Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_pilon, whole genome shotgun sequence
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: 6287495
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 33
Found at i:3693407 original size:20 final size:19
Alignment explanation
Indices: 3693352--3693411 Score: 70
Period size: 17 Copynumber: 3.2 Consensus size: 19
3693342 GAGGGAAATT
* *
3693352 AGGAAAATTTGAGAATATAG
1 AGGAAAA-TTGGGAATTTAG
3693372 -GG-AAATTGGGAATTTAG
1 AGGAAAATTGGGAATTTAG
3693389 AGGAAAATTGGGAAATTTAG
1 AGGAAAATTGGG-AATTTAG
3693409 AGG
1 AGG
3693412 GAATAGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
17 10 0.29
18 5 0.14
19 10 0.29
20 10 0.29
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.25
Consensus pattern (19 bp):
AGGAAAATTGGGAATTTAG
Found at i:3693424 original size:46 final size:47
Alignment explanation
Indices: 3693329--3693430 Score: 120
Period size: 46 Copynumber: 2.2 Consensus size: 47
3693319 TTTTGATTTT
* **
3693329 ATTTGGGAATTTAGAGGGAAATTAGGAAAATTTGAGAATATAGGGAA
1 ATTTGGGAATTTAGAGGAAAATTAGGAAAATTTGAGAATATAGAAAA
* *
3693376 A-TTGGGAATTTAGAGGAAAATT-GGGAAATTTAGAGGGA-ATAGAAAA
1 ATTTGGGAATTTAGAGGAAAATTAGGAAAATTT-GA-GAATATAGAAAA
3693422 ATTTGGGAA
1 ATTTGGGAA
3693431 GTTGGCACCA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
45 8 0.17
46 29 0.62
47 10 0.21
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.26
Consensus pattern (47 bp):
ATTTGGGAATTTAGAGGAAAATTAGGAAAATTTGAGAATATAGAAAA
Found at i:3693687 original size:21 final size:21
Alignment explanation
Indices: 3693642--3693681 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3693632 ATATAGTTTA
*
3693642 TATAAACCTTAAACCCTAAAT
1 TATAAACCCTAAACCCTAAAT
3693663 TATAAACCCTAAACCCTAA
1 TATAAACCCTAAACCCTAA
3693682 TGTATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (21 bp):
TATAAACCCTAAACCCTAAAT
Found at i:3693722 original size:20 final size:20
Alignment explanation
Indices: 3693683--3693764 Score: 89
Period size: 20 Copynumber: 4.2 Consensus size: 20
3693673 AAACCCTAAT
* *
3693683 GTATATATAAACCATGTATA
1 GTATATATAAACTATATATA
3693703 GTATATATAAACTATATATA
1 GTATATATAAACTATATATA
*
3693723 -TACCTATATATA-TATATATA
1 GTA--TATATAAACTATATATA
*
3693743 -TATATATAAACTATATAAA
1 GTATATATAAACTATATATA
3693762 GTA
1 GTA
3693765 AATTACTTAT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
18 7 0.13
19 9 0.17
20 30 0.57
21 7 0.13
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (20 bp):
GTATATATAAACTATATATA
Found at i:3693759 original size:2 final size:2
Alignment explanation
Indices: 3693699--3693750 Score: 59
Period size: 2 Copynumber: 25.0 Consensus size: 2
3693689 ATAAACCATG
* **
3693699 TA TA GTA TA TA TA AA CTA TA TA TA TA CC TA TA TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3693743 TA TA TA TA
1 TA TA TA TA
3693751 AACTATATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
2 39 0.93
3 3 0.07
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (2 bp):
TA
Found at i:3693933 original size:2 final size:2
Alignment explanation
Indices: 3693923--3693973 Score: 66
Period size: 2 Copynumber: 24.5 Consensus size: 2
3693913 TTATATAGTT
* *
3693923 TA TA CA TA TA TA GTT TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3693966 TA CTA TA T
1 TA -TA TA T
3693974 TAATATAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 40 0.93
3 3 0.07
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:3693971 original size:93 final size:94
Alignment explanation
Indices: 3693866--3694053 Score: 290
Period size: 93 Copynumber: 2.0 Consensus size: 94
3693856 TAATGCATAC
* *
3693866 ATATATATACTATATTAATATAAATTATAACATATAAACTGTATA-TTTTATATAGTTTATACAT
1 ATATATATACTATATTAATATAAATAATAACATATAAACTATATACTTTT-TATAGTTTATACAT
*
3693930 ATATAGTTTATATATATA-TATATATATAT
65 ATATAGTTTATATACATAGTATATATATAT
***
3693959 ATATATATACTATATTAATATAAATAATATTTTATAAACTATATACTTTTTATAGTTTATACATA
1 ATATATATACTATATTAATATAAATAATAACATATAAACTATATACTTTTTATAGTTTATACATA
*
3694024 TATAGTTTATATACATAGTTTATATATAT
66 TATAGTTTATATACATAGTATATATATAT
3694053 A
1 A
3694054 ATTCACATAA
Statistics
Matches: 86, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
93 71 0.83
94 15 0.17
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.48
Consensus pattern (94 bp):
ATATATATACTATATTAATATAAATAATAACATATAAACTATATACTTTTTATAGTTTATACATA
TATAGTTTATATACATAGTATATATATAT
Found at i:3694029 original size:15 final size:14
Alignment explanation
Indices: 3694009--3694191 Score: 73
Period size: 13 Copynumber: 13.1 Consensus size: 14
3693999 ATATACTTTT
3694009 TATAGTTTATACATA
1 TATAGTTTATA-ATA
3694024 TATAGTTTAT-ATA
1 TATAGTTTATAATA
*
3694037 CATAGTTTAT-ATA
1 TATAGTTTATAATA
* *
3694050 TATAATTCACATAA-A
1 TATAGTT--TATAATA
* * *
3694065 CATAATTT-TTATA
1 TATAGTTTATAATA
*
3694078 TATAGCTTATAATA
1 TATAGTTTATAATA
* * *
3694092 -AT--TATATAGTT
1 TATAGTTTATAATA
*
3694103 TATAATTT-TATATA
1 TATAGTTTATA-ATA
*
3694117 CATAGTTTATAA-A
1 TATAGTTTATAATA
*
3694130 TATAGTTCACATAA-A
1 TATAGTT--TATAATA
*
3694145 TATAATTTAT-ATA
1 TATAGTTTATAATA
3694158 TATAGTTTATAATAATTA
1 TATAG-TT-T-ATAA-TA
3694176 TATAGTTTATAATA
1 TATAGTTTATAATA
3694190 TA
1 TA
3694192 AATATAGTTT
Statistics
Matches: 125, Mismatches: 25, Indels: 37
0.67 0.13 0.20
Matches are distributed among these distances:
11 5 0.04
12 5 0.04
13 44 0.35
14 20 0.16
15 37 0.30
16 4 0.03
17 3 0.02
18 7 0.06
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (14 bp):
TATAGTTTATAATA
Found at i:3694124 original size:80 final size:79
Alignment explanation
Indices: 3694024--3694208 Score: 275
Period size: 80 Copynumber: 2.4 Consensus size: 79
3694014 TTTATACATA
* *
3694024 TATAGTTTATATACATAGTTTATATATATAATTCACATAAACATAATTTTTATATATAGCTTATA
1 TATAATTTATATACATAGTTTATATATATAATTCACATAAACATAATTTATATATATAGCTTATA
3694089 ATAATTATATAGTT
66 ATAATTATATAGTT
* * * *
3694103 TATAATTTTATATACATAGTTTATAAATATAGTTCACATAAATATAATTTATATATATAGTTTAT
1 TATAA-TTTATATACATAGTTTATATATATAATTCACATAAACATAATTTATATATATAGCTTAT
3694168 AATAATTATATAGTT
65 AATAATTATATAGTT
* *
3694183 TATAA--TATAAATATAGTTTATATATA
1 TATAATTTATATACATAGTTTATATATA
3694209 ATTTTATATT
Statistics
Matches: 96, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
77 18 0.19
79 4 0.04
80 74 0.77
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (79 bp):
TATAATTTATATACATAGTTTATATATATAATTCACATAAACATAATTTATATATATAGCTTATA
ATAATTATATAGTT
Found at i:3694179 original size:18 final size:18
Alignment explanation
Indices: 3694076--3694234 Score: 90
Period size: 18 Copynumber: 8.2 Consensus size: 18
3694066 ATAATTTTTA
*
3694076 TATATAGCTTATAATAAT
1 TATATAGTTTATAATAAT
*
3694094 TATATAGTTTATAATTTTAT
1 TATATAGTTTATAA--TAAT
*
3694114 ATACATAGTTTATAAATATAGT
1 -TATATAGTTTAT-AATA-A-T
* ** *
3694136 TCACATA-AATATAATTTAT
1 T-ATATAGTTTATAA-TAAT
3694155 ATATATAGTTTATAATAAT
1 -TATATAGTTTATAATAAT
3694174 TATATAGTTTATAAT-AT
1 TATATAGTTTATAATAAT
*
3694191 AAATATAGTTTATATATAAT
1 -TATATAGTTTATA-ATAAT
*
3694211 TTTATA-TTATATATATATAT
1 TATATAGTT-TATA-ATA-AT
3694231 TATA
1 TATA
3694235 ATTTTTCAAT
Statistics
Matches: 111, Mismatches: 15, Indels: 28
0.72 0.10 0.18
Matches are distributed among these distances:
17 2 0.02
18 42 0.38
19 22 0.20
20 20 0.18
21 17 0.15
22 8 0.07
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (18 bp):
TATATAGTTTATAATAAT
Found at i:3696187 original size:11 final size:11
Alignment explanation
Indices: 3696171--3696196 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
3696161 TAGATATTTG
3696171 TTTTTTTGTTT
1 TTTTTTTGTTT
3696182 TTTTTTTGTTT
1 TTTTTTTGTTT
3696193 TTTT
1 TTTT
3696197 ATATAGGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:3702633 original size:34 final size:34
Alignment explanation
Indices: 3702574--3702640 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
3702564 TTCTTGAGAG
*
3702574 TTGTTTTCTCCTTTTTATCAAGAGAGAA-TTGTTA
1 TTGTTTTCTCCTTTTGATC-AGAGAGAAGTTGTTA
3702608 TTGTTTTCTCCTTGTTAGATC-GAGAGAAGTTGT
1 TTGTTTTCTCCTT-TT-GATCAGAGAGAAGTTGT
3702641 AATAGTGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 20 0.69
35 6 0.21
36 3 0.10
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.48
Consensus pattern (34 bp):
TTGTTTTCTCCTTTTGATCAGAGAGAAGTTGTTA
Found at i:3714244 original size:20 final size:17
Alignment explanation
Indices: 3714202--3714243 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
3714192 GTTCGAGTAT
3714202 GGCGGCGGATTGCTGAC
1 GGCGGCGGATTGCTGAC
3714219 GGCGGCGGATTGCTGAC
1 GGCGGCGGATTGCTGAC
3714236 GGCGGCGG
1 GGCGGCGG
3714244 CAGCGGACGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.10, C:0.24, G:0.52, T:0.14
Consensus pattern (17 bp):
GGCGGCGGATTGCTGAC
Found at i:3722272 original size:23 final size:22
Alignment explanation
Indices: 3722241--3722283 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
3722231 AAAAGTGTGA
*
3722241 TTTTTAATATTTTTTTAATTTT
1 TTTTTAATATTTTGTTAATTTT
3722263 TTTTTAAATATTTTGTTAATT
1 TTTTT-AATATTTTGTTAATT
3722284 GAAAGGAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTTTAATATTTTGTTAATTTT
Found at i:3722276 original size:12 final size:11
Alignment explanation
Indices: 3722241--3722282 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
3722231 AAAAGTGTGA
3722241 TTTTTAATATT
1 TTTTTAATATT
*
3722252 TTTTTAATTTT
1 TTTTTAATATT
3722263 TTTTTAAATATT
1 TTTTT-AATATT
*
3722275 TTGTTAAT
1 TTTTTAAT
3722283 TGAAAGGAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (11 bp):
TTTTTAATATT
Found at i:3723086 original size:41 final size:41
Alignment explanation
Indices: 3723053--3723251 Score: 118
Period size: 41 Copynumber: 4.8 Consensus size: 41
3723043 GCCGCTACTT
*
3723053 ATAAGTACTTTAGTGGCATTTTTAAACAAACGCCACTACAGA
1 ATAA-TACTTTAGTGGCATTTCTAAACAAACGCCACTACAGA
* * * *
3723095 ATCATACTTTAGTGGCGTTTCTAAACAAACG-C-CTAAATA
1 ATAATACTTTAGTGGCATTTCTAAACAAACGCCACTACAGA
* * * * *
3723134 TGATACATA-TTTTGTGGCATTTTTAGACAAATGCCGCTACA-A
1 --ATA-ATACTTTAGTGGCATTTCTAAACAAACGCCACTACAGA
* * * * * * *
3723176 CCTAGTACTATAGTGGCGTTTCTAAACAAATGCCACAAAAGA
1 -ATAATACTTTAGTGGCATTTCTAAACAAACGCCACTACAGA
** * * *
3723218 ATCGTTCTTTAGTGGCATTTTTTAAACAATCGCC
1 ATAATACTTTAGTGGCA-TTTCTAAACAAACGCC
3723252 GCAATAGTTC
Statistics
Matches: 118, Mismatches: 31, Indels: 16
0.72 0.19 0.10
Matches are distributed among these distances:
39 5 0.04
40 3 0.03
41 84 0.71
42 22 0.19
43 4 0.03
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.32
Consensus pattern (41 bp):
ATAATACTTTAGTGGCATTTCTAAACAAACGCCACTACAGA
Found at i:3725611 original size:77 final size:75
Alignment explanation
Indices: 3725510--3725664 Score: 292
Period size: 77 Copynumber: 2.0 Consensus size: 75
3725500 AATGTGATTT
3725510 TTTTTTTAATTTCTTATACTACTTTCTAGTTAATGATGTTGAAGTACATTAAATTTCACTTGAAT
1 TTTTTTTAATTTCTTATACTACTTTCTAGTTAATGATGTTGAAGTACATTAAATTTCACTTGAAT
3725575 GATTGTAAAC
66 GATTGTAAAC
3725585 TTTTTTTAATTTCTTATATACTACTTTCTAGTTAATGATGTTGAAGTACATTAAATTTCACTTGA
1 TTTTTTTAATTTC-T-TATACTACTTTCTAGTTAATGATGTTGAAGTACATTAAATTTCACTTGA
3725650 ATGATTGTAAAC
64 ATGATTGTAAAC
3725662 TTT
1 TTT
3725665 GATTTATTTA
Statistics
Matches: 78, Mismatches: 0, Indels: 2
0.98 0.00 0.03
Matches are distributed among these distances:
75 13 0.17
76 1 0.01
77 64 0.82
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.49
Consensus pattern (75 bp):
TTTTTTTAATTTCTTATACTACTTTCTAGTTAATGATGTTGAAGTACATTAAATTTCACTTGAAT
GATTGTAAAC
Found at i:3732993 original size:40 final size:40
Alignment explanation
Indices: 3732938--3733019 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
3732928 TGCAGGTTTA
3732938 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
3732978 TAATACACTTCGGTGTATATGGTGGGTACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
3733018 TA
1 TA
3733020 GCACTATGAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:3733218 original size:45 final size:45
Alignment explanation
Indices: 3733124--3733247 Score: 189
Period size: 45 Copynumber: 2.8 Consensus size: 45
3733114 GTAACCATGC
* *
3733124 AAATAAGCTTACGAGCTTATGGAAT-AATGGCAAGTGTATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
3733168 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* *
3733213 GAATAAGCTTACGAGCTTATAGGAA-AAATGATAAG
1 AAATAAGCTTACGAGCTTAT-GGAATAAATGGTAAG
3733248 AAATTTTATA
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
44 25 0.34
45 45 0.61
46 4 0.05
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.28
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
Found at i:3736588 original size:29 final size:30
Alignment explanation
Indices: 3736555--3736612 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
3736545 ATAAAAAAAG
*
3736555 TAAAGTCCAGGGACCTAAGTGT-AAGAATA
1 TAAAGTCCAGGGAACTAAGTGTAAAGAATA
* *
3736584 TAAAGTCTAGGGAATTAAGTGTAAAGAAT
1 TAAAGTCCAGGGAACTAAGTGTAAAGAAT
3736613 CTAATCTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.43, C:0.09, G:0.24, T:0.24
Consensus pattern (30 bp):
TAAAGTCCAGGGAACTAAGTGTAAAGAATA
Found at i:3738074 original size:21 final size:21
Alignment explanation
Indices: 3738049--3738131 Score: 96
Period size: 21 Copynumber: 4.0 Consensus size: 21
3738039 CGTTAGACAA
*
3738049 GGGGGAATCGGTACCCCCTGG
1 GGGGGAATCTGTACCCCCTGG
* *
3738070 GGGGGAAATCTGTTCCCCCTAG
1 GGGGG-AATCTGTACCCCCTGG
** *
3738092 GGGAAAATCTGTTCCCCCT-G
1 GGGGGAATCTGTACCCCCTGG
3738112 GGGGGAATCTGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
3738132 CACATTATGT
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
20 17 0.33
21 19 0.37
22 16 0.31
ACGTcount: A:0.17, C:0.29, G:0.34, T:0.20
Consensus pattern (21 bp):
GGGGGAATCTGTACCCCCTGG
Found at i:3739711 original size:118 final size:118
Alignment explanation
Indices: 3739424--3740128 Score: 794
Period size: 118 Copynumber: 6.0 Consensus size: 118
3739414 TCGGTGATGT
* * * * * *
3739424 TCCAACTCCTTATGTGATGGATTTGAGA-TAAGGTTGAACAAGTTCTTCCCTTTATGAACTTCTT
1 TCCACCTCCTTCTGTGATGGATTCGA-ACAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTT
* * * * * * *
3739488 CTCCCTCCTCGGATGAGTTCTTCTTATTATGAACTC-TCCACTGAAAATGTTGG
65 CTCCCTCGTCGGATGAGTTCTTCTCATTACGAACCCTTCCATTGGAAATGTTGA
* * * * *
3739541 TACACCTACTTCTGTTATGGAATT-GAACCAAGGTTGAACAAGTTATTCTCATTATGAACTTCTT
1 TCCACCTCCTTCTGTGATGG-ATTCGAACAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTT
* * * *
3739605 CTCCCTCGTTGGATGAGCTCTTCTCATTACAAACCCTTCTATTGGAAATGTTGA
65 CTCCCTCGTCGGATGAGTTCTTCTCATTACGAACCCTTCCATTGGAAATGTTGA
* ** * ** * * *
3739659 CCCACCTCCTTCTGTGATGGATTCGAACAAATATTGGACAAACTCTTCTCATTACGAACTTATTT
1 TCCACCTCCTTCTGTGATGGATTCGAACAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC
* * *
3739724 TCCCTCGTCAGATGAGTTCTTGTCATTACGAACCCTTCCATTGGAAATATT-A
66 TCCCTCGTCGGATGAGTTCTTCTCATTACGAACCCTTCCATTGGAAATGTTGA
* * * * *
3739776 GTTCACCTCATTTTGTGATGGATTCGAACACAGGTTGAACAAGTTCTTCACATTATGAA---CTT
1 -TCCACCTCCTTCTGTGATGGATTCGAACAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTT
* * * * * *
3739838 CTCCCTCTTCAGATGAGTTCTTCTCATTACGAATCCTTCAATAGGAAATATTGA
65 CTCCCTCGTCGGATGAGTTCTTCTCATTACGAACCCTTCCATTGGAAATGTTGA
* ** * * *
3739892 TCTATATCCTTCTGTGATGGATTCAAACAAAGGTTGAACAAGTTCTTCTTATTATGAACTTCTTA
1 TCCACCTCCTTCTGTGATGGATTCGAACAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC
* *
3739957 TCCCTCATCGGATGAGTTCTTGTCATTACGAACCCTTCCATTGGAAATGTTGA
66 TCCCTCGTCGGATGAGTTCTTCTCATTACGAACCCTTCCATTGGAAATGTTGA
* * * * * *
3740010 TCCACTTTCTTCTGTGATGGATTCAAACAAATGTTGAACAAGTTCTTCTTATTATAAACTTCTTC
1 TCCACCTCCTTCTGTGATGGATTCGAACAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC
*
3740075 TCCCTCGTCGGATGAGTTCTTCTCATTACAAACCCTTCCATTGGAAATGTTGA
66 TCCCTCGTCGGATGAGTTCTTCTCATTACGAACCCTTCCATTGGAAATGTTGA
3740128 T
1 T
3740129 TGGTTTATCC
Statistics
Matches: 491, Mismatches: 88, Indels: 17
0.82 0.15 0.03
Matches are distributed among these distances:
115 96 0.20
116 2 0.00
117 82 0.17
118 311 0.63
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (118 bp):
TCCACCTCCTTCTGTGATGGATTCGAACAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTC
TCCCTCGTCGGATGAGTTCTTCTCATTACGAACCCTTCCATTGGAAATGTTGA
Found at i:3739904 original size:233 final size:234
Alignment explanation
Indices: 3739570--3740128 Score: 703
Period size: 233 Copynumber: 2.4 Consensus size: 234
3739560 GAATTGAACC
* *
3739570 AAGGTTGAACAAGTTATTCTCATTATGAACTTCTTCTCCCTCGTT-GGATGAGCTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAA--TCTTCTCCCTC-TTCGGATGAGTTCTTCTCATTA
* * * * * *
3739634 CAAACCCTTCTATTGGAAATGTTGACCCACCTCCTTCTGTGATGGATTCGAACAAATATTGGACA
63 CAAACCCTTCAATTGGAAATGTTGATCCACATCCTTCTGTGATGGATTCAAACAAAGATTGAACA
* *
3739699 AACTCTTCTCATTACGAACTTATTTTCCCTCGTCAGATGAGTTCTTGTCATTACGAACCCTTCCA
128 AACTCTTCTCATTACGAACTTATTATCCCTCATCAGATGAGTTCTTGTCATTACGAACCCTTCCA
* * *
3739764 TTGGAAATATT-AGTTCAC-CTCATTTTGTGATGGATTCGAACA
193 TTGGAAATATTGA-TCCACTCTC-TTCTGTGATGGATTCAAACA
* * * *
3739806 CAGGTTGAACAAGTTCTTCACATTATGAA-CTTCTCCCTCTTCAGATGAGTTCTTCTCATTACGA
1 AAGGTTGAACAAGTTCTTCTCATTATGAATCTTCTCCCTCTTCGGATGAGTTCTTCTCATTACAA
* * * * * * **
3739870 ATCCTTCAATAGGAAATATTGATCTATATCCTTCTGTGATGGATTCAAACAAAGGTTGAACAAGT
66 ACCCTTCAATTGGAAATGTTGATCCACATCCTTCTGTGATGGATTCAAACAAAGATTGAACAAAC
* * * *
3739935 TCTTCTTATTATGAACTTCTTATCCCTCATCGGATGAGTTCTTGTCATTACGAACCCTTCCATTG
131 TCTTCTCATTACGAACTTATTATCCCTCATCAGATGAGTTCTTGTCATTACGAACCCTTCCATTG
* *
3740000 GAAATGTTGATCCACTTTCTTCTGTGATGGATTCAAACA
196 GAAATATTGATCCACTCTCTTCTGTGATGGATTCAAACA
* * * *
3740039 AATGTTGAACAAGTTCTTCTTATTATAAACTTCTTCTCCCTCGTCGGATGAGTTCTTCTCATTAC
1 AAGGTTGAACAAGTTCTTCTCATTATGAA--TCTTCTCCCTCTTCGGATGAGTTCTTCTCATTAC
*
3740104 AAACCCTTCCATTGGAAATGTTGAT
64 AAACCCTTCAATTGGAAATGTTGAT
3740129 TGGTTTATCC
Statistics
Matches: 274, Mismatches: 43, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
232 2 0.01
233 192 0.70
234 3 0.01
236 77 0.28
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.36
Consensus pattern (234 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAATCTTCTCCCTCTTCGGATGAGTTCTTCTCATTACAA
ACCCTTCAATTGGAAATGTTGATCCACATCCTTCTGTGATGGATTCAAACAAAGATTGAACAAAC
TCTTCTCATTACGAACTTATTATCCCTCATCAGATGAGTTCTTGTCATTACGAACCCTTCCATTG
GAAATATTGATCCACTCTCTTCTGTGATGGATTCAAACA
Found at i:3741452 original size:54 final size:54
Alignment explanation
Indices: 3741368--3741691 Score: 350
Period size: 54 Copynumber: 6.0 Consensus size: 54
3741358 TAGATTTTAT
* *
3741368 AGAAACCCTTGAAAATCAAGCTTAGCTTCTTTCAAAATTCATTTGAAGACATCA
1 AGAAACCCCTAAAAATCAAGCTTAGCTTCTTTCAAAATTCATTTGAAGACATCA
* * * * * **
3741422 AGAAACCCCTGAAAATCAGGC-TCGAATTCTTT-AAAAGTTCATTTGAAAATGTCA
1 AGAAACCCCTAAAAATCAAGCTTAG-CTTCTTTCAAAA-TTCATTTGAAGACATCA
*
3741476 AGAAACCCCTAAAAATCAAGCTTATCTTCTTTCAAAATTCATTTGAAGACATCA
1 AGAAACCCCTAAAAATCAAGCTTAGCTTCTTTCAAAATTCATTTGAAGACATCA
* * * * * * * * *
3741530 AGAAATCCTTGAAAATTAGGCTCAGCTTCTTT-AAAAGTTCATTTGAAAATATTA
1 AGAAACCCCTAAAAATCAAGCTTAGCTTCTTTCAAAA-TTCATTTGAAGACATCA
* * *
3741584 AGAAACCCCTAAAAATCATGCTTAGTTTCTTTCAAAATTCATTTCAAGACATCA
1 AGAAACCCCTAAAAATCAAGCTTAGCTTCTTTCAAAATTCATTTGAAGACATCA
* * * *
3741638 AGAAACCCCTAAAAATTAAACTTAG-TTCATTTAAAAATTCATTTGAAAACATCA
1 AGAAACCCCTAAAAATCAAGCTTAGCTTC-TTTCAAAATTCATTTGAAGACATCA
3741692 TATTGTTTGG
Statistics
Matches: 221, Mismatches: 42, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
53 13 0.06
54 199 0.90
55 9 0.04
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31
Consensus pattern (54 bp):
AGAAACCCCTAAAAATCAAGCTTAGCTTCTTTCAAAATTCATTTGAAGACATCA
Found at i:3741560 original size:108 final size:107
Alignment explanation
Indices: 3741368--3741691 Score: 452
Period size: 108 Copynumber: 3.0 Consensus size: 107
3741358 TAGATTTTAT
* * *
3741368 AGAAACCCTTGAAAATCAAGCTTAGCTTCTTTCAAAATTCATTTGAAGACATCAAGAAACCCCTG
1 AGAAACCCCTAAAAATCAAGCTTATCTTCTTTCAAAATTCATTTGAAGACATCAAGAAACCCCTG
* * *
3741433 AAAATCAGGCTCGAATTCTTTAAAAGTTCATTTGAAAATGTCA
66 AAAATTAGGCTC-AGTTCTTTAAAAGTTCATTTGAAAATATCA
* *
3741476 AGAAACCCCTAAAAATCAAGCTTATCTTCTTTCAAAATTCATTTGAAGACATCAAGAAATCCTTG
1 AGAAACCCCTAAAAATCAAGCTTATCTTCTTTCAAAATTCATTTGAAGACATCAAGAAACCCCTG
*
3741541 AAAATTAGGCTCAGCTTCTTTAAAAGTTCATTTGAAAATATTA
66 AAAATTAGGCTCAG-TTCTTTAAAAGTTCATTTGAAAATATCA
* *
3741584 AGAAACCCCTAAAAATCATGCTTAGT-TTCTTTCAAAATTCATTTCAAGACATCAAGAAACCCCT
1 AGAAACCCCTAAAAATCAAGCTTA-TCTTCTTTCAAAATTCATTTGAAGACATCAAGAAACCCCT
* ** * * *
3741648 AAAAATTAAACTTAGTTCATTTAAAAATTCATTTGAAAACATCA
65 GAAAATTAGGCTCAGTTC-TTTAAAAGTTCATTTGAAAATATCA
3741692 TATTGTTTGG
Statistics
Matches: 193, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
107 4 0.02
108 188 0.97
109 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31
Consensus pattern (107 bp):
AGAAACCCCTAAAAATCAAGCTTATCTTCTTTCAAAATTCATTTGAAGACATCAAGAAACCCCTG
AAAATTAGGCTCAGTTCTTTAAAAGTTCATTTGAAAATATCA
Found at i:3741641 original size:162 final size:162
Alignment explanation
Indices: 3741368--3741691 Score: 404
Period size: 162 Copynumber: 2.0 Consensus size: 162
3741358 TAGATTTTAT
* * *
3741368 AGAAACCCTTGAAAATCAAGCTTAGCTTCTTTCAAAATTCATTTGAAGACATCAAGAAACCCCTG
1 AGAAACCCTTGAAAATCAAGCTCAGCTTCTTTCAAAATTCATTTGAAAACATCAAGAAACCCCTA
* * ** *
3741433 AAAATCAGGCTCGAATTCTTTAAAAGTTCATTTGAAAATGTCAAGAAACCCCTAAAAATCAAGCT
66 AAAATCAGGCTAGAATTCTTTAAAAGTTCATTTCAAAACATCAAGAAACCCCTAAAAATCAAACT
* *
3741498 TATCTTC-TTTCAAAATTCATTTGAAGACATCA
131 TA-CTTCATTTAAAAATTCATTTGAAAACATCA
* * * * *
3741530 AGAAATCCTTGAAAATTAGGCTCAGCTTCTTT-AAAAGTTCATTTGAAAATATTAAGAAACCCCT
1 AGAAACCCTTGAAAATCAAGCTCAGCTTCTTTCAAAA-TTCATTTGAAAACATCAAGAAACCCCT
* * * *
3741594 AAAAATCATGCTTAG-TTTCTTTCAAAA-TTCATTTCAAGACATCAAGAAACCCCTAAAAATTAA
65 AAAAATCAGGC-TAGAATTCTTT-AAAAGTTCATTTCAAAACATCAAGAAACCCCTAAAAATCAA
*
3741657 ACTTAGTTCATTTAAAAATTCATTTGAAAACATCA
128 ACTTACTTCATTTAAAAATTCATTTGAAAACATCA
3741692 TATTGTTTGG
Statistics
Matches: 138, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
161 7 0.05
162 125 0.91
163 6 0.04
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31
Consensus pattern (162 bp):
AGAAACCCTTGAAAATCAAGCTCAGCTTCTTTCAAAATTCATTTGAAAACATCAAGAAACCCCTA
AAAATCAGGCTAGAATTCTTTAAAAGTTCATTTCAAAACATCAAGAAACCCCTAAAAATCAAACT
TACTTCATTTAAAAATTCATTTGAAAACATCA
Found at i:3742990 original size:28 final size:28
Alignment explanation
Indices: 3742956--3743011 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
3742946 GTTGATTTTT
3742956 GGAGGTAGA-GTGTTTCAAGTTAATTTGG
1 GGAGGTA-ATGTGTTTCAAGTTAATTTGG
3742984 GGAGGTAATGTGTTTCAAGTTAATTTGG
1 GGAGGTAATGTGTTTCAAGTTAATTTGG
3743012 TTAAGGTCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 1 0.04
28 26 0.96
ACGTcount: A:0.25, C:0.04, G:0.34, T:0.38
Consensus pattern (28 bp):
GGAGGTAATGTGTTTCAAGTTAATTTGG
Found at i:3743802 original size:13 final size:13
Alignment explanation
Indices: 3743761--3743802 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
3743751 TCCTTTTTTG
3743761 CTTTCTTTTCTCT
1 CTTTCTTTTCTCT
* * *
3743774 CTCTCTCTTCTTT
1 CTTTCTTTTCTCT
3743787 CTTTCTTTTCTCT
1 CTTTCTTTTCTCT
3743800 CTT
1 CTT
3743803 ATTTATTTAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (13 bp):
CTTTCTTTTCTCT
Found at i:3747658 original size:17 final size:17
Alignment explanation
Indices: 3747638--3747671 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
3747628 AATGTTGATT
*
3747638 GTTGACATGTGTTGACC
1 GTTGACAGGTGTTGACC
*
3747655 GTTGACCGGTGTTGACC
1 GTTGACAGGTGTTGACC
3747672 ACAGTTGACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.21, G:0.32, T:0.32
Consensus pattern (17 bp):
GTTGACAGGTGTTGACC
Found at i:3750140 original size:24 final size:24
Alignment explanation
Indices: 3750113--3750212 Score: 141
Period size: 24 Copynumber: 4.2 Consensus size: 24
3750103 ATTTGATTTA
3750113 TGATCTGATACTTGACATGGATTC
1 TGATCTGATACTTGACATGGATTC
3750137 TGATAC-GATA-TCTGACATGGATTC
1 TGAT-CTGATACT-TGACATGGATTC
*
3750161 TGATCTGATACTTGACTTGGATTC
1 TGATCTGATACTTGACATGGATTC
* *
3750185 TGATCTGATACTTGACCTGGATTT
1 TGATCTGATACTTGACATGGATTC
3750209 TGAT
1 TGAT
3750213 ATAATTTTTG
Statistics
Matches: 69, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
23 2 0.03
24 65 0.94
25 2 0.03
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (24 bp):
TGATCTGATACTTGACATGGATTC
Found at i:3751164 original size:16 final size:16
Alignment explanation
Indices: 3751145--3751197 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
3751135 CCATAACCCC
3751145 TATCACACATATATCA
1 TATCACACATATATCA
** *
3751161 TATCATGCATACATCA
1 TATCACACATATATCA
3751177 TATCACACATCATATACA
1 TATCACACAT-ATAT-CA
3751195 TAT
1 TAT
3751198 ATCACATACA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
16 21 0.72
17 3 0.10
18 5 0.17
ACGTcount: A:0.42, C:0.25, G:0.02, T:0.32
Consensus pattern (16 bp):
TATCACACATATATCA
Found at i:3751206 original size:34 final size:32
Alignment explanation
Indices: 3751145--3751208 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 32
3751135 CCATAACCCC
*
3751145 TATCACACATATATCATATCATGCATACATCA
1 TATCACACATATATCATATCATACATACATCA
3751177 TATCACACATCATATACATAT-ATCACATACAT
1 TATCACACAT-ATAT-CATATCAT-ACATACAT
3751209 TGTTCTCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 10 0.36
33 6 0.21
34 12 0.43
ACGTcount: A:0.42, C:0.25, G:0.02, T:0.31
Consensus pattern (32 bp):
TATCACACATATATCATATCATACATACATCA
Found at i:3751553 original size:23 final size:23
Alignment explanation
Indices: 3751527--3751595 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
3751517 CACCACAGCT
*
3751527 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
* *
3751550 CGTAGAATTGCACCGGAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
3751573 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
3751596 TATAATAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:3751790 original size:103 final size:103
Alignment explanation
Indices: 3751611--3751823 Score: 365
Period size: 103 Copynumber: 2.1 Consensus size: 103
3751601 TAATGTCCAT
* *
3751611 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAAGGATCAAGTACGTGTCTCACCA
3751676 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
* *
3751714 AAGGACTACATATCATTCCTTAAGAATCATATACATAT-GTCAAGGATCAAGTACGTGTCTCACC
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACT-AAGGATCAAGTACGTGTCTCACC
*
3751778 AGACTTCACACATGTTCCAAAGAATACATATATGTCCCG
65 AGACTTCACACATGTTCCAAAGAATACATATATATCCCG
3751817 AAGGACC
1 AAGGACC
3751824 GCGTAGACCC
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
102 1 0.01
103 102 0.99
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAAGGATCAAGTACGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATATCCCG
Found at i:3752662 original size:20 final size:20
Alignment explanation
Indices: 3752639--3752684 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
3752629 CTCTTTATAA
*
3752639 ACATCTATTTCTATTTCCCT
1 ACATCTATTTCTATGTCCCT
3752659 ACATCTATTTCTATGTCCCT
1 ACATCTATTTCTATGTCCCT
3752679 ACATCT
1 ACATCT
3752685 CTCGACTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.22, C:0.30, G:0.02, T:0.46
Consensus pattern (20 bp):
ACATCTATTTCTATGTCCCT
Found at i:3756749 original size:23 final size:23
Alignment explanation
Indices: 3756723--3756786 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
3756713 CAGCTCGTAT
3756723 AATTGCACCGAAGTGCCACATAG
1 AATTGCACCGAAGTGCCACATAG
* *
3756746 AATTGCACCGGAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACATAG
* *
3756769 AATTACACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
3756787 TATAATAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.31, C:0.27, G:0.23, T:0.19
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACATAG
Found at i:3756976 original size:103 final size:103
Alignment explanation
Indices: 3756802--3757014 Score: 381
Period size: 103 Copynumber: 2.1 Consensus size: 103
3756792 TAATGTCCAT
* * *
3756802 AAGGACAACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
3756867 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
3756905 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
3756970 GGCTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
3757008 AAGGACC
1 AAGGACC
3757015 GCGTAGACCC
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:3757854 original size:20 final size:20
Alignment explanation
Indices: 3757831--3757876 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
3757821 TTCTTTATAA
* *
3757831 ACATCTATTTTTATTTCCCT
1 ACATCTATTTCTATGTCCCT
3757851 ACATCTATTTCTATGTCCCT
1 ACATCTATTTCTATGTCCCT
3757871 ACATCT
1 ACATCT
3757877 CTCGACTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.22, C:0.28, G:0.02, T:0.48
Consensus pattern (20 bp):
ACATCTATTTCTATGTCCCT
Found at i:3760222 original size:28 final size:28
Alignment explanation
Indices: 3760190--3760249 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
3760180 TAAAATAAAA
*
3760190 AAAAACTA-AAGTCTAGGGACCTAAGTGT
1 AAAAA-TAGAAGTCTAGGAACCTAAGTGT
**
3760218 AAAAATATGAAGTCTAGGAAGTTAAGTGT
1 AAAAATA-GAAGTCTAGGAACCTAAGTGT
3760247 AAA
1 AAA
3760250 GAATCTAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 2 0.07
28 5 0.19
29 20 0.74
ACGTcount: A:0.47, C:0.08, G:0.22, T:0.23
Consensus pattern (28 bp):
AAAAATAGAAGTCTAGGAACCTAAGTGT
Found at i:3760431 original size:16 final size:17
Alignment explanation
Indices: 3760406--3760438 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3760396 AAATCATAAT
3760406 TAATTAACT-AATTAAA
1 TAATTAACTAAATTAAA
*
3760422 TAATTGACTAAATTAAA
1 TAATTAACTAAATTAAA
3760439 ACAATGTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (17 bp):
TAATTAACTAAATTAAA
Found at i:3763850 original size:6 final size:6
Alignment explanation
Indices: 3763841--3763876 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
3763831 TAAATAAAAC
*
3763841 AAATAT AAATGT AAATAT AAATAT AAATATT AAATA
1 AAATAT AAATAT AAATAT AAATAT AAATA-T AAATA
3763877 ATGTTAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (6 bp):
AAATAT
Found at i:3766933 original size:24 final size:25
Alignment explanation
Indices: 3766895--3766941 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
3766885 CGAACTCAAA
3766895 AAAATTAGAAGCTCGATTGAAGCCT
1 AAAATTAGAAGCTCGATTGAAGCCT
*
3766920 AAAATTCG-AGCTCGATTGAAGC
1 AAAATTAGAAGCTCGATTGAAGC
3766942 GAAAGAATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.23
Consensus pattern (25 bp):
AAAATTAGAAGCTCGATTGAAGCCT
Found at i:3769468 original size:20 final size:20
Alignment explanation
Indices: 3769443--3769560 Score: 146
Period size: 20 Copynumber: 5.9 Consensus size: 20
3769433 GTGATTTTCC
* * * *
3769443 GACTATCGTAATGCGAGTAT
1 GACTATCGCAACGCGATTCT
3769463 GACTATCGCAACGCGATTCT
1 GACTATCGCAACGCGATTCT
* *
3769483 GACTATCGTAACGAGATTCT
1 GACTATCGCAACGCGATTCT
3769503 GACTATCGCAACGCGATTCT
1 GACTATCGCAACGCGATTCT
* * *
3769523 GACTGTCGTAACGCGATGCT
1 GACTATCGCAACGCGATTCT
*
3769543 GACTATCGCAATGCGATT
1 GACTATCGCAACGCGATT
3769561 TTCAAAGCGC
Statistics
Matches: 83, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 83 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (20 bp):
GACTATCGCAACGCGATTCT
Found at i:3769493 original size:40 final size:39
Alignment explanation
Indices: 3769443--3769560 Score: 164
Period size: 40 Copynumber: 2.9 Consensus size: 39
3769433 GTGATTTTCC
* *
3769443 GACTATCGTAATGCGAGTATGACTATCGCAACGCGATTCT
1 GACTATCGTAACGCGA-TCTGACTATCGCAACGCGATTCT
*
3769483 GACTATCGTAACGAGATTCTGACTATCGCAACGCGATTCT
1 GACTATCGTAACGCGA-TCTGACTATCGCAACGCGATTCT
* *
3769523 GACTGTCGTAACGCGATGCTGACTATCGCAATGCGATT
1 GACTATCGTAACGCGAT-CTGACTATCGCAACGCGATT
3769561 TTCAAAGCGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
39 1 0.01
40 69 0.99
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (39 bp):
GACTATCGTAACGCGATCTGACTATCGCAACGCGATTCT
Found at i:3769760 original size:22 final size:22
Alignment explanation
Indices: 3769735--3769777 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
3769725 GGCGACATCC
*
3769735 GTCCCTATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
* *
3769757 GTCCCCATCTCTGGCGAAATC
1 GTCCCCATCTCCGACGAAATC
3769778 CGTCTATCTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.37, G:0.16, T:0.23
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:3770237 original size:20 final size:20
Alignment explanation
Indices: 3770163--3770230 Score: 102
Period size: 20 Copynumber: 3.5 Consensus size: 20
3770153 ATAATCGCAA
*
3770163 TGCGATTTTCA-TTTCGCGT
1 TGCGATTTTCATTTTCGTGT
**
3770182 TGCGATAGTCATTTTCGTGT
1 TGCGATTTTCATTTTCGTGT
3770202 TGCGATTTTCATTTTCGTGT
1 TGCGATTTTCATTTTCGTGT
3770222 TGCGATTTT
1 TGCGATTTT
3770231 AAGTTTCATA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 9 0.21
20 34 0.79
ACGTcount: A:0.12, C:0.16, G:0.22, T:0.50
Consensus pattern (20 bp):
TGCGATTTTCATTTTCGTGT
Found at i:3770901 original size:20 final size:20
Alignment explanation
Indices: 3770876--3770928 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
3770866 ATGGTTTCAT
3770876 TTCGCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCAAA
**
3770896 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCAAA
*
3770916 TTCGTGTTGCGAT
1 TTCGCGTTGCGAT
3770929 TTTCATTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCAAA
Found at i:3770934 original size:20 final size:20
Alignment explanation
Indices: 3770896--3770951 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
3770886 GATAGTCAAA
* **
3770896 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
3770916 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
3770936 TTCGTGTTGCGATTTT
1 TTCGTGTTGCGATTTT
3770952 AAGTTTCATA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.11, C:0.16, G:0.23, T:0.50
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:3770958 original size:20 final size:20
Alignment explanation
Indices: 3770915--3770958 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
3770905 CGATAGTCAT
* *
3770915 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTTAAG
3770935 TTTCGTGTTGCGATTTTAAG
1 TTTCGTGTTGCGATTTTAAG
3770955 TTTC
1 TTTC
3770959 ATAAACTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.14, G:0.20, T:0.55
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTTAAG
Found at i:3771146 original size:25 final size:26
Alignment explanation
Indices: 3771092--3771146 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
3771082 TTATGTTTAT
* *
3771092 TGTTCTTGGTATATCTTCACATTGTA
1 TGTTTTTGGTATATCTTAACATTGTA
3771118 -GTTTTTGGTATATC-TAAC-TTGGTA
1 TGTTTTTGGTATATCTTAACATT-GTA
3771142 TGTTT
1 TGTTT
3771147 ATTGTTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 2 0.08
24 6 0.24
25 17 0.68
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.53
Consensus pattern (26 bp):
TGTTTTTGGTATATCTTAACATTGTA
Found at i:3771557 original size:721 final size:721
Alignment explanation
Indices: 3770175--3771593 Score: 2714
Period size: 721 Copynumber: 2.0 Consensus size: 721
3770165 CGATTTTCAT
3770175 TTCGCGTTGCGATAGTCATTTTCGTGTTGCGATTTTCATTTTCGTGTTGCGATTTTAAGTTTCAT
1 TTCGCGTTGCGATAGTCATTTTCGTGTTGCGATTTTCATTTTCGTGTTGCGATTTTAAGTTTCAT
*
3770240 AAACTATTCTTCTTCTGCAAATTGAAACTTGAATGAATTGCATTACTTCAACAAAAAAACAAAGA
66 AAACTATTCTTCTTATGCAAATTGAAACTTGAATGAATTGCATTACTTCAACAAAAAAACAAAGA
3770305 CAAATACTAAATTCACAGTGTTGCAAATTTAAGTTTGAAGAATAAACTACTACTCTTTATGTTTA
131 CAAATACTAAATTCACAGTGTTGCAAATTTAAGTTTGAAGAATAAACTACTACTCTTTATGTTTA
3770370 TTGTTCTTGGTATATCTTCACAATGTAGTTTTTGGTATATCTAACTTGGTATGTTTATTATTTTT
196 TTGTTCTTGGTATATCTTCACAATGTAGTTTTTGGTATATCTAACTTGGTATGTTTATTATTTTT
3770435 GTAGAACTTTTATTCGGCTCAATTGACCTTAAGAAATAAATTAAGCCTGGTCAAAACAATTGCGT
261 GTAGAACTTTTATTCGGCTCAATTGACCTTAAGAAATAAATTAAGCCTGGTCAAAACAATTGCGT
*
3770500 CGAAGCTTTCACCTGCTCAAAGAAAAATATTTGAGGATACTTGCTTCGGGCATTGGCTGAAAGTA
326 CGAAGCTTTCACCTGCACAAAGAAAAATATTTGAGGATACTTGCTTCGGGCATTGGCTGAAAGTA
* *
3770565 CAACATCCGGGTGGAGATGCTATGTTGACCCATATGTTTCTTCAAACCTTGACTAGCGATCTACC
391 CAACATCCGGGTGGAGATGCTATGTTAACCCATATGTTTCTTCAAACCATGACTAGCGATCTACC
*
3770630 AGAGACTATACAACGTCGTGATGAAGAGATATGGTTTGATTTTCCACCGGCGTATACGTGTTTTG
456 AGAGACCATACAACGTCGTGATGAAGAGATATGGTTTGATTTTCCACCGGCGTATACGTGTTTTG
*
3770695 GGCGGGAGGAGTTTTGCTTAATCACCGGTCTACGCTTCGGACACGATGATGTAGGTCGGTACACT
521 GGCAGGAGGAGTTTTGCTTAATCACCGGTCTACGCTTCGGACACGATGATGTAGGTCGGTACACT
3770760 AGACATATTACCCGCCTATCATGGTTATCCCGGGTTTTTCCTGAGATGTCAATGGAGAAGCCGAA
586 AGACATATTACCCGCCTATCATGGTTATCCCGGGTTTTTCCTGAGATGTCAATGGAGAAGCCGAA
*
3770825 TTTACACGTGGAATACTTGACGAGATTATTGAATAAGAAAGATGGTTTCATTTCGCGTTGCGATA
651 TTTACACGTGGAAGACTTGACGAGATTATTGAATAAGAAAGATGGTTTCATTTCGCGTTGCGATA
3770890 GTCAAA
716 GTCAAA
3770896 TTCGCGTTGCGATAGTCATTTTCGTGTTGCGATTTTCATTTTCGTGTTGCGATTTTAAGTTTCAT
1 TTCGCGTTGCGATAGTCATTTTCGTGTTGCGATTTTCATTTTCGTGTTGCGATTTTAAGTTTCAT
3770961 AAACTATTCTTCTTATGCAAATTGAAACTTGAATGAATTGCATTACTTCAACAAAAAAACAAAGA
66 AAACTATTCTTCTTATGCAAATTGAAACTTGAATGAATTGCATTACTTCAACAAAAAAACAAAGA
3771026 CAAATACTAAATTCACAGTGTTGCAAATTTAAGTTTGAAGAATAAACTACTACTCTTTATGTTTA
131 CAAATACTAAATTCACAGTGTTGCAAATTTAAGTTTGAAGAATAAACTACTACTCTTTATGTTTA
* *
3771091 TTGTTCTTGGTATATCTTCACATTGTAGTTTTTGGTATATCTAACTTGGTATGTTTATTGTTTTT
196 TTGTTCTTGGTATATCTTCACAATGTAGTTTTTGGTATATCTAACTTGGTATGTTTATTATTTTT
*
3771156 GTAGAACTTTTATTCGGCTCAATTGACCTTAAGAAATAAATTAAGCCTGGTCAAAATAATTGCGT
261 GTAGAACTTTTATTCGGCTCAATTGACCTTAAGAAATAAATTAAGCCTGGTCAAAACAATTGCGT
3771221 CGAAGCTTTCACCTGCACAAAGAAAAATATTTGAGGATACTTGCTTCGGGCCA-TGGCTGAAAGT
326 CGAAGCTTTCACCTGCACAAAGAAAAATATTTGAGGATACTTGCTTCGGG-CATTGGCTGAAAGT
3771285 ACAACATCCGGGTGGAGATGCTATGTTAACCCATATGTTTCTTCAAACCATGACTAGCGATCTAC
390 ACAACATCCGGGTGGAGATGCTATGTTAACCCATATGTTTCTTCAAACCATGACTAGCGATCTAC
3771350 CAGAGACCATACAACGTCGTGATGAAGAGATATGGTTTGATTTTCCACCGGCGTATACGTGTTTT
455 CAGAGACCATACAACGTCGTGATGAAGAGATATGGTTTGATTTTCCACCGGCGTATACGTGTTTT
3771415 GGGCAGGAGGAGTTTTGCTTAATCACCGGTCTACGCTTCGGACACGATGATGTAGGTCGGTACAC
520 GGGCAGGAGGAGTTTTGCTTAATCACCGGTCTACGCTTCGGACACGATGATGTAGGTCGGTACAC
* *
3771480 TAGACATATTACCCGCCTATCATGGTTATCTCGGGTTTTTCCTGAGCTGTCAATGGAGAAGCCGA
585 TAGACATATTACCCGCCTATCATGGTTATCCCGGGTTTTTCCTGAGATGTCAATGGAGAAGCCGA
3771545 ATTTACACGTGGAAGACTTGACGAGATTATTGAATAAGAAAGATGGTTT
650 ATTTACACGTGGAAGACTTGACGAGATTATTGAATAAGAAAGATGGTTT
3771594 TACTCGGATG
Statistics
Matches: 685, Mismatches: 12, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
721 683 1.00
722 2 0.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (721 bp):
TTCGCGTTGCGATAGTCATTTTCGTGTTGCGATTTTCATTTTCGTGTTGCGATTTTAAGTTTCAT
AAACTATTCTTCTTATGCAAATTGAAACTTGAATGAATTGCATTACTTCAACAAAAAAACAAAGA
CAAATACTAAATTCACAGTGTTGCAAATTTAAGTTTGAAGAATAAACTACTACTCTTTATGTTTA
TTGTTCTTGGTATATCTTCACAATGTAGTTTTTGGTATATCTAACTTGGTATGTTTATTATTTTT
GTAGAACTTTTATTCGGCTCAATTGACCTTAAGAAATAAATTAAGCCTGGTCAAAACAATTGCGT
CGAAGCTTTCACCTGCACAAAGAAAAATATTTGAGGATACTTGCTTCGGGCATTGGCTGAAAGTA
CAACATCCGGGTGGAGATGCTATGTTAACCCATATGTTTCTTCAAACCATGACTAGCGATCTACC
AGAGACCATACAACGTCGTGATGAAGAGATATGGTTTGATTTTCCACCGGCGTATACGTGTTTTG
GGCAGGAGGAGTTTTGCTTAATCACCGGTCTACGCTTCGGACACGATGATGTAGGTCGGTACACT
AGACATATTACCCGCCTATCATGGTTATCCCGGGTTTTTCCTGAGATGTCAATGGAGAAGCCGAA
TTTACACGTGGAAGACTTGACGAGATTATTGAATAAGAAAGATGGTTTCATTTCGCGTTGCGATA
GTCAAA
Found at i:3772885 original size:20 final size:20
Alignment explanation
Indices: 3772860--3772947 Score: 140
Period size: 20 Copynumber: 4.4 Consensus size: 20
3772850 TAGTTTACTT
3772860 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
3772880 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
*
3772900 TCGTAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
** *
3772920 TCGCAACGCGAATTTAACTA
1 TCGCAACGCGAAAATGACTA
3772940 TCGCAACG
1 TCGCAACG
3772948 AAAGAATCGC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:3773016 original size:20 final size:19
Alignment explanation
Indices: 3772991--3773056 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 19
3772981 CGATTCTCTT
3772991 GTTGCGATAGTCAAATTCGC
1 GTTGCGATAGTC-AATTCGC
* * *
3773011 GTTGCGATAGTTATTTTTGC
1 GTTGCGATAGTCA-ATTCGC
*
3773031 GTTGCGATAGTC-ATTCGT
1 GTTGCGATAGTCAATTCGC
3773049 GTTGCGAT
1 GTTGCGAT
3773057 TTTAAGTTTC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
18 11 0.29
19 1 0.03
20 26 0.68
ACGTcount: A:0.18, C:0.15, G:0.27, T:0.39
Consensus pattern (19 bp):
GTTGCGATAGTCAATTCGC
Found at i:3773637 original size:21 final size:20
Alignment explanation
Indices: 3773546--3773651 Score: 70
Period size: 21 Copynumber: 5.0 Consensus size: 20
3773536 GACTCACCTG
3773546 TCATCGTTCAAGAGG-CCTCC
1 TCATCGTTCAAGAGGCCCT-C
* *
3773566 CCTATCGTTCAAGAGGCGCCTA
1 TC-ATCGTTCAAGAGGC-CCTC
** *
3773588 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAG-GCCCTC
* * *
3773609 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCC-CTC
*
3773630 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGG-CCCTC
3773651 T
1 T
3773652 TAACATTCTA
Statistics
Matches: 63, Mismatches: 17, Indels: 11
0.69 0.19 0.12
Matches are distributed among these distances:
20 3 0.05
21 53 0.84
22 4 0.06
23 3 0.05
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.24
Consensus pattern (20 bp):
TCATCGTTCAAGAGGCCCTC
Found at i:3773650 original size:42 final size:43
Alignment explanation
Indices: 3773542--3773650 Score: 111
Period size: 42 Copynumber: 2.6 Consensus size: 43
3773532 GCCCGACTCA
*
3773542 CCTGTCATCGTTCAAGAGG--CCTCCCCTATCGTTCAAGAGGCG
1 CCTGTCATCGTTCAAGAGGTCCCT-CCCTACCGTTCAAGAGGCG
* **
3773584 CCTATCATCCCTCAAGA-GTCCCCTCCC-ACCGTTCAAGAGGC-
1 CCTGTCATCGTTCAAGAGGT-CCCTCCCTACCGTTCAAGAGGCG
*
3773625 CACTGTCATCGTTGAAGAGGTCCCTC
1 C-CTGTCATCGTTCAAGAGGTCCCTC
3773651 TTAACATTCT
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
41 2 0.04
42 44 0.81
43 5 0.09
44 3 0.06
ACGTcount: A:0.20, C:0.37, G:0.20, T:0.23
Consensus pattern (43 bp):
CCTGTCATCGTTCAAGAGGTCCCTCCCTACCGTTCAAGAGGCG
Found at i:3775094 original size:14 final size:14
Alignment explanation
Indices: 3775057--3775095 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
3775047 TTCCTTGTTT
*
3775057 AATTGATTTATAAA
1 AATTGATTTGTAAA
3775071 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
3775085 AGTTGATTTGT
1 AATTGATTTGT
3775096 TTAATATTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:3775117 original size:14 final size:14
Alignment explanation
Indices: 3775058--3775117 Score: 59
Period size: 14 Copynumber: 4.2 Consensus size: 14
3775048 TCCTTGTTTA
* *
3775058 ATTGATTTATAAAA
1 ATTGATTTGTAAAT
3775072 ATTGATTTGTAAA-
1 ATTGATTTGTAAAT
*
3775085 AGTTGATTTGTTTAAT
1 A-TTGATTTG-TAAAT
*
3775101 ATTGATGTGTAAAT
1 ATTGATTTGTAAAT
3775115 ATT
1 ATT
3775118 TCTTATTTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
13 1 0.03
14 27 0.69
15 10 0.26
16 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (14 bp):
ATTGATTTGTAAAT
Found at i:3775245 original size:20 final size:20
Alignment explanation
Indices: 3775220--3775269 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
3775210 TACACTTTCA
* *
3775220 CAATGCTAAACTCAAAATCG
1 CAATGCGAAACACAAAATCG
*
3775240 CAATGCGAAAGACAAAATCG
1 CAATGCGAAACACAAAATCG
*
3775260 CAACGCGAAA
1 CAATGCGAAA
3775270 GTCAATTCAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.48, C:0.24, G:0.16, T:0.12
Consensus pattern (20 bp):
CAATGCGAAACACAAAATCG
Found at i:3775270 original size:20 final size:20
Alignment explanation
Indices: 3775232--3775270 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
3775222 ATGCTAAACT
*
3775232 CAAAATCGCAATGCGAAAGA
1 CAAAATCGCAACGCGAAAGA
3775252 CAAAATCGCAACGCGAAAG
1 CAAAATCGCAACGCGAAAG
3775271 TCAATTCACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.23, G:0.21, T:0.08
Consensus pattern (20 bp):
CAAAATCGCAACGCGAAAGA
Found at i:3775338 original size:20 final size:20
Alignment explanation
Indices: 3775313--3775577 Score: 259
Period size: 20 Copynumber: 13.8 Consensus size: 20
3775303 GCGATTTTCT
* *
3775313 CGTTGCGATAGTCAAATACC
1 CGTTGCGATAGTCAAATTCG
*
3775333 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
* * *
3775353 TGTTGTGATACTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
3775373 CGATGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
3775393 CGTTGCGAT--T----TTCT
1 CGTTGCGATAGTCAAATTCG
*
3775407 CGTTGCGATAGTCAAA-TAG
1 CGTTGCGATAGTCAAATTCG
*
3775426 CCGTTGCGATAGTCAAATTCC
1 -CGTTGCGATAGTCAAATTCG
*
3775447 CGTTGCGATAGACAAATTCG
1 CGTTGCGATAGTCAAATTCG
* *
3775467 CGTTGCGATAGTCATATTCA
1 CGTTGCGATAGTCAAATTCG
*
3775487 TGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
3775507 CGTTGCGAT--T----TTTG
1 CGTTGCGATAGTCAAATTCG
* *
3775521 AGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
3775541 TGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
3775561 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
3775578 GAATGTGTAA
Statistics
Matches: 199, Mismatches: 32, Indels: 28
0.77 0.12 0.11
Matches are distributed among these distances:
14 23 0.12
16 2 0.01
18 2 0.01
19 1 0.01
20 170 0.85
21 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:3775407 original size:94 final size:94
Alignment explanation
Indices: 3775284--3775495 Score: 298
Period size: 94 Copynumber: 2.3 Consensus size: 94
3775274 ATTCACGTTA
* * *
3775284 CGATAGTCTAATACACTTTGCGATTTTCTCGTTGCGATAGTCAAATACCCGTTGCGATAATCAAA
1 CGATAGTCAAATTCACGTTGCGATTTTCTCGTTGCGATAGTCAAATACCCGTTGCGATAATCAAA
** * *
3775349 TTCGTGTTGTGATACTCAAATTCGCGATG
66 TTCCCGTTGCGATACACAAATTCGCGATG
* * *
3775378 CGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAAATAGCCGTTGCGATAGTCAAA
1 CGATAGTCAAATTCACGTTGCGATTTTCTCGTTGCGATAGTCAAATACCCGTTGCGATAATCAAA
* *
3775443 TTCCCGTTGCGATAGACAAATTCGCGTTG
66 TTCCCGTTGCGATACACAAATTCGCGATG
* *
3775472 CGATAGTCATATTCATGTTGCGAT
1 CGATAGTCAAATTCACGTTGCGAT
3775496 AGTCAAATTC
Statistics
Matches: 103, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
94 103 1.00
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.33
Consensus pattern (94 bp):
CGATAGTCAAATTCACGTTGCGATTTTCTCGTTGCGATAGTCAAATACCCGTTGCGATAATCAAA
TTCCCGTTGCGATACACAAATTCGCGATG
Found at i:3775412 original size:74 final size:74
Alignment explanation
Indices: 3775333--3775475 Score: 198
Period size: 74 Copynumber: 1.9 Consensus size: 74
3775323 GTCAAATACC
* * * * *
3775333 CGTTGCGATAATCAAAT-TCGTGTTGTGATACTCAAATTCGCGATGCGATAGTCAAATTCGCGTT
1 CGTTGCGATAATCAAATAGC-CGTTGCGATACTCAAATTCCCGATGCGATAGACAAATTCGCGTT
3775397 GCGATTTTCT
65 GCGATTTTCT
* * *
3775407 CGTTGCGATAGTCAAATAGCCGTTGCGATAGTCAAATTCCCGTTGCGATAGACAAATTCGCGTTG
1 CGTTGCGATAATCAAATAGCCGTTGCGATACTCAAATTCCCGATGCGATAGACAAATTCGCGTTG
3775472 CGAT
66 CGAT
3775476 AGTCATATTC
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
74 59 0.98
75 1 0.02
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.31
Consensus pattern (74 bp):
CGTTGCGATAATCAAATAGCCGTTGCGATACTCAAATTCCCGATGCGATAGACAAATTCGCGTTG
CGATTTTCT
Found at i:3775449 original size:114 final size:114
Alignment explanation
Indices: 3775313--3775577 Score: 356
Period size: 114 Copynumber: 2.3 Consensus size: 114
3775303 GCGATTTTCT
* * * *
3775313 CGTTGCGATAGTCAAATACCCGTTGCGATAATCAAATTCGTGTTGTGATACTCAAATTCGCGATG
1 CGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCGCGTTGCGATACTCAAATTCACGATG
* *
3775378 CGATAGTCAAATTCGCGTTGCGATTTTCT-CGTTGCGATAGTCAAATAGC-
66 CGATAGTCAAATTCGCGTTGCGATTTT-TGAGTTGCGATAATCAAAT-GCG
* * * *
3775427 CGTTGCGATAGTCAAATTCCCGTTGCGATAGA-CAAATTCGCGTTGCGATAGTCATATTCATGTT
1 CGTTGCGATAGTCAAATTCCCGTTGCGATA-ATCAAATTCGCGTTGCGATACTCAAATTCACGAT
*
3775491 GCGATAGTCAAATTCGCGTTGCGATTTTTGAGTTGCGATAATCAAATTCG
65 GCGATAGTCAAATTCGCGTTGCGATTTTTGAGTTGCGATAATCAAATGCG
* * *
3775541 TGTTGCGATAGTCAAATTCGCGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAAT
3775578 GAATGTGTAA
Statistics
Matches: 133, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
113 2 0.02
114 130 0.98
115 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (114 bp):
CGTTGCGATAGTCAAATTCCCGTTGCGATAATCAAATTCGCGTTGCGATACTCAAATTCACGATG
CGATAGTCAAATTCGCGTTGCGATTTTTGAGTTGCGATAATCAAATGCG
Found at i:3775451 original size:54 final size:54
Alignment explanation
Indices: 3775376--3775569 Score: 221
Period size: 54 Copynumber: 3.5 Consensus size: 54
3775366 AAATTCGCGA
* *
3775376 TGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAAATAGC-CGT
1 TGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAAAT-TCATGT
* * * *
3775430 TGCGATAGTCAAATTCCCGTTGCGATAGACAAATTCGCGTTGCGATAGTCATATTCATGT
1 TGCGATAGTCAAATTCGCGTTGCGAT------TTTCTCGTTGCGATAGTCAAATTCATGT
* * *
3775490 TGCGATAGTCAAATTCGCGTTGCGATTTT-TGAGTTGCGATAATCAAATTCGTGT
1 TGCGATAGTCAAATTCGCGTTGCGATTTTCT-CGTTGCGATAGTCAAATTCATGT
3775544 TGCGATAGTCAAATTCGCGTTGCGAT
1 TGCGATAGTCAAATTCGCGTTGCGAT
3775570 ATTCAAATGA
Statistics
Matches: 119, Mismatches: 13, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
54 72 0.61
59 1 0.01
60 46 0.39
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (54 bp):
TGCGATAGTCAAATTCGCGTTGCGATTTTCTCGTTGCGATAGTCAAATTCATGT
Found at i:3775805 original size:140 final size:140
Alignment explanation
Indices: 3775548--3775817 Score: 495
Period size: 140 Copynumber: 1.9 Consensus size: 140
3775538 TCGTGTTGCG
* * *
3775548 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAAAAATTGAACATATCA
1 ATAGCCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAAAAACTGAACAGATCA
3775613 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
3775678 AATACACATA
131 AATACACATA
* *
3775688 ATAGCCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAACAGGTCA
1 ATAGCCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAAAAACTGAACAGATCA
3775753 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
3775818 TACAACTTTT
Statistics
Matches: 125, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 125 1.00
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (140 bp):
ATAGCCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAAAAACTGAACAGATCA
TAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:3775900 original size:18 final size:18
Alignment explanation
Indices: 3775877--3775911 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3775867 AAGCCGGTTG
*
3775877 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
3775895 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
3775912 GCCTTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:3777967 original size:14 final size:14
Alignment explanation
Indices: 3777948--3777984 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
3777938 TCCCGTGGCA
3777948 TTTTCTTCGGGGAC
1 TTTTCTTCGGGGAC
*
3777962 TTTTCTTCGGGGAT
1 TTTTCTTCGGGGAC
3777976 TTCTTCTTC
1 TT-TTCTTC
3777985 TTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.05, C:0.22, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTTCTTCGGGGAC
Found at i:3778208 original size:24 final size:24
Alignment explanation
Indices: 3778174--3778227 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
3778164 CTGAAACATC
*
3778174 ATCAAAATCCGAGTATTGAGCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* * *
3778198 ATCAAAGTCCGGGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
3778222 ATCAAA
1 ATCAAA
3778228 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:3779082 original size:20 final size:20
Alignment explanation
Indices: 3779059--3779155 Score: 185
Period size: 20 Copynumber: 4.8 Consensus size: 20
3779049 TTGCGACAGT
*
3779059 CATAATCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
3779079 CATATTCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
3779099 CATATTCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
3779119 CATATTCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
3779139 CATATTCGCATTGCGAT
1 CATATTCGCATTGCGAT
3779156 AGTCAGAAAA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
20 76 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (20 bp):
CATATTCGCATTGCGATTTA
Found at i:3780429 original size:21 final size:22
Alignment explanation
Indices: 3780405--3780452 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
3780395 TATGGGACCT
3780405 ATAAAAAATAA-AAATAAAATA
1 ATAAAAAATAATAAATAAAATA
* *
3780426 AT-AATAATAATAAATAATATA
1 ATAAAAAATAATAAATAAAATA
3780447 ATAAAA
1 ATAAAA
3780453 TATTTTTGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 7 0.32
21 13 0.59
22 2 0.09
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (22 bp):
ATAAAAAATAATAAATAAAATA
Found at i:3780453 original size:13 final size:13
Alignment explanation
Indices: 3780404--3780454 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 13
3780394 ATATGGGACC
3780404 TATAA-AAAATAA
1 TATAATAAAATAA
3780416 -A-AATAAAATAA
1 TATAATAAAATAA
3780427 TAATAATAATAAATAA
1 T-ATAAT-A-AAATAA
3780443 TATAATAAAATA
1 TATAATAAAATA
3780455 TTTTTGTAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
10 2 0.06
11 8 0.24
13 6 0.18
14 4 0.12
15 6 0.18
16 7 0.21
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
TATAATAAAATAA
Found at i:3781186 original size:64 final size:64
Alignment explanation
Indices: 3781099--3781288 Score: 167
Period size: 64 Copynumber: 3.0 Consensus size: 64
3781089 ATGCACCAAT
*
3781099 CCATGCATCGATGCACCATGAATTAAATTG-AACATCGAATGCATTTCATGCATCGATGCACATA
1 CCATGCACCGATGCACCATGAATTAAA-TGAAACATCGAATGCATTTCATGCATCGATGCACATA
* ** *
3781163 CCATGCACCGATGCACTGA-GAATTTTATGAAAACATCGAATGCATTTGATGCATCGATGCACCA
1 CCATGCACCGATGCAC-CATGAATTAAATG-AAACATCGAATGCATTTCATGCATCGATGCA-CA
*
3781227 -G
63 TA
* * * * * *
3781228 CAATGCATCGATGCACTC-TGGCTATT--TTGAAACATCGAATGCACTTGATGCATCGATGCAC
1 CCATGCACCGATGCAC-CAT-G-AATTAAATGAAACATCGAATGCATTTCATGCATCGATGCAC
3781289 TCTTAGTGCA
Statistics
Matches: 107, Mismatches: 12, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
63 3 0.03
64 51 0.48
65 47 0.44
66 3 0.03
67 3 0.03
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (64 bp):
CCATGCACCGATGCACCATGAATTAAATGAAACATCGAATGCATTTCATGCATCGATGCACATA
Found at i:3781201 original size:65 final size:63
Alignment explanation
Indices: 3781129--3781288 Score: 196
Period size: 65 Copynumber: 2.5 Consensus size: 63
3781119 AATTAAATTG
* * *
3781129 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCACCGATGCACTGAGAAT-TTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACA-ACAATGCACCGATGCACTCAGAATATTT-TG-
3781193 A
63 A
* * * **
3781194 AACATCGAATGCATTTGATGCATCGATGCACCAGCAATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CAACAATGCACCGATGCACTCAGAATATTTTGA
*
3781258 AACATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
3781289 TCTTAGTGCA
Statistics
Matches: 84, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
63 1 0.01
64 30 0.36
65 48 0.57
66 5 0.06
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACAACAATGCACCGATGCACTCAGAATATTTTGA
Found at i:3781288 original size:17 final size:19
Alignment explanation
Indices: 3781260--3781308 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
3781250 TATTTTGAAA
3781260 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
3781278 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
3781297 CACCGATGCACT
1 CATCGATGCACT
3781309 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:3782154 original size:84 final size:84
Alignment explanation
Indices: 3782009--3782598 Score: 657
Period size: 84 Copynumber: 7.0 Consensus size: 84
3781999 TAACTCAACA
** * * * * *
3782009 GATATGCCTTTGAGCTGAATGAAATCGAACTCAAAGGTCTTTTGTTGGCAGATAGCCCTTCTCGC
1 GATATGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGC
*
3782074 CTTGAGCTATACTTCAAAT
66 CTTGAGTTATACTTCAAAT
* * * *
3782093 GATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTTGTTGGCAGATAACCCTTCTAGC
1 GATATGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGC
* * *
3782158 TTTGAGTTATGCTGCAAAT
66 CTTGAGTTATACTTCAAAT
* * * *
3782177 GATATGCCTTTGAGCTGAGCGTAGTTGAACTTGAAGGTCTTTTGTTGGCAAATAACCCTTCTTGC
1 GATATGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGC
*
3782242 CTTGAGCTATA-TTGCAAAT
66 CTTGAGTTATACTT-CAAAT
* * * * * * * *
3782261 GATGTGCCTTGGAGTTGAGCATAGTCGAACTCGAAGGTCTTTGGTTTGCATATAACCCGTCTAGC
1 GATATGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGC
*
3782326 CTTGAGTTATGCTGT-AAAT
66 CTTGAGTTATACT-TCAAAT
* * ** * *
3782345 GATATGCCTTTGAGCCGAGCGTAGTCAAACTTAAAGGTCTTTGGTTGGCATATAACCCTTCTAGC
1 GATATGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGC
*
3782410 CTTGAGTTAT-GTTACAAAT
66 CTTGAGTTATACTT-CAAAT
* * * *
3782429 GATATGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGGCTTTGGTTGGCAGATAACCCTTCTAGC
1 GATATGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGC
* *
3782494 CTTGAGTCATGA-TGCAAAT
66 CTTGAGTTAT-ACTTCAAAT
* * * * * * *
3782513 GATATGCCTTGGAGCTGAGCATTGTCGTACTAGAAGGTATTTTGTTGGCAGATGACCCTTCTAGC
1 GATATGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGC
* *
3782578 CTTGAGTTATGCTGCAAAT
66 CTTGAGTTATACTTCAAAT
3782597 GA
1 GA
3782599 ACACGATATC
Statistics
Matches: 432, Mismatches: 66, Indels: 16
0.84 0.13 0.03
Matches are distributed among these distances:
82 1 0.00
83 2 0.00
84 426 0.99
85 2 0.00
86 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (84 bp):
GATATGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGC
CTTGAGTTATACTTCAAAT
Found at i:3782291 original size:168 final size:168
Alignment explanation
Indices: 3782009--3782598 Score: 752
Period size: 168 Copynumber: 3.5 Consensus size: 168
3781999 TAACTCAACA
** * * * * *
3782009 GATATGCCTTTGAGCTGAATGAAATCGAACTCAAAGGTCTTTTGTTGGCAGATAGCCCTTCTCGC
1 GATATGCCTTTGAGCTGAGCGTAGTCGAACTTAAAGGTCTTTTGTTGGCAGATAACCCTTCTAGC
* * * * *
3782074 CTTGAGCTATACTT-CAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTTGT
66 CTTGAGCTATA-TTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGT
*
3782138 TGGCAGATAACCCTTCTAGCTTTGAGTTATGCTGCAAAT
130 TGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAAT
* * * *
3782177 GATATGCCTTTGAGCTGAGCGTAGTTGAACTTGAAGGTCTTTTGTTGGCAAATAACCCTTCTTGC
1 GATATGCCTTTGAGCTGAGCGTAGTCGAACTTAAAGGTCTTTTGTTGGCAGATAACCCTTCTAGC
* *
3782242 CTTGAGCTATATTGCAAATGATGTGCCTTGGAGTTGAGCATAGTCGAACTCGAAGGTCTTTGGTT
66 CTTGAGCTATATTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTT
* * * *
3782307 TGCATATAACCCGTCTAGCCTTGAGTTATGCTGTAAAT
131 GGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAAT
* * * *
3782345 GATATGCCTTTGAGCCGAGCGTAGTCAAACTTAAAGGTCTTTGGTTGGCATATAACCCTTCTAGC
1 GATATGCCTTTGAGCTGAGCGTAGTCGAACTTAAAGGTCTTTTGTTGGCAGATAACCCTTCTAGC
* * * * * *
3782410 CTTGAGTTATGTTACAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGGCTTTGGTT
66 CTTGAGCTATATTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTT
* *
3782475 GGCAGATAACCCTTCTAGCCTTGAGTCATGATGCAAAT
131 GGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAAT
* * * * * *
3782513 GATATGCCTTGGAGCTGAGCATTGTCGTAC-TAGAAGGTATTTTGTTGGCAGATGACCCTTCTAG
1 GATATGCCTTTGAGCTGAGCGTAGTCGAACTTA-AAGGTCTTTTGTTGGCAGATAACCCTTCTAG
* **
3782577 CCTTGAGTTATGCTGCAAATGA
65 CCTTGAGCTATATTGCAAATGA
3782599 ACACGATATC
Statistics
Matches: 365, Mismatches: 55, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
167 4 0.01
168 361 0.99
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (168 bp):
GATATGCCTTTGAGCTGAGCGTAGTCGAACTTAAAGGTCTTTTGTTGGCAGATAACCCTTCTAGC
CTTGAGCTATATTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTT
GGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAAT
Found at i:3782478 original size:252 final size:252
Alignment explanation
Indices: 3782033--3782598 Score: 742
Period size: 252 Copynumber: 2.2 Consensus size: 252
3782023 CTGAATGAAA
* * * * * *
3782033 TCGAACTCAAAGGTCTTTTGTTGGCAGATAGCCCTTCTCGCCTTGAGCTATACT-TCAAATGATG
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGT-AAATGATA
* * * * * *
3782097 TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTTGTTGGCAGATAACCCTTCTAGCTTTG
65 TGCCTTTGAGCCGAGCGTAATCAAACTCAAAGGTATTTGGTTGGCAGATAACCCTTCTAGCCTTG
* * ** * * *
3782162 AGTTATGCTGCAAATGATATGCCTTTGAGCTGAGCGTAGTTGAACTTGAAGGTCTTTTGTTGGCA
130 AGTTATGCTACAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGGCTTTGGTTGGCA
* * *
3782227 AATAACCCTTCTTGCCTTGAG-CTAT-ATTGCAAATGATGTGCCTTGGAGTTGAGCATAG
195 AATAACCCTTCTAGCCTTGAGTC-ATGA-TGCAAATGATATGCCTTGGAGCTGAGCATAG
* * * *
3782285 TCGAACTCGAAGGTCTTTGGTTTGCATATAACCCGTCTAGCCTTGAGTTATGCTGTAAATGATAT
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATAT
* * * *
3782350 GCCTTTGAGCCGAGCGTAGTCAAACTTAAAGGTCTTTGGTTGGCATATAACCCTTCTAGCCTTGA
66 GCCTTTGAGCCGAGCGTAATCAAACTCAAAGGTATTTGGTTGGCAGATAACCCTTCTAGCCTTGA
* *
3782415 GTTATGTTACAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGGCTTTGGTTGGCAG
131 GTTATGCTACAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGGCTTTGGTTGGCAA
*
3782480 ATAACCCTTCTAGCCTTGAGTCATGATGCAAATGATATGCCTTGGAGCTGAGCATTG
196 ATAACCCTTCTAGCCTTGAGTCATGATGCAAATGATATGCCTTGGAGCTGAGCATAG
* * * * *
3782537 TCGTACTAGAAGGTATTTTGTTGGCAGATGACCCTTCTAGCCTTGAGTTATGCTGCAAATGA
1 TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGA
3782599 ACACGATATC
Statistics
Matches: 269, Mismatches: 42, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
252 266 0.99
253 3 0.01
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (252 bp):
TCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATAT
GCCTTTGAGCCGAGCGTAATCAAACTCAAAGGTATTTGGTTGGCAGATAACCCTTCTAGCCTTGA
GTTATGCTACAAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGGCTTTGGTTGGCAA
ATAACCCTTCTAGCCTTGAGTCATGATGCAAATGATATGCCTTGGAGCTGAGCATAG
Found at i:3782657 original size:32 final size:31
Alignment explanation
Indices: 3782616--3782723 Score: 108
Period size: 32 Copynumber: 3.3 Consensus size: 31
3782606 ATCCATCATT
3782616 GTGAAGTTGAAATCGTGGATGGCCCCTTCGTC
1 GTGAAGTTGAAA-CGTGGATGGCCCCTTCGTC
** * * **
3782648 GTGAAGTTGAGCCTTGAATTGGATATCCTTCGTC
1 GTGAAGTTGAAACGTGGA-TGG--CCCCTTCGTC
*
3782682 GTGAAGTTGAAACTGTGGATGGCCCCTTCGTT
1 GTGAAGTTGAAAC-GTGGATGGCCCCTTCGTC
3782714 GTGAAGTTGA
1 GTGAAGTTGA
3782724 GCCTTGGATT
Statistics
Matches: 59, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
31 4 0.07
32 30 0.51
34 22 0.37
35 3 0.05
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (31 bp):
GTGAAGTTGAAACGTGGATGGCCCCTTCGTC
Found at i:3782683 original size:34 final size:34
Alignment explanation
Indices: 3782640--3782757 Score: 143
Period size: 34 Copynumber: 3.5 Consensus size: 34
3782630 GTGGATGGCC
*
3782640 CCTTCGTCGTGAAGTTGAGCCTTGAATTGGATAT
1 CCTTCGTCGTGAAGTTGAGCCTTGGATTGGATAT
** **
3782674 CCTTCGTCGTGAAGTTGAAACTGTGGA-TGG--CC
1 CCTTCGTCGTGAAGTTGAGCCT-TGGATTGGATAT
*
3782706 CCTTCGTTGTGAAGTTGAGCCTTGGATTGGATAT
1 CCTTCGTCGTGAAGTTGAGCCTTGGATTGGATAT
*
3782740 CCTTCGCCGTGAAGTTGA
1 CCTTCGTCGTGAAGTTGA
3782758 AATCCAATCT
Statistics
Matches: 68, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
31 4 0.06
32 22 0.32
34 39 0.57
35 3 0.04
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (34 bp):
CCTTCGTCGTGAAGTTGAGCCTTGGATTGGATAT
Found at i:3782690 original size:66 final size:67
Alignment explanation
Indices: 3782616--3782761 Score: 251
Period size: 66 Copynumber: 2.2 Consensus size: 67
3782606 ATCCATCATT
3782616 GTGAAGTTGAAATC-GTGGATGGCCCCTTCGTCGTGAAGTTGAGCCTTGAATTGGATATCCTTCG
1 GTGAAGTTGAAATCTGTGGATGGCCCCTTCGTCGTGAAGTTGAGCCTTGAATTGGATATCCTTCG
*
3782680 TC
66 CC
* *
3782682 GTGAAGTTGAAA-CTGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGGATTGGATATCCTTCG
1 GTGAAGTTGAAATCTGTGGATGGCCCCTTCGTCGTGAAGTTGAGCCTTGAATTGGATATCCTTCG
3782746 CC
66 CC
3782748 GTGAAGTTGAAATC
1 GTGAAGTTGAAATC
3782762 CAATCTAAAG
Statistics
Matches: 75, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
65 1 0.01
66 73 0.97
67 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (67 bp):
GTGAAGTTGAAATCTGTGGATGGCCCCTTCGTCGTGAAGTTGAGCCTTGAATTGGATATCCTTCG
CC
Found at i:3782836 original size:124 final size:123
Alignment explanation
Indices: 3782674--3782971 Score: 524
Period size: 124 Copynumber: 2.4 Consensus size: 123
3782664 AATTGGATAT
*
3782674 CCTTCGTCGTGAAGTTGAAACTGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGGATTGGATA
1 CCTTCGTCGTGAAGTTGAAAC-GTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATA
* *
3782739 TCCTTCGCCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGAGCACGATTC
65 TCATTCACCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGAGCACGATTC
*
3782798 CCTTCGTCGTGAAGTTGAAATCGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTGAATTGGATA
1 CCTTCGTCGTGAAGTTGAAA-CGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATA
*
3782863 TCATTCATCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGAGCACGATTC
65 TCATTCACCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGAGCACGATTC
3782922 CCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCCTTCGTTGTGAAGTTGA
1 CCTTCGTCGTGAAGTTGAAA-CGTGGATGGCCCCTTCGTTGTGAAGTTGA
3782972 AATTGGCTCT
Statistics
Matches: 166, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
124 165 0.99
125 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (123 bp):
CCTTCGTCGTGAAGTTGAAACGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGAATTGGATAT
CATTCACCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGAGCACGATTC
Found at i:3786027 original size:20 final size:20
Alignment explanation
Indices: 3785986--3786029 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
3785976 ACCTCTTTTG
* *
3785986 AATGATGTAAATGATAAAAA
1 AATGAAGTAAAAGATAAAAA
*
3786006 AATGAAGTAAAAGAAAATAAA
1 AATGAAGTAAAAGATAA-AAA
3786027 AAT
1 AAT
3786030 TAAAGGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.66, C:0.00, G:0.14, T:0.20
Consensus pattern (20 bp):
AATGAAGTAAAAGATAAAAA
Found at i:3787195 original size:40 final size:39
Alignment explanation
Indices: 3787103--3787195 Score: 93
Period size: 39 Copynumber: 2.4 Consensus size: 39
3787093 TTATTAAATT
3787103 AAAAAA-A-AAATA-AATAAAAAAAGAAAACAAAAAGAG
1 AAAAAAGATAAATATAATAAAAAAAGAAAACAAAAAGAG
* * * * * *
3787139 AAAAAATATTAATATAATAATAAAATAAAATAAAATAGAT
1 AAAAAAGATAAATATAATAAAAAAAGAAAACAAAA-AGAG
*
3787179 AACAAAGATAAATATAA
1 AAAAAAGATAAATATAA
3787196 GTTAGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
36 6 0.13
37 1 0.02
38 4 0.09
39 17 0.38
40 17 0.38
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.17
Consensus pattern (39 bp):
AAAAAAGATAAATATAATAAAAAAAGAAAACAAAAAGAG
Found at i:3788344 original size:3 final size:3
Alignment explanation
Indices: 3788336--3788361 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
3788326 TGGGATTACA
3788336 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
3788362 ATAAATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:3789200 original size:2 final size:2
Alignment explanation
Indices: 3789195--3789266 Score: 69
Period size: 2 Copynumber: 36.5 Consensus size: 2
3789185 CTATAATTTC
* * * *
3789195 AT AT AT AT AT AT AT AT AT -T GAT AA AT TT A- ACT AA AA AT -T AT
1 AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT A-T AT AT AT AT AT
3789236 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3789267 ACTATTAGTA
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
1 3 0.05
2 54 0.92
3 2 0.03
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (2 bp):
AT
Found at i:3791951 original size:30 final size:30
Alignment explanation
Indices: 3791916--3791973 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
3791906 TAAAACTGCC
* *
3791916 ATAATTATATATTTGGTCCTTAATATTTGA
1 ATAATTATATATTTGGACATTAATATTTGA
3791946 ATAATTATATATTTGGACATTAATATTT
1 ATAATTATATATTTGGACATTAATATTT
3791974 ACATATTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (30 bp):
ATAATTATATATTTGGACATTAATATTTGA
Found at i:3791971 original size:14 final size:15
Alignment explanation
Indices: 3791919--3791973 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 15
3791909 AACTGCCATA
*
3791919 ATTATATATTTGGTC
1 ATTATATATTTGGAC
* * *
3791934 CTTA-ATATTTGAATA
1 ATTATATATTTGGA-C
3791949 ATTATATATTTGGAC
1 ATTATATATTTGGAC
3791964 ATTA-ATATTT
1 ATTATATATTT
3791974 ACATATTCTA
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
14 13 0.42
15 10 0.32
16 8 0.26
ACGTcount: A:0.35, C:0.05, G:0.09, T:0.51
Consensus pattern (15 bp):
ATTATATATTTGGAC
Found at i:3792504 original size:92 final size:94
Alignment explanation
Indices: 3792382--3792568 Score: 225
Period size: 93 Copynumber: 2.0 Consensus size: 94
3792372 TTAATAATTT
* * * *
3792382 TCAAATAAATTTTGGATCGATTAACCGTTAAGGAAAAAAT-AATTTATTTTATTCGGTTAATAAT
1 TCAAATAAATTTCGGATCGATTAACCGTTAAAGAAAAAATCAATTGATTTGATTCGGTTAATAAT
*
3792446 TTTCAAATAAATTTTGATTCGATTAACGG
66 TTTCAAATAAATTTTGATTCGAATAACGG
* ** ** ** * *
3792475 TCAAAT-AATTTCGGTTCGATTAATGGTTAAAGAAAGCATCGGTTGATTTGGTTCGTTTAATAAT
1 TCAAATAAATTTCGGATCGATTAACCGTTAAAGAAAAAATCAATTGATTTGATTCGGTTAATAAT
*
3792539 TTTCAAATAAATTTTGGTTCGAATAACGG
66 TTTCAAATAAATTTTGATTCGAATAACGG
3792568 T
1 T
3792569 TAAAGAAAAA
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
92 26 0.33
93 52 0.67
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (94 bp):
TCAAATAAATTTCGGATCGATTAACCGTTAAAGAAAAAATCAATTGATTTGATTCGGTTAATAAT
TTTCAAATAAATTTTGATTCGAATAACGG
Found at i:3792558 original size:67 final size:65
Alignment explanation
Indices: 3792475--3792631 Score: 181
Period size: 65 Copynumber: 2.4 Consensus size: 65
3792465 CGATTAACGG
* * ** * *
3792475 TCAAAT-AATTTCGGTTCGATTAATGGTTAAAGAAAGCATCGGTTGATTTGGTTCGTTTAATAAT
1 TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAA-AAT-AATTGATTTGATTCGGTTAATAAT
*
3792539 TT
64 TC
* * * *
3792541 TCAAATAAATTTTGGTTCGAATAACGGTTAAAGAAAAATAATTTATTTTATTCGGTTAATAATTC
1 TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAATAATTGATTTGATTCGGTTAATAATTC
*
3792606 TCAAATAAATTTGGGTTCGATTAACG
1 TCAAATAAATTTCGGTTCGATTAACG
3792632 ATCAAATAAT
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
65 43 0.56
66 8 0.10
67 26 0.34
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.39
Consensus pattern (65 bp):
TCAAATAAATTTCGGTTCGATTAACGGTTAAAGAAAAATAATTGATTTGATTCGGTTAATAATTC
Found at i:3792628 original size:158 final size:151
Alignment explanation
Indices: 3792330--3792870 Score: 665
Period size: 159 Copynumber: 3.5 Consensus size: 151
3792320 TTATTTATTT
* *
3792330 AAATAAATTTTGGTTCGATTAATGGTTAAATAAAA--A-A---ATCGGTTAATAATTTTCAAATA
1 AAAT-AATTTTGGTTCGATTAATGGTTAAAGAAAATGATATGGTTCGGTTAATAATTTTCAAATA
* * *
3792389 AATTTTGGATCGATTAACCGTTAAGGAAAAAATAATTTATTTTATTCGGTTAATAATTTTCAAAT
65 AATTTTGGTTCGATTAACGGTTAAAG-AAAAATAATTTATTTTATTCGGTTAATAATTTTCAAAT
* *
3792454 AAATTTTGATTCGATTAACGGTC
129 AAATTTGGGTTCGATTAACGGTC
* * *
3792477 AAATAATTTCGGTTCGATTAATGGTTAAAGAAAGCATCGGTTGATTTGGTTCGTTTAATAATTTT
1 AAATAATTTTGGTTCGATTAATGGTTAAAGAAA--A-----TGATATGGTTCGGTTAATAATTTT
* *
3792542 CAAATAAATTTTGGTTCGAATAACGGTTAAAGAAAAATAATTTATTTTATTCGGTTAATAATTCT
59 CAAATAAATTTTGGTTCGATTAACGGTTAAAGAAAAATAATTTATTTTATTCGGTTAATAATTTT
*
3792607 CAAATAAATTTGGGTTCGATTAACGATC
124 CAAATAAATTTGGGTTCGATTAACGGTC
*
3792635 AAATAATTTTGGTTCAATTAATGGTTAAAG-AAATGATATGGTTCGGTTAATAATTTTCAAATAA
1 AAATAATTTTGGTTCGATTAATGGTTAAAGAAAATGATATGGTTCGGTTAATAATTTTCAAATAA
3792699 ATTTTGGTTCGATTAACGGTTAAAGAAAAATAATTTATTTTATTCTGTTAATTCCGTTAATAATT
66 ATTTTGGTTCGATTAACGGTTAAAGAAAAATAATTTATTTTATTC-G--------GTTAATAATT
* *
3792764 TTCAAATAAATTTGGGTTTGATTAATGGTC
122 TTCAAATAAATTTGGGTTCGATTAACGGTC
* * *
3792794 AAATAATTTTGGTTCGATTAATGGTTAAAGAAAA--A-A--ATTCAGTTAATAATTTTTAAATAA
1 AAATAATTTTGGTTCGATTAATGGTTAAAGAAAATGATATGGTTCGGTTAATAATTTTCAAATAA
3792854 ATTTTGGTTCGATTAAC
66 ATTTTGGTTCGATTAAC
3792871 TGTCAAATAA
Statistics
Matches: 345, Mismatches: 26, Indels: 38
0.84 0.06 0.09
Matches are distributed among these distances:
146 27 0.08
147 4 0.01
148 1 0.00
150 73 0.21
151 1 0.00
155 40 0.12
157 3 0.01
158 86 0.25
159 107 0.31
160 3 0.01
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (151 bp):
AAATAATTTTGGTTCGATTAATGGTTAAAGAAAATGATATGGTTCGGTTAATAATTTTCAAATAA
ATTTTGGTTCGATTAACGGTTAAAGAAAAATAATTTATTTTATTCGGTTAATAATTTTCAAATAA
ATTTGGGTTCGATTAACGGTC
Found at i:3792812 original size:26 final size:27
Alignment explanation
Indices: 3792765--3792818 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
3792755 TTAATAATTT
*
3792765 TCAAATAAATTTGGGTTTGATTAATGG
1 TCAAATAAATTTGGGTTCGATTAATGG
*
3792792 TCAAAT-AATTTTGGTTCGATTAATGG
1 TCAAATAAATTTGGGTTCGATTAATGG
3792818 T
1 T
3792819 TAAAGAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 19 0.76
27 6 0.24
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (27 bp):
TCAAATAAATTTGGGTTCGATTAATGG
Found at i:3792883 original size:81 final size:80
Alignment explanation
Indices: 3792748--3793181 Score: 379
Period size: 81 Copynumber: 5.0 Consensus size: 80
3792738 TTATTCTGTT
* * * *
3792748 AATTCCGTTAATAATTTTCAAATAAATTTGGGTTTGATTAA-TGGTCAAATAATTTTGGTTCGAT
1 AATTCAGTTAATAATTTTTAAATAAATTTTGGTTCGATTAACT-GTCAAATAATTTTGGTTCGAT
3792812 TAATGGTTAAAGAAAAA
65 TAAT-GTTAAAGAAAAA
*
3792829 AATTCAGTTAATAATTTTTAAATAAATTTTGGTTCGATTAACTGTCAAATAATTTCGGTTCGATT
1 AATTCAGTTAATAATTTTTAAATAAATTTTGGTTCGATTAACTGTCAAATAATTTTGGTTCGATT
3792894 AATGTTAAAGAAAAA
66 AATGTTAAAGAAAAA
* **
3792909 AATTCGGTTAATTTGGTTTGGTTAATAATTTTCAAATAAATTTCGGTTCGATTAACTGTCAAATA
1 AATTCAGTTAA--TAATTT--TT-A-AA---T-AAAT---TTT-GGTTCGATTAACTGTCAAATA
**
3792974 ATTTCAGTTCGATTAATGTTAAAGAAAAA
52 ATTTTGGTTCGATTAATGTTAAAGAAAAA
* ** * *
3793003 AATTGGTTGATTTGGTTCGGTTAATAATTTTCAAATAAATTTGGGTTCGATTAACAGTCAAATAA
1 AA----TTCA----GTT--AATAAT--TTTT-AAATAAATTTTGGTTCGATTAACTGTCAAATAA
3793068 TTTTGGTTCGATTAATGGTTAAAGAAAAA
53 TTTTGGTTCGATTAAT-GTTAAAGAAAAA
* * * *
3793097 ATTTC-GTTTAATAAATTTTAAATAAATTTTGGTTCGATTAACGGTCAAAT-ATTTTCGTTTCGA
1 AATTCAG-TTAATAATTTTTAAATAAATTTTGGTTCGATTAACTGTCAAATAATTTT-GGTTCGA
3793160 TTAATGTTAAAGAAAACA
64 TTAATGTTAAAGAAAA-A
3793178 AATT
1 AATT
3793182 TGGTTAATTT
Statistics
Matches: 293, Mismatches: 29, Indels: 62
0.76 0.08 0.16
Matches are distributed among these distances:
80 38 0.13
81 105 0.36
82 9 0.03
84 5 0.02
85 2 0.01
86 4 0.01
89 1 0.00
90 6 0.02
93 38 0.13
94 66 0.23
97 4 0.01
98 3 0.01
101 2 0.01
102 8 0.03
104 2 0.01
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.40
Consensus pattern (80 bp):
AATTCAGTTAATAATTTTTAAATAAATTTTGGTTCGATTAACTGTCAAATAATTTTGGTTCGATT
AATGTTAAAGAAAAA
Found at i:3792996 original size:94 final size:94
Alignment explanation
Indices: 3792835--3793232 Score: 529
Period size: 94 Copynumber: 4.4 Consensus size: 94
3792825 AAAAAATTCA
* *
3792835 GTTAATAATTTTTAAATAAATTTTGGTTCGATTAACTGTCAAATAATTTCGGTTCGATTAATGTT
1 GTTAATAATTTTCAAATAAATTTCGGTTCGATTAACTGTCAAATAATTTCGGTTCGATTAATGTT
*
3792900 AAAGAAAAAAATTCGGTTAATTTGGTTTG
66 AAAGAAAAAAATTCGGTTAATTTGGTTCG
*
3792929 GTTAATAATTTTCAAATAAATTTCGGTTCGATTAACTGTCAAATAATTTCAGTTCGATTAATGTT
1 GTTAATAATTTTCAAATAAATTTCGGTTCGATTAACTGTCAAATAATTTCGGTTCGATTAATGTT
*
3792994 AAAGAAAAAAATT-GGTTGATTTGGTTCG
66 AAAGAAAAAAATTCGGTTAATTTGGTTCG
* * *
3793022 GTTAATAATTTTCAAATAAATTTGGGTTCGATTAACAGTCAAATAATTTTGGTTCGATTAATGGT
1 GTTAATAATTTTCAAATAAATTTCGGTTCGATTAACTGTCAAATAATTTCGGTTCGATTAAT-GT
* *
3793087 TAAAGAAAAAATTTCGTTTAA---------
65 TAAAGAAAAAAATTCGGTTAATTTGGTTCG
* * * *
3793108 --T-A-AATTTT-AAATAAATTTTGGTTCGATTAACGGTCAAATATTTTCGTTTCGATTAATGTT
1 GTTAATAATTTTCAAATAAATTTCGGTTCGATTAACTGTCAAATAATTTCGGTTCGATTAATGTT
*
3793168 AAAGAAAACAAATTTGGTTAATTTGGTTCG
66 AAAGAAAA-AAATTCGGTTAATTTGGTTCG
*
3793198 GTTAATAATTTTCAAATAAATTTCGGTTTGATTAA
1 GTTAATAATTTTCAAATAAATTTCGGTTCGATTAA
3793233 TGTTTAATTG
Statistics
Matches: 265, Mismatches: 22, Indels: 33
0.83 0.07 0.10
Matches are distributed among these distances:
80 11 0.04
81 53 0.20
82 6 0.02
83 1 0.00
84 1 0.00
92 1 0.00
93 72 0.27
94 96 0.36
95 24 0.09
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.41
Consensus pattern (94 bp):
GTTAATAATTTTCAAATAAATTTCGGTTCGATTAACTGTCAAATAATTTCGGTTCGATTAATGTT
AAAGAAAAAAATTCGGTTAATTTGGTTCG
Found at i:3793917 original size:53 final size:52
Alignment explanation
Indices: 3793748--3793919 Score: 154
Period size: 53 Copynumber: 3.3 Consensus size: 52
3793738 GATACTATAA
* * *
3793748 CTCAGAGTATCAGTATCATTTTAGCATTCTTTTTTTACAGTATCGGTACTGC
1 CTCAGAGTATCGGTACCATTTTAGCATTCTGTTTTTACAGTATCGGTACTGC
* * * ** * * * **
3793800 CTCAGCAGCATCGGTACTACTTTATTATTTTAG-TTTT-CAGTATCGATATTAT
1 CTCAG-AGTATCGGTACCATTTTAGCATTCT-GTTTTTACAGTATCGGTACTGC
*
3793852 AT-ATG-GTATCGGTACCATTTTAGCATTCTGTTTTTACAGTATCGGTACTGC
1 CTCA-GAGTATCGGTACCATTTTAGCATTCTGTTTTTACAGTATCGGTACTGC
3793903 CTCAGCAGTATCGGTAC
1 CTCAG-AGTATCGGTAC
3793920 TACTTCATTA
Statistics
Matches: 87, Mismatches: 25, Indels: 15
0.69 0.20 0.12
Matches are distributed among these distances:
49 1 0.01
50 22 0.25
51 14 0.16
52 19 0.22
53 31 0.36
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (52 bp):
CTCAGAGTATCGGTACCATTTTAGCATTCTGTTTTTACAGTATCGGTACTGC
Found at i:3793932 original size:103 final size:103
Alignment explanation
Indices: 3793754--3793981 Score: 366
Period size: 103 Copynumber: 2.2 Consensus size: 103
3793744 ATAACTCAGA
* *
3793754 GTATCAGTATCATTTTAGCATTCTTTTTTTACAGTATCGGTACTGCCTCAGCAGCATCGGTACTA
1 GTATCAGTACCATTTTAGCATTCTGTTTTTACAGTATCGGTACTGCCTCAGCAGCATCGGTACTA
* * * *
3793819 CTTTATTATTTTAGTTTTCAGTATCGATATTATATATG
66 CTTCATTATTTTAGGTTTCAATATCGATATCATATATG
* *
3793857 GTATCGGTACCATTTTAGCATTCTGTTTTTACAGTATCGGTACTGCCTCAGCAGTATCGGTACTA
1 GTATCAGTACCATTTTAGCATTCTGTTTTTACAGTATCGGTACTGCCTCAGCAGCATCGGTACTA
* *
3793922 CTTCATTATTTTGGGTTTCAATATTGATATCATATATG
66 CTTCATTATTTTAGGTTTCAATATCGATATCATATATG
3793960 GTATCAGTACCATTTTAGCATT
1 GTATCAGTACCATTTTAGCATT
3793982 TTTTGACAAT
Statistics
Matches: 114, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
103 114 1.00
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.43
Consensus pattern (103 bp):
GTATCAGTACCATTTTAGCATTCTGTTTTTACAGTATCGGTACTGCCTCAGCAGCATCGGTACTA
CTTCATTATTTTAGGTTTCAATATCGATATCATATATG
Found at i:3795842 original size:20 final size:20
Alignment explanation
Indices: 3795817--3795885 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 20
3795807 GCGGAGGGTT
3795817 AGGAGGTGGATTAGCATGAG
1 AGGAGGTGGATTAGCATGAG
* * *
3795837 AGGAGGAGGATTTGGCGGA-GGG
1 AGGAGGTGGA-TTAGC--ATGAG
3795859 TTAGGAGGTGGATTAGCATGAG
1 --AGGAGGTGGATTAGCATGAG
3795881 AGGAG
1 AGGAG
3795886 AAGGATCTAG
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
20 14 0.38
21 5 0.14
22 4 0.11
23 5 0.14
24 9 0.24
ACGTcount: A:0.28, C:0.04, G:0.49, T:0.19
Consensus pattern (20 bp):
AGGAGGTGGATTAGCATGAG
Found at i:3795855 original size:44 final size:44
Alignment explanation
Indices: 3795794--3795891 Score: 187
Period size: 44 Copynumber: 2.2 Consensus size: 44
3795784 AGTTGGATTG
3795794 GGAGGAGGATTTGGCGGAGGGTTAGGAGGTGGATTAGCATGAGA
1 GGAGGAGGATTTGGCGGAGGGTTAGGAGGTGGATTAGCATGAGA
3795838 GGAGGAGGATTTGGCGGAGGGTTAGGAGGTGGATTAGCATGAGA
1 GGAGGAGGATTTGGCGGAGGGTTAGGAGGTGGATTAGCATGAGA
*
3795882 GGAGAAGGAT
1 GGAGGAGGAT
3795892 CTAGGATGTT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.27, C:0.04, G:0.50, T:0.19
Consensus pattern (44 bp):
GGAGGAGGATTTGGCGGAGGGTTAGGAGGTGGATTAGCATGAGA
Found at i:3797409 original size:21 final size:21
Alignment explanation
Indices: 3797383--3797438 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
3797373 CCCATAACAT
*
3797383 GGTGCATCGGTGCACTATCAA
1 GGTGCATCGATGCACTATCAA
3797404 GGTGCATCGATGCACTATCAA
1 GGTGCATCGATGCACTATCAA
*
3797425 GCTGCATCGATGCA
1 GGTGCATCGATGCA
3797439 TCGATGCACT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (21 bp):
GGTGCATCGATGCACTATCAA
Found at i:3797439 original size:29 final size:29
Alignment explanation
Indices: 3797406--3797464 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
3797396 ACTATCAAGG
3797406 TGCATCGATGCACTATCAAGCTGCATCGA
1 TGCATCGATGCACTATCAAGCTGCATCGA
*
3797435 TGCATCGATGCACTATCAAGGTGCATCGA
1 TGCATCGATGCACTATCAAGCTGCATCGA
3797464 T
1 T
3797465 ACCCCTTCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (29 bp):
TGCATCGATGCACTATCAAGCTGCATCGA
Found at i:3797885 original size:21 final size:21
Alignment explanation
Indices: 3797861--3797900 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
3797851 ATGTTTAATG
3797861 AAAAAGATATCAATTGTTAAC
1 AAAAAGATATCAATTGTTAAC
*
3797882 AAAATGATATCAATTGTTA
1 AAAAAGATATCAATTGTTA
3797901 CCAATTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (21 bp):
AAAAAGATATCAATTGTTAAC
Found at i:3800976 original size:20 final size:20
Alignment explanation
Indices: 3800951--3801018 Score: 111
Period size: 20 Copynumber: 3.4 Consensus size: 20
3800941 TTTCAACCTT
*
3800951 GGTGCAT-GGATGCACGGCAG
1 GGTGCATCGG-TGCACAGCAG
3800971 GGTGCATCGGTGCACAGCAG
1 GGTGCATCGGTGCACAGCAG
3800991 GGTGCATCGGTGCACAGCAG
1 GGTGCATCGGTGCACAGCAG
3801011 GGTGCATC
1 GGTGCATC
3801019 AATGCACTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
20 44 0.96
21 2 0.04
ACGTcount: A:0.19, C:0.24, G:0.41, T:0.16
Consensus pattern (20 bp):
GGTGCATCGGTGCACAGCAG
Found at i:3801093 original size:21 final size:22
Alignment explanation
Indices: 3801045--3801103 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 22
3801035 TCGAAATGGA
*
3801045 GTGCATGGATGCACTAGTGGCAG
1 GTGCATGGATGCACTAGAGG-AG
3801068 GTGCATGGATGCACT-GCAGG-G
1 GTGCATGGATGCACTAG-AGGAG
3801089 GTGCATGGATGCACT
1 GTGCATGGATGCACT
3801104 TTGACATCCT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
21 16 0.47
22 1 0.03
23 17 0.50
ACGTcount: A:0.20, C:0.19, G:0.39, T:0.22
Consensus pattern (22 bp):
GTGCATGGATGCACTAGAGGAG
Found at i:3802582 original size:244 final size:243
Alignment explanation
Indices: 3802149--3802616 Score: 794
Period size: 244 Copynumber: 1.9 Consensus size: 243
3802139 TGAATGTAGC
* * * *
3802149 ATGCTTCCTCGGCCAATCTTTGTTATGCTTCCCACGCGCATCTACTTTATGCAAATCGTCAATGT
1 ATGCTTCATCGGCCAATCTTTGCTATGATTCCCACGCGCATATACTTTATGCAAATCGTCAATGT
* * **
3802214 TATGTATTGACATTTCTATTGGTTGGTGAAACCCAAATTGTCGTAAAACTCTATTGATGGCATGG
66 TATGTATTGACATTTCTATTGGTTGGTGAAACCCAAATTATCGTAAAACTCTATCGACAGCATGG
*
3802279 ATCTCAACAATTGTGAAATGGAGCAATGGTGTTATGGCACACCATGTGTCCGTTCCTTCAAAGAA
131 ATCTCAACAATTGTGAAATGGAGCAATGGTGTTATGGCACACCATGTGTCCGCTCCTTCAAAGAA
*
3802344 CATTGGCGGTAGACATCGTTGGATATCCGATTAAACTGTCAAAAGTATT
196 -ATTGGCGGTAGACACCGTTGGATATCCGATTAAACTGTCAAAAGTATT
* *
3802393 ATGCTTCATCGGCCAATCTTCT-CTATGATTCCCACGTGCATATACTTTATGTAAATCGTCAATG
1 ATGCTTCATCGGCCAATCTT-TGCTATGATTCCCACGCGCATATACTTTATGCAAATCGTCAATG
*
3802457 TTATGTATTGACATTTCTATTGGTTGGTGAAACCCAAATTATCGTAAAACTCTATCGGCAGCATG
65 TTATGTATTGACATTTCTATTGGTTGGTGAAACCCAAATTATCGTAAAACTCTATCGACAGCATG
3802522 GATCTCAACAATTGTGAAATGGAGCAATGGTGTTATGGCACACCATGTGTCCGCTCCTTCAAAGA
130 GATCTCAACAATTGTGAAATGGAGCAATGGTGTTATGGCACACCATGTGTCCGCTCCTTCAAAGA
3802587 AATTGGCGGTAGACACCGTTGGATATCCGA
195 AATTGGCGGTAGACACCGTTGGATATCCGA
3802617 CTCATAATAA
Statistics
Matches: 210, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
243 28 0.13
244 181 0.86
245 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (243 bp):
ATGCTTCATCGGCCAATCTTTGCTATGATTCCCACGCGCATATACTTTATGCAAATCGTCAATGT
TATGTATTGACATTTCTATTGGTTGGTGAAACCCAAATTATCGTAAAACTCTATCGACAGCATGG
ATCTCAACAATTGTGAAATGGAGCAATGGTGTTATGGCACACCATGTGTCCGCTCCTTCAAAGAA
ATTGGCGGTAGACACCGTTGGATATCCGATTAAACTGTCAAAAGTATT
Found at i:3803206 original size:8 final size:8
Alignment explanation
Indices: 3803193--3803220 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
3803183 TGGGGATAAA
3803193 AGTTGAAT
1 AGTTGAAT
3803201 AGTTGAAT
1 AGTTGAAT
3803209 AGTTGAAT
1 AGTTGAAT
3803217 AGTT
1 AGTT
3803221 CAATGATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.25, T:0.39
Consensus pattern (8 bp):
AGTTGAAT
Found at i:3811287 original size:24 final size:24
Alignment explanation
Indices: 3811260--3811314 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 24
3811250 AATTTTTCTC
*
3811260 CTCTTGTGATAAATATTCTCTTTA
1 CTCTTGTGATAAATATTCTCTGTA
**
3811284 CTC-T-TGATATGTATTCTCTGTA
1 CTCTTGTGATAAATATTCTCTGTA
3811306 CTCTTGTGA
1 CTCTTGTGA
3811315 CACGTTCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 18 0.69
23 2 0.08
24 6 0.23
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (24 bp):
CTCTTGTGATAAATATTCTCTGTA
Found at i:3818723 original size:18 final size:19
Alignment explanation
Indices: 3818678--3818741 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 19
3818668 CTTAGGCCGT
3818678 AAAATAATTTTTTATGT-A
1 AAAATAATTTTTTATGTCA
3818696 AAATAGTAATTTTTT-TGTCA
1 AAA-A-TAATTTTTTATGTCA
*
3818716 AAAATAATTTTATTCTGTCA
1 AAAATAATTTT-TTATGTCA
3818736 ACAAAT
1 A-AAAT
3818742 TTTAACTTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
18 10 0.25
19 7 0.17
20 19 0.47
21 4 0.10
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (19 bp):
AAAATAATTTTTTATGTCA
Found at i:3819109 original size:121 final size:120
Alignment explanation
Indices: 3818882--3819116 Score: 273
Period size: 121 Copynumber: 1.9 Consensus size: 120
3818872 GCAACCCAGT
* *
3818882 TTTCAAATTCGCAACGCGAATATGTAAATCGCAACACAGAAGTCAAATTCGCAACACAAAGTCAA
1 TTTCAAATTCGCAACACGAATAAGTAAATCGCAACACAGAAGTCAAATTCGCAACACAAAGTCAA
* * * * *
3818947 ATTCGCAACGTGATAGTCAAATTCGCAATGCTGAATTTCAAATTCGCAACGCTGAA
66 ATTC-CAACGCGAAAGTCAAATTCGCAAAGCCGAATGTCAAATTCGCAACGCTGAA
* * * *
3819003 TTTCAAATTCGCAACAC-AA-AAGTCAAATTCGCAACGC-GATAGTCAAATTTGCAACGCGATAG
1 TTTCAAATTCGCAACACGAATAAGT-AAA-TCGCAACACAGA-AGTCAAATTCGCAACAC-AAAG
3819065 TCAAATT-CAACGCGAAAGTCAAATTCGCAAAGCGCGTAA-GTCAAATTCGCAA
62 TCAAATTCCAACGCGAAAGTCAAATTCGCAAAGC-CG-AATGTCAAATTCGCAA
3819117 AGCGCGTTTA
Statistics
Matches: 97, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
119 3 0.03
120 30 0.31
121 52 0.54
122 12 0.12
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.22
Consensus pattern (120 bp):
TTTCAAATTCGCAACACGAATAAGTAAATCGCAACACAGAAGTCAAATTCGCAACACAAAGTCAA
ATTCCAACGCGAAAGTCAAATTCGCAAAGCCGAATGTCAAATTCGCAACGCTGAA
Found at i:3819123 original size:22 final size:19
Alignment explanation
Indices: 3818884--3819116 Score: 204
Period size: 20 Copynumber: 11.6 Consensus size: 19
3818874 AACCCAGTTT
3818884 TCAAATTCGCAACGCGAATATG
1 TCAAATTCGCAACGCG-A-A-G
*
3818906 T-AAA-TCGCAACACAGAAG
1 TCAAATTCGCAACGC-GAAG
* *
3818924 TCAAATTCGCAACACAAAG
1 TCAAATTCGCAACGCGAAG
*
3818943 TCAAATTCGCAACGTGATAG
1 TCAAATTCGCAACGCGA-AG
* *
3818963 TCAAATTCGCAATGCTGAATT
1 TCAAATTCGCAACGC-GAA-G
*
3818984 TCAAATTCGCAACGCTGAATT
1 TCAAATTCGCAACGC-GAA-G
* *
3819005 TCAAATTCGCAACACAAAAG
1 TCAAATTCGCAACGC-GAAG
3819025 TCAAATTCGCAACGCGATAG
1 TCAAATTCGCAACGCGA-AG
*
3819045 TCAAATTTGCAACGCGATAG
1 TCAAATTCGCAACGCGA-AG
3819065 TCAAATT--CAACGCGAAAG
1 TCAAATTCGCAACGCG-AAG
3819083 TCAAATTCGCAAAGCGCGTAAG
1 TCAAATTCGC-AA-CGCG-AAG
3819105 TCAAATTCGCAA
1 TCAAATTCGCAA
3819117 AGCGCGTTTA
Statistics
Matches: 182, Mismatches: 17, Indels: 25
0.81 0.08 0.11
Matches are distributed among these distances:
18 18 0.10
19 23 0.13
20 77 0.42
21 46 0.25
22 18 0.10
ACGTcount: A:0.39, C:0.23, G:0.16, T:0.21
Consensus pattern (19 bp):
TCAAATTCGCAACGCGAAG
Found at i:3819301 original size:22 final size:22
Alignment explanation
Indices: 3819276--3819326 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 22
3819266 CTACGGCGAC
3819276 ATCCG-CCCCTATCTCCGACGAA
1 ATCCGTCCCC-ATCTCCGACGAA
3819298 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
3819320 ATCCGTC
1 ATCCGTC
3819327 TATCTCCATC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 24 0.86
23 4 0.14
ACGTcount: A:0.22, C:0.45, G:0.14, T:0.20
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:3821931 original size:21 final size:21
Alignment explanation
Indices: 3821840--3821938 Score: 103
Period size: 21 Copynumber: 4.7 Consensus size: 21
3821830 GATGCACCTA
* *
3821840 TCATTGTTCAAGAGGCACCTC
1 TCATCGTTCAAGAGGCCCCTC
*
3821861 -CTATCATTCAAGAGGCCCCTC
1 TC-ATCGTTCAAGAGGCCCCTC
*
3821882 TCATC-ATCGAAGAGGCCCCTC
1 TCATCGTTC-AAGAGGCCCCTC
* * *
3821903 CCACCGTTCAAGAGGCCCCTG
1 TCATCGTTCAAGAGGCCCCTC
3821924 TCATCGTTCAAGAGG
1 TCATCGTTCAAGAGG
3821939 TCCCGCCTGT
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
20 3 0.05
21 58 0.91
22 3 0.05
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.22
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:3821937 original size:42 final size:42
Alignment explanation
Indices: 3821840--3821938 Score: 119
Period size: 42 Copynumber: 2.4 Consensus size: 42
3821830 GATGCACCTA
* * *
3821840 TCATTGTTCAAGAGGCACCTCCTATCATTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGGCACCTCCCACCATTCAAGAGGCCCCTC
* * * *
3821882 TCATC-ATCGAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTG
1 TCATCGTTC-AAGAGGCACCTCCCACCATTCAAGAGGCCCCTC
3821924 TCATCGTTCAAGAGG
1 TCATCGTTCAAGAGG
3821939 TCCCGCCTGT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
41 2 0.04
42 43 0.91
43 2 0.04
ACGTcount: A:0.23, C:0.34, G:0.20, T:0.22
Consensus pattern (42 bp):
TCATCGTTCAAGAGGCACCTCCCACCATTCAAGAGGCCCCTC
Found at i:3823585 original size:20 final size:20
Alignment explanation
Indices: 3823551--3823606 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
3823541 TTTTCTCGTT
*
3823551 GCGATAGTCAAATTCGCAAC
1 GCGAAAGTCAAATTCGCAAC
** * *
3823571 GTTAAAGTTAAATTCACAAC
1 GCGAAAGTCAAATTCGCAAC
3823591 GCGAAAGTCAAATTCG
1 GCGAAAGTCAAATTCG
3823607 TGTTTCGATT
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (20 bp):
GCGAAAGTCAAATTCGCAAC
Found at i:3823931 original size:6 final size:6
Alignment explanation
Indices: 3823922--3823956 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
3823912 TTGTGATTGA
**
3823922 GATTTT GATTTT GATTGC GATTTT GATTTT GATTT
1 GATTTT GATTTT GATTTT GATTTT GATTTT GATTT
3823957 CCTTTTGCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.17, C:0.03, G:0.20, T:0.60
Consensus pattern (6 bp):
GATTTT
Found at i:3823938 original size:18 final size:18
Alignment explanation
Indices: 3823915--3823955 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
3823905 AAGCCGGTTG
3823915 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
3823933 TGATTGCGATTTTGATTT
1 TGATTGAGATTTTGATTT
3823951 TGATT
1 TGATT
3823956 TCCTTTTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.02, G:0.22, T:0.56
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:3830802 original size:18 final size:17
Alignment explanation
Indices: 3830775--3830808 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
3830765 GTATACAAAT
*
3830775 TAAAATATAAACTAATAC
1 TAAAAAATAAA-TAATAC
3830793 TAAAAAATAAATAATA
1 TAAAAAATAAATAATA
3830809 TTCTTAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAAAAATAAATAATAC
Found at i:3831975 original size:2 final size:2
Alignment explanation
Indices: 3831968--3832013 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
3831958 AATAAAAGTC
3831968 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3832010 AT AT
1 AT AT
3832014 TCTTTTATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3837958 original size:2 final size:2
Alignment explanation
Indices: 3837951--3837996 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
3837941 TGTTATTTAA
3837951 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3837993 AT AT
1 AT AT
3837997 GAATCGGGTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3842677 original size:42 final size:41
Alignment explanation
Indices: 3842630--3842709 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 41
3842620 TCGATACCGA
**
3842630 ATGAACTGTTATCCATATCGAATGAGTTGG-TATCCATACTAG
1 ATGAACTGAGATCCATATCGAA-GA-TTGGATATCCATACTAG
*
3842672 ATGAACTGAGATCCATATCGAAGATTGGATATTCATAC
1 ATGAACTGAGATCCATATCGAAGATTGGATATCCATAC
3842710 CGAAGGCTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 4 0.12
41 10 0.29
42 20 0.59
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (41 bp):
ATGAACTGAGATCCATATCGAAGATTGGATATCCATACTAG
Found at i:3843845 original size:34 final size:34
Alignment explanation
Indices: 3843802--3843868 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
3843792 TGTAAAAGGA
*
3843802 AAGGTTCTAGCTGAGCCCTTGAAAAGA-TAGGGAT
1 AAGGTTCTAGCTGAGCCCATGAAAA-ACTAGGGAT
* *
3843836 AAGGTTCTAGTTTAGCCCATGAAAAACTAGGGA
1 AAGGTTCTAGCTGAGCCCATGAAAAACTAGGGA
3843869 GTTGTAAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 1 0.03
34 28 0.97
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (34 bp):
AAGGTTCTAGCTGAGCCCATGAAAAACTAGGGAT
Found at i:3847162 original size:17 final size:17
Alignment explanation
Indices: 3847140--3847172 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
3847130 TGTACTTTAG
3847140 ATAGATGGTTTAGTAGC
1 ATAGATGGTTTAGTAGC
3847157 ATAGATGGTTTAGTAG
1 ATAGATGGTTTAGTAG
3847173 TATTGCTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.30, T:0.36
Consensus pattern (17 bp):
ATAGATGGTTTAGTAGC
Done.