Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 40 of 199
Found at i:12189937 original size:7 final size:7
Alignment explanation
Indices: 12189927--12189951 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
12189917 TTATATACAT
12189927 AATACTA
1 AATACTA
12189934 AATACTA
1 AATACTA
12189941 AATACTA
1 AATACTA
12189948 AATA
1 AATA
12189952 TCAATCAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:12190857 original size:13 final size:13
Alignment explanation
Indices: 12190839--12190867 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
12190829 GAGCATGCAT
12190839 ATTCCAGATATTG
1 ATTCCAGATATTG
12190852 ATTCCAGATATTG
1 ATTCCAGATATTG
12190865 ATT
1 ATT
12190868 GGCAGCAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (13 bp):
ATTCCAGATATTG
Found at i:12198226 original size:109 final size:110
Alignment explanation
Indices: 12197984--12198491 Score: 745
Period size: 110 Copynumber: 4.6 Consensus size: 110
12197974 GTCAATCGAG
* * * * *
12197984 AAATCGAAACCCAGCACATTAAGGCTTG-TTCCTCGAATTTCCAAACGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
* * *
12198048 TTGAAA-TTTTTAAAAGATTTTGAAATTTAGCCATTTGGTTGAATGAGAA
66 TTAAAATTTTTTAAAAG-----GATATTTAGCCATTTGGTTGAACGAGAA
*
12198097 AAATCGACACCCAGCACCTTAGGGCATG-TTCCTCGAATTTCCCAAACGCAAAACATTGCCTTAT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTT-CCAAACGCAAAACATTGCCTTAT
* *
12198161 TTTGAAA-TTTTTAAAAGGATATTTAGCCATTTGGTTGAATGAGAA
65 TTTAAAATTTTTTAAAAGGATATTTAGCCATTTGGTTGAACGAGAA
* * *
12198206 AAATCGACACCCAACGCCTTAGGGCACGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
12198271 TTAAAATTTTTTAAAAGGATATTTAGCCATTTGGTTGAACGAGAA
66 TTAAAATTTTTTAAAAGGATATTTAGCCATTTGGTTGAACGAGAA
*
12198316 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTACCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
12198381 TTAAAATTTTTTTTAAAAGGATATTTAGCCATTTGGTTGAACGAGAA
66 TTAAAA--TTTTTTAAAAGGATATTTAGCCATTTGGTTGAACGAGAA
* * *
12198428 AAATCGACACCCATCACCTTAGGGCATGTTTTCTCAAATTTCCCAAACGCAAAGCATTGCCTTA
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTT-CCAAACGCAAAACATTGCCTTA
12198492 ATTGGAAAAA
Statistics
Matches: 370, Mismatches: 19, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
109 81 0.22
110 115 0.31
112 78 0.21
113 56 0.15
114 40 0.11
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (110 bp):
AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
TTAAAATTTTTTAAAAGGATATTTAGCCATTTGGTTGAACGAGAA
Found at i:12198567 original size:21 final size:18
Alignment explanation
Indices: 12198535--12198574 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 18
12198525 ATTTATATGC
12198535 ATAATGGAATAATAAACATG
1 ATAATGGAATAA-AAA-ATG
12198555 ATAATGTGAATAAAAAATG
1 ATAATG-GAATAAAAAATG
12198574 A
1 A
12198575 ACAAAAAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 9 0.47
21 6 0.32
ACGTcount: A:0.57, C:0.03, G:0.15, T:0.25
Consensus pattern (18 bp):
ATAATGGAATAAAAAATG
Found at i:12198869 original size:39 final size:39
Alignment explanation
Indices: 12198821--12198908 Score: 95
Period size: 39 Copynumber: 2.3 Consensus size: 39
12198811 TAAGTAAGCA
* *
12198821 TATACATATAAATGTATGTAACTATCATAAAATAAAAAG
1 TATACATATAAATATATGTAACAATCATAAAATAAAAAG
* * ** *
12198860 TATATATATAGATATATGTATGAATCATAAAATATAAAG
1 TATACATATAAATATATGTAACAATCATAAAATAAAAAG
* *
12198899 AACACATATA
1 TATACATATA
12198909 TAAAATACAT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.53, C:0.07, G:0.08, T:0.32
Consensus pattern (39 bp):
TATACATATAAATATATGTAACAATCATAAAATAAAAAG
Found at i:12199008 original size:24 final size:24
Alignment explanation
Indices: 12198947--12199014 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
12198937 AATATGTAAG
* *
12198947 TGTATATATATATTACAAAAAGTATG
1 TGTATATATATA-TA-AAAAAATATA
*
12198973 TGTGTA-AGTATATAAAAAAATATA
1 TGTATATA-TATATAAAAAAATATA
12198997 TGTATATATATA-AAAAAA
1 TGTATATATATATAAAAAA
12199015 CGTATATATA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
23 6 0.17
24 17 0.47
25 4 0.11
26 9 0.25
ACGTcount: A:0.53, C:0.01, G:0.10, T:0.35
Consensus pattern (24 bp):
TGTATATATATATAAAAAAATATA
Found at i:12199024 original size:22 final size:22
Alignment explanation
Indices: 12198981--12199026 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
12198971 TGTGTGTAAG
* *
12198981 TATATAAAAAAATATATGTATA
1 TATATAAAAAAACATATATATA
*
12199003 TATATAAAAAAACGTATATATA
1 TATATAAAAAAACATATATATA
12199025 TA
1 TA
12199027 AGGGCAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (22 bp):
TATATAAAAAAACATATATATA
Found at i:12199044 original size:3 final size:3
Alignment explanation
Indices: 12199036--12199065 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
12199026 AAGGGCAATT
*
12199036 ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12199066 TTATTATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:12209784 original size:14 final size:14
Alignment explanation
Indices: 12209767--12209831 Score: 58
Period size: 14 Copynumber: 4.6 Consensus size: 14
12209757 CTTTATGCCT
*
12209767 TATATATGTACATA
1 TATATATATACATA
*
12209781 TATATACATACATA
1 TATATATATACATA
* * * * *
12209795 TTTTTGTTTACACA
1 TATATATATACATA
12209809 TATATATATACATA
1 TATATATATACATA
*
12209823 CATATATAT
1 TATATATAT
12209832 CTCTTTATGT
Statistics
Matches: 37, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.42, C:0.11, G:0.03, T:0.45
Consensus pattern (14 bp):
TATATATATACATA
Found at i:12210323 original size:71 final size:71
Alignment explanation
Indices: 12210207--12210347 Score: 228
Period size: 71 Copynumber: 2.0 Consensus size: 71
12210197 ATTTTCAAAC
* * *
12210207 TCAAGTTTTAAACGATCTCGGGAATTAAGAAGAGATCATGTCCTAACTTGCTAGGCATGATCCTT
1 TCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCATGTCCTAACTTACTAGGCATGATCCCT
12210272 TTTTTT
66 TTTTTT
* **
12210278 TCAAGTTTTAAACGATTTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTAGGCATGATCCCT
1 TCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCATGTCCTAACTTACTAGGCATGATCCCT
12210343 TTTTT
66 TTTTT
12210348 AACCCCGAGA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 64 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (71 bp):
TCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATCATGTCCTAACTTACTAGGCATGATCCCT
TTTTTT
Found at i:12216021 original size:15 final size:15
Alignment explanation
Indices: 12216001--12216031 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
12215991 AAAAATACTT
12216001 GTTGAAAATTGTATG
1 GTTGAAAATTGTATG
12216016 GTTGAAAATTGTATG
1 GTTGAAAATTGTATG
12216031 G
1 G
12216032 ATTTTCATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (15 bp):
GTTGAAAATTGTATG
Found at i:12216686 original size:18 final size:19
Alignment explanation
Indices: 12216663--12216703 Score: 57
Period size: 21 Copynumber: 2.1 Consensus size: 19
12216653 AATTTTCAAC
12216663 TTCTTT-AAATTATAATTT
1 TTCTTTAAAATTATAATTT
12216681 TTCTTTAAAAAATTATAATTT
1 TTCTTT--AAAATTATAATTT
12216702 TT
1 TT
12216704 TTATATATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
21 14 0.70
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
TTCTTTAAAATTATAATTT
Found at i:12227433 original size:15 final size:16
Alignment explanation
Indices: 12227415--12227444 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12227405 GATGATAATA
12227415 ATTAAA-TTTATTTTG
1 ATTAAATTTTATTTTG
12227430 ATTAAATTTTATTTT
1 ATTAAATTTTATTTT
12227445 AATTTTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
ATTAAATTTTATTTTG
Found at i:12235239 original size:20 final size:20
Alignment explanation
Indices: 12235202--12235240 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
12235192 CAACTACTGA
*
12235202 TTTTTGCTTCTTCTTTTTTC
1 TTTTTGCTTCTTCATTTTTC
12235222 TTTTTGCTAT-TTCATTTTT
1 TTTTTGCT-TCTTCATTTTT
12235241 GCCTAACTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.05, C:0.15, G:0.05, T:0.74
Consensus pattern (20 bp):
TTTTTGCTTCTTCATTTTTC
Found at i:12238731 original size:24 final size:24
Alignment explanation
Indices: 12238704--12238755 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
12238694 TTAGTAAGTC
*
12238704 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
12238728 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
12238752 AAAT
1 AAAT
12238756 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:12243138 original size:29 final size:31
Alignment explanation
Indices: 12243083--12243148 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
12243073 ATTTTGTAAA
12243083 TTTTTGTATTTTTCATAAATTTGAAATTT-AT
1 TTTTTGTATTTTTCAT-AATTTGAAATTTAAT
*
12243114 TTTTTGTATTTTT-AT-TTTTAGAAATTTAAT
1 TTTTTGTATTTTTCATAATTT-GAAATTTAAT
12243144 TTTTT
1 TTTTT
12243149 AATAGATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
28 3 0.09
29 7 0.22
30 9 0.28
31 13 0.41
ACGTcount: A:0.26, C:0.02, G:0.06, T:0.67
Consensus pattern (31 bp):
TTTTTGTATTTTTCATAATTTGAAATTTAAT
Found at i:12243375 original size:24 final size:23
Alignment explanation
Indices: 12243347--12243391 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
12243337 ATTTTAAAAT
*
12243347 CTAAAAACTAAAAGTATTAAATTC
1 CTAAAAA-TAAAAGTATAAAATTC
12243371 CTAAAAATAAAAGTATAAAAT
1 CTAAAAATAAAAGTATAAAAT
12243392 AAACTGTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.60, C:0.09, G:0.04, T:0.27
Consensus pattern (23 bp):
CTAAAAATAAAAGTATAAAATTC
Found at i:12246125 original size:46 final size:45
Alignment explanation
Indices: 12246058--12246428 Score: 426
Period size: 46 Copynumber: 8.6 Consensus size: 45
12246048 TTTGAGTACT
12246058 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
12246104 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
12246150 TCTGATC-AGTGAAAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* * * *
12246185 TTTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTCA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
*
12246231 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* * *
12246267 TCTGATAAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
*
12246313 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTTAGCTACTCTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
12246359 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCTTAGCTACACTTA
12246404 TCTGATC-AG-G-GACAAGTGATAAGTG
1 TCTGATCAAGTGAGA-AAGTGATAAGTG
12246429 ATCATATGTA
Statistics
Matches: 283, Mismatches: 20, Indels: 47
0.81 0.06 0.13
Matches are distributed among these distances:
35 16 0.06
36 39 0.14
37 1 0.00
38 1 0.00
39 3 0.01
40 3 0.01
41 1 0.00
42 7 0.02
43 15 0.05
44 4 0.01
45 33 0.12
46 160 0.57
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:12246210 original size:36 final size:36
Alignment explanation
Indices: 12246140--12246293 Score: 148
Period size: 36 Copynumber: 4.0 Consensus size: 36
12246130 GGTAGCATTA
12246140 GCTACACTTATCTGATC-AGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
12246175 GCTACACTTATTTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
*
12246220 AGCTACACTCATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* * *
12246257 GCTATACTTATCTGATAAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
12246293 G
1 G
12246294 TTAGCCTTAG
Statistics
Matches: 97, Mismatches: 11, Indels: 21
0.75 0.09 0.16
Matches are distributed among these distances:
35 16 0.16
36 45 0.46
37 2 0.02
40 2 0.02
42 2 0.02
45 2 0.02
46 28 0.29
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:12246287 original size:82 final size:80
Alignment explanation
Indices: 12246094--12246428 Score: 429
Period size: 82 Copynumber: 4.0 Consensus size: 80
12246084 GGTAGCATTA
*
12246094 GCTACACTTATCTGATCAAGTGAGAAAGTGATAAGTGGTAGCATTAGCTACACTTATCTGATCAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAG
12246159 TGAAAAAGTGATAAGT
65 TGAAAAAGTGATAAGT
* * *
12246175 GCTACACTTATTTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTCATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATC-A
12246240 GTGAAAAAGTGATAAGT
64 GTGAAAAAGTGATAAGT
* * *
12246257 GCTATACTTATCTGATAAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATC-A
*
12246322 GTGAGAAAGTGATAAGTGGT
64 GTGAAAAAGTGATAA---GT
*
12246342 AGCCTTAGCTACTCTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTAGCTACACTTATCT
1 -G-C-TA-C-A--CTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCT
* *
12246407 GATCAG-GGACAAGTGATAAGT
59 GATCAGTGAAAAAGTGATAAGT
12246428 G
1 G
12246429 ATCATATGTA
Statistics
Matches: 223, Mismatches: 19, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
81 58 0.26
82 89 0.40
83 1 0.00
85 3 0.01
86 3 0.01
87 1 0.00
88 2 0.01
89 10 0.04
90 3 0.01
91 20 0.09
92 33 0.15
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (80 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGT
GAAAAAGTGATAAGT
Found at i:12251298 original size:92 final size:92
Alignment explanation
Indices: 12251191--12251399 Score: 280
Period size: 92 Copynumber: 2.3 Consensus size: 92
12251181 TTGATTTTAG
* * *
12251191 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAA-TT-ATATATCACTATTAAATT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTTAATAT-TAACTATTAAATT
* *
12251254 ATATTTAAT-ATTAATTATTTTAAATTGTA
64 ATATGTAATAATT-ATTATTTTAAATTATA
*
12251283 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTTAATATTAATTATTAAATTAT
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTTAATATTAACTATTAAATTAT
12251348 ATGTAATAATTATTATTTTAAATTATA
66 ATGTAATAATTATTATTTTAAATTATA
* * * *
12251375 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
12251400 GTTATAATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
91 24 0.23
92 73 0.70
93 7 0.07
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTTAATATTAACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:12251362 original size:24 final size:25
Alignment explanation
Indices: 12251327--12251374 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
12251317 TTATGAAATT
12251327 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
12251351 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
12251375 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:12251528 original size:66 final size:63
Alignment explanation
Indices: 12251452--12251663 Score: 203
Period size: 66 Copynumber: 3.4 Consensus size: 63
12251442 AAAATATATT
12251452 TAATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTCATATA
1 TAATATTAATTATTT-AAATTTT-ATTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
12251517 A
63 A
* * * * *
12251518 GAATATTAATTATTAAGAATTTTA-TTAA--ATCATATATT-TTAATT-A-T-AA-T-ATAT-T
1 TAATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAA
*
12251572 TAATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATAT
1 TAATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATAT
12251636 AA
62 AA
*
12251638 TAATATTAATTATTAAGAATTTTATT
1 TAATATTAATTATTTA-AATTTTATT
12251664 AAATTATATA
Statistics
Matches: 116, Mismatches: 13, Indels: 35
0.71 0.08 0.21
Matches are distributed among these distances:
53 5 0.04
54 13 0.11
55 5 0.04
56 4 0.03
57 3 0.03
58 1 0.01
59 11 0.09
60 8 0.07
61 11 0.09
62 1 0.01
63 3 0.03
64 4 0.03
65 9 0.08
66 33 0.28
67 5 0.04
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.49
Consensus pattern (63 bp):
TAATATTAATTATTTAAATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAA
Found at i:12251549 original size:120 final size:120
Alignment explanation
Indices: 12251415--12251707 Score: 493
Period size: 120 Copynumber: 2.4 Consensus size: 120
12251405 AATTATTTTA
* *
12251415 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-AT
*
12251477 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
12251535 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
12251600 ACAGTATCATATATTATGATTTGAGTAAATTCATATAATAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
12251655 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTT
12251708 TAAATATGAT
Statistics
Matches: 165, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
119 6 0.04
120 157 0.95
121 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:12251575 original size:15 final size:15
Alignment explanation
Indices: 12251549--12251701 Score: 54
Period size: 15 Copynumber: 10.1 Consensus size: 15
12251539 TTATTAAATC
12251549 ATATATTTTAATTATA
1 ATATA-TTTAATTATA
*
12251565 ATATATTTAATAATA
1 ATATATTTAATTATA
12251580 AT-TATGTTAATT-T-
1 ATATAT-TTAATTATA
* *
12251593 ATAT-TTTACAGTATC
1 ATATATTTA-ATTATA
*
12251608 ATATATTATGATT-TGA
1 ATATATT-TAATTAT-A
* * *
12251624 GTA-AATTCA-TATA
1 ATATATTTAATTATA
12251637 ATA-ATATTAATTATTA
1 ATATAT-TTAATTA-TA
* * *
12251653 AGA-ATTTTATTAAATT
1 ATATATTTAATT--ATA
12251669 ATATATTTTAATTATA
1 ATATA-TTTAATTATA
*
12251685 ATATATTTAATAATA
1 ATATATTTAATTATA
12251700 AT
1 AT
12251702 TATGTTTAAA
Statistics
Matches: 102, Mismatches: 19, Indels: 33
0.66 0.12 0.21
Matches are distributed among these distances:
12 3 0.03
13 10 0.10
14 12 0.12
15 41 0.40
16 27 0.26
17 3 0.03
18 6 0.06
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (15 bp):
ATATATTTAATTATA
Found at i:12251690 original size:16 final size:16
Alignment explanation
Indices: 12251669--12251710 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
12251659 TTATTAAATT
*
12251669 ATATATTTTAATTATA
1 ATATATTTTAATAATA
12251685 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
12251700 AT-TATGTTTAA
1 ATATAT-TTTAA
12251711 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:12251698 original size:57 final size:57
Alignment explanation
Indices: 12251415--12251699 Score: 199
Period size: 59 Copynumber: 4.8 Consensus size: 57
12251405 AATTATTTTA
* *
12251415 AATTTTATTAAATCATATATTTTAATTAAAATATA-TT--TAATATTAATTATTTCA-
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATATTAATTA-TTAAG
* * * *
12251469 AATTTTCATTTATAGTATCATATATTATGATTTGAGTAA-ATTCATATAAGAATATTAATTATTA
1 AATTTT-A-TTA-A--ATCATATATT-TTAATT-A-TAATA-T-ATTTAATAATATTAATTATTA
12251533 AG
56 AG
* *
12251535 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTA-
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAAT-ATTA-ATT-ATTAAG
* * * * * *
12251594 TATTTTA-CAGTATCATATATTATGATTTGAGTAA-ATTCATATAATAATATTAATTATTAAG
1 AATTTTATTA-AATCATATATT-TTAATT-A-TAATA-T-ATTTAATAATATTAATTATTAAG
*
12251655 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATA
1 AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATA
12251700 ATTATGTTTA
Statistics
Matches: 177, Mismatches: 27, Indels: 51
0.69 0.11 0.20
Matches are distributed among these distances:
54 6 0.03
55 1 0.01
56 3 0.02
57 19 0.11
58 13 0.07
59 32 0.18
60 24 0.14
61 31 0.18
62 12 0.07
63 11 0.06
64 4 0.02
65 4 0.02
66 17 0.10
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.49
Consensus pattern (57 bp):
AATTTTATTAAATCATATATTTTAATTATAATATATTTAATAATATTAATTATTAAG
Found at i:12251947 original size:16 final size:16
Alignment explanation
Indices: 12251926--12251961 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
12251916 GATTTGCTAT
* *
12251926 TACACCTTTAATCCAG
1 TACACCTCTAATCCAA
12251942 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
12251958 TACA
1 TACA
12251962 GCGAACCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.33, G:0.03, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:12253655 original size:36 final size:35
Alignment explanation
Indices: 12253615--12253730 Score: 135
Period size: 36 Copynumber: 3.2 Consensus size: 35
12253605 CTATCCGCAT
***
12253615 CACCACCATACAATCCTCTGCCCTGC-CCACCACAAC
1 CACCACCATACAATAAGCTGCCCT-CTCCACCAC-AC
* *
12253651 CACCATCATACAAAAAGCTGCCCTCTCCACCATCAC
1 CACCACCATACAATAAGCTGCCCTCTCCACCA-CAC
*
12253687 CACCACTATACAATAAGCTGCCCTCTCCACCACCAC
1 CACCACCATACAATAAGCTGCCCTCTCCACCA-CAC
12253723 CACCACCA
1 CACCACCA
12253731 CCACCACCAT
Statistics
Matches: 68, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
35 1 0.01
36 66 0.97
37 1 0.01
ACGTcount: A:0.31, C:0.49, G:0.05, T:0.15
Consensus pattern (35 bp):
CACCACCATACAATAAGCTGCCCTCTCCACCACAC
Found at i:12253721 original size:3 final size:3
Alignment explanation
Indices: 12253713--12253747 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
12253703 GCTGCCCTCT
*
12253713 CCA CCA CCA CCA CCA CCA CCA CCA CCA TCA CCA CC
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CC
12253748 TCATTACTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.31, C:0.66, G:0.00, T:0.03
Consensus pattern (3 bp):
CCA
Found at i:12253731 original size:39 final size:37
Alignment explanation
Indices: 12253632--12253728 Score: 137
Period size: 36 Copynumber: 2.7 Consensus size: 37
12253622 ATACAATCCT
*
12253632 CTGCCCTGC-CCACCACAACCACCA-TCATACAAAAAG
1 CTGCCCT-CTCCACCACCACCACCACTCATACAAAAAG
* *
12253668 CTGCCCTCTCCACCATCACCACCACT-ATACAATAAG
1 CTGCCCTCTCCACCACCACCACCACTCATACAAAAAG
12253704 CTGCCCTCTCCACCACCACCACCAC
1 CTGCCCTCTCCACCACCACCACCAC
12253729 CACCACCACC
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
35 1 0.02
36 53 0.96
37 1 0.02
ACGTcount: A:0.30, C:0.49, G:0.06, T:0.14
Consensus pattern (37 bp):
CTGCCCTCTCCACCACCACCACCACTCATACAAAAAG
Found at i:12260128 original size:14 final size:14
Alignment explanation
Indices: 12260109--12260147 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
12260099 AAGGGTCATT
12260109 TAAAATGTTTTCCG
1 TAAAATGTTTTCCG
* *
12260123 TAAAATGATTTCTG
1 TAAAATGTTTTCCG
*
12260137 GAAAATGTTTT
1 TAAAATGTTTT
12260148 ACGTTTCTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (14 bp):
TAAAATGTTTTCCG
Found at i:12260160 original size:34 final size:35
Alignment explanation
Indices: 12260117--12260182 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 35
12260107 TTTAAAATGT
* *
12260117 TTTCCGTAAAATGATTT-CTGGAAAATGTTTTACG
1 TTTCCGTAAAATAATTTACTGGAAAATATTTTACG
*
12260151 TTTCTGTAAAATAATTTACTGGAAAATATTTT
1 TTTCCGTAAAATAATTTACTGGAAAATATTTT
12260183 TTGGTGTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 15 0.54
35 13 0.46
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.44
Consensus pattern (35 bp):
TTTCCGTAAAATAATTTACTGGAAAATATTTTACG
Found at i:12260168 original size:20 final size:20
Alignment explanation
Indices: 12260131--12260169 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12260121 CGTAAAATGA
**
12260131 TTTCTGGAAAATGTTTTACG
1 TTTCTGGAAAATAATTTACG
*
12260151 TTTCTGTAAAATAATTTAC
1 TTTCTGGAAAATAATTTAC
12260170 TGGAAAATAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.10, G:0.13, T:0.46
Consensus pattern (20 bp):
TTTCTGGAAAATAATTTACG
Found at i:12266110 original size:52 final size:51
Alignment explanation
Indices: 12266009--12266111 Score: 163
Period size: 52 Copynumber: 2.0 Consensus size: 51
12265999 ATTTGTCTTG
*
12266009 GTAGTGTTTAAAAAAATATTTTTAAAAAAAATATGCTAAACTGTCTTGTTTA
1 GTAGTGTTTAAAAAAATATTTTTAAAAAAAATATGCTAAACAG-CTTGTTTA
12266061 GTAGTGTTTAAAAAAATATTTTTAAAAAAAAATATGCTAAACAAG-TTGTTT
1 GTAGTGTTTAAAAAAATATTTTT-AAAAAAAATATGCTAAAC-AGCTTGTTT
12266112 TTAGCTGAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 4
0.91 0.02 0.08
Matches are distributed among these distances:
52 29 0.60
53 18 0.38
54 1 0.02
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.39
Consensus pattern (51 bp):
GTAGTGTTTAAAAAAATATTTTTAAAAAAAATATGCTAAACAGCTTGTTTA
Found at i:12266285 original size:21 final size:22
Alignment explanation
Indices: 12266245--12266286 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
12266235 TCTTGATGCT
*
12266245 TAATTACAAATGTGTTAATAGC
1 TAATTACAAATATGTTAATAGC
12266267 TAATTACAAATAT-TTAATAG
1 TAATTACAAATATGTTAATAG
12266287 TTATATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (22 bp):
TAATTACAAATATGTTAATAGC
Found at i:12266309 original size:31 final size:30
Alignment explanation
Indices: 12266274--12266374 Score: 78
Period size: 33 Copynumber: 3.1 Consensus size: 30
12266264 AGCTAATTAC
12266274 AAATATTTAATAGTTATATTTAAAAATTTTA
1 AAATATTTAATA-TTATATTTAAAAATTTTA
* * *
12266305 AAATATATATTA-TATATACTAATTAAATTTTA
1 AAATATTTAATATTATAT-TTAA--AAATTTTA
* *
12266337 TAAATAATTAATATTTATTACTTAAAAATATTTA
1 -AAATATTTAATA-TTA-TATTTAAAAAT-TTTA
12266371 AAAT
1 AAAT
12266375 TTATATTTCA
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
29 5 0.09
30 3 0.06
31 10 0.19
32 8 0.15
33 17 0.31
34 4 0.07
35 5 0.09
36 2 0.04
ACGTcount: A:0.50, C:0.02, G:0.01, T:0.47
Consensus pattern (30 bp):
AAATATTTAATATTATATTTAAAAATTTTA
Found at i:12270667 original size:15 final size:15
Alignment explanation
Indices: 12270613--12270668 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
12270603 ATTTTTTGAA
*
12270613 ATAAAAAT-TAAATC
1 ATAAAAATATAAAAC
* *
12270627 ATGAAAACTATAAAAT
1 AT-AAAAATATAAAAC
12270643 ATAAAAATATAAAAC
1 ATAAAAATATAAAAC
12270658 A-AAAATATATA
1 ATAAAA-ATATA
12270669 TATAAAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
14 6 0.18
15 22 0.65
16 6 0.18
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (15 bp):
ATAAAAATATAAAAC
Found at i:12270677 original size:21 final size:21
Alignment explanation
Indices: 12270638--12270677 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
12270628 TGAAAACTAT
*
12270638 AAAATATAAAAATATAAAACA
1 AAAATATAAAAATAAAAAACA
* *
12270659 AAAATATATATATAAAAAA
1 AAAATATAAAAATAAAAAA
12270678 AGTAAAGGTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATATAAAAATAAAAAACA
Found at i:12272909 original size:15 final size:15
Alignment explanation
Indices: 12272855--12272910 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
12272845 TTTTTTTGAA
*
12272855 ATAAAAAT-TAAATC
1 ATAAAAATATAAAAC
* *
12272869 ATGAAAACTATAAAAT
1 AT-AAAAATATAAAAC
12272885 ATAAAAATATAAAAC
1 ATAAAAATATAAAAC
12272900 A-AAAATATATA
1 ATAAAA-ATATA
12272911 TATAAAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
14 6 0.18
15 22 0.65
16 6 0.18
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (15 bp):
ATAAAAATATAAAAC
Found at i:12272919 original size:21 final size:21
Alignment explanation
Indices: 12272880--12272919 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
12272870 TGAAAACTAT
*
12272880 AAAATATAAAAATATAAAACA
1 AAAATATAAAAATAAAAAACA
* *
12272901 AAAATATATATATAAAAAA
1 AAAATATAAAAATAAAAAA
12272920 AGTAAAGGTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAATATAAAAATAAAAAACA
Found at i:12275701 original size:12 final size:12
Alignment explanation
Indices: 12275681--12275719 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
12275671 TTATAATTCT
* *
12275681 TATATACATATA
1 TATACACATACA
12275693 TATACACATACA
1 TATACACATACA
*
12275705 CATACACATACA
1 TATACACATACA
12275717 TAT
1 TAT
12275720 TTTTATAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.31
Consensus pattern (12 bp):
TATACACATACA
Found at i:12277097 original size:42 final size:42
Alignment explanation
Indices: 12277047--12277127 Score: 128
Period size: 42 Copynumber: 1.9 Consensus size: 42
12277037 TTTGTCGAAA
*
12277047 ATGGATAATTTGGTTCA-AATTCACGATCTTTTTGTTGCACCT
1 ATGGATAATTTGGTTCAGAA-CCACGATCTTTTTGTTGCACCT
*
12277089 ATGGATAATTTGGTTCAGAACCATGATCTTTTTGTTGCA
1 ATGGATAATTTGGTTCAGAACCACGATCTTTTTGTTGCA
12277128 TCTAGTCTGC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 34 0.94
43 2 0.06
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.42
Consensus pattern (42 bp):
ATGGATAATTTGGTTCAGAACCACGATCTTTTTGTTGCACCT
Found at i:12280983 original size:10 final size:9
Alignment explanation
Indices: 12280969--12281040 Score: 65
Period size: 10 Copynumber: 7.6 Consensus size: 9
12280959 AAAGAATGTT
*
12280969 AAAAAAAAT
1 AAAAAAAAG
12280978 AGAAAAAAAG
1 A-AAAAAAAG
12280988 -AAAAAAAG
1 AAAAAAAAG
*
12280996 AAAATAAAAT
1 AAAA-AAAAG
12281006 AAAATAAAAG
1 AAAA-AAAAG
*
12281016 AAGAAAAAG
1 AAAAAAAAG
12281025 AAAAGAAAAAG
1 -AAA-AAAAAG
12281036 AAAAA
1 AAAAA
12281041 GGAGAGGTCA
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
8 8 0.15
9 11 0.21
10 28 0.53
11 6 0.11
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:12281009 original size:23 final size:22
Alignment explanation
Indices: 12280969--12281040 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 22
12280959 AAAGAATGTT
12280969 AAAA-AAAATAGAAAAAAAGAAA
1 AAAAGAAAATA-AAAAAAAGAAA
*
12280991 AAAAGAAAATAAAATAAAATAAA
1 AAAAGAAAATAAAA-AAAAGAAA
* *
12281014 AGAAGAAAAAGAAAAGAAAAAGAAA
1 AAAAG-AAAA-TAAA-AAAAAGAAA
12281039 AA
1 AA
12281041 GGAGAGGTCA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
22 7 0.17
23 17 0.43
24 4 0.10
25 11 0.28
26 1 0.03
ACGTcount: A:0.83, C:0.00, G:0.11, T:0.06
Consensus pattern (22 bp):
AAAAGAAAATAAAAAAAAGAAA
Found at i:12282552 original size:45 final size:45
Alignment explanation
Indices: 12282418--12282552 Score: 105
Period size: 45 Copynumber: 3.0 Consensus size: 45
12282408 ATCAAAGAAG
* * * *
12282418 ATAGTAGATCTTGTCTTCC-TGTATTGGCAGTGAAGCAGATCGAAG
1 ATAGCAGATTTTGTC-TCCATGAATTGGCAGTGAAGCAGATCGAAA
* * * * * ** * * *
12282463 ACACCA-ATTTTGCCTCCAAGAGTTTACAGCGGAGCA-AACTGAAA
1 ATAGCAGATTTTGTCTCCATGAATTGGCAGTGAAGCAGATC-GAAA
12282507 ATAGCAGATTTTGTCTCCATGAATTGGCAGTGAAGCAGATCGAAA
1 ATAGCAGATTTTGTCTCCATGAATTGGCAGTGAAGCAGATCGAAA
12282552 A
1 A
12282553 AAAGAAGTCT
Statistics
Matches: 62, Mismatches: 24, Indels: 8
0.66 0.26 0.09
Matches are distributed among these distances:
43 5 0.08
44 24 0.39
45 31 0.50
46 2 0.03
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (45 bp):
ATAGCAGATTTTGTCTCCATGAATTGGCAGTGAAGCAGATCGAAA
Found at i:12282637 original size:43 final size:43
Alignment explanation
Indices: 12282563--12282724 Score: 112
Period size: 43 Copynumber: 3.7 Consensus size: 43
12282553 AAAGAAGTCT
* * * *
12282563 TATCTCCCTAAGTAGTAGTGAAGCAGATCGAAAGCACCAGCCC
1 TATCTCCCTAAGCAGCAGCGAAGTAGATCGAAAGCACCAGCCC
* * * * ** * *
12282606 TATCTCCCTGAGTAGCAGCGGAGTAGGTCG-AAG-ATTGTAGATCT
1 TATCTCCCTAAGCAGCAGCGAAGTAGATCGAAAGCA--CCAG-CCC
* * * *
12282650 TATCTCCCTAAACAGTAGTGGAGTAGATCGAAAGCACCAGCCC
1 TATCTCCCTAAGCAGCAGCGAAGTAGATCGAAAGCACCAGCCC
* * *
12282693 TATCTCCCTGAGCAGCAACGAAGTAGGTCGAA
1 TATCTCCCTAAGCAGCAGCGAAGTAGATCGAA
12282725 GATTGTAGAT
Statistics
Matches: 87, Mismatches: 27, Indels: 10
0.70 0.22 0.08
Matches are distributed among these distances:
41 1 0.01
42 3 0.03
43 52 0.60
44 27 0.31
45 3 0.03
46 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (43 bp):
TATCTCCCTAAGCAGCAGCGAAGTAGATCGAAAGCACCAGCCC
Found at i:12282673 original size:44 final size:44
Alignment explanation
Indices: 12282606--12282768 Score: 134
Period size: 44 Copynumber: 3.7 Consensus size: 44
12282596 GCACCAGCCC
* * * * *
12282606 TATCTCCCTGAGTAGCAGCGGAGTAGGTCGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATTGTAGATCT
* * * * *
12282650 TATCTCCCTAAACAGTAGTGGAGTAGATCGAA-A--GCACCAGCCC
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATTGTA-GA-TCT
* * ** * *
12282693 TATCTCCCTGAGCAGCAACGAAGTAGGTCGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATTGTAGATCT
*
12282737 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAA
1 TATCTCCCTAAGCAGTAGTGGAGTAGATCGAA
12282769 AACCACAGAT
Statistics
Matches: 86, Mismatches: 28, Indels: 10
0.69 0.23 0.08
Matches are distributed among these distances:
41 2 0.02
42 1 0.01
43 27 0.31
44 53 0.62
45 1 0.01
46 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.23
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATTGTAGATCT
Found at i:12282692 original size:87 final size:87
Alignment explanation
Indices: 12282560--12282769 Score: 357
Period size: 87 Copynumber: 2.4 Consensus size: 87
12282550 AAAAAAGAAG
* * * *
12282560 TCTTATCTCCCTAAGTAGTAGTGAAGCAGATCGAAAGCACCAGCCCTATCTCCCTGAGTAGCAGC
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGCACCAGCCCTATCTCCCTGAGCAGCAAC
*
12282625 GGAGTAGGTCGAAGATTGTAGA
66 GAAGTAGGTCGAAGATTGTAGA
* *
12282647 TCTTATCTCCCTAAACAGTAGTGGAGTAGATCGAAAGCACCAGCCCTATCTCCCTGAGCAGCAAC
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGCACCAGCCCTATCTCCCTGAGCAGCAAC
12282712 GAAGTAGGTCGAAGATTGTAGA
66 GAAGTAGGTCGAAGATTGTAGA
12282734 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAA
1 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAA
12282770 ACCACAGATC
Statistics
Matches: 114, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 114 1.00
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (87 bp):
TCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAGCACCAGCCCTATCTCCCTGAGCAGCAAC
GAAGTAGGTCGAAGATTGTAGA
Found at i:12282870 original size:43 final size:44
Alignment explanation
Indices: 12282822--12282999 Score: 104
Period size: 43 Copynumber: 4.1 Consensus size: 44
12282812 CATCCAGTCT
12282822 TATCTCCTTAAGCAGTAGTGGAGTAGA-CAGAAGAAACCAATCC
1 TATCTCCTTAAGCAGTAGTGGAGTAGAGCAGAAGAAACCAATCC
* ** * **
12282865 TATCTCTCTAAAGTTGTAGTGGAGTGGATTA-AA-AAACACAGATCC
1 TATCTC-CTTAAGCAGTAGTGGAGTAGAGCAGAAGAAAC-CA-ATCC
* * * * * **
12282910 TATCT-CTCT--GAAGT--TGCAGTAGAGCAGATCGCATCCAATTT
1 TATCTCCT-TAAGCAGTAGTGGAGTAGAGCAGA-AGAAACCAATCC
* * *
12282951 TATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAGAAACTAATCC
1 TATCTCCTTAAGCAGTAGTGGAGTAGAGCAGAAGAAACCAATCC
12282994 TATCTC
1 TATCTC
12283000 TCTAAAGTTG
Statistics
Matches: 95, Mismatches: 27, Indels: 26
0.64 0.18 0.18
Matches are distributed among these distances:
40 8 0.08
41 9 0.09
42 6 0.06
43 30 0.32
44 25 0.26
45 17 0.18
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.26
Consensus pattern (44 bp):
TATCTCCTTAAGCAGTAGTGGAGTAGAGCAGAAGAAACCAATCC
Found at i:12282884 original size:129 final size:129
Alignment explanation
Indices: 12282767--12283058 Score: 485
Period size: 129 Copynumber: 2.3 Consensus size: 129
12282757 GAGCAGATCG
* *
12282767 AAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCTTA
1 AAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAATCTTATCTCCCTA
*
12282832 AGCAGTAGTGGAGTAGACAGAAGAAACCAATCCTATCTCTCTAAAGTTGTAGTGGAGTGGATTA
66 AGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCTCTAAAGTTGTAGTGGAGTGGATTA
* * *
12282896 AAAAACACAGATCCTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAATTTTATCTCCCTA
1 AAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAATCTTATCTCCCTA
* * *
12282961 AGCAGTAGTGGAGCAGACAGAAGAAACTAATCCTATCTCTCTAAAGTTGCAGTAGAGTGGATTA
66 AGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCTCTAAAGTTGTAGTGGAGTGGATTA
* *
12283025 AAAACCGCAGATCTTATCTCCCTGAAGTTGCAGT
1 AAAACCACAGATCTTATCTCTCTGAAGTTGCAGT
12283059 GGAACAGACT
Statistics
Matches: 150, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 150 1.00
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (129 bp):
AAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAATCTTATCTCCCTA
AGCAGTAGTGGAGCAGACAGAAGAAACCAATCCTATCTCTCTAAAGTTGTAGTGGAGTGGATTA
Found at i:12283822 original size:14 final size:14
Alignment explanation
Indices: 12283803--12283829 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12283793 GATTTTTCGT
12283803 TTCTTATTATTTTG
1 TTCTTATTATTTTG
12283817 TTCTTATTATTTT
1 TTCTTATTATTTT
12283830 TATTTAACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (14 bp):
TTCTTATTATTTTG
Found at i:12285011 original size:12 final size:12
Alignment explanation
Indices: 12284991--12285029 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
12284981 TTATAATTCT
* *
12284991 TATATACATATA
1 TATACACATACA
12285003 TATACACATACA
1 TATACACATACA
*
12285015 CATACACATACA
1 TATACACATACA
12285027 TAT
1 TAT
12285030 TTTTATAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.31
Consensus pattern (12 bp):
TATACACATACA
Found at i:12285068 original size:26 final size:28
Alignment explanation
Indices: 12285039--12285102 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 28
12285029 TTTTTATAAA
12285039 TTATATATATATGAAT-ATATACGT-AC
1 TTATATATATATGAATCATATACGTAAC
* * *
12285065 TTATATAT-TTTTATTCATATACGTAAC
1 TTATATATATATGAATCATATACGTAAC
12285092 -TATATATATAT
1 TTATATATATAT
12285103 TTACGTACAC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
25 4 0.13
26 23 0.74
27 4 0.13
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.48
Consensus pattern (28 bp):
TTATATATATATGAATCATATACGTAAC
Found at i:12291652 original size:40 final size:41
Alignment explanation
Indices: 12291607--12291741 Score: 118
Period size: 40 Copynumber: 3.4 Consensus size: 41
12291597 GTTTGGAACA
*
12291607 AAAGCGCCACAAAAAATCGAGCATTAGCGGCGATTTATC-C
1 AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATCAC
* * * **
12291647 AAAGCGCCGCTAAAGATAGAGC-TTCAGCGGCGA-TTATCTG
1 AAAGCGCCACAAAAAATAGAGCATT-AGCGGCGATTTATCAC
* * * * * *
12291687 GAAGCGCCGCTAAAAATAG-GAATTAGCGGCGTTTTA-CAT
1 AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATCAC
12291726 AAAGCGCCACAAAAAA
1 AAAGCGCCACAAAAAA
12291742 CCTAAGACCA
Statistics
Matches: 77, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
39 29 0.38
40 48 0.62
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (41 bp):
AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATCAC
Found at i:12291838 original size:41 final size:41
Alignment explanation
Indices: 12291781--12292083 Score: 326
Period size: 41 Copynumber: 7.4 Consensus size: 41
12291771 TTTTTTAAAC
* * *
12291781 CTTTAGCGGCGTTTTTGTGTAAGCACCGCTAATGCTCAGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
* *
12291822 CTTTAGCGGCGTTTTTGTCTAGGTGCCGCTAATGCTC-GAGT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGA-T
* * *
12291863 CTTTAGCGGCGTTTTCGTGTAGGCGCCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
*
12291904 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
* *
12291945 CTTTAGCGGCGTTTTTATAC-AAGCGCCGCTAATACTCGGAT
1 CTTTAGCGGCGTTTTTGT-CTAAGCGCCGCTAATGCTCGGAT
* ** * * * *
12291986 CTTTAGCGGCATTTTTAACTGAGCGCCACTAATTCTCTTG-T
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTC-GGAT
* * * ** *
12292027 CTTCAGCGGCGTTTGTATCTAAGCGCCGCTAATG-TATTGAC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCT-CGGAT
12292068 CTTTAGCGGCGTTTTT
1 CTTTAGCGGCGTTTTT
12292084 ACCGCCGCTA
Statistics
Matches: 225, Mismatches: 30, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
40 6 0.03
41 215 0.96
42 4 0.02
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.35
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
Found at i:12292588 original size:15 final size:15
Alignment explanation
Indices: 12292567--12292607 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
12292557 TTTAAGGTTA
12292567 ATTTAAGGGTTAGAG
1 ATTTAAGGGTTAGAG
* *
12292582 GTTTAAGGGTTTGAG
1 ATTTAAGGGTTAGAG
12292597 ATTT-AGGGTTA
1 ATTTAAGGGTTA
12292608 ATTTCAACAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (15 bp):
ATTTAAGGGTTAGAG
Found at i:12295982 original size:21 final size:21
Alignment explanation
Indices: 12295948--12295988 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
12295938 AGACGAGCAA
* * *
12295948 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTAGAGTG
12295969 TACTCCAAAACAGGTAGAGT
1 TACTCCAAAACAGGTAGAGT
12295989 TTGAGCAGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTAGAGTG
Found at i:12299780 original size:40 final size:41
Alignment explanation
Indices: 12299735--12299869 Score: 109
Period size: 40 Copynumber: 3.4 Consensus size: 41
12299725 GTTTGGAACA
*
12299735 AAAGCGCCACAAAAAATCGAGCATTAGCGGCGATTTATC-C
1 AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATCAC
* * * * **
12299775 AAAGCGCCGCTAAAGATAGAGC-TTCAGCGGTGA-TTATCTG
1 AAAGCGCCACAAAAAATAGAGCATT-AGCGGCGATTTATCAC
* * * * * *
12299815 GAAGCGCCGCTAAAAATAG-GAATTAGCGGCGTTTTA-CAT
1 AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATCAC
12299854 AAAGCGCCACAAAAAA
1 AAAGCGCCACAAAAAA
12299870 CCTAAGACCA
Statistics
Matches: 75, Mismatches: 16, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
39 28 0.37
40 47 0.63
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (41 bp):
AAAGCGCCACAAAAAATAGAGCATTAGCGGCGATTTATCAC
Found at i:12299966 original size:41 final size:41
Alignment explanation
Indices: 12299909--12300228 Score: 324
Period size: 41 Copynumber: 7.8 Consensus size: 41
12299899 TTTTTTAAAC
*
12299909 CTTTAGCGGCGTTTTTGTGTAAGCGCCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
* * *
12299950 CTTTAGCGGCATTTTTGTCTAGGTGCCGCTAATGCTC-GAGT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGA-T
* * * * *
12299991 CTTTAACGGCGTTTTCGTGTAGGCGCCTCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
*
12300032 CTTTAGCGGCGTTTTTGTCTATGCGCCGCTAATGCTCGGAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
* * *
12300073 CTTTAGCGTCGTTTTTATAC-AAGCGCCGCTAATACTCGGAT
1 CTTTAGCGGCGTTTTTGT-CTAAGCGCCGCTAATGCTCGGAT
** * * * *
12300114 CTTTAGCGGCGTTTTTAACTGAGCGCCACTAATTCTCTTG-T
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTC-GGAT
* * * ** *
12300155 CTTCAGCGGCGTTTGTATCTAAGCGCCGCTAATG-TATTGAC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCT-CGGAT
** *
12300196 CTTTAGCGGCGTTTTTACCGAAGCGCCGCTAAT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAAT
12300229 AGTAACAAAA
Statistics
Matches: 235, Mismatches: 37, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
40 6 0.03
41 225 0.96
42 4 0.02
ACGTcount: A:0.17, C:0.24, G:0.25, T:0.35
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGGAT
Found at i:12300719 original size:15 final size:15
Alignment explanation
Indices: 12300698--12300738 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
12300688 TTTAAGGTTA
12300698 ATTTAAGGGTTAGAG
1 ATTTAAGGGTTAGAG
* *
12300713 GTTTAAGGGTTTGAG
1 ATTTAAGGGTTAGAG
12300728 ATTT-AGGGTTA
1 ATTTAAGGGTTA
12300739 ATTTCAACAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.27, C:0.00, G:0.34, T:0.39
Consensus pattern (15 bp):
ATTTAAGGGTTAGAG
Found at i:12302096 original size:37 final size:38
Alignment explanation
Indices: 12302036--12302107 Score: 110
Period size: 37 Copynumber: 1.9 Consensus size: 38
12302026 AAATTTGATG
* *
12302036 TTTAGGGGTTAGGGGGATTTAGGGTTTAAGGGTTATGC
1 TTTAGGGGTTAGAGGGATTTAGGGGTTAAGGGTTATGC
*
12302074 TTTAGGGGTTA-AGGGATTTAGGGGTTAGGGGTTA
1 TTTAGGGGTTAGAGGGATTTAGGGGTTAAGGGTTA
12302108 GGATGGATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 20 0.65
38 11 0.35
ACGTcount: A:0.19, C:0.01, G:0.43, T:0.36
Consensus pattern (38 bp):
TTTAGGGGTTAGAGGGATTTAGGGGTTAAGGGTTATGC
Found at i:12302126 original size:25 final size:24
Alignment explanation
Indices: 12302074--12302128 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
12302064 AGGGTTATGC
12302074 TTTAGGGGTTAAGGGATTTAGGGG
1 TTTAGGGGTTAAGGGATTTAGGGG
*
12302098 -TTAGGGGTTAGGATGGATTT-GGGG
1 TTTAGGGGTTA--AGGGATTTAGGGG
12302122 TTTAGGG
1 TTTAGGG
12302129 TTTCAACGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
23 10 0.37
24 4 0.15
25 13 0.48
ACGTcount: A:0.18, C:0.00, G:0.47, T:0.35
Consensus pattern (24 bp):
TTTAGGGGTTAAGGGATTTAGGGG
Found at i:12305082 original size:23 final size:23
Alignment explanation
Indices: 12305049--12305095 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
12305039 AATATTATAC
12305049 ATAACTGACAACTTACATAACTT
1 ATAACTGACAACTTACATAACTT
*
12305072 ATAACTTACAACTTACATAACTT
1 ATAACTGACAACTTACATAACTT
12305095 A
1 A
12305096 CATTTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (23 bp):
ATAACTGACAACTTACATAACTT
Found at i:12305091 original size:16 final size:16
Alignment explanation
Indices: 12305046--12305098 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
12305036 ATTAATATTA
*
12305046 TACATAACTGACAACT
1 TACATAACTTACAACT
*
12305062 TACATAACTTATAACT
1 TACATAACTTACAACT
12305078 TAC--AACTTACATAACT
1 TACATAACTTAC--AACT
12305094 TACAT
1 TACAT
12305099 TTTTTTAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 6 0.20
16 24 0.80
ACGTcount: A:0.43, C:0.23, G:0.02, T:0.32
Consensus pattern (16 bp):
TACATAACTTACAACT
Found at i:12305126 original size:34 final size:33
Alignment explanation
Indices: 12305084--12305756 Score: 211
Period size: 34 Copynumber: 21.4 Consensus size: 33
12305074 AACTTACAAC
*
12305084 TTACATAACTTACATTTTTTTAATTATTCATAAA
1 TTACATAACTTA-ATTTTTTTAATTATACATAAA
* **
12305118 TTACATAACATACA--TTAAT-ATTATACATAAA
1 TTACATAACTTA-ATTTTTTTAATTATACATAAA
* ** *
12305149 TTACATAACTTAGTTAATTAATATTATACATAAA
1 TTACATAACTTAATTTTTTTA-ATTATACATAAA
* *
12305183 TTACATAACTTAATTTTATGTT-CTTATACATAAC
1 TTACATAACTTAATTTT-T-TTAATTATACATAAA
12305217 TTAC---A-TTAA------T-ATTATACATAAA
1 TTACATAACTTAATTTTTTTAATTATACATAAA
*
12305239 TTACATAACTTAATTAATTAATTAATATTATACATAAA
1 TTACATAACTTAATT--TT--TTTA-ATTATACATAAA
*
12305277 TTACATAACTTAATTTTATGTT-ATTATACATAAC
1 TTACATAACTTAATTTT-T-TTAATTATACATAAA
12305311 TTAC---A-TTAA-------AATTATACATAAA
1 TTACATAACTTAATTTTTTTAATTATACATAAA
** *
12305333 TTACATAACTTAA-TTAATTAA-TATACATAAG
1 TTACATAACTTAATTTTTTTAATTATACATAAA
** *
12305364 TTACATAACTTACA--TTAAT-ATGATACATAAA
1 TTACATAACTTA-ATTTTTTTAATTATACATAAA
* ** * **
12305395 TTACATAACTTAGTTAATTAATATTATACATATG
1 TTACATAACTTAATTTTTTTA-ATTATACATAAA
** *
12305429 TTACATAACTTACA--TTAAT-ATGATACATAAA
1 TTACATAACTTA-ATTTTTTTAATTATACATAAA
* * ** * *
12305460 TTACATAAGTTAGTTAATTAATATTATACATAAC
1 TTACATAACTTAATTTTTTTA-ATTATACATAAA
* * *
12305494 TTAC--AACTT-A------CAACT-TACATAAC
1 TTACATAACTTAATTTTTTTAATTATACATAAA
*
12305517 TTACATAACTTACATTTTTTTAATTATTCATAAA
1 TTACATAACTTA-ATTTTTTTAATTATACATAAA
**
12305551 TTACATAACTTAA-TTAGTTAA-TATACATAAA
1 TTACATAACTTAATTTTTTTAATTATACATAAA
*
12305582 TTACATAACTTAATTAATTAATTAATATTATACATAAA
1 TTACATAACTTAATT--TT--TTTA-ATTATACATAAA
* ** * *
12305620 TTACATAACTTAGTTAATTAATATTATACATAAC
1 TTACATAACTTAATTTTTTTA-ATTATACATAAA
*
12305654 TTAC--AACTTACA------TAACT-TAC--AAA
1 TTACATAACTTA-ATTTTTTTAATTATACATAAA
* * *
12305677 TTACATAACTTACAATTTTTTAATTATTCGTAAA
1 TTACATAACTTA-ATTTTTTTAATTATACATAAA
* * * * * *
12305711 TTACATAACTTACTTAATTTTCATAATAAATAAC
1 TTACATAACTTAATT-TTTTTAATTATACATAAA
12305745 TTACATAACTTA
1 TTACATAACTTA
12305757 CAACTTACAT
Statistics
Matches: 475, Mismatches: 88, Indels: 152
0.66 0.12 0.21
Matches are distributed among these distances:
22 30 0.06
23 18 0.04
24 2 0.00
25 19 0.04
26 10 0.02
27 2 0.00
30 9 0.02
31 114 0.24
32 25 0.05
33 5 0.01
34 180 0.38
35 3 0.01
36 6 0.01
37 1 0.00
38 51 0.11
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.41
Consensus pattern (33 bp):
TTACATAACTTAATTTTTTTAATTATACATAAA
Found at i:12305159 original size:65 final size:64
Alignment explanation
Indices: 12305084--12305658 Score: 394
Period size: 65 Copynumber: 9.1 Consensus size: 64
12305074 AACTTACAAC
* *
12305084 TTACATAACTTACATTTTTTTAATTATTCATAAATTACATAACATACATTAATATTATACATAAA
1 TTACATAACTTA-ATTTTTTTAATTATACATAAATTACATAACTTACATTAATATTATACATAAA
* ** * * *
12305149 TTACATAACTTAGTTAATTAATATTATACATAAATTACATAACTTA-ATTTTATGTTCTTATACA
1 TTACATAACTTAATTTTTTTA-ATTATACATAAATTACATAACTTACA--TTA--ATATTATACA
*
12305213 TAAC
61 TAAA
*** * *
12305217 TTACATTAA--T-ATTATACATAAAT-TACATAACTTA-ATTAA-TTA-ATTAATATTATACATA
1 TTACA-TAACTTAATT-TTTTTAATTATACATAAATTACA-TAACTTACATTAATATTATACATA
12305275 AA
63 AA
* * *
12305277 TTACATAACTTAA-TTTTAT-GTTAT---T--A-TACATAACTTACATTAAAATTATACATAAA
1 TTACATAACTTAATTTTTTTAATTATACATAAATTACATAACTTACATTAATATTATACATAAA
** * *
12305333 TTACATAACTTAA-TTAATTAA-TATACATAAGTTACATAACTTACATTAATATGATACATAAA
1 TTACATAACTTAATTTTTTTAATTATACATAAATTACATAACTTACATTAATATTATACATAAA
* ** * ** *
12305395 TTACATAACTTAGTTAATTAATATTATACATATGTTACATAACTTACATTAATATGATACATAAA
1 TTACATAACTTAATTTTTTTA-ATTATACATAAATTACATAACTTACATTAATATTATACATAAA
* * ** * * * *
12305460 TTACATAAGTTAGTTAATTAATATTATACATAACTTAC--AACTTAC----A-ACT-TACATAAC
1 TTACATAACTTAATTTTTTTA-ATTATACATAAATTACATAACTTACATTAATATTATACATAAA
* * *
12305517 TTACATAACTTACATTTTTTTAATTATTCATAAATTACATAACTTA-ATTAGTTAATATACATAA
1 TTACATAACTTA-ATTTTTTTAATTATACATAAATTACATAACTTACATTA-ATATTATACATAA
12305581 A
64 A
* *
12305582 TTACATAACTTAATTAATTAATTAATATTATACATAAATTACATAACTTAGTTAATTAATATTAT
1 TTACATAACTTAATT--TT--TTTA-ATTATACATAAATTACATAACTTA---CATTAATATTAT
*
12305647 ACATAAC
58 ACATAAA
12305654 TTACA
1 TTACA
12305659 ACTTACATAA
Statistics
Matches: 408, Mismatches: 58, Indels: 81
0.75 0.11 0.15
Matches are distributed among these distances:
54 5 0.01
55 4 0.01
56 36 0.09
57 33 0.08
58 6 0.01
59 12 0.03
60 20 0.05
61 2 0.00
62 44 0.11
63 11 0.03
64 17 0.04
65 141 0.35
66 9 0.02
67 3 0.01
68 19 0.05
69 26 0.06
72 16 0.04
73 4 0.01
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.41
Consensus pattern (64 bp):
TTACATAACTTAATTTTTTTAATTATACATAAATTACATAACTTACATTAATATTATACATAAA
Found at i:12305306 original size:94 final size:94
Alignment explanation
Indices: 12305119--12305354 Score: 408
Period size: 94 Copynumber: 2.6 Consensus size: 94
12305109 ATTCATAAAT
* *
12305119 TACATAACATACATTAATATTATACATAAATTACATAAC----TTAGTTAATTAATATTATACAT
1 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATTAATATTATACAT
*
12305180 AAATTACATAACTTAATTTTATGTTCTTA
66 AAATTACATAACTTAATTTTATGTTATTA
12305209 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATTAATATTATACAT
1 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATTAATATTATACAT
12305274 AAATTACATAACTTAATTTTATGTTATTA
66 AAATTACATAACTTAATTTTATGTTATTA
*
12305303 TACATAACTTACATTAAAATTATACATAAATTACATAACTTAATTAATTAAT
1 TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAAT
12305355 ATACATAAGT
Statistics
Matches: 138, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
90 38 0.28
94 100 0.72
ACGTcount: A:0.46, C:0.11, G:0.01, T:0.42
Consensus pattern (94 bp):
TACATAACTTACATTAATATTATACATAAATTACATAACTTAATTAATTAATTAATATTATACAT
AAATTACATAACTTAATTTTATGTTATTA
Found at i:12305339 original size:9 final size:9
Alignment explanation
Indices: 12305325--12305467 Score: 50
Period size: 9 Copynumber: 15.8 Consensus size: 9
12305315 ATTAAAATTA
12305325 TACATAAAT
1 TACATAAAT
*
12305334 TACATAACT
1 TACATAAAT
*
12305343 TA-ATTAAT
1 TACATAAAT
12305351 TA-AT--A-
1 TACATAAAT
*
12305356 TACATAAGT
1 TACATAAAT
*
12305365 TACATAACT
1 TACATAAAT
12305374 TACATTAATAT
1 TACA-TAA-AT
12305385 GATACATAAAT
1 --TACATAAAT
*
12305396 TACATAACT
1 TACATAAAT
* *
12305405 TA-GTTAAT
1 TACATAAAT
*
12305413 TA-AT-ATT
1 TACATAAAT
**
12305420 ATACATATGT
1 -TACATAAAT
*
12305430 TACATAACT
1 TACATAAAT
12305439 TACATTAATAT
1 TACA-TAA-AT
12305450 GATACATAAAT
1 --TACATAAAT
12305461 TACATAA
1 TACATAA
12305468 GTTAGTTAAT
Statistics
Matches: 102, Mismatches: 17, Indels: 30
0.68 0.11 0.20
Matches are distributed among these distances:
5 2 0.02
6 3 0.03
7 2 0.02
8 16 0.16
9 52 0.51
10 7 0.07
11 6 0.06
12 6 0.06
13 8 0.08
ACGTcount: A:0.48, C:0.11, G:0.03, T:0.38
Consensus pattern (9 bp):
TACATAAAT
Found at i:12305517 original size:9 final size:9
Alignment explanation
Indices: 12305486--12305862 Score: 102
Period size: 9 Copynumber: 44.3 Consensus size: 9
12305476 ATTAATATTA
12305486 TACATAACT
1 TACATAACT
12305495 TAC--AACT
1 TACATAACT
12305502 TAC--AACT
1 TACATAACT
12305509 TACATAACT
1 TACATAACT
12305518 TACATAACT
1 TACATAACT
***
12305527 TACATTTTTT
1 TACA-TAACT
*
12305537 TA-ATTA-T
1 TACATAACT
*
12305544 T-CATAAAT
1 TACATAACT
12305552 TACATAACT
1 TACATAACT
* *
12305561 TA-ATTAGT
1 TACATAACT
12305569 TA-AT-A--
1 TACATAACT
*
12305574 TACATAAAT
1 TACATAACT
12305583 TACATAACT
1 TACATAACT
12305592 TA-ATTAA-T
1 TACA-TAACT
*
12305600 TA-ATTAATATT
1 TACA-T-A-ACT
*
12305611 ATACATAAAT
1 -TACATAACT
12305621 TACATAACT
1 TACATAACT
**
12305630 TAGTTAA-T
1 TACATAACT
*
12305638 TA-AT-ATT
1 TACATAACT
12305645 ATACATAACT
1 -TACATAACT
12305655 TAC--AACT
1 TACATAACT
12305662 TACATAACT
1 TACATAACT
12305671 TACA-AA-T
1 TACATAACT
12305678 TACATAACT
1 TACATAACT
***
12305687 TACAATTTTT
1 TAC-ATAACT
*
12305697 TA-ATTA-T
1 TACATAACT
* *
12305704 T-CGTAAAT
1 TACATAACT
12305712 TACATAACT
1 TACATAACT
* *
12305721 TACTTAATT
1 TACATAACT
*
12305730 TTCATAA--
1 TACATAACT
*
12305737 TAAATAACT
1 TACATAACT
12305746 TACATAACT
1 TACATAACT
12305755 TAC--AACT
1 TACATAACT
12305762 TACATAACT
1 TACATAACT
* ** *
12305771 TATACGACA
1 TACATAACT
12305780 TACATAACT
1 TACATAACT
* *
12305789 TACATAGCA
1 TACATAACT
*
12305798 TA-ATTTGACT
1 TACA--TAACT
*
12305808 AATACACAACT
1 --TACATAACT
*
12305819 TACATAATT
1 TACATAACT
*
12305828 TTCATAA--
1 TACATAACT
*
12305835 TAAATAACT
1 TACATAACT
12305844 TACATAA--
1 TACATAACT
12305851 TACATAACT
1 TACATAACT
12305860 TAC
1 TAC
12305863 GTAGCTTAGT
Statistics
Matches: 276, Mismatches: 51, Indels: 82
0.67 0.12 0.20
Matches are distributed among these distances:
5 2 0.01
6 3 0.01
7 63 0.23
8 34 0.12
9 146 0.53
10 16 0.06
11 5 0.02
12 5 0.02
13 2 0.01
ACGTcount: A:0.45, C:0.16, G:0.02, T:0.38
Consensus pattern (9 bp):
TACATAACT
Found at i:12305667 original size:16 final size:16
Alignment explanation
Indices: 12305646--12305792 Score: 93
Period size: 16 Copynumber: 8.8 Consensus size: 16
12305636 ATTAATATTA
12305646 TACATAACTTACAACT
1 TACATAACTTACAACT
*
12305662 TACATAACTTACAAAT
1 TACATAACTTACAACT
12305678 TACATAACTTACAA-T
1 TACATAACTTACAACT
*** *
12305693 TTTTTAA-TTATTCGTAAAT
1 TACATAACTTA--C--AACT
*
12305712 TACATAACTTACTTAATT
1 TACATAACTTAC--AACT
* * *
12305730 TTCATAA-TAAATAACT
1 TACATAACT-TACAACT
12305746 TACATAACTTACAACT
1 TACATAACTTACAACT
* *
12305762 TACATAACTTATACGACA
1 TACATAAC-T-TACAACT
12305780 TACATAACTTACA
1 TACATAACTTACA
12305793 TAGCATAATT
Statistics
Matches: 102, Mismatches: 19, Indels: 20
0.72 0.13 0.14
Matches are distributed among these distances:
14 3 0.03
15 5 0.05
16 55 0.54
17 4 0.04
18 27 0.26
19 5 0.05
20 3 0.03
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.37
Consensus pattern (16 bp):
TACATAACTTACAACT
Found at i:12305674 original size:25 final size:24
Alignment explanation
Indices: 12305646--12305772 Score: 64
Period size: 25 Copynumber: 5.1 Consensus size: 24
12305636 ATTAATATTA
12305646 TACATAACTTACAACTTACATAACT
1 TACATAA-TTACAACTTACATAACT
***
12305671 TACA-AATTACATAACTTACAATTTTT
1 TACATAATTAC--AACTTAC-ATAACT
* *
12305697 TA-ATTATT-CGTAAATTACATAACT
1 TACATAATTAC--AACTTACATAACT
* * * *
12305721 TACTTAATTTTCATA-ATAAATAACT
1 TACATAA-TTACA-ACTTACATAACT
12305746 TACATAACTTACAACTTACATAACT
1 TACATAA-TTACAACTTACATAACT
12305771 TA
1 TA
12305773 TACGACATAC
Statistics
Matches: 75, Mismatches: 18, Indels: 18
0.68 0.16 0.16
Matches are distributed among these distances:
23 4 0.05
24 8 0.11
25 51 0.68
26 11 0.15
27 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.01, T:0.39
Consensus pattern (24 bp):
TACATAATTACAACTTACATAACT
Found at i:12305784 original size:34 final size:32
Alignment explanation
Indices: 12305645--12305792 Score: 95
Period size: 34 Copynumber: 4.4 Consensus size: 32
12305635 AATTAATATT
*
12305645 ATACATAACTTACAACTTACATAACT-TACAA
1 ATACATAACTTACAACTTACATAATTATACAA
*** *
12305676 ATTACATAACTTACAA-TTTTTTAATTATTCGTAA
1 A-TACATAACTTACAACTTACATAATTATAC--AA
* * * *
12305710 ATTACATAACTTACTTAATTTTCATAATAAATA-AC
1 A-TACATAACTTAC--AACTTACATAAT-TATACAA
* *
12305745 TTACATAACTTACAACTTACATAACTTATACGAC
1 ATACATAACTTACAACTTACATAA-TTATAC-AA
12305779 ATACATAACTTACA
1 ATACATAACTTACA
12305793 TAGCATAATT
Statistics
Matches: 91, Mismatches: 15, Indels: 19
0.73 0.12 0.15
Matches are distributed among these distances:
31 7 0.08
32 28 0.31
33 1 0.01
34 43 0.47
35 1 0.01
36 2 0.02
37 7 0.08
38 2 0.02
ACGTcount: A:0.44, C:0.18, G:0.01, T:0.36
Consensus pattern (32 bp):
ATACATAACTTACAACTTACATAATTATACAA
Found at i:12305841 original size:16 final size:16
Alignment explanation
Indices: 12305830--12305862 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
12305820 ACATAATTTT
12305830 CATAATAAATAACTTA
1 CATAATAAATAACTTA
*
12305846 CATAATACATAACTTA
1 CATAATAAATAACTTA
12305862 C
1 C
12305863 GTAGCTTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.18, G:0.00, T:0.30
Consensus pattern (16 bp):
CATAATAAATAACTTA
Found at i:12309192 original size:66 final size:65
Alignment explanation
Indices: 12309085--12309255 Score: 220
Period size: 66 Copynumber: 2.6 Consensus size: 65
12309075 GAGCAAATTA
* * *
12309085 CACAACTTAAAGCAGAGGCAACATCGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCAA
1 CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAG-TATGAAGAACTCAA
12309149 G
65 G
* *
12309150 CTACAACTGAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCCA
1 C-ACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCAA
12309215 G
65 G
* * *
12309216 CAGCAGCTTAAAGCAGATG-AGGCAGCAAGAGAAGCAGAGG
1 CA-CAACTTAAAGCAGATGCA-GCAGCGAGAGAAGCTGAGG
12309256 CCGCAGCGAG
Statistics
Matches: 93, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
65 3 0.03
66 85 0.91
67 5 0.05
ACGTcount: A:0.43, C:0.18, G:0.27, T:0.12
Consensus pattern (65 bp):
CACAACTTAAAGCAGATGCAGCAGCGAGAGAAGCTGAGGTTCAACAAAAGTATGAAGAACTCAAG
Found at i:12309261 original size:21 final size:21
Alignment explanation
Indices: 12309237--12309338 Score: 114
Period size: 21 Copynumber: 4.9 Consensus size: 21
12309227 AGCAGATGAG
* * *
12309237 GCAGCAAGAGAAGCAGAGGCC
1 GCAGCGAGGGAAGCAGAGGCT
* * * *
12309258 GCAGCGAGAGAAGTATAGGAT
1 GCAGCGAGGGAAGCAGAGGCT
*
12309279 GCAGCGAGGGAAGCAGAAGCT
1 GCAGCGAGGGAAGCAGAGGCT
**
12309300 AAAGCGAGGGAAGCAGAGGCT
1 GCAGCGAGGGAAGCAGAGGCT
12309321 GCAGCGAGGGAAGCAGAG
1 GCAGCGAGGGAAGCAGAG
12309339 CAGTGTCAAA
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 66 1.00
ACGTcount: A:0.36, C:0.17, G:0.42, T:0.05
Consensus pattern (21 bp):
GCAGCGAGGGAAGCAGAGGCT
Found at i:12309737 original size:43 final size:43
Alignment explanation
Indices: 12309690--12309910 Score: 221
Period size: 43 Copynumber: 5.1 Consensus size: 43
12309680 AGGTGTTGGC
* *
12309690 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGT
1 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* ** * **
12309733 CTTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGATCATAGT
1 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
*
12309776 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGT
1 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* * ** * ** *
12309819 CTATT-GAGGCGTTTGAGGGGAAAGCGCCGCTAAAGACCTTGAT
1 CT-TTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* * * *
12309862 CTTTAGTGGCGTTTTTGG-GAGAAGCGCCACTAAAGATAAGGGT
1 CTTTAGTGGCGTTTGTGGTCA-AAGCGCCGCTAAAGATCAGGGT
12309905 CTTTAG
1 CTTTAG
12309911 CGGTGCTTCC
Statistics
Matches: 142, Mismatches: 33, Indels: 6
0.78 0.18 0.03
Matches are distributed among these distances:
42 4 0.03
43 136 0.96
44 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (43 bp):
CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
Found at i:12309795 original size:86 final size:86
Alignment explanation
Indices: 12309690--12309913 Score: 292
Period size: 86 Copynumber: 2.6 Consensus size: 86
12309680 AGGTGTTGGC
*
12309690 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAA
1 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGAGGAAAA
12309755 AGCGCCACTAAAGATCATAG-T
66 AGCGCCACTAAAGA-CATAGAT
* * * * **
12309776 CTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATT-GAGGCGTTTGAGGGGA
1 CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCT-TTAGCGGCGTTTGAGGAAA
* * *
12309840 AAGCGCCGCTAAAGACCTTGAT
65 AAGCGCCACTAAAGACATAGAT
* *
12309862 CTTTAGTGGCGTTTTTGG-GAGAAGCGCCACTAAAGATAAGGGTCTTTAGCGG
1 CTTTAGTGGCGTTTTTGGTCA-AAGCGCCGCTAAAGATAAGGGTCTTTAGCGG
12309914 TGCTTCCACT
Statistics
Matches: 118, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
85 6 0.05
86 110 0.93
87 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (86 bp):
CTTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGAGGAAAA
AGCGCCACTAAAGACATAGAT
Found at i:12310692 original size:3 final size:3
Alignment explanation
Indices: 12310684--12310729 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
12310674 ATGTGTAAGT
* * *
12310684 ATA ATA ATA AT- ATA ATA ATG ATA ATA ATA ATA ATT ATT ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
12310730 TACAACCACT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:12310730 original size:12 final size:12
Alignment explanation
Indices: 12310683--12310731 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
12310673 TATGTGTAAG
12310683 TATAATAATAA-
1 TATAATAATAAT
*
12310694 TATAATAATGAT
1 TATAATAATAAT
*
12310706 AATAATAATAAT
1 TATAATAATAAT
*
12310718 TATTATAATAAT
1 TATAATAATAAT
12310730 TA
1 TA
12310732 CAACCACTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
11 10 0.31
12 22 0.69
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (12 bp):
TATAATAATAAT
Found at i:12312221 original size:100 final size:100
Alignment explanation
Indices: 12312036--12312595 Score: 804
Period size: 100 Copynumber: 5.6 Consensus size: 100
12312026 CTCAAGTCCA
*
12312036 CTCCACTGCACCACCAGGGAAGTAAGATCTGCCGCTGTGGCTTCAATCTTTTTAATTGCGCTGTC
1 CTCCACTGCACCACCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTC
* *
12312101 GGAGAAACCAGATCCACCGTTATGACTTCAATCTG
66 GGAGAAACCAGATCCGCCGTTGTGACTTCAATCTG
* *
12312136 CTACACTGCACCGCCAGGGAAGTAAGAT-TCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGT
1 CTCCACTGCACCACCAGGGAAGTAAGATCT-GCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGT
* * *
12312200 CGAAGAAATCAAATCCGCCGTTGTGACTTCAATCTG
65 CGGAGAAACCAGATCCGCCGTTGTGACTTCAATCTG
* *
12312236 CTCCACTACACCACCAGGGAAGTAAGATCTGCTGTTGTGGCTTCAAAAAT-TTTTTAATTGCGCT
1 CTCCACTGCACCACCAGGGAAGTAAGATCTGCCGTTGTGGCTTC---AATCTTTTTAATTGCGCT
*
12312300 ATC-GAGGAAACCAGATCCGCCGTTGTGACTTCAATCTG
63 GTCGGA-GAAACCAGATCCGCCGTTGTGACTTCAATCTG
* * * *
12312338 CTCCACTGCACCACCAAGGAAGTAAGATCTGCTGTTGTGGCTTCAAACTTTTAAATTGCGCTGTC
1 CTCCACTGCACCACCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTC
* *
12312403 GGAGAAACCAGATCCGCCGTTATGACTTTAATCTG
66 GGAGAAACCAGATCCGCCGTTGTGACTTCAATCTG
* * ***
12312438 CT-CACTGCACCGCCAGGGAAGTAAGATCCGTTATTGTGGCTTCAATCTTTTTAATTGCGCTGTC
1 CTCCACTGCACCACCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTC
*
12312502 GGGGAAACCAGATCCGCCGTTGTGACTTCAATCTG
66 GGAGAAACCAGATCCGCCGTTGTGACTTCAATCTG
* ** *
12312537 CTCCACTACACTGCCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGC
1 CTCCACTGCACCACCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGC
12312596 AATGCCAAAG
Statistics
Matches: 413, Mismatches: 38, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
99 92 0.22
100 226 0.55
101 4 0.01
102 88 0.21
103 3 0.01
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.29
Consensus pattern (100 bp):
CTCCACTGCACCACCAGGGAAGTAAGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTGTC
GGAGAAACCAGATCCGCCGTTGTGACTTCAATCTG
Found at i:12312602 original size:50 final size:50
Alignment explanation
Indices: 12312049--12312602 Score: 260
Period size: 50 Copynumber: 11.1 Consensus size: 50
12312039 CACTGCACCA
* * *
12312049 CCAGGGAAGTAAGATCTGCCGCTGTGGCTTCAATCTTTTTAATTGCGCTG
1 CCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTG
* *** * * * ** * *
12312099 TC-GGAGAAACCAGATCCACCGTTATGACTTCAATC-TGCTACACTGCACCG
1 CCAGG-GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTA-ATTGCACTG
* *
12312149 CCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCGCTG
1 CCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTG
* * * * ** ** * * **
12312199 TC-GAAGAAATCAA-ATCCGCCGTTGTGACTTCAATCTGCTCCACTACACCA
1 CCAG-GGAAGT-AAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTG
* * * *
12312249 CCAGGGAAGTAAGATCTGCTGTTGTGGCTTCAAAAAT-TTTTTAATTGCGCTA
1 CCAGGGAAGTAAGATCCGCCGTTGTGGCTTC---AATCTTTTTAATTGCACTG
* *** * ** ** * **
12312301 TC-GAGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTGCACCA
1 CCAG-GGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTG
* * * * * *
12312351 CCAAGGAAGTAAGATCTGCTGTTGTGGCTTCAAACTTTTAAATTGCGCTG
1 CCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTG
* *** * * * ** * * *
12312401 TC-GGAGAAACCAGATCCGCCGTTATGACTTTAATC-TGCTCACTGCACCG
1 CCAGG-GAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTG
*** *
12312450 CCAGGGAAGTAAGATCCGTTATTGTGGCTTCAATCTTTTTAATTGCGCTG
1 CCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTG
* * *** * ** ** * *
12312500 TCGGGGAAACCAGATCCGCCGTTGTGACTTCAATCTGCTCCACTACACTG
1 CCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTG
*
12312550 CCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATG
1 CCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTG
12312600 CCA
1 CCA
12312603 AAGAGATAAG
Statistics
Matches: 338, Mismatches: 149, Indels: 34
0.65 0.29 0.07
Matches are distributed among these distances:
49 41 0.12
50 256 0.76
51 9 0.03
52 29 0.09
53 3 0.01
ACGTcount: A:0.24, C:0.25, G:0.22, T:0.29
Consensus pattern (50 bp):
CCAGGGAAGTAAGATCCGCCGTTGTGGCTTCAATCTTTTTAATTGCACTG
Found at i:12314021 original size:7 final size:7
Alignment explanation
Indices: 12314003--12314052 Score: 57
Period size: 7 Copynumber: 7.0 Consensus size: 7
12313993 TAGCCTCTCC
*
12314003 TTTTTTA
1 TTTTTCA
12314010 TTTTTCCA
1 TTTTT-CA
12314018 TTTTTCA
1 TTTTTCA
12314025 TTTTTCA
1 TTTTTCA
*
12314032 TTTTT-T
1 TTTTTCA
12314038 TATTTTCA
1 T-TTTTCA
12314046 TTTTTCA
1 TTTTTCA
12314053 CATCTTTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
6 1 0.03
7 29 0.78
8 7 0.19
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTTTCA
Found at i:12320524 original size:26 final size:25
Alignment explanation
Indices: 12320494--12320543 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
12320484 ACACCATTTA
*
12320494 TTTCTCCTTTCATCTTCCTCTTTTTT
1 TTTCTCCTTTCATCCTCC-CTTTTTT
*
12320520 TTTCTCCTTTCTTCCTCCCTTTTT
1 TTTCTCCTTTCATCCTCCCTTTTT
12320544 CTCTTATCGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTCTCCTTTCATCCTCCCTTTTTT
Found at i:12321562 original size:22 final size:22
Alignment explanation
Indices: 12321493--12321568 Score: 71
Period size: 23 Copynumber: 3.4 Consensus size: 22
12321483 GGAGGAAGTG
*
12321493 CTACTGGCGGTTTATTCGCATAT
1 CTACTGGCGG-TTATTTGCATAT
* * * * *
12321516 CTACTGGAAGTTTATCTACAAAT
1 CTACTGG-CGGTTATTTGCATAT
*
12321539 CTGCTGGCGGTTATTTGCATAT
1 CTACTGGCGGTTATTTGCATAT
12321561 CTACTGGC
1 CTACTGGC
12321569 AGTATATCCA
Statistics
Matches: 39, Mismatches: 13, Indels: 3
0.71 0.24 0.05
Matches are distributed among these distances:
22 17 0.44
23 21 0.54
24 1 0.03
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (22 bp):
CTACTGGCGGTTATTTGCATAT
Found at i:12322652 original size:100 final size:97
Alignment explanation
Indices: 12322540--12322823 Score: 292
Period size: 100 Copynumber: 2.9 Consensus size: 97
12322530 TAAAATATTT
12322540 CTTTTAACATAATGATATATAAAAATATATATTTCCATTATATAATTACATATTTATTATTTTAT
1 CTTTTAACATAATGATATATAAAAATATATATTT-CATTATATAATTACATATTTATTATTTTAT
**
12322605 TTATATAAATAATGGAAG-TATTAATTTTAAAAATA
65 TTATATAAATAAAAG-AGTTATTAA-TTT-AAAATA
* * * * *
12322640 TTTTTGACATAATGATATATATAAAATGTACATTTTATTATATAATTAC--ATTT-TTA--TTAT
1 CTTTTAACATAATGATATATA-AAAATATATATTTCATTATATAATTACATATTTATTATTTTAT
*
12322700 TTTTATAAATAAAAGAGTTATTAATTTAAAATA
65 TTATATAAATAAAAGAGTTATTAATTTAAAATA
* * * * *
12322733 CATTTAACATAATGATTTATGTAAATATATATATATTTTGATTATATAAGTACATGTTTATTATT
1 CTTTTAACATAATGA--TATATAAA-A-ATATATA-TTTCATTATATAATTACATATTTATTATT
* * *
12322798 TTGTTTATATAAATAAATGATTTATT
61 TTATTTATATAAATAAAAGAGTTATT
12322824 GTAACACCCC
Statistics
Matches: 151, Mismatches: 21, Indels: 22
0.78 0.11 0.11
Matches are distributed among these distances:
93 18 0.12
94 7 0.05
95 28 0.19
96 5 0.03
97 18 0.12
98 4 0.03
99 3 0.02
100 35 0.23
101 11 0.07
102 22 0.15
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (97 bp):
CTTTTAACATAATGATATATAAAAATATATATTTCATTATATAATTACATATTTATTATTTTATT
TATATAAATAAAAGAGTTATTAATTTAAAATA
Found at i:12322805 original size:28 final size:29
Alignment explanation
Indices: 12322766--12322823 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
12322756 AATATATATA
* *
12322766 TATTTTGATTATATAAGTACATG-TTTAT
1 TATTTTGATTATATAAATAAATGATTTAT
*
12322794 TATTTTGTTTATATAAATAAATGATTTAT
1 TATTTTGATTATATAAATAAATGATTTAT
12322823 T
1 T
12322824 GTAACACCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 20 0.77
29 6 0.23
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (29 bp):
TATTTTGATTATATAAATAAATGATTTAT
Found at i:12335034 original size:15 final size:17
Alignment explanation
Indices: 12334994--12335035 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
12334984 TGTAATAATT
*
12334994 AAATATTGTTGGTGTAG
1 AAATATTATTGGTGTAG
*
12335011 AAATCTTATTGGT-TA-
1 AAATATTATTGGTGTAG
12335026 AAATATTATT
1 AAATATTATT
12335036 ATACTATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 9 0.41
16 2 0.09
17 11 0.50
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (17 bp):
AAATATTATTGGTGTAG
Found at i:12337975 original size:8 final size:8
Alignment explanation
Indices: 12337962--12337986 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
12337952 GGGATGCATT
12337962 GAAGTTGA
1 GAAGTTGA
12337970 GAAGTTGA
1 GAAGTTGA
12337978 GAAGTTGA
1 GAAGTTGA
12337986 G
1 G
12337987 CTTGGTCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.40, T:0.24
Consensus pattern (8 bp):
GAAGTTGA
Found at i:12339683 original size:40 final size:40
Alignment explanation
Indices: 12339632--12339856 Score: 285
Period size: 40 Copynumber: 5.7 Consensus size: 40
12339622 TTGAATGCTG
* * * *
12339632 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTG-TTAAA
* *
12339672 TCCGGATTAAGTTCCGAAGGCATTTGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
**
12339712 TCCGGGTTAAGTCCCGAAGGCATACGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
12339752 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
* * **
12339792 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
* *
12339831 TCCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
12339857 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.21
40 121 0.73
41 9 0.05
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
Found at i:12339874 original size:79 final size:80
Alignment explanation
Indices: 12339679--12339889 Score: 228
Period size: 80 Copynumber: 2.7 Consensus size: 80
12339669 ATATCCGGAT
* ** ** *
12339679 TAAGTTCCGAAGGCATTTGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATACGTGCGAG
1 TAAGTCCCGAAGGCATTTGAACGAGGAGCTAAATCCGGGTTAAGTCCCGAAGGCATACGTGCGAG
** *
12339744 TTGTTAAATCCGGGT
66 TTACTAAATCCGGGC
** ** * * * *
12339759 TAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCAT-TGTGTGAG
1 TAAGTCCCGAAGGCATTTGAACGAGGAGCTAAATCCGGGTTAAGTCCCGAAGGCATACGTGCGAG
12339823 TTACTAAATCCGGGC
66 TTACTAAATCCGGGC
* * *
12339838 TATGTCCCGAAGGCATTTGAACGAGGAGCTATATCC-GGTTAAATCCCGAAGG
1 TAAGTCCCGAAGGCATTTGAACGAGGAGCTAAATCCGGGTTAAGTCCCGAAGG
12339890 TACGTGATTT
Statistics
Matches: 115, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
78 14 0.12
79 47 0.41
80 54 0.47
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (80 bp):
TAAGTCCCGAAGGCATTTGAACGAGGAGCTAAATCCGGGTTAAGTCCCGAAGGCATACGTGCGAG
TTACTAAATCCGGGC
Found at i:12347309 original size:40 final size:40
Alignment explanation
Indices: 12347258--12347482 Score: 285
Period size: 40 Copynumber: 5.7 Consensus size: 40
12347248 TTGAATGCTG
* * * *
12347258 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTG-TTAAA
* *
12347298 TCCGGATTAAGTTCCGAAGGCATTTGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
**
12347338 TCCGGGTTAAGTCCCGAAGGCATACGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
12347378 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
* * **
12347418 TCCGGGTTATGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
* *
12347457 TCCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
12347483 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.21
40 121 0.73
41 9 0.05
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAA
Found at i:12347500 original size:79 final size:80
Alignment explanation
Indices: 12347305--12347515 Score: 228
Period size: 80 Copynumber: 2.7 Consensus size: 80
12347295 ATATCCGGAT
* ** ** *
12347305 TAAGTTCCGAAGGCATTTGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATACGTGCGAG
1 TAAGTCCCGAAGGCATTTGAACGAGGAGCTAAATCCGGGTTAAGTCCCGAAGGCATACGTGCGAG
** *
12347370 TTGTTAAATCCGGGT
66 TTACTAAATCCGGGC
** ** * * * *
12347385 TAAGTCCCGAAGGCATTTGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCAT-TGTGTGAG
1 TAAGTCCCGAAGGCATTTGAACGAGGAGCTAAATCCGGGTTAAGTCCCGAAGGCATACGTGCGAG
12347449 TTACTAAATCCGGGC
66 TTACTAAATCCGGGC
* * *
12347464 TATGTCCCGAAGGCATTTGAACGAGGAGCTATATCC-GGTTAAATCCCGAAGG
1 TAAGTCCCGAAGGCATTTGAACGAGGAGCTAAATCCGGGTTAAGTCCCGAAGG
12347516 TACGTGATTT
Statistics
Matches: 115, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
78 14 0.12
79 47 0.41
80 54 0.47
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (80 bp):
TAAGTCCCGAAGGCATTTGAACGAGGAGCTAAATCCGGGTTAAGTCCCGAAGGCATACGTGCGAG
TTACTAAATCCGGGC
Found at i:12361481 original size:97 final size:97
Alignment explanation
Indices: 12361315--12361511 Score: 349
Period size: 97 Copynumber: 2.0 Consensus size: 97
12361305 ATTCGCAAAA
*
12361315 CAACTAACAAGCAAAGACATCCTAGATACATGCCATTACAAAATTAAACATCACCACACTTGAGA
1 CAACTAACAAGCAAAGACATCCTAGATACATGCCATTAAAAAATTAAACATCACCACACTTGAGA
*
12361380 TCGAGATCGTCGTTGGATGCTGAGTCGGTGAC
66 TCGAGATAGTCGTTGGATGCTGAGTCGGTGAC
*
12361412 CAACTAACAAGCAAAGACATCCTAGGTACATGCCATTAAAAAATTAAACATCACCACACTTGAGA
1 CAACTAACAAGCAAAGACATCCTAGATACATGCCATTAAAAAATTAAACATCACCACACTTGAGA
**
12361477 TCGAGATAGTCGTTGGATGCTGAGTTTGTGAC
66 TCGAGATAGTCGTTGGATGCTGAGTCGGTGAC
12361509 CAA
1 CAA
12361512 AAGAGAGCAC
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
97 95 1.00
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.22
Consensus pattern (97 bp):
CAACTAACAAGCAAAGACATCCTAGATACATGCCATTAAAAAATTAAACATCACCACACTTGAGA
TCGAGATAGTCGTTGGATGCTGAGTCGGTGAC
Found at i:12362289 original size:75 final size:73
Alignment explanation
Indices: 12362160--12362410 Score: 309
Period size: 74 Copynumber: 3.4 Consensus size: 73
12362150 CTGATGGAAG
* * * *
12362160 TTGCGCCCAATGCTAATTGGATAAATCGATG-AATAATTAGTGAGCCCAGCTCTAGTTGGATAAA
1 TTGCGCCCAGTGCTAGTCGGATAAA-CGACGAAATAATTAGT-AGCCCAGCTCTAGTTGGATAAA
12362224 CCAATGATAT
64 CCAATGATAT
* *
12362234 TTGCGCCCACTACTAGTCGGATAAACAGACGAAATAATTAGTAAGCCCAGCTCTAGTTGGATAAA
1 TTGCGCCCAGTGCTAGTCGGATAAAC-GACGAAATAATTAGT-AGCCCAGCTCTAGTTGGATAAA
*
12362299 CCAACGATAT
64 CCAATGATAT
*
12362309 TAT--GCCCAGTGCTAGTCGGATAAATCGATGAAATAATTAGTA----AGCTCTAGTTGGATAAA
1 T-TGCGCCCAGTGCTAGTCGGATAAA-CGACGAAATAATTAGTAGCCCAGCTCTAGTTGGATAAA
12362368 CCAATGATAT
64 CCAATGATAT
*
12362378 TTGCGCCCAGTGCTAGTCGGATAAGCCGACGAA
1 TTGCGCCCAGTGCTAGTCGGATAA-ACGACGAA
12362411 TGTGTGTCCG
Statistics
Matches: 157, Mismatches: 13, Indels: 18
0.84 0.07 0.10
Matches are distributed among these distances:
68 1 0.01
69 27 0.17
70 26 0.17
73 2 0.01
74 57 0.36
75 43 0.27
76 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (73 bp):
TTGCGCCCAGTGCTAGTCGGATAAACGACGAAATAATTAGTAGCCCAGCTCTAGTTGGATAAACC
AATGATAT
Found at i:12362296 original size:40 final size:40
Alignment explanation
Indices: 12362190--12362353 Score: 113
Period size: 34 Copynumber: 4.4 Consensus size: 40
12362180 ATAAATCGAT
* * *
12362190 GAATAATTAGTGAGCCCAGCT-CTAGTTGGATAAACCAAT
1 GAATAATTAGTAAGCCCAGCTACTAGTCGGATAAACCAAC
**
12362229 G-AT-ATT--TGCGCCCA-CTACTAGTCGGATAAA-CAGAC
1 GAATAATTAGTAAGCCCAGCTACTAGTCGGATAAACCA-AC
*
12362264 GAAATAATTAGTAAGCCCAGCT-CTAGTTGGATAAACCAAC
1 G-AATAATTAGTAAGCCCAGCTACTAGTCGGATAAACCAAC
* * * *
12362304 G-AT-ATTA-T--GCCCAG-TGCTAGTCGGATAAATCGAT
1 GAATAATTAGTAAGCCCAGCTACTAGTCGGATAAACCAAC
12362338 GAAATAATTAGTAAGC
1 G-AATAATTAGTAAGC
12362354 TCTAGTTGGA
Statistics
Matches: 99, Mismatches: 10, Indels: 31
0.71 0.07 0.22
Matches are distributed among these distances:
33 1 0.01
34 25 0.25
35 21 0.21
36 3 0.03
37 13 0.13
38 8 0.08
39 1 0.01
40 23 0.23
41 4 0.04
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (40 bp):
GAATAATTAGTAAGCCCAGCTACTAGTCGGATAAACCAAC
Found at i:12362394 original size:35 final size:35
Alignment explanation
Indices: 12362176--12362401 Score: 108
Period size: 35 Copynumber: 6.2 Consensus size: 35
12362166 CCAATGCTAA
* *
12362176 TTGGATAAATCGATGAATAATTAGTGAGCCCAGCTCTAG
1 TTGGATAAACCAATGAAT-ATT--TGAGCCCAG-TCTAG
* *
12362215 TTGGATAAACCAATG-ATATTTGCGCCCACTACTAG
1 TTGGATAAACCAATGAATATTTGAGCCCAGT-CTAG
* * *
12362250 TCGGATAAA-CAGACGAAATAATTAGTAAGCCCAGCTCTAG
1 TTGGATAAACCA-ATG-AAT-ATT--TGAGCCCAG-TCTAG
*
12362290 TTGGATAAACCAACG-ATA-TT-ATGCCCAGTGCTAG
1 TTGGATAAACCAATGAATATTTGA-GCCCAGT-CTAG
* * * * **
12362324 TCGGATAAATCGATGAAATAATT-AG-TAAGCTCTAG
1 TTGGATAAACCAATG-AATATTTGAGCCCAG-TCTAG
*
12362359 TTGGATAAACCAATG-ATATTTGCGCCCAGTGCTAG
1 TTGGATAAACCAATGAATATTTGAGCCCAGT-CTAG
*
12362394 TCGGATAA
1 TTGGATAA
12362402 GCCGACGAAT
Statistics
Matches: 145, Mismatches: 24, Indels: 40
0.69 0.11 0.19
Matches are distributed among these distances:
33 7 0.05
34 27 0.19
35 52 0.36
36 6 0.04
37 9 0.06
38 7 0.05
39 13 0.09
40 21 0.14
41 3 0.02
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.27
Consensus pattern (35 bp):
TTGGATAAACCAATGAATATTTGAGCCCAGTCTAG
Found at i:12363923 original size:30 final size:31
Alignment explanation
Indices: 12363884--12363943 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 31
12363874 GGAGGTGGGA
12363884 TGGGAAGGGAATAAAAATTTTAG-GGGAAAAG
1 TGGGAAGGGAATAAAAATTTT-GTGGGAAAAG
*
12363915 TGGG-AGGGAGTAAAAATTTTGTGGGAAAA
1 TGGGAAGGGAATAAAAATTTTGTGGGAAAA
12363944 TAAAAGGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 1 0.04
30 22 0.81
31 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.37, T:0.22
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGTGGGAAAAG
Found at i:12364140 original size:9 final size:9
Alignment explanation
Indices: 12364126--12364150 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
12364116 TATAGTTTGA
12364126 TATTCGAAT
1 TATTCGAAT
12364135 TATTCGAAT
1 TATTCGAAT
12364144 TATTCGA
1 TATTCGA
12364151 GCTATTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (9 bp):
TATTCGAAT
Found at i:12364662 original size:7 final size:7
Alignment explanation
Indices: 12364638--12364681 Score: 65
Period size: 7 Copynumber: 6.4 Consensus size: 7
12364628 TAATTGTTAC
12364638 TATATAA
1 TATATAA
12364645 T-TA-ATA
1 TATATA-A
12364651 TATATAA
1 TATATAA
12364658 TATATAA
1 TATATAA
12364665 TATATAA
1 TATATAA
12364672 TATATAA
1 TATATAA
12364679 TAT
1 TAT
12364682 CCTTATAAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
5 1 0.03
6 4 0.12
7 28 0.82
8 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
TATATAA
Found at i:12367938 original size:74 final size:76
Alignment explanation
Indices: 12367845--12368056 Score: 171
Period size: 74 Copynumber: 2.8 Consensus size: 76
12367835 AAAAATGTGT
** * ** * *
12367845 GCCCAGCACTAGTCAGATAAACTGACGGA-AGTTGCGCTTTA-CTCTAGTTGGATAAACCGACG-
1 GCCCAGCACTAGTTGGATAAACAGACGGATAGTTGCGC-CCAGCGCTAGTTGGATAAACCGAAGA
12367907 AATAATTAGTGA
65 AATAATTAGTGA
* * * *
12367919 GCCCAGCTCTAGTTGGATAAACAAAC-GATATTTGCGCCCAGCGCTAGTTGGATAAACTGAAGAA
1 GCCCAGCACTAGTTGGATAAACAGACGGATAGTTGCGCCCAGCGCTAGTTGGATAAACCGAAGAA
12367983 ATAATTAGTGA
66 ATAATTAGTGA
* * * * * * * * *
12367994 ACCCAACGCTAGTTGAATAAACCGACGAAATAATTAGTGAGCCCAGCTCTAGTTGGATAAACC
1 GCCCAGCACTAGTTGGATAAACAGACG-GAT-AGT--TGCGCCCAGCGCTAGTTGGATAAACC
12368057 AATGATATTT
Statistics
Matches: 109, Mismatches: 21, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
73 3 0.03
74 46 0.42
75 32 0.29
77 2 0.02
78 3 0.03
80 23 0.21
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (76 bp):
GCCCAGCACTAGTTGGATAAACAGACGGATAGTTGCGCCCAGCGCTAGTTGGATAAACCGAAGAA
ATAATTAGTGA
Found at i:12368015 original size:40 final size:40
Alignment explanation
Indices: 12367888--12368056 Score: 172
Period size: 40 Copynumber: 4.4 Consensus size: 40
12367878 GCGCTTTACT
* * *
12367888 CTAGTTGGATAAACCGACG-AATAATTAGTGAGCCCAGCT
1 CTAGTTGGATAAACCGAAGAAATAATTAGTGAACCCAGCG
* **
12367927 CTAGTTGGATAAA-C-AA-ACGAT-ATT--TGCGCCCAGCG
1 CTAGTTGGATAAACCGAAGA-AATAATTAGTGAACCCAGCG
* *
12367962 CTAGTTGGATAAACTGAAGAAATAATTAGTGAACCCAACG
1 CTAGTTGGATAAACCGAAGAAATAATTAGTGAACCCAGCG
* * * *
12368002 CTAGTTGAATAAACCGACGAAATAATTAGTGAGCCCAGCT
1 CTAGTTGGATAAACCGAAGAAATAATTAGTGAACCCAGCG
12368042 CTAGTTGGATAAACC
1 CTAGTTGGATAAACC
12368057 AATGATATTT
Statistics
Matches: 106, Mismatches: 16, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
35 22 0.21
37 8 0.08
38 7 0.07
39 13 0.12
40 56 0.53
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (40 bp):
CTAGTTGGATAAACCGAAGAAATAATTAGTGAACCCAGCG
Found at i:12371035 original size:27 final size:27
Alignment explanation
Indices: 12370952--12371153 Score: 171
Period size: 27 Copynumber: 7.6 Consensus size: 27
12370942 CTCGATGGGG
* ** *
12370952 AAAATGACCGAAAT-ACCCCATAGGAT
1 AAAATGACCGTAATGACCCTGTAGGGT
* *
12370978 GAAATGACCGTAA-CACCCTGTAGGGT
1 AAAATGACCGTAATGACCCTGTAGGGT
* * *
12371004 AAAATGACTGTAATGAGCCTATAGGGT
1 AAAATGACCGTAATGACCCTGTAGGGT
* **
12371031 AAAATGACCGTAAT-TCTTTTGTAGGGT
1 AAAATGACCGTAATGAC-CCTGTAGGGT
* *
12371058 AAAATGACCATAATGCCCCTGTAGGGT
1 AAAATGACCGTAATGACCCTGTAGGGT
* * *
12371085 AAAATAACTGTAAT-ACCCCTATAGGGT
1 AAAATGACCGTAATGA-CCCTGTAGGGT
**
12371112 AAAATGTTCGTAATG-CCCTTGTAGGGT
1 AAAATGACCGTAATGACCC-TGTAGGGT
12371139 AAAATGACCGTAATG
1 AAAATGACCGTAATG
12371154 CTCTAGTGGG
Statistics
Matches: 137, Mismatches: 32, Indels: 13
0.75 0.18 0.07
Matches are distributed among these distances:
26 34 0.25
27 102 0.74
28 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (27 bp):
AAAATGACCGTAATGACCCTGTAGGGT
Found at i:12371085 original size:81 final size:81
Alignment explanation
Indices: 12370993--12371154 Score: 236
Period size: 81 Copynumber: 2.0 Consensus size: 81
12370983 GACCGTAACA
* * * **
12370993 CCCTGTAGGGTAAAATGACTGTAATGA-GCCTATAGGGTAAAATGACCGTAATTCTTTTGTAGGG
1 CCCTGTAGGGTAAAATAACTGTAAT-ACCCCTATAGGGTAAAATGACCGTAATGCCCTTGTAGGG
12371057 TAAAATGACCATAATGC
65 TAAAATGACCATAATGC
**
12371074 CCCTGTAGGGTAAAATAACTGTAATACCCCTATAGGGTAAAATGTTCGTAATGCCCTTGTAGGGT
1 CCCTGTAGGGTAAAATAACTGTAATACCCCTATAGGGTAAAATGACCGTAATGCCCTTGTAGGGT
*
12371139 AAAATGACCGTAATGC
66 AAAATGACCATAATGC
12371155 TCTAGTGGGT
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 1 0.01
81 71 0.99
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.28
Consensus pattern (81 bp):
CCCTGTAGGGTAAAATAACTGTAATACCCCTATAGGGTAAAATGACCGTAATGCCCTTGTAGGGT
AAAATGACCATAATGC
Found at i:12371154 original size:27 final size:27
Alignment explanation
Indices: 12370979--12371167 Score: 177
Period size: 27 Copynumber: 7.1 Consensus size: 27
12370969 CCATAGGATG
**
12370979 AAATGACCGTAACACCC-TGTAGGGTA
1 AAATGACCGTAATGCCCTTGTAGGGTA
* * *
12371005 AAATGACTGTAATGAGCC-TATAGGGTA
1 AAATGACCGTAATG-CCCTTGTAGGGTA
* **
12371032 AAATGACCGTAATTCTTTTGTAGGGTA
1 AAATGACCGTAATGCCCTTGTAGGGTA
* *
12371059 AAATGACCATAATGCCCCTGTAGGGTA
1 AAATGACCGTAATGCCCTTGTAGGGTA
* * * * *
12371086 AAATAACTGTAATACCCCTATAGGGTA
1 AAATGACCGTAATGCCCTTGTAGGGTA
**
12371113 AAATGTTCGTAATGCCCTTGTAGGGTA
1 AAATGACCGTAATGCCCTTGTAGGGTA
* *
12371140 AAATGACCGTAATGCTCTAGT-GGGTA
1 AAATGACCGTAATGCCCTTGTAGGGTA
12371166 AA
1 AA
12371168 TGATTATTTT
Statistics
Matches: 129, Mismatches: 32, Indels: 4
0.78 0.19 0.02
Matches are distributed among these distances:
26 18 0.14
27 111 0.86
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (27 bp):
AAATGACCGTAATGCCCTTGTAGGGTA
Found at i:12371228 original size:23 final size:24
Alignment explanation
Indices: 12371193--12371274 Score: 78
Period size: 24 Copynumber: 3.5 Consensus size: 24
12371183 CTCGAGGTCA
* * *
12371193 AATGATTGTTTTGCCTGTGGTTT-
1 AATGACTGATTTGTCTGTGGTTTG
12371216 AATGACTGATTTGTCTGT-GTTTGG
1 AATGACTGATTTGTCTGTGGTTT-G
* * *
12371240 TATGACTAATTTGTCTGTGATTTG
1 AATGACTGATTTGTCTGTGGTTTG
*
12371264 AATGCCTGATT
1 AATGACTGATT
12371275 CTAAGCATAG
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
22 4 0.09
23 15 0.32
24 25 0.53
25 3 0.06
ACGTcount: A:0.18, C:0.10, G:0.24, T:0.48
Consensus pattern (24 bp):
AATGACTGATTTGTCTGTGGTTTG
Found at i:12371539 original size:32 final size:32
Alignment explanation
Indices: 12371442--12371679 Score: 146
Period size: 32 Copynumber: 7.5 Consensus size: 32
12371432 GCTACGATGC
* * *
12371442 TACTGATGGCTTTGTGCCGATCATAATACCGT
1 TACTGATGGCTTTGTACAGATCATATTACCGT
* * *
12371474 TACTGGTGGCTTTGTGCTA-ATCATAGTACCGT
1 TACTGATGGCTTTGTAC-AGATCATATTACCGT
* *
12371506 TACTGATGGCTTTGTACAGATTATATTATCGT
1 TACTGATGGCTTTGTACAGATCATATTACCGT
* * *
12371538 TACCGATGG-TTATAG-ACCGATCATGTTACCGT
1 TACTGATGGCTT-T-GTACAGATCATATTACCGT
* * * * *
12371570 TACTGATGGCTGTGTACTGATCATATCACTGC
1 TACTGATGGCTTTGTACAGATCATATTACCGT
* * * * * * * *
12371602 TATTGATGGCTGTGTGCCGACCATATCACTGC
1 TACTGATGGCTTTGTACAGATCATATTACCGT
* * * *
12371634 TACTGATGGCTTTTTGCA-ATCACATTACTG-
1 TACTGATGGCTTTGTACAGATCATATTACCGT
*
12371664 TACTTATGGC-TTGTAC
1 TACTGATGGCTTTGTAC
12371680 CCATTTTGTT
Statistics
Matches: 166, Mismatches: 34, Indels: 15
0.77 0.16 0.07
Matches are distributed among these distances:
29 4 0.02
30 9 0.05
31 13 0.08
32 138 0.83
33 2 0.01
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.37
Consensus pattern (32 bp):
TACTGATGGCTTTGTACAGATCATATTACCGT
Found at i:12386152 original size:21 final size:21
Alignment explanation
Indices: 12386123--12386169 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
12386113 AAACAACAAG
*
12386123 AAAATAGCAACAAAACAGTAA
1 AAAAAAGCAACAAAACAGTAA
12386144 AAAAAAGCAACAAAACAGTAA
1 AAAAAAGCAACAAAACAGTAA
12386165 AAAAA
1 AAAAA
12386170 CCCAACAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.72, C:0.13, G:0.09, T:0.06
Consensus pattern (21 bp):
AAAAAAGCAACAAAACAGTAA
Found at i:12386175 original size:21 final size:21
Alignment explanation
Indices: 12386130--12386176 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
12386120 AAGAAAATAG
*
12386130 CAACAAAACAGTAAAAAAAAG
1 CAACAAAACAGTAAAAAAAAC
*
12386151 CAACAAAACAGTAAAAAAACC
1 CAACAAAACAGTAAAAAAAAC
12386172 CAACA
1 CAACA
12386177 GATTTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.68, C:0.21, G:0.06, T:0.04
Consensus pattern (21 bp):
CAACAAAACAGTAAAAAAAAC
Found at i:12388623 original size:23 final size:22
Alignment explanation
Indices: 12388593--12388638 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
12388583 ATCAACACAA
*
12388593 ATATAATCA-CATACATATTCAC
1 ATATAATCATCATA-ATAATCAC
12388615 ATATCAATCATCATAATAATCAC
1 ATAT-AATCATCATAATAATCAC
12388638 A
1 A
12388639 AGTTCTAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 13 0.62
24 4 0.19
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.30
Consensus pattern (22 bp):
ATATAATCATCATAATAATCAC
Found at i:12393467 original size:18 final size:18
Alignment explanation
Indices: 12393417--12393467 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
12393407 ATAAAAAAAC
*
12393417 GTTTTGAAATTGAATAAT
1 GTTTTGAAAATGAATAAT
* *
12393435 GATTTGTAAATGAATAAT
1 GTTTTGAAAATGAATAAT
*
12393453 GTTTTGAAAACGAAT
1 GTTTTGAAAATGAAT
12393468 GACACAATTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.39
Consensus pattern (18 bp):
GTTTTGAAAATGAATAAT
Found at i:12396824 original size:27 final size:27
Alignment explanation
Indices: 12396756--12397190 Score: 310
Period size: 27 Copynumber: 16.2 Consensus size: 27
12396746 GATTCTTGGG
** * *
12396756 AAAATTATGGAAATACCCTCAAAAGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* **
12396783 -AATTTACTAAAATACCCTCGAAGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* * *
12396809 AAGATTACCGAAATACCTTC-ATTGGGT
1 AAAATTACCGAAATACCCTCGA-AGGGT
* * *
12396836 AAAATTACCAAAATACCCTCAAAAGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* *
12396863 AATATTACCGAAATACCTTCGACA-GGT
1 AAAATTACCGAAATACCCTCGA-AGGGT
* ** * *
12396890 AAAATTTCTAAAATACCTTCGAAAGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
** *
12396917 AAAATTATTGAAATACCCTCGATGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* *
12396944 AATATTACCGAAATA-CCTCTAAAGGGT
1 AAAATTACCGAAATACCCTC-GAAGGGT
** * *
12396971 AAACCTATCGAAATACCCCCGAAGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* *
12396998 AAAATTACTGAAATACCCTCGATGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* * * *
12397025 AAAATTACCTAAATAACCT-AAAAGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* * * *
12397051 AAAATGACCGTAATATCCTCGATGGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* * *
12397078 AAAATTATCGAAATACTCTCGAAAGGT
1 AAAATTACCGAAATACCCTCGAAGGGT
* * *
12397105 AAAATGATCAAAATACCCTCGATA-GGT
1 AAAATTACCGAAATACCCTCGA-AGGGT
*
12397132 AAAATTACCGAAATACCC-CTAAAGGGT
1 AAAATTACCGAAATACCCTC-GAAGGGT
* * * *
12397159 AGAATGACCGTAATACCC-CTATAGGGT
1 AAAATTACCGAAATACCCTCGA-AGGGT
12397186 AAAAT
1 AAAAT
12397191 GACCACTATA
Statistics
Matches: 316, Mismatches: 80, Indels: 24
0.75 0.19 0.06
Matches are distributed among these distances:
26 48 0.15
27 262 0.83
28 6 0.02
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTCGAAGGGT
Found at i:12397201 original size:27 final size:27
Alignment explanation
Indices: 12397129--12397206 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
12397119 ACCCTCGATA
* **
12397129 GGTAAAATTACCGAAATACCCCTAAAG
1 GGTAAAATGACCCTAATACCCCTAAAG
* * *
12397156 GGTAGAATGACCGTAATACCCCTATAG
1 GGTAAAATGACCCTAATACCCCTAAAG
12397183 GGTAAAATGACCACT-ATACCCCTA
1 GGTAAAATGACC-CTAATACCCCTA
12397207 GGAAATGAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
27 43 0.98
28 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (27 bp):
GGTAAAATGACCCTAATACCCCTAAAG
Found at i:12397425 original size:26 final size:26
Alignment explanation
Indices: 12397395--12397463 Score: 102
Period size: 26 Copynumber: 2.7 Consensus size: 26
12397385 AATACTGTTT
12397395 CTGGCAGCTTTGCTGCGTTACCGTTA
1 CTGGCAGCTTTGCTGCGTTACCGTTA
* * *
12397421 CTGGCAGCTCTGTTGCGTTACTGTTA
1 CTGGCAGCTTTGCTGCGTTACCGTTA
*
12397447 TTGGCAGCTTTGCTGCG
1 CTGGCAGCTTTGCTGCG
12397464 ATATTGGTGT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.10, C:0.25, G:0.29, T:0.36
Consensus pattern (26 bp):
CTGGCAGCTTTGCTGCGTTACCGTTA
Found at i:12397643 original size:30 final size:30
Alignment explanation
Indices: 12397575--12397689 Score: 135
Period size: 30 Copynumber: 3.9 Consensus size: 30
12397565 TTTGTATTGA
*
12397575 ATATTGTTTTGGGCTAAGGCCCACA--CTG
1 ATATTGTATTGGGCTAAGGCCCACACTCTG
*
12397603 ATACTGTATTGGGCTAAGGCCCACACTCTG
1 ATATTGTATTGGGCTAAGGCCCACACTCTG
* * * *
12397633 TTATTGTATTGGGCTATGACCCACACACTG
1 ATATTGTATTGGGCTAAGGCCCACACTCTG
* * *
12397663 CTATTGTATAGGGCTCAGGCCCACACT
1 ATATTGTATTGGGCTAAGGCCCACACT
12397690 GATTCTGCAT
Statistics
Matches: 72, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 23 0.32
30 49 0.68
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (30 bp):
ATATTGTATTGGGCTAAGGCCCACACTCTG
Found at i:12406246 original size:16 final size:17
Alignment explanation
Indices: 12406211--12406242 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
12406201 ATATGGTAGA
12406211 AAATTGATTAAGTTATT
1 AAATTGATTAAGTTATT
12406228 AAATT-ATTAA-TTATT
1 AAATTGATTAAGTTATT
12406243 TAAAAAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 5 0.33
17 5 0.33
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (17 bp):
AAATTGATTAAGTTATT
Found at i:12407023 original size:14 final size:14
Alignment explanation
Indices: 12407004--12407049 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
12406994 GCAAATTAGA
12407004 AAAGAAAGAAAAGG
1 AAAGAAAGAAAAGG
12407018 AAAGAAAGAAAA--
1 AAAGAAAGAAAAGG
12407030 AAAGAAA-AAGAAGG
1 AAAGAAAGAA-AAGG
12407044 AAAGAA
1 AAAGAA
12407050 CGCACGACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.07
12 9 0.31
14 18 0.62
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAAAAGG
Found at i:12407035 original size:22 final size:23
Alignment explanation
Indices: 12407001--12407049 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
12406991 CATGCAAATT
*
12407001 AGAAAAGAAAGAAAAGGAAAGAA
1 AGAAAAGAAAGAAAAAGAAAGAA
*
12407024 AGAAAA-AAAGAAAAAGAAGGAA
1 AGAAAAGAAAGAAAAAGAAAGAA
12407046 AGAA
1 AGAA
12407050 CGCACGACTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (23 bp):
AGAAAAGAAAGAAAAAGAAAGAA
Found at i:12409398 original size:49 final size:49
Alignment explanation
Indices: 12409326--12409419 Score: 161
Period size: 49 Copynumber: 1.9 Consensus size: 49
12409316 TCAAGAATGG
*
12409326 ATAAATAGTGATAAGAGTATAGACAGTGGAAGACTAAGCTTAGCAATAT
1 ATAAATAGTGATAAGAGTATAGACAGTGGAAGACCAAGCTTAGCAATAT
* *
12409375 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACCAAGTTTAGCA
1 ATAAATAGTGATAAGAGTATAGACAGTGGAAGACCAAGCTTAGCA
12409420 TTGCATAACA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 42 1.00
ACGTcount: A:0.44, C:0.09, G:0.24, T:0.23
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTATAGACAGTGGAAGACCAAGCTTAGCAATAT
Found at i:12410158 original size:13 final size:14
Alignment explanation
Indices: 12410140--12410174 Score: 54
Period size: 13 Copynumber: 2.5 Consensus size: 14
12410130 TTTATTTTTT
12410140 TATTTATATAT-AA
1 TATTTATATATAAA
12410153 TATTTATATATCAAA
1 TATTTATATAT-AAA
12410168 TATTTAT
1 TATTTAT
12410175 TTTCTCCACC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 11 0.55
15 9 0.45
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (14 bp):
TATTTATATATAAA
Done.