Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold25
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: 9553305
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 6276 characters in sequence are not A, C, G, or T
File 34 of 56
Found at i:5809706 original size:39 final size:39
Alignment explanation
Indices: 5809652--5809733 Score: 164
Period size: 39 Copynumber: 2.1 Consensus size: 39
5809642 ATTACTAACA
5809652 TATATAGATGAAAAAGAAAATTTCATTAAAAATGGAGAT
1 TATATAGATGAAAAAGAAAATTTCATTAAAAATGGAGAT
5809691 TATATAGATGAAAAAGAAAATTTCATTAAAAATGGAGAT
1 TATATAGATGAAAAAGAAAATTTCATTAAAAATGGAGAT
5809730 TATA
1 TATA
5809734 AAGAATATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.54, C:0.02, G:0.15, T:0.29
Consensus pattern (39 bp):
TATATAGATGAAAAAGAAAATTTCATTAAAAATGGAGAT
Found at i:5810006 original size:17 final size:18
Alignment explanation
Indices: 5809984--5810028 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
5809974 ACTTTATTGC
* *
5809984 TATT-AATAATATTTACT
1 TATTAAATAATACTTAAT
5810001 TATTAAATAA-ACTTAAT
1 TATTAAATAATACTTAAT
5810018 TATTAAATAAT
1 TATTAAATAAT
5810029 CTCAAATTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 19 0.79
18 5 0.21
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAATAATACTTAAT
Found at i:5813144 original size:79 final size:79
Alignment explanation
Indices: 5813059--5813513 Score: 236
Period size: 79 Copynumber: 5.8 Consensus size: 79
5813049 TCATCTCGGG
*
5813059 GATACTCCAACCCTGGTTTTATTTTCAAAACATCAATTTTTCATAATCGGGGATACTCCAATCCC
1 GATACTCCAACCCCGGTTTTATTTTCAAAACATCAATTTTTCATAATCGGGGATACTCCAATCCC
5813124 GTTATTTTCGAGGA
66 GTTATTTTCGAGGA
* * * ** * *
5813138 GATACTCCAACCCCGATTTTATTTTTAAAACATTACCTTTTCACAATCGGGGATACTCCAATTCC
1 GATACTCCAACCCCGGTTTTATTTTCAAAACATCAATTTTTCATAATCGGGGATACTCCAATCCC
* **
5813203 GATTTTATTTTCAAAATA
66 G---TTATTTTC-GAGGA
* ** * ** ** * *
5813221 CCAATTTTTCACAA--TCGG--AGATACTC-CAAC-TCCATTATTTC---ATCGGGGATACTCCA
1 --GA-TACTC-CAACCCCGGTTTTATTTTCAAAACATCAATT-TTTCATAATCGGGGATACTCCA
* *
5813277 ACCCCGTTATTTTCGAGGG
61 ATCCCGTTATTTTCGAGGA
* * * *
5813296 GATACTCCAACCCCGGCTTTA-TTTCTAAAATATTAATTTCTCATAAT-GGAGGATACTCCAATC
1 GATACTCCAACCCCGGTTTTATTTTC-AAAACATCAATTTTTCATAATCGG-GGATACTCCAATC
* *
5813359 CCATTATTTTC-ACGGG
64 CCGTTATTTTCGA-GGA
* * * ** * * * * * *
5813375 GATACTCAAACCCCAGTCTTA-TTTCTAAAGTATCGATTTTCCACAATCAGGGATACTCTAACCC
1 GATACTCCAACCCCGGTTTTATTTTC-AAAACATCAATTTTTCATAATCGGGGATACTCCAATCC
* *
5813439 CGTTA-TTTCTTAAGA
65 CGTTATTTTC-GAGGA
* *** * * * *
5813454 GATACTCTAACCCTAATTTTATTTCCAGAGCACCAATTTTTCATAATCGGGGATACTCCA
1 GATACTCCAACCCCGGTTTTATTTTCAAAACATCAATTTTTCATAATCGGGGATACTCCA
5813514 GCCCCGTTGT
Statistics
Matches: 275, Mismatches: 76, Indels: 50
0.69 0.19 0.12
Matches are distributed among these distances:
71 3 0.01
72 3 0.01
73 4 0.01
74 2 0.01
75 2 0.01
76 13 0.05
77 4 0.01
78 7 0.03
79 201 0.73
80 5 0.02
81 2 0.01
82 15 0.05
83 5 0.02
85 3 0.01
86 3 0.01
87 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (79 bp):
GATACTCCAACCCCGGTTTTATTTTCAAAACATCAATTTTTCATAATCGGGGATACTCCAATCCC
GTTATTTTCGAGGA
Found at i:5813205 original size:51 final size:51
Alignment explanation
Indices: 5813135--5813250 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 51
5813125 TTATTTTCGA
* ** *
5813135 GGAGATACTCCAACCCCGATTTTATTTTTAAAACATTACCTTTTCACAATC
1 GGAGATACTCCAACCCCGATTTTATTTTCAAAACACCAACTTTTCACAATC
* ** * *
5813186 GGGGATACTCCAATTCCGATTTTATTTTCAAAATACCAATTTTTCACAATC
1 GGAGATACTCCAACCCCGATTTTATTTTCAAAACACCAACTTTTCACAATC
5813237 GGAGATACTCCAAC
1 GGAGATACTCCAAC
5813251 TCCATTATTT
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.34
Consensus pattern (51 bp):
GGAGATACTCCAACCCCGATTTTATTTTCAAAACACCAACTTTTCACAATC
Found at i:5813310 original size:28 final size:27
Alignment explanation
Indices: 5813240--5813310 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 27
5813230 CACAATCGGA
* *
5813240 GATACTCCAACTCCATTATTTCATCGGG
1 GATACTCCAACCCCGTTATTTCA-CGGG
5813268 GATACTCCAACCCCGTTATTTTCGA-GGG
1 GATACTCCAACCCCGTTA-TTTC-ACGGG
5813296 GATACTCCAACCCCG
1 GATACTCCAACCCCG
5813311 GCTTTATTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 34 0.87
29 4 0.10
30 1 0.03
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (27 bp):
GATACTCCAACCCCGTTATTTCACGGG
Found at i:5813317 original size:107 final size:107
Alignment explanation
Indices: 5813186--5813388 Score: 261
Period size: 107 Copynumber: 1.9 Consensus size: 107
5813176 TTTCACAATC
** * *
5813186 GGGGATACTCCAATTCCGATTTTATTT-TCAAAATACCAATTTTTCACAATCGGA-GATACTCCA
1 GGGGATACTCCAACCCCGACTTTATTTCT-AAAATACCAATTTCTCACAAT-GGAGGATACTCCA
*
5813249 A-CTCCATTA-TTTCATCGGGGATACTCCAACCCCGTTATTTTCGA
64 ATC-CCATTATTTTCA-CGGGGATACTCAAACCCCGTTATTTTCGA
* ** *
5813293 GGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTAATTTCTCATAATGGAGGATACTCCAAT
1 GGGGATACTCCAACCCCGACTTTATTTCTAAAATACCAATTTCTCACAATGGAGGATACTCCAAT
5813358 CCCATTATTTTCACGGGGATACTCAAACCCC
66 CCCATTATTTTCACGGGGATACTCAAACCCC
5813389 AGTCTTATTT
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
106 3 0.04
107 73 0.88
108 7 0.08
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.32
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCTAAAATACCAATTTCTCACAATGGAGGATACTCCAAT
CCCATTATTTTCACGGGGATACTCAAACCCCGTTATTTTCGA
Found at i:5816614 original size:17 final size:17
Alignment explanation
Indices: 5816577--5816633 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 17
5816567 AGCCTATTAC
*
5816577 TTTA-TCACAAAGAATA
1 TTTACTCACTAAGAATA
* * *
5816593 CTTACTCACTAAGACTT
1 TTTACTCACTAAGAATA
*
5816610 TTTACT-ATTAAGAATA
1 TTTACTCACTAAGAATA
5816626 TTTACTCA
1 TTTACTCA
5816634 TTAAATAAAT
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
16 16 0.52
17 15 0.48
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.39
Consensus pattern (17 bp):
TTTACTCACTAAGAATA
Found at i:5816629 original size:16 final size:17
Alignment explanation
Indices: 5816586--5816655 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 17
5816576 CTTTATCACA
* *
5816586 AAGAATACTTACTCACT
1 AAGAATATTTACTCATT
* *
5816603 AAGACTTTTTACT-ATT
1 AAGAATATTTACTCATT
5816619 AAGAATATTTACTCATT
1 AAGAATATTTACTCATT
* *
5816636 AA-ATAAATTTACTTATT
1 AAGA-ATATTTACTCATT
5816653 AAG
1 AAG
5816656 TAATCTCCAA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
16 14 0.33
17 28 0.67
ACGTcount: A:0.41, C:0.13, G:0.06, T:0.40
Consensus pattern (17 bp):
AAGAATATTTACTCATT
Found at i:5817623 original size:12 final size:12
Alignment explanation
Indices: 5817608--5817657 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
5817598 AATTTTATTG
5817608 AAATATAAAAAT
1 AAATATAAAAAT
5817620 AAATAGT--AAAT
1 AAATA-TAAAAAT
*
5817631 AATATTTAAAAAT
1 AA-ATATAAAAAT
*
5817644 AAATATAGAAAT
1 AAATATAAAAAT
5817656 AA
1 AA
5817658 TTTTTACTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
11 7 0.23
12 17 0.55
13 7 0.23
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (12 bp):
AAATATAAAAAT
Found at i:5819487 original size:22 final size:21
Alignment explanation
Indices: 5819462--5819515 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
5819452 ATTTATTTAA
5819462 TAAAAATTTTTAATTTTAAATT
1 TAAAAATTTTTAA-TTTAAATT
* * *
5819484 TAAATAGTATTTGATTTAAATT
1 TAAA-AATTTTTAATTTAAATT
*
5819506 AAAAAATTTT
1 TAAAAATTTT
5819516 AAAAAAATTA
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
21 4 0.16
22 15 0.60
23 6 0.24
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (21 bp):
TAAAAATTTTTAATTTAAATT
Found at i:5820210 original size:2 final size:2
Alignment explanation
Indices: 5820198--5820238 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
5820188 ATTGACTATG
* *
5820198 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5820239 TAGTGTAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:5820404 original size:2 final size:2
Alignment explanation
Indices: 5820397--5820427 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
5820387 TAACTATAAC
5820397 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5820428 TTAACTCATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5825242 original size:16 final size:15
Alignment explanation
Indices: 5825205--5825276 Score: 81
Period size: 16 Copynumber: 4.6 Consensus size: 15
5825195 GTTAATTAAA
* *
5825205 TTAATTCAAATCATT
1 TTAATTTAAATTATT
*
5825220 TTAATTTTTAATTATT
1 TTAA-TTTAAATTATT
*
5825236 TTTATTTAAATTATT
1 TTAATTTAAATTATT
5825251 TTGAATTTAAATTATT
1 TT-AATTTAAATTATT
5825267 TTAAGTTTAA
1 TTAA-TTTAA
5825277 GTATTTTTGA
Statistics
Matches: 48, Mismatches: 6, Indels: 5
0.81 0.10 0.08
Matches are distributed among these distances:
15 18 0.38
16 30 0.62
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (15 bp):
TTAATTTAAATTATT
Found at i:5828632 original size:18 final size:17
Alignment explanation
Indices: 5828595--5828646 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
5828585 AAAAAGAAGG
5828595 AAAAAGGAAAGAAAATA
1 AAAAAGGAAAGAAAATA
5828612 AAAAAGGCAAACGAAAA-A
1 AAAAAGG-AAA-GAAAATA
*
5828630 AAAAA-CAAAG-AAATA
1 AAAAAGGAAAGAAAATA
5828645 AA
1 AA
5828647 TGAAATAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
14 3 0.10
15 4 0.13
16 3 0.10
17 7 0.23
18 9 0.29
19 5 0.16
ACGTcount: A:0.77, C:0.06, G:0.13, T:0.04
Consensus pattern (17 bp):
AAAAAGGAAAGAAAATA
Found at i:5835786 original size:21 final size:20
Alignment explanation
Indices: 5835757--5835799 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
5835747 GACTAGTATG
* *
5835757 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
5835778 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
5835798 GG
1 GG
5835800 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:5836257 original size:13 final size:13
Alignment explanation
Indices: 5836239--5836276 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
5836229 ATAATCCCCC
*
5836239 TGTATCAATACAG
1 TGTATCGATACAG
*
5836252 TGTATCGATACAT
1 TGTATCGATACAG
5836265 TGTATCGATACA
1 TGTATCGATACA
5836277 AAGAAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:5840211 original size:21 final size:21
Alignment explanation
Indices: 5840182--5840226 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
5840172 AAGTTTTTAT
*
5840182 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
5840202 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
5840224 TTT
1 TTT
5840227 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:5842465 original size:13 final size:13
Alignment explanation
Indices: 5842447--5842471 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5842437 AATTTTTTTA
5842447 TGTATCGATACAT
1 TGTATCGATACAT
5842460 TGTATCGATACA
1 TGTATCGATACA
5842472 CAAAGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5845049 original size:13 final size:13
Alignment explanation
Indices: 5845031--5845068 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
5845021 ATAATCCCCC
*
5845031 TGTATCAATACAG
1 TGTATCGATACAG
*
5845044 TGTATCGATACAT
1 TGTATCGATACAG
5845057 TGTATCGATACA
1 TGTATCGATACA
5845069 AAGAAAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:5849003 original size:21 final size:21
Alignment explanation
Indices: 5848974--5849018 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
5848964 AAGTTTTTAT
*
5848974 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
5848994 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
5849016 TTT
1 TTT
5849019 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:5851257 original size:13 final size:13
Alignment explanation
Indices: 5851239--5851263 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5851229 AATTTTTTTA
5851239 TGTATCGATACAT
1 TGTATCGATACAT
5851252 TGTATCGATACA
1 TGTATCGATACA
5851264 CAAAGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5852640 original size:21 final size:21
Alignment explanation
Indices: 5852614--5852668 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
5852604 AAAGATATAT
* *
5852614 TTGGATGAAATAATGCATTAG
1 TTGGATGAAAAAATACATTAG
**
5852635 TTGGATGAAAAAATACATTTT
1 TTGGATGAAAAAATACATTAG
5852656 TTGGATGAAAAAA
1 TTGGATGAAAAAA
5852669 AAATGTAACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.44, C:0.04, G:0.20, T:0.33
Consensus pattern (21 bp):
TTGGATGAAAAAATACATTAG
Found at i:5854493 original size:258 final size:258
Alignment explanation
Indices: 5854036--5854557 Score: 1035
Period size: 258 Copynumber: 2.0 Consensus size: 258
5854026 GCTACTATCC
5854036 ATGTATGCAATAACCAAGAGCACTTCAAAAACTATAAAGAAGTTGAAAACCGAGAGGTTCTTATG
1 ATGTATGCAATAACCAAGAGCACTTCAAAAACTATAAAGAAGTTGAAAACCGAGAGGTTCTTATG
*
5854101 GGCAATAACAATTTTACCAAGGTGTTTGGTCAAGGGATGGTAGAACTAAATTTTACTTTTGGAAA
66 GGCAATAACAATTTTACCAAGGTGTTCGGTCAAGGGATGGTAGAACTAAATTTTACTTTTGGAAA
5854166 GAAATTAACTTTAATAAATATTCTTCATGTTCTGGATTTGAGGAAGAACTTAACGCCTACTAGTT
131 GAAATTAACTTTAATAAATATTCTTCATGTTCTGGATTTGAGGAAGAACTTAACGCCTACTAGTT
5854231 TGCTCTGTAAGAAAGGGTTTAAGGTTATCTTAGAATCCGATAAGGTTATCTTGCTCAAGAATA
196 TGCTCTGTAAGAAAGGGTTTAAGGTTATCTTAGAATCCGATAAGGTTATCTTGCTCAAGAATA
5854294 ATGTATGCAATAACCAAGAGCACTTCAAAAACTATAAAGAAGTTGAAAACCGAGAGGTTCTTATG
1 ATGTATGCAATAACCAAGAGCACTTCAAAAACTATAAAGAAGTTGAAAACCGAGAGGTTCTTATG
5854359 GGCAATAACAATTTTACCAAGGTGTTCGGTCAAGGGATGGTAGAACTAAATTTTACTTTTGGAAA
66 GGCAATAACAATTTTACCAAGGTGTTCGGTCAAGGGATGGTAGAACTAAATTTTACTTTTGGAAA
5854424 GAAATTAACTTTAATAAATATTCTTCATGTTCTGGATTTGAGGAAGAACTTAACGCCTACTAGTT
131 GAAATTAACTTTAATAAATATTCTTCATGTTCTGGATTTGAGGAAGAACTTAACGCCTACTAGTT
5854489 TGCTCTGTAAGAAAGGGTTTAAGGTTATCTTAGAATCCGATAAGGTTATCTTGCTCAAGAATA
196 TGCTCTGTAAGAAAGGGTTTAAGGTTATCTTAGAATCCGATAAGGTTATCTTGCTCAAGAATA
5854552 ATGTAT
1 ATGTAT
5854558 TTGTGGGAAA
Statistics
Matches: 263, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
258 263 1.00
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (258 bp):
ATGTATGCAATAACCAAGAGCACTTCAAAAACTATAAAGAAGTTGAAAACCGAGAGGTTCTTATG
GGCAATAACAATTTTACCAAGGTGTTCGGTCAAGGGATGGTAGAACTAAATTTTACTTTTGGAAA
GAAATTAACTTTAATAAATATTCTTCATGTTCTGGATTTGAGGAAGAACTTAACGCCTACTAGTT
TGCTCTGTAAGAAAGGGTTTAAGGTTATCTTAGAATCCGATAAGGTTATCTTGCTCAAGAATA
Found at i:5865957 original size:21 final size:21
Alignment explanation
Indices: 5865891--5865959 Score: 61
Period size: 25 Copynumber: 3.1 Consensus size: 21
5865881 GAACTTTAAA
*
5865891 AAGGAGGAGAAAAATC-TATT
1 AAGGGGGAGAAAAATCTTATT
*
5865911 AAGGGAGAGTATTAAATAT-TTCATT
1 AAGGGGGAG-A--AAA-ATCTT-ATT
5865936 AAGGGGGAGAAAAATCTTATT
1 AAGGGGGAGAAAAATCTTATT
5865957 AAG
1 AAG
5865960 TAGCAGCACT
Statistics
Matches: 39, Mismatches: 3, Indels: 13
0.71 0.05 0.24
Matches are distributed among these distances:
20 7 0.18
21 9 0.23
22 5 0.13
23 3 0.08
24 4 0.10
25 11 0.28
ACGTcount: A:0.45, C:0.04, G:0.25, T:0.26
Consensus pattern (21 bp):
AAGGGGGAGAAAAATCTTATT
Found at i:5867710 original size:21 final size:21
Alignment explanation
Indices: 5867684--5867735 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
5867674 AAAGATATAT
*
5867684 TTGGATGAAATG-ATGCATTTG
1 TTGGATGAAA-GAATACATTTG
*
5867705 TTGGATGAAAGAATACATTTT
1 TTGGATGAAAGAATACATTTG
5867726 TTGGATGAAA
1 TTGGATGAAA
5867736 AAATGTAGCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 1 0.04
21 27 0.96
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.37
Consensus pattern (21 bp):
TTGGATGAAAGAATACATTTG
Found at i:5868539 original size:103 final size:105
Alignment explanation
Indices: 5868404--5868592 Score: 292
Period size: 103 Copynumber: 1.8 Consensus size: 105
5868394 GCCTTACCTC
* * **
5868404 TTCCAACTTCGATTCTCTTCTTGTAAACCTTCTCATAATGACAACATCCAACTTTCCAATTTGAT
1 TTCCAACTTCGATTCTCTTCTTGCAAACCTTCTCACAACAACAACATCCAACTTTCCAATTTGAT
5868469 T-TCTTCCTGCAAACCTTCTCCTAGCAACAACATCCAACT
66 TCTCTTCCTGCAAACCTTCTCCTAGCAACAACATCCAACT
* * * *
5868508 TTCCAAC-TCGATTCTCTTCTTGCAAATCTTCTCCCAGCAACAACATCCAGCTTTCCAATTTGAT
1 TTCCAACTTCGATTCTCTTCTTGCAAACCTTCTCACAACAACAACATCCAACTTTCCAATTTGAT
5868572 TCTCTTCCTGCAAACCTTCTC
66 TCTCTTCCTGCAAACCTTCTC
5868593 TCAGTGACAA
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
103 50 0.66
104 26 0.34
ACGTcount: A:0.25, C:0.33, G:0.06, T:0.35
Consensus pattern (105 bp):
TTCCAACTTCGATTCTCTTCTTGCAAACCTTCTCACAACAACAACATCCAACTTTCCAATTTGAT
TCTCTTCCTGCAAACCTTCTCCTAGCAACAACATCCAACT
Found at i:5868547 original size:52 final size:52
Alignment explanation
Indices: 5868404--5868617 Score: 232
Period size: 52 Copynumber: 4.1 Consensus size: 52
5868394 GCCTTACCTC
* * ** ***
5868404 TTCCAACTTCGATTCTCTTCTTGTAAACCTTCTCATAATGACAACATCCAACT
1 TTCCAAC-TCGATTCTCTTCCTGCAAACCTTCTCCCAGCAACAACATCCAACT
* * *
5868457 TTCCAATTTGATT-TCTTCCTGCAAACCTTCTCCTAGCAACAACATCCAACT
1 TTCCAACTCGATTCTCTTCCTGCAAACCTTCTCCCAGCAACAACATCCAACT
* * *
5868508 TTCCAACTCGATTCTCTTCTTGCAAATCTTCTCCCAGCAACAACATCCAGCT
1 TTCCAACTCGATTCTCTTCCTGCAAACCTTCTCCCAGCAACAACATCCAACT
* * * ** * *
5868560 TTCCAATTTGATTCTCTTCCTGCAAACCTTCTCTCAGTGACAACATCTAGCT
1 TTCCAACTCGATTCTCTTCCTGCAAACCTTCTCCCAGCAACAACATCCAACT
5868612 TTCCAA
1 TTCCAA
5868618 AGGTAAACAA
Statistics
Matches: 138, Mismatches: 22, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
51 43 0.31
52 89 0.64
53 6 0.04
ACGTcount: A:0.26, C:0.33, G:0.07, T:0.34
Consensus pattern (52 bp):
TTCCAACTCGATTCTCTTCCTGCAAACCTTCTCCCAGCAACAACATCCAACT
Found at i:5872455 original size:183 final size:183
Alignment explanation
Indices: 5872147--5872512 Score: 732
Period size: 183 Copynumber: 2.0 Consensus size: 183
5872137 GAATCAAGGT
5872147 ATAATTTTAACTTTTACAAACATTATATTTTTAATAATTTTAGTAGTTTTGTGATATAGAGTTCT
1 ATAATTTTAACTTTTACAAACATTATATTTTTAATAATTTTAGTAGTTTTGTGATATAGAGTTCT
5872212 AATGTATATATAAAGTTGTGAAAGATGTGTCTTGATTTAAACTGAGTTGGAATGTTATAGCACAT
66 AATGTATATATAAAGTTGTGAAAGATGTGTCTTGATTTAAACTGAGTTGGAATGTTATAGCACAT
5872277 TAATATGTGAAGATGAAAAGGAACTGATACATAGTACAATTACATGCATTTTG
131 TAATATGTGAAGATGAAAAGGAACTGATACATAGTACAATTACATGCATTTTG
5872330 ATAATTTTAACTTTTACAAACATTATATTTTTAATAATTTTAGTAGTTTTGTGATATAGAGTTCT
1 ATAATTTTAACTTTTACAAACATTATATTTTTAATAATTTTAGTAGTTTTGTGATATAGAGTTCT
5872395 AATGTATATATAAAGTTGTGAAAGATGTGTCTTGATTTAAACTGAGTTGGAATGTTATAGCACAT
66 AATGTATATATAAAGTTGTGAAAGATGTGTCTTGATTTAAACTGAGTTGGAATGTTATAGCACAT
5872460 TAATATGTGAAGATGAAAAGGAACTGATACATAGTACAATTACATGCATTTTG
131 TAATATGTGAAGATGAAAAGGAACTGATACATAGTACAATTACATGCATTTTG
5872513 TAAGCTTACT
Statistics
Matches: 183, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
183 183 1.00
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.40
Consensus pattern (183 bp):
ATAATTTTAACTTTTACAAACATTATATTTTTAATAATTTTAGTAGTTTTGTGATATAGAGTTCT
AATGTATATATAAAGTTGTGAAAGATGTGTCTTGATTTAAACTGAGTTGGAATGTTATAGCACAT
TAATATGTGAAGATGAAAAGGAACTGATACATAGTACAATTACATGCATTTTG
Found at i:5876297 original size:20 final size:20
Alignment explanation
Indices: 5876274--5876324 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
5876264 TATCGGTATA
5876274 ATGTATCGATACA-TTACAAT
1 ATGTATCGATACATTTAC-AT
* *
5876294 ATGTATCGATATATTTTCAT
1 ATGTATCGATACATTTACAT
5876314 ATGTATCGATA
1 ATGTATCGATA
5876325 GAAATGAGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 25 0.89
21 3 0.11
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTACAT
Found at i:5877510 original size:10 final size:10
Alignment explanation
Indices: 5877495--5877527 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
5877485 ATTTTTTGTG
5877495 TTTGTTTAAT
1 TTTGTTTAAT
5877505 TTTGTTTAAT
1 TTTGTTTAAT
*
5877515 TTTATTTAAT
1 TTTGTTTAAT
5877525 TTT
1 TTT
5877528 TCATATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.73
Consensus pattern (10 bp):
TTTGTTTAAT
Found at i:5877979 original size:40 final size:40
Alignment explanation
Indices: 5877896--5878000 Score: 103
Period size: 40 Copynumber: 2.7 Consensus size: 40
5877886 TTTATATTAT
* **
5877896 TTTTATATAT-TTTA-TTATATTATGATTGAATTTAAAATA
1 TTTTATATATAATTATTTATATTAT-ATAAAATTTAAAATA
*
5877935 -TTTATATATAATTATTTATATTATATAAAATTTTAAATA
1 TTTTATATATAATTATTTATATTATATAAAATTTAAAATA
*
5877974 TTTTATGTCATAA-T-TTTATTATTATAT
1 TTTTATAT-ATAATTATTTA-TATTATAT
5878001 TTTATATTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
38 9 0.16
39 19 0.34
40 24 0.43
41 4 0.07
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (40 bp):
TTTTATATATAATTATTTATATTATATAAAATTTAAAATA
Found at i:5877992 original size:39 final size:39
Alignment explanation
Indices: 5877897--5877976 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 39
5877887 TTATATTATT
* **
5877897 TTTATATAT-TTTA-TTATATTATGATTGAATTTAAAATA
1 TTTATATATAATTATTTATATTAT-ATAAAATTTAAAATA
*
5877935 TTTATATATAATTATTTATATTATATAAAATTTTAAATA
1 TTTATATATAATTATTTATATTATATAAAATTTAAAATA
5877974 TTT
1 TTT
5877977 TATGTCATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 9 0.25
39 18 0.50
40 9 0.25
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (39 bp):
TTTATATATAATTATTTATATTATATAAAATTTAAAATA
Found at i:5878010 original size:12 final size:12
Alignment explanation
Indices: 5877971--5878037 Score: 62
Period size: 12 Copynumber: 5.2 Consensus size: 12
5877961 AAAATTTTAA
* *
5877971 ATATTTTATGTC
1 ATATTTTATATT
5877983 ATAATTTTATTATT
1 AT-ATTTTA-TATT
5877997 ATATTTTATATT
1 ATATTTTATATT
*
5878009 ATATTTATATAATC
1 ATATTT-TAT-ATT
*
5878023 ATATTTAATATT
1 ATATTTTATATT
5878035 ATA
1 ATA
5878038 AAGAGGAATT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
12 17 0.37
13 17 0.37
14 12 0.26
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.58
Consensus pattern (12 bp):
ATATTTTATATT
Found at i:5878026 original size:26 final size:25
Alignment explanation
Indices: 5877971--5878037 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 25
5877961 AAAATTTTAA
* * * *
5877971 ATATTTTATGTCATAATTTTATTATT
1 ATATTTTATATTAT-ATTTTATAATC
5877997 ATATTTTATATTATATTTATATAATC
1 ATATTTTATATTATATTT-TATAATC
*
5878023 ATATTTAATATTATA
1 ATATTTTATATTATA
5878038 AAGAGGAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 4 0.11
26 31 0.89
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.58
Consensus pattern (25 bp):
ATATTTTATATTATATTTTATAATC
Found at i:5878522 original size:16 final size:16
Alignment explanation
Indices: 5878501--5878539 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
5878491 TTTGTGTTTA
5878501 AATCATTTTGGATTTG
1 AATCATTTTGGATTTG
* **
5878517 AGTCATTTTAAATTTG
1 AATCATTTTGGATTTG
5878533 AATCATT
1 AATCATT
5878540 ATGAGTTCAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.49
Consensus pattern (16 bp):
AATCATTTTGGATTTG
Found at i:5879184 original size:2 final size:2
Alignment explanation
Indices: 5879141--5879165 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5879131 TATTAAATTA
5879141 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
5879166 ATAAACTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5879242 original size:27 final size:27
Alignment explanation
Indices: 5879173--5879280 Score: 94
Period size: 27 Copynumber: 4.0 Consensus size: 27
5879163 ATAATAAACT
* *
5879173 ATTAAAA-TATATTTATATTCAATAATA
1 ATTAAAATTATATTTATATT-AAAAAAA
* *
5879200 ATT-AAATTTTAATTATATTAAAAAAA
1 ATTAAAATTATATTTATATTAAAAAAA
**
5879226 ATTAAAATTATATTTATGCTAAATAATAA
1 ATTAAAATTATATTTATATTAAA-AA-AA
* * *
5879255 CTAAAAATTATGTTTATATTAAAAAA
1 ATTAAAATTATATTTATATTAAAAAA
5879281 TAAATAATTA
Statistics
Matches: 64, Mismatches: 13, Indels: 8
0.75 0.15 0.09
Matches are distributed among these distances:
26 11 0.17
27 29 0.45
28 4 0.06
29 20 0.31
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.42
Consensus pattern (27 bp):
ATTAAAATTATATTTATATTAAAAAAA
Found at i:5888156 original size:12 final size:12
Alignment explanation
Indices: 5888139--5888168 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
5888129 TAAATAATAT
*
5888139 TTTTTTTTATAA
1 TTTTTTTTAAAA
5888151 TTTTTTTTAAAA
1 TTTTTTTTAAAA
5888163 TTTTTT
1 TTTTTT
5888169 AATCATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTTTTAAAA
Found at i:5888180 original size:23 final size:24
Alignment explanation
Indices: 5888140--5888201 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
5888130 AAATAATATT
*
5888140 TTTTTTTATAATT-TTTTTTAAAA
1 TTTTTTAATAATTATTTTTTAAAA
* *
5888163 TTTTTTAATCATTATTTTTTAATA
1 TTTTTTAATAATTATTTTTTAAAA
*
5888187 TTTTTATCATAATTA
1 TTTTT-TAATAATTA
5888202 AATTAATAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
23 11 0.34
24 14 0.44
25 7 0.22
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTTTTAATAATTATTTTTTAAAA
Found at i:5891309 original size:33 final size:32
Alignment explanation
Indices: 5891267--5891334 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
5891257 CTTTACAAGC
*
5891267 CAATGTATCGATACATTTTGGGATGTATCAATA
1 CAATGTATCGATACATATTGGG-TGTATCAATA
* *
5891300 CAATGTATCGATACATATTGTGTGTATCGATA
1 CAATGTATCGATACATATTGGGTGTATCAATA
5891332 CAA
1 CAA
5891335 ACAGTTAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 12 0.38
33 20 0.62
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATATTGGGTGTATCAATA
Found at i:5891422 original size:20 final size:21
Alignment explanation
Indices: 5891375--5891427 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
5891365 GCCAATGACC
*
5891375 TGTATCGATACATTCTTTACA
1 TGTATCGATACATTCTGTACA
*
5891396 AGTATCGATACATT-TGGT-CA
1 TGTATCGATACATTCT-GTACA
5891416 TGTATCGATACA
1 TGTATCGATACA
5891428 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTCTGTACA
Found at i:5891433 original size:13 final size:13
Alignment explanation
Indices: 5891415--5891439 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5891405 ACATTTGGTC
5891415 ATGTATCGATACA
1 ATGTATCGATACA
5891428 ATGTATCGATAC
1 ATGTATCGATAC
5891440 TGTGCAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:5891758 original size:2 final size:2
Alignment explanation
Indices: 5891751--5891784 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
5891741 GATCCTAACA
5891751 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
5891785 CCATGGTTCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5893886 original size:178 final size:182
Alignment explanation
Indices: 5893495--5893897 Score: 415
Period size: 178 Copynumber: 2.2 Consensus size: 182
5893485 TATTTGAATT
* * * * * ** ** * * * *
5893495 TGGTCACAGGATACAAAGGTTTCAAATAGCAAATGGTGAAAATTTTGTTATCTACCT-AAATACC
1 TGGTCATAGGATAAAAAGATCTCGAATAGCAAATGAAGAAAAAATTATTATTTACCTAAAAAAAC
** * * **
5893559 CTCGAAAAAGGGCATATGATATTTTGTTGGAAAGCTAACCCGATATAGTTTAACTAAGGAATACT
66 CTCGAAAAAGGGCATATGATATGCTATTGG-AAGCTAACACGATATAGTTTAACTAAAAAATACT
*
5893624 CTAAATTGCACAAAAATTCATTTGGTGGGCAACATAATTTTTGTGACCAAATC
130 CTAAATTGCACAAAAATTCATTTGGTGGGCAAAATAATTTTTGTGACCAAATC
** * * * *
5893677 TGGTTGTATGATAAAAGGGTTTCGAATAGC-AATGAAGAAAAAATTATTATTTACCTAAAAAAAC
1 TGGTCATAGGATAAAAAGATCTCGAATAGCAAATGAAGAAAAAATTATTATTTACCTAAAAAAAC
* *
5893741 CTCGAAAAAGGGCATATGATATGCTATTGG-A-C-AACATGATGTAGTTTAACTAAAAAAGTACT
66 CTCGAAAAAGGGCATATGATATGCTATTGGAAGCTAACACGATATAGTTTAACTAAAAAA-TACT
* * ** *
5893803 GT-AATTGCCCAGGAATTCATTTGGTGGGCAAAATCATTTTTGTGACCAAATC
130 CTAAATTGCACAAAAATTCATTTGGTGGGCAAAATAATTTTTGTGACCAAATC
* *
5893855 TGGTCATAGGATATAAAAGATCT-GTATAGCAAATGAAGGAAAA
1 TGGTCATAGGATA-AAAAGATCTCGAATAGCAAATGAAGAAAAA
5893898 TTCATTACTT
Statistics
Matches: 180, Mismatches: 37, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
178 81 0.45
179 23 0.13
180 1 0.01
181 20 0.11
182 55 0.31
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (182 bp):
TGGTCATAGGATAAAAAGATCTCGAATAGCAAATGAAGAAAAAATTATTATTTACCTAAAAAAAC
CTCGAAAAAGGGCATATGATATGCTATTGGAAGCTAACACGATATAGTTTAACTAAAAAATACTC
TAAATTGCACAAAAATTCATTTGGTGGGCAAAATAATTTTTGTGACCAAATC
Found at i:5896060 original size:29 final size:27
Alignment explanation
Indices: 5896013--5896095 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 27
5896003 TATTCCATAT
*
5896013 AAATAAGTCCTTAATCTTTAATTTACATTC
1 AAATAAG-CCTTAACCTTTAATTTAC--TC
*
5896043 AAATAAGCCTTAACCTTTCAATTGTTCTC
1 AAATAAGCCTTAACCTTT-AATT-TACTC
5896072 AAGA-AAGCCTTAACCTTTAATTTA
1 AA-ATAAGCCTTAACCTTTAATTTA
5896096 AACTTAAATA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
27 1 0.02
28 4 0.09
29 28 0.60
30 12 0.26
31 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.06, T:0.39
Consensus pattern (27 bp):
AAATAAGCCTTAACCTTTAATTTACTC
Found at i:5896256 original size:23 final size:21
Alignment explanation
Indices: 5896229--5896270 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
5896219 AATTTAAAAT
5896229 TATTTTTATAATTAATATTTATG
1 TATTTTTATAA-TAA-ATTTATG
5896252 TATTTTTATAATAAATTTA
1 TATTTTTATAATAAATTTA
5896271 AATAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 5 0.26
22 3 0.16
23 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TATTTTTATAATAAATTTATG
Found at i:5896685 original size:12 final size:12
Alignment explanation
Indices: 5896663--5896696 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
5896653 TTTATTTCAT
5896663 ATTTGACTTTAA
1 ATTTGACTTTAA
* *
5896675 GTTTGATTTTAA
1 ATTTGACTTTAA
5896687 ATTTGACTTT
1 ATTTGACTTT
5896697 CATTGGCTTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.06, G:0.12, T:0.56
Consensus pattern (12 bp):
ATTTGACTTTAA
Found at i:5900934 original size:23 final size:24
Alignment explanation
Indices: 5900908--5900954 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
5900898 CATTCATGTA
5900908 TTTATATTAT-T-TTCATTTTAATT
1 TTTATATTATATCTT-ATTTTAATT
5900931 TTTATATTATATCTTATTTTAATT
1 TTTATATTATATCTTATTTTAATT
5900955 ATTTTTTTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.45
24 10 0.45
25 2 0.09
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (24 bp):
TTTATATTATATCTTATTTTAATT
Found at i:5902786 original size:15 final size:14
Alignment explanation
Indices: 5902766--5902798 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5902756 ACGAGCAAAA
5902766 ATAAAAATA-ATTT
1 ATAAAAATATATTT
5902779 CATAAAAATATATTT
1 -ATAAAAATATATTT
5902794 ATAAA
1 ATAAA
5902799 TGTAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (14 bp):
ATAAAAATATATTT
Found at i:5907545 original size:17 final size:15
Alignment explanation
Indices: 5907525--5907573 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
5907515 TTAAATAAAA
5907525 AAGAAAGAAAGAAGATG
1 AAGAAAGAAAGAA-A-G
5907542 AAG-AAGAAAGAAAG
1 AAGAAAGAAAGAAAG
5907556 AA-AAAGAAA-AAA-
1 AAGAAAGAAAGAAAG
5907568 AAGAAA
1 AAGAAA
5907574 AAAATATGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 2 0.07
13 6 0.20
14 9 0.30
15 1 0.03
16 9 0.30
17 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (15 bp):
AAGAAAGAAAGAAAG
Found at i:5907585 original size:11 final size:9
Alignment explanation
Indices: 5907548--5907577 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
5907538 GATGAAGAAG
5907548 AAAGAAAGAA
1 AAAGAAA-AA
5907558 AAAGAAAAA
1 AAAGAAAAA
5907567 AAAGAAAAA
1 AAAGAAAAA
5907576 AA
1 AA
5907578 TATGAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.65
10 7 0.35
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:5907968 original size:14 final size:14
Alignment explanation
Indices: 5907949--5907979 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
5907939 TTATTTTATT
5907949 TATATGTATATATA
1 TATATGTATATATA
5907963 TATATGTATATATA
1 TATATGTATATATA
5907977 TAT
1 TAT
5907980 TTTAAAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
TATATGTATATATA
Found at i:5915427 original size:27 final size:27
Alignment explanation
Indices: 5915384--5916556 Score: 1887
Period size: 27 Copynumber: 43.0 Consensus size: 27
5915374 GTGGCATTTT
* *
5915384 CTTTTAAAGTCCACAACTCTGTGGCATC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
*
5915412 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5915439 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
5915467 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5915494 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
* *
5915522 CTTTTAAGACCACAACTCCGTGACACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
5915549 CTTTTAAGCCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
5915576 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
5915604 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5915631 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
5915659 CTTTTTAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5915686 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
5915713 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5915740 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
5915767 CTTTTAAGTCCATAACTCCGTGGCATCT
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
**
5915795 CTTTTAAGTCCACAACTCTATGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5915822 CTTTTAAAGTCCACAACTCCGTGGCACC
1 CTTTT-AAGTCCACAACTCCGTGGCACC
* *
5915850 CTTTTTAGTCCACAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5915877 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
5915904 CTTTTAAGTCCACAACTTCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5915931 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
5915958 CTTTTAAGTCCACAACTCTGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
5915986 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
5916013 CTTTTAAGTCCACAACTCCGTGGCATT
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
5916040 CTTTCAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
5916067 ATTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5916094 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
5916121 CTTTTAAGTCCACAACTCCGCGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
5916149 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5916176 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
5916203 CTTTTAAGTTCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5916230 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5916257 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
5916285 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
**
5916312 CTTTTAAGTCCACAACTCCGTGGCATT
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
5916339 CTTTCAAGTCCACAATTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
5916366 TTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5916393 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5916420 CTTTTAAGTCCACAACTCCGTGGCATCC
1 CTTTTAAGTCCACAACTCCGTGGCA-CC
*
5916448 CTTTTAAGACCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5916475 CTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
*
5916502 CTTTTAAGTCCACAACTCCGTGGCATC
1 CTTTTAAGTCCACAACTCCGTGGCACC
* *
5916529 CTTTTAAATCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCCGTGGCACC
5916556 C
1 C
5916557 ATTTCAAAGC
Statistics
Matches: 1062, Mismatches: 73, Indels: 21
0.92 0.06 0.02
Matches are distributed among these distances:
27 806 0.76
28 256 0.24
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCCGTGGCACC
Found at i:5915813 original size:136 final size:135
Alignment explanation
Indices: 5915384--5916556 Score: 1887
Period size: 136 Copynumber: 8.6 Consensus size: 135
5915374 GTGGCATTTT
* * *
5915384 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGT
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
5915449 CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCG
64 CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCG
5915514 TGGCATCC
129 TGGCA-CC
* * *
5915522 CTTTTAAGACCACAACTCCGTGACACCCTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* * *
5915587 ATAACTCCGTGGCATCTCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCG
66 ACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCG
5915652 TGGCACC
129 TGGCACC
* * *
5915659 CTTTTTAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGACC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
5915724 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTG
66 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTG
*
5915789 GCATCT
131 GCA-CC
** *
5915795 CTTTTAAGTCCACAACTCTATGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTC
* *
5915860 CACAACTTCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGT
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
5915925 GGCACC
130 GGCACC
* *
5915931 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATCCCTTTTAAGAC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
** *
5915996 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATTCTTTCAAGTCCACAACTCCGT
65 CACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
5916061 GGCACC
130 GGCACC
* *
5916067 ATTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* *
5916132 ACAACTCCGCGGCATCCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
66 ACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
5916197 GGCACC
130 GGCACC
*
5916203 CTTTTAAGTTCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
5916268 ACAACTCCGTGGCATCCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
66 ACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
**
5916333 GGCATT
130 GGCACC
* * * *
5916339 CTTTCAAGTCCACAATTCCGTGGCACCTTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
5916404 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCCTTTTAAGACCACAACTCCGT
66 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGT
5916469 GGCACC
130 GGCACC
* *
5916475 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAATCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
5916540 ACAACTCTGTGGCACCC
66 ACAACTCCGTGGCACCC
5916557 ATTTCAAAGC
Statistics
Matches: 959, Mismatches: 69, Indels: 16
0.92 0.07 0.02
Matches are distributed among these distances:
135 89 0.09
136 595 0.62
137 250 0.26
138 25 0.03
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (135 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTG
GCACC
Found at i:5916061 original size:163 final size:162
Alignment explanation
Indices: 5915384--5916556 Score: 1887
Period size: 163 Copynumber: 7.2 Consensus size: 162
5915374 GTGGCATTTT
* * *
5915384 CTTTTAAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAAGT
1 CTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGT
5915449 CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCG
64 CCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCG
* *
5915514 TGGCATCCCTTTTAAGACCACAACTCCGTGACACC
129 TGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
5915549 CTTTTAAGCCCACAACTCCGTGGCACCCTTTTAAGTCCATAACTCCGTGGCATCTCTTTTAAGTC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTC
* * *
5915614 CACAACTCTGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCACCCTTTTTAGTCCACAACTCTG
65 CACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCG
5915679 TGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
129 TGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
5915713 CTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* * **
5915778 ATAACTCCGTGGCATCTCTTTTAAGTCCACAACTCTATGGCACCCTTTTAAAGTCCACAACTCCG
66 ACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCG
* *
5915843 TGGCACCCTTTTTAGTCCACAACTTCGTGGCACC
129 TGGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
5915877 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTTCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* *
5915942 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCTGTGGCATCCCTTTTAAGACCACAACTCCGT
66 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGT
**
5916007 GGCACCCTTTTAAGTCCACAACTCCGTGGCATT
130 GGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* * *
5916040 CTTTCAAGTCCACAACTCCGTGGCACCATTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
* *
5916105 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGCGGCATCCCTTTTAAGACCACAACTCCGT
66 ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGT
5916170 GGCACCCTTTTAAGTCCACAACTCCGTGGCACC
130 GGCACCCTTTTAAGTCCACAACTCCGTGGCACC
*
5916203 CTTTTAAGTTCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
5916268 ACAACTCCGTGGCATCCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
66 ACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
** * *
5916333 GGCATTCTTTCAAGTCCACAATTCCGTGGCACC
130 GGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
5916366 TTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
1 CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
*
5916431 ACAACTCCGTGGCATCCCTTTTAAGACCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
66 ACAACTCCGTGGCA-CCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGT
*
5916496 GGCACCCTTTTAAGTCCACAACTCCGTGGCATC
130 GGCACCCTTTTAAGTCCACAACTCCGTGGCACC
* *
5916529 CTTTTAAATCCACAACTCTGTGGCACCC
1 CTTTTAAGTCCACAACTCCGTGGCACCC
5916557 ATTTCAAAGC
Statistics
Matches: 940, Mismatches: 62, Indels: 14
0.93 0.06 0.01
Matches are distributed among these distances:
163 580 0.62
164 304 0.32
165 56 0.06
ACGTcount: A:0.23, C:0.35, G:0.14, T:0.28
Consensus pattern (162 bp):
CTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCC
ACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTG
GCACCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:5916594 original size:32 final size:32
Alignment explanation
Indices: 5916539--5916884 Score: 552
Period size: 32 Copynumber: 10.8 Consensus size: 32
5916529 CTTTTAAATC
* *
5916539 CACAACTCTGTGGC-ACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
5916570 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
5916602 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
5916634 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
5916666 CACAAGTCGGTGGCAACCCATTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
5916698 CACAAGTCGGTGGCAACTCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
5916730 CACAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
5916762 CACAAGTCGGTGGCAACCCA-TTCAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTC-AAAGCCCA
* *
5916794 CACAAGTCGGTGGTAACTCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
*
5916826 CACAAGTCGGTGGCAACCCATTTAAAAGCCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
** * *
5916858 TGCAAGTCAGTGGCAACCCTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
5916885 TCACCATTTT
Statistics
Matches: 292, Mismatches: 20, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
31 14 0.05
32 275 0.94
33 3 0.01
ACGTcount: A:0.32, C:0.33, G:0.18, T:0.17
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
Found at i:5918160 original size:17 final size:15
Alignment explanation
Indices: 5918140--5918188 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
5918130 TTAAGTAAAA
5918140 AAGAAAGAAAGAAGATG
1 AAGAAAGAAAGAA-A-G
5918157 AAG-AAGAAAGAAAG
1 AAGAAAGAAAGAAAG
5918171 AA-AAAGAAA-AAA-
1 AAGAAAGAAAGAAAG
5918183 AAGAAA
1 AAGAAA
5918189 AAAATATGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 2 0.07
13 6 0.20
14 9 0.30
15 1 0.03
16 9 0.30
17 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (15 bp):
AAGAAAGAAAGAAAG
Found at i:5918185 original size:9 final size:9
Alignment explanation
Indices: 5918163--5918192 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
5918153 GATGAAGAAG
5918163 AAAGAAAGAA
1 AAAGAAA-AA
5918173 AAAGAAAAA
1 AAAGAAAAA
5918182 AAAGAAAAA
1 AAAGAAAAA
5918191 AA
1 AA
5918193 TATGAAATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 13 0.65
10 7 0.35
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (9 bp):
AAAGAAAAA
Found at i:5918582 original size:14 final size:14
Alignment explanation
Indices: 5918563--5918593 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
5918553 TTATTTTATT
5918563 TATATGTATATATA
1 TATATGTATATATA
5918577 TATATGTATATATA
1 TATATGTATATATA
5918591 TAT
1 TAT
5918594 TTTAAAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
TATATGTATATATA
Found at i:5924267 original size:38 final size:38
Alignment explanation
Indices: 5924187--5924267 Score: 110
Period size: 38 Copynumber: 2.1 Consensus size: 38
5924177 AGAATCACGG
** *
5924187 TTTTTGTTTCAAACTGTGTCATCGATTAGTAATAATGG
1 TTTTTGTTTCAAACTGTGTCATCGATTAAAAATAATGA
*
5924225 TTTTTGTTTCAAACTGTGTCA-CTGATTAAAAATAGTGA
1 TTTTTGTTTCAAACTGTGTCATC-GATTAAAAATAATGA
5924263 TTTTT
1 TTTTT
5924268 ATTATGATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 1 0.03
38 37 0.97
ACGTcount: A:0.27, C:0.10, G:0.16, T:0.47
Consensus pattern (38 bp):
TTTTTGTTTCAAACTGTGTCATCGATTAAAAATAATGA
Found at i:5928475 original size:20 final size:19
Alignment explanation
Indices: 5928438--5928476 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
5928428 TAGTTCAACA
*
5928438 ATTTTTTTTTTTGGATTTT
1 ATTTTTTTTTTTAGATTTT
*
5928457 ATTTTGTTTTTTTATATTTT
1 ATTTT-TTTTTTTAGATTTT
5928477 TCAGACTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.13, C:0.00, G:0.08, T:0.79
Consensus pattern (19 bp):
ATTTTTTTTTTTAGATTTT
Found at i:5929611 original size:20 final size:20
Alignment explanation
Indices: 5929554--5929611 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
5929544 AAAGTACCCA
** *
5929554 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTCTAC
*
5929574 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTCTAC
5929594 AATGTATCGATACATTCT
1 AATGTATCGATACATTCT
5929612 GTGTTTTTAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTCTAC
Found at i:5939632 original size:84 final size:84
Alignment explanation
Indices: 5939477--5939641 Score: 201
Period size: 84 Copynumber: 2.0 Consensus size: 84
5939467 CATTTTCCAC
* * * *
5939477 TTGCAACTCATTTCTTTTCTCCTCTAATTCATTTATTTTCTTTTTAAAAGAATTATTTTCTAAAC
1 TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
5939542 TCATTGATTTACTTTCATT
66 TCATTGATTTACTTTCATT
* *
5939561 TTGCAACTC-TTTCATATTCTTCTCTAATTCACTTAATTTC-TTTT-CAAGAATATCATTCTCTA
1 TTGCAACTCATTTC-TATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAAT-T-ATTCTCTA
* * *
5939623 CACTTATTGATTTATTTTC
63 AACTCATTGATTTACTTTC
5939642 TTCTTTGAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
82 6 0.09
83 9 0.13
84 54 0.78
ACGTcount: A:0.25, C:0.19, G:0.04, T:0.52
Consensus pattern (84 bp):
TTGCAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTTAAAAGAATTATTCTCTAAAC
TCATTGATTTACTTTCATT
Found at i:5941436 original size:13 final size:13
Alignment explanation
Indices: 5941418--5941443 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
5941408 TACACCAAGT
5941418 ATGTATCGATACA
1 ATGTATCGATACA
5941431 ATGTATCGATACA
1 ATGTATCGATACA
5941444 CCAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:5941441 original size:32 final size:33
Alignment explanation
Indices: 5941400--5941463 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
5941390 TAGCCAAACT
**
5941400 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACCAAAAATTGTATCGATACAA
5941432 TGTATCGATACACCAAAAATTGTATCGATACA
1 TGTATCGATACACCAAAAATTGTATCGATACA
5941464 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACCAAAAATTGTATCGATACAA
Found at i:5941964 original size:34 final size:35
Alignment explanation
Indices: 5941901--5941967 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
5941891 CTAAGTGATT
5941901 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
5941937 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
5941968 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:5949830 original size:24 final size:24
Alignment explanation
Indices: 5949784--5949833 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
5949774 TTTGGTAAGA
*
5949784 TTGATTTTCATTTAACTTGATAAT
1 TTGATTTTCATTTAACTTAATAAT
*
5949808 TTGATTTTTATTTATA-TTAATAAT
1 TTGATTTTCATTTA-ACTTAATAAT
5949832 TT
1 TT
5949834 TGCTTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (24 bp):
TTGATTTTCATTTAACTTAATAAT
Found at i:5951387 original size:21 final size:21
Alignment explanation
Indices: 5951345--5951388 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
5951335 ATTTCAACAG
* *
5951345 GAAACAAGAGTCAACATTCAA
1 GAAACAAGAGACAACATCCAA
5951366 GAAACAAG-GACAAGCATCCAA
1 GAAACAAGAGACAA-CATCCAA
5951387 GA
1 GA
5951389 TTTAGGCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.52, C:0.20, G:0.18, T:0.09
Consensus pattern (21 bp):
GAAACAAGAGACAACATCCAA
Found at i:5956659 original size:1 final size:1
Alignment explanation
Indices: 5956643--5956700 Score: 53
Period size: 1 Copynumber: 58.0 Consensus size: 1
5956633 GAAGATTTGT
* * * * * * *
5956643 AAAACAAAACAAAAAAAAACAAAAAAAAAGAAAAAAAAAAGAAGAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
5956701 GTGAAGATTT
Statistics
Matches: 43, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 43 1.00
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (1 bp):
A
Found at i:5956661 original size:10 final size:10
Alignment explanation
Indices: 5956643--5956700 Score: 73
Period size: 10 Copynumber: 5.9 Consensus size: 10
5956633 GAAGATTTGT
*
5956643 AAAACAAAAC
1 AAAAAAAAAC
5956653 AAAAAAAAAC
1 AAAAAAAAAC
*
5956663 AAAAAAAAAG
1 AAAAAAAAAC
5956673 AAAAAAAAA-
1 AAAAAAAAAC
* *
5956682 AGAAGAAAAC
1 AAAAAAAAAC
5956692 AAAAAAAAA
1 AAAAAAAAA
5956701 GTGAAGATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
9 7 0.17
10 34 0.83
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:5956680 original size:29 final size:30
Alignment explanation
Indices: 5956643--5956701 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
5956633 GAAGATTTGT
5956643 AAAACAAAACAA-AAAAAAACAAAAAAAAAG
1 AAAACAAAA-AAGAAAAAAACAAAAAAAAAG
*
5956673 AAAA-AAAAAAGAAGAAAACAAAAAAAAAG
1 AAAACAAAAAAGAAAAAAACAAAAAAAAAG
5956702 TGAAGATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 2 0.07
29 21 0.78
30 4 0.15
ACGTcount: A:0.86, C:0.07, G:0.07, T:0.00
Consensus pattern (30 bp):
AAAACAAAAAAGAAAAAAACAAAAAAAAAG
Found at i:5956707 original size:20 final size:19
Alignment explanation
Indices: 5956648--5956700 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
5956638 TTTGTAAAAC
* *
5956648 AAAACAAAAAAAAACAAAAA
1 AAAACAAAAAAAAA-AGAAG
*
5956668 AAAAGAAAAAAAAAAGAAG
1 AAAACAAAAAAAAAAGAAG
5956687 AAAACAAAAAAAAA
1 AAAACAAAAAAAAA
5956701 GTGAAGATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.89, C:0.06, G:0.06, T:0.00
Consensus pattern (19 bp):
AAAACAAAAAAAAAAGAAG
Found at i:5958672 original size:24 final size:24
Alignment explanation
Indices: 5958626--5958675 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
5958616 TTTGGTAAGA
*
5958626 TTGATTTTCATTTAACTTGATAAT
1 TTGATTTTCATTTAACTTAATAAT
*
5958650 TTGATTTTTATTTATA-TTAATAAT
1 TTGATTTTCATTTA-ACTTAATAAT
5958674 TT
1 TT
5958676 TGCATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (24 bp):
TTGATTTTCATTTAACTTAATAAT
Found at i:5960615 original size:11 final size:11
Alignment explanation
Indices: 5960592--5960625 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
5960582 CCTTTACACC
*
5960592 AAAAA-AAACA
1 AAAAACAAAAA
5960602 AAAAACAAAAA
1 AAAAACAAAAA
5960613 AAAAACAAAAA
1 AAAAACAAAAA
5960624 AA
1 AA
5960626 CCAAGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 5 0.23
11 17 0.77
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAACAAAAA
Found at i:5960634 original size:18 final size:17
Alignment explanation
Indices: 5960589--5960636 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 17
5960579 CGTCCTTTAC
5960589 ACCAAAAAAAACAAAAA
1 ACCAAAAAAAACAAAAA
*
5960606 ACAAAAAAAAAACAAAAAA
1 AC-CAAAAAAAAC-AAAAA
5960625 ACCAAGAAAAAA
1 ACCAA-AAAAAA
5960637 TAGCAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
17 2 0.08
18 11 0.42
19 13 0.50
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.00
Consensus pattern (17 bp):
ACCAAAAAAAACAAAAA
Found at i:5961937 original size:28 final size:28
Alignment explanation
Indices: 5961866--5962761 Score: 1108
Period size: 28 Copynumber: 31.6 Consensus size: 28
5961856 AATGTTCATT
*
5961866 CCTTTCAAAGCCCACAAGTCAGTAGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
5961894 TCTTTTCAAAGCCCACGAGTCAGTGGCAC
1 -CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
5961923 CCTTTCAAAGCCCACAAGTCAGTAGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
5961951 TCTTTCAAAGCCTACAAGTTAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
5961979 CTTTTGAAAGCCCATAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
5962007 TCTTTTCAAAGCCCACAAGTCAGTGGCAC
1 -CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
5962036 CATTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
5962064 CATTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
5962092 TCTTTTCAAAGCCCACAAGTCAGTGGCAT
1 -CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
5962121 CTTTTCAAAACCCACAAGTCAGCGACAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
5962149 CCTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
5962177 TCTTTCAAAGCCTATAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
5962205 CCTTTCAAAGCCTACAAGTCAATGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
5962233 TCTTTTCAAAACCCACAAGTCAGTGGCAC
1 -CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
5962262 CCTTTCAAAGCCTACAAGTTAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
5962290 TCTTTTCAAAGCCCACAAGTTAGTGGCAC
1 -CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
5962319 CTTTTCAAAGCCCACAAGTCAGTAGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * * *
5962347 TCTTTTAAAACCCACAAGTCGGTAGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
**
5962375 CCTTTCAAAGCCCACAAGTCAGTGATAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
5962403 TCTTTTCAAAGCCCATAAGTCAGTGGCAC
1 -CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
5962432 TCTTTTCAAAGCCAACAAGTTAGTGGCAT
1 -CCTTTCAAAGCCCACAAGTCAGTGGCAC
5962461 CCTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
5962489 CCTTTCAAAGCCCACAAGTCAGTGGCGC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
5962517 TCTTTTCAAAGCCCACAAATAAGTGGCAC
1 -CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
5962546 CCTTTCAAAGCCCACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
5962574 CCTTTCAAAGCCAACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
5962602 CCTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
5962630 CCTTTCAAAGCTCAGGCAAGTCAATGACAC
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCAC
* *
5962660 CCTTTCAAAGCCCATAAGTTAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
* *
5962688 TCTTTTCAAAGCTCACAAGTCAGTGGCAC
1 -CCTTTCAAAGCCCACAAGTCAGTGGCAC
**
5962717 CCTTTCAAAGTTCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC
*
5962745 TCTTTTCAAAGCCCACA
1 -CCTTTCAAAGCCCACA
5962762 CGAGTCGGTG
Statistics
Matches: 756, Mismatches: 101, Indels: 20
0.86 0.12 0.02
Matches are distributed among these distances:
28 494 0.65
29 237 0.31
30 25 0.03
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCAC
Found at i:5961954 original size:57 final size:57
Alignment explanation
Indices: 5961866--5962761 Score: 1241
Period size: 57 Copynumber: 15.8 Consensus size: 57
5961856 AATGTTCATT
* *
5961866 CCTTTCAAAGCCCACAAGTCAGTAGCACTCTTTTCAAAGCCCACGAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
5961923 CCTTTCAAAGCCCACAAGTCAGTAGCACTC-TTTCAAAGCCTACAAGTTAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
5961979 CTTTTGAAAGCCCATAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC
* *
5962036 CATTTCAAAGCCCACAAGTCAGTGGCAC-CATTTCAAAGCCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
5962092 TCTTTTCAAAGCCCACAAGTCAGTGGCA-TCTTTTCAAAACCCACAAGTCAGCGACAC
1 -CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC
* *
5962149 CCTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCTATAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
5962205 CCTTTCAAAGCCTACAAGTCAATGGCACTCTTTTCAAAACCCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
5962262 CCTTTCAAAGCCTACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC
* * * * *
5962319 CTTTTCAAAGCCCACAAGTCAGTAGCACTCTTTT-AAAACCCACAAGTCGGTAGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC
** *
5962375 CCTTTCAAAGCCCACAAGTCAGTGATACTCTTTTCAAAGCCCATAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
5962432 TCTTTTCAAAGCCAACAAGTTAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCAC
1 -CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
5962489 CCTTTCAAAGCCCACAAGTCAGTGGCGCTCTTTTCAAAGCCCACAAATAAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC
* * * * *
5962546 CCTTTCAAAGCCCACAAGTTAGTGGCA-TCCTTTCAAAGCCAACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
5962602 CCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCTCAGGCAAGTCAATGACAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCA--CAAGTCAGTGGCAC
* * *
5962660 CCTTTCAAAGCCCATAAGTTAGTGGCACTCTTTTCAAAGCTCACAAGTCAGTGGCAC
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC
**
5962717 CCTTTCAAAGTTCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA
5962762 CGAGTCGGTG
Statistics
Matches: 740, Mismatches: 87, Indels: 24
0.87 0.10 0.03
Matches are distributed among these distances:
56 284 0.38
57 385 0.52
58 58 0.08
59 13 0.02
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (57 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC
Found at i:5962010 original size:113 final size:114
Alignment explanation
Indices: 5961868--5962791 Score: 1252
Period size: 113 Copynumber: 8.1 Consensus size: 114
5961858 TGTTCATTCC
* *
5961868 TTTCAAAGCCCACAAGTCAGTAGCACTCTTTTCAAAGCCCACGAGTCAGTGGCACCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* * *
5961933 CCCACAAGTCAGTAGCACTC-TTTCAAAGCCTACAAGTTAGTGGCACCT
66 CCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCT
* * *
5961981 TTTGAAAGCCCATAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
*
5962046 CCCACAAGTCAGTGGCAC-CATTTCAAAGCCCACAAGTCAGTGGCACTCT
66 CCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CT
* * *
5962095 TTTCAAAGCCCACAAGTCAGTGGCA-TCTTTTCAAAACCCACAAGTCAGCGACACCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* * *
5962159 CCCACAAGTCAGTGGCACTC-TTTCAAAGCCTATAAGTCAGTGGCACCC
66 CCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCT
* * *
5962207 TTTCAAAGCCTACAAGTCAATGGCACTCTTTTCAAAACCCACAAGTCAGTGGCACCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* * *
5962272 CCTACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCT
66 CCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCT
* * * *
5962321 TTTCAAAGCCCACAAGTCAGTAGCACTCTTTT-AAAACCCACAAGTCGGTAGCACCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
** *
5962385 CCCACAAGTCAGTGATACTCTTTTCAAAGCCCATAAGTCAGTGGCACTCT
66 CCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CT
* * *
5962435 TTTCAAAGCCAACAAGTTAGTGGCA-TCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* * * *
5962499 CCCACAAGTCAGTGGCGCTCTTTTCAAAGCCCACAAATAAGTGGCACCC
66 CCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCT
* * * * *
5962548 TTTCAAAGCCCACAAGTTAGTGGCA-TCCTTTCAAAGCCAACAAGTTAGTGGCATCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* * * * *
5962612 CCCACAAGTCAGTGGCAC-CCTTTCAAAGCTCAGGCAAGTCAATGACACCC
66 CCCACAAGTCAGTGGCACTCTTTTCAAAGCCCA--CAAGTCAGTGGCACCT
* * *
5962662 TTTCAAAGCCCATAAGTTAGTGGCACTCTTTTCAAAGCTCACAAGTCAGTGGCACCCTTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
** * *
5962727 TTCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACTTT
66 CCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA--AGTCAGTGGC-AC-CT
5962780 TTTCAAAGCCCA
1 TTTCAAAGCCCA
5962792 GACAAGTTAG
Statistics
Matches: 718, Mismatches: 78, Indels: 25
0.87 0.10 0.03
Matches are distributed among these distances:
112 37 0.05
113 387 0.54
114 211 0.29
115 50 0.07
116 19 0.03
117 2 0.00
118 12 0.02
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (114 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
CCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCT
Found at i:5962017 original size:85 final size:85
Alignment explanation
Indices: 5961866--5962791 Score: 1207
Period size: 85 Copynumber: 10.8 Consensus size: 85
5961856 AATGTTCATT
* * *
5961866 CCTTTCAAAGCCCACAAGTCAGTAGCACTCTTTTCAAAGCCCACGAGTCAGTGGCAC-CCTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCA
*
5961930 AAGCCCACAAGTCAGTAGCAC
65 AAGCCCACAAGTCAGTGGCAC
* * * * *
5961951 TCTTTCAAAGCCTACAAGTTAGTGGCACCTTTTGAAAGCCCATAAGTCAGTGGCACTCTTTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAA
5962016 AGCCCACAAGTCAGTGGCAC
66 AGCCCACAAGTCAGTGGCAC
* *
5962036 CATTTCAAAGCCCACAAGTCAGTGGCACCATTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAA
*
5962101 AGCCCACAAGTCAGTGGCAT
66 AGCCCACAAGTCAGTGGCAC
* * * * *
5962121 CTTTTCAAAACCCACAAGTCAGCGACACCCTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAA
* *
5962185 AGCCTATAAGTCAGTGGCAC
66 AGCCCACAAGTCAGTGGCAC
* * * *
5962205 CCTTTCAAAGCCTACAAGTCAATGGCACTCTTTTCAAAACCCACAAGTCAGTGGCAC-CCTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCA
* *
5962269 AAGCCTACAAGTTAGTGGCAC
65 AAGCCCACAAGTCAGTGGCAC
* * *
5962290 TCTTTTCAAAGCCCACAAGTTAGTGGCACCTTTTCAAAGCCCACAAGTCAGTAGCACTCTTTT-A
1 -CCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCA
* * *
5962354 AAACCCACAAGTCGGTAGCAC
65 AAGCCCACAAGTCAGTGGCAC
** *
5962375 CCTTTCAAAGCCCACAAGTCAGTGATACTCTTTTCAAAGCCCATAAGTCAGTGGCACTCTTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCA
* * *
5962440 AAGCCAACAAGTTAGTGGCAT
65 AAGCCCACAAGTCAGTGGCAC
* *
5962461 CCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCGCTCTTTTCAA
1 CCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAA
* *
5962526 AGCCCACAAATAAGTGGCAC
66 AGCCCACAAGTCAGTGGCAC
* * * *
5962546 CCTTTCAAAGCCCACAAGTTAGTGGCATCC-TTTCAAAGCCAACAAGTTAGTGGCA-TCCTTTCA
1 CCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCA
5962609 AAGCCCACAAGTCAGTGGCAC
65 AAGCCCACAAGTCAGTGGCAC
* * * * * *
5962630 CCTTTCAAAGCTCAGGCAAGTCAATGACACCCTTTCAAAGCCCATAAGTTAGTGGCACTCTTTTC
1 CCTTTCAAAGCCCA--CAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTC
*
5962695 AAAGCTCACAAGTCAGTGGCAC
64 AAAGCCCACAAGTCAGTGGCAC
** * *
5962717 CCTTTCAAAGTTCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTCGGTGGCAACTTTTT
1 CCTTTCAAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACA--AGTCAGTGGC-ACTCTTT
5962782 TCAAAGCCCA
62 TCAAAGCCCA
5962792 GACAAGTTAG
Statistics
Matches: 733, Mismatches: 92, Indels: 28
0.86 0.11 0.03
Matches are distributed among these distances:
84 134 0.18
85 417 0.57
86 119 0.16
87 40 0.05
88 8 0.01
89 15 0.02
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (85 bp):
CCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAA
AGCCCACAAGTCAGTGGCAC
Found at i:5966982 original size:16 final size:18
Alignment explanation
Indices: 5966963--5966995 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
5966953 ATATTTAATA
5966963 TATTTCA-AAT-AAATTT
1 TATTTCACAATCAAATTT
5966979 TATTTCACAATCAAATT
1 TATTTCACAATCAAATT
5966996 CAAAAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TATTTCACAATCAAATTT
Found at i:5967045 original size:22 final size:21
Alignment explanation
Indices: 5967020--5967067 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
5967010 TAATTACTTT
*
5967020 TATTG-ATAATACATTATTAATA
1 TATTGTATAATA-ATTA-TAAAA
5967042 TATTTGTATAATAATTATAAAA
1 TA-TTGTATAATAATTATAAAA
5967064 TATT
1 TATT
5967068 TTTCATAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 2 0.09
22 8 0.35
23 7 0.30
24 6 0.26
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (21 bp):
TATTGTATAATAATTATAAAA
Found at i:5967075 original size:23 final size:24
Alignment explanation
Indices: 5967025--5967068 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
5967015 ACTTTTATTG
*
5967025 ATAATACATTATTAATATATTTGT
1 ATAATACATTATTAAAATATTTGT
5967049 ATAATA-ATTA-TAAAATATTT
1 ATAATACATTATTAAAATATTT
5967069 TTCATAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (24 bp):
ATAATACATTATTAAAATATTTGT
Found at i:5973742 original size:24 final size:26
Alignment explanation
Indices: 5973695--5973746 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 26
5973685 ATATATTTAT
* *
5973695 AAAAAAAACTAATCAATTCTTTAAAA
1 AAAAAAAACTAATCAACTCCTTAAAA
5973721 AAAAAAAACT-ATC-ACTCCTTAAAA
1 AAAAAAAACTAATCAACTCCTTAAAA
5973745 AA
1 AA
5973747 TTACCATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 11 0.46
25 3 0.12
26 10 0.42
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (26 bp):
AAAAAAAACTAATCAACTCCTTAAAA
Found at i:5973745 original size:25 final size:26
Alignment explanation
Indices: 5973695--5973746 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
5973685 ATATATTTAT
* *
5973695 AAAAAAAACTAATCAATTCTTTAAAA
1 AAAAAAAACTAATCAATCCTTAAAAA
*
5973721 AAAAAAAACT-ATCACTCCTTAAAAA
1 AAAAAAAACTAATCAATCCTTAAAAA
5973746 A
1 A
5973747 TTACCATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (26 bp):
AAAAAAAACTAATCAATCCTTAAAAA
Found at i:5974463 original size:21 final size:20
Alignment explanation
Indices: 5974430--5974468 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
5974420 TAAAAATGAA
* *
5974430 AAAATTTTATATTTTAATAT
1 AAAATTTAATATTATAATAT
5974450 AAAATTTAATTATTATAAT
1 AAAATTTAA-TATTATAAT
5974469 TTTATTAGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AAAATTTAATATTATAATAT
Found at i:5976283 original size:13 final size:13
Alignment explanation
Indices: 5976252--5976295 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
5976242 AGAATTTTTT
5976252 TTTTTTAAATTTA
1 TTTTTTAAATTTA
* **
5976265 GATTTTTAGTTTTA
1 -TTTTTTAAATTTA
5976279 TTTTTTAAATTTA
1 TTTTTTAAATTTA
5976292 TTTT
1 TTTT
5976296 AAACTTTTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (13 bp):
TTTTTTAAATTTA
Found at i:5976303 original size:26 final size:26
Alignment explanation
Indices: 5976247--5976312 Score: 62
Period size: 27 Copynumber: 2.5 Consensus size: 26
5976237 CTTTAAGAAT
* * *
5976247 TTTTTTTTTTTAAATTTAGATTTTTAG
1 TTTTATTTTTTAAATTTA-ATTTTAAC
5976274 TTTTATTTTTTAAATTT-ATTTTAAAC
1 TTTTATTTTTTAAATTTAATTTT-AAC
* *
5976300 TTTTGTATTTTAA
1 TTTTATTTTTTAA
5976313 GGGTTTGTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
25 5 0.15
26 12 0.36
27 16 0.48
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.68
Consensus pattern (26 bp):
TTTTATTTTTTAAATTTAATTTTAAC
Found at i:5981546 original size:13 final size:12
Alignment explanation
Indices: 5981504--5981546 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
5981494 GTGATTAAAA
5981504 TATAATAAATAT
1 TATAATAAATAT
* *
5981516 TATTATAATTAAT
1 TATAATAAAT-AT
5981529 TATAATAAATAT
1 TATAATAAATAT
5981541 TGATAA
1 T-ATAA
5981547 AAAAATTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
12 11 0.44
13 14 0.56
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (12 bp):
TATAATAAATAT
Found at i:5985161 original size:10 final size:11
Alignment explanation
Indices: 5985102--5985162 Score: 52
Period size: 11 Copynumber: 5.3 Consensus size: 11
5985092 ATTTCCTTTC
*
5985102 TTTTTTAATTT
1 TTTTTTCATTT
* *
5985113 TTATCTTTTATCT
1 TT-T-TTTCATTT
5985126 TTTTTTC-TTT
1 TTTTTTCATTT
5985136 CATTTTTTCATTT
1 --TTTTTTCATTT
5985149 TTTTTTCATTT
1 TTTTTTCATTT
5985160 TTT
1 TTT
5985163 AAAGAATCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
10 2 0.05
11 19 0.46
12 9 0.22
13 11 0.27
ACGTcount: A:0.11, C:0.10, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTCATTT
Found at i:5995831 original size:14 final size:15
Alignment explanation
Indices: 5995812--5995840 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
5995802 GGATCATCTC
5995812 ATCATTT-AATAAAT
1 ATCATTTCAATAAAT
5995826 ATCATTTCAATAAAT
1 ATCATTTCAATAAAT
5995841 GTGGTAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.41
Consensus pattern (15 bp):
ATCATTTCAATAAAT
Found at i:5999516 original size:22 final size:21
Alignment explanation
Indices: 5999479--5999540 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
5999469 GCATACAAAT
* *
5999479 GAAAAG-AAAAACAAAAAAGT
1 GAAAAGCAAAAATAAAAAAGA
5999499 GCAAAAGCAAAAATAAAAAAAGA
1 G-AAAAGCAAAAAT-AAAAAAGA
5999522 GAACAA-CAAAAATAAAAAA
1 GAA-AAGCAAAAATAAAAAA
5999541 AAACGAGGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
20 1 0.03
21 11 0.31
22 14 0.39
23 10 0.28
ACGTcount: A:0.76, C:0.08, G:0.11, T:0.05
Consensus pattern (21 bp):
GAAAAGCAAAAATAAAAAAGA
Found at i:6000925 original size:28 final size:27
Alignment explanation
Indices: 6000831--6002089 Score: 977
Period size: 27 Copynumber: 45.7 Consensus size: 27
6000821 GACCTTTTCA
* * *
6000831 AAGTCCATAATTCAGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
6000858 AAGTCCACAACTCCATGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
6000885 CAGTCCACAACTCCGTGGCATCCTTGTA
1 AAGTCCACAACTCCGTGGCATCCTT-TT
*
6000913 AAGTCCACAACTCTGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
6000940 AAGTCTACAACTTCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
6000967 AAGTCCACAACTCCGTGGCATCCTTTTT
1 AAGTCCACAACTCCGTGGCATCC-TTTT
* ** *
6000995 AAG-CCGACAAGTTAGTGGCACCCCTTTTT
1 AAGTCC-ACAACTCCGTGGCA-TCC-TTTT
* * * * *
6001024 AAGCCCATAACTTCGTGGCACCCTTTA
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * *
6001051 AAGTCCATAACTCCGTGGCACCCTTTA
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
6001078 AAGTCCACAACTCTGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
6001105 AAGTCCACAACTTCATGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
6001132 AAGTCCACAATTCCATGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
6001159 AAGTCCACAACTCCGTGGCATCTTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
6001186 AAGTCCACAACTCTGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * *
6001213 AAGTCCAAAACTTCGTGGCATCTTTTTT
1 AAGTCCACAACTCCGTGGCATC-CTTTT
* * ** * **
6001241 AAGCCCACAAGTTAGTGGCACCCTTCCA
1 AAGTCCACAACTCCGTGGCATCCTT-TT
* * * ** *
6001269 AAGCCCACAAGTCAGCAGCACCCCTTTTT
1 AAGTCCACAACTCCGTGGCA-TCC-TTTT
* * * * *
6001298 AAGCCCACAAGTCAGTGGCACCCTTCTA
1 AAGTCCACAACTCCGTGGCATCCTT-TT
* * * ** *
6001326 AAGCCCATAAGTCAATGGCACCCCTTTTT
1 AAGTCCACAACTCCGTGGCA-TCC-TTTT
* * * *
6001355 AAGCCCATAACTCCGTGGCACCCTTTA
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * * *
6001382 AAGTCCATAACTCTGTGGCACCCTTTA
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * *
6001409 AAGTTCACAACTCCGTGGCACCCTTTA
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
6001436 AAGTTCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
6001463 AGGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
6001490 AAAGTCCACAACTTCGTGGTATCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
* *
6001518 AAAGTCCACAACTTCGTGGCATCTTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
*
6001546 AAGTCAACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * *
6001573 GAAGTCCATAACTCTGTGACATCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
6001601 AAGTCCACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * * * * **
6001628 GAAGCCCACAAGTCAGTGACACCCTTCCA
1 -AAGTCCACAACTCCGTGGCATCCTT-TT
* * * * *
6001657 AAGCCCACAAGTCAGTGGCACCCCTTTC
1 AAGTCCACAACTCCGTGGCA-TCCTTTT
* * **
6001685 AA-TGCCTACAAGTCAGTGGCATTTTTTTT
1 AAGT-CC-ACAACTCCGTGGCA-TCCTTTT
* * *
6001714 AAG-CCTACAAGTCAGTAGC-TCCCTTTTTT
1 AAGTCC-ACAACTCCGTGGCAT-CC--TTTT
* * * *
6001743 AAGCCCACAACTTCGTGGCA-CCGTATA
1 AAGTCCACAACTCCGTGGCATCC-TTTT
6001770 AAGTCCACAACTCCGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
*
6001797 AAGTCCACAACTCCGTGGCATTCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* *
6001824 AGGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
6001851 AAAGTCCACAACTCCGTGGCA-CCTTTTT
1 -AAGTCCACAACTCCGTGGCATCC-TTTT
*
6001879 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * * *
6001906 AAAGTCCACCACTCTGTGGTACCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
* *** * *
6001934 AAAGTCCACCACTTTATGGCACCCATTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT
* ** *
6001962 AAGTCCATAACTTTGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * *
6001989 AA-TCCACAATTCTGTAGCA-CTCTTTT
1 AAGTCCACAACTCCGTGGCATC-CTTTT
* * * * *
6002015 AAGTCCATAATTCTGTGGCACCCTTTA
1 AAGTCCACAACTCCGTGGCATCCTTTT
* * * *
6002042 AAGTCCACAAGTCAGTGGCATCATTTCA
1 AAGTCCACAACTCCGTGGCATCCTTT-T
* *
6002070 AAGTCCACAAGTCAGTGGCA
1 AAGTCCACAACTCCGTGGCA
6002090 CCATTTCAAA
Statistics
Matches: 1050, Mismatches: 148, Indels: 67
0.83 0.12 0.05
Matches are distributed among these distances:
25 1 0.00
26 21 0.02
27 580 0.55
28 337 0.32
29 103 0.10
30 8 0.01
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (27 bp):
AAGTCCACAACTCCGTGGCATCCTTTT
Found at i:6000932 original size:55 final size:54
Alignment explanation
Indices: 6000831--6002089 Score: 949
Period size: 55 Copynumber: 22.9 Consensus size: 54
6000821 GACCTTTTCA
* * * **
6000831 AAGTCCATAATTCAGTGGCATCCTTTTAAGTCCACAACTCCATGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT
* *
6000885 CAGTCCACAACTCCGTGGCATCCTTGTAAAGTCCACAACTCTGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTT-TTAAGTCCACAACTCTGTGGCATCCTTTT
* * *
6000940 AAGTCTACAACTTCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCC-TTTT
* ** * * * * *
6000995 AAG-CCGACAAGTTAGTGGCACCCCTTTTTAAGCCCATAACT-TCGTGGCACCCTTTA
1 AAGTCC-ACAACTCCGTGGCA-TCC-TTTTAAGTCCACAACTCT-GTGGCATCCTTTT
* * *
6001051 AAGTCCATAACTCCGTGGCACCCTTTAAAGTCCACAACTCTGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT
* * * **
6001105 AAGTCCACAACTTCATGGCATCCTTTTAAGTCCACAATTCCATGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT
*
6001159 AAGTCCACAACTCCGTGGCATCTTTTTAAGTCCACAACTCTGTGGCATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT
* * * * * * **
6001213 AAGTCCAAAACTTCGTGGCATCTTTTTTAAGCCCACAAGT-TAGTGGCACCCTTCCA
1 AAGTCCACAACTCCGTGGCATC-CTTTTAAGTCCACAACTCT-GTGGCATCCTT-TT
* * * ** * * * * * *
6001269 AAGCCCACAAGTCAGCAGCACCCCTTTTTAAGCCCACAAGTCAGTGGCACCCTTCTA
1 AAGTCCACAACTCCGTGGCA-TCC-TTTTAAGTCCACAACTCTGTGGCATCCTT-TT
* * * ** * * * * * *
6001326 AAGCCCATAAGTCAATGGCACCCCTTTTTAAGCCCATAACTCCGTGGCACCCTTTA
1 AAGTCCACAACTCCGTGGCA-TCC-TTTTAAGTCCACAACTCTGTGGCATCCTTTT
* * * * * * * *
6001382 AAGTCCATAACTCTGTGGCACCCTTTAAAGTTCACAACTCCGTGGCACCCTTTA
1 AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT
* * * * *
6001436 AAGTTCACAACTCCGTGGCACCCTTTTAGGTCCACAACTCCGTGGCACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT
* * *
6001490 AAAGTCCACAACTTCGTGGTATCCTTTTAAAGTCCACAACT-TCGTGGCATCTTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCT-GTGGCATCCTTTT
* * *
6001546 AAGTCAACAACTCCGTGGCATCCTTTTGAAGTCCATAACTCTGTGACATCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCTGTGGCATCCTTTT
* * * * * **
6001601 AAGTCCACAACTCCGTGGCATCCTTTTGAAGCCCACAAGTCAGTGACACCCTTCCA
1 AAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCTGTGGCATCCTT-TT
* * * * * * * **
6001657 AAGCCCACAAGTCAGTGGCACCCCTTTCAA-TGCCTACAAGTCAGTGGCATTTTTTTT
1 AAGTCCACAACTCCGTGGCA-TCCTTTTAAGT-CC-ACAACTCTGTGGCA-TCCTTTT
* * * * * *
6001714 AAG-CCTACAAGTCAGTAGC-TCCCTTTTTTAAGCCCACAACT-TCGTGGCA-CCGTATA
1 AAGTCC-ACAACTCCGTGGCAT-CC--TTTTAAGTCCACAACTCT-GTGGCATCC-TTTT
* *
6001770 AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCGTGGCATTCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT
* * *
6001824 AGGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTGGCA-CCTTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCTGTGGCATCC-TTTT
* * * *
6001879 AAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACCACTCTGTGGTACCCTTTT
1 AAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCACAACTCTGTGGCATCCTTTT
* *** * * * * *
6001934 AAAGTCCACCACTTTATGGCACCCATTTAAGTCCATAACTTTGTGGCACCCTTTT
1 -AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT
* * * * * * *
6001989 AA-TCCACAATTCTGTAGCA-CTCTTTTAAGTCCATAATTCTGTGGCACCCTTTA
1 AAGTCCACAACTCCGTGGCATC-CTTTTAAGTCCACAACTCTGTGGCATCCTTTT
* * * * * *
6002042 AAGTCCACAAGTCAGTGGCATCATTTCAAAGTCCACAAGTCAGTGGCA
1 AAGTCCACAACTCCGTGGCATCCTTT-TAAGTCCACAACTCTGTGGCA
6002090 CCATTTCAAA
Statistics
Matches: 993, Mismatches: 170, Indels: 83
0.80 0.14 0.07
Matches are distributed among these distances:
52 1 0.00
53 42 0.04
54 326 0.33
55 329 0.33
56 138 0.14
57 148 0.15
58 9 0.01
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (54 bp):
AAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCTGTGGCATCCTTTT
Found at i:6001680 original size:388 final size:383
Alignment explanation
Indices: 6000963--6002119 Score: 1313
Period size: 388 Copynumber: 3.0 Consensus size: 383
6000953 CGTGGCATCC
* * * * * ** *
6000963 TTTTAAGTCCACAACTCCGTGGCATCCTTTTTAAG-CCGACAAGTTAGTGGCACCCCTTTTTAAG
1 TTTTAAGCCCACAACTCCGTGGCA-CCCTATAAAGTCC-ACAACTCCGTGGCA-CCCTTT-AAAG
* * * * * *
6001027 CCCATAACTTCGTGGCACCCTTTAAAGTCCATAACTCCGTGGCACCCTTTAAAGTCCACAACTCT
62 TCCACAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCC
* * *
6001092 GTGGCATCCTTTTAAGTCCACAACTTCATGGCATCCTTTT-AAGTCCACAA-TTCCATGGCATCC
127 GTGGCA-CCTTTTAAGTCCACAACTTCGTGGCATCCTTTTAAAGTCCACAACTT-CGTGGCATCT
* *
6001155 TTTTAAGTCCACAACTCCGTGGCATCTTTTTAAGTCCACAACTCTGTGGCATCCTTTTAAGTCCA
190 TTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCATAACTCTGTGGCATCCTTTTAAGTCCA
* * * * *
6001220 AAACTTCGTGGCATCTTTTTTAAGCCCACAAGTTAGTGGCACCCTTCCAAAGCCCACAAGTCAGC
255 CAACTCCGTGGCATC-CTTTTAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTCAGT
* * * * *
6001285 AGCACCCCTTTTTAAGCCCACAAGTCAGTGGCACCCTTCTAAAGCCCATAAGTCAATGGCACCCC
319 GGCACCCCTTTTAAAGCCCACAAGTCAGTGGCACCATT-TAAAGCCCACAAGTCAGTGGCACCCC
6001350 T
383 T
* * * * *
6001351 TTTTAAGCCCATAACTCCGTGGCACCCTTTAAAGTCCATAACTCTGTGGCACCCTTTAAAGTTCA
1 TTTTAAGCCCACAACTCCGTGGCACCCTATAAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCA
* *
6001416 CAACTCCGTGGCACCCTTTAAAGTTCACAACTCCGTGGCACCCTTTTAGGTCCACAACTCCGTGG
66 CAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGG
*
6001481 CACCCTTTTAAAGTCCACAACTTCGTGGTATCCTTTTAAAGTCCACAACTTCGTGGCATCTTTTT
131 CA-CCTTTT-AAGTCCACAACTTCGTGGCATCCTTTTAAAGTCCACAACTTCGTGGCATCTTTTT
* *
6001546 AAGTCAACAACTCCGTGGCATCCTTTTGAAGTCCATAACTCTGTGACATCCTTTTAAGTCCACAA
194 AAGTCCACAACTCCGTGGCATCCTTTT-AAGTCCATAACTCTGTGGCATCCTTTTAAGTCCACAA
*
6001611 CTCCGTGGCATCCTTTTGAAGCCCACAAGTCAGTGACACCCTTCCAAAGCCCACAAGTCAGTGGC
258 CTCCGTGGCATCCTTTT-AAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTCAGTGGC
* * * *** * * * * *
6001676 ACCCCTTTCAATGCCTACAAGTCAGTGGCATTTTTTTTAAGCCTACAAGTCAGTAGCTCCCTT
322 ACCCCTTTTAAAGCCCACAAGTCAGTGGCA-CCATTTAAAGCCCACAAGTCAGTGGCACCCCT
* * * *
6001739 TTTTAAGCCCACAACTTCGTGGCACCGTATAAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCA
1 TTTTAAGCCCACAACTCCGTGGCACCCTATAAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCA
** * *
6001804 CAACTCCGTGGCATTCTTTTAGGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACAACTCCGTG
66 CAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTT-AAGTCCACAACTCCGTG
* * * * *
6001869 GCACCTTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAAGTCCACCAC-TCTGTGGTACCCTTT
130 GCACC-TTTTAAGTCCACAACTTCGTGGCATCCTTTTAAAGTCCACAACTTC-GTGGCA-TCTTT
* * *** * * * *
6001933 TAAAGTCCACCACTTTATGGCACCCATTTAAGTCCATAACTTTGTGGCACCCTTTTAA-TCCACA
192 TTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCATAACTCTGTGGCATCCTTTTAAGTCCACA
* * * * * * * * *
6001997 ATTCTGTAGCA-CTCTTTTAAGTCCATAATTCTGTGGCACCCTT-TAAAGTCCACAAGTCAGTGG
257 ACTCCGTGGCATC-CTTTTAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTCAGTGG
* * * *
6002060 CA-TCATTTCAAAGTCCACAAGTCAGTGGCACCATTTCAAAGCCCACAAGTCAGTGGCACC
321 CACCCCTTTTAAAGCCCACAAGTCAGTGGCACCATTT-AAAGCCCACAAGTCAGTGGCACC
6002120 ATTTCAAAGC
Statistics
Matches: 654, Mismatches: 102, Indels: 30
0.83 0.13 0.04
Matches are distributed among these distances:
383 3 0.00
384 42 0.06
385 91 0.14
386 52 0.08
387 90 0.14
388 326 0.50
389 50 0.08
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (383 bp):
TTTTAAGCCCACAACTCCGTGGCACCCTATAAAGTCCACAACTCCGTGGCACCCTTTAAAGTCCA
CAACTCCGTGGCACCCTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGG
CACCTTTTAAGTCCACAACTTCGTGGCATCCTTTTAAAGTCCACAACTTCGTGGCATCTTTTTAA
GTCCACAACTCCGTGGCATCCTTTTAAGTCCATAACTCTGTGGCATCCTTTTAAGTCCACAACTC
CGTGGCATCCTTTTAAGCCCACAAGTCAGTGGCACCCTTCCAAAGCCCACAAGTCAGTGGCACCC
CTTTTAAAGCCCACAAGTCAGTGGCACCATTTAAAGCCCACAAGTCAGTGGCACCCCT
Found at i:6001695 original size:29 final size:28
Alignment explanation
Indices: 6001629--6001705 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 28
6001619 CATCCTTTTG
*
6001629 AAGCCCACAAGTCAGTGACACCCTTCCA
1 AAGCCCACAAGTCAGTGGCACCCTTCCA
*
6001657 AAGCCCACAAGTCAGTGGCACCCCTTTCA
1 AAGCCCACAAGTCAGTGGCA-CCCTTCCA
* *
6001686 ATGCCTACAAGTCAGTGGCA
1 AAGCCCACAAGTCAGTGGCA
6001706 TTTTTTTTAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
28 19 0.43
29 25 0.57
ACGTcount: A:0.30, C:0.35, G:0.18, T:0.17
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTGGCACCCTTCCA
Found at i:6001752 original size:29 final size:29
Alignment explanation
Indices: 6001597--6001752 Score: 99
Period size: 28 Copynumber: 5.5 Consensus size: 29
6001587 TGTGACATCC
* * *
6001597 TTTTAAGTCCACAACTCCGTGGCAT-CC-T
1 TTTTAAGCCCACAAGTCAGTGGC-TCCCTT
* * *
6001625 TTTGAAGCCCACAAGTCAGTGACACCC-T
1 TTTTAAGCCCACAAGTCAGTGGCTCCCTT
*** * *
6001653 TCCAAAGCCCACAAGTCAGTGGCACCC-C
1 TTTTAAGCCCACAAGTCAGTGGCTCCCTT
* * *
6001681 TTTCAATGCCTACAAGTCAGTGGCAT--TTT
1 TTTTAA-GCCCACAAGTCAGTGGC-TCCCTT
* *
6001710 TTTTAAGCCTACAAGTCAGTAGCTCCCTT
1 TTTTAAGCCCACAAGTCAGTGGCTCCCTT
6001739 TTTTAAGCCCACAA
1 TTTTAAGCCCACAA
6001753 CTTCGTGGCA
Statistics
Matches: 100, Mismatches: 22, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
27 1 0.01
28 63 0.63
29 36 0.36
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (29 bp):
TTTTAAGCCCACAAGTCAGTGGCTCCCTT
Found at i:6002209 original size:30 final size:29
Alignment explanation
Indices: 6002029--6002409 Score: 352
Period size: 28 Copynumber: 13.1 Consensus size: 29
6002019 CCATAATTCT
* * *
6002029 GTGGCAC-CCTTT-AAAGTCCACAAGTCA
1 GTGGCACTCATTTCAAAGCCCACAAGTCG
* *
6002056 GTGGCA-TCATTTCAAAGTCCACAAGTCA
1 GTGGCACTCATTTCAAAGCCCACAAGTCG
*
6002084 GTGGCAC-CATTTCAAAGCCCACAAGTCA
1 GTGGCACTCATTTCAAAGCCCACAAGTCG
* **
6002112 GTGGCAC-CATTTCAAAGCCCCCAAGTTA
1 GTGGCACTCATTTCAAAGCCCACAAGTCG
*
6002140 GTGGCA-TCATTTCAAA-CCCACAAGTCA
1 GTGGCACTCATTTCAAAGCCCACAAGTCG
* *
6002167 GTGGTA-TCATTTCAAAGCTCACAAGTCG
1 GTGGCACTCATTTCAAAGCCCACAAGTCG
*
6002195 GTGGCAACTCATTTCAAAGCCCACAAGTTG
1 GTGGC-ACTCATTTCAAAGCCCACAAGTCG
*
6002225 GTGGCAACTCATTTCAAAGCCCATAAGTCG
1 GTGGC-ACTCATTTCAAAGCCCACAAGTCG
* * **
6002255 GTGGCA-TCATTTCAAAGCCTATAAGTTA
1 GTGGCACTCATTTCAAAGCCCACAAGTCG
*
6002283 GTGGCA-TCCTTTCAAAGCCCACAAGTCG
1 GTGGCACTCATTTCAAAGCCCACAAGTCG
* *
6002311 GTGGCAACCCATTTCAAAGCCCACACAATTCG
1 GTGGC-ACTCATTTCAAAG-CC-CACAAGTCG
* * *
6002343 GTGGCAACCCTTTTCAAACCCACACAAGTCG
1 GTGGC-ACTCATTTCAAAGCC-CACAAGTCG
* *
6002374 GTGGGAACCTC-TCTCAAAGCCTGCACAAGTCG
1 GT-GGCA-CTCATTTCAAAGCC--CACAAGTCG
6002406 GTGG
1 GTGG
6002410 GAGCCCTTTT
Statistics
Matches: 307, Mismatches: 33, Indels: 24
0.84 0.09 0.07
Matches are distributed among these distances:
27 34 0.11
28 142 0.46
29 3 0.01
30 62 0.20
31 26 0.08
32 40 0.13
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (29 bp):
GTGGCACTCATTTCAAAGCCCACAAGTCG
Found at i:6002368 original size:31 final size:32
Alignment explanation
Indices: 6002186--6002518 Score: 221
Period size: 32 Copynumber: 10.8 Consensus size: 32
6002176 TTTCAAAGCT
* *
6002186 CACAAGTCGGTGGCAACTCATTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
* * *
6002216 CACAAGTTGGTGGCAACTCATTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
* * *
6002246 CATAAGTCGGTGGC-A-TCATTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
* * ** *
6002274 TATAAGTTAGTGGC-ATCC-TTTCAAAG-CC-
1 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
*
6002302 CACAAGTCGGTGGCAACCCATTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
*
6002334 CACAATTCGGTGGCAACCCTTTTCAAA-CCCA
1 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
* * **
6002365 CACAAGTCGGTGGGAA-CCTCTCTCAAAGCCTG
1 CACAAGTCGGTGGCAACCCT-TTTCAAAGCCCA
* *
6002397 CACAAGTCGGTGGGAGCCCTTTT-AAAGCCCA
1 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
* *** * *
6002428 CACAAGTTGGTGGCATAGTTTTTTAAAAGTCCA
1 CACAAGTCGGTGGCA-ACCCTTTTCAAAGCCCA
** * * *
6002461 CAC-TTTCGGTGGTAACCCTTTTTAAAGCCTA
1 CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
* * *
6002492 CGCAAGTCAGTGGCAACCTTTTTCAAA
1 CACAAGTCGGTGGCAACCCTTTTCAAA
6002519 TCACCACTTT
Statistics
Matches: 245, Mismatches: 47, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
28 45 0.18
29 5 0.02
30 52 0.21
31 58 0.24
32 72 0.29
33 13 0.05
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCCTTTTCAAAGCCCA
Found at i:6002376 original size:63 final size:63
Alignment explanation
Indices: 6002186--6002518 Score: 224
Period size: 63 Copynumber: 5.4 Consensus size: 63
6002176 TTTCAAAGCT
* * * * *
6002186 CACAAGTCGGTGGCAACTCATTTCAAAGCCCACA-AGTT-GGTGGCAACTCATTTCAAAGCC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAATTCGGTGGCAACCCTTTTCAAACCCA
* * * * * * * *
6002246 CATAAGTCGGTGGC-A-TCATTTCAAAGCCTATA-AGTT-AGTGGC-ATCC-TTTCAAAGCC-
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAATTCGGTGGCAACCCTTTTCAAACCCA
6002302 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAATTCGGTGGCAACCCTTTTCAAACCCA
1 CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAATTCGGTGGCAACCCTTTTCAAACCCA
* * ** * * *
6002365 CACAAGTCGGTGGGAACCTC-TCTCAAAGCCTGCACAAGTCGGTGGGAGCCCTTTT-AAAGCCCA
1 CACAAGTCGGTGGCAACC-CATTTCAAAGCCCACACAATTCGGTGGCAACCCTTTTCAAA-CCCA
* **** * * * * * *
6002428 CACAAGTTGGTGGCATAGTTTTTTAAAAGTCCACAC-TTTCGGTGGTAACCCTTTTTAAAGCCTA
1 CACAAGTCGGTGGCA-ACCCATTTCAAAGCCCACACAATTCGGTGGCAACCCTTTTCAAA-CCCA
* * **
6002492 CGCAAGTCAGTGGCAACCTTTTTCAAA
1 CACAAGTCGGTGGCAACCCATTTCAAA
6002519 TCACCACTTT
Statistics
Matches: 219, Mismatches: 42, Indels: 21
0.78 0.15 0.07
Matches are distributed among these distances:
56 23 0.11
57 3 0.01
58 38 0.17
59 4 0.02
60 18 0.08
61 3 0.01
62 12 0.05
63 87 0.40
64 31 0.14
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (63 bp):
CACAAGTCGGTGGCAACCCATTTCAAAGCCCACACAATTCGGTGGCAACCCTTTTCAAACCCA
Found at i:6002619 original size:45 final size:47
Alignment explanation
Indices: 6002543--6002653 Score: 127
Period size: 45 Copynumber: 2.4 Consensus size: 47
6002533 ATGTTAAAGT
* *
6002543 CCAATATCGTTGGCCTTGAATCAACATATTGG-CACCTTT-ATTAGC
1 CCAATGTCGTTGGCCTTGAATCAACACATTGGTCACCTTTCATTAGC
** * *
6002588 CCAATGTCGTTGGCCTTGAATCTGCACATTGGTTCACTTTTCCTTTAGC
1 CCAATGTCGTTGGCCTTGAATCAACACATTGG-TCACCTTT-CATTAGC
*
6002637 TCAATGTCGTTGGCCTT
1 CCAATGTCGTTGGCCTT
6002654 TTATTAGCAC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
45 28 0.51
47 6 0.11
49 21 0.38
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (47 bp):
CCAATGTCGTTGGCCTTGAATCAACACATTGGTCACCTTTCATTAGC
Found at i:6002966 original size:21 final size:21
Alignment explanation
Indices: 6002906--6002978 Score: 62
Period size: 21 Copynumber: 3.3 Consensus size: 21
6002896 TGATTTTTTT
*
6002906 AAAAAATAATAATAATAAGATACA
1 AAAAAATAACAATAA-AA-ATA-A
6002930 AAAAAA-AGACAA-AAAAATATA
1 AAAAAATA-ACAATAAAAATA-A
6002951 AAAAAATAA-AATAAAAAGTAA
1 AAAAAATAACAATAAAAA-TAA
6002972 AAAAAAT
1 AAAAAAT
6002979 GAGTGGCTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
20 2 0.05
21 24 0.56
22 5 0.12
23 3 0.07
24 9 0.21
ACGTcount: A:0.78, C:0.03, G:0.04, T:0.15
Consensus pattern (21 bp):
AAAAAATAACAATAAAAATAA
Found at i:6002975 original size:31 final size:32
Alignment explanation
Indices: 6002905--6002978 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 32
6002895 CTGATTTTTT
* *
6002905 TAAAAAATAATAATAATAAGATACAAAAAAAAG
1 TAAAAAA-AATAATAAAAAAATACAAAAAAAAG
6002938 -ACAAAAAAAT-ATAAAAAAATA-AAATAAAAAG
1 TA-AAAAAAATAATAAAAAAATACAAA-AAAAAG
6002969 TAAAAAAAAT
1 TAAAAAAAAT
6002979 GAGTGGCTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
30 3 0.08
31 23 0.64
32 5 0.14
33 5 0.14
ACGTcount: A:0.77, C:0.03, G:0.04, T:0.16
Consensus pattern (32 bp):
TAAAAAAAATAATAAAAAAATACAAAAAAAAG
Found at i:6005677 original size:20 final size:20
Alignment explanation
Indices: 6005652--6005727 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
6005642 TTTTTACCTA
*
6005652 AATGTATCGATACATTTTTT
1 AATGTATCGATACATTTTTC
* *
6005672 AATGTATCGATACATTTATG
1 AATGTATCGATACATTTTTC
*
6005692 AATGTATCGATACATTCTTC
1 AATGTATCGATACATTTTTC
*
6005712 AATGTGTCGATACATT
1 AATGTATCGATACATT
6005728 CTATCTTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:6005698 original size:40 final size:40
Alignment explanation
Indices: 6005652--6005727 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
6005642 TTTTTACCTA
* *
6005652 AATGTATCGATACATTTTTTAATGTATCGATACATTTATG
1 AATGTATCGATACATTCTTCAATGTATCGATACATTTATG
*
6005692 AATGTATCGATACATTCTTCAATGTGTCGATACATT
1 AATGTATCGATACATTCTTCAATGTATCGATACATT
6005728 CTATCTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (40 bp):
AATGTATCGATACATTCTTCAATGTATCGATACATTTATG
Found at i:6005828 original size:51 final size:51
Alignment explanation
Indices: 6005693--6005809 Score: 198
Period size: 51 Copynumber: 2.3 Consensus size: 51
6005683 ACATTTATGA
*
6005693 ATGTATCGATACATTCTTCAATGTGTCGATACATTCTATCTTTTTACCCAG
1 ATGTATCGATACATTCTTCAATGTATCGATACATTCTATCTTTTTACCCAG
* * *
6005744 ATGTATCGATACATTCTTCAATGTATCAATACATTCTGTCTTTTTACCTAG
1 ATGTATCGATACATTCTTCAATGTATCGATACATTCTATCTTTTTACCCAG
6005795 ATGTATCGATACATT
1 ATGTATCGATACATT
6005810 GAATAATGTA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.42
Consensus pattern (51 bp):
ATGTATCGATACATTCTTCAATGTATCGATACATTCTATCTTTTTACCCAG
Found at i:6022461 original size:17 final size:17
Alignment explanation
Indices: 6022431--6022480 Score: 61
Period size: 16 Copynumber: 3.1 Consensus size: 17
6022421 GATTATTCTA
6022431 TTTAAATT-AAAATAAT
1 TTTAAATTAAAAATAAT
6022447 TTTAAATTAAAAAT-AT
1 TTTAAATTAAAAATAAT
*
6022463 TTTTAA-TAATAAATAAT
1 TTTAAATTAA-AAATAAT
6022480 T
1 T
6022481 AATAAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 3 0.10
16 19 0.63
17 8 0.27
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTAAATTAAAAATAAT
Found at i:6022817 original size:30 final size:30
Alignment explanation
Indices: 6022783--6022886 Score: 72
Period size: 31 Copynumber: 3.4 Consensus size: 30
6022773 TATATTAATA
6022783 CTTTG-ATGCAATCTCCAAGTTATAGAGATG
1 CTTTGAATGCAATCTCCAAGTTAT-GAGATG
** * *
6022813 CTTTGTCTGCTATCTCTAAG-TATTG-GTATG
1 CTTTGAATGCAATCTCCAAGTTA-TGAG-ATG
** *
6022843 CTTTCTATTCAAT-TGCCAAGTTATGAAGATG
1 CTTTGAATGCAATCT-CCAAGTTATG-AGATG
6022874 CTTTGAATGCAAT
1 CTTTGAATGCAAT
6022887 TTCTAAGCTA
Statistics
Matches: 56, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
29 2 0.04
30 26 0.46
31 27 0.48
32 1 0.02
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.39
Consensus pattern (30 bp):
CTTTGAATGCAATCTCCAAGTTATGAGATG
Found at i:6029133 original size:37 final size:38
Alignment explanation
Indices: 6029055--6029138 Score: 109
Period size: 38 Copynumber: 2.2 Consensus size: 38
6029045 CATAGGTTAA
*
6029055 AACAAAAACTACTATTATAATCTGGTGGCACGGTTCAG
1 AACAAAAACTACTATTATAATCTAGTGGCACGGTTCAG
* * *
6029093 AACAAAAACTACTATTCTTATC-AGTGGCACGGGTT-GG
1 AACAAAAACTACTATTATAATCTAGTGGCAC-GGTTCAG
6029130 AACAAAAAC
1 AACAAAAAC
6029139 CATTATTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
37 17 0.41
38 24 0.59
ACGTcount: A:0.39, C:0.19, G:0.18, T:0.24
Consensus pattern (38 bp):
AACAAAAACTACTATTATAATCTAGTGGCACGGTTCAG
Found at i:6029151 original size:37 final size:38
Alignment explanation
Indices: 6029055--6029160 Score: 99
Period size: 38 Copynumber: 2.8 Consensus size: 38
6029045 CATAGGTTAA
* * * **
6029055 AACAAAAACTACTATTATAATCTGGTGGCACGGTTCAG
1 AACAAAAACCACTATTCTTATCCAGTGGCACGGTTCAG
* *
6029093 AACAAAAACTACTATTCTTAT-CAGTGGCACGGGTT-GG
1 AACAAAAACCACTATTCTTATCCAGTGGCAC-GGTTCAG
* * *
6029130 AACAAAAACCATTATTTTTATCCGGTGGCAC
1 AACAAAAACCACTATTCTTATCCAGTGGCAC
6029161 AGTAAAAATC
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
37 26 0.46
38 31 0.54
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (38 bp):
AACAAAAACCACTATTCTTATCCAGTGGCACGGTTCAG
Found at i:6034597 original size:13 final size:13
Alignment explanation
Indices: 6034581--6034605 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6034571 CAATTCATCA
6034581 TGTATCGATACAT
1 TGTATCGATACAT
6034594 TGTATCGATACA
1 TGTATCGATACA
6034606 ATATGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:6034694 original size:13 final size:13
Alignment explanation
Indices: 6034676--6034702 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6034666 ACAATTGTAC
6034676 ATGTATCGATACA
1 ATGTATCGATACA
6034689 ATGTATCGATACA
1 ATGTATCGATACA
6034702 A
1 A
6034703 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:6043451 original size:19 final size:20
Alignment explanation
Indices: 6043427--6043476 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
6043417 AATTGTGTAC
*
6043427 GTATCGATACAATG-A-ACAT
1 GTATCGATACAAAGCATA-AT
6043446 GTATCGATACAAAGCATAAT
1 GTATCGATACAAAGCATAAT
6043466 GTATCGATACA
1 GTATCGATACA
6043477 TCTAGATATG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 13 0.46
20 14 0.50
21 1 0.04
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.26
Consensus pattern (20 bp):
GTATCGATACAAAGCATAAT
Found at i:6048924 original size:29 final size:29
Alignment explanation
Indices: 6048892--6048965 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 29
6048882 TTTTTATGTC
* *
6048892 TATAGTTAGCATCCGACCTCTTTTGAT-T
1 TATACTTAGCATCCGACCTCTTTTAATCT
* *
6048920 ATATACTT-GCCTTCGACCTCTTTTAATGCT
1 -TATACTTAGCATCCGACCTCTTTTAAT-CT
6048950 TATACTTAGCATCCGA
1 TATACTTAGCATCCGA
6048966 TGGCATTCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
28 16 0.44
29 13 0.36
30 7 0.19
ACGTcount: A:0.23, C:0.24, G:0.12, T:0.41
Consensus pattern (29 bp):
TATACTTAGCATCCGACCTCTTTTAATCT
Found at i:6050881 original size:11 final size:11
Alignment explanation
Indices: 6050867--6050909 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
6050857 TAAACATATT
6050867 TATTATTAAAA
1 TATTATTAAAA
*
6050878 TATTAATAAAA
1 TATTATTAAAA
*
6050889 TAATTTTTTAAAA
1 T-A-TTATTAAAA
6050902 TATTATTA
1 TATTATTA
6050910 TTGTTAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 16 0.62
12 2 0.08
13 8 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TATTATTAAAA
Found at i:6050935 original size:31 final size:32
Alignment explanation
Indices: 6050900--6050962 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 32
6050890 AATTTTTTAA
* *
6050900 AATATTATTATTGTTAAAAATTA-TTTATATT
1 AATATAATTATTATTAAAAATTATTTTATATT
*
6050931 AATATAATTATTATTAAAATTTATTTTATATT
1 AATATAATTATTATTAAAAATTATTTTATATT
6050963 TTTTAAATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 20 0.71
32 8 0.29
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (32 bp):
AATATAATTATTATTAAAAATTATTTTATATT
Found at i:6052094 original size:13 final size:13
Alignment explanation
Indices: 6052072--6052104 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
6052062 AATGAATTGA
*
6052072 AGAGGTATACAAG
1 AGAGGGATACAAG
6052085 AGAGGGATACAAG
1 AGAGGGATACAAG
6052098 AGAGGGA
1 AGAGGGA
6052105 GGAGGGAGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.45, C:0.06, G:0.39, T:0.09
Consensus pattern (13 bp):
AGAGGGATACAAG
Found at i:6052249 original size:27 final size:27
Alignment explanation
Indices: 6052188--6052258 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
6052178 AAACAAGCCT
* *
6052188 CCATATTTGACAAATACAAAGGAAACCA
1 CCATTTTTGACAAACACAAA-GAAACCA
*
6052216 CCGTTTTTGACAAACACAAA-ATAACCA
1 CCATTTTTGACAAACACAAAGA-AACCA
6052243 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
6052259 AATGGGTGGC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.03
27 20 0.53
28 17 0.45
ACGTcount: A:0.45, C:0.24, G:0.08, T:0.23
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAGAAACCA
Found at i:6054180 original size:21 final size:22
Alignment explanation
Indices: 6054142--6054187 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
6054132 ATCTGTTGAA
* **
6054142 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
6054163 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
6054185 ACT
1 ACT
6054188 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:6056655 original size:13 final size:13
Alignment explanation
Indices: 6056639--6056672 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
6056629 AATGAATTAA
6056639 AGAGGGATACAAG
1 AGAGGGATACAAG
6056652 AGAGGGATACAAG
1 AGAGGGATACAAG
6056665 AGAGGGAT
1 AGAGGGAT
6056673 GAGGGAGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.44, C:0.06, G:0.41, T:0.09
Consensus pattern (13 bp):
AGAGGGATACAAG
Found at i:6056828 original size:24 final size:27
Alignment explanation
Indices: 6056755--6056825 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
6056745 AAACAAGCCT
* *
6056755 CCATATTTGACAAATACAAAGGA-AACCA
1 CCATTTTTGACAAACACAAA--ATAACCA
6056783 CCATTTTTGACAAACACAAAATAACCA
1 CCATTTTTGACAAACACAAAATAACCA
6056810 CCATTTTTGACAAACA
1 CCATTTTTGACAAACA
6056826 AATGGGTGGC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.03
27 21 0.52
28 18 0.45
ACGTcount: A:0.46, C:0.24, G:0.07, T:0.23
Consensus pattern (27 bp):
CCATTTTTGACAAACACAAAATAACCA
Done.