Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 26 of 132
Found at i:7305061 original size:19 final size:19
Alignment explanation
Indices: 7305037--7305078 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
7305027 AAGTTTTTGG
7305037 TTTCGATCTCGGGTTCAAT
1 TTTCGATCTCGGGTTCAAT
* *
7305056 TTTCGATCTCGGTTTTAAT
1 TTTCGATCTCGGGTTCAAT
7305075 TTTC
1 TTTC
7305079 AAGTTCAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.14, C:0.19, G:0.17, T:0.50
Consensus pattern (19 bp):
TTTCGATCTCGGGTTCAAT
Found at i:7307333 original size:15 final size:15
Alignment explanation
Indices: 7307313--7307345 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
7307303 ATCTTCATCT
7307313 TCAGTTGGCTCCACA
1 TCAGTTGGCTCCACA
*
7307328 TCAGTTGGCTCTACA
1 TCAGTTGGCTCCACA
7307343 TCA
1 TCA
7307346 ACTAACTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.30, G:0.18, T:0.30
Consensus pattern (15 bp):
TCAGTTGGCTCCACA
Found at i:7307432 original size:17 final size:17
Alignment explanation
Indices: 7307410--7307451 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
7307400 TAAAGAGCGA
*
7307410 TCATTGTCTCCACTTCT
1 TCATTGTCTCCACGTCT
7307427 TCATTGTCTCCACGTCT
1 TCATTGTCTCCACGTCT
7307444 T-ATTGTCT
1 TCATTGTCT
7307452 ACAAGTTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.12, C:0.31, G:0.10, T:0.48
Consensus pattern (17 bp):
TCATTGTCTCCACGTCT
Found at i:7309222 original size:17 final size:17
Alignment explanation
Indices: 7309200--7309238 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
7309190 CTCCACCTTG
* *
7309200 ACAAGAATTCTCTACGA
1 ACAAGAACTCTCAACGA
7309217 ACAAGAACTCTCAACGA
1 ACAAGAACTCTCAACGA
7309234 ACAAG
1 ACAAG
7309239 TTCTCCACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.26, G:0.13, T:0.15
Consensus pattern (17 bp):
ACAAGAACTCTCAACGA
Found at i:7309745 original size:727 final size:727
Alignment explanation
Indices: 7308255--7310426 Score: 4083
Period size: 727 Copynumber: 3.0 Consensus size: 727
7308245 TAACTACGCC
*
7308255 TATTTATAGGTTGAAAAACCTTATTCCAATCAACAACTAATAGAAGTAACATAGTAAGGTTGAAA
1 TATTTATAGGTTGCAAAACCTTATTCCAATCAACAACTAATAGAAGTAACATAGTAAGGTTGAAA
*
7308320 CACCTTATTCTAATTAAAATAAAATAGATGACTTATTCTAATTAAAATAAAATAAAAAAAGTCTA
66 CACCTTATTCTAATTAAAATAAAATAGATGACTTATTCTAATTAAAATAAAATAAAAGAAGTCTA
*
7308385 GTTTATTTGGACTTTACTTTTATTTTATTTTACCACTATATTTTATTTTAACAACAATTCTAGTC
131 GTTTATTTGGACTTTACTTTTATTTTATTTTACCACTGTATTTTATTTTAACAACAATTCTAGTC
* *
7308450 ACCCAATTCTAACAATCCCCACCTTGACAAGAATTCTTTACGAACAAGAACTCTCAACGAACAAG
196 ACCCAATTCTAACAATCTCCACCTTGACAAGAATTCTCTACGAACAAGAACTCTCAACGAACAAG
7308515 TTCTCCACCTCTTCCACTAAACCCCTTGAGGGGTATTCTTCAACAATGAACACCAACCAAGTCCA
261 TTCTCCACCTCTTCCACTAAACCCCTTGAGGGGTATTCTTCAACAATGAACACCAACCAAGTCCA
7308580 TGCAATACTCAAACTTGGTTATGGGAAGTGACTTAGTCATCATATCTGCAGGATTTTCATGAGTA
326 TGCAATACTCAAACTTGGTTATGGGAAGTGACTTAGTCATCATATCTGCAGGATTTTCATGAGTA
7308645 TT---TTTGCTCACAACAACATCTCCACGAGCAATAATATCACGCACAAAATGACACCGAACATC
391 TTAACTTTGCTCACAACAACATCTCCACGAGCAATAATATCACGCACAAAATGACACCGAACATC
* *
7308707 AATGTGCATTGTTCTCTCATGAAACATTTGATCTATTGTAAGAAAAATGGCACTTTGACTGTTAC
456 AATGTGCTTTGTTCTCTCATGAAACATTTGATCTTTTGTAAGAAAAATGGCACTTTGACTGTTAC
*
7308772 AAAATATTGTACCAATATCTTCAACCACGTTTAAAGCATAAGCCACTAGATCAGCCTCGGTATAC
521 AAAATATTGTACCAATATCTTCAACCACGTTTAAAGCATAAGCCACTAGATCAGCCTCGGAATAC
*
7308837 CTTTTCGGAGGTCTAATTTCTCTTCTAGGTCTATTTTTGGCAATAGAATATTGTGGCGATAAAGT
586 CTTTTCGGAGGTCTAATTTCTCTTCTAGGTCTATTTTTGGCAATAGAATATTGTGGTGATAAAGT
7308902 AACTCTATTCTGAACTTCTGTACTAACTTGAAAAGTTGACTCTGTTGTAGATACTGAATCAATCT
651 AACTCTATTCTGAACTTCTGTACTAACTTGAAAAGTTGACTCTGTTGTAGATACTGAATCAATCT
7308967 GAAACTCCACCT
716 GAAACTCCACCT
7308979 TATTTATAGGTTGCAAAACCTTATTCCAATCAACAACTAATAGAAGTAACATAGTAAGGTTGAAA
1 TATTTATAGGTTGCAAAACCTTATTCCAATCAACAACTAATAGAAGTAACATAGTAAGGTTGAAA
* *
7309044 CACCTTATTCTAATTAAAATAAAATAGATGACTTATTCTAATTAAATTAAAATAAAAGAAGTTTA
66 CACCTTATTCTAATTAAAATAAAATAGATGACTTATTCTAATTAAAATAAAATAAAAGAAGTCTA
7309109 GTTTATTTGGACTTTACTTTTATTTTATTTTACCACTGTATTTTATTTTAACAACAATTCTAGTC
131 GTTTATTTGGACTTTACTTTTATTTTATTTTACCACTGTATTTTATTTTAACAACAATTCTAGTC
7309174 ACCCAATTCTAACAATCTCCACCTTGACAAGAATTCTCTACGAACAAGAACTCTCAACGAACAAG
196 ACCCAATTCTAACAATCTCCACCTTGACAAGAATTCTCTACGAACAAGAACTCTCAACGAACAAG
7309239 TTCTCCACCTCTTCCACTAAACCCCTTGAGGGGTATTCTTCAACAATGAACACCAACCAAGTCCA
261 TTCTCCACCTCTTCCACTAAACCCCTTGAGGGGTATTCTTCAACAATGAACACCAACCAAGTCCA
*
7309304 TGCAATACTCAAACTTGGTTATGGGAAGTAACTTAGTCATCATATCTGCAGGATTTTCATGAGTA
326 TGCAATACTCAAACTTGGTTATGGGAAGTGACTTAGTCATCATATCTGCAGGATTTTCATGAGTA
7309369 TTAACTTTGCTCACAACAACATCTCCACGAGCAATAATATCACGCACAAAATGACACCGAACATC
391 TTAACTTTGCTCACAACAACATCTCCACGAGCAATAATATCACGCACAAAATGACACCGAACATC
7309434 AATGTGCTTTGTTCTCTCATGAAACATTTGATCTTTTGTAAGAAAAATGGCACTTTGACTGTTAC
456 AATGTGCTTTGTTCTCTCATGAAACATTTGATCTTTTGTAAGAAAAATGGCACTTTGACTGTTAC
*
7309499 AAAATATTGTAACAATATCTTCAACCACGTTTAAAGCATAAGCCACTAGATCAGCCTCGGAATAC
521 AAAATATTGTACCAATATCTTCAACCACGTTTAAAGCATAAGCCACTAGATCAGCCTCGGAATAC
7309564 CTTTTCGGAGGTCTAATTTCTCTTCTAGGTCTATTTTTGGCAATAGAATATTGTGGTGATAAAGT
586 CTTTTCGGAGGTCTAATTTCTCTTCTAGGTCTATTTTTGGCAATAGAATATTGTGGTGATAAAGT
7309629 AACTCTATTCTGAACTTCTGTACTAACTTGAAAAGTTGACTCTGTTGTAGATACTGAATCAATCT
651 AACTCTATTCTGAACTTCTGTACTAACTTGAAAAGTTGACTCTGTTGTAGATACTGAATCAATCT
7309694 GAAACTCCACCT
716 GAAACTCCACCT
7309706 TATTTATAGGTTGCAAAACCTTATTCCAATCAACAACTAATAGAAGTAACATAGTAAGGTTGAAA
1 TATTTATAGGTTGCAAAACCTTATTCCAATCAACAACTAATAGAAGTAACATAGTAAGGTTGAAA
*
7309771 CACCTTATTCTAATTAAAATAAAATAGATGACCTATTCTAATTAAAATAAAATAAAAGAAGTCTA
66 CACCTTATTCTAATTAAAATAAAATAGATGACTTATTCTAATTAAAATAAAATAAAAGAAGTCTA
7309836 GTTTATTTGGACTTTAC-----TTTTATTTTACCACTGTATTTTATTTTAACAACAATTCTAGTC
131 GTTTATTTGGACTTTACTTTTATTTTATTTTACCACTGTATTTTATTTTAACAACAATTCTAGTC
*
7309896 ACCCAATTCTAACAATCTCCACCTTGACAAGAATTCTCTACGAATAAGAACTCTCAACGAACAAG
196 ACCCAATTCTAACAATCTCCACCTTGACAAGAATTCTCTACGAACAAGAACTCTCAACGAACAAG
*
7309961 TTCTCCACCTCTTCCACTAAACCCCTTGAAGGGTATTCTTCAACAATGAACACCAACCAAGTCCA
261 TTCTCCACCTCTTCCACTAAACCCCTTGAGGGGTATTCTTCAACAATGAACACCAACCAAGTCCA
* *
7310026 TGCAATACTCAAACTTGGTTATGGGAAGTGACTTAGTTATCATATCTGTAGGATTTTCATGAGTA
326 TGCAATACTCAAACTTGGTTATGGGAAGTGACTTAGTCATCATATCTGCAGGATTTTCATGAGTA
*
7310091 TTAACTTTGCTCACAACAATATCTCCACGAGCAATAATATCACGCACAAAATGACACCGAACATC
391 TTAACTTTGCTCACAACAACATCTCCACGAGCAATAATATCACGCACAAAATGACACCGAACATC
*
7310156 AATGTGCTTTGTTCTCTCATGAAACATTTGATCTTTTGTAAGAAAAATGACACTTTGACTGTTAC
456 AATGTGCTTTGTTCTCTCATGAAACATTTGATCTTTTGTAAGAAAAATGGCACTTTGACTGTTAC
*
7310221 AAAATATTGTACCAATATCTTCAACCACGTTTAAAGCATAAGCCACTAGATCAGCCTCGGCATAC
521 AAAATATTGTACCAATATCTTCAACCACGTTTAAAGCATAAGCCACTAGATCAGCCTCGGAATAC
7310286 CTTTTCGGA-GTCTAATTTCTCTTCTAGGTCTATTTTTGGCAATAGAATATTGTGGTGATAAAGT
586 CTTTTCGGAGGTCTAATTTCTCTTCTAGGTCTATTTTTGGCAATAGAATATTGTGGTGATAAAGT
*
7310350 AAATCTATTCTGAACTTCTGTACTAACTTGAAAAGTTGACTCTGTTGTAGATACTGAATCAATCT
651 AACTCTATTCTGAACTTCTGTACTAACTTGAAAAGTTGACTCTGTTGTAGATACTGAATCAATCT
7310415 GAAACTCCACCT
716 GAAACTCCACCT
7310427 GCTTTTGTTG
Statistics
Matches: 1419, Mismatches: 26, Indels: 9
0.98 0.02 0.01
Matches are distributed among these distances:
721 131 0.09
722 433 0.31
724 384 0.27
727 471 0.33
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (727 bp):
TATTTATAGGTTGCAAAACCTTATTCCAATCAACAACTAATAGAAGTAACATAGTAAGGTTGAAA
CACCTTATTCTAATTAAAATAAAATAGATGACTTATTCTAATTAAAATAAAATAAAAGAAGTCTA
GTTTATTTGGACTTTACTTTTATTTTATTTTACCACTGTATTTTATTTTAACAACAATTCTAGTC
ACCCAATTCTAACAATCTCCACCTTGACAAGAATTCTCTACGAACAAGAACTCTCAACGAACAAG
TTCTCCACCTCTTCCACTAAACCCCTTGAGGGGTATTCTTCAACAATGAACACCAACCAAGTCCA
TGCAATACTCAAACTTGGTTATGGGAAGTGACTTAGTCATCATATCTGCAGGATTTTCATGAGTA
TTAACTTTGCTCACAACAACATCTCCACGAGCAATAATATCACGCACAAAATGACACCGAACATC
AATGTGCTTTGTTCTCTCATGAAACATTTGATCTTTTGTAAGAAAAATGGCACTTTGACTGTTAC
AAAATATTGTACCAATATCTTCAACCACGTTTAAAGCATAAGCCACTAGATCAGCCTCGGAATAC
CTTTTCGGAGGTCTAATTTCTCTTCTAGGTCTATTTTTGGCAATAGAATATTGTGGTGATAAAGT
AACTCTATTCTGAACTTCTGTACTAACTTGAAAAGTTGACTCTGTTGTAGATACTGAATCAATCT
GAAACTCCACCT
Found at i:7315077 original size:30 final size:30
Alignment explanation
Indices: 7315033--7315336 Score: 231
Period size: 30 Copynumber: 10.3 Consensus size: 30
7315023 CTGAACTGTC
* * *
7315033 CAAAAATCAGATTTTGACCGTCAAACTTCT
1 CAAAAATTACATTTTGACCCTCAAACTTCT
* *
7315063 TAAAATTTACATTTTGACCC-CTAAACTTCT
1 CAAAAATTACATTTTGACCCTC-AAACTTCT
*
7315093 CAAAAATTACATTTTAACCCTCAAACTTCT
1 CAAAAATTACATTTTGACCCTCAAACTTCT
*
7315123 CAAAAATTACATTTT-TCCCTCAAACTTC-
1 CAAAAATTACATTTTGACCCTCAAACTTCT
* * *
7315151 CAAAAAATCACATTTT-CCCCTCGAACTTC-
1 C-AAAAATTACATTTTGACCCTCAAACTTCT
* *
7315180 CAAAAATCACATTTTTG-CCCCCAAACTTCT
1 CAAAAATTACA-TTTTGACCCTCAAACTTCT
*
7315210 CAAAAATTACATTTTTG-CCCTCGAACTTC-
1 CAAAAATTACA-TTTTGACCCTCAAACTTCT
* * * **
7315239 CAAAAATCACCATTTT-ACCCCCGATGTATC-
1 CAAAAATTA-CATTTTGACCCTCAAACT-TCT
* *
7315269 CAAAAATTACTATTTT-ACCCTC-AATTTTT
1 CAAAAATTAC-ATTTTGACCCTCAAACTTCT
* *
7315298 CAAAAATTTCAAATTTGACCC-CAAA-TTCCT
1 CAAAAATTAC-ATTTTGACCCTCAAACTT-CT
7315328 CAAAAATTA
1 CAAAAATTA
7315337 TGTTTTTACC
Statistics
Matches: 229, Mismatches: 31, Indels: 28
0.80 0.11 0.10
Matches are distributed among these distances:
28 12 0.05
29 90 0.39
30 126 0.55
31 1 0.00
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.33
Consensus pattern (30 bp):
CAAAAATTACATTTTGACCCTCAAACTTCT
Found at i:7315215 original size:59 final size:58
Alignment explanation
Indices: 7315074--7315290 Score: 235
Period size: 59 Copynumber: 3.7 Consensus size: 58
7315064 AAAATTTACA
* * *
7315074 TTTTGACCCCTAAACTTCTCAAAAATTACATTTTAACCCTCAAACTTCTCAAAAATTACAT
1 TTTTG-CCCCCAAACTTCTCAAAAATTACATTTT-ACCCTCGAACTTC-CAAAAATCACAT
* * *
7315135 TTTT-CCCTCAAACTTC-CAAAAAATCACATTTTCCCCTCGAACTTCCAAAAATCACAT
1 TTTTGCCCCCAAACTTCTC-AAAAATTACATTTTACCCTCGAACTTCCAAAAATCACAT
*
7315192 TTTTGCCCCCAAACTTCTCAAAAATTACATTTTTGCCCTCGAACTTCCAAAAATCACCA-
1 TTTTGCCCCCAAACTTCTCAAAAATTACA-TTTTACCCTCGAACTTCCAAAAATCA-CAT
* * **
7315251 TTTTACCCCCGATGTATC-CAAAAATTACTATTTTACCCTC
1 TTTTGCCCCCAAACT-TCTCAAAAATTAC-ATTTTACCCTC
7315291 AATTTTTCAA
Statistics
Matches: 135, Mismatches: 14, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
57 15 0.11
58 32 0.24
59 79 0.59
60 5 0.04
61 4 0.03
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.33
Consensus pattern (58 bp):
TTTTGCCCCCAAACTTCTCAAAAATTACATTTTACCCTCGAACTTCCAAAAATCACAT
Found at i:7323079 original size:16 final size:17
Alignment explanation
Indices: 7323052--7323084 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
7323042 GCTAGGGTTG
*
7323052 AGAAAGAGAGGAGAAGA
1 AGAAAGAGAGGAAAAGA
7323069 AGAAA-AGAGGAAAAGA
1 AGAAAGAGAGGAAAAGA
7323085 GAATAGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (17 bp):
AGAAAGAGAGGAAAAGA
Found at i:7323236 original size:17 final size:18
Alignment explanation
Indices: 7323209--7323242 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7323199 TTATTATGGA
*
7323209 TCTTCAATTTTTTATCTC
1 TCTTCAATTTTTAATCTC
7323227 TCTT-AATTTTTAATCT
1 TCTTCAATTTTTAATCT
7323243 TCTATTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.21, C:0.18, G:0.00, T:0.62
Consensus pattern (18 bp):
TCTTCAATTTTTAATCTC
Found at i:7324933 original size:19 final size:18
Alignment explanation
Indices: 7324911--7324950 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
7324901 TTATATTATG
* *
7324911 TTTTAACTATTTATAAATA
1 TTTTAAATATTT-TAAAAA
7324930 TTTTAAATATTTTAAAAA
1 TTTTAAATATTTTAAAAA
7324948 TTT
1 TTT
7324951 ATGTGACATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTTAAATATTTTAAAAA
Found at i:7324938 original size:9 final size:9
Alignment explanation
Indices: 7324911--7324950 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
7324901 TTATATTATG
*
7324911 TTTTAACTA
1 TTTTAAATA
7324920 TTTATAAATA
1 TTT-TAAATA
7324930 TTTTAAATA
1 TTTTAAATA
*
7324939 TTTTAAAAA
1 TTTTAAATA
7324948 TTT
1 TTT
7324951 ATGTGACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 20 0.71
10 8 0.29
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (9 bp):
TTTTAAATA
Found at i:7328702 original size:17 final size:17
Alignment explanation
Indices: 7328680--7328735 Score: 64
Period size: 17 Copynumber: 3.3 Consensus size: 17
7328670 CTCTTGACTT
7328680 TTAACCTTCCATCTTCC
1 TTAACCTTCCATCTTCC
7328697 TTAACC-TCC--CTTGACC
1 TTAACCTTCCATCTT--CC
7328713 TTTAACCTTCCATCTTCC
1 -TTAACCTTCCATCTTCC
7328731 TTAAC
1 TTAAC
7328736 TTTTTCATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
14 3 0.09
16 5 0.15
17 17 0.52
18 5 0.15
20 3 0.09
ACGTcount: A:0.20, C:0.39, G:0.02, T:0.39
Consensus pattern (17 bp):
TTAACCTTCCATCTTCC
Found at i:7329444 original size:55 final size:55
Alignment explanation
Indices: 7329306--7329505 Score: 195
Period size: 55 Copynumber: 3.5 Consensus size: 55
7329296 GACATGCTAT
* * *
7329306 ATAACAATCGATTTAAATATATAAACAAACTATTCAAAAGAAGCAGTATTCTAAT
1 ATAACAATCGATTTAAATATATAAACAATCTATTCAAAAGAAGCAGTATTCCAAC
* * * *
7329361 ATAACAATCTATTTATATGTATAAACAATCTATTCAAAAGAAGTAGTATTCCAAC
1 ATAACAATCGATTTAAATATATAAACAATCTATTCAAAAGAAGCAGTATTCCAAC
* * * * * *
7329416 ATAATAATCGATTTAAACATGTAAACAAT-TGATTCAAAAAAGAAAAAGCAATATTCTACC
1 ATAACAATCGATTTAAATATATAAACAATCT-ATTC--AAAAG---AAGCAGTATTCCAAC
* * *
7329476 ATAACAATCGATTTAGACATATAAAAAATC
1 ATAACAATCGATTTAAATATATAAACAATC
7329506 GATTTTTGAG
Statistics
Matches: 117, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
54 1 0.01
55 75 0.64
57 5 0.04
60 36 0.31
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (55 bp):
ATAACAATCGATTTAAATATATAAACAATCTATTCAAAAGAAGCAGTATTCCAAC
Found at i:7343399 original size:67 final size:67
Alignment explanation
Indices: 7343291--7343656 Score: 360
Period size: 67 Copynumber: 5.5 Consensus size: 67
7343281 CTATAATAGA
* * *
7343291 GAATAATGTGAAAGACCATAGCTTGACTATGACAACATAGAGAGTTCGCTAGAACATTAAACATG
1 GAATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCGCTAGAACATTAAACATG
*
7343356 GG
66 AG
* * ** * * * *
7343358 GAATAATGTGTAAGGCCATAGCTCGGCTATAACAATATAGAGAGTTAGCCAGAACATTAAACATA
1 GAATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCGCTAGAACATTAAACATG
7343423 AG
66 AG
* * * * * *
7343425 GAATAATGTATAAGACCATAGCTCAACTATGGCAACATAGAGAGTCCACCAGGACATT-AACATT
1 GAATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCGCTAGAACATTAAACA-T
7343489 GAG
65 GAG
* * * * *
7343492 AAATAATGTGTAAGATCATAGTTCGACTATGGCAACATAGAGAG-TCTTCTAGGACATTAAACAT
1 GAATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTC-GCTAGAACATTAAACAT
*
7343556 GGG
65 GAG
* * * * * * *
7343559 GTATAATGTGAAAGATCATAGCTCGGCTATGGCAAAATAGAGAGTTC-ATCAGAACATTAAGCAT
1 GAATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCGCT-AGAACATTAAACAT
7343623 GAG
65 GAG
* * * * *
7343626 GTATGATGTATAAGATCATAGCTCGATTATG
1 GAATAATGTGTAAGACCATAGCTCGACTATG
7343657 ACAGTATATG
Statistics
Matches: 248, Mismatches: 46, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
66 6 0.02
67 236 0.95
68 6 0.02
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (67 bp):
GAATAATGTGTAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCGCTAGAACATTAAACATG
AG
Found at i:7343532 original size:134 final size:133
Alignment explanation
Indices: 7343291--7343659 Score: 409
Period size: 134 Copynumber: 2.8 Consensus size: 133
7343281 CTATAATAGA
* * * *
7343291 GAATAATGTGAAAGACCATAGCTTGACTATGACAACATAGAGAGTTCGCTAGAACATTAAACATG
1 GAATAATGTGAAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCACCAGAACATT-AACATG
* ** * * *
7343356 GGGAATAATGTGTAAGGCCATAGCTCGGCTATAACAATATAGAGAGT-TAGCCAGAACATTAAAC
65 AGGAATAATGTGTAAGATCATAGCTCGACTATGACAACATAGAGAGTCT-GCCAGAACATTAAAC
7343420 ATAAG
129 ATAAG
* * *
7343425 GAATAATGT-ATAAGACCATAGCTCAACTATGGCAACATAGAGAGTCCACCAGGACATTAACATT
1 GAATAATGTGA-AAGACCATAGCTCGACTATGGCAACATAGAGAGTTCACCAGAACATTAACA-T
* * * * * *
7343489 GAGAAATAATGTGTAAGATCATAGTTCGACTATGGCAACATAGAGAGTCTTCTAGGACATTAAAC
64 GAGGAATAATGTGTAAGATCATAGCTCGACTATGACAACATAGAGAGTCTGCCAGAACATTAAAC
**
7343554 ATGGG
129 ATAAG
* * * * *
7343559 GTATAATGTGAAAGATCATAGCTCGGCTATGGCAAAATAGAGAGTTCATCAGAACATTAAGCATG
1 GAATAATGTGAAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCACCAGAACATTAA-CATG
* * * *
7343624 AGGTATGATGTATAAGATCATAGCTCGATTATGACA
65 AGGAATAATGTGTAAGATCATAGCTCGACTATGACA
7343660 GTATATGGAG
Statistics
Matches: 194, Mismatches: 36, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
133 5 0.03
134 185 0.95
135 4 0.02
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (133 bp):
GAATAATGTGAAAGACCATAGCTCGACTATGGCAACATAGAGAGTTCACCAGAACATTAACATGA
GGAATAATGTGTAAGATCATAGCTCGACTATGACAACATAGAGAGTCTGCCAGAACATTAAACAT
AAG
Found at i:7345645 original size:25 final size:23
Alignment explanation
Indices: 7345617--7345662 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
7345607 GTTGGATCCA
7345617 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
7345642 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
7345663 TCTTAATTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:7350565 original size:29 final size:29
Alignment explanation
Indices: 7350523--7350633 Score: 120
Period size: 29 Copynumber: 3.8 Consensus size: 29
7350513 TTTTCGAGGA
7350523 ATTT-GGGGTCAAAATTGAAATTTTTGGAT
1 ATTTAGGGGT-AAAATTGAAATTTTTGGAT
* * *
7350552 GTTTAGGGGTAAAATGGTAATTTTTGGAT
1 ATTTAGGGGTAAAATTGAAATTTTTGGAT
* *
7350581 ATTT-GAGGGTAAAATAGTAATTTTTGGAT
1 ATTTAG-GGGTAAAATTGAAATTTTTGGAT
*
7350610 ATTCAGGGGTAAAATT-ATAATTTT
1 ATTTAGGGGTAAAATTGA-AATTTT
7350634 GGAGAAGTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
28 1 0.01
29 63 0.90
30 6 0.09
ACGTcount: A:0.32, C:0.02, G:0.24, T:0.41
Consensus pattern (29 bp):
ATTTAGGGGTAAAATTGAAATTTTTGGAT
Found at i:7350647 original size:29 final size:28
Alignment explanation
Indices: 7350490--7350654 Score: 81
Period size: 29 Copynumber: 5.6 Consensus size: 28
7350480 TAGAGTTTCA
* * * * *
7350490 GAGAATTCGGGATAAAAATGTAATTTTC
1 GAGAATTTGGGGTAAAATTATAATTTTG
7350518 GAGGAATTTGGGGTCAAAATTGA-AATTTTTG
1 GA-GAATTTGGGGT-AAAATT-ATAA-TTTTG
**
7350549 GATG--TTTAGGGGTAAAATGGTAATTTTTG
1 GA-GAATTT-GGGGTAAAATTATAA-TTTTG
*
7350578 GA-TATTTGAGGGTAAAA-TAGTAATTTTTG
1 GAGAATTTG-GGGTAAAATTA-TAA-TTTTG
* *
7350607 GA-TATTCAGGGGTAAAATTATAATTTTG
1 GAGAATT-TGGGGTAAAATTATAATTTTG
7350635 GAGAAGTTTGGGGTCAAAAT
1 GAGAA-TTTGGGGT-AAAAT
7350655 GGGATTTTAA
Statistics
Matches: 109, Mismatches: 13, Indels: 28
0.73 0.09 0.19
Matches are distributed among these distances:
28 10 0.09
29 70 0.64
30 22 0.20
31 7 0.06
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.36
Consensus pattern (28 bp):
GAGAATTTGGGGTAAAATTATAATTTTG
Found at i:7350662 original size:58 final size:57
Alignment explanation
Indices: 7350504--7350655 Score: 166
Period size: 58 Copynumber: 2.6 Consensus size: 57
7350494 ATTCGGGATA
* * *
7350504 AAAATG-TAATTTTCGAGGAATTTGGGGTCAAAATTGAAATTTTTGGATGTTTAGGGGT
1 AAAATGATAATTTTGGA-GAATTTGGGGTCAAAA-TGAAATTTTTGGATATTCAGGGGT
* * *
7350562 AAAATGGTAATTTTTGGA-TATTTGAGGGT-AAAATAGTAATTTTTGGATATTCAGGGGT
1 AAAATGATAA-TTTTGGAGAATTTG-GGGTCAAAAT-GAAATTTTTGGATATTCAGGGGT
*
7350620 AAAATTATAATTTTGGAGAAGTTTGGGGTCAAAATG
1 AAAATGATAATTTTGGAGAA-TTTGGGGTCAAAATG
7350656 GGATTTTAAA
Statistics
Matches: 79, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
57 8 0.10
58 49 0.62
59 16 0.20
60 6 0.08
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.38
Consensus pattern (57 bp):
AAAATGATAATTTTGGAGAATTTGGGGTCAAAATGAAATTTTTGGATATTCAGGGGT
Found at i:7350723 original size:29 final size:30
Alignment explanation
Indices: 7350611--7350736 Score: 103
Period size: 30 Copynumber: 4.2 Consensus size: 30
7350601 TTTTTGGATA
* **
7350611 TTCAGGGGTAAAATTATAATTTTGGAGAAG
1 TTCAGGGGTAAAAATATAATTTTAAAGAAG
* * ***
7350641 TT-TGGGGTCAAAATGGGATTTTAAAGAAG
1 TTCAGGGGTAAAAATATAATTTTAAAGAAG
* ** * *
7350670 TTTAAAGGAAAAAATATAATTTTTAAGAAG
1 TTCAGGGGTAAAAATATAATTTTAAAGAAG
*
7350700 TTCAGGGGTAAAAATATAATTTTAGA-AAG
1 TTCAGGGGTAAAAATATAATTTTAAAGAAG
7350729 TTCGAGGG
1 TTC-AGGG
7350737 TCAAAACGTG
Statistics
Matches: 71, Mismatches: 23, Indels: 4
0.72 0.23 0.04
Matches are distributed among these distances:
29 27 0.38
30 44 0.62
ACGTcount: A:0.40, C:0.03, G:0.25, T:0.32
Consensus pattern (30 bp):
TTCAGGGGTAAAAATATAATTTTAAAGAAG
Found at i:7350742 original size:29 final size:30
Alignment explanation
Indices: 7350587--7350722 Score: 100
Period size: 30 Copynumber: 4.6 Consensus size: 30
7350577 GGATATTTGA
*
7350587 GGGT-AAAATAGTAATTTTT-GGATA-TTCAG
1 GGGTAAAAATA-TAATTTTTAAGA-AGTTCAG
* ** *
7350616 GGGTAAAATTATAATTTTGGAGAAGTT-TG
1 GGGTAAAAATATAATTTTTAAGAAGTTCAG
* *** * * *
7350645 GGGTCAAAATGGGATTTTAAAGAAGTTTAA
1 GGGTAAAAATATAATTTTTAAGAAGTTCAG
* *
7350675 AGGAAAAAATATAATTTTTAAGAAGTTCAG
1 GGGTAAAAATATAATTTTTAAGAAGTTCAG
7350705 GGGTAAAAATATAATTTT
1 GGGTAAAAATATAATTTT
7350723 AGAAAGTTCG
Statistics
Matches: 79, Mismatches: 24, Indels: 7
0.72 0.22 0.06
Matches are distributed among these distances:
29 33 0.42
30 46 0.58
ACGTcount: A:0.40, C:0.02, G:0.23, T:0.35
Consensus pattern (30 bp):
GGGTAAAAATATAATTTTTAAGAAGTTCAG
Found at i:7350919 original size:29 final size:29
Alignment explanation
Indices: 7350887--7350959 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 29
7350877 AAAACAAAAC
7350887 TTTTGGATATTCGAGGGTAAAATGGTAAA
1 TTTTGGATATTCGAGGGTAAAATGGTAAA
* * * *
7350916 TTTTGGATGTTTG-GTGTAAAATGGTAAT
1 TTTTGGATATTCGAGGGTAAAATGGTAAA
7350944 TTTTGGATATTC-AGGG
1 TTTTGGATATTCGAGGG
7350960 GCAAAATCAT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
28 25 0.69
29 11 0.31
ACGTcount: A:0.27, C:0.03, G:0.29, T:0.41
Consensus pattern (29 bp):
TTTTGGATATTCGAGGGTAAAATGGTAAA
Found at i:7350981 original size:14 final size:14
Alignment explanation
Indices: 7350962--7350989 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7350952 ATTCAGGGGC
7350962 AAAATCATAATTTT
1 AAAATCATAATTTT
7350976 AAAATCATAATTTT
1 AAAATCATAATTTT
7350990 GGAGAAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
AAAATCATAATTTT
Found at i:7351010 original size:30 final size:30
Alignment explanation
Indices: 7350976--7351079 Score: 138
Period size: 30 Copynumber: 3.5 Consensus size: 30
7350966 TCATAATTTT
* *
7350976 AAAATCATAATTTTGGAGAAGTTTGA-GGTT
1 AAAAT-ATAATTTTGAAGAAGTTTGAGGGTA
* *
7351006 AAAATGTGATTTTGAAGAAGTTTGAGGGTA
1 AAAATATAATTTTGAAGAAGTTTGAGGGTA
* *
7351036 AAAATATAATTTTTAAGAAGTTCGAGGGTA
1 AAAATATAATTTTGAAGAAGTTTGAGGGTA
7351066 AAAATATAATTTTG
1 AAAATATAATTTTG
7351080 GAAAGTTCGA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 17 0.27
30 47 0.73
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.36
Consensus pattern (30 bp):
AAAATATAATTTTGAAGAAGTTTGAGGGTA
Found at i:7352131 original size:14 final size:14
Alignment explanation
Indices: 7352099--7352144 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
7352089 TTCGTGTCCT
*
7352099 TTTATTATTA-TTA
1 TTTAATATTATTTA
7352112 -TTAATATTATTTA
1 TTTAATATTATTTA
*
7352125 TTTAATATTATATA
1 TTTAATATTATTTA
7352139 TTTAAT
1 TTTAAT
7352145 GTAAATATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 8 0.28
13 3 0.10
14 18 0.62
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTAATATTATTTA
Found at i:7352807 original size:11 final size:11
Alignment explanation
Indices: 7352779--7352841 Score: 63
Period size: 11 Copynumber: 5.5 Consensus size: 11
7352769 ATTTGGACAT
*
7352779 TTTAAACTTAA
1 TTTAAATTTAA
7352790 TTTTAAATTTAA
1 -TTTAAATTTAA
* *
7352802 TTTAAAATAAA
1 TTTAAATTTAA
7352813 TTTAAATTTAA
1 TTTAAATTTAA
**
7352824 AATAAATTTAAA
1 TTTAAATTT-AA
7352836 TTTAAA
1 TTTAAA
7352842 CAAATTAAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
11 25 0.61
12 16 0.39
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:7352818 original size:6 final size:6
Alignment explanation
Indices: 7352779--7352841 Score: 69
Period size: 6 Copynumber: 11.0 Consensus size: 6
7352769 ATTTGGACAT
* * *
7352779 TTTAAA CTTAAT TTTAAA TTT-AA TTTAAA -ATAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
7352825 -ATAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA
7352842 CAAATTAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
5 13 0.28
6 33 0.72
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (6 bp):
TTTAAA
Found at i:7352820 original size:17 final size:17
Alignment explanation
Indices: 7352793--7352859 Score: 102
Period size: 17 Copynumber: 4.1 Consensus size: 17
7352783 AACTTAATTT
7352793 TAAATTT-AATTTAAAA
1 TAAATTTAAATTTAAAA
7352809 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
7352826 TAAATTTAAATTT-AAA
1 TAAATTTAAATTTAAAA
* *
7352842 CAAATTAAAATTTAAAA
1 TAAATTTAAATTTAAAA
7352859 T
1 T
7352860 TGGGTTCCAT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
16 21 0.46
17 25 0.54
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:7352847 original size:33 final size:33
Alignment explanation
Indices: 7352793--7352859 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
7352783 AACTTAATTT
* *
7352793 TAAATTTAATTTAAAATAAATTTAAATTTAAAA
1 TAAATTTAATTTAAAACAAATTAAAATTTAAAA
7352826 TAAATTTAAATTT-AAACAAATTAAAATTTAAAA
1 TAAATTT-AATTTAAAACAAATTAAAATTTAAAA
7352859 T
1 T
7352860 TGGGTTCCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 26 0.84
34 5 0.16
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (33 bp):
TAAATTTAATTTAAAACAAATTAAAATTTAAAA
Found at i:7353386 original size:39 final size:39
Alignment explanation
Indices: 7353265--7353847 Score: 385
Period size: 39 Copynumber: 15.1 Consensus size: 39
7353255 TTATTGCTTC
* * * *
7353265 GGATGACTGCAACCTGCCCCATGATCGGGGTAAGAGATT
1 GGATGACTGTAATCTGCCCCAAGCTCGGGGTAAGAGATT
* * * * *
7353304 GGCTGA-TGATGATCTG-CCCAAGCT-TGGGTAAAAGATC
1 GGATGACTG-TAATCTGCCCCAAGCTCGGGGTAAGAGATT
* * * * *
7353341 GAATGACTGCAATATGCCCCAAGCTCGAGGTAAGAGACT
1 GGATGACTGTAATCTGCCCCAAGCTCGGGGTAAGAGATT
* *
7353380 GGATGACTGCAATCTGCCCCAGGCTCGGGGTAAGAGATT
1 GGATGACTGTAATCTGCCCCAAGCTCGGGGTAAGAGATT
* * *
7353419 GGCTGA-TAGTGATCTG-CCCAAGCTCGGGGTAAGAGATC
1 GGATGACT-GTAATCTGCCCCAAGCTCGGGGTAAGAGATT
* * * *
7353457 GAATGGCTGTAATATG-CCCAGGCTCGGGGTAAGAGATT
1 GGATGACTGTAATCTGCCCCAAGCTCGGGGTAAGAGATT
* * * *
7353495 GGTTGACGGTGATCTGCCCCAAGCTCGGGGTAAGAGATC
1 GGATGACTGTAATCTGCCCCAAGCTCGGGGTAAGAGATT
* * * * * * *
7353534 GAACGATTGCAATCTGTCTCAGGCTCGGGGTAAGAGATT
1 GGATGACTGTAATCTGCCCCAAGCTCGGGGTAAGAGATT
* * * * * *
7353573 -GACTGA-TGATGATTTGCCTCAGGTTCGGGGTAAAAGATT
1 GGA-TGACTG-TAATCTGCCCCAAGCTCGGGGTAAGAGATT
* * * * * *
7353612 AGATGGCTGTAATCTGCCCTAGGCTCGAGGTAAAAGATT
1 GGATGACTGTAATCTGCCCCAAGCTCGGGGTAAGAGATT
* * * * * *
7353651 AGATGGCTGCAATCTGCCCTAGGCTCGAGGTAAGAGATT
1 GGATGACTGTAATCTGCCCCAAGCTCGGGGTAAGAGATT
* * * * *
7353690 TGTTGA-TGGTGATCTACCCCAGGCTCGGGGTAAGAGATT
1 GGATGACT-GTAATCTGCCCCAAGCTCGGGGTAAGAGATT
* * * * *
7353729 GGCTGACGGTCATCTGCCCTAGGCTCGGGGTAAGAGATT
1 GGATGACTGTAATCTGCCCCAAGCTCGGGGTAAGAGATT
* * * * * *
7353768 GGCTGA-TGGTGATCTACCCCAAGTTCGGGGTAAAAGATC
1 GGATGACT-GTAATCTGCCCCAAGCTCGGGGTAAGAGATT
* * * * *
7353807 AGATGGCCGCAATATGCCCCAAGCTCGGGGTAAGAGATT
1 GGATGACTGTAATCTGCCCCAAGCTCGGGGTAAGAGATT
7353846 GG
1 GG
7353848 TTGATAGTGC
Statistics
Matches: 423, Mismatches: 106, Indels: 30
0.76 0.19 0.05
Matches are distributed among these distances:
37 18 0.04
38 82 0.19
39 319 0.75
40 4 0.01
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (39 bp):
GGATGACTGTAATCTGCCCCAAGCTCGGGGTAAGAGATT
Found at i:7353825 original size:78 final size:78
Alignment explanation
Indices: 7353640--7353884 Score: 267
Period size: 78 Copynumber: 3.1 Consensus size: 78
7353630 CTAGGCTCGA
* * * *
7353640 GGTAAAAGATTAGATGGCTGCAATCTGCCCTAGGCTCGAGGTAAGAGATTTGTTGATGGTGATCT
1 GGTAAAAGATCAGATGGCCGCAATCTGCCCTAGGCTCGGGGTAAGAGATTGGTTGATGGTGATCT
* *
7353705 ACCCCAGGCTCGG
66 ACCCCAAGATCGG
* ** * * * *
7353718 GGTAAGAGATTGGCTGACGGTC-ATCTGCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATC
1 GGTAAAAGATCAGATGGCCG-CAATCTGCCCTAGGCTCGGGGTAAGAGATTGGTTGATGGTGATC
*
7353782 TACCCCAAGTTCGG
65 TACCCCAAGATCGG
* * * * * *
7353796 GGTAAAAGATCAGATGGCCGCAATATGCCCCAAGCTCGGGGTAAGAGATTGGTTGATAGTGCTTT
1 GGTAAAAGATCAGATGGCCGCAATCTGCCCTAGGCTCGGGGTAAGAGATTGGTTGATGGTGATCT
* * *
7353861 GCCTCATGATCGG
66 ACCCCAAGATCGG
7353874 GGTAAAAGATC
1 GGTAAAAGATC
7353885 GGAATCTTCA
Statistics
Matches: 138, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
77 1 0.01
78 136 0.99
79 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.24
Consensus pattern (78 bp):
GGTAAAAGATCAGATGGCCGCAATCTGCCCTAGGCTCGGGGTAAGAGATTGGTTGATGGTGATCT
ACCCCAAGATCGG
Found at i:7354910 original size:34 final size:35
Alignment explanation
Indices: 7354865--7354937 Score: 121
Period size: 34 Copynumber: 2.1 Consensus size: 35
7354855 CTCGATCTTT
*
7354865 TTTTTTGAGACACCCTTTACAGATTTTCATCTCGA
1 TTTTTTGAGACACCCTTTACAGATTTTCATCTCAA
*
7354900 TTTTTT-AGACACCCTTTACAGGTTTTCATCTCAA
1 TTTTTTGAGACACCCTTTACAGATTTTCATCTCAA
7354934 TTTT
1 TTTT
7354938 GGGCAAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
34 30 0.83
35 6 0.17
ACGTcount: A:0.22, C:0.22, G:0.10, T:0.47
Consensus pattern (35 bp):
TTTTTTGAGACACCCTTTACAGATTTTCATCTCAA
Found at i:7366188 original size:29 final size:29
Alignment explanation
Indices: 7366156--7366336 Score: 186
Period size: 29 Copynumber: 6.2 Consensus size: 29
7366146 AATTTGAGGT
* *
7366156 TAAAATGGTAACTTTTAGATGTTTGGGGG
1 TAAAATGGTAATTTTTGGATGTTTGGGGG
*
7366185 TAAAATGGTAATTTTTTGGATATTTGGGGG
1 TAAAATGGTAA-TTTTTGGATGTTTGGGGG
*
7366215 TAAAATGGTAATTTTTGGATGTTTGAGGG
1 TAAAATGGTAATTTTTGGATGTTTGGGGG
* *
7366244 TAAAATGATAATTTTTGGATATTTGGGGG
1 TAAAATGGTAATTTTTGGATGTTTGGGGG
* ** **
7366273 CAAAATCATAATTTTAAAGATGTTT-GGGG
1 TAAAATGGTAATTTT-TGGATGTTTGGGGG
* * *
7366302 TAAAAAT-GTAATTTTTGAGAAGTTCGGGAG
1 T-AAAATGGTAATTTTTG-GATGTTTGGGGG
7366332 TAAAA
1 TAAAA
7366337 ATATAATTTT
Statistics
Matches: 127, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
29 86 0.68
30 41 0.32
ACGTcount: A:0.33, C:0.02, G:0.27, T:0.38
Consensus pattern (29 bp):
TAAAATGGTAATTTTTGGATGTTTGGGGG
Found at i:7366199 original size:59 final size:58
Alignment explanation
Indices: 7366133--7366317 Score: 207
Period size: 59 Copynumber: 3.2 Consensus size: 58
7366123 AGATGAAAAC
* *
7366133 GTAATTTTTGAGGA-ATTTGAGGTTAAAATGGTAACTTTTAGATGTTTGGGGGTAAAATG
1 GTAATTTTT-AGGATATTTGGGGGTAAAATGGTAA-TTTTAGATGTTTGGGGGTAAAATG
* * *
7366192 GTAATTTTTTGGATATTTGGGGGTAAAATGGTAATTTTTGGATGTTTGAGGGTAAAATG
1 GTAATTTTTAGGATATTTGGGGGTAAAATGGTAA-TTTTAGATGTTTGGGGGTAAAATG
* * **
7366251 ATAATTTTT-GGATATTTGGGGGCAAAATCATAATTTTAAAGATGTTT-GGGGTAAAAAT-
1 GTAATTTTTAGGATATTTGGGGGTAAAATGGTAATTTT--AGATGTTTGGGGGT-AAAATG
7366309 GTAATTTTT
1 GTAATTTTT
7366318 GAGAAGTTCG
Statistics
Matches: 109, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
57 4 0.04
58 36 0.33
59 69 0.63
ACGTcount: A:0.31, C:0.02, G:0.26, T:0.41
Consensus pattern (58 bp):
GTAATTTTTAGGATATTTGGGGGTAAAATGGTAATTTTAGATGTTTGGGGGTAAAATG
Found at i:7366213 original size:30 final size:30
Alignment explanation
Indices: 7366133--7366317 Score: 166
Period size: 29 Copynumber: 6.3 Consensus size: 30
7366123 AGATGAAAAC
* * *
7366133 GTAATTTTTGAGGA-ATTTGAGGTTAAAATG
1 GTAATTTTT-TGGATATTTGGGGGTAAAATG
* * *
7366163 GTAA-CTTTTAGATGTTTGGGGGTAAAATG
1 GTAATTTTTTGGATATTTGGGGGTAAAATG
7366192 GTAATTTTTTGGATATTTGGGGGTAAAATG
1 GTAATTTTTTGGATATTTGGGGGTAAAATG
* *
7366222 GTAA-TTTTTGGATGTTTGAGGGTAAAATG
1 GTAATTTTTTGGATATTTGGGGGTAAAATG
* * *
7366251 ATAA-TTTTTGGATATTTGGGGGCAAAATC
1 GTAATTTTTTGGATATTTGGGGGTAAAATG
* *** *
7366280 ATAATTTTAAAGATGTTT-GGGGTAAAAAT-
1 GTAATTTTTTGGATATTTGGGGGT-AAAATG
7366309 GTAATTTTT
1 GTAATTTTT
7366318 GAGAAGTTCG
Statistics
Matches: 128, Mismatches: 23, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
28 2 0.02
29 82 0.64
30 44 0.34
ACGTcount: A:0.31, C:0.02, G:0.26, T:0.41
Consensus pattern (30 bp):
GTAATTTTTTGGATATTTGGGGGTAAAATG
Found at i:7366343 original size:59 final size:59
Alignment explanation
Indices: 7366172--7366368 Score: 174
Period size: 59 Copynumber: 3.3 Consensus size: 59
7366162 GGTAACTTTT
* * * * ** *
7366172 AGATGTTTGGGGGTAAAATGGTAATTTTTTGGATATTTGGGGGTAAAATGGTAATTTT-T
1 AGATGTTTGAGGGTAAAATGATAA-TTTTTGGATATTCGGGGGAAAAATCATAATTTTAA
* * *
7366231 GGATGTTTGAGGGTAAAATGATAATTTTTGGATATTTGGGGGCAAAATCATAATTTTAA
1 AGATGTTTGAGGGTAAAATGATAATTTTTGGATATTCGGGGGAAAAATCATAATTTTAA
*
7366290 AGATGTTTG-GGGTAAAAATG-TAATTTTTGAGA-AGTTCGGGAGTAAAAAT-ATAATTTTAGA
1 AGATGTTTGAGGGT-AAAATGATAATTTTTG-GATA-TTCGGG-GGAAAAATCATAATTTTA-A
*
7366350 A-A-GTTTAAGGGTCAAAATG
1 AGATGTTTGAGGGT-AAAATG
7366369 TGATTTTGGA
Statistics
Matches: 118, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
58 48 0.41
59 62 0.53
60 8 0.07
ACGTcount: A:0.34, C:0.02, G:0.27, T:0.37
Consensus pattern (59 bp):
AGATGTTTGAGGGTAAAATGATAATTTTTGGATATTCGGGGGAAAAATCATAATTTTAA
Found at i:7366353 original size:29 final size:28
Alignment explanation
Indices: 7366274--7366354 Score: 83
Period size: 30 Copynumber: 2.8 Consensus size: 28
7366264 ATTTGGGGGC
*
7366274 AAAATCATAATTTTA-AAGATGTTTGGGGTA
1 AAAAT-ATAATTTTAGAA-A-GTTCGGGGTA
* *
7366304 AAAATGTAATTTTTGAGAAGTTCGGGAGTA
1 AAAATATAATTTTAGA-AAGTTCGGG-GTA
7366334 AAAATATAATTTTAGAAAGTT
1 AAAATATAATTTTAGAAAGTT
7366355 TAAGGGTCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
29 18 0.42
30 24 0.56
31 1 0.02
ACGTcount: A:0.42, C:0.02, G:0.20, T:0.36
Consensus pattern (28 bp):
AAAATATAATTTTAGAAAGTTCGGGGTA
Found at i:7367380 original size:3 final size:3
Alignment explanation
Indices: 7367372--7367414 Score: 68
Period size: 3 Copynumber: 14.0 Consensus size: 3
7367362 ATGTCCTTTC
*
7367372 ATT ATT ATT ATT ATT ATT ATT ATT GATT ATT ATT AAT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT
7367415 TATTTAATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:7367423 original size:14 final size:14
Alignment explanation
Indices: 7367404--7367436 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
7367394 TTGATTATTA
*
7367404 TTAATATTATTTAT
1 TTAATATTATATAT
7367418 TTAATATTATATAT
1 TTAATATTATATAT
7367432 TTAAT
1 TTAAT
7367437 GTAAATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTAATATTATATAT
Found at i:7367429 original size:19 final size:18
Alignment explanation
Indices: 7367372--7367434 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 18
7367362 ATGTCCTTTC
*
7367372 ATTA-TTATTATTATTATT
1 ATTATTTATTAATATTA-T
* *
7367390 ATTATTGATTATTATTAAT
1 ATTATTTATTAATATT-AT
7367409 ATTATTTATTTAATATTAT
1 ATTATTTA-TTAATATTAT
7367428 A-TATTTA
1 ATTATTTA
7367435 ATGTAAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
18 10 0.26
19 21 0.54
20 8 0.21
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
ATTATTTATTAATATTAT
Found at i:7367843 original size:17 final size:17
Alignment explanation
Indices: 7367823--7367902 Score: 79
Period size: 17 Copynumber: 4.7 Consensus size: 17
7367813 AATTTTAAAA
*
7367823 TAAATTTGAATTTATTT
1 TAAATTTAAATTTATTT
* *
7367840 TAAATTCAAATTTTTTT
1 TAAATTTAAATTTATTT
*** * *
7367857 TGGGTTTGAATTTACTT
1 TAAATTTAAATTTATTT
7367874 TAAATTTAAATTTATTT
1 TAAATTTAAATTTATTT
*
7367891 TAAATTAAAATT
1 TAAATTTAAATT
7367903 AAATTAAAGG
Statistics
Matches: 47, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 47 1.00
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (17 bp):
TAAATTTAAATTTATTT
Found at i:7367870 original size:34 final size:34
Alignment explanation
Indices: 7367827--7367891 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
7367817 TTAAAATAAA
* *
7367827 TTTGAATTTATTTTAAATTCAAATTTTTTTTGGG
1 TTTGAATTTACTTTAAATTCAAATTTATTTTGGG
*
7367861 TTTGAATTTACTTTAAATTTAAATTTATTTT
1 TTTGAATTTACTTTAAATTCAAATTTATTTT
7367892 AAATTAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.29, C:0.03, G:0.08, T:0.60
Consensus pattern (34 bp):
TTTGAATTTACTTTAAATTCAAATTTATTTTGGG
Found at i:7368611 original size:31 final size:31
Alignment explanation
Indices: 7368571--7368640 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 31
7368561 CAAAATGTAT
*
7368571 TAATGAATATCATTAACAATAATATTAAATAA
1 TAAT-AATATCAATAACAATAATATTAAATAA
* **
7368603 TAATAATATCAATAACAGTTGTATTAAATAA
1 TAATAATATCAATAACAATAATATTAAATAA
7368634 TAATAAT
1 TAATAAT
7368641 TAATATTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 30 0.88
32 4 0.12
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (31 bp):
TAATAATATCAATAACAATAATATTAAATAA
Found at i:7369762 original size:60 final size:60
Alignment explanation
Indices: 7369686--7369886 Score: 146
Period size: 60 Copynumber: 3.4 Consensus size: 60
7369676 TAAAATGTCC
*
7369686 AAAAA-TAGTATTTTGACCCTCAAACCTTC-CCAAAA-TATTATTTTAATCC-CGAAACTTTTT
1 AAAAATTA-TATTTTGACCCTCAAA-CTTCTCCAAAATTA-TACTTTAA-CCACGAAACTTTTT
* * * *
7369746 GAAAATTATATTTTGACACCT-GAACTTCTTCAAAATTATACTTTAACCACTAAACTTTTT
1 AAAAATTATATTTTGAC-CCTCAAACTTCTCCAAAATTATACTTTAACCACGAAACTTTTT
* * * * * * * * *
7369806 AAAAATTACATTTTAACCCTCATACTT-TCTAAAAATTACATTTTAACC-CTCATACTTTCT
1 AAAAATTATATTTTGACCCTCAAACTTCTC-CAAAATTATACTTTAACCAC-GAAACTTTTT
* *
7369866 AAAAATTACATTTTAACCCTC
1 AAAAATTATATTTTGACCCTC
7369887 GTACTTTCTA
Statistics
Matches: 116, Mismatches: 17, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
59 11 0.09
60 98 0.84
61 7 0.06
ACGTcount: A:0.37, C:0.21, G:0.03, T:0.38
Consensus pattern (60 bp):
AAAAATTATATTTTGACCCTCAAACTTCTCCAAAATTATACTTTAACCACGAAACTTTTT
Found at i:7369772 original size:30 final size:30
Alignment explanation
Indices: 7369724--7369999 Score: 163
Period size: 30 Copynumber: 9.2 Consensus size: 30
7369714 CCCAAAATAT
* *
7369724 TATTTTAATCC-CGAAACTTTTTGAAAATTA
1 TATTTTAA-CCACTAAACTTTTTAAAAATTA
* * * *
7369754 TATTTTGA-CACCTGAACTTCTTCAAAATTA
1 TATTTTAACCA-CTAAACTTTTTAAAAATTA
*
7369784 TACTTTAACCACTAAACTTTTTAAAAATTA
1 TATTTTAACCACTAAACTTTTTAAAAATTA
* * *
7369814 CATTTTAACC-CTCATACTTTCTAAAAATTA
1 TATTTTAACCACT-AAACTTTTTAAAAATTA
* * *
7369844 CATTTTAACC-CTCATACTTTCTAAAAATTA
1 TATTTTAACCACT-AAACTTTTTAAAAATTA
* ** *
7369874 CATTTTAACC-CTCGTACTTTCTAAAAATTA
1 TATTTTAACCACT-AAACTTTTTAAAAATTA
* * **
7369904 CATTTTTCACC-CTAAAAC-TTCCAAAAATTA
1 TA-TTTTAACCACT-AAACTTTTTAAAAATTA
* * * *
7369934 CATTTTAACCACCATACTTTTTGAAAATTA
1 TATTTTAACCACTAAACTTTTTAAAAATTA
* * *
7369964 CATTTTAACC-CTCATACTTTCTAAAAATTA
1 TATTTTAACCACT-AAACTTTTTAAAAATTA
*
7369994 CATTTT
1 TATTTT
7370000 TCACCCCAAA
Statistics
Matches: 209, Mismatches: 29, Indels: 16
0.82 0.11 0.06
Matches are distributed among these distances:
28 1 0.00
29 13 0.06
30 182 0.87
31 13 0.06
ACGTcount: A:0.37, C:0.21, G:0.02, T:0.40
Consensus pattern (30 bp):
TATTTTAACCACTAAACTTTTTAAAAATTA
Found at i:7369843 original size:90 final size:88
Alignment explanation
Indices: 7369747--7370029 Score: 304
Period size: 90 Copynumber: 3.1 Consensus size: 88
7369737 AAACTTTTTG
* * * * * * *
7369747 AAAATTATATTTTGACACCTGA-ACTTCTTCAAAATTATACTTTAACCACT-AAACTTTTTAAAA
1 AAAATTACATTTTAACACCT-ATACTT-TTAAAAATTACATTTTAACC-CTCATACTTTCTAAAA
* * *
7369810 ATTACATTTTAACCCTCATACTTTCTA
63 ATTACATTTTAACCCTAAAAC-TTCCA
*
7369837 AAAATTACATTTTAAC-CCTCATACTTTCTAAAAATTACATTTTAACCCTCGTACTTTCTAAAAA
1 AAAATTACATTTTAACACCT-ATACTTT-TAAAAATTACATTTTAACCCTCATACTTTCTAAAAA
*
7369901 TTACATTTTTCACCCTAAAACTTCCA
64 TTACA-TTTTAACCCTAAAACTTCCA
*
7369927 AAAATTACATTTTAACCACC-ATACTTTTTGAAAATTACATTTTAACCCTCATACTTTCTAAAAA
1 AAAATTACATTTTAA-CACCTATAC-TTTTAAAAATTACATTTTAACCCTCATACTTTCTAAAAA
* * *
7369991 TTACATTTTTCACCCCAAAGCTTCCA
64 TTACA-TTTTAACCCTAAAACTTCCA
7370017 AAAATTACATTTT
1 AAAATTACATTTT
7370030 TACCCCCAAA
Statistics
Matches: 169, Mismatches: 17, Indels: 14
0.85 0.09 0.07
Matches are distributed among these distances:
89 7 0.04
90 144 0.85
91 16 0.09
92 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.02, T:0.39
Consensus pattern (88 bp):
AAAATTACATTTTAACACCTATACTTTTAAAAATTACATTTTAACCCTCATACTTTCTAAAAATT
ACATTTTAACCCTAAAACTTCCA
Found at i:7369892 original size:60 final size:60
Alignment explanation
Indices: 7369777--7370058 Score: 306
Period size: 60 Copynumber: 4.7 Consensus size: 60
7369767 GAACTTCTTC
* * *
7369777 AAAATTATACTTTAACCACT-AAACTTTTTAAAAATTACATTTTAACCCTCATACTTTCTA
1 AAAATTACATTTTAACC-CTCAAACTTTCTAAAAATTACATTTTAACCCTCATACTTTCTA
* *
7369837 AAAATTACATTTTAACCCTCATACTTTCTAAAAATTACATTTTAACCCTCGTACTTTCTA
1 AAAATTACATTTTAACCCTCAAACTTTCTAAAAATTACATTTTAACCCTCATACTTTCTA
* * * * *
7369897 AAAATTACATTTTTCACCCTAAAAC-TTCCAAAAATTACATTTTAACCAC-CATACTTTTTG
1 AAAATTACA-TTTTAACCCTCAAACTTTCTAAAAATTACATTTTAACC-CTCATACTTTCTA
* * * *
7369957 AAAATTACATTTTAACCCTCATACTTTCTAAAAATTACATTTTTCACCC-CAAAGC-TTCCA
1 AAAATTACATTTTAACCCTCAAACTTTCTAAAAATTACA-TTTTAACCCTCATA-CTTTCTA
* * * * *
7370017 AAAATTACATTTTTACCCCCAAAC-CTCCAAAAATTTCATTTT
1 AAAATTACATTTTAACCCTCAAACTTTCTAAAAATTACATTTT
7370059 TGACCCTGAA
Statistics
Matches: 189, Mismatches: 27, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
58 4 0.02
59 25 0.13
60 139 0.74
61 21 0.11
ACGTcount: A:0.38, C:0.24, G:0.01, T:0.38
Consensus pattern (60 bp):
AAAATTACATTTTAACCCTCAAACTTTCTAAAAATTACATTTTAACCCTCATACTTTCTA
Found at i:7370020 original size:30 final size:29
Alignment explanation
Indices: 7369806--7370064 Score: 195
Period size: 30 Copynumber: 8.7 Consensus size: 29
7369796 TAAACTTTTT
* *
7369806 AAAAATTACA-TTTTAACCCTCATACTTTCT
1 AAAAATTACATTTTTAACCC-CAAAC-TTCC
* *
7369836 AAAAATTACA-TTTTAACCCTCATACTTTCT
1 AAAAATTACATTTTTAACCC-CAAAC-TTCC
** *
7369866 AAAAATTACA-TTTTAACCCTCGTACTTTCT
1 AAAAATTACATTTTTAACCC-CAAAC-TTCC
* *
7369896 AAAAATTACATTTTTCACCCTAAAACTTCC
1 AAAAATTACATTTTTAACCC-CAAACTTCC
* **
7369926 AAAAATTACA-TTTTAACCACCATACTTTTT
1 AAAAATTACATTTTTAACC-CCAAAC-TTCC
* * *
7369956 GAAAATTACA-TTTTAACCCTCATACTTTCT
1 AAAAATTACATTTTTAACCC-CAAAC-TTCC
*
7369986 AAAAATTACATTTTTCACCCCAAAGCTTCC
1 AAAAATTACATTTTTAACCCCAAA-CTTCC
* *
7370016 AAAAATTACATTTTTACCCCCAAACCTCC
1 AAAAATTACATTTTTAACCCCAAACTTCC
* *
7370045 AAAAATTTCATTTTTGACCC
1 AAAAATTACATTTTTAACCC
7370065 TGAAACTCTC
Statistics
Matches: 200, Mismatches: 23, Indels: 13
0.85 0.10 0.06
Matches are distributed among these distances:
29 32 0.16
30 148 0.74
31 20 0.10
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.37
Consensus pattern (29 bp):
AAAAATTACATTTTTAACCCCAAACTTCC
Found at i:7370065 original size:90 final size:89
Alignment explanation
Indices: 7369777--7370037 Score: 337
Period size: 90 Copynumber: 2.9 Consensus size: 89
7369767 GAACTTCTTC
* * * * * * *
7369777 AAAATTATACTTTAACCACT-AAACTTTTTAAAAATTACA-TTTTAACCCTCATACTTTCTAAAA
1 AAAATTACATTTTAACC-CTCATACTTTCTAAAAATTACATTTTTCACCC-CAAAC-TTCCAAAA
*
7369840 ATTACATTTTAACCCTCATACTTTCTA
63 ATTACATTTTAACCCCCATACTTTCTA
* *
7369867 AAAATTACATTTTAACCCTCGTACTTTCTAAAAATTACATTTTTCACCCTAAAACTTCCAAAAAT
1 AAAATTACATTTTAACCCTCATACTTTCTAAAAATTACATTTTTCACCC-CAAACTTCCAAAAAT
* * *
7369932 TACATTTTAACCACCATACTTTTTG
65 TACATTTTAACCCCCATACTTTCTA
7369957 AAAATTACATTTTAACCCTCATACTTTCTAAAAATTACATTTTTCACCCCAAAGCTTCCAAAAAT
1 AAAATTACATTTTAACCCTCATACTTTCTAAAAATTACATTTTTCACCCCAAA-CTTCCAAAAAT
*
7370022 TACATTTTTACCCCCA
65 TACATTTTAACCCCCA
7370038 AACCTCCAAA
Statistics
Matches: 151, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
89 5 0.03
90 134 0.89
91 12 0.08
ACGTcount: A:0.38, C:0.24, G:0.01, T:0.38
Consensus pattern (89 bp):
AAAATTACATTTTAACCCTCATACTTTCTAAAAATTACATTTTTCACCCCAAACTTCCAAAAATT
ACATTTTAACCCCCATACTTTCTA
Found at i:7370223 original size:27 final size:28
Alignment explanation
Indices: 7370190--7370384 Score: 94
Period size: 29 Copynumber: 6.8 Consensus size: 28
7370180 CCCAAATTTC
*
7370190 CCAAAATTACCATTTTTCCC-CGAGAAT
1 CCAAAATTACCATTTTACCCTCGAGAAT
* *
7370217 CCAAAATTACCATTTTACCCTCGGGCAT
1 CCAAAATTACCATTTTACCCTCGAGAAT
* * * ***
7370245 CCAAAAAGTCCCATTTTTTATCC-CGATTCTT
1 CC-AAAATTACCA--TTTTACCCTCGA-GAAT
* *
7370276 CCAAAAATTACCGTTTTACCCACGA-ACAT
1 CC-AAAATTACCATTTTACCCTCGAGA-AT
* ** ***
7370305 CTAAAATGT--CATTTTTAACCCTAAATCTTT
1 CCAAAAT-TACCA-TTTT-ACCCTCGA-GAAT
*
7370335 CCAAAATTACCATTTTTACCCTCGAGAGT
1 CCAAAATTACCA-TTTTACCCTCGAGAAT
7370364 CCAAAATTACCATTTTACCCT
1 CCAAAATTACCATTTTACCCT
7370385 TGAGTATCTA
Statistics
Matches: 126, Mismatches: 28, Indels: 27
0.70 0.15 0.15
Matches are distributed among these distances:
27 20 0.16
28 25 0.20
29 37 0.29
30 18 0.14
31 26 0.21
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.33
Consensus pattern (28 bp):
CCAAAATTACCATTTTACCCTCGAGAAT
Found at i:7370245 original size:144 final size:146
Alignment explanation
Indices: 7370024--7370407 Score: 419
Period size: 144 Copynumber: 2.6 Consensus size: 146
7370014 CCAAAAATTA
* * * * *
7370024 CATTTTTACCCCCAAA-CCTCCAAAAATT-TCATTTTTGACCCT-GA-AACTCTCGAAATTACCA
1 CATTTTTAACCCCAAATCTTCCCAAAATTACCATTTTT-ACCCTCGAGAA-TC-CAAAATTACCA
* *
7370085 TTTTACCC-CTAGGCATCCAAAAGTCCCGTTTTTGATCCTGAGATT-TTCTAAAAATTACCATTT
63 TTTTACCCTC-GGGCATCCAAAAGTCCCGTTTTTGATCC--AGATTCTTCCAAAAATTACCATTT
* ** *
7370148 TACCCTC-AAGTGTCTAGAATGT
125 TACCCACGAA-CATCTAAAATGT
7370170 CATTTTTAACCCCAAAT-TTCCCAAAATTACCATTTTT-CCC-CGAGAATCCAAAATTACCATTT
1 CATTTTTAACCCCAAATCTTCCCAAAATTACCATTTTTACCCTCGAGAATCCAAAATTACCATTT
* * * *
7370232 TACCCTCGGGCATCCAAAAAGTCCCATTTTTTATCCCGATTCTTCCAAAAATTACCGTTTTACCC
66 TACCCTCGGGCATCC-AAAAGTCCCGTTTTTGATCCAGATTCTTCCAAAAATTACCATTTTACCC
7370297 ACGAACATCTAAAATGT
130 ACGAACATCTAAAATGT
* * *
7370314 CATTTTTAACCCTAAATCTTTCCAAAATTACCATTTTTACCCTCGAGAGTCCAAAATTACCATTT
1 CATTTTTAACCCCAAATCTTCCCAAAATTACCATTTTTACCCTCGAGAATCCAAAATTACCATTT
* * * * *
7370379 TACCCTTGAGTATCTAAAGGTCCCGTTTT
66 TACCCTCGGGCATCCAAAAGTCCCGTTTT
7370408 CAATCTCGAT
Statistics
Matches: 203, Mismatches: 24, Indels: 22
0.82 0.10 0.09
Matches are distributed among these distances:
143 4 0.02
144 72 0.35
145 47 0.23
146 41 0.20
147 39 0.19
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.34
Consensus pattern (146 bp):
CATTTTTAACCCCAAATCTTCCCAAAATTACCATTTTTACCCTCGAGAATCCAAAATTACCATTT
TACCCTCGGGCATCCAAAAGTCCCGTTTTTGATCCAGATTCTTCCAAAAATTACCATTTTACCCA
CGAACATCTAAAATGT
Found at i:7370370 original size:59 final size:57
Alignment explanation
Indices: 7370216--7370379 Score: 145
Period size: 60 Copynumber: 2.8 Consensus size: 57
7370206 TCCCCGAGAA
* * * * *
7370216 TCCAAAATTACCATTTTACCCTCGGGCATCCAAAAAGTCCCATTTTTTATCCCGATTCT
1 TCCAAAATTACCATTTTACCCTCGAG-ATCCAAAATGT-CCATTTTTTAACCCAAATCT
* * * *
7370275 TCCAAAAATTACCGTTTTACCCACGAACATCTAAAATGT-CA-TTTTTAACCCTAAATCTT
1 TCC-AAAATTACCATTTTACCCTCG-AGATCCAAAATGTCCATTTTTTAACCC-AAATC-T
7370334 TCCAAAATTACCATTTTTACCCTCGAGAGTCCAAAAT-TACCATTTT
1 TCCAAAATTACCA-TTTTACCCTCGAGA-TCCAAAATGT-CCATTTT
7370380 ACCCTTGAGT
Statistics
Matches: 83, Mismatches: 13, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
57 9 0.11
58 17 0.20
59 24 0.29
60 30 0.36
61 3 0.04
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (57 bp):
TCCAAAATTACCATTTTACCCTCGAGATCCAAAATGTCCATTTTTTAACCCAAATCT
Found at i:7371416 original size:11 final size:11
Alignment explanation
Indices: 7371400--7371425 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
7371390 AGTGGATCGC
7371400 TTTCGTGAAGT
1 TTTCGTGAAGT
7371411 TTTCGTGAAGT
1 TTTCGTGAAGT
7371422 TTTC
1 TTTC
7371426 ACTTCCGTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.12, G:0.23, T:0.50
Consensus pattern (11 bp):
TTTCGTGAAGT
Found at i:7376913 original size:50 final size:50
Alignment explanation
Indices: 7376828--7377041 Score: 148
Period size: 50 Copynumber: 4.2 Consensus size: 50
7376818 AGGTTTGAAA
* * * *
7376828 GGAAAGATCTAAGACCGCAACGGCAGACCGTGTACCTCAGAA-ACACGACG
1 GGAAAGATCTAAAACCGCAACGGCGGACCGAGTACCTCA-AAGACACGAAG
* * * *
7376878 GGAAAGATCTAAAACCGCAATGGCGGATCC-AGTACCGCAAAGATACTAAAG
1 GGAAAGATCTAAAACCGCAACGGCGGA-CCGAGTACCTCAAAGACAC-GAAG
* *** * * *
7376929 GGAAAGGTCT-AAGTTGCAACGACGGACCGTGTACCTCAAAAGACACGATG
1 GGAAAGATCTAAAACCGCAACGGCGGACCGAGTACCTC-AAAGACACGAAG
* * * * * *
7376979 GGAAAGATCTAAGACCGCAATGGCGGATCC-AGTTCCGCAAAGATACAAAAG
1 GGAAAGATCTAAAACCGCAACGGCGGA-CCGAGTACCTCAAAGACAC-GAAG
*
7377030 GGAAAGGTCTAA
1 GGAAAGATCTAA
7377042 GTCACAACGG
Statistics
Matches: 123, Mismatches: 33, Indels: 15
0.72 0.19 0.09
Matches are distributed among these distances:
49 4 0.03
50 69 0.56
51 48 0.39
52 2 0.02
ACGTcount: A:0.38, C:0.22, G:0.26, T:0.14
Consensus pattern (50 bp):
GGAAAGATCTAAAACCGCAACGGCGGACCGAGTACCTCAAAGACACGAAG
Found at i:7376999 original size:101 final size:99
Alignment explanation
Indices: 7376828--7377147 Score: 372
Period size: 101 Copynumber: 3.2 Consensus size: 99
7376818 AGGTTTGAAA
* * * *
7376828 GGAAAGATCTAAGACCGCAACGGCAGACCGTGTACCTCAGAAACACGACGGGAAAGATCTAAAAC
1 GGAAAGGTCTAAG-TCGCAACGACAGACCGTGTACCTCAGAAACACGA-GGGAAAGATCTAAGAC
7376893 CGCAATGGCGGATCCAGTACCGCAAAGATACTAAAG
64 CGCAATGGCGGATCCAGTACCGCAAAGATACTAAAG
* * *
7376929 GGAAAGGTCTAAGTTGCAACGACGGACCGTGTACCTCAAAAGACACGATGGGAAAGATCTAAGAC
1 GGAAAGGTCTAAGTCGCAACGACAGACCGTGTACCTCAGAA-ACACGA-GGGAAAGATCTAAGAC
* *
7376994 CGCAATGGCGGATCCAGTTCCGCAAAGATACAAAAG
64 CGCAATGGCGGATCCAGTACCGCAAAGATACTAAAG
* ** * * **
7377030 GGAAAGGTCTAAGTCACAACGGTAGATCGTGTACCTCAGAAACAGGAAAGAAAGGATCTAAGACC
1 GGAAAGGTCTAAGTCGCAACGACAGACCGTGTACCTCAGAAACACGAGGGAAA-GATCTAAGACC
* * * * * * *
7377095 GTAACGGCGGATCCAATACCACGAAGAT-TTCAAG
65 GCAATGGCGGATCCAGTACCGCAAAGATACTAAAG
*
7377129 GGAAAGGTTTAAGTCGCAA
1 GGAAAGGTCTAAGTCGCAA
7377148 TGACGAACCC
Statistics
Matches: 186, Mismatches: 31, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
99 24 0.13
100 61 0.33
101 101 0.54
ACGTcount: A:0.38, C:0.22, G:0.26, T:0.15
Consensus pattern (99 bp):
GGAAAGGTCTAAGTCGCAACGACAGACCGTGTACCTCAGAAACACGAGGGAAAGATCTAAGACCG
CAATGGCGGATCCAGTACCGCAAAGATACTAAAG
Found at i:7377042 original size:51 final size:51
Alignment explanation
Indices: 7376877--7377042 Score: 160
Period size: 51 Copynumber: 3.3 Consensus size: 51
7376867 GAAACACGAC
* * *
7376877 GGGAAAGATCTAAAACCGCAATGGCGGATCCAGTACCGCAAAGATACTAAA
1 GGGAAAGATCTAAGACCGCAATGGCGGATCCAGTTCCGCAAAGATACAAAA
* ** * * * * * *
7376928 GGGAAAGGTCTAAG-TTGCAACGACGGA-CC-GTGTACCTCAAA-AGACACGAT
1 GGGAAAGATCTAAGACCGCAATGGCGGATCCAGT-T-CCGCAAAGATACA-AAA
7376978 GGGAAAGATCTAAGACCGCAATGGCGGATCCAGTTCCGCAAAGATACAAAA
1 GGGAAAGATCTAAGACCGCAATGGCGGATCCAGTTCCGCAAAGATACAAAA
*
7377029 GGGAAAGGTCTAAG
1 GGGAAAGATCTAAG
7377043 TCACAACGGT
Statistics
Matches: 86, Mismatches: 22, Indels: 14
0.70 0.18 0.11
Matches are distributed among these distances:
48 2 0.02
49 5 0.06
50 29 0.34
51 41 0.48
52 7 0.08
53 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.27, T:0.14
Consensus pattern (51 bp):
GGGAAAGATCTAAGACCGCAATGGCGGATCCAGTTCCGCAAAGATACAAAA
Found at i:7377425 original size:92 final size:91
Alignment explanation
Indices: 7377240--7377414 Score: 237
Period size: 92 Copynumber: 1.9 Consensus size: 91
7377230 TTAAACTACA
* * *
7377240 ATAGCAAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCCAAATTAAGCTTCAAACATCAATTCCT
1 ATAGCAAGTCTTTATCTCTCTGAAGTTCTAGTAAGAGCCAAATGAAGCTTCAAACA-CAAATCCT
* * *
7377305 ATCCTCTTGAAGTTGTAGTAAAGTTGG
65 ATCCTCATGAAGATGCAGTAAAGTTGG
*
7377332 ATAGCAAGTCTTTATCTCTCTGAAGTTCTAGTAAGAG-CAAGATGAAGCTTCGATAC-CAAATCC
1 ATAGCAAGTCTTTATCTCTCTGAAGTTCTAGTAAGAGCCAA-ATGAAGCTTC-AAACACAAATCC
*
7377395 TATCTTCATGAAGATGCAGT
64 TATCCTCATGAAGATGCAGT
7377415 GGAATTTGGA
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
91 25 0.34
92 45 0.62
93 3 0.04
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (91 bp):
ATAGCAAGTCTTTATCTCTCTGAAGTTCTAGTAAGAGCCAAATGAAGCTTCAAACACAAATCCTA
TCCTCATGAAGATGCAGTAAAGTTGG
Found at i:7377914 original size:17 final size:17
Alignment explanation
Indices: 7377894--7377966 Score: 74
Period size: 17 Copynumber: 4.2 Consensus size: 17
7377884 AATAAGTTTG
*
7377894 AATTTATTTTAAATTCA
1 AATTTATTTTAAATTTA
*** *
7377911 AATTTATTTTTGGGTTTG
1 AATTTA-TTTTAAATTTA
*
7377929 AATTTACTTTAAATTTA
1 AATTTATTTTAAATTTA
*
7377946 AATTTATTTTAAATTAA
1 AATTTATTTTAAATTTA
7377963 AATT
1 AATT
7377967 AAATTAAAGG
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
17 31 0.72
18 12 0.28
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:7377928 original size:35 final size:35
Alignment explanation
Indices: 7377889--7377955 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
7377879 TTTAAAATAA
*
7377889 GTTTGAATTTATTTTAAATTCAAATTTATTTTTGG
1 GTTTGAATTTACTTTAAATTCAAATTTATTTTTGG
*
7377924 GTTTGAATTTACTTTAAATTTAAATTTATTTT
1 GTTTGAATTTACTTTAAATTCAAATTTATTTT
7377956 AAATTAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.30, C:0.03, G:0.09, T:0.58
Consensus pattern (35 bp):
GTTTGAATTTACTTTAAATTCAAATTTATTTTTGG
Found at i:7379848 original size:30 final size:30
Alignment explanation
Indices: 7379809--7380065 Score: 186
Period size: 30 Copynumber: 8.6 Consensus size: 30
7379799 CTTACCTGAT
* *
7379809 ATTATATTTTGACCCTAAAACTTTTTGAAA
1 ATTACATTTTGACCCTAAAACTTTTTAAAA
* *
7379839 ATTACATTTTGACACCT-AAACTTCTTCAAA
1 ATTACATTTTGAC-CCTAAAACTTTTTAAAA
* * * *
7379869 ATTATATTTTAACCCTTAAACTTTATAAAA
1 ATTACATTTTGACCCTAAAACTTTTTAAAA
* *
7379899 ATTACATTTTGACACC-CATACTTTCTT-AAA
1 ATTACATTTTGAC-CCTAAAACTTT-TTAAAA
** * **
7379929 ATTACATTTTGACCCCCAAACTTCTCCAAA
1 ATTACATTTTGACCCTAAAACTTTTTAAAA
* * * **
7379959 ATTATATTTTAACCCCAAAACTTACTAAAA
1 ATTACATTTTGACCCTAAAACTTTTTAAAA
* **
7379989 ATTATATTTT-ACCCTAAAA--TTCAAAAA
1 ATTACATTTTGACCCTAAAACTTTTTAAAA
* *
7380016 ATTACATTTTTAACCCTAAAAC-TTCTAAAA
1 ATTACA-TTTTGACCCTAAAACTTTTTAAAA
*
7380046 ATTACATTTTTACCCCTAAA
1 ATTACATTTTGA-CCCTAAA
7380066 CCTCCAAAAA
Statistics
Matches: 188, Mismatches: 29, Indels: 20
0.79 0.12 0.08
Matches are distributed among these distances:
27 11 0.06
28 4 0.02
29 28 0.15
30 139 0.74
31 6 0.03
ACGTcount: A:0.40, C:0.21, G:0.02, T:0.38
Consensus pattern (30 bp):
ATTACATTTTGACCCTAAAACTTTTTAAAA
Found at i:7379857 original size:60 final size:61
Alignment explanation
Indices: 7379784--7380065 Score: 215
Period size: 60 Copynumber: 4.7 Consensus size: 61
7379774 CAAAAATAGT
* * * *
7379784 ATTTTGACCCCTAAACTTACCT-GATATTATATTTTGACCCTAAAACTTTTTGAAAATTAC
1 ATTTTGACACCTAAACTTACCTAAAAATTATATTTTGACCCTAAAACTTTTTAAAAATTAC
* * * * *
7379844 ATTTTGACACCTAAACTT-CTTCAAAATTATATTTTAACCCTTAAACTTTATAAAAATTAC
1 ATTTTGACACCTAAACTTACCTAAAAATTATATTTTGACCCTAAAACTTTTTAAAAATTAC
* * * * * ** * ** *
7379904 ATTTTGACACCCATACTT-TCTTAAAATTACATTTTGACCCCCAAACTTCTCCAAAATTAT
1 ATTTTGACACCTAAACTTACCTAAAAATTATATTTTGACCCTAAAACTTTTTAAAAATTAC
* * * **
7379964 ATTTTAACCCCAAAACTTA-CTAAAAATTATATTTT-ACCCTAAAA--TTCAAAAAATTAC
1 ATTTTGACACCTAAACTTACCTAAAAATTATATTTTGACCCTAAAACTTTTTAAAAATTAC
* * *
7380021 ATTTTTA-ACCCTAAAACTT--CTAAAAATTACATTTTTACCCCTAAA
1 ATTTTGACA-CCT-AAACTTACCTAAAAATTATATTTTGA-CCCTAAA
7380066 CCTCCAAAAA
Statistics
Matches: 177, Mismatches: 39, Indels: 13
0.77 0.17 0.06
Matches are distributed among these distances:
57 31 0.18
58 7 0.04
59 16 0.09
60 123 0.69
ACGTcount: A:0.39, C:0.21, G:0.02, T:0.38
Consensus pattern (61 bp):
ATTTTGACACCTAAACTTACCTAAAAATTATATTTTGACCCTAAAACTTTTTAAAAATTAC
Found at i:7379922 original size:90 final size:90
Alignment explanation
Indices: 7379828--7380096 Score: 259
Period size: 90 Copynumber: 3.0 Consensus size: 90
7379818 TGACCCTAAA
* * **
7379828 ACTTT-TTGAAAATTACATTTTGACACCTAAACTTCTTCAAAATTATATTTTAACCCTTAAACTT
1 ACTTTCTT-AAAATTACATTTTGACACCCAAACTTCTCCAAAATTATATTTTAACCCCAAAAC-T
7379892 TA-TAAAAATTACATTTTGACACCCAT
64 TACTAAAAATTACATTTTGACACCCAT
*
7379918 ACTTTCTTAAAATTACATTTTGACCCCCAAACTTCTCCAAAATTATATTTTAACCCCAAAACTTA
1 ACTTTCTTAAAATTACATTTTGACACCCAAACTTCTCCAAAATTATATTTTAACCCCAAAACTTA
* *
7379983 CTAAAAATTATATTTT-AC-CCTA-
66 CTAAAAATTACATTTTGACACCCAT
** ** * * * * * *
7380005 AAATTCAAAAAATTACATTTTTA-ACCCTAAAACTTCT-AAAAATTACATTTTTACCCCTAAACC
1 ACTTTCTTAAAATTACATTTTGACACCC--AAACTTCTCCAAAATTATATTTTAACCCCAAAACT
* * *
7380068 T-CCAAAAATTCCATTTTGAC-CCCAA
64 TACTAAAAATTACATTTTGACACCCAT
7380093 ACTT
1 ACTT
7380097 CCAAAAGTTT
Statistics
Matches: 149, Mismatches: 24, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
86 16 0.11
87 45 0.30
88 13 0.09
89 5 0.03
90 68 0.46
91 2 0.01
ACGTcount: A:0.39, C:0.23, G:0.02, T:0.36
Consensus pattern (90 bp):
ACTTTCTTAAAATTACATTTTGACACCCAAACTTCTCCAAAATTATATTTTAACCCCAAAACTTA
CTAAAAATTACATTTTGACACCCAT
Found at i:7379975 original size:29 final size:29
Alignment explanation
Indices: 7379836--7380112 Score: 185
Period size: 30 Copynumber: 9.4 Consensus size: 29
7379826 AAACTTTTTG
* *
7379836 AAAATTACATTTTGACACCTAAACTTCTTC-
1 AAAATTACATTTTAAC-CCCAAACTTC-TCA
* * *
7379866 AAAATTATATTTTAACCCTTAAACTT-TATA
1 AAAATTACATTTTAACCC-CAAACTTCT-CA
* * *
7379896 AAAATTACATTTTGACACCCATACTT-TCTT
1 AAAATTACATTTTAAC-CCCAAACTTCTC-A
* *
7379926 AAAATTACATTTTGACCCCCAAACTTCTCC
1 AAAATTACATTTT-AACCCCAAACTTCTCA
*
7379956 AAAATTATATTTTAACCCCAAAACTTACT-A
1 AAAATTACATTTTAACCCC-AAACTT-CTCA
* * * *
7379986 AAAATTATATTTT-ACCCTAAAATTC-AA
1 AAAATTACATTTTAACCCCAAACTTCTCA
*
7380013 AAAATTACATTTTTAACCCTAAAACTTCT-A
1 AAAATTACA-TTTTAACCC-CAAACTTCTCA
* *
7380043 AAAATTACATTTTTACCCCTAAACCTC-CA
1 AAAATTACATTTTAACCCC-AAACTTCTCA
* *
7380072 AAAATTCCATTTTGACCCCAAACTTC-CA
1 AAAATTACATTTTAACCCCAAACTTCTCA
* *
7380100 AAAGTTTCATTTT
1 AAAATTACATTTT
7380113 TGACCCTGAA
Statistics
Matches: 202, Mismatches: 29, Indels: 34
0.76 0.11 0.13
Matches are distributed among these distances:
27 10 0.05
28 29 0.14
29 47 0.23
30 109 0.54
31 7 0.03
ACGTcount: A:0.39, C:0.23, G:0.02, T:0.36
Consensus pattern (29 bp):
AAAATTACATTTTAACCCCAAACTTCTCA
Found at i:7380113 original size:29 final size:29
Alignment explanation
Indices: 7379895--7380142 Score: 170
Period size: 30 Copynumber: 8.5 Consensus size: 29
7379885 TAAACTTTAT
* *
7379895 AAAAATTACA-TTTTGACACCCATACTTTCT
1 AAAAATTACATTTTTGAC-CCCAAAC-TTCC
*
7379925 TAAAATTACA-TTTTGACCCCCAAACTTCTC
1 AAAAATTACATTTTTGA-CCCCAAACTTC-C
* * * *
7379955 CAAAATTATA-TTTTAACCCCAAAACTTACT
1 AAAAATTACATTTTTGACCCC-AAACTT-CC
* * * *
7379985 AAAAATTATA-TTTT-ACCCTAAAATTCA
1 AAAAATTACATTTTTGACCCCAAACTTCC
* * *
7380012 AAAAATTACATTTTTAACCCTAAAACTTCT
1 AAAAATTACATTTTTGACCC-CAAACTTCC
*
7380042 AAAAATTACATTTTT-ACCCCTAAACCTCC
1 AAAAATTACATTTTTGACCCC-AAACTTCC
*
7380071 AAAAATTCCA-TTTTGACCCCAAACTTCC
1 AAAAATTACATTTTTGACCCCAAACTTCC
* * *
7380099 AAAAGTTTCATTTTTGACCCTGAAAC-TCC
1 AAAAATTACATTTTTGACCC-CAAACTTCC
*
7380128 TAAAATTACCATTTT
1 AAAAATTA-CATTTT
7380143 ACCCTCGAGC
Statistics
Matches: 180, Mismatches: 26, Indels: 24
0.78 0.11 0.10
Matches are distributed among these distances:
27 10 0.06
28 28 0.16
29 56 0.31
30 84 0.47
31 2 0.01
ACGTcount: A:0.39, C:0.24, G:0.02, T:0.35
Consensus pattern (29 bp):
AAAAATTACATTTTTGACCCCAAACTTCC
Found at i:7380159 original size:58 final size:57
Alignment explanation
Indices: 7380050--7380160 Score: 129
Period size: 57 Copynumber: 1.9 Consensus size: 57
7380040 CTAAAAATTA
*
7380050 CATTTTTACCCCTAAACCTCCAAAAATTCCATTTTGACCCCAAACTTCCAAAAGTTT
1 CATTTTTACCCCTAAACCTCCAAAAATTCCATTTTGACCCCAAACATCCAAAAGTTT
* * *
7380107 CATTTTTGA-CCCTGAAA-CTCCTAAAATTACCATTTT-ACCCTCGAGCATCCAAAA
1 CATTTTT-ACCCCT-AAACCTCCAAAAATT-CCATTTTGACCC-CAAACATCCAAAA
7380161 AGTCCCCTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
57 25 0.54
58 21 0.46
ACGTcount: A:0.33, C:0.31, G:0.05, T:0.31
Consensus pattern (57 bp):
CATTTTTACCCCTAAACCTCCAAAAATTCCATTTTGACCCCAAACATCCAAAAGTTT
Found at i:7380312 original size:147 final size:145
Alignment explanation
Indices: 7380079--7380438 Score: 399
Period size: 147 Copynumber: 2.5 Consensus size: 145
7380069 CCAAAAATTC
* * * * * *
7380079 CATTTTGACCCCAAA-C-TTCCAAAAGTT-TCATTTTTGACCCTGAAACTCCTAAAATTACCATT
1 CATTTTAACCCCAAATCTTTCCAAAA-TTACCATTTTTGCCCCCGAGAGTCC-AAAATTACCATT
* * * * *
7380141 TTACCCTCGAGCATCCAAAAAGTCCCCTTTTTATCTCAATTTTTTCTAAAAATTACTGTTTTACC
64 TTGCCCTCAAGCATCCAAAAAGTCCCCTTTTTATCTCAATTCTTTC-AAAAATTACCGTTTCACC
** **
7380206 C-TCAAGTGTTTAAAATGT
128 CATCAA-CATCCAAAATGT
*
7380224 CATTTTTAACCCCAAAT-TTTCCCAAAATTACTA-TTTTGCCCCCCGAGAGTCCAAAATTACCAT
1 CA-TTTTAACCCCAAATCTTT-CCAAAATTACCATTTTTG-CCCCCGAGAGTCCAAAATTACCAT
* * **
7380287 TTTGTCCTCAAGCATCCAAAAAGTCCCTTTTTTATCTTGATTCTTTCAAAAATTACCGTTTCACC
63 TTTGCCCTCAAGCATCCAAAAAGTCCCCTTTTTATCTCAATTCTTTCAAAAATTACCGTTTCACC
*
7380352 CATGAACATCCAAAATGT
128 CATCAACATCCAAAATGT
* **
7380370 CATTTTAACCCTAAATCTTTTTAAAATTACCATTTTTGCCCCCGAGAGTCCAAAATTACCATTTT
1 CATTTTAACCCCAAATCTTTCCAAAATTACCATTTTTGCCCCCGAGAGTCCAAAATTACCATTTT
7380435 GCCC
66 GCCC
7380439 CTCGGGTATC
Statistics
Matches: 180, Mismatches: 26, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
145 54 0.30
146 47 0.26
147 63 0.35
148 16 0.09
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.36
Consensus pattern (145 bp):
CATTTTAACCCCAAATCTTTCCAAAATTACCATTTTTGCCCCCGAGAGTCCAAAATTACCATTTT
GCCCTCAAGCATCCAAAAAGTCCCCTTTTTATCTCAATTCTTTCAAAAATTACCGTTTCACCCAT
CAACATCCAAAATGT
Found at i:7382207 original size:57 final size:59
Alignment explanation
Indices: 7382080--7382220 Score: 155
Period size: 57 Copynumber: 2.4 Consensus size: 59
7382070 ACATTTCTAT
* * ** *
7382080 GCTCTTTGGTGTGTTTGAAGGGATGTGTTCTATTGCCTTTGGGTTTAGCACTTTTGAGC
1 GCTCATTGGTGTGTTTGGAGGGATGTCATCTATTGCCTTTGGGTTTAGCACTTTAGAGC
* ** *
7382139 TCTCA--ACTGTGTTTGGAGGGATGTCATCTCTTGCCTTTGGGTTTAGCAC-TTAG-GC
1 GCTCATTGGTGTGTTTGGAGGGATGTCATCTATTGCCTTTGGGTTTAGCACTTTAGAGC
*
7382194 GGTCATTGGTGTGTTTAGGAGGGATGT
1 GCTCATTGGTGTGTTT-GGAGGGATGT
7382221 GTTGCGATGC
Statistics
Matches: 66, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
55 5 0.08
56 3 0.05
57 45 0.68
58 10 0.15
59 3 0.05
ACGTcount: A:0.13, C:0.14, G:0.32, T:0.40
Consensus pattern (59 bp):
GCTCATTGGTGTGTTTGGAGGGATGTCATCTATTGCCTTTGGGTTTAGCACTTTAGAGC
Found at i:7386809 original size:32 final size:32
Alignment explanation
Indices: 7386771--7386842 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
7386761 CATTTGGTTC
*
7386771 GCTGTAATGGAATAGAGTTGTAATGGAATAGA
1 GCTGTAATAGAATAGAGTTGTAATGGAATAGA
* * *
7386803 GTTGTAATATAATAGAGTTGTAATGGAATAGG
1 GCTGTAATAGAATAGAGTTGTAATGGAATAGA
7386835 GCTGTAAT
1 GCTGTAAT
7386843 CAGTAATTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.36, C:0.03, G:0.29, T:0.32
Consensus pattern (32 bp):
GCTGTAATAGAATAGAGTTGTAATGGAATAGA
Found at i:7386842 original size:16 final size:16
Alignment explanation
Indices: 7386773--7386833 Score: 104
Period size: 16 Copynumber: 3.8 Consensus size: 16
7386763 TTTGGTTCGC
7386773 TGTAATGGAATAGAGT
1 TGTAATGGAATAGAGT
7386789 TGTAATGGAATAGAGT
1 TGTAATGGAATAGAGT
**
7386805 TGTAATATAATAGAGT
1 TGTAATGGAATAGAGT
7386821 TGTAATGGAATAG
1 TGTAATGGAATAG
7386834 GGCTGTAATC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.39, C:0.00, G:0.28, T:0.33
Consensus pattern (16 bp):
TGTAATGGAATAGAGT
Found at i:7386885 original size:46 final size:44
Alignment explanation
Indices: 7386824--7386912 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
7386814 ATAGAGTTGT
*
7386824 AATGGAATAGGGCTGTAATCAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAGCTGTAAT-AGT-ATTC-ATGTGTTTGGTTGAATGG
*
7386870 AATGGAATAGAGCTGTAATAGTATTCTTGTGTTTGGTTGAATG
1 AATGGAATAGAGCTGTAATAGTATTCATGTGTTTGGTTGAATG
7386913 AAATAGTGTT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
43 1 0.03
44 18 0.45
45 3 0.08
46 18 0.45
ACGTcount: A:0.29, C:0.06, G:0.28, T:0.37
Consensus pattern (44 bp):
AATGGAATAGAGCTGTAATAGTATTCATGTGTTTGGTTGAATGG
Found at i:7387066 original size:58 final size:57
Alignment explanation
Indices: 7386999--7387142 Score: 202
Period size: 58 Copynumber: 2.5 Consensus size: 57
7386989 GATTATTGTT
*
7386999 ATTAAATTTTAATA-AGATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTA
1 ATTAAATTTTAATATA-ATTATTATTAAATACAATTTAAT-AAAATAATAAATAATTTA
* * *
7387057 ATTATATTTTAACATAATTATTATTAAATACAATTTAATAAAATAATATATAATTTA
1 ATTAAATTTTAATATAATTATTATTAAATACAATTTAATAAAATAATAAATAATTTA
7387114 A-TAACATTTTTAATATAATTATTATTAAA
1 ATTAA-A-TTTTAATATAATTATTATTAAA
7387143 ATATGAATAA
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
56 2 0.03
57 19 0.25
58 55 0.71
59 1 0.01
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (57 bp):
ATTAAATTTTAATATAATTATTATTAAATACAATTTAATAAAATAATAAATAATTTA
Found at i:7387174 original size:58 final size:54
Alignment explanation
Indices: 7387004--7387174 Score: 150
Period size: 58 Copynumber: 3.0 Consensus size: 54
7386994 TTGTTATTAA
* * *
7387004 ATTTTAATA-AGATTATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATTAT
1 ATTTTAATATA-ATTATTATTAAATATAA-TTAATAAAAATTAT-AAT-A-TTAATAAC
* *
7387062 ATTTTAACATAATTATTATTAAATACAATTTAATAAAATAATATATAAT-TTAATAAC
1 ATTTTAATATAATTATTATTAAATATAA-TTAAT-AAA-AAT-TATAATATTAATAAC
7387119 ATTTTTAATATAATTATTATTAAAATATGAA-TAAGTAAAAATTATAATATATAATA
1 A-TTTTAATATAATTATTATT-AAATAT-AATTAA-TAAAAATTATAATAT-TAATA
7387175 TTAGAAAAAT
Statistics
Matches: 96, Mismatches: 7, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
56 6 0.06
57 11 0.11
58 59 0.61
59 10 0.10
60 8 0.08
61 2 0.02
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (54 bp):
ATTTTAATATAATTATTATTAAATATAATTAATAAAAATTATAATATTAATAAC
Found at i:7392136 original size:20 final size:18
Alignment explanation
Indices: 7392101--7392149 Score: 53
Period size: 22 Copynumber: 2.5 Consensus size: 18
7392091 AACAATAATT
7392101 TTAAATTTAAATATATAC
1 TTAAATTTAAATATATAC
7392119 TTAATATTTTAATAATATATAC
1 TTAA-A-TTT-A-AATATATAC
*
7392141 TAAAATTTA
1 TTAAATTTA
7392150 TAAATATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 4 0.15
19 2 0.08
20 6 0.23
21 2 0.08
22 12 0.46
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAAATTTAAATATATAC
Found at i:7392155 original size:20 final size:20
Alignment explanation
Indices: 7392106--7392156 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
7392096 TAATTTTAAA
*
7392106 TTTAAATATATACTTAATAT
1 TTTAAATATATACTTAAAAT
7392126 TTTAATAATATATAC-TAAAAT
1 TTT-A-AATATATACTTAAAAT
7392147 TTATAAATAT
1 TT-TAAATAT
7392157 TTAGTAAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 8 0.30
21 9 0.33
22 10 0.37
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (20 bp):
TTTAAATATATACTTAAAAT
Found at i:7395748 original size:20 final size:20
Alignment explanation
Indices: 7395702--7395748 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
7395692 AATTTTTGAA
*
7395702 TATTAACAAATCTTAACAAT
1 TATTAAAAAATCTTAACAAT
* *
7395722 AAGTAAAAAATCATTAA-AAT
1 TATTAAAAAATC-TTAACAAT
7395742 TATTAAA
1 TATTAAA
7395749 TTAGTAAAAG
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (20 bp):
TATTAAAAAATCTTAACAAT
Found at i:7405005 original size:13 final size:16
Alignment explanation
Indices: 7404970--7404999 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7404960 TACAATAATA
7404970 ATAATAATAATATGAC
1 ATAATAATAATATGAC
7404986 ATAATAATAA-ATGA
1 ATAATAATAATATGA
7405000 AAATAAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (16 bp):
ATAATAATAATATGAC
Found at i:7405447 original size:17 final size:16
Alignment explanation
Indices: 7405410--7405453 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
7405400 TAATCCTTTA
7405410 AAAATT-TTAAAATAT
1 AAAATTATTAAAATAT
7405425 -AAATTATTAAAATAAT
1 AAAATTATTAAAAT-AT
*
7405441 AAAATTACTAAAA
1 AAAATTATTAAAA
7405454 ACATTAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 5 0.20
15 7 0.28
16 2 0.08
17 11 0.44
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAATTATTAAAATAT
Found at i:7409458 original size:21 final size:21
Alignment explanation
Indices: 7409434--7409549 Score: 106
Period size: 21 Copynumber: 5.3 Consensus size: 21
7409424 TTTACATTTA
*
7409434 TTTTTTATATTTTCGAAATAT
1 TTTTTTATATTTTCAAAATAT
*
7409455 TTTTTTATATTTTCTAAATAT
1 TTTTTTATATTTTCAAAATAT
* * **
7409476 TTATTTATAAATTAAAAATATTAT
1 TTTTTTAT-ATTTTCAAA-A-TAT
*
7409500 ATTTTTTATATTTTCGAAATAT
1 -TTTTTTATATTTTCAAAATAT
* *
7409522 TTGTTTACATTTTCAAAATAT
1 TTTTTTATATTTTCAAAATAT
7409543 ATTTTTT
1 -TTTTTT
7409550 TACAAATGAA
Statistics
Matches: 75, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
21 45 0.60
22 13 0.17
23 2 0.03
24 8 0.11
25 7 0.09
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (21 bp):
TTTTTTATATTTTCAAAATAT
Found at i:7409540 original size:46 final size:44
Alignment explanation
Indices: 7409451--7409551 Score: 130
Period size: 46 Copynumber: 2.2 Consensus size: 44
7409441 TATTTTCGAA
* *
7409451 ATATTTTTTTATATTTTCTAAATATTTATTTATAAATTAAAAAT
1 ATATTTTTTTATATTTTCGAAATATTTATTTACAAATTAAAAAT
* ** *
7409495 ATTATATTTTTTATATTTTCGAAATATTTGTTTACATTTTCAAAAT
1 A-TAT-TTTTTTATATTTTCGAAATATTTATTTACAAATTAAAAAT
7409541 ATATTTTTTTA
1 ATATTTTTTTA
7409552 CAAATGAAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
44 8 0.16
45 6 0.12
46 35 0.71
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (44 bp):
ATATTTTTTTATATTTTCGAAATATTTATTTACAAATTAAAAAT
Found at i:7411679 original size:57 final size:58
Alignment explanation
Indices: 7411581--7411803 Score: 258
Period size: 57 Copynumber: 3.8 Consensus size: 58
7411571 GCAAACACCC
* * *
7411581 AAAAATATATTTGTTGTATCTGAAAAAAGGGATGTCAACCATGGCTTGACAGACACTTA
1 AAAAATAT-TTTTTTGTATCTGAAAAAAGGGGTGTCGACCATGGCTTGACAGACACTTA
*
7411640 AAAAATATTTTTTTGTATCT-AAAAAAGGGGTGTCGACCATGGCTTGACAGATACCTTA
1 AAAAATATTTTTTTGTATCTGAAAAAAGGGGTGTCGACCATGGCTTGACAGACA-CTTA
* * *
7411698 AAAAATA-TTTTTT-TATCTGAAAAAGGGGGTGTC-AGCCATGGCTTGACAAACACTCA
1 AAAAATATTTTTTTGTATCTGAAAAAAGGGGTGTCGA-CCATGGCTTGACAGACACTTA
* * *
7411754 TAAAATATTTTTTTTGGATATCT-AAAAAAGGGAGTGTCGATCATTGCTTG
1 AAAAATA-TTTTTTT-G-TATCTGAAAAAAGGG-GTGTCGACCATGGCTTG
7411804 GTAGACACAA
Statistics
Matches: 142, Mismatches: 12, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
56 15 0.11
57 64 0.45
58 28 0.20
59 8 0.06
60 8 0.06
61 18 0.13
62 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (58 bp):
AAAAATATTTTTTTGTATCTGAAAAAAGGGGTGTCGACCATGGCTTGACAGACACTTA
Found at i:7411737 original size:114 final size:120
Alignment explanation
Indices: 7411581--7411803 Score: 323
Period size: 114 Copynumber: 1.9 Consensus size: 120
7411571 GCAAACACCC
* *
7411581 AAAAATATATTTGTTGTATCTGAAAAAAGGGATGTCAACCATGGCTTGACAGACACTTAAAAAAT
1 AAAAATATATTTGTTGTATCTGAAAAAAGGGATGTCAACCATGGCTTGACAAACACTCAAAAAAT
7411646 A-TTTTTTT-G-TATCTAAAAAAGGG-GTGTCGACCATGGCTTGACAGATACCTT
66 ATTTTTTTTGGATATCTAAAAAAGGGAGTGTCGACCATGGCTTGACAGATACCTT
* * * * *
7411697 AAAAA-ATATTT-TTTTATCTGAAAAAGGGGGTGTCAGCCATGGCTTGACAAACACTCATAAAAT
1 AAAAATATATTTGTTGTATCTGAAAAAAGGGATGTCAACCATGGCTTGACAAACACTCAAAAAAT
* *
7411760 ATTTTTTTTGGATATCTAAAAAAGGGAGTGTCGATCATTGCTTG
66 ATTTTTTTTGGATATCTAAAAAAGGGAGTGTCGACCATGGCTTG
7411804 GTAGACACAA
Statistics
Matches: 94, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
114 46 0.49
115 13 0.14
116 6 0.06
117 14 0.15
118 15 0.16
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (120 bp):
AAAAATATATTTGTTGTATCTGAAAAAAGGGATGTCAACCATGGCTTGACAAACACTCAAAAAAT
ATTTTTTTTGGATATCTAAAAAAGGGAGTGTCGACCATGGCTTGACAGATACCTT
Found at i:7411816 original size:114 final size:114
Alignment explanation
Indices: 7411552--7411817 Score: 302
Period size: 114 Copynumber: 2.3 Consensus size: 114
7411542 TTTTATTTTT
* * * *
7411552 GGGTGTCGGCCATGGGTTGGCAAACACCCAAAAATATATTTGTTGTATCTGAAAAAAGGGATGTC
1 GGGTGTCGACCATGGCTTGACAGACA-CCAAAAATATATTTGTTGTATCTGAAAAAAGGGATGTC
* *
7411617 AACCATGGCTTGACAGACACTTAAAAAATATTTTTTTGTATCTAAAAAAG
65 AACCATGGCTTGACAAACACTCAAAAAATATTTTTTTGTATCTAAAAAAG
* * * *
7411667 GGGTGTCGACCATGGCTTGACAGATACCTTAAAAA-ATATTT-TTTTATCTGAAAAAGGGGGTGT
1 GGGTGTCGACCATGGCTTGACAGACACC--AAAAATATATTTGTTGTATCTGAAAAAAGGGATGT
* *
7411730 CAGCCATGGCTTGACAAACACTCATAAAATATTTTTTTTGGATATCTAAAAAAG
64 CAACCATGGCTTGACAAACACTCAAAAAATA-TTTTTTT-G-TATCTAAAAAAG
* * ** *
7411784 GGAGTGTCGATCATTGCTTGGTAGACACAAAAAA
1 GG-GTGTCGACCATGGCTTGACAGACACCAAAAA
7411818 AAATTTATAC
Statistics
Matches: 127, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
114 48 0.38
115 34 0.27
116 11 0.09
117 14 0.11
118 20 0.16
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (114 bp):
GGGTGTCGACCATGGCTTGACAGACACCAAAAATATATTTGTTGTATCTGAAAAAAGGGATGTCA
ACCATGGCTTGACAAACACTCAAAAAATATTTTTTTGTATCTAAAAAAG
Found at i:7414733 original size:35 final size:35
Alignment explanation
Indices: 7414694--7414768 Score: 150
Period size: 35 Copynumber: 2.1 Consensus size: 35
7414684 CTAGAATGAT
7414694 GTTGATATGTTTGTTAAACATCTAAATGTGCTAAG
1 GTTGATATGTTTGTTAAACATCTAAATGTGCTAAG
7414729 GTTGATATGTTTGTTAAACATCTAAATGTGCTAAG
1 GTTGATATGTTTGTTAAACATCTAAATGTGCTAAG
7414764 GTTGA
1 GTTGA
7414769 ATTTAGAAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (35 bp):
GTTGATATGTTTGTTAAACATCTAAATGTGCTAAG
Found at i:7417614 original size:37 final size:37
Alignment explanation
Indices: 7417573--7417643 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
7417563 TTGCTTTCCT
* *
7417573 ATTTCTCTTATTTTTACTCTCTCTATTCTTTTATGAA
1 ATTTCTCTTATTTTAACTCTCTATATTCTTTTATGAA
* * *
7417610 ATTTCTTTTGTTTTAATTCTCTATATTCTTTTAT
1 ATTTCTCTTATTTTAACTCTCTATATTCTTTTAT
7417644 TTCATAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.18, C:0.15, G:0.03, T:0.63
Consensus pattern (37 bp):
ATTTCTCTTATTTTAACTCTCTATATTCTTTTATGAA
Found at i:7419002 original size:41 final size:41
Alignment explanation
Indices: 7418906--7419053 Score: 199
Period size: 41 Copynumber: 3.5 Consensus size: 41
7418896 AACTCGATAT
* *
7418906 TTAAATGGAAGACTCATGTCTC-GAGTTGAGCATGAGAATTTATA
1 TTAAA-GGAAGACTCATGTCTCAG-GATGAGAATGAG-A-TTATA
* *
7418950 TAAAAGGAAGACTCATGTCTCAGGATGAGAATAAGATTATA
1 TTAAAGGAAGACTCATGTCTCAGGATGAGAATGAGATTATA
*
7418991 TTAAAGGAAGACTCATGTCTCGGGATGAGAATGAGATTATA
1 TTAAAGGAAGACTCATGTCTCAGGATGAGAATGAGATTATA
*
7419032 TTAAATGAAGACTCATGTCTCA
1 TTAAAGGAAGACTCATGTCTCA
7419054 AAATGATCAT
Statistics
Matches: 94, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
41 63 0.67
42 1 0.01
43 25 0.27
44 5 0.05
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.28
Consensus pattern (41 bp):
TTAAAGGAAGACTCATGTCTCAGGATGAGAATGAGATTATA
Found at i:7419069 original size:82 final size:85
Alignment explanation
Indices: 7418906--7419059 Score: 224
Period size: 82 Copynumber: 1.8 Consensus size: 85
7418896 AACTCGATAT
* *
7418906 TTAAATGGAAGACTCATGTCTCGAGTTGAGCATGAGAATTTATATAAAAGGAAGACTCATGTCTC
1 TTAAATGGAAGACTCATGTCTCGAGATGAGAATGAGAATTTATATAAAAGGAAGACTCATGTCTC
**
7418971 AGGATGAGAATAAGATTATA
66 AAAATGAGAATAAGATTATA
* * *
7418991 TTAAA-GGAAGACTCATGTCTCGGGATGAGAATGAG-A-TTATATTAAATGAAGACTCATGTCTC
1 TTAAATGGAAGACTCATGTCTCGAGATGAGAATGAGAATTTATATAAAAGGAAGACTCATGTCTC
7419053 AAAATGA
66 AAAATGA
7419060 TCATGAGATT
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
82 29 0.47
83 1 0.02
84 27 0.44
85 5 0.08
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (85 bp):
TTAAATGGAAGACTCATGTCTCGAGATGAGAATGAGAATTTATATAAAAGGAAGACTCATGTCTC
AAAATGAGAATAAGATTATA
Found at i:7419136 original size:40 final size:40
Alignment explanation
Indices: 7419078--7419174 Score: 149
Period size: 40 Copynumber: 2.4 Consensus size: 40
7419068 TTTGTTTTTA
*
7419078 AAAATGAAGACTTATGACTCGGTAGAGCATAAGAGTGATT
1 AAAAGGAAGACTTATGACTCGGTAGAGCATAAGAGTGATT
* * *
7419118 AAAAGGAAGACTTGTGACTCGGTAGAGCATAGGATTGATT
1 AAAAGGAAGACTTATGACTCGGTAGAGCATAAGAGTGATT
*
7419158 AAAAGAAAGACTTATGA
1 AAAAGGAAGACTTATGA
7419175 ACCTATGAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.41, C:0.09, G:0.26, T:0.24
Consensus pattern (40 bp):
AAAAGGAAGACTTATGACTCGGTAGAGCATAAGAGTGATT
Found at i:7420345 original size:24 final size:24
Alignment explanation
Indices: 7420313--7420361 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
7420303 TCTCTATATA
7420313 TCATATCAAAGAGTAAACTGGTCC
1 TCATATCAAAGAGTAAACTGGTCC
7420337 TCATATCAAAGAGTAAACTGGTCC
1 TCATATCAAAGAGTAAACTGGTCC
7420361 T
1 T
7420362 TCTATTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (24 bp):
TCATATCAAAGAGTAAACTGGTCC
Found at i:7420926 original size:26 final size:27
Alignment explanation
Indices: 7420897--7420973 Score: 77
Period size: 26 Copynumber: 2.8 Consensus size: 27
7420887 TAAGATGATT
7420897 ATATAAAAAATTTTAATAAATAAAA-A
1 ATATAAAAAATTTTAATAAATAAAATA
* *
7420923 ATATATAAAATTATTAAT-ATTAAAATA
1 ATATAAAAAATT-TTAATAAATAAAATA
*
7420950 ATATAATATAAATATTTATTAAAT
1 ATATAA-A-AAAT-TTTAATAAAT
7420974 TTTTTTAAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
26 17 0.43
27 11 0.28
28 1 0.03
29 8 0.20
30 3 0.08
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (27 bp):
ATATAAAAAATTTTAATAAATAAAATA
Found at i:7420941 original size:16 final size:17
Alignment explanation
Indices: 7420922--7420959 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
7420912 ATAAATAAAA
*
7420922 AATATATAAAATTAT-T
1 AATATATAAAATAATAT
7420938 AATAT-TAAAATAATAT
1 AATATATAAAATAATAT
7420954 AATATA
1 AATATA
7420960 AATATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AATATATAAAATAATAT
Found at i:7435690 original size:9 final size:9
Alignment explanation
Indices: 7435676--7435746 Score: 65
Period size: 8 Copynumber: 7.6 Consensus size: 9
7435666 ATTATTTTAG
7435676 AAAATTTTT
1 AAAATTTTT
7435685 AAAA-TTTT
1 AAAATTTTT
7435693 AAAATTTTT
1 AAAATTTTT
*
7435702 ATATATTTTTT
1 A-A-AATTTTT
*
7435713 AGAATTTTTTT
1 A-AA-ATTTTT
7435724 AAAA-TTTT
1 AAAATTTTT
7435732 AAAATTTTTT
1 AAAA-TTTTT
7435742 AAAAT
1 AAAAT
7435747 ATAAATGTTG
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
8 16 0.30
9 10 0.19
10 12 0.23
11 15 0.28
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (9 bp):
AAAATTTTT
Found at i:7435714 original size:39 final size:40
Alignment explanation
Indices: 7435665--7435740 Score: 127
Period size: 39 Copynumber: 1.9 Consensus size: 40
7435655 GTCTCAAAAT
7435665 TATTATTTTAGAAAATTTTTAAAATTTTAAAATTTTTATA
1 TATTATTTTAGAAAATTTTTAAAATTTTAAAATTTTTATA
**
7435705 TATT-TTTTAGAATTTTTTTAAAATTTTAAAATTTTT
1 TATTATTTTAGAAAATTTTTAAAATTTTAAAATTTTT
7435741 TAAAATATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 30 0.88
40 4 0.12
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (40 bp):
TATTATTTTAGAAAATTTTTAAAATTTTAAAATTTTTATA
Found at i:7435731 original size:10 final size:10
Alignment explanation
Indices: 7435670--7435746 Score: 65
Period size: 11 Copynumber: 7.9 Consensus size: 10
7435660 AAAATTATTA
*
7435670 TTTTAGAAAAT
1 TTTTA-AAATT
7435681 TTTTAAAA--
1 TTTTAAAATT
7435689 TTTTAAAA-T
1 TTTTAAAATT
*
7435698 TTTTATATATT
1 TTTTA-AAATT
*
7435709 TTTTAGAATTT
1 TTTTA-AAATT
7435720 TTTTAAAA--
1 TTTTAAAATT
7435728 TTTTAAAATT
1 TTTTAAAATT
7435738 TTTTAAAAT
1 TTTTAAAAT
7435747 ATAAATGTTG
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
8 16 0.29
9 5 0.09
10 16 0.29
11 19 0.34
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:7437032 original size:23 final size:21
Alignment explanation
Indices: 7437001--7437058 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 21
7436991 GGCCAAACAG
* *
7437001 AATGTCACAAAGGCAGCATAC
1 AATGCCACAAAGGCAGAATAC
* *
7437022 AATACGCCACAATGGC-GAATAG
1 AAT--GCCACAAAGGCAGAATAC
7437044 AATGCCACAAAGGCA
1 AATGCCACAAAGGCA
7437059 CCCTAAAAGC
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
20 10 0.34
21 3 0.10
22 7 0.24
23 9 0.31
ACGTcount: A:0.43, C:0.24, G:0.21, T:0.12
Consensus pattern (21 bp):
AATGCCACAAAGGCAGAATAC
Found at i:7438592 original size:18 final size:20
Alignment explanation
Indices: 7438541--7438593 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
7438531 TTTCAAATTA
*
7438541 TATATTCATTAATAATAGTAT
1 TATATTAATTAATAATAG-AT
* *
7438562 TATAATAAATAATAATA-AT
1 TATATTAATTAATAATAGAT
7438581 T-TATTAATTAATA
1 TATATTAATTAATA
7438594 TTATAAAATA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
18 10 0.37
19 3 0.11
21 14 0.52
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
TATATTAATTAATAATAGAT
Found at i:7444366 original size:30 final size:30
Alignment explanation
Indices: 7444285--7444519 Score: 271
Period size: 30 Copynumber: 7.8 Consensus size: 30
7444275 AAAATGCAAC
7444285 TTTTAGAAAGTTT--GGAGTTAAAATATAAT
1 TTTTAGAAAGTTTAAGG-GTTAAAATATAAT
* * * *
7444314 TTTCAAAAAGTTCAAGGGGTTAAAATGTAAT
1 TTTTAGAAAGTTTAA-GGGTTAAAATATAAT
* *
7444345 TTTTAAAAAGTTTAAGGGTTAAAATGTAAT
1 TTTTAGAAAGTTTAAGGGTTAAAATATAAT
* * *
7444375 TTTTAGAAAGTTTAGGGGTCAAAATCA-AAC
1 TTTTAGAAAGTTTAAGGGTTAAAAT-ATAAT
**
7444405 TTTTAGAAAG-TTAAGGGGCCAAAATATAAT
1 TTTTAGAAAGTTTAA-GGGTTAAAATATAAT
*
7444435 TTTTAGAAAGTTTAGGGGTTAAAATATAAT
1 TTTTAGAAAGTTTAAGGGTTAAAATATAAT
*
7444465 TTTTAAAAAGTTTAAGGGATTAAAATATAAT
1 TTTTAGAAAGTTTAAGGG-TTAAAATATAAT
*
7444496 TTTTAGAAAGTTTAAGGGTCAAAA
1 TTTTAGAAAGTTTAAGGGTTAAAA
7444520 CAAAATTTCT
Statistics
Matches: 177, Mismatches: 21, Indels: 15
0.83 0.10 0.07
Matches are distributed among these distances:
29 14 0.08
30 104 0.59
31 57 0.32
32 2 0.01
ACGTcount: A:0.43, C:0.03, G:0.18, T:0.36
Consensus pattern (30 bp):
TTTTAGAAAGTTTAAGGGTTAAAATATAAT
Found at i:7448654 original size:21 final size:21
Alignment explanation
Indices: 7448616--7448659 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
7448606 ATGTATTCAT
*
7448616 TAATAATAGTCTTATAATAAA
1 TAATAATAATCTTATAATAAA
*
7448637 TAATAATAAT-TTATTAATTAA
1 TAATAATAATCTTA-TAATAAA
7448658 TA
1 TA
7448660 TTATAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
TAATAATAATCTTATAATAAA
Found at i:7448658 original size:18 final size:19
Alignment explanation
Indices: 7448609--7448659 Score: 50
Period size: 21 Copynumber: 2.6 Consensus size: 19
7448599 TCAAATGATG
* *
7448609 TATTCATTAATAATAGTCT
1 TATTAATTAATAATAATCT
*
7448628 TATAATAAATAATAATAAT-T
1 TAT--TAATTAATAATAATCT
7448648 TATTAATTAATA
1 TATTAATTAATA
7448660 TTATAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
18 8 0.31
19 3 0.12
20 4 0.15
21 11 0.42
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (19 bp):
TATTAATTAATAATAATCT
Found at i:7450217 original size:6 final size:6
Alignment explanation
Indices: 7450209--7450291 Score: 75
Period size: 6 Copynumber: 14.2 Consensus size: 6
7450199 GACTTTATGT
* * *
7450209 TTTAAT TTTAAA TTTAAA -TTAAT TTTTAA TTT--A TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
7450254 TTT-AT TTTAAA TTTAAA TTCAACTA TTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA TTTAA--A TTTAAA TTTAAA T
7450292 CAAATTATGA
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
4 4 0.06
5 8 0.13
6 46 0.73
8 5 0.08
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.55
Consensus pattern (6 bp):
TTTAAA
Found at i:7450232 original size:17 final size:17
Alignment explanation
Indices: 7450210--7450291 Score: 70
Period size: 17 Copynumber: 5.1 Consensus size: 17
7450200 ACTTTATGTT
7450210 TTAATTTTAAATTTAAA
1 TTAATTTTAAATTTAAA
7450227 TTAA--TT---TTT-AA
1 TTAATTTTAAATTTAAA
*
7450238 TTTA-TTTAAATTTAAA
1 TTAATTTTAAATTTAAA
*
7450254 TTTATTTTAAATTTAAA
1 TTAATTTTAAATTTAAA
7450271 TTCAACTATTTAAATTTAAA
1 TT-AA-T-TTTAAATTTAAA
7450291 T
1 T
7450292 CAAATTATGA
Statistics
Matches: 54, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
11 5 0.09
12 5 0.09
15 5 0.09
16 6 0.11
17 18 0.33
18 1 0.02
19 1 0.02
20 13 0.24
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
TTAATTTTAAATTTAAA
Found at i:7450250 original size:27 final size:27
Alignment explanation
Indices: 7450215--7450268 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
7450205 ATGTTTTAAT
*
7450215 TTTAAATTTAAATTAATTTTTAATTTA
1 TTTAAATTTAAATTAATTTTAAATTTA
*
7450242 TTTAAATTTAAATTTATTTTAAATTTA
1 TTTAAATTTAAATTAATTTTAAATTTA
7450269 AATTCAACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (27 bp):
TTTAAATTTAAATTAATTTTAAATTTA
Found at i:7452233 original size:30 final size:30
Alignment explanation
Indices: 7452197--7452546 Score: 333
Period size: 30 Copynumber: 11.6 Consensus size: 30
7452187 TAAATTGCCC
* *
7452197 AAAAATTATATTTTGACCCCAAAACTTTCT
1 AAAAATTACATTTTGACCCTAAAACTTTCT
* *
7452227 AAAAATTACATTTTAACCTTAAAACTTTTCT
1 AAAAATTACATTTTGACCCTAAAAC-TTTCT
7452258 -AAAATTACATTTTGACCCTAAAACTTT-T
1 AAAAATTACATTTTGACCCTAAAACTTTCT
*
7452286 ATAAAATTACATTTTG-TCCTCAAAACTTTCT
1 A-AAAATTACATTTTGACCCT-AAAACTTTCT
*
7452317 AAAAATTGCATTTTGACTCC-AAAACTTT-T
1 AAAAATTACATTTTGAC-CCTAAAACTTTCT
* **
7452346 CCAAAATTACATTTCAACCCTAAAACTTTTCT
1 -AAAAATTACATTTTGACCCTAAAAC-TTTCT
* *
7452378 -AAAATTACATTTTGCCCCTAAAACTTCCT
1 AAAAATTACATTTTGACCCTAAAACTTTCT
* *
7452407 AAAAATTGCATTTTAACCCTAAAACTTT-T
1 AAAAATTACATTTTGACCCTAAAACTTTCT
* *
7452436 CCAAAATTACCTTTTGACCCTAAAACTTT-T
1 -AAAAATTACATTTTGACCCTAAAACTTTCT
* * *
7452466 CCAAAATCACATTATGACCCTAAAACTTTTCT
1 -AAAAATTACATTTTGACCCTAAAAC-TTTCT
* *
7452498 -AATATTACATTTTAACCCTAAAACTTT-T
1 AAAAATTACATTTTGACCCTAAAACTTTCT
* *
7452526 CCAATATTACATTTTTGACCC
1 -AAAAATTACA-TTTTGACCC
7452547 CGATTTTGCC
Statistics
Matches: 269, Mismatches: 33, Indels: 35
0.80 0.10 0.10
Matches are distributed among these distances:
28 2 0.01
29 17 0.06
30 225 0.84
31 21 0.08
32 4 0.01
ACGTcount: A:0.37, C:0.22, G:0.03, T:0.38
Consensus pattern (30 bp):
AAAAATTACATTTTGACCCTAAAACTTTCT
Found at i:7452264 original size:60 final size:59
Alignment explanation
Indices: 7452198--7452540 Score: 377
Period size: 60 Copynumber: 5.7 Consensus size: 59
7452188 AAATTGCCCA
* *
7452198 AAAATTATATTTTGACCCCAAAACTTTCTAAAAATTACATTTTAACCTTAAAACTTTTCT
1 AAAATTACATTTTGACCCCAAAACTTT-TAAAAATTACATTTTAACCCTAAAACTTTTCT
* **
7452258 AAAATTACATTTTGACCCTAAAACTTTTATAAAATTACATTTT-GTCCTCAAAAC-TTTCT
1 AAAATTACATTTTGACCCCAAAACTTTTA-AAAATTACATTTTAACCCT-AAAACTTTTCT
* * * *
7452317 AAAAATTGCATTTTGACTCCAAAACTTTTCCAAAATTACATTTCAACCCTAAAACTTTTCT
1 -AAAATTACATTTTGACCCCAAAACTTTT-AAAAATTACATTTTAACCCTAAAACTTTTCT
* * *
7452378 AAAATTACATTTTG-CCCCTAAAACTTCCTAAAAATTGCATTTTAACCCTAAAACTTTTCC
1 AAAATTACATTTTGACCCC-AAAACTT-TTAAAAATTACATTTTAACCCTAAAACTTTTCT
* * * * * *
7452438 AAAATTACCTTTTGACCCTAAAACTTTTCCAAAATCACATTATGACCCTAAAACTTTTCT
1 AAAATTACATTTTGACCCCAAAACTTTT-AAAAATTACATTTTAACCCTAAAACTTTTCT
* * * * *
7452498 AATATTACATTTTAACCCTAAAACTTTTCCAATATTACATTTT
1 AAAATTACATTTTGACCCCAAAACTTTT-AAAAATTACATTTT
7452541 TGACCCCGAT
Statistics
Matches: 239, Mismatches: 34, Indels: 20
0.82 0.12 0.07
Matches are distributed among these distances:
59 13 0.05
60 214 0.90
61 12 0.05
ACGTcount: A:0.38, C:0.22, G:0.03, T:0.38
Consensus pattern (59 bp):
AAAATTACATTTTGACCCCAAAACTTTTAAAAATTACATTTTAACCCTAAAACTTTTCT
Found at i:7452352 original size:90 final size:91
Alignment explanation
Indices: 7452198--7452546 Score: 467
Period size: 90 Copynumber: 3.9 Consensus size: 91
7452188 AAATTGCCCA
* * *
7452198 AAAATTATATTTTGACCCC-AAAACTTTCTAAAAATTACATTTTAACCTTAAAACTTTTCTAAAA
1 AAAATTACATTTTGACCCCTAAAACTTTCTAAAAATTACATTTTAACCCTAAAACTTTTCCAAAA
*
7452262 TTACATTTTGACCCTAAAACTTTTAT
66 TTACATTTTGACCCTAAAACTTTTCT
* * * *
7452288 AAAATTACATTTTGTCCTC-AAAACTTTCTAAAAATTGCATTTTGACTCC-AAAACTTTTCCAAA
1 AAAATTACATTTTGACCCCTAAAACTTTCTAAAAATTACATTTTAAC-CCTAAAACTTTTCCAAA
**
7452351 ATTACATTTCAACCCTAAAACTTTTCT
65 ATTACATTTTGACCCTAAAACTTTTCT
* *
7452378 AAAATTACATTTTG-CCCCTAAAACTTCCTAAAAATTGCATTTTAACCCTAAAACTTTTCCAAAA
1 AAAATTACATTTTGACCCCTAAAACTTTCTAAAAATTACATTTTAACCCTAAAACTTTTCCAAAA
* *
7452442 TTACCTTTTGACCCTAAAACTTTTCC
66 TTACATTTTGACCCTAAAACTTTTCT
* * * *
7452468 AAAATCACATTATGA-CCCTAAAACTTTTCT-AATATTACATTTTAACCCTAAAACTTTTCCAAT
1 AAAATTACATTTTGACCCCTAAAAC-TTTCTAAAAATTACATTTTAACCCTAAAACTTTTCCAAA
7452531 ATTACATTTTTGACCC
65 ATTACA-TTTTGACCC
7452547 CGATTTTGCC
Statistics
Matches: 229, Mismatches: 24, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
89 5 0.02
90 210 0.92
91 14 0.06
ACGTcount: A:0.37, C:0.22, G:0.03, T:0.38
Consensus pattern (91 bp):
AAAATTACATTTTGACCCCTAAAACTTTCTAAAAATTACATTTTAACCCTAAAACTTTTCCAAAA
TTACATTTTGACCCTAAAACTTTTCT
Found at i:7452621 original size:60 final size:59
Alignment explanation
Indices: 7452518--7452629 Score: 138
Period size: 60 Copynumber: 1.9 Consensus size: 59
7452508 TTTAACCCTA
**
7452518 AAACTTTTCCAATATTACATTTTTGACCCCGATTTTGCCAAAATTTATCCATTTATCCCCC
1 AAACTTTTCCAATATTACATTTTTGACCCCGATTTCACCAAAA-TTA-CCATTTATCCCCC
* * *
7452579 AAAC-TTTCCAA-AGTTCCATTTTTGGCCCCGATTTCACGAAAATTACCATTT
1 AAACTTTTCCAATA-TTACATTTTTGACCCCGATTTCACCAAAATTACCATTT
7452630 TGCCCCCTCT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
58 6 0.13
59 4 0.09
60 31 0.69
61 4 0.09
ACGTcount: A:0.29, C:0.27, G:0.07, T:0.38
Consensus pattern (59 bp):
AAACTTTTCCAATATTACATTTTTGACCCCGATTTCACCAAAATTACCATTTATCCCCC
Found at i:7452786 original size:30 final size:30
Alignment explanation
Indices: 7452728--7452786 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
7452718 CTCACCAATA
*
7452728 TTCGCATTTATTTGCATCTGCATCTTATATT
1 TTCGCATTTATTT-CATCTGCATATTATATT
*
7452759 TTCGCATATTATTT-ATCTGCTTATTATA
1 TTCGCAT-TTATTTCATCTGCATATTATA
7452787 ATGCTTCGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 12 0.48
31 7 0.28
32 6 0.24
ACGTcount: A:0.22, C:0.17, G:0.08, T:0.53
Consensus pattern (30 bp):
TTCGCATTTATTTCATCTGCATATTATATT
Found at i:7460801 original size:33 final size:34
Alignment explanation
Indices: 7460764--7460843 Score: 103
Period size: 33 Copynumber: 2.4 Consensus size: 34
7460754 TATCCTACGC
*
7460764 ATTGATTTTATATATCAATTAAAAT-ATTTTATA
1 ATTGATTTTATATATAAATTAAAATCATTTTATA
* * *
7460797 ATTGATGTTATAAATAAATTTAAATCATTTTATA
1 ATTGATTTTATATATAAATTAAAATCATTTTATA
7460831 ATT--TTTTATATAT
1 ATTGATTTTATATAT
7460844 TTTATTTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
32 8 0.20
33 21 0.52
34 11 0.28
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.53
Consensus pattern (34 bp):
ATTGATTTTATATATAAATTAAAATCATTTTATA
Found at i:7464016 original size:15 final size:13
Alignment explanation
Indices: 7463969--7464010 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
7463959 AACCTTTTGG
7463969 TAGAATAACAAGA
1 TAGAATAACAAGA
*
7463982 TAGGATATATCAAGA
1 TA-GA-ATAACAAGA
7463997 TAGAATAACAAGA
1 TAGAATAACAAGA
7464010 T
1 T
7464011 CCAGAAAAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 11 0.44
14 4 0.16
15 10 0.40
ACGTcount: A:0.55, C:0.07, G:0.17, T:0.21
Consensus pattern (13 bp):
TAGAATAACAAGA
Found at i:7464101 original size:22 final size:22
Alignment explanation
Indices: 7464068--7464109 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
7464058 TTTGTAAATT
*
7464068 TATAGTATGATCTCTTCAAAAG
1 TATAGTATGATCTCCTCAAAAG
7464090 TATATGTA-GATCTCCTCAAA
1 TATA-GTATGATCTCCTCAAA
7464110 GTTTAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.36
Consensus pattern (22 bp):
TATAGTATGATCTCCTCAAAAG
Found at i:7476403 original size:19 final size:20
Alignment explanation
Indices: 7476365--7476405 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
7476355 TAGAAAAATC
*
7476365 TTATTATTTATAAATTATAA
1 TTATTAGTTATAAATTATAA
*
7476385 TTATTAGTTA-AATTTATAA
1 TTATTAGTTATAAATTATAA
7476404 TT
1 TT
7476406 TTTTATGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TTATTAGTTATAAATTATAA
Found at i:7476679 original size:15 final size:15
Alignment explanation
Indices: 7476661--7476708 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
7476651 ATGTCTTTAA
7476661 ATATTTTAAATCATT
1 ATATTTTAAATCATT
7476676 ATATTTT--A--A--
1 ATATTTTAAATCATT
7476685 ATATTTTAAATCATT
1 ATATTTTAAATCATT
7476700 ATATTTTAA
1 ATATTTTAA
7476709 TTTAATACTG
Statistics
Matches: 27, Mismatches: 0, Indels: 12
0.69 0.00 0.31
Matches are distributed among these distances:
9 7 0.26
11 2 0.07
13 2 0.07
15 16 0.59
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTTTAAATCATT
Found at i:7476683 original size:24 final size:24
Alignment explanation
Indices: 7476656--7476708 Score: 106
Period size: 24 Copynumber: 2.2 Consensus size: 24
7476646 ATATTATGTC
7476656 TTTAAATATTTTAAATCATTATAT
1 TTTAAATATTTTAAATCATTATAT
7476680 TTTAAATATTTTAAATCATTATAT
1 TTTAAATATTTTAAATCATTATAT
7476704 TTTAA
1 TTTAA
7476709 TTTAATACTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (24 bp):
TTTAAATATTTTAAATCATTATAT
Found at i:7481177 original size:14 final size:15
Alignment explanation
Indices: 7481147--7481182 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
7481137 TCACTTTTTA
7481147 TTTTTAAAATAATTT
1 TTTTTAAAATAATTT
*
7481162 TTTTTAAAATCATTT
1 TTTTTAAAATAATTT
7481177 TTTTTA
1 TTTTTA
7481183 TATTTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (15 bp):
TTTTTAAAATAATTT
Found at i:7481178 original size:16 final size:15
Alignment explanation
Indices: 7481142--7481181 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
7481132 CAATTTCACT
7481142 TTTTATTTTTAAAATA
1 TTTT-TTTTTAAAATA
*
7481158 ATTTTTTTTAAAATCA
1 TTTTTTTTTAAAAT-A
7481174 TTTTTTTT
1 TTTTTTTT
7481182 ATATTTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTTTTTTTAAAATA
Found at i:7488609 original size:110 final size:109
Alignment explanation
Indices: 7488494--7488706 Score: 257
Period size: 110 Copynumber: 1.9 Consensus size: 109
7488484 TTTTTTCGAT
* * * * * **
7488494 TTAATTTCTTAACCGTTATTTAATATATTTTCATATTAACCCCATAAAAT-TTTCTTTTCATAAT
1 TTAATTTATTAACAGTTACTTAATATATTTTCATACTAACCCCAT-AAATCATTCCATTCATAAT
* *
7488558 TTTACAATCTCAATTTATGAAAACGAATTCCAAAATTATATTTATA
65 TTCACAATCTCAAATTATGAAAACGAATT-CAAAATTATATTTATA
* * *
7488604 TTAATTTATTAATAGTTACTTAATATATTTTCATACTAACTCTATAAATCATTCCATTCATAATT
1 TTAATTTATTAACAGTTACTTAATATATTTTCATACTAACCCCATAAATCATTCCATTCATAATT
* * * *
7488669 TCATAATCTTAAATTATGAAATCGAATTTAAAATTATA
66 TCACAATCTCAAATTATGAAAACGAATTCAAAATTATA
7488707 AGTGGATTGT
Statistics
Matches: 86, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
109 13 0.15
110 73 0.85
ACGTcount: A:0.39, C:0.13, G:0.03, T:0.45
Consensus pattern (109 bp):
TTAATTTATTAACAGTTACTTAATATATTTTCATACTAACCCCATAAATCATTCCATTCATAATT
TCACAATCTCAAATTATGAAAACGAATTCAAAATTATATTTATA
Found at i:7506396 original size:5 final size:5
Alignment explanation
Indices: 7506386--7506414 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
7506376 GGGTACCAGA
7506386 ATTTT ATTTT ATTTT ATTTT ATTTT ATTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTT
7506415 CAATTACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
ATTTT
Found at i:7520690 original size:21 final size:20
Alignment explanation
Indices: 7520648--7520691 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
7520638 GATTCGCCCA
*
7520648 AAAAATCTATATTTTATTTT
1 AAAAATCTATATTTTATATT
7520668 AAAAAT-TATATATTTATAATT
1 AAAAATCTATAT-TTTAT-ATT
7520689 AAA
1 AAA
7520692 TTTAAATAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 11 0.52
21 5 0.24
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
AAAAATCTATATTTTATATT
Found at i:7522718 original size:20 final size:18
Alignment explanation
Indices: 7522690--7522737 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 18
7522680 CCACGTCAGC
*
7522690 AAATGATTTTAAAATTATTA
1 AAATTATTTTAAAA-TA-TA
7522710 AAATTATTTTTTAAAATATA
1 AAATTA--TTTTAAAATATA
7522730 AAATTATT
1 AAATTATT
7522738 AAATTTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 2 0.08
20 13 0.52
21 2 0.08
22 8 0.32
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
AAATTATTTTAAAATATA
Found at i:7522751 original size:20 final size:20
Alignment explanation
Indices: 7522728--7522771 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
7522718 TTTTAAAATA
7522728 TAAAATT-ATTAAATTTATTT
1 TAAAATTAATTAAATTT-TTT
*
7522748 TAAAATTAATTTAATTTTTT
1 TAAAATTAATTAAATTTTTT
7522768 TAAA
1 TAAA
7522772 TATAAAATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
TAAAATTAATTAAATTTTTT
Found at i:7522763 original size:29 final size:29
Alignment explanation
Indices: 7522699--7522753 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 29
7522689 CAAATGATTT
*
7522699 TAAAATTATTAAAATTATTTTTTAAAATA
1 TAAAATTATTAAAATTATATTTTAAAATA
7522728 TAAAATTATT-AAATT-TATTTTAAAAT
1 TAAAATTATTAAAATTATATTTTAAAAT
7522754 TAATTTAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 10 0.40
28 5 0.20
29 10 0.40
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
TAAAATTATTAAAATTATATTTTAAAATA
Done.