Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008138.1 Hibiscus syriacus cultivar Beakdansim tig00110694_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: 3838456
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 18
Found at i:2020500 original size:12 final size:12
Alignment explanation
Indices: 2020477--2020510 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
2020467 TGGGGATTGA
2020477 TAAGAA-GAGTT
1 TAAGAATGAGTT
2020488 TAAGAATGAGTT
1 TAAGAATGAGTT
*
2020500 TAACAATGAGT
1 TAAGAATGAGT
2020511 ATATTGGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 6 0.29
12 15 0.71
ACGTcount: A:0.44, C:0.03, G:0.24, T:0.29
Consensus pattern (12 bp):
TAAGAATGAGTT
Found at i:2022386 original size:24 final size:20
Alignment explanation
Indices: 2022359--2022416 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
2022349 GCATGGGTAG
2022359 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TG-T--AGAA
*
2022383 TGCATCGATACACTGTAGAA
1 TGCATCGATGCACTGTAGAA
*
2022403 TGTATCGATGCACT
1 TGCATCGATGCACT
2022417 TCAAGGGAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 16 0.52
22 1 0.03
23 2 0.06
24 12 0.39
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:2023173 original size:32 final size:32
Alignment explanation
Indices: 2023132--2023255 Score: 87
Period size: 31 Copynumber: 3.9 Consensus size: 32
2023122 AGTCGAGGGT
*
2023132 TTACCTATGTTCTACGGAACATATGGACCGAA
1 TTACCTATGTTCTACGGAACATATGGACAGAA
* *
2023164 TTACCTATG-TCTTTC-GAGACATATGGACAGTA
1 TTACCTATGTTC-TACGGA-ACATATGGACAGAA
* * * * *
2023196 -TACCTATATTTTAAGGAACATATGGATAG-T
1 TTACCTATGTTCTACGGAACATATGGACAGAA
* * *
2023226 TTACCTAGGTTCTTC-GAGACCTATGGACAG
1 TTACCTATGTTCTACGGA-ACATATGGACAG
2023256 TTGCTGAGGT
Statistics
Matches: 70, Mismatches: 16, Indels: 13
0.71 0.16 0.13
Matches are distributed among these distances:
30 2 0.03
31 42 0.60
32 26 0.37
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (32 bp):
TTACCTATGTTCTACGGAACATATGGACAGAA
Found at i:2023218 original size:63 final size:62
Alignment explanation
Indices: 2023133--2023256 Score: 151
Period size: 62 Copynumber: 2.0 Consensus size: 62
2023123 GTCGAGGGTT
* * * *
2023133 TACCTATGTTCTACGGAACATATGGACCGAATTACCTATG-TCTTTCGAGACATATGGACAGTA
1 TACCTATATTCTAAGGAACATATGGACAG-ATTACCTAGGTTC-TTCGAGACATATGGACAGTA
* * * *
2023196 TACCTATATTTTAAGGAACATATGGATAGTTTACCTAGGTTCTTCGAGACCTATGGACAGT
1 TACCTATATTCTAAGGAACATATGGACAGATTACCTAGGTTCTTCGAGACATATGGACAGT
2023257 TGCTGAGGTT
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
62 26 0.50
63 26 0.50
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (62 bp):
TACCTATATTCTAAGGAACATATGGACAGATTACCTAGGTTCTTCGAGACATATGGACAGTA
Found at i:2028235 original size:90 final size:89
Alignment explanation
Indices: 2028121--2028295 Score: 305
Period size: 90 Copynumber: 2.0 Consensus size: 89
2028111 TCCCGAATAT
* * *
2028121 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTAAAATAATAAAAACCCTAATATGATTAG
2028186 GGTAACTTGGATATAAAAGGATTA
66 GGTAACTTGGATATAAAAGGATTA
2028210 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTAAAATAATAAAAACCCTAATATGATTA
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTAAAATAATAAAAACCCTAATATGATTA
*
2028275 GGGTAACTTGGCTATAAAAGG
65 GGGTAACTTGGATATAAAAGG
2028296 GTATGTTAGT
Statistics
Matches: 81, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
89 7 0.09
90 74 0.91
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (89 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTAAAATAATAAAAACCCTAATATGATTAG
GGTAACTTGGATATAAAAGGATTA
Found at i:2030637 original size:60 final size:60
Alignment explanation
Indices: 2030570--2030682 Score: 185
Period size: 60 Copynumber: 1.9 Consensus size: 60
2030560 ATAGGGGTGA
*
2030570 TGCTTTGTTGAGT-TCCTCAACTATTAAAAGTTACAAAATGATCA-TTCGACTATCGGGCAT
1 TGCTTTGTTGAGTCTCC-CAACTATTAAAAGTTACAAAATAATCACTT-GACTATCGGGCAT
2030630 TGCTTTGTTGAGTCTCCCAACTATTAAAAGTTACAAAATAATCACTTGACTAT
1 TGCTTTGTTGAGTCTCCCAACTATTAAAAGTTACAAAATAATCACTTGACTAT
2030683 TTAGTATGTT
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
60 45 0.90
61 5 0.10
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (60 bp):
TGCTTTGTTGAGTCTCCCAACTATTAAAAGTTACAAAATAATCACTTGACTATCGGGCAT
Found at i:2031741 original size:22 final size:23
Alignment explanation
Indices: 2031703--2031752 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
2031693 TCTCTTCATG
* *
2031703 AAAAGGTTAAATCCTTTT-ATGA
1 AAAAGGTTAAAGCCTTTTCATCA
2031725 AAAAGGTT-AAGCACTTTTCATCA
1 AAAAGGTTAAAGC-CTTTTCATCA
2031748 AAAAG
1 AAAAG
2031753 ATAAGTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 3 0.12
22 13 0.54
23 8 0.33
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (23 bp):
AAAAGGTTAAAGCCTTTTCATCA
Found at i:2031780 original size:21 final size:20
Alignment explanation
Indices: 2031749--2031793 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
2031739 TTTTCATCAA
*
2031749 AAAGATAAGTCATTTAATTG
1 AAAGATAAGTCATTTAATCG
*
2031769 AAAGATTAAGTCATTTCATCG
1 AAAGA-TAAGTCATTTAATCG
2031790 AAAG
1 AAAG
2031794 GTCTTAACCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.31
Consensus pattern (20 bp):
AAAGATAAGTCATTTAATCG
Found at i:2031899 original size:35 final size:36
Alignment explanation
Indices: 2031832--2031907 Score: 136
Period size: 35 Copynumber: 2.1 Consensus size: 36
2031822 CTATATATAG
*
2031832 GTTACTTGAGGCACAATTCTAAAAAAAATAATACAA
1 GTTACTTGACGCACAATTCTAAAAAAAATAATACAA
2031868 GTTACTTGACGCACAATTCT-AAAAAAATAATACAA
1 GTTACTTGACGCACAATTCTAAAAAAAATAATACAA
2031903 GTTAC
1 GTTAC
2031908 AAAGACAACT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
35 20 0.51
36 19 0.49
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (36 bp):
GTTACTTGACGCACAATTCTAAAAAAAATAATACAA
Found at i:2032834 original size:65 final size:64
Alignment explanation
Indices: 2032760--2032888 Score: 213
Period size: 65 Copynumber: 2.0 Consensus size: 64
2032750 TATTTTTTTG
*
2032760 TCACAATTTTTTATAATGAGAAATTAATATTGGTTACAAATTGTTATTTTGATTAAATGAAATTT
1 TCACAATTTTTTATAATGAGAAATTAATATTGGTTACAAATTATTATTTTGATTAAAT-AAATTT
* * *
2032825 TCACAATTTTTTATGATGAGAAATTAATATTTGTTATAAATTATTATTTTGATTAAATAAATTT
1 TCACAATTTTTTATAATGAGAAATTAATATTGGTTACAAATTATTATTTTGATTAAATAAATTT
2032889 GGCATAAATT
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
64 6 0.10
65 54 0.90
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (64 bp):
TCACAATTTTTTATAATGAGAAATTAATATTGGTTACAAATTATTATTTTGATTAAATAAATTT
Found at i:2032889 original size:32 final size:32
Alignment explanation
Indices: 2032795--2032908 Score: 97
Period size: 32 Copynumber: 3.5 Consensus size: 32
2032785 AATATTGGTT
*
2032795 ACAAATTGTTATTTTGATTAAATGAAATTT-TC
1 ACAAATTTTTATTTTGATTAAAT-AAATTTGTC
* ** * *
2032827 ACAATTTTTTATGATGA-GAAATTAATATTTGTT
1 ACAAATTTTTATTTTGATTAAA-TAA-ATTTGTC
* * *
2032860 ATAAATTATTATTTTGATTAAATAAATTTGGC
1 ACAAATTTTTATTTTGATTAAATAAATTTGTC
*
2032892 ATAAATTTTTATTTTGA
1 ACAAATTTTTATTTTGA
2032909 CAAAATTTTC
Statistics
Matches: 63, Mismatches: 15, Indels: 8
0.73 0.17 0.09
Matches are distributed among these distances:
31 5 0.08
32 39 0.62
33 16 0.25
34 3 0.05
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.49
Consensus pattern (32 bp):
ACAAATTTTTATTTTGATTAAATAAATTTGTC
Found at i:2032901 original size:65 final size:65
Alignment explanation
Indices: 2032756--2032903 Score: 199
Period size: 65 Copynumber: 2.3 Consensus size: 65
2032746 AGAATATTTT
* *
2032756 TTTGTCACAATTTTTTATAATGAGAAATTAATATTGGTTACAAATTGTTATTTTGATTAAATGAA
1 TTTG-CACAAATTTTTATAATGAGAAATTAATATTGGTTACAAATTATTATTTTGATTAAATGAA
2032821 A
65 A
* * * * *
2032822 TTTTCACAATTTTTTATGATGAGAAATTAATATTTGTTATAAATTATTATTTTGATTAAAT-AAA
1 TTTGCACAAATTTTTATAATGAGAAATTAATATTGGTTACAAATTATTATTTTGATTAAATGAAA
*
2032886 TTTGGCATAAATTTTTAT
1 TTT-GCACAAATTTTTAT
2032904 TTTGACAAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
64 6 0.08
65 64 0.88
66 3 0.04
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.49
Consensus pattern (65 bp):
TTTGCACAAATTTTTATAATGAGAAATTAATATTGGTTACAAATTATTATTTTGATTAAATGAAA
Found at i:2034274 original size:17 final size:16
Alignment explanation
Indices: 2034241--2034288 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
2034231 ACCACCCTAT
2034241 TAAAAATAAATTTCCC
1 TAAAAATAAATTTCCC
* *
2034257 TAAAAATTAGTTTCCCC
1 TAAAAATAAATTT-CCC
* *
2034274 TAAAACTCAATTTCC
1 TAAAAATAAATTTCC
2034289 TTTAAAAGAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.42, C:0.23, G:0.02, T:0.33
Consensus pattern (16 bp):
TAAAAATAAATTTCCC
Found at i:2034921 original size:75 final size:75
Alignment explanation
Indices: 2034790--2034955 Score: 233
Period size: 75 Copynumber: 2.2 Consensus size: 75
2034780 CTAAGTAAGT
* * * *
2034790 TAGTACCGATACTATCAAAACAAAATGCTAAAATGGTACCTATACTATTTAAGGTATCTACACTA
1 TAGTACCGATACTATCAAAACAAAATGCTAAAATGATACCGATACTATATAAGGTATCGACACTA
2034855 CTTAGTATAG
66 CTTAGTATAG
* * * * * *
2034865 TAGTACTGATACTGTCAAAACATAATGCTAAAATGATATCGATACTATATACGGTATCGATACTA
1 TAGTACCGATACTATCAAAACAAAATGCTAAAATGATACCGATACTATATAAGGTATCGACACTA
*
2034930 CTTAGTGTAG
66 CTTAGTATAG
2034940 TAGTACCGATACTATC
1 TAGTACCGATACTATC
2034956 TTTTTTGTTT
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
75 78 1.00
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (75 bp):
TAGTACCGATACTATCAAAACAAAATGCTAAAATGATACCGATACTATATAAGGTATCGACACTA
CTTAGTATAG
Found at i:2035946 original size:416 final size:416
Alignment explanation
Indices: 2035297--2036085 Score: 1140
Period size: 413 Copynumber: 1.9 Consensus size: 416
2035287 AAAAATATTC
* *
2035297 ATGATAATATAATTTTTCATAATGATTAAAATATATAACTATAAAAATAATTGATTACAAAAAAC
1 ATGATAATATAATTTTTCATAATGATTAAAATATATAACTACAAAAATAATTAATTACAAAAAAC
* * *
2035362 TTGAATTCTATTATCTGATGTGATAATTTTTTTTATAATAATAACTATAAATTATAATTACAAAA
66 TTAAATTCTATTATCTGATGTGATAATTTTTTATATAACAATAACTATAAATTATAATTACAAAA
* * * * **
2035427 CTTATCAATATAACTTTTTGAAACAAAAAAATTGGAGAAAAATATTTATCACAATATATGTTATC
131 ATTATCAATATAACTTTTAGAAACAAAAAAAGTGGAGAAAAATAGTTATCACAATATATACTATC
* * *
2035492 ACTATAATTAAAATTTATATCTACAAGTATAATTTGTCACAAAAATATGAATACCATTA-TTTTT
196 ACTATAATTAAAATTTATAACTACAAATATAATTTGTCACAAAAACATGAATACCATTATTTTTT
* * * *
2035556 GTGACAATGTTTTTTTTCTGTAATTATTATAAACACTTATAGTTACAAAAATTGTTACTATATGA
261 GTGACAATG---TTATT-TGTAATAATTATAAACACTTATAGTTACAAAAATTGTCACAATATGA
* * *
2035621 TTTTTTTGGCGCAAACAAA-ATGGAGGAAAATATTTATGACAATATATTTTGTTATTATATAACA
322 CTTTTTTGGCACAAA-AAATATGGAGGAAAATATTTACGACAATATATTTTGTTATTATATAACA
2035685 TTTTTTACACTAAAAATATGGAGAAATGGTT
386 TTTTTTACACTAAAAATATGGAGAAATGGTT
* * *
2035716 ATGATAGTTTAATTTTTCATAATGATTAAAATATATAAGTACAAAAATAATTAATTAC-AAAAAC
1 ATGATAATATAATTTTTCATAATGATTAAAATATATAACTACAAAAATAATTAATTACAAAAAAC
* * *
2035780 TTAAATTTTATTATTTGATGTGATAATTTTTTATATAACAATAACTATAAATTATAATTATAAAA
66 TTAAATTCTATTATCTGATGTGATAATTTTTTATATAACAATAACTATAAATTATAATTACAAAA
* **
2035845 ATTGA-CAATATAAC-TTTAGAAAC-AAAAAAGTGGAGCAAAATAGTTATGGCAATATATACTAT
131 ATT-ATCAATATAACTTTTAGAAACAAAAAAAGTGGAGAAAAATAGTTATCACAATATATACTAT
* * * *
2035907 CACTATAGTTAAAATTTATAACTACAAATATAATTTGTCACAAAAACGTGAATATCGTTATTTTT
195 CACTATAATTAAAATTTATAACTACAAATATAATTTGTCACAAAAACATGAATACCATTATTTTT
*
2035972 TGTGACAATGTTATTTGTAATAATTATTAACACTTATAGTTACAAAAATTGTCACAATATGACTT
260 TGTGACAATGTTATTTGTAATAATTATAAACACTTATAGTTACAAAAATTGTCACAATATGACTT
* * *
2036037 TTTTGGCACAAAAAATATGGAGGGAAATCTTTGCGACAATATATTTTGT
325 TTTTGGCACAAAAAATATGGAGGAAAATATTTACGACAATATATTTTGT
2036086 CACTATAATT
Statistics
Matches: 329, Mismatches: 38, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
412 3 0.01
413 85 0.26
414 4 0.01
416 85 0.26
417 22 0.07
418 76 0.23
419 54 0.16
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.39
Consensus pattern (416 bp):
ATGATAATATAATTTTTCATAATGATTAAAATATATAACTACAAAAATAATTAATTACAAAAAAC
TTAAATTCTATTATCTGATGTGATAATTTTTTATATAACAATAACTATAAATTATAATTACAAAA
ATTATCAATATAACTTTTAGAAACAAAAAAAGTGGAGAAAAATAGTTATCACAATATATACTATC
ACTATAATTAAAATTTATAACTACAAATATAATTTGTCACAAAAACATGAATACCATTATTTTTT
GTGACAATGTTATTTGTAATAATTATAAACACTTATAGTTACAAAAATTGTCACAATATGACTTT
TTTGGCACAAAAAATATGGAGGAAAATATTTACGACAATATATTTTGTTATTATATAACATTTTT
TACACTAAAAATATGGAGAAATGGTT
Found at i:2037378 original size:197 final size:198
Alignment explanation
Indices: 2036858--2037392 Score: 650
Period size: 197 Copynumber: 2.7 Consensus size: 198
2036848 TTGAAATTTG
* * * * * *
2036858 ACAAAATCGGTAAAGAGCTACCGAAATTGTTGAAATTTGTATCGATACATTTATAAGTATATGTA
1 ACAAAACCGATAAAGAGCTACCGAAATGGTTG--ACTGGTATCGATACTTTTATAAGTATATGTA
* * * *
2036923 TCAAAGTATCGGTACTGTAGGAATTTAAAAGAAATGAAAAAAGGAAAATGTCTCGAAAGTATTGA
64 TCAAAGTATCGGTACTTTAGGAATTTAAAAGAAATGAAAAAATGAAAATGCCTCGAAAGTATCGA
* **
2036988 TACCTTACACACATGTATCGATACATGATAATATAACAGGTTGAAGTTTGACAAAACCGGTTTCA
129 TACCTTACACACATGTATCGATACATGACAATATAACAGGTTGAAGTTTGACAAAACAAGTTTCA
* * *
2037053 GTTTG
194 ATATA
* * * *
2037058 ACAAAACCGATAAAGAGTTACCGAAATGGTTGACATTTGTATCAATACTTTTATAAGTATATGCA
1 ACAAAACCGATAAAGAGCTACCGAAATGGTTGAC--TGGTATCGATACTTTTATAAGTATATGTA
* * * * * **
2037123 CCAAAGTATCGGTACTTTAGGAATTTAAAAGAATTGCAATAAT---AGTGCCTATAAAGTATCGA
64 TCAAAGTATCGGTACTTTAGGAATTTAAAAGAAATGAAAAAATGAAAATGCCTCGAAAGTATCGA
* *
2037185 TACCTTAGACACATGTATCGATACATGACAATATAACAGGTTGCAA-TTTGACAAAATAAGTTTC
129 TACCTTACACACATGTATCGATACATGACAATATAACAGGTTG-AAGTTTGACAAAACAAGTTTC
2037249 AATATA
193 AATATA
* * * *
2037255 ACAAAACTGGTAAAGCGCTACCAGATAT-GTTGAC-GGTATCGATACTTTTATAAGTATATGTAT
1 ACAAAACCGATAAAGAGCTACC-GAAATGGTTGACTGGTATCGATACTTTTATAAGTATATGTAT
* * *
2037318 CATAGTATCGGTACTTTAGGAATTGAAAAGAAATGAAAAAATGAAAACGCCTCGAAAGTATCGAT
65 CAAAGTATCGGTACTTTAGGAATTTAAAAGAAATGAAAAAATGAAAATGCCTCGAAAGTATCGAT
2037383 ACCTTACACA
130 ACCTTACACA
2037393 AAAGTATTGA
Statistics
Matches: 282, Mismatches: 46, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
194 62 0.22
197 122 0.43
198 7 0.02
200 91 0.32
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (198 bp):
ACAAAACCGATAAAGAGCTACCGAAATGGTTGACTGGTATCGATACTTTTATAAGTATATGTATC
AAAGTATCGGTACTTTAGGAATTTAAAAGAAATGAAAAAATGAAAATGCCTCGAAAGTATCGATA
CCTTACACACATGTATCGATACATGACAATATAACAGGTTGAAGTTTGACAAAACAAGTTTCAAT
ATA
Found at i:2040041 original size:26 final size:24
Alignment explanation
Indices: 2039998--2040050 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
2039988 ATTCGATATC
* *
2039998 TTTTATTTTAGTTCTTTACTTTATA
1 TTTTAATTTAGTTATTTA-TTTATA
*
2040023 TTTTAATTTATGTTATTTATTTTTA
1 TTTTAATTTA-GTTATTTATTTATA
2040048 TTT
1 TTT
2040051 ATTTAATTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.72
Consensus pattern (24 bp):
TTTTAATTTAGTTATTTATTTATA
Found at i:2040175 original size:2 final size:2
Alignment explanation
Indices: 2040163--2040214 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
2040153 AGTCATATTA
*
2040163 AT AT AT GT 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
2040205 AT AT AT AT AT
1 AT AT AT AT AT
2040215 GAAAGATTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2041904 original size:36 final size:36
Alignment explanation
Indices: 2041843--2041913 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 36
2041833 GAGTTATGCA
*
2041843 CACAAAGATCCTATTATATTAATACCAAAAGTATTC
1 CACAAAGATCCTATTAGATTAATACCAAAAGTATTC
* * *
2041879 CACAAAGATCTTGTTAGATTTATACCAAAAGTATT
1 CACAAAGATCCTATTAGATTAATACCAAAAGTATT
2041914 ATATGGTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.32
Consensus pattern (36 bp):
CACAAAGATCCTATTAGATTAATACCAAAAGTATTC
Found at i:2042635 original size:14 final size:14
Alignment explanation
Indices: 2042618--2042672 Score: 51
Period size: 14 Copynumber: 4.1 Consensus size: 14
2042608 CATTTGCATC
*
2042618 TTTGCATTTTTACG
1 TTTGCATTTTTACA
*
2042632 TTTG--TATTTACA
1 TTTGCATTTTTACA
* *
2042644 TTTTCATTTTTGCA
1 TTTGCATTTTTACA
*
2042658 TTTGCATCTTTACA
1 TTTGCATTTTTACA
2042672 T
1 T
2042673 AATTACATTT
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
12 9 0.29
14 22 0.71
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.58
Consensus pattern (14 bp):
TTTGCATTTTTACA
Found at i:2042662 original size:40 final size:39
Alignment explanation
Indices: 2042592--2042670 Score: 97
Period size: 40 Copynumber: 2.0 Consensus size: 39
2042582 TTTCTACATC
* *
2042592 TTTGTATTTGCATTTGCATTTGCATCTTTGCATTTTTACG
1 TTTGTATTTACATTTGCATTTGCA-CTTTGCATCTTTACG
*
2042632 TTTGTATTTACATTTTCATTTTTGCA-TTTGCATCTTTAC
1 TTTGTATTTACATTTGCA--TTTGCACTTTGCATCTTTAC
2042671 ATAATTACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 28 0.82
42 6 0.18
ACGTcount: A:0.16, C:0.15, G:0.11, T:0.57
Consensus pattern (39 bp):
TTTGTATTTACATTTGCATTTGCACTTTGCATCTTTACG
Found at i:2045973 original size:99 final size:99
Alignment explanation
Indices: 2045802--2046002 Score: 357
Period size: 99 Copynumber: 2.0 Consensus size: 99
2045792 TCCCCCATCC
2045802 ACCAATCCATGTCCTCTAGCAGATCCTCCAATCACAGAGCCATAAGTCTCATTAGGTGTATTATG
1 ACCAATCCATGTCCTCTAGCAGATCCTCCAATCACAGAGCCATAAGTCTCATTAGGTGTATTATG
* * *
2045867 GAATGAACAAGTCCACCACTTGCACTCTGGTTAT
66 GAATGAACAAGTCCACCACCTACACTCTGGTCAT
*
2045901 ACCAATCCATGTCTTCTAGCAGATCCTCCAATCACAGAGCCATAAGTCTCATTAGGTGTATTATG
1 ACCAATCCATGTCCTCTAGCAGATCCTCCAATCACAGAGCCATAAGTCTCATTAGGTGTATTATG
*
2045966 GAATGAACAAGTCCACCACCTACACTTTGGTCAT
66 GAATGAACAAGTCCACCACCTACACTCTGGTCAT
2046000 ACC
1 ACC
2046003 GTGATGCTGG
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
99 97 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (99 bp):
ACCAATCCATGTCCTCTAGCAGATCCTCCAATCACAGAGCCATAAGTCTCATTAGGTGTATTATG
GAATGAACAAGTCCACCACCTACACTCTGGTCAT
Found at i:2047147 original size:75 final size:75
Alignment explanation
Indices: 2047059--2047316 Score: 315
Period size: 75 Copynumber: 3.5 Consensus size: 75
2047049 ATCAATAAGA
* *
2047059 AGCAAATATTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATTGGTATATTGACGCATTTTGAA
1 AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATTGACGCATTTTGAA
*
2047124 CATTTGTATC
66 CGTTTGTATC
* * * *
2047134 AGCAAATGTTGGGGCATGCTGAAAGGCCATTTCAATCAGAAATTGAAATATTGACGTATTTTTTA
1 AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATTGACGCA-TTTTGA
*
2047199 ACGTTTATATC
65 ACGTTTGTATC
* * ** ** *
2047210 AGCAAATGTTGGGGCATGCTAAAAG-CC-TTTCAATCAG-AATCAGGAAGGTTGGTGCGTTTTGA
1 AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAAT-TGGAATATTGACGCATTTTGA
*
2047272 ACGTCTGTATC
65 ACGTTTGTATC
* *
2047283 AACAAATGTTGGGGCATGCTGAAGGCCCATTTCA
1 AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCA
2047317 TCTTATGAAA
Statistics
Matches: 156, Mismatches: 23, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
73 39 0.25
74 19 0.12
75 60 0.38
76 38 0.24
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (75 bp):
AGCAAATGTTGGGGCATGCTGAAAGCCCATTTCAATCAGAAATTGGAATATTGACGCATTTTGAA
CGTTTGTATC
Found at i:2048631 original size:22 final size:22
Alignment explanation
Indices: 2048604--2048658 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
2048594 ATCTACATTC
2048604 TTCAAAGATGATAGATTATCTA
1 TTCAAAGATGATAGATTATCTA
* * *
2048626 TTCAAAGATTATAGATTCTCTT
1 TTCAAAGATGATAGATTATCTA
2048648 TTCAAAGATGA
1 TTCAAAGATGA
2048659 AAACTTTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGATAGATTATCTA
Found at i:2049333 original size:37 final size:35
Alignment explanation
Indices: 2049244--2049341 Score: 115
Period size: 35 Copynumber: 2.7 Consensus size: 35
2049234 GTTTTCAAAT
** *
2049244 ACAATTTATCTCACTTGAGATTGTTTTTCTTAAAA
1 ACAATTTATCTCACTTGAGATTGTTTCACTGAAAA
* * * *
2049279 AAAATTTGTCTCGCTTGAGATAGTTTCACTCGAAACA
1 ACAATTTATCTCACTTGAGATTGTTTCACT-GAAA-A
2049316 ACAATTTATCTCACTTGAGATTGTTT
1 ACAATTTATCTCACTTGAGATTGTTT
2049342 TTCTTAAAAC
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
35 24 0.48
36 3 0.06
37 23 0.46
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (35 bp):
ACAATTTATCTCACTTGAGATTGTTTCACTGAAAA
Found at i:2049352 original size:37 final size:37
Alignment explanation
Indices: 2049244--2049353 Score: 143
Period size: 37 Copynumber: 3.0 Consensus size: 37
2049234 GTTTTCAAAT
2049244 ACAATTTATCTCACTTGAGATTGTTTTTCTTAAAA-A
1 ACAATTTATCTCACTTGAGATTGTTTTTCTTAAAACA
* * * ** **
2049280 A-AATTTGTCTCGCTTGAGATAGTTTCACTCGAAACA
1 ACAATTTATCTCACTTGAGATTGTTTTTCTTAAAACA
2049316 ACAATTTATCTCACTTGAGATTGTTTTTCTTAAAACA
1 ACAATTTATCTCACTTGAGATTGTTTTTCTTAAAACA
2049353 A
1 A
2049354 GATTCGTCTC
Statistics
Matches: 58, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
35 26 0.45
36 3 0.05
37 29 0.50
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (37 bp):
ACAATTTATCTCACTTGAGATTGTTTTTCTTAAAACA
Found at i:2049580 original size:119 final size:122
Alignment explanation
Indices: 2049410--2049739 Score: 479
Period size: 119 Copynumber: 2.7 Consensus size: 122
2049400 CACTCGATGG
* * * * * *
2049410 ATCAACATTTCTAGA-AAGAGTTCATAATGATAAGAACTCATCTAAAGAGGAAGAATAAGTTTAT
1 ATCAACATTTCCAGAGGA-AGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCAT
*
2049474 AATGAGAAGAACTTGTTCAACCTTTTACTCGATTCTATCACAGAA-G-G-AGATCATC
65 AATGAGAAGAACTTGTTCAACCTTTTACTCGATTCTATCACAGAAGGAGAAGATCAGC
*
2049529 ATCAACATTTTCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATA
1 ATCAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATA
* *
2049594 ATAAGAAGAACTTGTTCAACCTTTTGCTCGATTCTATCACAGAAGGAGATAGATCAGC
66 ATGAGAAGAACTTGTTCAACCTTTTACTCGATTCTATCACAGAAGGAGA-AGATCAGC
* * * *
2049652 ATCAACGTTTCCAGATGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATA
*
2049717 ATGAGAAGAACTTGTTCGACCTT
66 ATGAGAAGAACTTGTTCAACCTT
2049740 AGCTTGATTC
Statistics
Matches: 189, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
119 98 0.52
120 2 0.01
121 1 0.01
123 88 0.47
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.26
Consensus pattern (122 bp):
ATCAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTTACTCGATTCTATCACAGAAGGAGAAGATCAGC
Found at i:2049827 original size:139 final size:136
Alignment explanation
Indices: 2049652--2049985 Score: 435
Period size: 139 Copynumber: 2.4 Consensus size: 136
2049642 ATAGATCAGC
* *
2049652 ATCAACGTTTCCAGATGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAA-AAGAAGAAGAAGTTCATA
* * *
2049717 ATGAGAAGAACTTGTTCGACCTTAG-CTTGATTCATCATC-TAT-AGAGTTGAATGAAAGAAAAG
65 ATGAGAAGAACTTGTTCAACCTT-GCCTTAATTCATCA-CATATGA-AGTTGAATCAAAG-AAA-
2049779 CCTCACTT-GAGG
125 CCTC-CTTCGAGG
* *
2049791 ATCAATATTTTCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAAATGAAGAAGAAGTTCATA
1 ATCAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAAA-GAAGAAGAAGTTCATA
* * *
2049856 ATGAGAAGAACTTGTTCAACCTTGCCTTAATTCATCACATATGAAGTTGAATCAATGACACCTCT
65 ATGAGAAGAACTTGTTCAACCTTGCCTTAATTCATCACATATGAAGTTGAATCAAAGAAACCTCC
2049921 TTCGAGG
130 TTCGAGG
* *
2049928 ATCAACATTTCCAGAAGG-AGTTCATAATGAGAATAACTCATCTGACAAGGAAGAAGAA
1 ATCAACATTTCCAG-AGGAAGTTCATAATGAGAAGAACTCATCTGA-AAAGAAGAAGAA
2049986 CTTGTTCAAT
Statistics
Matches: 174, Mismatches: 14, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
136 2 0.01
137 55 0.32
138 11 0.06
139 105 0.60
140 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (136 bp):
ATCAACATTTCCAGAGGAAGTTCATAATGAGAAGAACTCATCTGAAAAGAAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTGCCTTAATTCATCACATATGAAGTTGAATCAAAGAAACCTCCT
TCGAGG
Found at i:2049872 original size:20 final size:19
Alignment explanation
Indices: 2049810--2049873 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 19
2049800 TTCAGAGGAA
2049810 GTTCATAATGAGAAGAACT
1 GTTCATAATGAGAAGAACT
* * *
2049829 CATCTGAAAATGAAGAAGAA--
1 -GT-TCATAATG-AGAAGAACT
2049849 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAAC-T
2049869 GTTCA
1 GTTCA
2049874 ACCTTGCCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 10
0.67 0.12 0.20
Matches are distributed among these distances:
17 7 0.21
18 6 0.18
19 1 0.03
20 6 0.18
21 6 0.18
22 7 0.21
ACGTcount: A:0.44, C:0.11, G:0.20, T:0.25
Consensus pattern (19 bp):
GTTCATAATGAGAAGAACT
Found at i:2051461 original size:19 final size:19
Alignment explanation
Indices: 2051400--2051461 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 19
2051390 TTCGATATCT
* * *
2051400 TTTATTTTTAGTTCTTTAC
1 TTTATTTTTATTTATTTAA
***
2051419 TTTATATTTTAATTTATGCGA
1 TTTAT-TTTT-ATTTATTTAA
2051440 TTTATTTTTATTTATTTAA
1 TTTATTTTTATTTATTTAA
2051459 TTT
1 TTT
2051462 CATTACTTTA
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
19 15 0.47
20 8 0.25
21 9 0.28
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTATTTTTATTTATTTAA
Found at i:2051578 original size:2 final size:2
Alignment explanation
Indices: 2051566--2051595 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2051556 ATTCATATTA
*
2051566 AT AT AT GT 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
2051596 GAAAGATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2053467 original size:20 final size:20
Alignment explanation
Indices: 2053439--2053502 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
2053429 TAAATATAAC
*
2053439 GTATTGATACTTTT-TTATA
1 GTATCGATACTTTTATTATA
*
2053458 GGTATCGATACTTTTATTCTA
1 -GTATCGATACTTTTATTATA
*
2053479 GTATCGATACTTTTATTCTA
1 GTATCGATACTTTTATTATA
2053499 GTAT
1 GTAT
2053503 GTTTTTCCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
20 37 0.90
21 4 0.10
ACGTcount: A:0.25, C:0.11, G:0.12, T:0.52
Consensus pattern (20 bp):
GTATCGATACTTTTATTATA
Found at i:2054248 original size:118 final size:117
Alignment explanation
Indices: 2054126--2054533 Score: 295
Period size: 118 Copynumber: 3.5 Consensus size: 117
2054116 TAAACGGTAA
* * *
2054126 TATGTTGATAAT-ACTAATAACAAATCAAGTAATTAACCTATTTTGTTATCGTCAAATTTCTAAG
1 TATGTT-ATAATAACTGATAACAAATCAAGTAATTAACATATTTTGTTATCGTCAGATTTCTAAG
* *
2054190 GCCCCATCAGCTTTAAA-TAGTCACTACCTATTATATTAAATAAACGCTACTGGT
65 GCCCCATCAGCTTTAAACTAGTC-CTACATATTATATTAAATAAACACTACT-GT
* *** **** * * * *
2054244 TATGTTATTATGGTTGATAATGTGTCCAGTAATTAACATATTTTGTTATCGTCGGATTTATAATG
1 TATGTTATAATAACTGATAACAAATCAAGTAATTAACATATTTTGTTATCGTCAGATTTCTAAGG
* ** * ** * **
2054309 CTCCATCAGC-TTAAACT--T--T-GGTA--ATATT--TTAGGCTCTACCTAA
66 CCCCATCAGCTTTAAACTAGTCCTACATATTATATTAAATAAACACTA-CTGT
* *
2054352 TATGTTGATAAT-ACTGATAACAAATTAAGTAATTAACATATTTTGTTATCGTCGGATTTCTAAG
1 TATGTT-ATAATAACTGATAACAAATCAAGTAATTAACATATTTTGTTATCGTCAGATTTCTAAG
*** * *
2054416 GTGTCATCAGATTTAAACTAG-CGCTACATATTACATTAAATAAACACTACTTGT
65 GCCCCATCAGCTTTAAACTAGTC-CTACATATTATATTAAATAAACACTAC-TGT
* * * ** * *
2054470 TATGTTATTATAATTGATAATATTTCTAGTAATTAACCTATTTTGTTATCGTCAGATTTCTAAG
1 TATGTTATAATAACTGATAACAAATCAAGTAATTAACATATTTTGTTATCGTCAGATTTCTAAG
2054534 ACTCTATCAA
Statistics
Matches: 217, Mismatches: 56, Indels: 34
0.71 0.18 0.11
Matches are distributed among these distances:
108 61 0.28
109 13 0.06
110 5 0.02
112 2 0.01
113 2 0.01
114 2 0.01
116 5 0.02
117 14 0.06
118 113 0.52
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.40
Consensus pattern (117 bp):
TATGTTATAATAACTGATAACAAATCAAGTAATTAACATATTTTGTTATCGTCAGATTTCTAAGG
CCCCATCAGCTTTAAACTAGTCCTACATATTATATTAAATAAACACTACTGT
Found at i:2054517 original size:226 final size:226
Alignment explanation
Indices: 2054123--2054663 Score: 708
Period size: 226 Copynumber: 2.4 Consensus size: 226
2054113 ATGTAAACGG
* *
2054123 TAATATGTTGATAATACTAATAACAAATCAAGTAATTAACCTATTTTGTTATCGTCAAATTTCTA
1 TAATATGTTGATAATACTAATAACAAATCAAGTAATTAACATATTTTGTTATCGTCGAATTTCTA
* * * * *
2054188 AGGCCCCATCAGCTTTAAATAGTCACTACCTATTATATTAAATAAACGCTACTGGTTATGTTATT
66 AGGTCTCATCAGCTTTAAATAGTCACTACATATTACATTAAATAAACACTACTGGTTATGTTATT
** * *
2054253 ATGGTTGATAATGTGTCCAGTAATTAACATATTTTGTTATCGTCGGATTTATAATG-CTCCATCA
131 ATAATTGATAATATGTCCAGTAATTAACATATTTTGTTATCGTCAGATTTATAA-GACTCCATCA
* * *
2054317 GCTTAAACTTTGGTAATATTTTAGGCTCTACC
195 ACTTAAACTTTGGTAACATTTTAGGCACTACC
* * *
2054349 TAATATGTTGATAATACTGATAACAAATTAAGTAATTAACATATTTTGTTATCGTCGGATTTCTA
1 TAATATGTTGATAATACTAATAACAAATCAAGTAATTAACATATTTTGTTATCGTCGAATTTCTA
* * * *
2054414 AGGTGTCATCAGATTTAAACTAG-CGCTACATATTACATTAAATAAACACTACTTGTTATGTTAT
66 AGGTCTCATCAGCTTTAAA-TAGTCACTACATATTACATTAAATAAACACTACTGGTTATGTTAT
* * * * *
2054478 TATAATTGATAATATTTCTAGTAATTAACCTATTTTGTTATCGTCAGATTTCTAAGACTCTATCA
130 TATAATTGATAATATGTCCAGTAATTAACATATTTTGTTATCGTCAGATTTATAAGACTCCATCA
*
2054543 ACTTAAATTTTGGTAACATTTTAGGCACTACC
195 ACTTAAACTTTGGTAACATTTTAGGCACTACC
* * * * * * * *
2054575 TAATATATTGATAATATTATTAACAAATCAATTAATTAACTTATTTTATTATTGTTGAATTTCTA
1 TAATATGTTGATAATACTAATAACAAATCAAGTAATTAACATATTTTGTTATCGTCGAATTTCTA
* * *
2054640 AAGTCTCATAAGCTTTAAAAAGTC
66 AGGTCTCATCAGCTTTAAATAGTC
2054664 GTATATTATA
Statistics
Matches: 269, Mismatches: 43, Indels: 6
0.85 0.14 0.02
Matches are distributed among these distances:
225 3 0.01
226 263 0.98
227 3 0.01
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (226 bp):
TAATATGTTGATAATACTAATAACAAATCAAGTAATTAACATATTTTGTTATCGTCGAATTTCTA
AGGTCTCATCAGCTTTAAATAGTCACTACATATTACATTAAATAAACACTACTGGTTATGTTATT
ATAATTGATAATATGTCCAGTAATTAACATATTTTGTTATCGTCAGATTTATAAGACTCCATCAA
CTTAAACTTTGGTAACATTTTAGGCACTACC
Found at i:2057286 original size:539 final size:539
Alignment explanation
Indices: 2056206--2057285 Score: 2133
Period size: 539 Copynumber: 2.0 Consensus size: 539
2056196 TATTTGGGAA
2056206 TTATTGCTAATATGCAATTGTAAATTCAAAGATCTGCAGTGCCCATAGTTTTGATATTCTCTCTC
1 TTATTGCTAATATGCAATTGTAAATTCAAAGATCTGCAGTGCCCATAGTTTTGATATTCTCTCTC
2056271 CTTGGTAAACAGTAGACAGTCATCAATGAATGTTTAGTTTTTTCCAATGTTATTAAAATTGTATC
66 CTTGGTAAACAGTAGACAGTCATCAATGAATGTTTAGTTTTTTCCAATGTTATTAAAATTGTATC
2056336 GGATCGATTGGTTCGACCGGTTGAATCGAGAATTAGTTGTTTGTTCTGTTCGATCAGCCTTTGAA
131 GGATCGATTGGTTCGACCGGTTGAATCGAGAATTAGTTGTTTGTTCTGTTCGATCAGCCTTTGAA
*
2056401 CTGTTAAAGAATCGGTAAAATCGATTGGGAACTGATAAAATTAGTGTGAACTGGTAATTTAAGCG
196 CTGTTAAAGAATCGGTAAAATCGATTGGGAACTGATAAAATTAGTGTGAACTGATAATTTAAGCG
2056466 GTTAGATTTTGTTTTTTTTTTAAATTAAACCAAAGTGGTGTCGGAGCAGGAAGGGAGTGAAAGCG
261 GTTAGATTTTGTTTTTTTTTTAAATTAAACCAAAGTGGTGTCGGAGCAGGAAGGGAGTGAAAGCG
*
2056531 TGGTTAACTCGTTGTGTGAGGAATCATTGGAAGCCAGGGAAAAAGCAATAGTGGGTGGAGTTTTG
326 TGGTTAACTCGTTGTGTGAGGAATCATTGGAAGCCAGGGAAAAAGCAATAGTGAGTGGAGTTTTG
2056596 ACGCATTTGGTGTTGCTTCTGCAGAGCCACGGTAGTGGTAGGACCAAAACAAAGGCCACTGCGTT
391 ACGCATTTGGTGTTGCTTCTGCAGAGCCACGGTAGTGGTAGGACCAAAACAAAGGCCACTGCGTT
2056661 GCTGATGCTATGATCCATGTGGACCAAGCTGGAATTTAAACTGGGGTTGAATTACGGTTGTTATC
456 GCTGATGCTATGATCCATGTGGACCAAGCTGGAATTTAAACTGGGGTTGAATTACGGTTGTTATC
2056726 AAAATGAAGAAGTTTTTTT
521 AAAATGAAGAAGTTTTTTT
2056745 TTATTGCTAATATGCAATTGTAAATTCAAAGATCTGCAGTGCCCATAGTTTTGATATTCTCTCTC
1 TTATTGCTAATATGCAATTGTAAATTCAAAGATCTGCAGTGCCCATAGTTTTGATATTCTCTCTC
2056810 CTTGGTAAACAGTAGACAGTCATCAATGAATGTTTAGTTTTTTCCAATGTTATTAAAATTGTATC
66 CTTGGTAAACAGTAGACAGTCATCAATGAATGTTTAGTTTTTTCCAATGTTATTAAAATTGTATC
2056875 GGATCGATTGGTTCGACCGGTTGAATCGAGAATTAGTTGTTTGTTCTGTTCGATCAGCCTTTGAA
131 GGATCGATTGGTTCGACCGGTTGAATCGAGAATTAGTTGTTTGTTCTGTTCGATCAGCCTTTGAA
2056940 CTGTTAAAGAATCGGTAAAATCGATTGGGAACTGATAAAATTAGTGTGAACTGATAATTTAAGCG
196 CTGTTAAAGAATCGGTAAAATCGATTGGGAACTGATAAAATTAGTGTGAACTGATAATTTAAGCG
2057005 GTTAGATTTTGTTTTTTTTTTTAAATTAAACCAAAGTGGTGTCGGAGCAGGAAGGGAGTGAAAGC
261 GTTAGATTTTG-TTTTTTTTTTAAATTAAACCAAAGTGGTGTCGGAGCAGGAAGGGAGTGAAAGC
2057070 GTGGTTAACTCGTTGTGTGAGGAATCATTGGAAGCCAGGGAAAAAGCAATAGTGAGTGGAGTTTT
325 GTGGTTAACTCGTTGTGTGAGGAATCATTGGAAGCCAGGGAAAAAGCAATAGTGAGTGGAGTTTT
2057135 GACGCATTTGGTGTTGCTTCTGCAGAGCCACGGTAGTGGTAGGACCAAAACAAAGGCCACTGCGT
390 GACGCATTTGGTGTTGCTTCTGCAGAGCCACGGTAGTGGTAGGACCAAAACAAAGGCCACTGCGT
2057200 TGCTGATGCTATGATCCATGTGGACCAAGCTGGAATTTAAACTGGGGTTGAATTACGGTTGTTAT
455 TGCTGATGCTATGATCCATGTGGACCAAGCTGGAATTTAAACTGGGGTTGAATTACGGTTGTTAT
2057265 CAAAATGAAGAAGTTTTTTT
520 CAAAATGAAGAAGTTTTTTT
2057285 T
1 T
2057286 AATATTTTTA
Statistics
Matches: 538, Mismatches: 2, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
539 270 0.50
540 268 0.50
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (539 bp):
TTATTGCTAATATGCAATTGTAAATTCAAAGATCTGCAGTGCCCATAGTTTTGATATTCTCTCTC
CTTGGTAAACAGTAGACAGTCATCAATGAATGTTTAGTTTTTTCCAATGTTATTAAAATTGTATC
GGATCGATTGGTTCGACCGGTTGAATCGAGAATTAGTTGTTTGTTCTGTTCGATCAGCCTTTGAA
CTGTTAAAGAATCGGTAAAATCGATTGGGAACTGATAAAATTAGTGTGAACTGATAATTTAAGCG
GTTAGATTTTGTTTTTTTTTTAAATTAAACCAAAGTGGTGTCGGAGCAGGAAGGGAGTGAAAGCG
TGGTTAACTCGTTGTGTGAGGAATCATTGGAAGCCAGGGAAAAAGCAATAGTGAGTGGAGTTTTG
ACGCATTTGGTGTTGCTTCTGCAGAGCCACGGTAGTGGTAGGACCAAAACAAAGGCCACTGCGTT
GCTGATGCTATGATCCATGTGGACCAAGCTGGAATTTAAACTGGGGTTGAATTACGGTTGTTATC
AAAATGAAGAAGTTTTTTT
Found at i:2057464 original size:30 final size:30
Alignment explanation
Indices: 2057430--2057489 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
2057420 TTGAATCATT
*
2057430 TTATTTTATTTAATATTATA-ATATTTTATG
1 TTATTTTATTTAA-ATTATATATATATTATG
*
2057460 TTATTTTATTTAACTTATATATATATTATG
1 TTATTTTATTTAAATTATATATATATTATG
2057490 ATTTATGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 5 0.19
30 22 0.81
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (30 bp):
TTATTTTATTTAAATTATATATATATTATG
Found at i:2057469 original size:15 final size:15
Alignment explanation
Indices: 2057430--2057472 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
2057420 TTGAATCATT
2057430 TTATTTTATTTAATA
1 TTATTTTATTTAATA
** * *
2057445 TTATAATATTTTATG
1 TTATTTTATTTAATA
2057460 TTATTTTATTTAA
1 TTATTTTATTTAA
2057473 CTTATATATA
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TTATTTTATTTAATA
Found at i:2057569 original size:18 final size:18
Alignment explanation
Indices: 2057546--2057603 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
2057536 TATTATATAT
2057546 ATATTAATATTATTTTAA
1 ATATTAATATTATTTTAA
* **
2057564 ATATTATGTAAAATTTTAAA
1 ATATTA-ATATTATTTT-AA
*
2057584 AAATT-ATATTATTTTAA
1 ATATTAATATTATTTTAA
2057601 ATA
1 ATA
2057604 AATCGATTTA
Statistics
Matches: 30, Mismatches: 8, Indels: 5
0.70 0.19 0.12
Matches are distributed among these distances:
17 4 0.13
18 13 0.43
19 7 0.23
20 6 0.20
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (18 bp):
ATATTAATATTATTTTAA
Found at i:2063236 original size:35 final size:35
Alignment explanation
Indices: 2063190--2063264 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
2063180 CGTCACGAAC
* *
2063190 AGTAAGGCCCTGAGCACAAAGCCGAGGAGCCTGCA
1 AGTAAGGCCCTGAGCACAAAGCCAAGGAGCCTCCA
2063225 AGTAAGGCCCTGAGCACAAAGCCAAGGAGCCTCCA
1 AGTAAGGCCCTGAGCACAAAGCCAAGGAGCCTCCA
2063260 AGTAA
1 AGTAA
2063265 TCTTCCTTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.35, C:0.28, G:0.28, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACAAAGCCAAGGAGCCTCCA
Found at i:2063352 original size:24 final size:24
Alignment explanation
Indices: 2063325--2063376 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
2063315 TATATCAAAA
*
2063325 ATCAAAACATAATTCAAGTCAAGT
1 ATCAAAACATAATCCAAGTCAAGT
* * * *
2063349 ATCATATCATAATCCAGGTCATGT
1 ATCAAAACATAATCCAAGTCAAGT
2063373 ATCA
1 ATCA
2063377 GATCAGAATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (24 bp):
ATCAAAACATAATCCAAGTCAAGT
Found at i:2063381 original size:24 final size:23
Alignment explanation
Indices: 2063346--2063423 Score: 84
Period size: 24 Copynumber: 3.3 Consensus size: 23
2063336 ATTCAAGTCA
* *
2063346 AGTATCATATCATAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
* *
2063369 ATGTATCAGATCAGAATCGATGTC
1 A-GTATCAGATCAGAATCCAGGTC
* *
2063393 AATATCAGATTAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
2063416 AGGTATCA
1 A-GTATCA
2063424 TAACAAAATT
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
23 20 0.45
24 24 0.55
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (23 bp):
AGTATCAGATCAGAATCCAGGTC
Found at i:2063416 original size:23 final size:24
Alignment explanation
Indices: 2063348--2063416 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 24
2063338 TCAAGTCAAG
* * *
2063348 TATCATATCATAATCCAGGTCATG
1 TATCAGATCAGAATCCAGGTCATA
* *
2063372 TATCAGATCAGAATCGATGTCA-A
1 TATCAGATCAGAATCCAGGTCATA
*
2063395 TATCAGATTAGAATCCAGGTCA
1 TATCAGATCAGAATCCAGGTCA
2063417 GGTATCATAA
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
23 19 0.51
24 18 0.49
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (24 bp):
TATCAGATCAGAATCCAGGTCATA
Found at i:2067307 original size:7 final size:7
Alignment explanation
Indices: 2067292--2067322 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
2067282 TGAAAGACAC
*
2067292 TGTGATT
1 TGTGTTT
2067299 TGTGTTT
1 TGTGTTT
2067306 TGTGTTT
1 TGTGTTT
2067313 TGTGTTT
1 TGTGTTT
2067320 TGT
1 TGT
2067323 TGGGATGTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.03, C:0.00, G:0.29, T:0.68
Consensus pattern (7 bp):
TGTGTTT
Found at i:2068347 original size:32 final size:30
Alignment explanation
Indices: 2068288--2068347 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
2068278 TTGAATTTAT
**
2068288 ATTTTGATATAACAAATATTTGTAAAATTG
1 ATTTTGATATAACAAATATTTCAAAAATTG
*
2068318 ATTTTAGATTTAATCAAATATTTCAAAAAT
1 ATTTT-GATATAA-CAAATATTTCAAAAAT
2068348 AATTCAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 5 0.20
31 6 0.24
32 14 0.56
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (30 bp):
ATTTTGATATAACAAATATTTCAAAAATTG
Found at i:2068487 original size:20 final size:20
Alignment explanation
Indices: 2068462--2068507 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
2068452 TTTGAGTTAA
2068462 TTAAAATATATTTAAAG-TGT
1 TTAAAATATATTTAAAGCT-T
* *
2068482 TTAAAATGTGTTTAAAGCTT
1 TTAAAATATATTTAAAGCTT
2068502 TTAAAA
1 TTAAAA
2068508 AATGAAAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 22 0.96
21 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.43
Consensus pattern (20 bp):
TTAAAATATATTTAAAGCTT
Found at i:2070042 original size:3 final size:3
Alignment explanation
Indices: 2070034--2070070 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
2070024 GGAGGATATG
2070034 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
2070071 TGTTATCCTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:2071690 original size:20 final size:20
Alignment explanation
Indices: 2071665--2071724 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
2071655 CGTCCCCCCT
*
2071665 CTCTTCCCCTTCTCTTTTCC
1 CTCTTCCCCTTCCCTTTTCC
*
2071685 CTCTTCACCTTCCCTTTTCC
1 CTCTTCCCCTTCCCTTTTCC
* *
2071705 C-CTTGCCCTTTCCCCTTTCC
1 CTCTT-CCCCTTCCCTTTTCC
2071725 ATGGTCACCG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
19 3 0.09
20 31 0.91
ACGTcount: A:0.02, C:0.52, G:0.02, T:0.45
Consensus pattern (20 bp):
CTCTTCCCCTTCCCTTTTCC
Found at i:2072120 original size:23 final size:25
Alignment explanation
Indices: 2072082--2072131 Score: 70
Period size: 23 Copynumber: 2.1 Consensus size: 25
2072072 GTTTGGGTTT
2072082 TTTTTATAAATAAATAATTTTT-TTA
1 TTTTTATAAATAAAT-ATTTTTATTA
2072107 TTTTT-TAAAT-AATATTTTTATTA
1 TTTTTATAAATAAATATTTTTATTA
2072130 TT
1 TT
2072132 AAAAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.25
23 8 0.33
24 5 0.21
25 5 0.21
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTTTATAAATAAATATTTTTATTA
Found at i:2072133 original size:19 final size:19
Alignment explanation
Indices: 2072082--2072134 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
2072072 GTTTGGGTTT
* * *
2072082 TTTTTATAAATAAATAATT
1 TTTTTATTATTAAATAATA
*
2072101 TTTTTATTTTTTAAATAATA
1 TTTTTA-TTATTAAATAATA
2072121 TTTTTATTATTAAA
1 TTTTTATTATTAAA
2072135 AAATTTAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTTATTATTAAATAATA
Found at i:2072609 original size:2 final size:2
Alignment explanation
Indices: 2072602--2072627 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2072592 TAATTAATTA
2072602 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
2072628 TTGAAGAATA
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):
AT
Found at i:2074590 original size:17 final size:17
Alignment explanation
Indices: 2074568--2074617 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 17
2074558 TCTCAATTTT
2074568 TTTTAAATATAATATTA
1 TTTTAAATATAATATTA
* * *
2074585 TTTTAATTTTAATTTTA
1 TTTTAAATATAATATTA
*
2074602 ATTTAAATATAA-ATTA
1 TTTTAAATATAATATTA
2074618 AATAAGGTCT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
16 3 0.12
17 23 0.88
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTAAATATAATATTA
Found at i:2075487 original size:2 final size:2
Alignment explanation
Indices: 2075432--2075469 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
2075422 CACTGATCTA
2075432 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2075470 TAATTCATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2076407 original size:16 final size:16
Alignment explanation
Indices: 2076377--2076422 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
2076367 TTTAAAAATA
2076377 ATATATA-TAATATTAT
1 ATATATATTAA-ATTAT
2076393 ATATATATTAAATTAT
1 ATATATATTAAATTAT
*
2076409 -TAAATTATTAAATT
1 ATATA-TATTAAATT
2076423 TACTCCCTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 3 0.11
16 21 0.78
17 3 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATATATATTAAATTAT
Found at i:2076409 original size:8 final size:8
Alignment explanation
Indices: 2076398--2076422 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
2076388 ATTATATATA
2076398 TATTAAAT
1 TATTAAAT
2076406 TATTAAAT
1 TATTAAAT
2076414 TATTAAAT
1 TATTAAAT
2076422 T
1 T
2076423 TACTCCCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TATTAAAT
Found at i:2076655 original size:18 final size:17
Alignment explanation
Indices: 2076628--2076663 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
2076618 TTTTTTCTTG
2076628 TTTGGTTGTTCATATTC
1 TTTGGTTGTTCATATTC
*
2076645 TTTGAGTTGTTCATCTTC
1 TTTG-GTTGTTCATATTC
2076663 T
1 T
2076664 ATGCGTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.11, C:0.14, G:0.17, T:0.58
Consensus pattern (17 bp):
TTTGGTTGTTCATATTC
Found at i:2079195 original size:30 final size:30
Alignment explanation
Indices: 2079161--2079220 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
2079151 AAGAGTAAAT
2079161 CCTCCATATTGCACAATTTCTCCTTAAACA
1 CCTCCATATTGCACAATTTCTCCTTAAACA
2079191 CCTCCATATTGCACAATTTCTCCTTAAACA
1 CCTCCATATTGCACAATTTCTCCTTAAACA
2079221 TCAGTTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.33, G:0.03, T:0.33
Consensus pattern (30 bp):
CCTCCATATTGCACAATTTCTCCTTAAACA
Found at i:2086807 original size:23 final size:21
Alignment explanation
Indices: 2086781--2086869 Score: 88
Period size: 23 Copynumber: 4.0 Consensus size: 21
2086771 GGGGTATCAA
*
2086781 TTCCCCTACAGGGGGGAATCGG
1 TTCCCCTA-AAGGGGGAATCGG
*
2086803 TTTCCCTTTAAAGGGGGAATCGG
1 -TTCCC-CTAAAGGGGGAATCGG
2086826 TTCCCCTTTAAAGGGGGAATCGG
1 TTCCCC--TAAAGGGGGAATCGG
* *
2086849 TTCCCCTTCAAGGGGGTATCG
1 TTCCCC-TAAAGGGGGAATCG
2086870 ATTACCTCTG
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
22 18 0.31
23 38 0.66
24 2 0.03
ACGTcount: A:0.19, C:0.24, G:0.31, T:0.26
Consensus pattern (21 bp):
TTCCCCTAAAGGGGGAATCGG
Found at i:2086809 original size:22 final size:22
Alignment explanation
Indices: 2086792--2086869 Score: 111
Period size: 23 Copynumber: 3.5 Consensus size: 22
2086782 TCCCCTACAG
*
2086792 GGGGGAATCGGTTTCCCTTTAAA
1 GGGGGAATCGG-TTCCCCTTAAA
2086815 GGGGGAATCGGTTCCCCTTTAAA
1 GGGGGAATCGGTTCCCC-TTAAA
*
2086838 GGGGGAATCGGTTCCCCTTCAA
1 GGGGGAATCGGTTCCCCTTAAA
*
2086860 GGGGGTATCG
1 GGGGGAATCG
2086870 ATTACCTCTG
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
22 18 0.35
23 33 0.65
ACGTcount: A:0.19, C:0.21, G:0.35, T:0.26
Consensus pattern (22 bp):
GGGGGAATCGGTTCCCCTTAAA
Found at i:2088619 original size:223 final size:223
Alignment explanation
Indices: 2088231--2088677 Score: 858
Period size: 223 Copynumber: 2.0 Consensus size: 223
2088221 GCGCTTTTGT
* *
2088231 CAATTTAATAACATGATTTGGAAATTTTAAATCTTCAAAACCAGGAGGTTGTTCCACATACACTT
1 CAATTTAAGAACATGATTTGGAAATTTTAAATCTTAAAAACCAGGAGGTTGTTCCACATACACTT
2088296 CTTCCTTTATAAAACCATTTAAAAATGCACTTTTAACATCCATTTGATATAATTTAAATTCATGA
66 CTTCCTTTATAAAACCATTTAAAAATGCACTTTTAACATCCATTTGATATAATTTAAATTCATGA
2088361 AAACATGCAAATGCTAATAACATTCTAATTGCTTCCATCCTAGCTACGGGAGCGTATGTTTCATC
131 AAACATGCAAATGCTAATAACATTCTAATTGCTTCCATCCTAGCTACGGGAGCGTATGTTTCATC
*
2088426 ATAATCTTTGCCTTCTTCTTGAGTATAG
196 ATAATCTATGCCTTCTTCTTGAGTATAG
2088454 CAATTTAAGAACATGATTTGGAAATTTTAAATCTTAAAAACCAGGAGGTTGTTCCACATACACTT
1 CAATTTAAGAACATGATTTGGAAATTTTAAATCTTAAAAACCAGGAGGTTGTTCCACATACACTT
2088519 CTTCCTTTATAAAACCATTTAAAAATGCACTTTTAACATCCATTTGATATAATTTAAATTCATGA
66 CTTCCTTTATAAAACCATTTAAAAATGCACTTTTAACATCCATTTGATATAATTTAAATTCATGA
2088584 AAACATGCAAATGCTAATAACATTCTAATTGCTTCCATCCTAGCTACGGGAGCGTATGTTTCATC
131 AAACATGCAAATGCTAATAACATTCTAATTGCTTCCATCCTAGCTACGGGAGCGTATGTTTCATC
*
2088649 ATAGTCTATGCCTTCTTCTTGAGTATAG
196 ATAATCTATGCCTTCTTCTTGAGTATAG
2088677 C
1 C
2088678 CTTGAGCAAC
Statistics
Matches: 220, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
223 220 1.00
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.36
Consensus pattern (223 bp):
CAATTTAAGAACATGATTTGGAAATTTTAAATCTTAAAAACCAGGAGGTTGTTCCACATACACTT
CTTCCTTTATAAAACCATTTAAAAATGCACTTTTAACATCCATTTGATATAATTTAAATTCATGA
AAACATGCAAATGCTAATAACATTCTAATTGCTTCCATCCTAGCTACGGGAGCGTATGTTTCATC
ATAATCTATGCCTTCTTCTTGAGTATAG
Found at i:2093262 original size:59 final size:59
Alignment explanation
Indices: 2093196--2093556 Score: 544
Period size: 59 Copynumber: 6.1 Consensus size: 59
2093186 AAATTCCATA
* * *
2093196 GGAAATTCATACAATTAGTATGATTTCCATATCATTTTAGCACACTTAGTGCTCTATCT
1 GGAAATCCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTTAGTGCTCTATCT
* * * ** *
2093255 GGAAATTCATACACTTAGTATGATTTCCCTATCATTTTAGGACACGAAGTGCCCTATCT
1 GGAAATCCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTTAGTGCTCTATCT
* * * * **
2093314 AGAAATCCATACAGTTTGTATGATTTTCTTATCATTTTAGCACACGAAGTGAC-CTATCT
1 GGAAATCCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTTAGTG-CTCTATCT
*
2093373 GGAAATCCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTTAGTGCTCTATTT
1 GGAAATCCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTTAGTGCTCTATCT
*
2093432 GGAAATCCATACAATTAGTATGATTTCCTTATCATTTTAGCACACTTAGTGCTCTATCT
1 GGAAATCCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTTAGTGCTCTATCT
2093491 GGAAATCCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTTAGTGCTCTATCT
1 GGAAATCCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTTAGTGCTCTATCT
*
2093550 GGTAATC
1 GGAAATC
2093557 ACTATACATA
Statistics
Matches: 276, Mismatches: 24, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
58 1 0.00
59 274 0.99
60 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (59 bp):
GGAAATCCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTTAGTGCTCTATCT
Found at i:2094041 original size:98 final size:99
Alignment explanation
Indices: 2093916--2094094 Score: 252
Period size: 98 Copynumber: 1.8 Consensus size: 99
2093906 TTATGGTATT
* *
2093916 GATACCTCCTATCAATATCGATACCAAAATTAGCTTCGATGTGGCCTGGTATTGATACCCTCACC
1 GATACCACCTATCAATATCGATACCAAAATTAGCTTCGATGTGGCCTGGTATCGATACCCTCACC
2093981 ACGATATCGATACTACTATGCTATGGTATAGACC
66 ACGATATCGATACTACTATGCTATGGTATAGACC
* * * ** **
2094015 GATACCACCTA-CGATATCTATACCAAAATTAGGTTCGATGTTTCCTGGTATCGATACCCTTTCC
1 GATACCACCTATCAATATCGATACCAAAATTAGCTTCGATGTGGCCTGGTATCGATACCCTCACC
* *
2094079 ATGCTATCGATACTAC
66 ACGATATCGATACTAC
2094095 ATAGTTTGGT
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
98 59 0.86
99 10 0.14
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (99 bp):
GATACCACCTATCAATATCGATACCAAAATTAGCTTCGATGTGGCCTGGTATCGATACCCTCACC
ACGATATCGATACTACTATGCTATGGTATAGACC
Found at i:2100154 original size:59 final size:59
Alignment explanation
Indices: 2100058--2100354 Score: 434
Period size: 59 Copynumber: 5.0 Consensus size: 59
2100048 AAAATCCATA
* * * *
2100058 GGAAATTCATATAATTAGTATAATTTCCTTATGATTTTAGCACACTTAGTGCTCTATCT
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTTAGTGCTCTATCT
* * ** * * *
2100117 GGAAATTCATACTCTTAGTATGATTTCCCTATCATTTTAGCACACAAAGTGCCCTTTAT
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTTAGTGCTCTATCT
2100176 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTTAGTGCTCTATCT
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTTAGTGCTCTATCT
* *
2100235 GGAAA-TCGATACACTTAGTATGATTTTCTTATCATTTTAGAACACTTAGTGCTCTATCT
1 GGAAATTC-ATACACTTAGTATGATTTCCTTATCATTTTAGCACACTTAGTGCTCTATCT
* * *
2100294 GGAAATCCATACACTTAGTATGATTTCCTTGTCATTTTAGCACACTAAGTGCTCTATCT
1 GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTTAGTGCTCTATCT
2100353 GG
1 GG
2100355 TAATCACTAT
Statistics
Matches: 211, Mismatches: 25, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
58 2 0.01
59 208 0.99
60 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.39
Consensus pattern (59 bp):
GGAAATTCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTTAGTGCTCTATCT
Found at i:2100715 original size:22 final size:23
Alignment explanation
Indices: 2100680--2100723 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
2100670 TAGTATCAAC
*
2100680 ACCCTTATTGTGGTATCGATACT
1 ACCCTTATTATGGTATCGATACT
2100703 ACCC-TATTATGGTATCGATAC
1 ACCCTTATTATGGTATCGATAC
2100724 CCGCTATCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (23 bp):
ACCCTTATTATGGTATCGATACT
Found at i:2100888 original size:94 final size:94
Alignment explanation
Indices: 2100680--2100890 Score: 218
Period size: 94 Copynumber: 2.2 Consensus size: 94
2100670 TAGTATCAAC
** * *
2100680 ACCCTTATTGTGGTATCGATACTACCCTATTATGGTATCGATACCCGCTATCAGTATCGAAACCA
1 ACCCTTATCATGGTATCGATACTA-CCTATTATGGCACCGATACCCGCTATCAGTATCGAAACCA
*
2100745 AAATTAGTTTCGATGTTGTCTAGTAACGAT
65 AAATTAGGTTCGATGTTGTCTAGTAACGAT
* * * *
2100775 AACCTCA-CCTCGGTTTCGATACTA-CTATGCTATGGCACCGATACCC-CGTA-CAGTATC-AAT
1 ACCCTTATCAT-GGTATCGATACTACCTAT--TATGGCACCGATACCCGC-TATCAGTATCGAA-
* *
2100835 ACCAAAATTAGGTTCGATGTT-TCATGGTATCGAT
61 ACCAAAATTAGGTTCGATGTTGTC-TAGTAACGAT
2100869 ACCCTTATCATGGTATCGATAC
1 ACCCTTATCATGGTATCGATAC
2100891 CACATCATTC
Statistics
Matches: 95, Mismatches: 14, Indels: 15
0.77 0.11 0.12
Matches are distributed among these distances:
93 8 0.08
94 52 0.55
95 35 0.37
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (94 bp):
ACCCTTATCATGGTATCGATACTACCTATTATGGCACCGATACCCGCTATCAGTATCGAAACCAA
AATTAGGTTCGATGTTGTCTAGTAACGAT
Found at i:2101755 original size:16 final size:17
Alignment explanation
Indices: 2101734--2101767 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2101724 TGTTGAAAAA
2101734 TAAAAAA-TATGACTTT
1 TAAAAAATTATGACTTT
*
2101750 TAAAAAATTCTGACTTT
1 TAAAAAATTATGACTTT
2101767 T
1 T
2101768 TGGTCAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (17 bp):
TAAAAAATTATGACTTT
Found at i:2101873 original size:14 final size:13
Alignment explanation
Indices: 2101829--2101877 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
2101819 CAACGGGTTT
2101829 ACTCGGACGAGTTG
1 ACTC-GACGAGTTG
*
2101843 ACTCGATCCAGGTTG
1 ACTCGA-CGA-GTTG
2101858 ACTCAGACGAGTTG
1 ACTC-GACGAGTTG
2101872 ACTCGA
1 ACTCGA
2101878 TTCGGACCGA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
13 4 0.13
14 14 0.47
15 10 0.33
16 2 0.07
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.22
Consensus pattern (13 bp):
ACTCGACGAGTTG
Found at i:2109374 original size:16 final size:17
Alignment explanation
Indices: 2109355--2109391 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
2109345 ATATACGTTG
2109355 TTATAATA-TAATAATA
1 TTATAATATTAATAATA
*
2109371 TTAT-ATATTAATATTA
1 TTATAATATTAATAATA
2109387 TTATA
1 TTATA
2109392 GCCCGAAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 3 0.17
16 15 0.83
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATAATATTAATAATA
Found at i:2118176 original size:20 final size:20
Alignment explanation
Indices: 2118149--2118239 Score: 105
Period size: 20 Copynumber: 4.5 Consensus size: 20
2118139 TATTTCCCAC
* *
2118149 TAATTTGTAAAGCATAT-GGG
1 TAATTTGTAAAGCCT-TCAGG
*
2118169 TCATTTGTAAAGCCTTCAGG
1 TAATTTGTAAAGCCTTCAGG
*
2118189 TCATTTGTAAAGCCTTCAGG
1 TAATTTGTAAAGCCTTCAGG
*
2118209 TAATTTGTAAAGCC-TCTGGG
1 TAATTTGTAAAGCCTTC-AGG
2118229 TAATTTGTAAA
1 TAATTTGTAAA
2118240 TTCCTTGGGT
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
19 3 0.05
20 61 0.95
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (20 bp):
TAATTTGTAAAGCCTTCAGG
Found at i:2118873 original size:16 final size:17
Alignment explanation
Indices: 2118854--2118892 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
2118844 ATATATACGT
2118854 TATTATAATA-TAATAA
1 TATTATAATATTAATAA
*
2118870 TATTAT-ATATTAATAT
1 TATTATAATATTAATAA
2118886 TATTATA
1 TATTATA
2118893 GCCCGAAGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 3 0.15
16 17 0.85
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TATTATAATATTAATAA
Found at i:2120027 original size:15 final size:15
Alignment explanation
Indices: 2120007--2120045 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
2119997 CGGCTTTTCA
2120007 ATTTTAATTATTTTT
1 ATTTTAATTATTTTT
* *
2120022 ATTTTAGTCATTTTT
1 ATTTTAATTATTTTT
*
2120037 ATATTAATT
1 ATTTTAATT
2120046 CATATATTCT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (15 bp):
ATTTTAATTATTTTT
Found at i:2120232 original size:25 final size:25
Alignment explanation
Indices: 2120172--2120232 Score: 61
Period size: 25 Copynumber: 2.5 Consensus size: 25
2120162 TCGAATTAAG
* **
2120172 TTAATTAAT-TTTAATATTTTATTT
1 TTAATTAATATTTAATATTATATAA
* * *
2120196 TTAAATATTATTTATTATTATATAA
1 TTAATTAATATTTAATATTATATAA
2120221 TTAATTAATATT
1 TTAATTAATATT
2120233 AGTATTTTTA
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
24 7 0.25
25 21 0.75
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
TTAATTAATATTTAATATTATATAA
Found at i:2128391 original size:12 final size:12
Alignment explanation
Indices: 2128370--2128399 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2128360 TTGAGATAAC
2128370 AAAAAAAAAAAG
1 AAAAAAAAAAAG
*
2128382 AAAAAGAAAAAG
1 AAAAAAAAAAAG
2128394 AAAAAA
1 AAAAAA
2128400 TCGTCATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAG
Found at i:2130358 original size:18 final size:20
Alignment explanation
Indices: 2130324--2130363 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
2130314 TATTTTCCAA
*
2130324 AAAAAATGTTGTATTT-CTT
1 AAAAAATCTTGTATTTCCTT
2130343 AAAAAATCTTGT-TTTCCTT
1 AAAAAATCTTGTATTTCCTT
2130362 AA
1 AA
2130364 GAATGTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (20 bp):
AAAAAATCTTGTATTTCCTT
Found at i:2130488 original size:73 final size:74
Alignment explanation
Indices: 2130400--2130596 Score: 242
Period size: 73 Copynumber: 2.7 Consensus size: 74
2130390 CTCTTACTCG
* *
2130400 AGACAGTTTTCCTCGAAACAAAAATTTTATCTCACTTGAGATAGTTTTCCTTAAAA-AAA-TTCG
1 AGACAATTTTTCTCGAAACAAAAATTTTATCTCACTTGAGATAGTTTTCCTTAAAACAAATTTCG
2130463 TCTCACTTA
66 TCTCACTTA
* * *
2130472 AGA-ATTTTTTTTCTCGAAACAACAATTTTATCTCAATTGAGATAGTTTT-CTTAAAACAAATTT
1 AGACA--ATTTTTCTCGAAACAAAAATTTTATCTCACTTGAGATAGTTTTCCTTAAAACAAATTT
*
2130535 TGTCTCACTTA
64 CGTCTCACTTA
* * * * *
2130546 AGACAATTTTTCTCAAAAC-AAAATTTTATCACACGTGAGATTGTTTCCCTT
1 AGACAATTTTTCTCGAAACAAAAATTTTATCTCACTTGAGATAGTTTTCCTT
2130597 GAAATTACTT
Statistics
Matches: 106, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
71 1 0.01
72 32 0.30
73 57 0.54
74 15 0.14
75 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.39
Consensus pattern (74 bp):
AGACAATTTTTCTCGAAACAAAAATTTTATCTCACTTGAGATAGTTTTCCTTAAAACAAATTTCG
TCTCACTTA
Found at i:2130541 original size:35 final size:35
Alignment explanation
Indices: 2130421--2130591 Score: 121
Period size: 37 Copynumber: 4.7 Consensus size: 35
2130411 CTCGAAACAA
2130421 AAATTTTATCTCACTTGAGATAGTTTTCCTTAAAA-
1 AAATTTTATCTCACTTGAGATAGTTTT-CTTAAAAC
** * ** **
2130456 AAA-TTCGTCTCACTTAAGAATTTTTTTTCTCGAAAC
1 AAATTTTATCTCACTTGAG-A-TAGTTTTCTTAAAAC
*
2130492 AACAATTTTATCTCAATTGAGATAGTTTTCTTAAAAC
1 -A-AATTTTATCTCACTTGAGATAGTTTTCTTAAAAC
* * * * *
2130529 AAATTTTGTCTCACTTAAGACAATTTTTCTCAAAAC
1 AAATTTTATCTCACTTGAGA-TAGTTTTCTTAAAAC
* * *
2130565 AAAATTTTATCACACGTGAGATTGTTT
1 -AAATTTTATCTCACTTGAGATAGTTT
2130592 CCCTTGAAAT
Statistics
Matches: 100, Mismatches: 28, Indels: 15
0.70 0.20 0.10
Matches are distributed among these distances:
34 12 0.12
35 25 0.25
36 21 0.21
37 28 0.28
38 3 0.03
39 11 0.11
ACGTcount: A:0.35, C:0.16, G:0.09, T:0.41
Consensus pattern (35 bp):
AAATTTTATCTCACTTGAGATAGTTTTCTTAAAAC
Found at i:2130545 original size:21 final size:19
Alignment explanation
Indices: 2130521--2130560 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
2130511 AGATAGTTTT
2130521 CTTAAAACAAATTTTGTCTCA
1 CTTAAAAC-AATTTT-TCTCA
*
2130542 CTTAAGACAATTTTTCTCA
1 CTTAAAACAATTTTTCTCA
2130561 AAACAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 6 0.33
21 7 0.39
ACGTcount: A:0.35, C:0.20, G:0.05, T:0.40
Consensus pattern (19 bp):
CTTAAAACAATTTTTCTCA
Found at i:2130646 original size:51 final size:51
Alignment explanation
Indices: 2130591--2130738 Score: 154
Period size: 51 Copynumber: 2.9 Consensus size: 51
2130581 TGAGATTGTT
*
2130591 TCCCTTGAAATTACTTCTCTTGAAAAACC-GTTTATCTCCCTTGAGTTAGTC
1 TCCCTTGAAATT-TTTCTCTTGAAAAACCAGTTTATCTCCCTTGAGTTAGTC
* * * ** * * * * *
2130642 TCCCTTGAGATTTTTATCTTGAAACACCAAATTATATCACTTGAATTTGTT
1 TCCCTTGAAATTTTTCTCTTGAAAAACCAGTTTATCTCCCTTGAGTTAGTC
* *
2130693 TCCCTTGAAATTGTTTCTCTTGAAATACCAGTTTGTCTCCCTTGAG
1 TCCCTTGAAATT-TTTCTCTTGAAAAACCAGTTTATCTCCCTTGAG
2130739 ACCATTTTGC
Statistics
Matches: 75, Mismatches: 20, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
50 13 0.17
51 37 0.49
52 25 0.33
ACGTcount: A:0.24, C:0.22, G:0.12, T:0.41
Consensus pattern (51 bp):
TCCCTTGAAATTTTTCTCTTGAAAAACCAGTTTATCTCCCTTGAGTTAGTC
Found at i:2130701 original size:15 final size:15
Alignment explanation
Indices: 2130681--2130718 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
2130671 AATTATATCA
*
2130681 CTTGAATTTGTTTCC
1 CTTGAAATTGTTTCC
*
2130696 CTTGAAATTGTTTCT
1 CTTGAAATTGTTTCC
2130711 CTTGAAAT
1 CTTGAAAT
2130719 ACCAGTTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.21, C:0.16, G:0.13, T:0.50
Consensus pattern (15 bp):
CTTGAAATTGTTTCC
Found at i:2130874 original size:37 final size:38
Alignment explanation
Indices: 2130791--2130915 Score: 132
Period size: 38 Copynumber: 3.3 Consensus size: 38
2130781 TTTAAGATTG
*
2130791 TTTCTCTTGAAACACCAAATTTATCT-TCATTGAGATTA-T
1 TTTC-CTTGAAACACCAAATGTATCTCTC-TTGAGA-TAGT
* * **
2130830 TTCCCTTGAAACACTAGCTTGTATCT-T-TTGAGATAGT
1 TTTCCTTGAAACACCA-AATGTATCTCTCTTGAGATAGT
*
2130867 TTTCCTTGAAACACCAAATGTATCTCTCTTAAGATAGT
1 TTTCCTTGAAACACCAAATGTATCTCTCTTGAGATAGT
2130905 TTTCCTTGAAA
1 TTTCCTTGAAA
2130916 TAAAATTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 9
0.79 0.11 0.10
Matches are distributed among these distances:
36 9 0.12
37 22 0.31
38 31 0.43
39 10 0.14
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.41
Consensus pattern (38 bp):
TTTCCTTGAAACACCAAATGTATCTCTCTTGAGATAGT
Found at i:2131089 original size:15 final size:15
Alignment explanation
Indices: 2131060--2131108 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
2131050 TTGAAACACC
* *
2131060 AAATTATATCACTTG
1 AAATTATTTCCCTTG
*
2131075 AAATTGTTTCCCTTG
1 AAATTATTTCCCTTG
*
2131090 AAATTATTTCTCTTG
1 AAATTATTTCCCTTG
2131105 AAAT
1 AAAT
2131109 ACCAGTTTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.33, C:0.14, G:0.08, T:0.45
Consensus pattern (15 bp):
AAATTATTTCCCTTG
Found at i:2131142 original size:52 final size:52
Alignment explanation
Indices: 2130971--2131144 Score: 174
Period size: 51 Copynumber: 3.4 Consensus size: 52
2130961 TTATCACACG
*
2130971 TGAGATTGTTTCCCTTGAAATTATTTCTCTTGAAAAACC-GTTTATCTCCCT
1 TGAGATTATTTCCCTTGAAATTATTTCTCTTGAAAAACCAGTTTATCTCCCT
* * * * ** * *
2131022 TGAG-TTAGTCTCCCTTGAGATT-TTTATCTTGAAACACCAAATTATATCACT
1 TGAGATTA-TTTCCCTTGAAATTATTTCTCTTGAAAAACCAGTTTATCTCCCT
* * * *
2131073 TGAAATTGTTTCCCTTGAAATTATTTCTCTTGAAATACCAGTTTGTCTCCCT
1 TGAGATTATTTCCCTTGAAATTATTTCTCTTGAAAAACCAGTTTATCTCCCT
** *
2131125 TGAGACCATTTCGCTTGAAA
1 TGAGATTATTTCCCTTGAAA
2131145 CAACCATTTC
Statistics
Matches: 94, Mismatches: 25, Indels: 7
0.75 0.20 0.06
Matches are distributed among these distances:
50 16 0.17
51 39 0.41
52 39 0.41
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.41
Consensus pattern (52 bp):
TGAGATTATTTCCCTTGAAATTATTTCTCTTGAAAAACCAGTTTATCTCCCT
Found at i:2131264 original size:37 final size:38
Alignment explanation
Indices: 2131181--2131305 Score: 139
Period size: 38 Copynumber: 3.3 Consensus size: 38
2131171 TTTAAGATTG
* *
2131181 TTTCTCTTGAAACACCAAATTTATCT-TCCTTGAGATTGT
1 TTTC-CTTGAAACACCAAATGTATCTCT-CTTGAGATAGT
* * **
2131220 TTCCCTTGAAACACTAGCTTGTATCT-T-TTGAGATAGT
1 TTTCCTTGAAACACCA-AATGTATCTCTCTTGAGATAGT
*
2131257 TTTCCTTGAAACACCAAATGTATCTCTCTTAAGATAGT
1 TTTCCTTGAAACACCAAATGTATCTCTCTTGAGATAGT
2131295 TTTCCTTGAAA
1 TTTCCTTGAAA
2131306 TAAAATTTTA
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
36 7 0.10
37 24 0.33
38 31 0.43
39 10 0.14
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (38 bp):
TTTCCTTGAAACACCAAATGTATCTCTCTTGAGATAGT
Found at i:2131279 original size:390 final size:390
Alignment explanation
Indices: 2130511--2131343 Score: 1516
Period size: 390 Copynumber: 2.1 Consensus size: 390
2130501 ATCTCAATTG
* * *
2130511 AGATAGTTTT-CTT-AAA-ACAAATTTTGTCTCACTTAAGACA---ATTTTTCTCAAAACAAAAT
1 AGATAGTTTTCCTTGAAATA-AAATTTTATCTCAC-T-AGACATTTATTTATCTTAAAACAAAAT
2130570 TTTATCACACGTGAGATTGTTTCCCTTGAAATTACTTCTCTTGAAAAACCGTTTATCTCCCTTGA
63 TTTATCACACGTGAGATTGTTTCCCTTGAAATTACTTCTCTTGAAAAACCGTTTATCTCCCTTGA
*
2130635 GTTAGTCTCCCTTGAGATTTTTATCTTGAAACACCAAATTATATCACTTGAATTTGTTTCCCTTG
128 GTTAGTCTCCCTTGAGATTTTTATCTTGAAACACCAAATTATATCACTTGAAATTGTTTCCCTTG
* *
2130700 AAATTGTTTCTCTTGAAATACCAGTTTGTCTCCCTTGAGACCATTTTGCTTGAAACAACCATTTC
193 AAATTATTTCTCTTGAAATACCAGTTTGTCTCCCTTGAGACCATTTCGCTTGAAACAACCATTTC
2130765 CCTTGAGATAGTATCATTTAAGATTGTTTCTCTTGAAACACCAAATTTATCTTCATTGAGATTAT
258 CCTTGAGATAGTATCATTTAAGATTGTTTCTCTTGAAACACCAAATTTATCTTCATTGAGATTAT
2130830 TTCCCTTGAAACACTAGCTTGTATCTTTTGAGATAGTTTTCCTTGAAACACCAAATGTATCTCTC
323 TTCCCTTGAAACACTAGCTTGTATCTTTTGAGATAGTTTTCCTTGAAACACCAAATGTATCTCTC
2130895 TTA
388 TTA
2130898 AGATAGTTTTCCTTGAAATAAAATTTTATCTCACTAGACATTTATTTATCTTAAAACAAAATTTT
1 AGATAGTTTTCCTTGAAATAAAATTTTATCTCACTAGACATTTATTTATCTTAAAACAAAATTTT
*
2130963 ATCACACGTGAGATTGTTTCCCTTGAAATTATTTCTCTTGAAAAACCGTTTATCTCCCTTGAGTT
66 ATCACACGTGAGATTGTTTCCCTTGAAATTACTTCTCTTGAAAAACCGTTTATCTCCCTTGAGTT
2131028 AGTCTCCCTTGAGATTTTTATCTTGAAACACCAAATTATATCACTTGAAATTGTTTCCCTTGAAA
131 AGTCTCCCTTGAGATTTTTATCTTGAAACACCAAATTATATCACTTGAAATTGTTTCCCTTGAAA
2131093 TTATTTCTCTTGAAATACCAGTTTGTCTCCCTTGAGACCATTTCGCTTGAAACAACCATTTCCCT
196 TTATTTCTCTTGAAATACCAGTTTGTCTCCCTTGAGACCATTTCGCTTGAAACAACCATTTCCCT
* *
2131158 TGAGATAGTATCATTTAAGATTGTTTCTCTTGAAACACCAAATTTATCTTCCTTGAGATTGTTTC
261 TGAGATAGTATCATTTAAGATTGTTTCTCTTGAAACACCAAATTTATCTTCATTGAGATTATTTC
2131223 CCTTGAAACACTAGCTTGTATCTTTTGAGATAGTTTTCCTTGAAACACCAAATGTATCTCTCTTA
326 CCTTGAAACACTAGCTTGTATCTTTTGAGATAGTTTTCCTTGAAACACCAAATGTATCTCTCTTA
2131288 AGATAGTTTTCCTTGAAATAAAATTTTATCTCACTAGACATTTATTTATCTTAAAA
1 AGATAGTTTTCCTTGAAATAAAATTTTATCTCACTAGACATTTATTTATCTTAAAA
2131344 TACAACTTTT
Statistics
Matches: 431, Mismatches: 9, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
387 15 0.03
388 4 0.01
389 16 0.04
390 396 0.92
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.40
Consensus pattern (390 bp):
AGATAGTTTTCCTTGAAATAAAATTTTATCTCACTAGACATTTATTTATCTTAAAACAAAATTTT
ATCACACGTGAGATTGTTTCCCTTGAAATTACTTCTCTTGAAAAACCGTTTATCTCCCTTGAGTT
AGTCTCCCTTGAGATTTTTATCTTGAAACACCAAATTATATCACTTGAAATTGTTTCCCTTGAAA
TTATTTCTCTTGAAATACCAGTTTGTCTCCCTTGAGACCATTTCGCTTGAAACAACCATTTCCCT
TGAGATAGTATCATTTAAGATTGTTTCTCTTGAAACACCAAATTTATCTTCATTGAGATTATTTC
CCTTGAAACACTAGCTTGTATCTTTTGAGATAGTTTTCCTTGAAACACCAAATGTATCTCTCTTA
Found at i:2132311 original size:26 final size:27
Alignment explanation
Indices: 2132273--2132333 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
2132263 TTAGAAACAT
* *
2132273 AAAAAAAAGGAGAAGAGGAGTGAGGAG
1 AAAAAAAAGGAGAAAAGGAGCGAGGAG
* *
2132300 AAAAATAA-GAGAAAATGAGCGAGGAG
1 AAAAAAAAGGAGAAAAGGAGCGAGGAG
2132326 AAAAAAAA
1 AAAAAAAA
2132334 TAGAGTCTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 22 0.76
27 7 0.24
ACGTcount: A:0.62, C:0.02, G:0.31, T:0.05
Consensus pattern (27 bp):
AAAAAAAAGGAGAAAAGGAGCGAGGAG
Found at i:2132426 original size:14 final size:15
Alignment explanation
Indices: 2132400--2132440 Score: 59
Period size: 14 Copynumber: 2.8 Consensus size: 15
2132390 AAAGTATTTC
2132400 TTTGTTTTT-TTTTG
1 TTTGTTTTTATTTTG
2132414 TTT-TTTTTATTTTG
1 TTTGTTTTTATTTTG
2132428 TTTGTGTTTTATT
1 TTTGT-TTTTATT
2132441 ATTATGTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 5 0.21
14 11 0.46
15 1 0.04
16 7 0.29
ACGTcount: A:0.05, C:0.00, G:0.12, T:0.83
Consensus pattern (15 bp):
TTTGTTTTTATTTTG
Found at i:2132431 original size:18 final size:19
Alignment explanation
Indices: 2132405--2132448 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
2132395 ATTTCTTTGT
* *
2132405 TTTTTTTTGT-TTTTTTTA
1 TTTTGTTTGTGTTTTATTA
2132423 TTTTGTTTGTGTTTTATTA
1 TTTTGTTTGTGTTTTATTA
*
2132442 TTATGTT
1 TTTTGTT
2132449 CAATCTCGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.09, C:0.00, G:0.11, T:0.80
Consensus pattern (19 bp):
TTTTGTTTGTGTTTTATTA
Found at i:2136781 original size:84 final size:84
Alignment explanation
Indices: 2136624--2136816 Score: 226
Period size: 84 Copynumber: 2.3 Consensus size: 84
2136614 TCATGACATA
* *
2136624 TAGTGGCGTTTTTATAGTAAAACGCCGCTATTGATAATTCTATAATGGCATATTTTGTATAAACG
1 TAGTGGCG-TTTTATAGTAAAACGCCGCTATTAACAATTCTATAATGGCATATTTTGTATAAACG
* *
2136689 CCATAAATTATCTAAAAGGT
65 CCACAAATTATCTAAAACGT
* * * * *
2136709 TAGTGGCGTTTTATAGTAAAATGCCGCTATTAACAATTTTATAGTGGCAT-TGTTTGTTTAAATG
1 TAGTGGCGTTTTATAGTAAAACGCCGCTATTAACAATTCTATAATGGCATAT-TTTGTATAAACG
* * *
2136773 TCGCAAATTATCTAAAACTT
65 CCACAAATTATCTAAAACGT
* *
2136793 TAGTGGCGTTATTTTTGTAAAACG
1 TAGTGGCGTT-TTATAGTAAAACG
2136817 TCGGTATTGA
Statistics
Matches: 91, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
83 1 0.01
84 72 0.79
85 18 0.20
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.39
Consensus pattern (84 bp):
TAGTGGCGTTTTATAGTAAAACGCCGCTATTAACAATTCTATAATGGCATATTTTGTATAAACGC
CACAAATTATCTAAAACGT
Found at i:2136983 original size:21 final size:21
Alignment explanation
Indices: 2136957--2137000 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
2136947 CATGACATCT
* *
2136957 ATAACAACAAACTTTAATTCC
1 ATAACAACAAACTTCAAATCC
*
2136978 ATAACAACCAACTTCAAATCC
1 ATAACAACAAACTTCAAATCC
2136999 AT
1 AT
2137001 TATAGTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (21 bp):
ATAACAACAAACTTCAAATCC
Found at i:2142911 original size:45 final size:44
Alignment explanation
Indices: 2142852--2142936 Score: 134
Period size: 45 Copynumber: 1.9 Consensus size: 44
2142842 TCTATTTTAT
*
2142852 TTATAGTGTATATTGATATAGTTATGATCTATAATTTATTATCA
1 TTATAGTGTATATTGATATAGATATGATCTATAATTTATTATCA
* *
2142896 TTATAGTTGTTTATTGGTATAGATATGATCTATAATTTATT
1 TTATAG-TGTATATTGATATAGATATGATCTATAATTTATT
2142937 TATAAACCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
44 6 0.16
45 31 0.84
ACGTcount: A:0.32, C:0.04, G:0.13, T:0.52
Consensus pattern (44 bp):
TTATAGTGTATATTGATATAGATATGATCTATAATTTATTATCA
Found at i:2146673 original size:36 final size:36
Alignment explanation
Indices: 2146626--2146698 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
2146616 AGTATGATTG
2146626 TTGTGTCTATGTTAAGAGCCTTGATGATGGTTCTTT
1 TTGTGTCTATGTTAAGAGCCTTGATGATGGTTCTTT
2146662 TTGTGTCTATGTTAAGAGCCTTGATGATGGTTCTTT
1 TTGTGTCTATGTTAAGAGCCTTGATGATGGTTCTTT
2146698 T
1 T
2146699 ATTTTTCTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.16, C:0.11, G:0.25, T:0.48
Consensus pattern (36 bp):
TTGTGTCTATGTTAAGAGCCTTGATGATGGTTCTTT
Found at i:2150438 original size:81 final size:81
Alignment explanation
Indices: 2150295--2150609 Score: 318
Period size: 81 Copynumber: 3.9 Consensus size: 81
2150285 AAGTATAATA
** * ** * *
2150295 TTTAGCGGCGTTTGGGCTTAAAACGCCACTAAAAAACTAATATTTA-CCGACATTTGTA-AAAAA
1 TTTAGCGGCGTTTGTAC-AAAAACGCCACTAAAGTAC-AATATTTAGCTG-CATTTATATAAAAA
* *
2150358 CGCCACTAAAATATGAGTC
63 CACCACTAAAATACGAGTC
* *
2150377 TTTAGCGGCTTTTGTACAAAAACGCCACTAAAGTATAATATTTAGCTGCATTTATATAAAAACAC
1 TTTAGCGGCGTTTGTACAAAAACGCCACTAAAGTACAATATTTAGCTGCATTTATATAAAAACAC
* *
2150442 CACTAAAGTACGAGTA
66 CACTAAAATACGAGTC
* * * * *
2150458 TTTA-CTCGCGTTTGTTCAAAAAACACCACTAAAGTACAATATTTAATGTTGC--TTATATCAAA
1 TTTAGC-GGCGTTTGTAC-AAAAACGCCACTAAAGTACAATATTT-A-GCTGCATTTATATAAAA
** *
2150520 ACGGCACTAAAATGCGAGTC
62 ACACCACTAAAATACGAGTC
*
2150540 TTTAGCGGCGTTTGTACAAAAACGCCACTAAAGTACAATATTTAG-TGGCGTTTATATAAAAACA
1 TTTAGCGGCGTTTGTACAAAAACGCCACTAAAGTACAATATTTAGCT-GCATTTATATAAAAACA
2150604 CCACTA
65 CCACTA
2150610 GCCACTAAAG
Statistics
Matches: 192, Mismatches: 31, Indels: 21
0.79 0.13 0.09
Matches are distributed among these distances:
78 1 0.01
79 3 0.02
80 17 0.09
81 90 0.47
82 75 0.39
83 2 0.01
84 4 0.02
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.29
Consensus pattern (81 bp):
TTTAGCGGCGTTTGTACAAAAACGCCACTAAAGTACAATATTTAGCTGCATTTATATAAAAACAC
CACTAAAATACGAGTC
Found at i:2150519 original size:42 final size:40
Alignment explanation
Indices: 2150394--2150520 Score: 100
Period size: 42 Copynumber: 3.1 Consensus size: 40
2150384 GCTTTTGTAC
* *
2150394 AAAAACGCCACTAAAGTATAATATTT-A-GCTGCATTTAT-A
1 AAAAACACCACTAAAGTACAATATTTAATG-TGC-TTTATCA
* * * *
2150433 TAAAAACACCACTAAAGTACGAGTATTTACT-CGCGTTTGTTCA
1 -AAAAACACCACTAAAGTAC-AATATTTAATGTGC-TTT-ATCA
2150476 AAAAACACCACTAAAGTACAATATTTAATGTTGCTTATATCA
1 AAAAACACCACTAAAGTACAATATTTAATG-TGCTT-TATCA
2150518 AAA
1 AAA
2150521 CGGCACTAAA
Statistics
Matches: 68, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
40 17 0.25
41 19 0.28
42 28 0.41
43 4 0.06
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.30
Consensus pattern (40 bp):
AAAAACACCACTAAAGTACAATATTTAATGTGCTTTATCA
Found at i:2150584 original size:40 final size:40
Alignment explanation
Indices: 2150284--2150609 Score: 208
Period size: 40 Copynumber: 8.0 Consensus size: 40
2150274 CCTCAGCACC
* ** *
2150284 AAAGTATAATATTTAGCGGCGTTTGGGCTTAAAACGCCACT
1 AAAGTACAATATTTAGCGGCGTTTGTAC-AAAAACGCCACT
** * * *
2150325 AAAAAACTAATATTTACCGACATTTGTA-AAAAACGCCACT
1 AAAGTAC-AATATTTAGCGGCGTTTGTACAAAAACGCCACT
* * * * *
2150365 AAAATATGAGTCTTTAGCGGCTTTTGTACAAAAACGCCACT
1 AAAGTA-CAATATTTAGCGGCGTTTGTACAAAAACGCCACT
* * * * * *
2150406 AAAGTATAATATTTAGCTGCATTTATATAAAAACACCACT
1 AAAGTACAATATTTAGCGGCGTTTGTACAAAAACGCCACT
* * * *
2150446 AAAGTACGAGTATTTA-CTCGCGTTTGTTCAAAAAACACCACT
1 AAAGTAC-AATATTTAGC-GGCGTTTGTAC-AAAAACGCCACT
** ** * * *
2150488 AAAGTACAATATTTAATGTTGCTTATATC-AAAACGGCACT
1 AAAGTACAATATTTAGCGGCGTTTGTA-CAAAAACGCCACT
* * * *
2150528 AAAATGCGAGTCTTTAGCGGCGTTTGTACAAAAACGCCACT
1 AAAGTAC-AATATTTAGCGGCGTTTGTACAAAAACGCCACT
* * * *
2150569 AAAGTACAATATTTAGTGGCGTTTATATAAAAACACCACT
1 AAAGTACAATATTTAGCGGCGTTTGTACAAAAACGCCACT
2150609 A
1 A
2150610 GCCACTAAAG
Statistics
Matches: 214, Mismatches: 61, Indels: 21
0.72 0.21 0.07
Matches are distributed among these distances:
40 107 0.50
41 72 0.34
42 35 0.16
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (40 bp):
AAAGTACAATATTTAGCGGCGTTTGTACAAAAACGCCACT
Found at i:2150641 original size:47 final size:47
Alignment explanation
Indices: 2150563--2150656 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
2150553 GTACAAAAAC
*
2150563 GCCACTAAAGTACAATATTTAGTGGCGTTTATATAAAAACACCACTA
1 GCCACTAAAGTACAATATTTAGTGGCATTTATATAAAAACACCACTA
* ** *
2150610 GCCACTAAAGTACAATATTTGGTGTTATTTATATAAAAACGCCACTA
1 GCCACTAAAGTACAATATTTAGTGGCATTTATATAAAAACACCACTA
2150657 CAATATTAGT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (47 bp):
GCCACTAAAGTACAATATTTAGTGGCATTTATATAAAAACACCACTA
Found at i:2153994 original size:29 final size:29
Alignment explanation
Indices: 2153962--2154030 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
2153952 ATTAATTTTG
2153962 GGGATTAAATTGAAATTTTAACTAAATTT
1 GGGATTAAATTGAAATTTTAACTAAATTT
** * *
2153991 GGGACCAACA-TGAAATTTTGATTAAATTT
1 GGGATTAA-ATTGAAATTTTAACTAAATTT
2154020 -GGATTCAAATT
1 GGGATT-AAATT
2154031 CAAAAAGTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
28 4 0.13
29 26 0.84
30 1 0.03
ACGTcount: A:0.39, C:0.07, G:0.16, T:0.38
Consensus pattern (29 bp):
GGGATTAAATTGAAATTTTAACTAAATTT
Found at i:2156527 original size:2 final size:2
Alignment explanation
Indices: 2156520--2156557 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2156510 ACATAGCTTG
2156520 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
2156558 GACAATTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2157221 original size:2 final size:2
Alignment explanation
Indices: 2157214--2157255 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
2157204 ATACATTGTG
2157214 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
2157256 CTTACATGCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2160898 original size:2 final size:2
Alignment explanation
Indices: 2160847--2160880 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2160837 AAACCAGTAA
2160847 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
2160881 TTAAAGCATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2161088 original size:24 final size:24
Alignment explanation
Indices: 2161061--2161132 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
2161051 GTAAACGGAG
*
2161061 ATATCAGAAATCAAAACAGAATTC
1 ATATCAGAAATCAGAACAGAATTC
* *
2161085 ATATCAGATATCAGAACAGAATCC
1 ATATCAGAAATCAGAACAGAATTC
*
2161109 AAATCAG-AATCAGAACAGAATTC
1 ATATCAGAAATCAGAACAGAATTC
2161132 A
1 A
2161133 GGTAATGTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 15 0.36
24 27 0.64
ACGTcount: A:0.51, C:0.18, G:0.11, T:0.19
Consensus pattern (24 bp):
ATATCAGAAATCAGAACAGAATTC
Found at i:2161133 original size:12 final size:12
Alignment explanation
Indices: 2161065--2161133 Score: 54
Period size: 12 Copynumber: 5.8 Consensus size: 12
2161055 ACGGAGATAT
* *
2161065 CAGAAATCAAAA
1 CAGAATTCAGAA
* *
2161077 CAGAATTCATAT
1 CAGAATTCAGAA
2161089 CAG-ATATCAGAA
1 CAGAAT-TCAGAA
*
2161101 CAGAATCCA-AA
1 CAGAATTCAGAA
2161112 TCAGAA-TCAGAA
1 -CAGAATTCAGAA
2161124 CAGAATTCAG
1 CAGAATTCAG
2161134 GTAATGTATC
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
11 11 0.24
12 32 0.71
13 2 0.04
ACGTcount: A:0.51, C:0.19, G:0.13, T:0.17
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:2162309 original size:36 final size:36
Alignment explanation
Indices: 2162269--2162343 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
2162259 TCTACGGTAT
* * *
2162269 TTCAATC-ATTTCATTCCATCTGGTCTTATTATTTAA
1 TTCAATCTATTTC-CTCCATCCGGTCTTATTAATTAA
*
2162305 TTCAATCTTTTTCCTCCATCCGGTCTTATTAATTAA
1 TTCAATCTATTTCCTCCATCCGGTCTTATTAATTAA
2162341 TTC
1 TTC
2162344 CAATTTATCA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 30 0.88
37 4 0.12
ACGTcount: A:0.23, C:0.23, G:0.05, T:0.49
Consensus pattern (36 bp):
TTCAATCTATTTCCTCCATCCGGTCTTATTAATTAA
Found at i:2163722 original size:13 final size:13
Alignment explanation
Indices: 2163704--2163746 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
2163694 ACGTGTCAAC
2163704 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
2163717 GGTCAACGGGTTG
1 GGTCAACGGGTCG
* * *
2163730 AGTTAACAGGTCG
1 GGTCAACGGGTCG
2163743 GGTC
1 GGTC
2163747 GGGTCAACAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.19, C:0.19, G:0.42, T:0.21
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:2163755 original size:18 final size:18
Alignment explanation
Indices: 2163734--2163769 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2163724 GGGTTGAGTT
*
2163734 AACAGGTCGGGTCGGGTC
1 AACAAGTCGGGTCGGGTC
2163752 AACAAGTCGGGTCGGGTC
1 AACAAGTCGGGTCGGGTC
2163770 GAGTTATGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.22, G:0.42, T:0.17
Consensus pattern (18 bp):
AACAAGTCGGGTCGGGTC
Found at i:2163816 original size:30 final size:30
Alignment explanation
Indices: 2163781--2163854 Score: 139
Period size: 30 Copynumber: 2.5 Consensus size: 30
2163771 AGTTATGACC
2163781 GGTCAAACCGGTCAAAATAGGAACAAAACA
1 GGTCAAACCGGTCAAAATAGGAACAAAACA
2163811 GGTCAAACCGGTCAAAATAGGAACAAAACA
1 GGTCAAACCGGTCAAAATAGGAACAAAACA
*
2163841 GGTGAAACCGGTCA
1 GGTCAAACCGGTCA
2163855 TTTTTTTCTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.46, C:0.20, G:0.23, T:0.11
Consensus pattern (30 bp):
GGTCAAACCGGTCAAAATAGGAACAAAACA
Found at i:2165134 original size:3 final size:3
Alignment explanation
Indices: 2165128--2165174 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
2165118 TTTTTACCCA
*
2165128 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2165175 AATATATATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:2166621 original size:13 final size:13
Alignment explanation
Indices: 2166605--2166651 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
2166595 ATATAATAAA
2166605 TAAATATTTATTT
1 TAAATATTTATTT
*
2166618 TAAATAAATTATTT
1 TAAAT-ATTTATTT
2166632 T-AATATTTAGTTT
1 TAAATATTTA-TTT
*
2166645 TCAATAT
1 TAAATAT
2166652 CAAAGAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 4 0.14
13 12 0.41
14 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:2167345 original size:28 final size:27
Alignment explanation
Indices: 2167286--2167348 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
2167276 ATATATTTAA
* * *
2167286 ATTTAAATTTTCTTTTCTTTTCAAAAT
1 ATTTATATTTACTTTTATTTTCAAAAT
* *
2167313 TTTTATATTTACTTATTATTTTCATAAT
1 ATTTATATTTACTT-TTATTTTCAAAAT
2167341 ATTTATAT
1 ATTTATAT
2167349 GTTTTATTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
27 11 0.38
28 18 0.62
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (27 bp):
ATTTATATTTACTTTTATTTTCAAAAT
Found at i:2167372 original size:15 final size:13
Alignment explanation
Indices: 2167352--2167389 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 13
2167342 TTTATATGTT
2167352 TTATTTTATTTGCAA
1 TTATTTTATTT-C-A
2167367 TTATTTTATTTCA
1 TTATTTTATTTCA
2167380 TTA-TTTATTT
1 TTATTTTATTT
2167390 TTCTGTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.30
13 4 0.17
14 1 0.04
15 11 0.48
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (13 bp):
TTATTTTATTTCA
Found at i:2177998 original size:1 final size:1
Alignment explanation
Indices: 2177992--2178066 Score: 51
Period size: 1 Copynumber: 75.0 Consensus size: 1
2177982 ATGCTTGAAG
* * * * * * * ** *
2177992 AAAAAAAGAAAAGAAAAAAAGAAAAAGAAAAAAAAAAGAAAGAGAAAAACGAAAAAAAAAAGAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
*
2178057 AAAAGAAAAA
1 AAAAAAAAAA
2178067 GGAGGGTCAA
Statistics
Matches: 53, Mismatches: 21, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 53 1.00
ACGTcount: A:0.85, C:0.01, G:0.13, T:0.00
Consensus pattern (1 bp):
A
Found at i:2178002 original size:8 final size:8
Alignment explanation
Indices: 2177989--2178066 Score: 69
Period size: 8 Copynumber: 10.0 Consensus size: 8
2177979 ATTATGCTTG
2177989 AAGAAAAA
1 AAGAAAAA
2177997 AAG---AA
1 AAGAAAAA
2178002 AAGAAAAA
1 AAGAAAAA
2178010 AAG--AAA
1 AAGAAAAA
2178016 AAGAAAAA
1 AAGAAAAA
2178024 AA-AAAGAA
1 AAGAAA-AA
2178032 AGAGAAAAA
1 A-AGAAAAA
*
2178041 CGAAAAAAAA
1 --AAGAAAAA
2178051 AAGAAAAA
1 AAGAAAAA
2178059 AAGAAAAA
1 AAGAAAAA
2178067 GGAGGGTCAA
Statistics
Matches: 58, Mismatches: 2, Indels: 20
0.73 0.03 0.25
Matches are distributed among these distances:
5 5 0.09
6 6 0.10
7 3 0.05
8 31 0.53
9 3 0.05
10 9 0.16
11 1 0.02
ACGTcount: A:0.85, C:0.01, G:0.14, T:0.00
Consensus pattern (8 bp):
AAGAAAAA
Found at i:2178067 original size:6 final size:6
Alignment explanation
Indices: 2177994--2178058 Score: 80
Period size: 6 Copynumber: 10.8 Consensus size: 6
2177984 GCTTGAAGAA
* *
2177994 AAAAAG AAAAGAA AAAAAG AAAAAG AAAAA- AAAAAG AAAGAG AAAAACG
1 AAAAAG AAAA-AG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA-G
2178043 AAAAA- AAAAAG AAAAA
1 AAAAAG AAAAAG AAAAA
2178059 AAGAAAAAGG
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
5 10 0.20
6 30 0.59
7 11 0.22
ACGTcount: A:0.85, C:0.02, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:2179427 original size:83 final size:83
Alignment explanation
Indices: 2179218--2179592 Score: 680
Period size: 83 Copynumber: 4.5 Consensus size: 83
2179208 ATGAAATTTC
2179218 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
1 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
*
2179283 TTTGGAAGATGAAAT-TGCT
66 TTTAGAAGATG-AATGTG-T
* *
2179302 AAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGTTTTGGCAGAACCAATCATTGAA
1 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
2179367 TTTAGAAGATGAATGTGT
66 TTTAGAAGATGAATGTGT
*
2179385 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGTTTTGGCAGAACCAATCATTGAA
1 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
2179450 TTTAGAAGATGAATGTGT
66 TTTAGAAGATGAATGTGT
2179468 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
1 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
2179533 TTTAGAAGATGAATGTGT
66 TTTAGAAGATGAATGTGT
*
2179551 TCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
2179593 ATTCGGTAGG
Statistics
Matches: 284, Mismatches: 6, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
83 209 0.74
84 75 0.26
ACGTcount: A:0.27, C:0.13, G:0.22, T:0.38
Consensus pattern (83 bp):
TAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAA
TTTAGAAGATGAATGTGT
Found at i:2180528 original size:112 final size:112
Alignment explanation
Indices: 2180345--2180954 Score: 985
Period size: 112 Copynumber: 5.5 Consensus size: 112
2180335 TGGATTGACA
*
2180345 TTTT-CAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGA
1 TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
** * *
2180409 AGAATTTGTTCAACCTTTTGTCTGAATTCATTACTTGATGGATCGTC
66 AGAATTTGTTCAACCTTTTACCTGAATTCATCACTTGATGGATCATC
2180456 TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
*
2180521 AGAATTTGTTCAACCTTTTACCTGAATCCATCACTTGATGGATCATC
66 AGAATTTGTTCAACCTTTTACCTGAATTCATCACTTGATGGATCATC
2180568 TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
* *
2180633 AGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGATGGATCATC
66 AGAATTTGTTCAACCTTTTACCTGAATTCATCACTTGATGGATCATC
2180680 TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
** **
2180745 AGAA-TTCATCAACCTTTTGTCTGAATTCATCACTTGATGGATCATC
66 AGAATTTGTTCAACCTTTTACCTGAATTCATCACTTGATGGATCATC
*
2180791 TTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG-AGAAAGTTCATAATGA
1 TTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG-AAGTTCATAATGA
** * * *
2180855 GAAGAGCTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAAC
64 GAAGAATTTGTTCAACCTTTTACCTGAATTCATCACTTGATGGATCATC
* *
2180904 ATTTT-CAGAGAAGTTCATAATGAGAAGAACTCATATGAAGAAGAAAGAAGA
1 -TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
2180955 CAACTTTTTG
Statistics
Matches: 469, Mismatches: 24, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
111 51 0.11
112 372 0.79
113 42 0.09
114 4 0.01
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (112 bp):
TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
AGAATTTGTTCAACCTTTTACCTGAATTCATCACTTGATGGATCATC
Found at i:2181259 original size:3 final size:3
Alignment explanation
Indices: 2181253--2181302 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
2181243 TTTTTACCCA
*
2181253 TAT TAT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2181301 TA
1 TA
2181303 AATATATATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:2182747 original size:13 final size:13
Alignment explanation
Indices: 2182731--2182777 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
2182721 ATATAATAAA
2182731 TAAATATTTATTT
1 TAAATATTTATTT
*
2182744 TAAATAAATTATTT
1 TAAAT-ATTTATTT
2182758 T-AATATTTAGTTT
1 TAAATATTTA-TTT
*
2182771 TCAATAT
1 TAAATAT
2182778 CAAAGAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 4 0.14
13 12 0.41
14 13 0.45
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:2184952 original size:113 final size:113
Alignment explanation
Indices: 2184753--2185062 Score: 541
Period size: 113 Copynumber: 2.7 Consensus size: 113
2184743 CATCAAGTGG
2184753 CATGTCAAATCATTGAGAATAGATTTTATATTTATTTTATTGATTTAGCATTAAAATTGATTGCT
1 CATGTCAAATCATTGAGAATAGATTTTATATTT-TTTTATTGATTTAGCATTAAAATTGATTGCT
* * *
2184818 TGTATGGTTTTTGTAATTTGGTTTCTATCAAGTGGCA-TCGTTGCCTCGT
65 TGTATGGTTTTTGTAATTTGGTTTCCATCAAGTGGCATTAG-TGCCTCAT
* *
2184867 CATGTCAAATCATTGAGAATATATTTTATATTTTTTTATTGATTTAGCATTAAAATTGATTGATT
1 CATGTCAAATCATTGAGAATAGATTTTATATTTTTTTATTGATTTAGCATTAAAATTGATTGCTT
2184932 GTATGGTTTTTGTAATTTGGTTTCCATCAAGTGGCATTAGTGCCTCAT
66 GTATGGTTTTTGTAATTTGGTTTCCATCAAGTGGCATTAGTGCCTCAT
*
2184980 CATGTCAAATCATTGAGAACAGATTTTATATTTTTTTATTGATTTAGCATTAAAATTGATTGCTT
1 CATGTCAAATCATTGAGAATAGATTTTATATTTTTTTATTGATTTAGCATTAAAATTGATTGCTT
2185045 GTATGGTTTTTGTAATTT
66 GTATGGTTTTTGTAATTT
2185063 TTATGGGTAA
Statistics
Matches: 187, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
113 153 0.82
114 34 0.18
ACGTcount: A:0.27, C:0.09, G:0.16, T:0.47
Consensus pattern (113 bp):
CATGTCAAATCATTGAGAATAGATTTTATATTTTTTTATTGATTTAGCATTAAAATTGATTGCTT
GTATGGTTTTTGTAATTTGGTTTCCATCAAGTGGCATTAGTGCCTCAT
Found at i:2186499 original size:2 final size:2
Alignment explanation
Indices: 2186492--2186540 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
2186482 ATAACATGTT
* * *
2186492 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA TT TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
2186534 CA TA TA T
1 TA TA TA T
2186541 TTACATTTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:2186541 original size:12 final size:12
Alignment explanation
Indices: 2186494--2186553 Score: 75
Period size: 12 Copynumber: 5.0 Consensus size: 12
2186484 AACATGTTTA
*
2186494 TATATATATATA
1 TATATATATATT
2186506 TATATATATATT
1 TATATATATATT
*
2186518 TATATTTATATT
1 TATATATATATT
*
2186530 TATACATATATT
1 TATATATATATT
* *
2186542 TACATTTATATT
1 TATATATATATT
2186554 AAAGTATATA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (12 bp):
TATATATATATT
Found at i:2186541 original size:18 final size:18
Alignment explanation
Indices: 2186494--2186552 Score: 73
Period size: 18 Copynumber: 3.3 Consensus size: 18
2186484 AACATGTTTA
* *
2186494 TATATATATATATATATA
1 TATATATATATTTATATT
*
2186512 TATATTTATATTTATATT
1 TATATATATATTTATATT
* *
2186530 TATACATATATTTACATT
1 TATATATATATTTATATT
2186548 TATAT
1 TATAT
2186553 TAAAGTATAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TATATATATATTTATATT
Found at i:2186562 original size:24 final size:24
Alignment explanation
Indices: 2186500--2186563 Score: 67
Period size: 24 Copynumber: 2.7 Consensus size: 24
2186490 TTTATATATA
* * *
2186500 TATATATATATATATATTTATATT
1 TATATTTAAATATATATTTACATT
* *
2186524 TATATTTATACATATATTTACATT
1 TATATTTAAATATATATTTACATT
2186548 TATA-TTAAAGTATATA
1 TATATTTAAA-TATATA
2186564 CTATGTTATA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 4 0.12
24 30 0.88
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (24 bp):
TATATTTAAATATATATTTACATT
Done.