Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 120 of 208
Found at i:39570857 original size:25 final size:25
Alignment explanation
Indices: 39570829--39570931 Score: 113
Period size: 25 Copynumber: 4.1 Consensus size: 25
39570819 CTCATGTAAA
* * *
39570829 CATACCGATTTATAGCTC-ATGAGAG
1 CATACCGATCTACAGCTCGA-GTGAG
*
39570854 CATACTGATCTACAGCTCGAGTGAG
1 CATACCGATCTACAGCTCGAGTGAG
*
39570879 CATATCGATCTACAGCTCGAGTGAG
1 CATACCGATCTACAGCTCGAGTGAG
39570904 CATACCGAT-TCACAGCTCGTA-TGAG
1 CATACCGATCT-ACAGCTCG-AGTGAG
39570929 CAT
1 CAT
39570932 CCATGTACAT
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
24 1 0.01
25 65 0.96
26 2 0.03
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.25
Consensus pattern (25 bp):
CATACCGATCTACAGCTCGAGTGAG
Found at i:39572580 original size:16 final size:16
Alignment explanation
Indices: 39572538--39572580 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
39572528 ACTCGGATCT
* *
39572538 TTACTTTCTTCTTTAC
1 TTACTTACTTGTTTAC
*
39572554 TTACTCACTTGTTTAC
1 TTACTTACTTGTTTAC
*
39572570 TTACTTGCTTG
1 TTACTTACTTG
39572581 CTTAAATAAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.14, C:0.23, G:0.07, T:0.56
Consensus pattern (16 bp):
TTACTTACTTGTTTAC
Found at i:39572915 original size:50 final size:50
Alignment explanation
Indices: 39572837--39573029 Score: 201
Period size: 50 Copynumber: 3.7 Consensus size: 50
39572827 TTTCCTGTAC
* * * *
39572837 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGATTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
* * *
39572887 TGCCCATGCCATGTCCCAGACATAGTCTTACGA-GGGACCTT-TCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGA-CTTCTCATATCGG
* * *
39572937 TGCCAATGCCATGTCCTAGACATGGTCATACATGGGACCTCTCATAATCTCAGTG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCAT-A--TC-G-G
*
39572992 ATGCCAATGCCATGTCCCAGGCATGGTCTTACATGGGA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
39573030 TCTCTTTACC
Statistics
Matches: 117, Mismatches: 16, Indels: 14
0.80 0.11 0.10
Matches are distributed among these distances:
49 3 0.03
50 73 0.62
51 3 0.03
53 2 0.02
54 1 0.01
55 1 0.01
56 34 0.29
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
Found at i:39572954 original size:100 final size:105
Alignment explanation
Indices: 39572837--39573023 Score: 258
Period size: 100 Copynumber: 1.8 Consensus size: 105
39572827 TTTCCTGTAC
* * ** *
39572837 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGATTTCTCAT-A-TC-G-G-TGCCCATGCC
1 TGCCAATGCCATATCCTAGACATGGTCATACATGGGACCTCTCATAACTCAGTGATGCCAATGCC
39572897 ATGTCCCAGACATAGTCTTACGAGGGACCTTTCATCTCGG
66 ATGTCCCAGACATAGTCTTACGAGGGACCTTTCATCTCGG
*
39572937 TGCCAATGCCATGTCCTAGACATGGTCATACATGGGACCTCTCATAATCTCAGTGATGCCAATGC
1 TGCCAATGCCATATCCTAGACATGGTCATACATGGGACCTCTCATAA-CTCAGTGATGCCAATGC
* *
39573002 CATGTCCCAGGCATGGTCTTAC
65 CATGTCCCAGACATAGTCTTAC
39573024 ATGGGATCTC
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
100 40 0.55
101 1 0.01
103 2 0.03
104 1 0.01
105 1 0.01
106 28 0.38
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (105 bp):
TGCCAATGCCATATCCTAGACATGGTCATACATGGGACCTCTCATAACTCAGTGATGCCAATGCC
ATGTCCCAGACATAGTCTTACGAGGGACCTTTCATCTCGG
Found at i:39577473 original size:30 final size:30
Alignment explanation
Indices: 39577439--39577620 Score: 190
Period size: 30 Copynumber: 6.1 Consensus size: 30
39577429 AGCAAACTCA
* **
39577439 TTTCATAATTCGATAGTCGAAGCTATCTAT
1 TTTCATAATTTGATAGTCGAAGCTATCCCT
39577469 TTTCATAATTTGATAGTCGAAGCTATCCCT
1 TTTCATAATTTGATAGTCGAAGCTATCCCT
* * * * *
39577499 TTACATAGTTTGATGGTC-ATCA-CCATCTCT
1 TTTCATAATTTGATAGTCGA--AGCTATCCCT
39577529 TTTCATAATTTGATAGTCGAAGCTATCCCT
1 TTTCATAATTTGATAGTCGAAGCTATCCCT
** * * *
39577559 TTTCATTGTTTGATGGTCGTCA-CCATCCCT
1 TTTCATAATTTGATAGTCG-AAGCTATCCCT
*
39577589 TTTCATAATTTGATAGTTGAAGCTATCCCT
1 TTTCATAATTTGATAGTCGAAGCTATCCCT
39577619 TT
1 TT
39577621 CCAGTAGTCG
Statistics
Matches: 122, Mismatches: 24, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
29 3 0.02
30 116 0.95
31 3 0.02
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (30 bp):
TTTCATAATTTGATAGTCGAAGCTATCCCT
Found at i:39577532 original size:60 final size:60
Alignment explanation
Indices: 39577463--39577620 Score: 262
Period size: 60 Copynumber: 2.6 Consensus size: 60
39577453 AGTCGAAGCT
*
39577463 ATCTATTTTCATAATTTGATAGTCGAAGCTATCCCTTTACATAGTTTGATGGTCATCACC
1 ATCTCTTTTCATAATTTGATAGTCGAAGCTATCCCTTTACATAGTTTGATGGTCATCACC
* * *
39577523 ATCTCTTTTCATAATTTGATAGTCGAAGCTATCCCTTTTCATTGTTTGATGGTCGTCACC
1 ATCTCTTTTCATAATTTGATAGTCGAAGCTATCCCTTTACATAGTTTGATGGTCATCACC
* *
39577583 ATCCCTTTTCATAATTTGATAGTTGAAGCTATCCCTTT
1 ATCTCTTTTCATAATTTGATAGTCGAAGCTATCCCTTT
39577621 CCAGTAGTCG
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 92 1.00
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.42
Consensus pattern (60 bp):
ATCTCTTTTCATAATTTGATAGTCGAAGCTATCCCTTTACATAGTTTGATGGTCATCACC
Found at i:39577601 original size:90 final size:90
Alignment explanation
Indices: 39577439--39577602 Score: 222
Period size: 90 Copynumber: 1.8 Consensus size: 90
39577429 AGCAAACTCA
* *
39577439 TTTCATAATTCGATAGTCGAAGCTATCTATTTTCATAATTTGATAGTCGAAGCTATCCCTTTACA
1 TTTCATAATTCGATAGTCGAAGCTATCCATTTTCATAATTTGATAGTCGAAGCCATCCCTTTACA
*
39577504 TAGTTTGATGGTCATCACCATCTCT
66 TAATTTGATGGTCATCACCATCTCT
* * ** * * *
39577529 TTTCATAATTTGATAGTCGAAGCTATCCCTTTTCATTGTTTGATGGTCGTCA-CCATCCCTTTTC
1 TTTCATAATTCGATAGTCGAAGCTATCCATTTTCATAATTTGATAGTCG-AAGCCATCCCTTTAC
39577593 ATAATTTGAT
65 ATAATTTGAT
39577603 AGTTGAAGCT
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
90 62 0.98
91 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.42
Consensus pattern (90 bp):
TTTCATAATTCGATAGTCGAAGCTATCCATTTTCATAATTTGATAGTCGAAGCCATCCCTTTACA
TAATTTGATGGTCATCACCATCTCT
Found at i:39579738 original size:18 final size:19
Alignment explanation
Indices: 39579715--39579750 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
39579705 CTTGAACATC
39579715 TTAATTAT-TTTAGCTCAT
1 TTAATTATGTTTAGCTCAT
*
39579733 TTAATTTTGTTTAGCTCA
1 TTAATTATGTTTAGCTCA
39579751 CTACAGCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.25, C:0.11, G:0.08, T:0.56
Consensus pattern (19 bp):
TTAATTATGTTTAGCTCAT
Found at i:39595348 original size:28 final size:28
Alignment explanation
Indices: 39595280--39595336 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
39595270 CTAAAGAATG
* *
39595280 TATTAACCGAAATTTATTCTGAATTGGT
1 TATTAACAGGAATTTATTCTGAATTGGT
39595308 TATTAACAGGAATTTATTCTGAATTGGT
1 TATTAACAGGAATTTATTCTGAATTGGT
39595336 T
1 T
39595337 TCTTTAGTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.44
Consensus pattern (28 bp):
TATTAACAGGAATTTATTCTGAATTGGT
Found at i:39598664 original size:25 final size:25
Alignment explanation
Indices: 39598636--39598763 Score: 141
Period size: 25 Copynumber: 5.2 Consensus size: 25
39598626 CCGACCCGCG
*
39598636 GCTCGTGAGAGAATACCGATTTACA
1 GCTCGTGAGAGCATACCGATTTACA
* * *
39598661 GCTCATGAGAGCATACCAATCTACA
1 GCTCGTGAGAGCATACCGATTTACA
* *
39598686 GCTCGTGTGAGCATACCGATTTATA
1 GCTCGTGAGAGCATACCGATTTACA
* * *
39598711 GCTCATGAGAGCATACCGGTCT-CA
1 GCTCGTGAGAGCATACCGATTTACA
* * *
39598735 GCTCGGGTGAGCATACCGATTCACA
1 GCTCGTGAGAGCATACCGATTTACA
39598760 GCTC
1 GCTC
39598764 ATATGAGCAT
Statistics
Matches: 82, Mismatches: 20, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
24 17 0.21
25 65 0.79
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.23
Consensus pattern (25 bp):
GCTCGTGAGAGCATACCGATTTACA
Found at i:39598714 original size:50 final size:49
Alignment explanation
Indices: 39598636--39598775 Score: 192
Period size: 50 Copynumber: 2.8 Consensus size: 49
39598626 CCGACCCGCG
* *
39598636 GCTCGTGAGAGAATACCGATTTACAGCTCATGAGAGCATACCAATCTACA
1 GCTCGTGTGAGCATACCGATTTACAGCTCATGAGAGCATACCAATCT-CA
* **
39598686 GCTCGTGTGAGCATACCGATTTATAGCTCATGAGAGCATACCGGTCTCA
1 GCTCGTGTGAGCATACCGATTTACAGCTCATGAGAGCATACCAATCTCA
* *
39598735 GCTCGGGTGAGCATACCGATTCACAGCTCAT-ATGAGCATAC
1 GCTCGTGTGAGCATACCGATTTACAGCTCATGA-GAGCATAC
39598776 ATGTACATGA
Statistics
Matches: 81, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
48 1 0.01
49 38 0.47
50 42 0.52
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.24
Consensus pattern (49 bp):
GCTCGTGTGAGCATACCGATTTACAGCTCATGAGAGCATACCAATCTCA
Found at i:39598763 original size:49 final size:50
Alignment explanation
Indices: 39598648--39598775 Score: 188
Period size: 49 Copynumber: 2.6 Consensus size: 50
39598638 TCGTGAGAGA
*
39598648 ATACCGATTTACAGCTCATGAGAGCATACCAATCTACAGCTCGTGTGAGC
1 ATACCGATTTACAGCTCATGAGAGCATACCAATCTACAGCTCGGGTGAGC
* **
39598698 ATACCGATTTATAGCTCATGAGAGCATACCGGTCT-CAGCTCGGGTGAGC
1 ATACCGATTTACAGCTCATGAGAGCATACCAATCTACAGCTCGGGTGAGC
*
39598747 ATACCGATTCACAGCTCAT-ATGAGCATAC
1 ATACCGATTTACAGCTCATGA-GAGCATAC
39598776 ATGTACATGA
Statistics
Matches: 71, Mismatches: 6, Indels: 3
0.89 0.08 0.04
Matches are distributed among these distances:
48 1 0.01
49 38 0.54
50 32 0.45
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (50 bp):
ATACCGATTTACAGCTCATGAGAGCATACCAATCTACAGCTCGGGTGAGC
Found at i:39600774 original size:79 final size:81
Alignment explanation
Indices: 39600608--39600791 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 81
39600598 TGAATGATGT
*
39600608 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
39600672 GTGCGAGATACTAATT
66 GTGCGAGATACTAATA
* * * * * **
39600688 CCAGGCTAAG-CTCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
*
39600750 TGTGCGAGTTACT-ATAA
65 TGTGCGAGATACTAAT-A
*
39600767 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
39600792 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.63
80 29 0.33
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATA
Found at i:39600798 original size:40 final size:40
Alignment explanation
Indices: 39600607--39600791 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
39600597 TTGAATGATG
* * * *
39600607 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
39600647 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
39600687 TCCAGGCTAAG-CTCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
39600726 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
39600767 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39600792 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 33 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39600813 original size:79 final size:79
Alignment explanation
Indices: 39600660--39600824 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
39600650 GGACTAAGAT
* * **
39600660 CCGAAGGCATTTGTGCGAGATACTAATTCCAGGCTAAGCTCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCAGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
39600725 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
39600739 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCAGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
39600802 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
39600818 CCGAAGG
1 CCGAAGG
39600825 TACGTGATTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCAGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:39603059 original size:20 final size:20
Alignment explanation
Indices: 39603022--39603060 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
39603012 GCCATATGGT
*
39603022 TTGGCTTGTGTTATGGTATC
1 TTGGCTTGTGTTACGGTATC
39603042 TTGG-TTGTGATTACGGTAT
1 TTGGCTTGTG-TTACGGTAT
39603061 TTTGAATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.13, C:0.08, G:0.31, T:0.49
Consensus pattern (20 bp):
TTGGCTTGTGTTACGGTATC
Found at i:39604200 original size:14 final size:11
Alignment explanation
Indices: 39604168--39604203 Score: 63
Period size: 11 Copynumber: 3.3 Consensus size: 11
39604158 TTCAACATAA
39604168 TATTTTATTAT
1 TATTTTATTAT
39604179 TATTTTATTAT
1 TATTTTATTAT
*
39604190 TATTTAATTAT
1 TATTTTATTAT
39604201 TAT
1 TAT
39604204 CATAATAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TATTTTATTAT
Found at i:39609122 original size:20 final size:20
Alignment explanation
Indices: 39609099--39609166 Score: 95
Period size: 20 Copynumber: 3.4 Consensus size: 20
39609089 TAACGAGTTC
39609099 AATGAGCTGAATTGAGCTCG
1 AATGAGCTGAATTGAGCTCG
39609119 AATGAGCTGACA-TGAGCTCG
1 AATGAGCTGA-ATTGAGCTCG
*
39609139 AATGAGCTGACTTGAGCTC-
1 AATGAGCTGAATTGAGCTCG
39609158 AAGTGAGCT
1 AA-TGAGCT
39609167 AAACCAAGGA
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
19 2 0.05
20 41 0.93
21 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (20 bp):
AATGAGCTGAATTGAGCTCG
Found at i:39609156 original size:10 final size:9
Alignment explanation
Indices: 39609099--39609148 Score: 64
Period size: 10 Copynumber: 5.1 Consensus size: 9
39609089 TAACGAGTTC
39609099 AATGAGCTG
1 AATGAGCTG
39609108 AATTGAGCTCG
1 AA-TGAGCT-G
39609119 AATGAGCTG
1 AATGAGCTG
39609128 ACATGAGCTCG
1 A-ATGAGCT-G
39609139 AATGAGCTG
1 AATGAGCTG
39609148 A
1 A
39609149 CTTGAGCTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
9 6 0.16
10 26 0.70
11 5 0.14
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (9 bp):
AATGAGCTG
Found at i:39611828 original size:30 final size:30
Alignment explanation
Indices: 39611788--39611848 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
39611778 GCCTTCCCTT
*
39611788 CCCATTATTGGTGCTTAAAGGGAAGGATAA
1 CCCATGATTGGTGCTTAAAGGGAAGGATAA
39611818 CCCATGATTGGTGCTTAAAGGGAAGGATAA
1 CCCATGATTGGTGCTTAAAGGGAAGGATAA
39611848 C
1 C
39611849 GACTTGTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.25
Consensus pattern (30 bp):
CCCATGATTGGTGCTTAAAGGGAAGGATAA
Found at i:39612902 original size:15 final size:15
Alignment explanation
Indices: 39612882--39612910 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
39612872 CACGGAAACC
39612882 TTTTTTTTT-TCTTT
1 TTTTTTTTTGTCTTT
39612896 TTTTTTTTTGTCTTT
1 TTTTTTTTTGTCTTT
39612911 CAGATCATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.00, C:0.07, G:0.03, T:0.90
Consensus pattern (15 bp):
TTTTTTTTTGTCTTT
Found at i:39613816 original size:39 final size:39
Alignment explanation
Indices: 39613773--39613882 Score: 139
Period size: 39 Copynumber: 2.8 Consensus size: 39
39613763 ACAGAGGTAT
39613773 ATTTTGCTGAAAACTGCTTGAGCGAGAATAGGGAGATGA
1 ATTTTGCTGAAAACTGCTTGAGCGAGAATAGGGAGATGA
* ** ** * *
39613812 ATTTTGCTTAAAACTGCCGGATTGAGAATACGGAGATGG
1 ATTTTGCTGAAAACTGCTTGAGCGAGAATAGGGAGATGA
**
39613851 ATCCTGCTGAAAACTGCTTGAGCGAGAATAGG
1 ATTTTGCTGAAAACTGCTTGAGCGAGAATAGG
39613883 ACTTCGGGTT
Statistics
Matches: 56, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (39 bp):
ATTTTGCTGAAAACTGCTTGAGCGAGAATAGGGAGATGA
Found at i:39618645 original size:14 final size:14
Alignment explanation
Indices: 39618626--39618658 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
39618616 AGATCATTTA
39618626 GCCCAACCAAACTG
1 GCCCAACCAAACTG
39618640 GCCCAACCAAACTG
1 GCCCAACCAAACTG
39618654 GCCCA
1 GCCCA
39618659 GTTATTGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.33, C:0.45, G:0.15, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:39623764 original size:14 final size:14
Alignment explanation
Indices: 39623745--39623776 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
39623735 AGGTCATTTA
39623745 GCCCAACCAAACTG
1 GCCCAACCAAACTG
39623759 GCCCAACCAAACTG
1 GCCCAACCAAACTG
39623773 GCCC
1 GCCC
39623777 GGTGATTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.47, G:0.16, T:0.06
Consensus pattern (14 bp):
GCCCAACCAAACTG
Found at i:39627395 original size:12 final size:12
Alignment explanation
Indices: 39627378--39627403 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
39627368 GGTCACGCGC
39627378 CCGTGTGCTAGG
1 CCGTGTGCTAGG
39627390 CCGTGTGCTAGG
1 CCGTGTGCTAGG
39627402 CC
1 CC
39627404 ATGCAACTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.31, G:0.38, T:0.23
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:39629681 original size:79 final size:81
Alignment explanation
Indices: 39629579--39629763 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
39629569 GCTACTCATT
* * *
39629579 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
39629642 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
39629659 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
39629723 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
*
39629739 CAAA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39629764 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.59
80 34 0.38
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:39629763 original size:40 final size:40
Alignment explanation
Indices: 39629579--39629763 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
39629569 GCTACTCATT
* *
39629579 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
39629619 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
39629659 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
39629698 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
*
39629739 CAAA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39629764 CATCATTCAA
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 77 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:39634909 original size:27 final size:27
Alignment explanation
Indices: 39634892--39635098 Score: 207
Period size: 27 Copynumber: 7.6 Consensus size: 27
39634882 ATATTAAGTC
39634892 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
39634919 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
39634947 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
39634974 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
39635002 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
39635029 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
39635057 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
39635084 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
39635099 GCACAATTTA
Statistics
Matches: 171, Mismatches: 6, Indels: 6
0.93 0.03 0.03
Matches are distributed among these distances:
27 92 0.54
28 79 0.46
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:39634976 original size:55 final size:55
Alignment explanation
Indices: 39634892--39635098 Score: 360
Period size: 55 Copynumber: 3.8 Consensus size: 55
39634882 ATATTAAGTC
* * * *
39634892 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
39634947 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
39635002 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
39635057 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
39635099 GCACAATTTA
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 147 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:39639280 original size:24 final size:24
Alignment explanation
Indices: 39639248--39639300 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
39639238 GAGTCCGCCA
39639248 GCGCTGTCCCTTGTGCGGGAGCAG
1 GCGCTGTCCCTTGTGCGGGAGCAG
39639272 GCGCTGTCCCTTGTGCGGGAGCAG
1 GCGCTGTCCCTTGTGCGGGAGCAG
39639296 GCGCT
1 GCGCT
39639301 ACACTCTCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.08, C:0.30, G:0.42, T:0.21
Consensus pattern (24 bp):
GCGCTGTCCCTTGTGCGGGAGCAG
Found at i:39640971 original size:79 final size:82
Alignment explanation
Indices: 39640854--39641038 Score: 220
Period size: 79 Copynumber: 2.3 Consensus size: 82
39640844 GCTACTCATT
* * *
39640854 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
39640917 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
39640934 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
39640997 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
*
39641014 CAAA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39641039 CATCATTCAA
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 53 0.59
80 34 0.38
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:39641038 original size:40 final size:40
Alignment explanation
Indices: 39640854--39641038 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
39640844 GCTACTCATT
* *
39640854 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
39640894 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
39640934 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
39640973 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
*
39641014 CAAA-GCCTTTGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
39641039 CATCATTCAA
Statistics
Matches: 123, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.26
40 77 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:39643865 original size:13 final size:13
Alignment explanation
Indices: 39643847--39643899 Score: 70
Period size: 13 Copynumber: 4.1 Consensus size: 13
39643837 AGTTTTTCAT
39643847 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
39643860 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* ** *
39643873 TACGGTGGAAAAG
1 TGCTTTTGAAAAG
39643886 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
39643899 T
1 T
39643900 TTGGTTTAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:39651632 original size:17 final size:17
Alignment explanation
Indices: 39651606--39651639 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
39651596 GCCATATGGG
39651606 ATACTGCTCATTTTGGT
1 ATACTGCTCATTTTGGT
*
39651623 ATACTTCTCATTTTGGT
1 ATACTGCTCATTTTGGT
39651640 TTTGGGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.50
Consensus pattern (17 bp):
ATACTGCTCATTTTGGT
Found at i:39653116 original size:26 final size:26
Alignment explanation
Indices: 39653075--39653160 Score: 100
Period size: 26 Copynumber: 3.3 Consensus size: 26
39653065 TGTAGTTGTG
39653075 GCTTTGCCACATATACTGTTACTGGCA
1 GCTTTGCCACA-ATACTGTTACTGGCA
* *
39653102 GCTTTGCTACAATACTGATACTGGCA
1 GCTTTGCCACAATACTGTTACTGGCA
* * * * *
39653128 GATTCGCCGCGATACTATTACTGGCA
1 GCTTTGCCACAATACTGTTACTGGCA
39653154 GCTTTGC
1 GCTTTGC
39653161 TGCGATATTG
Statistics
Matches: 48, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
26 38 0.79
27 10 0.21
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (26 bp):
GCTTTGCCACAATACTGTTACTGGCA
Found at i:39672916 original size:43 final size:43
Alignment explanation
Indices: 39672849--39672978 Score: 140
Period size: 43 Copynumber: 3.0 Consensus size: 43
39672839 CATAGGATTT
* * *
39672849 TCGATATGTG-TTATCGTGTAAGACCACATCGGGGACGTTGGCA
1 TCGATATGTGATTA-CATGTAAGACCACGTCTGGGACGTTGGCA
* **
39672892 TCGACT-TGTGTTTACATGTAAGACC-CTGTCTGGGACAATGGCA
1 TCGA-TATGTGATTACATGTAAGACCAC-GTCTGGGACGTTGGCA
* *
39672935 TCGATATGTGATTGCATGTAAGACCACGTTTGGGACGTTGGCA
1 TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
39672978 T
1 T
39672979 TGTACGAGTT
Statistics
Matches: 72, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
42 2 0.03
43 65 0.90
44 5 0.07
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
Found at i:39688026 original size:16 final size:16
Alignment explanation
Indices: 39688005--39688038 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
39687995 AACCTCCTTC
39688005 GGCTTGTGTGTTCATT
1 GGCTTGTGTGTTCATT
39688021 GGCTTGTGTGTTCATT
1 GGCTTGTGTGTTCATT
39688037 GG
1 GG
39688039 TTTTGGGACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.06, C:0.12, G:0.35, T:0.47
Consensus pattern (16 bp):
GGCTTGTGTGTTCATT
Found at i:39697036 original size:22 final size:22
Alignment explanation
Indices: 39697007--39697051 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
39696997 AAAATGGATT
39697007 AAAAAATA-ATTCAAAAAATTA
1 AAAAAATATATTCAAAAAATTA
* *
39697028 AAAATAATATTTTCAAAATATTA
1 AAAA-AATATATTCAAAAAATTA
39697051 A
1 A
39697052 TTTTAAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 4 0.20
23 12 0.60
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAAAATATATTCAAAAAATTA
Found at i:39697054 original size:15 final size:15
Alignment explanation
Indices: 39697025--39697066 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
39697015 ATTCAAAAAA
*
39697025 TTAAAAATAAT-ATT
1 TTAAAAATATTAATT
*
39697039 TTCAAAATATTAATT
1 TTAAAAATATTAATT
*
39697054 TTAAAAATTTTAA
1 TTAAAAATATTAA
39697067 ATAATTATTC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAAAATATTAATT
Found at i:39699616 original size:26 final size:26
Alignment explanation
Indices: 39699587--39699665 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 26
39699577 GCAACTCTAA
*
39699587 TGAGCGTCCCG-TTATATGGCTCTTTG
1 TGAGCGTCCCGATTA-AAGGCTCTTTG
* *
39699613 TGAGCTTCCTGATTAAAGGCTCTTTG
1 TGAGCGTCCCGATTAAAGGCTCTTTG
* * **
39699639 TGAGCTTTCTAATTAAAGGCTCTTTG
1 TGAGCGTCCCGATTAAAGGCTCTTTG
39699665 T
1 T
39699666 CAGCTTCCTG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 44 0.94
27 3 0.06
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.41
Consensus pattern (26 bp):
TGAGCGTCCCGATTAAAGGCTCTTTG
Found at i:39699670 original size:26 final size:26
Alignment explanation
Indices: 39699604--39699674 Score: 115
Period size: 26 Copynumber: 2.7 Consensus size: 26
39699594 CCCGTTATAT
*
39699604 GGCTCTTTGTGAGCTTCCTGATTAAA
1 GGCTCTTTGTGAGCTTCCTAATTAAA
*
39699630 GGCTCTTTGTGAGCTTTCTAATTAAA
1 GGCTCTTTGTGAGCTTCCTAATTAAA
*
39699656 GGCTCTTTGTCAGCTTCCT
1 GGCTCTTTGTGAGCTTCCT
39699675 GGTAGTGATC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.17, C:0.21, G:0.21, T:0.41
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCCTAATTAAA
Found at i:39704563 original size:120 final size:120
Alignment explanation
Indices: 39704421--39704658 Score: 377
Period size: 120 Copynumber: 2.0 Consensus size: 120
39704411 GCTAACATCT
* * * * *
39704421 TCCACTAACTCATATATGGGCTAATTACCATATAAGGACCTTCACTTTAAAGTTCTATAGCTATT
1 TCCACTAACTCATATATGGGCTAATTACAACAAAAGAACCTTCACTTTAAAGTTCTATAGCTATG
*
39704486 ATACACCTTTAACTATTAGAACCCAACTTTTGCACTTTACGCGATTTAGTCCTCC
66 AGACACCTTTAACTATTAGAACCCAACTTTTGCACTTTACGCGATTTAGTCCTCC
* *
39704541 TCCACTAACTCATTTATGGGCTAATTACAACAAAAGAACCTTCACTTTAAAGTTCTATAGCTGTG
1 TCCACTAACTCATATATGGGCTAATTACAACAAAAGAACCTTCACTTTAAAGTTCTATAGCTATG
* * *
39704606 AGACACCTTTAGCTATTAGAACCTAACTTTTGCACTTTATGCGATTTAGTCCT
66 AGACACCTTTAACTATTAGAACCCAACTTTTGCACTTTACGCGATTTAGTCCT
39704659 TTTATCAAAT
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
120 107 1.00
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (120 bp):
TCCACTAACTCATATATGGGCTAATTACAACAAAAGAACCTTCACTTTAAAGTTCTATAGCTATG
AGACACCTTTAACTATTAGAACCCAACTTTTGCACTTTACGCGATTTAGTCCTCC
Found at i:39709108 original size:24 final size:24
Alignment explanation
Indices: 39709076--39709123 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
39709066 AAGTACTTCA
39709076 ACCAACGGGATGTTGACATGAAGT
1 ACCAACGGGATGTTGACATGAAGT
39709100 ACCAACGGGATGTTGACATGAAGT
1 ACCAACGGGATGTTGACATGAAGT
39709124 TGCTTGAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (24 bp):
ACCAACGGGATGTTGACATGAAGT
Found at i:39712066 original size:18 final size:19
Alignment explanation
Indices: 39712040--39712076 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
39712030 AATTTTGGAC
39712040 TGGAAAGAAGAGA-GAAAG
1 TGGAAAGAAGAGAGGAAAG
*
39712058 TGGAGAGAAGAGAGGAAAG
1 TGGAAAGAAGAGAGGAAAG
39712077 ATGTGAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.43, T:0.05
Consensus pattern (19 bp):
TGGAAAGAAGAGAGGAAAG
Found at i:39717167 original size:106 final size:105
Alignment explanation
Indices: 39716975--39717207 Score: 333
Period size: 106 Copynumber: 2.2 Consensus size: 105
39716965 TGACTAGTGC
* * *
39716975 CACACGGTGAAGCCACACACCCATGTGCTAGGCTGTGTGAGGTTACCTAAATGCTTGCTTTAGAA
1 CACACGGTG-AGACACACGCCCATGTGCTAGGCCGTGTGAGGTTACCTAAATGCTTGCTTTAGAA
* * *
39717040 GTTACAGGGGACACTCAACCATGTCCCCTAG-CAGTGTGTCA
65 GTTACAGGGGACACGCAACCATGTCACCTAGCCA-TGTATCA
*
39717081 CACACGGTTGAGACACACGCCCATGTGCTAGGCCGTGTGAGGTTACCTATATGCTTGCTTTAGAA
1 CACACGG-TGAGACACACGCCCATGTGCTAGGCCGTGTGAGGTTACCTAAATGCTTGCTTTAGAA
* *
39717146 GTTACAGGGGACACGCGACCATGTCACCTGGCCATGTATCA
65 GTTACAGGGGACACGCAACCATGTCACCTAGCCATGTATCA
*
39717187 CACACGACTGAGACACACGCC
1 CACACG-GTGAGACACACGCC
39717208 TGTGTCTCTA
Statistics
Matches: 114, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
106 110 0.96
107 4 0.04
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (105 bp):
CACACGGTGAGACACACGCCCATGTGCTAGGCCGTGTGAGGTTACCTAAATGCTTGCTTTAGAAG
TTACAGGGGACACGCAACCATGTCACCTAGCCATGTATCA
Found at i:39723733 original size:23 final size:20
Alignment explanation
Indices: 39723706--39723759 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 20
39723696 TTCTAAGTCG
39723706 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT--ACA-CT
39723729 ATATTCATTATTCAATTACACT
1 ATATTCA--ATTCAATTACACT
39723751 -TATTCAATT
1 ATATTCAATT
39723760 TCCTGATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 3 0.10
21 6 0.21
22 2 0.07
23 10 0.34
25 8 0.28
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (20 bp):
ATATTCAATTCAATTACACT
Found at i:39723861 original size:45 final size:45
Alignment explanation
Indices: 39723794--39723887 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 45
39723784 AACAGATACT
* *
39723794 CGGTGGAATCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAACCAGCACATAGCAACCACCTTACTAATCAATGATGTC
* * *
39723839 CGGTGGAACCAGCACATGGCAACCACTTTACTAATCAATGATGTT
1 CGGTGGAACCAGCACATAGCAACCACCTTACTAATCAATGATGTC
39723884 CGGT
1 CGGT
39723888 TCACATAGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.24
Consensus pattern (45 bp):
CGGTGGAACCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:39723952 original size:51 final size:51
Alignment explanation
Indices: 39723893--39724028 Score: 179
Period size: 51 Copynumber: 2.7 Consensus size: 51
39723883 TCGGTTCACA
39723893 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCA-TTCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTTCG-TACACG
* * *
39723944 TAGTAGCCTGCACATAGTACTACATATGCGACC--TATCATTTTCGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCA-TTTCGTACACG
* * *
39723994 TAGTAGCCTACACATAGTACTAAACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
39724029 CACTTTCACC
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
49 4 0.05
50 34 0.47
51 35 0.48
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTTCGTACACG
Found at i:39729540 original size:45 final size:45
Alignment explanation
Indices: 39729476--39729568 Score: 150
Period size: 45 Copynumber: 2.1 Consensus size: 45
39729466 ATAGATACTT
* *
39729476 GGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCC
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCC
* *
39729521 GGTGGAATCAGCACATAGCAACCACTTTACTAATCAATGATGTTC
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCC
39729566 GGT
1 GGT
39729569 TCACATAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (45 bp):
GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCC
Found at i:39729632 original size:51 final size:51
Alignment explanation
Indices: 39729563--39729810 Score: 245
Period size: 51 Copynumber: 4.9 Consensus size: 51
39729553 ATCAATGATG
* * *
39729563 TTCGGTTCACATAATAGCCTACACATAGTACTACACATGTGACCATTACCA-
1 TTCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCAT
** * *
39729614 TTCAATACACATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATT
1 TTCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATACCA-T
* * * ** * *
39729665 TTC-GTACACGTAGTAGCCTACACATAGTACTACACACGTGATTGAAACTA-
1 TTCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGA-CCATACCAT
* * *
39729715 TTCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCAT
1 TTCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATACCAT
* * * *
39729765 TTTGGGACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TTCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCAT
39729811 CACTTTCACC
Statistics
Matches: 157, Mismatches: 33, Indels: 14
0.77 0.16 0.07
Matches are distributed among these distances:
49 6 0.04
50 74 0.47
51 75 0.48
52 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (51 bp):
TTCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATACCAT
Found at i:39729689 original size:50 final size:51
Alignment explanation
Indices: 39729570--39729818 Score: 233
Period size: 50 Copynumber: 4.9 Consensus size: 51
39729560 ATGTTCGGTT
* * * * *
39729570 CACATAATAGCCTACACATAGTACTACACATGTGACCATTACCA--TTCAATA
1 CACATAGTAGCCTGCACATAGTACTACACATGCGACC--TATCATTTTCAGTA
39729621 CACATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTTTC-GTA
1 CACATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTTTCAGTA
* * * * * * * *
39729671 CACGTAGTAGCCTACACATAGTACTACACACGTGA-TTGA-AACTATTCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATGCGACCT-ATCA-TTTTCAGTA
* * *
39729722 CGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTTT-GGGA
1 CACATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTTTCAGTA
* * * *
39729772 CACGTAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTTTCA
1 CACATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTTTCA
39729819 CCTTTACATA
Statistics
Matches: 163, Mismatches: 27, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
49 13 0.08
50 74 0.45
51 74 0.45
52 2 0.01
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTTTCAGTA
Found at i:39729752 original size:101 final size:101
Alignment explanation
Indices: 39729577--39729810 Score: 353
Period size: 101 Copynumber: 2.3 Consensus size: 101
39729567 GTTCACATAA
* *
39729577 TAGCCTACACATAGTACTACACATGTGACCATTACCATTCAATACACATAGTAGCCTGCACATAG
1 TAGCCTACACATAGTACTACACACGTGACCATAACCATTCAATACACATAGTAGCCTGCACATAG
*
39729642 TACTACACATGCGACCTATCATTTTCGTACACGTAG
66 TACTACACATGCGACCTATCATTTTCGGACACGTAG
** * ** *
39729678 TAGCCTACACATAGTACTACACACGTGATTGA-AACTATTCGGTACGCATAGTAGCCTGCACATA
1 TAGCCTACACATAGTACTACACACGTGA-CCATAACCATTCAATACACATAGTAGCCTGCACATA
*
39729742 GTACTACACATGCGACCTATCATTTTGGGACACGTAG
65 GTACTACACATGCGACCTATCATTTTCGGACACGTAG
*
39729779 TAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGCCTACACATAGTACTACACACGTGACCAT
39729811 CACTTTCACC
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
100 1 0.01
101 116 0.98
102 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.26
Consensus pattern (101 bp):
TAGCCTACACATAGTACTACACACGTGACCATAACCATTCAATACACATAGTAGCCTGCACATAG
TACTACACATGCGACCTATCATTTTCGGACACGTAG
Found at i:39735849 original size:26 final size:26
Alignment explanation
Indices: 39735819--39735925 Score: 115
Period size: 26 Copynumber: 4.1 Consensus size: 26
39735809 AACACACCAA
*
39735819 TATCACAGCAAAGCTGCCAATAATAG
1 TATCACAGCAAAGCTGCCAGTAATAG
* * *
39735845 TATCACAACGAAGCTGCCAGTAATAA
1 TATCACAGCAAAGCTGCCAGTAATAG
* * *
39735871 TATCGCAGCGAAGCTGCCAGTATTAG
1 TATCACAGCAAAGCTGCCAGTAATAG
*** *
39735897 TATTGTAGCAAAGCTGCCAGTAACAG
1 TATCACAGCAAAGCTGCCAGTAATAG
39735923 TAT
1 TAT
39735926 ATGTGGTAAA
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 68 1.00
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.22
Consensus pattern (26 bp):
TATCACAGCAAAGCTGCCAGTAATAG
Found at i:39745296 original size:26 final size:26
Alignment explanation
Indices: 39745267--39745334 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 26
39745257 AACACACCAA
*
39745267 TATCGCAACAAAGCTTCCAGTAATAG
1 TATCGCAACAAAGCTGCCAGTAATAG
* *
39745293 TATCGCAGCAAAGCTGCCAGTATTAG
1 TATCGCAACAAAGCTGCCAGTAATAG
* *
39745319 TATTGCAACAATGCTG
1 TATCGCAACAAAGCTG
39745335 GCGGTAACAT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (26 bp):
TATCGCAACAAAGCTGCCAGTAATAG
Found at i:39745695 original size:29 final size:29
Alignment explanation
Indices: 39745639--39745736 Score: 112
Period size: 29 Copynumber: 3.4 Consensus size: 29
39745629 ATAACAGTGT
*
39745639 AAATGGGCC--CATGACCCATTACTCGGCCC
1 AAATGGGCCTACACGACCCA-T-CTCGGCCC
* * *
39745668 AAATGGGCCTACACGACCTATCTTGGCCA
1 AAATGGGCCTACACGACCCATCTCGGCCC
39745697 AAATGGGCCTACACGACCCATCTCGGCCC
1 AAATGGGCCTACACGACCCATCTCGGCCC
39745726 AACAT-GGCCTA
1 AA-ATGGGCCTA
39745737 TTACGGCCCA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
29 49 0.83
30 3 0.05
31 7 0.12
ACGTcount: A:0.27, C:0.36, G:0.20, T:0.17
Consensus pattern (29 bp):
AAATGGGCCTACACGACCCATCTCGGCCC
Found at i:39749561 original size:51 final size:49
Alignment explanation
Indices: 39749446--39749566 Score: 145
Period size: 51 Copynumber: 2.4 Consensus size: 49
39749436 TGCCAAAGTT
* * * *
39749446 ATATCCTAGACATGGTCTTACATTGGATGTTTCCTGTATTGCCAATGCC
1 ATATCCCAGACATGGTCTTACATGGGATGTTTCATATATTGCCAATGCC
* *
39749495 ATATCCCAAATATGGTCTTACATGGGATG-TTCATATATCAGTGCCAATGCC
1 ATATCCCAGACATGGTCTTACATGGGATGTTTCATATAT---TGCCAATGCC
*
39749546 ATGTCCCAGACATGGTCTTAC
1 ATATCCCAGACATGGTCTTAC
39749567 GGGGAACCTC
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
48 7 0.12
49 25 0.42
51 28 0.47
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (49 bp):
ATATCCCAGACATGGTCTTACATGGGATGTTTCATATATTGCCAATGCC
Found at i:39753017 original size:40 final size:40
Alignment explanation
Indices: 39752849--39753073 Score: 206
Period size: 40 Copynumber: 5.7 Consensus size: 40
39752839 TTGAATGCTG
* * * *
39752849 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
39752889 TCCGGACTAAGAT-CCGAAGGCTTTTGTGCGAGATAC-AAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
39752928 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
39752969 TCCAGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
39753009 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
39753048 ACTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39753074 AACGAGGAGC
Statistics
Matches: 155, Mismatches: 24, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
39 35 0.23
40 109 0.70
41 11 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39760484 original size:40 final size:40
Alignment explanation
Indices: 39760316--39760539 Score: 215
Period size: 40 Copynumber: 5.7 Consensus size: 40
39760306 TTGAATGCTG
* * * *
39760316 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
39760356 TCCGGACTAAGAT-CCGAAGGCTTTTGTGCGAGATAC-AAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
39760395 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
39760436 TCCAGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
39760476 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
39760515 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
39760540 AACGAGGAGC
Statistics
Matches: 156, Mismatches: 22, Indels: 13
0.82 0.12 0.07
Matches are distributed among these distances:
38 20 0.13
39 19 0.12
40 106 0.68
41 11 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39772210 original size:39 final size:39
Alignment explanation
Indices: 39772146--39772264 Score: 157
Period size: 39 Copynumber: 3.1 Consensus size: 39
39772136 GGCCTTGTGC
* * ** *
39772146 CGGTGGCTTATCGAGCTCTGCGCCTAGCCGGCTTCGTGT
1 CGGTGACTTATCGAGCTTTTAGCCTAGCCGGCTTCATGT
* *
39772185 CGGTGACTTATCGAGCTTTTAGCCTAGCAGGCTTCATTT
1 CGGTGACTTATCGAGCTTTTAGCCTAGCCGGCTTCATGT
* *
39772224 CGATGACTTATCGAGCTTTTAGCCTAGTCGGCTTCATGT
1 CGGTGACTTATCGAGCTTTTAGCCTAGCCGGCTTCATGT
39772263 CG
1 CG
39772265 ATCTTTATCG
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.14, C:0.26, G:0.27, T:0.33
Consensus pattern (39 bp):
CGGTGACTTATCGAGCTTTTAGCCTAGCCGGCTTCATGT
Found at i:39772266 original size:39 final size:39
Alignment explanation
Indices: 39772152--39772300 Score: 153
Period size: 39 Copynumber: 3.8 Consensus size: 39
39772142 GTGCCGGTGG
* * * * *
39772152 CTTATCGAGCTCTGCGCCTAGCCGGCTTCGTGTCGGTGA
1 CTTATCGAGCTTTGAGCCTAGTCGGCTTCATGTCGATGA
* *
39772191 CTTATCGAGCTTTTAGCCTAG-CAGGCTTCATTTCGATGA
1 CTTATCGAGCTTTGAGCCTAGTC-GGCTTCATGTCGATGA
*
39772230 CTTATCGAGCTTTTAGCCTAGTCGGCTTCATGTCGAT--
1 CTTATCGAGCTTTGAGCCTAGTCGGCTTCATGTCGATGA
* *
39772267 CTTTATCGAG-ATTGATGCCTAGTAGGCTTCATGT
1 C-TTATCGAGCTTTGA-GCCTAGTCGGCTTCATGT
39772301 TGGTGTAACG
Statistics
Matches: 96, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
37 4 0.04
38 26 0.27
39 65 0.68
40 1 0.01
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (39 bp):
CTTATCGAGCTTTGAGCCTAGTCGGCTTCATGTCGATGA
Found at i:39776766 original size:18 final size:19
Alignment explanation
Indices: 39776743--39776781 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
39776733 AAGAGTAGTC
39776743 TTTCAAGATC-TGGT-TCTT
1 TTTCAAGA-CATGGTATCTT
39776761 TTTCAAGACATGGTATCTT
1 TTTCAAGACATGGTATCTT
39776780 TT
1 TT
39776782 CCAAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.05
18 12 0.63
19 6 0.32
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.49
Consensus pattern (19 bp):
TTTCAAGACATGGTATCTT
Found at i:39786869 original size:14 final size:14
Alignment explanation
Indices: 39786841--39786869 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
39786831 GCTTAGTGGA
39786841 TTTTGACTTGATTT
1 TTTTGACTTGATTT
39786855 TTTTG-CTTGATTT
1 TTTTGACTTGATTT
39786868 TT
1 TT
39786870 AAGCAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.10, C:0.07, G:0.14, T:0.69
Consensus pattern (14 bp):
TTTTGACTTGATTT
Found at i:39790417 original size:28 final size:28
Alignment explanation
Indices: 39790354--39790533 Score: 285
Period size: 28 Copynumber: 6.5 Consensus size: 28
39790344 ATATTAAGTC
* * *
39790354 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAGTCAAACT
*
39790381 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
39790409 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
*
39790437 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTCAAACT
39790464 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACT
*
39790492 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAGTCAAACT
39790519 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39790534 GCACAATTTA
Statistics
Matches: 145, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
27 65 0.45
28 80 0.55
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAGTCAAACT
Found at i:39790467 original size:55 final size:55
Alignment explanation
Indices: 39790354--39790533 Score: 299
Period size: 55 Copynumber: 3.3 Consensus size: 55
39790344 ATATTAAGTC
* * * * *
39790354 CGCACACTCAGTGCTATATAATC-AACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTC-AATT
39790409 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATT
39790464 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATT
39790519 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39790534 GCACAATTTA
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
55 93 0.78
56 26 0.22
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCTACATAGTCAATT
Found at i:39790493 original size:83 final size:82
Alignment explanation
Indices: 39790354--39790533 Score: 297
Period size: 83 Copynumber: 2.2 Consensus size: 82
39790344 ATATTAAGTC
* *
39790354 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
39790419 GTGCTACATAGTCAAACT
66 GTGCTACATAGTC-AACT
* * *
39790437 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGTCAAACTCGCACACTTA
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
*
39790502 GTGCTACATAGTCAATT
66 GTGCTACATAGTCAACT
39790519 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
39790534 GCACAATTTA
Statistics
Matches: 91, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
82 18 0.20
83 73 0.80
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (82 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTA
GTGCTACATAGTCAACT
Found at i:39795412 original size:19 final size:18
Alignment explanation
Indices: 39795376--39795415 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
39795366 TTTCCACTCG
*
39795376 TTTCTTTTTCAACTTCTC
1 TTTCTTTTTCAACATCTC
*
39795394 TTTCTTTTTCCACAATCTC
1 TTTCTTTTTCAAC-ATCTC
39795413 TTT
1 TTT
39795416 GTTTGTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTCTTTTTCAACATCTC
Found at i:39796494 original size:15 final size:14
Alignment explanation
Indices: 39796474--39796530 Score: 96
Period size: 14 Copynumber: 4.0 Consensus size: 14
39796464 ACTAGCTCTC
39796474 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
39796488 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
*
39796502 TTTTTTTTTCAAAAA
1 TTTTTTTTTC-ACAA
39796517 TTTTTTTTTCACAA
1 TTTTTTTTTCACAA
39796531 CTTGATATCC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
14 27 0.68
15 13 0.32
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTTTTTTCACAA
Found at i:39796518 original size:29 final size:28
Alignment explanation
Indices: 39796474--39796530 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 28
39796464 ACTAGCTCTC
*
39796474 TTTTTTTTTCACAATTTTTTTTTCACAA
1 TTTTTTTTTCAAAATTTTTTTTTCACAA
39796502 TTTTTTTTTCAAAAATTTTTTTTTCACAA
1 TTTTTTTTTC-AAAATTTTTTTTTCACAA
39796531 CTTGATATCC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.63
Consensus pattern (28 bp):
TTTTTTTTTCAAAATTTTTTTTTCACAA
Found at i:39796590 original size:12 final size:11
Alignment explanation
Indices: 39796573--39796639 Score: 107
Period size: 11 Copynumber: 5.9 Consensus size: 11
39796563 ACCAAAATTT
39796573 TTTTTTTTGAAA
1 TTTTTTTTG-AA
39796585 TTTTTTTTGAA
1 TTTTTTTTGAA
39796596 TTTTTTTTGAA
1 TTTTTTTTGAA
39796607 TTTTTTTTGAA
1 TTTTTTTTGAA
*
39796618 TTTTTTTTCGAG
1 TTTTTTTT-GAA
39796630 TTTTTTTTGA
1 TTTTTTTTGA
39796640 GAAACTACTA
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
11 34 0.64
12 19 0.36
ACGTcount: A:0.16, C:0.01, G:0.10, T:0.72
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:39798833 original size:25 final size:24
Alignment explanation
Indices: 39798742--39798835 Score: 66
Period size: 25 Copynumber: 3.8 Consensus size: 24
39798732 TCATGTACAT
* *
39798742 GTATGCTCATACGAGATGTGAATC
1 GTATGCTCATACGAGCTGTAAATC
* * *
39798766 GGTATGCTCACT-TGAGCTGCAGATC
1 -GTATGCTCA-TACGAGCTGTAAATC
*
39798791 GATATGCTC-TCACAAGCTGTAAATC
1 G-TATGCTCAT-ACGAGCTGTAAATC
*
39798816 AGTATGCTCATATGAGCTGT
1 -GTATGCTCATACGAGCTGT
39798836 GGGTTGGAAC
Statistics
Matches: 52, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
23 1 0.02
24 1 0.02
25 47 0.90
26 3 0.06
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (24 bp):
GTATGCTCATACGAGCTGTAAATC
Found at i:39802216 original size:27 final size:27
Alignment explanation
Indices: 39802181--39802245 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
39802171 AGCATAGCTG
*
39802181 CCAGT-ACAGT-ATATGTGGCAAAGTCA
1 CCAGTAACAGTAAT-TGTGGCAAAGCCA
*
39802207 CCAGTAACAGTAATTGTTGCAAAGCCA
1 CCAGTAACAGTAATTGTGGCAAAGCCA
*
39802234 CCAGAAACAGTA
1 CCAGTAACAGTA
39802246 CTTCCTCTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.15
27 27 0.79
28 2 0.06
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTAATTGTGGCAAAGCCA
Found at i:39802408 original size:27 final size:26
Alignment explanation
Indices: 39802378--39802574 Score: 216
Period size: 27 Copynumber: 7.3 Consensus size: 26
39802368 ACCTTAACGG
*
39802378 GGGTATTATGGTAATTATACCCATCAA
1 GGGTATT-TGGTAATTTTACCCATCAA
**
39802405 GGGTATTTTGGTAATTTTACCCATTGA
1 GGGTA-TTTGGTAATTTTACCCATCAA
* *
39802432 GGGTATTACGGTAATTTTACCCATCGA
1 GGGTATT-TGGTAATTTTACCCATCAA
* * *
39802459 GGGTATTTCGATAATTTTACCCATTAG
1 GGGTATTT-GGTAATTTTACCCATCAA
*
39802486 GGGTATTTCGATAATTTTACCCATC-A
1 GGGTATTT-GGTAATTTTACCCATCAA
*
39802512 GGAGTATTTCAGTAATTTTACCCATCAA
1 GG-GTATTT-GGTAATTTTACCCATCAA
39802540 GGGTATTTTGGTAATTTTACCCATCAA
1 GGGTA-TTTGGTAATTTTACCCATCAA
*
39802567 AGGTATTT
1 GGGTATTT
39802575 CGGTCCAGTT
Statistics
Matches: 148, Mismatches: 16, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
26 7 0.05
27 133 0.90
28 8 0.05
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (26 bp):
GGGTATTTGGTAATTTTACCCATCAA
Found at i:39802446 original size:54 final size:53
Alignment explanation
Indices: 39802378--39802578 Score: 251
Period size: 54 Copynumber: 3.7 Consensus size: 53
39802368 ACCTTAACGG
* * *
39802378 GGGTATTATGGTAATTATACCCATCAAGGGTATTTTGGTAATTTTACCCATTGA
1 GGGTATTACGGTAATTTTACCCATCAAGGGTATTTCGGTAATTTTACCCATT-A
* *
39802432 GGGTATTACGGTAATTTTACCCATCGAGGGTATTTCGATAATTTTACCCATTA
1 GGGTATTACGGTAATTTTACCCATCAAGGGTATTTCGGTAATTTTACCCATTA
* * * *
39802485 GGGGTATTTCGATAATTTTACCCATC-AGGAGTATTTCAGTAATTTTACCCATCAA
1 -GGGTATTACGGTAATTTTACCCATCAAGG-GTATTTCGGTAATTTTACCCAT-TA
** *
39802540 GGGTATTTTGGTAATTTTACCCATCAAAGGTATTTCGGT
1 GGGTATTACGGTAATTTTACCCATCAAGGGTATTTCGGT
39802579 CCAGTTAACG
Statistics
Matches: 129, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
53 4 0.03
54 122 0.95
55 3 0.02
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.38
Consensus pattern (53 bp):
GGGTATTACGGTAATTTTACCCATCAAGGGTATTTCGGTAATTTTACCCATTA
Found at i:39802519 original size:81 final size:81
Alignment explanation
Indices: 39802389--39802576 Score: 252
Period size: 81 Copynumber: 2.3 Consensus size: 81
39802379 GGTATTATGG
* * * * *
39802389 TAATTATACCCATCAAGGGTATTTTGGTAATTTTACCCATTGAGGGTATTACGGTAATTTTACCC
1 TAATTTTACCCATCAAGGGTATTTCGATAATTTTACCCATTCAGGGTATTACAGTAATTTTACCC
*
39802454 ATCGAGGGTATTTCGA
66 ATCAAGGGTATTTCGA
* * *
39802470 TAATTTTACCCATTAGGGGTATTTCGATAATTTTACCCA-TCAGGAGTATTTCAGTAATTTTACC
1 TAATTTTACCCATCAAGGGTATTTCGATAATTTTACCCATTCAGG-GTATTACAGTAATTTTACC
* *
39802534 CATCAAGGGTATTTTGG
65 CATCAAGGGTATTTCGA
*
39802551 TAATTTTACCCATCAAAGGTATTTCG
1 TAATTTTACCCATCAAGGGTATTTCG
39802577 GTCCAGTTAA
Statistics
Matches: 92, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 4 0.04
81 88 0.96
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (81 bp):
TAATTTTACCCATCAAGGGTATTTCGATAATTTTACCCATTCAGGGTATTACAGTAATTTTACCC
ATCAAGGGTATTTCGA
Found at i:39802826 original size:18 final size:17
Alignment explanation
Indices: 39802793--39802826 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
39802783 ATCCTTCTGA
*
39802793 GGCCCACGAGCCCATTG
1 GGCCCACGAACCCATTG
39802810 GGCCCACGCAACCCATT
1 GGCCCACG-AACCCATT
39802827 TGGTCCAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.21, C:0.44, G:0.24, T:0.12
Consensus pattern (17 bp):
GGCCCACGAACCCATTG
Found at i:39809000 original size:13 final size:13
Alignment explanation
Indices: 39808982--39809008 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
39808972 TGCCTAAACA
39808982 CATATTCACCAAC
1 CATATTCACCAAC
39808995 CATATTCACCAAC
1 CATATTCACCAAC
39809008 C
1 C
39809009 GTGTTAGCCA
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:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (13 bp):
CATATTCACCAAC
Found at i:39809363 original size:25 final size:25
Alignment explanation
Indices: 39809309--39809370 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 25
39809299 ACACTTTGTG
*
39809309 AATCGGTATGCTCACTCGAGCTGCA
1 AATCGGTATGCTCACTCGAGCTACA
* * *
39809334 GATCGGTATGCTCA-TATGAGCTATA
1 AATCGGTATGCTCACT-CGAGCTACA
*
39809359 AATCGATATGCT
1 AATCGGTATGCT
39809371 AATACAAGCT
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
24 1 0.03
25 29 0.97
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (25 bp):
AATCGGTATGCTCACTCGAGCTACA
Found at i:39810820 original size:20 final size:20
Alignment explanation
Indices: 39810795--39810833 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
39810785 TACTTTCTTC
39810795 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
39810815 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
39810834 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:39811162 original size:50 final size:50
Alignment explanation
Indices: 39811107--39811229 Score: 147
Period size: 50 Copynumber: 2.5 Consensus size: 50
39811097 TCCCAGATAA
* ** * * **
39811107 GGTCTTATATGGGAGTTCTCATATTGGTGCCCATGCCATGTCCCAAACAT
1 GGTCTTACATGGGACCTCTCATATCGGTGCCAACACCATGTCCCAAACAT
** * *
39811157 GGTCTTACGGGGGACCTCTCATCTCGGTGCCAACACCATGTCCCAAATAT
1 GGTCTTACATGGGACCTCTCATATCGGTGCCAACACCATGTCCCAAACAT
39811207 GGTCTTACATGGGACCTCTCATA
1 GGTCTTACATGGGACCTCTCATA
39811230 ACCTCAATAA
Statistics
Matches: 59, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 59 1.00
ACGTcount: A:0.22, C:0.28, G:0.22, T:0.28
Consensus pattern (50 bp):
GGTCTTACATGGGACCTCTCATATCGGTGCCAACACCATGTCCCAAACAT
Found at i:39813906 original size:11 final size:11
Alignment explanation
Indices: 39813890--39813920 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
39813880 CCAAGACCCT
39813890 AAATCATGCCC
1 AAATCATGCCC
39813901 AAATCATGCCC
1 AAATCATGCCC
*
39813912 AAAACATGC
1 AAATCATGC
39813921 ATAATGAGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.42, C:0.32, G:0.10, T:0.16
Consensus pattern (11 bp):
AAATCATGCCC
Found at i:39815415 original size:21 final size:21
Alignment explanation
Indices: 39815389--39815428 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
39815379 ATAATTTACT
39815389 ATTTCATCCACATATCATGAA
1 ATTTCATCCACATATCATGAA
39815410 ATTTCATCCACATATCATG
1 ATTTCATCCACATATCATG
39815429 CTAGGGACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (21 bp):
ATTTCATCCACATATCATGAA
Found at i:39828817 original size:16 final size:16
Alignment explanation
Indices: 39828796--39828846 Score: 84
Period size: 16 Copynumber: 3.2 Consensus size: 16
39828786 TGAATTACTA
39828796 ATTACAACTCTATTTC
1 ATTACAACTCTATTTC
* *
39828812 ATTACAGCTCTATTCC
1 ATTACAACTCTATTTC
39828828 ATTACAACTCTATTTC
1 ATTACAACTCTATTTC
39828844 ATT
1 ATT
39828847 CCAATTAACC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.29, C:0.25, G:0.02, T:0.43
Consensus pattern (16 bp):
ATTACAACTCTATTTC
Found at i:39829792 original size:34 final size:34
Alignment explanation
Indices: 39829747--39829870 Score: 160
Period size: 34 Copynumber: 3.6 Consensus size: 34
39829737 ACATATGCAA
* * *
39829747 ATATCATATCAGAATGTCACATTACCAGAAACAT
1 ATATCAAATCAGAATGTCATATTTCCAGAAACAT
* *
39829781 TTATCAAATCAGAATGTCATATTTCAAGAAACAT
1 ATATCAAATCAGAATGTCATATTTCCAGAAACAT
* *
39829815 ATACCAAATCAGAATGTCATATTTTC-GTAAACAT
1 ATATCAAATCAGAATGTCATATTTCCAG-AAACAT
*
39829849 ATATCATATCAGAATGTCATAT
1 ATATCAAATCAGAATGTCATAT
39829871 CATATCAGAA
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
33 1 0.01
34 77 0.99
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (34 bp):
ATATCAAATCAGAATGTCATATTTCCAGAAACAT
Found at i:39830075 original size:46 final size:46
Alignment explanation
Indices: 39830006--39830098 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
39829996 GCTGCCAAAC
39830006 AAATATTGAAGTTTAACTGCCAGTATTGTAGTAATACTACTAGAAA
1 AAATATTGAAGTTTAACTGCCAGTATTGTAGTAATACTACTAGAAA
39830052 AAATATTGAAGTTTAACCT-CCAGTATTGTAGTAATACTACTAGAAA
1 AAATATTGAAGTTTAA-CTGCCAGTATTGTAGTAATACTACTAGAAA
39830098 A
1 A
39830099 CACTTTCTCC
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 44 0.96
47 2 0.04
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (46 bp):
AAATATTGAAGTTTAACTGCCAGTATTGTAGTAATACTACTAGAAA
Found at i:39831211 original size:18 final size:17
Alignment explanation
Indices: 39831176--39831215 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
39831166 AGAACTCAAG
*
39831176 AGAGAAAAAGAAAGAAA
1 AGAGAAAAAGAAAAAAA
*
39831193 AGAGGAAAAGAAAAAAA
1 AGAGAAAAAGAAAAAAA
39831210 A-AGAAA
1 AGAGAAA
39831216 GTGGGTAAGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (17 bp):
AGAGAAAAAGAAAAAAA
Found at i:39833384 original size:28 final size:28
Alignment explanation
Indices: 39833347--39833522 Score: 244
Period size: 28 Copynumber: 6.3 Consensus size: 28
39833337 CCAATACAGT
* *
39833347 ATACAATAACAATGTGGGCCTTAGCCGA
1 ATACAGTAACAATGTGGGCCTTAGCCCA
39833375 ATACAGTAACAATGTGGGCCTTAGCCCA
1 ATACAGTAACAATGTGGGCCTTAGCCCA
* **
39833403 ATATAGTATTAATGTGGGCCTTAGCCCA
1 ATACAGTAACAATGTGGGCCTTAGCCCA
* * *
39833431 ATTCAGTAACAATGTCGGCCTTAGCTCA
1 ATACAGTAACAATGTGGGCCTTAGCCCA
* *
39833459 ATATAGTAACAATGTGGGCCTTAACCCA
1 ATACAGTAACAATGTGGGCCTTAGCCCA
* *
39833487 ATGCAGTAACAATGTGGGCCTTAGCCCT
1 ATACAGTAACAATGTGGGCCTTAGCCCA
39833515 ATACAGTA
1 ATACAGTA
39833523 TCGATACAGT
Statistics
Matches: 127, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 127 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (28 bp):
ATACAGTAACAATGTGGGCCTTAGCCCA
Found at i:39833905 original size:27 final size:27
Alignment explanation
Indices: 39833885--39834244 Score: 340
Period size: 27 Copynumber: 13.3 Consensus size: 27
39833875 AGGGGTATAA
*
39833885 CAGTCATTTTACCCTATAGGGGTATTT
1 CAGTCATTTTACCCTATAGGGGTAATT
** *
39833912 TGGTCATTTTACCCTATGGGGGTAATT
1 CAGTCATTTTACCCTATAGGGGTAATT
*
39833939 CAGTTATTTTACCCTATAGGGGTAATT
1 CAGTCATTTTACCCTATAGGGGTAATT
* *
39833966 TAGTCATTTTACCCTATCGGGGTAATT
1 CAGTCATTTTACCCTATAGGGGTAATT
39833993 C-GATCATTTTACCCTAT-GAGGGTAATT
1 CAG-TCATTTTACCCTATAG-GGGTAATT
* *
39834020 CACTCATTTTACCCTGTAGGGGTAATT
1 CAGTCATTTTACCCTATAGGGGTAATT
* * * * *
39834047 CACTTATTTTACCTTGTGGGGGTAATT
1 CAGTCATTTTACCCTATAGGGGTAATT
* *
39834074 C-GATCATTTTA-CCAAGTGGGGGTAATT
1 CAG-TCATTTTACCCTA-TAGGGGTAATT
* *
39834101 C-GATCATTTTACCCTGTGGGGGTAATT
1 CAG-TCATTTTACCCTATAGGGGTAATT
* * * *
39834128 CGGTCATTTTACACTGTGGGGGTAATT
1 CAGTCATTTTACCCTATAGGGGTAATT
* * *
39834155 CGGTCATTTTACCTTGT-GAGGGTAATT
1 CAGTCATTTTACCCTATAG-GGGTAATT
39834182 C-GCTCATTTTACCCTAT-GGTGGTAATT
1 CAG-TCATTTTACCCTATAGG-GGTAATT
* * *
39834209 CGGTCATTTTACCCTGTGGGGGTAATT
1 CAGTCATTTTACCCTATAGGGGTAATT
39834236 CAGTCATTT
1 CAGTCATTT
39834245 ATTGACCTCT
Statistics
Matches: 289, Mismatches: 31, Indels: 26
0.84 0.09 0.08
Matches are distributed among these distances:
26 6 0.02
27 276 0.96
28 7 0.02
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.39
Consensus pattern (27 bp):
CAGTCATTTTACCCTATAGGGGTAATT
Found at i:39834010 original size:81 final size:81
Alignment explanation
Indices: 39833885--39834244 Score: 415
Period size: 81 Copynumber: 4.4 Consensus size: 81
39833875 AGGGGTATAA
* * * * * * *
39833885 CAGTCATTTTACCCTATAGGGGTATTTTGGTCATTTTACCCTATGGGGGTAATTC-AGTTATTTT
1 CAGTCATTTTACCCTGTGGGGGTAATTCGATCATTTTACCCTATGAGGGTAATTCGA-TCATTTT
39833949 ACCCTATAGGGGTAATT
65 ACCCTATAGGGGTAATT
* * *
39833966 TAGTCATTTTACCCTATCGGGGTAATTCGATCATTTTACCCTATGAGGGTAATTC-ACTCATTTT
1 CAGTCATTTTACCCTGTGGGGGTAATTCGATCATTTTACCCTATGAGGGTAATTCGA-TCATTTT
*
39834030 ACCCTGTAGGGGTAATT
65 ACCCTATAGGGGTAATT
* * * * *
39834047 CACTTATTTTACCTTGTGGGGGTAATTCGATCATTTTA-CCAAGTGGGGGTAATTCGATCATTTT
1 CAGTCATTTTACCCTGTGGGGGTAATTCGATCATTTTACCCTA-TGAGGGTAATTCGATCATTTT
* *
39834111 ACCCTGTGGGGGTAATT
65 ACCCTATAGGGGTAATT
* * * * * *
39834128 CGGTCATTTTACACTGTGGGGGTAATTCGGTCATTTTACCTTGTGAGGGTAATTCGCTCATTTTA
1 CAGTCATTTTACCCTGTGGGGGTAATTCGATCATTTTACCCTATGAGGGTAATTCGATCATTTTA
39834193 CCCTAT-GGTGGTAATT
66 CCCTATAGG-GGTAATT
*
39834209 CGGTCATTTTACCCTGTGGGGGTAATTC-AGTCATTT
1 CAGTCATTTTACCCTGTGGGGGTAATTCGA-TCATTT
39834245 ATTGACCTCT
Statistics
Matches: 242, Mismatches: 32, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
80 5 0.02
81 235 0.97
82 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.39
Consensus pattern (81 bp):
CAGTCATTTTACCCTGTGGGGGTAATTCGATCATTTTACCCTATGAGGGTAATTCGATCATTTTA
CCCTATAGGGGTAATT
Found at i:39836854 original size:27 final size:27
Alignment explanation
Indices: 39836807--39836858 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
39836797 TTTTCTCTTC
*
39836807 TTTCTTTTTCAATCTTTTCTTTTTCAG
1 TTTCTTTTTCAATCTTCTCTTTTTCAG
*
39836834 TTTCTTTTTCGATGC-TCTCTTTTTC
1 TTTCTTTTTCAAT-CTTCTCTTTTTC
39836859 TTTCGCTTGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.08, C:0.21, G:0.06, T:0.65
Consensus pattern (27 bp):
TTTCTTTTTCAATCTTCTCTTTTTCAG
Found at i:39841026 original size:27 final size:27
Alignment explanation
Indices: 39841007--39841673 Score: 828
Period size: 27 Copynumber: 24.8 Consensus size: 27
39840997 GGGTAAAACA
*
39841007 ATCATTTTACCCTATGGGGGTATTTTG
1 ATCATTTTACCCTATGGGGGTATTTCG
* * *
39841034 GTCATTTTACCCTAT-GGGGTATTCCA
1 ATCATTTTACCCTATGGGGGTATTTCG
* * *
39841060 ATAATTCTACCCTATAGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
* *
39841087 ATCATTTTATCCTATGGGGGTATTTCA
1 ATCATTTTACCCTATGGGGGTATTTCG
* *
39841114 ATCATTCTACCCTATAGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
*
39841141 ATCATTTTATCCTATGGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
* *
39841168 ATCATTCTACCCTATGGGGGCATTTC-
1 ATCATTTTACCCTATGGGGGTATTTCG
*
39841194 AGTCATTTTATCCTATGGGGGTATTTCG
1 A-TCATTTTACCCTATGGGGGTATTTCG
*
39841222 ATCATTCTACCCTATGGGGGTATTTC-
1 ATCATTTTACCCTATGGGGGTATTTCG
* *
39841248 AGTCATTTTACCCTATAGGGGTATTTTG
1 A-TCATTTTACCCTATGGGGGTATTTCG
*
39841276 GTCATTTTACCCTATGGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
*
39841303 ATCATTTTACCCTATGAGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
* * *
39841330 GTCATTTTACCCTATTGGGGTATTTTG
1 ATCATTTTACCCTATGGGGGTATTTCG
* *
39841357 GTCATTTTACCCTATGAGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
*
39841384 ATCATTTTACCCTATGAGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
* * *
39841411 GTCATTTTACCCTATAGGGGTATTTTG
1 ATCATTTTACCCTATGGGGGTATTTCG
* *
39841438 GTCATTTTACCCTATGGAGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
* *
39841465 GTCATTCTACCCTAT-GGGGTATTTC-
1 ATCATTTTACCCTATGGGGGTATTTCG
*
39841490 AGTCATTTTACCCTATGAGGGTATTTC-
1 A-TCATTTTACCCTATGGGGGTATTTCG
* *
39841517 AGCCATTTTACCCTATGGGGGTATTTCA
1 A-TCATTTTACCCTATGGGGGTATTTCG
* *
39841545 ATCATTTTATCCTATAGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
*
39841572 ATCATTCTACCCTATGGGGGTATTTCG
1 ATCATTTTACCCTATGGGGGTATTTCG
* *
39841599 GTCATTTTGCCCTAT-GGGGTATTTCTG
1 ATCATTTTACCCTATGGGGGTATTTC-G
* *
39841626 -TCATTTTACCTTATGGGGGTATTTTG
1 ATCATTTTACCCTATGGGGGTATTTCG
* *
39841652 GTCATTTTACCCTATGAGGGTA
1 ATCATTTTACCCTATGGGGGTA
39841674 ATTTGCTGTA
Statistics
Matches: 555, Mismatches: 74, Indels: 22
0.85 0.11 0.03
Matches are distributed among these distances:
26 67 0.12
27 486 0.88
28 2 0.00
ACGTcount: A:0.19, C:0.18, G:0.21, T:0.41
Consensus pattern (27 bp):
ATCATTTTACCCTATGGGGGTATTTCG
Found at i:39851110 original size:5 final size:5
Alignment explanation
Indices: 39851089--39851161 Score: 71
Period size: 5 Copynumber: 14.6 Consensus size: 5
39851079 TTACTTTATT
* *
39851089 TAATA TATATAA TAATA TAATA TAATA TAAT- TAATA TAATA TATTA TATTA
1 TAATA TA-AT-A TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
*
39851140 T-ATAA TAATA T-ATA TAACA TAA
1 TAAT-A TAATA TAATA TAATA TAA
39851162 AAATCTAATA
Statistics
Matches: 59, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
4 9 0.15
5 41 0.69
6 6 0.10
7 3 0.05
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (5 bp):
TAATA
Found at i:39851123 original size:31 final size:28
Alignment explanation
Indices: 39851088--39851156 Score: 81
Period size: 26 Copynumber: 2.5 Consensus size: 28
39851078 TTTACTTTAT
39851088 TTAATATATATAATAATATAATATAATATAA
1 TTAATATATATAAT-AT-T-ATATAATATAA
*
39851119 TTAATATA-AT-ATATTATATTATATAA
1 TTAATATATATAATATTATATAATATAA
39851145 -TAATATATATAA
1 TTAATATATATAA
39851157 CATAAAAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
25 7 0.20
26 12 0.34
27 2 0.06
28 2 0.06
29 2 0.06
30 2 0.06
31 8 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (28 bp):
TTAATATATATAATATTATATAATATAA
Found at i:39853485 original size:26 final size:22
Alignment explanation
Indices: 39853440--39853488 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 22
39853430 GTAAATCAGA
39853440 AGAATATCTCTAGAAATTTTCT
1 AGAATATCTCTAGAAATTTTCT
39853462 AGAATAATCTCTTCAGAGAATTTTCT
1 AGAAT-ATCTC-T-AGA-AATTTTCT
39853488 A
1 A
39853489 TCTACAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.22
23 5 0.22
24 1 0.04
25 3 0.13
26 9 0.39
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.39
Consensus pattern (22 bp):
AGAATATCTCTAGAAATTTTCT
Found at i:39853787 original size:14 final size:14
Alignment explanation
Indices: 39853764--39853790 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
39853754 TAATTGATCA
39853764 AAATTAATTTTTCC
1 AAATTAATTTTTCC
39853778 AAATTAATTTTTC
1 AAATTAATTTTTC
39853791 AAGAAAATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (14 bp):
AAATTAATTTTTCC
Found at i:39857184 original size:51 final size:50
Alignment explanation
Indices: 39857057--39857302 Score: 212
Period size: 50 Copynumber: 4.9 Consensus size: 50
39857047 TATTATCATT
* * *
39857057 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCA-AACTTTC
1 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATAA-TATC
*
39857107 C-AGTTCACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAATATC
1 CGA-TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-TAATATC
* * * *
39857158 TGATACACGTAATAGCCTGCACATAGTACTACACACGTGATCGA-AGCTATC
1 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATA-ATATC
* ** * * * * * * * *
39857209 CGGTATGCATAATAGCCTGCACATAATACTGCACATGCGACCTTTCAT-TC
1 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACC-ATAATATC
* * *
39857259 CGGTAGACGTAGTAGCCTACACATAGTACTACACACGTGACCAT
1 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
39857303 CACTTTCAAT
Statistics
Matches: 156, Mismatches: 32, Indels: 17
0.76 0.16 0.08
Matches are distributed among these distances:
49 2 0.01
50 75 0.48
51 74 0.47
52 5 0.03
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATAATATC
Found at i:39857269 original size:101 final size:100
Alignment explanation
Indices: 39857057--39857298 Score: 290
Period size: 101 Copynumber: 2.4 Consensus size: 100
39857047 TATTATCATT
* * *
39857057 CGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTTTCCAGTTCACGTAGTAG
1 CGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAACTATCCAGTTCAC-TAATAG
* *
39857122 CCTGCACATAGTACTACACACGTGACCATTAATATC
65 CCTGCACATAATACTACACACGCGACCATTAATATC
* * * * *
39857158 TGATACACGTAATAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTATGCA-TAAT
1 CGATACACGTAGTAGCCTACACATAGTACTACACACGTGATC-AAACTATCCAGT-T-CACTAAT
* * * *
39857222 AGCCTGCACATAATACTGCACATGCGACCTTTCAT-TC
63 AGCCTGCACATAATACTACACACGCGACCATTAATATC
* *
39857259 CGGTAGACGTAGTAGCCTACACATAGTACTACACACGTGA
1 CGATACACGTAGTAGCCTACACATAGTACTACACACGTGA
39857299 CCATCACTTT
Statistics
Matches: 120, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
101 76 0.63
102 41 0.34
103 1 0.01
104 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (100 bp):
CGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCAAACTATCCAGTTCACTAATAGC
CTGCACATAATACTACACACGCGACCATTAATATC
Found at i:39860365 original size:75 final size:75
Alignment explanation
Indices: 39860106--39860397 Score: 234
Period size: 75 Copynumber: 3.9 Consensus size: 75
39860096 TAGTATCTTT
* *** *
39860106 CCACAAAGGC-TTTCAGAGAGAGTTAGCCACAAAGGCTTTCTATAG-GA-TTTGTCACAATGGCT
1 CCACAAAGGCTTTTCA-A-AGAGTTTGCCACAAAGGCTTT-T-TAGAGAGTTCACCACAAAGGCT
* **
39860168 TTTTAGAGAGTTCA
62 TTTCAGAGAGTTTG
* * * * *
39860182 CCACAAATGTTTTTCAAAGA-TTT-CATAGCAAAGGCTTTTTAAAGAGTTCACCACCAAGGCTTT
1 CCACAAAGGCTTTTCAAAGAGTTTGC-CA-CAAAGGCTTTTTAGAGAGTTCACCACAAAGGCTTT
*
39860245 TCAGAGGGTTTG
64 TCAGAGAGTTTG
** * * * ** * * *
39860257 CCTTAAAGGCTTTTTAGACAGTTCACCATAAAGGCTTTTTAGAGAGTTCGCCACAAAGGCATTTC
1 CCACAAAGGCTTTTCAAAGAGTTTGCCACAAAGGCTTTTTAGAGAGTTCACCACAAAGGCTTTTC
*
39860322 ATAGAGTTTG
66 AGAGAGTTTG
* * * *
39860332 CCACAAAGGCTTTTCAAAGATTTTGCCACAAAGGATTTTCAGAGAGTTTACCACAAAGGCTTTTC
1 CCACAAAGGCTTTTCAAAGAGTTTGCCACAAAGGCTTTTTAGAGAGTTCACCACAAAGGCTTTTC
39860397 A
66 A
39860398 AATAATTTCG
Statistics
Matches: 165, Mismatches: 44, Indels: 15
0.74 0.20 0.07
Matches are distributed among these distances:
73 3 0.02
74 6 0.04
75 138 0.84
76 12 0.07
77 6 0.04
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (75 bp):
CCACAAAGGCTTTTCAAAGAGTTTGCCACAAAGGCTTTTTAGAGAGTTCACCACAAAGGCTTTTC
AGAGAGTTTG
Found at i:39860396 original size:25 final size:25
Alignment explanation
Indices: 39860106--39860397 Score: 198
Period size: 25 Copynumber: 11.6 Consensus size: 25
39860096 TAGTATCTTT
*
39860106 CCACAAAGGC-TTTCAGAGAGAGTTA
1 CCACAAAGGCTTTTCAGAGAG-TTTA
* *
39860131 GCCACAAAGGC-TTTCTATAG-GATTTG
1 -CCACAAAGGCTTTTC-AGAGAG-TTTA
* * * *
39860157 TCACAATGGCTTTTTAGAGAGTTCA
1 CCACAAAGGCTTTTCAGAGAGTTTA
* * *
39860182 CCACAAATGTTTTTCAAAGA-TTT-
1 CCACAAAGGCTTTTCAGAGAGTTTA
* * * *
39860205 CATAGCAAAGGCTTTTTAAAGAGTTCA
1 C-CA-CAAAGGCTTTTCAGAGAGTTTA
* * *
39860232 CCACCAAGGCTTTTCAGAGGGTTTG
1 CCACAAAGGCTTTTCAGAGAGTTTA
** * * *
39860257 CCTTAAAGGCTTTTTAGACAGTTCA
1 CCACAAAGGCTTTTCAGAGAGTTTA
* * **
39860282 CCATAAAGGCTTTTTAGAGAGTTCG
1 CCACAAAGGCTTTTCAGAGAGTTTA
* * *
39860307 CCACAAAGGCATTTCATAGAGTTTG
1 CCACAAAGGCTTTTCAGAGAGTTTA
* * *
39860332 CCACAAAGGCTTTTCAAAGATTTTG
1 CCACAAAGGCTTTTCAGAGAGTTTA
*
39860357 CCACAAAGGATTTTCAGAGAGTTTA
1 CCACAAAGGCTTTTCAGAGAGTTTA
39860382 CCACAAAGGCTTTTCA
1 CCACAAAGGCTTTTCA
39860398 AATAATTTCG
Statistics
Matches: 207, Mismatches: 52, Indels: 15
0.76 0.19 0.05
Matches are distributed among these distances:
23 1 0.00
24 3 0.01
25 174 0.84
26 25 0.12
27 4 0.02
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (25 bp):
CCACAAAGGCTTTTCAGAGAGTTTA
Found at i:39860399 original size:50 final size:49
Alignment explanation
Indices: 39860106--39860399 Score: 236
Period size: 50 Copynumber: 5.9 Consensus size: 49
39860096 TAGTATCTTT
*
39860106 CCACAAAGGC-TTTCAGAGAGAGTT-AGCCACAAAGGC-TTTCTATAGGATTTG
1 CCACAAAGGCTTTTC--AGAGAGTTCA-CCACAAAGGCTTTTC-A-AAGATTTG
* * * * *
39860157 TCACAATGGCTTTTTAGAGAGTTCACCACAAATGTTTTTCAAAGATTT-
1 CCACAAAGGCTTTTCAGAGAGTTCACCACAAAGGCTTTTCAAAGATTTG
* * * * * *
39860205 CATAGCAAAGGCTTTTTAAAGAGTTCACCACCAAGGCTTTTCAGAGGGTTTG
1 C-CA-CAAAGGCTTTTCAGAGAGTTCACCACAAAGGCTTTTCA-AAGATTTG
** * * * * * *
39860257 CCTTAAAGGCTTTTTAGACAGTTCACCATAAAGGCTTTTTAGAGAGTTCG
1 CCACAAAGGCTTTTCAGAGAGTTCACCACAAAGGCTTTTCAAAGA-TTTG
* * **
39860307 CCACAAAGGCATTTCATAGAGTTTGCCACAAAGGCTTTTCAAAGATTTTG
1 CCACAAAGGCTTTTCAGAGAGTTCACCACAAAGGCTTTTCAAAGA-TTTG
* *
39860357 CCACAAAGGATTTTCAGAGAGTTTACCACAAAGGCTTTTCAAA
1 CCACAAAGGCTTTTCAGAGAGTTCACCACAAAGGCTTTTCAAA
39860400 TAATTTCGTG
Statistics
Matches: 191, Mismatches: 44, Indels: 17
0.76 0.17 0.07
Matches are distributed among these distances:
49 8 0.04
50 161 0.84
51 18 0.09
52 4 0.02
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (49 bp):
CCACAAAGGCTTTTCAGAGAGTTCACCACAAAGGCTTTTCAAAGATTTG
Found at i:39861495 original size:26 final size:27
Alignment explanation
Indices: 39861466--39861530 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
39861456 AGTAGAGCTG
39861466 CCAGT-ACAAT-ATATGTGGCAAAGCCA
1 CCAGTAACAATAAT-TGTGGCAAAGCCA
* *
39861492 CCAGTAACAGTAATTGTGGCAGAGCCA
1 CCAGTAACAATAATTGTGGCAAAGCCA
*
39861519 CCAGAAACAATA
1 CCAGTAACAATA
39861531 CTTCCTCCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 5 0.15
27 26 0.79
28 2 0.06
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (27 bp):
CCAGTAACAATAATTGTGGCAAAGCCA
Found at i:39861719 original size:27 final size:27
Alignment explanation
Indices: 39861689--39861791 Score: 152
Period size: 27 Copynumber: 3.8 Consensus size: 27
39861679 ACCCATTAGG
39861689 ACCCATTGAGGGTATTTCAGTAATTTT
1 ACCCATTGAGGGTATTTCAGTAATTTT
**
39861716 ACCCATTGAGGGTATTTTGGTAATTTT
1 ACCCATTGAGGGTATTTCAGTAATTTT
* *
39861743 ACGCATTAAGGGTATTTCAGTAATTTT
1 ACCCATTGAGGGTATTTCAGTAATTTT
* *
39861770 ACCCATCGAGGGTACTTCAGTA
1 ACCCATTGAGGGTATTTCAGTA
39861792 TAGTTAATGA
Statistics
Matches: 66, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 66 1.00
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (27 bp):
ACCCATTGAGGGTATTTCAGTAATTTT
Found at i:39875810 original size:40 final size:39
Alignment explanation
Indices: 39875726--39875949 Score: 222
Period size: 39 Copynumber: 5.6 Consensus size: 39
39875716 TTGAATGATG
* *
39875726 TCCGGGCTAAGTCCCGAAGGC-TTTATGCTA-AGTGAC-AAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-T-ACTAAT
* *
39875765 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
39875806 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
39875845 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTATTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* ** *
39875884 TCCGGGTTAAGTTTCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* * *
39875923 AACTGGGCTATTGCCCGAAGGCATTTG
1 -TCCGGGCTA-AGCCCGAAGGCATTTG
39875950 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
39 74 0.47
40 70 0.45
41 12 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:39875827 original size:39 final size:40
Alignment explanation
Indices: 39875726--39875921 Score: 224
Period size: 39 Copynumber: 5.0 Consensus size: 40
39875716 TTGAATGATG
* *
39875726 TCCGGGCTAAGTCCCGAAGGC-TTTATGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
39875765 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
39875806 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
39875845 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTATTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* ** *
39875884 TCCGGGTTAAGTTTCGAAGGCATTTGTGCGAGTTACTA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTA
39875922 TAACTGGGCT
Statistics
Matches: 139, Mismatches: 11, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
39 73 0.53
40 53 0.38
41 12 0.09
42 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:39875971 original size:79 final size:79
Alignment explanation
Indices: 39875779--39875982 Score: 184
Period size: 79 Copynumber: 2.6 Consensus size: 79
39875769 GGACTAAGAT
** * * **
39875779 CCGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCT-AAGCCCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAATTCCGAAGGCATTTGTGCGAGATACT
*
39875842 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
** * * * * *
39875857 CCGAAGGCATTTGTGCGAGTTATTAAATCCGGGTTAAGTTTCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATTCCGAAGGCATTTGTGCGAGATACTA
* *
39875921 ATAACTGGGCTATTGC
66 AT-ACCGGGCTA-AGC
*
39875937 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATTCCGAAGG
39875983 TACGTGATTT
Statistics
Matches: 103, Mismatches: 18, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
77 1 0.01
78 32 0.31
79 45 0.44
80 25 0.24
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATTCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:39877343 original size:32 final size:32
Alignment explanation
Indices: 39877298--39877500 Score: 144
Period size: 32 Copynumber: 6.3 Consensus size: 32
39877288 GGGTGTTACA
39877298 ACAAAGCCATCAGTAACAGTGATATGATCGGC
1 ACAAAGCCATCAGTAACAGTGATATGATCGGC
* *
39877330 ACACAGCCATCAGTAACGAG-AATATGATCGGC
1 ACAAAGCCATCAGTAAC-AGTGATATGATCGGC
* * *
39877362 ACAAAGCCCTCAGTAGCAGTGATATGATCGAC
1 ACAAAGCCATCAGTAACAGTGATATGATCGGC
* * * * * * *
39877394 ACACAA-CCATTAATAATAGCGAAATGATCAGT
1 ACA-AAGCCATCAGTAACAGTGATATGATCGGC
* *** * * * *
39877426 A-ACCAGTTGTCGGTAACGGTAATATGATCGAC
1 ACA-AAGCCATCAGTAACAGTGATATGATCGGC
* *
39877458 ACAAAGCCATCAGTAACGGT-ACTATGATCGTC
1 ACAAAGCCATCAGTAACAGTGA-TATGATCGGC
39877490 ACAAAGCCATC
1 ACAAAGCCATC
39877501 GGTAGCATCG
Statistics
Matches: 127, Mismatches: 38, Indels: 12
0.72 0.21 0.07
Matches are distributed among these distances:
31 6 0.05
32 116 0.91
33 5 0.04
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (32 bp):
ACAAAGCCATCAGTAACAGTGATATGATCGGC
Found at i:39877504 original size:64 final size:63
Alignment explanation
Indices: 39877298--39877500 Score: 169
Period size: 64 Copynumber: 3.2 Consensus size: 63
39877288 GGGTGTTACA
* * *
39877298 ACAAAGCCATCAGTAACAGTGATATGATCGGCACACAGCCATCAGTAACGAGAATATGATCGGC
1 ACAAAGCCATCAGTAACAGTGATATGATCGACACAAAGCCATCAGTAACGAG-ATATGATCGTC
* * * * * * *
39877362 ACAAAGCCCTCAGTAGCAGTGATATGATCGACACACAA-CCATTAATAATAGCGAAATGATCAGT
1 ACAAAGCCATCAGTAACAGTGATATGATCGACACA-AAGCCATCAGTAA-CGAGATATGATC-GT
*
39877426 A
63 C
* *** * * *
39877427 AC-CAGTTGTCGGTAACGGTAATATGATCGACACAAAGCCATCAGTAACG-GTACTATGATCGTC
1 ACAAAGCCATCAGTAACAGTGATATGATCGACACAAAGCCATCAGTAACGAG-A-TATGATCGTC
39877490 ACAAAGCCATC
1 ACAAAGCCATC
39877501 GGTAGCATCG
Statistics
Matches: 104, Mismatches: 28, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
62 1 0.01
63 8 0.08
64 89 0.86
65 6 0.06
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (63 bp):
ACAAAGCCATCAGTAACAGTGATATGATCGACACAAAGCCATCAGTAACGAGATATGATCGTC
Found at i:39877579 original size:27 final size:27
Alignment explanation
Indices: 39877548--39877611 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
39877538 AGCAAAGCTG
* *
39877548 CCAGTAATAGT-ATATGTGGCCGAGCCA
1 CCAGTAACAGTGAT-TGTGGCAGAGCCA
39877575 CCAGTAACAGTGATTGTGGCAGAGCCA
1 CCAGTAACAGTGATTGTGGCAGAGCCA
*
39877602 CGAGT-ACAGT
1 CCAGTAACAGT
39877612 AGTTCCTCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.15
27 26 0.79
28 2 0.06
ACGTcount: A:0.30, C:0.22, G:0.28, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTGATTGTGGCAGAGCCA
Found at i:39877719 original size:24 final size:24
Alignment explanation
Indices: 39877679--39877733 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
39877669 TGCTCAGAAC
*
39877679 CAGTCATTCAAATCACAAACAAAT
1 CAGTCATCCAAATCACAAACAAAT
*
39877703 CAGTCATACCAAA-CACAGACAAAT
1 CAGTCAT-CCAAATCACAAACAAAT
39877727 CAGTCAT
1 CAGTCAT
39877734 TTAACCACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.47, C:0.27, G:0.07, T:0.18
Consensus pattern (24 bp):
CAGTCATCCAAATCACAAACAAAT
Found at i:39877875 original size:27 final size:27
Alignment explanation
Indices: 39877802--39877921 Score: 145
Period size: 26 Copynumber: 4.5 Consensus size: 27
39877792 CAGGACATTA
* * *
39877802 CGGTCATTTTACCCTATGAGGGTATTT
1 CGGTTATTTTACCCTACGGGGGTATTT
* *
39877829 CGGTT-TTCTACCCTACGGGGGTATTA
1 CGGTTATTTTACCCTACGGGGGTATTT
*
39877855 CGGTTATTTTACCCTATGGGGGTATTT
1 CGGTTATTTTACCCTACGGGGGTATTT
* *
39877882 CAG-TATTCTACCCTACGGGGGTATTT
1 CGGTTATTTTACCCTACGGGGGTATTT
*
39877908 CGGTAATTTTACCC
1 CGGTTATTTTACCC
39877922 ATCAAGGGCA
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
26 45 0.58
27 32 0.42
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (27 bp):
CGGTTATTTTACCCTACGGGGGTATTT
Found at i:39877935 original size:53 final size:53
Alignment explanation
Indices: 39877798--39877921 Score: 194
Period size: 53 Copynumber: 2.3 Consensus size: 53
39877788 CCATCAGGAC
* * *
39877798 ATTACGGTCATTTTACCCTATGAGGGTATTTCGGTTTTCTACCCTACGGGGGT
1 ATTACGGTAATTTTACCCTATGAGGGTATTTCAGTATTCTACCCTACGGGGGT
* *
39877851 ATTACGGTTATTTTACCCTATGGGGGTATTTCAGTATTCTACCCTACGGGGGT
1 ATTACGGTAATTTTACCCTATGAGGGTATTTCAGTATTCTACCCTACGGGGGT
*
39877904 ATTTCGGTAATTTTACCC
1 ATTACGGTAATTTTACCC
39877922 ATCAAGGGCA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 65 1.00
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.39
Consensus pattern (53 bp):
ATTACGGTAATTTTACCCTATGAGGGTATTTCAGTATTCTACCCTACGGGGGT
Found at i:39877961 original size:27 final size:27
Alignment explanation
Indices: 39877900--39877974 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
39877890 TACCCTACGG
* *
39877900 GGGTATTTCGGTAATTTTACCCATCAA
1 GGGTATTTCGATCATTTTACCCATCAA
* *
39877927 GGGCATTTCGATCATTTTACCCATCGA
1 GGGTATTTCGATCATTTTACCCATCAA
* *
39877954 TGGTATTTCAATCATTTTACC
1 GGGTATTTCGATCATTTTACC
39877975 TTTTGGGGGT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGATCATTTTACCCATCAA
Found at i:39878975 original size:30 final size:30
Alignment explanation
Indices: 39878918--39878977 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
39878908 GCTTTTTTAA
* *
39878918 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCACCAAATTTTT
39878948 AATATTTACAAAAAGA-GCAACCAAATTTTT
1 AATATTTACAAAAAGAGGC-ACCAAATTTTT
39878978 TTAAAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCACCAAATTTTT
Found at i:39886509 original size:12 final size:12
Alignment explanation
Indices: 39886492--39886517 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
39886482 AATATTCATC
39886492 AAAATTAATTAA
1 AAAATTAATTAA
39886504 AAAATTAATTAA
1 AAAATTAATTAA
39886516 AA
1 AA
39886518 TTCAACATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATTAATTAA
Found at i:39901496 original size:16 final size:16
Alignment explanation
Indices: 39901484--39901516 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
39901474 TAAGAGAGTT
39901484 GAGAGAATTGAGAGAA
1 GAGAGAATTGAGAGAA
39901500 GAGAGAA-TGATGAGAA
1 GAGAGAATTGA-GAGAA
39901516 G
1 G
39901517 TGAGGGATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.48, C:0.00, G:0.39, T:0.12
Consensus pattern (16 bp):
GAGAGAATTGAGAGAA
Found at i:39908390 original size:21 final size:21
Alignment explanation
Indices: 39908323--39908395 Score: 51
Period size: 21 Copynumber: 3.5 Consensus size: 21
39908313 GAGCCCAGAT
** *
39908323 CGTGTGGCT-CTAAACATGGC
1 CGTGTGGCTACTCCACATGCC
* **
39908343 CGCGTGGCTA-TCCCACACACC
1 CGTGTGGCTACT-CCACATGCC
*
39908364 CTTGTGGCTACTCCACATGCC
1 CGTGTGGCTACTCCACATGCC
*
39908385 CGTGTGTCTAC
1 CGTGTGGCTAC
39908396 CCATGTAACT
Statistics
Matches: 38, Mismatches: 12, Indels: 5
0.69 0.22 0.09
Matches are distributed among these distances:
20 9 0.24
21 28 0.74
22 1 0.03
ACGTcount: A:0.16, C:0.36, G:0.23, T:0.25
Consensus pattern (21 bp):
CGTGTGGCTACTCCACATGCC
Found at i:39908770 original size:15 final size:15
Alignment explanation
Indices: 39908750--39908778 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
39908740 TTTAAAAAGG
39908750 TTTTGATTTGATAAA
1 TTTTGATTTGATAAA
39908765 TTTTGATTTGATAA
1 TTTTGATTTGATAA
39908779 TCGAGACCTC
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:0.00, G:0.14, T:0.55
Consensus pattern (15 bp):
TTTTGATTTGATAAA
Found at i:39910189 original size:101 final size:101
Alignment explanation
Indices: 39910061--39910256 Score: 313
Period size: 101 Copynumber: 1.9 Consensus size: 101
39910051 TATTCAAACA
* * *
39910061 TAAGACCATGGTTGGACCATGGAAGTGTTTATATGTAAGGCCATAGTTGGGCTATAGCATTCTGA
1 TAAGACCATAGTTGGACCATGGAAGTGTTTATATGTAAGACCATAGCTGGGCTATAGCATTCTGA
*
39910126 TGATAAGA-CAATAATTGGGTTATGGCACTATAGACG
66 TGATAAGATC-ATAACTGGGTTATGGCACTATAGACG
* * *
39910162 TAAGACCATAGTTGGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGGCTATGGCATTTTGA
1 TAAGACCATAGTTGGACCATGGAAGTGTTTATATGTAAGACCATAGCTGGGCTATAGCATTCTGA
39910227 TGATAAGATCATAACTGGGTTATGGCACTA
66 TGATAAGATCATAACTGGGTTATGGCACTA
39910257 CGAATGTAAG
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
101 86 0.99
102 1 0.01
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (101 bp):
TAAGACCATAGTTGGACCATGGAAGTGTTTATATGTAAGACCATAGCTGGGCTATAGCATTCTGA
TGATAAGATCATAACTGGGTTATGGCACTATAGACG
Found at i:39910201 original size:35 final size:34
Alignment explanation
Indices: 39910061--39910239 Score: 98
Period size: 33 Copynumber: 5.3 Consensus size: 34
39910051 TATTCAAACA
* * *
39910061 TAAGACCATGGTTGGACCATGGAAGTGTTTATATG
1 TAAGACCATAGTTGGACCATGGCA-TGTTTAGATG
* * * * *
39910096 TAAGGCCATAGTTGGGCTATAGCAT-TCT-GATG
1 TAAGACCATAGTTGGACCATGGCATGTTTAGATG
* * *** * * *
39910128 ATAAGACAATAATTGGGTTATGGCA-CTATAGACG
1 -TAAGACCATAGTTGGACCATGGCATGTTTAGATG
*
39910162 TAAGACCATAGTTGGACCATGGCAGTGTTTATATG
1 TAAGACCATAGTTGGACCATGGCA-TGTTTAGATG
* * *
39910197 TAAGACCATAGCTGGGCTATGGCAT-TTT-GATG
1 TAAGACCATAGTTGGACCATGGCATGTTTAGATG
*
39910229 ATAAGATCATA
1 -TAAGACCATA
39910240 ACTGGGTTAT
Statistics
Matches: 109, Mismatches: 29, Indels: 14
0.72 0.19 0.09
Matches are distributed among these distances:
32 6 0.06
33 54 0.50
34 5 0.05
35 44 0.40
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.30
Consensus pattern (34 bp):
TAAGACCATAGTTGGACCATGGCATGTTTAGATG
Found at i:39910267 original size:33 final size:32
Alignment explanation
Indices: 39910194--39910305 Score: 89
Period size: 33 Copynumber: 3.4 Consensus size: 32
39910184 CAGTGTTTAT
* * **
39910194 ATGTAAGACCATAGCTGGGCTATGGCATTTTG
1 ATGTAAGACCATAACTGGGCTATGGCACTACG
* *
39910226 ATGATAAGATCATAACTGGGTTATGGCACTACG
1 ATG-TAAGACCATAACTGGGCTATGGCACTACG
* * * * * *
39910259 AATGTAAGACCATGACAGGGCCATGGCAATGCAT
1 -ATGTAAGACCATAACTGGGCTATGGCACTAC-G
39910293 ATGTAAGACCATA
1 ATGTAAGACCATA
39910306 GTTGGACTAT
Statistics
Matches: 62, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
32 3 0.05
33 56 0.90
34 3 0.05
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (32 bp):
ATGTAAGACCATAACTGGGCTATGGCACTACG
Found at i:39910283 original size:101 final size:101
Alignment explanation
Indices: 39910074--39910316 Score: 298
Period size: 101 Copynumber: 2.4 Consensus size: 101
39910064 GACCATGGTT
* * *
39910074 GGACCATGGAAGTGTTTATATGTAAGGCCATAGTTGGGCTATAGCATTCTGATGATAAGACAATA
1 GGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGGCTATGGCATTCTGATGATAAGACAATA
* * **
39910139 ATTGGGTTATGGCACTATAGACGTAAGACCATAGTT
66 ACTGGGTTATGGCACTAGAGACGTAAGACCATAGCA
* *
39910175 GGACCATGGCAGTGTTTATATGTAAGACCATAGCTGGGCTATGGCATTTTGATGATAAGATC-AT
1 GGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGGCTATGGCATTCTGATGATAAGA-CAAT
*
39910239 AACTGGGTTATGGCACTACGA-ATGTAAGACCAT-GACA
65 AACTGGGTTATGGCACTA-GAGACGTAAGACCATAG-CA
* * * *
39910276 GGGCCATGGCAATG--CATATGTAAGACCATAGTTGGACTATG
1 GGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGGCTATG
39910317 ACACAAATGA
Statistics
Matches: 124, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
99 24 0.19
100 1 0.01
101 97 0.78
102 2 0.02
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (101 bp):
GGACCATGGCAGTGTTTATATGTAAGACCATAGTTGGGCTATGGCATTCTGATGATAAGACAATA
ACTGGGTTATGGCACTAGAGACGTAAGACCATAGCA
Done.