Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_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: 6601124
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 33
Found at i:929170 original size:225 final size:214
Alignment explanation
Indices: 928796--929319 Score: 711
Period size: 225 Copynumber: 2.4 Consensus size: 214
928786 TAGGGCTTTG
* *
928796 GAAATACGACGATAACATAATCGGTTAATTACT-GTAAACATTATCAAGCATAATAGCATATTAG
1 GAAAT-CGACGATAACATAACCGGTTAATTACTAG-AAACATTATCAAGCATAATAACATATTAG
*
928860 GTAGCGCTTATATAACGTAATAGGTAGCGCATTTTTAAGCTGATGGGCCTTTGGAAATCTGACGA
64 GTAGCGCTTATATAACGTAATAGGTAGCGCATTTTTAAGCTGATGGGCCTTTGGAAATCCGACGA
*
928925 TAACAAAATATGTAAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAACGCCTAAAA
129 TAACAAAATATGTAAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAACACCTAAAA
*
928990 TGTTACCAAAGTTTAAGCTGATAAAGCCTTA
194 TATTACCAAAGTTTAA---G-T------TTA
* *
929021 GAAATCCGACGATAACATAACCGGTTAATCAGTAGAAACATTATCAAGCATAATAACATATTAGG
1 GAAAT-CGACGATAACATAACCGGTTAATTACTAGAAACATTATCAAGCATAATAACATATTAGG
* * * *
929086 TAGC-CTTATAAAACGTAATAGGTAGCGTATTTTTAAAGTTGATGGGGCTTTGGAAATCCGACGA
65 TAGCGCTTATATAACGTAATAGGTAGCGCATTTTT-AAGCTGATGGGCCTTTGGAAATCCGACGA
* *
929150 TAACAAAAT-TGGTTAATTACTTAATTTGTTATTTGTATTATCAACATATTAGGTAACACCTAAA
129 TAACAAAATAT-GTAAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAACACCTAAA
*
929214 ATATTATCAAAGTTTAAGTTTA
193 ATATTACCAAAGTTTAAGTTTA
* *
929236 -TAA---ACGATAACATAACCGGTTAATTACTAGAAACATTATCAAACATAATAACATATTAGGT
1 GAAATCGACGATAACATAACCGGTTAATTACTAGAAACATTATCAAGCATAATAACATATTAGGT
*
929297 AGCGCTTATGTAACGTAATAGGT
66 AGCGCTTATATAACGTAATAGGT
929320 TGCCCATAAT
Statistics
Matches: 274, Mismatches: 21, Indels: 22
0.86 0.07 0.07
Matches are distributed among these distances:
210 58 0.21
211 17 0.06
214 2 0.01
215 3 0.01
221 1 0.00
222 1 0.00
224 29 0.11
225 162 0.59
226 1 0.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (214 bp):
GAAATCGACGATAACATAACCGGTTAATTACTAGAAACATTATCAAGCATAATAACATATTAGGT
AGCGCTTATATAACGTAATAGGTAGCGCATTTTTAAGCTGATGGGCCTTTGGAAATCCGACGATA
ACAAAATATGTAAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAACACCTAAAATA
TTACCAAAGTTTAAGTTTA
Found at i:929482 original size:18 final size:19
Alignment explanation
Indices: 929455--929502 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
929445 TTCTCATCTC
* *
929455 ATACATAATTAT-ATTCAT
1 ATACAAAATTATAAATCAT
929473 ATACAAAATTATAAAATCAT
1 ATACAAAATTAT-AAATCAT
929493 ATACAAAATT
1 ATACAAAATT
929503 TCGCTTACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 11 0.42
20 15 0.58
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.35
Consensus pattern (19 bp):
ATACAAAATTATAAATCAT
Found at i:931109 original size:24 final size:24
Alignment explanation
Indices: 931081--931130 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
931071 CTATTTTATT
931081 TCACCTTTTATTTTTTCCCCTTCA
1 TCACCTTTTATTTTTTCCCCTTCA
931105 TCACCTTTTATTTTTTCCCCTTCA
1 TCACCTTTTATTTTTTCCCCTTCA
931129 TC
1 TC
931131 CAAATTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.12, C:0.34, G:0.00, T:0.54
Consensus pattern (24 bp):
TCACCTTTTATTTTTTCCCCTTCA
Found at i:931138 original size:25 final size:24
Alignment explanation
Indices: 931086--931138 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
931076 TTATTTCACC
**
931086 TTTTATTTTTTCCCCTTCATCACC
1 TTTTATTTTTTCCCCTTCATCAAA
931110 TTTTATTTTTTCCCCTTCATCCAAA
1 TTTTATTTTTTCCCCTTCAT-CAAA
931135 TTTT
1 TTTT
931139 TCTCAACCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.15, C:0.28, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTTATTTTTTCCCCTTCATCAAA
Found at i:931276 original size:65 final size:66
Alignment explanation
Indices: 931148--931284 Score: 188
Period size: 65 Copynumber: 2.1 Consensus size: 66
931138 TTCTCAACCA
* *
931148 CTCCCATCACCCCCTTAAGTTCACCCCTCAATTCCACAATTTCCTTTACCACTTCAACAATTTTT
1 CTCCCATCACCCCCTTAAGTTCACCCCTCAATTCCACAACTTCCTTTACCACTCCAACAATTTTT
931213 C
66 C
* * * *
931214 CTCCCATCA-CCCCTTAAGTTTACCCCTCAATTCCACAACTT-CTTTCATCACTCCATCTATTTT
1 CTCCCATCACCCCCTTAAGTTCACCCCTCAATTCCACAACTTCCTTT-ACCACTCCAACAATTTT
931277 TC
65 TC
*
931279 CACCCA
1 CTCCCA
931285 GTTCCCCTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
64 4 0.06
65 50 0.79
66 9 0.14
ACGTcount: A:0.23, C:0.42, G:0.01, T:0.34
Consensus pattern (66 bp):
CTCCCATCACCCCCTTAAGTTCACCCCTCAATTCCACAACTTCCTTTACCACTCCAACAATTTTT
C
Found at i:931737 original size:25 final size:24
Alignment explanation
Indices: 931707--931756 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
931697 ATATGCATTT
*
931707 ATAATTAAATTTATCATTTTATATA
1 ATAATTAAA-CTATCATTTTATATA
*
931732 ATAATTATACTATCATTTTATATA
1 ATAATTAAACTATCATTTTATATA
931756 A
1 A
931757 AAAACCAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (24 bp):
ATAATTAAACTATCATTTTATATA
Found at i:934032 original size:194 final size:192
Alignment explanation
Indices: 933703--934220 Score: 668
Period size: 194 Copynumber: 2.7 Consensus size: 192
933693 TTTTCTTATA
** * * *
933703 AAAGTATCGATAATATCTTACATATACTTATTAAAATATCGATACCTTCAACATACCCTG-TAGT
1 AAAGTATCGATAATATGATACTTATACTTATTAAAGTATCGATACCTTCAACATATCC-GATA--
* * * * *
933767 GTTTTACCGGTTTTATCATACTGAAA-TCGGTTTTGTCATATTTTTACCTGTTATATTGTTATGT
63 GTTTTACCGATTTTGTCATAATGAAACT-GATTTTGTCATATTTTTACCTATTATATTGTTATGT
*** * *
933831 ATCGATACATGTTTATAAAATAT-AGATACTTTATAGGTGTTATTATTGTAATTCATTTAAATTC
127 ATCGATACAAACTTATAAAATATCA-ATACTTTATAGGCGCTATTATTGTAATTCATTTAAATTC
933895 CT
191 CT
933897 AAAGTATCGATAATATGATACTTATACTTATTAAAGTATCGATACCTTCAACATATCCGATAGAT
1 AAAGTATCGATAATATGATACTTATACTTATTAAAGTATCGATACCTTCAACATATCCGATAG-T
*
933962 ATTTACCGATTTTGTCATAATGAAACTGATTTTGTCATATTTTTACCTCTTATATTGTTATGTAT
65 -TTTACCGATTTTGTCATAATGAAACTGATTTTGTCATATTTTTACCTATTATATTGTTATGTAT
*
934027 CGATACAAACTTATAAAATATCAATACTTTATAGGCGCTATTATTGTAATTCTTTTAAATTCCT
129 CGATACAAACTTATAAAATATCAATACTTTATAGGCGCTATTATTGTAATTCATTTAAATTCCT
* * * *
934091 AAAGTATAGATAATATGATACTTATACTTATTACAGTATCGATACCTTCAATATATGCGATAGCG
1 AAAGTATCGATAATATGATACTTATACTTATTAAAGTATCGATACCTTCAACATATCCGATA--G
* * * * *
934156 TTTTATC-AGTTTTGTCAT-ATTAAACCCGATTTTTTCATATTTTTACCTAATATATTGTTATGT
64 TTTTACCGA-TTTTGTCATAATGAAA-CTGATTTTGTCATATTTTTACCTATTATATTGTTATGT
934219 AT
127 AT
934221 TAATACTTAT
Statistics
Matches: 289, Mismatches: 26, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
192 1 0.00
193 8 0.03
194 276 0.96
195 3 0.01
196 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.43
Consensus pattern (192 bp):
AAAGTATCGATAATATGATACTTATACTTATTAAAGTATCGATACCTTCAACATATCCGATAGTT
TTACCGATTTTGTCATAATGAAACTGATTTTGTCATATTTTTACCTATTATATTGTTATGTATCG
ATACAAACTTATAAAATATCAATACTTTATAGGCGCTATTATTGTAATTCATTTAAATTCCT
Found at i:936950 original size:44 final size:43
Alignment explanation
Indices: 936898--936984 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 43
936888 TAATGTAATA
936898 TAAAAATTCTCATGATAATATTACATCTTAATAATCTTATTTT
1 TAAAAATTCTCATGATAATATTACATCTTAATAATCTTATTTT
* *
936941 TAAAGAATTCTCATGATAATATTACATTTTAATAATGTTATTTT
1 TAAA-AATTCTCATGATAATATTACATCTTAATAATCTTATTTT
936985 ATTTTTCGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 4 0.10
44 37 0.90
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.47
Consensus pattern (43 bp):
TAAAAATTCTCATGATAATATTACATCTTAATAATCTTATTTT
Found at i:937302 original size:22 final size:24
Alignment explanation
Indices: 937277--937320 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
937267 TTACAAATAG
*
937277 TTTTTTACA-TAAA-ATATTTATA
1 TTTTTAACATTAAATATATTTATA
937299 TTTTTAACATTAAATATATTTA
1 TTTTTAACATTAAATATATTTA
937321 ATTCTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 4 0.21
24 7 0.37
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.55
Consensus pattern (24 bp):
TTTTTAACATTAAATATATTTATA
Found at i:939137 original size:67 final size:67
Alignment explanation
Indices: 939063--939196 Score: 268
Period size: 67 Copynumber: 2.0 Consensus size: 67
939053 TATTCTTGTA
939063 AATATTTTTTATTTATTTATTTTTAATTTTTTTAGAAAGAAGATGAGTAAGAGACTTAGCCTCCA
1 AATATTTTTTATTTATTTATTTTTAATTTTTTTAGAAAGAAGATGAGTAAGAGACTTAGCCTCCA
939128 TT
66 TT
939130 AATATTTTTTATTTATTTATTTTTAATTTTTTTAGAAAGAAGATGAGTAAGAGACTTAGCCTCCA
1 AATATTTTTTATTTATTTATTTTTAATTTTTTTAGAAAGAAGATGAGTAAGAGACTTAGCCTCCA
939195 TT
66 TT
939197 GAAGTTCATC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.33, C:0.07, G:0.12, T:0.48
Consensus pattern (67 bp):
AATATTTTTTATTTATTTATTTTTAATTTTTTTAGAAAGAAGATGAGTAAGAGACTTAGCCTCCA
TT
Found at i:944419 original size:2 final size:2
Alignment explanation
Indices: 944414--944441 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
944404 ACACACACAC
944414 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
944442 TTGGTCATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:951657 original size:31 final size:32
Alignment explanation
Indices: 951580--951659 Score: 101
Period size: 32 Copynumber: 2.5 Consensus size: 32
951570 AGCCCTAATG
* *
951580 ATTGACTCTACTGTGCATTATCTAAATGCAAT
1 ATTGACTCTACTATGCACTATCTAAATGCAAT
* *
951612 ATTGA-TGCTCCTATGCACTATCTGAAT-CAAT
1 ATTGACT-CTACTATGCACTATCTAAATGCAAT
951643 ATTGACTCTACTATGCA
1 ATTGACTCTACTATGCA
951660 GTATACAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
31 19 0.46
32 22 0.54
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.36
Consensus pattern (32 bp):
ATTGACTCTACTATGCACTATCTAAATGCAAT
Found at i:952949 original size:21 final size:20
Alignment explanation
Indices: 952919--952957 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
952909 TTCCCCAAAA
*
952919 TCATCCAGTATCGGTACTGT
1 TCATCCAGTATCGATACTGT
952939 TCATCTCAGTATCGATACT
1 TCATC-CAGTATCGATACT
952958 TGAACGCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.36
Consensus pattern (20 bp):
TCATCCAGTATCGATACTGT
Found at i:957359 original size:200 final size:200
Alignment explanation
Indices: 956749--957452 Score: 815
Period size: 200 Copynumber: 3.5 Consensus size: 200
956739 TTTTCGAAGT
* * * *
956749 AAACCGGTATATTTATACCGGTAACATTACAAATTTACCTATTACATTATTATTATCGGTTTCGA
1 AAACCGGTATATTTATATCGGTTACATTATAAATTTACCTATTACATTATAATTATCGGTTTCGA
** * *
956814 TGTTTTTTTAGATCGATACAATTT--TAAATGTATCGACACTTTATGCTTGCACCTCGTTGGTAT
66 TGTTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGG-A-
* * *
956877 TCATATTTCATTCTGGAAAAAAGTA---ACACAAACTAAAAAAGTGTCGATACATTAT-TTAGAC
128 -C--A-TTCATTCTGGACAAAAGTATCGACACAAATTAAACAAGTGTCGATACATTATGTT-GAC
956938 ATATTTTCTCATA
188 ATATTTTCTCATA
* * * * **
956951 AAACCGGTATATTTATAACGGGTACATTATAAATTTACCTATCACATTGTAATT-T-TTTTTCGA
1 AAACCGGTATATTTATATCGGTTACATTATAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * *
957014 TG-TTTTTGGGATCGATACTTTTAATAAATGTATCGACACTCTATGCGTGCACCCCGTTTGACAT
66 TGTTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGACAT
* * * * *
957078 AT-ATTATGGACAAAATGTATCGACACAAATTTAACAAGTGTCGATACTTTATGCTGACCTATTT
131 -TCATTCTGGACAAAA-GTATCGACACAAATTAAACAAGTGTCGATACATTATGTTGACATATTT
957142 TCTCATA
194 TCTCATA
* * *
957149 AAATCGGTATATTTATATCGGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGA
1 AAACCGGTATATTTATATCGGTTACATTATAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * *
957214 TG-TTTTTGGGATCTATACTTTTAATAAATGTATCAACACTTTATGCGTGCACCTCGTCTGGGCA
66 TGTTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGT-TGGACA
** *
957278 TTCATTCTGGACAATAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTTGACATGTTT
130 TTCATTCTGGACAA-AAGTATCGACACAAATTAAACAAGTGTCGATACATTATGTTGACATATTT
* *
957343 TATAAT-
194 TCTCATA
* * * * *
957349 TAACCGGTATATTTATATCGGTTACATTGTTAATTTACCTATTACATTATAATTATTGGTTTTGA
1 AAACCGGTATATTTATATCGGTTACATTATAAATTTACCTATTACATTATAATTATCGGTTTCGA
*
957414 TGTTTTTTGGG-TCGATACTTGTAGA-AAATGTATCGACAC
66 TGTTTTTTGGGATCGATACTTTTA-ATAAATGTATCGACAC
957453 ATATTTAGGT
Statistics
Matches: 431, Mismatches: 56, Indels: 32
0.83 0.11 0.06
Matches are distributed among these distances:
194 12 0.03
195 5 0.01
197 1 0.00
198 92 0.21
199 17 0.04
200 184 0.43
201 71 0.16
202 49 0.11
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (200 bp):
AAACCGGTATATTTATATCGGTTACATTATAAATTTACCTATTACATTATAATTATCGGTTTCGA
TGTTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTGGACAT
TCATTCTGGACAAAAGTATCGACACAAATTAAACAAGTGTCGATACATTATGTTGACATATTTTC
TCATA
Found at i:960728 original size:200 final size:200
Alignment explanation
Indices: 960332--961295 Score: 1316
Period size: 200 Copynumber: 4.8 Consensus size: 200
960322 TGCGATATTT
* * * * * *
960332 AAAATAGTATCGACACAAATTTAACAATTGTCGATAC-T-TTATGATGACCTGTTTTCTCATAAA
1 AAAA-AGTATCGACACAAAATTAAAAAGTATCGATACATGTTGT-A-GACCTATTTTCTCATAAA
* * * * * *
960395 ACCGGTATAGTTATACCGATTATATTACAAAATTATCTATTACATTATAATTATGGATTTCGAT-
63 ACCGGTATATTTATACCGGTTACATTA-AAAATTACCTATTACATTATACTTATGGGTTTCGATG
* * * * *
960459 TTTTTTGGATCGACACTTTTTAAAAATGTATCGCCACTTTATGGGTGCACCCTTTTTGTGCAATC
127 TTTTTTGGATCGATACTTTTTATAAATGGATCGACACTTTATGGGTGCACCCTTTTTGTGCATTC
960524 ATTCTGGAC
192 ATTCTGGAC
*
960533 AAAAAGTATCGACACAAAATTAAAAAGTATCGATACATGTTGTAGACCTATTTTCTCATAAAACT
1 AAAAAGTATCGACACAAAATTAAAAAGTATCGATACATGTTGTAGACCTATTTTCTCATAAAACC
* * *
960598 GGTATAGTTATATCGGTTATATTACAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTT
66 GGTATATTTATACCGGTTACATTA-AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTT
* *
960663 TTTGGATCGACACTTTTTATAAATGTATCGACACTTTATGGGTGCACCCTTTTTG-GCATTCATT
130 TTTGGATCGATACTTTTTATAAATGGATCGACACTTTATGGGTGCACCCTTTTTGTGCATTCATT
960727 CTGGAC
195 CTGGAC
* * *
960733 CAAAAGTATCAACACAAAATTAAAAAGTATCGATACATGTTGTAGACCTATTCTCTCATAAAACC
1 AAAAAGTATCGACACAAAATTAAAAAGTATCGATACATGTTGTAGACCTATTTTCTCATAAAACC
** *
960798 ATTATATTTATACCGGTTACATTGAAAAATTACCTATTATATTATACTTATGGGGTTT-GATG-T
66 GGTATATTTATACCGGTTACATT-AAAAATTACCTATTACATTATACTTAT-GGGTTTCGATGTT
* *
960861 TTCTGTGATCGATACTTTTTATAAATGGATCAACACTTTATGGGTGCACCCTTTTTG-GCATTCA
129 TTTTG-GATCGATACTTTTTATAAATGGATCGACACTTTATGGGTGCACCCTTTTTGTGCATTCA
*
960925 TCCTGGATC
193 TTCTGGA-C
* * **
960934 --AAAGTATCGACACAAAATTAAAAAGTATCGATGCATGTTGTAGACCTATTCTCTCATAAAATT
1 AAAAAGTATCGACACAAAATTAAAAAGTATCGATACATGTTGTAGACCTATTTTCTCATAAAACC
* * * *
960997 GATATATTTATACCGGTTACATTGAAAAGTACCTATTACATTATACTTATGGGTTTCGATGTTTC
66 GGTATATTTATACCGGTTACATTAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTT
* * * *
961062 TGGGATCGATACTTTTTATAAATGGATCAACACTTTATGGTTGCACACTTTTTGTGCATTCATTC
131 TTGGATCGATACTTTTTATAAATGGATCGACACTTTATGGGTGCACCCTTTTTGTGCATTCATTC
961127 TGGAC
196 TGGAC
* *
961132 AAAAAGTATCGACATAAAATTAAAAAGTGTCGATACATGTTGTAGACCTATTTTCTCATAAAACC
1 AAAAAGTATCGACACAAAATTAAAAAGTATCGATACATGTTGTAGACCTATTTTCTCATAAAACC
* * *
961197 GGTATATTTATACCAGTTAGATTGAAAAGTTACCTATTACATTATACTTATGGGTTTCGATGTTT
66 GGTATATTTATACCGGTTACATT-AAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTT
* *
961262 TTGGGATCGATACTTTTTATATATGGATCGACAC
130 TTTGGATCGATACTTTTTATAAATGGATCGACAC
961296 ATATGCTTAC
Statistics
Matches: 690, Mismatches: 60, Indels: 26
0.89 0.08 0.03
Matches are distributed among these distances:
197 6 0.01
198 78 0.11
199 101 0.15
200 363 0.53
201 139 0.20
202 3 0.00
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.38
Consensus pattern (200 bp):
AAAAAGTATCGACACAAAATTAAAAAGTATCGATACATGTTGTAGACCTATTTTCTCATAAAACC
GGTATATTTATACCGGTTACATTAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTT
TTGGATCGATACTTTTTATAAATGGATCGACACTTTATGGGTGCACCCTTTTTGTGCATTCATTC
TGGAC
Found at i:961131 original size:399 final size:399
Alignment explanation
Indices: 960377--961295 Score: 1344
Period size: 399 Copynumber: 2.3 Consensus size: 399
960367 ACTTTATGAT
* * * * *
960377 GACCTGTTTTCTCATAAAACCGGTATAGTTATACCGATTATATT-ACAAAATTATCTATTACATT
1 GACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGA-AAAATTACCTATTACATT
* * * * * * *
960441 ATAATTATGGATTTCGATTTTTTTGGATCGACACTTTTTAAAAATGTATCGCCACTTTATGGGTG
65 ATACTTATGGGTTTCGATGTTTTTGGATCGATACTTTTTATAAATGGATCGACACTTTATGGGTG
*
960506 CACCCTTTTTGTGCAATCATTCTGGACAAAAAGTATCGACACAAAATTAAAAAGTATCGATACAT
130 CACCCTTTTTGTGCAATCATCCTGGAC-AAAAGTATCGACACAAAATTAAAAAGTATCGATACAT
* * * * *
960571 GTTGTAGACCTATTTTCTCATAAAACTGGTATAGTTATATCGGTTATATTACAAAATTACCTATT
194 GTTGTAGACCTATTCTCTCATAAAACTGATATAGTTATACCGGTTACATTACAAAAGTACCTATT
* * * *
960636 ACATTATACTTATGGGTTTCGATGTTTTTTGGATCGACACTTTTTATAAATGTATCGACACTTTA
259 ACATTATACTTATGGGTTTCGATGTTTCTGGGATCGACACTTTTTATAAATGGATCAACACTTTA
* *
960701 TGGGTGCACCCTTTTTGGCATTCATTCTGGACCAAAAGTATCAACACAAAATTAAAAAGTATCGA
324 TGGGTGCACACTTTTTGGCATTCATTCTGGACAAAAAGTATCAACACAAAATTAAAAAGTATCGA
960766 TACATGTTGTA
389 TACATGTTGTA
* ** *
960777 GACCTATTCTCTCATAAAACCATTATATTTATACCGGTTACATTGAAAAATTACCTATTATATTA
1 GACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTA
* *
960842 TACTTATGGGGTTT-GATGTTTCTGTGATCGATACTTTTTATAAATGGATCAACACTTTATGGGT
66 TACTTAT-GGGTTTCGATGTTTTTG-GATCGATACTTTTTATAAATGGATCGACACTTTATGGGT
* *
960906 GCACCCTTTTTG-GCATTCATCCTGGATC-AAAGTATCGACACAAAATTAAAAAGTATCGATGCA
129 GCACCCTTTTTGTGCAATCATCCTGGA-CAAAAGTATCGACACAAAATTAAAAAGTATCGATACA
* * *
960969 TGTTGTAGACCTATTCTCTCATAAAATTGATATATTTATACCGGTTACATT-GAAAAGTACCTAT
193 TGTTGTAGACCTATTCTCTCATAAAACTGATATAGTTATACCGGTTACATTACAAAAGTACCTAT
*
961033 TACATTATACTTATGGGTTTCGATGTTTCTGGGATCGATACTTTTTATAAATGGATCAACACTTT
258 TACATTATACTTATGGGTTTCGATGTTTCTGGGATCGACACTTTTTATAAATGGATCAACACTTT
* * * *
961098 ATGGTTGCACACTTTTTGTGCATTCATTCTGGACAAAAAGTATCGACATAAAATTAAAAAGTGTC
323 ATGGGTGCACACTTTTTG-GCATTCATTCTGGACAAAAAGTATCAACACAAAATTAAAAAGTATC
961163 GATACATGTTGTA
387 GATACATGTTGTA
* * *
961176 GACCTATTTTCTCATAAAACCGGTATATTTATACCAGTTAGATTGAAAAGTTACCTATTACATTA
1 GACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTA
*
961241 TACTTATGGGTTTCGATGTTTTTGGGATCGATACTTTTTATATATGGATCGACAC
66 TACTTATGGGTTTCGATGTTTTT-GGATCGATACTTTTTATAAATGGATCGACAC
961296 ATATGCTTAC
Statistics
Matches: 462, Mismatches: 50, Indels: 15
0.88 0.09 0.03
Matches are distributed among these distances:
398 93 0.20
399 235 0.51
400 81 0.18
401 53 0.11
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.38
Consensus pattern (399 bp):
GACCTATTTTCTCATAAAACCGGTATATTTATACCGGTTACATTGAAAAATTACCTATTACATTA
TACTTATGGGTTTCGATGTTTTTGGATCGATACTTTTTATAAATGGATCGACACTTTATGGGTGC
ACCCTTTTTGTGCAATCATCCTGGACAAAAGTATCGACACAAAATTAAAAAGTATCGATACATGT
TGTAGACCTATTCTCTCATAAAACTGATATAGTTATACCGGTTACATTACAAAAGTACCTATTAC
ATTATACTTATGGGTTTCGATGTTTCTGGGATCGACACTTTTTATAAATGGATCAACACTTTATG
GGTGCACACTTTTTGGCATTCATTCTGGACAAAAAGTATCAACACAAAATTAAAAAGTATCGATA
CATGTTGTA
Found at i:962160 original size:182 final size:180
Alignment explanation
Indices: 961724--962201 Score: 665
Period size: 182 Copynumber: 2.6 Consensus size: 180
961714 TTAACATACT
* * *
961724 TATTAAAGTATCGACACTTTCAATATATTCGGTAGCGCTTTACCGGTTTTATTATTTTGATATCG
1 TATTAAAGTATCGACACTTTCAATATATTCGGTAGCGCTTTACCGGTTTTCTT-TTGTGA-CT-G
* *
961789 GTTTTATCATATTTTTACTTGTTATATCGTTGTGGATCGATACATTTTTTTAAAAGTATCGACAC
63 GTTTTGTCATATTTTTACTTGTTATATCGTTGTGGATCGATACATTTTTATAAAAGTATCGACAC
*
961854 TTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAATGTCGATACTTA
128 TTTATAGGCGCTAAAACTGATTCTCTTTTAAATTCACAAAATGTCGATACTTA
*
961907 TATTAAAGTATCGACACTTTCAATATATTCGGTAGCGCTTTACCGGTTTTATCATTTTGAT-ACC
1 TATTAAAGTATCGACACTTTCAATATATTCGGTAGCGCTTTACCGG-TTT-TC-TTTTG-TGACT
*
961971 AGTTTTGTCATATTTTTACTTGTTATATCGTTGTGGATC-AGTACATTTTTAT-AAAGTATCGAC
62 GGTTTTGTCATATTTTTACTTGTTATATCGTTGTGGATCGA-TACATTTTTATAAAAGTATCGAC
* *
962034 ACTTTATAGGCGCTAAAACTGATTCTCTTTTAAATTCATAAAGTGTCGATACTTA
126 ACTTTATAGGCGCTAAAACTGATTCTCTTTTAAATTCACAAAATGTCGATACTTA
* * *
962089 TATTAAAGTATCGACATTTTTAATATATCCGGTAGCGCTTTACCGGTATTGTCTTTTCGTGACTG
1 TATTAAAGTATCGACACTTTCAATATATTCGGTAGCGCTTTACCGGT-TT-TCTTTT-GTGACTG
* * * * * *
962154 GTTTTGTCATACTTTTACCTGTTATATTGATATGGATCGATATATTTT
63 GTTTTGTCATATTTTTACTTGTTATATCGTTGTGGATCGATACATTTT
962202 AATTTGGATC
Statistics
Matches: 264, Mismatches: 22, Indels: 19
0.87 0.07 0.06
Matches are distributed among these distances:
181 6 0.02
182 154 0.58
183 94 0.36
184 3 0.01
185 4 0.02
186 3 0.01
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.44
Consensus pattern (180 bp):
TATTAAAGTATCGACACTTTCAATATATTCGGTAGCGCTTTACCGGTTTTCTTTTGTGACTGGTT
TTGTCATATTTTTACTTGTTATATCGTTGTGGATCGATACATTTTTATAAAAGTATCGACACTTT
ATAGGCGCTAAAACTGATTCTCTTTTAAATTCACAAAATGTCGATACTTA
Found at i:963398 original size:35 final size:31
Alignment explanation
Indices: 963342--963404 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 31
963332 ATTAATATGA
*
963342 ATATTAAATTTTACATAATTTATCTAAAAAT
1 ATATTAAATTTTACATAATTTAACTAAAAAT
963373 ATATTAAAATTTTACATCAACATTTAACTAAA
1 ATATT-AAATTTTACAT--A-ATTTAACTAAA
963405 TAAGCATATG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
31 5 0.19
32 11 0.41
34 1 0.04
35 10 0.37
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (31 bp):
ATATTAAATTTTACATAATTTAACTAAAAAT
Found at i:970675 original size:45 final size:48
Alignment explanation
Indices: 970618--970741 Score: 155
Period size: 51 Copynumber: 2.6 Consensus size: 48
970608 TGTTATATAT
970618 TTTTTTATTTTATTCACTTACACCGGTA-TAAGT-T-AAGTGCTACAC
1 TTTTTTATTTTATTCACTTACACCGGTAGTAAGTGTCAAGTGCTACAC
** * * *
970663 TTTTTTATTTTATGAACTTACATCGGTGTAAGTATGTGTCAAGTTCTACAC
1 TTTTTTATTTTATTCACTTACA-CCG-GT-AGTAAGTGTCAAGTGCTACAC
970714 TTTTTTATTTTATTCACTTACACCGGTA
1 TTTTTTATTTTATTCACTTACACCGGTA
970742 CAATTATGTG
Statistics
Matches: 65, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
45 20 0.31
46 2 0.03
47 2 0.03
48 2 0.03
49 6 0.09
50 3 0.05
51 30 0.46
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.47
Consensus pattern (48 bp):
TTTTTTATTTTATTCACTTACACCGGTAGTAAGTGTCAAGTGCTACAC
Found at i:970713 original size:51 final size:51
Alignment explanation
Indices: 970652--970770 Score: 159
Period size: 51 Copynumber: 2.4 Consensus size: 51
970642 GGTATAAGTT
* * **
970652 AAGTGCTACACTTTTTTATTTTATGAACTTACATCGGTGTAAGTATGTGTC
1 AAGTTCTACACTTTTTTATTTTATGAACTTACACCGGTACAAGTATGTGTC
** * *
970703 AAGTTCTACACTTTTTTATTTTATTCACTTACACCGGTACAATTATGTGTT
1 AAGTTCTACACTTTTTTATTTTATGAACTTACACCGGTACAAGTATGTGTC
970754 AAGTTCTACA-TTTTTTA
1 AAGTTCTACACTTTTTTA
970771 AGTATGAATT
Statistics
Matches: 60, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 7 0.12
51 53 0.88
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (51 bp):
AAGTTCTACACTTTTTTATTTTATGAACTTACACCGGTACAAGTATGTGTC
Found at i:973355 original size:20 final size:20
Alignment explanation
Indices: 973330--973376 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
973320 GGAATTTCCT
973330 AGAACCGGTATGAGTCAACA
1 AGAACCGGTATGAGTCAACA
* *
973350 AGAACCAGTCTGAGTCAACA
1 AGAACCGGTATGAGTCAACA
*
973370 CGAACCG
1 AGAACCG
973377 ATCTAAGTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.38, C:0.26, G:0.23, T:0.13
Consensus pattern (20 bp):
AGAACCGGTATGAGTCAACA
Found at i:973385 original size:20 final size:21
Alignment explanation
Indices: 973342--973396 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
973332 AACCGGTATG
* *
973342 AGTCAACAAGAACC-AGTCTG
1 AGTCAACACGAACCGAGTCTA
973362 AGTCAACACGAACCGA-TCTA
1 AGTCAACACGAACCGAGTCTA
*
973382 AGTCAACCCGAACCG
1 AGTCAACACGAACCG
973397 GTTTGACCCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.38, C:0.31, G:0.18, T:0.13
Consensus pattern (21 bp):
AGTCAACACGAACCGAGTCTA
Found at i:976106 original size:18 final size:18
Alignment explanation
Indices: 976070--976107 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
976060 TAAGTTTGTC
*
976070 ATTTTAATTAAAATTAAA
1 ATTTTAATTAAAATGAAA
976088 ATTTT-ATTAAAATGGAAA
1 ATTTTAATTAAAAT-GAAA
976106 AT
1 AT
976108 ACATTTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
ATTTTAATTAAAATGAAA
Found at i:980994 original size:19 final size:19
Alignment explanation
Indices: 980956--980996 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
980946 AGGTTGTGTT
**
980956 ACGTCTTTACTTCATGGTG
1 ACGTCTTTACTTCAAAGTG
*
980975 ACGTCTTTACTTGAAAGTG
1 ACGTCTTTACTTCAAAGTG
980994 ACG
1 ACG
980997 CTCATCGTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (19 bp):
ACGTCTTTACTTCAAAGTG
Found at i:992287 original size:32 final size:32
Alignment explanation
Indices: 992203--992288 Score: 109
Period size: 32 Copynumber: 2.7 Consensus size: 32
992193 GTTATTTCAA
* * ** * *
992203 TATTACATTCAAATAATGCAAAATAGAGTCAG
1 TATTGCATTCAGATAATGCGTAGTAGAGTAAG
992235 TATTGCATTCAGATAATGCGTAGTAGAGTAAG
1 TATTGCATTCAGATAATGCGTAGTAGAGTAAG
*
992267 TATTGCATTCAGATATTGCGTA
1 TATTGCATTCAGATAATGCGTA
992289 TCATGTACAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (32 bp):
TATTGCATTCAGATAATGCGTAGTAGAGTAAG
Found at i:993380 original size:206 final size:206
Alignment explanation
Indices: 993026--993433 Score: 523
Period size: 206 Copynumber: 2.0 Consensus size: 206
993016 CTCATTAATC
*
993026 TACATTATAGAATTTATGATGAGAGATAGTTTCGAGCATAATACAATGGATCGAATGGAGAGGTG
1 TACATTATAGAATTTATGATGAGAGATAGTTTCGAGCATAATACAATGGATCGAATAGAGAGGTG
* *** ** *
993091 AGCTTTTTATCCCGATAAAGTTTGTAACGTTGTACTTTCAAGGGCAGAGGTTATTGGAGTTCTAT
66 AGCTTCTTATCCCGATAAAGTCAATAACGGAGTACTTCCAAGGGCAGAGGTTATTGGAGTTCTAT
** * * *
993156 TAGGCACGTGTGTTGCCTTTTTCAGAGGTATAACGTCCACTCTTAGAGAGATAGTGGACATTATT
131 TAGGCACGTGCCTTGCCTTTTTCAGAAGTATAACGTCCACTCTCAGAGAGATAGTAGACATTATT
993221 CCTAGAGTGCA
196 CCTAGAGTGCA
* ** * *
993232 TACATTATAGAATTTATGATGAGAGATAGTTTTGAGTGTAAT-CTAGA-GGATCGGATATAGAGG
1 TACATTATAGAATTTATGATGAGAGATAGTTTCGAGCATAATAC-A-ATGGATCGAATAGAGAGG
* * *
993295 TGAGCTTCTTATCCCGATAAAGTCAATAAGGGAGTTCTTCCAAGGGTAGAGGTTATTGGAGTTCT
64 TGAGCTTCTTATCCCGATAAAGTCAATAACGGAGTACTTCCAAGGGCAGAGGTTATTGGAGTTCT
* * * * * * * *
993360 GTTAGTCGCGTGCCTTGCCTTTTTTAGAAGTATAGCTTTCACTCTCAGAGAGATATTAGACATTA
129 ATTAGGCACGTGCCTTGCCTTTTTCAGAAGTATAACGTCCACTCTCAGAGAGATAGTAGACATTA
993425 TTCCTAGAG
194 TTCCTAGAG
993434 CGCAGACAAT
Statistics
Matches: 171, Mismatches: 29, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
205 1 0.01
206 169 0.99
207 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (206 bp):
TACATTATAGAATTTATGATGAGAGATAGTTTCGAGCATAATACAATGGATCGAATAGAGAGGTG
AGCTTCTTATCCCGATAAAGTCAATAACGGAGTACTTCCAAGGGCAGAGGTTATTGGAGTTCTAT
TAGGCACGTGCCTTGCCTTTTTCAGAAGTATAACGTCCACTCTCAGAGAGATAGTAGACATTATT
CCTAGAGTGCA
Found at i:1000628 original size:12 final size:14
Alignment explanation
Indices: 1000595--1000631 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
1000585 TTGTTAATTC
1000595 TTAT-TATTTAACT
1 TTATATATTTAACT
1000608 TTATATATTTAACT
1 TTATATATTTAACT
1000622 TTATAT-TTTA
1 TTATATATTTA
1000632 TCCACTCCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 8 0.35
14 15 0.65
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (14 bp):
TTATATATTTAACT
Found at i:1003396 original size:16 final size:17
Alignment explanation
Indices: 1003359--1003395 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
1003349 TTTGTTTAGG
1003359 TTTTAATTCTAATTTCT
1 TTTTAATTCTAATTTCT
* *
1003376 TTTTAGTTCTATTTTCT
1 TTTTAATTCTAATTTCT
1003393 TTT
1 TTT
1003396 AAGAAACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.16, C:0.11, G:0.03, T:0.70
Consensus pattern (17 bp):
TTTTAATTCTAATTTCT
Found at i:1003903 original size:40 final size:38
Alignment explanation
Indices: 1003853--1003928 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 38
1003843 TGGTCAATAA
*
1003853 TATATTTTATTCTATTATT-AATTTCAATAATAAATAATTT
1 TATAATTTATT-TATT-TTCAATTTCAATAA-AAATAATTT
* *
1003893 TATAATTTATTTATTTTCTATTTCAATTAAAATAAT
1 TATAATTTATTTATTTTCAATTTCAATAAAAATAAT
1003929 AATAAAACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 9 0.28
39 13 0.41
40 10 0.31
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (38 bp):
TATAATTTATTTATTTTCAATTTCAATAAAAATAATTT
Found at i:1004086 original size:72 final size:70
Alignment explanation
Indices: 1004003--1004141 Score: 242
Period size: 72 Copynumber: 2.0 Consensus size: 70
1003993 ATTCGAGACG
* *
1004003 AAATTAAAATTAGAACATTCAAGATAACTCATTGATAGATTTTTTTTTATTCATATGAGGTAAAT
1 AAATTAAAATTAGAACATTCAAGATAACCCATTGATAGA--TTTTTTTATTAATATGAGGTAAAT
1004068 ATAAACA
64 ATAAACA
1004075 AAATTAAAATTAGAACATTCAAGATAACCCATTGATAGATTTTTTTATTAATATGAGGTAAATAT
1 AAATTAAAATTAGAACATTCAAGATAACCCATTGATAGATTTTTTTATTAATATGAGGTAAATAT
1004140 AA
66 AA
1004142 GGTAATATCT
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
70 27 0.42
72 38 0.58
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (70 bp):
AAATTAAAATTAGAACATTCAAGATAACCCATTGATAGATTTTTTTATTAATATGAGGTAAATAT
AAACA
Found at i:1030472 original size:5 final size:5
Alignment explanation
Indices: 1030462--1030488 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
1030452 ATTGTACAAG
1030462 TTTTC TTTTC TTTTC TTTTC TTTTC TT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TT
1030489 AGTGATGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:1033497 original size:18 final size:19
Alignment explanation
Indices: 1033476--1033511 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1033466 GGTTTGTTGG
1033476 GTTGTTGTT-CTCTGTTTT
1 GTTGTTGTTGCTCTGTTTT
*
1033494 GTTGTTTTTGCTCTGTTT
1 GTTGTTGTTGCTCTGTTT
1033512 CTGTCTCTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.00, C:0.11, G:0.22, T:0.67
Consensus pattern (19 bp):
GTTGTTGTTGCTCTGTTTT
Found at i:1033796 original size:3 final size:3
Alignment explanation
Indices: 1033771--1033829 Score: 91
Period size: 3 Copynumber: 19.0 Consensus size: 3
1033761 TTGGGCTTTG
*
1033771 TAA TAT TAA TAAA TAA TTAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1033818 TAA TAA TAA TAA
1 TAA TAA TAA TAA
1033830 AAATGGGTAA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
3 46 0.88
4 6 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1034249 original size:16 final size:16
Alignment explanation
Indices: 1034202--1034241 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 16
1034192 CATTATGAAT
1034202 TTCTTCTTTCAGATGAG
1 TTCTTC-TTCAGATGAG
1034219 TTCTTCTTCAGATGAG
1 TTCTTCTTCAGATGAG
1034235 TTCTTCT
1 TTCTTCT
1034242 CATTATGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 17 0.74
17 6 0.26
ACGTcount: A:0.15, C:0.20, G:0.15, T:0.50
Consensus pattern (16 bp):
TTCTTCTTCAGATGAG
Found at i:1034404 original size:40 final size:39
Alignment explanation
Indices: 1034349--1034482 Score: 220
Period size: 40 Copynumber: 3.5 Consensus size: 39
1034339 TTGAACAAGC
1034349 TCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTC-TTTTCCTTCTTCAGATGAGT
*
1034389 TCTTCTTATTATGAACTTC--TT-CTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTTTCCTTCTTCAGATGAGT
1034425 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTT-TTCCTTCTTCAGATGAGT
1034465 TCTTCTCATTATGAACTT
1 TCTTCTCATTATGAACTT
1034483 TCTCTGGAAA
Statistics
Matches: 88, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
36 33 0.38
37 2 0.02
39 2 0.02
40 51 0.58
ACGTcount: A:0.19, C:0.22, G:0.10, T:0.49
Consensus pattern (39 bp):
TCTTCTCATTATGAACTTCTTTTCCTTCTTCAGATGAGT
Found at i:1034410 original size:17 final size:17
Alignment explanation
Indices: 1034388--1034448 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
1034378 TTCAGATGAG
1034388 TTCTTCTTATTATGAAC
1 TTCTTCTTATTATGAAC
* *
1034405 TTCTTCTTCTTCA-GATGAG
1 TTCTTCTTATT-ATGA--AC
*
1034424 TTCTTCTCATTATGAAC
1 TTCTTCTTATTATGAAC
1034441 TTCTTCTT
1 TTCTTCTT
1034449 CCTTCTTCAG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
17 20 0.59
18 2 0.06
19 12 0.35
ACGTcount: A:0.18, C:0.21, G:0.08, T:0.52
Consensus pattern (17 bp):
TTCTTCTTATTATGAAC
Found at i:1034519 original size:189 final size:189
Alignment explanation
Indices: 1034219--1034595 Score: 691
Period size: 189 Copynumber: 2.0 Consensus size: 189
1034209 TTCAGATGAG
1034219 TTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 TTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
1034284 TTATGAACTTTCTCTGGAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
66 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAC
* *
1034349 TCTTCTCATTATGAACTTCTTTTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTC
131 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTC
1034408 TTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 TTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
1034473 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACAAAT
66 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAC
*
1034538 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT
131 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT
1034596 TCTCTGGAAA
Statistics
Matches: 181, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
189 181 1.00
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.42
Consensus pattern (189 bp):
TTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAC
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTC
Found at i:1034559 original size:113 final size:113
Alignment explanation
Indices: 1034424--1035085 Score: 1031
Period size: 113 Copynumber: 5.8 Consensus size: 113
1034414 TTCAGATGAG
1034424 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
*
1034489 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
*
1034537 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
*
1034602 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAG
66 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
* *
1034650 CTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTTATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
* *
1034715 GAAAAGCTGATCCATCAAGTGATGGAATTGAGCAAAAGGTTGAACAAG
66 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
* * ****
1034763 TTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAATTCTTCTCATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
*
1034828 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCATAAGGTTGAACAAA
66 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
* *
1034876 TTCTTCTCATTATGAATTTCTTCTTCC-TCTTTCAAGTAATGAGTTCTTCTCATTATGAACTCTA
1 TTCTTCTCATTATGAACTTCTTCTTCCTTC-TTC-AG--ATGAGTTCTTCTCATTATGAACT-TT
*** * * * ** * *
1034940 C-CTGGAAATTTTAATCCATCAAATGATGAATTCAAACAAAAGGTTAAACAAA
61 CTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
1034992 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
1035057 GAAAAGCTGATCCATCAAGTGATGGATTT
66 GAAAAGCTGATCCATCAAGTGATGGATTT
1035086 AAATCTTTGC
Statistics
Matches: 498, Mismatches: 44, Indels: 14
0.90 0.08 0.03
Matches are distributed among these distances:
112 4 0.01
113 397 0.80
114 2 0.00
115 2 0.00
116 91 0.18
117 2 0.00
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.38
Consensus pattern (113 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTG
GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
Found at i:1036042 original size:83 final size:83
Alignment explanation
Indices: 1035903--1036539 Score: 1220
Period size: 83 Copynumber: 7.7 Consensus size: 83
1035893 CTGTGGTTCA
* **
1035903 TACCAAAACAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCCTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCC
1035968 AAATTCAATGATTGATTT
66 AAATTCAATGATTGATTT
*
1035986 TACCAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCC
1036051 AAATTCAATGATTGATTT
66 AAATTCAATGATTGATTT
*
1036069 TACCAAACCAGATCAGATAACTCAAAAAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCC
1036134 AAATTCAATGATTGATTT
66 AAATTCAATGATTGATTT
1036152 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCC
1036217 AAATTCAATGATTGATTT
66 AAATTCAATGATTGATTT
1036235 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCC
1036300 AAATTCAATGATTGATTT
66 AAATTCAATGATTGATTT
1036318 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCC
1036383 AAATTCAATGATTGATTT
66 AAATTCAATGATTGATTT
*
1036401 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTGTGAGCACATTATTCTTCC
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCC
1036466 AAATTCAATGATTGATTT
66 AAATTCAATGATTGATTT
1036484 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
1 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
1036540 GGCATTTGTT
Statistics
Matches: 546, Mismatches: 8, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 546 1.00
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (83 bp):
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCC
AAATTCAATGATTGATTT
Found at i:1036122 original size:166 final size:166
Alignment explanation
Indices: 1035814--1036539 Score: 1238
Period size: 166 Copynumber: 4.3 Consensus size: 166
1035804 GGTTTTATAT
* * * * **
1035814 CAAACCAAATCAGAGAACTCAAAGAATACTTCCAGAAGATGCTATTAGCACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAA
* *
1035879 TTCAATAACCGGTTCTG-TGGTTCATACCAAAACAGATCAGATAACTCAAAGAACACTTCCAGAA
66 TTCAAT-----GAT-TGAT--TT--TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAA
**
1035943 GATGCTATGAGCACATTCCTCTTCCAAATTCAATGATTGATTTTAC
121 GATGCTATGAGCACATTATTCTTCCAAATTCAATGATTGATTTTAC
*
1035989 CAAATCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAA
*
1036054 TTCAATGATTGATTTTACCAAACCAGATCAGATAACTCAAAAAACACTTCCAGAAGATGCTATGA
66 TTCAATGATTGATTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA
1036119 GCACATTATTCTTCCAAATTCAATGATTGATTTTAC
131 GCACATTATTCTTCCAAATTCAATGATTGATTTTAC
1036155 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAA
1036220 TTCAATGATTGATTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA
66 TTCAATGATTGATTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA
1036285 GCACATTATTCTTCCAAATTCAATGATTGATTTTAC
131 GCACATTATTCTTCCAAATTCAATGATTGATTTTAC
1036321 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAA
*
1036386 TTCAATGATTGATTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTGTGA
66 TTCAATGATTGATTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA
1036451 GCACATTATTCTTCCAAATTCAATGATTGATTTTAC
131 GCACATTATTCTTCCAAATTCAATGATTGATTTTAC
1036487 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACAT
1036540 GGCATTTGTT
Statistics
Matches: 535, Mismatches: 15, Indels: 11
0.95 0.03 0.02
Matches are distributed among these distances:
166 464 0.87
168 2 0.00
169 2 0.00
170 3 0.01
175 64 0.12
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (166 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAA
TTCAATGATTGATTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA
GCACATTATTCTTCCAAATTCAATGATTGATTTTAC
Found at i:1036261 original size:249 final size:249
Alignment explanation
Indices: 1035814--1036539 Score: 1238
Period size: 249 Copynumber: 2.9 Consensus size: 249
1035804 GGTTTTATAT
* * * * **
1035814 CAAACCAAATCAGAGAACTCAAAGAATACTTCCAGAAGATGCTATTAGCACATTCCTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAA
* *
1035879 TTCAATAACCGGTTCTG-TGGTTCATACCAAAACAGATCAGATAACTCAAAGAACACTTCCAGAA
66 TTCAAT-----GAT-TGAT--TT--TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAA
** *
1035943 GATGCTATGAGCACATTCCTCTTCCAAATTCAATGATTGATTTTACCAAATCAGATCAGATAACT
121 GATGCTATGAGCACATTATTCTTCCAAATTCAATGATTGATTTTACCAAACCAGATCAGATAACT
1036008 CAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCAATGATTGATTTTAC
186 CAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCAATGATTGATTTTAC
*
1036072 CAAACCAGATCAGATAACTCAAAAAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAA
1036137 TTCAATGATTGATTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA
66 TTCAATGATTGATTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA
1036202 GCACATTATTCTTCCAAATTCAATGATTGATTTTACCAAACCAGATCAGATAACTCAAAGAACAC
131 GCACATTATTCTTCCAAATTCAATGATTGATTTTACCAAACCAGATCAGATAACTCAAAGAACAC
1036267 TTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCAATGATTGATTTTAC
196 TTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCAATGATTGATTTTAC
1036321 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAA
*
1036386 TTCAATGATTGATTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTGTGA
66 TTCAATGATTGATTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA
1036451 GCACATTATTCTTCCAAATTCAATGATTGATTTTACCAAACCAGATCAGATAACTCAAAGAACAC
131 GCACATTATTCTTCCAAATTCAATGATTGATTTTACCAAACCAGATCAGATAACTCAAAGAACAC
1036516 TTCCAGAAGATGCTATGAGCACAT
196 TTCCAGAAGATGCTATGAGCACAT
1036540 GGCATTTGTT
Statistics
Matches: 453, Mismatches: 14, Indels: 11
0.95 0.03 0.02
Matches are distributed among these distances:
249 382 0.84
251 2 0.00
252 2 0.00
253 3 0.01
258 64 0.14
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (249 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTATTCTTCCAAA
TTCAATGATTGATTTTACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA
GCACATTATTCTTCCAAATTCAATGATTGATTTTACCAAACCAGATCAGATAACTCAAAGAACAC
TTCCAGAAGATGCTATGAGCACATTATTCTTCCAAATTCAATGATTGATTTTAC
Found at i:1045246 original size:15 final size:15
Alignment explanation
Indices: 1045223--1045254 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1045213 TGAAATGAAT
1045223 AATGAATGTATGCAA
1 AATGAATGTATGCAA
*
1045238 AATGTATGTATGCAA
1 AATGAATGTATGCAA
1045253 AA
1 AA
1045255 AGGTATTGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (15 bp):
AATGAATGTATGCAA
Found at i:1050207 original size:18 final size:19
Alignment explanation
Indices: 1050186--1050221 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1050176 GGTTTGTTGG
1050186 GTTGTTGTT-CTCTGTTTT
1 GTTGTTGTTGCTCTGTTTT
*
1050204 GTTGTTTTTGCTCTGTTT
1 GTTGTTGTTGCTCTGTTT
1050222 CTGTCTCTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.00, C:0.11, G:0.22, T:0.67
Consensus pattern (19 bp):
GTTGTTGTTGCTCTGTTTT
Found at i:1050507 original size:3 final size:3
Alignment explanation
Indices: 1050482--1050531 Score: 73
Period size: 3 Copynumber: 16.0 Consensus size: 3
1050472 TTGGGTTTTG
*
1050482 TAA TAT TAA TAAA TAA TTAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA T-AA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1050529 TAA
1 TAA
1050532 AAAAAATGGG
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 37 0.86
4 6 0.14
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:1052489 original size:14 final size:15
Alignment explanation
Indices: 1052470--1052507 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
1052460 TCTTCATTTT
1052470 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
1052484 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
1052500 TAATTTTT
1 TAATTTTT
1052508 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:1053676 original size:25 final size:27
Alignment explanation
Indices: 1053643--1053694 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
1053633 AATAAAAAAT
1053643 TATTATCTAATGACAA-ATATTTAATA
1 TATTATCTAATGACAATATATTTAATA
* *
1053669 TATT-TCTAATGATAATATTTTTAATA
1 TATTATCTAATGACAATATATTTAATA
1053695 ACTAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (27 bp):
TATTATCTAATGACAATATATTTAATA
Found at i:1053867 original size:21 final size:22
Alignment explanation
Indices: 1053843--1053901 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 22
1053833 TTATAATGAA
**
1053843 CCCTAAACTCTAAACTTTAA-T
1 CCCTAAACTCTAAACCCTAAGT
* *
1053864 CCCTAAACCCTAAGCCCTAAGT
1 CCCTAAACTCTAAACCCTAAGT
1053886 -CCTAAACTCTAAACCC
1 CCCTAAACTCTAAACCC
1053902 CATCCTTAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.36, C:0.37, G:0.03, T:0.24
Consensus pattern (22 bp):
CCCTAAACTCTAAACCCTAAGT
Found at i:1053881 original size:14 final size:14
Alignment explanation
Indices: 1053841--1053901 Score: 50
Period size: 14 Copynumber: 4.4 Consensus size: 14
1053831 ATTTATAATG
*
1053841 AACCCTAAACTCTA
1 AACCCTAAACCCTA
** *
1053855 AACTTTAATCCCTA
1 AACCCTAAACCCTA
*
1053869 AACCCTAAGCCCTA
1 AACCCTAAACCCTA
** *
1053883 AGTCCTAAACTCTA
1 AACCCTAAACCCTA
1053897 AACCC
1 AACCC
1053902 CATCCTTAAT
Statistics
Matches: 34, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.38, C:0.36, G:0.03, T:0.23
Consensus pattern (14 bp):
AACCCTAAACCCTA
Found at i:1055216 original size:17 final size:17
Alignment explanation
Indices: 1055196--1055228 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1055186 AATTGAGCTT
*
1055196 CAATTGAGTTTGAGTTA
1 CAATTGAGTTTAAGTTA
1055213 CAATTGAGTTTAAGTT
1 CAATTGAGTTTAAGTT
1055229 TGAGTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.42
Consensus pattern (17 bp):
CAATTGAGTTTAAGTTA
Found at i:1055804 original size:6 final size:6
Alignment explanation
Indices: 1055793--1055837 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
1055783 ATATAACCCT
* * *
1055793 GAAAAA GAAAAA GAAGAA GAAAAA GAAGAA GAAAAA -AAGAA GAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAA
1055838 GAGTCACAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (6 bp):
GAAAAA
Found at i:1055814 original size:12 final size:12
Alignment explanation
Indices: 1055797--1055837 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
1055787 AACCCTGAAA
1055797 AAGAAAAAGAAG
1 AAGAAAAAGAAG
1055809 AAGAAAAAGAAG
1 AAGAAAAAGAAG
1055821 AAGAAAAA-AAG
1 AAGAAAAAGAAG
1055832 AAGAAA
1 AAGAAA
1055838 GAGTCACAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
11 9 0.31
12 20 0.69
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AAGAAAAAGAAG
Found at i:1057010 original size:20 final size:20
Alignment explanation
Indices: 1056985--1057115 Score: 93
Period size: 20 Copynumber: 6.8 Consensus size: 20
1056975 TTCACAACTC
1056985 AAATTCGCAACTCGAAAATT
1 AAATTCGCAACTCGAAAATT
* *
1057005 AAATTC-CTAATTC-AAAACTC
1 AAATTCGC-AACTCGAAAA-TT
*
1057025 AAATTCGCAA--C-ACAA--
1 AAATTCGCAACTCGAAAATT
* *
1057040 AAA-TCACAACTCG-ATATT
1 AAATTCGCAACTCGAAAATT
1057058 AAAATTCGCAACTCGAAAA-T
1 -AAATTCGCAACTCGAAAATT
* *
1057078 ATAATTCGCAACACGAAAATG
1 A-AATTCGCAACTCGAAAATT
1057099 AAATTCGCAACTCGAAA
1 AAATTCGCAACTCGAAA
1057116 TCGATCTCGA
Statistics
Matches: 87, Mismatches: 11, Indels: 26
0.70 0.09 0.21
Matches are distributed among these distances:
14 5 0.06
15 3 0.03
16 2 0.02
18 4 0.05
19 9 0.10
20 60 0.69
21 4 0.05
ACGTcount: A:0.47, C:0.22, G:0.08, T:0.22
Consensus pattern (20 bp):
AAATTCGCAACTCGAAAATT
Found at i:1057063 original size:54 final size:54
Alignment explanation
Indices: 1056992--1057097 Score: 121
Period size: 54 Copynumber: 2.0 Consensus size: 54
1056982 CTCAAATTCG
*
1056992 CAACTCGAAAATTAAATTC-CTAATTC-AAAACTCA-AATTCGCAACACAAAAATCA
1 CAACTCGAAAATTAAATTCGC-AACTCGAAAA-T-ATAATTCGCAACACAAAAATCA
* *
1057046 CAACTCG-ATATTAAAATTCGCAACTCGAAAATATAATTCGCAACACGAAAAT
1 CAACTCGAAAATT-AAATTCGCAACTCGAAAATATAATTCGCAACACAAAAAT
1057098 GAAATTCGCA
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
53 5 0.11
54 35 0.78
55 5 0.11
ACGTcount: A:0.48, C:0.23, G:0.07, T:0.23
Consensus pattern (54 bp):
CAACTCGAAAATTAAATTCGCAACTCGAAAATATAATTCGCAACACAAAAATCA
Found at i:1057208 original size:40 final size:39
Alignment explanation
Indices: 1057163--1057338 Score: 147
Period size: 40 Copynumber: 4.7 Consensus size: 39
1057153 TATCGAGTTG
* *
1057163 TGATTTTCGTGTTGCGAATTTGATTTCCGAATTGCGAAA
1 TGATTTTCGCGTTGCGAATTTGATTTTCGAATTGCGAAA
** *
1057202 TCGATTTTCGCGTTGCGAATTCAATTTTCGAGTTGCG---
1 T-GATTTTCGCGTTGCGAATTTGATTTTCGAATTGCGAAA
*** *
1057239 -G-TTTTCATTTTGCGAATTTGATTTTCGAATTACGAAA
1 TGATTTTCGCGTTGCGAATTTGATTTTCGAATTGCGAAA
* * * *
1057276 TTGATTTTCGCGTTGCGAATTCGAATATCGAGTTGC----
1 -TGATTTTCGCGTTGCGAATTTGATTTTCGAATTGCGAAA
1057312 -GATTTTCGCGTTGCGAATTTGATTTTC
1 TGATTTTCGCGTTGCGAATTTGATTTTC
1057339 TTAAAGGTAG
Statistics
Matches: 107, Mismatches: 23, Indels: 19
0.72 0.15 0.13
Matches are distributed among these distances:
34 50 0.47
35 1 0.01
39 2 0.02
40 54 0.50
ACGTcount: A:0.20, C:0.15, G:0.22, T:0.43
Consensus pattern (39 bp):
TGATTTTCGCGTTGCGAATTTGATTTTCGAATTGCGAAA
Found at i:1057215 original size:74 final size:74
Alignment explanation
Indices: 1057131--1057336 Score: 295
Period size: 74 Copynumber: 2.8 Consensus size: 74
1057121 CTCGATTTTC
* * *
1057131 ATTTTCGCGTTGCAAATTTAAATATCGAGTTGTGATTTTCGTGTTGCGAATTTGATTTCCGAATT
1 ATTTTCGCGTTGCGAATTCAAATATCGAGTTGCGATTTTCGTGTTGCGAATTTGATTTCCGAATT
*
1057196 GCGAAATCG
66 ACGAAATCG
* * * * * *
1057205 ATTTTCGCGTTGCGAATTCAATTTTCGAGTTGCGGTTTTCATTTTGCGAATTTGATTTTCGAATT
1 ATTTTCGCGTTGCGAATTCAAATATCGAGTTGCGATTTTCGTGTTGCGAATTTGATTTCCGAATT
*
1057270 ACGAAATTG
66 ACGAAATCG
* *
1057279 ATTTTCGCGTTGCGAATTCGAATATCGAGTTGCGATTTTCGCGTTGCGAATTTGATTT
1 ATTTTCGCGTTGCGAATTCAAATATCGAGTTGCGATTTTCGTGTTGCGAATTTGATTT
1057337 TCTTAAAGGT
Statistics
Matches: 114, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
74 114 1.00
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (74 bp):
ATTTTCGCGTTGCGAATTCAAATATCGAGTTGCGATTTTCGTGTTGCGAATTTGATTTCCGAATT
ACGAAATCG
Found at i:1057338 original size:20 final size:20
Alignment explanation
Indices: 1057163--1057313 Score: 100
Period size: 20 Copynumber: 7.8 Consensus size: 20
1057153 TATCGAGTTG
*
1057163 TGATTTTCGTGTTGCGAATT
1 TGATTTTCGAGTTGCGAATT
* * *
1057183 TGATTTCCGAATTGCGAAAT
1 TGATTTTCGAGTTGCGAATT
* *
1057203 CGATTTTCGCGTTGCGAATT
1 TGATTTTCGAGTTGCGAATT
**
1057223 CAATTTTCGAGTTGCG----
1 TGATTTTCGAGTTGCGAATT
*
1057239 -G-TTTTC-ATTTTGCGAATT
1 TGATTTTCGA-GTTGCGAATT
* * *
1057257 TGATTTTCGAATTACGAAAT
1 TGATTTTCGAGTTGCGAATT
*
1057277 TGATTTTCGCGTTGCGAATT
1 TGATTTTCGAGTTGCGAATT
* * *
1057297 CGAATATCGAGTTGCGA
1 TGATTTTCGAGTTGCGA
1057314 TTTTCGCGTT
Statistics
Matches: 99, Mismatches: 24, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
13 1 0.01
14 10 0.10
19 1 0.01
20 86 0.87
21 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.23, T:0.41
Consensus pattern (20 bp):
TGATTTTCGAGTTGCGAATT
Found at i:1058914 original size:21 final size:21
Alignment explanation
Indices: 1058890--1058929 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1058880 ATGGAATGTG
* *
1058890 GATCCTGAATGATGGGAGGCT
1 GATCCTGAACGATGAGAGGCT
*
1058911 GATCTTGAACGATGAGAGG
1 GATCCTGAACGATGAGAGG
1058930 GTCCCCTTGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.12, G:0.38, T:0.23
Consensus pattern (21 bp):
GATCCTGAACGATGAGAGGCT
Found at i:1058938 original size:21 final size:21
Alignment explanation
Indices: 1058895--1059012 Score: 114
Period size: 21 Copynumber: 5.7 Consensus size: 21
1058885 ATGTGGATCC
* * **
1058895 TGAATGATGGGAGGCTGATCT
1 TGAACGATGGGAGGGTCCTCT
* *
1058916 TGAACGATGAGAGGGTCCCCT
1 TGAACGATGGGAGGGTCCTCT
1058937 TGAACGATGGGAGGGGT-CTCT
1 TGAACGATGGGA-GGGTCCTCT
1058958 TGAACGATGGGAGGG-CCTCT
1 TGAACGATGGGAGGGTCCTCT
* ** *
1058978 TAAATTATGGGAGGGGCCTCT
1 TGAACGATGGGAGGGTCCTCT
*
1058999 TGAACGATGAGAGG
1 TGAACGATGGGAGG
1059013 TGAATCCTGA
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
20 19 0.24
21 56 0.71
22 4 0.05
ACGTcount: A:0.24, C:0.15, G:0.38, T:0.23
Consensus pattern (21 bp):
TGAACGATGGGAGGGTCCTCT
Found at i:1059000 original size:41 final size:42
Alignment explanation
Indices: 1058913--1059012 Score: 139
Period size: 41 Copynumber: 2.4 Consensus size: 42
1058903 GGGAGGCTGA
* *
1058913 TCTTGAACGATGAGAGGGTCCCCTTGAACGATGGGAGGGGTC
1 TCTTGAACGATGAGAGGGTCCCCTTAAACGATGGGAGGGGCC
* * **
1058955 TCTTGAACGATGGGAGGG-CCTCTTAAATTATGGGAGGGGCC
1 TCTTGAACGATGAGAGGGTCCCCTTAAACGATGGGAGGGGCC
1058996 TCTTGAACGATGAGAGG
1 TCTTGAACGATGAGAGG
1059013 TGAATCCTGA
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 34 0.67
42 17 0.33
ACGTcount: A:0.23, C:0.17, G:0.37, T:0.23
Consensus pattern (42 bp):
TCTTGAACGATGAGAGGGTCCCCTTAAACGATGGGAGGGGCC
Found at i:1059050 original size:21 final size:21
Alignment explanation
Indices: 1058999--1059060 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 21
1058989 AGGGGCCTCT
* * *
1058999 TGAACGATGAGAGGTGAATCC
1 TGAACAATGGGAGGTGGATCC
*
1059020 TGAATAATGGGAGGTGGATCC
1 TGAACAATGGGAGGTGGATCC
*
1059041 TGAACAATGGTAGGTGGATC
1 TGAACAATGGGAGGTGGATC
1059061 AGGCTTCTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.31, C:0.11, G:0.35, T:0.23
Consensus pattern (21 bp):
TGAACAATGGGAGGTGGATCC
Found at i:1059390 original size:21 final size:19
Alignment explanation
Indices: 1059366--1059444 Score: 59
Period size: 21 Copynumber: 3.8 Consensus size: 19
1059356 CTTCATCACA
1059366 TAAAACAGCTACCTCACAACG
1 TAAAACA-CTACCTCAC-ACG
* * *
1059387 TAAAACACCACTGTCATCATG
1 TAAAACACTAC-CTCA-CACG
1059408 TAAAACAACTACCTCACCACG
1 TAAAAC-ACTACCTCA-CACG
*
1059429 TAAAGACCCTACCTCA
1 TAAA-ACACTACCTCA
1059445 TCACTTCATG
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.78
22 7 0.15
ACGTcount: A:0.41, C:0.34, G:0.08, T:0.18
Consensus pattern (19 bp):
TAAAACACTACCTCACACG
Found at i:1059446 original size:42 final size:42
Alignment explanation
Indices: 1059350--1059448 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
1059340 TCAAGTAGAG
* *
1059350 CACCTACTTCATCACATAAAACAGCTACCTCACAACGTAAAA
1 CACCTACCTCATCACATAAAACAACTACCTCACAACGTAAAA
* ** *
1059392 CACC-ACTGTCATCATGTAAAACAACTACCTCACCACGTAAAGA
1 CACCTAC-CTCATCACATAAAACAACTACCTCACAACGTAAA-A
1059435 C-CCTACCTCATCAC
1 CACCTACCTCATCAC
1059449 TTCATGCACC
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
41 2 0.04
42 41 0.87
43 4 0.09
ACGTcount: A:0.38, C:0.36, G:0.06, T:0.19
Consensus pattern (42 bp):
CACCTACCTCATCACATAAAACAACTACCTCACAACGTAAAA
Found at i:1059478 original size:21 final size:21
Alignment explanation
Indices: 1059463--1059517 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
1059453 TGCACCATTT
1059463 TCATCACGTAAAGCACCGACC
1 TCATCACGTAAAGCACCGACC
*
1059484 TCATCACGTAAAGCACTGACC
1 TCATCACGTAAAGCACCGACC
* *
1059505 TTATCACATAAAG
1 TCATCACGTAAAG
1059518 TACCTAAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.36, C:0.31, G:0.13, T:0.20
Consensus pattern (21 bp):
TCATCACGTAAAGCACCGACC
Found at i:1059693 original size:21 final size:21
Alignment explanation
Indices: 1059632--1059694 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
1059622 GATGGAATAT
*
1059632 GTGATGGATCTTGGTGTCGAG
1 GTGATGGATCTCGGTGTCGAG
* * * *
1059653 GTG-TAGA-GTCGG-CTAGAG
1 GTGATGGATCTCGGTGTCGAG
1059671 GTGATGGATCTCGGTGTCGAG
1 GTGATGGATCTCGGTGTCGAG
1059692 GTG
1 GTG
1059695 TAGAATCGGC
Statistics
Matches: 30, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
18 7 0.23
19 6 0.20
20 7 0.23
21 10 0.33
ACGTcount: A:0.16, C:0.11, G:0.44, T:0.29
Consensus pattern (21 bp):
GTGATGGATCTCGGTGTCGAG
Found at i:1059728 original size:42 final size:42
Alignment explanation
Indices: 1059632--1059753 Score: 160
Period size: 42 Copynumber: 3.0 Consensus size: 42
1059622 GATGGAATAT
* *
1059632 GTGATGGATCTTGGTGTCGAGGTGTAGAGTCGGC-T-A-GAG
1 GTGATGGATCTCGGTGTCGAGGTGTAGAATCGGCTTGATGAG
*
1059671 GTGATGGATCTCGGTGTCGAGGTGTAGAATCGGCTTGATTAG
1 GTGATGGATCTCGGTGTCGAGGTGTAGAATCGGCTTGATGAG
* * * *
1059713 GTGATGGATCTCGGTGTTGAAGTGGAGAATCGACTTGATGA
1 GTGATGGATCTCGGTGTCGAGGTGTAGAATCGGCTTGATGA
1059754 AAAAGTGGGG
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
39 32 0.44
40 1 0.01
41 1 0.01
42 38 0.53
ACGTcount: A:0.20, C:0.11, G:0.39, T:0.30
Consensus pattern (42 bp):
GTGATGGATCTCGGTGTCGAGGTGTAGAATCGGCTTGATGAG
Found at i:1061276 original size:15 final size:15
Alignment explanation
Indices: 1061258--1061290 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
1061248 CTTGAATCTT
1061258 AAATTCGCAACACGA
1 AAATTCGCAACACGA
*
1061273 AAA-TCGCAACTCGA
1 AAATTCGCAACACGA
1061287 AAAT
1 AAAT
1061291 GAAATTCGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
14 13 0.81
15 3 0.19
ACGTcount: A:0.48, C:0.24, G:0.12, T:0.15
Consensus pattern (15 bp):
AAATTCGCAACACGA
Found at i:1061299 original size:20 final size:21
Alignment explanation
Indices: 1061271--1061328 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
1061261 TTCGCAACAC
*
1061271 GAAAATCGCAACTCGAA-AAT
1 GAAATTCGCAACTCGAATAAT
**
1061291 GAAATTCGCAA-TACGAATTTT
1 GAAATTCGCAACT-CGAATAAT
1061312 G-AATTCGCAACTCGAAT
1 GAAATTCGCAACTCGAAT
1061329 TTCTTTTTCG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
19 1 0.03
20 28 0.88
21 3 0.09
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (21 bp):
GAAATTCGCAACTCGAATAAT
Found at i:1061329 original size:20 final size:20
Alignment explanation
Indices: 1061293--1061330 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1061283 TCGAAAATGA
1061293 AATTCGCAATACGAATTTTG
1 AATTCGCAATACGAATTTTG
1061313 AATTCGCAACT-CGAATTT
1 AATTCGCAA-TACGAATTT
1061331 CTTTTTCGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.34
Consensus pattern (20 bp):
AATTCGCAATACGAATTTTG
Found at i:1061338 original size:20 final size:20
Alignment explanation
Indices: 1061315--1061398 Score: 80
Period size: 20 Copynumber: 4.2 Consensus size: 20
1061305 GAATTTTGAA
*
1061315 TTCGCAACT-CGAATTTCTTT
1 TTCGC-ACTGCGAATTTCATT
*
1061335 TTCGCATTGCGAATTTCATT
1 TTCGCACTGCGAATTTCATT
** *
1061355 TTCGCGTTGCGAATTTTATT
1 TTCGCACTGCGAATTTCATT
***
1061375 TTCGTGTTGCGAATTTCATT
1 TTCGCACTGCGAATTTCATT
1061395 TTCG
1 TTCG
1061399 AGTTACGATT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
19 2 0.04
20 55 0.96
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.48
Consensus pattern (20 bp):
TTCGCACTGCGAATTTCATT
Found at i:1061359 original size:40 final size:40
Alignment explanation
Indices: 1061315--1061398 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
1061305 GAATTTTGAA
1061315 TTCGCAACT-CGAATTTCT-TTTTCGCATTGCGAATTTCATT
1 TTCGC-ACTGCGAATTT-TATTTTCGCATTGCGAATTTCATT
** **
1061355 TTCGCGTTGCGAATTTTATTTTCGTGTTGCGAATTTCATT
1 TTCGCACTGCGAATTTTATTTTCGCATTGCGAATTTCATT
1061395 TTCG
1 TTCG
1061399 AGTTACGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
39 2 0.05
40 36 0.95
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.48
Consensus pattern (40 bp):
TTCGCACTGCGAATTTTATTTTCGCATTGCGAATTTCATT
Found at i:1061411 original size:20 final size:20
Alignment explanation
Indices: 1061328--1061411 Score: 82
Period size: 20 Copynumber: 4.2 Consensus size: 20
1061318 GCAACTCGAA
* *
1061328 TTTCTTTTTCGCA-TTGCGAA
1 TTTCATTTTCG-AGTTGCGAT
*
1061348 TTTCATTTTCGCGTTGCGAAT
1 TTTCATTTTCGAGTTGCG-AT
* *
1061369 TTT-ATTTTCGTGTTGCGAA
1 TTTCATTTTCGAGTTGCGAT
*
1061388 TTTCATTTTCGAGTTACGAT
1 TTTCATTTTCGAGTTGCGAT
1061408 TTTC
1 TTTC
1061412 GTGTTGCGAA
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
19 4 0.08
20 45 0.85
21 4 0.08
ACGTcount: A:0.15, C:0.17, G:0.17, T:0.51
Consensus pattern (20 bp):
TTTCATTTTCGAGTTGCGAT
Found at i:1061802 original size:22 final size:22
Alignment explanation
Indices: 1061777--1061826 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
1061767 ATGGAGGGGG
* * *
1061777 GTCGTCGGATATGGGGATGGAT
1 GTCGCCGGAGATGGGGACGGAT
1061799 GTCGCCGGAGATGGGGACGGAT
1 GTCGCCGGAGATGGGGACGGAT
1061821 GTCGCC
1 GTCGCC
1061827 ATAGAGAGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.16, C:0.18, G:0.46, T:0.20
Consensus pattern (22 bp):
GTCGCCGGAGATGGGGACGGAT
Found at i:1062043 original size:40 final size:40
Alignment explanation
Indices: 1061999--1062085 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 40
1061989 GAAACACGCT
* * * *
1061999 TTGCGAA-TTATAAAATCTTGTTGCGAAAAGGACATTTGTG
1 TTGCGAATTTA-AAAATCGTGTTGCGAAAAAGAAATTCGTG
*
1062039 TTGCGAATTTAAAAATCGTGTTTCGAAAAAGAAATTCGTG
1 TTGCGAATTTAAAAATCGTGTTGCGAAAAAGAAATTCGTG
1062079 TTGCGAA
1 TTGCGAA
1062086 ATTGTCAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
40 38 0.93
41 3 0.07
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.33
Consensus pattern (40 bp):
TTGCGAATTTAAAAATCGTGTTGCGAAAAAGAAATTCGTG
Found at i:1062059 original size:20 final size:20
Alignment explanation
Indices: 1061916--1062110 Score: 58
Period size: 20 Copynumber: 9.7 Consensus size: 20
1061906 ATTTACATTT
* * *
1061916 GTGTTGCGAAATTAATATTC
1 GTGTTGCGAATTTAAAAATC
* **
1061936 GTGTTTCGAATTCGAAAATC
1 GTGTTGCGAATTTAAAAATC
* ** *
1061956 GAGTTGCGAAAATAAAATTC
1 GTGTTGCGAATTTAAAAATC
* * *
1061976 GCGTTGCGAAATTGAAACA-C
1 GTGTTGCG-AATTTAAAAATC
1061996 GCT-TTGCGAA-TTATAAAATC
1 G-TGTTGCGAATTTA-AAAATC
* **** * * *
1062016 TTGTTGCGAAAAGGACATTT
1 GTGTTGCGAATTTAAAAATC
1062036 GTGTTGCGAATTTAAAAATC
1 GTGTTGCGAATTTAAAAATC
* *
1062056 GTGTTTCGAA--AAAGAAATTC
1 GTGTTGCGAATTTAA-AAA-TC
* *
1062076 GTGTTGCGAAATTGTCAAATTC
1 GTGTTGCG-AATT-TAAAAATC
*
1062098 GAGTTGCGAATTT
1 GTGTTGCGAATTT
1062111 TACTTCTTTG
Statistics
Matches: 119, Mismatches: 44, Indels: 24
0.64 0.24 0.13
Matches are distributed among these distances:
18 4 0.03
19 9 0.08
20 83 0.70
21 11 0.09
22 9 0.08
23 2 0.02
24 1 0.01
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (20 bp):
GTGTTGCGAATTTAAAAATC
Found at i:1062640 original size:21 final size:23
Alignment explanation
Indices: 1062616--1062667 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 23
1062606 ATAATGAAAG
1062616 TTTTTATAT-A-TTTAATATT-A
1 TTTTTATATCACTTTAATATTAA
1062636 TTTTTA-ATCACTTTAATATTAAA
1 TTTTTATATCACTTTAATATT-AA
1062659 TTTTT-TATC
1 TTTTTATATC
1062668 TTTTATTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 2 0.07
20 7 0.26
21 9 0.33
23 9 0.33
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.62
Consensus pattern (23 bp):
TTTTTATATCACTTTAATATTAA
Found at i:1065343 original size:48 final size:48
Alignment explanation
Indices: 1065243--1065343 Score: 116
Period size: 48 Copynumber: 2.1 Consensus size: 48
1065233 CAAATCTCCA
* *
1065243 CCAC-CACCACAACCACCACCAACAGTCCCCTCTCCACCACCTCCGGT
1 CCACTCACCACAACCACCACCAACAGTCCACTCTCCACCACCACCGGT
* * * * *
1065290 TCACTCACCACCACCACCACC-ACTAGTCCACTCTCCGCCCCCACCTGT
1 CCACTCACCACAACCACCACCAAC-AGTCCACTCTCCACCACCACCGGT
1065338 CCACTC
1 CCACTC
1065344 TCCGCCTCCT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
47 5 0.11
48 39 0.89
ACGTcount: A:0.23, C:0.57, G:0.06, T:0.14
Consensus pattern (48 bp):
CCACTCACCACAACCACCACCAACAGTCCACTCTCCACCACCACCGGT
Found at i:1067659 original size:66 final size:67
Alignment explanation
Indices: 1067581--1067730 Score: 221
Period size: 67 Copynumber: 2.3 Consensus size: 67
1067571 ACCCATTCAA
* *
1067581 GGGGAACCGATACCCCTTCAACGAATATG-ATTTCCAGAATGATAGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGATAGAGGGGAATCGATACCCCCA
1067645 AG
66 AG
* * * *
1067647 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGAATGCTTGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGATAGAGGGGAATCGATACCCCCA
*
1067712 GG
66 AG
*
1067714 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
1067731 ATGAGAAAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
66 26 0.35
67 49 0.65
ACGTcount: A:0.29, C:0.27, G:0.25, T:0.18
Consensus pattern (67 bp):
GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGATAGAGGGGAATCGATACCCCCA
AG
Found at i:1067719 original size:20 final size:20
Alignment explanation
Indices: 1067694--1067731 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1067684 GAATGCTTGA
*
1067694 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
1067714 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
1067732 TGAGAAAAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:1068038 original size:24 final size:24
Alignment explanation
Indices: 1067994--1068040 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1067984 ATAAGTCTAG
* *
1067994 ATTCCATATTTTGACATATGACAC
1 ATTCCATATTATGACACATGACAC
*
1068018 ATTCCATATTATGATACATGACA
1 ATTCCATATTATGACACATGACA
1068041 TGAATTTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (24 bp):
ATTCCATATTATGACACATGACAC
Found at i:1068130 original size:30 final size:30
Alignment explanation
Indices: 1068096--1068154 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
1068086 GTTATATGAG
* *
1068096 CTATGTGATAAAGGTATGTAAATGATATGT
1 CTATGTGATAAAGGTATGGAAATAATATGT
1068126 CTATGTGATAAAGGTATGGAAATAATATG
1 CTATGTGATAAAGGTATGGAAATAATATG
1068155 ACTACGCGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (30 bp):
CTATGTGATAAAGGTATGGAAATAATATGT
Found at i:1068428 original size:23 final size:22
Alignment explanation
Indices: 1068368--1068435 Score: 127
Period size: 22 Copynumber: 3.0 Consensus size: 22
1068358 TTATGGACAT
1068368 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
1068390 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
1068412 AATTCTACGGGGCACTTCGGTGC
1 AATTCTAC-GGGCACTTCGGTGC
1068435 A
1 A
1068436 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
22 30 0.67
23 15 0.33
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.26
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:1074496 original size:21 final size:21
Alignment explanation
Indices: 1074470--1074512 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1074460 TTTTCGGGCT
* *
1074470 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
1074491 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
1074512 A
1 A
1074513 CGAATATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:1074570 original size:66 final size:68
Alignment explanation
Indices: 1074492--1074643 Score: 209
Period size: 67 Copynumber: 2.2 Consensus size: 68
1074482 ACCCATTCAA
* * *
1074492 GGGGAACCGATACCCCTTCAACGAATATG-ATTTCCAGAATGATAGAGGGGAATTGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGATAGAGGGGAATCGATACCCCCA
1074556 -GG
66 GGG
* * * *
1074558 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGAATGCTTGAGGGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGATAGAGGGGAATCGATACCCCCA
1074623 GGGG
66 -GGG
*
1074627 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
1074644 ATGAGAAAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
66 26 0.35
67 31 0.41
69 18 0.24
ACGTcount: A:0.28, C:0.26, G:0.27, T:0.18
Consensus pattern (68 bp):
GGGGAACCGATACCCCCTCAACGAATATGAAATTCCAGAATGATAGAGGGGAATCGATACCCCCA
GGG
Found at i:1075340 original size:23 final size:22
Alignment explanation
Indices: 1075280--1075347 Score: 127
Period size: 22 Copynumber: 3.0 Consensus size: 22
1075270 TTATGGACAT
1075280 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
1075302 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
1075324 AATTCTACGGGGCACTTCGGTGC
1 AATTCTAC-GGGCACTTCGGTGC
1075347 A
1 A
1075348 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
22 30 0.67
23 15 0.33
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.26
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:1078511 original size:7 final size:7
Alignment explanation
Indices: 1078499--1078559 Score: 52
Period size: 7 Copynumber: 8.7 Consensus size: 7
1078489 GGGTAGGGAA
1078499 AGTGAAG
1 AGTGAAG
1078506 AGTGAAG
1 AGTGAAG
*
1078513 CAGGGAA-
1 -AGTGAAG
*
1078520 AGTGAAA
1 AGTGAAG
1078527 AGTGAAG
1 AGTGAAG
* *
1078534 TGTGAAA
1 AGTGAAG
*
1078541 ATTGAAG
1 AGTGAAG
1078548 AGTGAAG
1 AGTGAAG
*
1078555 CGTGA
1 AGTGA
1078560 GGTTGGGTAT
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
6 5 0.12
7 32 0.76
8 5 0.12
ACGTcount: A:0.43, C:0.03, G:0.38, T:0.16
Consensus pattern (7 bp):
AGTGAAG
Found at i:1078538 original size:14 final size:14
Alignment explanation
Indices: 1078497--1078553 Score: 62
Period size: 14 Copynumber: 4.1 Consensus size: 14
1078487 GTGGGTAGGG
1078497 AAAGTGAAGAGTGA
1 AAAGTGAAGAGTGA
* *
1078511 AGCAGGGAA-AGTGA
1 A-AAGTGAAGAGTGA
*
1078525 AAAGTGAAGTGTGA
1 AAAGTGAAGAGTGA
*
1078539 AAATTGAAGAGTGA
1 AAAGTGAAGAGTGA
1078553 A
1 A
1078554 GCGTGAGGTT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
13 5 0.15
14 24 0.71
15 5 0.15
ACGTcount: A:0.47, C:0.02, G:0.35, T:0.16
Consensus pattern (14 bp):
AAAGTGAAGAGTGA
Found at i:1078559 original size:21 final size:21
Alignment explanation
Indices: 1078497--1078559 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
1078487 GTGGGTAGGG
*
1078497 AAAGTGAAGAGTGAAGCAG-GG
1 AAAGTGAAGAGTGAAGC-GTGA
* *
1078518 AAAGTGAAAAGTGAAGTGTGA
1 AAAGTGAAGAGTGAAGCGTGA
*
1078539 AAATTGAAGAGTGAAGCGTGA
1 AAAGTGAAGAGTGAAGCGTGA
1078560 GGTTGGGTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 1 0.03
21 34 0.97
ACGTcount: A:0.44, C:0.03, G:0.37, T:0.16
Consensus pattern (21 bp):
AAAGTGAAGAGTGAAGCGTGA
Found at i:1084606 original size:106 final size:106
Alignment explanation
Indices: 1084416--1084627 Score: 406
Period size: 106 Copynumber: 2.0 Consensus size: 106
1084406 TCCATCAGAA
* *
1084416 TCCTCATCAATAACTACATCGATATGTCTCGCAGAGTAAGATTGTAACCATATCCTACAGTCATT
1 TCCTAATCAATAACTACATCGATATGTCTCGCAGAGTAAGATTGTAACCATACCCTACAGTCATT
1084481 CTTCCAACCGAAACTCAGACCACTACTCCAACCAATGACTG
66 CTTCCAACCGAAACTCAGACCACTACTCCAACCAATGACTG
1084522 TCCTAATCAATAACTACATCGATATGTCTCGCAGAGTAAGATTGTAACCATACCCTACAGTCATT
1 TCCTAATCAATAACTACATCGATATGTCTCGCAGAGTAAGATTGTAACCATACCCTACAGTCATT
1084587 CTTCCAACCGAAACTCAGACCACTACTCCAACCAATGACTG
66 CTTCCAACCGAAACTCAGACCACTACTCCAACCAATGACTG
1084628 CCATTTTAAT
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
106 104 1.00
ACGTcount: A:0.33, C:0.30, G:0.11, T:0.25
Consensus pattern (106 bp):
TCCTAATCAATAACTACATCGATATGTCTCGCAGAGTAAGATTGTAACCATACCCTACAGTCATT
CTTCCAACCGAAACTCAGACCACTACTCCAACCAATGACTG
Found at i:1086432 original size:30 final size:30
Alignment explanation
Indices: 1086398--1086463 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
1086388 AGAATCGGAA
* * * *
1086398 GAACCGACTGAAAATCGGGAAAATTGGGGT
1 GAACCGACTAAAAACCAGGAAAATCGGGGT
1086428 GAACCGACTAAAAACCAGGAAAATCGGGGT
1 GAACCGACTAAAAACCAGGAAAATCGGGGT
1086458 GAACCG
1 GAACCG
1086464 GCAAAACCGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.39, C:0.18, G:0.30, T:0.12
Consensus pattern (30 bp):
GAACCGACTAAAAACCAGGAAAATCGGGGT
Found at i:1093658 original size:18 final size:18
Alignment explanation
Indices: 1093635--1093708 Score: 67
Period size: 18 Copynumber: 3.9 Consensus size: 18
1093625 CACTGAAATT
1093635 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
1093653 TGTCCCGTAGGACCACTGTA
1 TGTCCCGAAGGACCAC--TA
** *
1093673 TTGTCGTGAATGACCACTA
1 -TGTCCCGAAGGACCACTA
* *
1093692 TGTCCTGTAGGACCACT
1 TGTCCCGAAGGACCACT
1093709 GTAACCCTCG
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
18 29 0.64
19 2 0.04
20 2 0.04
21 12 0.27
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:1094748 original size:20 final size:22
Alignment explanation
Indices: 1094725--1094767 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1094715 TACCATCACT
1094725 TAAACCA-ACTTAT-TTCCATA
1 TAAACCATACTTATCTTCCATA
*
1094745 TAAACCATATTTATCTTCCATA
1 TAAACCATACTTATCTTCCATA
1094767 T
1 T
1094768 CTCATTATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 5 0.25
22 8 0.40
ACGTcount: A:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAACCATACTTATCTTCCATA
Found at i:1095101 original size:7 final size:7
Alignment explanation
Indices: 1095089--1095289 Score: 303
Period size: 7 Copynumber: 28.7 Consensus size: 7
1095079 GGAGGAATAA
1095089 GAAGAAG
1 GAAGAAG
1095096 GAAGAAG
1 GAAGAAG
1095103 GAAGAAG
1 GAAGAAG
1095110 GAAGAAG
1 GAAGAAG
1095117 GAAGAAG
1 GAAGAAG
1095124 GAAGAAG
1 GAAGAAG
1095131 GAAGAAG
1 GAAGAAG
1095138 GAAGAAG
1 GAAGAAG
1095145 GAAGAAG
1 GAAGAAG
1095152 GAAGAAG
1 GAAGAAG
1095159 GAAGAAG
1 GAAGAAG
1095166 GAAGAAG
1 GAAGAAG
1095173 GAAGAAG
1 GAAGAAG
1095180 GAAGAAG
1 GAAGAAG
1095187 GAAGAAG
1 GAAGAAG
1095194 GAAGAAG
1 GAAGAAG
1095201 GAAGAAG
1 GAAGAAG
*
1095208 GAAGAAT
1 GAAGAAG
*
1095215 GAAGAAT
1 GAAGAAG
*
1095222 GAAGAAT
1 GAAGAAG
*
1095229 GAAGAAT
1 GAAGAAG
*
1095236 GAAGAAT
1 GAAGAAG
*
1095243 GAAGAAT
1 GAAGAAG
*
1095250 GAAGAAT
1 GAAGAAG
*
1095257 GAAGAAT
1 GAAGAAG
*
1095264 GAAGAAT
1 GAAGAAG
*
1095271 GAAGAAT
1 GAAGAAG
1095278 GAAGAAG
1 GAAGAAG
*
1095285 AAAGA
1 GAAGA
1095290 GTTTTAAGAT
Statistics
Matches: 191, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 191 1.00
ACGTcount: A:0.58, C:0.00, G:0.37, T:0.05
Consensus pattern (7 bp):
GAAGAAG
Found at i:1096899 original size:158 final size:158
Alignment explanation
Indices: 1096611--1096926 Score: 632
Period size: 158 Copynumber: 2.0 Consensus size: 158
1096601 GCTAGCTTAA
1096611 GGTGTAAGGCTAGACAACTCAAGCTCATGAAGAATTATGGAACCAAAGTGGTGATGTTTGGCGAG
1 GGTGTAAGGCTAGACAACTCAAGCTCATGAAGAATTATGGAACCAAAGTGGTGATGTTTGGCGAG
1096676 AAATCTAGGTGCTCAAGGATCGTTTAGGCAGTAAAGGCTCAAAAGATGATCGATCGGGACTGTGA
66 AAATCTAGGTGCTCAAGGATCGTTTAGGCAGTAAAGGCTCAAAAGATGATCGATCGGGACTGTGA
1096741 ATCCTTTTTAGCTCATGCGATCGATGCC
131 ATCCTTTTTAGCTCATGCGATCGATGCC
1096769 GGTGTAAGGCTAGACAACTCAAGCTCATGAAGAATTATGGAACCAAAGTGGTGATGTTTGGCGAG
1 GGTGTAAGGCTAGACAACTCAAGCTCATGAAGAATTATGGAACCAAAGTGGTGATGTTTGGCGAG
1096834 AAATCTAGGTGCTCAAGGATCGTTTAGGCAGTAAAGGCTCAAAAGATGATCGATCGGGACTGTGA
66 AAATCTAGGTGCTCAAGGATCGTTTAGGCAGTAAAGGCTCAAAAGATGATCGATCGGGACTGTGA
1096899 ATCCTTTTTAGCTCATGCGATCGATGCC
131 ATCCTTTTTAGCTCATGCGATCGATGCC
1096927 TAAATTTCTA
Statistics
Matches: 158, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
158 158 1.00
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (158 bp):
GGTGTAAGGCTAGACAACTCAAGCTCATGAAGAATTATGGAACCAAAGTGGTGATGTTTGGCGAG
AAATCTAGGTGCTCAAGGATCGTTTAGGCAGTAAAGGCTCAAAAGATGATCGATCGGGACTGTGA
ATCCTTTTTAGCTCATGCGATCGATGCC
Found at i:1103572 original size:119 final size:120
Alignment explanation
Indices: 1103355--1103596 Score: 414
Period size: 119 Copynumber: 2.0 Consensus size: 120
1103345 TTTAATGGGA
* *
1103355 ATATTACAAACATTATATGAATATGTTAGAAAAATATTAATTCAATGATAGGTTTTTATTATTAT
1 ATATAACAAACATTATATGAATATGTTAGAAAAATACTAATTCAATGATAGGTTTTTATTATTAT
* * *
1103420 GATTAGTTTCTGAATTTTCAAATTAAAAAATATAAAATTTTATTCATACATCGTG
66 GATTAGTTCCTAAATTTTCAAATTAAAAAATATAAAATTTTATTCAGACATCGTG
*
1103475 ATATAACAAACATTATATGAATATGTTAGAAATATACTAATTCAATG-TAGGTTTTTATTATTAT
1 ATATAACAAACATTATATGAATATGTTAGAAAAATACTAATTCAATGATAGGTTTTTATTATTAT
*
1103539 GATTAGTTCCTAAATTTTCAAATTAAAAAATATAAAATTTTATTTAGACATCGTG
66 GATTAGTTCCTAAATTTTCAAATTAAAAAATATAAAATTTTATTCAGACATCGTG
1103594 ATA
1 ATA
1103597 CCACTAATTG
Statistics
Matches: 115, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
119 71 0.62
120 44 0.38
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (120 bp):
ATATAACAAACATTATATGAATATGTTAGAAAAATACTAATTCAATGATAGGTTTTTATTATTAT
GATTAGTTCCTAAATTTTCAAATTAAAAAATATAAAATTTTATTCAGACATCGTG
Found at i:1104224 original size:61 final size:61
Alignment explanation
Indices: 1104129--1104269 Score: 246
Period size: 61 Copynumber: 2.3 Consensus size: 61
1104119 CAAAACTACA
* * *
1104129 TTCATAAGGACTTACTCTAGGCCCATTGGACCTAGGAGCCAACCTAATGAAGCATCTTGGG
1 TTCATAAGGACTTACCCTAGGCCCATTGGACCTAGGAACCAACCTAATAAAGCATCTTGGG
1104190 TTCATAAGGACTTACCCTAGGCCCATTGGACCTAGGAACCAACCTAATAAAGCATCTTGGG
1 TTCATAAGGACTTACCCTAGGCCCATTGGACCTAGGAACCAACCTAATAAAGCATCTTGGG
*
1104251 TTCATAAGGACTTGCCCTA
1 TTCATAAGGACTTACCCTA
1104270 TTTGAAGCGT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 76 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.25
Consensus pattern (61 bp):
TTCATAAGGACTTACCCTAGGCCCATTGGACCTAGGAACCAACCTAATAAAGCATCTTGGG
Found at i:1105264 original size:19 final size:21
Alignment explanation
Indices: 1105240--1105281 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1105230 AACGAGTCAG
1105240 GTCAACG-ATC-ATGTAAATA
1 GTCAACGTATCTATGTAAATA
*
1105259 GTCAACGTTTCTATGTAAATA
1 GTCAACGTATCTATGTAAATA
1105280 GT
1 GT
1105282 TCGATTCTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 7 0.35
20 2 0.10
21 11 0.55
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (21 bp):
GTCAACGTATCTATGTAAATA
Found at i:1112451 original size:74 final size:74
Alignment explanation
Indices: 1112331--1112477 Score: 294
Period size: 74 Copynumber: 2.0 Consensus size: 74
1112321 TTATTATACC
1112331 ATGAAATGATTTGATTCATGTTGTCTTTACATGCGAGAATATAAAGCGATTAATGGACATCGGCA
1 ATGAAATGATTTGATTCATGTTGTCTTTACATGCGAGAATATAAAGCGATTAATGGACATCGGCA
1112396 TAGGCATCA
66 TAGGCATCA
1112405 ATGAAATGATTTGATTCATGTTGTCTTTACATGCGAGAATATAAAGCGATTAATGGACATCGGCA
1 ATGAAATGATTTGATTCATGTTGTCTTTACATGCGAGAATATAAAGCGATTAATGGACATCGGCA
1112470 TAGGCATC
66 TAGGCATC
1112478 TCAAACCACA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (74 bp):
ATGAAATGATTTGATTCATGTTGTCTTTACATGCGAGAATATAAAGCGATTAATGGACATCGGCA
TAGGCATCA
Found at i:1112496 original size:21 final size:21
Alignment explanation
Indices: 1112467--1112510 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
1112457 ATGGACATCG
1112467 GCATAGGCATCTCAAACCACA
1 GCATAGGCATCTCAAACCACA
*
1112488 GCATCGGCATCTCAAACCACA
1 GCATAGGCATCTCAAACCACA
1112509 GC
1 GC
1112511 CACTACATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.36, G:0.16, T:0.14
Consensus pattern (21 bp):
GCATAGGCATCTCAAACCACA
Found at i:1118699 original size:33 final size:33
Alignment explanation
Indices: 1118662--1118727 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1118652 TGAGACTGTT
* *
1118662 TTTGAAAGTTAAGCGATTGAGGTCTGATAATGG
1 TTTGAAAGTTAAGAGATTGAGGTCTGACAATGG
*
1118695 TTTGAAAGTTAAGAGATTGAGGTTTGACAATGG
1 TTTGAAAGTTAAGAGATTGAGGTCTGACAATGG
1118728 AAGAGAGTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.32, C:0.05, G:0.30, T:0.33
Consensus pattern (33 bp):
TTTGAAAGTTAAGAGATTGAGGTCTGACAATGG
Found at i:1120056 original size:19 final size:19
Alignment explanation
Indices: 1120032--1120070 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
1120022 TGCTTGTTGC
1120032 AGGTTCAGACATGCAAGAG
1 AGGTTCAGACATGCAAGAG
1120051 AGGTTCAGACATGCAAGAG
1 AGGTTCAGACATGCAAGAG
1120070 A
1 A
1120071 TTATAAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.15, G:0.31, T:0.15
Consensus pattern (19 bp):
AGGTTCAGACATGCAAGAG
Found at i:1122948 original size:15 final size:15
Alignment explanation
Indices: 1122928--1122979 Score: 95
Period size: 15 Copynumber: 3.5 Consensus size: 15
1122918 ATATTTAGCT
*
1122928 GGGCGGGCGGATGTG
1 GGGCGGGCGGATGCG
1122943 GGGCGGGCGGATGCG
1 GGGCGGGCGGATGCG
1122958 GGGCGGGCGGATGCG
1 GGGCGGGCGGATGCG
1122973 GGGCGGG
1 GGGCGGG
1122980 TAATGTCTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.06, C:0.17, G:0.69, T:0.08
Consensus pattern (15 bp):
GGGCGGGCGGATGCG
Found at i:1123713 original size:27 final size:27
Alignment explanation
Indices: 1123672--1123734 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
1123662 CCGTGCTTAT
* * *
1123672 TCAAGCATTGCCACAGCATGATCACTG
1 TCAAGCATTGACACAGCATGAGCACTA
* *
1123699 TCAAGCATTGACACAGCTTGGGCACTA
1 TCAAGCATTGACACAGCATGAGCACTA
1123726 TCAAGCATT
1 TCAAGCATT
1123735 ACCACGACAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (27 bp):
TCAAGCATTGACACAGCATGAGCACTA
Found at i:1126402 original size:14 final size:15
Alignment explanation
Indices: 1126383--1126416 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
1126373 GAGCGGTTCG
*
1126383 TGTTTT-GTCGGCGT
1 TGTTTTCGTCGCCGT
1126397 TGTTTTCGTCGCCGT
1 TGTTTTCGTCGCCGT
1126412 TGTTT
1 TGTTT
1126417 CTTTTCTTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.00, C:0.18, G:0.29, T:0.53
Consensus pattern (15 bp):
TGTTTTCGTCGCCGT
Found at i:1133767 original size:101 final size:101
Alignment explanation
Indices: 1133592--1133793 Score: 404
Period size: 101 Copynumber: 2.0 Consensus size: 101
1133582 TTTTTTCAGT
1133592 GTTTGAGTTCTAGTCTACTTTGGATTTTCAAATTTTAAATAAATCTAAAATTAAAATGCTATCGT
1 GTTTGAGTTCTAGTCTACTTTGGATTTTCAAATTTTAAATAAATCTAAAATTAAAATGCTATCGT
1133657 TTTGGTCTTTAGTCAAGTAATTTGATTACTTTGTGA
66 TTTGGTCTTTAGTCAAGTAATTTGATTACTTTGTGA
1133693 GTTTGAGTTCTAGTCTACTTTGGATTTTCAAATTTTAAATAAATCTAAAATTAAAATGCTATCGT
1 GTTTGAGTTCTAGTCTACTTTGGATTTTCAAATTTTAAATAAATCTAAAATTAAAATGCTATCGT
1133758 TTTGGTCTTTAGTCAAGTAATTTGATTACTTTGTGA
66 TTTGGTCTTTAGTCAAGTAATTTGATTACTTTGTGA
1133794 TATGGCCTCT
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.46
Consensus pattern (101 bp):
GTTTGAGTTCTAGTCTACTTTGGATTTTCAAATTTTAAATAAATCTAAAATTAAAATGCTATCGT
TTTGGTCTTTAGTCAAGTAATTTGATTACTTTGTGA
Found at i:1151037 original size:17 final size:17
Alignment explanation
Indices: 1151015--1151054 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
1151005 CGTTTGCAAT
*
1151015 TTTTTTGAAATTTTGGC
1 TTTTTTGAAATTTTGCC
1151032 TTTTTTGAAATTTTGCC
1 TTTTTTGAAATTTTGCC
1151049 TTTTTT
1 TTTTTT
1151055 TTATTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.15, C:0.07, G:0.12, T:0.65
Consensus pattern (17 bp):
TTTTTTGAAATTTTGCC
Found at i:1151037 original size:18 final size:18
Alignment explanation
Indices: 1151014--1151078 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 18
1151004 TCGTTTGCAA
*
1151014 TTTTTTTGAAATTTTGGC
1 TTTTTTTGAAATTTTGCC
1151032 -TTTTTTGAAATTTTGCC
1 TTTTTTTGAAATTTTGCC
*
1151049 TTTTTTTTATTATTATTTTGCC
1 TTTTTTTGA--A--ATTTTGCC
1151071 TTTTTTTG
1 TTTTTTTG
1151079 TTTTTTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
17 16 0.41
18 7 0.18
20 1 0.03
22 15 0.38
ACGTcount: A:0.14, C:0.08, G:0.11, T:0.68
Consensus pattern (18 bp):
TTTTTTTGAAATTTTGCC
Found at i:1153841 original size:7 final size:7
Alignment explanation
Indices: 1153829--1153856 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
1153819 ATTTCAGAGT
1153829 GCAAATG
1 GCAAATG
1153836 GCAAATG
1 GCAAATG
1153843 GCAAATG
1 GCAAATG
1153850 GCAAATG
1 GCAAATG
1153857 ACAACAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.29, T:0.14
Consensus pattern (7 bp):
GCAAATG
Found at i:1155197 original size:21 final size:20
Alignment explanation
Indices: 1155158--1155195 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1155148 TTTTAAATAC
* *
1155158 AATTTGAAAAATATATTTAT
1 AATTTCAAAAATAAATTTAT
1155178 AATTTCAAAAATAAATTT
1 AATTTCAAAAATAAATTT
1155196 TAAAAATTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (20 bp):
AATTTCAAAAATAAATTTAT
Found at i:1160502 original size:12 final size:11
Alignment explanation
Indices: 1160463--1160510 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
1160453 GCATCGATGC
*
1160463 ACTGCTACATT
1 ACTGCTACAGT
* *
1160474 ACCGCTATAGT
1 ACTGCTACAGT
1160485 ACTGCTACAGT
1 ACTGCTACAGT
1160496 GACTGCTACAGT
1 -ACTGCTACAGT
1160508 ACT
1 ACT
1160511 TCCGAAAATT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
11 20 0.65
12 11 0.35
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (11 bp):
ACTGCTACAGT
Found at i:1160636 original size:19 final size:18
Alignment explanation
Indices: 1160606--1160644 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
1160596 CAAATTTAAT
*
1160606 ATTATCAAATTACATTCC
1 ATTATCAAATTAAATTCC
1160624 ATTATCTAAATTAAATTCC
1 ATTATC-AAATTAAATTCC
1160643 AT
1 AT
1160645 CATAGGATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTATCAAATTAAATTCC
Found at i:1160998 original size:41 final size:43
Alignment explanation
Indices: 1160926--1161089 Score: 223
Period size: 41 Copynumber: 3.9 Consensus size: 43
1160916 TTTATCCCAT
1160926 AAGCTCGTAAGCTTATTTTACCAACATACTTACCATTTATTTCCAC
1 AAGCTCGTAAGCTTATTTT---AACATACTTACCATTTATTTCCAC
1160972 AAGCTCGTAAGCTTATTTT-A-ATACTTACCATTTATTTCCAC
1 AAGCTCGTAAGCTTATTTTAACATACTTACCATTTATTTCCAC
* * *
1161013 AAGCTCGTAAGCTTATTTTAATATACTTGCCA-TTA-TTCCAT
1 AAGCTCGTAAGCTTATTTTAACATACTTACCATTTATTTCCAC
*
1161054 ATGCTCGTAAGCTTATTTT--CATACTTACCATTTATT
1 AAGCTCGTAAGCTTATTTTAACATACTTACCATTTATT
1161090 AACCAATAAA
Statistics
Matches: 109, Mismatches: 5, Indels: 13
0.86 0.04 0.10
Matches are distributed among these distances:
39 9 0.08
40 3 0.03
41 64 0.59
42 5 0.05
43 9 0.08
46 19 0.17
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (43 bp):
AAGCTCGTAAGCTTATTTTAACATACTTACCATTTATTTCCAC
Found at i:1166254 original size:3 final size:3
Alignment explanation
Indices: 1166246--1166324 Score: 115
Period size: 3 Copynumber: 25.7 Consensus size: 3
1166236 TCGGGTCTTG
1166246 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1166294 TAA T-A TAA TATA TTA TATA TAA TAAA TAA TA
1 TAA TAA TAA TA-A TAA TA-A TAA T-AA TAA TA
1166325 GAAACGACAC
Statistics
Matches: 70, Mismatches: 2, Indels: 8
0.88 0.03 0.10
Matches are distributed among these distances:
2 2 0.03
3 60 0.86
4 8 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:1166697 original size:34 final size:34
Alignment explanation
Indices: 1166544--1166743 Score: 247
Period size: 35 Copynumber: 5.8 Consensus size: 34
1166534 TTTGCAAATG
* * *
1166544 ATTTGCTTCACTACTCTTCCGTGATGGCTGAATTT
1 ATTTACTTCACTACTCTTCCGTGAAGGCTGGA-TT
* * *
1166579 GTATTACTTCACTACTCTTCCGTGAAGGTTGAATT
1 AT-TTACTTCACTACTCTTCCGTGAAGGCTGGATT
* * *
1166614 GAATCACTTCATTACTCTTCCGTGAAGGCTGGATT
1 -ATTTACTTCACTACTCTTCCGTGAAGGCTGGATT
* * *
1166649 AAATCACTTCACTACTCTTCCGTGAAGGTTGGATT
1 -ATTTACTTCACTACTCTTCCGTGAAGGCTGGATT
1166684 ATTTACTTCACTACTCTTCCGTGAAGGCTGGATT
1 ATTTACTTCACTACTCTTCCGTGAAGGCTGGATT
*
1166718 ATTTACTTCACTACTCTTCTGTGAAG
1 ATTTACTTCACTACTCTTCCGTGAAG
1166744 ATTTTACAAA
Statistics
Matches: 146, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
34 56 0.38
35 63 0.43
36 27 0.18
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.39
Consensus pattern (34 bp):
ATTTACTTCACTACTCTTCCGTGAAGGCTGGATT
Found at i:1166903 original size:20 final size:20
Alignment explanation
Indices: 1166807--1166910 Score: 136
Period size: 20 Copynumber: 5.2 Consensus size: 20
1166797 ACCCTAAGGA
* *
1166807 TTTACAAACTACCCGAAGGT
1 TTTACAAATTACCCGGAGGT
* *
1166827 TTTACAAATAACCCAGAGGT
1 TTTACAAATTACCCGGAGGT
* *
1166847 TTTACAAATTACCCAGAAGT
1 TTTACAAATTACCCGGAGGT
*
1166867 TTTACAAATTACTCGGAGGT
1 TTTACAAATTACCCGGAGGT
*
1166887 TTTACAAATTACCCGGAGGA
1 TTTACAAATTACCCGGAGGT
1166907 TTTA
1 TTTA
1166911 GCATTAAATG
Statistics
Matches: 73, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 73 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (20 bp):
TTTACAAATTACCCGGAGGT
Found at i:1174918 original size:3 final size:3
Alignment explanation
Indices: 1174905--1174994 Score: 108
Period size: 3 Copynumber: 28.0 Consensus size: 3
1174895 TCGGTTTTTG
*
1174905 TAA TTA TAA TAA TAA TAA TAA TATA TAA TAA TATA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA
*
1174952 TATA TAA TAA TAA TAA TAA TATA TTA TATA TAA TAAA TAA TAA
1 TA-A TAA TAA TAA TAA TAA TA-A TAA TA-A TAA T-AA TAA TAA
1174995 AAAGGACTCT
Statistics
Matches: 77, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
3 60 0.78
4 17 0.22
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:1174934 original size:16 final size:15
Alignment explanation
Indices: 1174905--1174994 Score: 108
Period size: 16 Copynumber: 5.6 Consensus size: 15
1174895 TCGGTTTTTG
*
1174905 TAATTATAATAATAA
1 TAATAATAATAATAA
1174920 TAATAATATATAATAA
1 TAATAATA-ATAATAA
1174936 TATATAATAATAATAA
1 TA-ATAATAATAATAA
1174952 TATATAATAATAATAA
1 TA-ATAATAATAATAA
*
1174968 TAATATATTATATATAA
1 TAATA-ATAATA-ATAA
1174985 TAAATAATAA
1 T-AATAATAA
1174995 AAAGGACTCT
Statistics
Matches: 67, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
15 10 0.15
16 39 0.58
17 14 0.21
18 4 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TAATAATAATAATAA
Found at i:1174942 original size:26 final size:25
Alignment explanation
Indices: 1174905--1174994 Score: 135
Period size: 26 Copynumber: 3.5 Consensus size: 25
1174895 TCGGTTTTTG
*
1174905 TAATTATAATAATAATAATAATATA
1 TAATAATAATAATAATAATAATATA
1174930 TAATAATATATAATAATAATAATATA
1 TAATAATA-ATAATAATAATAATATA
*
1174956 TAATAATAATAATAATATATTATATA
1 TAATAATAATAATAATA-ATAATATA
1174982 TAATAAATAATAA
1 TAAT-AATAATAA
1174995 AAAGGACTCT
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
25 16 0.27
26 36 0.60
27 8 0.13
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (25 bp):
TAATAATAATAATAATAATAATATA
Found at i:1175618 original size:14 final size:14
Alignment explanation
Indices: 1175596--1175681 Score: 80
Period size: 14 Copynumber: 6.7 Consensus size: 14
1175586 TCGATTATAT
*
1175596 GTTCGTTTATGTTC
1 GTTCATTTATGTTC
1175610 GTTCATTTA---T-
1 GTTCATTTATGTTC
*
1175620 ATTCATTTATGTTC
1 GTTCATTTATGTTC
1175634 GTTCATTTA---T-
1 GTTCATTTATGTTC
*
1175644 GTTCATTTATGTCC
1 GTTCATTTATGTTC
*
1175658 ATTCATTTATGTTC
1 GTTCATTTATGTTC
1175672 GTTCATTTAT
1 GTTCATTTAT
1175682 TGAAGTTGTT
Statistics
Matches: 57, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
10 17 0.30
11 2 0.04
13 1 0.02
14 37 0.65
ACGTcount: A:0.17, C:0.14, G:0.12, T:0.57
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:1175664 original size:24 final size:24
Alignment explanation
Indices: 1175583--1175671 Score: 124
Period size: 24 Copynumber: 3.6 Consensus size: 24
1175573 TGTTCGTGAA
*
1175583 CGTTCGATTATATGTTCGTTTATGTT
1 CGTTC-ATT-TATGTTCATTTATGTT
*
1175609 CGTTCATTTATATTCATTTATGTT
1 CGTTCATTTATGTTCATTTATGTT
*
1175633 CGTTCATTTATGTTCATTTATGTC
1 CGTTCATTTATGTTCATTTATGTT
*
1175657 CATTCATTTATGTTC
1 CGTTCATTTATGTTC
1175672 GTTCATTTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
24 50 0.86
25 3 0.05
26 5 0.09
ACGTcount: A:0.18, C:0.15, G:0.12, T:0.55
Consensus pattern (24 bp):
CGTTCATTTATGTTCATTTATGTT
Found at i:1175957 original size:23 final size:23
Alignment explanation
Indices: 1175908--1175964 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
1175898 GTGTTTGTGT
* *
1175908 TGTTCGTTTATTGTGTTCGTTTA
1 TGTTCGTTTATTATGTTCGTTCA
* *
1175931 TGTTCATTTATTATGTTCGTTCG
1 TGTTCGTTTATTATGTTCGTTCA
1175954 TGTTCGTTTAT
1 TGTTCGTTTAT
1175965 CATTTAAATG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.11, C:0.11, G:0.19, T:0.60
Consensus pattern (23 bp):
TGTTCGTTTATTATGTTCGTTCA
Done.