCACCTAATCATATTA-TTTGAGTGACTCGCACGGG
* *
4171661 AGC-CCCAA--AGGATTA---GAGTGACTCGCACGGG
1 AGCACCTAATCA-TATTATTTGAGTGACTCGCACGGG
* *
4171692 AGCACCTAATCATATTATTCTAAGTGACTCACACGGG
1 AGCACCTAATCATATTATT-TGAGTGACTCGCACGGG
* * **
4171729 AGCCCCGAA--GGATTA--T-AGTGACTCGCACGGG
1 AGCACCTAATCATATTATTTGAGTGACTCGCACGGG
4171760 AGCACCTAATCATATTATTT
1 AGCACCTAATCATATTATTT
4171780 TGGGTGACAC
Statistics
Matches: 91, Mismatches: 16, Indels: 26
0.68 0.12 0.20
Matches are distributed among these distances:
31 39 0.43
32 5 0.05
33 8 0.09
34 2 0.02
35 9 0.10
36 4 0.04
37 24 0.26
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (36 bp):
AGCACCTAATCATATTATTTGAGTGACTCGCACGGG
Found at i:4171787 original size:68 final size:68
Alignment explanation
Indices: 4171624--4171792 Score: 266
Period size: 68 Copynumber: 2.5 Consensus size: 68
4171614 CACACACATA
* *
4171624 AGCACCAAATCATATTATTTTGGGTGACTCGCACGGGAGCCCCAAAGGATTAGAGTGACTCGCAC
1 AGCACCTAATCATATTATTTTGGGTGACTCACACGGGAGCCCCAAAGGATTAGAGTGACTCGCAC
4171689 GGG
66 GGG
* ** * *
4171692 AGCACCTAATCATATTATTCTAAGTGACTCACACGGGAGCCCCGAAGGATTATAGTGACTCGCAC
1 AGCACCTAATCATATTATTTTGGGTGACTCACACGGGAGCCCCAAAGGATTAGAGTGACTCGCAC
4171757 GGG
66 GGG
*
4171760 AGCACCTAATCATATTATTTTGGGTGACACACA
1 AGCACCTAATCATATTATTTTGGGTGACTCACA
4171793 TAGTAACACC
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 90 1.00
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.23
Consensus pattern (68 bp):
AGCACCTAATCATATTATTTTGGGTGACTCACACGGGAGCCCCAAAGGATTAGAGTGACTCGCAC
GGG
Found at i:4172570 original size:31 final size:29
Alignment explanation
Indices: 4172526--4172600 Score: 132
Period size: 31 Copynumber: 2.5 Consensus size: 29
4172516 AATGCACTTA
4172526 AAAGTGCCTCGTAGATATATTTGCACTCG
1 AAAGTGCCTCGTAGATATATTTGCACTCG
4172555 AAAGTGTCCCTCGTAGATATATTTGCACTCG
1 AAAGTG--CCTCGTAGATATATTTGCACTCG
4172586 AAAGTGCCTCGTAGA
1 AAAGTGCCTCGTAGA
4172601 ATTGTGCCAT
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
29 15 0.34
31 29 0.66
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (29 bp):
AAAGTGCCTCGTAGATATATTTGCACTCG
Found at i:4172742 original size:2 final size:2
Alignment explanation
Indices: 4172735--4172783 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
4172725 ATATCAACTC
4172735 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
4172777 AT AT AT A
1 AT AT AT A
4172784 AGCACACACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4173649 original size:29 final size:29
Alignment explanation
Indices: 4173616--4173672 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
4173606 AAATTTTCAG
4173616 CATAGAACCTT-AATTATCCAACATTTGTA
1 CATAG-ACCTTCAATTATCCAACATTTGTA
* *
4173645 CATAGACCTTCAATTTTCCAATATTTGT
1 CATAGACCTTCAATTATCCAACATTTGT
4173673 GAAATGGTCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.39
Consensus pattern (29 bp):
CATAGACCTTCAATTATCCAACATTTGTA
Found at i:4179772 original size:25 final size:25
Alignment explanation
Indices: 4179738--4179791 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
4179728 ATAGATATAT
4179738 TTGCACTCGAAAGTGCCTCATAAAA
1 TTGCACTCGAAAGTGCCTCATAAAA
* * *
4179763 TTGCACTCGAAAGTGTCTCGTAGAA
1 TTGCACTCGAAAGTGCCTCATAAAA
4179788 TTGC
1 TTGC
4179792 GCCATATGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (25 bp):
TTGCACTCGAAAGTGCCTCATAAAA
Found at i:4179927 original size:2 final size:2
Alignment explanation
Indices: 4179920--4179945 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4179910 CATATCAACT
4179920 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
4179946 CGAACAAAAA
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:4180082 original size:23 final size:23
Alignment explanation
Indices: 4180054--4180100 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
4180044 TTCATACCCA
4180054 AAATCATATAAAAACCATTTGGT
1 AAATCATATAAAAACCATTTGGT
4180077 AAATCATATAAAAACCATTTGGT
1 AAATCATATAAAAACCATTTGGT
4180100 A
1 A
4180101 TATAAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.30
Consensus pattern (23 bp):
AAATCATATAAAAACCATTTGGT
Found at i:4180110 original size:23 final size:23
Alignment explanation
Indices: 4180061--4180111 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
4180051 CCAAAATCAT
* *
4180061 ATAAAAACCATTTGGTAAATCAT
1 ATAAAAACCATTTGGTAAATAAA
*
4180084 ATAAAAACCATTTGGTATATAAA
1 ATAAAAACCATTTGGTAAATAAA
4180107 ATAAA
1 ATAAA
4180112 TAAGTTGAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.53, C:0.10, G:0.08, T:0.29
Consensus pattern (23 bp):
ATAAAAACCATTTGGTAAATAAA
Found at i:4196376 original size:23 final size:23
Alignment explanation
Indices: 4196329--4196378 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
4196319 AATAACATAT
**
4196329 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
4196352 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
4196375 TAGG
1 TAGG
4196379 CATTTAACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:4197063 original size:196 final size:197
Alignment explanation
Indices: 4196380--4197070 Score: 704
Period size: 198 Copynumber: 3.5 Consensus size: 197
4196370 TAAAATAGGC
* * * *
4196380 ATTTA-ACTGG-TAGCATTGCAAATTTACCTATTTCATTATAATTATTGGTTTCGTTGTTTTTTG
1 ATTTATACTGGTTA-CATTGTAAATTTACCTATTACATTATAATTATTCGTTTCGATG-TTTTTG
* * * * * *
4196443 GATCGATACAATTTTAAATGTATCGACACTTTATGCTTGCACATCGTTGGGCATTCCTAATTCAT
64 GGTCGATACAATTTTAAATGTATCGACACGTTATGCGTGAACCTAGTTGGG-----C--ATTCAT
* * * *
4196508 TATGGAAAAAAGTATCGACACAAAC-TATAAAGGTTTCGATA-TATTATTTAGATCTATTTTCTC
122 TATGGAAAAAAGTATCGACACAAACTTACAAAAGTGTCGATACT-TTATTT-GACCTATTTTCTC
4196571 ATAAAACCGGTAT
185 ATAAAACCGGTAT
* * *
4196584 ATTTATA-TCGGGTACATTGTAAATTTACCTATAACATTGTAATT-TTCGTTTCGATGTTTTTGG
1 ATTTATACT-GGTTACATTGTAAATTTACCTATTACATTATAATTATTCGTTTCGATGTTTTTGG
* * * *
4196647 GATCGATACAATTTTAAATGTATCGACACGTTATTCTTGCACCTCGTTGGGCATTCATTATGGAC
65 G-TCGATACAATTTTAAATGTATCGACACGTTATGCGTGAACCTAGTTGGGCATTCATTATGGA-
* * *
4196712 AAAATGTATCGACACAAA-TTACACAAGTGTCGATACTTTATTCTGACCTATTTTCTCATAAAAT
128 AAAAAGTATCGACACAAACTTACAAAAGTGTCGATACTTTATT-TGACCTATTTTCTCATAAAAC
*
4196776 CGGTAA
192 CGGTAT
* **
4196782 ATTTAAACTGGTTACATTGTAAATTGGCCTATTACATTATAATTA-TCGGTTTCGATGTTTTTGT
1 ATTTATACTGGTTACATTGTAAATTTACCTATTACATTATAATTATTC-GTTTCGATGTTTTTG-
* * * * ** *
4196846 GATCGATACAATTTTAAATGTATCGACACTTTATGCGTGAACCTATTTGTGTTTTC-TTTTGGAA
64 GGTCGATACAATTTTAAATGTATCGACACGTTATGCGTGAACCTAGTTGGGCATTCATTATGGAA
* * * *
4196910 AAAAGTATCGACACAAACTTA-AAAAGTGTCGATACTTTATGTTGACCTGTTTTATAAT-TAACC
129 AAAAGTATCGACACAAACTTACAAAAGTGTCGATACTTTAT-TTGACCTATTTTCTCATAAAACC
4196973 GGTAT
193 GGTAT
* * ** * *
4196978 ATGTATACTGGTTACATTGTTAATTTAAATATTACATTATAATTATTTGTTTCAATGTTTTTGGG
1 ATTTATACTGGTTACATTGTAAATTTACCTATTACATTATAATTATTCGTTTCGATGTTTTTGGG
*
4197043 TCGATAC-TTTTTGAAAATGTATCGACAC
66 TCGATACAATTTT--AAATGTATCGACAC
4197071 ATATTCTTAC
Statistics
Matches: 416, Mismatches: 54, Indels: 42
0.81 0.11 0.08
Matches are distributed among these distances:
194 4 0.01
195 8 0.02
196 73 0.18
197 61 0.15
198 105 0.25
199 64 0.15
200 1 0.00
203 7 0.02
204 62 0.15
205 29 0.07
206 2 0.00
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (197 bp):
ATTTATACTGGTTACATTGTAAATTTACCTATTACATTATAATTATTCGTTTCGATGTTTTTGGG
TCGATACAATTTTAAATGTATCGACACGTTATGCGTGAACCTAGTTGGGCATTCATTATGGAAAA
AAGTATCGACACAAACTTACAAAAGTGTCGATACTTTATTTGACCTATTTTCTCATAAAACCGGT
AT
Found at i:4199481 original size:21 final size:21
Alignment explanation
Indices: 4199455--4199495 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4199445 TGGATAAAAA
*
4199455 TGTATCGAAACTTGATGTATT
1 TGTATCGAAACTTCATGTATT
*
4199476 TGTATCGATACTTCATGTAT
1 TGTATCGAAACTTCATGTAT
4199496 ACATGTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (21 bp):
TGTATCGAAACTTCATGTATT
Found at i:4199751 original size:199 final size:200
Alignment explanation
Indices: 4199355--4200233 Score: 1047
Period size: 199 Copynumber: 4.3 Consensus size: 200
4199345 AGACATTTGG
* * *
4199355 TTATAATTATGTTTTTCGATGTTTTTGGGATCGACAATTGTTATAAATATATCGAAACTTTGTT-
1 TTATAATTATGTTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTT-TTA
* * * * * * * * *
4199419 GTGCACTTGGTTTTTAAAATATAGTCTGGATAAAAATGTATCGAAACTTGATGTATTTGTATCGA
65 GTGCACTTGGCTTTTGAAATACATTCTGGAGAAAAA-GTATCGACACTTGTTATATTTGTGTCGA
** * * * * * *
4199484 TACTTCATGTATACATGTTTTCTCATAAACCGGTACATTTAGACCAG-TTACATTGTTAATTTAC
129 TACTTTTTGTACACCTGTTTTCTCAAAAACCAGTATATTTAGACC-GTTTACATTGATAATTTAC
4199548 CTATTACA
193 CTATTACA
*
4199556 TTATAATTATAG-TTTTCTATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTA
1 TTATAATTAT-GTTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTA
*
4199620 GTGCACTTGG-TTTTGAAATACATTCTGGAGAAAAAGTATCGACACTTGTTATATTTGTGTCCAT
65 GTGCACTTGGCTTTTGAAATACATTCTGGAGAAAAAGTATCGACACTTGTTATATTTGTGTCGAT
*
4199684 ACTTTTTGTATACCTGTTTTCTCAAAAACCAGTATATTTAGACCGTTTACA-TGAATAATTTACC
130 ACTTTTTGTACACCTGTTTTCTCAAAAACCAGTATATTTAGACCGTTTACATTG-ATAATTTACC
4199748 TATTACA
194 TATTACA
* *
4199755 TTATAATTATGTTTTTCGATGTTTTCGGGATCGACACTTGTTTTAAATGTATCGACACTTGTTTT
1 TTATAATTATGTTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACAC-T-TTTT
* **
4199820 AAATGTATCGACACTTTTATGTGCACTTGGTTCTGAAATACATTTTGGACCAAAAGTATCGACAC
64 --A-G--T-G-CAC---T-TG-G--C-T--TT-TGAAATACATTCTGGAGAAAAAGTATCGACAC
* * * *
4199885 TTGTTCTATTTGTGTCGATACTGTTTGTACAGCTATTTTCTCAAAAA-CAGGTATATTTAGACCG
111 TTGTTATATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCAAAAACCA-GTATATTTAGACCG
* * *
4199949 GTTATATTGCTAATTTACCTATTACA
175 TTTACATTGATAATTTACCTATTACA
*
4199975 TTATAATTATAG-TTTTCGATGTTTTTGGGATCGACACTTGTTATATATGTATCGACACTTTTTA
1 TTATAATTAT-GTTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTA
* * *
4200039 GTGCACTTGG-TTTTGAAATACAATATGGAGAAAAAGTATCGACACTTGTTAGATTTGTGTCGAT
65 GTGCACTTGGCTTTTGAAATACATTCTGGAGAAAAAGTATCGACACTTGTTATATTTGTGTCGAT
* *
4200103 ACTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCTTTTACA-TGAATAATTTACC
130 ACTTTTTGTACACCTGTTTTCTCAAAAACCAGTATATTTAGACCGTTTACATTG-ATAATTTACC
4200167 TATTACA
194 TATTACA
* * *
4200174 TTATAATTATGTTTTTCGATGTTTTCGGAATCGACACTTGTTTTAAATGTATCGACACTT
1 TTATAATTATGTTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTT
4200234 GTTTTATTTG
Statistics
Matches: 590, Mismatches: 56, Indels: 66
0.83 0.08 0.09
Matches are distributed among these distances:
198 7 0.01
199 293 0.50
200 27 0.05
201 69 0.12
202 2 0.00
203 1 0.00
204 1 0.00
206 2 0.00
207 3 0.01
208 4 0.01
211 4 0.01
212 3 0.01
213 2 0.00
215 1 0.00
216 1 0.00
217 1 0.00
218 4 0.01
219 5 0.01
220 157 0.27
221 3 0.01
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (200 bp):
TTATAATTATGTTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAG
TGCACTTGGCTTTTGAAATACATTCTGGAGAAAAAGTATCGACACTTGTTATATTTGTGTCGATA
CTTTTTGTACACCTGTTTTCTCAAAAACCAGTATATTTAGACCGTTTACATTGATAATTTACCTA
TTACA
Found at i:4199810 original size:21 final size:21
Alignment explanation
Indices: 4199784--4199835 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
4199774 TGTTTTCGGG
4199784 ATCGACACTTGTTTTAAATGT
1 ATCGACACTTGTTTTAAATGT
4199805 ATCGACACTTGTTTTAAATGT
1 ATCGACACTTGTTTTAAATGT
4199826 ATCGACACTT
1 ATCGACACTT
4199836 TTATGTGCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.40
Consensus pattern (21 bp):
ATCGACACTTGTTTTAAATGT
Found at i:4199967 original size:220 final size:220
Alignment explanation
Indices: 4199585--4200034 Score: 683
Period size: 220 Copynumber: 2.0 Consensus size: 220
4199575 TGTTTTTGGG
* *
4199585 ATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATTCTGGAG
1 ATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTCTGAAATACATTCTGGAC
* * *
4199650 AAAAAGTATCGACACTTGTTATATTTGTGTCCATACTTTTTGTATACCTGTTTTCTCAAAAACCA
66 AAAAAGTATCGACACTTGTTATATTTGTGTCCATACTGTTTGTACACCTATTTTCTCAAAAACCA
*
4199715 GTATATTTAGACCGTTTACATGAATAATTTACCTATTACATTATAATTAT-GTTTTTCGATGTTT
131 GTATATTTAGACCGGTTACATGAATAATTTACCTATTACATTATAATTATAG-TTTTCGATGTTT
*
4199779 TCGGGATCGACACTTGTTTTAAATGT
195 TCGGGATCGACACTTGTTATAAATGT
* *
4199805 ATCGACACTTGTTTTAAATGTATCGACAC-TTTTATGTGCACTTGGTTCTGAAATACATTTTGGA
1 ATCGACACTTGTTATAAATGTATCGACACTTTTTA-GTGCACTTGGTTCTGAAATACATTCTGGA
* * * *
4199869 CCAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTGTTTGTACAGCTATTTTCTCAAAAA-C
65 CAAAAAGTATCGACACTTGTTATATTTGTGTCCATACTGTTTGTACACCTATTTTCTCAAAAACC
* *
4199933 AGGTATATTTAGACCGGTTATATTG-CTAATTTACCTATTACATTATAATTATAGTTTTCGATGT
130 A-GTATATTTAGACCGGTTACA-TGAATAATTTACCTATTACATTATAATTATAGTTTTCGATGT
* *
4199997 TTTTGGGATCGACACTTGTTATATATGT
193 TTTCGGGATCGACACTTGTTATAAATGT
4200025 ATCGACACTT
1 ATCGACACTT
4200035 TTTAGTGCAC
Statistics
Matches: 209, Mismatches: 17, Indels: 8
0.89 0.07 0.03
Matches are distributed among these distances:
219 7 0.03
220 199 0.95
221 3 0.01
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (220 bp):
ATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTCTGAAATACATTCTGGAC
AAAAAGTATCGACACTTGTTATATTTGTGTCCATACTGTTTGTACACCTATTTTCTCAAAAACCA
GTATATTTAGACCGGTTACATGAATAATTTACCTATTACATTATAATTATAGTTTTCGATGTTTT
CGGGATCGACACTTGTTATAAATGT
Found at i:4200234 original size:419 final size:421
Alignment explanation
Indices: 4199384--4200239 Score: 1344
Period size: 419 Copynumber: 2.0 Consensus size: 421
4199374 TGTTTTTGGG
* * * *
4199384 ATCGACAATTGTTATAAATATATCGAAACTTTGTTGTGCACTTGGTTTTTAAAATATAGTCTGGA
1 ATCGACACTTGTTTTAAATATATCGAAACTTTGTTGTGCACTTGGTTTCTAAAATACAGTCTGGA
* * * * *
4199449 TAAAAATGTATCGAAACTTGATGTATTTGTATCGATACTTCATGTATACATGTTTTCTCATAAAC
66 CAAAAATGTATCGAAACTTGATCTATTTGTATCGATACTTCATGTACACATATTTTCTCAAAAAC
* * *
4199514 CGGTACATTTAGACCAGTTACATTGTTAATTTACCTATTACATTATAATTATAGTTTTCTATGTT
131 AGGTACATTTAGACCAGTTACATTGCTAATTTACCTATTACATTATAATTATAGTTTTCGATGTT
*
4199579 TTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACATT
196 TTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACAAT
* * *
4199644 CTGGAGAAAAAGTATCGACACTTGTTATATTTGTGTCCATACTTTTTGTATACCTGTTTTCTCAA
261 ATGGAGAAAAAGTATCGACACTTGTTAGATTTGTGTCCATACTTTTTGTACACCTGTTTTCTCAA
4199709 AAACCAGTATATTTAGACCGTTTACATGAATAATTTACCTATTACATTATAATTATGTTTTTCGA
326 AAACCAGTATATTTAGACCGTTTACATGAATAATTTACCTATTACATTATAATTATGTTTTTCGA
*
4199774 TGTTTTCGGGATCGACACTTGTTTTAAATGT
391 TGTTTTCGGAATCGACACTTGTTTTAAATGT
* * * * *
4199805 ATCGACACTTGTTTTAAATGTATCGACACTTT-TATGTGCACTTGG-TTCTGAAATACATTTTGG
1 ATCGACACTTGTTTTAAATATATCGAAACTTTGT-TGTGCACTTGGTTTCTAAAATACAGTCTGG
* * * * *
4199868 ACCAAAA-GTATCGACACTTGTTCTATTTGTGTCGATACTGT-TTGTACAGC-TATTTTCTCAAA
65 ACAAAAATGTATCGAAACTTGATCTATTTGTATCGATACT-TCATGTACA-CATATTTTCTCAAA
* * *
4199930 AACAGGTATATTTAGACCGGTTATATTGCTAATTTACCTATTACATTATAATTATAGTTTTCGAT
128 AACAGGTACATTTAGACCAGTTACATTGCTAATTTACCTATTACATTATAATTATAGTTTTCGAT
*
4199995 GTTTTTGGGATCGACACTTGTTATATATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATAC
193 GTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATAC
*
4200060 AATATGGAGAAAAAGTATCGACACTTGTTAGATTTGTGTCGATACTTTTTGTACACCTGTTTTCT
258 AATATGGAGAAAAAGTATCGACACTTGTTAGATTTGTGTCCATACTTTTTGTACACCTGTTTTCT
* *
4200125 CAAAAACCGGTATATTTAGACCTTTTACATGAATAATTTACCTATTACATTATAATTATGTTTTT
323 CAAAAACCAGTATATTTAGACCGTTTACATGAATAATTTACCTATTACATTATAATTATGTTTTT
4200190 CGATGTTTTCGGAATCGACACTTGTTTTAAATGT
388 CGATGTTTTCGGAATCGACACTTGTTTTAAATGT
4200224 ATCGACACTTGTTTTA
1 ATCGACACTTGTTTTA
4200240 TTTGTGTCGA
Statistics
Matches: 398, Mismatches: 34, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
419 338 0.85
420 21 0.05
421 39 0.10
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (421 bp):
ATCGACACTTGTTTTAAATATATCGAAACTTTGTTGTGCACTTGGTTTCTAAAATACAGTCTGGA
CAAAAATGTATCGAAACTTGATCTATTTGTATCGATACTTCATGTACACATATTTTCTCAAAAAC
AGGTACATTTAGACCAGTTACATTGCTAATTTACCTATTACATTATAATTATAGTTTTCGATGTT
TTTGGGATCGACACTTGTTATAAATGTATCGACACTTTTTAGTGCACTTGGTTTTGAAATACAAT
ATGGAGAAAAAGTATCGACACTTGTTAGATTTGTGTCCATACTTTTTGTACACCTGTTTTCTCAA
AAACCAGTATATTTAGACCGTTTACATGAATAATTTACCTATTACATTATAATTATGTTTTTCGA
TGTTTTCGGAATCGACACTTGTTTTAAATGT
Found at i:4201192 original size:182 final size:179
Alignment explanation
Indices: 4200885--4201467 Score: 640
Period size: 182 Copynumber: 3.3 Consensus size: 179
4200875 GCGTTTTACT
* * * *
4200885 GGTTTTGCCAATTTTGAGACCTGTTTTATCATATTTTTACATGTTATATTGTTATCGATTAATAC
1 GGTTTTGTC-ATTTTGAGACC-GTTTTATCATATTTGTACCTGTTATATTGGTATCGATT-ATAC
* * * *
4200950 ATTTTCATAAAGTGTCGACACGTTTTAAGCGCAATAACTTTTTCTCTTTTAAATTCAGAAAGTGT
63 ATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGT
4201015 TGATACTTATATTAAATTATCGACACTCTTAACATATTCGGTAACTTTTTCC
128 TGATACTTATATTAAATTATCGACACTCTTAACATATTCGGTAACTTTTTCC
* **
4201067 GGTTTTGTCATTTTTTAGACCTGTTTTATCATATTTGTACCTGTTATATTGGTAAGGATTGATAC
1 GGTTTTGTCA-TTTTGAGACC-GTTTTATCATATTTGTACCTGTTATATTGGTATCGATT-ATAC
*
4201132 ATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAATTGT
63 ATTTTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGT
* * * *
4201197 CGATACTAATATTAAATTATCGACACT-TTCAATATATCCGGTAACTTTTTCC
128 TGATACTTATATTAAATTATCGACACTCTT-AACATATTCGGTAACTTTTTCC
* ** * * * *
4201249 GG-TTT-TC--------A--GTTTTATCATATTTTTACCTGTTATATTATTGTGGATCGATATAT
1 GGTTTTGTCATTTTGAGACCGTTTTATCATATTTGTACCTGTTATATTGGTATCGAT-TATACAT
** * *
4201302 TTTTTTAAAGTATCGACACTTTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGT-TTC
65 TTTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTT-
* * *
4201366 GATACTTATATTAAATTATCGACACTC--GACATATATCCGGTAGCGTTTTACC
129 GATACTTATATTAAATTATCGACACTCTTAACATAT-T-CGGTAAC-TTTTTCC
* * *
4201418 GGTTTTGTCATTTTGGGACCGATTTTGTCATATTTGTACCTGTAATATTG
1 GGTTTTGTCATTTTGAGACCG-TTTTATCATATTTGTACCTGTTATATTG
4201468 CTATGGAGCG
Statistics
Matches: 340, Mismatches: 40, Indels: 42
0.81 0.09 0.10
Matches are distributed among these distances:
166 5 0.01
167 1 0.00
168 124 0.36
169 8 0.02
170 3 0.01
171 3 0.01
179 1 0.00
180 2 0.01
181 7 0.02
182 186 0.55
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (179 bp):
GGTTTTGTCATTTTGAGACCGTTTTATCATATTTGTACCTGTTATATTGGTATCGATTATACATT
TTCATAAAGTGTCGACACTTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTTGA
TACTTATATTAAATTATCGACACTCTTAACATATTCGGTAACTTTTTCC
Found at i:4201443 original size:20 final size:21
Alignment explanation
Indices: 4201415--4201453 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
4201405 GTAGCGTTTT
*
4201415 ACCGGTTTTGTCAT-TTTGGG
1 ACCGATTTTGTCATATTTGGG
4201435 ACCGATTTTGTCATATTTG
1 ACCGATTTTGTCATATTTG
4201454 TACCTGTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.15, C:0.15, G:0.23, T:0.46
Consensus pattern (21 bp):
ACCGATTTTGTCATATTTGGG
Found at i:4210226 original size:20 final size:20
Alignment explanation
Indices: 4210201--4210238 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
4210191 TGAAAAATTA
*
4210201 ATTGGTGCATCGATGCATGG
1 ATTGGTACATCGATGCATGG
*
4210221 ATTGGTACATCGGTGCAT
1 ATTGGTACATCGATGCAT
4210239 CACTTTGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.32
Consensus pattern (20 bp):
ATTGGTACATCGATGCATGG
Found at i:4210232 original size:91 final size:91
Alignment explanation
Indices: 4210068--4210240 Score: 235
Period size: 91 Copynumber: 1.9 Consensus size: 91
4210058 TTGGACCCTT
* *
4210068 AGTGCATCGATGCATAAAATGCATTCGATGTTTTGAAAAAGCCAGAGTGCATCGATGCATGGTCT
1 AGTGCATCGACGCATAAAATGCATTCGATGTTTTGAAAAAGCAAGAGTGCATCGATGCATGGTCT
* *
4210133 TGTGCATCGATGCATCAAATGCACTG
66 GGTACATCGATGCATCAAATGCACTG
**
4210159 AGTGCATCGACGCATAAAATGCATTCGATG-TTTGAAAAATTAATTG-GTGCATCGATGCATGGA
1 AGTGCATCGACGCATAAAATGCATTCGATGTTTTGAAAAAGCAA--GAGTGCATCGATGCATGG-
*
4210222 T-TGGTACATCGGTGCATCA
63 TCTGGTACATCGATGCATCA
4210241 CTTTGAAAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
90 10 0.14
91 60 0.83
92 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.28
Consensus pattern (91 bp):
AGTGCATCGACGCATAAAATGCATTCGATGTTTTGAAAAAGCAAGAGTGCATCGATGCATGGTCT
GGTACATCGATGCATCAAATGCACTG
Found at i:4219895 original size:227 final size:227
Alignment explanation
Indices: 4219534--4220132 Score: 737
Period size: 227 Copynumber: 2.6 Consensus size: 227
4219524 AAATATCCTA
* * *
4219534 AATCGAGCAAAGAAAATG-TGAAAACATCCTGCCCGAAGGTCTTATGGATGGCCCGAAGGACTTA
1 AATCGAGCAAAGGAAATGTTGAAAACATCCAGCCCGAAGGTCTTATGGATGGCCCAAAGGACTTA
* * * * *
4219598 TCATCTT-ACTCGAAAGACTTATAGATGACCCAAAGTATTTAAGCATCATGCTTGAAAGACGTAT
66 TCATATTGA-TCGAAAGACTTATAGATGACCCAAAGAATTTAAGCATCATGCTCGAAAGACTTAC
* * * *
4219662 TGATGGCTTAAAAGACTTTTTCTAATTCAAAATGCCATGAATCGAGCAATAGGAAATGTTAATCC
130 TGATGGCTCAAAAGACTTTTGCTAATACAAAATGCCATGAATCGAGCAATA-GAAATGATAATCC
*
4219727 CTCTAGT-AGG-G-CATGCTGATTCGAAGTGTTGTG
194 CTCAAGTGAGGAGTCA--CTGATTCGAAGTGTTGTG
* * * * * *
4219760 AATCAAGCAAAGGAAATGTTGAAAACATCCACCCCAAAAGTCTTATGAATGACCCAAAGGACTTA
1 AATCGAGCAAAGGAAATGTTGAAAACATCCAGCCCGAAGGTCTTATGGATGGCCCAAAGGACTTA
* * * *
4219825 TGATATTGATCGAAAGACTTATAGATAACTCAAAGGATTTAAGCATCATGCTCGAAAGACTTACT
66 TCATATTGATCGAAAGACTTATAGATGACCCAAAGAATTTAAGCATCATGCTCGAAAGACTTACT
* * * * * * * *
4219890 GATGGCCCGAAGGACTTTTGCTGATACGAAATGTCATGAATTGAGCAATAGAAATGATGATCCCT
131 GATGGCTCAAAAGACTTTTGCTAATACAAAATGCCATGAATCGAGCAATAGAAATGATAATCCCT
4219955 CAAGTGAGGAGTCACTGATTCGAAGTGTTGTG
196 CAAGTGAGGAGTCACTGATTCGAAGTGTTGTG
* * * *
4219987 AATCGAGCAAAGGAAATATTGAAAACAT-CATGCCTGAAGGTCTTATGGATGGCTCAAATGACTT
1 AATCGAGCAAAGGAAATGTTGAAAACATCCA-GCCCGAAGGTCTTATGGATGGCCCAAAGGACTT
* * *
4220051 ATCATCTTTG-TCGAAAGACTTATAGATGACCCGAAGAATTTAA-CATCATTCTCGAAAGACTTA
65 ATCAT-ATTGATCGAAAGACTTATAGATGACCCAAAGAATTTAAGCATCATGCTCGAAAGACTTA
*
4220114 CTGATGGCTCAAATGACTT
129 CTGATGGCTCAAAAGACTT
4220133 ACTCATCAAG
Statistics
Matches: 316, Mismatches: 50, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
226 70 0.22
227 239 0.76
228 5 0.02
229 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.27
Consensus pattern (227 bp):
AATCGAGCAAAGGAAATGTTGAAAACATCCAGCCCGAAGGTCTTATGGATGGCCCAAAGGACTTA
TCATATTGATCGAAAGACTTATAGATGACCCAAAGAATTTAAGCATCATGCTCGAAAGACTTACT
GATGGCTCAAAAGACTTTTGCTAATACAAAATGCCATGAATCGAGCAATAGAAATGATAATCCCT
CAAGTGAGGAGTCACTGATTCGAAGTGTTGTG
Found at i:4220073 original size:41 final size:40
Alignment explanation
Indices: 4220028--4220140 Score: 111
Period size: 41 Copynumber: 2.7 Consensus size: 40
4220018 GCCTGAAGGT
* *
4220028 CTTATGGATGGCTCAAATGACTTATCATCTTTGTCGAAAGA
1 CTTAT-GATGGCTCAAATGACTTATCATCATTCTCGAAAGA
* * * * *
4220069 CTTATAGATGACCCGAA-GAATTTAACATCATTCTCGAAAGA
1 CTTAT-GATGGCTCAAATG-ACTTATCATCATTCTCGAAAGA
4220110 CTTACTGATGGCTCAAATGACTTACTCATCA
1 CTTA-TGATGGCTCAAATGACTTA-TCATCA
4220141 AGAAACCCTT
Statistics
Matches: 55, Mismatches: 13, Indels: 7
0.73 0.17 0.09
Matches are distributed among these distances:
40 1 0.02
41 47 0.85
42 7 0.13
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (40 bp):
CTTATGATGGCTCAAATGACTTATCATCATTCTCGAAAGA
Found at i:4220344 original size:58 final size:58
Alignment explanation
Indices: 4220188--4220590 Score: 491
Period size: 58 Copynumber: 7.1 Consensus size: 58
4220178 TTTTAAATTT
* * * * *
4220188 ATCATTAAGAAACCCCTAAAAATTAGGCTTAAC-T-TATTAAAAATTCATTGGAAATA
1 ATCATCAAGAAACCCCTAAAAATCAGGCTTAGCTTCTTTTAAAAATTCATTGGAAATC
* *
4220244 ATCATCAAGAAA-CCCTGAAAATCAGGCTTAGCTTCTTTTAAAAACTCATTGGAAATC
1 ATCATCAAGAAACCCCTAAAAATCAGGCTTAGCTTCTTTTAAAAATTCATTGGAAATC
* *
4220301 ATCATCAAGAAACCCCTCAAAATCAGGCTTAGCTTCTTTTAAAAATTCGTTGGAAATC
1 ATCATCAAGAAACCCCTAAAAATCAGGCTTAGCTTCTTTTAAAAATTCATTGGAAATC
* *
4220359 ATCATCAAGAAAACCCTAAAAATCAGGCTTAGATTCTTTTAAAAATTCATTGGAAATC
1 ATCATCAAGAAACCCCTAAAAATCAGGCTTAGCTTCTTTTAAAAATTCATTGGAAATC
* * *** *
4220417 ATCATCAAGAAATCCC-AGAAAATCAGGCTTAGTTTCTAAAAAAAACTCATTGGAAATC
1 ATCATCAAGAAACCCCTA-AAAATCAGGCTTAGCTTCTTTTAAAAATTCATTGGAAATC
* * * * * *
4220475 ATCATCAAGAAACCCTTGAAAATCAGGCTTAG-TT-TCTAAAAAACTCATTTGAAA--
1 ATCATCAAGAAACCCCTAAAAATCAGGCTTAGCTTCTTTTAAAAATTCATTGGAAATC
* * * *
4220529 A-CATCAAGAAACCCCTAAAAATTAGGCTTAACTTCTTTTAAAAATTCATTTGAAAAC
1 ATCATCAAGAAACCCCTAAAAATCAGGCTTAGCTTCTTTTAAAAATTCATTGGAAATC
4220586 ATCAT
1 ATCAT
4220591 ATCAAGGAAC
Statistics
Matches: 304, Mismatches: 33, Indels: 18
0.86 0.09 0.05
Matches are distributed among these distances:
53 26 0.09
54 3 0.01
55 34 0.11
56 29 0.10
57 35 0.12
58 177 0.58
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (58 bp):
ATCATCAAGAAACCCCTAAAAATCAGGCTTAGCTTCTTTTAAAAATTCATTGGAAATC
Found at i:4220400 original size:116 final size:114
Alignment explanation
Indices: 4220135--4220590 Score: 520
Period size: 116 Copynumber: 4.0 Consensus size: 114
4220125 AATGACTTAC
** * * * * *
4220135 TCATCAAGAAACCCTTGAAAATCAATCTCAGTT-TCTTAAAAACT--TT-TAAATTTATCATTAA
1 TCATCAAGAAACCC-TGAAAATCAGGCTTAGTTCTTTTAAAAACTCATTGGAAA-TCATCATCAA
* *
4220196 GAAACCCCTAAAAATTAGGCTTAAC-T-TATTAAAAATTCATTGGAAATAA
64 GAAACCCCTAAAAATCAGGCTTAACTTCTATTAAAAATTCATTGGAAATCA
4220245 TCATCAAGAAACCCTGAAAATCAGGCTTAGCTTCTTTTAAAAACTCATTGGAAATCATCATCAAG
1 TCATCAAGAAACCCTGAAAATCAGGCTTAG-TTCTTTTAAAAACTCATTGGAAATCATCATCAAG
* * * *
4220310 AAACCCCTCAAAATCAGGCTTAGCTTCTTTTAAAAATTCGTTGGAAATCA
65 AAACCCCTAAAAATCAGGCTTAACTTCTATTAAAAATTCATTGGAAATCA
* *
4220360 TCATCAAGAAAACCCTAAAAATCAGGCTTAGATTCTTTTAAAAATTCATTGGAAATCATCATCAA
1 TCATCAAG-AAACCCTGAAAATCAGGCTTAG-TTCTTTTAAAAACTCATTGGAAATCATCATCAA
* ** ** *
4220425 GAAATCCC-AGAAAATCAGGCTTAGTTTCTAAAAAAAACTCATTGGAAATCA
64 GAAACCCCTA-AAAATCAGGCTTAACTTCTATTAAAAATTCATTGGAAATCA
* * *
4220476 TCATCAAGAAACCCTTGAAAATCAGGCTTAGTT-TCTAAAAAACTCATTTGAAA--A-CATCAAG
1 TCATCAAGAAACCC-TGAAAATCAGGCTTAGTTCTTTTAAAAACTCATTGGAAATCATCATCAAG
* * * *
4220537 AAACCCCTAAAAATTAGGCTTAACTTCTTTTAAAAATTCATTTGAAAACA
65 AAACCCCTAAAAATCAGGCTTAACTTCTATTAAAAATTCATTGGAAATCA
4220587 TCAT
1 TCAT
4220591 ATCAAGGAAC
Statistics
Matches: 296, Mismatches: 39, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
109 13 0.04
110 16 0.05
111 59 0.20
112 2 0.01
113 32 0.11
114 20 0.07
115 36 0.12
116 118 0.40
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (114 bp):
TCATCAAGAAACCCTGAAAATCAGGCTTAGTTCTTTTAAAAACTCATTGGAAATCATCATCAAGA
AACCCCTAAAAATCAGGCTTAACTTCTATTAAAAATTCATTGGAAATCA
Found at i:4220472 original size:174 final size:168
Alignment explanation
Indices: 4220188--4220590 Score: 551
Period size: 174 Copynumber: 2.4 Consensus size: 168
4220178 TTTTAAATTT
* *
4220188 ATCATTAAGAAACCCCTAAAAATTAGGCTTAA--CTTATTAAAAATTCATTGGAAATAATCATCA
1 ATCATCAAGAAACCCCTAAAAATTAGGCTTAATTCTT-TTAAAAATTCATTGGAAATCATCATCA
* ***
4220251 AGAAACCCTGAAAATCAGGCTTAGCTTCTTTTAAAAACTCATTGGAAATCATCATCAAGAAACCC
65 AGAAACCCAGAAAATCAGGCTTAGCTTCTAAAAAAAACTCATTGGAAATCATCATCAAGAAACCC
* * * *
4220316 CTCAAAATCAGGCTTAGCTTCTTTTAAAAATTCGTTGGAAA
130 CTCAAAATCAGGCTTAG-TT-TCTAAAAAACTCATTGGAAA
* *
4220357 TCATCATCAAGAAAACCCTAAAAATCAGGCTTAGATTCTTTTAAAAATTCATTGGAAATCATCAT
1 --ATCATCAAGAAACCCCTAAAAATTAGGCTTA-ATTCTTTTAAAAATTCATTGGAAATCATCAT
*
4220422 CAAGAAATCCCAGAAAATCAGGCTTAGTTTCTAAAAAAAACTCATTGGAAATCATCATCAAGAAA
63 CAAGAAA-CCCAGAAAATCAGGCTTAGCTTCTAAAAAAAACTCATTGGAAATCATCATCAAGAAA
* * *
4220487 CCCTTGAAAATCAGGCTTAGTTTCTAAAAAACTCATTTGAAA
127 CCCCTCAAAATCAGGCTTAGTTTCTAAAAAACTCATTGGAAA
* *
4220529 A-CATCAAGAAACCCCTAAAAATTAGGCTTAACTTCTTTTAAAAATTCATTTGAAAACATCAT
1 ATCATCAAGAAACCCCTAAAAATTAGGCTTAA-TTCTTTTAAAAATTCATTGGAAATCATCAT
4220591 ATCAAGGAAC
Statistics
Matches: 207, Mismatches: 20, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
168 1 0.00
169 55 0.27
170 1 0.00
171 28 0.14
172 16 0.08
173 33 0.16
174 73 0.35
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (168 bp):
ATCATCAAGAAACCCCTAAAAATTAGGCTTAATTCTTTTAAAAATTCATTGGAAATCATCATCAA
GAAACCCAGAAAATCAGGCTTAGCTTCTAAAAAAAACTCATTGGAAATCATCATCAAGAAACCCC
TCAAAATCAGGCTTAGTTTCTAAAAAACTCATTGGAAA
Found at i:4222545 original size:14 final size:15
Alignment explanation
Indices: 4222526--4222565 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 15
4222516 TTGGATATGT
4222526 TTTCTTTTTCTT-TC
1 TTTCTTTTTCTTATC
4222540 TTTCTTCTTTCTTATC
1 TTTCTT-TTTCTTATC
4222556 TCTTCTTTTT
1 T-TTCTTTTT
4222566 TTTTGTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 6 0.26
15 6 0.26
16 6 0.26
17 5 0.22
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTCTTTTTCTTATC
Found at i:4222843 original size:2 final size:2
Alignment explanation
Indices: 4222836--4222882 Score: 58
Period size: 2 Copynumber: 23.5 Consensus size: 2
4222826 TAAGGAATAA
* * * *
4222836 AC AC AC AC AC AC AC AC AT AC AC AT AC AC AT AC AC AT AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
4222878 AC AC A
1 AC AC A
4222883 TATATATTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.40, G:0.00, T:0.09
Consensus pattern (2 bp):
AC
Found at i:4222847 original size:6 final size:6
Alignment explanation
Indices: 4222836--4222884 Score: 71
Period size: 6 Copynumber: 8.2 Consensus size: 6
4222826 TAAGGAATAA
* * *
4222836 ACACAC ACACAC ACACAT ACACAT ACACAT ACACAT ACACAC ACACAT
1 ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT ACACAT
4222884 A
1 A
4222885 TATATTGAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.51, C:0.39, G:0.00, T:0.10
Consensus pattern (6 bp):
ACACAT
Found at i:4222863 original size:18 final size:18
Alignment explanation
Indices: 4222836--4222884 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
4222826 TAAGGAATAA
*
4222836 ACACACACACACACACAT
1 ACACACACACATACACAT
*
4222854 ACACATACACATACACAT
1 ACACACACACATACACAT
4222872 ACACACACACATA
1 ACACACACACATA
4222885 TATATTGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.51, C:0.39, G:0.00, T:0.10
Consensus pattern (18 bp):
ACACACACACATACACAT
Found at i:4223965 original size:14 final size:15
Alignment explanation
Indices: 4223945--4223981 Score: 51
Period size: 13 Copynumber: 2.6 Consensus size: 15
4223935 GCAAATGCAA
*
4223945 AGATGCAAAAATGGG
1 AGATGCAAAAATGCG
4223960 AG-TGC-AAAATGCG
1 AGATGCAAAAATGCG
4223973 AGATGCAAA
1 AGATGCAAA
4223982 TGCAACAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
13 9 0.47
14 6 0.32
15 4 0.21
ACGTcount: A:0.46, C:0.11, G:0.30, T:0.14
Consensus pattern (15 bp):
AGATGCAAAAATGCG
Found at i:4228964 original size:20 final size:20
Alignment explanation
Indices: 4228941--4228994 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
4228931 CTTCTATGGG
*
4228941 GGTATCGATACTCTACCCTT
1 GGTATCGATACTCCACCCTT
4228961 GGTATCGATACTCCACCCTT
1 GGTATCGATACTCCACCCTT
4228981 GGTATCGATACTCC
1 GGTATCGATACTCC
4228995 CATAGAGTAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.20, C:0.31, G:0.17, T:0.31
Consensus pattern (20 bp):
GGTATCGATACTCCACCCTT
Found at i:4233735 original size:21 final size:21
Alignment explanation
Indices: 4233709--4233757 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
4233699 AGCCATAACC
4233709 ATAACACCCCTTAGTCCCAAA
1 ATAACACCCCTTAGTCCCAAA
4233730 ATAACACCCCTTAGTCCCAAA
1 ATAACACCCCTTAGTCCCAAA
4233751 ATAACAC
1 ATAACAC
4233758 ACTCCGAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.41, C:0.37, G:0.04, T:0.18
Consensus pattern (21 bp):
ATAACACCCCTTAGTCCCAAA
Found at i:4240698 original size:21 final size:21
Alignment explanation
Indices: 4240672--4240711 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4240662 CCCCCTTTGA
*
4240672 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
4240693 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
4240712 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:4242724 original size:69 final size:69
Alignment explanation
Indices: 4242636--4242773 Score: 276
Period size: 69 Copynumber: 2.0 Consensus size: 69
4242626 AAATGGGAGA
4242636 AGTGTTAAAGTAAGGGGGAGTAATTTCAAAACTTGATTTCAAAATCTTAAAATTACTAAAATGTT
1 AGTGTTAAAGTAAGGGGGAGTAATTTCAAAACTTGATTTCAAAATCTTAAAATTACTAAAATGTT
4242701 TTGT
66 TTGT
4242705 AGTGTTAAAGTAAGGGGGAGTAATTTCAAAACTTGATTTCAAAATCTTAAAATTACTAAAATGTT
1 AGTGTTAAAGTAAGGGGGAGTAATTTCAAAACTTGATTTCAAAATCTTAAAATTACTAAAATGTT
4242770 TTGT
66 TTGT
4242774 TATATCAAAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.36
Consensus pattern (69 bp):
AGTGTTAAAGTAAGGGGGAGTAATTTCAAAACTTGATTTCAAAATCTTAAAATTACTAAAATGTT
TTGT
Found at i:4244815 original size:83 final size:83
Alignment explanation
Indices: 4244721--4244897 Score: 309
Period size: 83 Copynumber: 2.1 Consensus size: 83
4244711 CTAAGCTAAG
*
4244721 GTATCGATACTGACCAATGTATCGATATTAAATTTTGGTTTAACGTTTGAAAAATTACATCGATA
1 GTATCGATACTGACCAAGGTATCGATATTAAATTTTGGTTTAACGTTTGAAAAATTACATCGATA
4244786 TCAATACTCCGATGGGGA
66 TCAATACTCCGATGGGGA
* *
4244804 GTATCGATACTGACCAAGGTATCGATATTAAATTTTGGTTTGATGTTTGAAAAATTACATCGATA
1 GTATCGATACTGACCAAGGTATCGATATTAAATTTTGGTTTAACGTTTGAAAAATTACATCGATA
* *
4244869 TCGATACTCCTATGGGGA
66 TCAATACTCCGATGGGGA
4244887 GTATCGATACT
1 GTATCGATACT
4244898 TTACCCTTTG
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 89 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.34
Consensus pattern (83 bp):
GTATCGATACTGACCAAGGTATCGATATTAAATTTTGGTTTAACGTTTGAAAAATTACATCGATA
TCAATACTCCGATGGGGA
Found at i:4260598 original size:17 final size:17
Alignment explanation
Indices: 4260533--4260600 Score: 55
Period size: 17 Copynumber: 3.9 Consensus size: 17
4260523 ATGCATCTAT
* *
4260533 TTCATTTAATAAAGATAG
1 TTCATTTATTAAA-CTAG
* * *
4260551 CTCATTAATTAAAGTAG
1 TTCATTTATTAAACTAG
* * *
4260568 TTAATTCATCAAACTAG
1 TTCATTTATTAAACTAG
4260585 TTCATTTATTAAACTA
1 TTCATTTATTAAACTA
4260601 ACTCTTAATT
Statistics
Matches: 38, Mismatches: 12, Indels: 1
0.75 0.24 0.02
Matches are distributed among these distances:
17 28 0.74
18 10 0.26
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (17 bp):
TTCATTTATTAAACTAG
Found at i:4264636 original size:17 final size:17
Alignment explanation
Indices: 4264579--4264640 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
4264569 TTTAGGGAAG
*
4264579 TAGTTCATTTATGCATT
1 TAGTTCATTTATGCATC
* *
4264596 TAGATT-ATTTA-GTAAGC
1 TAG-TTCATTTATG-CATC
*
4264613 TACTTCATTTATGCATC
1 TAGTTCATTTATGCATC
4264630 TAGTTCATTTA
1 TAGTTCATTTA
4264641 ATAAAGTTAG
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
16 3 0.09
17 28 0.82
18 3 0.09
ACGTcount: A:0.27, C:0.13, G:0.11, T:0.48
Consensus pattern (17 bp):
TAGTTCATTTATGCATC
Found at i:4264640 original size:34 final size:34
Alignment explanation
Indices: 4264561--4264640 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
4264551 TTTAAATCAA
*
4264561 CTAGTTCATTTAGGGAAGTAGTTCATTTATGCAT
1 CTAGTTCATTTAGGGAAGTACTTCATTTATGCAT
* *
4264595 TTAGATT-ATTTA-GTAAGCTACTTCATTTATGCAT
1 CTAG-TTCATTTAGGGAAG-TACTTCATTTATGCAT
4264629 CTAGTTCATTTA
1 CTAGTTCATTTA
4264641 ATAAAGTTAG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
33 6 0.15
34 31 0.79
35 2 0.05
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (34 bp):
CTAGTTCATTTAGGGAAGTACTTCATTTATGCAT
Found at i:4264672 original size:17 final size:17
Alignment explanation
Indices: 4264629--4264700 Score: 65
Period size: 17 Copynumber: 4.2 Consensus size: 17
4264619 ATTTATGCAT
4264629 CTAGTTCATTTAA-TAAA
1 CTAGTTCA-TTAATTAAA
* *
4264646 GTTAGCTCATTAATTAAA
1 -CTAGTTCATTAATTAAA
* *
4264664 CTAGTTCATTCATCAAA
1 CTAGTTCATTAATTAAA
* *
4264681 CTAGTTAATTTATTAAA
1 CTAGTTCATTAATTAAA
4264698 CTA
1 CTA
4264701 ACTCTTAATT
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
17 34 0.77
18 10 0.23
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.40
Consensus pattern (17 bp):
CTAGTTCATTAATTAAA
Found at i:4275183 original size:37 final size:37
Alignment explanation
Indices: 4275142--4275219 Score: 129
Period size: 37 Copynumber: 2.1 Consensus size: 37
4275132 TTTATATTTG
*
4275142 CCATATTACCATCACATTTCTATACATATTATACATT
1 CCATATTACCATCACATTTCCATACATATTATACATT
* *
4275179 CCATATTACCATCATATTTCCATACATCTTATACATT
1 CCATATTACCATCACATTTCCATACATATTATACATT
4275216 CCAT
1 CCAT
4275220 TTTGCCACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.40
Consensus pattern (37 bp):
CCATATTACCATCACATTTCCATACATATTATACATT
Found at i:4278251 original size:25 final size:25
Alignment explanation
Indices: 4278206--4278262 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
4278196 TACAATATAT
*
4278206 AAAATATATCAATTTAAATTATAAA
1 AAAATATATCAATTTAAATTAAAAA
**
4278231 AAAATATAT-AAGTTTTTATTAAAAA
1 AAAATATATCAA-TTTAAATTAAAAA
4278256 ATAAATA
1 A-AAATA
4278263 AAATTTATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 2 0.07
25 20 0.74
26 5 0.19
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (25 bp):
AAAATATATCAATTTAAATTAAAAA
Found at i:4278344 original size:11 final size:10
Alignment explanation
Indices: 4278305--4278372 Score: 57
Period size: 11 Copynumber: 6.6 Consensus size: 10
4278295 ATATATAAAT
*
4278305 TTTAAAATAT
1 TTTAAAATAA
* *
4278315 TTTTAACTCAA
1 TTTAAAAT-AA
4278326 TTTAAAATAA
1 TTTAAAATAA
4278336 TTGTAAAATAA
1 TT-TAAAATAA
*
4278347 TATATAAATAA
1 TTTA-AAATAA
*
4278358 TTTTAAA-AA
1 TTTAAAATAA
4278367 TTTAAA
1 TTTAAA
4278373 TAAAATAATG
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
9 7 0.15
10 15 0.33
11 24 0.52
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (10 bp):
TTTAAAATAA
Found at i:4279024 original size:15 final size:15
Alignment explanation
Indices: 4279004--4279034 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4278994 GTTATTTTAA
4279004 AAAAAAATGGTTGAG
1 AAAAAAATGGTTGAG
*
4279019 AAAAAATTGGTTGAG
1 AAAAAAATGGTTGAG
4279034 A
1 A
4279035 GTTTTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.26, T:0.23
Consensus pattern (15 bp):
AAAAAAATGGTTGAG
Found at i:4282025 original size:17 final size:17
Alignment explanation
Indices: 4282005--4282040 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4281995 TAGTCCATGA
* *
4282005 AAAAGGAACAGTATAGG
1 AAAAGAAACAATATAGG
4282022 AAAAGAAACAATATAGG
1 AAAAGAAACAATATAGG
4282039 AA
1 AA
4282041 TAAAGAACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.61, C:0.06, G:0.22, T:0.11
Consensus pattern (17 bp):
AAAAGAAACAATATAGG
Found at i:4282051 original size:18 final size:16
Alignment explanation
Indices: 4282005--4282052 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
4281995 TAGTCCATGA
*
4282005 AAAAGGAACAGTATAGG
1 AAAA-GAACAATATAGG
4282022 AAAAGAAACAATATAGG
1 AAAAG-AACAATATAGG
4282039 AATAAAGAACAATA
1 -A-AAAGAACAATA
4282053 CAAGTTTGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 1 0.04
17 14 0.52
18 8 0.30
19 4 0.15
ACGTcount: A:0.62, C:0.06, G:0.19, T:0.12
Consensus pattern (16 bp):
AAAAGAACAATATAGG
Found at i:4282096 original size:14 final size:14
Alignment explanation
Indices: 4282077--4282104 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
4282067 ATATTTTACA
4282077 GTAAAGTTTTATTT
1 GTAAAGTTTTATTT
4282091 GTAAAGTTTTATTT
1 GTAAAGTTTTATTT
4282105 TATAAATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (14 bp):
GTAAAGTTTTATTT
Found at i:4289498 original size:2 final size:2
Alignment explanation
Indices: 4289491--4289515 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4289481 AAACGACTCG
4289491 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
4289516 AGTTCTGTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4292662 original size:20 final size:20
Alignment explanation
Indices: 4292637--4292677 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
4292627 TACCGTCTCC
*
4292637 TCCACCGTCACTCTTTAATT
1 TCCACCGTCACTCTTCAATT
4292657 TCCACCGTCACTCTTCAATT
1 TCCACCGTCACTCTTCAATT
4292677 T
1 T
4292678 TGAATTGAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.37, G:0.05, T:0.39
Consensus pattern (20 bp):
TCCACCGTCACTCTTCAATT
Found at i:4296189 original size:31 final size:33
Alignment explanation
Indices: 4296145--4296210 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 33
4296135 TCACTAAAGC
* *
4296145 TTATTTTTAAATTTAATTA-CTTAACTTTCAAA
1 TTATTCTTAAATTTAATCATCTTAACTTTCAAA
*
4296177 TTATTCTT-AATTTAATCATTTTAACTTTCAAA
1 TTATTCTTAAATTTAATCATCTTAACTTTCAAA
4296209 TT
1 TT
4296211 TAATTTTTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 9 0.30
32 21 0.70
ACGTcount: A:0.35, C:0.11, G:0.00, T:0.55
Consensus pattern (33 bp):
TTATTCTTAAATTTAATCATCTTAACTTTCAAA
Found at i:4302507 original size:21 final size:21
Alignment explanation
Indices: 4302465--4302508 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
4302455 TTGGGATCAG
*
4302465 TTTAGTGTATATGATAATAAT
1 TTTAGTGTATATGATAAAAAT
*
4302486 TTTA-TGTATATGCTCAAAAAT
1 TTTAGTGTATATGAT-AAAAAT
4302507 TT
1 TT
4302509 AAGAGAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.36, C:0.05, G:0.11, T:0.48
Consensus pattern (21 bp):
TTTAGTGTATATGATAAAAAT
Found at i:4303294 original size:2 final size:2
Alignment explanation
Indices: 4303287--4303318 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4303277 AATGAAAGCT
*
4303287 GA GA GA GA GA GA GA GA GA GA GA GC GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
4303319 ACGGATTGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4303850 original size:7 final size:7
Alignment explanation
Indices: 4303832--4303890 Score: 64
Period size: 7 Copynumber: 8.0 Consensus size: 7
4303822 TAAACATCGG
4303832 TATTTATT
1 TATTT-TT
4303840 TATTTTT
1 TATTTTT
4303847 TATTTTT
1 TATTTTT
* *
4303854 TATATTA
1 TATTTTT
4303861 TACCTTTTT
1 TA--TTTTT
*
4303870 TATTTTC
1 TATTTTT
4303877 TATTTTT
1 TATTTTT
4303884 TATTTTT
1 TATTTTT
4303891 ATGATGCTAT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
7 33 0.77
8 5 0.12
9 5 0.12
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (7 bp):
TATTTTT
Found at i:4303889 original size:21 final size:21
Alignment explanation
Indices: 4303832--4303907 Score: 64
Period size: 23 Copynumber: 3.5 Consensus size: 21
4303822 TAAACATCGG
*
4303832 TATTTATTTATTTTTTATTTTT
1 TATTT-TTTATTTTTTATTTTC
* *
4303854 TATATTATACCTTTTTTATTTTC
1 TATTTTTTA--TTTTTTATTTTC
* *
4303877 TATTTTTTA-TTTTTATGATGC
1 TATTTTTTATTTTTTAT-TTTC
4303898 TATTTTTTAT
1 TATTTTTTAT
4303908 GTCTTCATCT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
20 7 0.16
21 14 0.33
22 4 0.09
23 18 0.42
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (21 bp):
TATTTTTTATTTTTTATTTTC
Found at i:4303945 original size:15 final size:16
Alignment explanation
Indices: 4303925--4303958 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
4303915 TCTTCTTGTC
4303925 TTTTAATA-TTTTAAA
1 TTTTAATACTTTTAAA
4303940 TTTTAATACTTTTAAA
1 TTTTAATACTTTTAAA
4303956 TTT
1 TTT
4303959 AGTATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTAATACTTTTAAA
Found at i:4304941 original size:25 final size:26
Alignment explanation
Indices: 4304904--4304952 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
4304894 AAATTTTATA
** *
4304904 AAATAACTTGAAAAA-ATTAAAATGT
1 AAATAACAAGAAAAATATAAAAATGT
4304929 AAATAACAAGAAAAATATAAAAAT
1 AAATAACAAGAAAAATATAAAAAT
4304953 ATATACATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.67, C:0.04, G:0.06, T:0.22
Consensus pattern (26 bp):
AAATAACAAGAAAAATATAAAAATGT
Found at i:4309086 original size:192 final size:192
Alignment explanation
Indices: 4308759--4309142 Score: 732
Period size: 192 Copynumber: 2.0 Consensus size: 192
4308749 ATTTGACGGG
*
4308759 TCAAATAACATATTTGCAGTTATAAAGAATGTTTACGATGCATTATGTGATTTTCTTACAAATCA
1 TCAAATAACATATTTGCAGTTATAAAGAATGTTTACAATGCATTATGTGATTTTCTTACAAATCA
4308824 ACCATCACAAATCTTTTGGCTTTGATTATTAATATTGTTTCATTGTTCTATCTGACACCTACATC
66 ACCATCACAAATCTTTTGGCTTTGATTATTAATATTGTTTCATTGTTCTATCTGACACCTACATC
4308889 ATATTGAAGAGTATCATGTTTCTTGTTTCAGAGGGTCTAGAGTCTTGGTTGATGCCCTTAAA
131 ATATTGAAGAGTATCATGTTTCTTGTTTCAGAGGGTCTAGAGTCTTGGTTGATGCCCTTAAA
4308951 TCAAATAACATATTTGCAGTTATAAAGAATGTTTACAATGCATTATGTGATTTTCTTACAAATCA
1 TCAAATAACATATTTGCAGTTATAAAGAATGTTTACAATGCATTATGTGATTTTCTTACAAATCA
* *
4309016 TCCATCACAAATCTTTTGGCTTTGATTATTAATATTGTTTCGTTGTTCTATCTGACACCTACATC
66 ACCATCACAAATCTTTTGGCTTTGATTATTAATATTGTTTCATTGTTCTATCTGACACCTACATC
*
4309081 ATATTGAAGTGTATCATGTTTCTTGTTTCAGAGGGTCTAGAGTCTTGGTTGATGCCCTTAAA
131 ATATTGAAGAGTATCATGTTTCTTGTTTCAGAGGGTCTAGAGTCTTGGTTGATGCCCTTAAA
4309143 GTTGCTGTAT
Statistics
Matches: 188, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
192 188 1.00
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.41
Consensus pattern (192 bp):
TCAAATAACATATTTGCAGTTATAAAGAATGTTTACAATGCATTATGTGATTTTCTTACAAATCA
ACCATCACAAATCTTTTGGCTTTGATTATTAATATTGTTTCATTGTTCTATCTGACACCTACATC
ATATTGAAGAGTATCATGTTTCTTGTTTCAGAGGGTCTAGAGTCTTGGTTGATGCCCTTAAA
Found at i:4310539 original size:41 final size:41
Alignment explanation
Indices: 4310482--4310563 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
4310472 AGATACTAGA
4310482 TAGACACAGTGTTCACTTTATTTAGCAGTTGTTTCTATGTG
1 TAGACACAGTGTTCACTTTATTTAGCAGTTGTTTCTATGTG
4310523 TAGACACAGTGTTCACTTTATTTAGCAGTTGTTTCTATGTG
1 TAGACACAGTGTTCACTTTATTTAGCAGTTGTTTCTATGTG
4310564 ACCATTCTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.44
Consensus pattern (41 bp):
TAGACACAGTGTTCACTTTATTTAGCAGTTGTTTCTATGTG
Found at i:4317863 original size:37 final size:37
Alignment explanation
Indices: 4317810--4317906 Score: 149
Period size: 37 Copynumber: 2.6 Consensus size: 37
4317800 CCTTTTCGTC
* *
4317810 CTACTATGATTCAAACTCTTAAAAATAAGATAGAATT
1 CTACTATGATTTAAACTCCTAAAAATAAGATAGAATT
* * *
4317847 TTACTAGGATTTAAACTCCTAAAAATAAGATAGAGTT
1 CTACTATGATTTAAACTCCTAAAAATAAGATAGAATT
4317884 CTACTATGATTTAAACTCCTAAA
1 CTACTATGATTTAAACTCCTAAA
4317907 TATAGGATCC
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.33
Consensus pattern (37 bp):
CTACTATGATTTAAACTCCTAAAAATAAGATAGAATT
Found at i:4318518 original size:9 final size:9
Alignment explanation
Indices: 4318504--4318554 Score: 51
Period size: 8 Copynumber: 6.3 Consensus size: 9
4318494 ATATTTTCCT
*
4318504 TTTATTCTA
1 TTTATTATA
4318513 TTTATTATA
1 TTTATTATA
4318522 -TTA-TATA
1 TTTATTATA
4318529 TTT-TTATA
1 TTTATTATA
4318537 -TT-TTATA
1 TTTATTATA
4318544 -TTATTATA
1 TTTATTATA
4318552 TTT
1 TTT
4318555 TTACTTTCTC
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
7 13 0.35
8 14 0.38
9 10 0.27
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTATTATA
Found at i:4318536 original size:8 final size:8
Alignment explanation
Indices: 4318511--4318557 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
4318501 CCTTTTATTC
4318511 TATTTATTA
1 TATTT-TTA
*
4318520 TA-TTATA
1 TATTTTTA
4318527 TATTTTTA
1 TATTTTTA
4318535 TA-TTTTA
1 TATTTTTA
*
4318542 TATTATTA
1 TATTTTTA
4318550 TATTTTTA
1 TATTTTTA
4318558 CTTTCTCTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
7 11 0.34
8 19 0.59
9 2 0.06
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (8 bp):
TATTTTTA
Found at i:4318543 original size:15 final size:15
Alignment explanation
Indices: 4318511--4318555 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
4318501 CCTTTTATTC
*
4318511 TATTTATTATATTATA
1 TATTT-TTATATTTTA
4318527 TATTTTTATATTTTA
1 TATTTTTATATTTTA
*
4318542 TATTATTATATTTT
1 TATTTTTATATTTT
4318556 TACTTTCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 22 0.81
16 5 0.19
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTTTTATATTTTA
Found at i:4320351 original size:17 final size:17
Alignment explanation
Indices: 4320329--4320363 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
4320319 ACCTTACTAA
4320329 CTCTTTTCATTTT-TTTC
1 CTCTTTT-ATTTTATTTC
4320346 CTCTTTTATTTTATTTC
1 CTCTTTTATTTTATTTC
4320363 C
1 C
4320364 ATCATCTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.09, C:0.23, G:0.00, T:0.69
Consensus pattern (17 bp):
CTCTTTTATTTTATTTC
Found at i:4323812 original size:18 final size:18
Alignment explanation
Indices: 4323789--4323840 Score: 60
Period size: 16 Copynumber: 3.2 Consensus size: 18
4323779 GGGCAAAAAC
4323789 AAAAAAGAAAAGAAGC-A
1 AAAAAAGAAAAGAAGCAA
*
4323806 AAAAAA-AAAA-AAGAAA
1 AAAAAAGAAAAGAAGCAA
4323822 AAAAAAG-AAAGAA-CAA
1 AAAAAAGAAAAGAAGCAA
4323838 AAA
1 AAA
4323841 TCAAAAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
15 3 0.10
16 19 0.63
17 8 0.27
ACGTcount: A:0.85, C:0.04, G:0.12, T:0.00
Consensus pattern (18 bp):
AAAAAAGAAAAGAAGCAA
Found at i:4323823 original size:30 final size:31
Alignment explanation
Indices: 4323784--4323853 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 31
4323774 AAAAAGGGCA
*
4323784 AAAACAAAAAAGAAAAGAAGCAAAAA-AAAAAAA
1 AAAA-AAAAAAG-AAAGAA-CAAAAATAAAAAAG
*
4323817 AGAAAAAAAAAGAAAGAACAAAAATCAAAAAG
1 A-AAAAAAAAAGAAAGAACAAAAATAAAAAAG
4323849 AAAAA
1 AAAAA
4323854 TGGACAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
31 10 0.30
32 12 0.36
33 8 0.24
34 3 0.09
ACGTcount: A:0.83, C:0.06, G:0.10, T:0.01
Consensus pattern (31 bp):
AAAAAAAAAAGAAAGAACAAAAATAAAAAAG
Found at i:4323832 original size:14 final size:14
Alignment explanation
Indices: 4323790--4323853 Score: 60
Period size: 14 Copynumber: 4.4 Consensus size: 14
4323780 GGCAAAAACA
4323790 AAAAAGAAAAG-AAG
1 AAAAA-AAAAGAAAG
*
4323804 CAAAAAAAAAAAAAG
1 -AAAAAAAAAGAAAG
4323819 AAAAAAAAAGAAAG
1 AAAAAAAAAGAAAG
4323833 AACAAAAATCAA-AAAG
1 AA-AAAAA--AAGAAAG
4323849 AAAAA
1 AAAAA
4323854 TGGACAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
14 19 0.44
15 16 0.37
16 6 0.14
17 2 0.05
ACGTcount: A:0.83, C:0.05, G:0.11, T:0.02
Consensus pattern (14 bp):
AAAAAAAAAGAAAG
Found at i:4325507 original size:106 final size:106
Alignment explanation
Indices: 4325317--4326586 Score: 1932
Period size: 106 Copynumber: 12.0 Consensus size: 106
4325307 ATATCGTGCC
* * * *
4325317 ACTCAAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
4325382 AATTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
4325423 ACTCCAGACAACGCAAGTTCAAATTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
4325488 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
4325529 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
4325594 AATTTCAGAGCCAATTTCAACTTTACAGCGAAGAATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
4325635 ACTCCAGACAACGCAAGTTCAACTTCACAACGAAGGGACCACTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
4325700 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
4325741 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
4325806 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
4325847 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
4325912 AATTTCAGAGTCAATTTCAACTTCACAGCGAAGAATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
4325953 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGTTGTTTGTCAATAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
4326018 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
4326059 ACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTC-C
* *
4326124 AAATTT-AGAGCCAATTTCAACTTCACAACGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
4326165 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
4326230 AATTTCAGAGCCAATTTCAACTTCACAGCGTAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
4326271 ACTCAAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
4326336 AATTTCAGAGCCAATTTCAACTTCTCAGCGAAGGATCTTGA
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * *
4326377 AC-CCAAGGCAACACAAGCTCAACTTCACGACGAAGAGG-CGGCTGATTGTCAAC-AA-AA-TT-
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACGAAG-GGACCGCTGGTTGTCAACAAACAACTTC
* * *
4326436 TC-A-TTCAGAGTCAATTTCAACTTCACAGCAAAGGATATTGG
64 CCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
4326477 ACTCGAGACAACACAAGTTTAACTTCACAACGAAGGGA-CGACTGGTTGTTAACAAACAATTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGGTTGTCAACAAACAACTTCC
** *
4326541 CGGTTTCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
4326583 ACTC
1 ACTC
4326587 AGAACAATGC
Statistics
Matches: 1066, Mismatches: 84, Indels: 28
0.90 0.07 0.02
Matches are distributed among these distances:
99 3 0.00
100 71 0.07
101 4 0.00
102 3 0.00
103 4 0.00
104 3 0.00
105 10 0.01
106 960 0.90
107 8 0.01
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:4327370 original size:37 final size:37
Alignment explanation
Indices: 4327318--4327421 Score: 154
Period size: 37 Copynumber: 2.8 Consensus size: 37
4327308 CTTTTCATCC
* *
4327318 TACTAGGATTCAAACTCCTAAAAATAGGATAGAATTT
1 TACTAGGATTTAAACTCCTAAAAATAGGATAGAATTG
* *
4327355 TGCTAGGATTTAAACTCCTAAAAATAGGATAGAGTTG
1 TACTAGGATTTAAACTCCTAAAAATAGGATAGAATTG
* *
4327392 TACTATGATTTAAACTCCTAAAGATAGGAT
1 TACTAGGATTTAAACTCCTAAAAATAGGAT
4327422 CCACAAGCAC
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.31
Consensus pattern (37 bp):
TACTAGGATTTAAACTCCTAAAAATAGGATAGAATTG
Found at i:4327434 original size:37 final size:37
Alignment explanation
Indices: 4327361--4327434 Score: 85
Period size: 37 Copynumber: 2.0 Consensus size: 37
4327351 ATTTTGCTAG
* *** *
4327361 GATTTAAACTCCTAAAAATAGGATAGAGTTGTACTAT
1 GATTTAAACTCCTAAAAATAGGATACACAAGCACTAT
* *
4327398 GATTTAAACTCCTAAAGATAGGATCCACAAGCACTAT
1 GATTTAAACTCCTAAAAATAGGATACACAAGCACTAT
4327435 AAATAGTCAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (37 bp):
GATTTAAACTCCTAAAAATAGGATACACAAGCACTAT
Found at i:4328059 original size:25 final size:25
Alignment explanation
Indices: 4328031--4328083 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
4328021 TTTATTCTAC
4328031 TTAT-TTATA-TATATATGTATATTTT
1 TTATATTATATTAT-TAT-TATATTTT
*
4328056 TTATATTTTATTATTATTATATTTT
1 TTATATTATATTATTATTATATTTT
4328081 TTA
1 TTA
4328084 CTTTCTCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 15 0.60
26 7 0.28
27 3 0.12
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (25 bp):
TTATATTATATTATTATTATATTTT
Found at i:4328121 original size:12 final size:11
Alignment explanation
Indices: 4328098--4328136 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
4328088 CTCTTTCTTT
4328098 TTATTATTGTA
1 TTATTATTGTA
4328109 TTATTACTTGTA
1 TTATTA-TTGTA
* *
4328121 TTATTTTTATA
1 TTATTATTGTA
4328132 TTATT
1 TTATT
4328137 TATTTTGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (11 bp):
TTATTATTGTA
Found at i:4328659 original size:4 final size:4
Alignment explanation
Indices: 4328620--4328783 Score: 58
Period size: 4 Copynumber: 40.0 Consensus size: 4
4328610 TCTTTTCATC
* *
4328620 ATTT AATTT ATTA ATTT ATATAT ATTT ACTTT -TTT ATTT ATTAT ATAT
1 ATTT -ATTT ATTT ATTT AT-T-T ATTT A-TTT ATTT ATTT ATT-T ATTT
* * *
4328668 ATAT ATAT ATATT ATTCGT ACTTT -GTT A-TT A-TT ATTTT ATTTT ATTT
1 ATTT ATTT AT-TT ATT--T A-TTT ATTT ATTT ATTT A-TTT A-TTT ATTT
* * *
4328715 ATTT ATTT ATTT ATTT -TTT CTTT -TTCT -TTT ATAT ATAT ATTT -TATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATT-T ATTT ATTT ATTT ATTT AT-TT
* *
4328761 ATTT ATTT TTTT ACTT A-TT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT
4328784 TATCTTTGCT
Statistics
Matches: 131, Mismatches: 10, Indels: 37
0.74 0.06 0.21
Matches are distributed among these distances:
3 21 0.16
4 78 0.60
5 25 0.19
6 5 0.04
7 2 0.02
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (4 bp):
ATTT
Found at i:4328745 original size:34 final size:34
Alignment explanation
Indices: 4328693--4328783 Score: 87
Period size: 34 Copynumber: 2.6 Consensus size: 34
4328683 TCGTACTTTG
* *
4328693 TTATTATTATTTTATTTTATTTATTTA-TTTATTTAT
1 TTATT-TT-TTTTCTTTTATTTATATATTTTA-TTAT
*
4328729 TT-TTTCTTTTTCTTTTATATATATATTTTATTAT
1 TTATTT-TTTTTCTTTTATTTATATATTTTATTAT
*
4328763 TTATTTTTTTACTTATTATTT
1 TTATTTTTTTTCTT-TTATTT
4328784 TATCTTTGCT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
34 29 0.63
35 15 0.33
36 2 0.04
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (34 bp):
TTATTTTTTTTCTTTTATTTATATATTTTATTAT
Found at i:4328781 original size:15 final size:15
Alignment explanation
Indices: 4328693--4328784 Score: 64
Period size: 15 Copynumber: 5.9 Consensus size: 15
4328683 TCGTACTTTG
4328693 TTATTA-TTATTTTATT
1 TTATTATTTA-TTT-TT
*
4328709 TTATTTATTTATTTAT
1 TTA-TTATTTATTTTT
* *
4328725 TTATTTTTTCTTTTT
1 TTATTATTTATTTTT
* *
4328740 CTT-TTATATATATATT
1 -TTATTATTTAT-TTTT
4328756 TTATTATTTATTTTT
1 TTATTATTTATTTTT
4328771 TTACTTA-TTATTTT
1 TTA-TTATTTATTTT
4328785 ATCTTTGCTT
Statistics
Matches: 60, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
15 29 0.48
16 22 0.37
17 6 0.10
18 3 0.05
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (15 bp):
TTATTATTTATTTTT
Found at i:4331205 original size:18 final size:18
Alignment explanation
Indices: 4331182--4331230 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
4331172 CTTTTATAAC
4331182 TAGAATAGGCACAAGTCT
1 TAGAATAGGCACAAGTCT
4331200 TAGAATAGGCACAAGTCT
1 TAGAATAGGCACAAGTCT
*
4331218 TAGAATAGTCACA
1 TAGAATAGGCACA
4331231 CTTGTATAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.22
Consensus pattern (18 bp):
TAGAATAGGCACAAGTCT
Found at i:4335053 original size:92 final size:92
Alignment explanation
Indices: 4334852--4335064 Score: 227
Period size: 92 Copynumber: 2.3 Consensus size: 92
4334842 TTTTTTTTTC
* *
4334852 ACGTCGAGCACTTTAACGTTGGGAGTAGGTAAAGGAGACAGAGTTCATGCCGAGTGCTTGCAAAG
1 ACGTCGAGCACTTTAACGTTGGGAGTAGGTAAAGGAGACAGAGTTCATGCCAAGTGCTTCCAAAG
** * *
4334917 AGAGAGTAGGCAGAATGGCCTGATCTG
66 AGAGAGTAGGCAGAATAACATAATCTG
* * ** * * *
4334944 ACG-CTGAGCGCTTTAACGTTGGGATTAGGTAGGGGATATAGAGTTCATGTCAAGTGCTTCCAAA
1 ACGTC-GAGCACTTTAACGTTGGGAGTAGGTAAAGGAGACAGAGTTCATGCCAAGTGCTTCCAAA
*
4335008 GATG-GAGTAGGCA-AGATAACATAATCTT
65 GA-GAGAGTAGGCAGA-ATAACATAATCTG
*
4335036 ACGTCGAGCACTCTAACG-TGTGGAGTAGG
1 ACGTCGAGCACTTTAACGTTG-GGAGTAGG
4335065 CATGGTGCTT
Statistics
Matches: 99, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
91 4 0.04
92 93 0.94
93 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.23
Consensus pattern (92 bp):
ACGTCGAGCACTTTAACGTTGGGAGTAGGTAAAGGAGACAGAGTTCATGCCAAGTGCTTCCAAAG
AGAGAGTAGGCAGAATAACATAATCTG
Found at i:4337290 original size:342 final size:342
Alignment explanation
Indices: 4336655--4337330 Score: 1201
Period size: 342 Copynumber: 2.0 Consensus size: 342
4336645 AACACGGTAA
* * * * *
4336655 CTAAGATAAGGTTTGTGTCGATGAGGACATCGACCAAAGTGAGTAGGGGAGGATGTTAGGGACAT
1 CTAAGATAAGGTTTATGTCAAAGAGGACATCAACCAAAGTGAGTAAGGGAGGATGTTAGGGACAT
*
4336720 CTCATTTCCATGACATTACCCTGACAGTAACTCGATGGTAGGCCGAGTAGATGCGACCGTGAGCC
66 CTCATTTCCATGAAATTACCCTGACAGTAACTCGATGGTAGGCCGAGTAGATGCGACCGTGAGCC
* * * *
4336785 AAGGAAAAGGTTGAAGAATTAATATAGAGGGCATGTCAAGGTAATGGCCTCAGTTTAGACATTCC
131 AAGAAAAAGCTTAAAGAATGAATATAGAGGGCATGTCAAGGTAATGGCCTCAGTTTAGACATTCC
4336850 AACGTGTACTGGTGTCATAGCTGGTAAGTTTCTTTAGCTCTTTAGGGGGAAGTGATATGGTGTTG
196 AACGTGTACTGGTGTCATAGCTGGTAAGTTTCTTTAGCTCTTTAGGGGGAAGTGATATGGTGTTG
4336915 GGTCTCCACCATCCCCTCACCCTGATATAGCATGTTGAGTTATCATGGTGTAAGCGACCTTCTCC
261 GGTCTCCACCATCCCCTCACCCTGATATAGCATGTTGAGTTATCATGGTGTAAGCGACCTTCTCC
4336980 TAGGTTCATATGGAACC
326 TAGGTTCATATGGAACC
4336997 CTAAGATAAGGTTTATGTCAAAGAGGACATCAACCAAAGTGAGTAAGGGAGGATGTTAGGGACAT
1 CTAAGATAAGGTTTATGTCAAAGAGGACATCAACCAAAGTGAGTAAGGGAGGATGTTAGGGACAT
4337062 CTCATTTCCATGAAATTACCCTGACAGTAACTCGATGGTAGGCCGAGTAGATGCGACCGTGAGCC
66 CTCATTTCCATGAAATTACCCTGACAGTAACTCGATGGTAGGCCGAGTAGATGCGACCGTGAGCC
4337127 AAGAAAAAGCTTAAAGAATGAATATAGAGGGCATGTCAAGGTAATGGCCTCAGTTTAGACATTCC
131 AAGAAAAAGCTTAAAGAATGAATATAGAGGGCATGTCAAGGTAATGGCCTCAGTTTAGACATTCC
* * *
4337192 ATCGTGTACTGGTGTCATAGCTGGTAAGTTTCTTTAGCTTTTTAGGGGGAAGTGATCTGGTGTTG
196 AACGTGTACTGGTGTCATAGCTGGTAAGTTTCTTTAGCTCTTTAGGGGGAAGTGATATGGTGTTG
* *
4337257 GGTCTCCACCATCCCCTCACCTTG-TGCTAGCATGTTGAGTTATCATGGTGTAAGCGACCTTCTC
261 GGTCTCCACCATCCCCTCACCCTGAT-ATAGCATGTTGAGTTATCATGGTGTAAGCGACCTTCTC
4337321 CTAGGTTCAT
325 CTAGGTTCAT
4337331 GTAGAACCTA
Statistics
Matches: 318, Mismatches: 15, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
341 1 0.00
342 317 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (342 bp):
CTAAGATAAGGTTTATGTCAAAGAGGACATCAACCAAAGTGAGTAAGGGAGGATGTTAGGGACAT
CTCATTTCCATGAAATTACCCTGACAGTAACTCGATGGTAGGCCGAGTAGATGCGACCGTGAGCC
AAGAAAAAGCTTAAAGAATGAATATAGAGGGCATGTCAAGGTAATGGCCTCAGTTTAGACATTCC
AACGTGTACTGGTGTCATAGCTGGTAAGTTTCTTTAGCTCTTTAGGGGGAAGTGATATGGTGTTG
GGTCTCCACCATCCCCTCACCCTGATATAGCATGTTGAGTTATCATGGTGTAAGCGACCTTCTCC
TAGGTTCATATGGAACC
Found at i:4346939 original size:31 final size:31
Alignment explanation
Indices: 4346891--4346950 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
4346881 GCTCACAAGC
*
4346891 TTTCGAGTCGAGTTGAGCTT-CAATTTTCTA
1 TTTCGAGTCAAGTTGAGCTTACAATTTTCTA
4346921 TTTCGAGTTCAAGTTGAGCTTGACAATTTT
1 TTTCGAG-TCAAGTTGAGCTT-ACAATTTT
4346951 AAAATTACGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 7 0.27
31 12 0.46
33 7 0.27
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.43
Consensus pattern (31 bp):
TTTCGAGTCAAGTTGAGCTTACAATTTTCTA
Found at i:4353048 original size:21 final size:21
Alignment explanation
Indices: 4353022--4353070 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
4353012 TCAGAACATT
*
4353022 TTTATGCGGTCCTTCGGGACA
1 TTTATGCGGTCATTCGGGACA
* *
4353043 TTTATGTGGTCATTTGGGACA
1 TTTATGCGGTCATTCGGGACA
4353064 TTCTATG
1 TT-TATG
4353071 TGGCACTTCG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.16, C:0.16, G:0.27, T:0.41
Consensus pattern (21 bp):
TTTATGCGGTCATTCGGGACA
Found at i:4354289 original size:23 final size:23
Alignment explanation
Indices: 4354256--4354362 Score: 114
Period size: 23 Copynumber: 4.8 Consensus size: 23
4354246 GAGTCGAGGG
*
4354256 TTCTACGTGGTCCTTCAGGACAA
1 TTCTACGTGGTCCTTCGGGACAA
* *
4354279 TTCTACATGGTCCTTCGGGACAT
1 TTCTACGTGGTCCTTCGGGACAA
*
4354302 TTCTACGCGGTCCTTCGGGAC-A
1 TTCTACGTGGTCCTTCGGGACAA
* *
4354324 -TCTATGTGGTCCTTTGGGAC-A
1 TTCTACGTGGTCCTTCGGGACAA
*
4354345 TTCTATGTGG-CACTTCGG
1 TTCTACGTGGTC-CTTCGG
4354363 TGTAATTTCT
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
21 19 0.26
22 14 0.19
23 39 0.54
ACGTcount: A:0.16, C:0.25, G:0.25, T:0.34
Consensus pattern (23 bp):
TTCTACGTGGTCCTTCGGGACAA
Found at i:4354323 original size:46 final size:44
Alignment explanation
Indices: 4354256--4354346 Score: 119
Period size: 44 Copynumber: 2.0 Consensus size: 44
4354246 GAGTCGAGGG
*
4354256 TTCTACGTGGTCCTTCAGGACAATTCTACATGGTCCTTCGGGACAT
1 TTCTACGCGGTCCTTCAGGAC-A-TCTACATGGTCCTTCGGGACAT
* ** *
4354302 TTCTACGCGGTCCTTCGGGACATCTATGTGGTCCTTTGGGACAT
1 TTCTACGCGGTCCTTCAGGACATCTACATGGTCCTTCGGGACAT
4354346 T
1 T
4354347 CTATGTGGCA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
44 20 0.50
45 1 0.03
46 19 0.47
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.34
Consensus pattern (44 bp):
TTCTACGCGGTCCTTCAGGACATCTACATGGTCCTTCGGGACAT
Found at i:4359217 original size:25 final size:24
Alignment explanation
Indices: 4359179--4359232 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
4359169 CTATGTGAAT
* *
4359179 TATGTGTGTATAGAAGAT-AAAATC
1 TATGTGTATATAGAA-ATGAAAATA
4359203 TATGTGATATATAGAAATGAAAATA
1 TATGTG-TATATAGAAATGAAAATA
4359228 TATGT
1 TATGT
4359233 CTATGAAGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 8 0.31
25 18 0.69
ACGTcount: A:0.44, C:0.02, G:0.19, T:0.35
Consensus pattern (24 bp):
TATGTGTATATAGAAATGAAAATA
Found at i:4359702 original size:31 final size:31
Alignment explanation
Indices: 4359660--4359755 Score: 97
Period size: 31 Copynumber: 3.1 Consensus size: 31
4359650 AAGAGTCGAG
*
4359660 GGTTACTTATG-TCTTTCAAGACATATGGACA
1 GGTTACCTATGTTC-TTCAAGACATATGGACA
** **
4359691 TTTTACCTATGTTCTTCGGGACATATGGACA
1 GGTTACCTATGTTCTTCAAGACATATGGACA
* *
4359722 GGTTACCTATGTTCTTC-GGAACATATGGATA
1 GGTTACCTATGTTCTTCAAG-ACATATGGACA
4359753 GGT
1 GGT
4359756 CTTTCGGGAT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
30 2 0.04
31 51 0.93
32 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (31 bp):
GGTTACCTATGTTCTTCAAGACATATGGACA
Found at i:4360011 original size:2 final size:2
Alignment explanation
Indices: 4360006--4360048 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
4359996 ATATATGCTA
4360006 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
4360048 A
1 A
4360049 AATGAGTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4362898 original size:31 final size:31
Alignment explanation
Indices: 4362858--4362945 Score: 97
Period size: 31 Copynumber: 2.8 Consensus size: 31
4362848 AAGAGTTGAG
* * *
4362858 GGTTACCTATGTCTTTCGATACATATATACA
1 GGTTACCTATGTCCTTCGAGACATATAGACA
* * *
4362889 GTTTACCTATGTCCTTCGGGACATATGGACA
1 GGTTACCTATGTCCTTCGAGACATATAGACA
*
4362920 GGTTACCTATGTTCTTC-AGAACATAT
1 GGTTACCTATGTCCTTCGAG-ACATAT
4362946 GGATAGGTCC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
30 1 0.02
31 46 0.98
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.36
Consensus pattern (31 bp):
GGTTACCTATGTCCTTCGAGACATATAGACA
Found at i:4363199 original size:2 final size:2
Alignment explanation
Indices: 4363192--4363231 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
4363182 ATATACGTGA
4363192 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
4363232 GAGTATAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4364757 original size:21 final size:21
Alignment explanation
Indices: 4364733--4364782 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
4364723 AAAACAAAAT
*
4364733 GAGAAGCAAAGATAAAAACAA
1 GAGAAACAAAGATAAAAACAA
*
4364754 GAGAAACAAATATAAAAACAA
1 GAGAAACAAAGATAAAAACAA
4364775 GAGAAACA
1 GAGAAACA
4364783 TATAGAGAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.68, C:0.10, G:0.16, T:0.06
Consensus pattern (21 bp):
GAGAAACAAAGATAAAAACAA
Found at i:4366554 original size:55 final size:55
Alignment explanation
Indices: 4366418--4366765 Score: 493
Period size: 55 Copynumber: 6.3 Consensus size: 55
4366408 TTTATTAAGA
* * * *
4366418 TGCACACGTAGTGCCTATACGG-TAGTTCATCAACTCATGATGAATTCTGTGG-GT
1 TGCACACATAGTGCATGTACGGTTA-TTCATCAACTCATGATGAATTCTGTGGATT
* *
4366472 TGCACACATCGTGCATGTACGGTTATTCATCAACTCATGATGAATTCTATGGATT
1 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
* * * *
4366527 TGCACACATAGTACTTGTACGGTTATTCATAAACTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
* * * *
4366582 TTCACACATAGTGCATGTATGATTATTCATCAACTCATGATGAATTATGTGGATT
1 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
* *
4366637 TGTACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
* * *
4366692 TGCACACATAGTGCCTGTACGGTTATTCATAAACTCATAATGAATTCTGTGGATT
1 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
*
4366747 TGCACACATAGTGCCTGTA
1 TGCACACATAGTGCATGTA
4366766 GTACACATAG
Statistics
Matches: 261, Mismatches: 31, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
54 44 0.17
55 217 0.83
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (55 bp):
TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATT
Found at i:4368709 original size:33 final size:33
Alignment explanation
Indices: 4368667--4368732 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
4368657 AATTTAATGG
4368667 TGTTATGCACTTCCTCCCATACAAAGCTTCATA
1 TGTTATGCACTTCCTCCCATACAAAGCTTCATA
*
4368700 TGTTATGCACTTTCTCCCATACAAAGCTTCATA
1 TGTTATGCACTTCCTCCCATACAAAGCTTCATA
4368733 CGGGGCCATC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.27, C:0.29, G:0.09, T:0.35
Consensus pattern (33 bp):
TGTTATGCACTTCCTCCCATACAAAGCTTCATA
Found at i:4373389 original size:55 final size:55
Alignment explanation
Indices: 4373245--4373693 Score: 571
Period size: 55 Copynumber: 8.2 Consensus size: 55
4373235 GATGTACAAG
* * ** *
4373245 TAGTTCCTGTAC-GATAGTTCATCAACTCATGATGAATTATGTGG-GTTGCACACA
1 TAGTGCCTGTACGGTTA-TTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
* * * * * *
4373299 TCGTGCTTGTACGATTATTCATCAACTCATGATGAATTCCATGGATTTACACATA
1 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
* * * *
4373354 TAGTGCCTATACGGTTATTCATCAACTCATTATGAATTTCGTGGATTTGTACACA
1 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
* * * **
4373409 TAGTGCTTTTACGGTTATTCATCAACTCATGATGAATTCTGTAAATTTGCACACA
1 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
*
4373464 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACATA
1 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
* * **
4373519 TAGTGTCTGTACGG-TATTCATCAACTCATGAAGAATTATGTGGATTTGCACACA
1 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
*** * *
4373573 TAGTTTATGTACGGTTATTCATCAACTCATGATGAATTCCATTGATTTGCACACA
1 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
** *
4373628 TAGTGTATGTACGGTTATTCATCAACTCATGATGAATTCTGTGGATTTGCACACA
1 TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
4373683 TAGTGCCTGTA
1 TAGTGCCTGTA
4373694 GTACACATTG
Statistics
Matches: 339, Mismatches: 53, Indels: 5
0.85 0.13 0.01
Matches are distributed among these distances:
54 81 0.24
55 258 0.76
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (55 bp):
TAGTGCCTGTACGGTTATTCATCAACTCATGATGAATTCCGTGGATTTGCACACA
Found at i:4373565 original size:164 final size:164
Alignment explanation
Indices: 4373262--4373693 Score: 613
Period size: 164 Copynumber: 2.6 Consensus size: 164
4373252 TGTACGATAG
* ** * * *
4373262 TTCATCAACTCATGATGAATTATGTGGGTTGCACACATCGTGCTTGTACGATTATTCATCAACTC
1 TTCATCAACTCATGATGAATTCTGTGATTTGCACACATAGTGCATGTACGGTTATTCATCAACTC
* * * * *
4373327 ATGATGAATTCCATGGATTTACACATATAGTGCCTATACGGTTATTCATCAACTCATTATGAATT
66 ATGATGAATTCCGTGGATTTGCACATATAGTGCCTGTACGGTTATTCATCAACTCATGAAGAATT
*
4373392 TCGTGGATTTGTACACATAGTGCTT-T-TACGGTTA
131 TCGTGGATTTGCACACATAGT--TTATGTACGGTTA
* *
4373426 TTCATCAACTCATGATGAATTCTGTAAATTTGCACACATAGTGCCTGTACGGTTATTCATCAACT
1 TTCATCAACTCATGATGAATTCTGT-GATTTGCACACATAGTGCATGTACGGTTATTCATCAACT
*
4373491 CATGATGAATTCCGTGGATTTGCACATATAGTGTCTGTACGG-TATTCATCAACTCATGAAGAAT
65 CATGATGAATTCCGTGGATTTGCACATATAGTGCCTGTACGGTTATTCATCAACTCATGAAGAAT
4373555 TAT-GTGGATTTGCACACATAGTTTATGTACGGTTA
130 T-TCGTGGATTTGCACACATAGTTTATGTACGGTTA
*
4373590 TTCATCAACTCATGATGAATTCCAT-TGATTTGCACACATAGTGTATGTACGGTTATTCATCAAC
1 TTCATCAACTCATGATGAATT-C-TGTGATTTGCACACATAGTGCATGTACGGTTATTCATCAAC
* *
4373654 TCATGATGAATTCTGTGGATTTGCACACATAGTGCCTGTA
64 TCATGATGAATTCCGTGGATTTGCACATATAGTGCCTGTA
4373694 GTACACATTG
Statistics
Matches: 242, Mismatches: 20, Indels: 12
0.88 0.07 0.04
Matches are distributed among these distances:
162 2 0.01
163 1 0.00
164 164 0.68
165 74 0.31
166 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (164 bp):
TTCATCAACTCATGATGAATTCTGTGATTTGCACACATAGTGCATGTACGGTTATTCATCAACTC
ATGATGAATTCCGTGGATTTGCACATATAGTGCCTGTACGGTTATTCATCAACTCATGAAGAATT
TCGTGGATTTGCACACATAGTTTATGTACGGTTA
Found at i:4373629 original size:219 final size:219
Alignment explanation
Indices: 4373245--4373693 Score: 600
Period size: 219 Copynumber: 2.1 Consensus size: 219
4373235 GATGTACAAG
* * *
4373245 TAGTTCCTGTACGATAGTTCATCAACTCATGATGAATTATGTGGGTTGCACACATCGTGCTTGTA
1 TAGTGCCTGTACGATAGTTCATCAACTCATGATGAATTACGTGGGTTGCACACATAGTGCTTGTA
* * * * *
4373310 CGATTATTCATCAACTCATGATGAATTCCATGGATTTACACATATAGTGCCTATACGGTTATTCA
66 CGAGTATTCATCAACTCATGAAGAATTACATGGATTTACACACATAGTGCATATACGGTTATTCA
* * * * *
4373375 TCAACTCATTATGAATTTCGTGGATTTGTACACATAGTGCT-TTTACGGTTATTCATCAACTCAT
131 TCAACTCATGATGAATTCCATGGATTTGCACACATAGTG-TATGTACGGTTATTCATCAACTCAT
4373439 GATGAATTCTGTAAATTTGCACACA
195 GATGAATTCTGTAAATTTGCACACA
* * * *
4373464 TAGTGCCTGTACGGTTA-TTCATCAACTCATGATGAATTCCGTGGATTTGCACATATAGTG-TCT
1 TAGTGCCTGTAC-GATAGTTCATCAACTCATGATGAATTACGTGG-GTTGCACACATAGTGCT-T
** * ** *
4373527 GTACG-GTATTCATCAACTCATGAAGAATTATGTGGATTTGCACACATAGTTTATGTACGGTTAT
63 GTACGAGTATTCATCAACTCATGAAGAATTACATGGATTTACACACATAGTGCATATACGGTTAT
*
4373591 TCATCAACTCATGATGAATTCCATTGATTTGCACACATAGTGTATGTACGGTTATTCATCAACTC
128 TCATCAACTCATGATGAATTCCATGGATTTGCACACATAGTGTATGTACGGTTATTCATCAACTC
**
4373656 ATGATGAATTCTGTGGATTTGCACACA
193 ATGATGAATTCTGTAAATTTGCACACA
4373683 TAGTGCCTGTA
1 TAGTGCCTGTA
4373694 GTACACATTG
Statistics
Matches: 200, Mismatches: 26, Indels: 8
0.85 0.11 0.03
Matches are distributed among these distances:
218 1 0.00
219 178 0.89
220 21 0.10
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (219 bp):
TAGTGCCTGTACGATAGTTCATCAACTCATGATGAATTACGTGGGTTGCACACATAGTGCTTGTA
CGAGTATTCATCAACTCATGAAGAATTACATGGATTTACACACATAGTGCATATACGGTTATTCA
TCAACTCATGATGAATTCCATGGATTTGCACACATAGTGTATGTACGGTTATTCATCAACTCATG
ATGAATTCTGTAAATTTGCACACA
Found at i:4380897 original size:90 final size:88
Alignment explanation
Indices: 4380782--4380955 Score: 303
Period size: 89 Copynumber: 2.0 Consensus size: 88
4380772 TCCCTAATAT
*
4380782 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGATTAG
4380847 GGTAACTTGGATATAAAAGGATTA
65 GGTAACTTGGATATAAAAGGATTA
*
4380871 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTGAATTAATAAAACCCTAATATGATTAG
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAG
*
4380936 GGTAACTTGGCTATAAAAGG
65 GGTAACTTGGATATAAAAGG
4380956 GTATGTTAGG
Statistics
Matches: 81, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
89 41 0.51
90 40 0.49
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.38
Consensus pattern (88 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAGG
GTAACTTGGATATAAAAGGATTA
Found at i:4387687 original size:90 final size:89
Alignment explanation
Indices: 4387564--4387740 Score: 282
Period size: 90 Copynumber: 2.0 Consensus size: 89
4387554 TAATCTCGAA
* * * * *
4387564 TATTTAATTTCAATTAATTACATATATATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTCCAAGTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGAT
4387629 TAGAGTAACTTGGATATAAAAGGAT
65 TAGAGTAACTTGGATATAAAAGGAT
4387654 TATTAAATTCCAAGTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
1 TATTAAATTCCAAGTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
* *
4387719 AGGGTAACTTGGCTATAAAAGG
66 AGAGTAACTTGGATATAAAAGG
4387741 GTGTGTTAGG
Statistics
Matches: 80, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 33 0.41
90 47 0.59
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (89 bp):
TATTAAATTCCAAGTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
AGAGTAACTTGGATATAAAAGGAT
Found at i:4401677 original size:16 final size:16
Alignment explanation
Indices: 4401639--4401677 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
4401629 TATATGTTTA
4401639 AAAATTTCAATAAAAT
1 AAAATTTCAATAAAAT
4401655 AATAATTT-AATAAAAAT
1 AA-AATTTCAAT-AAAAT
4401672 AAAATT
1 AAAATT
4401678 ATACATGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATTTCAATAAAAT
Found at i:4402556 original size:225 final size:226
Alignment explanation
Indices: 4402099--4402785 Score: 1047
Period size: 225 Copynumber: 3.0 Consensus size: 226
4402089 TTAATATAAC
** * * *
4402099 GGTTAATTACTGGAAACATTATCAACCATAATAACATATTAGGTAGCGCTTATGTAAAGTAATAG
1 GGTTAATTACTGGAAACATTATCAACCATAATAACATAACAAGTAGCGCTTATTTAATGTAATAG
* * * * *
4402164 GTAGCCCCTTTTTAAAATTGATGGGGCCTAAGAAATCCGACGATAACAAAATAGGTTAATTACTT
66 GTAGCGCCTATTTAAAGTTGATGGGGCCTTAGAAATACGACGATAACAAAATAGGTTAATTACTT
* * *
4402229 GATTTGTTATCAATATTATCAACATATTAGGTAGCGCCTAAAATGTTACCAAAGTTTAAGCTAAT
131 AATTTGTTATCAGTATTATCAACATATTAGGTAGCGCCTAAAATGTTACCAAAGTTTAAGCTGAT
*
4402294 AGAGCCTTAGAAATCCGACGATAACAAAATA
196 GGAGCCTTAGAAATCCGACGATAACAAAATA
* *
4402325 -GTTAATTACTAGAAACATTATCAACCATAATAACATAACAAGTAGCGCTTATTTAATGTAATAA
1 GGTTAATTACTGGAAACATTATCAACCATAATAACATAACAAGTAGCGCTTATTTAATGTAATAG
* * * * * * * * *
4402389 GTAGCGCCTGTTTAAAGCTAACGGGGTCTTGGAAATTCGATGATAACAAAATAGGTTAATTAGTT
66 GTAGCGCCTATTTAAAGTTGATGGGGCCTTAGAAATACGACGATAACAAAATAGGTTAATTACTT
* *
4402454 AATTTGTTATCAGTGTTAT-AACATATTAGGTATCGCCTAAAATGTTACCAAAGTTTAAGCTGAT
131 AATTTGTTATCAGTATTATCAACATATTAGGTAGCGCCTAAAATGTTACCAAAGTTTAAGCTGAT
* *
4402518 GGAGCATTAGAAATCTGACGATAACAAAATA
196 GGAGCCTTAGAAATCCGACGATAACAAAATA
*
4402549 GGTTAATTACTGGAAACATTATCAACCATAATAACATAACAAGTAGCGTTTATTTAATGTAATAG
1 GGTTAATTACTGGAAACATTATCAACCATAATAACATAACAAGTAGCGCTTATTTAATGTAATAG
* * *
4402614 GTAGAGCCTATTTAAAGTTGATGGAGCCTTAGAAATAAGACGATAACAAAATAGGTTAATTACTT
66 GTAGCGCCTATTTAAAGTTGATGGGGCCTTAGAAATACGACGATAACAAAATAGGTTAATTACTT
4402679 AATTTGTTATCAGTATTATCAACATATTAGGTAGCGCCTAAAATGTTACCAAAGTTTAAAG-TGA
131 AATTTGTTATCAGTATTATCAACATATTAGGTAGCGCCTAAAATGTTACCAAAGTTT-AAGCTGA
4402743 TGGAGCCTTAGAAATCCGACGATAACAAAATA
195 TGGAGCCTTAGAAATCCGACGATAACAAAATA
4402775 GGTTAATTACT
1 GGTTAATTACT
4402786 TGATTTGTTA
Statistics
Matches: 412, Mismatches: 46, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
224 71 0.17
225 258 0.63
226 80 0.19
227 3 0.01
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.31
Consensus pattern (226 bp):
GGTTAATTACTGGAAACATTATCAACCATAATAACATAACAAGTAGCGCTTATTTAATGTAATAG
GTAGCGCCTATTTAAAGTTGATGGGGCCTTAGAAATACGACGATAACAAAATAGGTTAATTACTT
AATTTGTTATCAGTATTATCAACATATTAGGTAGCGCCTAAAATGTTACCAAAGTTTAAGCTGAT
GGAGCCTTAGAAATCCGACGATAACAAAATA
Found at i:4403227 original size:69 final size:70
Alignment explanation
Indices: 4403138--4403271 Score: 216
Period size: 69 Copynumber: 1.9 Consensus size: 70
4403128 ATTTTCTTCA
* * *
4403138 TGCACGTTGTTTGAGAAGCATATTGGACTAAAAGTATCAATATTTATACAAAGTATCAATACTTT
1 TGCAAGTTGTTTGAGAAGCATACTGGACTAAAAGTATCAATATCTATACAAAGTATCAATACTTT
4403203 GTGCT
66 GTGCT
* *
4403208 TGCAAGTTG-TTGAGAAGCATACTGGACTAAAAGTATCGATATCTATACAAAGTATCGATACTTT
1 TGCAAGTTGTTTGAGAAGCATACTGGACTAAAAGTATCAATATCTATACAAAGTATCAATACTTT
4403272 ATGTTTACGC
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
69 51 0.86
70 8 0.14
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (70 bp):
TGCAAGTTGTTTGAGAAGCATACTGGACTAAAAGTATCAATATCTATACAAAGTATCAATACTTT
GTGCT
Found at i:4405054 original size:21 final size:21
Alignment explanation
Indices: 4405028--4405079 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
4405018 TACCGAAGTC
4405028 TCGATACTTTTGTGTAAGGTA
1 TCGATACTTTTGTGTAAGGTA
4405049 TCGATACTTTTGTGTAAGGTA
1 TCGATACTTTTGTGTAAGGTA
*
4405070 TTGATACTTT
1 TCGATACTTT
4405080 CGAGACGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.23, C:0.10, G:0.21, T:0.46
Consensus pattern (21 bp):
TCGATACTTTTGTGTAAGGTA
Found at i:4405591 original size:20 final size:20
Alignment explanation
Indices: 4405568--4405632 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
4405558 GTTTTTTTTG
4405568 AAATTTCAACTGGTTTTGTC
1 AAATTTCAACTGGTTTTGTC
* **
4405588 AAATTTTAACAAGTTTTGTC
1 AAATTTCAACTGGTTTTGTC
4405608 -AATTTCCAA-TCGGTTTTGTC
1 AAATTT-CAACT-GGTTTTGTC
4405628 AAATT
1 AAATT
4405633 CGTTACTTGT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
19 5 0.14
20 27 0.75
21 4 0.11
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.45
Consensus pattern (20 bp):
AAATTTCAACTGGTTTTGTC
Found at i:4407572 original size:57 final size:57
Alignment explanation
Indices: 4407502--4407614 Score: 208
Period size: 57 Copynumber: 2.0 Consensus size: 57
4407492 GATCTTATCC
4407502 GAAAGACATTCTTCACACATCCAATCTTCTAGCTTATGCCTCAAAACTATGATGGTT
1 GAAAGACATTCTTCACACATCCAATCTTCTAGCTTATGCCTCAAAACTATGATGGTT
* *
4407559 GAAAGATATTCTTCACACATCCAATCTTCTAGCTTATGCCTCAAAATTATGATGGT
1 GAAAGACATTCTTCACACATCCAATCTTCTAGCTTATGCCTCAAAACTATGATGGT
4407615 CGGGATTTCC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (57 bp):
GAAAGACATTCTTCACACATCCAATCTTCTAGCTTATGCCTCAAAACTATGATGGTT
Found at i:4407823 original size:6 final size:6
Alignment explanation
Indices: 4407806--4407836 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
4407796 ATAGTGGAGC
*
4407806 TCAAAT TGAAAT TCAAAT TCAAAT TCAAAT T
1 TCAAAT TCAAAT TCAAAT TCAAAT TCAAAT T
4407837 GAAAACTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.13, G:0.03, T:0.35
Consensus pattern (6 bp):
TCAAAT
Found at i:4407823 original size:12 final size:12
Alignment explanation
Indices: 4407806--4407840 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
4407796 ATAGTGGAGC
4407806 TCAAATTGAAAT
1 TCAAATTGAAAT
*
4407818 TCAAATTCAAAT
1 TCAAATTGAAAT
4407830 TCAAATTGAAA
1 TCAAATTGAAA
4407841 ACTACATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.31
Consensus pattern (12 bp):
TCAAATTGAAAT
Found at i:4408177 original size:15 final size:15
Alignment explanation
Indices: 4408159--4408188 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4408149 TAAACCAAAC
4408159 ATACAAAACAATGTT
1 ATACAAAACAATGTT
*
4408174 ATACATAACAATGTT
1 ATACAAAACAATGTT
4408189 CTAATAGTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.07, T:0.30
Consensus pattern (15 bp):
ATACAAAACAATGTT
Found at i:4409197 original size:3 final size:3
Alignment explanation
Indices: 4409189--4409217 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
4409179 GTTTGAATCT
4409189 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
4409218 TGTAATGTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:4409625 original size:19 final size:20
Alignment explanation
Indices: 4409585--4409625 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
4409575 CTTTCTCTTG
*
4409585 TTTTACTCCAATGCCATCTT
1 TTTTACTCCAATGCCATATT
*
4409605 TTTTACTCCAAT-CGATATT
1 TTTTACTCCAATGCCATATT
4409624 TT
1 TT
4409626 AAATAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.22, C:0.24, G:0.05, T:0.49
Consensus pattern (20 bp):
TTTTACTCCAATGCCATATT
Found at i:4410917 original size:175 final size:177
Alignment explanation
Indices: 4410689--4411057 Score: 573
Period size: 175 Copynumber: 2.1 Consensus size: 177
4410679 ATACATATAC
*
4410689 AAAATGTATCGATACTTTATGTTTACGCCTATTATCATTAAATCGATAGATTTTTACCATTTACA
1 AAAA-GTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGATAGATTTTTACCATTTACA
* * *
4410754 TTGTAAATTTACCTATTTCTTTAAAGTAATAAGTTTCAAAATTATAATTATCGATACTTGTG-CG
65 TTGTAAATTTACCTATTACTTTAAAGTAATAAGTTTCAAAATTATAACTATCAATACTTGTGACG
* *
4410818 TTTATCGATACTTTCAGCACGCATGTTGTTTGAGAAGCATACTGGACT
130 TGTATCGATACTTTCAGCACGCATCTTGTTTGAGAAGCATACTGGACT
4410866 AAAAGTATCGATACTTTATGTTTAC-CCTATTATCATTAAACC-AGTAGATTTTTACCATTTACA
1 AAAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGA-TAGATTTTTACCATTTACA
*
4410929 TTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAACTATCAATACTTGTGATA
65 TTGTAAATTTACCTATTACTTTAAAGTAATAAGTTTCAAAATTATAACTATCAATACTTGTG--A
* * **
4410994 CGTGTATCGATATTTTCTGCGTGCATCTTGTTTGAGAAGCATACTGGACT
128 CGTGTATCGATACTTTCAGCACGCATCTTGTTTGAGAAGCATACTGGACT
*
4411044 AAAAGTATCTATAC
1 AAAAGTATCGATAC
4411058 CTATACAAAA
Statistics
Matches: 176, Mismatches: 12, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
174 1 0.01
175 93 0.53
176 21 0.12
177 4 0.02
178 57 0.32
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (177 bp):
AAAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGATAGATTTTTACCATTTACAT
TGTAAATTTACCTATTACTTTAAAGTAATAAGTTTCAAAATTATAACTATCAATACTTGTGACGT
GTATCGATACTTTCAGCACGCATCTTGTTTGAGAAGCATACTGGACT
Found at i:4411393 original size:19 final size:21
Alignment explanation
Indices: 4411369--4411408 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4411359 TGGTTTCGAA
*
4411369 GTTATA-A-GTATTGATACTT
1 GTTATACATGTATCGATACTT
4411388 GTTATACATGTATCGATACTT
1 GTTATACATGTATCGATACTT
4411409 TGCGCGTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 11 0.61
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (21 bp):
GTTATACATGTATCGATACTT
Found at i:4411466 original size:20 final size:20
Alignment explanation
Indices: 4411433--4411481 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
4411423 GTTGAGAAGC
* *
4411433 ATACTAGACTAAAAGCATCG
1 ATACTATACAAAAAGCATCG
*
4411453 ATACATATACAAAAAGTATCG
1 ATAC-TATACAAAAAGCATCG
4411474 ATACTATA
1 ATACTATA
4411482 TGTTTACGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.49, C:0.16, G:0.10, T:0.24
Consensus pattern (20 bp):
ATACTATACAAAAAGCATCG
Found at i:4411537 original size:199 final size:201
Alignment explanation
Indices: 4410866--4411874 Score: 1270
Period size: 199 Copynumber: 5.1 Consensus size: 201
4410856 ATACTGGACT
4410866 AAAAGTATCGATACTTTATGTTTAC-CCTATTATCATTAAACC-AGTAGATTTTTACCATTTACA
1 AAAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGA-TAGATTTTTACCATTTACA
* *
4410929 TTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAACTATCAATACTTGTGATA
65 TTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCAATACTTGTTATA
* * ** *
4410994 CGTGTATCGATA-TTTTCTGCGTGCATCTTGTTTGAGAAGCATACTGGACTAAAAGTATCTATAC
130 CATGTATCGATACTTTGCTGCGTGCAAATTGTTTGAGAAGCATACTGGACTAAAAGTATCGATAC
4411058 CTATACA
195 CTATACA
*
4411065 AAACGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGATAGATTTTTACCATTTACAT
1 AAAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGATAGATTTTTACCATTTACAT
* * * *
4411130 TGTAAATTTACCTATTACTTTAAAGTAATAAGTTTCATAACTATAAGTATCAATACTTGTGATAC
66 TGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCAATACTTGTTATAC
* * ** * ** *
4411195 ATGTATTGATACTTT-CTGTGTGCATGTTGTTTGAGAAACATACTGGACTAAAAGTATTAATACT
131 ATGTATCGATACTTTGCTGCGTGCAAATTGTTTGAGAAGCATACTGGACTAAAAGTATCGATACC
4411259 TATACA
196 TATACA
* * *
4411265 AAGAGTATCAATACTTTATGTTTACGCCTATTATCATTAAACCTG-TAGATTTTTACCATTTATA
1 AAAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACC-GATAGATTTTTACCATTTACA
* * * * * * **
4411329 TTATAAATTTACCTATAAATTTAAAGTAATTGGTTTCGAAGTTATAAGTATTGATACTTGTTATA
65 TTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCAATACTTGTTATA
* *
4411394 CATGTATCGATACTTTGC-GCGTGCAAATTG-TTGAGAAGCATACTAGACTAAAAGCATCGATAC
130 CATGTATCGATACTTTGCTGCGTGCAAATTGTTTGAGAAGCATACTGGACTAAAAGTATCGATAC
*
4411457 ATATACA
195 CTATACA
* * * * * *
4411464 AAAAGTATCGATACTATATGTTTACGCCTATTATCATTAAACCGATAGACTTTTACCGTTGAAAA
1 AAAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGATAGATTTTTACCATTTACAT
* *** * *
4411529 TGTAAATTTACCTATAACTTTAAAGTAATCTCTTTCGAAATTATAAGTATCGATACTTGTTATAC
66 TGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCAATACTTGTTATAC
* * *
4411594 ATGTATCGATACTTTG-TGCGGGCAAATT-ATTGAGAAGCATACTGGACTAAAAGTATTGATACC
131 ATGTATCGATACTTTGCTGCGTGCAAATTGTTTGAGAAGCATACTGGACTAAAAGTATCGATACC
4411657 TATACA
196 TATACA
* ** * *
4411663 AAGAGTATCTCTACTTTATGTTTACGCCTATTATCATTAAACCAGA-AGATTTTTACCGTTTTCA
1 AAAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACC-GATAGATTTTTACCATTTACA
* *
4411727 TTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTAAAAATTATAAGTACCAATACTTGTTATG
65 TTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCAATACTTGTTAT-
* ** * * * * * *
4411792 A-GTGTATCGATACTTTTTTGCATGCAAATTGTTTCAGATA-TACACTGGAATAAAAGTAGT-GC
129 ACATGTATCGATACTTTGCTGCGTGCAAATTGTTTGAGA-AGCATACTGGACTAAAAGTA-TCGA
* *
4411854 TACTTATATA
192 TACCTATACA
4411864 AAAAGTATCGA
1 AAAAGTATCGA
4411875 AATTGGACAT
Statistics
Matches: 705, Mismatches: 91, Indels: 26
0.86 0.11 0.03
Matches are distributed among these distances:
198 1 0.00
199 355 0.50
200 304 0.43
201 43 0.06
202 2 0.00
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (201 bp):
AAAAGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGATAGATTTTTACCATTTACAT
TGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCAATACTTGTTATAC
ATGTATCGATACTTTGCTGCGTGCAAATTGTTTGAGAAGCATACTGGACTAAAAGTATCGATACC
TATACA
Found at i:4411820 original size:399 final size:400
Alignment explanation
Indices: 4410869--4411824 Score: 1350
Period size: 399 Copynumber: 2.4 Consensus size: 400
4410859 CTGGACTAAA
* *
4410869 AGTATCGATACTTTATGTTTAC-CCTATTATCATTAAACCAGTAGATTTTTACCATTTACATTGT
1 AGTATCAATACTTTATGTTTACGCCTATTATCATTAAACCAGTAGATTTTTACCATTTTCATTGT
* *
4410933 AAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAACTATCAATACTTGTGATACGTG
66 AAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCAATACTTGTTATACGTG
** * * * *
4410998 TATCGATA-TTTTCTGCGTGCATCTTGTTTGAGAAGCATACTGGACTAAAAGTATCTATACCTAT
131 TATCGATACTTTTCTGCGTGCAAATTG-TTGAGAAGCATACTAGACTAAAAGCATCGATACATAT
* * * *
4411062 ACAAAACGTATCGATACTTTATGTTTACGCCTATTATCATTAAACCGATAGATTTTTACCATTTA
195 ACAAAAAGTATCGATACTATATGTTTACGCCTATTATCATTAAACCGATAGACTTTTACCATTGA
* * * *
4411127 CATTGTAAATTTACCTATTACTTTAAAGTAATAAGTTTCATAACTATAAGTATCAATACTTGTGA
260 AAATGTAAATTTACCTATAACTTTAAAGTAATAACTTTCATAACTATAAGTATCAATACTTGTGA
* * * ** *
4411192 TACATGTATTGATACTTTCTGTGTGCATGTTGTTTGAGAAACATACTGGACTAAAAGTATTAATA
325 TACATGTATCGATACTTTCTGCGGGCAAATTGATTGAGAAACATACTGGACTAAAAGTATTAATA
*
4411257 CTTATACAAAG
390 CCTATACAAAG
* *
4411268 AGTATCAATACTTTATGTTTACGCCTATTATCATTAAACCTGTAGATTTTTACCATTTAT-ATTA
1 AGTATCAATACTTTATGTTTACGCCTATTATCATTAAACCAGTAGATTTTTACCATTT-TCATTG
* * * * * ** *
4411332 TAAATTTACCTATAAATTTAAAGTAATTGGTTTCGAAGTTATAAGTATTGATACTTGTTATACAT
65 TAAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCAATACTTGTTATACGT
*
4411397 GTATCGATACTTTGC-GCGTGCAAATTGTTGAGAAGCATACTAGACTAAAAGCATCGATACATAT
130 GTATCGATACTTTTCTGCGTGCAAATTGTTGAGAAGCATACTAGACTAAAAGCATCGATACATAT
*
4411461 ACAAAAAGTATCGATACTATATGTTTACGCCTATTATCATTAAACCGATAGACTTTTACCGTTGA
195 ACAAAAAGTATCGATACTATATGTTTACGCCTATTATCATTAAACCGATAGACTTTTACCATTGA
** * * *
4411526 AAATGTAAATTTACCTATAACTTTAAAGTAATCTCTTTCGA-AATTATAAGTATCGATACTTGTT
260 AAATGTAAATTTACCTATAACTTTAAAGTAATAACTTTC-ATAACTATAAGTATCAATACTTGTG
* * *
4411590 ATACATGTATCGATACTTTGTGCGGGCAAATT-ATTGAGAAGCATACTGGACTAAAAGTATTGAT
324 ATACATGTATCGATACTTTCTGCGGGCAAATTGATTGAGAAACATACTGGACTAAAAGTATTAAT
4411654 ACCTATACAAAG
389 ACCTATACAAAG
** * *
4411666 AGTATCTCTACTTTATGTTTACGCCTATTATCATTAAACCAGAAGATTTTTACCGTTTTCATTGT
1 AGTATCAATACTTTATGTTTACGCCTATTATCATTAAACCAGTAGATTTTTACCATTTTCATTGT
* *
4411731 AAATTTACCTATTACTTTAAAGTAATAGGTTTAAAAATTATAAGTACCAATACTTGTTATGA-GT
66 AAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCAATACTTGTTAT-ACGT
* *
4411795 GTATCGATACTTTTTTGCATGCAAATTGTT
130 GTATCGATACTTTTCTGCGTGCAAATTGTT
4411825 TCAGATATAC
Statistics
Matches: 486, Mismatches: 64, Indels: 14
0.86 0.11 0.02
Matches are distributed among these distances:
397 1 0.00
398 162 0.33
399 207 0.43
400 112 0.23
401 4 0.01
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (400 bp):
AGTATCAATACTTTATGTTTACGCCTATTATCATTAAACCAGTAGATTTTTACCATTTTCATTGT
AAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAATTATAAGTATCAATACTTGTTATACGTG
TATCGATACTTTTCTGCGTGCAAATTGTTGAGAAGCATACTAGACTAAAAGCATCGATACATATA
CAAAAAGTATCGATACTATATGTTTACGCCTATTATCATTAAACCGATAGACTTTTACCATTGAA
AATGTAAATTTACCTATAACTTTAAAGTAATAACTTTCATAACTATAAGTATCAATACTTGTGAT
ACATGTATCGATACTTTCTGCGGGCAAATTGATTGAGAAACATACTGGACTAAAAGTATTAATAC
CTATACAAAG
Found at i:4414669 original size:18 final size:18
Alignment explanation
Indices: 4414646--4414696 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
4414636 ATTTTGCTCA
*
4414646 TCACATACATAATTTCAT
1 TCACATACAAAATTTCAT
*
4414664 TCACATATAAAATTTCAT
1 TCACATACAAAATTTCAT
4414682 TCACATACAAAATTT
1 TCACATACAAAATTT
4414697 GGCTTACATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (18 bp):
TCACATACAAAATTTCAT
Found at i:4418545 original size:228 final size:228
Alignment explanation
Indices: 4418148--4418600 Score: 730
Period size: 228 Copynumber: 2.0 Consensus size: 228
4418138 TCGGGTTTCT
* ** *
4418148 TTCAAAGGGATTAGAATACTCCCTACTACAAGTATTGGTACCTTTATACAACCTACAATATCATT
1 TTCAAAGGGAATAGAATACTCCCTACTACAAGTATCAGTACCTTTATACAACATACAATATCATT
* *
4418213 TTCTACCTATAATATTATATAAAAGTATCGATATTTATTTTCTACCTATAATATCACTTTCTACC
66 TTCTACCTATAATATTATATAAAAGTATCGATATTTATTTTATACCTAGAATATCACTTTCTACC
* * * *
4418278 TGTAATCGATCCCAAATCATTCTTTACTTCGAAAACCCCAAACTCATAACCCTAATCCCTATTTT
131 TGTAATCGATCCCAAATCATTCATTACTTCGAAAACCCCAAACCCATAAACATAATCCCTATTTT
*
4418343 CGAATACTGTAATACTAAAAAACTAGGGTTACC
196 CGAATACTGTAATACTAAAAAACAAGGGTTACC
* *
4418376 TTCAAA-GGAATAGGAATACTCTCTACTACAAGTATCAGTACTTTTATACAACATACAATATCAT
1 TTCAAAGGGAATA-GAATACTCCCTACTACAAGTATCAGTACCTTTATACAACATACAATATCAT
4418440 TTTCTACCTATAATATTATATAAAAGTATCGATATTTATTTTATACCTAGAATATCACTTTCTAC
65 TTTCTACCTATAATATTATATAAAAGTATCGATATTTATTTTATACCTAGAATATCACTTTCTAC
* *
4418505 CTGTAATC-AGTCCCAAATCCTTCATTACTTTGAAAACCCCAAACCCATAAACATAATCCCTATT
130 CTGTAATCGA-TCCCAAATCATTCATTACTTCGAAAACCCCAAACCCATAAACATAATCCCTATT
*
4418569 TTTGAATACTGTAATACTAAAAAACAAGGGTT
194 TTCGAATACTGTAATACTAAAAAACAAGGGTT
4418601 TTGACAACAT
Statistics
Matches: 207, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
227 6 0.03
228 201 0.97
ACGTcount: A:0.37, C:0.21, G:0.08, T:0.34
Consensus pattern (228 bp):
TTCAAAGGGAATAGAATACTCCCTACTACAAGTATCAGTACCTTTATACAACATACAATATCATT
TTCTACCTATAATATTATATAAAAGTATCGATATTTATTTTATACCTAGAATATCACTTTCTACC
TGTAATCGATCCCAAATCATTCATTACTTCGAAAACCCCAAACCCATAAACATAATCCCTATTTT
CGAATACTGTAATACTAAAAAACAAGGGTTACC
Found at i:4419203 original size:197 final size:194
Alignment explanation
Indices: 4418858--4419226 Score: 485
Period size: 197 Copynumber: 1.9 Consensus size: 194
4418848 TTTTTTTCAT
* * **
4418858 TTCTTTTCAATTCCTAAAGTATTGATACTATGATACATATACTTATAAAAGTATTGATACCATCA
1 TTCTTTTAAATTCCTAAAGTATCGATACTATGATACATATACTTATAAAAGTATTGATAAAATCA
* * * * * * *
4418923 ATATATCTGGTAGCGCTTTACCGATTTTGTCATATTGAAACTGGTTTTGTCAAATTTTAACCTGT
66 AAATATCTGGTAGCGCTTTACCGATTTTGTCAAACTGAAACTGATTTTGTCAAACTTCAACCTAT
*
4418988 TATATTGTTATGTATCGATACATGTGTCTAAGGTATCAATACTTTATAGGCGCTATTATTGCAA
131 TATATTGTCATGTATCGATACATGTGTCTAAGGTATCAATACTTTATAGGCGCTATTATTGCAA
* *
4419052 TTCTTTTAAATTCCTAAAGTATCGATACTTTGATGCATATACTTATAAAAGTATTGATATAAATT
1 TTCTTTTAAATTCCTAAAGTATCGATACTATGATACATATACTTATAAAAGTATTGATA-AAA--
**
4419117 TCAACCAAT-TC-GGTATTTG-TTTACCGATTTTGTCAAACTGAAA-TCGATTTTGTCAAACTTC
63 TCAA--AATATCTGGTA-GCGCTTTACCGATTTTGTCAAACTGAAACT-GATTTTGTCAAACTTC
* *
4419178 AACCTATTATATTGTCATGTATCGATACATGTGTGTAAGGTATCGATAC
124 AACCTATTATATTGTCATGTATCGATACATGTGTCTAAGGTATCAATAC
4419227 ATGTGTGTAA
Statistics
Matches: 150, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
194 55 0.37
195 1 0.01
196 1 0.01
197 88 0.59
198 3 0.02
199 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.41
Consensus pattern (194 bp):
TTCTTTTAAATTCCTAAAGTATCGATACTATGATACATATACTTATAAAAGTATTGATAAAATCA
AAATATCTGGTAGCGCTTTACCGATTTTGTCAAACTGAAACTGATTTTGTCAAACTTCAACCTAT
TATATTGTCATGTATCGATACATGTGTCTAAGGTATCAATACTTTATAGGCGCTATTATTGCAA
Found at i:4419222 original size:21 final size:21
Alignment explanation
Indices: 4419196--4419247 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
4419186 ATATTGTCAT
*
4419196 GTATCGATACATGTGTGTAAG
1 GTATCGATACATGTGTGTAAA
4419217 GTATCGATACATGTGTGTAAA
1 GTATCGATACATGTGTGTAAA
4419238 GTATCGATAC
1 GTATCGATAC
4419248 TTTCGAGACA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.33
Consensus pattern (21 bp):
GTATCGATACATGTGTGTAAA
Found at i:4419407 original size:20 final size:20
Alignment explanation
Indices: 4419384--4419432 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
4419374 TTGAAATCGA
*
4419384 TTTTGTCAATTTTCAAACGG
1 TTTTGTCAATTTCCAAACGG
**
4419404 TTTTGTCAATTTCCAATTGG
1 TTTTGTCAATTTCCAAACGG
4419424 TTTTGTCAA
1 TTTTGTCAA
4419433 ATTTGTTACC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.22, C:0.14, G:0.14, T:0.49
Consensus pattern (20 bp):
TTTTGTCAATTTCCAAACGG
Found at i:4419463 original size:41 final size:41
Alignment explanation
Indices: 4419364--4419477 Score: 106
Period size: 41 Copynumber: 2.8 Consensus size: 41
4419354 TCTTTACTGA
* *
4419364 TTTTCTCAAATTGAAATCGATTTTGTC-AATTTTCAAACGG
1 TTTTGTCAAATTGAAATTGATTTTGTCAAATTTTCAAACGG
* ** * * * *
4419404 TTTTGTCAATTTCCAATTGGTTTTGTCAAATTTGT-TACCTG
1 TTTTGTCAAATTGAAATTGATTTTGTCAAATTT-TCAAACGG
* *
4419445 TTTTGTCAAATTGAAATTGAATTTCTCAAATTT
1 TTTTGTCAAATTGAAATTGATTTTGTCAAATTT
4419478 CAACTTGTTA
Statistics
Matches: 57, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
40 21 0.37
41 35 0.61
42 1 0.02
ACGTcount: A:0.27, C:0.13, G:0.12, T:0.47
Consensus pattern (41 bp):
TTTTGTCAAATTGAAATTGATTTTGTCAAATTTTCAAACGG
Found at i:4420219 original size:20 final size:20
Alignment explanation
Indices: 4420174--4420348 Score: 217
Period size: 20 Copynumber: 8.7 Consensus size: 20
4420164 GCGATTTTCC
* * *
4420174 AAATCGCAACGCGAACACCAT
1 AAATCGCAACGCGTA-TCCGT
4420195 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
4420215 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
4420235 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
4420255 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
4420275 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
4420295 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
4420315 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
4420336 AAATCGCAACGCG
1 AAATCGCAACGCG
4420349 ATATTTAAAG
Statistics
Matches: 132, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
19 1 0.01
20 101 0.77
21 29 0.22
22 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:4420767 original size:33 final size:33
Alignment explanation
Indices: 4420728--4420798 Score: 106
Period size: 33 Copynumber: 2.2 Consensus size: 33
4420718 TTCACTTAGA
* *
4420728 TTTCATTTCGCGTTACGATTTTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
4420761 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
4420794 TTTCA
1 TTTCA
4420799 AGTTAGTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.11, C:0.21, G:0.18, T:0.49
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Done.