Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 267 of 343
Found at i:88423712 original size:99 final size:94
Alignment explanation
Indices: 88423466--88423737 Score: 288
Period size: 99 Copynumber: 2.9 Consensus size: 94
88423456 TTATGAGATT
* * * *
88423466 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGATGAGTGCTAGTGTAAGA-CATGTC
1 CAGTATAAGACCATGTCTAGGACATGGCATCGGCCTCGAGATGA-TGCCAGTGTAAGACCATGTC
* * *
88423530 TGGGATAT-GCATCAGCCTCGAGACGTAAGC
65 TGGGACATGGCATC-GGCACGAGACGTAAGC
* * *
88423560 CAGTGTAAGA-CATGTCTAGGACAT-GCATCGG-CTACGAGATG-TGTCAGTGTAAGACCATGTT
1 CAGTATAAGACCATGTCTAGGACATGGCATCGGCCT-CGAGATGATGCCAGTGTAAGACCATGTC
*
88423621 TGGGACATGGCATCGGCACGAATAGGCG-AGAGC
65 TGGGACATGGCATCGGCACG---AGACGTA-AGC
*
88423654 TAGTATAAGACCATGTCTAGGACATGGCATCGGCCTCGATGATGATAGCCAGTGTAAGACCATGT
1 CAGTATAAGACCATGTCTAGGACATGGCATCGGCCTCGA-GATGAT-GCCAGTGTAAGACCATGT
**
88423719 CCAGGACATGGCATCGGCA
64 CTGGGACATGGCATCGGCA
88423738 ACTTGCCCCA
Statistics
Matches: 150, Mismatches: 15, Indels: 21
0.81 0.08 0.11
Matches are distributed among these distances:
90 11 0.07
91 17 0.11
92 18 0.12
93 15 0.10
94 25 0.17
95 14 0.09
96 10 0.07
97 6 0.04
98 1 0.01
99 33 0.22
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (94 bp):
CAGTATAAGACCATGTCTAGGACATGGCATCGGCCTCGAGATGATGCCAGTGTAAGACCATGTCT
GGGACATGGCATCGGCACGAGACGTAAGC
Found at i:88424790 original size:20 final size:21
Alignment explanation
Indices: 88424749--88424790 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
88424739 TAGAAATTAA
88424749 TTCCACATGGGCGTGTTGCCC
1 TTCCACATGGGCGTGTTGCCC
88424770 TTCCACATGGGCGTG-TGCCC
1 TTCCACATGGGCGTGTTGCCC
88424790 T
1 T
88424791 GTTTTAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.10, C:0.33, G:0.29, T:0.29
Consensus pattern (21 bp):
TTCCACATGGGCGTGTTGCCC
Found at i:88431106 original size:97 final size:97
Alignment explanation
Indices: 88430983--88431177 Score: 381
Period size: 97 Copynumber: 2.0 Consensus size: 97
88430973 AAAAGAACCA
88430983 TATTTTGAGTAGCATAAAGTGAATTACTTGCAAACCGACCAACACAGAACCATGTAAGAGAATTG
1 TATTTTGAGTAGCATAAAGTGAATTACTTGCAAACCGACCAACACAGAACCATGTAAGAGAATTG
88431048 TAGGTCAACATTAATGGTTCAAATATAAGCCC
66 TAGGTCAACATTAATGGTTCAAATATAAGCCC
88431080 TATTTTGAGTAGCATAAAGTGAATTACTTGCAAACCGACCAACACAGAACCATGTAAGAGAATTG
1 TATTTTGAGTAGCATAAAGTGAATTACTTGCAAACCGACCAACACAGAACCATGTAAGAGAATTG
*
88431145 TAGGTCAACATTAATGGTTCAAGTATAAGCCC
66 TAGGTCAACATTAATGGTTCAAATATAAGCCC
88431177 T
1 T
88431178 CTAAATTCCA
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
97 97 1.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.26
Consensus pattern (97 bp):
TATTTTGAGTAGCATAAAGTGAATTACTTGCAAACCGACCAACACAGAACCATGTAAGAGAATTG
TAGGTCAACATTAATGGTTCAAATATAAGCCC
Found at i:88432752 original size:14 final size:14
Alignment explanation
Indices: 88432735--88432775 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
88432725 TTTTATCTTG
*
88432735 AATTTTGGACTTTA
1 AATTTTGAACTTTA
88432749 AATTTTGAACTTTA
1 AATTTTGAACTTTA
*
88432763 AATTTTAAACTTT
1 AATTTTGAACTTT
88432776 GTATCTTGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.51
Consensus pattern (14 bp):
AATTTTGAACTTTA
Found at i:88432883 original size:21 final size:21
Alignment explanation
Indices: 88432834--88432892 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
88432824 AGAGTTAAAA
* * *
88432834 GTTCAAGGTCTAGAATTTTAGG
1 GTTCAAGATTTAGAA-TTTAAG
*
88432856 GTCCAAGATTTAGAATTTAAG
1 GTTCAAGATTTAGAATTTAAG
88432877 GTTCAAGATTTA-AATT
1 GTTCAAGATTTAGAATT
88432893 AAAAAATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
20 4 0.12
21 16 0.50
22 12 0.38
ACGTcount: A:0.34, C:0.08, G:0.20, T:0.37
Consensus pattern (21 bp):
GTTCAAGATTTAGAATTTAAG
Found at i:88434107 original size:29 final size:29
Alignment explanation
Indices: 88434070--88434145 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
88434060 TGACACAAAT
*
88434070 TCTCAACGAACAAATTCTTCGTCACGAAC
1 TCTCAACGAACAAATTCTTCATCACGAAC
* * *
88434099 TCTTAACGAACAAATTTTTCATCATGAAC
1 TCTCAACGAACAAATTCTTCATCACGAAC
*
88434128 TCTCAACGAACAAGTTCT
1 TCTCAACGAACAAATTCT
88434146 CCACCTCTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.36, C:0.26, G:0.09, T:0.29
Consensus pattern (29 bp):
TCTCAACGAACAAATTCTTCATCACGAAC
Found at i:88440303 original size:49 final size:48
Alignment explanation
Indices: 88440230--88440413 Score: 211
Period size: 49 Copynumber: 3.9 Consensus size: 48
88440220 TGCTATGTAA
*
88440230 TGCTAAACTTGGTCTTCCATTGTCTACACTCTTATCACTATTTATACAT
1 TGCTAAAC-TGGTCTTCCACTGTCTACACTCTTATCACTATTTATACAT
* * *
88440279 TGCTAAACTGAGTCTTCCACTGTCTACATTCTTATCACTATTTATCCCT
1 TGCTAAACTG-GTCTTCCACTGTCTACACTCTTATCACTATTTATACAT
*
88440328 T-CT----TGGTCTTCCATTGTCTACACTCTTATCACTATTTATACAT
1 TGCTAAACTGGTCTTCCACTGTCTACACTCTTATCACTATTTATACAT
** * *
88440371 TGCTAAACTTAATCTTCCACTATCT--ATTCTTATCACTATTTAT
1 TGCTAAAC-TGGTCTTCCACTGTCTACACTCTTATCACTATTTAT
88440414 CCCTTCTTAA
Statistics
Matches: 115, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
43 35 0.30
44 4 0.03
47 17 0.15
48 4 0.03
49 55 0.48
ACGTcount: A:0.24, C:0.26, G:0.07, T:0.44
Consensus pattern (48 bp):
TGCTAAACTGGTCTTCCACTGTCTACACTCTTATCACTATTTATACAT
Found at i:88440355 original size:43 final size:44
Alignment explanation
Indices: 88440237--88440374 Score: 188
Period size: 43 Copynumber: 3.0 Consensus size: 44
88440227 TAATGCTAAA
88440237 CTTGGTCTTCCATTGTCTACACTCTTATCACTATTTATACATTG
1 CTTGGTCTTCCATTGTCTACACTCTTATCACTATTTATACATTG
* * * *
88440281 CTAAACTGAGTCTTCCACTGTCTACATTCTTATCACTATTTATCCCTT-
1 CT----TG-GTCTTCCATTGTCTACACTCTTATCACTATTTATACATTG
88440329 CTTGGTCTTCCATTGTCTACACTCTTATCACTATTTATACATTG
1 CTTGGTCTTCCATTGTCTACACTCTTATCACTATTTATACATTG
88440373 CT
1 CT
88440375 AAACTTAATC
Statistics
Matches: 80, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
43 35 0.44
44 6 0.08
48 4 0.05
49 35 0.44
ACGTcount: A:0.21, C:0.27, G:0.08, T:0.44
Consensus pattern (44 bp):
CTTGGTCTTCCATTGTCTACACTCTTATCACTATTTATACATTG
Found at i:88440832 original size:30 final size:30
Alignment explanation
Indices: 88440791--88440864 Score: 103
Period size: 30 Copynumber: 2.5 Consensus size: 30
88440781 TGACTTGGAT
* *
88440791 CACACATCCATGTGTGTTGCCCGTGTGTGA
1 CACACACCCATGTGTGTTGCCCGTATGTGA
* *
88440821 CACACGCCCATGTGTGTTGCCTGTATGTGA
1 CACACACCCATGTGTGTTGCCCGTATGTGA
*
88440851 GACACACCCATGTG
1 CACACACCCATGTG
88440865 GCCAAGCTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.27
Consensus pattern (30 bp):
CACACACCCATGTGTGTTGCCCGTATGTGA
Found at i:88442776 original size:29 final size:29
Alignment explanation
Indices: 88442743--88442798 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
88442733 TAATACTTAT
88442743 ACTATTCAACAATCTCAACATCTAAAAAA
1 ACTATTCAACAATCTCAACATCTAAAAAA
*
88442772 ACTATTCAACAATGTCAACATCTAAAA
1 ACTATTCAACAATCTCAACATCTAAAA
88442799 TCTTAAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.50, C:0.23, G:0.02, T:0.25
Consensus pattern (29 bp):
ACTATTCAACAATCTCAACATCTAAAAAA
Found at i:88443047 original size:25 final size:24
Alignment explanation
Indices: 88443007--88443053 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
88442997 TTCTGTCCAC
88443007 TTTCTTTCTATTTCTTTATTATGT
1 TTTCTTTCTATTTCTTTATTATGT
88443031 TTTCATTT-TATTATCTTTATTAT
1 TTTC-TTTCTATT-TCTTTATTAT
88443054 TATCATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.17, C:0.11, G:0.02, T:0.70
Consensus pattern (24 bp):
TTTCTTTCTATTTCTTTATTATGT
Found at i:88443055 original size:12 final size:12
Alignment explanation
Indices: 88443033--88443067 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
88443023 TATTATGTTT
88443033 TCATT-TTATTA
1 TCATTATTATTA
*
88443044 TCTTTATTATTA
1 TCATTATTATTA
88443056 TCATTATTATTA
1 TCATTATTATTA
88443068 AAGTTACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 4 0.19
12 17 0.81
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (12 bp):
TCATTATTATTA
Found at i:88451756 original size:10 final size:9
Alignment explanation
Indices: 88451741--88451796 Score: 58
Period size: 10 Copynumber: 5.7 Consensus size: 9
88451731 ATTCTAAAAG
88451741 ATAAATACAA
1 ATAAATA-AA
88451751 ATAAATAAA
1 ATAAATAAA
*
88451760 GATAATTAAAA
1 -ATAAAT-AAA
88451771 ATAAATAAA
1 ATAAATAAA
88451780 GATAAATGAAA
1 -ATAAAT-AAA
88451791 ATAAAT
1 ATAAAT
88451797 CCTAAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
9 5 0.12
10 29 0.73
11 6 0.15
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (9 bp):
ATAAATAAA
Found at i:88451760 original size:20 final size:19
Alignment explanation
Indices: 88451737--88451796 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 19
88451727 TGAAATTCTA
88451737 AAAGATAAATACAAATAAAT
1 AAAGATAAATA-AAATAAAT
*
88451757 AAAGATAATTAAAAATAAAT
1 AAAGATAAAT-AAAATAAAT
88451777 AAAGATAAATGAAAATAAAT
1 AAAGATAAAT-AAAATAAAT
88451797 CCTAAAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 35 0.97
21 1 0.03
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (19 bp):
AAAGATAAATAAAATAAAT
Found at i:88451775 original size:30 final size:31
Alignment explanation
Indices: 88451735--88451794 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
88451725 AATGAAATTC
88451735 TAAAAGATAAATACAA-ATAAAT-AAAGATAAT
1 TAAAAGATAAATA-AAGATAAATGAAA-ATAAT
88451766 TAAAA-ATAAATAAAGATAAATGAAAATAA
1 TAAAAGATAAATAAAGATAAATGAAAATAA
88451795 ATCCTAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
29 2 0.07
30 17 0.63
31 8 0.30
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.22
Consensus pattern (31 bp):
TAAAAGATAAATAAAGATAAATGAAAATAAT
Found at i:88453458 original size:10 final size:9
Alignment explanation
Indices: 88453443--88453519 Score: 76
Period size: 10 Copynumber: 8.9 Consensus size: 9
88453433 TTAATATCTG
88453443 AAAAT-AAT
1 AAAATAAAT
88453451 -AAAT-AAT
1 AAAATAAAT
88453458 AAAAT-AAT
1 AAAATAAAT
*
88453466 AAGAT-AAT
1 AAAATAAAT
88453474 -AAATAAAT
1 AAAATAAAT
88453482 AAAATAAAAT
1 AAAAT-AAAT
88453492 AAAATAAAAT
1 AAAAT-AAAT
88453502 AAAATAAAAT
1 AAAAT-AAAT
88453512 AAAATAAA
1 AAAATAAA
88453520 AAATAAAAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 7
0.88 0.03 0.10
Matches are distributed among these distances:
7 10 0.16
8 17 0.27
9 7 0.11
10 29 0.46
ACGTcount: A:0.77, C:0.00, G:0.01, T:0.22
Consensus pattern (9 bp):
AAAATAAAT
Found at i:88453472 original size:20 final size:19
Alignment explanation
Indices: 88453452--88453527 Score: 77
Period size: 20 Copynumber: 3.9 Consensus size: 19
88453442 GAAAATAATA
*
88453452 AATAATAAAATAATAAGAT
1 AATAATAAAATAATAAAAT
*
88453471 AATAAATAAATAAAATAAAAT
1 AAT-AATAAA-ATAATAAAAT
88453492 AA-AATAAAATAAAATAAAAT
1 AATAATAAAAT--AATAAAAT
88453512 AA-AATAAAA-AATAAAA
1 AATAATAAAATAATAAAA
88453528 ATTGGGTTGC
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
17 7 0.14
18 1 0.02
19 9 0.18
20 23 0.46
21 10 0.20
ACGTcount: A:0.78, C:0.00, G:0.01, T:0.21
Consensus pattern (19 bp):
AATAATAAAATAATAAAAT
Found at i:88453527 original size:5 final size:5
Alignment explanation
Indices: 88453455--88453520 Score: 91
Period size: 5 Copynumber: 13.4 Consensus size: 5
88453445 AATAATAAAT
* *
88453455 AATAA AATAA TAAGAT AAT-A AAT-A AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA -AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA
88453504 AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AA
88453521 AATAAAAATT
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
4 7 0.13
5 45 0.82
6 3 0.05
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:88458412 original size:42 final size:42
Alignment explanation
Indices: 88458352--88458437 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
88458342 GAAAGCACGC
88458352 AGTTTAATTTGATCCTCAGTTACCCCTTGAGGTTTCATACTA
1 AGTTTAATTTGATCCTCAGTTACCCCTTGAGGTTTCATACTA
*
88458394 AGTTTAATTTGATTCTCAGTTACCCCTTGAGGTTTCATACTA
1 AGTTTAATTTGATCCTCAGTTACCCCTTGAGGTTTCATACTA
88458436 AG
1 AG
88458438 GCAAACCATA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (42 bp):
AGTTTAATTTGATCCTCAGTTACCCCTTGAGGTTTCATACTA
Found at i:88459014 original size:12 final size:12
Alignment explanation
Indices: 88458997--88459030 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
88458987 TTCCCTGCAA
88458997 AATAGTAAAAAT
1 AATAGTAAAAAT
88459009 AATAGTAAAAAT
1 AATAGTAAAAAT
88459021 AATAGTAAAA
1 AATAGTAAAA
88459031 GGGAAGTAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.24
Consensus pattern (12 bp):
AATAGTAAAAAT
Found at i:88459959 original size:10 final size:10
Alignment explanation
Indices: 88459940--88459999 Score: 79
Period size: 10 Copynumber: 6.0 Consensus size: 10
88459930 TGAAATTCTA
88459940 AAAGATAAAT
1 AAAGATAAAT
88459950 ACAA-ATAAAT
1 A-AAGATAAAT
*
88459960 AAAGATAATT
1 AAAGATAAAT
88459970 AAAGATAAAT
1 AAAGATAAAT
88459980 AAAGATAAAT
1 AAAGATAAAT
88459990 GAAA-ATAAAT
1 -AAAGATAAAT
88460000 CCTAAAATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
9 2 0.04
10 38 0.84
11 5 0.11
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:88462012 original size:14 final size:14
Alignment explanation
Indices: 88461995--88462032 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
88461985 TGTTTTCCAA
88461995 AAAATGATTTCTGG
1 AAAATGATTTCTGG
88462009 AAAATGATTTCTGG
1 AAAATGATTTCTGG
88462023 AAAATGATTT
1 AAAATGATTT
88462033 ACTTTTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCTGG
Found at i:88462164 original size:28 final size:28
Alignment explanation
Indices: 88462133--88462205 Score: 74
Period size: 29 Copynumber: 2.6 Consensus size: 28
88462123 TCGGAAAAGC
*
88462133 TGTTTTTACAAATATTTATATTTTAAAT
1 TGTTTTTACAAATATTTATACTTTAAAT
** *
88462161 TGTTTTTTTAATAAATTTATACTTTAAAT
1 TGTTTTTACAA-ATATTTATACTTTAAAT
* * *
88462190 TATTTCTACATATATT
1 TGTTTTTACAAATATT
88462206 GCAATGATTT
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
28 13 0.38
29 21 0.62
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (28 bp):
TGTTTTTACAAATATTTATACTTTAAAT
Found at i:88463441 original size:21 final size:21
Alignment explanation
Indices: 88463417--88463458 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
88463407 TCAATATCAT
88463417 TATCCAACCA-AATAAATTCAA
1 TATCCAA-CATAATAAATTCAA
*
88463438 TATCTAACATAATAAATTCAA
1 TATCCAACATAATAAATTCAA
88463459 CAAGCTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (21 bp):
TATCCAACATAATAAATTCAA
Found at i:88463492 original size:21 final size:21
Alignment explanation
Indices: 88463427--88463492 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 21
88463417 TATCCAACCA
88463427 AATAAATTCAATATCTAACAT
1 AATAAATTCAATATCTAACAT
* *
88463448 AATAAATTCAACAAGCTTAAAACAT
1 AATAAATTCAA-TATC-T--AACAT
88463473 AATAAATTCAATATCTAACA
1 AATAAATTCAATATCTAACA
88463493 AATTCAAGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 15 0.41
22 2 0.05
23 2 0.05
24 2 0.05
25 16 0.43
ACGTcount: A:0.55, C:0.15, G:0.02, T:0.29
Consensus pattern (21 bp):
AATAAATTCAATATCTAACAT
Found at i:88465817 original size:13 final size:13
Alignment explanation
Indices: 88465799--88465824 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88465789 AAGATTATCC
88465799 TATCCTAATAATA
1 TATCCTAATAATA
88465812 TATCCTAATAATA
1 TATCCTAATAATA
88465825 AATTTGAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
TATCCTAATAATA
Found at i:88468662 original size:40 final size:40
Alignment explanation
Indices: 88468602--88468723 Score: 226
Period size: 40 Copynumber: 3.0 Consensus size: 40
88468592 TCTGCAAGAA
88468602 TTGTCCGTTCATATTTCGAGACATTTGTTTTCCGGCTGAT
1 TTGTCCGTTCATATTTCGAGACATTTGTTTTCCGGCTGAT
* *
88468642 TTGTTCGTTCATATTTCGAGACATTTGTTTTCCGACTGAT
1 TTGTCCGTTCATATTTCGAGACATTTGTTTTCCGGCTGAT
88468682 TTGTCCGTTCATATTTCGAGACATTTGTTTTCCGGCTGAT
1 TTGTCCGTTCATATTTCGAGACATTTGTTTTCCGGCTGAT
88468722 TT
1 TT
88468724 AATGCTATTA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 78 1.00
ACGTcount: A:0.16, C:0.19, G:0.19, T:0.47
Consensus pattern (40 bp):
TTGTCCGTTCATATTTCGAGACATTTGTTTTCCGGCTGAT
Found at i:88480225 original size:12 final size:12
Alignment explanation
Indices: 88480208--88480236 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
88480198 ACAGGTTTGG
88480208 CACGGCCTAGCA
1 CACGGCCTAGCA
88480220 CACGGCCTAGCA
1 CACGGCCTAGCA
88480232 CACGG
1 CACGG
88480237 GCGTGTGAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.41, G:0.28, T:0.07
Consensus pattern (12 bp):
CACGGCCTAGCA
Found at i:88481348 original size:16 final size:18
Alignment explanation
Indices: 88481322--88481355 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
88481312 TATACTTAGA
88481322 TAAATTAATTTTC-CAAT
1 TAAATTAATTTTCTCAAT
88481339 TAAA-TAATTTTCTCAAT
1 TAAATTAATTTTCTCAAT
88481356 CTAATTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.41, C:0.12, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:88487442 original size:46 final size:46
Alignment explanation
Indices: 88487383--88487604 Score: 189
Period size: 46 Copynumber: 4.7 Consensus size: 46
88487373 ACATCTCATA
* * *
88487383 GCCGATGCATGTCCCAGACATGTCTTACA-TTG-ACTTATGTCCCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCAC-T-CGTCCCAAG
* *
88487429 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCCCAAG
* * *****
88487475 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCGTCCCAAG
* * * *
88487523 GCCGATGCATGTACCAGACATGTCTTAGACTAGCAC-CTGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTC-GTCCCAAG
***
88487569 GCCGATGCCATGTTGTAGACATGGTCTTACACTAGC
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC
88487605 TCCATAATGT
Statistics
Matches: 142, Mismatches: 27, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
45 1 0.01
46 62 0.44
47 41 0.29
48 38 0.27
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCCCAAG
Found at i:88487454 original size:138 final size:137
Alignment explanation
Indices: 88487220--88487505 Score: 337
Period size: 138 Copynumber: 2.1 Consensus size: 137
88487210 GTCCTAGACA
88487220 GGTCTTACAATGACACATATCAAGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCAC
1 GGTCTTACAATGACACATATCAAGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCAC
** * **
88487285 GATGTGGTTGATACATGTCCCAGACATGTCTTATACTAACACACATATCTGTGCCGACGCCATGT
66 GA--TGGCCGATACATGTCCCAGACATGTCTTACACTAACACACATATCAATGCCGACGCCATGT
88487350 CCCAAACAT
129 CCCAAACAT
* * *
88487359 GGTCTTACATTGACACATCTCATAGCCGATG-CATGTCCCAGACAT-GTCTTACA-TTGACTTAT
1 GGTCTTACAATGACACATATCA-AGCCGATGCCATGTCCCAGACATGGTCTTACACTAG-C-T-T
* * * * * * *
88487421 GTCCCGA-GGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCCGATGCCA
62 -TCACGATGGCCGATACATGTCCCAGACATGTCTTACACTAACACACATATCAATGCCGACGCCA
*
88487485 TGTCCCAGACAT
126 TGTCCCAAACAT
88487497 GGTCTTACA
1 GGTCTTACA
88487506 CTAGCTCTCA
Statistics
Matches: 126, Mismatches: 16, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
137 2 0.02
138 75 0.60
139 35 0.28
140 9 0.07
141 5 0.04
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (137 bp):
GGTCTTACAATGACACATATCAAGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTTTCAC
GATGGCCGATACATGTCCCAGACATGTCTTACACTAACACACATATCAATGCCGACGCCATGTCC
CAAACAT
Found at i:88487528 original size:94 final size:93
Alignment explanation
Indices: 88487428--88487646 Score: 350
Period size: 94 Copynumber: 2.3 Consensus size: 93
88487418 TATGTCCCGA
88487428 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCA-CTCGTCTCAATGCCGATGCCATGTCCCA
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCACCT-GTCTCAATGCCGATGCCATGTCCCA
88487492 GACATGGTCTTACACTAGCTCTCATAATGT
65 GACATGGTCTTACACTAGCTC-CATAATGT
* * ***
88487522 GGCCGATGCATGTACCAGACATGTCTTAGACTAGCACCTGTCTCAATGCCGATGCCATGTTGTAG
1 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCACCTGTCTCAATGCCGATGCCATGTCCCAG
88487587 ACATGGTCTTACACTAGCTCCATAATGT
66 ACATGGTCTTACACTAGCTCCATAATGT
* *
88487615 GGTCGATACATGTCCCAGACATGTCTTACACT
1 GGCCGATGCATGTCCCAGACATGTCTTACACT
88487647 GGCGCACATA
Statistics
Matches: 115, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
93 36 0.31
94 77 0.67
95 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (93 bp):
GGCCGATGCATGTCCCAGACATGTCTTACACTAGCACCTGTCTCAATGCCGATGCCATGTCCCAG
ACATGGTCTTACACTAGCTCCATAATGT
Found at i:88487637 original size:46 final size:45
Alignment explanation
Indices: 88487428--88487646 Score: 155
Period size: 47 Copynumber: 4.7 Consensus size: 45
88487418 TATGTCCCGA
*
88487428 GGCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTC-TCAA--T
1 GGCCGATACATGTCCCAGACATGTCTTACACTAG--CTC--CAT-AATGT
*
88487475 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAATGT
1 GGCCGAT-ACATGTCCCAGACAT-GTCTTACACTAGCTC-CATAATGT
* * * * *
88487522 GGCCGATGCATGTACCAGACATGTCTTAGACTAGCACCTGTCTCAA--T
1 GGCCGATACATGTCCCAGACATGTCTTACACTAGCTCC---AT-AATGT
* ***
88487569 -GCCGATGCCATGTTGTAGACATGGTCTTACACTAGCTCCATAATGT
1 GGCCGAT-ACATGTCCCAGACAT-GTCTTACACTAGCTCCATAATGT
*
88487615 GGTCGATACATGTCCCAGACATGTCTTACACT
1 GGCCGATACATGTCCCAGACATGTCTTACACT
88487647 GGCGCACATA
Statistics
Matches: 139, Mismatches: 18, Indels: 32
0.74 0.10 0.17
Matches are distributed among these distances:
44 2 0.01
45 16 0.12
46 41 0.29
47 45 0.32
48 33 0.24
49 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (45 bp):
GGCCGATACATGTCCCAGACATGTCTTACACTAGCTCCATAATGT
Found at i:88490044 original size:24 final size:24
Alignment explanation
Indices: 88490008--88490067 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
88489998 CTGTTAGGAG
88490008 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
* *
88490032 AGGATTTATGAGTTGCTAAGGGAT
1 AGGATTTAGGAGTTGATAAGGGAT
88490056 AGGATTTAGGAG
1 AGGATTTAGGAG
88490068 CAGACAAGGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.32, C:0.02, G:0.37, T:0.30
Consensus pattern (24 bp):
AGGATTTAGGAGTTGATAAGGGAT
Found at i:88490076 original size:24 final size:24
Alignment explanation
Indices: 88490008--88490078 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
88489998 CTGTTAGGAG
*
88490008 AGGATTTAGGAGTTGATAAGGGAT
1 AGGATTTAGGAGTTGACAAGGGAT
*
88490032 AGGATTTATGAGTTG-CTAAGGGAT
1 AGGATTTAGGAGTTGAC-AAGGGAT
**
88490056 AGGATTTAGGAGCAGACAAGGGA
1 AGGATTTAGGAGTTGACAAGGGA
88490079 GGAAATCTAG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
24 39 0.98
25 1 0.03
ACGTcount: A:0.34, C:0.04, G:0.37, T:0.25
Consensus pattern (24 bp):
AGGATTTAGGAGTTGACAAGGGAT
Found at i:88491553 original size:27 final size:26
Alignment explanation
Indices: 88491495--88491605 Score: 123
Period size: 27 Copynumber: 4.1 Consensus size: 26
88491485 AGGAAGCATC
*
88491495 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTATGCCAC--ATTATCTGTT
*
88491523 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAT-TATCTGTT
* *
88491550 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTATGCCAC-ATTATCTGT-T
* *
88491578 CTGGTGACTATGTCACATTATCTGTT
1 CTGGTGGCTATGCCACATTATCTGTT
88491604 CT
1 CT
88491606 AGCAGCCATG
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
26 5 0.07
27 38 0.52
28 30 0.41
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTATGCCACATTATCTGTT
Found at i:88491580 original size:55 final size:54
Alignment explanation
Indices: 88491495--88491605 Score: 143
Period size: 55 Copynumber: 2.0 Consensus size: 54
88491485 AGGAAGCATC
* *
88491495 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTATGCCACAT-TATCTGTT
* * * *
88491550 CTGGTGGTTCTGCCAC-GATTATCTGTATCTGGTGACTATGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTG-ATCTGGTGACTATGCCACATTATCTGTT
88491604 CT
1 CT
88491606 AGCAGCCATG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
54 18 0.37
55 31 0.63
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTATGCCACATTATCTGTT
Found at i:88495318 original size:16 final size:16
Alignment explanation
Indices: 88495297--88495331 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
88495287 TTATACACTT
*
88495297 ATTTAGTCATGAAGTC
1 ATTTAGTCACGAAGTC
88495313 ATTTAGTCACGAAGTC
1 ATTTAGTCACGAAGTC
88495329 ATT
1 ATT
88495332 CCACAATAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (16 bp):
ATTTAGTCACGAAGTC
Found at i:88500153 original size:40 final size:39
Alignment explanation
Indices: 88500089--88500194 Score: 122
Period size: 40 Copynumber: 2.6 Consensus size: 39
88500079 ACTCGATATC
* * * *
88500089 TCACACACCAAGTGTCGTACATAGCCGAAGCTATCTCAAA
1 TCACACACTAAGTGCCATATATAGCCGAAGCTATCT-AAA
**
88500129 TCACACACTAAGTGCCATATATAGCCGAAGCTATCTTGA
1 TCACACACTAAGTGCCATATATAGCCGAAGCTATCTAAA
*
88500168 TCTTGCACACTAAGTGCCATATATAGC
1 TC--ACACACTAAGTGCCATATATAGC
88500195 TGATTTGTCA
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
39 3 0.05
40 32 0.56
41 22 0.39
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (39 bp):
TCACACACTAAGTGCCATATATAGCCGAAGCTATCTAAA
Found at i:88501217 original size:13 final size:13
Alignment explanation
Indices: 88501199--88501223 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88501189 GAAATAGTAT
88501199 GTATGAAAATTTC
1 GTATGAAAATTTC
88501212 GTATGAAAATTT
1 GTATGAAAATTT
88501224 AATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (13 bp):
GTATGAAAATTTC
Found at i:88502475 original size:43 final size:43
Alignment explanation
Indices: 88502324--88502475 Score: 130
Period size: 43 Copynumber: 3.5 Consensus size: 43
88502314 TATGTGTTTT
* * * *
88502324 CATGTAAGACCACGTTTGGGACATTGGTATCGACT-TATGAATTA
1 CATGTAAGACCACGTCTGGGACAATGGCATCGA-TATTTG-ATTA
* * * * *
88502368 CGTATAAGACCATGTCTGGGAC-ATCAGCATC-ATATTTGATTT
1 CATGTAAGACCACGTCTGGGACAAT-GGCATCGATATTTGATTA
* ** *
88502410 CGTGTAAGACCTGGTCTTGGACAATGGCATCGATATTTGATTA
1 CATGTAAGACCACGTCTGGGACAATGGCATCGATATTTGATTA
*
88502453 CATGTAAGACCACGTCTAGGACA
1 CATGTAAGACCACGTCTGGGACA
88502476 TTGGAATTGT
Statistics
Matches: 85, Mismatches: 19, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
42 27 0.32
43 36 0.42
44 22 0.26
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACAATGGCATCGATATTTGATTA
Found at i:88510216 original size:60 final size:61
Alignment explanation
Indices: 88510078--88510226 Score: 147
Period size: 60 Copynumber: 2.5 Consensus size: 61
88510068 TGGGGAAGCC
* * * * * * * *
88510078 ACCAGTAATGCAGACAATGTTTCCAGTAATGTGGTCGAGCCACCAGTAATGCAGATAAACT
1 ACCAGTAATGCAGACAAGGCTGCCAATATTATGGTCAAGCCACCAGTAATACAGATAAACT
* * * * *
88510139 ACTAGTAGTGCATACAA-GCTGCCAATATTATGGTCAAGTCACCAGTGATACAGATAAACT
1 ACCAGTAATGCAGACAAGGCTGCCAATATTATGGTCAAGCCACCAGTAATACAGATAAACT
* * *
88510199 GCCAGTAATGTAGACAAGGTTGCCAATA
1 ACCAGTAATGCAGACAAGGCTGCCAATA
88510227 CTTCCTCCTT
Statistics
Matches: 69, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
60 46 0.67
61 23 0.33
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (61 bp):
ACCAGTAATGCAGACAAGGCTGCCAATATTATGGTCAAGCCACCAGTAATACAGATAAACT
Found at i:88512836 original size:519 final size:519
Alignment explanation
Indices: 88511857--88512897 Score: 1992
Period size: 519 Copynumber: 2.0 Consensus size: 519
88511847 CTAACTATTA
88511857 ATGGCACAGTAAAGTCGTGAATATTATACTGCTCAATAGGTTTCTATAATAGTCTACTTCTCTCG
1 ATGGCACAGTAAAGTCGTGAATATTATACTGCTCAATAGGTTTCTATAATAGTCTACTTCTCTCG
*
88511922 AGAGCAAGGCCTTGGGTTACCTCCCTTAGGGCACTATCTGTCTATAGGCTTTAAGTTTGGCTACC
66 AGAGCAAGGCCTTGGGTTACCTCCCTTAGGGCACTATATGTCTATAGGCTTTAAGTTTGGCTACC
88511987 ACTAATATTTCTACCTTCTTTCATATGAGGCAAGGCTCTATGTCTAGAGGTTACTATGAATAAGA
131 ACTAATATTTCTACCTTCTTTCATATGAGGCAAGGCTCTATGTCTAGAGGTTACTATGAATAAGA
88512052 GATTAATCATTCATGCATATCATCCAACTTCTATCTAGTTAACCTAACCCTATCAGAATTAAGTT
196 GATTAATCATTCATGCATATCATCCAACTTCTATCTAGTTAACCTAACCCTATCAGAATTAAGTT
*
88512117 ATCTTTATAAACTTGCTGCATATTGGTTAATGTGCAGCCTGCATATAACATGAAATACCATTGAA
261 ATCTTTATAAACTTGCTGCATATTGGTTAATGTGCAACCTGCATATAACATGAAATACCATTGAA
88512182 TAAAAATGTAGAACAAACCAAAATTAAACTTTAAACATTAATAGAAATAAAGGTTTCATCAAAGT
326 TAAAAATGTAGAACAAACCAAAATTAAACTTTAAACATTAATAGAAATAAAGGTTTCATCAAAGT
* *
88512247 TATCCAGAGTCTAAAAGATTTAGCTCTTGGTTGGGCAAATCAAGTTTTAGTTTAATACGATAACG
391 TATCCAGAGCCTAAAAGATTTAGCTCATGGTTGGGCAAATCAAGTTTTAGTTTAATACGATAACG
* *
88512312 AACATCATCAATAACAAATAATCTTTAAAAGAAGCACGATAAGAAACAAAGGAGGATGTCTGAG
456 AACATCATCAATAACAAATAATCTTTAAAAGAAGCACGATAAGAAACAAAGGAGGAAGTCTAAG
88512376 ATGGCACAGTAAAGTCGTGAATATTATACTGCTCAATAGGTTTCTATAATAGTCTACTTCTCTCG
1 ATGGCACAGTAAAGTCGTGAATATTATACTGCTCAATAGGTTTCTATAATAGTCTACTTCTCTCG
88512441 AGAGCAAGGCCTTGGGTTACCTCCCTTAGGGCACTATATGTCTATAGGCTTTAAGTTTGGCTACC
66 AGAGCAAGGCCTTGGGTTACCTCCCTTAGGGCACTATATGTCTATAGGCTTTAAGTTTGGCTACC
* *
88512506 ATTAATATTTCTACCTTCTTTCATATGAGGCAAGGCTCTATGTCTAGAGGTTGCTATGAATAAGA
131 ACTAATATTTCTACCTTCTTTCATATGAGGCAAGGCTCTATGTCTAGAGGTTACTATGAATAAGA
88512571 GATTAATCATTCATGCATATCATCCAACTTCTATCTAGTTAACCTAACCCTATCAGAATTAAGTT
196 GATTAATCATTCATGCATATCATCCAACTTCTATCTAGTTAACCTAACCCTATCAGAATTAAGTT
88512636 ATCTTTATAAACTTGCTGCATATTGGTTAATGTGCAACCTGCATATAACATGAAATACCATTGAA
261 ATCTTTATAAACTTGCTGCATATTGGTTAATGTGCAACCTGCATATAACATGAAATACCATTGAA
*
88512701 TAAAAATGTAGAACAAACCAAAATTAAACTTTAAACATTAATAGAAATAAATGTTTCATCAAAGT
326 TAAAAATGTAGAACAAACCAAAATTAAACTTTAAACATTAATAGAAATAAAGGTTTCATCAAAGT
*
88512766 TATCCAGAGCCTAAAAGATTTAGCTCATGGTTGGGCAAATCAAGTTTTAGTTTAATACGATAATG
391 TATCCAGAGCCTAAAAGATTTAGCTCATGGTTGGGCAAATCAAGTTTTAGTTTAATACGATAACG
88512831 AACATCATCAATAACAAATAATCTTTAAAAGAAGCACGATAAGAAACAAAGGAGGAAGTCTAAG
456 AACATCATCAATAACAAATAATCTTTAAAAGAAGCACGATAAGAAACAAAGGAGGAAGTCTAAG
88512895 ATG
1 ATG
88512898 ACAGCTTTCA
Statistics
Matches: 512, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
519 512 1.00
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (519 bp):
ATGGCACAGTAAAGTCGTGAATATTATACTGCTCAATAGGTTTCTATAATAGTCTACTTCTCTCG
AGAGCAAGGCCTTGGGTTACCTCCCTTAGGGCACTATATGTCTATAGGCTTTAAGTTTGGCTACC
ACTAATATTTCTACCTTCTTTCATATGAGGCAAGGCTCTATGTCTAGAGGTTACTATGAATAAGA
GATTAATCATTCATGCATATCATCCAACTTCTATCTAGTTAACCTAACCCTATCAGAATTAAGTT
ATCTTTATAAACTTGCTGCATATTGGTTAATGTGCAACCTGCATATAACATGAAATACCATTGAA
TAAAAATGTAGAACAAACCAAAATTAAACTTTAAACATTAATAGAAATAAAGGTTTCATCAAAGT
TATCCAGAGCCTAAAAGATTTAGCTCATGGTTGGGCAAATCAAGTTTTAGTTTAATACGATAACG
AACATCATCAATAACAAATAATCTTTAAAAGAAGCACGATAAGAAACAAAGGAGGAAGTCTAAG
Found at i:88518568 original size:28 final size:29
Alignment explanation
Indices: 88518512--88518568 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
88518502 CCGAGCCTAG
*
88518512 GGGCAAAAATGTAAATATGCAAAAGTTTA
1 GGGCAAAAATGTAAATATCCAAAAGTTTA
* * *
88518541 GGGCAAAATTGTAATTTTCCAAAA-TTTA
1 GGGCAAAAATGTAAATATCCAAAAGTTTA
88518569 AGTTAAGGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.44, C:0.09, G:0.18, T:0.30
Consensus pattern (29 bp):
GGGCAAAAATGTAAATATCCAAAAGTTTA
Found at i:88519133 original size:93 final size:92
Alignment explanation
Indices: 88518981--88519151 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 92
88518971 GGATGGTTGA
* * *
88518981 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTT
88519046 GAGTCCAAGTTCGTGAGATGTAACTAG
66 GAGTCCAAGTTCGTGAGATGTAACTAG
* *
88519073 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
88519138 TGAGTCCGAGTTCG
65 TGAGTCCAAGTTCG
88519152 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 24 0.33
93 48 0.67
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTT
GAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:88519145 original size:46 final size:46
Alignment explanation
Indices: 88518985--88519158 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
88518975 GGTTGAGCAT
* *
88518985 CCGAACTCGTTGAGTTGAGT-CGAGTTCACTTATGGATGCAAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* * * * * *
88519030 CTGAACTCGTTGAGTTGAGTCCAAGTTC-GTGA--GATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ACGC
*
88519075 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
* *
88519123 CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
88519159 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
43 6 0.06
45 23 0.22
46 40 0.38
47 26 0.25
48 5 0.05
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGC
Found at i:88526111 original size:30 final size:30
Alignment explanation
Indices: 88526055--88526111 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
88526045 ATCCCGAGCC
*
88526055 TAGGGGCAAAAATGTAAATATGCAAAAGTT
1 TAGGGGCAAAAATGTAAATATCCAAAAGTT
* * *
88526085 TAGGGGCAAAATTGTAATTTTCCAAAA
1 TAGGGGCAAAAATGTAAATATCCAAAA
88526112 TTTGAGTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.21, T:0.26
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAAATATCCAAAAGTT
Found at i:88526582 original size:46 final size:46
Alignment explanation
Indices: 88526532--88526707 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
88526522 TGGTTGAGCA
*
88526532 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
88526578 TCCGAACTCGTTGAGTTGAGTCCGAG-T---TTGTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--A--CG
*
88526625 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
88526671 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
88526708 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 4 0.04
43 6 0.05
45 2 0.02
46 61 0.55
47 26 0.24
48 2 0.02
50 5 0.05
51 4 0.04
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:88526688 original size:93 final size:93
Alignment explanation
Indices: 88526529--88526698 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
88526519 GGATGGTTGA
* *
88526529 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
88526594 TGAGTCCGAGTTTGTGAGATGTAACTAG
66 TGAGTCCGAGTTTGTGAGATGTAACTAG
* *
88526622 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
88526687 TGAGTCCGAGTT
66 TGAGTCCGAGTT
88526699 CGCTTATGGG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTTGTGAGATGTAACTAG
Found at i:88533445 original size:13 final size:13
Alignment explanation
Indices: 88533427--88533453 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
88533417 GCTCGGCAGG
88533427 GACACGCCCGTGT
1 GACACGCCCGTGT
88533440 GACACGCCCGTGT
1 GACACGCCCGTGT
88533453 G
1 G
88533454 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:88558900 original size:26 final size:26
Alignment explanation
Indices: 88558871--88558921 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
88558861 CGCATTTTGA
88558871 TGCGATAATATGATTGAGCACTTCGG
1 TGCGATAATATGATTGAGCACTTCGG
* * *
88558897 TGCGATATTGTGATTGAGCAGTTCG
1 TGCGATAATATGATTGAGCACTTCG
88558922 ATCTGATACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (26 bp):
TGCGATAATATGATTGAGCACTTCGG
Found at i:88559360 original size:22 final size:20
Alignment explanation
Indices: 88559314--88559361 Score: 51
Period size: 22 Copynumber: 2.3 Consensus size: 20
88559304 TGAGAAGTAT
* *
88559314 TAAAATATACTTAATTGGTG
1 TAAAATATAATTAATTAGTG
*
88559334 AAAAATATATATTATATTAGTG
1 TAAAATATA-ATTA-ATTAGTG
88559356 TAAAAT
1 TAAAAT
88559362 TGATAAAAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 8 0.36
21 3 0.14
22 11 0.50
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (20 bp):
TAAAATATAATTAATTAGTG
Found at i:88564101 original size:48 final size:49
Alignment explanation
Indices: 88563953--88564140 Score: 165
Period size: 48 Copynumber: 3.9 Consensus size: 49
88563943 AGGTTTTGGT
* * * * *
88563953 GATGATATGTGT-ACCAGTGTAAGACCATGTTTGGGACATGGGATCGGC
1 GATGATATGTGTGACCAATGTAAGACCATGTCTAGGACATGGCATCGAC
* * * ** * * * *
88564001 AATGATATATGTGCCCGGTATAAGACCATGTCT-GGGCATGGCAT-TAGT
1 GATGATATGTGTGACCAATGTAAGACCATGTCTAGGACATGGCATCGA-C
88564049 GATGATATGTGTG-CCAATGTAAGACCATGTCTAGGACATGGCATCGAC
1 GATGATATGTGTGACCAATGTAAGACCATGTCTAGGACATGGCATCGAC
*
88564097 GATGATATGTG-GATTC-ATGTAAGACCATGT-TGAGGACATGGCAT
1 GATGATATGTGTGA-CCAATGTAAGACCATGTCT-AGGACATGGCAT
88564141 TGGTACTTTA
Statistics
Matches: 113, Mismatches: 20, Indels: 14
0.77 0.14 0.10
Matches are distributed among these distances:
47 18 0.16
48 77 0.68
49 18 0.16
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (49 bp):
GATGATATGTGTGACCAATGTAAGACCATGTCTAGGACATGGCATCGAC
Found at i:88568449 original size:42 final size:44
Alignment explanation
Indices: 88568373--88568455 Score: 116
Period size: 42 Copynumber: 1.9 Consensus size: 44
88568363 CTCGATTGAG
**
88568373 ATTTACGTATAAGACCATGTCTGGGACATCGGCATC-ATATCTA
1 ATTTACGTATAAGACCATGTCTGGGACAGAGGCATCGATATCTA
* *
88568416 ATTTA-GTGTAAGACCCTGTCTGGGACAGAGGCATCGATAT
1 ATTTACGTATAAGACCATGTCTGGGACAGAGGCATCGATAT
88568456 TGAATTACAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 26 0.74
43 9 0.26
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (44 bp):
ATTTACGTATAAGACCATGTCTGGGACAGAGGCATCGATATCTA
Found at i:88575652 original size:42 final size:42
Alignment explanation
Indices: 88575573--88575675 Score: 109
Period size: 42 Copynumber: 2.4 Consensus size: 42
88575563 CCTCGATTGA
* ** *
88575573 GATTTACGTATAAGACCATGTCTGGGACATCGGCATCG-TATCT
1 GATTT-CGTGTAAGACCATGTCTGGGACAGAGCCATCGATAT-T
*
88575616 GATTTCGTGTAAGACCCTGTCTGGGACAGAGCCATCGATATT
1 GATTTCGTGTAAGACCATGTCTGGGACAGAGCCATCGATATT
* *
88575658 GAATTACATGTAAGACCA
1 G-ATTTCGTGTAAGACCA
88575676 CGTTCGAGAT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 29 0.58
43 21 0.42
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (42 bp):
GATTTCGTGTAAGACCATGTCTGGGACAGAGCCATCGATATT
Found at i:88579069 original size:19 final size:19
Alignment explanation
Indices: 88579042--88579102 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
88579032 TATCAAAGTA
88579042 AATAGATATTTATTATTTTT
1 AATA-ATATTTATTATTTTT
* *
88579062 AATAATATTTATTA-ATTA
1 AATAATATTTATTATTTTT
88579080 AATAATTATTTATAATATTTTT
1 AATAA-TATTTAT--TATTTTT
88579102 A
1 A
88579103 TGAAATAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
18 7 0.21
19 17 0.52
20 4 0.12
21 2 0.06
22 3 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
AATAATATTTATTATTTTT
Found at i:88579229 original size:14 final size:15
Alignment explanation
Indices: 88579210--88579241 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
88579200 TGATAGATAT
88579210 TTATAATA-ATTAAA
1 TTATAATATATTAAA
88579224 TTATAATATATTAAA
1 TTATAATATATTAAA
88579239 TTA
1 TTA
88579242 ATAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTATAATATATTAAA
Found at i:88579243 original size:24 final size:25
Alignment explanation
Indices: 88579181--88579248 Score: 61
Period size: 24 Copynumber: 2.8 Consensus size: 25
88579171 TATACATTTG
* *
88579181 TATTATATTATTAATTATATGATAGA
1 TATT-TATAATTAATTAAATGATAGA
*
88579207 TATTTATAA-TAATTAAATTATA-A
1 TATTTATAATTAATTAAATGATAGA
*
88579230 TATATTA-AATTAATAAAAT
1 TAT-TTATAATTAATTAAAT
88579249 AAATAAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
23 6 0.17
24 22 0.61
25 4 0.11
26 4 0.11
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (25 bp):
TATTTATAATTAATTAAATGATAGA
Found at i:88579770 original size:17 final size:18
Alignment explanation
Indices: 88579748--88579783 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
88579738 TAAATGAGTT
88579748 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
88579765 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
88579783 A
1 A
88579784 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:88583415 original size:48 final size:48
Alignment explanation
Indices: 88583264--88583450 Score: 209
Period size: 48 Copynumber: 3.9 Consensus size: 48
88583254 TGTTTTGGCA
* * *
88583264 ATGATATGTGTACCAGTGTAAGACCATGTTTGGGACATGGCATCGGTG
1 ATGATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGTG
* * * * **
88583312 ATGATATATGTTCCCGGTGTAAGACCATGTCT-GGGCATGGCATTAGTG
1 ATGATATGTG-TGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGTG
*
88583360 ATGATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCG
1 ATGATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGTG
* * *
88583408 ATGATATGTG-GATTCA-TGTAAGACCATGTCGAGGATATGGCAT
1 ATGATATGTGTG--CCAGTGTAAGACCATGTCTAGGACATGGCAT
88583451 TGGTACTTTA
Statistics
Matches: 118, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
47 20 0.17
48 78 0.66
49 20 0.17
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.29
Consensus pattern (48 bp):
ATGATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGTG
Found at i:88583451 original size:96 final size:95
Alignment explanation
Indices: 88583264--88583437 Score: 253
Period size: 96 Copynumber: 1.8 Consensus size: 95
88583254 TGTTTTGGCA
* * * *
88583264 ATGATATGTGTACCAGTGTAAGACCATGTTTGGGACATGGCATCGGTGATGATATATGTTCCCGG
1 ATGATATGTGTACCAGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATATGTT-CCGA
88583329 TGTAAGACCATGTCTGGGCATGGCATTAGTG
65 TGTAAGACCATGTCTGGGCATGGCATTAGTG
* *
88583360 ATGATATGTGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATGTGGATT-C-
1 ATGATATGTGTACCAGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATAT-G-TTCCG
88583423 ATGTAAGACCATGTC
64 ATGTAAGACCATGTC
88583438 GAGGATATGG
Statistics
Matches: 70, Mismatches: 6, Indels: 5
0.86 0.07 0.06
Matches are distributed among these distances:
95 14 0.20
96 53 0.76
97 1 0.01
98 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (95 bp):
ATGATATGTGTACCAGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATATGTTCCGAT
GTAAGACCATGTCTGGGCATGGCATTAGTG
Found at i:88591550 original size:25 final size:25
Alignment explanation
Indices: 88591520--88591575 Score: 103
Period size: 25 Copynumber: 2.2 Consensus size: 25
88591510 GTAAATCCTA
88591520 ACTTAGTGAATTTAGATACTTTAAC
1 ACTTAGTGAATTTAGATACTTTAAC
88591545 ACTTAGTGAATTTAGATACTTTAAC
1 ACTTAGTGAATTTAGATACTTTAAC
88591570 ATCTTA
1 A-CTTA
88591576 TTTGGATGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 26 0.87
26 4 0.13
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (25 bp):
ACTTAGTGAATTTAGATACTTTAAC
Found at i:88596907 original size:24 final size:24
Alignment explanation
Indices: 88596875--88596925 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
88596865 GAAACATGGT
* *
88596875 CACATGCCCGTGTGGACACAGGGA
1 CACACGCCCATGTGGACACAGGGA
88596899 CACACGCCCATGTGGACACAGGGA
1 CACACGCCCATGTGGACACAGGGA
88596923 CAC
1 CAC
88596926 TCCCGTGTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.27, C:0.33, G:0.29, T:0.10
Consensus pattern (24 bp):
CACACGCCCATGTGGACACAGGGA
Found at i:88611106 original size:15 final size:15
Alignment explanation
Indices: 88611086--88611116 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
88611076 CCATATGTCA
88611086 ACCACATCCAAACAT
1 ACCACATCCAAACAT
*
88611101 ACCACATTCAAACAT
1 ACCACATCCAAACAT
88611116 A
1 A
88611117 TCAAAAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.35, G:0.00, T:0.16
Consensus pattern (15 bp):
ACCACATCCAAACAT
Found at i:88614333 original size:14 final size:14
Alignment explanation
Indices: 88614314--88614343 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
88614304 TAGGAGTTGA
88614314 TAAGGGATAAGATT
1 TAAGGGATAAGATT
*
88614328 TAAGGGATAGGATT
1 TAAGGGATAAGATT
88614342 TA
1 TA
88614344 GGAGCAGATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (14 bp):
TAAGGGATAAGATT
Found at i:88615832 original size:27 final size:26
Alignment explanation
Indices: 88615774--88615886 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
88615764 AGGAAGCGTC
* *
88615774 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
88615802 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
88615829 CTGGTGGTTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
88615857 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
88615883 CTGG
1 CTGG
88615887 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
26 7 0.09
27 38 0.50
28 31 0.41
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:88615859 original size:55 final size:54
Alignment explanation
Indices: 88615774--88615886 Score: 156
Period size: 55 Copynumber: 2.1 Consensus size: 54
88615764 AGGAAGCGTC
*
88615774 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACAT-TATCTGTT
* * * *
88615829 CTGGTGGTTCTGCCAC-GATTATCTGTATCTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTATGCCACAAATTATCTG-ATCTGGTGACTCTGCCACATTATCTGTT
88615883 CTGG
1 CTGG
88615887 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
54 20 0.38
55 32 0.62
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATTATCTGATCTGGTGACTCTGCCACATTATCTGTT
Found at i:88620893 original size:14 final size:14
Alignment explanation
Indices: 88620874--88620901 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
88620864 AATAGGTGAA
88620874 AGTGTGTACCAAAT
1 AGTGTGTACCAAAT
88620888 AGTGTGTACCAAAT
1 AGTGTGTACCAAAT
88620902 TGTCGTGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (14 bp):
AGTGTGTACCAAAT
Found at i:88630009 original size:81 final size:81
Alignment explanation
Indices: 88629872--88630062 Score: 274
Period size: 81 Copynumber: 2.4 Consensus size: 81
88629862 TTATTCAGAT
* * *
88629872 GATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACCATATCCGGGTTAAGTCCCGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCATTTTCTGCTAGTGACCATATCCGGGCTAAGTCCCGAAGG
*
88629937 CATTTGCACTAGTGAC
66 CATTTGCACGAGTGAC
* *
88629953 GATATCCGGGCTAAGACCCGAAGGCATTTTCTGCTAGTGACTATATCCGGGCTAAGTCCTGAAGG
1 GATATCCGGGCTAAGACCCGAAGGCATTTTCTGCTAGTGACCATATCCGGGCTAAGTCCCGAAGG
** *
88630018 CATTTGTGCGAGTTAC
66 CATTTGCACGAGTGAC
* * *
88630034 TATATCCGGGCTAAGTCCCAAAGGCATTT
1 GATATCCGGGCTAAGACCCGAAGGCATTT
88630063 GTGCGATTTG
Statistics
Matches: 98, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 98 1.00
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.26
Consensus pattern (81 bp):
GATATCCGGGCTAAGACCCGAAGGCATTTTCTGCTAGTGACCATATCCGGGCTAAGTCCCGAAGG
CATTTGCACGAGTGAC
Found at i:88630082 original size:40 final size:40
Alignment explanation
Indices: 88629873--88630066 Score: 262
Period size: 40 Copynumber: 4.8 Consensus size: 40
88629863 TATTCAGATG
* *
88629873 ATATCCGGGCTAAGACCCGAAGGCACTTTGTGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* ** *
88629914 ATATCCGGGTTAAGTCCCGAAGGCATTTGCACTAGTGACG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
88629954 ATATCCGGGCTAAGACCCGAAGGCATTTTCTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTGCTAGTGACT
* * *
88629995 ATATCCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
88630035 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC
88630067 GATTTGCTAT
Statistics
Matches: 134, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
40 77 0.57
41 57 0.43
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:88632824 original size:27 final size:27
Alignment explanation
Indices: 88632794--88632880 Score: 122
Period size: 27 Copynumber: 3.2 Consensus size: 27
88632784 GTGACAGTGT
88632794 CACCAGAACAGATAATTGTGGCAAAGC
1 CACCAGAACAGATAATTGTGGCAAAGC
**
88632821 CACCAGAACAGAT-ATATGTGGCAGTGC
1 CACCAGAACAGATAAT-TGTGGCAAAGC
* *
88632848 CACCAGATCAGATAATTGTGGCATAGC
1 CACCAGAACAGATAATTGTGGCAAAGC
88632875 CACCAG
1 CACCAG
88632881 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
26 2 0.04
27 49 0.92
28 2 0.04
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (27 bp):
CACCAGAACAGATAATTGTGGCAAAGC
Found at i:88632853 original size:54 final size:53
Alignment explanation
Indices: 88632770--88632880 Score: 168
Period size: 54 Copynumber: 2.1 Consensus size: 53
88632760 AGCATGGCTG
* *
88632770 CCAGAATAGATAATGTGACAGTGTCACCAGAACAGATAATTGTGGCAAAGCCA
1 CCAGAACAGATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAAAGCCA
* * *
88632823 CCAGAACAGATATATGTGGCAGTGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGTGCCACCAGAACAGATAATTGTGGCAAAGCCA
88632877 CCAG
1 CCAG
88632881 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
53 11 0.21
54 41 0.79
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAAAGCCA
Found at i:88634385 original size:24 final size:25
Alignment explanation
Indices: 88634310--88634386 Score: 106
Period size: 24 Copynumber: 3.2 Consensus size: 25
88634300 CCAACACCGT
*
88634310 TCTCCCTAATCAGCTC-CTAAATCC
1 TCTCCCTTATCAGCTCTCTAAATCC
*
88634334 TCTACCTTATCAGCT-TCTAAATCC
1 TCTCCCTTATCAGCTCTCTAAATCC
*
88634358 TCTCCCTTATCAGCTCTC-AAATCT
1 TCTCCCTTATCAGCTCTCTAAATCC
88634382 TCTCC
1 TCTCC
88634387 TAACAGCCTT
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
24 45 0.96
25 2 0.04
ACGTcount: A:0.22, C:0.39, G:0.04, T:0.35
Consensus pattern (25 bp):
TCTCCCTTATCAGCTCTCTAAATCC
Found at i:88649127 original size:18 final size:18
Alignment explanation
Indices: 88649093--88649127 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
88649083 AATTAATATT
*
88649093 AGAAATAAATTTAAATTG
1 AGAAATAAATTCAAATTG
*
88649111 AGAAATAAATTCGAATT
1 AGAAATAAATTCAAATT
88649128 TTTATAAACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.03, G:0.11, T:0.31
Consensus pattern (18 bp):
AGAAATAAATTCAAATTG
Found at i:88649881 original size:13 final size:13
Alignment explanation
Indices: 88649859--88649889 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
88649849 ATTCAGTTCC
88649859 AAAT-TGAAATTA
1 AAATGTGAAATTA
88649871 AAATGTGAAATTA
1 AAATGTGAAATTA
88649884 AAATGT
1 AAATGT
88649890 ATCTTTCCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.22
13 14 0.78
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (13 bp):
AAATGTGAAATTA
Found at i:88650664 original size:48 final size:48
Alignment explanation
Indices: 88650569--88650666 Score: 128
Period size: 49 Copynumber: 2.0 Consensus size: 48
88650559 AATTCTAAAA
* *
88650569 AAATTCAAAAAATATATAAAAATACATAAATCTTTAAAATAATATAAT
1 AAATTCAAAAAACATATAAAAATACATAAATCTTTAAAATAAAATAAT
* *
88650617 AAATTCAAAAAAACATATAAAAATACATTATAT-TTT-ATATAAAATAAT
1 AAATTC-AAAAAACATATAAAAATACA-TAAATCTTTAAAATAAAATAAT
88650665 AA
1 AA
88650667 GTTAATCCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
48 18 0.41
49 22 0.50
50 4 0.09
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (48 bp):
AAATTCAAAAAACATATAAAAATACATAAATCTTTAAAATAAAATAAT
Found at i:88651956 original size:29 final size:29
Alignment explanation
Indices: 88651924--88651979 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
88651914 AATGATTTAA
*
88651924 TATAAATTTTA-AGTAATTTTATTATTTGG
1 TATAAATATTAGAGTAA-TTTATTATTTGG
* *
88651953 TATATATATTAGATTAATTTATTATTT
1 TATAAATATTAGAGTAATTTATTATTT
88651980 TATATAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 19 0.83
30 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (29 bp):
TATAAATATTAGAGTAATTTATTATTTGG
Found at i:88657621 original size:3 final size:3
Alignment explanation
Indices: 88657613--88657647 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
88657603 CAAGAAAACT
*
88657613 ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
88657648 CATAGCTTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:88659092 original size:14 final size:15
Alignment explanation
Indices: 88659065--88659093 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
88659055 TGTTTGATAA
88659065 ACTGAAATATTAAAT
1 ACTGAAATATTAAAT
88659080 ACTGAAA-ATTAAAT
1 ACTGAAATATTAAAT
88659094 GTTTAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (15 bp):
ACTGAAATATTAAAT
Found at i:88664931 original size:88 final size:90
Alignment explanation
Indices: 88664704--88665155 Score: 367
Period size: 88 Copynumber: 5.1 Consensus size: 90
88664694 AAAATCAGCC
* * * * *
88664704 ACAAATCTTATCTCCCTAAAGTTGCAATATAGCAGATTAAAGCCAAAAATCTTATCTCCCTGAAG
1 ACAAATCTTATCTCCCTAAAGTTGCAGTAGAGCATATTAAAGCTACAAATCTTATCTCCCTGAAG
*
88664769 TTGCAAT-GAAGTAGATTGAAAA--TA
66 TTGCAGTAG-AGTAGATT-AAAAGGTA
** * * *
88664793 ACAAATCTTATCTTTCTAAAGTTGCAGTAGAGTAGATTAAAGCTACAAATCTTATCTCTCTGAAG
1 ACAAATCTTATCTCCCTAAAGTTGCAGTAGAGCATATTAAAGCTACAAATCTTATCTCCCTGAAG
*
88664858 TTGCAGTAGAGCAGATT-AAAGGT-
66 TTGCAGTAGAGTAGATTAAAAGGTA
* * * * *
88664881 ACAAACCTTATCTCCCTAAAGTTACAGT-GAAGCATATTTAAGTTACAAATCTTATCTCCTTGAA
1 ACAAATCTTATCTCCCTAAAGTTGCAGTAG-AGCATATTAAAGCTACAAATCTTATCTCCCTGAA
* * * *
88664945 GTTACAGTGGAGTAGATT-GAA-GTT
65 GTTGCAGTAGAGTAGATTAAAAGGTA
* * * * *
88664969 AGAAATCTCATCTCCTTAAAGTTGCAGTAGAGCATATTAAAGC-AGCAAAT-TCTATGTCTCC-A
1 ACAAATCTTATCTCCCTAAAGTTGCAGTAGAGCATATTAAAGCTA-CAAATCT-TATCTC-CCTG
* * *
88665031 AAGTTGCAGTAG-GTCGGATTAAATCAAGTC
63 AAGTTGCAGTAGAGT-AGATTAAA--AGGTA
* * * * * *
88665061 ACAAATATTATCTCCCTGAAGTTGCAGT-GAAACATATTGAAGCTACAAGTCTTATCTCCCTAAA
1 ACAAATCTTATCTCCCTAAAGTTGCAGTAG-AGCATATTAAAGCTACAAATCTTATCTCCCTGAA
* * *
88665125 GTTGTAGTGGAGTAGATT-GAA-GTA
65 GTTGCAGTAGAGTAGATTAAAAGGTA
88665149 ACAAATC
1 ACAAATC
88665156 ATATACCTCT
Statistics
Matches: 290, Mismatches: 54, Indels: 39
0.76 0.14 0.10
Matches are distributed among these distances:
87 10 0.03
88 135 0.47
89 75 0.26
90 1 0.00
91 5 0.02
92 60 0.21
93 4 0.01
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (90 bp):
ACAAATCTTATCTCCCTAAAGTTGCAGTAGAGCATATTAAAGCTACAAATCTTATCTCCCTGAAG
TTGCAGTAGAGTAGATTAAAAGGTA
Found at i:88665144 original size:44 final size:44
Alignment explanation
Indices: 88664704--88665178 Score: 325
Period size: 44 Copynumber: 10.7 Consensus size: 44
88664694 AAAATCAGCC
* ** *
88664704 ACAAATCTTATCTCCCTAAAGTTGCAATATAGCAGATTAAAGCC
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * * * * *
88664748 AAAAATCTTATCTCCCTGAAGTTGCAATGAAGTAGATTGAAA-AT
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATT-AAAGCT
** * *
88664792 AACAAATCTTATCTTTCTAAAGTTGCAGTAGAGTAGATTAAAGCT
1 -ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * * *
88664837 ACAAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGGT
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * * * * *
88664881 ACAAACCTTATCTCCCTAAAGTTACAGTGAAGCATATTTAAGTT
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * * * * *
88664925 ACAAATCTTATCTCCTTGAAGTTACAGTGGAGTAGATTGAAGTT
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * * * *
88664969 AGAAATCTCATCTCCTTAAAGTTGCAGTAGAGCATATTAAAGC-
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * * *
88665012 AGCAAAT-TCTATGTCTCC-AAAGTTGCAGTAGG-TCGGATTAAATCAAGT
1 A-CAAATCT-TATCTC-CCTAAAGTTGCAGT-GGAGCAGATTAAAGC---T
* * * * * *
88665060 CACAAATATTATCTCCCTGAAGTTGCAGTGAAACATATTGAAGCT
1 -ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * * *
88665105 ACAAGTCTTATCTCCCTAAAGTTGTAGTGGAGTAGATTGAAG-T
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
* * *
88665148 AACAAATCATATAC-CTCTGAAGTTGCAGTGG
1 -ACAAATCTTAT-CTCCCTAAAGTTGCAGTGG
88665179 GTTAGAATGA
Statistics
Matches: 340, Mismatches: 74, Indels: 34
0.76 0.17 0.08
Matches are distributed among these distances:
43 3 0.01
44 266 0.78
45 39 0.11
47 3 0.01
48 27 0.08
49 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCT
Found at i:88665361 original size:6 final size:6
Alignment explanation
Indices: 88665350--88665379 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
88665340 CAGCAACCAA
*
88665350 AAAAAT AAAAAT AAAGAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
88665380 TAACAGTCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:88667673 original size:29 final size:30
Alignment explanation
Indices: 88667609--88667673 Score: 78
Period size: 31 Copynumber: 2.2 Consensus size: 30
88667599 AATCTTAAAA
*
88667609 TTATACATGAACTATGGTTTAATGTGCAACT
1 TTATACATGAACTATGATTT-ATGTGCAACT
* * *
88667640 ATATACATGAACTTTGATTT-TGTGCAATT
1 TTATACATGAACTATGATTTATGTGCAACT
88667669 TTATA
1 TTATA
88667674 AATAAAATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
29 12 0.41
31 17 0.59
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (30 bp):
TTATACATGAACTATGATTTATGTGCAACT
Found at i:88667907 original size:29 final size:31
Alignment explanation
Indices: 88667864--88667942 Score: 90
Period size: 31 Copynumber: 2.6 Consensus size: 31
88667854 TTTGAACCAC
* * *
88667864 AATTAGAGTTTCATGTGTATAATTGCAC-T-A
1 AATTAAAG-TTCATGTATACAATTGCACATAA
*
88667894 AATTAAAGTTCATGTATACAATTGTACATAA
1 AATTAAAGTTCATGTATACAATTGCACATAA
*
88667925 AATCAAAGTTCATGTATA
1 AATTAAAGTTCATGTATA
88667943 ATTTTAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 16 0.38
30 8 0.19
31 18 0.43
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.37
Consensus pattern (31 bp):
AATTAAAGTTCATGTATACAATTGCACATAA
Found at i:88668875 original size:29 final size:30
Alignment explanation
Indices: 88668818--88668878 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 30
88668808 ATAAACCTAT
**
88668818 ATTTTTAAATTTAAAAAATAAAGAGATTAA
1 ATTTTTAAAAATAAAAAATAAAGAGATTAA
88668848 ATTTTTAAAAATAAAAATATAAA-A-ATTAA
1 ATTTTTAAAAATAAAAA-ATAAAGAGATTAA
88668877 AT
1 AT
88668879 ATATGAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 7 0.25
30 16 0.57
31 5 0.18
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (30 bp):
ATTTTTAAAAATAAAAAATAAAGAGATTAA
Found at i:88670806 original size:22 final size:22
Alignment explanation
Indices: 88670778--88670842 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
88670768 GAGTATGAAA
88670778 CTGCATTTG-ATTCTGATCTGTT
1 CTGCATTTGTA-TCTGATCTGTT
*
88670800 CTGCATTTGTATCTGATTTGTT
1 CTGCATTTGTATCTGATCTGTT
* * *
88670822 CTACATCT-TATCTGAACTGTT
1 CTGCATTTGTATCTGATCTGTT
88670843 ATGATAATAC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
21 11 0.30
22 25 0.68
23 1 0.03
ACGTcount: A:0.17, C:0.18, G:0.15, T:0.49
Consensus pattern (22 bp):
CTGCATTTGTATCTGATCTGTT
Found at i:88678564 original size:61 final size:58
Alignment explanation
Indices: 88678492--88678607 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 58
88678482 AGTGATTATC
88678492 TTAATATTAAATTAAATT-TAATATTTATCTTATAGATAAATATTATATTAATTTAATAGAT
1 TTAATATTAAATT-AATTCTAATATTTATC-T-T-GATAAATATTATATTAATTTAATAGAT
* * *
88678553 TTAATATTAAATTTATTCTAATATTTATCTTGATAAGTATTATATTATTTTAATA
1 TTAATATTAAATTAATTCTAATATTTATCTTGATAAATATTATATTAATTTAATA
88678608 TTAAAGTGAT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
58 22 0.43
59 1 0.02
60 4 0.08
61 24 0.47
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (58 bp):
TTAATATTAAATTAATTCTAATATTTATCTTGATAAATATTATATTAATTTAATAGAT
Found at i:88680942 original size:43 final size:43
Alignment explanation
Indices: 88680893--88680980 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
88680883 TAAAAAGTAA
88680893 GGCTATATATAAACCCTCTTAATAGCCTATAATTAACCAATGT
1 GGCTATATATAAACCCTCTTAATAGCCTATAATTAACCAATGT
*
88680936 GGCTATATATAAACCCTCTTAATAGCCTATACTTAACCAATGT
1 GGCTATATATAAACCCTCTTAATAGCCTATAATTAACCAATGT
88680979 GG
1 GG
88680981 GATATACCCA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (43 bp):
GGCTATATATAAACCCTCTTAATAGCCTATAATTAACCAATGT
Found at i:88680966 original size:24 final size:24
Alignment explanation
Indices: 88680895--88680966 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
88680885 AAAAGTAAGG
88680895 CTATATATAAACCCTCTTAATAGC
1 CTATATATAAACCCTCTTAATAGC
* * *
88680919 CTATA-ATTAA--C-C--AATGTGG
1 CTATATATAAACCCTCTTAAT-AGC
88680938 CTATATATAAACCCTCTTAATAGC
1 CTATATATAAACCCTCTTAATAGC
88680962 CTATA
1 CTATA
88680967 CTTAACCAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
18 3 0.09
19 6 0.17
20 5 0.14
21 1 0.03
22 1 0.03
23 5 0.14
24 11 0.31
25 3 0.09
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.33
Consensus pattern (24 bp):
CTATATATAAACCCTCTTAATAGC
Found at i:88681608 original size:87 final size:86
Alignment explanation
Indices: 88681455--88681619 Score: 267
Period size: 87 Copynumber: 1.9 Consensus size: 86
88681445 AAATTTAGAT
** *
88681455 TCGGTGAATTCATCAAGTTTGTCTCAATAGGACCACCCAAACTCTAGGATATGAACTCATTGAGA
1 TCGGTGAATTCATCAAGTTCATCTCAATAGGACCACCCAAACTCTAGGATATGAACTCATTAAGA
88681520 GTAATAAACTCAACCTCTCAAA
66 GTAA-AAACTCAACCTCTCAAA
* * *
88681542 TCGGTGAATTCATCAAGTTCATCTCAATAGGACCACCCAAACTCTAGGATGTGAATTTATTAAGA
1 TCGGTGAATTCATCAAGTTCATCTCAATAGGACCACCCAAACTCTAGGATATGAACTCATTAAGA
88681607 GTAAAAACTCAAC
66 GTAAAAACTCAAC
88681620 TTTATGCATG
Statistics
Matches: 72, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
86 9 0.12
87 63 0.88
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (86 bp):
TCGGTGAATTCATCAAGTTCATCTCAATAGGACCACCCAAACTCTAGGATATGAACTCATTAAGA
GTAAAAACTCAACCTCTCAAA
Found at i:88685951 original size:47 final size:47
Alignment explanation
Indices: 88685891--88686135 Score: 355
Period size: 47 Copynumber: 5.2 Consensus size: 47
88685881 TTAGGATTTT
* ** * * *
88685891 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATGTGTGCTAAGGCCGAATGGCAA
*
88685938 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATGTGTGCTAAGGCCGAATGGCAA
* *
88685985 ATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGAAA
1 ATGTGATGAATGTGAACATGCATATGTGTGCTAAGGCCGAATGGCAA
* * * *
88686032 ATGTGATGAATGTGAACATGCATTTGTGTGATAAGACCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGCTAAGGCCGAATGGCAA
* *
88686079 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATGTGTGCTAAGGCCGAATGGCAA
88686126 ATGTGATGAA
1 ATGTGATGAA
88686136 CGAGGAAGTG
Statistics
Matches: 184, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 184 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATGTGTGCTAAGGCCGAATGGCAA
Found at i:88686012 original size:23 final size:23
Alignment explanation
Indices: 88685939--88686012 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 23
88685929 GAATGGCAAA
88685939 TGTGATGAATGTGAACATGCATT
1 TGTGATGAATGTGAACATGCATT
* * **
88685962 TGTG-TGCTAAGGCCG-A-ATGGCAAA
1 TGTGATG--AATG-TGAACAT-GCATT
88685986 TGTGATGAATGTGAACATGCATT
1 TGTGATGAATGTGAACATGCATT
88686009 TGTG
1 TGTG
88686013 TGCTAAGGCC
Statistics
Matches: 36, Mismatches: 8, Indels: 14
0.62 0.14 0.24
Matches are distributed among these distances:
22 3 0.08
23 17 0.47
24 13 0.36
25 3 0.08
ACGTcount: A:0.28, C:0.11, G:0.30, T:0.31
Consensus pattern (23 bp):
TGTGATGAATGTGAACATGCATT
Found at i:88686165 original size:47 final size:47
Alignment explanation
Indices: 88685926--88686169 Score: 179
Period size: 47 Copynumber: 5.2 Consensus size: 47
88685916 ATGAGCTAAG
* * * * * ** *
88685926 GCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGCTAAG
1 GCCGAATGGCCAATGTGATGAACGGGAACATGCATATATGTGAGAAA
* * * * * ** *
88685973 GCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGCTAAG
1 GCCGAATGGCCAATGTGATGAACGGGAACATGCATATATGTGAGAAA
** * * *
88686020 GCCGAATGGAAAATGTGATGAATGTGAACATGCAT-T-TGTGTGATAA
1 GCCGAATGGCCAATGTGATGAACGGGAACATGCATATATGTGAGA-AA
* * * * *
88686066 GACCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAG
1 G-CCGAATGGCCAATGTGATGAACGGGAACATGCATATATGTGAGAAA
* * *
88686114 GCCGAATGGCCAATGTGATGAACGAGGAA-GTGTATATATGTGGGAAA
1 GCCGAATGGCCAATGTGATGAACG-GGAACATGCATATATGTGAGAAA
88686161 GCCGAATGG
1 GCCGAATGG
88686170 TTAATGCGAA
Statistics
Matches: 175, Mismatches: 17, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
45 5 0.03
46 3 0.02
47 156 0.89
48 6 0.03
49 5 0.03
ACGTcount: A:0.32, C:0.12, G:0.31, T:0.25
Consensus pattern (47 bp):
GCCGAATGGCCAATGTGATGAACGGGAACATGCATATATGTGAGAAA
Found at i:88686166 original size:94 final size:93
Alignment explanation
Indices: 88685922--88686169 Score: 302
Period size: 94 Copynumber: 2.6 Consensus size: 93
88685912 ATATATGAGC
* * * * *
88685922 TAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGCTAAGGCCGAATGGCAAAT
1 TAAGGCCGAATGGAAAATGTGATGAACGGGAACATGCATTTGTGGGATAA-GCCGAATGGCAAAT
* *
88685987 GTGATGAATGTGAACATGCATTTGTGTGC
65 GTGATGAATGTGAACATGCATATGTGTGA
* * * *
88686016 TAAGGCCGAATGGAAAATGTGATGAATGTGAACATGCATTTGTGTGATAAGACCGAATGGCCAAT
1 TAAGGCCGAATGGAAAATGTGATGAACGGGAACATGCATTTGTGGGATAAG-CCGAATGGCAAAT
88686081 GTGATGAATGTGAACATGCATATGTGTGA
65 GTGATGAATGTGAACATGCATATGTGTGA
** * *
88686110 TAAGGCCGAATGGCCAATGTGATGAACGAGGAA-GTGTATATATGTGGGA-AAGCCGAATGG
1 TAAGGCCGAATGGAAAATGTGATGAACG-GGAACATGCAT-T-TGTGGGATAAGCCGAATGG
88686170 TTAATGCGAA
Statistics
Matches: 138, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
93 1 0.01
94 124 0.90
95 7 0.05
96 6 0.04
ACGTcount: A:0.32, C:0.12, G:0.31, T:0.25
Consensus pattern (93 bp):
TAAGGCCGAATGGAAAATGTGATGAACGGGAACATGCATTTGTGGGATAAGCCGAATGGCAAATG
TGATGAATGTGAACATGCATATGTGTGA
Found at i:88686208 original size:46 final size:46
Alignment explanation
Indices: 88686149--88686239 Score: 121
Period size: 46 Copynumber: 2.0 Consensus size: 46
88686139 GGAAGTGTAT
* * *
88686149 ATATGTGGGAAAGCCGAATGGTTAATGCGA-AATGTGTATGAGATGG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAGAA-ATGTATGAGATGG
* *
88686195 ATATGTGGTAAAGCCAAATGGCTAATGTGAGAAATGTATGAGATG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAGAAATGTATGAGATG
88686240 TGTATACATA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
46 37 0.95
47 2 0.05
ACGTcount: A:0.35, C:0.07, G:0.32, T:0.26
Consensus pattern (46 bp):
ATATGTGGGAAAGCCAAATGGCTAATGCGAGAAATGTATGAGATGG
Found at i:88692884 original size:18 final size:19
Alignment explanation
Indices: 88692861--88692896 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
88692851 AGTTTTTTAT
88692861 TAAACATTA-ATCTCATTA
1 TAAACATTATATCTCATTA
88692879 TAAACATTATATCTCATT
1 TAAACATTATATCTCATT
88692897 TTTTTGATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAACATTATATCTCATTA
Found at i:88693965 original size:23 final size:23
Alignment explanation
Indices: 88693909--88693956 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
88693899 GAACTATAAC
88693909 TAGGGCTTCAAGTTTATAAAGGT
1 TAGGGCTTCAAGTTTATAAAGGT
*
88693932 TAGGGCTTCAAGTTTATAAATGT
1 TAGGGCTTCAAGTTTATAAAGGT
88693955 TA
1 TA
88693957 TGTTGTCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (23 bp):
TAGGGCTTCAAGTTTATAAAGGT
Found at i:88697095 original size:55 final size:53
Alignment explanation
Indices: 88697032--88697183 Score: 135
Period size: 55 Copynumber: 2.8 Consensus size: 53
88697022 GTGGCTTGGG
* * * * *
88697032 ACACGCCCGTGCCCTTAGCCCGTGTGCAACACTGATTTTGAAACACGGCCATGAC
1 ACACGCCCGTGCCC-T-GCCCATGTACAACACTGACTTTAAAACACGGCCACGAC
* *
88697087 ACACGCCCGTGTGGCCTGCTCATGTACAACACTGACTTTAAAACACGGCCACGAC
1 ACACGCCC--GTGCCCTGCCCATGTACAACACTGACTTTAAAACACGGCCACGAC
* * * *
88697142 ACACGCTCGTGTGGCCTGTCCGTGTACTAA-ACTGACTTTAAA
1 ACACGC-C-CGTGCCCTGCCCATGTAC-AACACTGACTTTAAA
88697184 TTTTAAGTGT
Statistics
Matches: 81, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
55 72 0.89
56 4 0.05
57 5 0.06
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.22
Consensus pattern (53 bp):
ACACGCCCGTGCCCTGCCCATGTACAACACTGACTTTAAAACACGGCCACGAC
Found at i:88709101 original size:20 final size:21
Alignment explanation
Indices: 88709053--88709101 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
88709043 CTTCAATTTT
88709053 TATTATTTTAAAAATATAATA
1 TATTATTTTAAAAATATAATA
** *
88709074 TAAAATTTT-AAATTATAATA
1 TATTATTTTAAAAATATAATA
88709094 TATTATTT
1 TATTATTT
88709102 GAATCATATA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TATTATTTTAAAAATATAATA
Found at i:88709157 original size:8 final size:9
Alignment explanation
Indices: 88709124--88709156 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
88709114 TAACTTATAA
88709124 ATTT-AAAT
1 ATTTAAAAT
88709132 ATTTAAAAT
1 ATTTAAAAT
88709141 ATTTAAAAT
1 ATTTAAAAT
*
88709150 ACTTAAA
1 ATTTAAA
88709157 TTACACACTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
8 4 0.17
9 19 0.83
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (9 bp):
ATTTAAAAT
Found at i:88710495 original size:31 final size:32
Alignment explanation
Indices: 88710441--88710502 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 32
88710431 ACTTAATAGC
*
88710441 TTAGTGACTTTTAATAAAAACTTTCGAATAAT
1 TTAGTGACTTTAAATAAAAACTTTCGAATAAT
*
88710473 TTAGTGAC-TTAAATGAAAACTTTCGAATAA
1 TTAGTGACTTTAAATAAAAACTTTCGAATAA
88710503 CTTAATGATC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 20 0.71
32 8 0.29
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (32 bp):
TTAGTGACTTTAAATAAAAACTTTCGAATAAT
Found at i:88711633 original size:13 final size:13
Alignment explanation
Indices: 88711617--88711641 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
88711607 TTTTTTTAAA
88711617 TTTTTAATTAATG
1 TTTTTAATTAATG
88711630 TTTTTAATTAAT
1 TTTTTAATTAAT
88711642 AAATATATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:88721680 original size:28 final size:27
Alignment explanation
Indices: 88721646--88721857 Score: 163
Period size: 28 Copynumber: 7.5 Consensus size: 27
88721636 AACCGATCTT
*
88721646 GCACACACAGTGCTTGGTTACGAAACTC
1 GCACACACAGTGCTCGGTTACG-AACTC
**** *
88721674 GCACACACAGTGCTTCAACAACCGATCTC
1 GCACACACAGTGC-TCGGTTA-CGAACTC
88721703 GCACACACAGTGCTCGGTTACGGAACTC
1 GCACACACAGTGCTCGGTTAC-GAACTC
**** *
88721731 GCACACACAGTGCCTCAACAACTGATCTC
1 GCACACACAGTG-CTCGGTTAC-GAACTC
*
88721760 GCACACACAGTGCTCGGTTACAGAACTT
1 GCACACACAGTGCTCGGTTAC-GAACTC
**** *
88721788 GCACACACAGTGCCTCAACAACCGATCTC
1 GCACACACAGTG-CTCGGTTA-CGAACTC
*
88721817 GCACACACAGTGCTCAGTTACGGAACTC
1 GCACACACAGTGCTCGGTTAC-GAACTC
*
88721845 ACACACACAGTGC
1 GCACACACAGTGC
88721858 CTATGTTCAC
Statistics
Matches: 142, Mismatches: 35, Indels: 14
0.74 0.18 0.07
Matches are distributed among these distances:
27 2 0.01
28 76 0.54
29 61 0.43
30 3 0.02
ACGTcount: A:0.30, C:0.34, G:0.18, T:0.17
Consensus pattern (27 bp):
GCACACACAGTGCTCGGTTACGAACTC
Found at i:88721707 original size:57 final size:57
Alignment explanation
Indices: 88721616--88721859 Score: 364
Period size: 57 Copynumber: 4.2 Consensus size: 57
88721606 GATCTCATTT
* * *
88721616 CACACACTTAGTGCCCCAACAACCGATCTTGCACACACAGTGCTTGGTTACGAAACTCG
1 CACACAC--AGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
* *
88721675 CACACACAGTGCTTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGGAACTCG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
* *
88721732 CACACACAGTGCCTCAACAACTGATCTCGCACACACAGTGCTCGGTTAC-AGAACTTG
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGA-AACTCG
* * *
88721789 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCAGTTACGGAACTCA
1 CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
88721846 CACACACAGTGCCT
1 CACACACAGTGCCT
88721860 ATGTTCACTT
Statistics
Matches: 169, Mismatches: 14, Indels: 6
0.89 0.07 0.03
Matches are distributed among these distances:
57 162 0.96
59 7 0.04
ACGTcount: A:0.30, C:0.35, G:0.17, T:0.18
Consensus pattern (57 bp):
CACACACAGTGCCTCAACAACCGATCTCGCACACACAGTGCTCGGTTACGAAACTCG
Found at i:88723854 original size:26 final size:26
Alignment explanation
Indices: 88723825--88723884 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
88723815 TCCATTTGAA
* * *
88723825 TCATTCGATATTTTGCACACTAAGTG
1 TCATTCAATATCTCGCACACTAAGTG
88723851 TCATTCTCAATATCTCGCACACTAAGTG
1 TCA-T-TCAATATCTCGCACACTAAGTG
*
88723879 CCATTC
1 TCATTC
88723885 TCAATATTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
26 5 0.18
27 2 0.07
28 21 0.75
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
TCATTCAATATCTCGCACACTAAGTG
Found at i:88723870 original size:28 final size:28
Alignment explanation
Indices: 88723839--88723910 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
88723829 TCGATATTTT
*
88723839 GCACACTAAGTGTCATTCTCAATATCTC
1 GCACACTAAGTGCCATTCTCAATATCTC
*
88723867 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCATTCTCAATATCTC
* * *
88723895 GTACACTGAGTACCAT
1 GCACACTAAGTGCCAT
88723911 ATTTGATTGC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (28 bp):
GCACACTAAGTGCCATTCTCAATATCTC
Found at i:88750986 original size:48 final size:48
Alignment explanation
Indices: 88750911--88751329 Score: 327
Period size: 48 Copynumber: 8.7 Consensus size: 48
88750901 AAGGTGAATT
* * * * * *
88750911 GCCGATTCCCTGTTCCAAACATAGTCTTACACTGGCTCACATGTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAG
* * * * * *
88750959 GCCGATGTCATGTCCCGGACATGGTCTTACACTAGCTCTCATCTC-ATT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGA-G
* * * ** *
88751007 GCCGATGCCATGTCCCAGACATAGTCTTATACTGGCTCTCATAAGGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAG
* * * * ** *
88751055 GTCAATGCCATGTCCCATACATGGTCTTACACTGGCTCTCATAAGGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAG
* * ** * * * *
88751103 GCCAATGCCATGTCCCAGTCATGGTCTTACACTATCACACACATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAG
* * * * * *
88751151 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACATACATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAG
* * * * * *
88751199 GCCGATGCCATGTCCCAAACATGGTCTTACATTGGCTCTCATGTTGTG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAG
* * * * * * *
88751247 GCCGATGCCATTTCCTAGACATGGTCTTACACTAGCACACACATCAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAG
* * *
88751295 GCCAAAGCCATGTCCCAAACATGGTCTTACACTGG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGG
88751330 AACGCATATC
Statistics
Matches: 295, Mismatches: 74, Indels: 4
0.79 0.20 0.01
Matches are distributed among these distances:
47 1 0.00
48 294 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCGAG
Found at i:88751077 original size:96 final size:96
Alignment explanation
Indices: 88750908--88751329 Score: 372
Period size: 96 Copynumber: 4.4 Consensus size: 96
88750898 AAAAAGGTGA
* * * * ** * *
88750908 ATTGCCGATTCCCTGTTCCAAACATAGTCTTACACTGGCTCACATGTCGAGGCCGATGTCATGTC
1 ATTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACAT-AAGTGGCCGATGCCATGTC
* *
88750973 CCGGACATGGTCTTACACTAGCTCTCATC-TC
65 CCAGACATGGTCTTACACTAGCTCACATCATC
* * * * * *
88751004 ATTGCCGATGCCATGTCCCAGACATAGTCTTATACTGGCTCTCATAAGGTGGTCAATGCCATGTC
1 ATTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAA-GTGGCCGATGCCATGTC
* * * **
88751069 CCATACATGGTCTTACACTGGCTCTCAT-AAG
65 CCAGACATGGTCTTACACTAGCTCACATCATC
* * * ** ** *
88751100 GTGGCCAATGCCATGTCCCAGTCATGGTCTTACACTATCACACACATCAA-T-GCCGATGCCATG
1 ATTGCCGATGCCATGTCCCAAACATGGTCTTACAC--TGGCTCACAT-AAGTGGCCGATGCCATG
88751163 TCCCAGACATGGTCTTACACTAG--CACATACATC
63 TCCCAGACATGGTCTTACACTAGCTCACAT-CATC
* * * ** *
88751196 AATGCCGATGCCATGTCCCAAACATGGTCTTACATTGGCTCTCATGTTGTGGCCGATGCCATTTC
1 ATTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACAT-AAGTGGCCGATGCCATGTC
* *
88751261 CTAGACATGGTCTTACACTAGCACACA-CATC
65 CCAGACATGGTCTTACACTAGCTCACATCATC
* * *
88751292 AATGCCAAAGCCATGTCCCAAACATGGTCTTACACTGG
1 ATTGCCGATGCCATGTCCCAAACATGGTCTTACACTGG
88751330 AACGCATATC
Statistics
Matches: 262, Mismatches: 53, Indels: 22
0.78 0.16 0.07
Matches are distributed among these distances:
94 10 0.04
95 1 0.00
96 238 0.91
97 1 0.00
98 10 0.04
99 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (96 bp):
ATTGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATAAGTGGCCGATGCCATGTCC
CAGACATGGTCTTACACTAGCTCACATCATC
Found at i:88751207 original size:144 final size:142
Alignment explanation
Indices: 88750910--88751327 Score: 489
Period size: 144 Copynumber: 2.9 Consensus size: 142
88750900 AAAGGTGAAT
* * * * * * *
88750910 TGCCGATTCCCTGTTCCAAACATAGTCTTACACTGGCTCACATGTCGAGGCCGATGTCATGTCCC
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGTCGTGGCCGATGCCATGTCCC
* * * * * *
88750975 GGACATGGTCTTACACTAGCTCTCATC-TCATTGCCGATGCCATGTCCCAGACATAGTCTTATAC
66 AGACATGGTCTTACACTAGCACACA-CATCAATGCCGATGCCATGTCCCAGACATGGTCTTACAC
* *
88751039 TGGCTCTCATAAGG
130 TAGCACTCATAA-G
* * * *** *
88751053 TGGTCAATGCCATGTCCCATACATGGTCTTACACTGGCTCTCATAAGGTGGCCAATGCCATGTCC
1 T-GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGTCGTGGCCGATGCCATGTCC
* *
88751118 CAGTCATGGTCTTACACTATCACACACATCAATGCCGATGCCATGTCCCAGACATGGTCTTACAC
65 CAGACATGGTCTTACACTAGCACACACATCAATGCCGATGCCATGTCCCAGACATGGTCTTACAC
88751183 TAGCACATACATCAA-
130 TAGCAC-T-CAT-AAG
* * * *
88751198 TGCCGATGCCATGTCCCAAACATGGTCTTACATTGGCTCTCATGTTGTGGCCGATGCCATTTCCT
1 TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGTCGTGGCCGATGCCATGTCCC
* * *
88751263 AGACATGGTCTTACACTAGCACACACATCAATGCCAAAGCCATGTCCCAAACATGGTCTTACACT
66 AGACATGGTCTTACACTAGCACACACATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACT
88751328 GGAACGCATA
Statistics
Matches: 231, Mismatches: 39, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
143 2 0.01
144 222 0.96
145 2 0.01
146 3 0.01
147 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (142 bp):
TGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATGTCGTGGCCGATGCCATGTCCC
AGACATGGTCTTACACTAGCACACACATCAATGCCGATGCCATGTCCCAGACATGGTCTTACACT
AGCACTCATAAG
Found at i:88755622 original size:74 final size:74
Alignment explanation
Indices: 88755519--88755660 Score: 275
Period size: 74 Copynumber: 1.9 Consensus size: 74
88755509 CGAATAAATT
88755519 TTCCAAGTATAATAATAATGGAGTAAAACCTTTCACAAGCGAAGTTAAAATATTATCAATAATAA
1 TTCCAAGTATAATAATAATGGAGTAAAACCTTTCACAAGCGAAGTTAAAATATTATCAATAATAA
88755584 TAAAAAAAA
66 TAAAAAAAA
*
88755593 TTCCAAGTATAATAATAATGGAGTAAAACCTTTCACAAGCTAAGTTAAAATATTATCAATAATAA
1 TTCCAAGTATAATAATAATGGAGTAAAACCTTTCACAAGCGAAGTTAAAATATTATCAATAATAA
88755658 TAA
66 TAA
88755661 TAAATTATTT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
74 67 1.00
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29
Consensus pattern (74 bp):
TTCCAAGTATAATAATAATGGAGTAAAACCTTTCACAAGCGAAGTTAAAATATTATCAATAATAA
TAAAAAAAA
Found at i:88757767 original size:16 final size:17
Alignment explanation
Indices: 88757746--88757804 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 17
88757736 ATATTTAGTC
88757746 ATATAATAAATTA-TTA
1 ATATAATAAATTATTTA
88757762 ATATAATAAATATAATTTA
1 ATATAATAAAT-T-ATTTA
88757781 TTATATTAATAAATTATTTA
1 --ATA-TAATAAATTATTTA
88757801 ATAT
1 ATAT
88757805 TTTAATTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
16 11 0.30
17 2 0.05
18 4 0.11
19 3 0.08
20 5 0.14
21 4 0.11
22 8 0.22
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATAATAAATTATTTA
Found at i:88757776 original size:22 final size:22
Alignment explanation
Indices: 88757751--88757794 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
88757741 TAGTCATATA
88757751 ATAAATTATTA-ATATAATAAAT
1 ATAAATTATTATAT-TAATAAAT
*
88757773 ATAATTTATTATATTAATAAAT
1 ATAAATTATTATATTAATAAAT
88757795 TATTTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAATTATTATATTAATAAAT
Found at i:88757830 original size:13 final size:14
Alignment explanation
Indices: 88757814--88757855 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
88757804 TTTTAATTTT
88757814 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
88757827 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
88757842 ATTTTAAATAATAT
1 ATTTT-AATAATAT
88757856 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:88757840 original size:16 final size:16
Alignment explanation
Indices: 88757818--88757854 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
88757808 AATTTTATTT
88757818 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
88757835 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
88757850 TAATA
1 TAATA
88757855 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:88757940 original size:46 final size:48
Alignment explanation
Indices: 88757842--88757940 Score: 118
Period size: 46 Copynumber: 2.1 Consensus size: 48
88757832 AAAAATAATA
*
88757842 ATTTTAAATAATATTATTCACATATTATTAAAAATATTCAATATTAAT
1 ATTTTAAATAATATTATTCACATATTATTAAAAATATTCAATATAAAT
*
88757890 ATTTT-AATAAATATTTATT-ACA-ATTA-TAAATATATT-AATAATAAAT
1 ATTTTAAAT-AATA-TTATTCACATATTATTAAAAATATTCAAT-ATAAAT
88757936 ATTTT
1 ATTTT
88757941 GTAATATATA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
45 3 0.07
46 19 0.41
47 7 0.15
48 12 0.26
49 5 0.11
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.47
Consensus pattern (48 bp):
ATTTTAAATAATATTATTCACATATTATTAAAAATATTCAATATAAAT
Found at i:88761260 original size:71 final size:71
Alignment explanation
Indices: 88761144--88761290 Score: 240
Period size: 71 Copynumber: 2.1 Consensus size: 71
88761134 CTCGTCTCAA
* * *
88761144 CTTACATAATTTTCATGTATCAACATATCAAAGATATTCGTATATGTACATGTCATGATACATAC
1 CTTACATAATTTTCATGTATCAACATATAAAAAATATTCATATATGTACATGTCATGATACATAC
88761209 CATTCT
66 CATTCT
* *
88761215 CTTACATAATTTTCATGTATTAACATATAAAAAATATTCATATATGTACATGTCATGATACATAT
1 CTTACATAATTTTCATGTATCAACATATAAAAAATATTCATATATGTACATGTCATGATACATAC
88761280 CATTCT
66 CATTCT
*
88761286 TTTAC
1 CTTAC
88761291 TGTTTCTTCT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.37, C:0.16, G:0.07, T:0.40
Consensus pattern (71 bp):
CTTACATAATTTTCATGTATCAACATATAAAAAATATTCATATATGTACATGTCATGATACATAC
CATTCT
Found at i:88761545 original size:25 final size:24
Alignment explanation
Indices: 88761505--88761569 Score: 85
Period size: 25 Copynumber: 2.7 Consensus size: 24
88761495 CCTGTACATG
*
88761505 TATGCTCATACAAGCTCTAAATTGA
1 TATGCTCATACGAGCTCTAAA-TGA
* *
88761530 TATGCTCTTACGAGCTGTAAATGA
1 TATGCTCATACGAGCTCTAAATGA
*
88761554 TAAGCTCATACGAGCT
1 TATGCTCATACGAGCT
88761570 GAATATCGGT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
24 17 0.49
25 18 0.51
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (24 bp):
TATGCTCATACGAGCTCTAAATGA
Found at i:88761560 original size:24 final size:25
Alignment explanation
Indices: 88761508--88761570 Score: 83
Period size: 24 Copynumber: 2.6 Consensus size: 25
88761498 GTACATGTAT
* * *
88761508 GCTCATACAAGCTCTAAATTGATAT
1 GCTCATACGAGCTGTAAATTGATAA
*
88761533 GCTCTTACGAGCTGTAAA-TGATAA
1 GCTCATACGAGCTGTAAATTGATAA
88761557 GCTCATACGAGCTG
1 GCTCATACGAGCTG
88761571 AATATCGGTA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
24 18 0.55
25 15 0.45
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.29
Consensus pattern (25 bp):
GCTCATACGAGCTGTAAATTGATAA
Found at i:88762816 original size:23 final size:23
Alignment explanation
Indices: 88762786--88762832 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
88762776 TAGAAATGAG
88762786 ATCCTGATACCTCATTTTCTAAA
1 ATCCTGATACCTCATTTTCTAAA
88762809 ATCCTGATACCTCATTTTCTAAA
1 ATCCTGATACCTCATTTTCTAAA
88762832 A
1 A
88762833 CCACTTGACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.26, G:0.04, T:0.38
Consensus pattern (23 bp):
ATCCTGATACCTCATTTTCTAAA
Found at i:88765572 original size:40 final size:40
Alignment explanation
Indices: 88765400--88765565 Score: 271
Period size: 40 Copynumber: 4.2 Consensus size: 40
88765390 AACCCAAGTA
* * *
88765400 CCTTCAGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
88765439 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
88765479 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
88765519 CCTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
88765559 CCTTCGG
1 CCTTCGG
88765566 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 12 0.10
40 107 0.90
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Done.