Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 173 of 333
Found at i:56979167 original size:49 final size:49
Alignment explanation
Indices: 56978946--56979599 Score: 1028
Period size: 49 Copynumber: 13.6 Consensus size: 49
56978936 CCCTTCGGAA
* * *
56978946 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCA-GC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCA-TTAGGC
* * *
56978993 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
56979040 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
56979087 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
56979134 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
56979183 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
56979232 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
56979281 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
56979328 CTTATCACATATATATACACTTTCACATTCATCACATGGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
56979377 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
56979426 CTTCTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
56979473 CTTATCACATATATATACACTTTCACATTTATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
56979522 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
56979571 CTTATCACATATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
56979600 TATTCAAATA
Statistics
Matches: 570, Mismatches: 28, Indels: 16
0.93 0.05 0.03
Matches are distributed among these distances:
46 3 0.01
47 222 0.39
49 345 0.61
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:56979302 original size:194 final size:192
Alignment explanation
Indices: 56978946--56979599 Score: 1082
Period size: 194 Copynumber: 3.4 Consensus size: 192
56978936 CCCTTCGGAA
* * * * * *
56978946 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCAGCCCTGTCAC--ATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
*
56979007 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
*
56979072 CATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56979134 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
*
56979199 ACACTTTCACATTCATCACATTGGCCATTTGGCCTTATCACATATATATACACTTTCACATTCAT
66 ACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCAT
* *
56979264 CACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
129 CACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56979328 CTTATCACATATATATACACTTTCACATTCATCACATGGGCCATTCGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
* *
56979393 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTCTCACATATATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
* * *
56979458 CATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTTATCACATTGGCCATTCGGC
131 CATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56979522 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
56979587 ACACTTTCACATT
66 ACACTTTCACATT
56979600 TATTCAAATA
Statistics
Matches: 437, Mismatches: 21, Indels: 10
0.93 0.04 0.02
Matches are distributed among these distances:
188 10 0.02
189 1 0.00
190 38 0.09
192 90 0.21
194 298 0.68
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (192 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
ACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56979305 original size:145 final size:145
Alignment explanation
Indices: 56978946--56979599 Score: 1068
Period size: 145 Copynumber: 4.5 Consensus size: 145
56978936 CCCTTCGGAA
* * * * * *
56978946 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCAGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
56979009 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
* * *
56979072 CATCGGCTATTAGGC
131 CATTGGCCATTCGGC
* *
56979087 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATAT
* *
56979150 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCAT
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCAT
*
56979215 CACATTGGCCATTTGGC
129 CACATTGGCCATTCGGC
56979232 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
56979297 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
*
56979362 CATGGGCCATTCGGC
131 CATTGGCCATTCGGC
*
56979377 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTCTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
56979442 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTTATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
56979507 CATTGGCCATTCGGC
131 CATTGGCCATTCGGC
*
56979522 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATAT
56979587 ACACTTTCACATT
64 ACACTTTCACATT
56979600 TATTCAAATA
Statistics
Matches: 479, Mismatches: 24, Indels: 14
0.93 0.05 0.03
Matches are distributed among these distances:
140 1 0.00
141 44 0.09
143 45 0.09
145 325 0.68
147 64 0.13
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (145 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
CATTGGCCATTCGGC
Found at i:56983995 original size:31 final size:31
Alignment explanation
Indices: 56983960--56984033 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 31
56983950 ATATACTGGG
56983960 CCGAAGCCTTTACATTATTCATACCACTAGC
1 CCGAAGCCTTTACATTATTCATACCACTAGC
** * *
56983991 CCGAAGGGTTT-CATTATTCATATCACTAGG
1 CCGAAGCCTTTACATTATTCATACCACTAGC
56984021 CCGAAGCCTTTAC
1 CCGAAGCCTTTAC
56984034 TGTAAACGGT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
30 26 0.72
31 10 0.28
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (31 bp):
CCGAAGCCTTTACATTATTCATACCACTAGC
Found at i:56984161 original size:47 final size:47
Alignment explanation
Indices: 56984083--56984203 Score: 215
Period size: 47 Copynumber: 2.6 Consensus size: 47
56984073 TGCACTATTA
* *
56984083 ATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
*
56984130 ATGGTCTTACATGGTATCCTTGTCTTGCCAAATGCCATGTTCCAAAC
1 ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
56984177 ATGGTCTTACATGGTATCCTTGTCTTA
1 ATGGTCTTACATGGTATCCTTGTCTTA
56984204 GTGCCAATGC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 70 1.00
ACGTcount: A:0.25, C:0.24, G:0.15, T:0.36
Consensus pattern (47 bp):
ATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAAC
Found at i:56984967 original size:30 final size:30
Alignment explanation
Indices: 56984933--56984993 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
56984923 TCTCTAACTC
*
56984933 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTACCCCT
* * * *
56984963 AAACTTTTGTAGAATTACGATTTTACCCCT
1 AAACTTTGGCAAAATTACAATTTTACCCCT
56984993 A
1 A
56984994 GGCTCAGAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTACCCCT
Found at i:56988025 original size:42 final size:42
Alignment explanation
Indices: 56987921--56988078 Score: 151
Period size: 42 Copynumber: 3.7 Consensus size: 42
56987911 ACCAATACCA
* ** * *
56987921 ATCCCAGATATGGTGTTACATGTAA-TCTCATATCGATGCCAAT
1 ATCCCAGATATGGTCTTACA-CAAAGTCTTAAATCGATGCC-AT
* * * *
56987964 AGCCCAGCTACGGGCTTACACAAAGTCTTAAATCGATGCCAT
1 ATCCCAGATATGGTCTTACACAAAGTCTTAAATCGATGCCAT
*
56988006 ATCCCAGATATGGTCTTACACAAAGT-TT-CATACTGATGCCAT
1 ATCCCAGATATGGTCTTACACAAAGTCTTAAAT-C-GATGCCAT
**
56988048 ATCCCAGATATGGTCTTACACGTAGTCTTAA
1 ATCCCAGATATGGTCTTACACAAAGTCTTAA
56988079 TAACCCTAAT
Statistics
Matches: 93, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
40 2 0.02
41 3 0.03
42 58 0.62
43 30 0.32
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (42 bp):
ATCCCAGATATGGTCTTACACAAAGTCTTAAATCGATGCCAT
Found at i:56997662 original size:27 final size:27
Alignment explanation
Indices: 56997632--56997776 Score: 184
Period size: 27 Copynumber: 5.4 Consensus size: 27
56997622 GTAGGCTAGT
56997632 ATTACTAAAATGCCCCTGTAAGATAGA
1 ATTACTAAAATGCCCCTGTAAGATAGA
* *
56997659 ATTACTGAAATG-CCCTGTAGGATAGA
1 ATTACTAAAATGCCCCTGTAAGATAGA
* *
56997685 ATTACTAAGATGCCCCTGTAGGATAGA
1 ATTACTAAAATGCCCCTGTAAGATAGA
* * *
56997712 ATTACTGAGATGCCCCTGTAAGGTAGA
1 ATTACTAAAATGCCCCTGTAAGATAGA
* * * *
56997739 ATTACTGAGATGCCCTTGTAAGGTAGA
1 ATTACTAAAATGCCCCTGTAAGATAGA
56997766 ATTACTAAAAT
1 ATTACTAAAAT
56997777 ACCCTTGGTC
Statistics
Matches: 107, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
26 23 0.21
27 84 0.79
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (27 bp):
ATTACTAAAATGCCCCTGTAAGATAGA
Found at i:56997700 original size:53 final size:52
Alignment explanation
Indices: 56997620--56997781 Score: 207
Period size: 53 Copynumber: 3.0 Consensus size: 52
56997610 AATCTCATAT
* *
56997620 CTGTAGGCTAGTATTACTAAAATGCCCCTGTAAGATAGAATTACTGAAATGCC
1 CTGTAGG-TAGAATTACTAAGATGCCCCTGTAAGATAGAATTACTGAAATGCC
* *
56997673 CTGTAGGATAGAATTACTAAGATGCCCCTGTAGGATAGAATTACTGAGATGCCC
1 CTGTAGG-TAGAATTACTAAGATGCCCCTGTAAGATAGAATTACTGAAATG-CC
* * * * *
56997727 CTGTAAGGTAGAATTACTGAGATGCCCTTGTAAGGTAGAATTACTAAAATACC
1 CTGT-AGGTAGAATTACTAAGATGCCCCTGTAAGATAGAATTACTGAAATGCC
56997780 CT
1 CT
56997782 TGGTCTACAA
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
53 50 0.53
54 42 0.44
55 3 0.03
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (52 bp):
CTGTAGGTAGAATTACTAAGATGCCCCTGTAAGATAGAATTACTGAAATGCC
Found at i:56997753 original size:80 final size:81
Alignment explanation
Indices: 56997620--56997773 Score: 231
Period size: 80 Copynumber: 1.9 Consensus size: 81
56997610 AATCTCATAT
* *
56997620 CTGTAGGCTAGTATTACTAAAATGCCCCTGTAAGATAGAATTACTGAAATGCCC-TGT-AGGATA
1 CTGTAGGATAGAATTACTAAAATGCCCCTGTAAGATAGAATTACTGAAATGCCCTTGTAAGG-TA
56997683 GAATTACTAAGATGCCC
65 GAATTACTAAGATGCCC
* * * *
56997700 CTGTAGGATAGAATTACTGAGATGCCCCTGTAAGGTAGAATTACTGAGATGCCCTTGTAAGGTAG
1 CTGTAGGATAGAATTACTAAAATGCCCCTGTAAGATAGAATTACTGAAATGCCCTTGTAAGGTAG
56997765 AATTACTAA
66 AATTACTAA
56997774 AATACCCTTG
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
80 48 0.73
81 15 0.23
82 3 0.05
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (81 bp):
CTGTAGGATAGAATTACTAAAATGCCCCTGTAAGATAGAATTACTGAAATGCCCTTGTAAGGTAG
AATTACTAAGATGCCC
Found at i:56997795 original size:27 final size:26
Alignment explanation
Indices: 56997765--56997862 Score: 106
Period size: 27 Copynumber: 3.7 Consensus size: 26
56997755 TGTAAGGTAG
* *
56997765 AATTACTAAAATACCCTTGGTCTACAA
1 AATTACCAAAATACCCTTGGT-TAAAA
* *
56997792 AATTACCAAAATACCCTCGATTAGAAA
1 AATTACCAAAATACCCTTGGTTA-AAA
* **
56997819 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGG-TTAAAA
56997846 AATTACCAAAATACCCT
1 AATTACCAAAATACCCT
56997863 GATTTGTGAA
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
26 2 0.03
27 55 0.93
28 2 0.03
ACGTcount: A:0.43, C:0.23, G:0.07, T:0.27
Consensus pattern (26 bp):
AATTACCAAAATACCCTTGGTTAAAA
Found at i:56997823 original size:54 final size:54
Alignment explanation
Indices: 56997765--56998024 Score: 168
Period size: 54 Copynumber: 4.8 Consensus size: 54
56997755 TGTAAGGTAG
* *
56997765 AATTACTAAAATACCCTTGGTCTACAAAATTACCAAAATACCCTCGATTAGAAA
1 AATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTAGAAA
* ** * **
56997819 AATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCT-GATTTGTGA
1 AATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTAGAAA
** ** * *** ** * * * ** * *
56997872 AATTACTGAAATACTATCGCCCTGTAAAATCATCGAAACCCCCTCGATTTGTAA
1 AATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTAGAAA
* ** *
56997926 AATTACCAAAATACCCTTGATTTACAAAATTA-CAGAAATACATTTGACTTTA-AAA
1 AATTACCAAAATACCCTTGGTTTACAAAATTACCA-AAATACCCTCGA--TTAGAAA
* * *
56997981 AATTA-CAGAAATACCATTGGTTTACAAAATTATCGAAATACCCT
1 AATTACCA-AAATACCCTTGGTTTACAAAATTACCAAAATACCCT
56998025 TGGTTTGTAG
Statistics
Matches: 153, Mismatches: 47, Indels: 11
0.73 0.22 0.05
Matches are distributed among these distances:
53 37 0.24
54 77 0.50
55 36 0.24
56 3 0.02
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.29
Consensus pattern (54 bp):
AATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATTAGAAA
Found at i:56997942 original size:27 final size:27
Alignment explanation
Indices: 56997790--56997966 Score: 144
Period size: 27 Copynumber: 6.6 Consensus size: 27
56997780 CTTGGTCTAC
* *
56997790 AAAATTACCAAAATACCCTCGATTAGA
1 AAAATTACCAAAATACCCTCGATTTGT
*
56997817 AAAATTACCAAAATACCC-CTGGTTTGT
1 AAAATTACCAAAATACCCTC-GATTTGT
56997844 AAAATTACCAAAATACCCT-GATTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* ** ** ***
56997870 GAAATTACTGAAATACTATCGCCCTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* * * **
56997897 AAAATCATCGAAACCCCCTCGATTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* **
56997924 AAAATTACCAAAATACCCTTGATTTAC
1 AAAATTACCAAAATACCCTCGATTTGT
56997951 AAAATTA-CAGAAATAC
1 AAAATTACCA-AAATAC
56997967 ATTTGACTTT
Statistics
Matches: 115, Mismatches: 31, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
26 23 0.20
27 92 0.80
ACGTcount: A:0.42, C:0.22, G:0.09, T:0.27
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGATTTGT
Found at i:56998022 original size:27 final size:27
Alignment explanation
Indices: 56997924--56998030 Score: 112
Period size: 27 Copynumber: 3.9 Consensus size: 27
56997914 CTCGATTTGT
* *
56997924 AAAATTACCA-AAATACCCTTGATTTAC
1 AAAATTA-CAGAAATACCATTGGTTTAC
* *
56997951 AAAATTACAGAAATA-CATTTGACTTTAA
1 AAAATTACAGAAATACCA-TTG-GTTTAC
56997979 AAAATTACAGAAATACCATTGGTTTAC
1 AAAATTACAGAAATACCATTGGTTTAC
*
56998006 AAAATTATC-GAAATACCCTTGGTTT
1 AAAATTA-CAGAAATACCATTGGTTT
56998031 GTAGATTTAC
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
26 3 0.04
27 41 0.59
28 23 0.33
29 2 0.03
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (27 bp):
AAAATTACAGAAATACCATTGGTTTAC
Found at i:56998330 original size:41 final size:41
Alignment explanation
Indices: 56998285--56998403 Score: 166
Period size: 41 Copynumber: 2.9 Consensus size: 41
56998275 GAAGAAATTG
* * *
56998285 AGGATCGCATGGTTGCTTGACGACCGTAGATCCACCGATTA
1 AGGATTGCATGGTTGCTTGACGATCGTGGATCCACCGATTA
* *
56998326 AGGATTGCATGGTTGCTTAACGATTGTGGATCCACCGATTA
1 AGGATTGCATGGTTGCTTGACGATCGTGGATCCACCGATTA
* * *
56998367 AAGATTGCATGGTTGCTAGATGATCGTGGATCCACCG
1 AGGATTGCATGGTTGCTTGACGATCGTGGATCCACCG
56998404 GTGGCTTTTA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 68 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (41 bp):
AGGATTGCATGGTTGCTTGACGATCGTGGATCCACCGATTA
Found at i:56998909 original size:11 final size:11
Alignment explanation
Indices: 56998893--56998918 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
56998883 ATTGCATGTA
56998893 TGATATTATTG
1 TGATATTATTG
56998904 TGATATTATTG
1 TGATATTATTG
56998915 TGAT
1 TGAT
56998919 GTGGGCTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:57000134 original size:24 final size:24
Alignment explanation
Indices: 57000096--57000270 Score: 275
Period size: 24 Copynumber: 7.4 Consensus size: 24
57000086 TTGGAGGCCT
*
57000096 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
57000121 AGCCCTTTTTATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
57000145 AGCCC-TTTAATAACTGGGGCGTA
1 AGCCCTTTTAATAACTGGGGCATA
*
57000168 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
57000192 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
57000216 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
57000239 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
57000262 AGCCCTTTT
1 AGCCCTTTT
57000271 GCACTTCCTC
Statistics
Matches: 141, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
23 66 0.47
24 71 0.50
25 4 0.03
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:57000157 original size:47 final size:47
Alignment explanation
Indices: 57000103--57000270 Score: 275
Period size: 47 Copynumber: 3.6 Consensus size: 47
57000093 CCTAGCCTCT
* *
57000103 TTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
* *
57000150 TTTAATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
*
57000197 TTTTGATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
57000244 TTTAATAACTGGGGCATAAGCCCTTTT
1 TTTAATAACTGGGGCATAAGCCCTTTT
57000271 GCACTTCCTC
Statistics
Matches: 112, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
46 22 0.20
47 69 0.62
48 21 0.19
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (47 bp):
TTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:57000161 original size:23 final size:23
Alignment explanation
Indices: 57000103--57000269 Score: 262
Period size: 23 Copynumber: 7.1 Consensus size: 23
57000093 CCTAGCCTCT
*
57000103 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
57000126 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
57000150 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
57000173 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
57000197 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
57000221 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
57000244 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
57000267 TTT
1 TTT
57000270 TGCACTTCCT
Statistics
Matches: 135, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
23 69 0.51
24 66 0.49
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:57000342 original size:9 final size:9
Alignment explanation
Indices: 57000328--57000384 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
57000318 ATCTCATGTG
57000328 CATATCATA
1 CATATCATA
*
57000337 CATATCATGTG
1 CATATCA--TA
57000348 CATATCATA
1 CATATCATA
* *
57000357 CATGTCATGTG
1 CATATCA--TA
57000368 CATATCATA
1 CATATCATA
57000377 CATATCAT
1 CATATCAT
57000385 GTTTCTCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:57000344 original size:20 final size:20
Alignment explanation
Indices: 57000316--57000386 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
57000306 GCATTTATGA
*
57000316 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
57000336 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
57000356 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
57000376 ACATATCATGT
1 ACATATCATGT
57000387 TTCTCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:57000351 original size:11 final size:11
Alignment explanation
Indices: 57000321--57000375 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
57000311 TATGAACATC
57000321 TCATGTGCATA
1 TCATGTGCATA
*
57000332 TCA--TACATA
1 TCATGTGCATA
57000341 TCATGTGCATA
1 TCATGTGCATA
* *
57000352 TCA--TACATG
1 TCATGTGCATA
57000361 TCATGTGCATA
1 TCATGTGCATA
57000372 TCAT
1 TCAT
57000376 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:57003608 original size:46 final size:47
Alignment explanation
Indices: 57003464--57003679 Score: 200
Period size: 46 Copynumber: 4.7 Consensus size: 47
57003454 TTTGTGTGCT
* * * *
57003464 AGTGTAAGACATGTCCGGGACATGCATC-GACTAC-ATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTACGA-GATGACAGCC
* * * *
57003510 AGTGTAAGACCATGTCTGAGACATGGCATCGGCAT-TGAGACGACA-CC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTACGAGATGACAGCC
57003557 TAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTA-AGCC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGATG-ACAGCC
* * *
57003604 AGTGTAAGACATGTCTGGGACATGCATTGG-CTACGAGATG--TGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGATGACAGCC
57003648 AGTGTAAGACCATGTCTGGGA-ATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
57003680 ATTATACCCT
Statistics
Matches: 143, Mismatches: 16, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
44 13 0.09
45 19 0.13
46 60 0.42
47 30 0.21
48 18 0.13
49 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTACGAGATGACAGCC
Found at i:57006971 original size:21 final size:21
Alignment explanation
Indices: 57006941--57006995 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
57006931 GTGGTCCAAT
57006941 GGACATGCCCGTGTGACCCTA
1 GGACATGCCCGTGTGACCCTA
* *
57006962 GGACACGCCCGTGTGACCCTG
1 GGACATGCCCGTGTGACCCTA
57006983 GGACATGCCCGTG
1 GGACATGCCCGTG
57006996 CTACAGGCCG
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:0.16, C:0.35, G:0.33, T:0.16
Consensus pattern (21 bp):
GGACATGCCCGTGTGACCCTA
Found at i:57007963 original size:31 final size:31
Alignment explanation
Indices: 57007921--57007984 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
57007911 CCTTTTCATA
* * *
57007921 TTTCATTTTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGACAAAGCCT
**
57007952 TTTCATATTTCATATTACTGGGACAAAGCCT
1 TTTCATATTTCATAACACTGGGACAAAGCCT
57007983 TT
1 TT
57007985 AACTGTAAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGACAAAGCCT
Found at i:57008259 original size:23 final size:23
Alignment explanation
Indices: 57008200--57008439 Score: 327
Period size: 23 Copynumber: 10.1 Consensus size: 23
57008190 CCTAGCCTCT
* *
57008200 TTTAATAACTAGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
57008223 TTTTTATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
* *
57008247 TTTAATAATTGGGGCATAAGCTC
1 TTTAATAACTGGGGCATAAGCCC
* * *
57008270 TTCATCATAACTAGGGCATAAGCTC
1 TT--TAATAACTGGGGCATAAGCCC
57008295 TTCATAATAACTGGGGCATAAGCCC
1 TT--TAATAACTGGGGCATAAGCCC
57008320 TTTATCATAACTGGGGCATAAGCCC
1 TTTA--ATAACTGGGGCATAAGCCC
57008345 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
57008368 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
57008391 TTTAATAACTGAGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
57008414 TTTAATAACTGGGGCATAAGGCC
1 TTTAATAACTGGGGCATAAGCCC
57008437 TTT
1 TTT
57008440 TGCATTTCCT
Statistics
Matches: 197, Mismatches: 15, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
23 112 0.57
24 20 0.10
25 65 0.33
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:57008514 original size:20 final size:20
Alignment explanation
Indices: 57008486--57008569 Score: 150
Period size: 20 Copynumber: 4.2 Consensus size: 20
57008476 GCATTTATGA
*
57008486 ACATCTCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
57008506 ACATGTCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
*
57008526 ACATATCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
57008546 ACATGTCATGTGCATATCAT
1 ACATGTCATGTGCATATCAT
57008566 ACAT
1 ACAT
57008570 ATCCTGTTTA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (20 bp):
ACATGTCATGTGCATATCAT
Found at i:57008530 original size:9 final size:9
Alignment explanation
Indices: 57008498--57008572 Score: 51
Period size: 9 Copynumber: 7.7 Consensus size: 9
57008488 ATCTCATGTG
57008498 CATATCATA
1 CATATCATA
* *
57008507 CATGTCATGTG
1 CATATCA--TA
57008518 CATATCATA
1 CATATCATA
*
57008527 CATATCATGTG
1 CATATCA--TA
57008538 CATATCATA
1 CATATCATA
* *
57008547 CATGTCATGTG
1 CATATCA--TA
57008558 CATATCATA
1 CATATCATA
57008567 CATATC
1 CATATC
57008573 CTGTTTATCA
Statistics
Matches: 50, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
9 28 0.56
11 22 0.44
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:57008541 original size:11 final size:11
Alignment explanation
Indices: 57008491--57008565 Score: 63
Period size: 11 Copynumber: 7.4 Consensus size: 11
57008481 TATGAACATC
57008491 TCATGTGCATA
1 TCATGTGCATA
* *
57008502 TCA--TACATG
1 TCATGTGCATA
57008511 TCATGTGCATA
1 TCATGTGCATA
*
57008522 TCA--TACATA
1 TCATGTGCATA
57008531 TCATGTGCATA
1 TCATGTGCATA
* *
57008542 TCA--TACATG
1 TCATGTGCATA
57008551 TCATGTGCATA
1 TCATGTGCATA
57008562 TCAT
1 TCAT
57008566 ACATATCCTG
Statistics
Matches: 48, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
9 22 0.46
11 26 0.54
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:57009918 original size:27 final size:27
Alignment explanation
Indices: 57009818--57009901 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
57009808 GGGCATATTC
* *
57009818 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
*
57009845 GTCACTTTACCCTACAAGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
57009872 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
57009899 GTC
1 GTC
57009902 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:57009993 original size:27 final size:27
Alignment explanation
Indices: 57009963--57010047 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 27
57009953 GTAAATCTAC
57009963 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
*
57009990 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAAGGTATTTCTATAATTTTGT
* * *
57010016 AGAAAGTCAAGGGTATTTCTATAAATTTGT
1 --AAA-CCAAAGGTATTTCTATAATTTTGT
57010046 AA
1 AA
57010048 GTCAGGGGTA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
26 1 0.02
27 22 0.45
28 6 0.12
29 19 0.39
30 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:57010057 original size:27 final size:29
Alignment explanation
Indices: 57009998--57010060 Score: 85
Period size: 27 Copynumber: 2.2 Consensus size: 29
57009988 GTAAACCAAT
*
57009998 GGTATTTCTATAATTTTTAGAAAGTCAAG
1 GGTATTTCTATAATATTTAGAAAGTCAAG
* *
57010027 GGTATTTCTATAA-ATTT-GTAAGTCAGG
1 GGTATTTCTATAATATTTAGAAAGTCAAG
57010054 GGTATTT
1 GGTATTT
57010061 TGGTAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
27 15 0.48
28 3 0.10
29 13 0.42
ACGTcount: A:0.30, C:0.06, G:0.21, T:0.43
Consensus pattern (29 bp):
GGTATTTCTATAATATTTAGAAAGTCAAG
Found at i:57010083 original size:27 final size:26
Alignment explanation
Indices: 57010053--57010231 Score: 223
Period size: 27 Copynumber: 6.7 Consensus size: 26
57010043 TGTAAGTCAG
*
57010053 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAACT-A
*
57010080 GGGTATTTTGGTAATTTCACAAACTA
1 GGGTATTTTGGTAATTTTACAAACTA
57010106 GTGGTATTTTGGTAATTTTACAAACTA
1 G-GGTATTTTGGTAATTTTACAAACTA
* *
57010133 GGTGTATTTTGATAATTTTACAAATTGA
1 GG-GTATTTTGGTAATTTTACAAACT-A
* *
57010161 GGGTATTTTTGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAA-CTA
* * *
57010188 GGGTATTTTAGCAATTTTACAGACTA
1 GGGTATTTTGGTAATTTTACAAACTA
*
57010214 GGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
57010232 GTAAATCGAG
Statistics
Matches: 134, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
26 22 0.16
27 109 0.81
28 3 0.02
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAAACTA
Found at i:57010150 original size:81 final size:80
Alignment explanation
Indices: 57010053--57010245 Score: 255
Period size: 81 Copynumber: 2.4 Consensus size: 80
57010043 TGTAAGTCAG
* * *
57010053 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAA-CTAGTGGTATTTTG
1 GGGTATTTTGATAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACCAAG-GGTATTTTA
*
57010117 GTAATTTTACAAACTA
65 GCAATTTTACAAACTA
* *
57010133 GGTGTATTTTGATAATTTTACAAATTGAGGGTATTTTTGTAATTTTACAAACCAAGGGTATTTTA
1 GG-GTATTTTGATAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACCAAGGGTATTTTA
*
57010198 GCAATTTTACAGACTA
65 GCAATTTTACAAACTA
** *
57010214 GGGTATTTT-AGTAATTTTGTAAATCGAGGGTA
1 GGGTATTTTGA-TAATTTTACAAATTGAGGGTA
57010246 AAACAGTAAT
Statistics
Matches: 100, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
79 1 0.01
80 27 0.27
81 69 0.69
82 3 0.03
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (80 bp):
GGGTATTTTGATAATTTTACAAATTGAGGGTATTTTGGTAATTTCACAAACCAAGGGTATTTTAG
CAATTTTACAAACTA
Found at i:57010253 original size:27 final size:27
Alignment explanation
Indices: 57010223--57010380 Score: 208
Period size: 27 Copynumber: 5.9 Consensus size: 27
57010213 AGGGTATTTT
*
57010223 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
57010250 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
57010277 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
57010304 GGTACTTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
57010331 GGTAATTCTGTAAGTTGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
57010358 GGTAATTATGTAAATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
57010381 CTTTGGTAAT
Statistics
Matches: 117, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 117 1.00
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:57010403 original size:81 final size:79
Alignment explanation
Indices: 57010213--57010407 Score: 192
Period size: 81 Copynumber: 2.4 Consensus size: 79
57010203 TTTACAGACT
* *
57010213 AGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACA
1 AGGGTAATTTGGTAA-TTT-TAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACA
*
57010278 GTAATTCTATAAATCA
64 GTAATTATATAAATCA
*** * * * ** *
57010294 AGGGTAAAACGGTACTTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAGTTGAGGGTAAAACG
1 AGGGTAATTTGGTAATT-T-TAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACA
* *
57010359 GTAATTATGTAAATCG
64 GTAATTATATAAATCA
* *
57010375 GGGGTACTTTGGTAATTTTACAAGTCGAGGGTA
1 AGGGTAATTTGGTAATTTTA-AA-TCGAGGGTA
57010408 TTTCAATAAT
Statistics
Matches: 91, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
79 2 0.02
80 5 0.05
81 84 0.92
ACGTcount: A:0.36, C:0.09, G:0.25, T:0.30
Consensus pattern (79 bp):
AGGGTAATTTGGTAATTTTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGT
AATTATATAAATCA
Found at i:57010405 original size:54 final size:54
Alignment explanation
Indices: 57010237--57010407 Score: 180
Period size: 54 Copynumber: 3.2 Consensus size: 54
57010227 ATTTTGTAAA
* * * * * *
57010237 TCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATAAA
1 TCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTACAAG
* * * **
57010291 TCAAGGGTAAAACGGTACTTCTGTAAATCGAGGGTAAAACGGTAATTCTGTAAG
1 TCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTACAAG
* * **** *
57010345 TTGAGGGTAAAACGGTAATTATGTAAATCGGGGGTACTTTGGTAATTTTACAAG
1 TCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTACAAG
57010399 TCGAGGGTA
1 TCGAGGGTA
57010408 TTTCAATAAT
Statistics
Matches: 97, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 97 1.00
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (54 bp):
TCGAGGGTAAAACGGTAATTATGTAAATCGAGGGTAAAACGGTAATTCTACAAG
Found at i:57013789 original size:42 final size:42
Alignment explanation
Indices: 57013687--57013840 Score: 141
Period size: 42 Copynumber: 3.6 Consensus size: 42
57013677 TATGTGATTT
* * * * * *
57013687 CGTGTAAGACCACATCTGGAACGTTGGCATCGATTTGTGATTTA
1 CGTGTAAGACCACGTCTGGGAC-ATGGCATCG-TATATGAATTA
* *
57013731 CGTGTTAAGACCATGTCTGGGACATCGGCATCGTATATGAGTT-
1 CGTG-TAAGACCACGTCTGGGACAT-GGCATCGTATATGAATTA
* *
57013774 CGTGTAAGACCATGTCTGGGACAGTAGCATCG-ATATGTAATTA
1 CGTGTAAGACCACGTCTGGGACA-TGGCATCGTATATG-AATTA
*
57013817 CATGTAAGACCACGTCTGGGACAT
1 CGTGTAAGACCACGTCTGGGACAT
57013841 TGGTGTTGTA
Statistics
Matches: 94, Mismatches: 11, Indels: 12
0.80 0.09 0.10
Matches are distributed among these distances:
41 5 0.05
42 29 0.31
43 26 0.28
44 12 0.13
45 22 0.23
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACATGGCATCGTATATGAATTA
Found at i:57013837 original size:43 final size:43
Alignment explanation
Indices: 57013674--57013839 Score: 160
Period size: 43 Copynumber: 3.8 Consensus size: 43
57013664 CATAGGATTC
* * * *
57013674 CGATATGTGATTTCGTGTAAGACCACATCTGGAAC-GTTGGCAT
1 CGATATGTAATTACGTGTAAGACCACGTCTGGGACAG-TGGCAT
* * *
57013717 CGATTTGTGATTTACGTGTTAAGACCATGTCTGGGACA-TCGGCAT
1 CGATATGT-AATTACGTG-TAAGACCACGTCTGGGACAGT-GGCAT
* * *
57013762 CGTATATG-AGTT-CGTGTAAGACCATGTCTGGGACAGTAGCAT
1 CG-ATATGTAATTACGTGTAAGACCACGTCTGGGACAGTGGCAT
*
57013804 CGATATGTAATTACATGTAAGACCACGTCTGGGACA
1 CGATATGTAATTACGTGTAAGACCACGTCTGGGACA
57013840 TTGGTGTTGT
Statistics
Matches: 102, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
41 5 0.05
42 28 0.27
43 33 0.32
44 10 0.10
45 22 0.22
46 4 0.04
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.30
Consensus pattern (43 bp):
CGATATGTAATTACGTGTAAGACCACGTCTGGGACAGTGGCAT
Found at i:57015852 original size:27 final size:26
Alignment explanation
Indices: 57015804--57015855 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
57015794 GTGAGGCTGC
*
57015804 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
57015830 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
57015856 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:57022241 original size:46 final size:45
Alignment explanation
Indices: 57022188--57022363 Score: 146
Period size: 46 Copynumber: 3.8 Consensus size: 45
57022178 TATTTGGGCA
*
57022188 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
57022234 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
*
57022279 CATCC-AAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAATG
1 --TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
57022327 -CTTGAGCTCGTTGAGTTGAGTCCGATTTCGCTTATGG
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57022364 GCGGGTTACG
Statistics
Matches: 103, Mismatches: 15, Indels: 24
0.73 0.11 0.17
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 4 0.04
46 58 0.56
47 26 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:57022343 original size:93 final size:93
Alignment explanation
Indices: 57022184--57022356 Score: 278
Period size: 93 Copynumber: 1.9 Consensus size: 93
57022174 GGGATATTTG
57022184 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
57022249 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* * *
57022277 GGCATCC-AAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAATG-CTTGAGCTCGTTG
1 GGCATCCGAA-CTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTC-CGAACTCGTTG
*
57022340 AGTTGAGTCCGATTTCG
64 AGTTGAGTCCGAGTTCG
57022357 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
92 3 0.04
93 71 0.96
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:57025281 original size:15 final size:15
Alignment explanation
Indices: 57025263--57025329 Score: 59
Period size: 15 Copynumber: 4.5 Consensus size: 15
57025253 CTTGGGTTTC
*
57025263 TTTATCCTGGATCTT-
1 TTTATTCTGGAT-TTA
57025278 TTTATTCTGGATTTA
1 TTTATTCTGGATTTA
*
57025293 TTTATTCTGGGTTT-
1 TTTATTCTGGATTTA
*
57025307 TTCTA-TCTTGGATTTC
1 TT-TATTC-TGGATTTA
57025323 TTTATTC
1 TTTATTC
57025330 GGTTTTCTTG
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
14 6 0.14
15 34 0.77
16 4 0.09
ACGTcount: A:0.13, C:0.13, G:0.13, T:0.60
Consensus pattern (15 bp):
TTTATTCTGGATTTA
Found at i:57025319 original size:30 final size:30
Alignment explanation
Indices: 57025250--57025329 Score: 92
Period size: 30 Copynumber: 2.7 Consensus size: 30
57025240 CATAGTATCG
* *
57025250 TATCTTGGGTTTCTTTATCCTGGATCTTTT
1 TATCTTGGATTTCTTTATTCTGGATCTTTT
* *
57025280 TAT-TCTGGATTTATTTATTCTGGGT-TTTT
1 TATCT-TGGATTTCTTTATTCTGGATCTTTT
57025309 CTATCTTGGATTTCTTTATTC
1 -TATCTTGGATTTCTTTATTC
57025330 GGTTTTCTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
29 5 0.12
30 36 0.86
31 1 0.02
ACGTcount: A:0.12, C:0.14, G:0.15, T:0.59
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTTTT
Found at i:57027788 original size:46 final size:46
Alignment explanation
Indices: 57027735--57027910 Score: 184
Period size: 46 Copynumber: 3.8 Consensus size: 46
57027725 TATTTGGGCA
57027735 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* * *
57027781 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G
*
57027826 CATCC-AAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAATG
1 --TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* * *
57027874 -CCTGAGCTCGTTGAGTTGAGTCCGATTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
57027911 GCGGGTTACG
Statistics
Matches: 107, Mismatches: 11, Indels: 24
0.75 0.08 0.17
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 59 0.55
47 26 0.24
48 3 0.03
50 5 0.05
51 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:57027890 original size:93 final size:93
Alignment explanation
Indices: 57027731--57027903 Score: 287
Period size: 93 Copynumber: 1.9 Consensus size: 93
57027721 GGGATATTTG
57027731 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAG
57027796 TTGAGTCCGAGTTCGTGAAATGTAACTA
66 TTGAGTCCGAGTTCGTGAAATGTAACTA
* *
57027824 GGCATCC-AAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGTGAATG-CCTGAGCTCGTTG
1 GGCATCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCC-GAACTCGTTG
*
57027887 AGTTGAGTCCGATTTCG
64 AGTTGAGTCCGAGTTCG
57027904 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
92 4 0.05
93 71 0.95
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.31
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:57035509 original size:37 final size:37
Alignment explanation
Indices: 57035456--57035559 Score: 190
Period size: 37 Copynumber: 2.8 Consensus size: 37
57035446 CGAATAGTCC
* *
57035456 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGAAAAAATCT
57035493 CCACACGTAGTCATCGGGTCTTACCCGGAAAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGAAAAAATCT
57035530 CCACACGTAGTCATCGGGTCTTACCCGGAA
1 CCACACGTAGTCATCGGGTCTTACCCGGAA
57035560 TACATTTCCA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.27, C:0.31, G:0.20, T:0.22
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGAAAAAATCT
Found at i:57035669 original size:48 final size:48
Alignment explanation
Indices: 57035606--57035782 Score: 264
Period size: 48 Copynumber: 3.7 Consensus size: 48
57035596 ACGACATTCG
* * *
57035606 CATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCA
* * *
57035654 CATTCGTCATTCGGCTTTACCAAATATACATATCACACATATATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCA
*
57035702 CATTAGCCATTCGGCTTTACCACATACACATATCACACATATATTTCA
1 CATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCA
* * *
57035750 CATTAGCCATTCGGCTTCACCACACATATATAT
1 CATTAGCCATTCGGCTTTACCACATATACATAT
57035783 ATTTATCTTG
Statistics
Matches: 115, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 115 1.00
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.33
Consensus pattern (48 bp):
CATTAGCCATTCGGCTTTACCACATATACATATCACACATATATTTCA
Found at i:57037756 original size:25 final size:25
Alignment explanation
Indices: 57037728--57037820 Score: 125
Period size: 25 Copynumber: 3.7 Consensus size: 25
57037718 TCGCACTCTC
*
57037728 AGTGCCTCTAATCATTTGCACACAT
1 AGTGCCCCTAATCATTTGCACACAT
* *
57037753 AGTGCCCCTATTCATTTGCACTC-T
1 AGTGCCCCTAATCATTTGCACACAT
*
57037777 CAGTGCCTCTAATCATTTGCACACAT
1 -AGTGCCCCTAATCATTTGCACACAT
*
57037803 AGTGCCCCTATTCATTTG
1 AGTGCCCCTAATCATTTG
57037821 TTGTTACACA
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
24 1 0.02
25 56 0.97
26 1 0.02
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.34
Consensus pattern (25 bp):
AGTGCCCCTAATCATTTGCACACAT
Found at i:57037782 original size:50 final size:50
Alignment explanation
Indices: 57037720--57037820 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
57037710 TGAAGAACTC
57037720 GCACTCTCAGTGCCTCTAATCATTTGCACACATAGTGCCCCTATTCATTT
1 GCACTCTCAGTGCCTCTAATCATTTGCACACATAGTGCCCCTATTCATTT
57037770 GCACTCTCAGTGCCTCTAATCATTTGCACACATAGTGCCCCTATTCATTT
1 GCACTCTCAGTGCCTCTAATCATTTGCACACATAGTGCCCCTATTCATTT
57037820 G
1 G
57037821 TTGTTACACA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.22, C:0.32, G:0.13, T:0.34
Consensus pattern (50 bp):
GCACTCTCAGTGCCTCTAATCATTTGCACACATAGTGCCCCTATTCATTT
Found at i:57038040 original size:40 final size:40
Alignment explanation
Indices: 57037996--57038297 Score: 415
Period size: 40 Copynumber: 7.5 Consensus size: 40
57037986 CCAGCATGAT
* * * * * *
57037996 TGCTCTTCAGGACCTAGCCTGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
57038036 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
57038076 TGCTCTTCAGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
57038116 TGCTCTTCGGGACTTAACCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
57038156 TTCTCTTCGGGACTTAGCCCGGTTACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
57038196 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *** * *
57038236 TGCTATTCAACACTTAACCCGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
57038276 TGCTCTTCGGGACTTAGCCCGG
1 TGCTCTTCGGGACTTAGCCCGG
57038298 CTATACAACT
Statistics
Matches: 229, Mismatches: 33, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 229 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:57040381 original size:48 final size:48
Alignment explanation
Indices: 57040319--57040691 Score: 566
Period size: 48 Copynumber: 7.8 Consensus size: 48
57040309 TGTTACAACA
* * * *
57040319 TTCACATTATCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
57040367 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
57040415 TTCACATTAGCCATTCGGCTTTACCACATATACGTACCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
57040463 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
57040511 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
57040559 TTCACATTCGTCATTCGGCTTTACCACATATACATATCACACATCTAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
57040607 TTCACATTAGCCATTCGGCTTTACCACATACACGTATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
57040655 TTCACATTAGCCATTCGGCTTCACCACACATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATAT
57040692 ATTTATCTTG
Statistics
Matches: 296, Mismatches: 29, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 296 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:57042704 original size:28 final size:29
Alignment explanation
Indices: 57042640--57042710 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
57042630 AATGTGACTA
* * *
57042640 GGCCTAACGGGCCATATAAATGTGTTTTG
1 GGCCTAATGGGCCATATAAATATGTATTG
*
57042669 GGCCTAATGGGCCATATGAATATG-ATTG
1 GGCCTAATGGGCCATATAAATATGTATTG
*
57042697 GGCTTAATGGGCCA
1 GGCCTAATGGGCCA
57042711 GATACAAGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 16 0.43
29 21 0.57
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAATATGTATTG
Found at i:57045377 original size:42 final size:43
Alignment explanation
Indices: 57045274--57045386 Score: 149
Period size: 43 Copynumber: 2.7 Consensus size: 43
57045264 CAATGCTATA
* * *
57045274 CCCAGATATGGTCTTACATGTAATCTCATATCGATGGCAATAG
1 CCCAGATATGGTCTTACACGTAATCTCATATCAATGACAATAG
* *
57045317 CCCAGCTATGGTCTTACACG-AAGTCTCATATCAATGAC-ATAT
1 CCCAGATATGGTCTTACACGTAA-TCTCATATCAATGACAATAG
*
57045359 CCCAAATATGGTCTTACACGTAATCTCA
1 CCCAGATATGGTCTTACACGTAATCTCA
57045387 GTAACCCTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
42 28 0.46
43 33 0.54
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (43 bp):
CCCAGATATGGTCTTACACGTAATCTCATATCAATGACAATAG
Found at i:57048572 original size:31 final size:31
Alignment explanation
Indices: 57048536--57048597 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
57048526 GTCCTTAGCA
57048536 TTTTTTCTAATTTTCCATAGATGAATCATCC
1 TTTTTTCTAATTTTCCATAGATGAATCATCC
*
57048567 TTTTTTCTAATTTTCCATAGGTGAATCATCC
1 TTTTTTCTAATTTTCCATAGATGAATCATCC
57048598 AAAAATATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.24, C:0.19, G:0.08, T:0.48
Consensus pattern (31 bp):
TTTTTTCTAATTTTCCATAGATGAATCATCC
Found at i:57052070 original size:9 final size:9
Alignment explanation
Indices: 57052053--57052113 Score: 50
Period size: 9 Copynumber: 6.1 Consensus size: 9
57052043 TTTTTAGTTT
*
57052053 TATTTTATA
1 TATTATATA
57052062 TATTATATAA
1 TATTATAT-A
*
57052072 TTATTTTATA
1 -TATTATATA
57052082 TATTACTCATA
1 TATTA-T-ATA
57052093 TTATTTATATA
1 -TA-TTATATA
57052104 TATTATATA
1 TATTATATA
57052113 T
1 T
57052114 TATTTTCACA
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
9 19 0.44
10 5 0.12
11 13 0.30
12 3 0.07
13 3 0.07
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (9 bp):
TATTATATA
Found at i:57052077 original size:20 final size:19
Alignment explanation
Indices: 57052052--57052159 Score: 121
Period size: 20 Copynumber: 5.5 Consensus size: 19
57052042 ATTTTTAGTT
57052052 TTATTTTATATATTATATAA
1 TTATTTTATATATTATAT-A
57052072 TTATTTTATATATTACTCATA
1 TTATTTTATATATTA-T-ATA
57052093 TTATTTATATATATTATATA
1 TTATTT-TATATATTATATA
* *
57052113 TTATTTTCACATA-TATACTT
1 TTATTTT-ATATATTATA-TA
*
57052133 TTATATTATATATTATAT-
1 TTATTTTATATATTATATA
57052151 TTATTTTAT
1 TTATTTTAT
57052160 GTTATTATGT
Statistics
Matches: 77, Mismatches: 5, Indels: 14
0.80 0.05 0.15
Matches are distributed among these distances:
18 8 0.10
19 10 0.13
20 39 0.51
21 9 0.12
22 11 0.14
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (19 bp):
TTATTTTATATATTATATA
Found at i:57052520 original size:17 final size:17
Alignment explanation
Indices: 57052463--57052520 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
57052453 TCTAAACCAT
*
57052463 TATATTTTATATTTTTA
1 TATATTATATATTTTTA
* *
57052480 TATAATTAT-TATTATTG
1 TAT-ATTATATATTTTTA
57052497 TA-A--ATATATTTTTA
1 TATATTATATATTTTTA
57052511 TATATTATAT
1 TATATTATAT
57052521 CATTGAATAT
Statistics
Matches: 31, Mismatches: 5, Indels: 10
0.67 0.11 0.22
Matches are distributed among these distances:
13 2 0.06
14 8 0.26
15 2 0.06
17 15 0.48
18 4 0.13
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
TATATTATATATTTTTA
Found at i:57052525 original size:29 final size:30
Alignment explanation
Indices: 57052470--57052544 Score: 93
Period size: 29 Copynumber: 2.5 Consensus size: 30
57052460 CATTATATTT
*
57052470 TATATTTTTATATAATTATTATTATTGTAA-A
1 TATATTTTTATAT-ATTATTATCATTG-AATA
57052501 TATATTTTTATATATTA-TATCATTGAATA
1 TATATTTTTATATATTATTATCATTGAATA
57052530 TCATATTTTT-TATAT
1 T-ATATTTTTATATAT
57052545 GCTCATTTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
28 2 0.05
29 14 0.34
30 12 0.29
31 13 0.32
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (30 bp):
TATATTTTTATATATTATTATCATTGAATA
Found at i:57064697 original size:205 final size:204
Alignment explanation
Indices: 57064338--57064921 Score: 893
Period size: 205 Copynumber: 2.8 Consensus size: 204
57064328 TAGGTCGCAG
* * * * *
57064338 CATAGCAGATTTCACGTTCAGATGTTTATACTGAAAGAGATCCAAGATGATTTGGCATCCTTGTG
1 CATAGCAGATCTCACCTTCAGATATTTAT-CTGAAGGAGATCCAAGATGATTTGGCATCTTTGTG
*
57064403 CTTACAAGGAGCGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
65 CTTACAAGGAACGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
* *
57064468 AAGATGATTTGGCATCTTTGTATTGTTAGAGAACAAATCGAAGTCTAGCATCTCCACTTCGACGG
130 AAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAGTCTAGCAGCTCCACTTCGACGG
57064533 GGAGCAAATA
195 GGAGCAAATA
57064543 CATAGCAGATCTCACCTTCAGATATTTATTCTGAAGGAGATCCAAGATGATTTGGCATCTTTGTG
1 CATAGCAGATCTCACCTTCAGATATTTA-TCTGAAGGAGATCCAAGATGATTTGGCATCTTTGTG
* *
57064608 CTTACAAGGAACGAATCGACGAGATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
65 CTTACAAGGAACGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
** *
57064673 AAGATGATTTGGCATCTCTGTATTGTTAGATTACAAATCGAAGTCTGGCAGCTCCACTTCGACGG
130 AAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAGTCTAGCAGCTCCACTTCGACGG
**
57064738 GGAGCTGATA
195 GGAGCAAATA
*
57064748 CATAGCAGATCTCACCTTCAGATAATTTCA-CTGAAGCAAGATCCAAGATGATTTGGCAT-TCTT
1 CATAGCAGATCTCACCTTCAGAT-ATTT-ATCTGAAG-GAGATCCAAGATGATTTGGCATCT-TT
** * * *
57064811 GTGCTTACAAGGAAAAAATTGAAGACATAGCTGATTTGGCTTTCACGTGCTTACAATGAAGCAAA
62 GTGCTTACAAGGAACGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAA
* *
57064876 TCTAAGATGATTTGGCATCTCTGTATTGTCAAAGAACAAATCGAAG
127 TCTAAGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAG
57064922 AAGCAGATTT
Statistics
Matches: 347, Mismatches: 27, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
205 218 0.63
206 128 0.37
207 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (204 bp):
CATAGCAGATCTCACCTTCAGATATTTATCTGAAGGAGATCCAAGATGATTTGGCATCTTTGTGC
TTACAAGGAACGAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCTA
AGATGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAGTCTAGCAGCTCCACTTCGACGGG
GAGCAAATA
Found at i:57066593 original size:7 final size:6
Alignment explanation
Indices: 57066567--57066690 Score: 51
Period size: 7 Copynumber: 19.3 Consensus size: 6
57066557 TGTTTTTTGC
* * *
57066567 TTTATA TTTATT TTTATA TTGTATA TTATATA ATTAT- TGTATA TATTACTCA
1 TTTATA TTTATA TTTATA TT-TATA TT-TATA TTTATA TTTATA T-TTA-T-A
* *
57066619 TATTAT- TTATATA TATTATA TATTAT- TTTCACA TATATA CTTT-TA
1 T-TTATA TT-TATA T-TTATA T-TTATA TTT-ATA TTTATA -TTTATA
57066664 TATTATA TATTATA TTTAT- TTTATA TT
1 T-TTATA T-TTATA TTTATA TTTATA TT
57066691 ATTATGTCAT
Statistics
Matches: 93, Mismatches: 11, Indels: 28
0.70 0.08 0.21
Matches are distributed among these distances:
5 12 0.13
6 34 0.37
7 38 0.41
8 3 0.03
9 6 0.06
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (6 bp):
TTTATA
Found at i:57066609 original size:11 final size:12
Alignment explanation
Indices: 57066568--57066695 Score: 55
Period size: 12 Copynumber: 11.1 Consensus size: 12
57066558 GTTTTTTGCT
* *
57066568 TTATATTTATTT
1 TTATATATATTA
*
57066580 TTATAT-TGTATA
1 TTATATATAT-TA
57066592 TTATATA-ATTA
1 TTATATATATTA
*
57066603 TTGTATATATTA
1 TTATATATATTA
*
57066615 CTCATAT-TA-T-
1 -TTATATATATTA
57066625 TTATATATATTA
1 TTATATATATTA
57066637 -TATAT-TATT-
1 TTATATATATTA
57066646 TTCACATATATACTT-
1 TT---ATATATA-TTA
57066661 TTATAT-TATATA
1 TTATATATAT-TA
*
57066673 TTATATTTATT-
1 TTATATATATTA
57066684 TTATAT-TATTA
1 TTATATATATTA
57066695 T
1 T
57066696 GTCATTTTAC
Statistics
Matches: 92, Mismatches: 7, Indels: 35
0.69 0.05 0.26
Matches are distributed among these distances:
9 5 0.05
10 12 0.13
11 27 0.29
12 31 0.34
13 11 0.12
14 2 0.02
15 4 0.04
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (12 bp):
TTATATATATTA
Found at i:57066611 original size:20 final size:19
Alignment explanation
Indices: 57066588--57066695 Score: 78
Period size: 20 Copynumber: 5.4 Consensus size: 19
57066578 TTTTATATTG
*
57066588 TATATTATATAATTATTGTA
1 TATATTATAT-ATTATTATA
57066608 TATATTACTCATATTATTTATA
1 TATATTA-T-ATATTA-TTATA
*
57066630 TATATTATATATTATTTTCA
1 TATATTATATATTATTAT-A
* *
57066650 CATA-TATACTTTTA-TATTA
1 TATATTATA-TATTATTA-TA
*
57066669 TATATTATAT-TTATTTTA
1 TATATTATATATTATTATA
57066687 TATTATTAT
1 TA-TATTAT
57066696 GTCATTTTAC
Statistics
Matches: 72, Mismatches: 7, Indels: 19
0.73 0.07 0.19
Matches are distributed among these distances:
18 7 0.10
19 20 0.28
20 26 0.36
21 6 0.08
22 13 0.18
ACGTcount: A:0.36, C:0.05, G:0.01, T:0.58
Consensus pattern (19 bp):
TATATTATATATTATTATA
Found at i:57066654 original size:22 final size:22
Alignment explanation
Indices: 57066607--57066656 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
57066597 TAATTATTGT
*
57066607 ATATATTACTCATATTATTTAT
1 ATATATTACTCATATTATTTAC
57066629 ATATATTA-T-ATATTATTTTCAC
1 ATATATTACTCATATTA-TTT-AC
57066651 ATATAT
1 ATATAT
57066657 ACTTTTATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 6 0.24
21 4 0.16
22 15 0.60
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (22 bp):
ATATATTACTCATATTATTTAC
Found at i:57066704 original size:23 final size:23
Alignment explanation
Indices: 57066568--57066695 Score: 57
Period size: 25 Copynumber: 5.2 Consensus size: 23
57066558 GTTTTTTGCT
*
57066568 TTATATTTATTTTTATATTGTATA
1 TTATATTTA-TTTTATATTATATA
57066592 TTATATAATTATTGTATATATTACTCATA
1 TTATAT--TTATT-T-TATATTA-T-ATA
*
57066621 -T-TATTTA-TATATATTATATA
1 TTATATTTATTTTATATTATATA
* * *
57066641 TTAT-TTTCACATATATACTTTTATA
1 TTATATTT-A-TTTTATA-TTATATA
*
57066666 TTATATATTATATTTATTTTATATTA
1 TTATAT-TTAT-TTTATATTATA-TA
57066692 TTAT
1 TTAT
57066696 GTCATTTTAC
Statistics
Matches: 81, Mismatches: 7, Indels: 30
0.69 0.06 0.25
Matches are distributed among these distances:
20 3 0.04
21 5 0.06
22 9 0.11
24 13 0.16
25 19 0.23
26 16 0.20
27 11 0.14
28 2 0.02
29 3 0.04
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.60
Consensus pattern (23 bp):
TTATATTTATTTTATATTATATA
Found at i:57067041 original size:21 final size:21
Alignment explanation
Indices: 57066981--57067042 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
57066971 CATTATATTT
*
57066981 TATATTTTTATATAATTATTAA
1 TATATTTTTATAT-ATTATAAA
* *
57067003 TATAATTATTAT-TCTTATAAA
1 TAT-ATTTTTATATATTATAAA
57067024 TATATTTTTATATATTATA
1 TATATTTTTATATATTATA
57067043 TCATTGAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
20 7 0.21
21 15 0.45
22 4 0.12
23 7 0.21
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TATATTTTTATATATTATAAA
Found at i:57067195 original size:16 final size:18
Alignment explanation
Indices: 57067162--57067200 Score: 64
Period size: 16 Copynumber: 2.3 Consensus size: 18
57067152 TTTAGAATTA
57067162 ATGTATTATTACTATGTT
1 ATGTATTATTACTATGTT
57067180 ATGTATT-TTA-TATGTT
1 ATGTATTATTACTATGTT
57067196 ATGTA
1 ATGTA
57067201 ATATCTTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 11 0.52
17 3 0.14
18 7 0.33
ACGTcount: A:0.28, C:0.03, G:0.13, T:0.56
Consensus pattern (18 bp):
ATGTATTATTACTATGTT
Found at i:57081351 original size:30 final size:30
Alignment explanation
Indices: 57081317--57081376 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
57081307 ATTTAATACG
57081317 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
57081347 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
57081377 GGCTCGGGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:57095067 original size:50 final size:47
Alignment explanation
Indices: 57094954--57095181 Score: 139
Period size: 47 Copynumber: 4.8 Consensus size: 47
57094944 ATTGAAACGA
57094954 GAGCTAGTGTAAGACATGTCTAGGACAT-GCATCGGCTACAAGATGT
1 GAGCTAGTGTAAGACATGTCTAGGACATGGCATCGGCTACAAGATGT
* * *
57095000 G-TC-AGTGTAAGACCATGTCTAGGACTTGGCATCGGC-ACGAATATGT
1 GAGCTAGTGTAAGA-CATGTCTAGGACATGGCATCGGCTAC-AAGATGT
* * * *
57095046 GAAAGCTAGTGTAAGATCATGTTTGGGACATGGCGTCGGCCT-CGATGATGAT
1 G--AGCTAGTGTAAGA-CATGTCTAGGACATGGCATCGG-CTAC-AAGATG-T
* * * * ** **
57095098 -AG-TCAATGTAAGACCATGTTTGGGACATGGCATCGACT-TGAGAAAT
1 GAGCT-AGTGTAAGA-CATGTCTAGGACATGGCATCGGCTACAAGATGT
* * *
57095144 GAGCCAGTGTAAGACCCTGTCTGGGACATGGCATCGGC
1 GAGCTAGTGTAAGA-CATGTCTAGGACATGGCATCGGC
57095182 ATTCTACCCC
Statistics
Matches: 144, Mismatches: 25, Indels: 25
0.74 0.13 0.13
Matches are distributed among these distances:
44 9 0.06
45 16 0.11
46 17 0.12
47 33 0.23
48 3 0.02
49 31 0.22
50 27 0.19
51 7 0.05
52 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (47 bp):
GAGCTAGTGTAAGACATGTCTAGGACATGGCATCGGCTACAAGATGT
Found at i:57095111 original size:99 final size:94
Alignment explanation
Indices: 57094955--57095132 Score: 223
Period size: 99 Copynumber: 1.8 Consensus size: 94
57094945 TTGAAACGAG
*
57094955 AGCTAGTGTAAGACATGTCTAGGACATGCATCGGCTACAAGATGTGTCAGTGTAAGACCATGTCT
1 AGCTAGTGTAAGACATGTCTAGGACATGCATCGGCTACAAGATGTGTCAATGTAAGACCATGTCT
*
57095020 AGGACTTGGCATCGGCACGAATATGTGAA
66 AGGACATGGCATCGGCACGAATATGTGAA
* * * *
57095049 AGCTAGTGTAAGATCATGTTTGGGACATGGCGTCGGCCT-CGATGATGATAGTCAATGTAAGACC
1 AGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGG-CTAC-AAGATG-T-GTCAATGTAAGACC
* *
57095113 ATGTTTGGGACATGGCATCG
60 ATGTCTAGGACATGGCATCG
57095133 ACTTGAGAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
94 13 0.19
95 12 0.17
96 7 0.10
97 7 0.10
98 1 0.01
99 30 0.43
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (94 bp):
AGCTAGTGTAAGACATGTCTAGGACATGCATCGGCTACAAGATGTGTCAATGTAAGACCATGTCT
AGGACATGGCATCGGCACGAATATGTGAA
Found at i:57100797 original size:27 final size:27
Alignment explanation
Indices: 57100706--57100806 Score: 96
Period size: 27 Copynumber: 3.8 Consensus size: 27
57100696 ATGGAGGAAG
* * *
57100706 TACTG-TATTGGTAGCTATGTCACATT
1 TACTGTTACTGGTGGCTATGCCACATT
* * * *
57100732 CACCGTTACTGATGGCTATGCCACAAT
1 TACTGTTACTGGTGGCTATGCCACATT
* *
57100759 TACTGATACTGGTGGCTTTGCCACATT
1 TACTGTTACTGGTGGCTATGCCACATT
* *
57100786 TACTGTTTCTGGCGGCTATGC
1 TACTGTTACTGGTGGCTATGC
57100807 TGCATTATTA
Statistics
Matches: 57, Mismatches: 17, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
26 3 0.05
27 54 0.95
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (27 bp):
TACTGTTACTGGTGGCTATGCCACATT
Found at i:57100981 original size:28 final size:27
Alignment explanation
Indices: 57100945--57101015 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 27
57100935 ATTACACTGT
*
57100945 ACTGATACTGTATTGGGCTTAGGCCCAC
1 ACTG-TACTGTATTGGGCTAAGGCCCAC
* *
57100973 ACTGTTACTGTATAGGGCTAAGGCCCAG
1 ACTG-TACTGTATTGGGCTAAGGCCCAC
57101001 ACTGTACTGATATTG
1 ACTGTACTG-TATTG
57101016 AATAGGACTC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 5 0.14
28 32 0.86
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.30
Consensus pattern (27 bp):
ACTGTACTGTATTGGGCTAAGGCCCAC
Found at i:57105257 original size:25 final size:26
Alignment explanation
Indices: 57105198--57105257 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
57105188 TATTATAATT
57105198 TAAATTTAT-TTGTTATATTAAATAA
1 TAAATTTATATTGTTATATTAAATAA
* *
57105223 TAAATATATATTAGTTA-ATTGAA-AA
1 TAAATTTATATT-GTTATATTAAATAA
57105248 TAAATTTATA
1 TAAATTTATA
57105258 AAATTATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 19 0.63
26 7 0.23
27 4 0.13
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (26 bp):
TAAATTTATATTGTTATATTAAATAA
Found at i:57107363 original size:7 final size:7
Alignment explanation
Indices: 57107351--57107376 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
57107341 AAGAGATAGG
57107351 AAGAATA
1 AAGAATA
57107358 AAGAATA
1 AAGAATA
57107365 AAGAATA
1 AAGAATA
57107372 AAGAA
1 AAGAA
57107377 AATATGAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.15, T:0.12
Consensus pattern (7 bp):
AAGAATA
Found at i:57112333 original size:48 final size:48
Alignment explanation
Indices: 57112172--57112364 Score: 150
Period size: 48 Copynumber: 4.1 Consensus size: 48
57112162 ATGGCTTCAA
* * * *
57112172 CATCGTTATGTGATCTCATGTAAGACCATGTCCGGGACATGACATTGG
1 CATCATTATGTGATCCCATGTAAGACCATATCTGGGACATGACATTGG
* * * * *
57112220 CATCATAATGAGA---CATTGTGGAAGACCATAGCTGGG-CTATCGTC-TTCG
1 CATCATTATGTGATCCCA-TGT--AAGACCATATCTGGGAC-AT-GACATTGG
* * * *
57112268 -AT-A-TGTGTGATCCCATGTAAGACCATGTTTGGGACATGGCATTGG
1 CATCATTATGTGATCCCATGTAAGACCATATCTGGGACATGACATTGG
* *
57112313 CATCATTATGTGGTCCCATGTAAGACCATATCTGGGATATGACATTGG
1 CATCATTATGTGATCCCATGTAAGACCATATCTGGGACATGACATTGG
57112361 CATC
1 CATC
57112365 CTACCTTGTG
Statistics
Matches: 110, Mismatches: 22, Indels: 26
0.70 0.14 0.16
Matches are distributed among these distances:
44 2 0.02
45 23 0.21
46 7 0.06
47 7 0.06
48 69 0.63
49 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.30
Consensus pattern (48 bp):
CATCATTATGTGATCCCATGTAAGACCATATCTGGGACATGACATTGG
Found at i:57113302 original size:21 final size:21
Alignment explanation
Indices: 57113278--57113332 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
57113268 GAAACAGGGC
57113278 ACACACCCGTGTGGAAAGGCA
1 ACACACCCGTGTGGAAAGGCA
* * * *
57113299 ACACGCCTGTATGGAAGGGCA
1 ACACACCCGTGTGGAAAGGCA
**
57113320 ACATTCCCGTGTG
1 ACACACCCGTGTG
57113333 ATCACTAAGA
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.29, T:0.16
Consensus pattern (21 bp):
ACACACCCGTGTGGAAAGGCA
Found at i:57118018 original size:40 final size:40
Alignment explanation
Indices: 57117963--57118080 Score: 191
Period size: 40 Copynumber: 3.0 Consensus size: 40
57117953 TGAAAAAAAA
*
57117963 TATAACCGGGTTAAGTCTCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
57118003 TATAACCGGTTTAAGTCCCGAAGGCATTCGTACGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
57118043 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
57118081 GTTACATCCG
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 71 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:57120242 original size:37 final size:37
Alignment explanation
Indices: 57120192--57120270 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
57120182 TTATTACGAA
* * *
57120192 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
57120229 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
57120266 GTCTT
1 GTCTT
57120271 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:57120499 original size:47 final size:47
Alignment explanation
Indices: 57120388--57120704 Score: 553
Period size: 47 Copynumber: 6.7 Consensus size: 47
57120378 GCCCTTCGGG
*
57120388 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
57120438 ACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
57120485 ACTTTCACATTCATCTCATCGGCCATTAGGCCTTGTCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
57120532 ACTTTCACATTCATCACATCGGCCATTAGGCCTTGTCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
57120579 ACTTTCACATTCATCAAATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
57120626 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
57120673 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
57120705 ATACTATCAT
Statistics
Matches: 260, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
47 223 0.86
49 33 0.13
50 4 0.02
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:57138077 original size:50 final size:48
Alignment explanation
Indices: 57138011--57138235 Score: 180
Period size: 46 Copynumber: 4.8 Consensus size: 48
57138001 TGTCATCGAG
* * *
57138011 GCCGACGCCATTTCCCAAACATGGTCTTACACTAGCTCTCACATATCCGT
1 GCCGATGCCATGTCCCAAACAT-GTCTTACACTAGCTCTCACATAT-CAT
* * *
57138061 GCCGATGCCATGTCCCAGACATGGTCTTACACTA----ACACATCTCAT
1 GCCGATGCCATGTCCCAAACAT-GTCTTACACTAGCTCTCACATATCAT
* * * * * * *
57138106 AGCCGATG-CATGTCCCTAACATGTCTTATACTGGCT-TCCCTTATGAA
1 -GCCGATGCCATGTCCCAAACATGTCTTACACTAGCTCTCACATATCAT
* * * *
57138153 GCCGATG-CATGTCCTAGACACGTCTTACACTAGCTCT--CATCTCAAT
1 GCCGATGCCATGTCCCAAACATGTCTTACACTAGCTCTCACATATC-AT
*
57138199 GCCGATGCCATGTCCCACACATGTCTTACACTAGCTC
1 GCCGATGCCATGTCCCAAACATGTCTTACACTAGCTC
57138236 ACAATAGCCC
Statistics
Matches: 139, Mismatches: 29, Indels: 17
0.75 0.16 0.09
Matches are distributed among these distances:
44 9 0.06
45 17 0.12
46 50 0.36
47 32 0.23
50 31 0.22
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAAACATGTCTTACACTAGCTCTCACATATCAT
Found at i:57138225 original size:47 final size:48
Alignment explanation
Indices: 57137913--57138235 Score: 240
Period size: 47 Copynumber: 6.8 Consensus size: 48
57137903 ATAGGGTATG
* *
57137913 ATGCCGATGCCATGTCCCAGACATGGTCTTACACT-G-GCTCATGTCTA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTC-A
* * * * ** *
57137960 AAGTCGATACCATGTCCCAGACATGGTCTTACACT-GACTATTGTCATCG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCTCATC-TCA
* * * * * *
57138009 AGGCCGACGCCATTTCCCAAACATGGTCTTACACTAGCTCTCACATATCC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCT--CATCTCA
* * *
57138059 GTGCCGATGCCATGTCCCAGACATGGTCTTACACTA--ACACATCTC-
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCA
* * * * * *
57138104 ATAGCCGATG-CATGTCCCTA-ACAT-GTCTTATACTGGCTTCCCTTATGA
1 AT-GCCGATGCCATGTCCC-AGACATGGTCTTACACTAGC-TCTCATCTCA
* *
57138152 A-GCCGATG-CATGTCCTAGACA-CGTCTTACACTAGCTCTCATCTCA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCA
*
57138197 ATGCCGATGCCATGTCCCACACAT-GTCTTACACTAGCTC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
57138236 ACAATAGCCC
Statistics
Matches: 214, Mismatches: 45, Indels: 34
0.73 0.15 0.12
Matches are distributed among these distances:
44 9 0.04
45 21 0.10
46 48 0.22
47 63 0.29
48 2 0.01
49 34 0.16
50 36 0.17
51 1 0.00
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCA
Found at i:57145330 original size:53 final size:53
Alignment explanation
Indices: 57145224--57145331 Score: 137
Period size: 53 Copynumber: 2.0 Consensus size: 53
57145214 GGCAAAGATC
* * * * * *
57145224 CCACGTAAGACCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGTAAGGCTA
1 CCACGTAAGACCATGCCAAGACATGGAAATGGTAAGTTAAAAAGGTAAAGCTA
*
57145277 CCACGTAAGACCATGTCAAGACATGGAAATGGTAAGTTTAAAAAGG-AAAGCTA
1 CCACGTAAGACCATGCCAAGACATGGAAATGGTAAG-TTAAAAAGGTAAAGCTA
57145330 CC
1 CC
57145332 CATGTATCCT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
53 40 0.85
54 7 0.15
ACGTcount: A:0.37, C:0.19, G:0.25, T:0.19
Consensus pattern (53 bp):
CCACGTAAGACCATGCCAAGACATGGAAATGGTAAGTTAAAAAGGTAAAGCTA
Found at i:57146819 original size:174 final size:173
Alignment explanation
Indices: 57146523--57146863 Score: 538
Period size: 174 Copynumber: 2.0 Consensus size: 173
57146513 TTAAAAAAAG
* *
57146523 TAATTTTTTTTATGTCCCGAACAGGTAAGATAAGTCTGGTAACGCCTCGTGCTCAACTCCGGCGA
1 TAATTTTTTTTATGTCCCGAACAGATAAGATAAGTCTGGTAACGCCTCGTGCTCAACTCCGACGA
** * * **
57146588 TGGTCTCGGGTAAGGGGTGTTACATTTATTAGTATCAGAACAAGAGTTTAGTCAGTTCTCGAAAT
66 CAGCCTCCGGTAAGGGGTGTTACATTTATTAGTATCAGAACAAGAGTTTAGTCAGTTCTAAAAAT
* *
57146653 ATTTAGTATGAGTAAGAGTCTAGCTATACATGCCATACTTATA
131 ATTCAGTATGAGTAAAAGTCTAGCTATACATGCCATACTTATA
* *
57146696 TAATTTCTTTTTATGTCCCGAACAGATAAGATAAGTCTGGTAATGCCTCGTGCTCGACTCCGACG
1 TAATTT-TTTTTATGTCCCGAACAGATAAGATAAGTCTGGTAACGCCTCGTGCTCAACTCCGACG
* *
57146761 ACAGCCTCCGGTAAGGGGTGTTACATTTATTGGTATCAGAGCAAGAGTTTAGTCAGTTCTAAAAA
65 ACAGCCTCCGGTAAGGGGTGTTACATTTATTAGTATCAGAACAAGAGTTTAGTCAGTTCTAAAAA
*
57146826 TATTCAGTATGAGTAAAAGTCTAGCTATACATGTCATA
130 TATTCAGTATGAGTAAAAGTCTAGCTATACATGCCATA
57146864 TTTTGATAGT
Statistics
Matches: 152, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
173 6 0.04
174 146 0.96
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.32
Consensus pattern (173 bp):
TAATTTTTTTTATGTCCCGAACAGATAAGATAAGTCTGGTAACGCCTCGTGCTCAACTCCGACGA
CAGCCTCCGGTAAGGGGTGTTACATTTATTAGTATCAGAACAAGAGTTTAGTCAGTTCTAAAAAT
ATTCAGTATGAGTAAAAGTCTAGCTATACATGCCATACTTATA
Found at i:57150941 original size:27 final size:27
Alignment explanation
Indices: 57150895--57151050 Score: 172
Period size: 27 Copynumber: 5.8 Consensus size: 27
57150885 ATTACTAAAG
* *
57150895 TACCCCCGA-TTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
57150921 TACCCTCGACTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
57150948 TACCCTCAATTTACAGAAGTT-CCGTTT
1 TACCCTCGATTTACAGAA-TTACCGTTT
* * **
57150975 TACCCTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
57151002 TACCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
57151029 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
57151051 TAAAATACCC
Statistics
Matches: 112, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.09
27 100 0.89
28 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:57151175 original size:81 final size:80
Alignment explanation
Indices: 57151029--57151223 Score: 250
Period size: 81 Copynumber: 2.4 Consensus size: 80
57151019 ATTACTGTTT
* ** * * *
57151029 TACCCTCGATTTACAAAATTACTAAAATA-CCCTAGTCTGTAAAATTGCTAAAATACCCTTGGTT
1 TACCCTCAATTTGTAAAATTAC-AAAATACCCCTAGTCTGTAAAATTACCAAAATACCCTTAGTT
*
57151093 TGTAAAATTACAGAAG
65 TGTAAAATTACAGAAA
*
57151109 TACCCTCAATTTGTAAAATTAGCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCAC-TAGT
1 TACCCTCAATTTGTAAAATTA-CAAAATACCCCTAGTCTGTAAAATTACCAAAATACC-CTTAGT
* *
57151173 TTGTGAAATTACCGAAA
64 TTGTAAAATTACAGAAA
57151190 TACCCTCAATTTGTAAAATTACCAAAATACCCCT
1 TACCCTCAATTTGTAAAATTA-CAAAATACCCCT
57151224 GATTTACAAA
Statistics
Matches: 101, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
80 24 0.24
81 76 0.75
82 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (80 bp):
TACCCTCAATTTGTAAAATTACAAAATACCCCTAGTCTGTAAAATTACCAAAATACCCTTAGTTT
GTAAAATTACAGAAA
Found at i:57151228 original size:27 final size:26
Alignment explanation
Indices: 57151043--57151228 Score: 169
Period size: 27 Copynumber: 6.9 Consensus size: 26
57151033 CTCGATTTAC
* *
57151043 AAAATTACTAAAATA-CCCTAGTCTGT
1 AAAATTACCAAAATACCCCTA-TTTGT
* * * *
57151069 AAAATTGCTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCCT-ATTTGT
* *
57151096 AAAATTA-CAGAAGTACCCTCAATTTGT
1 AAAATTACCA-AAATACCC-CTATTTGT
*
57151123 AAAATTAGCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTA-TTTGT
*
57151150 AAAATTACCAAAATACCACTAGTTTGT
1 AAAATTACCAAAATACCCCTA-TTTGT
* * *
57151177 GAAATTACCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCC-CTATTTGT
57151204 AAAATTACCAAAATACCCCTGATTT
1 AAAATTACCAAAATACCCCT-ATTT
57151229 ACAAAGTTAC
Statistics
Matches: 131, Mismatches: 21, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
26 18 0.14
27 109 0.83
28 4 0.03
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (26 bp):
AAAATTACCAAAATACCCCTATTTGT
Found at i:57151244 original size:54 final size:54
Alignment explanation
Indices: 57151029--57151249 Score: 147
Period size: 54 Copynumber: 4.1 Consensus size: 54
57151019 ATTACTGTTT
* ** * * *
57151029 TACCCTCGATTTACAAAATTACTAAAATACC-CTAGTCTGTA-AAATTGCTA-AAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCACTAGTTTG-ACAAATTAC-AGAAA
*** * *
57151082 TACCCTTGGTTTGTAAAATTA-CAGAAGTACC-CTCAATTTGTA-AAATTAGCA-AAA
1 TACCCTCAATTTGTAAAATTACCA-AAATACCACT-AGTTTG-ACAAATTA-CAGAAA
* ** *
57151136 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTAGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCACTAGTTTGACAAATTACAGAAA
*
57151190 TACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTT-ACAAAGTTACAGAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCACTAG-TTTGACAAA-TTACAGAAA
57151244 TACCCT
1 TACCCT
57151250 TGACTTTCTA
Statistics
Matches: 137, Mismatches: 20, Indels: 21
0.77 0.11 0.12
Matches are distributed among these distances:
52 1 0.01
53 30 0.22
54 100 0.73
55 6 0.04
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.30
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCACTAGTTTGACAAATTACAGAAA
Found at i:57151299 original size:27 final size:27
Alignment explanation
Indices: 57151260--57151311 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
57151250 TGACTTTCTA
57151260 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
57151287 AAAATTACT-GAAATACCTTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
57151312 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:57151395 original size:27 final size:27
Alignment explanation
Indices: 57151365--57151456 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
57151355 ACCCCTATTA
*
57151365 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
57151392 GGTAAAGTGATCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
57151419 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
57151446 GGTAAAATGAC
1 GGTAAAATGAC
57151457 GAATATGCCC
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 57 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:57152646 original size:25 final size:24
Alignment explanation
Indices: 57152613--57152660 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
57152603 TTATAACATG
* * *
57152613 AAAATGACCGTTTTGCCCCTAGGT
1 AAAATGACCATTATACCCCTAGGT
57152637 AAAAGTGACCATTATACCCCTAGG
1 AAAA-TGACCATTATACCCCTAGG
57152661 GTTTATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (24 bp):
AAAATGACCATTATACCCCTAGGT
Found at i:57152799 original size:24 final size:24
Alignment explanation
Indices: 57152772--57152939 Score: 243
Period size: 24 Copynumber: 7.0 Consensus size: 24
57152762 GGAGGAAGTG
57152772 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
57152796 CAAAAAGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
57152820 CAAAAGGGCTTATGCCCTAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
57152844 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
57152868 CAAAA-GGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
57152891 AAAAAGGGCTTTTGCCCCAGTTA-
1 CAAAAGGGCTTATGCCCCAGTTAT
*
57152914 CTAAAAGAGGC-TAGGCCTCCAGTTAT
1 C-AAAAG-GGCTTATGCC-CCAGTTAT
57152940 ATGATAAAGT
Statistics
Matches: 130, Mismatches: 9, Indels: 8
0.88 0.06 0.05
Matches are distributed among these distances:
23 22 0.17
24 98 0.75
25 10 0.08
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:57153169 original size:31 final size:31
Alignment explanation
Indices: 57153133--57153196 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
57153123 CGTTTACAGT
*
57153133 AAAGGCTTCGGCCTAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
57153164 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
57153195 AA
1 AA
57153197 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:57158650 original size:27 final size:26
Alignment explanation
Indices: 57158581--57158688 Score: 108
Period size: 27 Copynumber: 4.0 Consensus size: 26
57158571 AGCATGGCTG
** *
57158581 CCAGAACAGATATTGTGATAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
*
57158607 CCAGATACAGATATTGTGGGAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
* *
57158634 CCAGAACAGATATTTGTTGCATAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
* * *
57158661 CTAGAAACAGATAATGTGGCAAAGCCA
1 CCAG-AACAGATATTGTGGCAGAGCCA
57158688 C
1 C
57158689 TTAACAGAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
26 12 0.17
27 49 0.71
28 8 0.12
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.20
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:57158689 original size:27 final size:26
Alignment explanation
Indices: 57158583--57158706 Score: 90
Period size: 27 Copynumber: 4.7 Consensus size: 26
57158573 CATGGCTGCC
** * * *
57158583 AGAACAGATATTGTGATAGAGTCACC
1 AGAACAGATATTGTGGCAAAGCCACT
* * *
57158609 AGATACAGATATTGTGGGAGAGCCACC
1 AGA-ACAGATATTGTGGCAAAGCCACT
* *
57158636 AGAACAGATATTTGTTGCATAGCCACT
1 AGAACAGATA-TTGTGGCAAAGCCACT
*
57158663 AGAAACAGATAATGTGGCAAAGCCACT
1 AG-AACAGATATTGTGGCAAAGCCACT
*
57158690 -TAACAGA-ATATGTGGCA
1 AGAACAGATAT-TGTGGCA
57158707 CAAAGCTATC
Statistics
Matches: 82, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
24 1 0.01
25 13 0.16
26 10 0.12
27 50 0.61
28 8 0.10
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (26 bp):
AGAACAGATATTGTGGCAAAGCCACT
Found at i:57158875 original size:22 final size:21
Alignment explanation
Indices: 57158847--57158911 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
57158837 GCAAATACGT
57158847 TTGGCACACAACCATAATCAGG
1 TTGGCACA-AACCATAATCAGG
* *
57158869 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACA-AACCATAAT-CAGG
*
57158891 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAA-CCATAATCAG
57158912 AATAATAGGC
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.09
22 29 0.85
23 2 0.06
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (21 bp):
TTGGCACAAACCATAATCAGG
Found at i:57159330 original size:27 final size:27
Alignment explanation
Indices: 57159299--57159521 Score: 279
Period size: 27 Copynumber: 8.3 Consensus size: 27
57159289 GGGGCAAAAT
* * * *
57159299 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
57159326 AGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
57159353 GGTATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
57159380 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
57159407 AGT-ATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
57159433 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
57159460 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
57159487 GGTAATTCTACCCTATA-GGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
57159513 AGTAATTCT
1 GGTAATTCT
57159522 TGTAACACCC
Statistics
Matches: 173, Mismatches: 22, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
26 42 0.24
27 131 0.76
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:57159493 original size:107 final size:107
Alignment explanation
Indices: 57159300--57159521 Score: 347
Period size: 107 Copynumber: 2.1 Consensus size: 107
57159290 GGGCAAAATG
* * *
57159300 GTAATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTATAGGGGTATTTTGGTATTTCTACC
1 GTAATTCTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC
*
57159365 CTATAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCA
66 CTACAAGGGTATTTCGGTAATTCTACCCTACA-GGGTATTTCA
* * *
57159408 GT-ATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC
1 GTAATTCTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC
* *
57159472 CTACAAGGGTATTTCGGTAATTCTACCCTATAGGGTATTTTA
66 CTACAAGGGTATTTCGGTAATTCTACCCTACAGGGTATTTCA
57159514 GTAATTCT
1 GTAATTCT
57159522 TGTAACACCC
Statistics
Matches: 104, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
106 11 0.11
107 91 0.88
108 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (107 bp):
GTAATTCTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACC
CTACAAGGGTATTTCGGTAATTCTACCCTACAGGGTATTTCA
Found at i:57160933 original size:40 final size:40
Alignment explanation
Indices: 57160889--57161113 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
57160879 GCTACTCGTT
*
57160889 CAAATGCCTTCGGGACATAACCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
57160929 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
57160969 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
57161009 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * * *
57161048 CAAATGCCTTC-GGATCTTAGTCCGAATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
57161089 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
57161114 CATCATTCGA
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
38 2 0.01
39 33 0.20
40 118 0.71
41 13 0.08
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:57161097 original size:119 final size:120
Alignment explanation
Indices: 57160891--57161113 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
57160881 TACTCGTTCA
* *
57160891 AATGCCTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAAT
* *
57160956 TTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
57161011 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGA
1 AATGCCTTCGGGACATAACCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGA
* * *
57161073 ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 ATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCGGA
57161114 CATCATTCGA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 65 0.73
120 20 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAACCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAAT
ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:57162040 original size:55 final size:56
Alignment explanation
Indices: 57161974--57162092 Score: 231
Period size: 55 Copynumber: 2.1 Consensus size: 56
57161964 TATTAGTTTA
57161974 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATG-T
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
57162029 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
57162085 TTGCCCAT
1 TTGCCCAT
57162093 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 54 0.86
56 9 0.14
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.44
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:57168645 original size:39 final size:40
Alignment explanation
Indices: 57168491--57168662 Score: 242
Period size: 40 Copynumber: 4.3 Consensus size: 40
57168481 GCTACTCGTT
* * *
57168491 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAAT-TAGTAACTCGCA
*
57168531 CAAATGTCTTCGGGACTTAACCC-GAATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAA-TTAGTAACTCGCA
*
57168571 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
* *
57168611 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
57168650 CAAATGCCTTCGG
1 CAAATGCCTTCGG
57168663 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
39 36 0.30
40 80 0.67
41 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCA
Found at i:57168675 original size:79 final size:81
Alignment explanation
Indices: 57168491--57168713 Score: 271
Period size: 80 Copynumber: 2.8 Consensus size: 81
57168481 GCTACTCGTT
* *
57168491 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGTCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
57168555 AATTTAGTAACTCGCA
66 AATTTAGTAACTCGCA
* * *
57168571 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCC-
57168634 GAA-TTAGTAACTCGCA
65 GAATTTAGTAACTCGCA
* * * * * *
57168650 CAAATGCCTTC-GGATCTTAGTCCGGA-TATGGTCACTTAGCACAAA-GCCTTCAGGACTTAGCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACC
57168712 CG
64 CG
57168714 TACATCATTC
Statistics
Matches: 125, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
78 4 0.03
79 54 0.43
80 65 0.52
81 2 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
AATTTAGTAACTCGCA
Found at i:57168699 original size:119 final size:120
Alignment explanation
Indices: 57168493--57168713 Score: 279
Period size: 119 Copynumber: 1.9 Consensus size: 120
57168483 TACTCGTTCA
* *
57168493 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGTCTTCGGGACTTAACCCGAAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAAT
* * *
57168558 TTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCACC
* ** *
57168613 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGA
* * *
57168675 ATATGGTCACTTAGCACAAA-GCCTTCAGGACTTAGCCCG
64 ATATAGTAAC-TAGCACAAATGCCTTCAGGACTTAACCCG
57168714 TACATCATTC
Statistics
Matches: 86, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 4 0.05
119 62 0.72
120 20 0.23
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGAAT
ATAGTAACTAGCACAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:57169641 original size:55 final size:56
Alignment explanation
Indices: 57169575--57169693 Score: 231
Period size: 55 Copynumber: 2.1 Consensus size: 56
57169565 TATTAGTTTA
57169575 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATG-T
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
57169630 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
57169686 TTGCCCAT
1 TTGCCCAT
57169694 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 54 0.86
56 9 0.14
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.44
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:57170037 original size:19 final size:18
Alignment explanation
Indices: 57170013--57170054 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 18
57170003 GGGGTATTTC
57170013 GGTATTTCTACCCTACAAG
1 GGTATTTCTA-CCTACAAG
57170032 GGTA--T-TACCTACAAG
1 GGTATTTCTACCTACAAG
57170047 GGTATTTC
1 GGTATTTC
57170055 AGTAATTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 7
0.74 0.00 0.26
Matches are distributed among these distances:
15 12 0.60
16 2 0.10
17 2 0.10
19 4 0.20
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.33
Consensus pattern (18 bp):
GGTATTTCTACCTACAAG
Found at i:57170044 original size:15 final size:15
Alignment explanation
Indices: 57170024--57170052 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
57170014 GTATTTCTAC
57170024 CCTACAAGGGTATTA
1 CCTACAAGGGTATTA
57170039 CCTACAAGGGTATT
1 CCTACAAGGGTATT
57170053 TCAGTAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (15 bp):
CCTACAAGGGTATTA
Found at i:57170141 original size:27 final size:27
Alignment explanation
Indices: 57170075--57170142 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
57170065 CCCTACAGGT
* * *
57170075 GTATTTCAGTAATTTTGTAAATCGAGG
1 GTATTTCGGTAATTCTATAAATCGAGG
*** *
57170102 GTAAAACGATAATTCTATAAATCGAGG
1 GTATTTCGGTAATTCTATAAATCGAGG
57170129 GTATTTCGGTAATT
1 GTATTTCGGTAATT
57170143 TGGTAAACTA
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.37
Consensus pattern (27 bp):
GTATTTCGGTAATTCTATAAATCGAGG
Found at i:57177549 original size:22 final size:22
Alignment explanation
Indices: 57177524--57177569 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
57177514 TTAGTGACTA
57177524 AAATGTTACAACATGATAATGT
1 AAATGTTACAACATGATAATGT
57177546 AAATGTTACAACATGATAATGT
1 AAATGTTACAACATGATAATGT
57177568 AA
1 AA
57177570 GTGACTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.48, C:0.09, G:0.13, T:0.30
Consensus pattern (22 bp):
AAATGTTACAACATGATAATGT
Found at i:57178072 original size:22 final size:22
Alignment explanation
Indices: 57178040--57178083 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
57178030 ATACATTAAA
*
57178040 ATTATTTAGCAAAATTATGATT
1 ATTATTCAGCAAAATTATGATT
57178062 ATTATTCAGCAAAATTATGATT
1 ATTATTCAGCAAAATTATGATT
57178084 TCTTTTATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (22 bp):
ATTATTCAGCAAAATTATGATT
Found at i:57178465 original size:18 final size:17
Alignment explanation
Indices: 57178435--57178469 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
57178425 CCTAAATATG
57178435 AAAAATAAAAAATATTT
1 AAAAATAAAAAATATTT
*
57178452 AAAAATATATAAATATTT
1 AAAAATA-AAAAATATTT
57178470 TCAAAGCATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAAATAAAAAATATTT
Found at i:57184731 original size:40 final size:40
Alignment explanation
Indices: 57184687--57184763 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
57184677 ACATACATAG
*
57184687 TCTGCTATCTA-TTCAGGATTTATGTATGACATACTATAAA
1 TCTGCTATCTACTT-AGGATTTATGTATGACACACTATAAA
*
57184727 TCTGCTATCTACTTAGGATTTATGTATGCCACACTAT
1 TCTGCTATCTACTTAGGATTTATGTATGACACACTAT
57184764 GAACGTCATA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 32 0.94
41 2 0.06
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (40 bp):
TCTGCTATCTACTTAGGATTTATGTATGACACACTATAAA
Found at i:57199842 original size:52 final size:52
Alignment explanation
Indices: 57199764--57199867 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
57199754 GTATAACATG
57199764 TTATAATGATTTATAAATCTTTAGTGAAGAATTACGCTTGAATTTGAAGAGT
1 TTATAATGATTTATAAATCTTTAGTGAAGAATTACGCTTGAATTTGAAGAGT
57199816 TTATAATGATTTATAAATCTTTAGTGAAGAATTACGCTTGAATTTGAAGAGT
1 TTATAATGATTTATAAATCTTTAGTGAAGAATTACGCTTGAATTTGAAGAGT
57199868 ATATGTTGGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.37, C:0.06, G:0.17, T:0.40
Consensus pattern (52 bp):
TTATAATGATTTATAAATCTTTAGTGAAGAATTACGCTTGAATTTGAAGAGT
Found at i:57200224 original size:10 final size:10
Alignment explanation
Indices: 57200211--57200272 Score: 51
Period size: 10 Copynumber: 6.6 Consensus size: 10
57200201 TCAGTTTATT
57200211 TATTTTTAAA
1 TATTTTTAAA
57200221 TATTTTT--A
1 TATTTTTAAA
57200229 TATTTTT-AA
1 TATTTTTAAA
* **
57200238 TATATTTATG
1 TATTTTTAAA
* *
57200248 TGTTTATAAA
1 TATTTTTAAA
57200258 TATTTTTAAA
1 TATTTTTAAA
57200268 -ATTTT
1 TATTTT
57200273 ATAATAATGA
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
8 8 0.20
9 12 0.30
10 20 0.50
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (10 bp):
TATTTTTAAA
Found at i:57200234 original size:18 final size:18
Alignment explanation
Indices: 57200211--57200265 Score: 67
Period size: 17 Copynumber: 3.0 Consensus size: 18
57200201 TCAGTTTATT
57200211 TATTTTTAAATATTTTTA
1 TATTTTTAAATATTTTTA
*
57200229 TATTTTT-AATATATTTA
1 TATTTTTAAATATTTTTA
*
57200246 TGTGTTTATAAATATTTTTA
1 TAT-TTT-TAAATATTTTTA
57200266 AAATTTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 11 0.35
18 10 0.32
19 1 0.03
20 9 0.29
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.64
Consensus pattern (18 bp):
TATTTTTAAATATTTTTA
Found at i:57202527 original size:24 final size:24
Alignment explanation
Indices: 57202499--57202556 Score: 82
Period size: 24 Copynumber: 2.4 Consensus size: 24
57202489 GAAAAGTGCA
57202499 AAATTTTTTAAAATTTCTTTAAAT
1 AAATTTTTTAAAATTTCTTTAAAT
*
57202523 AAATTTTTT-ACATTTCTTTAAAT
1 AAATTTTTTAAAATTTCTTTAAAT
*
57202546 ATAAATTTTTA
1 A-AATTTTTTA
57202557 TATTTTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 14 0.47
24 16 0.53
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (24 bp):
AAATTTTTTAAAATTTCTTTAAAT
Found at i:57202691 original size:106 final size:106
Alignment explanation
Indices: 57202462--57202672 Score: 261
Period size: 106 Copynumber: 2.0 Consensus size: 106
57202452 AAAATTCAAA
*
57202462 AAATA-ATAAATCCTTTTATATTTTTTAGAAAAGTGCAAAATTTTTTAAAATTTCTTTAAATAAA
1 AAATATATAAAT-TTTTTATATTTTTTAGAAAAGTGCAAAATTTTTTAAAATTTCTTTAAATAAA
* * * **
57202526 TTTTTTACATTTCTTTAAATATAAATTTTTATATTTTTGTAT
65 TTTTTTACATTTCTTTAAAGATAAAGTTTTAAAAGTTTGTAT
* * * *
57202568 AAATATATAAATTTTTTATTTTTTTTATAAAAGTGCAAATTTTTTTAAAATTTCTTTAAATAATT
1 AAATATATAAATTTTTTATATTTTTTAGAAAAGTGCAAAATTTTTTAAAATTTCTTTAAATAA-A
**
57202633 TTTTTTTGATTT-TTT-AAGA-AAAGTTTTAAAAGTTT-TAT
65 TTTTTTACATTTCTTTAAAGATAAAGTTTTAAAAGTTTGTAT
57202671 AA
1 AA
57202673 TATTTTTAAA
Statistics
Matches: 91, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
103 5 0.05
104 12 0.13
105 3 0.03
106 55 0.60
107 16 0.18
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (106 bp):
AAATATATAAATTTTTTATATTTTTTAGAAAAGTGCAAAATTTTTTAAAATTTCTTTAAATAAAT
TTTTTACATTTCTTTAAAGATAAAGTTTTAAAAGTTTGTAT
Found at i:57202699 original size:106 final size:106
Alignment explanation
Indices: 57202483--57202699 Score: 235
Period size: 106 Copynumber: 2.0 Consensus size: 106
57202473 CCTTTTATAT
*
57202483 TTTTTAGAAAAGTGCAAAATTTTTTAAAATTTCTTTAAATAAATTTTTTACATTTCTTTAAATAT
1 TTTTTAGAAAAGTGCAAAATTTTTTAAAATTTCTTTAAATAAATTTTTTACATTTCTTTAAAGAT
* * ** ***
57202548 AAATTTTTATATTTTTGTATAAATATATAAATTTTTTATTT
66 AAAGTTTTAAAAGTTTGTATAAATATATAAATTTTTTAGAA
* * * **
57202589 TTTTTATAAAAGTGCAAATTTTTTTAAAATTTCTTTAAATAATTTTTTTTTGATTT-TTT-AAGA
1 TTTTTAGAAAAGTGCAAAATTTTTTAAAATTTCTTTAAATAA-ATTTTTTACATTTCTTTAAAGA
* *
57202652 -AAAGTTTTAAAAGTTT-TATAATATTTTTAAATAATTTTTAGAA
65 TAAAGTTTTAAAAGTTTGTATAA-ATATATAAAT--TTTTTAGAA
57202695 TTTTT
1 TTTTT
57202700 CGAAGAAAAA
Statistics
Matches: 92, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
103 5 0.05
104 20 0.22
105 3 0.03
106 54 0.59
107 10 0.11
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (106 bp):
TTTTTAGAAAAGTGCAAAATTTTTTAAAATTTCTTTAAATAAATTTTTTACATTTCTTTAAAGAT
AAAGTTTTAAAAGTTTGTATAAATATATAAATTTTTTAGAA
Found at i:57206920 original size:26 final size:26
Alignment explanation
Indices: 57206891--57207043 Score: 114
Period size: 27 Copynumber: 5.7 Consensus size: 26
57206881 TTAGTTTACC
*
57206891 AAATTACTGAAATATCCTCAGTTGTA
1 AAATTACTGAAATACCCTCAGTTGTA
* *
57206917 AAATTAC-CAAAGTACCCTCAGTTTATA
1 AAATTACTGAAA-TACCCTCAG-TTGTA
** * *
57206944 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTC-AGTTGTA
*
57206971 AAATTA-TCGAAATACCCTCAGTTTGCA
1 AAATTACT-GAAATACCCTCAG-TTGTA
* **
57206998 AAATTATTGAAATACCCTCGACATGTA
1 AAATTACTGAAATACCCTC-AGTTGTA
*
57207025 AAATTA-TCAAAGTACCCTC
1 AAATTACTGAAA-TACCCTC
57207044 GATTTACAAA
Statistics
Matches: 103, Mismatches: 15, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
25 3 0.03
26 20 0.19
27 73 0.71
28 7 0.07
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (26 bp):
AAATTACTGAAATACCCTCAGTTGTA
Found at i:57206994 original size:54 final size:54
Alignment explanation
Indices: 57206883--57207059 Score: 207
Period size: 54 Copynumber: 3.3 Consensus size: 54
57206873 AGAATACTTT
* * * *
57206883 AGTTTACCAAATTACTGAAATATCCTC-AGTTGTAAAATTACCAAAGTACCCTC
1 AGTTTACAAAATTACCGAAATATCCTCGACTTGTAAAATTATCAAAGTACCCTC
* * *
57206936 AGTTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTATCGAAA-TACCCTC
1 AGTTTACAAAATTACCGAAATATCCTCGACTTGTAAAATTATC-AAAGTACCCTC
* ** * *
57206990 AGTTTGCAAAATTATTGAAATACCCTCGACATGTAAAATTATCAAAGTACCCTC
1 AGTTTACAAAATTACCGAAATATCCTCGACTTGTAAAATTATCAAAGTACCCTC
57207044 -GATTTACAAAATTACC
1 AG-TTTACAAAATTACC
57207060 ATTTTATCCT
Statistics
Matches: 103, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
53 27 0.26
54 73 0.71
55 3 0.03
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
AGTTTACAAAATTACCGAAATATCCTCGACTTGTAAAATTATCAAAGTACCCTC
Found at i:57207070 original size:27 final size:27
Alignment explanation
Indices: 57207037--57207454 Score: 322
Period size: 27 Copynumber: 15.4 Consensus size: 27
57207027 ATTATCAAAG
*
57207037 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* **
57207064 TATCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
57207091 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
57207118 TACCCTCGATTTACAGAGTTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * * *
57207145 TACCCTTGAATTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
57207172 TACCCTCGATTTATAGAATTACCGTTC
1 TACCCTCGATTTACAGAATTACCATTT
*
57207199 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
57207226 TACCCTCGATTTAGAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * * ***
57207253 TACCCTCGATTTAGAAAATTACAAAAA
1 TACCCTCGATTTACAGAATTACCATTT
* * * ***
57207280 TACCCCTGGTTTGTA-A-AATTACTAAAA
1 TA-CCCTCGATT-TACAGAATTACCATTT
* ** * * **
57207307 TACCCCCTGATTTGTAAAATTACTGA-AA
1 TACCCTC-GATTTACAGAATTAC-CATTT
* * ***
57207335 TACCCTCGACTGGTA-AAAATTACCAAAG
1 TACCCTCGA-T-TTACAGAATTACCATTT
* *
57207363 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
**
57207390 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
57207417 TACCCTTGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
57207444 TACCCTCGATT
1 TACCCTCGATT
57207455 GTGAAATTAC
Statistics
Matches: 328, Mismatches: 53, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
26 6 0.02
27 277 0.84
28 41 0.12
29 4 0.01
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Done.