Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 65 of 143
Found at i:21253381 original size:50 final size:50
Alignment explanation
Indices: 21253326--21253423 Score: 126
Period size: 50 Copynumber: 2.0 Consensus size: 50
21253316 AAACTATGTT
*
21253326 TGCATCATAAATAATGA-AATGCATTAAGTAACTTACATGTTAGTTAAATA
1 TGCATCATAAATAAT-ATAATGCATTAAGTAACTCACATGTTAGTTAAATA
** * * *
21253376 TGCATCATAAATCCTATCATGCATTATGTAACTCCCATGTTAGTTAAA
1 TGCATCATAAATAATATAATGCATTAAGTAACTCACATGTTAGTTAAA
21253424 GTTTGTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
49 1 0.02
50 40 0.98
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (50 bp):
TGCATCATAAATAATATAATGCATTAAGTAACTCACATGTTAGTTAAATA
Found at i:21261487 original size:12 final size:12
Alignment explanation
Indices: 21261461--21261510 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
21261451 GAAGGTGCTC
* *
21261461 AAGAGAAGGATG
1 AAGAAAAGGAAG
*
21261473 AAGAAAAAGAAG
1 AAGAAAAGGAAG
*
21261485 AAGGAAAGGAAG
1 AAGAAAAGGAAG
*
21261497 AAGAGAAGGAAG
1 AAGAAAAGGAAG
21261509 AA
1 AA
21261511 ACTGAACCTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 31 1.00
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (12 bp):
AAGAAAAGGAAG
Found at i:21273306 original size:21 final size:21
Alignment explanation
Indices: 21273268--21273307 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
21273258 TCTTTCCCCT
*
21273268 TCTTCTTTTTCTAGTTCCTTC
1 TCTTCTTTTTCTACTTCCTTC
21273289 TCTTCTTCTTTCT-CTTCCT
1 TCTTCTT-TTTCTACTTCCT
21273308 CAATACCCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.03, C:0.33, G:0.03, T:0.62
Consensus pattern (21 bp):
TCTTCTTTTTCTACTTCCTTC
Found at i:21288362 original size:10 final size:9
Alignment explanation
Indices: 21288334--21288367 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
21288324 AAATAAGATT
21288334 AAAATTTAA
1 AAAATTTAA
*
21288343 AAAATGTAA
1 AAAATTTAA
21288352 AAAATTATAA
1 AAAATT-TAA
21288362 AAAATT
1 AAAATT
21288368 CCAATGTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (9 bp):
AAAATTTAA
Found at i:21292913 original size:12 final size:12
Alignment explanation
Indices: 21292896--21292945 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
21292886 TAAGTTCTGT
21292896 TTCTTCTTTCTC
1 TTCTTCTTTCTC
21292908 TTCTTCCTTTC-C
1 TTCTT-CTTTCTC
*
21292920 TTCTTCTTTTTC
1 TTCTTCTTTCTC
* *
21292932 TTCATCCTTCTC
1 TTCTTCTTTCTC
21292944 TT
1 TT
21292946 GATCACCTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
11 4 0.12
12 23 0.72
13 5 0.16
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTCTTTCTC
Found at i:21306616 original size:9 final size:10
Alignment explanation
Indices: 21306586--21306627 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
21306576 CAACGTCTTC
21306586 TTCTTTTTCT
1 TTCTTTTTCT
*
21306596 TTGTTCTCTTCT
1 TTCTT-T-TTCT
21306608 TT-TTTTTCT
1 TTCTTTTTCT
21306617 TTCTTTTTCT
1 TTCTTTTTCT
21306627 T
1 T
21306628 CCTCAATACC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
9 6 0.21
10 13 0.46
11 3 0.11
12 6 0.21
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (10 bp):
TTCTTTTTCT
Found at i:21317619 original size:23 final size:23
Alignment explanation
Indices: 21317589--21318458 Score: 1127
Period size: 23 Copynumber: 37.8 Consensus size: 23
21317579 ATTATATCTA
*
21317589 TGCTTAAATATTAATGTGATTTA
1 TGCTTAAATATTAATGTGATTTG
21317612 TG-TATAAATATTAATGTGATTTG
1 TGCT-TAAATATTAATGTGATTTG
*
21317635 TGGTTAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
* * * *
21317658 TGCTCAAATATTAATCTAATTAG
1 TGCTTAAATATTAATGTGATTTG
*
21317681 TGCTTAAATATTAATATGATTTG
1 TGCTTAAATATTAATGTGATTTG
* * *
21317704 TGCTCAAATATTAATTTGATTTA
1 TGCTTAAATATTAATGTGATTTG
*
21317727 TGCTTAAATATTAATGTGATTTA
1 TGCTTAAATATTAATGTGATTTG
*
21317750 TGCTTAAATATTAATGTGATTTA
1 TGCTTAAATATTAATGTGATTTG
*
21317773 TGCATAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
*
21317796 TGCTTAAATATTAATATGATTTG
1 TGCTTAAATATTAATGTGATTTG
* * *
21317819 TGGTCAAATATTAATGTGATTTT
1 TGCTTAAATATTAATGTGATTTG
*
21317842 TGCTTAAATATTAATATGATTTG
1 TGCTTAAATATTAATGTGATTTG
* *
21317865 TGCTCAAATATTAATGTGATTTA
1 TGCTTAAATATTAATGTGATTTG
*
21317888 TGCTTAAATATTACA-GTGATTTA
1 TGCTTAAATATTA-ATGTGATTTG
*
21317911 TGCTTAAATATTAATGTGATTTC
1 TGCTTAAATATTAATGTGATTTG
* * *
21317934 TACTTAAATTTTAATGTGATTTA
1 TGCTTAAATATTAATGTGATTTG
* *
21317957 TGCATAAATTTTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
21317980 TGCTTAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
*
21318003 TGCTCAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
* * *
21318026 TACTTAAATATTAATATGATCTG
1 TGCTTAAATATTAATGTGATTTG
* * *
21318049 TGATCAAATATTAATGTGATTTA
1 TGCTTAAATATTAATGTGATTTG
* *
21318072 TGTTTAAATATTAATGTGATTTA
1 TGCTTAAATATTAATGTGATTTG
21318095 TGCTTAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
*
21318118 TGCTTAAATATTAATATGATTTG
1 TGCTTAAATATTAATGTGATTTG
* * * * *
21318141 TACTGAAATATTAGTATAATTTG
1 TGCTTAAATATTAATGTGATTTG
*
21318164 TGCTTAAATATTAATATGATTTG
1 TGCTTAAATATTAATGTGATTTG
* *
21318187 TGCTGAAATATTAGTGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
* * * *
21318210 TGATTAAATATTAATATAATTAG
1 TGCTTAAATATTAATGTGATTTG
* *
21318233 TGCTCAAATATTAATGTGATTTA
1 TGCTTAAATATTAATGTGATTTG
*
21318256 TGCTTAAATATTAATGTGATTTA
1 TGCTTAAATATTAATGTGATTTG
21318279 TGCTTAAATATTAAAT-TGATTTG
1 TGCTTAAATATT-AATGTGATTTG
*
21318302 TGCTTAAATATTAATGTGATTTA
1 TGCTTAAATATTAATGTGATTTG
21318325 TGCTTAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
*
21318348 TGCTTAAATATTAATGTGATTTA
1 TGCTTAAATATTAATGTGATTTG
*
21318371 TGCTTAAATATTAATACT-ATTTG
1 TGCTTAAATATTAAT-GTGATTTG
* *
21318394 TGCTTCAATATTGATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
* * *
21318417 TGCTTAAATAGTAATATGATTTA
1 TGCTTAAATATTAATGTGATTTG
*
21318440 TGATTAAATATTAATGTGA
1 TGCTTAAATATTAATGTGA
21318459 AATTGTGAAA
Statistics
Matches: 742, Mismatches: 97, Indels: 16
0.87 0.11 0.02
Matches are distributed among these distances:
22 6 0.01
23 730 0.98
24 6 0.01
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.46
Consensus pattern (23 bp):
TGCTTAAATATTAATGTGATTTG
Found at i:21318550 original size:36 final size:36
Alignment explanation
Indices: 21318510--21318599 Score: 135
Period size: 36 Copynumber: 2.5 Consensus size: 36
21318500 TGATGACTGT
** *
21318510 TGTGAAAGTGAATATGTGGGTATGTTCTTCATGTCA
1 TGTGAAAGAAAATATGTGGGTATGTTCTTCATGCCA
*
21318546 TGTGATAGAAAATATGTGGGTATGTTCTTCATGCCA
1 TGTGAAAGAAAATATGTGGGTATGTTCTTCATGCCA
*
21318582 TGTGATAGAAAATATGTG
1 TGTGAAAGAAAATATGTG
21318600 AGCCATGCTT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 50 1.00
ACGTcount: A:0.29, C:0.08, G:0.27, T:0.37
Consensus pattern (36 bp):
TGTGAAAGAAAATATGTGGGTATGTTCTTCATGCCA
Found at i:21320579 original size:26 final size:26
Alignment explanation
Indices: 21320537--21320589 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
21320527 TTCTGGGCTT
*
21320537 AATTCTGGACACTTTCATGCTGCGAC
1 AATTCTGGACACTTTCATGCAGCGAC
*
21320563 AATTCTGTACA-TGTTCATGCAGCGAC
1 AATTCTGGACACT-TTCATGCAGCGAC
21320589 A
1 A
21320590 TTCCTGGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (26 bp):
AATTCTGGACACTTTCATGCAGCGAC
Found at i:21320620 original size:37 final size:37
Alignment explanation
Indices: 21320579--21320676 Score: 99
Period size: 38 Copynumber: 2.6 Consensus size: 37
21320569 GTACATGTTC
21320579 ATGCAGCGACATTCCTGGGTGCAATTAAAGAATACTT
1 ATGCAGCGACATTCCTGGGTGCAATTAAAGAATACTT
** * * * *
21320616 ATGCAGTAATAGTT-CTGGATGCAAATTGAAGAATATTT
1 ATGCAGCGACA-TTCCTGGGTGC-AATTAAAGAATACTT
* *
21320654 ATGCAGCGACAGTCTTGGGTGCA
1 ATGCAGCGACATTCCTGGGTGCA
21320677 TTCCAGAAAT
Statistics
Matches: 46, Mismatches: 12, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
37 17 0.37
38 29 0.63
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (37 bp):
ATGCAGCGACATTCCTGGGTGCAATTAAAGAATACTT
Found at i:21320738 original size:37 final size:37
Alignment explanation
Indices: 21320697--21320775 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
21320687 ATTCCTACGA
* * *
21320697 CGACAGTTTTGGGT-GCAATCTGGAAGTGCTAATGCGG
1 CGACAGTTTT-GGTCGCAAACTAGAAGTGCTAATGCAG
*
21320734 CGACAGTTTTGGTCGCAAACTAGAAGTGCTCATGCAG
1 CGACAGTTTTGGTCGCAAACTAGAAGTGCTAATGCAG
21320771 CGACA
1 CGACA
21320776 TTAGTAGTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 3 0.08
37 34 0.92
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (37 bp):
CGACAGTTTTGGTCGCAAACTAGAAGTGCTAATGCAG
Found at i:21324156 original size:16 final size:16
Alignment explanation
Indices: 21324135--21324165 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21324125 TTGTGGATCC
21324135 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
21324151 CATTTTATCTTTATT
1 CATTTTACCTTTATT
21324166 TTCACATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:21329463 original size:33 final size:33
Alignment explanation
Indices: 21329420--21329502 Score: 132
Period size: 33 Copynumber: 2.5 Consensus size: 33
21329410 ATCATATAAT
* *
21329420 CACATTGTATGCTCGTAAGAGCTAACCAACCAG
1 CACATCGTATGCTCGTAAGAGCTAACCAACCAA
21329453 CACATCGTATGCTCGTAAGAGCTAACCAACCAA
1 CACATCGTATGCTCGTAAGAGCTAACCAACCAA
*
21329486 CACATCCTATGCT-GTAA
1 CACATCGTATGCTCGTAA
21329503 CATATCTCGT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 4 0.09
33 43 0.91
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.22
Consensus pattern (33 bp):
CACATCGTATGCTCGTAAGAGCTAACCAACCAA
Found at i:21333072 original size:44 final size:44
Alignment explanation
Indices: 21333002--21333107 Score: 176
Period size: 44 Copynumber: 2.4 Consensus size: 44
21332992 GGGTAGGATT
* *
21333002 TGCATATGTATCTGATATGCTATGCATCTGTATCTGATGTGCTC
1 TGCATATGTATCTGATATGATATGCATCTGTATCTGATATGCTC
* *
21333046 TGCATTTGTATCTGATATGATCTGCATCTGTATCTGATATGCTC
1 TGCATATGTATCTGATATGATATGCATCTGTATCTGATATGCTC
21333090 TGCATATGTATCTGATAT
1 TGCATATGTATCTGATAT
21333108 ATTCTGTATT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 57 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (44 bp):
TGCATATGTATCTGATATGATATGCATCTGTATCTGATATGCTC
Found at i:21333113 original size:22 final size:22
Alignment explanation
Indices: 21333002--21333107 Score: 158
Period size: 22 Copynumber: 4.8 Consensus size: 22
21332992 GGGTAGGATT
*
21333002 TGCATATGTATCTGATATGCTA
1 TGCATATGTATCTGATATGCTC
* *
21333024 TGCATCTGTATCTGATGTGCTC
1 TGCATATGTATCTGATATGCTC
* *
21333046 TGCATTTGTATCTGATATGATC
1 TGCATATGTATCTGATATGCTC
*
21333068 TGCATCTGTATCTGATATGCTC
1 TGCATATGTATCTGATATGCTC
21333090 TGCATATGTATCTGATAT
1 TGCATATGTATCTGATAT
21333108 ATTCTGTATT
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 75 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.42
Consensus pattern (22 bp):
TGCATATGTATCTGATATGCTC
Found at i:21333121 original size:22 final size:22
Alignment explanation
Indices: 21333002--21333121 Score: 125
Period size: 22 Copynumber: 5.5 Consensus size: 22
21332992 GGGTAGGATT
* * *
21333002 TGCATATGTATCTGATATGCTA
1 TGCATTTGTATCTGATATACTC
* * *
21333024 TGCATCTGTATCTGATGTGCTC
1 TGCATTTGTATCTGATATACTC
21333046 TGCATTTGTATCTGATATGA-TC
1 TGCATTTGTATCTGATAT-ACTC
* *
21333068 TGCATCTGTATCTGATATGCTC
1 TGCATTTGTATCTGATATACTC
* *
21333090 TGCATATGTATCTGATATATTC
1 TGCATTTGTATCTGATATACTC
*
21333112 TGTATTTGTA
1 TGCATTTGTA
21333122 CTTGATTACG
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
22 83 1.00
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (22 bp):
TGCATTTGTATCTGATATACTC
Found at i:21338774 original size:23 final size:23
Alignment explanation
Indices: 21338748--21338867 Score: 124
Period size: 23 Copynumber: 5.3 Consensus size: 23
21338738 TTCATGGATC
*
21338748 TATTTACA-CATAAATCACATAAA
1 TATTTA-AGCATAAATCACATTAA
*
21338771 TATTTAAGCATAAATCATATTAA
1 TATTTAAGCATAAATCACATTAA
* **
21338794 CA-TTATA-CATAAATTGCATTAA
1 TATTTA-AGCATAAATCACATTAA
*
21338816 TA-TTAAGCACAAATCACATTAA
1 TATTTAAGCATAAATCACATTAA
21338838 TATTTAAGCACT-AATCACATTAA
1 TATTTAAGCA-TAAATCACATTAA
21338861 TATTTAA
1 TATTTAA
21338868 TTATCTTTCA
Statistics
Matches: 81, Mismatches: 11, Indels: 10
0.79 0.11 0.10
Matches are distributed among these distances:
21 1 0.01
22 34 0.42
23 46 0.57
ACGTcount: A:0.47, C:0.14, G:0.03, T:0.35
Consensus pattern (23 bp):
TATTTAAGCATAAATCACATTAA
Found at i:21338806 original size:45 final size:45
Alignment explanation
Indices: 21338749--21338867 Score: 127
Period size: 45 Copynumber: 2.6 Consensus size: 45
21338739 TCATGGATCT
* * *
21338749 ATTTACACATAAATCACATAAATATTTAAGCATAAATCATATTAAC
1 ATTTA-ACATAAATCACATTAATATTTAAGCACAAATCACATTAAC
** *
21338795 A-TTATACATAAATTGCATTAATA-TTAAGCACAAATCACATTAAT
1 ATTTA-ACATAAATCACATTAATATTTAAGCACAAATCACATTAAC
21338839 ATTTAAGCACT-AATCACATTAATATTTAA
1 ATTTAA-CA-TAAATCACATTAATATTTAA
21338868 TTATCTTTCA
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
44 20 0.33
45 34 0.57
46 6 0.10
ACGTcount: A:0.48, C:0.14, G:0.03, T:0.34
Consensus pattern (45 bp):
ATTTAACATAAATCACATTAATATTTAAGCACAAATCACATTAAC
Found at i:21338829 original size:22 final size:22
Alignment explanation
Indices: 21338759--21338864 Score: 106
Period size: 22 Copynumber: 4.7 Consensus size: 22
21338749 ATTTACACAT
* *
21338759 AAATCACATAAATATTTAAGCAT
1 AAATCACATTAATA-TTAAGCAC
* * *
21338782 AAATCATATTAACATTATA-CAT
1 AAATCACATTAATATTA-AGCAC
**
21338804 AAATTGCATTAATATTAAGCAC
1 AAATCACATTAATATTAAGCAC
21338826 AAATCACATTAATATTTAAGCAC
1 AAATCACATTAATA-TTAAGCAC
*
21338849 TAATCACATTAATATT
1 AAATCACATTAATATT
21338865 TAATTATCTT
Statistics
Matches: 69, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
21 1 0.01
22 35 0.51
23 33 0.48
ACGTcount: A:0.48, C:0.14, G:0.04, T:0.34
Consensus pattern (22 bp):
AAATCACATTAATATTAAGCAC
Found at i:21338965 original size:10 final size:10
Alignment explanation
Indices: 21338925--21338977 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
21338915 CATTTTACTC
21338925 ATCACATATTA
1 ATCACATA-TA
*
21338936 ATAACATAT-
1 ATCACATATA
*
21338945 ATCCACTTATA
1 AT-CACATATA
21338956 ATCACATATA
1 ATCACATATA
*
21338966 ATCACATTTA
1 ATCACATATA
21338976 AT
1 AT
21338978 GATAGTTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
9 2 0.06
10 24 0.69
11 9 0.26
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (10 bp):
ATCACATATA
Found at i:21346656 original size:51 final size:51
Alignment explanation
Indices: 21346592--21346710 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 51
21346582 AAATAAACTG
* ** * *
21346592 CCACTGATTTGCAGATAAACTGTGACTGATAACACTAATGTGGACAAGCTA
1 CCACTGATATGCAGATAAACTGCCACTGATAACACTAATCTGGACAAGCCA
** *
21346643 CCACTGATATGCAGATTTACTGCCACTGATAACACTGATCTGGACAAGCCA
1 CCACTGATATGCAGATAAACTGCCACTGATAACACTAATCTGGACAAGCCA
21346694 CCACTGATATGCAGATA
1 CCACTGATATGCAGATA
21346711 TACTACCAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (51 bp):
CCACTGATATGCAGATAAACTGCCACTGATAACACTAATCTGGACAAGCCA
Found at i:21349055 original size:22 final size:22
Alignment explanation
Indices: 21349027--21349088 Score: 97
Period size: 22 Copynumber: 2.8 Consensus size: 22
21349017 GGGTAGGATT
* *
21349027 TGCATCTATATCTAATATGCTC
1 TGCATCTGTATCTGATATGCTC
*
21349049 TGCATCTGTATTTGATATGCTC
1 TGCATCTGTATCTGATATGCTC
21349071 TGCATCTGTATCTGATAT
1 TGCATCTGTATCTGATAT
21349089 ATTATGTATC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.44
Consensus pattern (22 bp):
TGCATCTGTATCTGATATGCTC
Found at i:21349541 original size:21 final size:21
Alignment explanation
Indices: 21349503--21349558 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
21349493 TTCATTTTAG
**
21349503 ATTAATTAA-TATAATAATAC
1 ATTAATTAATTATTTTAATAC
21349523 ATT-ATTATATTATTTTAATAC
1 ATTAATTA-ATTATTTTAATAC
*
21349544 TTTAATTAATTATTT
1 ATTAATTAATTATTT
21349559 ATGATCCTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 4 0.13
20 4 0.13
21 18 0.60
22 4 0.13
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTAATTAATTATTTTAATAC
Found at i:21351030 original size:23 final size:24
Alignment explanation
Indices: 21351004--21351055 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
21350994 TGGCGGCAGT
21351004 GGTGGAGGCA-ATATGGCAACGAC
1 GGTGGAGGCAGATATGGCAACGAC
*
21351027 GGTGGAGGCAGATATGGTAACGAC
1 GGTGGAGGCAGATATGGCAACGAC
*
21351051 AGTGG
1 GGTGG
21351056 CTGTTTCGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.29, C:0.13, G:0.42, T:0.15
Consensus pattern (24 bp):
GGTGGAGGCAGATATGGCAACGAC
Found at i:21351337 original size:27 final size:27
Alignment explanation
Indices: 21351299--21351353 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
21351289 TGGCAAATGG
21351299 TTGTAATTGGTGCTTTCGTAGTAGTCT
1 TTGTAATTGGTGCTTTCGTAGTAGTCT
21351326 TTGTAATTGGTGCTTTCGTAGTAGTCT
1 TTGTAATTGGTGCTTTCGTAGTAGTCT
21351353 T
1 T
21351354 ACATTGAGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.15, C:0.11, G:0.25, T:0.49
Consensus pattern (27 bp):
TTGTAATTGGTGCTTTCGTAGTAGTCT
Found at i:21351605 original size:17 final size:17
Alignment explanation
Indices: 21351585--21351642 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
21351575 AAAGAGAATG
21351585 GAAAAAAAAAACAAAAA
1 GAAAAAAAAAACAAAAA
* *
21351602 GAAAAAGAAAA-GAAAA
1 GAAAAAAAAAACAAAAA
**
21351618 G-TTAAAAAAACATAAAA
1 GAAAAAAAAAACA-AAAA
21351635 GAAAAAAA
1 GAAAAAAA
21351643 TTTAAATTGC
Statistics
Matches: 30, Mismatches: 8, Indels: 5
0.70 0.19 0.12
Matches are distributed among these distances:
15 6 0.20
16 5 0.17
17 15 0.50
18 4 0.13
ACGTcount: A:0.81, C:0.03, G:0.10, T:0.05
Consensus pattern (17 bp):
GAAAAAAAAAACAAAAA
Found at i:21355434 original size:29 final size:30
Alignment explanation
Indices: 21355402--21355460 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
21355392 TATGGTTTAA
21355402 TGTGTAATTGTATACATG-AATTTTGATTT
1 TGTGTAATTGTATACATGAAATTTTGATTT
*
21355431 TGTGTAATTTTATACATGAAATTTTGATTT
1 TGTGTAATTGTATACATGAAATTTTGATTT
21355461 GATCTAATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.29, C:0.03, G:0.15, T:0.53
Consensus pattern (30 bp):
TGTGTAATTGTATACATGAAATTTTGATTT
Found at i:21355469 original size:30 final size:29
Alignment explanation
Indices: 21355406--21355469 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
21355396 GTTTAATGTG
*
21355406 TAATTGTATACATGAATTTTGATTTTGTG
1 TAATTGTATACATGAATTTTGATTTTGTC
*
21355435 TAATTTTATACATGAAATTTTGA-TTTGATC
1 TAATTGTATACATG-AATTTTGATTTTG-TC
21355465 TAATT
1 TAATT
21355470 CTTGTAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 17 0.55
30 14 0.45
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.52
Consensus pattern (29 bp):
TAATTGTATACATGAATTTTGATTTTGTC
Found at i:21360229 original size:41 final size:41
Alignment explanation
Indices: 21360184--21360383 Score: 256
Period size: 41 Copynumber: 4.8 Consensus size: 41
21360174 TTAACCATAT
*
21360184 TCTCATTCTTATCTCGAGACATGAGTCTTCCTTAATCAAAA
1 TCTCATTCTCATCTCGAGACATGAGTCTTCCTTAATCAAAA
* * * *
21360225 TCTCATTCTCATTTCGAGACATGAGTCTTCCTTATTCATAG
1 TCTCATTCTCATCTCGAGACATGAGTCTTCCTTAATCAAAA
*
21360266 TCTCATTCTCATCTCGAGACATGAGTCTTCCTTTATCAAAA
1 TCTCATTCTCATCTCGAGACATGAGTCTTCCTTAATCAAAA
* * **
21360307 TCTCATTCTCATTTCGAGACATGAGTCTTCCATTTATACAATT
1 TCTCATTCTCATCTCGAGACATGAGTCTTCC-TTAAT-CAAAA
* * *
21360350 TCTCATGCTCAAACCCGAGACATGAGTCTTCCTT
1 TCTCATTCTC-ATCTCGAGACATGAGTCTTCCTT
21360384 TTTATATACT
Statistics
Matches: 139, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
41 102 0.73
42 5 0.04
43 14 0.10
44 18 0.13
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.38
Consensus pattern (41 bp):
TCTCATTCTCATCTCGAGACATGAGTCTTCCTTAATCAAAA
Found at i:21360280 original size:82 final size:83
Alignment explanation
Indices: 21360179--21360383 Score: 306
Period size: 82 Copynumber: 2.5 Consensus size: 83
21360169 TTTCTTTAAC
*
21360179 CATATTCTCATTCTTATCTCGAGACATGAGTCTTCCTTAATCAAAATCTCATTCTCATTTCGAGA
1 CATATTCTCATTCTCATCTCGAGACATGAGTCTTCCTTAATCAAAATCTCATTCTCATTTCGAGA
*
21360244 CATGAGTCTTCC-TTATT
66 CATGAGTCTTCCATTATA
* *
21360261 CATAGTCTCATTCTCATCTCGAGACATGAGTCTTCCTTTATCAAAATCTCATTCTCATTTCGAGA
1 CATATTCTCATTCTCATCTCGAGACATGAGTCTTCCTTAATCAAAATCTCATTCTCATTTCGAGA
21360326 CATGAGTCTTCCATTTATA
66 CATGAGTCTTCCA-TTATA
* * *
21360345 CA-ATTTCTCATGCTCAAACCCGAGACATGAGTCTTCCTT
1 CATA-TTCTCATTCTC-ATCTCGAGACATGAGTCTTCCTT
21360384 TTTATATACT
Statistics
Matches: 111, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
82 74 0.67
83 1 0.01
84 15 0.14
85 21 0.19
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.38
Consensus pattern (83 bp):
CATATTCTCATTCTCATCTCGAGACATGAGTCTTCCTTAATCAAAATCTCATTCTCATTTCGAGA
CATGAGTCTTCCATTATA
Found at i:21366738 original size:281 final size:281
Alignment explanation
Indices: 21366226--21366785 Score: 1075
Period size: 281 Copynumber: 2.0 Consensus size: 281
21366216 AATATCATAC
*
21366226 TATCATAGATTTATATGACATGTATTTCTAAACTTTAAATTTCACGATATACAGTCCAAGAATCG
1 TATCACAGATTTATATGACATGTATTTCTAAACTTTAAATTTCACGATATACAGTCCAAGAATCG
21366291 GTTAAATCGTAAGCTTTGATACCACTAAATGTAACACTCAAAAACCCAACGCCGTCGCCGACTAG
66 GTTAAATCGTAAGCTTTGATACCACTAAATGTAACACTCAAAAACCCAACGCCGTCGCCGACTAG
*
21366356 GGTCTCGGAGTCACTCAATCATCTATCACTGTTTATCTTTTAAATTCATGTCAACCATTCTTACA
131 GGTCTCAGAGTCACTCAATCATCTATCACTGTTTATCTTTTAAATTCATGTCAACCATTCTTACA
21366421 TTATTAAAGAAATACACCCAACACATCATAAGTTATCATTTACTTATAAATACAATTCAACAAGG
196 TTATTAAAGAAATACACCCAACACATCATAAGTTATCATTTACTTATAAATACAATTCAACAAGG
*
21366486 GCAAATAAGTTATTTTTCAGA
261 GCAAATAAGTCATTTTTCAGA
*
21366507 TATCACAGGTTTATATGACATGTATTTCTAAACTTTAAATTTCACGATATACAGTCCAAGAATCG
1 TATCACAGATTTATATGACATGTATTTCTAAACTTTAAATTTCACGATATACAGTCCAAGAATCG
*
21366572 GTTAAATCGTAAGCTTTGATACCACTAAATGTAACACTCAAAAACCTAACGCCGTCGCCGACTAG
66 GTTAAATCGTAAGCTTTGATACCACTAAATGTAACACTCAAAAACCCAACGCCGTCGCCGACTAG
21366637 GGTCTCAGAGTCACTCAATCATCTATCACTGTTTATCTTTTAAATTCATGTCAACCATTCTTACA
131 GGTCTCAGAGTCACTCAATCATCTATCACTGTTTATCTTTTAAATTCATGTCAACCATTCTTACA
21366702 TTATTAAAGAAATACACCCAACACATCATAAGTTATCATTTACTTATAAATACAATTCAACAAGG
196 TTATTAAAGAAATACACCCAACACATCATAAGTTATCATTTACTTATAAATACAATTCAACAAGG
21366767 GCAAATAAGTCATTTTTCA
261 GCAAATAAGTCATTTTTCA
21366786 AATGTTTGGA
Statistics
Matches: 274, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
281 274 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (281 bp):
TATCACAGATTTATATGACATGTATTTCTAAACTTTAAATTTCACGATATACAGTCCAAGAATCG
GTTAAATCGTAAGCTTTGATACCACTAAATGTAACACTCAAAAACCCAACGCCGTCGCCGACTAG
GGTCTCAGAGTCACTCAATCATCTATCACTGTTTATCTTTTAAATTCATGTCAACCATTCTTACA
TTATTAAAGAAATACACCCAACACATCATAAGTTATCATTTACTTATAAATACAATTCAACAAGG
GCAAATAAGTCATTTTTCAGA
Found at i:21367675 original size:41 final size:41
Alignment explanation
Indices: 21367627--21367819 Score: 235
Period size: 41 Copynumber: 4.7 Consensus size: 41
21367617 TTAACCATAT
*
21367627 TCTCATTCTCATCTCGAGACATGAGTCTTTCTTAATCAAAA
1 TCTCATTCTCATCTCGAGACATGAGTCTTCCTTAATCAAAA
* * * *
21367668 TCTCATTCTCATTTCGAGACATGAGTCTTCCTTATTCATAG
1 TCTCATTCTCATCTCGAGACATGAGTCTTCCTTAATCAAAA
21367709 TCTCACTT-TCATCTCGAGACATGAGTCTTCCTTAATCAAAA
1 TCTCA-TTCTCATCTCGAGACATGAGTCTTCCTTAATCAAAA
* * * * * * *
21367750 TCTCATTCTTATTTCCAGATATGAGTCTTCCTTATTCATAG
1 TCTCATTCTCATCTCGAGACATGAGTCTTCCTTAATCAAAA
* * *
21367791 TTTCATTCTTATCTCGAGATATGAGTCTT
1 TCTCATTCTCATCTCGAGACATGAGTCTT
21367820 TCTTTTTATA
Statistics
Matches: 131, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
40 2 0.02
41 127 0.97
42 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.41
Consensus pattern (41 bp):
TCTCATTCTCATCTCGAGACATGAGTCTTCCTTAATCAAAA
Found at i:21367755 original size:82 final size:82
Alignment explanation
Indices: 21367622--21367819 Score: 308
Period size: 82 Copynumber: 2.4 Consensus size: 82
21367612 TTTCTTTAAC
* * *
21367622 CATATTCTCATTCTCATCTCGAGACATGAGTCTTTCTTAATCAAAATCTCATTCTCATTTCGAGA
1 CATAGTCTCATTCTCATCTCGAGACATGAGTCTTCCTTAATCAAAATCTCATTCTCATTTCCAGA
21367687 CATGAGTCTTCCTTATT
66 CATGAGTCTTCCTTATT
*
21367704 CATAGTCTCACTT-TCATCTCGAGACATGAGTCTTCCTTAATCAAAATCTCATTCTTATTTCCAG
1 CATAGTCTCA-TTCTCATCTCGAGACATGAGTCTTCCTTAATCAAAATCTCATTCTCATTTCCAG
*
21367768 ATATGAGTCTTCCTTATT
65 ACATGAGTCTTCCTTATT
* * *
21367786 CATAGTTTCATTCTTATCTCGAGATATGAGTCTT
1 CATAGTCTCATTCTCATCTCGAGACATGAGTCTT
21367820 TCTTTTTATA
Statistics
Matches: 106, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
81 2 0.02
82 102 0.96
83 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.11, T:0.41
Consensus pattern (82 bp):
CATAGTCTCATTCTCATCTCGAGACATGAGTCTTCCTTAATCAAAATCTCATTCTCATTTCCAGA
CATGAGTCTTCCTTATT
Found at i:21368670 original size:22 final size:21
Alignment explanation
Indices: 21368623--21368670 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
21368613 GACTTTCATA
*
21368623 ATTAACTTAATTAATCATCTT
1 ATTAACTTAATTAATCATATT
* * *
21368644 TTTAACCTTAATTTATCCTATT
1 ATTAA-CTTAATTAATCATATT
21368666 ATTAA
1 ATTAA
21368671 TCAATATTTG
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTAACTTAATTAATCATATT
Found at i:21378857 original size:139 final size:137
Alignment explanation
Indices: 21378563--21379121 Score: 826
Period size: 139 Copynumber: 4.1 Consensus size: 137
21378553 GAGAACATAG
*
21378563 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTATATATATATTTTA-CAGAATTT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAA-T-TGTATATATTTTACCA-AATTT
*
21378627 A-T-ATA-AATA-A-TTATATTAATTAATTTC-GATCAAAATATAAAATACATGGAAATTAATAT
63 ATTAATATAA-ACAGTTATATTAATTAATTTCAG-TCAAAATATAAAA-ACATGAAAATTAATAT
21378686 TCTTTTGGAAAGA
125 TCTTTTGGAAAGA
*
21378699 ATATAATTAGTATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATT
**
21378764 AATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAACACATGAAAATTGCTATTCTT
66 AATATAAACAGTTATATTAATTAATTTCAGTCAAAATAT-AAAA-ACATGAAAATTAATATTCTT
21378829 TTGGAAAGA
129 TTGGAAAGA
* **
21378838 ATATAATTAACATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATT
* *
21378903 AATATAAACAATTATATTAATTAATTTCAGTCAAAATCTAAAAGACATGAAAATTAATATTCTTT
66 AATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAA-ACATGAAAATTAATATTC-TT
21378968 TTGGAAAGA
129 TTGGAAAGA
* *
21378977 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATT
* * * * *
21379042 AATATAAATAGTTGTATTAATTAATTTCGGACAAAATATAAAAATATGAAAATTAATATTCTTTT
66 AATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAACATGAAAATTAATATTCTTTT
21379107 GGAAAGA
131 GGAAAGA
21379114 ATATAATT
1 ATATAATT
21379122 GTAAAAGAAT
Statistics
Matches: 389, Mismatches: 25, Indels: 17
0.90 0.06 0.04
Matches are distributed among these distances:
134 18 0.05
135 4 0.01
136 43 0.11
137 22 0.06
138 63 0.16
139 239 0.61
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.41
Consensus pattern (137 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCAAATTTATT
AATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAACATGAAAATTAATATTCTTTT
GGAAAGA
Found at i:21382947 original size:196 final size:194
Alignment explanation
Indices: 21382490--21382947 Score: 498
Period size: 196 Copynumber: 2.4 Consensus size: 194
21382480 TACCAGTACC
* * * * * *
21382490 CGATACTGCTCACACAAGCTATCGAGGACTCGCAACGTATGCAGTACCCCAGTCA-CCAGTACGG
1 CGATACTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCCA-TACGG
* * * * * * *
21382554 TGTCTATCTATAATCTGTCCCCTAACAATGCTGCTCACACGAGCTGTCGAGAATATGCATTCAAG
65 TATCTATATATAATCTGTCCCCTAACAATACTACTCACACGAACTGTCAAAAATATGCATTCAAG
* * ** * *
21382619 CATAAATCCCAACCATCGTAGGGCCTATAATATGTTTAGGATTTTATATCTTTTTTTTCGATTCA
130 CATAAATCCCAACCATCATAGGGCCTATAATATGTTTAGGATTTCATATCTCATTTCTCGACTCA
* ** * * **
21382684 TGATGTTGTTCACACGAGCTGTCGAGGACTCGTAACATATGCGGTACCTCAGCCATTGATACGGT
1 CGATACTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCCATACGGT
* * *
21382749 ATCTGTGGATATAA-CTGTTTCCCTAACGATACTACTCACACGAACTGTCAAAAATATGCACTT-
66 ATCTAT--ATATAATCTG-TCCCCTAACAATACTACTCACACGAACTGTCAAAAATATGCA-TTC
* *
21382812 ATGCATAAATCCCAACCATCATAGGGCCTATAATCCAT-TCTT-GGA-TTCATTTCTCATTTCTC
127 AAGCATAAATCCCAACCATCATAGGGCCTATAAT--ATGT-TTAGGATTTCATATCTCATTTCTC
21382874 GACTCA
189 GACTCA
*
21382880 CGATACTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTTAGCCATCACAT-CGG
1 CGATACTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATC-CATACGG
21382944 TATC
65 TATC
21382948 AAATCACCGG
Statistics
Matches: 216, Mismatches: 39, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
194 54 0.25
195 4 0.02
196 146 0.68
197 8 0.04
198 4 0.02
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (194 bp):
CGATACTGCTCACACGAGCTGTCGAGGACTCGCAACATATGCGGTACCTCAGCCATCCATACGGT
ATCTATATATAATCTGTCCCCTAACAATACTACTCACACGAACTGTCAAAAATATGCATTCAAGC
ATAAATCCCAACCATCATAGGGCCTATAATATGTTTAGGATTTCATATCTCATTTCTCGACTCA
Found at i:21394640 original size:21 final size:21
Alignment explanation
Indices: 21394614--21394663 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
21394604 TTTTTAGTAC
* * *
21394614 TGGTAGAAGCATGATTTGTTT
1 TGGTAGAAGCATCACTTGTAT
*
21394635 TGGTAGAAGCTTCACTTGTAT
1 TGGTAGAAGCATCACTTGTAT
21394656 TGGTAGAA
1 TGGTAGAA
21394664 CTGTCATAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.26, C:0.08, G:0.28, T:0.38
Consensus pattern (21 bp):
TGGTAGAAGCATCACTTGTAT
Found at i:21412147 original size:21 final size:23
Alignment explanation
Indices: 21412099--21412147 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
21412089 TTTCCTAAAG
*
21412099 GGAGAAATAAGGAAGGTGAGAGAA
1 GGAGAAATAAGAAAGGT-AGAGAA
*
21412123 GGAGAAATAA-AAAGGT-GAGAT
1 GGAGAAATAAGAAAGGTAGAGAA
21412144 GGAG
1 GGAG
21412148 TGGGACGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 8 0.35
23 5 0.22
24 10 0.43
ACGTcount: A:0.49, C:0.00, G:0.41, T:0.10
Consensus pattern (23 bp):
GGAGAAATAAGAAAGGTAGAGAA
Found at i:21418339 original size:18 final size:18
Alignment explanation
Indices: 21418282--21418346 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
21418272 CCTAGATAAT
*
21418282 ATGCATTCACATAACCAG
1 ATGCATTCACATAACCAA
* *
21418300 ATGCGA-TCACAAAATCAA
1 ATGC-ATTCACATAACCAA
* *
21418318 ATGCATTCATATAACCAC
1 ATGCATTCACATAACCAA
*
21418336 ATGCAGTCACA
1 ATGCATTCACA
21418347 AATGCCACCA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
17 1 0.03
18 34 0.94
19 1 0.03
ACGTcount: A:0.42, C:0.26, G:0.11, T:0.22
Consensus pattern (18 bp):
ATGCATTCACATAACCAA
Found at i:21424475 original size:18 final size:18
Alignment explanation
Indices: 21424454--21424511 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
21424444 GCGAAACCTG
21424454 AGGAGAAGAAGGAA-AATA
1 AGGAGAAGAAGGAAGAA-A
*
21424472 AGGA-AGAGAAGGAAGAAG
1 AGGAGA-AGAAGGAAGAAA
* *
21424490 AGGAGAAGAATGAAGAGA
1 AGGAGAAGAAGGAAGAAA
21424508 AGGA
1 AGGA
21424512 AGATGCCCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
17 1 0.03
18 29 0.88
19 3 0.09
ACGTcount: A:0.57, C:0.00, G:0.40, T:0.03
Consensus pattern (18 bp):
AGGAGAAGAAGGAAGAAA
Found at i:21424483 original size:9 final size:9
Alignment explanation
Indices: 21424460--21424514 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
21424450 CCTGAGGAGA
*
21424460 AGAAGGAAA
1 AGAAGGAAG
*
21424469 ATAAGGAAG
1 AGAAGGAAG
21424478 AGAAGGAAG
1 AGAAGGAAG
21424487 A-AGAGG-AG
1 AGA-AGGAAG
*
21424495 AAGAATGAAG
1 -AGAAGGAAG
21424505 AGAAGGAAG
1 AGAAGGAAG
21424514 A
1 A
21424515 TGCCCCTACA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
8 3 0.08
9 31 0.84
10 3 0.08
ACGTcount: A:0.58, C:0.00, G:0.38, T:0.04
Consensus pattern (9 bp):
AGAAGGAAG
Found at i:21424493 original size:27 final size:28
Alignment explanation
Indices: 21424457--21424514 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
21424447 AAACCTGAGG
*
21424457 AGAAGAAGGAAAATAAGGAAGAGAAGGA
1 AGAAGAAGGAAAAGAAGGAAGAGAAGGA
* *
21424485 AGAAG-AGGAGAAGAATGAAGAGAAGGA
1 AGAAGAAGGAAAAGAAGGAAGAGAAGGA
21424512 AGA
1 AGA
21424515 TGCCCCTACA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.59, C:0.00, G:0.38, T:0.03
Consensus pattern (28 bp):
AGAAGAAGGAAAAGAAGGAAGAGAAGGA
Found at i:21424827 original size:3 final size:3
Alignment explanation
Indices: 21424821--21424846 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
21424811 GGAGCACCCA
21424821 AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AA
21424847 AGCCAAGGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:21440822 original size:37 final size:37
Alignment explanation
Indices: 21440767--21440843 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 37
21440757 TAATGTTGCT
* * * *
21440767 GCATAAGCACTTCCAGATTGCGCCCAAAACTGTCGTC
1 GCATAAGCACTTCCAGATTGCACCAAAAACTATCGCC
*
21440804 GCATTAGCACTTCCAGATTGCACCAAAAACTATCGCC
1 GCATAAGCACTTCCAGATTGCACCAAAAACTATCGCC
21440841 GCA
1 GCA
21440844 GGAATATTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.30, C:0.32, G:0.17, T:0.21
Consensus pattern (37 bp):
GCATAAGCACTTCCAGATTGCACCAAAAACTATCGCC
Found at i:21443129 original size:17 final size:17
Alignment explanation
Indices: 21443107--21443146 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
21443097 TCAGTCACTT
21443107 AAAAAAACAAAA-AATGA
1 AAAAAAACAAAAGAA-GA
*
21443124 AAAAAAAGAAAAGAAGA
1 AAAAAAACAAAAGAAGA
21443141 AAAAAA
1 AAAAAA
21443147 TTTTTATGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 19 0.90
18 2 0.10
ACGTcount: A:0.85, C:0.03, G:0.10, T:0.03
Consensus pattern (17 bp):
AAAAAAACAAAAGAAGA
Found at i:21447224 original size:3 final size:3
Alignment explanation
Indices: 21447216--21447254 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
21447206 TGAGGCTAAG
*
21447216 GAA GAA GAA GAA GAA GAA G-A GAA GGAA GAA AAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA -GAA GAA GAA GAA GAA
21447255 AATATTATCT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.84
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:21452666 original size:41 final size:41
Alignment explanation
Indices: 21452606--21452841 Score: 339
Period size: 41 Copynumber: 5.8 Consensus size: 41
21452596 TAGGAAAAAT
21452606 GCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGC
1 GCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGC
* *
21452647 GCTGCTAGAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGC
1 GCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGC
* * **
21452688 GCTGCTAAAGGTCAAAGCATTAGCAACGTTTATGAGAAAGC
1 GCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGC
*
21452729 GCCGCTAAAGGTCAGAGCATTAGTGGCGTTTATGAGAAAGC
1 GCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGC
* * **
21452770 GCCGCTAAAGGTCTGAGCATTAGCGGCGTTTATGTGAAAAAT
1 GCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAG-AAAGC
* *
21452812 GCCGCTAAAGGTTA-AGCAATAGCGGCGTTT
1 GCCGCTAAAGGTCAGAGCATTAGCGGCGTTT
21452842 TCCCATAAGC
Statistics
Matches: 175, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
41 160 0.91
42 15 0.09
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (41 bp):
GCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGC
Found at i:21452841 original size:123 final size:123
Alignment explanation
Indices: 21452571--21452841 Score: 359
Period size: 123 Copynumber: 2.2 Consensus size: 123
21452561 AAACGTAGCA
*
21452571 AAAGG-TAATGCAATAGCGACGTTTATAGGAAAAATGCCGCTAAAGGTCAGAGCATTAGCGGCGT
1 AAAGGTTAA-GCAATAGCGACGTTTATAGGAAAAACGCCGCTAAAGGTCAGAGCATTAGCGGCGT
* * * *
21452635 TTATGAGAAAGCGCTGCTAGAGGTCAGAGCATTAGCGGCGTTTATGAGAAAGCGCTGCT
65 TTATGAGAAAGCGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAACGCCGCT
* * * * *
21452694 AAAGGTCAAAGCATTAGCAACGTTTAT--GAGAAAGCGCCGCTAAAGGTCAGAGCATTAGTGGCG
1 AAAGGT-TAAGCAATAGCGACGTTTATAGGA-AAAACGCCGCTAAAGGTCAGAGCATTAGCGGCG
* * *
21452757 TTTATGAGAAAGCGCCGCTAAAGGTCTGAGCATTAGCGGCGTTTATGTGAAAAATGCCGCT
64 TTTATGAGAAAGCGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAG-AAAACGCCGCT
*
21452818 AAAGGTTAAGCAATAGCGGCGTTT
1 AAAGGTTAAGCAATAGCGACGTTT
21452842 TCCCATAAGC
Statistics
Matches: 127, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
122 2 0.02
123 94 0.74
124 29 0.23
125 2 0.02
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.23
Consensus pattern (123 bp):
AAAGGTTAAGCAATAGCGACGTTTATAGGAAAAACGCCGCTAAAGGTCAGAGCATTAGCGGCGTT
TATGAGAAAGCGCCGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAACGCCGCT
Found at i:21453278 original size:20 final size:20
Alignment explanation
Indices: 21453234--21453278 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 20
21453224 TTGAATGTTT
21453234 CAAAATTCAAATTTAAACCGA
1 CAAAATTCAAATTTAAA-CGA
21453255 -AAAATTCAAAATTTAAA-GA
1 CAAAATTC-AAATTTAAACGA
21453274 CAAAA
1 CAAAA
21453279 AAGGCTCGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
19 2 0.09
20 11 0.50
21 9 0.41
ACGTcount: A:0.60, C:0.13, G:0.04, T:0.22
Consensus pattern (20 bp):
CAAAATTCAAATTTAAACGA
Found at i:21458163 original size:43 final size:44
Alignment explanation
Indices: 21458115--21458233 Score: 127
Period size: 43 Copynumber: 2.8 Consensus size: 44
21458105 GTTAGTGGAA
* * * * *
21458115 TTTGTGGGAAAAATGCTGCTAAAGACCATATTTTTTAGCGGC-T
1 TTTGTGAGAAAAACGCCGCTAAAGACCATATTCTTTAACGGCAT
* *
21458158 TTTGTGAGAAAAGCGCCGCTAAAGACCATGTTCTTTAACGGCAT
1 TTTGTGAGAAAAACGCCGCTAAAGACCATATTCTTTAACGGCAT
* * *
21458202 TTT-TG-GCAAAGCGCCGCTAAAGACCATGTTCT
1 TTTGTGAGAAAAACGCCGCTAAAGACCATATTCT
21458234 ATAGCAGCAT
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
42 26 0.39
43 37 0.55
44 4 0.06
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (44 bp):
TTTGTGAGAAAAACGCCGCTAAAGACCATATTCTTTAACGGCAT
Found at i:21458220 original size:42 final size:43
Alignment explanation
Indices: 21458132--21458247 Score: 155
Period size: 42 Copynumber: 2.7 Consensus size: 43
21458122 GAAAAATGCT
* *
21458132 GCTAAAGACCATATTTTTTAGCGGC-TTTTGTGAGAAAAGCGCC
1 GCTAAAGACCATGTTCTTTAGCGGCATTTT-TGAGAAAAGCGCC
* *
21458175 GCTAAAGACCATGTTCTTTAACGGCATTTTTG-GCAAAGCGCC
1 GCTAAAGACCATGTTCTTTAGCGGCATTTTTGAGAAAAGCGCC
* *
21458217 GCTAAAGACCATGTTCTATAGCAGCATTTTT
1 GCTAAAGACCATGTTCTTTAGCGGCATTTTT
21458248 ACTCATAAAC
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
42 37 0.57
43 24 0.37
44 4 0.06
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (43 bp):
GCTAAAGACCATGTTCTTTAGCGGCATTTTTGAGAAAAGCGCC
Found at i:21463807 original size:37 final size:37
Alignment explanation
Indices: 21463734--21463815 Score: 94
Period size: 37 Copynumber: 2.2 Consensus size: 37
21463724 TTACTACTAA
* ** **
21463734 TGTCGCTGCATGAGCACTTCTTGATTGTGTCCAAAAC
1 TGTCGCCGCATGAGCACTTCCAGATTGTCACCAAAAC
21463771 TGTCGCCGCATGAGCACTTCCAGATTG-CACCTAAAAC
1 TGTCGCCGCATGAGCACTTCCAGATTGTCACC-AAAAC
*
21463808 TGGCGCCG
1 TGTCGCCG
21463816 TAGGAATATT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
36 2 0.05
37 36 0.95
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (37 bp):
TGTCGCCGCATGAGCACTTCCAGATTGTCACCAAAAC
Found at i:21463947 original size:26 final size:26
Alignment explanation
Indices: 21463912--21463969 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
21463902 ATTGCACCCA
21463912 AGAA-TGTCGCTACATGAACATGTCC
1 AGAATTGTCGCTACATGAACATGTCC
* *
21463937 AGAATTGTCGCTGCATGAACGTGTCC
1 AGAATTGTCGCTACATGAACATGTCC
21463963 AGAATTG
1 AGAATTG
21463970 CATCCAGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 4 0.13
26 26 0.87
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (26 bp):
AGAATTGTCGCTACATGAACATGTCC
Found at i:21468236 original size:37 final size:37
Alignment explanation
Indices: 21468186--21468269 Score: 105
Period size: 37 Copynumber: 2.3 Consensus size: 37
21468176 TTACTACTAA
* *
21468186 TGTCGCCGCATGAGAACCTCTAGATTGCGCCCAAAAC
1 TGTCGCCGCATGAGAACCTCCAGATTGCACCCAAAAC
* * **
21468223 TGTCGCCGCATGAGCACTTCCAGATTGCACGTAAAAC
1 TGTCGCCGCATGAGAACCTCCAGATTGCACCCAAAAC
*
21468260 TGTCACCGCA
1 TGTCGCCGCA
21468270 AGAATATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.26, C:0.32, G:0.21, T:0.20
Consensus pattern (37 bp):
TGTCGCCGCATGAGAACCTCCAGATTGCACCCAAAAC
Found at i:21469244 original size:16 final size:16
Alignment explanation
Indices: 21469223--21469253 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21469213 TTGTGGATCC
21469223 CATTTTACCTTTATTA
1 CATTTTACCTTTATTA
*
21469239 CATTTTATCTTTATT
1 CATTTTACCTTTATT
21469254 TTCACATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.61
Consensus pattern (16 bp):
CATTTTACCTTTATTA
Found at i:21472048 original size:12 final size:12
Alignment explanation
Indices: 21472033--21472077 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
21472023 GAAGGAGCAA
21472033 AAGAAGAAAAGG
1 AAGAAGAAAAGG
*
21472045 AAGAAGAAAAAG
1 AAGAAGAAAAGG
* *
21472057 AAGAGGAGAAGG
1 AAGAAGAAAAGG
21472069 AAGAAGAAA
1 AAGAAGAAA
21472078 GTATTGCCCC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (12 bp):
AAGAAGAAAAGG
Found at i:21472050 original size:24 final size:24
Alignment explanation
Indices: 21472031--21472074 Score: 58
Period size: 21 Copynumber: 1.9 Consensus size: 24
21472021 ATGAAGGAGC
21472031 AAAAGAAGA-A-AAGGAAGAA-GA
1 AAAAGAAGAGAGAAGGAAGAAGGA
21472052 AAAAGAAGAGGAGAAGGAAGAAG
1 AAAAGAAGA-GAGAAGGAAGAAG
21472075 AAAGTATTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 9 0.47
23 1 0.05
24 9 0.47
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (24 bp):
AAAAGAAGAGAGAAGGAAGAAGGA
Found at i:21473136 original size:19 final size:19
Alignment explanation
Indices: 21473096--21473147 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
21473086 TCAAACACAT
21473096 AAAGAAAAGAAAAATAG-AA
1 AAAG-AAAGAAAAATAGAAA
* *
21473115 AAAGAAAGAAAAGTTGATAA
1 AAAGAAAGAAAAATAGA-AA
*
21473135 AAAGACAGAAAAA
1 AAAGAAAGAAAAA
21473148 GAAAGAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 10 0.37
19 4 0.15
20 13 0.48
ACGTcount: A:0.73, C:0.02, G:0.17, T:0.08
Consensus pattern (19 bp):
AAAGAAAGAAAAATAGAAA
Found at i:21475418 original size:12 final size:12
Alignment explanation
Indices: 21475401--21475426 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21475391 TGTACCCACA
21475401 CCCATGTGTCAG
1 CCCATGTGTCAG
21475413 CCCATGTGTCAG
1 CCCATGTGTCAG
21475425 CC
1 CC
21475427 TATGCTCCCC
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:0.15, C:0.38, G:0.23, T:0.23
Consensus pattern (12 bp):
CCCATGTGTCAG
Found at i:21475460 original size:39 final size:39
Alignment explanation
Indices: 21475413--21475491 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 39
21475403 CATGTGTCAG
* *
21475413 CCCATGTGTCAGCCTATGCT-CCCCAAAATAGTATACACA
1 CCCATGTGTCAGCCCATG-TGCCCCAAAACAGTATACACA
* *
21475452 CCCATGTGTCAGCCCGTGTGCCCCAGAACAGTATACACA
1 CCCATGTGTCAGCCCATGTGCCCCAAAACAGTATACACA
21475491 C
1 C
21475492 ACCCTAACAC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.03
39 34 0.97
ACGTcount: A:0.28, C:0.35, G:0.16, T:0.20
Consensus pattern (39 bp):
CCCATGTGTCAGCCCATGTGCCCCAAAACAGTATACACA
Found at i:21475525 original size:53 final size:54
Alignment explanation
Indices: 21475447--21475581 Score: 193
Period size: 55 Copynumber: 2.5 Consensus size: 54
21475437 AAAATAGTAT
*
21475447 ACACACCCATGTGTCAGCCCGTGTGCC-CCAGAACAGTAT-ACACACACCCTAAC
1 ACACACCCATGTGCCAGCCCGTGTGCCTCCA-AACAGTATAACACACACCCTAAC
* * *
21475500 ACACGCCCATGTGCCAGTCCGTGTGCCTCCAAACAGTATACACACACACCCTGAC
1 ACACACCCATGTGCCAGCCCGTGTGCCTCCAAACAGTATA-ACACACACCCTAAC
*
21475555 ACACCCCCATGTGCCAGCCCGTGTGCC
1 ACACACCCATGTGCCAGCCCGTGTGCC
21475582 ACACACACAC
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
53 32 0.44
54 3 0.04
55 38 0.52
ACGTcount: A:0.26, C:0.41, G:0.17, T:0.16
Consensus pattern (54 bp):
ACACACCCATGTGCCAGCCCGTGTGCCTCCAAACAGTATAACACACACCCTAAC
Found at i:21475597 original size:41 final size:41
Alignment explanation
Indices: 21475540--21475621 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 41
21475530 AAACAGTATA
* *
21475540 CACACACACCCTGACACACCCCCATGTGCCAGCCCGTGTGC
1 CACACACACACTGACACACCCCCATGTGCCAGCCCATGTGC
* *
21475581 CACACACACACTGACACACGCCCGTGTGCCAGCCCATGTGC
1 CACACACACACTGACACACCCCCATGTGCCAGCCCATGTGC
21475622 TTCCAAATAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.23, C:0.46, G:0.18, T:0.12
Consensus pattern (41 bp):
CACACACACACTGACACACCCCCATGTGCCAGCCCATGTGC
Found at i:21476712 original size:63 final size:62
Alignment explanation
Indices: 21476613--21476792 Score: 233
Period size: 62 Copynumber: 2.9 Consensus size: 62
21476603 AGATATTACA
* * * *
21476613 TTAATATTAAATTTAATCTAATATTTATCATATAGATAAAATATTCTATTAATTTAATAAAAT
1 TTAATATTAAACTTAATCTAATATTTATCTTGTAGAT-AAATAATCTATTAATTTAATAAAAT
* *
21476676 TTAATATTAAACTCAATCTAATATTTATCTTGTAGATAAATAATCTATTAATTTAATAAGAT
1 TTAATATTAAACTTAATCTAATATTTATCTTGTAGATAAATAATCTATTAATTTAATAAAAT
* * *
21476738 TTAATATTAAACTTATTCTGATATTTATC-T-T-GATAAGT-ATCATATTAATTTAATA
1 TTAATATTAAACTTAATCTAATATTTATCTTGTAGATAAATAATC-TATTAATTTAATA
21476793 TTAAAGTGAT
Statistics
Matches: 106, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
58 3 0.03
59 19 0.18
60 1 0.01
61 1 0.01
62 49 0.46
63 33 0.31
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.46
Consensus pattern (62 bp):
TTAATATTAAACTTAATCTAATATTTATCTTGTAGATAAATAATCTATTAATTTAATAAAAT
Found at i:21477018 original size:16 final size:16
Alignment explanation
Indices: 21476994--21477024 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21476984 ATTAAAAAAG
*
21476994 TTTCGAAATAATTTAC
1 TTTCAAAATAATTTAC
21477010 TTTCAAAATAATTTA
1 TTTCAAAATAATTTA
21477025 ATTTAATCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.45
Consensus pattern (16 bp):
TTTCAAAATAATTTAC
Found at i:21477800 original size:61 final size:59
Alignment explanation
Indices: 21477729--21477845 Score: 173
Period size: 61 Copynumber: 1.9 Consensus size: 59
21477719 AAGTGATTAT
* * *
21477729 TTTAATATTAAATTTAATTTAATATTTATTTATAGAT-AGATATTCTATTAATTTAATAAGA
1 TTTAATATTAAATTTAATCTAATATTTATCT-T-GATAAG-TATTATATTAATTTAATAAGA
21477790 TTTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATA
1 TTTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATA
21477846 TTAAAGTGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
59 20 0.38
60 3 0.06
61 29 0.56
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (59 bp):
TTTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTATATTAATTTAATAAGA
Found at i:21479954 original size:508 final size:508
Alignment explanation
Indices: 21478999--21480015 Score: 1854
Period size: 508 Copynumber: 2.0 Consensus size: 508
21478989 AACGTTTTTG
* *
21478999 GATTGTCTCCTCTGTCAACTCACGCTTTTGCAATCTTTTATTTAATCGTTGCTTTCATTACCGAT
1 GATTGTCTACTCTATCAACTCACGCTTTTGCAATCTTTTATTTAATCGTTGCTTTCATTACCGAT
*
21479064 TGTTGAGGTACTGTGATGAATTGGAATCGTTATATCTCGTGAACTGTTGTTGTTTTTGTACAAGG
66 TGTTGAGGTACTGTGATGAATTGGAATCGTTATATCTCGTGAACTATTGTTGTTTTTGTACAAGG
21479129 TTCGTTTTGGTTGTTTTGTGTTGAAAGTATGAAATTATGAAATTATGATTTAGAAATTTTATTTT
131 TTCGTTTTGGTTGTTTTGTGTTGAAAGTATGAAATTATGAAATTATGATTTAGAAATTTTATTTT
* * * *
21479194 GTTCTTCCTTTGCATCGAATCGTTGCTAAAGCGTATATGTCTTGTGCGCGTATAATTGCATTGTT
196 GTTCTTCCTTTGCATCGAATCATTGCTAAAGCGTATATGTCTTATACGCGTATAATCGCATTGTT
* * * *
21479259 TAAGAGGAAATTGTGAGGACTTCGAGTCTCGTTACGTTCGAAGGGAGTGAGATAATTCACGCTCA
261 TAAGAGAAAATTGTGAGGACTTCGAGTCTCATTACGTTCAAAGAGAGTGAGATAATTCACGCTCA
* * *
21479324 AAGGTAATGGAGTTTTCGAGATAGAAACTTTTTGGCTTATTGTGGAATTTTTGTTGTGCTTATCG
326 AAGGTAATAGAGTTTTCGAGATAGAAACTTGTTGGCTTATTGTGGAATTTTTGTTGTGATTATCG
* * *
21479389 TAGTTAAGCACAGAAACAGTGAGTTACATGGGCTGGACACACGAGCGTGTGGCCAGGCCGTGCCA
391 TAGTTAAGCACAGAAACAGTGAGTAACACGGGCTGGACACACGAGCGTGTGGCCAGGCCATGCCA
* *
21479454 CATAAATAAGCTATAGGAGACACACAGGTTACACCACGGGTATGTATCAGACC
456 CATAAATAAGCTATAGGAGACACACAGGTTACACCACGAGCATGTATCAGACC
21479507 GATTGTCTACTCTATCAACTCACGCTTTTGCAATCTTTTATTTAATCGTTGCTTTCATTACCGAT
1 GATTGTCTACTCTATCAACTCACGCTTTTGCAATCTTTTATTTAATCGTTGCTTTCATTACCGAT
21479572 TGTTGAGGTACTGTGATGAATTGGAATCGTTATATCTCGTGAACTATTGTTGTTTTTGTACAAGG
66 TGTTGAGGTACTGTGATGAATTGGAATCGTTATATCTCGTGAACTATTGTTGTTTTTGTACAAGG
21479637 TTCGTTTTGGTTGTTTTGTGTTGAAAGTATGAAATTATGAAATTATGATTTAGAAATTTTATTTT
131 TTCGTTTTGGTTGTTTTGTGTTGAAAGTATGAAATTATGAAATTATGATTTAGAAATTTTATTTT
*
21479702 GTTCTTCCTTTGCATCGAATCATTGCTAAAGCGTATCTGTCTTATACGCGTATAATCGCATTGTT
196 GTTCTTCCTTTGCATCGAATCATTGCTAAAGCGTATATGTCTTATACGCGTATAATCGCATTGTT
21479767 TAAGAGAAAATTGTGAGGACTTCGAGTCTCATTACGTTCAAAGAGAGTGAGATAATTCACGCTCA
261 TAAGAGAAAATTGTGAGGACTTCGAGTCTCATTACGTTCAAAGAGAGTGAGATAATTCACGCTCA
21479832 AAGGTAATAGAGTTTTCGAGATAGAAACTTGTTGGCTTATTGTGGAATTTTTGTTGTGATTATCG
326 AAGGTAATAGAGTTTTCGAGATAGAAACTTGTTGGCTTATTGTGGAATTTTTGTTGTGATTATCG
21479897 TAGTTAAGCACAGAAACAGTGAGTAACACGGGCTGGACACACGAGCGTGTGGCCAGGCCATGCCA
391 TAGTTAAGCACAGAAACAGTGAGTAACACGGGCTGGACACACGAGCGTGTGGCCAGGCCATGCCA
21479962 CATAAATAAGCTATAGGAGACACACAGGTTACACCACGAGCATGTATCAGACC
456 CATAAATAAGCTATAGGAGACACACAGGTTACACCACGAGCATGTATCAGACC
21480015 G
1 G
21480016 TGTGCTCATA
Statistics
Matches: 489, Mismatches: 20, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
508 489 1.00
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (508 bp):
GATTGTCTACTCTATCAACTCACGCTTTTGCAATCTTTTATTTAATCGTTGCTTTCATTACCGAT
TGTTGAGGTACTGTGATGAATTGGAATCGTTATATCTCGTGAACTATTGTTGTTTTTGTACAAGG
TTCGTTTTGGTTGTTTTGTGTTGAAAGTATGAAATTATGAAATTATGATTTAGAAATTTTATTTT
GTTCTTCCTTTGCATCGAATCATTGCTAAAGCGTATATGTCTTATACGCGTATAATCGCATTGTT
TAAGAGAAAATTGTGAGGACTTCGAGTCTCATTACGTTCAAAGAGAGTGAGATAATTCACGCTCA
AAGGTAATAGAGTTTTCGAGATAGAAACTTGTTGGCTTATTGTGGAATTTTTGTTGTGATTATCG
TAGTTAAGCACAGAAACAGTGAGTAACACGGGCTGGACACACGAGCGTGTGGCCAGGCCATGCCA
CATAAATAAGCTATAGGAGACACACAGGTTACACCACGAGCATGTATCAGACC
Found at i:21480389 original size:39 final size:40
Alignment explanation
Indices: 21480326--21480407 Score: 121
Period size: 39 Copynumber: 2.1 Consensus size: 40
21480316 GTTATCAAAT
* * * *
21480326 TACTTAACTGGCAGTGACACTGT-AAACATTGCAATACAA
1 TACTGAACGGGCAGTGACACTGTAAAACACTACAATACAA
21480365 TACTGAACGGGCAGTGACACTGTAAAACACTACAATACAA
1 TACTGAACGGGCAGTGACACTGTAAAACACTACAATACAA
21480405 TAC
1 TAC
21480408 CGTAATGCAG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
39 21 0.55
40 17 0.45
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (40 bp):
TACTGAACGGGCAGTGACACTGTAAAACACTACAATACAA
Found at i:21480418 original size:39 final size:38
Alignment explanation
Indices: 21480335--21480409 Score: 105
Period size: 40 Copynumber: 1.9 Consensus size: 38
21480325 TTACTTAACT
* * *
21480335 GGCAGTGACACTGTAAACATTGCAATACAATACTGAAC
1 GGCAGTGACACTGTAAACACTACAATACAATACCGAAC
21480373 GGGCAGTGACACTGTAAAACACTACAATACAATACCG
1 -GGCAGTGACACTGT-AAACACTACAATACAATACCG
21480410 TAATGCAGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 14 0.44
40 18 0.56
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.19
Consensus pattern (38 bp):
GGCAGTGACACTGTAAACACTACAATACAATACCGAAC
Found at i:21484679 original size:33 final size:33
Alignment explanation
Indices: 21484641--21484706 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
21484631 AACGCCTACT
*
21484641 AAGAAGGAATCTGTGTGGGTTATCGTGGATCGA
1 AAGAAGGAATCTGTGTGGGTTATCATGGATCGA
*
21484674 AAGAAGGATTCTGTGTGGGTTATCATGGATCGA
1 AAGAAGGAATCTGTGTGGGTTATCATGGATCGA
21484707 TTAACTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.35, T:0.29
Consensus pattern (33 bp):
AAGAAGGAATCTGTGTGGGTTATCATGGATCGA
Found at i:21485392 original size:74 final size:74
Alignment explanation
Indices: 21485262--21485403 Score: 232
Period size: 74 Copynumber: 1.9 Consensus size: 74
21485252 GTACATTATT
*
21485262 GAGGACCGAGTATTTTTGAAAGTGTCTCCGTGGAAAAAGGTTCTCCATTTTCGGCAAAAAGGTAA
1 GAGGACCGAGTATTTTTGAAAGTGTCTCCGTGGAAAAAGGTTCTCCAGTTTCGGCAAAAAGGTAA
21485327 ACTAAGTTC
66 ACTAAGTTC
* * *
21485336 GAGGACC-AGGTATTTTTGAAAGTGTCTCCGTGGAAAAAGGTTCTTCGGTTTGGGCAAAAAGGTA
1 GAGGACCGA-GTATTTTTGAAAGTGTCTCCGTGGAAAAAGGTTCTCCAGTTTCGGCAAAAAGGTA
21485400 AACT
65 AACT
21485404 GAGTCCAAGG
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
73 1 0.02
74 62 0.98
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (74 bp):
GAGGACCGAGTATTTTTGAAAGTGTCTCCGTGGAAAAAGGTTCTCCAGTTTCGGCAAAAAGGTAA
ACTAAGTTC
Found at i:21485943 original size:14 final size:13
Alignment explanation
Indices: 21485911--21485950 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
21485901 GTGGACAGAA
*
21485911 TATTTCATTTT-T
1 TATTTTATTTTAT
21485923 TATTTTATTTTAT
1 TATTTTATTTTAT
21485936 TCATTTTATTTTAT
1 T-ATTTTATTTTAT
21485950 T
1 T
21485951 TCTTCTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 10 0.40
13 2 0.08
14 13 0.52
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (13 bp):
TATTTTATTTTAT
Found at i:21486831 original size:72 final size:72
Alignment explanation
Indices: 21486742--21487004 Score: 221
Period size: 72 Copynumber: 3.6 Consensus size: 72
21486732 TTAAAAGTAC
* * *
21486742 AGAAACAGTGAGTTACATGATCTAGACACACGAGTGTGTGCCAGACCATGTGGATATACTGGTCG
1 AGAAACAGTGAGTTACACGAGCTAGACACACGAGCGTGTGCCAGACCATGTGGATATACTGGTCG
21486807 TGGAATT
66 TGGAATT
* * * * ***
21486814 AGAAATAGTGAGTTACATGAGCTGGACACAC-AGGCGTGTGCCA-AACAGTGTGCCCATACCAT-
1 AGAAACAGTGAGTTACACGAGCTAGACACACGA-GCGTGTGCCAGACCA-TGTGGATATA-C-TG
* * * **
21486876 TTTGTGCAAAC
62 GTCGTGGAATT
* * * * *
21486887 AAAAATAGTGAGTTACACG-GCCT-GTACACGCGGGCGTGTGCCAGACCGTGTGGATATACTGGT
1 AGAAACAGTGAGTTACACGAG-CTAG-ACACACGAGCGTGTGCCAGACCATGTGGATATACTGGT
*
21486950 CATGGAATT
64 CGTGGAATT
* * *
21486959 AGAAACAATGAGTTACGCGAGCTAGACACACAAGCGTGTGCCAGAC
1 AGAAACAGTGAGTTACACGAGCTAGACACACGAGCGTGTGCCAGAC
21487005 AGTGTGCCCA
Statistics
Matches: 145, Mismatches: 35, Indels: 22
0.72 0.17 0.11
Matches are distributed among these distances:
71 5 0.03
72 87 0.60
73 50 0.34
74 3 0.02
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (72 bp):
AGAAACAGTGAGTTACACGAGCTAGACACACGAGCGTGTGCCAGACCATGTGGATATACTGGTCG
TGGAATT
Found at i:21486923 original size:73 final size:73
Alignment explanation
Indices: 21486820--21487083 Score: 241
Period size: 73 Copynumber: 3.6 Consensus size: 73
21486810 AATTAGAAAT
* * *
21486820 AGTGAGTTACATGAGCTGGACACACAGGCGTGTGCCAAACAGTGTGCCCATACCATTTTGTGCAA
1 AGTGAGTTACACGAGCTGTACACACAGGCGTGTGCCAGACAGTGTGCCCATACCATTTTGTGCAA
*
21486885 ACAAAAAT
66 ACAAAAAC
* * * *** * ** *
21486893 AGTGAGTTACACG-GCCTGTACACGCGGGCGTGTGCCAGACCGTGTGGATATA-C-TGGTCATGG
1 AGTGAGTTACACGAG-CTGTACACACAGGCGTGTGCCAGACAGTGTGCCCATACCAT-TTTGTGC
** *
21486955 AATTAGAAAC
64 AAACAAAAAC
* * *
21486965 AATGAGTTACGCGAGCTAG-ACACACAAGCGTGTGCCAGACAGTGTGCCCATACCATTTTGTGCA
1 AGTGAGTTACACGAGCT-GTACACACAGGCGTGTGCCAGACAGTGTGCCCATACCATTTTGTGCA
21487029 AACAAAAAC
65 AACAAAAAC
*** *
21487038 AGTGAGTTACACG-GCTTGTACACGTGGGCGTGTGCCAGACCGTGTG
1 AGTGAGTTACACGAGC-TGTACACACAGGCGTGTGCCAGACAGTGTG
21487084 ACACACACGG
Statistics
Matches: 143, Mismatches: 40, Indels: 16
0.72 0.20 0.08
Matches are distributed among these distances:
71 1 0.01
72 53 0.37
73 88 0.62
74 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (73 bp):
AGTGAGTTACACGAGCTGTACACACAGGCGTGTGCCAGACAGTGTGCCCATACCATTTTGTGCAA
ACAAAAAC
Found at i:21486971 original size:145 final size:145
Alignment explanation
Indices: 21486777--21487083 Score: 506
Period size: 145 Copynumber: 2.1 Consensus size: 145
21486767 ACACACGAGT
* * * * * *
21486777 GTGTGCCAGACCATGTGGATATACTGGTCGTGGAATTAGAAATAGTGAGTTACATGAGCTGGACA
1 GTGTGCCAGACCGTGTGGATATACTGGTCATGGAATTAGAAACAATGAGTTACACGAGCTAGACA
* *
21486842 CACAGGCGTGTGCCAAACAGTGTGCCCATACCATTTTGTGCAAACAAAAATAGTGAGTTACACGG
66 CACAAGCGTGTGCCAAACAGTGTGCCCATACCATTTTGTGCAAACAAAAACAGTGAGTTACACGG
21486907 CCTGTACACGCGGGC
131 CCTGTACACGCGGGC
*
21486922 GTGTGCCAGACCGTGTGGATATACTGGTCATGGAATTAGAAACAATGAGTTACGCGAGCTAGACA
1 GTGTGCCAGACCGTGTGGATATACTGGTCATGGAATTAGAAACAATGAGTTACACGAGCTAGACA
*
21486987 CACAAGCGTGTGCCAGACAGTGTGCCCATACCATTTTGTGCAAACAAAAACAGTGAGTTACACGG
66 CACAAGCGTGTGCCAAACAGTGTGCCCATACCATTTTGTGCAAACAAAAACAGTGAGTTACACGG
* *
21487052 CTTGTACACGTGGGC
131 CCTGTACACGCGGGC
21487067 GTGTGCCAGACCGTGTG
1 GTGTGCCAGACCGTGTG
21487084 ACACACACGG
Statistics
Matches: 150, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
145 150 1.00
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (145 bp):
GTGTGCCAGACCGTGTGGATATACTGGTCATGGAATTAGAAACAATGAGTTACACGAGCTAGACA
CACAAGCGTGTGCCAAACAGTGTGCCCATACCATTTTGTGCAAACAAAAACAGTGAGTTACACGG
CCTGTACACGCGGGC
Found at i:21487247 original size:39 final size:39
Alignment explanation
Indices: 21487204--21487456 Score: 339
Period size: 39 Copynumber: 6.5 Consensus size: 39
21487194 AAAAACACCG
*
21487204 CAATACAATACTGATCTGGCAATGACACTGTAAACACTA
1 CAATACAATACTGAACTGGCAATGACACTGTAAACACTA
* * * *
21487243 CAATACAATATTGAACGGGCAGTGACACTGTAAAACACTG
1 CAATACAATACTGAACTGGCAATGACACTGT-AAACACTA
* *
21487283 CAATACAATACTGAACTGGCAGTGACACTGTAAACACTG
1 CAATACAATACTGAACTGGCAATGACACTGTAAACACTA
* *
21487322 CAATACAATACTGCACTAG-AAGTGACACTGTAAACACTA
1 CAATACAATACTGAACTGGCAA-TGACACTGTAAACACTA
*
21487361 CAATACAATACTGAACTGGCAGTGACACTGTAAACACTA
1 CAATACAATACTGAACTGGCAATGACACTGTAAACACTA
* * * *
21487400 CAATACAATACTGAACCGACAGA-GACATTGTAAACACTG
1 CAATACAATACTGAACTGGCA-ATGACACTGTAAACACTA
21487439 CAATACAATACTGAACTG
1 CAATACAATACTGAACTG
21487457 ACGGTAACAC
Statistics
Matches: 190, Mismatches: 20, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
38 1 0.01
39 152 0.80
40 37 0.19
ACGTcount: A:0.42, C:0.23, G:0.15, T:0.21
Consensus pattern (39 bp):
CAATACAATACTGAACTGGCAATGACACTGTAAACACTA
Found at i:21487467 original size:78 final size:78
Alignment explanation
Indices: 21487185--21487456 Score: 393
Period size: 78 Copynumber: 3.5 Consensus size: 78
21487175 CTTAATTGGA
** * * *
21487185 AGTGACACTAAAAACACCGCAATACAATACTGATCTGGCAATGACACTGTAAACACTACAATACA
1 AGTGACACTGTAAACACTGCAATACAATACTGAACTGGCAGTGACACTGTAAACACTACAATACA
* * *
21487250 ATATTGAACGGGC
66 ATACTGAACAGAC
*
21487263 AGTGACACTGTAAAACACTGCAATACAATACTGAACTGGCAGTGACACTGTAAACACTGCAATAC
1 AGTGACACTGT-AAACACTGCAATACAATACTGAACTGGCAGTGACACTGTAAACACTACAATAC
*
21487328 AATACTGCACTAGA-
65 AATACTGAAC-AGAC
*
21487342 AGTGACACTGTAAACACTACAATACAATACTGAACTGGCAGTGACACTGTAAACACTACAATACA
1 AGTGACACTGTAAACACTGCAATACAATACTGAACTGGCAGTGACACTGTAAACACTACAATACA
*
21487407 ATACTGAACCGAC
66 ATACTGAACAGAC
* *
21487420 AGAGACATTGTAAACACTGCAATACAATACTGAACTG
1 AGTGACACTGTAAACACTGCAATACAATACTGAACTG
21487457 ACGGTAACAC
Statistics
Matches: 174, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
77 2 0.01
78 103 0.59
79 68 0.39
80 1 0.01
ACGTcount: A:0.42, C:0.23, G:0.15, T:0.20
Consensus pattern (78 bp):
AGTGACACTGTAAACACTGCAATACAATACTGAACTGGCAGTGACACTGTAAACACTACAATACA
ATACTGAACAGAC
Found at i:21487508 original size:117 final size:116
Alignment explanation
Indices: 21487196--21487514 Score: 338
Period size: 117 Copynumber: 2.7 Consensus size: 116
21487186 GTGACACTAA
* * * * * * *
21487196 AAACACCGCAATACAATACTGATCTGGCAA-TGACACTGTAAACACTACAATACAATATTGAACG
1 AAACACTGCAATACAATACTGAACTAG-AAGTAACACTATAAACACTA-AATACAATACTGAACT
* * * * *
21487260 GGCAGTGACACTGTAAAACACTGCAATACAATACTGAACTGGCAGTGACACTGT
64 GACAGTGACACTGT-AAACACTACAATACAATACTGAACCGACAGAGACACTGT
* * *
21487314 AAACACTGCAATACAATACTGCACTAGAAGTGACACTGTAAACACTACAATACAATACTGAACTG
1 AAACACTGCAATACAATACTGAACTAGAAGTAACACTATAAACACTA-AATACAATACTGAACTG
* *
21487379 GCAGTGACACTGTAAACACTACAATACAATACTGAACCGACAGAGACATTGT
65 ACAGTGACACTGTAAACACTACAATACAATACTGAACCGACAGAGACACTGT
* * * *
21487431 AAACACTGCAATACAATACTGAACT-GACGGTAACACTATAAATATCGT-AATGCAGTACTGAAC
1 AAACACTGCAATACAATACTGAACTAGA-AGTAACACTATAAACA-C-TAAATACAATACTGAAC
** *
21487494 TGATGGTGAGACTGTAAACAC
63 TGACAGTGACACTGTAAACAC
21487515 CGTAATGCTA
Statistics
Matches: 175, Mismatches: 22, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
116 2 0.01
117 102 0.58
118 70 0.40
119 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.21
Consensus pattern (116 bp):
AAACACTGCAATACAATACTGAACTAGAAGTAACACTATAAACACTAAATACAATACTGAACTGA
CAGTGACACTGTAAACACTACAATACAATACTGAACCGACAGAGACACTGT
Found at i:21487510 original size:78 final size:76
Alignment explanation
Indices: 21487183--21487514 Score: 344
Period size: 78 Copynumber: 4.2 Consensus size: 76
21487173 TACTTAATTG
** * * *
21487183 GAAGTGACACTAAAAACACCGCAATACAATACTGATCTGGCAATGACACTGTAAACAC-TACAAT
1 GAAGTGACACTGTAAACACTGCAATACAATACTGAACTGGCAGTGACACTGTAAACACGT--AAT
* *
21487247 ACAATATTGAACGG
64 ACAATACTGAAC-T
* *
21487261 GCAGTGACACTGTAAAACACTGCAATACAATACTGAACTGGCAGTGACACTGTAAACACTGCAAT
1 GAAGTGACACTGT-AAACACTGCAATACAATACTGAACTGGCAGTGACACTGTAAACAC-GTAAT
*
21487326 ACAATACTGCACT
64 ACAATACTGAACT
*
21487339 AGAAGTGACACTGTAAACACTACAATACAATACTGAACTGGCAGTGACACTGTAAACAC-TACAA
1 -GAAGTGACACTGTAAACACTGCAATACAATACTGAACTGGCAGTGACACTGTAAACACGT--AA
*
21487403 TACAATACTGAACC
63 TACAATACTGAACT
* * * * * * *
21487417 GACAGAGACATTGTAAACACTGCAATACAATACTGAACTGACGGTAACACTATAAATATCGTAAT
1 GA-AGTGACACTGTAAACACTGCAATACAATACTGAACTGGCAGTGACACTGTAAACA-CGTAAT
* *
21487482 GCAGTACTGAACT
64 ACAATACTGAACT
* *
21487495 GATGGTGAGACTGTAAACAC
1 GA-AGTGACACTGTAAACAC
21487515 CGTAATGCTA
Statistics
Matches: 214, Mismatches: 31, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
77 2 0.01
78 143 0.67
79 68 0.32
80 1 0.00
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.20
Consensus pattern (76 bp):
GAAGTGACACTGTAAACACTGCAATACAATACTGAACTGGCAGTGACACTGTAAACACGTAATAC
AATACTGAACT
Found at i:21487519 original size:39 final size:39
Alignment explanation
Indices: 21487267--21487522 Score: 147
Period size: 39 Copynumber: 6.5 Consensus size: 39
21487257 ACGGGCAGTG
* * * * * *
21487267 ACACTGTAAAACACTGCAATACAATACTGAACTGGCAGTG
1 ACACTGT-AAACACCGTAATGCAATACTGAACTGACGGTA
* * * * * *
21487307 ACACTGTAAACACTGCAATACAATACTGCACTAGA-AGTG
1 ACACTGTAAACACCGTAATGCAATACTGAACT-GACGGTA
*** * * * *
21487346 ACACTGTAAACACTACAATACAATACTGAACTGGCAGTG
1 ACACTGTAAACACCGTAATGCAATACTGAACTGACGGTA
*** * * *
21487385 ACACTGTAAACACTACAATACAATACTGAACCGACAG-A
1 ACACTGTAAACACCGTAATGCAATACTGAACTGACGGTA
* * * *
21487423 GACATTGTAAACACTGCAATACAATACTGAACTGACGGTA
1 -ACACTGTAAACACCGTAATGCAATACTGAACTGACGGTA
* * * * * *
21487463 ACACTATAAATATCGTAATGCAGTACTGAACTGATGGTG
1 ACACTGTAAACACCGTAATGCAATACTGAACTGACGGTA
*
21487502 AGACTGTAAACACCGTAATGC
1 ACACTGTAAACACCGTAATGC
21487523 TATAATGAGC
Statistics
Matches: 186, Mismatches: 26, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
38 1 0.01
39 176 0.95
40 9 0.05
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.21
Consensus pattern (39 bp):
ACACTGTAAACACCGTAATGCAATACTGAACTGACGGTA
Found at i:21488605 original size:28 final size:28
Alignment explanation
Indices: 21488567--21488657 Score: 87
Period size: 29 Copynumber: 3.2 Consensus size: 28
21488557 TTATTAGGTC
21488567 AAAATATAATTGACGTGATGTGTTCTGGA
1 AAAATA-AATTGACGTGATGTGTTCTGGA
* * * *
21488596 AAAATAAATTTGA-GAAGGTGGGTT-TTGA
1 AAAATAAA-TTGACG-TGATGTGTTCTGGA
*
21488624 AAAATAAAATTGACGTGATGTGTTCTGAA
1 AAAAT-AAATTGACGTGATGTGTTCTGGA
21488653 AAAAT
1 AAAAT
21488658 TGTTTTTATA
Statistics
Matches: 48, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
28 21 0.44
29 27 0.56
ACGTcount: A:0.41, C:0.04, G:0.23, T:0.32
Consensus pattern (28 bp):
AAAATAAATTGACGTGATGTGTTCTGGA
Found at i:21488657 original size:29 final size:28
Alignment explanation
Indices: 21488567--21488655 Score: 99
Period size: 28 Copynumber: 3.1 Consensus size: 28
21488557 TTATTAGGTC
*
21488567 AAAATATAATTGACGTGATGTGTTCTGGA
1 AAAATAAAATTGACGTGATGTGTTCT-GA
* * * * *
21488596 AAAATAAATTTGA-GAAGGTGGGTTTTGA
1 AAAATAAAATTGACG-TGATGTGTTCTGA
21488624 AAAATAAAATTGACGTGATGTGTTCTGA
1 AAAATAAAATTGACGTGATGTGTTCTGA
21488652 AAAA
1 AAAA
21488656 ATTGTTTTTA
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
28 28 0.60
29 19 0.40
ACGTcount: A:0.40, C:0.04, G:0.24, T:0.31
Consensus pattern (28 bp):
AAAATAAAATTGACGTGATGTGTTCTGA
Found at i:21489221 original size:22 final size:21
Alignment explanation
Indices: 21489194--21489268 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
21489184 CTATAACCTT
21489194 TAATTTAAAATATCCTAAACCC
1 TAATTTAAAATA-CCTAAACCC
* *
21489216 TTATTTAAAATACCAAAACCC
1 TAATTTAAAATACCTAAACCC
* *
21489237 TAATTTAAAAAACCCTAAA-AC
1 TAATTTAAAATA-CCTAAACCC
21489258 TAA-TTAAAATA
1 TAATTTAAAATA
21489269 AAAACCCTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
20 7 0.16
21 22 0.49
22 16 0.36
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (21 bp):
TAATTTAAAATACCTAAACCC
Found at i:21493497 original size:237 final size:237
Alignment explanation
Indices: 21493080--21493795 Score: 915
Period size: 237 Copynumber: 3.0 Consensus size: 237
21493070 CAGGAACAAC
* *
21493080 CTTACTTCCGTTGTTTTTTTACTCA-ATGGGTTGGATCTGGGTCAAAAC-GAACAC-AGGATTTG
1 CTTACTTCCGTTGTTTTTTGACT-AGATGGGTTGGATCTGGGTCGAAACAG-ACACGA-GATTTG
* * * *
21493142 GGCTCAAATTATCGATGAGACCTAGATTT-CATCAACGTTTTCCTTTTCGAA-CTTGAAATACTT
63 GACTCAAATTATCGATGGGACCTAGATTTACATCAACGTTTTCCTTTTCGAACCTT-ACATGCTT
* * * * *
21493205 CTCTTCACTGCGTAT-ATGGATCTTGACTTAATCATTAACGAGATTCTTGGCCAGAGCTTTAGGG
127 CTCTTCACTGCGTATGA-CGATCTTGACTTGACCAATGACGAGATTCTTGGCCAGAGCTTTAGGG
** * *
21493269 CGATCGATAATGGGTTGAGAAGGAGGGGAGGTGTTGAGAGAACGCTT
191 CGATCGATGGTGGGTCGAGAAGGAGGGGAGGTGTTGGGAGAACGCTT
* * * *
21493316 CTTACTTCCGTTGTATTCTGACTAGGTGGGTTGGATCTGGGTCGAAACAGACACGAGATTTAGAC
1 CTTACTTCCGTTGTTTTTTGACTAGATGGGTTGGATCTGGGTCGAAACAGACACGAGATTTGGAC
* *
21493381 TCAAATTATCGGTGGGACCTAGATTTACATCAACGTTTTCCTTTTCAAACCTTACATGCTTCTCT
66 TCAAATTATCGATGGGACCTAGATTTACATCAACGTTTTCCTTTTCGAACCTTACATGCTTCTCT
* * * * *
21493446 TCGCTGCGTATGACGATCTTAACTTGACCAAGGACGAGATTATTGGCCAGAGATTTAGGGCGATC
131 TCACTGCGTATGACGATCTTGACTTGACCAATGACGAGATTCTTGGCCAGAGCTTTAGGGCGATC
*
21493511 GATGGTGGGTCGAGAAGGAGGGGAGGTGTTGGGAGAACACTT
196 GATGGTGGGTCGAGAAGGAGGGGAGGTGTTGGGAGAACGCTT
* * * * ** * *
21493553 CTTACTTCCGTCGTTTTTTGACTCGATAGGTTGGATTTGGGTCGTTATAGACATGAGATTTGGAC
1 CTTACTTCCGTTGTTTTTTGACTAGATGGGTTGGATCTGGGTCGAAACAGACACGAGATTTGGAC
* * * *
21493618 TCAAACTGTCAATGGGACCTAGATTTACATCAACGTTTTCCTTTTCGAACCTCACATGCTTCTCT
66 TCAAATTATCGATGGGACCTAGATTTACATCAACGTTTTCCTTTTCGAACCTTACATGCTTCTCT
* * *
21493683 TTACTGCGTATGATGATCTTGACTTGACCAATGACGAGATTCTTGGCC-GAAGCTTTAAGGCGAT
131 TCACTGCGTATGACGATCTTGACTTGACCAATGACGAGATTCTTGGCCAG-AGCTTTAGGGCGAT
* * **
21493747 CGACGGTGGGACGAGAAGGAGGGGAGGTGTTGGGAGATTGCTT
195 CGATGGTGGGTCGAGAAGGAGGGGAGGTGTTGGGAGAACGCTT
21493790 CTTACT
1 CTTACT
21493796 ATTCCCTTGT
Statistics
Matches: 415, Mismatches: 58, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
235 1 0.00
236 77 0.19
237 333 0.80
238 4 0.01
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (237 bp):
CTTACTTCCGTTGTTTTTTGACTAGATGGGTTGGATCTGGGTCGAAACAGACACGAGATTTGGAC
TCAAATTATCGATGGGACCTAGATTTACATCAACGTTTTCCTTTTCGAACCTTACATGCTTCTCT
TCACTGCGTATGACGATCTTGACTTGACCAATGACGAGATTCTTGGCCAGAGCTTTAGGGCGATC
GATGGTGGGTCGAGAAGGAGGGGAGGTGTTGGGAGAACGCTT
Found at i:21499828 original size:11 final size:11
Alignment explanation
Indices: 21499812--21499853 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
21499802 GGGAATTTTT
21499812 GGTTTCATTTC
1 GGTTTCATTTC
*
21499823 GGTTTCTTTTC
1 GGTTTCATTTC
*
21499834 -ATTTCATTTC
1 GGTTTCATTTC
*
21499844 GTTTTCATTT
1 GGTTTCATTT
21499854 TTCATTTCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.10, C:0.17, G:0.12, T:0.62
Consensus pattern (11 bp):
GGTTTCATTTC
Found at i:21499835 original size:16 final size:16
Alignment explanation
Indices: 21499814--21499853 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
21499804 GAATTTTTGG
*
21499814 TTTCATTTCGGTTTC-T
1 TTTCATTTC-ATTTCGT
21499830 TTTCATTTCATTTCGT
1 TTTCATTTCATTTCGT
21499846 TTTCATTT
1 TTTCATTT
21499854 TTCATTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.18
16 18 0.82
ACGTcount: A:0.10, C:0.17, G:0.07, T:0.65
Consensus pattern (16 bp):
TTTCATTTCATTTCGT
Found at i:21500086 original size:11 final size:11
Alignment explanation
Indices: 21500072--21500259 Score: 53
Period size: 11 Copynumber: 17.1 Consensus size: 11
21500062 TAATAATATT
21500072 TATTAATTTAA
1 TATTAATTTAA
21500083 TATTAA---AA
1 TATTAATTTAA
21500091 TAATT-ATATTAA
1 T-ATTAAT-TTAA
21500103 TATTGAATTTAA
1 TATT-AATTTAA
*
21500115 T-TTAATTCAA
1 TATTAATTTAA
* *
21500125 TATTTATCTTGTA
1 TATTAAT-TT-AA
* * *
21500138 GATAAATATT-C
1 TATTAAT-TTAA
21500149 TATTAATTTAA
1 TATTAATTTAA
21500160 TA--AGATTTAA
1 TATTA-ATTTAA
21500170 TATTAAATTTAA
1 TATT-AATTTAA
*
21500182 T-CTAATATTAA
1 TATTAAT-TTAA
* * *
21500193 TCTTGATATATCA
1 TATT-A-ATTTAA
21500206 TATTAATTTAA
1 TATTAATTTAA
*
21500217 TATTAA---AG
1 TATTAATTTAA
21500225 TGATT-ATCTTAA
1 T-ATTAAT-TTAA
21500237 TATTAAATTTAA
1 TATT-AATTTAA
21500249 T-TTAATTTAA
1 TATTAATTTAA
21500259 T
1 T
21500260 TTTTATCCTG
Statistics
Matches: 130, Mismatches: 21, Indels: 53
0.64 0.10 0.26
Matches are distributed among these distances:
8 7 0.05
9 7 0.05
10 28 0.22
11 43 0.33
12 25 0.19
13 18 0.14
14 2 0.02
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (11 bp):
TATTAATTTAA
Found at i:21500196 original size:62 final size:62
Alignment explanation
Indices: 21500113--21500478 Score: 413
Period size: 62 Copynumber: 5.8 Consensus size: 62
21500103 TATTGAATTT
21500113 AATTTAAT-TCAATATTTATCTTGTAGATAAATATTCTATTAATTTAATAAGATTTAATATTA
1 AATTTAATCT-AATATTTATCTTGTAGATAAATATTCTATTAATTTAATAAGATTTAATATTA
* * * * **
21500175 AATTTAATCTAATATTAATCTTG-ATATATCATATT-AATTTAATATTAAAGTGATTATCTTAAT
1 AATTTAATCTAATATTTATCTTGTAGATA-AATATTCTA-TTAAT-TT-AA-T-AAGAT-TTAAT
21500238 ATTA
59 ATTA
* * * *
21500242 AATTTAATTTAATTTAATTTTTATCCTGTAGTTAAATATTCTATTAATTTAATAAAATTTAATAT
1 AATTTAATCTAA--T-A--TTTATCTTGTAGATAAATATTCTATTAATTTAATAAGATTTAATAT
21500307 TA
61 TA
* *
21500309 AATTTAATCTAATATTTATCTTATAGATAAATATTCTATTAATTTAATAAGAATTAATATTA
1 AATTTAATCTAATATTTATCTTGTAGATAAATATTCTATTAATTTAATAAGATTTAATATTA
* *
21500371 AATTTAATTTAATATTTATCTTGTAGATAAATAATCTATTAATTTAATAAGATTTAATATTA
1 AATTTAATCTAATATTTATCTTGTAGATAAATATTCTATTAATTTAATAAGATTTAATATTA
* *
21500433 AACTTATTCTAATATTTATC-T-T-GATAAATA-TCATATTAATTTAATA
1 AATTTAATCTAATATTTATCTTGTAGATAAATATTC-TATTAATTTAATA
21500479 TTAAAGTGAT
Statistics
Matches: 260, Mismatches: 28, Indels: 35
0.80 0.09 0.11
Matches are distributed among these distances:
58 2 0.01
59 21 0.08
60 1 0.00
61 6 0.02
62 148 0.57
63 3 0.01
64 3 0.01
65 2 0.01
66 3 0.01
67 40 0.15
68 3 0.01
69 2 0.01
70 3 0.01
71 2 0.01
72 17 0.07
73 4 0.02
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (62 bp):
AATTTAATCTAATATTTATCTTGTAGATAAATATTCTATTAATTTAATAAGATTTAATATTA
Found at i:21500219 original size:134 final size:133
Alignment explanation
Indices: 21500072--21500483 Score: 549
Period size: 134 Copynumber: 3.1 Consensus size: 133
21500062 TAATAATATT
*
21500072 TATTAATTTAATATTAAAATAATTATATTAATATTGAATTTAATTTAATTCAATATTTATCTTGT
1 TATTAATTTAATATTAAAATAATTATATTAATATT-AATTTAATTTAATTTAATATTTATCTTGT
*
21500137 AGATAAATATTCTATTAATTTAATAAGATTTAATATTAAATTTAATCTAATATTAATCTTGATAT
65 AGATAAATATTCTATTAATTTAATAAGATTTAATATTAAATTTAATCTAATATTTATCTTGATAT
21500202 ATCA
130 ATCA
* * * * *
21500206 TATTAATTTAATATTAAAGTGATTATCTTAATATTAAATTTAATTTAATTTAATTTTTATCCTGT
1 TATTAATTTAATATTAAAATAATTATATTAATATT-AATTTAATTTAATTTAATATTTATCTTGT
* * *
21500271 AGTTAAATATTCTATTAATTTAATAAAATTTAATATTAAATTTAATCTAATATTTATCTT-ATAG
65 AGATAAATATTCTATTAATTTAATAAGATTTAATATTAAATTTAATCTAATATTTATCTTGATAT
*
21500335 ATAAA
130 AT-CA
* *
21500340 TATT-CTATTAAT-TT--AATAA-GA-ATTAATATT-A---AATTTAATTTAATATTTATCTTGT
1 TATTAAT-TTAATATTAAAATAATTATATTAATATTAATTTAATTTAATTTAATATTTATCTTGT
* * *
21500395 AGATAAATAATCTATTAATTTAATAAGATTTAATATTAAACTTATTCTAATATTTATCTTGATAA
65 AGATAAATATTCTATTAATTTAATAAGATTTAATATTAAATTTAATCTAATATTTATCTTGAT--
21500460 ATATCA
128 ATATCA
21500466 TATTAATTTAATATTAAA
1 TATTAATTTAATATTAAA
21500484 GTGATTAAAT
Statistics
Matches: 242, Mismatches: 27, Indels: 23
0.83 0.09 0.08
Matches are distributed among these distances:
124 77 0.32
125 2 0.01
126 10 0.04
127 7 0.03
129 9 0.04
130 1 0.00
131 3 0.01
133 8 0.03
134 125 0.52
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.49
Consensus pattern (133 bp):
TATTAATTTAATATTAAAATAATTATATTAATATTAATTTAATTTAATTTAATATTTATCTTGTA
GATAAATATTCTATTAATTTAATAAGATTTAATATTAAATTTAATCTAATATTTATCTTGATATA
TCA
Found at i:21500315 original size:27 final size:27
Alignment explanation
Indices: 21500285--21500384 Score: 67
Period size: 27 Copynumber: 3.4 Consensus size: 27
21500275 AAATATTCTA
21500285 TTAATTTAATAAAATTTAATATTAAAT
1 TTAATTTAATAAAATTTAATATTAAAT
* ** * *
21500312 TTAATCTAATATTTATCTTATAGATAAATATTCT
1 TTAATTTAATA-AAAT-TTA-ATATTAA-A---T
21500346 ATTAATTTAATAAGAA-TTAATATTAAAT
1 -TTAATTTAATAA-AATTTAATATTAAAT
21500374 TTAATTTAATA
1 TTAATTTAATA
21500385 TTTATCTTGT
Statistics
Matches: 54, Mismatches: 10, Indels: 18
0.66 0.12 0.22
Matches are distributed among these distances:
27 21 0.39
28 3 0.06
29 3 0.06
30 5 0.09
31 2 0.04
32 5 0.09
33 3 0.06
34 1 0.02
35 11 0.20
ACGTcount: A:0.47, C:0.03, G:0.02, T:0.48
Consensus pattern (27 bp):
TTAATTTAATAAAATTTAATATTAAAT
Found at i:21500357 original size:35 final size:34
Alignment explanation
Indices: 21500312--21500419 Score: 86
Period size: 35 Copynumber: 3.3 Consensus size: 34
21500302 AATATTAAAT
*
21500312 TTAATCTAATATTTATCTTATAGATAAATATTCTA
1 TTAATTTAATATTTATCTTATAGATAAATA-TCTA
** * * *
21500347 TTAATTTAATA-AGA-ATTA-ATATTAA-A--T-
1 TTAATTTAATATTTATCTTATAGATAAATATCTA
*
21500374 TTAATTTAATATTTATCTTGTAGATAAATAATCTA
1 TTAATTTAATATTTATCTTATAGATAAAT-ATCTA
21500409 TTAATTTAATA
1 TTAATTTAATA
21500420 AGATTTAATA
Statistics
Matches: 53, Mismatches: 12, Indels: 16
0.65 0.15 0.20
Matches are distributed among these distances:
27 11 0.21
28 2 0.04
29 2 0.04
30 5 0.09
31 1 0.02
32 6 0.11
33 3 0.06
34 2 0.04
35 21 0.40
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.48
Consensus pattern (34 bp):
TTAATTTAATATTTATCTTATAGATAAATATCTA
Found at i:21501435 original size:68 final size:65
Alignment explanation
Indices: 21501358--21501553 Score: 170
Period size: 62 Copynumber: 2.9 Consensus size: 65
21501348 GAAAATAAAC
*
21501358 ATTAAATTTAATAATTATCTTAATAGTATTTTATTAATTTAATATTAAACTGATTATTTTAATAT
1 ATTAAATTTAATAATTATCTTAATAGTATTATATTAA-TTAATATTAAA-TGATTA-TTTAATAT
21501423 TAA
63 TAA
* * **
21501426 ATTAAATTTAAT-ATGTAT-TTTATAG-ATAAATATTCAATTAAT-TT-AAT-AAGATTTAATAT
1 ATTAAATTTAATAAT-TATCTTAATAGTAT-TATATT-AATTAATATTAAATGATTATTTAATAT
21501485 TAA
63 TAA
* * * *
21501488 ATTTAATCTAATATTTATCTTGATAAGTATTATATTAAATTAATATTAAAGTGATTAAGTTTAAT
1 ATTAAATTTAATAATTATCTTAAT-AGTATTATATT-AATTAATATTAAA-TGATT-A-TTTAAT
21501553 A
61 A
21501554 ATAGTTGAAC
Statistics
Matches: 102, Mismatches: 13, Indels: 24
0.73 0.09 0.17
Matches are distributed among these distances:
62 24 0.24
63 7 0.07
64 15 0.15
65 6 0.06
66 6 0.06
67 18 0.18
68 18 0.18
69 1 0.01
70 7 0.07
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (65 bp):
ATTAAATTTAATAATTATCTTAATAGTATTATATTAATTAATATTAAATGATTATTTAATATTAA
Found at i:21502768 original size:30 final size:31
Alignment explanation
Indices: 21502710--21502771 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
21502700 TAATTTAAAG
* *
21502710 TCTAAAATTTCAAAACTAACATATCTAAATT
1 TCTAAAAATTCAAAACTAACACATCTAAATT
*
21502741 TCTAAAAATTCAAAAC-AATACATCTAAATT
1 TCTAAAAATTCAAAACTAACACATCTAAATT
21502771 T
1 T
21502772 TGCATTTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 13 0.46
31 15 0.54
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (31 bp):
TCTAAAAATTCAAAACTAACACATCTAAATT
Found at i:21502962 original size:29 final size:28
Alignment explanation
Indices: 21502882--21502965 Score: 80
Period size: 28 Copynumber: 2.9 Consensus size: 28
21502872 ATATCTAAAT
21502882 AATTGACGTGATGTGTTCTAAAAAAATAA
1 AATTGACGTGATGTGTTCT-AAAAAATAA
** * * * *
21502911 TTTTGA-GAAGGTGGGATCTAAAAAATAA
1 AATTGACG-TGATGTGTTCTAAAAAATAA
21502939 AATTGACGTGATGTGTTCTGAAAAAAT
1 AATTGACGTGATGTGTTCT-AAAAAAT
21502966 TATTTTGACG
Statistics
Matches: 40, Mismatches: 12, Indels: 6
0.69 0.21 0.10
Matches are distributed among these distances:
28 21 0.52
29 19 0.47
ACGTcount: A:0.42, C:0.06, G:0.21, T:0.31
Consensus pattern (28 bp):
AATTGACGTGATGTGTTCTAAAAAATAA
Found at i:21502973 original size:29 final size:28
Alignment explanation
Indices: 21502884--21502975 Score: 87
Period size: 29 Copynumber: 3.2 Consensus size: 28
21502874 ATCTAAATAA
21502884 TTGACGTGATGTGTTCTAAAAAAATAATT
1 TTGACGTGATGTGTTCT-AAAAAATAATT
* * * * **
21502913 TTGA-GAAGGTGGGATCTAAAAAATAAAA
1 TTGACG-TGATGTGTTCTAAAAAATAATT
*
21502941 TTGACGTGATGTGTTCTGAAAAAATTATT
1 TTGACGTGATGTGTTCT-AAAAAATAATT
21502970 TTGACG
1 TTGACG
21502976 AGGTGAATTT
Statistics
Matches: 47, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
28 21 0.45
29 26 0.55
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.34
Consensus pattern (28 bp):
TTGACGTGATGTGTTCTAAAAAATAATT
Found at i:21503406 original size:2 final size:2
Alignment explanation
Indices: 21503399--21503425 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
21503389 AACATTTCTC
21503399 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
21503426 AATCTCAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21504176 original size:21 final size:22
Alignment explanation
Indices: 21504150--21504206 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
21504140 TATTTGGGTC
** *
21504150 AAAGGGTTTGGGTTTAA-TTTA
1 AAAGGGTTTGGGTCAAAGGTTA
*
21504171 AAAGGGTTTAGGTCAAAGGTTA
1 AAAGGGTTTGGGTCAAAGGTTA
21504193 ATAAGGGTTTGGGT
1 A-AAGGGTTTGGGT
21504207 AATTTAGATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 14 0.48
22 4 0.14
23 11 0.38
ACGTcount: A:0.30, C:0.02, G:0.33, T:0.35
Consensus pattern (22 bp):
AAAGGGTTTGGGTCAAAGGTTA
Found at i:21505435 original size:33 final size:33
Alignment explanation
Indices: 21505393--21505461 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
21505383 CCCACACTAA
21505393 ACTCAATGTCTCGATGCTGCAAATCGACATAAG
1 ACTCAATGTCTCGATGCTGCAAATCGACATAAG
** *
21505426 ACTCAATGTCTCGATGCTTTAAATCGGCATAAG
1 ACTCAATGTCTCGATGCTGCAAATCGACATAAG
21505459 ACT
1 ACT
21505462 TCTGCCTATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (33 bp):
ACTCAATGTCTCGATGCTGCAAATCGACATAAG
Found at i:21511260 original size:21 final size:21
Alignment explanation
Indices: 21511214--21511281 Score: 95
Period size: 21 Copynumber: 3.2 Consensus size: 21
21511204 TTTCGAAAAA
*
21511214 AGTCAACGGTCAAAG-TCAAC
1 AGTCAACGGTCAATGATCAAC
21511234 -GATCAACGGTCAATGATCAAC
1 AG-TCAACGGTCAATGATCAAC
21511255 AGTCAACGGTCAATGATCAAC
1 AGTCAACGGTCAATGATCAAC
21511276 GAGTCA
1 -AGTCA
21511282 GGTTCGGGCT
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
19 1 0.02
20 12 0.28
21 24 0.56
22 6 0.14
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.18
Consensus pattern (21 bp):
AGTCAACGGTCAATGATCAAC
Found at i:21511276 original size:14 final size:14
Alignment explanation
Indices: 21511214--21511267 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
21511204 TTTCGAAAAA
*
21511214 AGTCAACGGTCAA-
1 AGTCAACGATCAAC
21511227 AGTCAACGATCAAC
1 AGTCAACGATCAAC
* *
21511241 GGTCAATGATCAAC
1 AGTCAACGATCAAC
*
21511255 AGTCAACGGTCAA
1 AGTCAACGATCAA
21511268 TGATCAACGA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
13 12 0.35
14 22 0.65
ACGTcount: A:0.39, C:0.24, G:0.20, T:0.17
Consensus pattern (14 bp):
AGTCAACGATCAAC
Found at i:21512391 original size:20 final size:19
Alignment explanation
Indices: 21512352--21512405 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 19
21512342 ACTTCGATTT
*
21512352 TATTATTGACAAATTAATTAAA
1 TATTATT-A-AAAATAATT-AA
21512374 TATTATTAAAAATAATTAA
1 TATTATTAAAAATAATTAA
21512393 -ATTA-TAAAAATAA
1 TATTATTAAAAATAA
21512406 AAATAAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
17 9 0.29
18 4 0.13
19 2 0.06
20 8 0.26
21 1 0.03
22 7 0.23
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (19 bp):
TATTATTAAAAATAATTAA
Found at i:21512659 original size:21 final size:22
Alignment explanation
Indices: 21512601--21512648 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
21512591 AATTTTCTAT
21512601 AACCCTTAATTTAAAATACCATA
1 AACCCTT-ATTTAAAATACCATA
21512624 AACCCTTATTTAAAATACCA-A
1 AACCCTTATTTAAAATACCATA
21512645 AACC
1 AACC
21512649 TTGATTCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 5 0.20
22 13 0.52
23 7 0.28
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (22 bp):
AACCCTTATTTAAAATACCATA
Found at i:21514298 original size:237 final size:235
Alignment explanation
Indices: 21513710--21514399 Score: 888
Period size: 231 Copynumber: 2.9 Consensus size: 235
21513700 TTGTTTTCTA
* * * * * *
21513710 ACTCGATGGGTTGGATCTGGGTCGAAACAAACACGGGATTTGAACTCAAATTGTTGGTGGGACCT
1 ACTCGATGGGTTGGATCTGGGTCG-AA-AGACAAGAGATTTGGACTCAAACTGTCGGTGGGACCT
* * * * * *
21513775 AGATTTACATCAACGTTTTCCTTTTCGAACCTGAAATACTTCTCTTCGTCACATACG-CAGATCT
64 AGATTTACATCAACGTTTTCCTTTTCGAACCTCACATGCTTCTCTTCGTCGCGTATGAC-GATCT
* * * * *
21513839 TGACTTGATCATTGACGAGATTCTTGGCCGGAGCTTTAGGGTGATCGAAAGTGGGCCGAGAAGAA
128 TGACTTGACCAATGACGAGATTCTTGGCCGGAGCTTTAGGGTGATCGAAGGTGGGACGAGAAGGA
*
21513904 GGGGAGGTGTTAGGAGAACGCTTCTTACTTCCATTACTTTCTG
193 GGGGAGGTGTTAGGAGAACGCTTCTTACTTCCATTACTTTCAG
* * * *
21513947 ACTCGATGGGTTCGATCTAGGT---AAGA-ATGAAATTTGGACTCAAACTGTCGGTGGGACCTAG
1 ACTCGATGGGTTGGATCTGGGTCGAAAGACAAGAGATTTGGACTCAAACTGTCGGTGGGACCTAG
* * *
21514008 ATTTACATCAACGTTTTTCTTTTCAAACCTCACATGCTCCTCTTCGTCGCGTATGACGATCTTGA
66 ATTTACATCAACGTTTTCCTTTTCGAACCTCACATGCTTCTCTTCGTCGCGTATGACGATCTTGA
** * * * *
21514073 CTTGACCAATGACGAGA-TCATCAGCCAGAGCTTTAGGGCGATCGATGGTGGGTCGAGAAGGAGG
131 CTTGACCAATGACGAGATTC-TTGGCCGGAGCTTTAGGGTGATCGAAGGTGGGACGAGAAGGAGG
* **
21514137 GGAGGTGTTAGGAGAACGCTTCTTACTTCTATTGTTTTCAG
195 GGAGGTGTTAGGAGAACGCTTCTTACTTCCATTACTTTCAG
* * *
21514178 ACTTGGTGGGTTGGATCTGGGTCGAAATGGACAAGAGATTTGGACTCAAACTGTCAGTGGGACCT
1 ACTCGATGGGTTGGATCTGGGTCGAAA--GACAAGAGATTTGGACTCAAACTGTCGGTGGGACCT
* *
21514243 AGATTTACATCAACGTTTTCCTTTTCGAACCTCACATGCTTCTCTTCGCCGCGTATGATGATCTT
64 AGATTTACATCAACGTTTTCCTTTTCGAACCTCACATGCTTCTCTTCGTCGCGTATGACGATCTT
* * *
21514308 GACTTGACCAATGACGAGATTCTTGGCCGGAGTTTTAAGGTGATCGACGGTGGGACGAGAAGGAG
129 GACTTGACCAATGACGAGATTCTTGGCCGGAGCTTTAGGGTGATCGAAGGTGGGACGAGAAGGAG
* *
21514373 GGGAGGTGTTGGGAGAATGCTTCTTAC
194 GGGAGGTGTTAGGAGAACGCTTCTTAC
21514400 CGTTCCCTTG
Statistics
Matches: 390, Mismatches: 54, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
230 2 0.01
231 189 0.48
232 3 0.01
233 1 0.00
234 2 0.01
236 2 0.01
237 189 0.48
238 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (235 bp):
ACTCGATGGGTTGGATCTGGGTCGAAAGACAAGAGATTTGGACTCAAACTGTCGGTGGGACCTAG
ATTTACATCAACGTTTTCCTTTTCGAACCTCACATGCTTCTCTTCGTCGCGTATGACGATCTTGA
CTTGACCAATGACGAGATTCTTGGCCGGAGCTTTAGGGTGATCGAAGGTGGGACGAGAAGGAGGG
GAGGTGTTAGGAGAACGCTTCTTACTTCCATTACTTTCAG
Found at i:21514887 original size:62 final size:63
Alignment explanation
Indices: 21514805--21515129 Score: 319
Period size: 62 Copynumber: 5.1 Consensus size: 63
21514795 TAATTCAATG
* *
21514805 TTTATCTT-ATAGATAAATATTCTATTAATTTAATAAGATTTAATATTAAACTTAATCTAAAA
1 TTTATCTTGATATATAAATATTCTATTAATTTAATAAGATTTAATATTAAACTTAATCTAATA
* * ** * *
21514867 TTTATCTTGATATAT-CATATT-AATTTAATATTAAAGTGATTATCTTAATATTAAATTTAATTT
1 TTTATCTTGATATATAAATATTCTA-TTAAT-TT-AA-T-AAGAT-TTAATATTAAACTTAATCT
21514930 AATTCAA
60 AA-T--A
* *
21514937 TTTTTATCTT-ATAGT-TAAATATTCTATTAATTTAATAAAATTTAATATTAAATTTAATCTAAT
1 --TTTATCTTGATA-TATAAATATTCTATTAATTTAATAAGATTTAATATTAAACTTAATCTAAT
21515000 A
63 A
*
21515001 TTTAT-TTGATAGATAAATATTCTATTAATTTAATAAGATTTAATATTAAACTTAATCTAATA
1 TTTATCTTGATATATAAATATTCTATTAATTTAATAAGATTTAATATTAAACTTAATCTAATA
* * * * * *
21515063 TTT-TATTG-TAGATAAATAATCTATTAATTTAATACGATTTATTATTAAAC--ATTCTAATA
1 TTTATCTTGATATATAAATATTCTATTAATTTAATAAGATTTAATATTAAACTTAATCTAATA
21515122 TTTATCTT
1 TTTATCTT
21515130 TATAAGTATC
Statistics
Matches: 223, Mismatches: 21, Indels: 40
0.79 0.07 0.14
Matches are distributed among these distances:
59 11 0.05
60 3 0.01
61 43 0.19
62 79 0.35
63 7 0.03
64 3 0.01
65 1 0.00
66 4 0.02
67 39 0.17
68 3 0.01
69 1 0.00
70 3 0.01
71 6 0.03
72 19 0.09
73 1 0.00
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.49
Consensus pattern (63 bp):
TTTATCTTGATATATAAATATTCTATTAATTTAATAAGATTTAATATTAAACTTAATCTAATA
Found at i:21514956 original size:134 final size:133
Alignment explanation
Indices: 21514750--21515174 Score: 518
Period size: 134 Copynumber: 3.2 Consensus size: 133
21514740 AAAAATATTT
*
21514750 TATTAATTTAATATTAAAGTGATTATTTTAATATTAAATTTAATTTAATTCAATGTTTATCTTAT
1 TATTAATTTAATATTAAAGTGATTA-TTTAATATTAAATTTAATTTAATTCAATTTTTATCTTAT
*
21514815 AGATAAATATTCTATTAATTTAATAAGATTTAATATTAAACTTAATCTAAAATTTATCTTGATAT
65 AGATAAATATTCTATTAATTTAATAAGATTTAATATTAAACTTAATCTAATATTTATCTTGATAT
21514880 ATCA
130 ATCA
21514884 TATTAATTTAATATTAAAGTGATTATCTTAATATTAAATTTAATTTAATTCAATTTTTATCTTAT
1 TATTAATTTAATATTAAAGTGATTAT-TTAATATTAAATTTAATTTAATTCAATTTTTATCTTAT
* * * *
21514949 AGTTAAATATTCTATTAATTTAATAAAATTTAATATTAAATTTAATCTAATATTTAT-TTGATAG
65 AGATAAATATTCTATTAATTTAATAAGATTTAATATTAAACTTAATCTAATATTTATCTTGATAT
*
21515013 ATAAA
130 AT-CA
* ** * * *
21515018 TATT-CTATTAAT-TT-AA-T-AAGATTTAATATTAAACTTAATCTAA-T--A-TTTTA--TTGT
1 TATTAAT-TTAATATTAAAGTGATTATTTAATATTAAATTTAATTTAATTCAATTTTTATCTTAT
* * * * *
21515072 AGATAAATAATCTATTAATTTAATACGATTTATTATTAAAC--ATTCTAATATTTATCTTTATAA
65 AGATAAATATTCTATTAATTTAATAAGATTTAATATTAAACTTAATCTAATATTTATCTTGAT-A
21515135 GTATCA
129 -TATCA
21515141 TATTAATTTAATATTAAAGTGATTAAATTTAATA
1 TATTAATTTAATATTAAAGTGATT--ATTTAATA
21515175 ATACTTAAAG
Statistics
Matches: 252, Mismatches: 26, Indels: 31
0.82 0.08 0.10
Matches are distributed among these distances:
121 13 0.05
122 4 0.02
123 49 0.19
124 5 0.02
125 7 0.03
126 2 0.01
127 1 0.00
128 1 0.00
129 27 0.11
130 3 0.01
131 1 0.00
132 2 0.01
133 12 0.05
134 125 0.50
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.49
Consensus pattern (133 bp):
TATTAATTTAATATTAAAGTGATTATTTAATATTAAATTTAATTTAATTCAATTTTTATCTTATA
GATAAATATTCTATTAATTTAATAAGATTTAATATTAAACTTAATCTAATATTTATCTTGATATA
TCA
Found at i:21514959 original size:72 final size:69
Alignment explanation
Indices: 21514750--21514999 Score: 215
Period size: 67 Copynumber: 3.7 Consensus size: 69
21514740 AAAAATATTT
21514750 TATTAATTTAATATTAAAGTGATTATTTTAATATTAAATTTAATTTAATTCAATGTTTATCTTAT
1 TATTAATTTAATATTAAAGTGATTA-TTTAATATTAAATTTAATTTAATTCAAT-TTTATCTTAT
21514815 AGATAAA
64 AG-TAAA
* ** * *
21514822 TATT-CTATTAAT-TT-AA-T-AAGATTTAATATTAAACTTAATCTAA---AA-TTTATCTTGAT
1 TATTAAT-TTAATATTAAAGTGATTATTTAATATTAAATTTAATTTAATTCAATTTTATCTT-AT
*
21514878 A-TATCA
64 AGTA-AA
21514884 TATTAATTTAATATTAAAGTGATTATCTTAATATTAAATTTAATTTAATTCAATTTTTATCTTAT
1 TATTAATTTAATATTAAAGTGATTAT-TTAATATTAAATTTAATTTAATTCAA-TTTTATCTTAT
21514949 AGTTAAA
64 AG-TAAA
* ** *
21514956 TATT-CTATTAAT-TT-AA-T-AAAATTTAATATTAAATTTAATCTAAT
1 TATTAAT-TTAATATTAAAGTGATTATTTAATATTAAATTTAATTTAAT
21515000 ATTTATTTGA
Statistics
Matches: 145, Mismatches: 16, Indels: 39
0.73 0.08 0.19
Matches are distributed among these distances:
61 2 0.01
62 18 0.12
63 6 0.04
64 4 0.03
65 1 0.01
66 3 0.02
67 60 0.41
68 5 0.03
69 2 0.01
70 6 0.04
71 9 0.06
72 27 0.19
73 2 0.01
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.50
Consensus pattern (69 bp):
TATTAATTTAATATTAAAGTGATTATTTAATATTAAATTTAATTTAATTCAATTTTATCTTATAG
TAAA
Found at i:21516125 original size:17 final size:17
Alignment explanation
Indices: 21516069--21516118 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 17
21516059 TAGTATTTTA
21516069 TTAATTTAATATTAAAGT
1 TTAATTTAATATTAAA-T
*
21516087 GATTATTTTAATATTAAAT
1 --TTAATTTAATATTAAAT
21516106 TTAATTTAATATT
1 TTAATTTAATATT
21516119 TATTTTATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 12 0.43
19 1 0.04
20 15 0.54
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (17 bp):
TTAATTTAATATTAAAT
Found at i:21517605 original size:30 final size:31
Alignment explanation
Indices: 21517552--21517610 Score: 102
Period size: 30 Copynumber: 1.9 Consensus size: 31
21517542 TTTAAAGTTT
21517552 AAAATTTCAAAACTAACATATCTAAATTTCA
1 AAAATTTCAAAACTAACATATCTAAATTTCA
*
21517583 AAAATTTCAAAAC-AATATATCTAAATTT
1 AAAATTTCAAAACTAACATATCTAAATTT
21517611 TGCATTTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 14 0.52
31 13 0.48
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.34
Consensus pattern (31 bp):
AAAATTTCAAAACTAACATATCTAAATTTCA
Found at i:21517792 original size:28 final size:29
Alignment explanation
Indices: 21517723--21517819 Score: 119
Period size: 29 Copynumber: 3.4 Consensus size: 29
21517713 ATTTAAATAA
21517723 TTGACGTGATGTGTTCTGAAAAAATAATT
1 TTGACGTGATGTGTTCTGAAAAAATAATT
* *
21517752 TTGA-GAAGGTGTGTTCTG-AAAAATAAATT
1 TTGACG-TGATGTGTTCTGAAAAAAT-AATT
*
21517781 TT-ACGTGATGTGTTCTGAAAAAATCATT
1 TTGACGTGATGTGTTCTGAAAAAATAATT
*
21517809 TTGACGAGATG
1 TTGACGTGATG
21517820 AATTTTATTC
Statistics
Matches: 57, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
28 23 0.40
29 34 0.60
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.36
Consensus pattern (29 bp):
TTGACGTGATGTGTTCTGAAAAAATAATT
Found at i:21519888 original size:24 final size:24
Alignment explanation
Indices: 21519852--21519961 Score: 175
Period size: 24 Copynumber: 4.6 Consensus size: 24
21519842 ATTTAGCCCA
* *
21519852 TACGAGCCTAGAATGGTCAGCTCT
1 TACGAGCCCAGAATGGTTAGCTCT
21519876 TACGAGCCCAGAATGGTTAGCTCT
1 TACGAGCCCAGAATGGTTAGCTCT
*
21519900 TACGAGCCCAGAATGATTAGCTCT
1 TACGAGCCCAGAATGGTTAGCTCT
*
21519924 TACGAGCCCAAAATGGTTAGCTCT
1 TACGAGCCCAGAATGGTTAGCTCT
*
21519948 TACGAGCCTAGAAT
1 TACGAGCCCAGAAT
21519962 CAGAATAACA
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 79 1.00
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (24 bp):
TACGAGCCCAGAATGGTTAGCTCT
Found at i:21519990 original size:27 final size:27
Alignment explanation
Indices: 21519951--21520157 Score: 342
Period size: 27 Copynumber: 7.6 Consensus size: 27
21519941 TAGCTCTTAC
*
21519951 GAGCCTAGAATCAGAATAACACTCTTTT
1 GAGCC-AGAATCAGAATAACGCTCTTTT
*
21519979 GAGCTAGAATCAGAATAACGCTCTTTT
1 GAGCCAGAATCAGAATAACGCTCTTTT
*
21520006 GAGCCAGATTCAGAATAACGCTCTTTT
1 GAGCCAGAATCAGAATAACGCTCTTTT
*
21520033 GAGCCAGAATCAGAATAATGCTCTTTT
1 GAGCCAGAATCAGAATAACGCTCTTTT
*
21520060 GAGCTAGAATCAGAATAACGCTCTTTT
1 GAGCCAGAATCAGAATAACGCTCTTTT
*
21520087 GAGCTAGAATCAGAATAACGCTCTTTT
1 GAGCCAGAATCAGAATAACGCTCTTTT
*
21520114 GAGCCAGAATTAGAATAACGCTCTTTT
1 GAGCCAGAATCAGAATAACGCTCTTTT
21520141 GAGCCAGAATCAGAATA
1 GAGCCAGAATCAGAATA
21520158 CTCCTCAAGC
Statistics
Matches: 168, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
27 164 0.98
28 4 0.02
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (27 bp):
GAGCCAGAATCAGAATAACGCTCTTTT
Found at i:21522663 original size:237 final size:235
Alignment explanation
Indices: 21522241--21522957 Score: 897
Period size: 237 Copynumber: 3.0 Consensus size: 235
21522231 CCGGAACAAC
* **
21522241 CTTACTTCCATTGTTTTCTGACTCGATAGGTTGGATCTGGGTCGAAACGAACACTGGATTTGGAC
1 CTTACTTCCATTGTTTTCTGACTCGATGGGTTGGATCTGGGTCGAAACGAACACAAGATTTGGAC
* * * * * * * *
21522306 TCAAATTGTCGGTGGGACCTAGATTTACATTAACATTTTCCTTTTCGAACTTGAAATACTTCTCT
66 TCAAACTGTAGGT-GGACCTAGATTTACATCAACGTTTTCCTTTTCGAACCTCACATGCTTCTCT
* * * * *
21522371 TCACCGCGTATG-CGAATCTTGACTTGA-TAATTGACGAGATTCTTGG-TCGGAGCTTTAGGGTG
130 TCTCCGCGTATGACG-ATCTTGACTTGACCAA-TGACGAGATTCTTGGCT-AGAGCTTTAAGGCG
* ** * *
21522433 ATCAAAAGTGAGCCGAGAAGGAGGGGAGGTGTTGGGAGAACACTT
192 ATCGATGGTG-GCAGAGAAGGAGGGGAGGTGTTGGGAGAACGCTT
* * * * *
21522478 CTTACTTCCGTTTTTTTCTGACTCGGTGGGTTCGATTTGGGTCGAAACGAACACAAGATTTGGAC
1 CTTACTTCCATTGTTTTCTGACTCGATGGGTTGGATCTGGGTCGAAACGAACACAAGATTTGGAC
* *
21522543 TCAAACTGTTGGTGGAACTTAGATTTACATCAACGTTTTCCTTTTCGAACCTCACATGCTTCTCT
66 TCAAACTGTAGGTGG-ACCTAGATTTACATCAACGTTTTCCTTTTCGAACCTCACATGCTTCTCT
* *
21522608 TCTCCGCGTATGACGATCTTGACTTGACCAATGAGGAGATTATTGGCTAGAGCTTTAAGGCGATC
130 TCTCCGCGTATGACGATCTTGACTTGACCAATGACGAGATTCTTGGCTAGAGCTTTAAGGCGATC
*
21522673 GATGGTGGGCTGAGAAGGAGGGGAGGTGTTGGGAGAACGCTT
195 GATGGT-GGCAGAGAAGGAGGGGAGGTGTTGGGAGAACGCTT
* * * *
21522715 CTTACTTTCATTGTTTTCTGACTCGATGGATTGGATCTAGGTCGAAACGGACA-AGAGATTTGGA
1 CTTACTTCCATTGTTTTCTGACTCGATGGGTTGGATCTGGGTCGAAACGAACACA-AGATTTGGA
* * *
21522779 CTCAAACTATCAGTTGGACGTAGATTTACATCAACGTTTTCCTTTTCGAACCTCACATGCTTCTC
65 CTCAAACTGT-AGGTGGACCTAGATTTACATCAACGTTTTCCTTTTCGAACCTCACATGCTTCTC
* * *
21522844 TTCGT-CGCGTATGACGATCTTGACTTAACCAATGACGAGATTCTTGGC-CGAAGCCTTAAGGCG
129 TTC-TCCGCGTATGACGATCTTGACTTGACCAATGACGAGATTCTTGGCTAG-AGCTTTAAGGCG
* *
21522907 ATCGATGGTGGAAAGAGAAGGAGGGGAGGTGTTGGGAGAATGCTT
192 ATCGATGGTGG-CAGAGAAGGAGGGGAGGTGTTGGGAGAACGCTT
21522952 CTTACT
1 CTTACT
21522958 ATTCCCTTGT
Statistics
Matches: 420, Mismatches: 50, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
236 6 0.01
237 403 0.96
238 11 0.03
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (235 bp):
CTTACTTCCATTGTTTTCTGACTCGATGGGTTGGATCTGGGTCGAAACGAACACAAGATTTGGAC
TCAAACTGTAGGTGGACCTAGATTTACATCAACGTTTTCCTTTTCGAACCTCACATGCTTCTCTT
CTCCGCGTATGACGATCTTGACTTGACCAATGACGAGATTCTTGGCTAGAGCTTTAAGGCGATCG
ATGGTGGCAGAGAAGGAGGGGAGGTGTTGGGAGAACGCTT
Found at i:21523513 original size:134 final size:134
Alignment explanation
Indices: 21523278--21523725 Score: 553
Period size: 134 Copynumber: 3.4 Consensus size: 134
21523268 ATTTAAAAAA
* * * ** *
21523278 TTAATTTAATAATTATCTTAATAATATTTTATTAATTTAATATTAAAGTGATTATCTTAATATTT
1 TTAATCTAATATTTATCTTGAT-ATATAATATTAATTTAATATTAAAGTGATTATCTTAATATTA
21523343 AATTTAATTTAATTCAATGTTTATCTTGTAGATAAATATTCTATTAATTTAATAAGATTTAATAT
65 AATTTAATTTAATTCAATGTTTATCTTGTAGATAAATATTCTATTAATTTAATAAGATTTAATAT
21523408 TAAAC
130 TAAAC
* *
21523413 TTAATCTAATATTAATCCTT-ATATATCATATTAATTTAATATTAAAGTGATTATCTTAATATTA
1 TTAATCTAATATTTAT-CTTGATATATAATATTAATTTAATATTAAAGTGATTATCTTAATATTA
* * * *
21523477 AATTTAATTTAATTCAATGTTTATTTTGTAGTTAAATATTCTTTTAATTTAATAAAATTTAATAT
65 AATTTAATTTAATTCAATGTTTATCTTGTAGATAAATATTCTATTAATTTAATAAGATTTAATAT
*
21523542 TAAAT
130 TAAAC
* * **
21523547 TTAATCTAATATTTAT-TTGATAGATAAATATT-GTATTAAT-TT-AA-T-AAGAT-TTAATATT
1 TTAATCTAATATTTATCTTGATATAT-AATATTAAT-TTAATATTAAAGTGATTATCTTAATATT
* * *
21523605 AAACTTAATCTAA-T--A--TTTATCTTGTAGATAAATAATCTATTAATTTAATAAGATTTAATA
64 AAATTTAATTTAATTCAATGTTTATCTTGTAGATAAATATTCTATTAATTTAATAAGATTTAATA
21523665 TTAAAC
129 TTAAAC
* *
21523671 TTATTCTAATATTTATCTTGATAAGTATGATATTAATTTAATATTAAAGTGATTA
1 TTAATCTAATATTTATCTTGAT-A-TATAATATTAATTTAATATTAAAGTGATTA
21523726 AGTTTAATAA
Statistics
Matches: 270, Mismatches: 31, Indels: 29
0.82 0.09 0.09
Matches are distributed among these distances:
124 60 0.22
125 5 0.02
126 12 0.04
127 5 0.02
128 3 0.01
129 20 0.07
130 5 0.02
131 1 0.00
132 4 0.01
133 8 0.03
134 129 0.48
135 15 0.06
136 3 0.01
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (134 bp):
TTAATCTAATATTTATCTTGATATATAATATTAATTTAATATTAAAGTGATTATCTTAATATTAA
ATTTAATTTAATTCAATGTTTATCTTGTAGATAAATATTCTATTAATTTAATAAGATTTAATATT
AAAC
Found at i:21523575 original size:62 final size:62
Alignment explanation
Indices: 21523496--21523690 Score: 302
Period size: 62 Copynumber: 3.1 Consensus size: 62
21523486 TAATTCAATG
* * * * *
21523496 TTTATTTTGTAGTTAAATATTCTTTTAATTTAATAAAATTTAATATTAAATTTAATCTAATA
1 TTTATCTTGTAGATAAATATTCTATTAATTTAATAAGATTTAATATTAAACTTAATCTAATA
*
21523558 TTTAT-TTGATAGATAAATATTGTATTAATTTAATAAGATTTAATATTAAACTTAATCTAATA
1 TTTATCTTG-TAGATAAATATTCTATTAATTTAATAAGATTTAATATTAAACTTAATCTAATA
* *
21523620 TTTATCTTGTAGATAAATAATCTATTAATTTAATAAGATTTAATATTAAACTTATTCTAATA
1 TTTATCTTGTAGATAAATATTCTATTAATTTAATAAGATTTAATATTAAACTTAATCTAATA
21523682 TTTATCTTG
1 TTTATCTTG
21523691 ATAAGTATGA
Statistics
Matches: 123, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
61 3 0.02
62 117 0.95
63 3 0.02
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.50
Consensus pattern (62 bp):
TTTATCTTGTAGATAAATATTCTATTAATTTAATAAGATTTAATATTAAACTTAATCTAATA
Found at i:21524200 original size:17 final size:19
Alignment explanation
Indices: 21524152--21524203 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 19
21524142 AATAGTATTT
*
21524152 TATTAATTAAATATTAAAC
1 TATTAATTTAATATTAAAC
*
21524171 TGATTATTTTAATATTAAA-
1 T-ATTAATTTAATATTAAAC
21524190 T-TTAATTTAATATT
1 TATTAATTTAATATT
21524204 TATTTTATAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 12 0.41
19 2 0.07
20 15 0.52
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
TATTAATTTAATATTAAAC
Found at i:21524648 original size:615 final size:582
Alignment explanation
Indices: 21523596--21524683 Score: 1640
Period size: 582 Copynumber: 1.8 Consensus size: 582
21523586 TTTAATAAGA
*
21523596 TTTAATATTAAACTTAATCTAATATTTATCTTGTAGATAAATAATCTATTAATTTAATAAGATTT
1 TTTAATATTAAACTTAATCTAATATTTATCTTATAGATAAATAATCTATTAATTTAATAAGATTT
21523661 AATATTAAACTTATTCTAATATTTATCTTGATAAGTATGATATTAATTTAATATTAAAGTGATTA
66 AATATTAAACTTATTCTAATATTTATCTTGATAAGTATGATATTAATTTAATATTAAAGTGATTA
* *
21523726 AGTTTAATAATACTTAAAGTCTCTAAACTCTCTCTATACGAAAAGAGCGTTGGATGATTATTTGA
131 AGTTTAATAATACTTAAAGTCTCTAAACTCTCTCTATACGAAAAGAGCCTTGGATGATTATTTCA
* **
21523791 TACGCTTGAATTCAAGAGAAAATTGTAAAAAGAAAATTCTCTAAAGAGATTATTCCGGAAAATTT
196 TACGCTTGAATTCAAGAAAAAATTGTAAAAAGAAAATTCTCTAAAGAGATTATTCAAGAAAATTT
*
21523856 TTAGACATATTTTTTTATTTACAATTTAATCCAAAAGTTTAGAGAAAGTGCATTAAAAAAGTTTC
261 TTAGACATATTTTTTTATTTACAATTTAATCCAAAAGTTTAGAAAAAGTGCATTAAAAAAGTTTC
*
21523921 GAAATAATTTACTTTAATTATTGATTTTATAAAATTCTATTTTTTATTAATTGTACATGATTTTG
326 GAAATAATTTACTTTAATTATTAATTTTATAAAATTCTATTTTTTATTAATTGTACATGATTTTG
21523986 ATTAATATAGTAACAAATTAAACTCTTAATGTTTATATTTTTGACAACTTAATCCTAATTCTAAA
391 ATTAATATAGTAACAAATTAAACTCTTAATGTTTATATTTTTGACAACTTAATCCTAATTCTAAA
21524051 AAATATTTGAAAAAAAAGCATCATCCCTACCCACCTTGAATTATTTAATAAGCATATTTAGAAAA
456 AAATATTTGAAAAAAAAGCATCATCCCTACCCACCTTGAATTATTTAATAAGCATATTTAGAAAA
21524116 TAAACATTAAATTTAATAATTATCTTAATAGTATTTTATTAATTAAATATTAAACTGATTAT
521 TAAACATTAAATTTAATAATTATCTTAATAGTATTTTATTAATTAAATATTAAACTGATTAT
* * * * *
21524178 TTTAATATTAAATTTAATTTAATATTTATTTTATAGATAAATATTCTATTTATTTAATAAGATTT
1 TTTAATATTAAACTTAATCTAATATTTATCTTATAGATAAATAATCTATTAATTTAATAAGATTT
21524243 AATATTAAACTTATTCTAATATTTATCTTGATAAGTATGATATTAATTTAATATTAAAGTGATTA
66 AATATTAAACTTATTCTAATATTTATCTTGATAAGTATGATATTAATTTAATATTAAAGTGATTA
* *
21524308 AGTTTAATAATACTTAAAGTCTCTAAACTCTCTCTATATGAAAAGAGCCTTGGATTATTATTTCA
131 AGTTTAATAATACTTAAAGTCTCTAAACTCTCTCTATACGAAAAGAGCCTTGGATGATTATTTCA
* *
21524373 TACGCTTGAATTCAAGAAAAAATTGTAAAGAGAAAATTCTCTAAATAGATTATTCAAGAAAATTT
196 TACGCTTGAATTCAAGAAAAAATTGTAAAAAGAAAATTCTCTAAAGAGATTATTCAAGAAAATTT
* * *
21524438 TTAGAGATA-TTTTTTATTTACAATTTAATCTAAAAGTTTA-AAAAATTGCATTAAAAAAGTTTC
261 TTAGACATATTTTTTTATTTACAATTTAATCCAAAAGTTTAGAAAAAGTGCATTAAAAAAGTTTC
21524501 GAAATAATTTGATTTAATCATATCGTTGTATTAAAAAAATTTAAAATTTAATTATTGATTTTAAA
326 GAAAT-A----A--T--T--TA-C----T-TT-----AA-TT---A-TTAATT-TT-A---TAAA
* *
21524566 ATTTTTTATTTTTTATTAATTGTACATTATTTTTGATTAATATAGTAACAAATTAAACTCTTAAT
359 A--TTCTATTTTTTATTAATTGTACATGA-TTTTGATTAATATAGTAACAAATTAAACTCTTAAT
*
21524631 TTTTATATTTTTGACAACTTAATCCTAATTCTAAAAAATATTTGAAAAAAAAG
421 GTTTATATTTTTGACAACTTAATCCTAATTCTAAAAAATATTTGAAAAAAAAG
21524684 TCAATTCAAC
Statistics
Matches: 448, Mismatches: 23, Indels: 37
0.88 0.05 0.07
Matches are distributed among these distances:
580 26 0.06
581 31 0.07
582 253 0.56
585 1 0.00
587 1 0.00
589 1 0.00
591 2 0.00
592 1 0.00
596 1 0.00
597 2 0.00
602 2 0.00
603 2 0.00
606 1 0.00
607 5 0.01
608 2 0.00
609 1 0.00
612 5 0.01
614 24 0.05
615 87 0.19
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.42
Consensus pattern (582 bp):
TTTAATATTAAACTTAATCTAATATTTATCTTATAGATAAATAATCTATTAATTTAATAAGATTT
AATATTAAACTTATTCTAATATTTATCTTGATAAGTATGATATTAATTTAATATTAAAGTGATTA
AGTTTAATAATACTTAAAGTCTCTAAACTCTCTCTATACGAAAAGAGCCTTGGATGATTATTTCA
TACGCTTGAATTCAAGAAAAAATTGTAAAAAGAAAATTCTCTAAAGAGATTATTCAAGAAAATTT
TTAGACATATTTTTTTATTTACAATTTAATCCAAAAGTTTAGAAAAAGTGCATTAAAAAAGTTTC
GAAATAATTTACTTTAATTATTAATTTTATAAAATTCTATTTTTTATTAATTGTACATGATTTTG
ATTAATATAGTAACAAATTAAACTCTTAATGTTTATATTTTTGACAACTTAATCCTAATTCTAAA
AAATATTTGAAAAAAAAGCATCATCCCTACCCACCTTGAATTATTTAATAAGCATATTTAGAAAA
TAAACATTAAATTTAATAATTATCTTAATAGTATTTTATTAATTAAATATTAAACTGATTAT
Found at i:21527575 original size:52 final size:52
Alignment explanation
Indices: 21527466--21527794 Score: 491
Period size: 52 Copynumber: 6.3 Consensus size: 52
21527456 TAAATGCAAA
* * * * * *
21527466 AGGTCCGATGACTCTGTGTCATAGTGAGTTATATAAATCTTTTACGGATTTTA
1 AGGTCCGATGACTATGTGTCATCGTGAG-TATATGAATCCTTTACGGATTATG
21527519 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
*
21527571 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCATTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * *
21527623 AGGTCCAATGACTATGTGTCATTGTGAGTATATGAATCTTTTACGGA-T-TG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
*
21527673 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * *
21527725 AGATCCGATGACTATGTGTTATTGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* *
21527777 AGATCCGATGATTATGTG
1 AGGTCCGATGACTATGTG
21527795 AACGTGGTCT
Statistics
Matches: 255, Mismatches: 19, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
50 45 0.18
51 2 0.01
52 182 0.71
53 26 0.10
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:21527693 original size:154 final size:156
Alignment explanation
Indices: 21527466--21527794 Score: 527
Period size: 154 Copynumber: 2.1 Consensus size: 156
21527456 TAAATGCAAA
*
21527466 AGGTCCGATGACTCTGTGTCATAGTGAGTTATATAAATCTTTTACGGATTTTAAGGTCCGATGAC
1 AGGTCCGATGACTATGTGTCATAGTGAGTTATATAAATCTTTTACGGA-TTTAAGGTCCGATGAC
*
21527531 TATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGGTCCGATGACTATGTGTCATCGT
65 TATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGATCCGATGACTATGTGTCATCGT
21527596 GAGTATATGAATCATTTACGGATTATG
130 GAGTATATGAATCATTTACGGATTATG
* * * *
21527623 AGGTCCAATGACTATGTGTCATTGTGAG-TATATGAATCTTTTACGGA-TTGAGGTCCGATGACT
1 AGGTCCGATGACTATGTGTCATAGTGAGTTATATAAATCTTTTACGGATTTAAGGTCCGATGACT
* * *
21527686 ATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATGAGATCCGATGACTATGTGTTATTGTG
66 ATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGATCCGATGACTATGTGTCATCGTG
*
21527751 AGTATATGAATCCTTTACGGATTATG
131 AGTATATGAATCATTTACGGATTATG
* *
21527777 AGATCCGATGATTATGTG
1 AGGTCCGATGACTATGTG
21527795 AACGTGGTCT
Statistics
Matches: 159, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
154 116 0.73
156 18 0.11
157 25 0.16
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (156 bp):
AGGTCCGATGACTATGTGTCATAGTGAGTTATATAAATCTTTTACGGATTTAAGGTCCGATGACT
ATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATGAGATCCGATGACTATGTGTCATCGTG
AGTATATGAATCATTTACGGATTATG
Found at i:21527723 original size:102 final size:104
Alignment explanation
Indices: 21527466--21527794 Score: 500
Period size: 102 Copynumber: 3.2 Consensus size: 104
21527456 TAAATGCAAA
* * * * * *
21527466 AGGTCCGATGACTCTGTGTCATAGTGAGTTATATAAATCTTTTACGGATTTTAAGGTCCGATGAC
1 AGGTCCGATGACTATGTGTCATCGTGAG-TATATGAATCATTTACGGATTATGAGGTCCGATGAC
*
21527531 TATGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
65 TATGTGTCATTGTGAGTATATGAATCCTTTACGGATTATG
*
21527571 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCATTTACGGATTATGAGGTCCAATGACT
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCATTTACGGATTATGAGGTCCGATGACT
*
21527636 ATGTGTCATTGTGAGTATATGAATCTTTTACGGA-T-TG
66 ATGTGTCATTGTGAGTATATGAATCCTTTACGGATTATG
* * *
21527673 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTATGGATTATGAGATCCGATGACT
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCATTTACGGATTATGAGGTCCGATGACT
*
21527738 ATGTGTTATTGTGAGTATATGAATCCTTTACGGATTATG
66 ATGTGTCATTGTGAGTATATGAATCCTTTACGGATTATG
* *
21527777 AGATCCGATGATTATGTG
1 AGGTCCGATGACTATGTG
21527795 AACGTGGTCT
Statistics
Matches: 205, Mismatches: 17, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
102 95 0.46
103 2 0.01
104 82 0.40
105 26 0.13
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (104 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCATTTACGGATTATGAGGTCCGATGACT
ATGTGTCATTGTGAGTATATGAATCCTTTACGGATTATG
Found at i:21527726 original size:26 final size:26
Alignment explanation
Indices: 21527697--21527778 Score: 60
Period size: 26 Copynumber: 3.2 Consensus size: 26
21527687 TGTGTCATCG
21527697 TGAGTATATGAATCCTTTATGGATTA
1 TGAGTATATGAATCCTTTATGGATTA
** * * * * *
21527723 TGAG-ATCCG-ATGACTATGTGTTATTG
1 TGAGTATATGAAT-CCTTTATG-GATTA
*
21527749 TGAGTATATGAATCCTTTACGGATTA
1 TGAGTATATGAATCCTTTATGGATTA
21527775 TGAG
1 TGAG
21527779 ATCCGATGAT
Statistics
Matches: 37, Mismatches: 15, Indels: 8
0.62 0.25 0.13
Matches are distributed among these distances:
24 2 0.05
25 8 0.22
26 18 0.49
27 7 0.19
28 2 0.05
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.39
Consensus pattern (26 bp):
TGAGTATATGAATCCTTTATGGATTA
Found at i:21528674 original size:21 final size:23
Alignment explanation
Indices: 21528620--21528689 Score: 92
Period size: 22 Copynumber: 3.1 Consensus size: 23
21528610 AATTTTCTAT
21528620 AACCTTTAATTTAAAATACCCTAA
1 AACC-TTAATTTAAAATACCCTAA
*
21528644 ACCCTT-ATTTAAAATA-CC-AA
1 AACCTTAATTTAAAATACCCTAA
*
21528664 AACCTTAATTTAAAAAACCCTAA
1 AACCTTAATTTAAAATACCCTAA
21528687 AAC
1 AAC
21528690 TAATTAAAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 7 0.17
21 11 0.28
22 12 0.30
23 7 0.17
24 3 0.08
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.29
Consensus pattern (23 bp):
AACCTTAATTTAAAATACCCTAA
Done.