Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 29 of 143
Found at i:8584000 original size:52 final size:52
Alignment explanation
Indices: 8583937--8584172 Score: 348
Period size: 52 Copynumber: 4.5 Consensus size: 52
8583927 AAATGCAAAA
* *
8583937 AGGTCCGATGACTATGTGTCATTGTGAATATATGAATCCTTTACAGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATG
* ***
8583989 AGGTCCAATGACTATGTGTCATCGTGAGTATATGAATCCTTTTTGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATG
8584041 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATG
* * * * *
8584093 AAGTCCGATAACTATGTGTCATCGTGAGCATATGGATCCTTTTACAGATT-TA
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCC-TTTACAGATTATG
*
8584145 AGGTCCGATGACTTTGTGTCATCGTGAG
1 AGGTCCGATGACTATGTGTCATCGTGAG
8584173 AATTAAATGG
Statistics
Matches: 165, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
52 155 0.94
53 10 0.06
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.36
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCCTTTACAGATTATG
Found at i:8591478 original size:26 final size:26
Alignment explanation
Indices: 8591448--8591497 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
8591438 CCACAAATAT
8591448 AACATACATAAAATAAAATGCAAAGC
1 AACATACATAAAATAAAATGCAAAGC
*
8591474 AACATATATAAAATAAAATGCAAA
1 AACATACATAAAATAAAATGCAAA
8591498 AGATCACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.64, C:0.12, G:0.06, T:0.18
Consensus pattern (26 bp):
AACATACATAAAATAAAATGCAAAGC
Found at i:8591513 original size:26 final size:27
Alignment explanation
Indices: 8591455--8591522 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 27
8591445 TATAACATAC
* *
8591455 ATAAAATAAAATGC-AAAGCAACATAT
1 ATAAAATAAAATGCAAAAGCAACACAA
*
8591481 ATAAAATAAAATGCAAAAG-ATCACAA
1 ATAAAATAAAATGCAAAAGCAACACAA
* *
8591507 ATTAAATTAAAT-CAAA
1 ATAAAATAAAATGCAAA
8591523 TCTTAAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
25 4 0.11
26 28 0.78
27 4 0.11
ACGTcount: A:0.63, C:0.10, G:0.06, T:0.21
Consensus pattern (27 bp):
ATAAAATAAAATGCAAAAGCAACACAA
Found at i:8592697 original size:7 final size:7
Alignment explanation
Indices: 8592685--8592742 Score: 55
Period size: 7 Copynumber: 8.0 Consensus size: 7
8592675 AAAGATAAAT
8592685 TAAATAA
1 TAAATAA
8592692 TAAATAA
1 TAAATAA
8592699 TAAATGACA
1 TAAAT-A-A
*
8592708 TGAA-AA
1 TAAATAA
*
8592714 TAAATGA
1 TAAATAA
8592721 TAAATAAA
1 TAAAT-AA
8592729 TAAATAA
1 TAAATAA
*
8592736 TCAATAA
1 TAAATAA
8592743 ATTAAATACG
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
6 4 0.10
7 27 0.64
8 7 0.17
9 4 0.10
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (7 bp):
TAAATAA
Found at i:8592729 original size:15 final size:15
Alignment explanation
Indices: 8592679--8592750 Score: 60
Period size: 15 Copynumber: 4.7 Consensus size: 15
8592669 AACAATAAAG
8592679 ATAAATTAAATAATAA
1 ATAAA-TAAATAATAA
*
8592695 AT-AATAAATGACAT-G
1 ATAAATAAAT-A-ATAA
*
8592710 A-AAATAAATGATAA
1 ATAAATAAATAATAA
*
8592724 ATAAATAAATAATCA
1 ATAAATAAATAATAA
8592739 ATAAATTAAATA
1 ATAAA-TAAATA
8592751 CGAAAATAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
13 2 0.04
14 6 0.13
15 27 0.60
16 10 0.22
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (15 bp):
ATAAATAAATAATAA
Found at i:8593018 original size:26 final size:26
Alignment explanation
Indices: 8592982--8593056 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 26
8592972 AATTTTTTTG
8592982 AATGTATGTATCAAAAAAAATTCTCTA
1 AATGT-TGTATCAAAAAAAATTCTCTA
*
8593009 AATGTTGTAT--AAAAAAA-TCTCTT
1 AATGTTGTATCAAAAAAAATTCTCTA
* * *
8593032 AATCTTATTTCAAAAAAAATTCTCT
1 AATGTTGTATCAAAAAAAATTCTCT
8593057 TTAAACAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
23 12 0.29
24 7 0.17
25 7 0.17
26 10 0.24
27 5 0.12
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.37
Consensus pattern (26 bp):
AATGTTGTATCAAAAAAAATTCTCTA
Found at i:8597994 original size:15 final size:15
Alignment explanation
Indices: 8597948--8597996 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
8597938 CAATCACATG
8597948 AATAATAAATATACAA
1 AATAA-AAATATACAA
* *
8597964 AACAAATATATA-AA
1 AATAAAAATATACAA
*
8597978 AATAAAAATAAACAA
1 AATAAAAATATACAA
8597993 AATA
1 AATA
8597997 CATAATACGA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
14 11 0.41
15 12 0.44
16 4 0.15
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.20
Consensus pattern (15 bp):
AATAAAAATATACAA
Found at i:8598211 original size:29 final size:29
Alignment explanation
Indices: 8598156--8598294 Score: 124
Period size: 29 Copynumber: 4.8 Consensus size: 29
8598146 TCAAAAAATG
* *
8598156 AAATTTTGGAAAGTTTG-GGGGCTAAATTT
1 AAATTTTGGAAAGTTTGAGGGTC-AAATCT
*
8598185 GAATTTTGGAAAGTTTGAGGGTCAAATCT
1 AAATTTTGGAAAGTTTGAGGGTCAAATCT
* * *
8598214 AAATTTTTTGAAAATTTGGGGGTCAAATTCT
1 AAA-TTTTGGAAAGTTTGAGGGTCAAA-TCT
* * *
8598245 -AATTCTTGGGAA-TTTTA-GATCAAATCT
1 AAATT-TTGGAAAGTTTGAGGGTCAAATCT
8598272 AAATTTTTGGAAAGTTTGAGGGT
1 AAA-TTTTGGAAAGTTTGAGGGT
8598295 TAAAATGTAA
Statistics
Matches: 87, Mismatches: 15, Indels: 15
0.74 0.13 0.13
Matches are distributed among these distances:
27 3 0.03
28 14 0.16
29 34 0.39
30 33 0.38
31 3 0.03
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.39
Consensus pattern (29 bp):
AAATTTTGGAAAGTTTGAGGGTCAAATCT
Found at i:8598232 original size:59 final size:57
Alignment explanation
Indices: 8598159--8598294 Score: 159
Period size: 58 Copynumber: 2.3 Consensus size: 57
8598149 AAAAATGAAA
*
8598159 TTTTGGAAAGTTTGGGGGCTAAATT-TGAATT-TTGGAAAGTTTGAGGGTCAAATCTAAAT
1 TTTTGGAAAGTTTGGGGG-TAAATTCT-AATTCTTGGAAA-TTTGA-GATCAAATCTAAAT
* * * *
8598218 TTTTTGAAAATTTGGGGGTCAAATTCTAATTCTTGGGAATTTTAGATCAAATCTAAAT
1 TTTTGGAAAGTTTGGGGGT-AAATTCTAATTCTTGGAAATTTGAGATCAAATCTAAAT
*
8598276 TTTTGGAAAGTTTGAGGGT
1 TTTTGGAAAGTTTGGGGGT
8598295 TAAAATGTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
58 30 0.45
59 29 0.44
60 7 0.11
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.40
Consensus pattern (57 bp):
TTTTGGAAAGTTTGGGGGTAAATTCTAATTCTTGGAAATTTGAGATCAAATCTAAAT
Found at i:8598239 original size:30 final size:31
Alignment explanation
Indices: 8598159--8598294 Score: 108
Period size: 30 Copynumber: 4.6 Consensus size: 31
8598149 AAAAATGAAA
* * *
8598159 TTTTGGAAAGTTTG-GGGGCTAAATT-TGAA-
1 TTTTGGAAAATTTGAGGGTC-AAATTCTAAAT
*
8598188 TTTTGGAAAGTTTGAGGGTCAAA-TCTAAAT
1 TTTTGGAAAATTTGAGGGTCAAATTCTAAAT
* *
8598218 TTTTTGAAAATTTGGGGGTCAAATTCT-AAT
1 TTTTGGAAAATTTGAGGGTCAAATTCTAAAT
* * * *
8598248 TCTTGG-GAATTTTA-GATCAAA-TCTAAAT
1 TTTTGGAAAATTTGAGGGTCAAATTCTAAAT
*
8598276 TTTTGGAAAGTTTGAGGGT
1 TTTTGGAAAATTTGAGGGT
8598295 TAAAATGTAA
Statistics
Matches: 84, Mismatches: 16, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
27 3 0.04
28 15 0.18
29 30 0.36
30 33 0.39
31 3 0.04
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.40
Consensus pattern (31 bp):
TTTTGGAAAATTTGAGGGTCAAATTCTAAAT
Found at i:8600170 original size:122 final size:121
Alignment explanation
Indices: 8599904--8600182 Score: 328
Period size: 122 Copynumber: 2.3 Consensus size: 121
8599894 GCTTTATATC
* * * * * * * *
8599904 TTGGTCCACTTCTTTGTATCTCATC-AGAAAAATGACCACTTCATTGTTTTGACTCACTTCTCTG
1 TTGGTCCACTTCTCTGTATCTCATCAAG-AAGATG-TCGCTTCGTTG-TCTGACCCAATTCTCTG
* * * * * * *
8599968 TATCTCATCAGGAAGATGGGGTTTGAAGTTTTACTCTTATAGAGCTTCGCTACATTGTT
63 CATCTCATCAGGAAGATAGGGTTCGAAGTTTCACTCATATAGAGCTTCCCTACATTATT
8600027 TTGGTCCACTTCTCTGTATCTCATCAAGAAGATGTCGCTTCGTTGTCTGACCCAATTCTCTGCAT
1 TTGGTCCACTTCTCTGTATCTCATCAAGAAGATGTCGCTTCGTTGTCTGACCCAATTCTCTGCAT
* * *
8600092 CTTATCAGGAAGATAGGGTTCGAAGTTTCACTCATATTTGAGCTTCACCT-TATTATT
66 CTCATCAGGAAGATAGGGTTCGAAGTTTCACTCATA-TAGAGCTTC-CCTACATTATT
*
8600149 TTGGTTCACTTCTCTGTATCTCATCAAGAAGATG
1 TTGGTCCACTTCTCTGTATCTCATCAAGAAGATG
8600183 AGGTTTGAAG
Statistics
Matches: 134, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
121 47 0.35
122 54 0.40
123 31 0.23
124 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.39
Consensus pattern (121 bp):
TTGGTCCACTTCTCTGTATCTCATCAAGAAGATGTCGCTTCGTTGTCTGACCCAATTCTCTGCAT
CTCATCAGGAAGATAGGGTTCGAAGTTTCACTCATATAGAGCTTCCCTACATTATT
Found at i:8600240 original size:75 final size:77
Alignment explanation
Indices: 8600082--8600258 Score: 209
Period size: 75 Copynumber: 2.3 Consensus size: 77
8600072 TCTGACCCAA
* * * *
8600082 TTCTCTGCATCTTATCAGGAAGAT-AGGGTTCGAAGTTTCACTCATATTTGAGCTTCACCTTATT
1 TTCTCTGTATCTCATCAGGAAGATGAGGGTTCGAAGTTTCACTCACATTTGAACTTCACCTTATT
*
8600146 ATTTTGGTTCAC
66 ATCTTGGTTCAC
* * * *
8600158 TTCTCTGTATCTCATCAAGAAGATGA-GGTTTGAAGTTTCACTCACA-TTGAACTTCGCTTTATT
1 TTCTCTGTATCTCATCAGGAAGATGAGGGTTCGAAGTTTCACTCACATTTGAACTTCACCTTATT
**
8600221 GA-CTTGGTTTGC
66 -ATCTTGGTTCAC
*
8600233 TTCTCTGTATCTCATTAGGAAGATGA
1 TTCTCTGTATCTCATCAGGAAGATGA
8600259 CCACTTCATT
Statistics
Matches: 86, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
75 45 0.52
76 40 0.47
77 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (77 bp):
TTCTCTGTATCTCATCAGGAAGATGAGGGTTCGAAGTTTCACTCACATTTGAACTTCACCTTATT
ATCTTGGTTCAC
Found at i:8600372 original size:82 final size:82
Alignment explanation
Indices: 8600232--8600385 Score: 202
Period size: 82 Copynumber: 1.9 Consensus size: 82
8600222 ACTTGGTTTG
* * * * *
8600232 CTTCTCTGTATCTCATTAGGAAGATGACCACTTCATTGTTTTGATCCACTTCTCTGTATCTTATC
1 CTTCTCTGTATCTCATCAGAAAGATGACCACTTCATTGCTTTGACCCACTTCTCTGTATCTCATC
*
8600297 AAGAAGACGGATTTGGA
66 AAAAAGACGGATTTGGA
* * * *
8600314 CTTCTCTGTATCTCATCAGAAAGATGACCAGTTTATTGCTTTGCCCCAC-TCTTTTGTATCTCAT
1 CTTCTCTGTATCTCATCAGAAAGATGACCACTTCATTGCTTTGACCCACTTC-TCTGTATCTCAT
8600378 CAAAAAGA
65 CAAAAAGA
8600386 TGGGGTTTGA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
81 2 0.03
82 59 0.97
ACGTcount: A:0.25, C:0.23, G:0.15, T:0.37
Consensus pattern (82 bp):
CTTCTCTGTATCTCATCAGAAAGATGACCACTTCATTGCTTTGACCCACTTCTCTGTATCTCATC
AAAAAGACGGATTTGGA
Found at i:8600571 original size:85 final size:85
Alignment explanation
Indices: 8600426--8600592 Score: 226
Period size: 85 Copynumber: 2.0 Consensus size: 85
8600416 TTGCTTCATT
* * * * *
8600426 GATTTGGTCTACTTCTCTATATCTCATTAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTT
1 GATTTGGTCCACTTCTCTATATCTCATCAGAAAGATGACCGCTTCATTGATTTAACCCACTTCTC
8600491 TGTATCTCATCAAGAAGGTG
66 TGTATCTCATCAAGAAGGTG
* * * * *
8600511 GATTTGGTCCACTTCTTTGTATCTCATCAGAAAGATGACCGCTTTATTGCTTTGACCCACTTCTC
1 GATTTGGTCCACTTCTCTATATCTCATCAGAAAGATGACCGCTTCATTGATTTAACCCACTTCTC
* *
8600576 TGTATCTTATCAGGAAG
66 TGTATCTCATCAAGAAG
8600593 ATGGGGGTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 70 1.00
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (85 bp):
GATTTGGTCCACTTCTCTATATCTCATCAGAAAGATGACCGCTTCATTGATTTAACCCACTTCTC
TGTATCTCATCAAGAAGGTG
Found at i:8600669 original size:209 final size:208
Alignment explanation
Indices: 8600155--8600756 Score: 874
Period size: 209 Copynumber: 2.9 Consensus size: 208
8600145 TATTTTGGTT
* * * *
8600155 CACTTCTCTGTATCTCATCAAGAAGATGAGGTTTGAAGTTTCACTCACATTGAACTTCGCTTTAT
1 CACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCAT
* * * * * *
8600220 TGACTTGGTTTGCTTCTCTGTATCTCATTAGGAAGATGACCACTTCATTGTTTTGATCCACTTCT
66 TGATTTGGTCTACTTCTCTGTATCTCATTAGGAAGATGACCGCTTCATTGATTTAATCCACTTCT
* * * *
8600285 CTGTATCTTATCAAGAAGACGGATTTGG---ACTTCTCTGTATCTCATCAGAAAGATGACCAGTT
131 TTGTATCTCATCAAGAAGGCGGATTTGGTCCACTTCTTTGTATCTCATCAGAAAGATGACCAGTT
*
8600347 TATTGCTTTGCCC
196 TATTGCTTTGACC
* * *
8600360 CAC-TCTTTTGTATCTCATCAAAAAGATGGGGTTTGAAGTTTCACTCATATTGAGCTTTGCTTCA
1 CACTTC-TCTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCA
*
8600424 TTGATTTGGTCTACTTCTCTATATCTCATTAGGAAGATGACCGCTTCATTGATTTAATCCACTTC
65 TTGATTTGGTCTACTTCTCTGTATCTCATTAGGAAGATGACCGCTTCATTGATTTAATCCACTTC
*
8600489 TTTGTATCTCATCAAGAAGGTGGATTTGGTCCACTTCTTTGTATCTCATCAGAAAGATGACC-GC
130 TTTGTATCTCATCAAGAAGGCGGATTTGGTCCACTTCTTTGTATCTCATCAGAAAGATGACCAG-
8600553 TTTATTGCTTTGACC
194 TTTATTGCTTTGACC
* * *
8600568 CACTTCTCTGTATCTTATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTACTTCA
1 CACTTCTCTGTATCTCATCAAGAAGAT-GGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCA
* * *
8600633 TTAATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTAATTTAATCCACTTC
65 TTGATTTGGTCTACTTCTCTGTATCTCATTAGGAAGATGACCGCTTCATTGATTTAATCCACTTC
* *
8600698 TTTGTATCTCATCAAGAAGGCAGATTTGGTCCACTTCTTTATATCTCATCATG-AAGATG
130 TTTGTATCTCATCAAGAAGGCGGATTTGGTCCACTTCTTTGTATCTCATCA-GAAAGATG
8600757 GGGGTTTGAA
Statistics
Matches: 356, Mismatches: 33, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
204 2 0.01
205 137 0.38
207 1 0.00
208 63 0.18
209 152 0.43
210 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.39
Consensus pattern (208 bp):
CACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCAT
TGATTTGGTCTACTTCTCTGTATCTCATTAGGAAGATGACCGCTTCATTGATTTAATCCACTTCT
TTGTATCTCATCAAGAAGGCGGATTTGGTCCACTTCTTTGTATCTCATCAGAAAGATGACCAGTT
TATTGCTTTGACC
Found at i:8600760 original size:161 final size:161
Alignment explanation
Indices: 8600567--8600917 Score: 585
Period size: 161 Copynumber: 2.2 Consensus size: 161
8600557 TTGCTTTGAC
* *
8600567 CCACTTCTCTGTATCTTATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTACTTC
1 CCACTTCTCTGTATCTCATCAAGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTACTTC
8600632 ATTAATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTAATTTAATCCACTT
66 ATTAATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTAATTTAATCCACTT
*
8600697 CTTTGTATCTCATCAAGAAGGCAGATTTGGT
131 CTCTGTATCTCATCAAGAAGGCAGATTTGGT
* * *
8600728 CCACTTCTTTATATCTCATCATGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTACTTC
1 CCACTTCTCTGTATCTCATCAAGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTACTTC
* * *
8600793 ATTGATTTGGTCTGCTTCTCTGTATCTCATCAGGAAGATGACCGTTTCATTAATTTAATCCACTT
66 ATTAATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTAATTTAATCCACTT
* * * *
8600858 CTCTGTATCTTATTAGGAAGGCGGATTTGGT
131 CTCTGTATCTCATCAAGAAGGCAGATTTGGT
8600889 CCACTTCTCTGTATCTCATCAAGAAGATG
1 CCACTTCTCTGTATCTCATCAAGAAGATG
8600918 ATCACTTTAT
Statistics
Matches: 175, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
161 175 1.00
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.38
Consensus pattern (161 bp):
CCACTTCTCTGTATCTCATCAAGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTACTTC
ATTAATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTAATTTAATCCACTT
CTCTGTATCTCATCAAGAAGGCAGATTTGGT
Found at i:8600831 original size:370 final size:370
Alignment explanation
Indices: 8600368--8601507 Score: 1719
Period size: 370 Copynumber: 3.1 Consensus size: 370
8600358 CCCACTCTTT
** *
8600368 TGTATCTCATCAAAAAGAT-GGGGTTTGAAGTTTCACTCATATTGAGCTTTGCTTCATTGATTTG
1 TGTATCTCATCATGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTG
* * * * *
8600432 GTCTACTTCTCTATATCTCATTAGGAAGATGACCGCTTCATTGATTTAATCCACTTCTTTGTATC
66 GTCTGCTTCTCTATATCTCATCAGGAAGATGACCGTTTCATTAATTTAATCCACTTCTCTGTATC
* * *
8600497 TCATCAAGAAGGTGGATTTGGTCCACTTCTTTGTATCTCATCAGAAAGATGACCGCTTTATTGCT
131 TCATCAGGAAGGTGGATTTGGTCCACTTCTCTGTATCTCATCAGAAAGATGACCACTTTATTGCT
*
8600562 TTGACCCACTTCTCTGTATCTTATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTT
196 TTGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTT
* * *
8600627 ACTTCATTAATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTAATTTAATC
261 GCTTCATTGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATC
* *
8600692 CACTTCTTTGTATCTCATCAAGAAGGCAGATTTGGTCCACTTCTT
326 CACTTCTTTGTATCTCATCAAGAAGGCGGATTTGGTCCACTTCTC
* *
8600737 TATATCTCATCATGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTACTTCATTGATTTG
1 TGTATCTCATCATGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTG
*
8600802 GTCTGCTTCTCTGTATCTCATCAGGAAGATGACCGTTTCATTAATTTAATCCACTTCTCTGTATC
66 GTCTGCTTCTCTATATCTCATCAGGAAGATGACCGTTTCATTAATTTAATCCACTTCTCTGTATC
* * * *
8600867 TTATTAGGAAGGCGGATTTGGTCCACTTCTCTGTATCTCATCA-AGAAGATGATCACTTTATTGC
131 TCATCAGGAAGGTGGATTTGGTCCACTTCTCTGTATCTCATCAGA-AAGATGACCACTTTATTGC
* * * * *
8600931 TTTAACCCATTTCTCTGTATCTCATCAAGAAGATGGGGGTTTCAAGTTTCACTTACATTGAGCTT
195 TTTGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTT
* **
8600996 TGCTTCATTGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGATAGCTTCATTGATTTAAT
260 TGCTTCATTGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAAT
*
8601061 CCACTTCTTTGTATCTCATCAGGAAGGCGGATTTGGTCCACTTCTC
325 CCACTTCTTTGTATCTCATCAAGAAGGCGGATTTGGTCCACTTCTC
*
8601107 TGTATCTCATCATGAAGAGGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTG
1 TGTATCTCATCATGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTG
8601172 GTCTGCTTCTCTATATCTCATCAGGAAGATGACCGTTTCATTAATTTAATCCACTTCTCTGTATC
66 GTCTGCTTCTCTATATCTCATCAGGAAGATGACCGTTTCATTAATTTAATCCACTTCTCTGTATC
* * * *
8601237 TCATCAGGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGACC
131 TCATCAGGAAGGTG--GA---T-TTG----G-TCCACTTCTCTGTATCTCATCAGAAAGATGACC
* *
8601302 ACTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAGGAATATGAGGGTTTGAAGTTTCACTCA
185 ACTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCA
* * * * * *
8601367 CATTAATCTTTGCTTCATTGATTTGGTCTACTTCTCTATGTCTCATCAAGAAGATGACCTCTTCA
250 CATTGAGCTTTGCTTCATTGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCA
8601432 TTGATTTAATCCACTTCTTTGTATCTCATC-AGAAAGGCGGATTTGGTCCACTTCTC
315 TTGATTTAATCCACTTCTTTGTATCTCATCAAG-AAGGCGGATTTGGTCCACTTCTC
*
8601488 TGTATCTCATCAGGAAGATG
1 TGTATCTCATCATGAAGATG
8601508 AACACTTTAT
Statistics
Matches: 692, Mismatches: 64, Indels: 18
0.89 0.08 0.02
Matches are distributed among these distances:
369 17 0.02
370 454 0.66
372 1 0.00
375 1 0.00
376 3 0.00
380 2 0.00
381 214 0.31
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.38
Consensus pattern (370 bp):
TGTATCTCATCATGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTG
GTCTGCTTCTCTATATCTCATCAGGAAGATGACCGTTTCATTAATTTAATCCACTTCTCTGTATC
TCATCAGGAAGGTGGATTTGGTCCACTTCTCTGTATCTCATCAGAAAGATGACCACTTTATTGCT
TTGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTT
GCTTCATTGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCGCTTCATTGATTTAATC
CACTTCTTTGTATCTCATCAAGAAGGCGGATTTGGTCCACTTCTC
Found at i:8600844 original size:209 final size:204
Alignment explanation
Indices: 8600683--8601125 Score: 556
Period size: 209 Copynumber: 2.2 Consensus size: 204
8600673 CCGCTTCATT
* *
8600683 AATTTAATCCACTTCTTTGTATCTCATCAAGAAG-G-CA-GAT-TTG-GT-CCACTTCTTTATAT
1 AATTTAATCCACTTCTCTGTATCTCATCAAGAAGAGACACGATATTGCGTACCACTTCTCTATAT
* * **
8600742 CTCATCATGAAGATGGGGGTTTGAAGTTTCACTCACATTGAGCTTTACTTCATTGATTTGGTCTG
66 CTCATCAAGAAGATGGGGGTTTCAAGTTTCACTCACATTGAGCTTTACTTCATTGATTTGGTCCA
* * * *
8600807 CTTCTCTGTATCTCATCAGGAAGATGACCGTTTCATTAATTTAATCCACTTCTCTGTATCTTATT
131 CTTCTCTGTATCTCATCAGGAAGATGACAGCTTCATTAATTTAATCCACTTCTCTGTATCTCATC
8600872 AGGAAGGCG
196 AGGAAGGCG
* ** ** * *
8600881 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGATCACTTTATTGCTTTAACCCATTTCTC
1 AATTTAATCCACTTCTCTGTATCTCATCAAGAAGA-GA-CACGATATTGC-GT-A-CCACTTCTC
* * *
8600946 TGTATCTCATCAAGAAGATGGGGGTTTCAAGTTTCACTTACATTGAGCTTTGCTTCATTGATTTG
61 TATATCTCATCAAGAAGATGGGGGTTTCAAGTTTCACTCACATTGAGCTTTACTTCATTGATTTG
* * *
8601011 GTCCACTTCTCTGTATCTCATCAGGAAGATGATAGCTTCATTGATTTAATCCACTTCTTTGTATC
126 GTCCACTTCTCTGTATCTCATCAGGAAGATGACAGCTTCATTAATTTAATCCACTTCTCTGTATC
8601076 TCATCAGGAAGGCG
191 TCATCAGGAAGGCG
* ** *
8601090 GATTTGGTCCACTTCTCTGTATCTCATCATGAAGAG
1 AATTTAATCCACTTCTCTGTATCTCATCAAGAAGAG
8601126 GGGGGTTTGA
Statistics
Matches: 210, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
198 30 0.14
200 1 0.00
202 2 0.01
203 1 0.00
204 3 0.01
206 1 0.00
208 1 0.00
209 171 0.81
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (204 bp):
AATTTAATCCACTTCTCTGTATCTCATCAAGAAGAGACACGATATTGCGTACCACTTCTCTATAT
CTCATCAAGAAGATGGGGGTTTCAAGTTTCACTCACATTGAGCTTTACTTCATTGATTTGGTCCA
CTTCTCTGTATCTCATCAGGAAGATGACAGCTTCATTAATTTAATCCACTTCTCTGTATCTCATC
AGGAAGGCG
Found at i:8600945 original size:85 final size:85
Alignment explanation
Indices: 8600796--8600952 Score: 219
Period size: 85 Copynumber: 1.8 Consensus size: 85
8600786 TTACTTCATT
** * *
8600796 GATTTGGTCTGCTTCTCTGTATCTCATCAGGAAGATGACCGTTTCATTAATTTAATCCACTTCTC
1 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGTTTCATTAATTTAACCCACTTCTC
8600861 TGTATCTTATTAGGAAGGCG
66 TGTATCTTATTAGGAAGGCG
** *
8600881 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGATCAC-TTT-ATTGCTTTAACCCATTTC
1 GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGA-C-CGTTTCATTAATTTAACCCACTTC
8600944 TCTGTATCT
64 TCTGTATCT
8600953 CATCAAGAAG
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
85 58 0.92
86 4 0.06
87 1 0.02
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.40
Consensus pattern (85 bp):
GATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGACCGTTTCATTAATTTAACCCACTTCTC
TGTATCTTATTAGGAAGGCG
Found at i:8601018 original size:161 final size:161
Alignment explanation
Indices: 8600851--8601298 Score: 432
Period size: 161 Copynumber: 2.7 Consensus size: 161
8600841 ATTAATTTAA
* * ** *
8600851 TCCACTTCTCTGTATCTTATTAGGAAG-G-CGGATTTGGTCCACTTCTCTGTATCTCATCAAGAA
1 TCCACTTCTCTGTATCTCATCAGGAAGAGCCGGATTTAATCCACTTCTCTGTATCTCATCAGGAA
*
8600914 GATGATCACTTTATTGCTTTAACCCATTTCTCTGTATCTCATCAAGAAGATGGGGGTTTCAAGTT
66 GATGA-CACTTTATTGCTTT-ACCCACTTCTCTGTATCTCATCAAGAAGATGGGGGTTTCAAGTT
*
8600979 TCACTTACATTGAGCTTTGCTTCATTGATTTGG
129 TCACTCACATTGAGCTTTGCTTCATTGATTTGG
* *
8601012 TCCACTTCTCTGTATCTCATCAGGAAGATGATAGCTTCATTGATTTAATCCACTTCTTTGTATCT
1 TCCACTTCTCTGTATCTCATCAGG-A-A-G--AGC--C--GGATTTAATCCACTTCTCTGTATCT
*** * * *
8601077 CATCAGGAAG--G-C-GGAT-TTG--GT--CCACTTCTCTGTATCTCATCATGAAGAGGGGGGTT
57 CATCAGGAAGATGACACTTTATTGCTTTACCCACTTCTCTGTATCTCATCAAGAAGATGGGGGTT
*
8601133 TGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGG
122 TCAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGG
** * *
8601173 TCTGCTTCTCTATATCTCATCAGGAAGATGACCGTTTCATTAATTTAATCCACTTCTCTGTATCT
1 TCCACTTCTCTGTATCTCATCAGGAAGA-G-CCG-------GATTTAATCCACTTCTCTGTATCT
*
8601238 CATCAGGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAGGAAGATG
57 CATCAGGAAGATGA-CACTTTATTGCTTT-ACCCACTTCTCTGTATCTCATCAAGAAGATG
8601299 ACCACTTTAT
Statistics
Matches: 228, Mismatches: 28, Indels: 51
0.74 0.09 0.17
Matches are distributed among these distances:
156 2 0.01
157 1 0.00
158 2 0.01
159 1 0.00
160 1 0.00
161 145 0.64
162 1 0.00
163 2 0.01
164 2 0.01
165 1 0.00
166 4 0.02
167 5 0.02
168 1 0.00
169 1 0.00
170 2 0.01
172 57 0.25
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.38
Consensus pattern (161 bp):
TCCACTTCTCTGTATCTCATCAGGAAGAGCCGGATTTAATCCACTTCTCTGTATCTCATCAGGAA
GATGACACTTTATTGCTTTACCCACTTCTCTGTATCTCATCAAGAAGATGGGGGTTTCAAGTTTC
ACTCACATTGAGCTTTGCTTCATTGATTTGG
Found at i:8601227 original size:209 final size:205
Alignment explanation
Indices: 8601053--8602053 Score: 977
Period size: 209 Copynumber: 4.8 Consensus size: 205
8601043 TAGCTTCATT
* * * *
8601053 GATTTAATCCACTTCTTTGTATCTCATCAGGAAG-G-C-GGA-T-TTGGTCCACTTCTCTGTATC
1 GATTTGATCCACTTCTCTGTATCTCATCAGGAAGAGACTTGATTATTGGCCCACTTCTCTGTATC
* * * *
8601113 TCATCATGAAGAGGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGGTCTGC
66 TCATCAGGAAGATGAGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGGTCTAC
* *
8601178 TTCTCTATATCTCATCAGGAAGATGACCGTTTCATTAATTTAATCCACTTCTCTGTATCTCATCA
131 TTCTCTATATCTCATCAAGAAGATGACCGCTTCATTAATTTAATCCACTTCTCTGTATCTCATCA
* *
8601243 GGAAGATGACCACTTTATT
196 GGAAGA-G---GC-----G
* * * * *
8601262 GCTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTGCTTTGACCCACTTCTC
1 GATTTGATCCACTTCTCTGTATCTCATCAGGAAGA-G---ACTTGATT--ATTGGCCCACTTCTC
* * *
8601327 TGTATCTCATCAGGAATATGAGGGTTTGAAGTTTCACTCACATTAATCTTTGCTTCATTGATTTG
60 TGTATCTCATCAGGAAGATGAGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTG
* * * *
8601392 GTCTACTTCTCTATGTCTCATCAAGAAGATGACCTCTTCATTGATTTAATCCACTTCTTTGTATC
125 GTCTACTTCTCTATATCTCATCAAGAAGATGACCGCTTCATTAATTTAATCCACTTCTCTGTATC
8601457 TCATCA-GAA-AGGCG
190 TCATCAGGAAGAGGCG
* * * * * *
8601471 GATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGAACACTTTATTGCTTTGACCTACTTCTT
1 GATTTGATCCACTTCTCTGTATCTCATCAGGAAGA-G---ACTTGATT--ATTGGCCCACTTCTC
*
8601536 TGTATCTCATCAGGAAGATGAGGGTTTAAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTG
60 TGTATCTCATCAGGAAGATGAGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTG
* * *
8601601 GTCTACTTCTCTATATCTCATCAAGAAGATGACCACTTCATTGATTTAATTCACTTCTCTGTATC
125 GTCTACTTCTCTATATCTCATCAAGAAGATGACCGCTTCATTAATTTAATCCACTTCTCTGTATC
8601666 TCATCA-GAA-AGGCG
190 TCATCAGGAAGAGGCG
* * * * * * *
8601680 GATTTGGTCTACTTCTCTGTATCTCATTAAGAAGATGATCACTTAATTGCTTTGACCCACTTCTC
1 GATTTGATCCACTTCTCTGTATCTCATCAGGAAGA-G---ACTTGATT--ATTGGCCCACTTCTC
* * *
8601745 TGTATCTCATCAGAAAGATG-GAGGTTTGAAGTTTCACTCACATTGAGCTCTGCTTCATTAATTT
60 TGTATCTCATCAGGAAGATGAG-GGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTT
* * * *
8601809 GGTCTACTTTTCTGTATCTCATCAGGAAGATGACTGCTTCATTGAA-TTAATCCACTTCTCTGTA
124 GGTCTACTTCTCTATATCTCATCAAGAAGATGACCGCTTCATT-AATTTAATCCACTTCTCTGTA
*
8601873 TCTCATAAGGAAGA--CG
188 TCTCATCAGGAAGAGGCG
* * * * * *
8601889 GATTTGGTCCACTTCTCTATATCTCATCAAGAAGATGACCATTTTATTGCTTTGACCCACTTCTC
1 GATTTGATCCACTTCTCTGTATCTCATCAGGAAGA-GA-C--TTGATT--ATTGGCCCACTTCTC
* * * ** * * * *
8601954 TGTATCTCATCAAGAAGGTG-GGAGTTTGAATTTTTGCTCATATTGGGCTTCGCTTCATTGTTTT
60 TGTATCTCATCAGGAAGATGAGG-GTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTT
* * *
8602018 GGTTTACTTCTATGTATCTCATCAAGAAGATGACCG
124 GGTCTACTTCTCTATATCTCATCAAGAAGATGACCG
8602054 TTTGAATTTT
Statistics
Matches: 696, Mismatches: 77, Indels: 38
0.86 0.09 0.05
Matches are distributed among these distances:
206 1 0.00
207 1 0.00
208 2 0.00
209 542 0.78
210 4 0.01
211 2 0.00
214 1 0.00
215 1 0.00
216 1 0.00
217 2 0.00
218 1 0.00
219 3 0.00
220 135 0.19
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (205 bp):
GATTTGATCCACTTCTCTGTATCTCATCAGGAAGAGACTTGATTATTGGCCCACTTCTCTGTATC
TCATCAGGAAGATGAGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCATTGATTTGGTCTAC
TTCTCTATATCTCATCAAGAAGATGACCGCTTCATTAATTTAATCCACTTCTCTGTATCTCATCA
GGAAGAGGCG
Found at i:8601237 original size:48 final size:48
Alignment explanation
Indices: 8601177--8601347 Score: 263
Period size: 48 Copynumber: 3.6 Consensus size: 48
8601167 ATTTGGTCTG
* * ** * *
8601177 CTTCTCTATATCTCATCAGGAAGATGACC-GTTTCATTAATTTAATCCA
1 CTTCTCTGTATCTCATCAGGAAGATGACCACTTT-ATTGCTTTGACCCA
8601225 CTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTGCTTTGACCCA
1 CTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTGCTTTGACCCA
8601273 CTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTGCTTTGACCCA
1 CTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTGCTTTGACCCA
*
8601321 CTTCTCTGTATCTCATCAGGAATATGA
1 CTTCTCTGTATCTCATCAGGAAGATGA
8601348 GGGTTTGAAG
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
48 112 0.97
49 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.36
Consensus pattern (48 bp):
CTTCTCTGTATCTCATCAGGAAGATGACCACTTTATTGCTTTGACCCA
Found at i:8601533 original size:85 final size:85
Alignment explanation
Indices: 8601386--8601548 Score: 229
Period size: 85 Copynumber: 1.9 Consensus size: 85
8601376 TTGCTTCATT
* * * *
8601386 GATTTGGTCTACTTCTCTATGTCTCATCAAGAAGATGACCTCTTCATTGATTTAATCCACTTCTT
1 GATTTGGTCCACTTCTCTATATCTCATCAAGAAGATGAACACTTCATTGATTTAATCCACTTCTT
8601451 TGTATCTCATCAGAAAGGCG
66 TGTATCTCATCAGAAAGGCG
* * * * *
8601471 GATTTGGTCCACTTCTCTGTATCTCATCAGGAAGATGAACACTTTATTGCTTTGA-CCTACTTCT
1 GATTTGGTCCACTTCTCTATATCTCATCAAGAAGATGAACACTTCATTGATTTAATCC-ACTTCT
8601535 TTGTATCTCATCAG
65 TTGTATCTCATCAG
8601549 GAAGATGAGG
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
84 2 0.03
85 66 0.97
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (85 bp):
GATTTGGTCCACTTCTCTATATCTCATCAAGAAGATGAACACTTCATTGATTTAATCCACTTCTT
TGTATCTCATCAGAAAGGCG
Found at i:8601703 original size:85 final size:85
Alignment explanation
Indices: 8601595--8601761 Score: 262
Period size: 85 Copynumber: 2.0 Consensus size: 85
8601585 TTGCTTCATT
* **
8601595 GATTTGGTCTACTTCTCTATATCTCATCAAGAAGATGACCACTTCATTGATTTAATTCACTTCTC
1 GATTTGGTCTACTTCTCTATATCTCATCAAGAAGATGACCACTTAATTGATTTAACCCACTTCTC
8601660 TGTATCTCATCAGAAAGGCG
66 TGTATCTCATCAGAAAGGCG
* * * * *
8601680 GATTTGGTCTACTTCTCTGTATCTCATTAAGAAGATGATCACTTAATTGCTTTGACCCACTTCTC
1 GATTTGGTCTACTTCTCTATATCTCATCAAGAAGATGACCACTTAATTGATTTAACCCACTTCTC
8601745 TGTATCTCATCAGAAAG
66 TGTATCTCATCAGAAAG
8601762 ATGGAGGTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
85 74 1.00
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.37
Consensus pattern (85 bp):
GATTTGGTCTACTTCTCTATATCTCATCAAGAAGATGACCACTTAATTGATTTAACCCACTTCTC
TGTATCTCATCAGAAAGGCG
Found at i:8601893 original size:418 final size:423
Alignment explanation
Indices: 8601098--8602052 Score: 1298
Period size: 418 Copynumber: 2.3 Consensus size: 423
8601088 CGGATTTGGT
* *
8601098 CCACTTCTCTGTATCTCATCATGAAGAGGGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTC
1 CCACTTCTCTGTATCTCATCAAGAAGA-TGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTC
* * **
8601163 ATTGATTTGGTCTGCTTCTCTATATCTCATCAGGAAGATGACCGTTTCATTAATTTAATCCACTT
65 ATTGATTTGGTCTACTTCTCTATATCTCATCAAGAAGATGACCACTTCATTAATTTAATCCACTT
*
8601228 CTCTGTATCTCATCAGGAAGATGACCACTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAGG
130 CTCTGTATCTCATCAGGAAGATGACCA--TTATTG---TGACCCACTTCTCTGTATCTCATCAAG
* * *
8601293 AAGATGACCACTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAGGAATATGAGGGTTTGAAG
190 AAGATGACCACTTAATTGCTTTGACCCACTTCTCTGTATCTCATCAGAAAGATGAGGGTTTGAAG
* * * *
8601358 TTTCACTCACATTAATCTTTGCTTCATTGATTTGGTCTACTTCTCTATGTCTCATCAAGAAGATG
255 TTTCACTCACATTAAGCTCTGCTTCATTAATTTGGTCTACTTCTCTATATCTCATCAAGAAGATG
* * * *
8601423 ACCTCTTCATTGATTTAATCCACTTCTTTGTATCTCATCAGAAAGGCGGATTTGGTCCACTTCTC
320 ACCTCTTCATTGAATTAATCCACTTCTCTGTATCTCATAAGAAAGACGGATTTGGTCCACTTCTC
* *
8601488 TGTATCTCATCAGGAAGATGAACACTTTATTGCTTTGAC
385 TATATCTCATCAAGAAGATGAACACTTTATTGCTTTGAC
* * * *
8601527 CTACTTCTTTGTATCTCATCAGGAAGATGAGGGTTTAAAGTTTCACTCACATTGAGCTTTGCTTC
1 CCACTTCTCTGTATCTCATCAAGAAGATG-GGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTC
* *
8601592 ATTGATTTGGTCTACTTCTCTATATCTCATCAAGAAGATGACCACTTCATTGATTTAATTCACTT
65 ATTGATTTGGTCTACTTCTCTATATCTCATCAAGAAGATGACCACTTCATTAATTTAATCCACTT
* * * * *
8601657 CTCTGTATCTCATCA-GAA-A-GGCGGA-T-TTG-G-TCTACTTCTCTGTATCTCATTAAGAAGA
130 CTCTGTATCTCATCAGGAAGATGAC-CATTATTGTGACCCACTTCTCTGTATCTCATCAAGAAGA
*
8601715 TGATCACTTAATTGCTTTGACCCACTTCTCTGTATCTCATCAGAAAGATG-GAGGTTTGAAGTTT
194 TGACCACTTAATTGCTTTGACCCACTTCTCTGTATCTCATCAGAAAGATGAG-GGTTTGAAGTTT
* * * *
8601779 CACTCACATTGAGCTCTGCTTCATTAATTTGGTCTACTTTTCTGTATCTCATCAGGAAGATGA-C
258 CACTCACATTAAGCTCTGCTTCATTAATTTGGTCTACTTCTCTATATCTCATCAAGAAGATGACC
*
8601843 TGCTTCATTGAATTAATCCACTTCTCTGTATCTCATAAGGAAGACGGATTTGGTCCACTTCTCTA
323 T-CTTCATTGAATTAATCCACTTCTCTGTATCTCATAAGAAAGACGGATTTGGTCCACTTCTCTA
* *
8601908 TATCTCATCAAGAAGATGACCATTTTATTGCTTTGAC
387 TATCTCATCAAGAAGATGAACACTTTATTGCTTTGAC
* * ** * * *
8601945 CCACTTCTCTGTATCTCATCAAGAAGGTGGGAGTTTGAATTTTTGCTCATATTGGGCTTCGCTTC
1 CCACTTCTCTGTATCTCATCAAGAAGATGGG-GTTTGAAGTTTCACTCACATTGAGCTTTGCTTC
* * * *
8602010 ATTGTTTTGGTTTACTTCTATGTATCTCATCAAGAAGATGACC
65 ATTGATTTGGTCTACTTCTCTATATCTCATCAAGAAGATGACC
8602053 GTTTGAATTT
Statistics
Matches: 468, Mismatches: 53, Indels: 21
0.86 0.10 0.04
Matches are distributed among these distances:
417 5 0.01
418 318 0.68
419 1 0.00
423 3 0.01
424 1 0.00
426 2 0.00
427 2 0.00
428 4 0.01
429 132 0.28
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (423 bp):
CCACTTCTCTGTATCTCATCAAGAAGATGGGGTTTGAAGTTTCACTCACATTGAGCTTTGCTTCA
TTGATTTGGTCTACTTCTCTATATCTCATCAAGAAGATGACCACTTCATTAATTTAATCCACTTC
TCTGTATCTCATCAGGAAGATGACCATTATTGTGACCCACTTCTCTGTATCTCATCAAGAAGATG
ACCACTTAATTGCTTTGACCCACTTCTCTGTATCTCATCAGAAAGATGAGGGTTTGAAGTTTCAC
TCACATTAAGCTCTGCTTCATTAATTTGGTCTACTTCTCTATATCTCATCAAGAAGATGACCTCT
TCATTGAATTAATCCACTTCTCTGTATCTCATAAGAAAGACGGATTTGGTCCACTTCTCTATATC
TCATCAAGAAGATGAACACTTTATTGCTTTGAC
Found at i:8601949 original size:85 final size:85
Alignment explanation
Indices: 8601805--8601963 Score: 210
Period size: 85 Copynumber: 1.9 Consensus size: 85
8601795 TGCTTCATTA
* * * * ** *
8601805 ATTTGGTCTACTTTTCTGTATCTCATCAGGAAGATGACTGCTTCATTGAATTAATCCACTTCTCT
1 ATTTGGTCCACTTCTCTATATCTCATCAAGAAGATGACCACTTCATTGAATTAACCCACTTCTCT
8601870 GTATCTCATAAGGAAGACGG
66 GTATCTCATAAGGAAGACGG
* * ** *
8601890 ATTTGGTCCACTTCTCTATATCTCATCAAGAAGATGACCATTTTATTGCTTTGACCCACTTCTCT
1 ATTTGGTCCACTTCTCTATATCTCATCAAGAAGATGACCACTTCATTGAATTAACCCACTTCTCT
8601955 GTATCTCAT
66 GTATCTCAT
8601964 CAAGAAGGTG
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
85 62 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (85 bp):
ATTTGGTCCACTTCTCTATATCTCATCAAGAAGATGACCACTTCATTGAATTAACCCACTTCTCT
GTATCTCATAAGGAAGACGG
Found at i:8607261 original size:21 final size:22
Alignment explanation
Indices: 8607221--8607261 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
8607211 TCTTGCATGT
*
8607221 GATCAGTCGCTTCTCTCATTTG
1 GATCAGTCGCTTCTCCCATTTG
*
8607243 GATCAGT-GCTTTTCCCATT
1 GATCAGTCGCTTCTCCCATT
8607262 ACATAGTCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.15, C:0.27, G:0.17, T:0.41
Consensus pattern (22 bp):
GATCAGTCGCTTCTCCCATTTG
Found at i:8610549 original size:20 final size:20
Alignment explanation
Indices: 8610512--8610559 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
8610502 CAATCATATG
*
8610512 AATAATAAATATACAAAACA
1 AATAATAAAGATACAAAACA
*
8610532 AATATATAAAGATA-AAAATA
1 AATA-ATAAAGATACAAAACA
8610552 AA-AATAAA
1 AATAATAAA
8610560 CAAAATACGC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 5 0.20
19 1 0.04
20 11 0.44
21 8 0.32
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (20 bp):
AATAATAAAGATACAAAACA
Found at i:8610775 original size:29 final size:30
Alignment explanation
Indices: 8610715--8610829 Score: 108
Period size: 30 Copynumber: 3.9 Consensus size: 30
8610705 GGAAAAATGA
** *
8610715 GGTCAAAAATGAAATTTTGGAAAGTTTAGG
1 GGTCAAATTTGAATTTTTGGAAAGTTTAGG
* *
8610745 GG-CTAAATTTGAATTTTTGGGATGTTT-GG
1 GGTC-AAATTTGAATTTTTGGAAAGTTTAGG
* * *
8610774 GGTCAAATTTAAATTTTTGAAAAATTTAGG
1 GGTCAAATTTGAATTTTTGGAAAGTTTAGG
* * *
8610804 GGTCAAATCTAAATTTTTAGAAAGTT
1 GGTCAAATTTGAATTTTTGGAAAGTT
8610830 CAAGGTTAAA
Statistics
Matches: 68, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
29 23 0.34
30 45 0.66
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.38
Consensus pattern (30 bp):
GGTCAAATTTGAATTTTTGGAAAGTTTAGG
Found at i:8611538 original size:2 final size:2
Alignment explanation
Indices: 8611533--8611557 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8611523 TTTATTTTTG
8611533 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
8611558 AATCATCTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8619119 original size:95 final size:97
Alignment explanation
Indices: 8618999--8619234 Score: 332
Period size: 95 Copynumber: 2.4 Consensus size: 97
8618989 CTAATGGCAA
* * * *
8618999 TTTTTTTACATGAAAAGTTAAATGGCCAAATATCAATTCTAACCCCTTTACTTTTTACATGACAC
1 TTTTTTTACATGAGAAGCT-AATGGCCAAATATCAATTCTAACCCCTCTACATTTTACATGACAC
* *
8619064 CTGTTCAATACTCCAACGTCAATTG-T-TTTTT
65 CTGTCCAACACTCCAACGTCAATTGTTCTTTTT
*
8619095 TTTTTTTACATGAGAAGCTAATGGCCAAATATCAATTCTAATCCCTCTACATTTTACATGACACC
1 TTTTTTTACATGAGAAGCTAATGGCCAAATATCAATTCTAACCCCTCTACATTTTACATGACACC
* * *
8619160 TGTCCAGCACTCCAATGTCATTTGTTTTCTTTTT
66 TGTCCAACACTCCAACGTCAATTG--TTCTTTTT
*
8619194 TTTTTTTACATGAGAATCTAATGGCCAAATATCAATTCTAA
1 TTTTTTTACATGAGAAGCTAATGGCCAAATATCAATTCTAA
8619235 ACCTGCTACT
Statistics
Matches: 125, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
95 62 0.50
96 17 0.14
98 1 0.01
99 45 0.36
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (97 bp):
TTTTTTTACATGAGAAGCTAATGGCCAAATATCAATTCTAACCCCTCTACATTTTACATGACACC
TGTCCAACACTCCAACGTCAATTGTTCTTTTT
Found at i:8623466 original size:11 final size:11
Alignment explanation
Indices: 8623447--8623479 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
8623437 TTAGGGTATT
8623447 ATTTATATTTA
1 ATTTATATTTA
*
8623458 ATTTGTATTTA
1 ATTTATATTTA
8623469 ATTTATATTTA
1 ATTTATATTTA
8623480 TCTTTTTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (11 bp):
ATTTATATTTA
Found at i:8623507 original size:14 final size:14
Alignment explanation
Indices: 8623470--8623499 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
8623460 TTGTATTTAA
*
8623470 TTTATATTTATCTT
1 TTTAGATTTATCTT
8623484 TTTAGATTTATCTT
1 TTTAGATTTATCTT
8623498 TT
1 TT
8623500 AGAGTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (14 bp):
TTTAGATTTATCTT
Found at i:8624200 original size:27 final size:27
Alignment explanation
Indices: 8624162--8624215 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
8624152 AATCTATGAT
8624162 TGAACCGAGGAAGAATCAAGATAACCG
1 TGAACCGAGGAAGAATCAAGATAACCG
8624189 TGAACCGAGGAAGAATCAAGATAACCG
1 TGAACCGAGGAAGAATCAAGATAACCG
8624216 GAGGCTGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.19, G:0.26, T:0.11
Consensus pattern (27 bp):
TGAACCGAGGAAGAATCAAGATAACCG
Found at i:8627088 original size:4 final size:4
Alignment explanation
Indices: 8627074--8627110 Score: 51
Period size: 4 Copynumber: 9.5 Consensus size: 4
8627064 TATTTTTATT
8627074 TTTA TTTTA TTTA TTTA --TA TTTA TTTA TTTA TTTA TT
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
8627111 ATATGTCCAG
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
2 2 0.07
4 24 0.80
5 4 0.13
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:8627098 original size:14 final size:12
Alignment explanation
Indices: 8627058--8627107 Score: 57
Period size: 14 Copynumber: 3.9 Consensus size: 12
8627048 AGGCAACCCA
8627058 ATTTTTTATTTT
1 ATTTTTTATTTT
8627070 -TATTTTTATTTT
1 AT-TTTTTATTTT
8627082 ATTTATTTATATTT
1 ATTT-TTTAT-TTT
8627096 ATTTATTTATTT
1 ATTT-TTTATTT
8627108 ATTATATGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
11 1 0.03
12 12 0.35
13 8 0.24
14 13 0.38
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
ATTTTTTATTTT
Found at i:8627100 original size:18 final size:19
Alignment explanation
Indices: 8627068--8627109 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
8627058 ATTTTTTATT
*
8627068 TTTATTTTTATTTTATTTA
1 TTTATATTTATTTTATTTA
8627087 TTTATATTTA-TTTATTTA
1 TTTATATTTATTTTATTTA
8627105 TTTAT
1 TTTAT
8627110 TATATGTCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTATATTTATTTTATTTA
Found at i:8627112 original size:25 final size:25
Alignment explanation
Indices: 8627058--8627114 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
8627048 AGGCAACCCA
*
8627058 ATTT-TTTATTTTTATTTTTATTTT
1 ATTTATTTATATTTATTTTTATTTT
8627082 ATTTATTTATATTTA--TTTA-TTT
1 ATTTATTTATATTTATTTTTATTTT
8627104 ATTTA-TTATAT
1 ATTTATTTATAT
8627115 GTCCAGGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
21 6 0.19
22 8 0.26
23 4 0.13
24 4 0.13
25 9 0.29
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (25 bp):
ATTTATTTATATTTATTTTTATTTT
Found at i:8628714 original size:6 final size:6
Alignment explanation
Indices: 8628667--8628701 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
8628657 TTTAGGGTAT
8628667 TATTTA TATTTA -ATTTA TATTTA -ATTTA TATTTA T
1 TATTTA TATTTA TATTTA TATTTA TATTTA TATTTA T
8628702 CTTTTTAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TATTTA
Found at i:8628718 original size:11 final size:11
Alignment explanation
Indices: 8628668--8628700 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
8628658 TTAGGGTATT
8628668 ATTTATATTTA
1 ATTTATATTTA
8628679 ATTTATATTTA
1 ATTTATATTTA
8628690 ATTTATATTTA
1 ATTTATATTTA
8628701 TCTTTTTAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTTATATTTA
Found at i:8628721 original size:13 final size:14
Alignment explanation
Indices: 8628691--8628728 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
8628681 TTATATTTAA
*
8628691 TTTATATTTATCTT
1 TTTAGATTTATCTT
8628705 TTTAGATTTAT-TT
1 TTTAGATTTATCTT
8628718 TTTAGAGTTTA
1 TTTAGA-TTTA
8628729 AATTGGATCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.24, C:0.03, G:0.08, T:0.66
Consensus pattern (14 bp):
TTTAGATTTATCTT
Found at i:8632228 original size:94 final size:94
Alignment explanation
Indices: 8632073--8632271 Score: 355
Period size: 94 Copynumber: 2.1 Consensus size: 94
8632063 ATTCCTTGAG
* *
8632073 AATTATAATTTAAAATATATGAAATTTTTTTACTCTAATCTTCCATCCTGAATAATGTATCAGAA
1 AATTATAATTTAAAATATATGAAATTTTTTTACTCTAATCGTCCATCCTGAATAATATATCAGAA
8632138 AATATATTACATTTTTTTCAATCCTTTTTA
66 AATATATTACA-TTTTTTCAATCCTTTTTA
8632168 AATTATAATTTAAAATATATGAAA-TTTTTTACTCTAATCGTCCATCCTGAATAATATATCAGAA
1 AATTATAATTTAAAATATATGAAATTTTTTTACTCTAATCGTCCATCCTGAATAATATATCAGAA
*
8632232 AATATATTATATTTTTTCAATCCTTTTTA
66 AATATATTACATTTTTTCAATCCTTTTTA
8632261 AATTATAATTT
1 AATTATAATTT
8632272 CTTTTTTATT
Statistics
Matches: 101, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
93 29 0.29
94 48 0.48
95 24 0.24
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.46
Consensus pattern (94 bp):
AATTATAATTTAAAATATATGAAATTTTTTTACTCTAATCGTCCATCCTGAATAATATATCAGAA
AATATATTACATTTTTTCAATCCTTTTTA
Found at i:8646993 original size:52 final size:52
Alignment explanation
Indices: 8646926--8647030 Score: 165
Period size: 52 Copynumber: 2.0 Consensus size: 52
8646916 CCAAACCTTA
* * *
8646926 TAATCCGCAAGGGATTCATCTACTCACGATGACACTTAGTCATCGGACCTCT
1 TAATCCGCAAAGGATTCATATACTCACGATGACACTTAATCATCGGACCTCT
* *
8646978 TAATCCGTAAAGGATTCATATACTCACGATGACACTTAATCATTGGACCTCT
1 TAATCCGCAAAGGATTCATATACTCACGATGACACTTAATCATCGGACCTCT
8647030 T
1 T
8647031 CGTTTATGGC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (52 bp):
TAATCCGCAAAGGATTCATATACTCACGATGACACTTAATCATCGGACCTCT
Found at i:8653154 original size:41 final size:41
Alignment explanation
Indices: 8653095--8653186 Score: 139
Period size: 41 Copynumber: 2.2 Consensus size: 41
8653085 TCGTTGAGAG
* *
8653095 TTCTTGTCAAGGTAGAGATTGTTAGAATTGAGTGAGTAGAA
1 TTCTTGTTAAGGTAGAGATTGTTAGAATTGAGTGACTAGAA
* *
8653136 TTCTTGTTAAGGTGGAGATTGTTAGAATTGGGTGACTAGAA
1 TTCTTGTTAAGGTAGAGATTGTTAGAATTGAGTGACTAGAA
*
8653177 TTCTTATTAA
1 TTCTTGTTAA
8653187 AATAAAATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.29, C:0.05, G:0.27, T:0.38
Consensus pattern (41 bp):
TTCTTGTTAAGGTAGAGATTGTTAGAATTGAGTGACTAGAA
Found at i:8654527 original size:26 final size:25
Alignment explanation
Indices: 8654504--8654663 Score: 176
Period size: 26 Copynumber: 6.2 Consensus size: 25
8654494 CTTCGAGCTA
*
8654504 GTGATTAAATAGCAAGCCTTGAGCTG
1 GTGATTAAATAGC-AGCCTTGAGCCG
* * *
8654530 ATGATTAACTAGCAGGCTTCGAGCCG
1 GTGATTAAATAGCAGCCTT-GAGCCG
8654556 GTGATTAAATAGCAGACCTTGAGCCG
1 GTGATTAAATAGCAG-CCTTGAGCCG
*
8654582 ATGATTAAATAGCAGACCTTGAGCCG
1 GTGATTAAATAGCAG-CCTTGAGCCG
* * * *
8654608 GTGATTTATTAGCAGGCTTCAAGCCG
1 GTGATTAAATAGCAGCCTT-GAGCCG
*
8654634 GTGATTAAATAGCAGGCCTTGAGTCG
1 GTGATTAAATAGCA-GCCTTGAGCCG
8654660 GTGA
1 GTGA
8654664 CTATTAATAG
Statistics
Matches: 112, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
25 8 0.07
26 97 0.87
27 7 0.06
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.26
Consensus pattern (25 bp):
GTGATTAAATAGCAGCCTTGAGCCG
Found at i:8654590 original size:78 final size:78
Alignment explanation
Indices: 8654505--8654656 Score: 234
Period size: 78 Copynumber: 1.9 Consensus size: 78
8654495 TTCGAGCTAG
* *
8654505 TGATTAAATAGCA-AGCCTTGAGCTGATGATTAACTAGCAGGCTTCGAGCCGGTGATTAAATAGC
1 TGATTAAATAGCAGA-CCTTGAGCCGATGATTAACTAGCAGGCTTCAAGCCGGTGATTAAATAGC
8654569 AGACCTTGAGCCGA
65 AGACCTTGAGCCGA
* * *
8654583 TGATTAAATAGCAGACCTTGAGCCGGTGATTTATTAGCAGGCTTCAAGCCGGTGATTAAATAGCA
1 TGATTAAATAGCAGACCTTGAGCCGATGATTAACTAGCAGGCTTCAAGCCGGTGATTAAATAGCA
*
8654648 GGCCTTGAG
66 GACCTTGAG
8654657 TCGGTGACTA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
78 66 0.99
79 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (78 bp):
TGATTAAATAGCAGACCTTGAGCCGATGATTAACTAGCAGGCTTCAAGCCGGTGATTAAATAGCA
GACCTTGAGCCGA
Found at i:8654654 original size:52 final size:52
Alignment explanation
Indices: 8654482--8654663 Score: 183
Period size: 52 Copynumber: 3.5 Consensus size: 52
8654472 AAAGAAGAAA
** * *
8654482 TAAATGAGCAGG-CTTCGAGCTAGTGATTAAATAGCA-AGCCTTGAGCTGATGAT
1 TAAAT-AGCAGGCCTT-GAGCCGGTGATTAAATAGCAGA-CCTTAAGCCGATGAT
* *
8654535 TAACTAGCAGG-CTTCGAGCCGGTGATTAAATAGCAGACCTTGAGCCGATGAT
1 TAAATAGCAGGCCTT-GAGCCGGTGATTAAATAGCAGACCTTAAGCCGATGAT
* * * * *
8654587 TAAATAGCAGACCTTGAGCCGGTGATTTATTAGCAG-GCTTCAAGCCGGTGAT
1 TAAATAGCAGGCCTTGAGCCGGTGATTAAATAGCAGACCTT-AAGCCGATGAT
*
8654639 TAAATAGCAGGCCTTGAGTCGGTGA
1 TAAATAGCAGGCCTTGAGCCGGTGA
8654664 CTATTAATAG
Statistics
Matches: 113, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
51 3 0.03
52 102 0.90
53 8 0.07
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (52 bp):
TAAATAGCAGGCCTTGAGCCGGTGATTAAATAGCAGACCTTAAGCCGATGAT
Found at i:8654698 original size:78 final size:76
Alignment explanation
Indices: 8654505--8654715 Score: 210
Period size: 78 Copynumber: 2.7 Consensus size: 76
8654495 TTCGAGCTAG
* * * *
8654505 TGATTAAATAGCAAGCCTTGAGCTGATGATTAACTAGCAGGCTTCGAGCCGGTGATTAAATAGCA
1 TGATTAAATAG--AGACTCGAGCCGATGATTAATTAGCAGGCTTCGAGCCGGTGATTAAATAGCA
8654570 GACCTTGAGCCGA
64 GACCTTGAGCCGA
* * * *
8654583 TGATTAAATAGCAGACCTTGAGCCGGTGATTTATTAGCAGGCTTCAAGCCGGTGATTAAATAGCA
1 TGATTAAATAG-AGA-CTCGAGCCGATGATTAATTAGCAGGCTTCGAGCCGGTGATTAAATAGCA
* * *
8654648 GGCCTTGAGTCGG
64 GACCTTGAGCCGA
* * *
8654661 TGACTATTAATAG-G-CTACGAGCCGATGATTAATTTAGCATGCTACGAGCCGGTGA
1 TGA-T-TAAATAGAGACT-CGAGCCGATGATTAA-TTAGCAGGCTTCGAGCCGGTGA
8654716 CTTTTAGCGG
Statistics
Matches: 111, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
76 2 0.02
77 14 0.13
78 88 0.79
79 1 0.01
80 6 0.05
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (76 bp):
TGATTAAATAGAGACTCGAGCCGATGATTAATTAGCAGGCTTCGAGCCGGTGATTAAATAGCAGA
CCTTGAGCCGA
Found at i:8654699 original size:52 final size:52
Alignment explanation
Indices: 8654576--8654692 Score: 155
Period size: 52 Copynumber: 2.3 Consensus size: 52
8654566 AGCAGACCTT
* * *
8654576 GAGCCGATGATTAAATAGCAGACCTTGAGCCGGTGATTTATTAGCAGGCTTC
1 GAGCCGATGATTAAATAGCAGACCTTGAGCCGGTGATCTATTAACAGGCTAC
* * * * *
8654628 AAGCCGGTGATTAAATAGCAGGCCTTGAGTCGGTGA-CTATTAATAGGCTAC
1 GAGCCGATGATTAAATAGCAGACCTTGAGCCGGTGATCTATTAACAGGCTAC
8654679 GAGCCGATGATTAA
1 GAGCCGATGATTAA
8654693 TTTAGCATGC
Statistics
Matches: 55, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
51 23 0.42
52 32 0.58
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.26
Consensus pattern (52 bp):
GAGCCGATGATTAAATAGCAGACCTTGAGCCGGTGATCTATTAACAGGCTAC
Found at i:8660175 original size:26 final size:26
Alignment explanation
Indices: 8660141--8660198 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
8660131 AAGATTGACC
* *
8660141 TGAGATGGGTCTAAGGTCCCTTGAGTT
1 TGAG-TGGGTCCAAGGACCCTTGAGTT
8660168 TGAGTGGGTCCAAGGACCCTTGAGTT
1 TGAGTGGGTCCAAGGACCCTTGAGTT
8660194 TGAGT
1 TGAGT
8660199 TAGCCAGAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 25 0.86
27 4 0.14
ACGTcount: A:0.19, C:0.16, G:0.34, T:0.31
Consensus pattern (26 bp):
TGAGTGGGTCCAAGGACCCTTGAGTT
Found at i:8660209 original size:26 final size:26
Alignment explanation
Indices: 8660153--8660211 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
8660143 AGATGGGTCT
* *
8660153 AAGGTCCCTTGAGTTTGAGTGGGTCC
1 AAGGACCCTTGAGTTTGAGTGAGTCC
*
8660179 AAGGACCCTTGAGTTTGAGTTAG-CC
1 AAGGACCCTTGAGTTTGAGTGAGTCC
8660204 AGAGGACC
1 A-AGGACC
8660212 ATCAGCGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 3 0.10
26 26 0.90
ACGTcount: A:0.22, C:0.20, G:0.32, T:0.25
Consensus pattern (26 bp):
AAGGACCCTTGAGTTTGAGTGAGTCC
Found at i:8663701 original size:21 final size:19
Alignment explanation
Indices: 8663677--8663731 Score: 64
Period size: 15 Copynumber: 3.0 Consensus size: 19
8663667 GGAAAGGTTA
8663677 TACCGATACAAGTATGACT
1 TACCGATACAAGTATGACT
8663696 ACTACCGATACAA-T-T-A-T
1 --TACCGATACAAGTATGACT
8663713 TACCGATACAAGTATGACT
1 TACCGATACAAGTATGACT
8663732 GGTAACTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
15 11 0.37
16 1 0.03
17 2 0.07
18 2 0.07
19 2 0.07
20 1 0.03
21 11 0.37
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (19 bp):
TACCGATACAAGTATGACT
Found at i:8669718 original size:21 final size:21
Alignment explanation
Indices: 8669693--8669746 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
8669683 CTTGTGCTAA
*
8669693 ATCTACCGATACAAGT-ATGGT
1 ATCTACCGATACAAGTCAT-GC
*
8669714 TTCTACCTG-TACAAGTCATGC
1 ATCTACC-GATACAAGTCATGC
8669735 ATCTACCGATAC
1 ATCTACCGATAC
8669747 CAAAAACTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
20 1 0.04
21 23 0.85
22 3 0.11
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (21 bp):
ATCTACCGATACAAGTCATGC
Found at i:8676537 original size:18 final size:18
Alignment explanation
Indices: 8676490--8676538 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
8676480 ATCTTGATCA
*
8676490 AATGTCGGCACATAGCTAG
1 AATGTAGGCACA-AGCTAG
**
8676509 -ATGTAATCACAAGCTAG
1 AATGTAGGCACAAGCTAG
8676526 AATGTAGGCACAA
1 AATGTAGGCACAA
8676539 CAGACTGCGC
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.20
Consensus pattern (18 bp):
AATGTAGGCACAAGCTAG
Found at i:8683827 original size:10 final size:10
Alignment explanation
Indices: 8683801--8683839 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
8683791 CATTTATAAA
8683801 AAAAAAG-AG
1 AAAAAAGAAG
8683810 AAAGAAAGAAG
1 AAA-AAAGAAG
*
8683821 AGAAAAGAAG
1 AAAAAAGAAG
8683831 AAAAAAGAA
1 AAAAAAGAA
8683840 ATATACGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 3 0.12
10 19 0.73
11 4 0.15
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAG
Found at i:8687197 original size:6 final size:6
Alignment explanation
Indices: 8687186--8687213 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
8687176 TTAATTTATC
8687186 TTTTCT TTTTCT TTTTCT TTTTCT TTTT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTT
8687214 GAACTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTCT
Found at i:8700049 original size:2 final size:2
Alignment explanation
Indices: 8700042--8700072 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
8700032 GGCAAGAAAC
*
8700042 TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8700073 CTGTTCTAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:8709604 original size:9 final size:9
Alignment explanation
Indices: 8709590--8709620 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
8709580 GATCAAGTAA
8709590 AATTAAATT
1 AATTAAATT
8709599 AATTAAATT
1 AATTAAATT
8709608 AATTAAAATT
1 AATT-AAATT
8709618 AAT
1 AAT
8709621 ATAATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.62
10 8 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AATTAAATT
Found at i:8709792 original size:23 final size:23
Alignment explanation
Indices: 8709761--8709822 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
8709751 TAATAATATT
*
8709761 TTATTAATTTAATATTAAAATGA
1 TTATCAATTTAATATTAAAATGA
*
8709784 TTATCAATTTAATATTAAAGTGA
1 TTATCAATTTAATATTAAAATGA
8709807 TTATC---TTAATATTAAA
1 TTATCAATTTAATATTAAA
8709823 TTTAATTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 11 0.30
23 26 0.70
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (23 bp):
TTATCAATTTAATATTAAAATGA
Found at i:8709904 original size:91 final size:89
Alignment explanation
Indices: 8709721--8709894 Score: 199
Period size: 91 Copynumber: 1.9 Consensus size: 89
8709711 TTTTAATAGT
* *
8709721 TTAATATTAAATTTAATTTAATACTTATTTTAATAATATTTTATTAATTTAATATTAAAATGATT
1 TTAATATTAAATTTAATTTAATACTTATTTTAATAAAATTTTATTAATTTAATA-TAAAATGAAT
* *
8709786 ATCAATTTAATATTAAAGTGATTATC
65 ATAAATTTAATACTAAAGT-ATTATC
* * * *
8709812 TTAATATTAAATTTAATTTAATATTTATCTTATAAATAAAAATTTTGTTATTTTAATA-AAATTG
1 TTAATATTAAATTTAATTTAATACTTAT-TT-T-AAT-AAAATTTTATTAATTTAATATAAAATG
8709876 AATATTAAATTTAAT-CTAA
62 AATA-TAAATTTAATACTAA
8709895 TATTTATCTT
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
91 27 0.39
92 2 0.03
93 12 0.17
94 12 0.17
95 17 0.24
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (89 bp):
TTAATATTAAATTTAATTTAATACTTATTTTAATAAAATTTTATTAATTTAATATAAAATGAATA
TAAATTTAATACTAAAGTATTATC
Found at i:8709935 original size:62 final size:59
Alignment explanation
Indices: 8709814--8709928 Score: 160
Period size: 62 Copynumber: 1.9 Consensus size: 59
8709804 TGATTATCTT
* *
8709814 AATATTAAATTTAATTTAATATTTATCTTATAAATAAAAATTTTGTTATTTTAATAAAATTG
1 AATATTAAATTTAATCTAATATTTATCTTATAAAT---AATTATGTTATTTTAATAAAATTG
*
8709876 AATATTAAATTTAATCTAATATTTATCTTGATAAAT-ATTATGTTAATTTAATA
1 AATATTAAATTTAATCTAATATTTATCTT-ATAAATAATTATGTTATTTTAATA
8709929 TTAAAATGAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
59 15 0.31
62 28 0.57
63 6 0.12
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (59 bp):
AATATTAAATTTAATCTAATATTTATCTTATAAATAATTATGTTATTTTAATAAAATTG
Found at i:8716505 original size:5 final size:5
Alignment explanation
Indices: 8716495--8716519 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
8716485 GATCAGGGTG
8716495 TTCAA TTCAA TTCAA TTCAA TTCAA
1 TTCAA TTCAA TTCAA TTCAA TTCAA
8716520 AAGAGATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
TTCAA
Found at i:8717800 original size:20 final size:19
Alignment explanation
Indices: 8717777--8717814 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
8717767 CATTTCAAAT
*
8717777 ATAAATAACTAAAATATAAC
1 ATAAATAAATAAAA-ATAAC
8717797 ATAAATAAATAAAAATAA
1 ATAAATAAATAAAAATAA
8717815 TTATTTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (19 bp):
ATAAATAAATAAAAATAAC
Found at i:8718109 original size:24 final size:25
Alignment explanation
Indices: 8718082--8718134 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
8718072 AAAATTTAAA
8718082 TATTCATATTT-TCATA-AATATTTT
1 TATTCAT-TTTATCATACAATATTTT
*
8718106 TATT-ATTTTATCATACTATATTTT
1 TATTCATTTTATCATACAATATTTT
*
8718130 AATTC
1 TATTC
8718135 TCATTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 3 0.12
23 7 0.29
24 14 0.58
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.58
Consensus pattern (25 bp):
TATTCATTTTATCATACAATATTTT
Found at i:8718598 original size:173 final size:174
Alignment explanation
Indices: 8718409--8718759 Score: 641
Period size: 173 Copynumber: 2.0 Consensus size: 174
8718399 CTTCATGCTA
* *
8718409 TTTTTTTTATTTTTATGAATTTTTTATAATTATTATTTTTGAACTATTTATTGACGTCATATATA
1 TTTTTTTTATTTTTATGAACTTTTTATAATTATTATTTTTGAAATATTTATTGACGTCATATATA
8718474 AAATAAATAAAATCATATCAACGTGATGTACTTGTGGACTATCACACCAACATCGTTAACAAATT
66 AAATAAATAAAATCATATCAACGTGATGTACTTGTGGACTATCACACCAACATCGTTAACAAATT
8718539 AATACTTTAGTTAACATTTCTATTAAAAAAAGAAATTTCACTAT
131 AATACTTTAGTTAACATTTCTATTAAAAAAAGAAATTTCACTAT
* *
8718583 TTTTTTTTA-TTTTATGAACTTTTTATAGTTATTATTTTTGAAATATTTGTTGACGTCATATATA
1 TTTTTTTTATTTTTATGAACTTTTTATAATTATTATTTTTGAAATATTTATTGACGTCATATATA
*
8718647 AAATAAATAAAATCATATCAGCGTGATGTACTTGTGGACTATCACACCAACATCGTTAACAAATT
66 AAATAAATAAAATCATATCAACGTGATGTACTTGTGGACTATCACACCAACATCGTTAACAAATT
*
8718712 AATACTTTAGTTAACATTTCTATTAAAAAAAGAAATTTGACTAT
131 AATACTTTAGTTAACATTTCTATTAAAAAAAGAAATTTCACTAT
8718756 TTTT
1 TTTT
8718760 GAAGGTTAAT
Statistics
Matches: 171, Mismatches: 6, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
173 162 0.95
174 9 0.05
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (174 bp):
TTTTTTTTATTTTTATGAACTTTTTATAATTATTATTTTTGAAATATTTATTGACGTCATATATA
AAATAAATAAAATCATATCAACGTGATGTACTTGTGGACTATCACACCAACATCGTTAACAAATT
AATACTTTAGTTAACATTTCTATTAAAAAAAGAAATTTCACTAT
Found at i:8721728 original size:21 final size:23
Alignment explanation
Indices: 8721685--8721729 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
8721675 TGTGATTAAT
*
8721685 TATGATTAACTTTGTTCTATTTC
1 TATGATTAACTTTGTTATATTTC
8721708 TATGATTAAC-TT-TTATATTTC
1 TATGATTAACTTTGTTATATTTC
8721729 T
1 T
8721730 TTCTATTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 2 0.10
23 10 0.48
ACGTcount: A:0.24, C:0.11, G:0.07, T:0.58
Consensus pattern (23 bp):
TATGATTAACTTTGTTATATTTC
Found at i:8729171 original size:16 final size:16
Alignment explanation
Indices: 8729150--8729181 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
8729140 CCAATTATGC
8729150 CAAATTATTGTTAGAG
1 CAAATTATTGTTAGAG
8729166 CAAATTATTGTTAGAG
1 CAAATTATTGTTAGAG
8729182 TTATTATACG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (16 bp):
CAAATTATTGTTAGAG
Found at i:8734156 original size:22 final size:22
Alignment explanation
Indices: 8734122--8734163 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
8734112 CTGGTTTTTC
*
8734122 AAAACCAAGAACAATAAAACTGA
1 AAAAACAAGAACAA-AAAACTGA
8734145 AAAAACAA-AACAAAAAACT
1 AAAAACAAGAACAAAAAACT
8734164 TATGTTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 5 0.28
23 7 0.39
ACGTcount: A:0.71, C:0.17, G:0.05, T:0.07
Consensus pattern (22 bp):
AAAAACAAGAACAAAAAACTGA
Found at i:8745720 original size:10 final size:10
Alignment explanation
Indices: 8745703--8745802 Score: 55
Period size: 10 Copynumber: 10.1 Consensus size: 10
8745693 ACCATTTCTA
8745703 ATAA-TTTTT
1 ATAATTTTTT
8745712 ATAATTTTTTT
1 ATAA-TTTTTT
***
8745723 ATAATAAATT
1 ATAATTTTTT
** * *
8745733 ACGATTTCTA
1 ATAATTTTTT
8745743 ATAA-TTT-T
1 ATAATTTTTT
8745751 ATAATTTTTT
1 ATAATTTTTT
8745761 ATAATTGTTTTT
1 ATAA-T-TTTTT
8745773 ATAA-TTTTT
1 ATAATTTTTT
*
8745782 ATTATTTTTT
1 ATAATTTTTT
* *
8745792 AAAATGTTTT
1 ATAATTTTTT
8745802 A
1 A
8745803 AAAATCCTAA
Statistics
Matches: 67, Mismatches: 17, Indels: 13
0.69 0.18 0.13
Matches are distributed among these distances:
8 4 0.06
9 17 0.25
10 27 0.40
11 10 0.15
12 9 0.13
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:8745740 original size:40 final size:38
Alignment explanation
Indices: 8745691--8745765 Score: 123
Period size: 40 Copynumber: 1.9 Consensus size: 38
8745681 ACAACAATCT
8745691 TTACCATTTCTAATAATTTTTATAATTTTTTTATAATAAA
1 TTACCATTTCTAATAA-TTTTATAA-TTTTTTATAATAAA
*
8745731 TTACGATTTCTAATAATTTTATAATTTTTTATAAT
1 TTACCATTTCTAATAATTTTATAATTTTTTATAAT
8745766 TGTTTTTATA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
38 11 0.32
39 8 0.24
40 15 0.44
ACGTcount: A:0.36, C:0.07, G:0.01, T:0.56
Consensus pattern (38 bp):
TTACCATTTCTAATAATTTTATAATTTTTTATAATAAA
Found at i:8745773 original size:12 final size:11
Alignment explanation
Indices: 8745747--8745786 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
8745737 TTTCTAATAA
8745747 TTTTATAA-TT
1 TTTTATAATTT
8745757 TTTTATAATTGT
1 TTTTATAATT-T
8745769 TTTTATAATTT
1 TTTTATAATTT
8745780 TTATTAT
1 TT-TTAT
8745787 TTTTTAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 8 0.30
11 4 0.15
12 15 0.56
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (11 bp):
TTTTATAATTT
Found at i:8745779 original size:30 final size:30
Alignment explanation
Indices: 8745743--8745801 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
8745733 ACGATTTCTA
*
8745743 ATAA-TTTTATAATTTTTTATAATTGTTTTT
1 ATAATTTTTATAATTTTTTA-AAATGTTTTT
*
8745773 ATAATTTTTATTATTTTTTAAAATGTTTT
1 ATAATTTTTATAATTTTTTAAAATGTTTT
8745802 AAAAATCCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 12 0.46
31 14 0.54
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (30 bp):
ATAATTTTTATAATTTTTTAAAATGTTTTT
Found at i:8745871 original size:28 final size:27
Alignment explanation
Indices: 8745839--8745893 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
8745829 TTAAACTTTA
* * *
8745839 TATATATTTATATTTTTTGGTGATTTTT
1 TATATATTTAAAATTTTTAGTG-TTTTT
*
8745867 TATATTTTTAAAATTTTTAGTGTTTTT
1 TATATATTTAAAATTTTTAGTGTTTTT
8745894 CGGATGATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (27 bp):
TATATATTTAAAATTTTTAGTGTTTTT
Found at i:8751224 original size:30 final size:30
Alignment explanation
Indices: 8751174--8751238 Score: 94
Period size: 30 Copynumber: 2.2 Consensus size: 30
8751164 ACTTATTTTA
* *
8751174 TTGTTATTTTTATTATTATTTTAGAGGCAT
1 TTGTTAATTTTATTACTATTTTAGAGGCAT
* *
8751204 TTGTTAATTTTGTTACTATTTTATAGGCAT
1 TTGTTAATTTTATTACTATTTTAGAGGCAT
8751234 TTGTT
1 TTGTT
8751239 TGTTAAGTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.22, C:0.05, G:0.14, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTATTACTATTTTAGAGGCAT
Found at i:8756267 original size:30 final size:30
Alignment explanation
Indices: 8756231--8756303 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
8756221 TATTAATAAA
*
8756231 AATAAAATTATATTTTAA-CTATCTAAAAAT
1 AATAAAATTATAATTTAATCT-TCTAAAAAT
* *
8756261 AATAAAATTTTAATTTAATCTTTTAAAAAT
1 AATAAAATTATAATTTAATCTTCTAAAAAT
* *
8756291 TATAAAAATATAA
1 AATAAAATTATAA
8756304 AAATTTAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
30 34 0.94
31 2 0.06
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (30 bp):
AATAAAATTATAATTTAATCTTCTAAAAAT
Found at i:8763157 original size:30 final size:30
Alignment explanation
Indices: 8763122--8763181 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
8763112 TCATCTAACG
*
8763122 TTTGAATATTTAGTTAAAATGATCTTAATT
1 TTTGAATATTTAGTCAAAATGATCTTAATT
* * * *
8763152 TTTGAATGTTTTGTCAAAATGGTTTTAATT
1 TTTGAATATTTAGTCAAAATGATCTTAATT
8763182 GCATTTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.32, C:0.03, G:0.13, T:0.52
Consensus pattern (30 bp):
TTTGAATATTTAGTCAAAATGATCTTAATT
Found at i:8765125 original size:14 final size:14
Alignment explanation
Indices: 8765106--8765148 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
8765096 CACTGTTGTT
8765106 TATTGTCATT-CTAC
1 TATTGT-ATTGCTAC
8765120 TATTGTATTGCTAC
1 TATTGTATTGCTAC
* *
8765134 TATTTTATTGTTAC
1 TATTGTATTGCTAC
8765148 T
1 T
8765149 GTTTGGATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 3 0.12
14 23 0.88
ACGTcount: A:0.21, C:0.14, G:0.09, T:0.56
Consensus pattern (14 bp):
TATTGTATTGCTAC
Found at i:8765712 original size:10 final size:9
Alignment explanation
Indices: 8765686--8765711 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
8765676 TCGATTCTAC
8765686 TTAAAAAAT
1 TTAAAAAAT
8765695 TTAAAAAAT
1 TTAAAAAAT
8765704 TTAAAAAA
1 TTAAAAAA
8765712 AAATTCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
TTAAAAAAT
Found at i:8765976 original size:20 final size:21
Alignment explanation
Indices: 8765937--8765979 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
8765927 CAAAGCCTGA
8765937 CCAACCCCACCATCCCAATTT
1 CCAACCCCACCATCCCAATTT
8765958 CCAACCCCACCAT-CCAATTT
1 CCAACCCCACCATCCCAATTT
8765978 CC
1 CC
8765980 CCAAAAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.28, C:0.53, G:0.00, T:0.19
Consensus pattern (21 bp):
CCAACCCCACCATCCCAATTT
Found at i:8768603 original size:22 final size:22
Alignment explanation
Indices: 8768539--8768630 Score: 71
Period size: 22 Copynumber: 4.0 Consensus size: 22
8768529 TATTTTGATA
8768539 TATAAAATATAAATGTTAAATACTT
1 TATAAAATAT-AAT-TTAAATA-TT
*
8768564 T-TAAGCAAT-TAATATTAATTATT
1 TATAA--AATATAAT-TTAAATATT
* *
8768587 TGTAAAATATAATTTAAATATG
1 TATAAAATATAATTTAAATATT
* *
8768609 TATAAACTATATTTTAAATATT
1 TATAAAATATAATTTAAATATT
8768631 AAAATATAAT
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
22 28 0.51
23 7 0.13
24 15 0.27
25 2 0.04
26 3 0.05
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (22 bp):
TATAAAATATAATTTAAATATT
Found at i:8777323 original size:15 final size:15
Alignment explanation
Indices: 8777303--8777341 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
8777293 GAGGCAGTAG
* *
8777303 GAGGGACCTTGGGCA
1 GAGGGACATCGGGCA
8777318 GAGGGAGCATCGGGCA
1 GAGGGA-CATCGGGCA
8777334 GAGGGACA
1 GAGGGACA
8777342 GTCTCGGGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.26, C:0.18, G:0.49, T:0.08
Consensus pattern (15 bp):
GAGGGACATCGGGCA
Found at i:8778140 original size:49 final size:49
Alignment explanation
Indices: 8778087--8778343 Score: 228
Period size: 49 Copynumber: 5.3 Consensus size: 49
8778077 GCCATTGTGG
* * *
8778087 CTTAAATCTTTCCCTTCATGCTTTCGAGGTGTAAGGTTCGCCGTTGCAA
1 CTTAAACCTTTCCCTTCATGCTTTCGAGGTATAAGGTTCGCCGTTGCGA
* *
8778136 CTTAAACCTTTCCCTT--TGCATCTTCGTGGTACT-AGATTCGCCGTTGCGA
1 CTTAAACCTTTCCCTTCATGC-T-TTCGAGGTA-TAAGGTTCGCCGTTGCGA
* * * *
8778185 CTTAAATCTTTCCATTCATG-TCTCTGAGGTATAAGGTTCGCCATTGCGA
1 CTTAAACCTTTCCCTTCATGCTTTC-GAGGTATAAGGTTCGCCGTTGCGA
* * *
8778234 CTTAAACCTTT-CCTTTAT-ATCTTCGCGGTACT--GGATTCGCCGTTGC-A
1 CTTAAACCTTTCCCTTCATGCT-TTCGAGGTA-TAAGG-TTCGCCGTTGCGA
** *
8778281 GCTTAAATATTTCCCTTCATGC-TTCTGAGGTATAAGGTTCGCCATTGCGA
1 -CTTAAACCTTTCCCTTCATGCTTTC-GAGGTATAAGGTTCGCCGTTGCGA
8778331 CTTAAACCTTTCC
1 CTTAAACCTTTCC
8778344 TTTGTATCTT
Statistics
Matches: 165, Mismatches: 25, Indels: 36
0.73 0.11 0.16
Matches are distributed among these distances:
47 6 0.04
48 38 0.23
49 115 0.70
50 4 0.02
51 2 0.01
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.37
Consensus pattern (49 bp):
CTTAAACCTTTCCCTTCATGCTTTCGAGGTATAAGGTTCGCCGTTGCGA
Found at i:8778294 original size:48 final size:48
Alignment explanation
Indices: 8778123--8778391 Score: 212
Period size: 49 Copynumber: 5.5 Consensus size: 48
8778113 AGGTGTAAGG
* * ** * *
8778123 TTCGCCGTTGCAACTTAAACCTTTCCCTTTGCATCTTCGTGGTACTAGA
1 TTCGCCATTGCGACTTAAACCTTT-CCTTTATATCTTCGAGGTACTGGA
* * * *
8778172 TTCGCCGTTGCGACTTAAATCTTTCCATTCATGTC-TCTGAGGTA-TAAGG-
1 TTCGCCATTGCGACTTAAACCTTTCC-TTTATATCTTC-GAGGTACT--GGA
*
8778221 TTCGCCATTGCGACTTAAACCTTTCCTTTATATCTTCGCGGTACTGGA
1 TTCGCCATTGCGACTTAAACCTTTCCTTTATATCTTCGAGGTACTGGA
* ** * *
8778269 TTCGCCGTTGC-AGCTTAAATATTTCCCTTCAT-GCTTCTGAGGTA-TAAGG-
1 TTCGCCATTGCGA-CTTAAACCTTT-CCTTTATATCTTC-GAGGTACT--GGA
*
8778318 TTCGCCATTGCGACTTAAACCTTTCCTTTGTATCTTCGCA-GTACTGGA
1 TTCGCCATTGCGACTTAAACCTTTCCTTTATATCTTCG-AGGTACTGGA
* *
8778366 TTCGCCATTGCGGCTTAAATCTTTCC
1 TTCGCCATTGCGACTTAAACCTTTCC
8778392 CTTCATGGTA
Statistics
Matches: 176, Mismatches: 27, Indels: 35
0.74 0.11 0.15
Matches are distributed among these distances:
47 5 0.03
48 73 0.41
49 94 0.53
50 4 0.02
ACGTcount: A:0.19, C:0.26, G:0.18, T:0.37
Consensus pattern (48 bp):
TTCGCCATTGCGACTTAAACCTTTCCTTTATATCTTCGAGGTACTGGA
Found at i:8778300 original size:97 final size:96
Alignment explanation
Indices: 8778060--8778398 Score: 480
Period size: 97 Copynumber: 3.5 Consensus size: 96
8778050 TTGCAATGTT
* * * *
8778060 TTCGTGGTACTAGATTCGCCATTGTGGCTTAAATCTTTCCCTTCATGCTTTCGAGGTGTAAGGTT
1 TTCGCGGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTTCATGCTCT-GAGGTATAAGGTT
* * *
8778125 CGCCGTTGCAACTTAAACCTTTCCCTTTGCATC
65 CGCCATTGCGACTTAAACCTTT-CCTTTGTATC
* * * *
8778158 TTCGTGGTACTAGATTCGCCGTTGCGACTTAAATCTTTCCATTCATGTCTCTGAGGTATAAGGTT
1 TTCGCGGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTTCATG-CTCTGAGGTATAAGGTT
*
8778223 CGCCATTGCGACTTAAACCTTTCCTTTATATC
65 CGCCATTGCGACTTAAACCTTTCCTTTGTATC
* * * *
8778255 TTCGCGGTACTGGATTCGCCGTTGCAGCTTAAATATTTCCCTTCATGCTTCTGAGGTATAAGGTT
1 TTCGCGGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTTCATGC-TCTGAGGTATAAGGTT
8778320 CGCCATTGCGACTTAAACCTTTCCTTTGTATC
65 CGCCATTGCGACTTAAACCTTTCCTTTGTATC
* *
8778352 TTCGCAGTACTGGATTCGCCATTGCGGCTTAAATCTTTCCCTTCATG
1 TTCGCGGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTTCATG
8778399 GTAATGAAAC
Statistics
Matches: 218, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
96 1 0.00
97 139 0.64
98 75 0.34
99 3 0.01
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (96 bp):
TTCGCGGTACTAGATTCGCCATTGCGGCTTAAATCTTTCCCTTCATGCTCTGAGGTATAAGGTTC
GCCATTGCGACTTAAACCTTTCCTTTGTATC
Found at i:8789645 original size:20 final size:20
Alignment explanation
Indices: 8789620--8789659 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
8789610 GGTAAAAGGA
8789620 AATGATTTTGCAAATAACAT
1 AATGATTTTGCAAATAACAT
8789640 AATGATTTTGCAAATAACAT
1 AATGATTTTGCAAATAACAT
8789660 GACTATTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (20 bp):
AATGATTTTGCAAATAACAT
Found at i:8792685 original size:11 final size:11
Alignment explanation
Indices: 8792669--8792700 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
8792659 GTGACATAAA
*
8792669 TGATGTCATGG
1 TGATGTCATAG
8792680 TGATGTCATAG
1 TGATGTCATAG
8792691 TGATGTCATA
1 TGATGTCATA
8792701 ATCTAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.25, C:0.09, G:0.28, T:0.38
Consensus pattern (11 bp):
TGATGTCATAG
Found at i:8792836 original size:43 final size:42
Alignment explanation
Indices: 8792738--8792834 Score: 178
Period size: 42 Copynumber: 2.3 Consensus size: 42
8792728 TAACTTTTCT
8792738 CCCCCCAAATTTTCATTTTTCACTTTTCTCCCCCCCCCCAAC
1 CCCCCCAAATTTTCATTTTTCACTTTTCTCCCCCCCCCCAAC
8792780 CCCCCCAAATTTTCATTTTTCACTTTTCTCCCCCCCCCCCAA-
1 CCCCCCAAATTTTCATTTTTCACTTTTCT-CCCCCCCCCCAAC
8792822 CCCCCCAAATTTT
1 CCCCCCAAATTTT
8792835 TCTGTCGTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
42 42 0.78
43 12 0.22
ACGTcount: A:0.18, C:0.49, G:0.00, T:0.33
Consensus pattern (42 bp):
CCCCCCAAATTTTCATTTTTCACTTTTCTCCCCCCCCCCAAC
Found at i:8802629 original size:14 final size:14
Alignment explanation
Indices: 8802610--8802637 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
8802600 ATTAAGTGTT
8802610 GGTTAATTGTTAGA
1 GGTTAATTGTTAGA
8802624 GGTTAATTGTTAGA
1 GGTTAATTGTTAGA
8802638 AAAAGAGTAT
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:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (14 bp):
GGTTAATTGTTAGA
Found at i:8805734 original size:43 final size:43
Alignment explanation
Indices: 8805654--8805896 Score: 213
Period size: 43 Copynumber: 5.7 Consensus size: 43
8805644 TTATATGAGA
* * * * * * *
8805654 AAACACCGTTATAAAACATGATATTTAACAGCGCTTTTCCCAT
1 AAACGCCGCTATAGAACATGGTCTTTAGCAGCACTTTTCCCAT
* **
8805697 AAACACCGCTATAGGGCATGGTCTTTAGCAGCACTTTTCCCAT
1 AAACGCCGCTATAGAACATGGTCTTTAGCAGCACTTTTCCCAT
* * *
8805740 AAATGCCGCTATAGAACATGGTCTTTAGCGGCA-TTTTCCCAC
1 AAACGCCGCTATAGAACATGGTCTTTAGCAGCACTTTTCCCAT
* * * * *
8805782 AAACGTCGCTATATAACATGATCTTTAAC-G-ATGCTTTTCCCAC
1 AAACGCCGCTATAGAACATGGTCTTTAGCAGCA--CTTTTCCCAT
* * * * * *
8805825 AAATGTCGCTATAGAACATAGTCTTTAGCAGCATTTTTCCTAC
1 AAACGCCGCTATAGAACATGGTCTTTAGCAGCACTTTTCCCAT
* *
8805868 AAACGTCGCTATAGAACATGATCTTTAGC
1 AAACGCCGCTATAGAACATGGTCTTTAGC
8805897 GGTGCTTTTC
Statistics
Matches: 166, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 32 0.19
43 130 0.78
44 1 0.01
45 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (43 bp):
AAACGCCGCTATAGAACATGGTCTTTAGCAGCACTTTTCCCAT
Found at i:8805835 original size:85 final size:86
Alignment explanation
Indices: 8805730--8805917 Score: 288
Period size: 86 Copynumber: 2.2 Consensus size: 86
8805720 TTTAGCAGCA
* * *
8805730 CTTTTCCCATAAATGCCGCTATAGAACATGGTCTTTAGCGGCA-TTTTCCCACAAACGTCGCTAT
1 CTTTTCCCACAAATGCCGCTATAGAACATAGTCTTTAGCAGCATTTTTCCCACAAACGTCGCTAT
*
8805794 ATAACATGATCTTTAACGATG
66 AGAACATGATCTTTAACGATG
* *
8805815 CTTTTCCCACAAATGTCGCTATAGAACATAGTCTTTAGCAGCATTTTTCCTACAAACGTCGCTAT
1 CTTTTCCCACAAATGCCGCTATAGAACATAGTCTTTAGCAGCATTTTTCCCACAAACGTCGCTAT
* *
8805880 AGAACATGATCTTTAGCGGTG
66 AGAACATGATCTTTAACGATG
*
8805901 CTTTTCCTACAAATGCC
1 CTTTTCCCACAAATGCC
8805918 ACTAACATTA
Statistics
Matches: 92, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
85 39 0.42
86 53 0.58
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (86 bp):
CTTTTCCCACAAATGCCGCTATAGAACATAGTCTTTAGCAGCATTTTTCCCACAAACGTCGCTAT
AGAACATGATCTTTAACGATG
Found at i:8805896 original size:128 final size:128
Alignment explanation
Indices: 8805663--8805898 Score: 312
Period size: 128 Copynumber: 1.8 Consensus size: 128
8805653 AAAACACCGT
* ** *
8805663 TATAAAACATGATATTTAACAGCGCTTTTCCCATAAACACCGCTATAGGGCATGGTCTTTAGCAG
1 TATAAAACATGATATTTAACAGCGCTTTTCCCACAAACACCGCTATAGAACATAGTCTTTAGCAG
* * *
8805728 CACTTTTCCCATAAATGCCGCTATAGAACATGGTCTTTAGCGGCATTTTCCCACAAACGTCGC
66 CACTTTTCCCACAAACGCCGCTATAGAACATGATCTTTAGCGGCATTTTCCCACAAACGTCGC
* * * ***
8805791 TATATAACATGATCTTTAAC-GATGCTTTTCCCACAAATGTCGCTATAGAACATAGTCTTTAGCA
1 TATAAAACATGATATTTAACAG-CGCTTTTCCCACAAACACCGCTATAGAACATAGTCTTTAGCA
* * *
8805855 GCATTTTTCCTACAAACGTCGCTATAGAACATGATCTTTAGCGG
65 GCACTTTTCCCACAAACGCCGCTATAGAACATGATCTTTAGCGG
8805899 TGCTTTTCCT
Statistics
Matches: 91, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
127 1 0.01
128 90 0.99
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (128 bp):
TATAAAACATGATATTTAACAGCGCTTTTCCCACAAACACCGCTATAGAACATAGTCTTTAGCAG
CACTTTTCCCACAAACGCCGCTATAGAACATGATCTTTAGCGGCATTTTCCCACAAACGTCGC
Found at i:8808443 original size:40 final size:40
Alignment explanation
Indices: 8808344--8808436 Score: 159
Period size: 40 Copynumber: 2.3 Consensus size: 40
8808334 CGTTAATTCT
* * *
8808344 CTTTACCTTTTGCGACGTTTATGGGAAAACGCCGCTATTG
1 CTTTACCTTTTACGACGTTTATGGAAAAACGCAGCTATTG
8808384 CTTTACCTTTTACGACGTTTATGGAAAAACGCAGCTATTG
1 CTTTACCTTTTACGACGTTTATGGAAAAACGCAGCTATTG
8808424 CTTTACCTTTTAC
1 CTTTACCTTTTAC
8808437 AGCGTTTTCG
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (40 bp):
CTTTACCTTTTACGACGTTTATGGAAAAACGCAGCTATTG
Found at i:8815673 original size:21 final size:21
Alignment explanation
Indices: 8815649--8815699 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
8815639 TTTTTTCGAA
*
8815649 TCAAGTTGAGTGAAATGAAAT
1 TCAAGTTGAGTGAAACGAAAT
*
8815670 TCAAATTGAGTGAAACGAAAT
1 TCAAGTTGAGTGAAACGAAAT
8815691 TCAAGTTGA
1 TCAAGTTGA
8815700 ATCAAATCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.43, C:0.08, G:0.22, T:0.27
Consensus pattern (21 bp):
TCAAGTTGAGTGAAACGAAAT
Found at i:8821922 original size:21 final size:21
Alignment explanation
Indices: 8821896--8821947 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
8821886 ACAAGTATGA
8821896 CTTCTACCGAAACGTGTCATG
1 CTTCTACCGAAACGTGTCATG
8821917 CTTCTACCGAAACGTGTCATG
1 CTTCTACCGAAACGTGTCATG
8821938 CTTCTACCGA
1 CTTCTACCGA
8821948 TACTAAAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (21 bp):
CTTCTACCGAAACGTGTCATG
Found at i:8826698 original size:28 final size:28
Alignment explanation
Indices: 8826647--8826700 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
8826637 TGTCCACTTC
* *
8826647 TCCCAGATTGATACCTAAAGTTTTTTAG
1 TCCCAGATTGATACCCAAACTTTTTTAG
* *
8826675 TCCCAGATTGGTACCCAATCTTTTTT
1 TCCCAGATTGATACCCAAACTTTTTT
8826701 TCGTCCACTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.41
Consensus pattern (28 bp):
TCCCAGATTGATACCCAAACTTTTTTAG
Found at i:8827225 original size:28 final size:28
Alignment explanation
Indices: 8827188--8827276 Score: 142
Period size: 28 Copynumber: 3.2 Consensus size: 28
8827178 CATCAATGAG
*
8827188 GTTTTTTTATTTTCTGGGTTTTGACACT
1 GTTTTTTTATTTTCTGGGTTTTGACTCT
* *
8827216 GTTTTTTTATTTTCTGAGTTTTGACTTT
1 GTTTTTTTATTTTCTGGGTTTTGACTCT
*
8827244 GTTTTGTTATTTTCTGGGTTTTGACTCT
1 GTTTTTTTATTTTCTGGGTTTTGACTCT
8827272 GTTTT
1 GTTTT
8827277 ATTTCGTATT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 55 1.00
ACGTcount: A:0.09, C:0.09, G:0.18, T:0.64
Consensus pattern (28 bp):
GTTTTTTTATTTTCTGGGTTTTGACTCT
Found at i:8827308 original size:31 final size:31
Alignment explanation
Indices: 8827273--8827337 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
8827263 TTTGACTCTG
*
8827273 TTTTATTTCGTATTATATATAACTT-TTATTT
1 TTTTAATTCGTATTATATATAA-TTATTATTT
*
8827304 TTTTAATTCGTATTATATCTAATTATTATTT
1 TTTTAATTCGTATTATATATAATTATTATTT
8827335 TTT
1 TTT
8827338 GTTTTTGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 2 0.06
31 29 0.94
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (31 bp):
TTTTAATTCGTATTATATATAATTATTATTT
Found at i:8828697 original size:6 final size:6
Alignment explanation
Indices: 8828686--8828739 Score: 56
Period size: 6 Copynumber: 9.2 Consensus size: 6
8828676 GATTTTAAAT
** * **
8828686 AATTTA AATTTA TTTTTA AATTTA AATTTA GATTT- GTTTTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
8828733 AATTTA A
1 AATTTA A
8828740 CTAAATTTGA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
5 4 0.10
6 35 0.90
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.56
Consensus pattern (6 bp):
AATTTA
Found at i:8828704 original size:21 final size:21
Alignment explanation
Indices: 8828655--8828729 Score: 62
Period size: 21 Copynumber: 3.4 Consensus size: 21
8828645 TCAAATTTTA
* *
8828655 ATTTTAAATTAAGTTTAGATTG
1 ATTTTAAA-TAAGTTTAAATTT
8828677 ATTTTAAATAA-TTTAAATTT
1 ATTTTAAATAAGTTTAAATTT
* *
8828697 ATTTTTAAATTTAAATTTAGATTT
1 A-TTTTAAA--TAAGTTTAAATTT
*
8828721 GTTTTAAAT
1 ATTTTAAAT
8828730 TTAAATTTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
20 8 0.18
21 11 0.24
22 8 0.18
23 10 0.22
24 8 0.18
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTTTAAATAAGTTTAAATTT
Found at i:8828705 original size:12 final size:12
Alignment explanation
Indices: 8828651--8828739 Score: 64
Period size: 11 Copynumber: 7.9 Consensus size: 12
8828641 TGGATCAAAT
8828651 TTTAATTTTAAA
1 TTTAATTTTAAA
* *
8828663 -TTAAGTTTAGA
1 TTTAATTTTAAA
*
8828674 -TTGATTTTAAA
1 TTTAATTTTAAA
8828685 --TAA-TTTAAA
1 TTTAATTTTAAA
*
8828694 TTTATTTTTAAA
1 TTTAATTTTAAA
* *
8828706 TTTAAATTTAGA
1 TTTAATTTTAAA
*
8828718 TTT-GTTTTAAA
1 TTTAATTTTAAA
*
8828729 TTTAAATTTAA
1 TTTAATTTTAA
8828740 CTAAATTTGA
Statistics
Matches: 58, Mismatches: 15, Indels: 8
0.72 0.19 0.10
Matches are distributed among these distances:
9 6 0.10
10 2 0.03
11 27 0.47
12 23 0.40
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (12 bp):
TTTAATTTTAAA
Found at i:8828729 original size:23 final size:22
Alignment explanation
Indices: 8828656--8828738 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 22
8828646 CAAATTTTAA
*
8828656 TTTTAAATTAAGTTTAGA-TTG
1 TTTTAAATTAAATTTAGATTTG
* *
8828677 ATTTTAAA-T-AATTTAAATTTAT
1 -TTTTAAATTAAATTTAGATTT-G
8828699 TTTTAAATTTAAATTTAGATTTG
1 TTTTAAA-TTAAATTTAGATTTG
8828722 TTTTAAATTTAAATTTA
1 TTTTAAA-TTAAATTTA
8828739 ACTAAATTTG
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
20 6 0.12
21 10 0.20
22 7 0.14
23 18 0.35
24 10 0.20
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (22 bp):
TTTTAAATTAAATTTAGATTTG
Found at i:8830115 original size:9 final size:9
Alignment explanation
Indices: 8830109--8830138 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
8830099 GGTGAGAGAG
8830109 TTGAGAGAGT
1 TTGAG-GAGT
8830119 TTGAGGAGT
1 TTGAGGAGT
8830128 TTGAGGAGT
1 TTGAGGAGT
8830137 TT
1 TT
8830139 TTTTGAGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 15 0.75
10 5 0.25
ACGTcount: A:0.23, C:0.00, G:0.40, T:0.37
Consensus pattern (9 bp):
TTGAGGAGT
Found at i:8830712 original size:29 final size:29
Alignment explanation
Indices: 8830676--8830897 Score: 202
Period size: 29 Copynumber: 7.6 Consensus size: 29
8830666 CCTTAAAATA
*
8830676 TCCAAAAATTACATTTTGACCCCAAAACT
1 TCCAAAAATTACATTTTTACCCCAAAACT
* * *
8830705 TCCAAAAATTATATTTTTACCTTCGAAA--
1 TCCAAAAATTACATTTTTACC-CCAAAACT
* * *
8830733 TCTCAAAAATTCCATTTTCAACCCTAAAACT
1 TC-CAAAAATTACATTTT-TACCCCAAAACT
*
8830764 TCCAAAAATTACATTTTTACCCTAAAACT
1 TCCAAAAATTACATTTTTACCCCAAAACT
*
8830793 TTCAAAAATTACATTTTTACCCTC-AAACT
1 TCCAAAAATTACATTTTTACCC-CAAAACT
* * *
8830822 TCTAAAAATTTCATTTTTGACCCCGAAACT
1 TCCAAAAATTACATTTTT-ACCCCAAAACT
* ** *
8830852 TAC-AAAATTACCA-TTTTACCCCCGAACG
1 TCCAAAAATTA-CATTTTTACCCCAAAACT
*
8830880 TCCAAAAATTTCATTTTT
1 TCCAAAAATTACATTTTT
8830898 TATCTCGATT
Statistics
Matches: 157, Mismatches: 25, Indels: 22
0.77 0.12 0.11
Matches are distributed among these distances:
28 14 0.09
29 108 0.69
30 33 0.21
31 2 0.01
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.35
Consensus pattern (29 bp):
TCCAAAAATTACATTTTTACCCCAAAACT
Found at i:8830771 original size:59 final size:58
Alignment explanation
Indices: 8830678--8830869 Score: 194
Period size: 59 Copynumber: 3.3 Consensus size: 58
8830668 TTAAAATATC
* * * *
8830678 CAAAAATTACATTTTGACCCCAAAACTTCCAAAAATTATATTTTTACCTTCGAAA-TCT
1 CAAAAATTACATTTTAACCCTAAAACTTCCAAAAATTATATTTTTACCCT-AAAACTCT
* * *
8830736 CAAAAATTCCATTTTCAACCCTAAAACTTCCAAAAATTACATTTTTACCCTAAAACTTT
1 CAAAAATTACATTTT-AACCCTAAAACTTCCAAAAATTATATTTTTACCCTAAAACTCT
* * * **
8830795 CAAAAATTACATTTTTACCCTCAAACTTCTAAAAATT-TCATTTTTGACCCCGAAACT-T
1 CAAAAATTACATTTTAACCCTAAAACTTCCAAAAATTAT-ATTTTT-ACCCTAAAACTCT
8830853 -ACAAAATTACCATTTTA
1 CA-AAAATTA-CATTTTA
8830870 CCCCCGAACG
Statistics
Matches: 113, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
57 1 0.01
58 50 0.44
59 62 0.55
ACGTcount: A:0.40, C:0.23, G:0.02, T:0.35
Consensus pattern (58 bp):
CAAAAATTACATTTTAACCCTAAAACTTCCAAAAATTATATTTTTACCCTAAAACTCT
Found at i:8830829 original size:88 final size:88
Alignment explanation
Indices: 8830676--8830897 Score: 254
Period size: 88 Copynumber: 2.5 Consensus size: 88
8830666 CCTTAAAATA
* * *
8830676 TCCAAAAATTACATTTTGACCCCAAAACTTCCAAAAATTATATTTTTACCTTCGAAATCTCAAAA
1 TCCAAAAATTACATTTTTACCCCAAAACTTCCAAAAATTACATTTTTACCCTCGAAATCTCAAAA
*
8830741 ATTCCATTTTCAACCCTAAAACT
66 ATTCCATTTTCAACCCCAAAACT
* *
8830764 TCCAAAAATTACATTTTTACCCTAAAACTTTCAAAAATTACATTTTTACCCTC-AAA-CTTCTAA
1 TCCAAAAATTACATTTTTACCCCAAAACTTCCAAAAATTACATTTTTACCCTCGAAATC-TC-AA
* ** *
8830827 AAATTTCATTTTTGACCCCGAAACT
64 AAATTCCATTTTCAACCCCAAAACT
* ** * *
8830852 TAC-AAAATTACCA-TTTTACCCCCGAACGTCCAAAAATTTCATTTTT
1 TCCAAAAATTA-CATTTTTACCCCAAAACTTCCAAAAATTACATTTTT
8830898 TATCTCGATT
Statistics
Matches: 114, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
86 1 0.01
87 39 0.34
88 74 0.65
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.35
Consensus pattern (88 bp):
TCCAAAAATTACATTTTTACCCCAAAACTTCCAAAAATTACATTTTTACCCTCGAAATCTCAAAA
ATTCCATTTTCAACCCCAAAACT
Found at i:8830837 original size:58 final size:58
Alignment explanation
Indices: 8830678--8830897 Score: 225
Period size: 58 Copynumber: 3.8 Consensus size: 58
8830668 TTAAAATATC
* * *
8830678 CAAAAATTACATTTTGACCC-CAAAACTTCCAAAAATTAT-ATTTTTACCTTCGAAA-TCT
1 CAAAAATTACATTTTTACCCTC-AAACTTCCAAAAATT-TCATTTTTACCCT-GAAACTTT
* * * * *
8830736 CAAAAATTCCATTTTCAACCCTAAAACTTCCAAAAATTACATTTTTACCCTAAAACTTT
1 CAAAAATTACATTTT-TACCCTCAAACTTCCAAAAATTTCATTTTTACCCTGAAACTTT
* * *
8830795 CAAAAATTACATTTTTACCCTCAAACTTCTAAAAATTTCATTTTTGACCCCGAAACTTA
1 CAAAAATTACATTTTTACCCTCAAACTTCCAAAAATTTCATTTTT-ACCCTGAAACTTT
* * *
8830854 C-AAAATTACCA-TTTTACCCCCGAACGTCCAAAAATTTCATTTTT
1 CAAAAATTA-CATTTTTACCCTCAAACTTCCAAAAATTTCATTTTT
8830898 TATCTCGATT
Statistics
Matches: 137, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
58 79 0.58
59 58 0.42
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.35
Consensus pattern (58 bp):
CAAAAATTACATTTTTACCCTCAAACTTCCAAAAATTTCATTTTTACCCTGAAACTTT
Found at i:8836211 original size:25 final size:22
Alignment explanation
Indices: 8836178--8836250 Score: 74
Period size: 24 Copynumber: 3.1 Consensus size: 22
8836168 TTCAATGAAT
* * *
8836178 AAAATAAAAGAAAAAATAAGAAG
1 AAAAGAAAA-AAAAAAAAAGAAA
8836201 AAAAGCAAAAACAAAAAAGAAGAAA
1 AAAAG-AAAAA-AAAAAA-AAGAAA
8836226 AAAAGAAAAAAAAGAAAAAGAAA
1 AAAAGAAAAAAAA-AAAAAGAAA
8836249 AA
1 AA
8836251 GAGAGGTCGA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
23 16 0.37
24 17 0.40
25 10 0.23
ACGTcount: A:0.82, C:0.03, G:0.12, T:0.03
Consensus pattern (22 bp):
AAAAGAAAAAAAAAAAAAGAAA
Found at i:8836223 original size:22 final size:20
Alignment explanation
Indices: 8836183--8836252 Score: 79
Period size: 20 Copynumber: 3.3 Consensus size: 20
8836173 TGAATAAAAT
8836183 AAAAGAAAAAATAAGAAGAAA
1 AAAAGAAAAAA-AAGAAGAAA
8836204 AGCAAA-AACAAAAAAGAAGAAA
1 A--AAAGAA-AAAAAAGAAGAAA
*
8836226 AAAAGAAAAAAAAGAAAAAGA
1 AAAAGAAAAAAAAGAAGAA-A
8836247 AAAAGA
1 AAAAGA
8836253 GAGGTCGAGG
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
20 14 0.33
21 10 0.23
22 12 0.28
23 7 0.16
ACGTcount: A:0.81, C:0.03, G:0.14, T:0.01
Consensus pattern (20 bp):
AAAAGAAAAAAAAGAAGAAA
Found at i:8836227 original size:17 final size:15
Alignment explanation
Indices: 8836178--8836250 Score: 56
Period size: 17 Copynumber: 4.3 Consensus size: 15
8836168 TTCAATGAAT
*
8836178 AAAATAAAAGAAAAA
1 AAAAAAAAAGAAAAA
8836193 ATAAGAAGAAAAGCAAAAA
1 A-AA-AA-AAAAG-AAAAA
*
8836212 CAAAAAAGAAGAAAAAA
1 -AAAAAAAAAG-AAAAA
8836229 AGAAAAAAAAGAAAAA
1 A-AAAAAAAAGAAAAA
8836245 GAAAAA
1 -AAAAA
8836251 GAGAGGTCGA
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
15 1 0.02
16 12 0.26
17 19 0.40
18 7 0.15
19 7 0.15
20 1 0.02
ACGTcount: A:0.82, C:0.03, G:0.12, T:0.03
Consensus pattern (15 bp):
AAAAAAAAAGAAAAA
Found at i:8836244 original size:33 final size:32
Alignment explanation
Indices: 8836183--8836250 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 32
8836173 TGAATAAAAT
* *
8836183 AAAAGAAAAAATAAGAAGAAAAGCAAAAACAA
1 AAAAGAAAAAAAAAGAAAAAAAGCAAAAACAA
*
8836215 AAAAGAAGAAAAAAAGAAAAAAAAG-AAAAAGAA
1 AAAAGAA-AAAAAAAG-AAAAAAAGCAAAAACAA
8836248 AAA
1 AAA
8836251 GAGAGGTCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 7 0.23
33 17 0.55
34 7 0.23
ACGTcount: A:0.82, C:0.03, G:0.13, T:0.01
Consensus pattern (32 bp):
AAAAGAAAAAAAAAGAAAAAAAGCAAAAACAA
Found at i:8837238 original size:50 final size:50
Alignment explanation
Indices: 8837125--8837339 Score: 152
Period size: 50 Copynumber: 4.3 Consensus size: 50
8837115 GAAGACAAAA
** * * * *
8837125 GGAAAGATCTAAGATCGCAACGGCGGATCC-AATACCATAAAAAGATAA-AAG
1 GGAAAGATCTAAG-TCGCAACGGCGGA-CCGTGTACC-TCAGAAGACAAGACG
* * * **
8837176 GAAAAGGTCTAAGTCGTAACGGTAGACCGTGTACCTCAGAAGACAAGACG
1 GGAAAGATCTAAGTCGCAACGGCGGACCGTGTACCTCAGAAGACAAGACG
* * * * *
8837226 GGAAAGATCTAAGACCGCAACGGCGGATCC-AGTACCACAAAAAGACAA-AAG
1 GGAAAGATCTAAG-TCGCAACGGCGGA-CCGTGTACCTC-AGAAGACAAGACG
* * * *
8837277 GGAAAGGTCTGAA-TTGCAAAGGCGGACCGTGTACCTCAGAAGACACGACG
1 GGAAAGATCT-AAGTCGCAACGGCGGACCGTGTACCTCAGAAGACAAGACG
8837327 GGAAAGATCTAAG
1 GGAAAGATCTAAG
8837340 ACTGTAACGG
Statistics
Matches: 124, Mismatches: 31, Indels: 19
0.71 0.18 0.11
Matches are distributed among these distances:
49 21 0.17
50 54 0.44
51 37 0.30
52 12 0.10
ACGTcount: A:0.40, C:0.20, G:0.27, T:0.13
Consensus pattern (50 bp):
GGAAAGATCTAAGTCGCAACGGCGGACCGTGTACCTCAGAAGACAAGACG
Found at i:8837262 original size:101 final size:101
Alignment explanation
Indices: 8837125--8837384 Score: 344
Period size: 101 Copynumber: 2.6 Consensus size: 101
8837115 GAAGACAAAA
* * * *
8837125 GGAAAGATCTAAGATCGCAACGGCGGATCCAATACCATAAAAAGATAAAAGGAAAAGGTCT-AAG
1 GGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAAAGACAAAAGGAAAAGGTCTGAA-
* * *
8837189 TCGTAACGGTAGACCGTGTACCTCAGAAGACAAGACG
65 TCGCAAAGGCAGACCGTGTACCTCAGAAGACAAGACG
*
8837226 GGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAAAGACAAAAGGGAAAGGTCTGAAT
1 GGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAAAGACAAAAGGAAAAGGTCTGAAT
* * *
8837291 TGCAAAGGCGGACCGTGTACCTCAGAAGACACGACG
66 CGCAAAGGCAGACCGTGTACCTCAGAAGACAAGACG
* * * *
8837327 GGAAAGATCTAAGACTGTAACGGTGAATCCAGTA-CAGCAAAAAGACAAAAGGGAAAAG
1 GGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCA-CAAAAAGACAAAA-GGAAAAG
8837385 TTTTTATCTC
Statistics
Matches: 140, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
100 2 0.01
101 130 0.93
102 8 0.06
ACGTcount: A:0.42, C:0.19, G:0.26, T:0.13
Consensus pattern (101 bp):
GGAAAGATCTAAGACCGCAACGGCGGATCCAGTACCACAAAAAGACAAAAGGAAAAGGTCTGAAT
CGCAAAGGCAGACCGTGTACCTCAGAAGACAAGACG
Found at i:8837544 original size:92 final size:92
Alignment explanation
Indices: 8837382--8837627 Score: 395
Period size: 92 Copynumber: 2.7 Consensus size: 92
8837372 CAAAAGGGAA
* * *
8837382 AAGTTTTTATCTCTTTGAAGTTGTAGTAAGAGCAAGATGAAGCTTTAAACATCAATTCCTATCCT
1 AAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCCT
8837447 CTTGAAGTTGCAGTAAAGTTGGATAGC
66 CTTGAAGTTGCAGTAAAGTTGGATAGC
* * *
8837474 AAGTCTTTATCTCTCTAAATTTGTAGTATGAGCAAGATGAAGCTTCAAACATCAATTCCTATCCT
1 AAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCCT
8837539 CTTGAAGTTGCAGTAAAGTTGGATAGC
66 CTTGAAGTTGCAGTAAAGTTGGATAGC
* * * *
8837566 AAGTCTTTATCTCTCTGAAGTTGCAGTAAGAGCAAGATAAAGCTTC-GACATCAAATCCTATC
1 AAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATC
8837628 TTCATAAAGA
Statistics
Matches: 141, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 14 0.10
92 127 0.90
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (92 bp):
AAGTCTTTATCTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCTTCAAACATCAATTCCTATCCT
CTTGAAGTTGCAGTAAAGTTGGATAGC
Found at i:8838216 original size:206 final size:207
Alignment explanation
Indices: 8837917--8839138 Score: 1794
Period size: 206 Copynumber: 5.9 Consensus size: 207
8837907 AAGCTCAATG
* * * * *
8837917 TGAGCAAATCTTCGCACCCCAGCTTCTTGATGAGATACTGAGAAGCAGGTCGAAGAAATAAAATG
1 TGAGCAAATCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTG
*
8837982 GTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAGAAG
66 GTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAGAAG
* * *
8838047 CGAATTGAAACAAGTGA-GATGGTCATCTTCTTGATGAGATACTGAGAAGAAGACCAAATTC-AA
131 CGGATTGAAACAAGTGATGACGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAA-TCAAA
*
8838110 CTCACGCTCAACA
195 CTCACGCTCGACA
* * * *
8838123 TAAGCAAATCTTCGAACCTCAGCTTCTTGATAAGATACTGAGAAGCATGTCGAAGCAATAAAGTG
1 TGAGCAAATCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTG
* * ** *
8838188 GTTAGCTTCTTGATGAGATATAGAGAAGTGGACCAAATTTATCTTCCTGATGAGATACAGAGAAG
66 GTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAGAAG
* *
8838253 CGAATTGAAACAAGTGA-GACGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATTAAAC
131 CGGATTGAAACAAGTGATGACGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAAC
8838317 TCACGCTCGACA
196 TCACGCTCGACA
8838329 TGAGCAAATCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTG
1 TGAGCAAATCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTG
*
8838394 GTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACATAGAAG
66 GTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAGAAG
** *
8838459 CGGATTGAAACAAACGATG-CGGTCATCTTCTTGATGAGATACTGAGAAGAAGACCAAATCAAAC
131 CGGATTGAAACAAGTGATGACGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAAC
*
8838523 TCACGCTAGACA
196 TCACGCTCGACA
* *
8838535 TGAGCAAATCTTCGAAGCTCAGCTTCCTGATGAGATACTAAGAAGCAGGTCGAAGCAATAAAGTG
1 TGAGCAAATCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTG
*
8838600 GTTAGCTTCCTGATGAGATACAAAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAGAAG
66 GTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAGAAG
** * * *
8838665 CGGATTGAAACAAACGATG-CAGTCATCTTCCTAATGAGATACTGAGAAGAAGACTAAATCAAAC
131 CGGATTGAAACAAGTGATGACGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAAC
8838729 TCACGCTCGACA
196 TCACGCTCGACA
*
8838741 TGAGCAAATCTTTGAACCTCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTG
1 TGAGCAAATCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTG
* * * * * **
8838806 GTTAGCTTCCTGATGAGATACAGAGAAGTGAACCAAATCCGTCTTCTTGATGAAACACGGAGAAG
66 GTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAGAAG
* ** * * * *
8838871 TGGATCAAAACAAGTGATG-CGATCGTCTTCCTGATGAGATACTGAGAAGAAAACCAAACCAAAC
131 CGGATTGAAACAAGTGATGACGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAAC
*
8838935 TCACGCTCGATA
196 TCACGCTCGACA
* *
8838947 TGAGCAAATCTTCGAACCTCAGCTTCCTGATGAGATACTAAGAAGTAGGTCGAAGCAATAAAGTG
1 TGAGCAAATCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTG
** * * * * *
8839012 GTTAGCTTTTTGATGGGATACAGAGAAGTGAACCAAATCCGTCTTCCTGATGAAACACAAAGAAG
66 GTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAGAAG
* ** * *
8839077 TGGATCAAAACAAGTGATG-CGGTCATCTTCCTGATGAGATACCGAAAAGACAG-CCAAATCAA
131 CGGATTGAAACAAGTGATGACGGTCATCTTCCTGATGAGATACTGAGAAGA-AGACCAAATCAA
8839139 TGAAACCAGA
Statistics
Matches: 933, Mismatches: 80, Indels: 6
0.92 0.08 0.01
Matches are distributed among these distances:
205 1 0.00
206 930 1.00
207 2 0.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (207 bp):
TGAGCAAATCTTCGAACCTCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGTG
GTTAGCTTCCTGATGAGATACAGAGAAGTGGACCAAATTCGTCTTCCTGATGAGATACAAAGAAG
CGGATTGAAACAAGTGATGACGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAAC
TCACGCTCGACA
Found at i:8839474 original size:11 final size:11
Alignment explanation
Indices: 8839455--8839524 Score: 50
Period size: 11 Copynumber: 6.2 Consensus size: 11
8839445 GGATCAAATT
8839455 TTAATTTTAAA
1 TTAATTTTAAA
* *
8839466 TTAAGTTTAGA
1 TTAATTTTAAA
*
8839477 TTGATTTTAAA
1 TTAATTTTAAA
*
8839488 TTTATTTTTAAA
1 -TTAATTTTAAA
* *
8839500 TTTAAATTTAGA
1 -TTAATTTTAAA
**
8839512 TTTGTTTTAAA
1 TTAATTTTAAA
8839523 TT
1 TT
8839525 TAAATTTAAC
Statistics
Matches: 44, Mismatches: 14, Indels: 2
0.73 0.23 0.03
Matches are distributed among these distances:
11 26 0.59
12 18 0.41
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (11 bp):
TTAATTTTAAA
Found at i:8839498 original size:12 final size:12
Alignment explanation
Indices: 8839454--8839533 Score: 67
Period size: 12 Copynumber: 6.9 Consensus size: 12
8839444 TGGATCAAAT
8839454 TTTAATTTTAAA
1 TTTAATTTTAAA
* *
8839466 -TTAAGTTTAGA
1 TTTAATTTTAAA
*
8839477 -TTGATTTTAAA
1 TTTAATTTTAAA
*
8839488 TTTATTTTTAAA
1 TTTAATTTTAAA
* *
8839500 TTTAAATTTAGA
1 TTTAATTTTAAA
*
8839512 TTT-GTTTTAAA
1 TTTAATTTTAAA
*
8839523 TTTAAATTTAA
1 TTTAATTTTAA
8839534 CTAAATTTGA
Statistics
Matches: 51, Mismatches: 15, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
11 25 0.49
12 26 0.51
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (12 bp):
TTTAATTTTAAA
Found at i:8839503 original size:6 final size:6
Alignment explanation
Indices: 8839482--8839533 Score: 52
Period size: 6 Copynumber: 8.8 Consensus size: 6
8839472 TTAGATTGAT
** * **
8839482 TTTAAA TTTATT TTTAAA TTTAAA TTTAGA TTT-GT TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
8839529 TTTAA
1 TTTAA
8839534 CTAAATTTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
5 4 0.11
6 33 0.89
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (6 bp):
TTTAAA
Found at i:8839510 original size:35 final size:34
Alignment explanation
Indices: 8839454--8839546 Score: 109
Period size: 35 Copynumber: 2.7 Consensus size: 34
8839444 TGGATCAAAT
*
8839454 TTTAATTTTAAATTAAGTTTAGA-TTGATTTTAAA
1 TTTAATTTTAAATTAAATTTAGATTTG-TTTTAAA
*
8839488 TTTATTTTTAAATTTAAATTTAGATTTGTTTTAAA
1 TTTAATTTTAAA-TTAAATTTAGATTTGTTTTAAA
* *
8839523 TTTAAATTT-AACTAAATTTGAGAT
1 TTTAATTTTAAATTAAATTT-AGAT
8839547 AAATGTAAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
33 7 0.14
34 17 0.33
35 24 0.47
36 3 0.06
ACGTcount: A:0.38, C:0.01, G:0.08, T:0.54
Consensus pattern (34 bp):
TTTAATTTTAAATTAAATTTAGATTTGTTTTAAA
Found at i:8840252 original size:3 final size:3
Alignment explanation
Indices: 8840244--8840283 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
8840234 TAAAATATTA
* * *
8840244 AAT AAT AAT AAT TAT AAT AAT AAT ATT AAT AAT AAA AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
8840284 CAAGAAAGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:8841520 original size:59 final size:59
Alignment explanation
Indices: 8841443--8841613 Score: 186
Period size: 59 Copynumber: 2.9 Consensus size: 59
8841433 AAAGGTCCCT
* **
8841443 AAATTGTCAAAAAATTACATTTTAACCCTC-AAACTTTTAAAAATTACATTTTTGAA-CTTA
1 AAATT-TCAAAAAATTACATTTTAACCC-CAAAACTTTCAAAAATTACATTTTT-AACCCAA
* * *
8841503 AAATTTCTAAAAATTACATTTTTACCCCTAAA-TTTACAAAAATTACATTTTTAACCCAA
1 AAATTTCAAAAAATTACATTTTAACCCCAAAACTTT-CAAAAATTACATTTTTAACCCAA
* * * *
8841562 AAACTTCCAAAAATTCCATTTTAACCCCAAAACTTGCAAAAATTACCATTTT
1 AAATTTCAAAAAATTACATTTTAACCCCAAAACTTTCAAAAATTA-CATTTT
8841614 ACCCTCGAAC
Statistics
Matches: 95, Mismatches: 11, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
58 6 0.06
59 76 0.80
60 13 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (59 bp):
AAATTTCAAAAAATTACATTTTAACCCCAAAACTTTCAAAAATTACATTTTTAACCCAA
Done.