Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 6601124
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 33
Found at i:596139 original size:10 final size:9
Alignment explanation
Indices: 596064--596203 Score: 100
Period size: 10 Copynumber: 14.3 Consensus size: 9
596054 GCTGCTGGAA
*
596064 ACCGGTTTA
1 ACCGGTTTG
*
596073 ACCGGTTTTCA
1 ACCGG-TTT-G
596084 ACCGGTTTG
1 ACCGGTTTG
*
596093 ACCGGTTTTCA
1 ACCGG-TTT-G
596104 ACCGGTTTG
1 ACCGGTTTG
*
596113 ACCGGTTTTCA
1 ACCGG-TTT-G
596124 ACCGGTTCTG
1 ACCGGTT-TG
596134 ACCGGTTTG
1 ACCGGTTTG
*
596143 ACCGGTTTCA
1 ACCGGTTT-G
*
596153 ACCGGTTCG
1 ACCGGTTTG
596162 AACCGGTTTG
1 -ACCGGTTTG
*
596172 AACCGGTTTA
1 -ACCGGTTTG
*
596182 ACCGGTCTG
1 ACCGGTTTG
*
596191 AACCGGGTTG
1 -ACCGGTTTG
596201 ACC
1 ACC
596204 AGTCTGACCC
Statistics
Matches: 107, Mismatches: 14, Indels: 20
0.76 0.10 0.14
Matches are distributed among these distances:
9 35 0.33
10 55 0.51
11 17 0.16
ACGTcount: A:0.17, C:0.26, G:0.26, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:596201 original size:29 final size:31
Alignment explanation
Indices: 596064--596196 Score: 97
Period size: 29 Copynumber: 4.5 Consensus size: 31
596054 GCTGCTGGAA
* *
596064 ACCGGTTT-AACCGGTTTTCAACCGGTTTG-
1 ACCGGTTTCAACCGGTTCTGAACCGGTTTGA
*
596093 ACCGGTTTTCAACCGGTT-TG-ACCGGTTTTCA
1 ACCGG-TTTCAACCGGTTCTGAACCGG-TTTGA
* *
596124 ACCGG-TTCTGACCGGTT-TG-ACCGGTTTCA
1 ACCGGTTTC-AACCGGTTCTGAACCGGTTTGA
596153 ACCGG-TTCGAACCGGTT-TGAACCGGTTT-A
1 ACCGGTTTC-AACCGGTTCTGAACCGGTTTGA
* *
596182 ACCGGTCTGAACCGG
1 ACCGGTTTCAACCGG
596197 GTTGACCAGT
Statistics
Matches: 90, Mismatches: 7, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
29 47 0.52
30 30 0.33
31 13 0.14
ACGTcount: A:0.17, C:0.26, G:0.26, T:0.30
Consensus pattern (31 bp):
ACCGGTTTCAACCGGTTCTGAACCGGTTTGA
Found at i:596208 original size:19 final size:19
Alignment explanation
Indices: 596170--596210 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
596160 CGAACCGGTT
* *
596170 TGAACCGGTTTAACCGGTC
1 TGAACCGGGTTAACCAGTC
*
596189 TGAACCGGGTTGACCAGTC
1 TGAACCGGGTTAACCAGTC
596208 TGA
1 TGA
596211 CCCGACCCGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.24
Consensus pattern (19 bp):
TGAACCGGGTTAACCAGTC
Found at i:596251 original size:22 final size:22
Alignment explanation
Indices: 596226--596268 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
596216 CCCGACCGTT
*
596226 GACCCGACTCAACCGTTGACCC
1 GACCCGACCCAACCGTTGACCC
*
596248 GACCCGACCCGACCGTTGACC
1 GACCCGACCCAACCGTTGACC
596269 GTTGACCGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.47, G:0.21, T:0.12
Consensus pattern (22 bp):
GACCCGACCCAACCGTTGACCC
Found at i:596268 original size:17 final size:17
Alignment explanation
Indices: 596208--596256 Score: 80
Period size: 17 Copynumber: 2.9 Consensus size: 17
596198 TTGACCAGTC
596208 TGACCCGACCCGACCGT
1 TGACCCGACCCGACCGT
* *
596225 TGACCCGACTCAACCGT
1 TGACCCGACCCGACCGT
596242 TGACCCGACCCGACC
1 TGACCCGACCCGACC
596257 CGACCGTTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.20, C:0.47, G:0.20, T:0.12
Consensus pattern (17 bp):
TGACCCGACCCGACCGT
Found at i:598058 original size:19 final size:18
Alignment explanation
Indices: 598023--598057 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
598013 AGTATGTTCA
598023 GGGGGTATCGATTCCCCT
1 GGGGGTATCGATTCCCCT
598041 GGGGGTATCGATTCCCC
1 GGGGGTATCGATTCCCC
598058 CCTAAATGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.29, G:0.34, T:0.26
Consensus pattern (18 bp):
GGGGGTATCGATTCCCCT
Found at i:598921 original size:18 final size:20
Alignment explanation
Indices: 598898--598938 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
598888 ATGACTTGGT
*
598898 TATATATAT-CATA-TGAAA
1 TATATACATGCATATTGAAA
598916 TATATACATGCATATTGAAA
1 TATATACATGCATATTGAAA
598936 TAT
1 TAT
598939 CAAGATCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 4 0.20
20 8 0.40
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (20 bp):
TATATACATGCATATTGAAA
Found at i:604538 original size:12 final size:12
Alignment explanation
Indices: 604521--604545 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
604511 AAGAGTTGAT
604521 AAGTTAAATTTG
1 AAGTTAAATTTG
604533 AAGTTAAATTTG
1 AAGTTAAATTTG
604545 A
1 A
604546 CTTTTCATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (12 bp):
AAGTTAAATTTG
Found at i:604880 original size:19 final size:18
Alignment explanation
Indices: 604853--604907 Score: 92
Period size: 19 Copynumber: 2.9 Consensus size: 18
604843 AGTATGTTCA
604853 GGGGGTATCGATTCCCCT
1 GGGGGTATCGATTCCCCT
604871 GGGGGATATCGATTCCCCT
1 GGGGG-TATCGATTCCCCT
604890 GGGGGGTATCGATTCCCC
1 -GGGGGTATCGATTCCCC
604908 CCTAAATGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.14
19 25 0.71
20 5 0.14
ACGTcount: A:0.13, C:0.27, G:0.35, T:0.25
Consensus pattern (18 bp):
GGGGGTATCGATTCCCCT
Found at i:608866 original size:32 final size:32
Alignment explanation
Indices: 608825--608920 Score: 131
Period size: 32 Copynumber: 2.9 Consensus size: 32
608815 TTATACAACC
*
608825 AGCATGTAAACGTAGAAATTATGTTTCAGTGA
1 AGCATGTAAATGTAGAAATTATGTTTCAGTGA
*
608857 AGCATGTAAATGTAGAAATTTTGTTTCAGTATTGA
1 AGCATGTAAATGTAGAAATTATGTTTCAG---TGA
*
608892 A-CATGTAAATGTAGAAATTCTGTTTCAGT
1 AGCATGTAAATGTAGAAATTATGTTTCAGT
608921 ATTGAAGCTT
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
31 1 0.02
32 27 0.47
34 26 0.45
35 4 0.07
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.36
Consensus pattern (32 bp):
AGCATGTAAATGTAGAAATTATGTTTCAGTGA
Found at i:608902 original size:34 final size:35
Alignment explanation
Indices: 608825--608928 Score: 153
Period size: 34 Copynumber: 3.1 Consensus size: 35
608815 TTATACAACC
*
608825 AGCATGTAAACGTAGAAATTATGTTTCAG---TGA
1 AGCATGTAAATGTAGAAATTATGTTTCAGTATTGA
*
608857 AGCATGTAAATGTAGAAATTTTGTTTCAGTATTGA
1 AGCATGTAAATGTAGAAATTATGTTTCAGTATTGA
*
608892 A-CATGTAAATGTAGAAATTCTGTTTCAGTATTGA
1 AGCATGTAAATGTAGAAATTATGTTTCAGTATTGA
608926 AGC
1 AGC
608929 TTGCAAAACT
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
32 27 0.42
34 33 0.51
35 5 0.08
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.36
Consensus pattern (35 bp):
AGCATGTAAATGTAGAAATTATGTTTCAGTATTGA
Found at i:609921 original size:24 final size:24
Alignment explanation
Indices: 609900--609948 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
609890 AAATCTGAGG
*
609900 AAGGGGAAGATGAAGATGCTGAAA
1 AAGGCGAAGATGAAGATGCTGAAA
* **
609924 AAGGCGAGGATGAAGACACTGAAA
1 AAGGCGAAGATGAAGATGCTGAAA
609948 A
1 A
609949 GAAACCAATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.47, C:0.08, G:0.35, T:0.10
Consensus pattern (24 bp):
AAGGCGAAGATGAAGATGCTGAAA
Found at i:614689 original size:12 final size:12
Alignment explanation
Indices: 614672--614700 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
614662 TATCGCGCGC
614672 TATTTTTTTTTA
1 TATTTTTTTTTA
614684 TA-TTTTTTTTA
1 TATTTTTTTTTA
614695 TATTTT
1 TATTTT
614701 AAGTAATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (12 bp):
TATTTTTTTTTA
Found at i:614691 original size:11 final size:11
Alignment explanation
Indices: 614675--614700 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
614665 CGCGCGCTAT
614675 TTTTTTTTATA
1 TTTTTTTTATA
614686 TTTTTTTTATA
1 TTTTTTTTATA
614697 TTTT
1 TTTT
614701 AAGTAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTTTATA
Found at i:615174 original size:15 final size:15
Alignment explanation
Indices: 615154--615190 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
615144 GAAAAATATT
*
615154 TTATATTATCAAATA
1 TTATATTATAAAATA
615169 TTATATT-TAAAATA
1 TTATATTATAAAATA
615183 -TATATTAT
1 TTATATTAT
615191 TTTATAACTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 6 0.30
14 7 0.35
15 7 0.35
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (15 bp):
TTATATTATAAAATA
Found at i:621174 original size:5 final size:5
Alignment explanation
Indices: 621164--621189 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
621154 TTCACTGTGA
621164 AAATT AAATT AAATT AAATT AAATT A
1 AAATT AAATT AAATT AAATT AAATT A
621190 CTGCTGCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AAATT
Found at i:627760 original size:5 final size:5
Alignment explanation
Indices: 627750--627777 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
627740 CATATATTGA
627750 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
627778 TATTGGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:631895 original size:19 final size:19
Alignment explanation
Indices: 631850--631943 Score: 125
Period size: 19 Copynumber: 4.8 Consensus size: 19
631840 AAGGGTCTTC
*
631850 TCGTCTTGATGAATGGTCTT
1 TCGTCTTGATGAATGG-CAT
*
631870 CTCGTCTTGATGAATGGCCT
1 -TCGTCTTGATGAATGGCAT
631890 TCGTCTTGATGAATGGCAT
1 TCGTCTTGATGAATGGCAT
* *
631909 TCTGTCTTGACGAATGACAT
1 TC-GTCTTGATGAATGGCAT
631929 TCGTCTTGATGAATG
1 TCGTCTTGATGAATG
631944 CTCTCTCGTC
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
19 32 0.48
20 19 0.28
21 16 0.24
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.38
Consensus pattern (19 bp):
TCGTCTTGATGAATGGCAT
Found at i:631932 original size:39 final size:40
Alignment explanation
Indices: 631850--631953 Score: 142
Period size: 39 Copynumber: 2.6 Consensus size: 40
631840 AAGGGTCTTC
* * *
631850 TCGTCTTGATGAATGGTCTTCTCGTCTTGATGAATGGCCT
1 TCGTCTTGATGAATGGTCTTCTCGTCTTGACGAATGACAT
631890 TCGTCTTGATGAATGG-CATTCT-GTCTTGACGAATGACAT
1 TCGTCTTGATGAATGGTC-TTCTCGTCTTGACGAATGACAT
*
631929 TCGTCTTGATGAATGCTC-TCTCGTC
1 TCGTCTTGATGAATGGTCTTCTCGTC
631954 CTTGGTACAA
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
38 3 0.05
39 33 0.58
40 21 0.37
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (40 bp):
TCGTCTTGATGAATGGTCTTCTCGTCTTGACGAATGACAT
Found at i:635666 original size:2 final size:2
Alignment explanation
Indices: 635659--635683 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
635649 CCATAATAAT
635659 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 T
635684 TTACAGAACC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:637832 original size:359 final size:360
Alignment explanation
Indices: 637168--637878 Score: 1325
Period size: 359 Copynumber: 2.0 Consensus size: 360
637158 GTATCTACCA
637168 ATTTCAACCTAATTATTTATTTAAAATTATGATATTTTTAGTACGAATCAAGTGATCTCTGTGAT
1 ATTTCAACCTAATTATTTATTTAAAATTATGATATTTTTAGTACGAATCAAGTGATCTCTGTGAT
637233 AAATGAATTGTTGTTATTTTTTAAGGTTTCGGGTTCGAGCACTAAGAATGCCAGTGGTGTGAGCG
66 AAATGAATTGTTGTTATTTTTTAAGGTTTCGGGTTCGAGCACTAAGAATGCCAGTGGTGTGAGCG
* *
637298 TTCAATATTGAATGGTGGAGAGTTATCTATAAACAAATATTGTTTTGTATTTACTCCATATAATA
131 TTCAATATTGAATGGTGGAGAGTTATCTATAAACAAATATTGTTTTGAAGTTACTCCATATAATA
637363 AAAATACACAATAACTCTAACTAGGTTTAATTGTAAAATAAGTGTCCAAACTATAGCGCGACATC
196 AAAATACACAATAACTCTAACTAGGTTTAATTGTAAAATAAGTGTCCAAACTATAGCGCGACATC
* * * *
637428 ACTTTAGGTGTCCTGGTCATCAATTGCGTTGATTTCCTTCGTTAAGTGACACGTGTCACAATTCG
261 ACTTTAAGTGTCCTGGTCATCAATGGCGTTGATTTCCTCCGTTAAGTGACACATGTCACAATTCG
637493 ATAGCTTTAAAAATTTTATTTAAAATTATTTATTT
326 ATAGCTTTAAAAATTTTATTTAAAATTATTTATTT
637528 ATTT-AACCTAATTATTTATTTAAAATTATGATATTTTTAGTACGAATCAAGTGATCTCTGTGAT
1 ATTTCAACCTAATTATTTATTTAAAATTATGATATTTTTAGTACGAATCAAGTGATCTCTGTGAT
637592 AAATGAATTGTTGTTATTTTTTAAGGTTTCGGGTTCGAGCACTAAGAATGCCAGTGGTGTGAGCG
66 AAATGAATTGTTGTTATTTTTTAAGGTTTCGGGTTCGAGCACTAAGAATGCCAGTGGTGTGAGCG
637657 TTCAATATTGAATGGTGGAGAGTTATCTATAAACAAATATTGTTTTGAAGTTACTCCATATAATA
131 TTCAATATTGAATGGTGGAGAGTTATCTATAAACAAATATTGTTTTGAAGTTACTCCATATAATA
* *
637722 AAAATACACAATAACTCTAACTAGGTTTAATTGTAAAATAAGTGTCCAAACTATAGTGCGATATC
196 AAAATACACAATAACTCTAACTAGGTTTAATTGTAAAATAAGTGTCCAAACTATAGCGCGACATC
*
637787 ACTTTAAGTGTCCTGGTCGTCAATGGCGTTGATTTCCTCCGTTAAGTGACACATGTCACAATTCG
261 ACTTTAAGTGTCCTGGTCATCAATGGCGTTGATTTCCTCCGTTAAGTGACACATGTCACAATTCG
*
637852 ATAGCTTTAAAAATTTTATTTGAAATT
326 ATAGCTTTAAAAATTTTATTTAAAATT
637879 TAAAAAAAAT
Statistics
Matches: 341, Mismatches: 10, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
359 337 0.99
360 4 0.01
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (360 bp):
ATTTCAACCTAATTATTTATTTAAAATTATGATATTTTTAGTACGAATCAAGTGATCTCTGTGAT
AAATGAATTGTTGTTATTTTTTAAGGTTTCGGGTTCGAGCACTAAGAATGCCAGTGGTGTGAGCG
TTCAATATTGAATGGTGGAGAGTTATCTATAAACAAATATTGTTTTGAAGTTACTCCATATAATA
AAAATACACAATAACTCTAACTAGGTTTAATTGTAAAATAAGTGTCCAAACTATAGCGCGACATC
ACTTTAAGTGTCCTGGTCATCAATGGCGTTGATTTCCTCCGTTAAGTGACACATGTCACAATTCG
ATAGCTTTAAAAATTTTATTTAAAATTATTTATTT
Found at i:637935 original size:18 final size:19
Alignment explanation
Indices: 637908--637943 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
637898 TTTTTTTTAA
637908 AACACAGAAA-TTTGAAAT
1 AACACAGAAACTTTGAAAT
*
637926 AACACCGAAACTTTGAAA
1 AACACAGAAACTTTGAAA
637944 ATTTTCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.53, C:0.17, G:0.11, T:0.19
Consensus pattern (19 bp):
AACACAGAAACTTTGAAAT
Found at i:639648 original size:15 final size:16
Alignment explanation
Indices: 639609--639655 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
639599 CATTAATAAA
639609 AATTTAAAATTATTATTT
1 AATTTAAAA--ATTATTT
*
639627 AACTTAAAAATT-TTT
1 AATTTAAAAATTATTT
*
639642 AATTTAATAATTAT
1 AATTTAAAAATTAT
639656 ATATAATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 13 0.52
16 4 0.16
18 8 0.32
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
AATTTAAAAATTATTT
Found at i:639759 original size:131 final size:132
Alignment explanation
Indices: 639577--639815 Score: 324
Period size: 131 Copynumber: 1.8 Consensus size: 132
639567 AAACAATAAA
*
639577 TTAAGTTCAAAATATATAAAATCATTAATAAAAATTTAAAATTATTATTTAACTT-AAAAATTTT
1 TTAAGTTCAAAATATATAAAATCATTAATAAAAATTTAAAATTATTATTTAACTTGAAAAA--AT
* *
639641 TAATTTAATAA-T-TATATATAATTTGTTGTTAAATTTATCAAACAATTTAAGTTTTTTTTAAAT
64 TAATTTAATAATTATATATATAAATTATTGTTAAATTTATCAAACAATTTAAGTTTTTTTTAAAT
639704 AATT
129 AATT
* * * * * *
639708 TTAAGTT-AATATATATATAGTTATTAATTAAAATTTTAAAATTATTATTTAAGTTGGAAAAAAT
1 TTAAGTTCAAAATATATAAAATCATTAA-TAAAAATTTAAAATTATTATTTAACTT-GAAAAAAT
*
639772 TAATTTGATAATTATATATATAAATTATTGTTAAATTTATCAAA
64 TAATTTAATAATTATATATATAAATTATTGTTAAATTTATCAAA
639816 TAATATTTTT
Statistics
Matches: 93, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
130 16 0.17
131 43 0.46
132 1 0.01
133 33 0.35
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.47
Consensus pattern (132 bp):
TTAAGTTCAAAATATATAAAATCATTAATAAAAATTTAAAATTATTATTTAACTTGAAAAAATTA
ATTTAATAATTATATATATAAATTATTGTTAAATTTATCAAACAATTTAAGTTTTTTTTAAATAA
TT
Found at i:645431 original size:8 final size:8
Alignment explanation
Indices: 645390--645432 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
645380 ACTCGTATAC
*
645390 ATACATAC
1 ATACATAT
645398 ATACATAT
1 ATACATAT
645406 AT--ATAT
1 ATACATAT
*
645412 ATATATAT
1 ATACATAT
645420 ATACATAT
1 ATACATAT
645428 ATACA
1 ATACA
645433 GGCAAAGTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 6 0.19
8 25 0.81
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (8 bp):
ATACATAT
Found at i:645856 original size:3 final size:3
Alignment explanation
Indices: 645848--645939 Score: 148
Period size: 3 Copynumber: 30.7 Consensus size: 3
645838 TTTTTATCCA
* *
645848 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
645896 TAT CAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
645940 AATATATTAA
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 81 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:645947 original size:9 final size:9
Alignment explanation
Indices: 645935--645969 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
645925 TTACTATTAT
645935 TATTAAATA
1 TATTAAATA
645944 TATTAAATA
1 TATTAAATA
*
645953 CATATAAATA
1 TAT-TAAATA
645963 TATTAAA
1 TATTAAA
645970 AATAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (9 bp):
TATTAAATA
Found at i:645978 original size:19 final size:19
Alignment explanation
Indices: 645938--645981 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
645928 CTATTATTAT
* *
645938 TAAATATATTAAATACATA
1 TAAATATATTAAAAACAAA
*
645957 TAAATATATTAAAAATAAA
1 TAAATATATTAAAAACAAA
645976 TAAATA
1 TAAATA
645982 ATAAAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (19 bp):
TAAATATATTAAAAACAAA
Found at i:648583 original size:22 final size:22
Alignment explanation
Indices: 648551--648601 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
648541 TTGAAACTCG
*
648551 ACTCGATTCAAGCTCAATTTAA
1 ACTCGACTCAAGCTCAATTTAA
* *
648573 GCTCGACTCAAGCTCGATTTAA
1 ACTCGACTCAAGCTCAATTTAA
648595 ACTCGAC
1 ACTCGAC
648602 AGGTTAAGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (22 bp):
ACTCGACTCAAGCTCAATTTAA
Found at i:648600 original size:11 final size:11
Alignment explanation
Indices: 648552--648591 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
648542 TGAAACTCGA
648552 CTCGATTCAAG
1 CTCGATTCAAG
* *
648563 CTCAATTTAAG
1 CTCGATTCAAG
*
648574 CTCGACTCAAG
1 CTCGATTCAAG
648585 CTCGATT
1 CTCGATT
648592 TAAACTCGAC
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (11 bp):
CTCGATTCAAG
Found at i:649956 original size:14 final size:14
Alignment explanation
Indices: 649937--649967 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
649927 GTTCGTGAAT
649937 GTTCAGTTATATTC
1 GTTCAGTTATATTC
*
649951 GTTCAGTTATGTTC
1 GTTCAGTTATATTC
649965 GTT
1 GTT
649968 TCTGTTTGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.13, G:0.19, T:0.52
Consensus pattern (14 bp):
GTTCAGTTATATTC
Found at i:649962 original size:24 final size:23
Alignment explanation
Indices: 649935--650001 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 23
649925 ACGTTCGTGA
*
649935 ATGTTCAGTTATATTCGTTCAGTT
1 ATGTTC-GTTATGTTCGTTCAGTT
* * *
649959 ATGTTCGTTTCTGTTTGTTCGGTT
1 ATGTTCG-TTATGTTCGTTCAGTT
649983 ATGTTCGGTTATGTTCGTT
1 ATGTTC-GTTATGTTCGTT
650002 TATGTTCATT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
23 1 0.03
24 33 0.94
25 1 0.03
ACGTcount: A:0.12, C:0.12, G:0.22, T:0.54
Consensus pattern (23 bp):
ATGTTCGTTATGTTCGTTCAGTT
Found at i:649987 original size:10 final size:10
Alignment explanation
Indices: 649974--650008 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
649964 CGTTTCTGTT
649974 TGTTCGGTTA
1 TGTTCGGTTA
649984 TGTTCGGTTA
1 TGTTCGGTTA
*
649994 TGTTCGTTTA
1 TGTTCGGTTA
650004 TGTTC
1 TGTTC
650009 ATTCATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.09, C:0.11, G:0.26, T:0.54
Consensus pattern (10 bp):
TGTTCGGTTA
Found at i:650019 original size:34 final size:34
Alignment explanation
Indices: 649951--650021 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
649941 AGTTATATTC
* ** *
649951 GTTCAGTTATGTTCGTTTCTGTTTGTTCGGTTAT
1 GTTCAGTTATGTTCGTTTATGTTCATTCAGTTAT
* *
649985 GTTCGGTTATGTTCGTTTATGTTCATTCATTTAT
1 GTTCAGTTATGTTCGTTTATGTTCATTCAGTTAT
650019 GTT
1 GTT
650022 TAAGCCAATC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.11, C:0.11, G:0.21, T:0.56
Consensus pattern (34 bp):
GTTCAGTTATGTTCGTTTATGTTCATTCAGTTAT
Found at i:650683 original size:10 final size:10
Alignment explanation
Indices: 650668--650741 Score: 68
Period size: 10 Copynumber: 7.6 Consensus size: 10
650658 GGTCTCCAAT
650668 GTTTATGTTC
1 GTTTATGTTC
*
650678 GTTTATGTTT
1 GTTTATGTTC
650688 GTGTTCAT-TTAC
1 GT-TT-ATGTT-C
650700 GTTTATGTTC
1 GTTTATGTTC
650710 GTTTA---T-
1 GTTTATGTTC
*
650716 GTTTGTGTTC
1 GTTTATGTTC
650726 GTTTATGTTC
1 GTTTATGTTC
650736 GTTTAT
1 GTTTAT
650742 TTATTAAATG
Statistics
Matches: 52, Mismatches: 4, Indels: 16
0.72 0.06 0.22
Matches are distributed among these distances:
6 4 0.08
7 1 0.02
9 1 0.02
10 34 0.65
11 8 0.15
12 4 0.08
ACGTcount: A:0.11, C:0.08, G:0.20, T:0.61
Consensus pattern (10 bp):
GTTTATGTTC
Found at i:650687 original size:16 final size:16
Alignment explanation
Indices: 650666--650734 Score: 102
Period size: 16 Copynumber: 4.3 Consensus size: 16
650656 AGGGTCTCCA
650666 ATGTTTATGTTCGTTT
1 ATGTTTATGTTCGTTT
* *
650682 ATGTTTGTGTTCATTT
1 ATGTTTATGTTCGTTT
*
650698 ACGTTTATGTTCGTTT
1 ATGTTTATGTTCGTTT
*
650714 ATGTTTGTGTTCGTTT
1 ATGTTTATGTTCGTTT
650730 ATGTT
1 ATGTT
650735 CGTTTATTTA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.12, C:0.07, G:0.20, T:0.61
Consensus pattern (16 bp):
ATGTTTATGTTCGTTT
Found at i:650709 original size:32 final size:32
Alignment explanation
Indices: 650668--650730 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
650658 GGTCTCCAAT
650668 GTTTATGTTCGTTTATGTTTGTGTTCATTTAC
1 GTTTATGTTCGTTTATGTTTGTGTTCATTTAC
*
650700 GTTTATGTTCGTTTATGTTTGTGTTCGTTTA
1 GTTTATGTTCGTTTATGTTTGTGTTCATTTA
650731 TGTTCGTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.11, C:0.08, G:0.21, T:0.60
Consensus pattern (32 bp):
GTTTATGTTCGTTTATGTTTGTGTTCATTTAC
Found at i:652505 original size:7 final size:7
Alignment explanation
Indices: 652490--652614 Score: 112
Period size: 7 Copynumber: 18.3 Consensus size: 7
652480 GTGCATAACT
*
652490 TAAATCC
1 TAAACCC
652497 TAAACCC
1 TAAACCC
*
652504 TAAATCC
1 TAAACCC
652511 TAAACCC
1 TAAACCC
652518 TAAA-CC
1 TAAACCC
652524 TAAA-CC
1 TAAACCC
652530 TAAA-CC
1 TAAACCC
652536 TAAACCC
1 TAAACCC
*
652543 TAAACTC
1 TAAACCC
*
652550 TAAGCCC
1 TAAACCC
** *
652557 TAGTCCA
1 TAAACCC
*
652564 TAAACTC
1 TAAACCC
*
652571 TAAACTC
1 TAAACCC
*
652578 TAAACCT
1 TAAACCC
*
652585 TAAACTC
1 TAAACCC
*
652592 TAAACAC
1 TAAACCC
*
652599 TAAACCA
1 TAAACCC
652606 TAAACCC
1 TAAACCC
652613 TA
1 TA
652615 TCACATAATT
Statistics
Matches: 96, Mismatches: 21, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
6 18 0.19
7 78 0.81
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:652509 original size:14 final size:13
Alignment explanation
Indices: 652490--652614 Score: 126
Period size: 14 Copynumber: 9.2 Consensus size: 13
652480 GTGCATAACT
652490 TAAATCCTAAACCC
1 TAAA-CCTAAACCC
652504 TAAATCCTAAACCC
1 TAAA-CCTAAACCC
652518 TAAACCTAAA-CC
1 TAAACCTAAACCC
652530 TAAACCTAAACCC
1 TAAACCTAAACCC
*
652543 TAAACTCTAAGCCC
1 TAAAC-CTAAACCC
** *
652557 TAGTCCATAAACTC
1 TAAACC-TAAACCC
*
652571 TAAACTCTAAACCT
1 TAAAC-CTAAACCC
*
652585 TAAACTCTAAACAC
1 TAAAC-CTAAACCC
652599 TAAACCATAAACCC
1 TAAACC-TAAACCC
652613 TA
1 TA
652615 TCACATAATT
Statistics
Matches: 94, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
12 12 0.13
13 15 0.16
14 66 0.70
15 1 0.01
ACGTcount: A:0.44, C:0.33, G:0.02, T:0.22
Consensus pattern (13 bp):
TAAACCTAAACCC
Found at i:652519 original size:21 final size:21
Alignment explanation
Indices: 652486--652610 Score: 125
Period size: 21 Copynumber: 6.1 Consensus size: 21
652476 TCATGTGCAT
*
652486 AACT-TAAATCCTAAACCCTA
1 AACTCTAAACCCTAAACCCTA
652506 AA-TCCTAAACCCTAAA-CCTA
1 AACT-CTAAACCCTAAACCCTA
652526 AAC-CTAAA-CCTAAACCCTA
1 AACTCTAAACCCTAAACCCTA
* ** *
652545 AACTCTAAGCCCTAGTCCATA
1 AACTCTAAACCCTAAACCCTA
* *
652566 AACTCTAAACTCTAAACCTTA
1 AACTCTAAACCCTAAACCCTA
* *
652587 AACTCTAAACACTAAACCATA
1 AACTCTAAACCCTAAACCCTA
652608 AAC
1 AAC
652611 CCTATCACAT
Statistics
Matches: 87, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
18 6 0.07
19 13 0.15
20 12 0.14
21 56 0.64
ACGTcount: A:0.45, C:0.32, G:0.02, T:0.22
Consensus pattern (21 bp):
AACTCTAAACCCTAAACCCTA
Found at i:652711 original size:14 final size:14
Alignment explanation
Indices: 652692--652721 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
652682 TTTAATTATC
*
652692 AATAATGTATTTTT
1 AATAATGTAATTTT
652706 AATAATGTAATTTT
1 AATAATGTAATTTT
652720 AA
1 AA
652722 AAAATCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
AATAATGTAATTTT
Found at i:658251 original size:28 final size:28
Alignment explanation
Indices: 658219--658292 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 28
658209 AGTAAAATAA
* * *
658219 TAATTATTAATTATTATTTTAATATATT
1 TAATTATTAATTAGTAATGTAATATATT
658247 TAATTATCT-ATTAGTAATGTAATATATT
1 TAATTAT-TAATTAGTAATGTAATATATT
*
658275 TAATT-TTAAATTTGTAAT
1 TAATTATT-AATTAGTAAT
658293 TAGTAATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
26 1 0.03
27 1 0.03
28 36 0.92
29 1 0.03
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (28 bp):
TAATTATTAATTAGTAATGTAATATATT
Found at i:658999 original size:175 final size:175
Alignment explanation
Indices: 658708--659057 Score: 684
Period size: 175 Copynumber: 2.0 Consensus size: 175
658698 AACGTTGATT
658708 ATCATTAGTCTGAAATAGGTAATGATTTGTTGATAGGTTGAGGCCCGAGAAGACCTCGATTCGAA
1 ATCATTAGTCTGAAATAGGTAATGATTTGTTGATAGGTTGAGGCCCGAGAAGACCTCGATTCGAA
658773 TCCCACCGTTCACAGGTTGGCTTTCTTTTGCGTTATCCAGTCGTTAGTGTGTCCGAATCAAAAGC
66 TCCCACCGTTCACAGGTTGGCTTTCTTTTGCGTTATCCAGTCGTTAGTGTGTCCGAATCAAAAGC
658838 ACTGGTTTAAACAGCCAAAAAACGCA-TTATTATTGTTTTTACAAC
131 ACTGGTTTAAACAGCC-AAAAACGCATTTATTATTGTTTTTACAAC
658883 ATCATTAGTCTGAAATAGGTAATGATTTGTTGATAGGTTGAGGCCCGAGAAGACCTCGATTCGAA
1 ATCATTAGTCTGAAATAGGTAATGATTTGTTGATAGGTTGAGGCCCGAGAAGACCTCGATTCGAA
658948 TCCCACCGTTCACAGGTTGGCTTTCTTTTGCGTTATCCAGTCGTTAGTGTGTCCGAATCAAAAGC
66 TCCCACCGTTCACAGGTTGGCTTTCTTTTGCGTTATCCAGTCGTTAGTGTGTCCGAATCAAAAGC
659013 ACTGGTTTAAACAGCCAAAAACGCATTTATTATTGTTTTTACAAC
131 ACTGGTTTAAACAGCCAAAAACGCATTTATTATTGTTTTTACAAC
659058 GTGCATAGAT
Statistics
Matches: 174, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
174 9 0.05
175 165 0.95
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (175 bp):
ATCATTAGTCTGAAATAGGTAATGATTTGTTGATAGGTTGAGGCCCGAGAAGACCTCGATTCGAA
TCCCACCGTTCACAGGTTGGCTTTCTTTTGCGTTATCCAGTCGTTAGTGTGTCCGAATCAAAAGC
ACTGGTTTAAACAGCCAAAAACGCATTTATTATTGTTTTTACAAC
Found at i:659818 original size:24 final size:25
Alignment explanation
Indices: 659790--659837 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
659780 ATTATCTGAA
*
659790 TTTAAGATAATAACAAAA-TAAATT
1 TTTAAGATAATAAAAAAATTAAATT
*
659814 TTTAAGTTAATAAAAAAATTAAAT
1 TTTAAGATAATAAAAAAATTAAAT
659838 ATATTTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
TTTAAGATAATAAAAAAATTAAATT
Found at i:662073 original size:28 final size:29
Alignment explanation
Indices: 662027--662082 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
662017 CCAAATAAAA
662027 CCTCAAACTTAAC-AAAAAATAATTAAGC
1 CCTCAAACTTAACAAAAAAATAATTAAGC
* * *
662055 CCTCAAACTTTATAGAAAAATAATTAAG
1 CCTCAAACTTAACAAAAAAATAATTAAG
662083 ATCCTCTATC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 11 0.46
29 13 0.54
ACGTcount: A:0.52, C:0.18, G:0.05, T:0.25
Consensus pattern (29 bp):
CCTCAAACTTAACAAAAAAATAATTAAGC
Found at i:669544 original size:21 final size:21
Alignment explanation
Indices: 669518--669558 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
669508 AGCAATTGCT
*
669518 GAACGAAATAGTGCTATAGCA
1 GAACGAAATAGTGCCATAGCA
*
669539 GAACGAGATAGTGCCATAGC
1 GAACGAAATAGTGCCATAGC
669559 GAATCTGCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.27, T:0.17
Consensus pattern (21 bp):
GAACGAAATAGTGCCATAGCA
Found at i:674293 original size:22 final size:22
Alignment explanation
Indices: 674265--674310 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
674255 TATTACAAAT
* * *
674265 AGGGAACTGATTCTCCTGCTAC
1 AGGGAACCGATTCCCCTACTAC
674287 AGGGAACCGATTCCCCTACTAC
1 AGGGAACCGATTCCCCTACTAC
674309 AG
1 AG
674311 TACTGCTACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (22 bp):
AGGGAACCGATTCCCCTACTAC
Found at i:674806 original size:17 final size:17
Alignment explanation
Indices: 674765--674806 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
674755 CACATATACA
*
674765 TTTATCAGTAATCATAT
1 TTTATCACTAATCATAT
674782 TATTATCACTAATTCAT-T
1 T-TTATCACTAA-TCATAT
674800 TTTATCA
1 TTTATCA
674807 TATAAGCATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 7 0.32
18 11 0.50
19 4 0.18
ACGTcount: A:0.33, C:0.14, G:0.02, T:0.50
Consensus pattern (17 bp):
TTTATCACTAATCATAT
Found at i:675133 original size:31 final size:31
Alignment explanation
Indices: 675095--675187 Score: 93
Period size: 31 Copynumber: 3.0 Consensus size: 31
675085 CCTCGACAAT
*
675095 TATCCATA-GGTCCTGAGGAACCTAGGTAAAC
1 TATCCATATGGTCCTGA-GAACATAGGTAAAC
* * *
675126 TGTCCATATGTTCCTTAGAACATAGGTAAAC
1 TATCCATATGGTCCTGAGAACATAGGTAAAC
*
675157 TATCCATAT-GT-CTCGAAAGACATAGGTAAAC
1 TATCCATATGGTCCT-GAGA-ACATAGGTAAAC
675188 CCTCGACTCT
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
29 2 0.04
30 3 0.06
31 40 0.78
32 6 0.12
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.27
Consensus pattern (31 bp):
TATCCATATGGTCCTGAGAACATAGGTAAAC
Found at i:675986 original size:21 final size:22
Alignment explanation
Indices: 675951--675993 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
675941 TAAAATTTTC
675951 GTTCAAGCCCAGAAAAATCACT
1 GTTCAAGCCCAGAAAAATCACT
* *
675973 GTTCATGCCC-GAAAATTCACT
1 GTTCAAGCCCAGAAAAATCACT
675994 ATATCAACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.35, C:0.28, G:0.14, T:0.23
Consensus pattern (22 bp):
GTTCAAGCCCAGAAAAATCACT
Found at i:677264 original size:113 final size:113
Alignment explanation
Indices: 677066--677291 Score: 418
Period size: 113 Copynumber: 2.0 Consensus size: 113
677056 ACTCCATAAA
* *
677066 ATCAAAACACAATCTTAACAACTTCGCACGGTTATTCCAACAAGACTTTGAGTCACTCGAAGTAT
1 ATCAAAACACAAGCTTAACAACTTCGCACGGTTATTCCAACAAGACTTTGAGTCACTCAAAGTAT
677131 CGAATTGTAGATTTCCGAACCACAGACAAACCTTCGTCTTAAAGCCCT
66 CGAATTGTAGATTTCCGAACCACAGACAAACCTTCGTCTTAAAGCCCT
677179 ATCAAAACACAAGCTTAACAACTTCGCACGGTTATTCCAACAAGACTTTGAGTCACTCAAAGTAT
1 ATCAAAACACAAGCTTAACAACTTCGCACGGTTATTCCAACAAGACTTTGAGTCACTCAAAGTAT
677244 CGAATTGTAGGATTT-CGAACCACAGACAAACCTTCGTCTTAAAGCCCT
66 CGAATTGTA-GATTTCCGAACCACAGACAAACCTTCGTCTTAAAGCCCT
677292 CCACATCGAG
Statistics
Matches: 110, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
113 105 0.95
114 5 0.05
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (113 bp):
ATCAAAACACAAGCTTAACAACTTCGCACGGTTATTCCAACAAGACTTTGAGTCACTCAAAGTAT
CGAATTGTAGATTTCCGAACCACAGACAAACCTTCGTCTTAAAGCCCT
Found at i:687529 original size:2 final size:2
Alignment explanation
Indices: 687522--687567 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
687512 ACACTAAACA
687522 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
687564 AT AT
1 AT AT
687568 TGATTTGAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:689423 original size:12 final size:11
Alignment explanation
Indices: 689396--689429 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
689386 TTTTTTATTT
689396 AAATAAATAAA
1 AAATAAATAAA
689407 AAATAAATAATA
1 AAATAAATAA-A
689419 AAATAAATAAA
1 AAATAAATAAA
689430 CTACCCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
AAATAAATAAA
Found at i:705350 original size:16 final size:17
Alignment explanation
Indices: 705315--705351 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
705305 TGGGATGAAA
705315 AAAAATAGTATTATTAT
1 AAAAATAGTATTATTAT
705332 AAAAAT-GTAATTATT-T
1 AAAAATAGT-ATTATTAT
705348 AAAA
1 AAAA
705352 TAATATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (17 bp):
AAAAATAGTATTATTAT
Found at i:705392 original size:17 final size:17
Alignment explanation
Indices: 705370--705402 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
705360 TACTACCATA
*
705370 ATATTATTTTTTATATT
1 ATATTATATTTTATATT
705387 ATATTATATTTTATAT
1 ATATTATATTTTATAT
705403 AAATAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
ATATTATATTTTATATT
Found at i:709210 original size:29 final size:29
Alignment explanation
Indices: 709177--709236 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
709167 TATTAGAGCC
*
709177 ATAGTCCATTACTGAAGCTTATAGAAGTA
1 ATAGTCCATTACTGAAGCTCATAGAAGTA
709206 ATAGTCCATTACTGAAGCTCATAGAAGTA
1 ATAGTCCATTACTGAAGCTCATAGAAGTA
709235 AT
1 AT
709237 GTAGGTACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (29 bp):
ATAGTCCATTACTGAAGCTCATAGAAGTA
Found at i:710480 original size:60 final size:60
Alignment explanation
Indices: 710383--710517 Score: 166
Period size: 60 Copynumber: 2.2 Consensus size: 60
710373 AATTATGAGT
* * *
710383 AAAGTATAC-AAATAGTCCTCCAACTATAGGGTATTGCTTTAG-TAAGTCCAGCGACTATTA
1 AAAGT-TACAAAATGGTCCTCCAACTATAGAGTATTGCTTT-GTTAAGTCCAGCAACTATTA
* * * **
710443 AAAGTTACAAAATGGTCCTCCGACTATAGAGTGTTGCTTTGTTGAGTCCCTCAACTATTA
1 AAAGTTACAAAATGGTCCTCCAACTATAGAGTATTGCTTTGTTAAGTCCAGCAACTATTA
710503 AAAGTTACAAAATGG
1 AAAGTTACAAAATGG
710518 ACACCTGACT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
59 4 0.06
60 61 0.94
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (60 bp):
AAAGTTACAAAATGGTCCTCCAACTATAGAGTATTGCTTTGTTAAGTCCAGCAACTATTA
Found at i:711396 original size:16 final size:17
Alignment explanation
Indices: 711358--711396 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
711348 TGTTTCAAGT
711358 TAAATTTATTGATAATA
1 TAAATTTATTGATAATA
* *
711375 TGAATTTATTTA-AATA
1 TAAATTTATTGATAATA
711391 TAAATT
1 TAAATT
711397 AAAATAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (17 bp):
TAAATTTATTGATAATA
Found at i:712922 original size:78 final size:76
Alignment explanation
Indices: 712834--712989 Score: 215
Period size: 78 Copynumber: 2.0 Consensus size: 76
712824 TAAGAAAAAT
* * **
712834 AACATTTTAGGTAGCAT-TCAATATTAACATTTTTAATAAAAAAATAATATTTTATGTAGTGTTT
1 AACATTTTAGGTAGCGTCT-AATATTAACATTTTTAAT-AAAAAA-AATATTTTAGGTAACGTTT
*
712898 TATCAGAAATATTA
63 TATCAAAAATATTA
**
712912 AACATTTTAGGTAGCGTCTAATATTAACATTTTTTGTAAAAAAAATATTTTAGGTAACGTTTTAT
1 AACATTTTAGGTAGCGTCTAATATTAACATTTTTAATAAAAAAAATATTTTAGGTAACGTTTTAT
712977 CAAAAATATTA
66 CAAAAATATTA
712988 AA
1 AA
712990 AAAATATTCA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
76 31 0.44
77 6 0.09
78 32 0.46
79 1 0.01
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (76 bp):
AACATTTTAGGTAGCGTCTAATATTAACATTTTTAATAAAAAAAATATTTTAGGTAACGTTTTAT
CAAAAATATTA
Found at i:712977 original size:76 final size:78
Alignment explanation
Indices: 712834--712989 Score: 219
Period size: 76 Copynumber: 2.0 Consensus size: 78
712824 TAAGAAAAAT
* **
712834 AACATTTTAGGTAGCATTCAATATTAACATTTTTAATAAAAAAATAATATTTTATGTAGTGTTTT
1 AACATTTTAGGTAGCATTCAATATTAACATTTTTAATAAAAAAATAATATTTTAGGTAACGTTTT
*
712899 ATCAGAAATATTA
66 ATCAAAAATATTA
* **
712912 AACATTTTAGGTAGC-GTCTAATATTAACATTTTTTGT-AAAAAA-AATATTTTAGGTAACGTTT
1 AACATTTTAGGTAGCATTC-AATATTAACATTTTTAATAAAAAAATAATATTTTAGGTAACGTTT
712974 TATCAAAAATATTA
65 TATCAAAAATATTA
712988 AA
1 AA
712990 AAAATATTCA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
76 31 0.44
77 8 0.11
78 31 0.44
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (78 bp):
AACATTTTAGGTAGCATTCAATATTAACATTTTTAATAAAAAAATAATATTTTAGGTAACGTTTT
ATCAAAAATATTA
Found at i:726179 original size:3 final size:3
Alignment explanation
Indices: 726171--726207 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
726161 CCATTTTCAG
726171 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
726208 AAGTTAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:726990 original size:24 final size:23
Alignment explanation
Indices: 726926--727024 Score: 99
Period size: 23 Copynumber: 4.3 Consensus size: 23
726916 GAAATGCCAT
* *
726926 ATAGAAATGTCTCGAAGGACCAC
1 ATAGAATTGTCCCGAAGGACCAC
* * ** *
726949 ATAGTATTGTTCTAAAGGACCGC
1 ATAGAATTGTCCCGAAGGACCAC
726972 ATAGAAATTGTCCCGAAGGACCAC
1 ATAG-AATTGTCCCGAAGGACCAC
* *
726996 GTAGAATTGTCCCGAATGACCAC
1 ATAGAATTGTCCCGAAGGACCAC
*
727019 GTAGAA
1 ATAGAA
727025 CCCTCGACTC
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
23 44 0.72
24 17 0.28
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.21
Consensus pattern (23 bp):
ATAGAATTGTCCCGAAGGACCAC
Found at i:727024 original size:47 final size:46
Alignment explanation
Indices: 726926--727024 Score: 108
Period size: 47 Copynumber: 2.1 Consensus size: 46
726916 GAAATGCCAT
* * * * *
726926 ATAGAAATGTCTCGAAGGACCACATAGTATTGTTCTAAAGGACCGC
1 ATAGAAATGTCCCGAAGGACCACATAGAATTGTCCCAAAGGACCAC
* * *
726972 ATAGAAATTGTCCCGAAGGACCACGTAGAATTGTCCCGAATGACCAC
1 ATAGAAA-TGTCCCGAAGGACCACATAGAATTGTCCCAAAGGACCAC
*
727019 GTAGAA
1 ATAGAA
727025 CCCTCGACTC
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
46 7 0.16
47 36 0.84
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.21
Consensus pattern (46 bp):
ATAGAAATGTCCCGAAGGACCACATAGAATTGTCCCAAAGGACCAC
Found at i:727148 original size:15 final size:16
Alignment explanation
Indices: 727113--727151 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
727103 ACATAGCTTA
727113 TCACATAGACATATAT
1 TCACATAGACATATAT
727129 TCACATAGACCAT-T-T
1 TCACATAGA-CATATAT
727144 TCACATAG
1 TCACATAG
727152 CTTGTGTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.41
16 10 0.45
17 3 0.14
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (16 bp):
TCACATAGACATATAT
Found at i:729223 original size:79 final size:78
Alignment explanation
Indices: 729087--729312 Score: 328
Period size: 79 Copynumber: 2.9 Consensus size: 78
729077 AAGATCTCAT
* *
729087 TGCTCGATTCCATCACATAAGGAGTTGGATCAGCATTTCAAGAGAAGAAGTTCATAATGAGAAGA
1 TGCTCGATTCCATCACAGAAGGAGTTGGATCAGCATTTCCA-AGAAGAAGTTCATAATGAGAAGA
729152 ACTTGTTCAACCTC
65 ACTTGTTCAACCTC
* * *
729166 TGCTTGATTCCATCATAGAAGGAGTTGGATTAGCATTTCCCAAGAAGAAGTTCATAATGAGAAGA
1 TGCTCGATTCCATCACAGAAGGAGTTGGATCAGCATTT-CCAAGAAGAAGTTCATAATGAGAAGA
*
729231 ACTTGTTCAACCTT
65 ACTTGTTCAACCTC
* * *
729245 TCCTCGATTCCATCACAGAAGGAGTCGGATCAGCATTTCCAACGAA-AGAGTTCATAAGGAGAAG
1 TGCTCGATTCCATCACAGAAGGAGTTGGATCAGCATTTCCAA-GAAGA-AGTTCATAATGAGAAG
729309 AACT
64 AACT
729313 CAACAGTGAT
Statistics
Matches: 132, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
78 5 0.04
79 125 0.95
80 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (78 bp):
TGCTCGATTCCATCACAGAAGGAGTTGGATCAGCATTTCCAAGAAGAAGTTCATAATGAGAAGAA
CTTGTTCAACCTC
Found at i:729299 original size:158 final size:151
Alignment explanation
Indices: 729018--729312 Score: 380
Period size: 158 Copynumber: 1.9 Consensus size: 151
729008 TCGAGATAGT
* *
729018 TTGATTCTATCACAAAAGGAGTTGAATCAGCGTTTCCCAGAGAAGAAGTTCATAATGAGAAGATC
1 TTGATTCCATCACAAAAGGAGTTGAATCAGCATTTCCCAGAGAAGAAGTTCATAATGAGAAGATC
* * * *
729083 TCATTGCTCGATTCCATCACATAAGGAGTTGGATCAGCATTTCAAGAGAAGAAGTTCATAATGAG
66 TCATTCCTCGATTCCATCACAGAAGGAGTCGGATCAGCATTTCAAGAGAAGAAGTTCATAAGGAG
729148 AAGAACTTGTTCAACCTCTGC
131 AAGAACTTGTTCAACCTCTGC
* * * *
729169 TTGATTCCATCATAGAAGGAGTTGGATTAGCATTTCCCA-AGAAGAAGTTCATAATGAGAAGAAC
1 TTGATTCCATCACAAAAGGAGTTGAATCAGCATTTCCCAGAGAAGAAGTTCATAATGAGAAG-A-
*
729233 TTGTTCAACCTTTCCTCGATTCCATCACAGAAGGAGTCGGATCAGCATTTCCAACGA-AAG-AGT
64 -T-CTC-A---TTCCTCGATTCCATCACAGAAGGAGTCGGATCAGCATTT-CAA-GAGAAGAAGT
729296 TCATAAGGAGAAGAACT
121 TCATAAGGAGAAGAACT
729313 CAACAGTGAT
Statistics
Matches: 123, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
150 22 0.18
151 34 0.28
153 1 0.01
154 2 0.02
155 1 0.01
158 55 0.45
159 6 0.05
160 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (151 bp):
TTGATTCCATCACAAAAGGAGTTGAATCAGCATTTCCCAGAGAAGAAGTTCATAATGAGAAGATC
TCATTCCTCGATTCCATCACAGAAGGAGTCGGATCAGCATTTCAAGAGAAGAAGTTCATAAGGAG
AAGAACTTGTTCAACCTCTGC
Found at i:729442 original size:3 final size:3
Alignment explanation
Indices: 729400--729425 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
729390 TTAATCAATA
729400 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
729426 AAGTTAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:731647 original size:26 final size:28
Alignment explanation
Indices: 731614--731677 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
731604 TATTGTTACG
*
731614 TTTTTAT-TTTT-GCCATTAA-ATTAT-
1 TTTTTATATTTTAACCATTAATATTATA
*
731638 TTTTTATATTTTAATCATTAATATTATA
1 TTTTTATATTTTAACCATTAATATTATA
*
731666 TTATTATATTTT
1 TTTTTATATTTT
731678 GATTCTCGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 7 0.21
25 4 0.12
26 6 0.18
27 5 0.15
28 11 0.33
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.64
Consensus pattern (28 bp):
TTTTTATATTTTAACCATTAATATTATA
Found at i:732833 original size:13 final size:13
Alignment explanation
Indices: 732772--732833 Score: 88
Period size: 13 Copynumber: 4.8 Consensus size: 13
732762 TGCGTCATAA
*
732772 ATTTATGATGCAC
1 ATTTATGACGCAC
*
732785 ATTTATGACACAC
1 ATTTATGACGCAC
*
732798 ATTTATGACACAC
1 ATTTATGACGCAC
*
732811 ATTTATGACGCGC
1 ATTTATGACGCAC
732824 ATTTATGACG
1 ATTTATGACG
732834 TTCATTGAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 45 1.00
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (13 bp):
ATTTATGACGCAC
Found at i:747204 original size:25 final size:24
Alignment explanation
Indices: 747163--747210 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
747153 TATTTATTGT
* *
747163 TTTTTCTTCTTTTCTTTGTTTCTG
1 TTTTTCTTATTTACTTTGTTTCTG
*
747187 TTTTTCATTATTTACTTTTTTTCT
1 TTTTTC-TTATTTACTTTGTTTCT
747211 AACATGTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 6 0.30
25 14 0.70
ACGTcount: A:0.06, C:0.15, G:0.04, T:0.75
Consensus pattern (24 bp):
TTTTTCTTATTTACTTTGTTTCTG
Found at i:753928 original size:17 final size:18
Alignment explanation
Indices: 753908--753945 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
753898 CCATTCTCTC
753908 TCTCAATTTTT-CTCAAA
1 TCTCAATTTTTCCTCAAA
*
753925 TCTCTATTTTTGCCTCAAA
1 TCTCAATTTTT-CCTCAAA
753944 TC
1 TC
753946 AACGATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 10 0.56
19 8 0.44
ACGTcount: A:0.24, C:0.26, G:0.03, T:0.47
Consensus pattern (18 bp):
TCTCAATTTTTCCTCAAA
Found at i:757992 original size:11 final size:11
Alignment explanation
Indices: 757976--758071 Score: 72
Period size: 11 Copynumber: 8.5 Consensus size: 11
757966 AAGCTCGAGA
*
757976 CTCGATTGAAG
1 CTCGATTCAAG
757987 CTCGATTTTC-AG
1 CTCGA--TTCAAG
*
757999 CTCGATTCAAA
1 CTCGATTCAAG
*
758010 CTCGATTTTGAA-
1 CTCGA--TTCAAG
758022 CTCGATTCAAG
1 CTCGATTCAAG
**
758033 CTCGATTGTGAG
1 CTCGATT-CAAG
758045 CTCGATTCAAG
1 CTCGATTCAAG
758056 CTCGACTT-AAG
1 CTCGA-TTCAAG
758067 CTCGA
1 CTCGA
758072 GGATGGGTTA
Statistics
Matches: 69, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
10 7 0.10
11 33 0.48
12 23 0.33
13 6 0.09
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (11 bp):
CTCGATTCAAG
Found at i:758008 original size:46 final size:45
Alignment explanation
Indices: 757958--758060 Score: 109
Period size: 46 Copynumber: 2.2 Consensus size: 45
757948 AAATCAAGAG
* *
757958 TTCAACT-GAAGCTCGAGACTCGATTGAAGCTCGATTTTCAGCTCGA
1 TTCAACTCG-AGCTCGA-ACTCGATTCAAGCTCGATTGTCAGCTCGA
** * *
758004 TTCAAACTCGATTTTGAACTCGATTCAAGCTCGATTGTGAGCTCGA
1 TTC-AACTCGAGCTCGAACTCGATTCAAGCTCGATTGTCAGCTCGA
758050 TTCAAGCTCGA
1 TTCAA-CTCGA
758061 CTTAAGCTCG
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
45 2 0.04
46 37 0.77
47 8 0.17
48 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (45 bp):
TTCAACTCGAGCTCGAACTCGATTCAAGCTCGATTGTCAGCTCGA
Found at i:758013 original size:23 final size:23
Alignment explanation
Indices: 757976--758060 Score: 125
Period size: 23 Copynumber: 3.7 Consensus size: 23
757966 AAGCTCGAGA
* *
757976 CTCGATTGAAGCTCGATTTTCAG
1 CTCGATTCAAGCTCGATTTTGAG
* *
757999 CTCGATTCAAACTCGATTTTGAA
1 CTCGATTCAAGCTCGATTTTGAG
*
758022 CTCGATTCAAGCTCGATTGTGAG
1 CTCGATTCAAGCTCGATTTTGAG
758045 CTCGATTCAAGCTCGA
1 CTCGATTCAAGCTCGA
758061 CTTAAGCTCG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 55 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.32
Consensus pattern (23 bp):
CTCGATTCAAGCTCGATTTTGAG
Found at i:769368 original size:24 final size:24
Alignment explanation
Indices: 769330--769399 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 24
769320 CAAAACAGAG
* *
769330 TCCATGTCAAGTATCATATAAAAA
1 TCCAGGTCAAATATCATATAAAAA
** * *
769354 TTTAGGTCAAATATCATATCAGAA
1 TCCAGGTCAAATATCATATAAAAA
* *
769378 TCCAGGTCAAAAATCAGATAAA
1 TCCAGGTCAAATATCATATAAA
769400 CTATTTATAT
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (24 bp):
TCCAGGTCAAATATCATATAAAAA
Found at i:770122 original size:29 final size:29
Alignment explanation
Indices: 770086--770152 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
770076 CATTTTACAC
*
770086 AAATAGCACCCTTTTTTAAA-TAATTAC-CA
1 AAATAGCACCC-TTTTCAAATTAATT-CTCA
770115 AAATAGCACCCTTTTCAAATTAATTCTCA
1 AAATAGCACCCTTTTCAAATTAATTCTCA
770144 AAATAGCAC
1 AAATAGCAC
770153 AAATTTCGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
28 8 0.23
29 27 0.77
ACGTcount: A:0.42, C:0.22, G:0.04, T:0.31
Consensus pattern (29 bp):
AAATAGCACCCTTTTCAAATTAATTCTCA
Found at i:770159 original size:29 final size:29
Alignment explanation
Indices: 770113--770169 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
770103 AAATAATTAC
***
770113 CAAAATAGCACCCTTTTCAAATTAATTCT
1 CAAAATAGCACAAATTTCAAATTAATTCT
*
770142 CAAAATAGCACAAATTTCGAATTAATTC
1 CAAAATAGCACAAATTTCAAATTAATTC
770170 CCGGATATCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.32
Consensus pattern (29 bp):
CAAAATAGCACAAATTTCAAATTAATTCT
Found at i:770303 original size:18 final size:18
Alignment explanation
Indices: 770266--770305 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
770256 AATAGCACCA
*
770266 GTCAACGGGTCGGATTGG
1 GTCAACGGGTCGGATCGG
*
770284 GTCAACGGGTCGGGTCGG
1 GTCAACGGGTCGGATCGG
770302 GTCA
1 GTCA
770306 TGACCGGTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.20, G:0.45, T:0.20
Consensus pattern (18 bp):
GTCAACGGGTCGGATCGG
Found at i:776560 original size:24 final size:24
Alignment explanation
Indices: 776522--776591 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
776512 CAAAACAGAG
* *
776522 TCCATGTCAAGTATCATATAAAAA
1 TCCAGGTCAAATATCATATAAAAA
* * *
776546 TTCAGGTCAAATATCATATCAGAA
1 TCCAGGTCAAATATCATATAAAAA
* *
776570 TCCAGGTCAAAAATCAGATAAA
1 TCCAGGTCAAATATCATATAAA
776592 CTATTTATAT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.46, C:0.17, G:0.11, T:0.26
Consensus pattern (24 bp):
TCCAGGTCAAATATCATATAAAAA
Found at i:777315 original size:29 final size:29
Alignment explanation
Indices: 777279--777420 Score: 106
Period size: 29 Copynumber: 4.9 Consensus size: 29
777269 CATTTTACAC
* *
777279 AAATAGCACCTTTTTTTAAATAATTACCA
1 AAATAGCACCCTTTTTGAAATAATTACCA
* *
777308 AAATAGCACCCTTTTTGAATTAATTATCA
1 AAATAGCACCCTTTTTGAAATAATTACCA
*** * *
777337 AAATAGCACAAATTTTGAATTAATTCCCA
1 AAATAGCACCCTTTTTGAAATAATTACCA
** * ***
777366 GGATATCATTTTTTTCTCGAAA-AATTACCA
1 AAATAGCACCCTTTT-T-GAAATAATTACCA
* *
777396 AAATAGCACCCATTTTGAATTAATT
1 AAATAGCACCCTTTTTGAAATAATT
777421 CTCAGTATAG
Statistics
Matches: 84, Mismatches: 26, Indels: 6
0.72 0.22 0.05
Matches are distributed among these distances:
28 3 0.04
29 62 0.74
30 16 0.19
31 3 0.04
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (29 bp):
AAATAGCACCCTTTTTGAAATAATTACCA
Found at i:777496 original size:18 final size:18
Alignment explanation
Indices: 777475--777516 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
777465 GTCAATGGGT
777475 CGGGTCGGGTCGGGTCAA
1 CGGGTCGGGTCGGGTCAA
777493 CGGGTCGGGTCGGGTCAA
1 CGGGTCGGGTCGGGTCAA
777511 CGGGTC
1 CGGGTC
777517 ATGACCGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.10, C:0.24, G:0.50, T:0.17
Consensus pattern (18 bp):
CGGGTCGGGTCGGGTCAA
Found at i:777497 original size:23 final size:23
Alignment explanation
Indices: 777464--777508 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
777454 TAATAGCACC
*
777464 GGTCAATGGGTCGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCGGGTCG
777487 GGTCAACGGGTCGGGTCGGGTC
1 GGTCAACGGGTCGGGTCGGGTC
777509 AACGGGTCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.09, C:0.20, G:0.51, T:0.20
Consensus pattern (23 bp):
GGTCAACGGGTCGGGTCGGGTCG
Found at i:780014 original size:28 final size:29
Alignment explanation
Indices: 779950--780020 Score: 76
Period size: 28 Copynumber: 2.5 Consensus size: 29
779940 CCGACCCCAT
* *
779950 TACAATATGTTATGTATAT-T-ATATATAA
1 TACAA-ATGTTATTTATATATGATATAAAA
*
779978 TATAAATGTT-TTTATATATGATATAAAA
1 TACAAATGTTATTTATATATGATATAAAA
*
780006 TACATATGTTATTTA
1 TACAAATGTTATTTA
780021 AACCGTATGG
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
26 6 0.17
27 6 0.17
28 19 0.54
29 4 0.11
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.48
Consensus pattern (29 bp):
TACAAATGTTATTTATATATGATATAAAA
Found at i:781209 original size:26 final size:25
Alignment explanation
Indices: 781167--781216 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
781157 TATTTATTGT
* *
781167 TTTTTCTTCTTTTCTTTGTTTTCTG
1 TTTTTCTTATTTACTTTGTTTTCTG
*
781192 TTTTTCATTATTTACTTTTTTTTCT
1 TTTTTC-TTATTTACTTTGTTTTCT
781217 AACATGTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 6 0.29
26 15 0.71
ACGTcount: A:0.06, C:0.14, G:0.04, T:0.76
Consensus pattern (25 bp):
TTTTTCTTATTTACTTTGTTTTCTG
Found at i:781293 original size:4 final size:4
Alignment explanation
Indices: 781286--781316 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
781276 GTCTTATTTA
781286 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
781317 TTATTATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTC
Found at i:781344 original size:8 final size:7
Alignment explanation
Indices: 781335--781434 Score: 67
Period size: 8 Copynumber: 13.0 Consensus size: 7
781325 TATATATATA
781335 TTATTTT
1 TTATTTT
*
781342 ATTCTTTTT
1 -TTATT-TT
781351 TTAATTTT
1 TT-ATTTT
781359 TTATTTTT
1 TTA-TTTT
781367 TTACTTTT
1 TTA-TTTT
781375 TTA-TTT
1 TTATTTT
781381 TTACTTTT
1 TTA-TTTT
781389 TTGATTTT
1 TT-ATTTT
*
781397 TTGTTTT
1 TTATTTT
*
781404 TGTTTTTT
1 T-TATTTT
*
781412 TTTTATTT
1 TTAT-TTT
781420 TTATTTTT
1 TTA-TTTT
781428 TTATTTT
1 TTATTTT
781435 ATTCATATCT
Statistics
Matches: 77, Mismatches: 6, Indels: 19
0.75 0.06 0.19
Matches are distributed among these distances:
6 6 0.08
7 13 0.17
8 52 0.68
9 6 0.08
ACGTcount: A:0.12, C:0.03, G:0.03, T:0.82
Consensus pattern (7 bp):
TTATTTT
Found at i:781364 original size:7 final size:7
Alignment explanation
Indices: 781347--781434 Score: 70
Period size: 8 Copynumber: 11.6 Consensus size: 7
781337 ATTTTATTCT
781347 TTTTTTAA
1 TTTTTT-A
781355 TTTTTTA
1 TTTTTTA
781362 TTTTTTTA
1 -TTTTTTA
781370 CTTTTTTA
1 -TTTTTTA
781378 -TTTTTA
1 TTTTTTA
781384 CTTTTTTGA
1 -TTTTTT-A
*
781393 TTTTTTG
1 TTTTTTA
*
781400 TTTTTGTT
1 TTTTT-TA
*
781408 TTTTTTT
1 TTTTTTA
781415 TATTTTTA
1 T-TTTTTA
781423 TTTTTTTA
1 -TTTTTTA
781431 TTTT
1 TTTT
781435 ATTCATATCT
Statistics
Matches: 69, Mismatches: 4, Indels: 15
0.78 0.05 0.17
Matches are distributed among these distances:
6 6 0.09
7 13 0.19
8 48 0.70
9 2 0.03
ACGTcount: A:0.11, C:0.02, G:0.03, T:0.83
Consensus pattern (7 bp):
TTTTTTA
Found at i:781367 original size:16 final size:16
Alignment explanation
Indices: 781346--781434 Score: 75
Period size: 15 Copynumber: 5.8 Consensus size: 16
781336 TATTTTATTC
781346 TTTTTTTAATTTTTTA
1 TTTTTTTAATTTTTTA
*
781362 TTTTTTTACTTTTTTA
1 TTTTTTTAATTTTTTA
*
781378 --TTTTTACTTTTTTGA
1 TTTTTTTAATTTTTT-A
781393 TTTTTTGT--TTTTGTT-
1 TTTTTT-TAATTTT-TTA
*
781408 TTTTTTTTA-TTTTTA
1 TTTTTTTAATTTTTTA
781423 TTTTTTT-ATTTT
1 TTTTTTTAATTTT
781435 ATTCATATCT
Statistics
Matches: 63, Mismatches: 1, Indels: 19
0.76 0.01 0.23
Matches are distributed among these distances:
14 17 0.27
15 20 0.32
16 19 0.30
17 6 0.10
18 1 0.02
ACGTcount: A:0.11, C:0.02, G:0.03, T:0.83
Consensus pattern (16 bp):
TTTTTTTAATTTTTTA
Found at i:781374 original size:14 final size:14
Alignment explanation
Indices: 781357--781437 Score: 58
Period size: 14 Copynumber: 5.5 Consensus size: 14
781347 TTTTTTAATT
781357 TTTTATTTTTTTAC
1 TTTTATTTTTTTAC
781371 TTTT-TTATTTTTAC
1 TTTTATT-TTTTTAC
**
781385 TTTTTTGATTTTTTGTTT
1 --TTTT-ATTTTTT-TAC
* *
781403 TTGTTTTTTTTTTAT
1 TT-TTATTTTTTTAC
781418 TTTTATTTTTTTA-
1 TTTTATTTTTTTAC
781431 TTTTATT
1 TTTTATT
781438 CATATCTTAT
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
13 9 0.16
14 21 0.38
15 4 0.07
16 12 0.22
17 6 0.11
18 3 0.05
ACGTcount: A:0.11, C:0.02, G:0.04, T:0.83
Consensus pattern (14 bp):
TTTTATTTTTTTAC
Found at i:781525 original size:40 final size:40
Alignment explanation
Indices: 781442--781519 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 40
781432 TTTATTCATA
* * *
781442 TCTTATTTAACTTTGTTTTACTTATCTTATTTATTTTGTT
1 TCTTATTTAACTTTATTTTACTTATATTATTTATTTTGCT
* *
781482 TCTTATTTCACTTTATTTTACGTTATATTTTCTTATTT
1 TCTTATTTAACTTTATTTTAC-TTATATTAT-TTATTT
781520 CTTCTTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 19 0.59
41 7 0.22
42 6 0.19
ACGTcount: A:0.18, C:0.12, G:0.04, T:0.67
Consensus pattern (40 bp):
TCTTATTTAACTTTATTTTACTTATATTATTTATTTTGCT
Found at i:782155 original size:22 final size:22
Alignment explanation
Indices: 782095--782155 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
782085 TCTAAATTCA
* *
782095 AAAATCCTAAACCCTAAAACCC
1 AAAATTCTAAACCCCAAAACCC
* * * *
782117 TAAA-TCTCAACCTCAAAATCC
1 AAAATTCTAAACCCCAAAACCC
782138 AAAATTCTAAACCCCAAA
1 AAAATTCTAAACCCCAAA
782156 CTCAAATCAT
Statistics
Matches: 29, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
21 15 0.52
22 14 0.48
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.18
Consensus pattern (22 bp):
AAAATTCTAAACCCCAAAACCC
Found at i:782224 original size:28 final size:28
Alignment explanation
Indices: 782193--782246 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
782183 TCATACACTC
*
782193 TAAACCCTAAATAT-TAAATTTTAAACCA
1 TAAACCCTAAAT-TCTAAATCTTAAACCA
782221 TAAACCCTAAATTCTAAATCTTAAAC
1 TAAACCCTAAATTCTAAATCTTAAAC
782247 TCAACTTCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 1 0.04
28 23 0.96
ACGTcount: A:0.48, C:0.20, G:0.00, T:0.31
Consensus pattern (28 bp):
TAAACCCTAAATTCTAAATCTTAAACCA
Found at i:782702 original size:112 final size:113
Alignment explanation
Indices: 782472--782679 Score: 267
Period size: 112 Copynumber: 1.8 Consensus size: 113
782462 AAATAGCCCC
* * *
782472 AAAAAAGTATATATATATAGTGGCATTTTTCCAATAAACGCCACTATAGTTGGACCTATTGTGAA
1 AAAAAAG-ATATATATATAGTGGCATTTTTCCAATAAACACCACTATAGATGGACCTATTGCGAA
*** ** ** *
782537 GTTTTTTTCAAAAAGCGCCACTATTATTGTGCAGCCCCCAAAAATGCCC
65 GTTTTTTTCAAAAAAAACCACTATTATTGCCCAGAACCCAAAAATGCCA
* *
782586 AAAAAAG-TATATATATAGTGGCGTTTTTCCAATAAACACCACTATAGATGGACCTATTGCGACG
1 AAAAAAGATATATATATAGTGGCATTTTTCCAATAAACACCACTATAGATGGACCTATTGCGAAG
*
782650 -TTTTTTCAAAAAAAACCACTATTGTTGCCC
66 TTTTTTTCAAAAAAAACCACTATTATTGCCC
782680 CGAAATCGAA
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
111 24 0.29
112 52 0.63
114 7 0.08
ACGTcount: A:0.35, C:0.20, G:0.14, T:0.31
Consensus pattern (113 bp):
AAAAAAGATATATATATAGTGGCATTTTTCCAATAAACACCACTATAGATGGACCTATTGCGAAG
TTTTTTTCAAAAAAAACCACTATTATTGCCCAGAACCCAAAAATGCCA
Found at i:798058 original size:37 final size:36
Alignment explanation
Indices: 798017--798095 Score: 106
Period size: 37 Copynumber: 2.2 Consensus size: 36
798007 AATACATTTA
798017 TTTATGATATTTAAAA-TAATATATATATTTTTGAATT
1 TTTATGATATTTAAAAGT-ATATATA-ATTTTTGAATT
* * *
798054 TTTATTATTTTTAAAAGTATATATACTTTTTGAATT
1 TTTATGATATTTAAAAGTATATATAATTTTTGAATT
798090 TTTATG
1 TTTATG
798096 CAAAACAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 15 0.41
37 21 0.57
38 1 0.03
ACGTcount: A:0.35, C:0.01, G:0.06, T:0.57
Consensus pattern (36 bp):
TTTATGATATTTAAAAGTATATATAATTTTTGAATT
Found at i:798063 original size:35 final size:36
Alignment explanation
Indices: 798017--798094 Score: 104
Period size: 36 Copynumber: 2.1 Consensus size: 36
798007 AATACATTTA
*
798017 TTTATGATATTTAAAATAATATATATA-TTTTTGAATT
1 TTTATTAT-TTTAAAA-AATATATATACTTTTTGAATT
* *
798054 TTTATTATTTTTAAAAGTATATATACTTTTTGAATT
1 TTTATTATTTTAAAAAATATATATACTTTTTGAATT
798090 TTTAT
1 TTTAT
798095 GCAAAACAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
35 9 0.24
36 21 0.57
37 7 0.19
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (36 bp):
TTTATTATTTTAAAAAATATATATACTTTTTGAATT
Found at i:799430 original size:33 final size:34
Alignment explanation
Indices: 799392--799456 Score: 105
Period size: 33 Copynumber: 1.9 Consensus size: 34
799382 TGGATCAAAC
*
799392 ATCATTTATATAAATAAGATTTTTCAA-TTTAAA
1 ATCATTTATATAAATAAGATTTCTCAACTTTAAA
*
799425 ATCATTTATATAAATAATATTTCTCAACTTTA
1 ATCATTTATATAAATAAGATTTCTCAACTTTA
799457 TTATAACATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.46
Consensus pattern (34 bp):
ATCATTTATATAAATAAGATTTCTCAACTTTAAA
Found at i:802261 original size:166 final size:166
Alignment explanation
Indices: 801984--802285 Score: 550
Period size: 166 Copynumber: 1.8 Consensus size: 166
801974 ATCCTATTAA
* *
801984 GAAAACATGAATTATGTGATAGAGAACATAATTAGGGTTTAGGGTTTGTTATATTATACTTTTGA
1 GAAAACATGAATTATGTGATAGAAAACATAATCAGGGTTTAGGGTTTGTTATATTATACTTTTGA
* *
802049 AAACATGAATTAATGTTCAACAGATTTGCAACCCAAGTCAAATTGTTATATTGTATATTTTTAAA
66 AAACATGAATTAATGTTCAACAGATTTGCAACCCAAGTCAAATTGTTACATTGTATATTTCTAAA
802114 AGAAAACTAATGTTGAACATTATGTTTAACACTTTT
131 AGAAAACTAATGTTGAACATTATGTTTAACACTTTT
*
802150 GAAAACATGAATTATGTGATAGAAAATATAATCAGGGTTTAGGGTTTGTTATATTATACTTTTGA
1 GAAAACATGAATTATGTGATAGAAAACATAATCAGGGTTTAGGGTTTGTTATATTATACTTTTGA
*
802215 AAACATGAATTAATGTTCAACAGATTTGCAACCCAAGTCCAATTGTTACATTGTATATTTCTAAA
66 AAACATGAATTAATGTTCAACAGATTTGCAACCCAAGTCAAATTGTTACATTGTATATTTCTAAA
802280 AGAAAA
131 AGAAAA
802286 ATAAAAGCTC
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
166 130 1.00
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (166 bp):
GAAAACATGAATTATGTGATAGAAAACATAATCAGGGTTTAGGGTTTGTTATATTATACTTTTGA
AAACATGAATTAATGTTCAACAGATTTGCAACCCAAGTCAAATTGTTACATTGTATATTTCTAAA
AGAAAACTAATGTTGAACATTATGTTTAACACTTTT
Found at i:802365 original size:13 final size:14
Alignment explanation
Indices: 802340--802384 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
802330 TCCTAAAATA
802340 TAAATTCTAAACCC
1 TAAATTCTAAACCC
*
802354 TAAATT-TAAACCT
1 TAAATTCTAAACCC
* *
802367 TAAATCCTAAACTC
1 TAAATTCTAAACCC
802381 TAAA
1 TAAA
802385 CCCTTAATCC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAATTCTAAACCC
Found at i:802393 original size:21 final size:20
Alignment explanation
Indices: 802322--802394 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 20
802312 GTTAGATTAC
*
802322 ACCCTAAATCCTAAAATATAA
1 ACCCTAAATCCT-AAATCTAA
** * *
802343 ATTCTAAACCCTAAATTTAA
1 ACCCTAAATCCTAAATCTAA
*
802363 ACCTTAAATCCTAAACTCTAA
1 ACCCTAAATCCTAAA-TCTAA
*
802384 ACCCTTAATCC
1 ACCCTAAATCC
802395 GATTATGTGA
Statistics
Matches: 40, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 18 0.45
21 22 0.55
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (20 bp):
ACCCTAAATCCTAAATCTAA
Found at i:802471 original size:7 final size:7
Alignment explanation
Indices: 802463--802572 Score: 78
Period size: 7 Copynumber: 15.7 Consensus size: 7
802453 GAATATACCC
*
802463 TAAACCC
1 TAAACCA
*
802470 TAAACTA
1 TAAACCA
**
802477 TAAAGTA
1 TAAACCA
*
802484 TAAACTA
1 TAAACCA
802491 TAAACCA
1 TAAACCA
802498 TAAACCA
1 TAAACCA
*
802505 TAAACCC
1 TAAACCA
*
802512 TAAATC-
1 TAAACCA
*
802518 TCAAACCC
1 T-AAACCA
802526 TAAACCA
1 TAAACCA
* *
802533 TACACCC
1 TAAACCA
802540 TAAACCA
1 TAAACCA
* *
802547 TAAGCCC
1 TAAACCA
* *
802554 TAAGCCC
1 TAAACCA
802561 TAAACCA
1 TAAACCA
802568 TAAAC
1 TAAAC
802573 TCTTAATCTG
Statistics
Matches: 84, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
6 1 0.01
7 82 0.98
8 1 0.01
ACGTcount: A:0.48, C:0.31, G:0.03, T:0.18
Consensus pattern (7 bp):
TAAACCA
Found at i:802487 original size:21 final size:21
Alignment explanation
Indices: 802463--802572 Score: 87
Period size: 21 Copynumber: 5.2 Consensus size: 21
802453 GAATATACCC
* **
802463 TAAACCCTAAACTATAAAGTA
1 TAAACCCTAAACCATAAACCA
**
802484 TAAACTATAAACCATAAACCA
1 TAAACCCTAAACCATAAACCA
* *
802505 TAAACCCTAAATC-TCAAACCC
1 TAAACCCTAAACCAT-AAACCA
* * *
802526 TAAACCATACACCCTAAACCA
1 TAAACCCTAAACCATAAACCA
* * *
802547 TAAGCCCTAAGCCCTAAACCA
1 TAAACCCTAAACCATAAACCA
802568 TAAAC
1 TAAAC
802573 TCTTAATCTG
Statistics
Matches: 69, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
20 1 0.01
21 67 0.97
22 1 0.01
ACGTcount: A:0.48, C:0.31, G:0.03, T:0.18
Consensus pattern (21 bp):
TAAACCCTAAACCATAAACCA
Found at i:803978 original size:11 final size:11
Alignment explanation
Indices: 803962--804070 Score: 112
Period size: 11 Copynumber: 9.7 Consensus size: 11
803952 TTAACCCATG
*
803962 GAGCTTGAGTC
1 GAGCTTGAATC
*
803973 GAGCTTGAGTC
1 GAGCTTGAATC
803984 GAGCTTGAATC
1 GAGCTTGAATC
*
803995 GAGTTTGAATC
1 GAGCTTGAATC
*
804006 AAGCTTGAATC
1 GAGCTTGAATC
*
804017 GAGTTTGAATC
1 GAGCTTGAATC
*
804028 AAGCTTGAATC
1 GAGCTTGAATC
*
804039 GAG-TTTAAGTC
1 GAGCTTGAA-TC
*
804050 TTGAGCTTCAATC
1 --GAGCTTGAATC
804063 GAGCTTGA
1 GAGCTTGA
804071 GAATTTTTTT
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
10 4 0.05
11 69 0.84
13 5 0.06
14 4 0.05
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (11 bp):
GAGCTTGAATC
Found at i:804101 original size:16 final size:16
Alignment explanation
Indices: 804076--804106 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
804066 CTTGAGAATT
*
804076 TTTTTTGAGTTCGAGC
1 TTTTTCGAGTTCGAGC
804092 TTTTTCGAGTTCGAG
1 TTTTTCGAGTTCGAG
804107 TCGAGTTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.13, C:0.13, G:0.26, T:0.48
Consensus pattern (16 bp):
TTTTTCGAGTTCGAGC
Found at i:809960 original size:20 final size:20
Alignment explanation
Indices: 809935--810103 Score: 77
Period size: 20 Copynumber: 7.5 Consensus size: 20
809925 ACTGAAATGT
809935 ATGAAAGGATACATTAAGGC
1 ATGAAAGGATACATTAAGGC
*
809955 ATGAAAGGATGACATAACTAAAAATGC
1 ATGAAAGGAT-ACAT---T---AAGGC
* *
809982 ATGAACGGATGCATTAAGGC
1 ATGAAAGGATACATTAAGGC
* *
810002 ATGAAAGGATGTCATAAATGAAATGC
1 ATGAAAGGAT-ACAT---T--AAGGC
* *
810028 ATGAAATGATGCATTAAGGC
1 ATGAAAGGATACATTAAGGC
* *
810048 ATGAAAGGATGCCATAACTGAAATGC
1 ATGAAAGGAT-ACAT---T--AAGGC
*
810074 ATGAAATGATACATTAAGGC
1 ATGAAAGGATACATTAAGGC
810094 ATGAAAGGAT
1 ATGAAAGGAT
810104 GTCATAAATG
Statistics
Matches: 113, Mismatches: 17, Indels: 38
0.67 0.10 0.23
Matches are distributed among these distances:
20 49 0.43
21 10 0.09
22 2 0.02
23 1 0.01
24 3 0.03
25 6 0.05
26 29 0.26
27 13 0.12
ACGTcount: A:0.44, C:0.11, G:0.24, T:0.21
Consensus pattern (20 bp):
ATGAAAGGATACATTAAGGC
Found at i:810038 original size:26 final size:25
Alignment explanation
Indices: 809953--810255 Score: 101
Period size: 20 Copynumber: 13.0 Consensus size: 25
809943 ATACATTAAG
* *
809953 GCATGAAAGGATGACATAACTAAAAAT
1 GCATGAAAGGATGTCATAA-T-GAAAT
* *
809980 GCATGAACGGATG-CAT--T--AAG
1 GCATGAAAGGATGTCATAATGAAAT
810000 GCATGAAAGGATGTCATAAATGAAAT
1 GCATGAAAGGATGTCAT-AATGAAAT
* *
810026 GCATGAAATGATG-CAT--T--AAG
1 GCATGAAAGGATGTCATAATGAAAT
*
810046 GCATGAAAGGATGCCATAACTGAAAT
1 GCATGAAAGGATGTCATAA-TGAAAT
* * *
810072 GCATGAAATGAT-ACAT--T--AAG
1 GCATGAAAGGATGTCATAATGAAAT
810092 GCATGAAAGGATGTCATAAATGAAAT
1 GCATGAAAGGATGTCAT-AATGAAAT
* * *
810118 ACATGAAATGATG-CAT--T--AAG
1 GCATGAAAGGATGTCATAATGAAAT
* * *
810138 GCATGAAAGTATGCCATAATTAAAAAT
1 GCATGAAAGGATGTCATAA-T-GAAAT
* * *
810165 GCATGAACGAATG-CAT--T--AAG
1 GCATGAAAGGATGTCATAATGAAAT
* *
810185 GCATGAAAGTATGCCATAAATGAAAT
1 GCATGAAAGGATGTCAT-AATGAAAT
*
810211 GCATGAAATGATG-CAT--T--AA-
1 GCATGAAAGGATGTCATAATGAAAT
810230 GACATGAAAGGATGTCATAAATGAAA
1 G-CATGAAAGGATGTCAT-AATGAAA
810256 CTAACGAATA
Statistics
Matches: 208, Mismatches: 30, Indels: 77
0.66 0.10 0.24
Matches are distributed among these distances:
19 1 0.00
20 79 0.38
21 18 0.09
22 4 0.02
23 2 0.01
24 6 0.03
25 12 0.06
26 61 0.29
27 25 0.12
ACGTcount: A:0.45, C:0.11, G:0.22, T:0.22
Consensus pattern (25 bp):
GCATGAAAGGATGTCATAATGAAAT
Found at i:810043 original size:46 final size:46
Alignment explanation
Indices: 809920--810255 Score: 449
Period size: 46 Copynumber: 7.3 Consensus size: 46
809910 TAAACCGAAT
* * * *
809920 CCATAACTGAAATGTATGAAAGGATACATTAAGGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAATGATGCATTAAGGCATGAAAGGATG
* * * **
809966 ACATAACTAAAAATGCATGAACGGATGCATTAAGGCATGAAAGGATG
1 CCATAAAT-GAAATGCATGAAATGATGCATTAAGGCATGAAAGGATG
*
810013 TCATAAATGAAATGCATGAAATGATGCATTAAGGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAATGATGCATTAAGGCATGAAAGGATG
* *
810059 CCATAACTGAAATGCATGAAATGATACATTAAGGCATGAAAGGATG
1 CCATAAATGAAATGCATGAAATGATGCATTAAGGCATGAAAGGATG
* * *
810105 TCATAAATGAAATACATGAAATGATGCATTAAGGCATGAAAGTATG
1 CCATAAATGAAATGCATGAAATGATGCATTAAGGCATGAAAGGATG
* * * *
810151 CCATAATTAAAAATGCATG-AACGAATGCATTAAGGCATGAAAGTATG
1 CCATAAAT-GAAATGCATGAAATG-ATGCATTAAGGCATGAAAGGATG
*
810198 CCATAAATGAAATGCATGAAATGATGCATTAAGACATGAAAGGATG
1 CCATAAATGAAATGCATGAAATGATGCATTAAGGCATGAAAGGATG
*
810244 TCATAAATGAAA
1 CCATAAATGAAA
810256 CTAACGAATA
Statistics
Matches: 257, Mismatches: 29, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
46 176 0.68
47 81 0.32
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAATGAAATGCATGAAATGATGCATTAAGGCATGAAAGGATG
Found at i:810170 original size:139 final size:138
Alignment explanation
Indices: 809920--810255 Score: 485
Period size: 139 Copynumber: 2.4 Consensus size: 138
809910 TAAACCGAAT
* * * * * *
809920 CCATAACTGAAATGTATGAAAGGATACATTAAGGCATGAAAGGATGACATAACTAAAAATGCATG
1 CCATAACTGAAATGCATGAAATGATACATTAAGGCATGAAAGGATGTCATAAAT-GAAATACATG
* * * *
809985 AACGGATGCATTAAGGCATGAAAGGATGTCATAAATGAAATGCATGAAATG-ATGCATTAAGGCA
65 AAAGGATGCATTAAGGCATGAAAGGATGCCATAAATAAAATGCATG-AACGAATGCATTAAGGCA
810049 TGAAAGGATG
129 TGAAAGGATG
810059 CCATAACTGAAATGCATGAAATGATACATTAAGGCATGAAAGGATGTCATAAATGAAATACATGA
1 CCATAACTGAAATGCATGAAATGATACATTAAGGCATGAAAGGATGTCATAAATGAAATACATGA
* * *
810124 AATGATGCATTAAGGCATGAAAGTATGCCATAATTAAAAATGCATGAACGAATGCATTAAGGCAT
66 AAGGATGCATTAAGGCATGAAAGGATGCCATAAAT-AAAATGCATGAACGAATGCATTAAGGCAT
*
810189 GAAAGTATG
130 GAAAGGATG
* * *
810198 CCATAAATGAAATGCATGAAATGATGCATTAAGACATGAAAGGATGTCATAAATGAAA
1 CCATAACTGAAATGCATGAAATGATACATTAAGGCATGAAAGGATGTCATAAATGAAA
810256 CTAACGAATA
Statistics
Matches: 178, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
138 42 0.24
139 136 0.76
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (138 bp):
CCATAACTGAAATGCATGAAATGATACATTAAGGCATGAAAGGATGTCATAAATGAAATACATGA
AAGGATGCATTAAGGCATGAAAGGATGCCATAAATAAAATGCATGAACGAATGCATTAAGGCATG
AAAGGATG
Found at i:810697 original size:81 final size:81
Alignment explanation
Indices: 810595--810909 Score: 411
Period size: 81 Copynumber: 3.9 Consensus size: 81
810585 ATAGTTCTAA
* * *
810595 AGTAAAAGATTAATGGTCTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGTCAGTTAGATAAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGTCAGTTAGATGAA
*
810660 AGGTTAAATACCTTTG
66 AGGTTAAATACATTTG
* * * *
810676 AGTAAAAGATTAATGACCTAGTTTTGCATTTGGAAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGTCAGTTAGATGAA
810741 AGGTTAAATACATTTG
66 AGGTTAAATACATTTG
* * * * *
810757 AGTAAAAGATTAATGGCATAGCTATGCATTTGGTAAAAAGGTGTCAA-TAT-TCCAGTTAGATGA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGT-CAGTTAGATGA
810820 AAGGTTAAATACATTTG
65 AAGGTTAAATACATTTG
** * * * *
810837 AGTAAAAGATTAATGGCCTAGTTGTGCAGGTGGCATAAAAGTGTCAATCATG-CAAGTTAGGTGA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGTC-AGTTAGATGA
*
810901 AAGGCTAAA
65 AAGGTTAAA
810910 GGCCTTTGGG
Statistics
Matches: 204, Mismatches: 26, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
80 71 0.35
81 133 0.65
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.31
Consensus pattern (81 bp):
AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGTCAGTTAGATGAA
AGGTTAAATACATTTG
Found at i:810883 original size:161 final size:162
Alignment explanation
Indices: 810595--810909 Score: 429
Period size: 161 Copynumber: 2.0 Consensus size: 162
810585 ATAGTTCTAA
* * * *
810595 AGTAAAAGATTAATGGTCTAGTTGTGCATTTGGCAGAAATGTGTCAATTATGTCAGTTAGATAAA
1 AGTAAAAGATTAATGGTCTAGCTATGCATTTGGCAAAAAGGTGTCAATTATGTCAGTTAGATAAA
* * ** * *
810660 AGGTTAAATACCTTTGAGTAAAAGATTAATGACCTAGTTTTGCATTTGGAAGAAAGGTGTCAATT
66 AGGTTAAATACATTTGAGTAAAAGATTAATGACCTAGTTGTGCAGGTGGAAGAAAAGTGTCAATC
* *
810725 ATGCCAGTTAGATGAAAGGTTAAATACATTTG
131 ATGCAAGTTAGATGAAAGGCTAAATACATTTG
* *
810757 AGTAAAAGATTAATGG-CATAGCTATGCATTTGGTAAAAAGGTGTCAA-TAT-TCCAGTTAGATG
1 AGTAAAAGATTAATGGTC-TAGCTATGCATTTGGCAAAAAGGTGTCAATTATGT-CAGTTAGATA
* * *
810819 AAAGGTTAAATACATTTGAGTAAAAGATTAATGGCCTAGTTGTGCAGGTGGCATAAAAGTGTCAA
64 AAAGGTTAAATACATTTGAGTAAAAGATTAATGACCTAGTTGTGCAGGTGGAAGAAAAGTGTCAA
*
810884 TCATGCAAGTTAGGTGAAAGGCTAAA
129 TCATGCAAGTTAGATGAAAGGCTAAA
810910 GGCCTTTGGG
Statistics
Matches: 133, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
160 1 0.01
161 92 0.69
162 40 0.30
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.31
Consensus pattern (162 bp):
AGTAAAAGATTAATGGTCTAGCTATGCATTTGGCAAAAAGGTGTCAATTATGTCAGTTAGATAAA
AGGTTAAATACATTTGAGTAAAAGATTAATGACCTAGTTGTGCAGGTGGAAGAAAAGTGTCAATC
ATGCAAGTTAGATGAAAGGCTAAATACATTTG
Found at i:811035 original size:47 final size:45
Alignment explanation
Indices: 810961--811053 Score: 116
Period size: 47 Copynumber: 2.0 Consensus size: 45
810951 ATATAAACGG
* *
810961 TGCATAAGTGGTATGAAATGATATCATATAGATAAAATGTACAACAA
1 TGCATAAGTGGTATGAAATGATATCATAAAGA-AAAACGTA-AACAA
* *
811008 TGCATAATTGGTATG-AATGGATGTCATAAAGAAAAACGTAAACAA
1 TGCATAAGTGGTATGAAAT-GATATCATAAAGAAAAACGTAAACAA
811053 T
1 T
811054 AATTAATGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
45 6 0.15
46 10 0.24
47 25 0.61
ACGTcount: A:0.46, C:0.09, G:0.18, T:0.27
Consensus pattern (45 bp):
TGCATAAGTGGTATGAAATGATATCATAAAGAAAAACGTAAACAA
Found at i:812180 original size:23 final size:23
Alignment explanation
Indices: 812154--812206 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
812144 ATTGTACCAA
812154 AGTGCCACGTAGAATTACACCGG
1 AGTGCCACGTAGAATTACACCGG
* *
812177 AGTGCCGCGTAGAATTACACCGT
1 AGTGCCACGTAGAATTACACCGG
812200 AGTGCCA
1 AGTGCCA
812207 TATAATAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.19
Consensus pattern (23 bp):
AGTGCCACGTAGAATTACACCGG
Found at i:812393 original size:103 final size:103
Alignment explanation
Indices: 812222--812535 Score: 592
Period size: 103 Copynumber: 3.0 Consensus size: 103
812212 TAATGTCCAT
* * * *
812222 AAGGACTACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
812287 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
812325 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
812390 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
812428 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
812493 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
812531 AAGGA
1 AAGGA
812536 TCGCGTAGAC
Statistics
Matches: 207, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 207 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:814249 original size:21 final size:21
Alignment explanation
Indices: 814223--814266 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
814213 TTTTTATTCG
* *
814223 CTTGAAGGGGTATCGGTTCCC
1 CTTGAAGGGGTACCGATTCCC
*
814244 CTTGAATGGGTACCGATTCCC
1 CTTGAAGGGGTACCGATTCCC
814265 CT
1 CT
814267 AGCCCAGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.27, G:0.27, T:0.30
Consensus pattern (21 bp):
CTTGAAGGGGTACCGATTCCC
Found at i:816671 original size:3 final size:3
Alignment explanation
Indices: 816665--816732 Score: 82
Period size: 3 Copynumber: 22.0 Consensus size: 3
816655 TCATTTAAAT
** *
816665 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
816713 TAA TTA TATA TTA TTTA TTA
1 TTA TTA T-TA TTA -TTA TTA
816733 AATATTACAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 49 0.89
4 6 0.11
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:816686 original size:18 final size:18
Alignment explanation
Indices: 816659--816739 Score: 87
Period size: 18 Copynumber: 4.5 Consensus size: 18
816649 TTTTTTTCAT
*
816659 TTAAATTTATTATTATTA
1 TTAAAATTATTATTATTA
816677 TTAAAATTATTATTATTA
1 TTAAAATTATTATTATTA
*
816695 CT---ATTATTATTATTA
1 TTAAAATTATTATTATTA
*
816710 TTATAATTATATATTATTTA
1 TTAAAATTAT-TATTA-TTA
816730 TTAAATATTA
1 TTAAA-ATTA
816740 CAAAGCCCAA
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
15 14 0.26
18 23 0.43
19 5 0.09
20 7 0.13
21 4 0.08
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (18 bp):
TTAAAATTATTATTATTA
Found at i:818032 original size:22 final size:21
Alignment explanation
Indices: 818002--818055 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 21
817992 ATTTTATTTG
818002 TTATATATTTAAATTAATAATAA
1 TTAT-TATTTAAA-TAATAATAA
* * *
818025 TTATTATTTTAATCATATTAA
1 TTATTATTTAAATAATAATAA
818046 TATATTATTT
1 T-TATTATTT
818056 GATTAATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.30
22 15 0.56
23 4 0.15
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TTATTATTTAAATAATAATAA
Found at i:819493 original size:46 final size:46
Alignment explanation
Indices: 819329--819478 Score: 273
Period size: 46 Copynumber: 3.2 Consensus size: 46
819319 CTGAATAAAT
* *
819329 GCATGCGAACTAGAAATCATGCGGTTAGGTTAATTTTTCCAAACAAA
1 GCATG-GAACTAAAAATCATGCGGTTAGGTTAAATTTTCCAAACAAA
819376 GCATGGAACTAAAAATCATGCGGTTAGGTTAAATTTTCCAAACAAA
1 GCATGGAACTAAAAATCATGCGGTTAGGTTAAATTTTCCAAACAAA
819422 GCATGGAACTAAAAATCATGCGGTTAGGTTAAATTTTCCAAACAAA
1 GCATGGAACTAAAAATCATGCGGTTAGGTTAAATTTTCCAAACAAA
819468 GCATGGAACTA
1 GCATGGAACTA
819479 GAAAGCATAA
Statistics
Matches: 101, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
46 96 0.95
47 5 0.05
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (46 bp):
GCATGGAACTAAAAATCATGCGGTTAGGTTAAATTTTCCAAACAAA
Found at i:821262 original size:21 final size:22
Alignment explanation
Indices: 821221--821289 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 22
821211 CATGCATTTA
*
821221 CATTTTGTATCTGTGCATTTT-
1 CATTTTGTATCTGTACATTTTG
*
821242 CATTTTGTATTCT-TACTTTTTG
1 CATTTTGTA-TCTGTACATTTTG
* * *
821264 CATCTTTGCAT-TTTTCATTTTG
1 CAT-TTTGTATCTGTACATTTTG
821286 CATT
1 CATT
821290 CATACTTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
21 17 0.44
22 17 0.44
23 5 0.13
ACGTcount: A:0.14, C:0.16, G:0.10, T:0.59
Consensus pattern (22 bp):
CATTTTGTATCTGTACATTTTG
Found at i:821274 original size:36 final size:37
Alignment explanation
Indices: 821218--821298 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
821208 ATACATGCAT
* * *
821218 TTACATTTTGTATCTGTGCA-TTTTCATTTTGTATTC
1 TTACTTTTTGCATCTGTGCATTTTTCATTTTGCATTC
*
821254 TTACTTTTTGCATCTTTGCATTTTTCATTTTGCATTC
1 TTACTTTTTGCATCTGTGCATTTTTCATTTTGCATTC
*
821291 ATACTTTT
1 TTACTTTT
821299 ATGTTTGCCT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
36 17 0.44
37 22 0.56
ACGTcount: A:0.16, C:0.16, G:0.09, T:0.59
Consensus pattern (37 bp):
TTACTTTTTGCATCTGTGCATTTTTCATTTTGCATTC
Found at i:821284 original size:7 final size:7
Alignment explanation
Indices: 821234--821289 Score: 51
Period size: 7 Copynumber: 7.9 Consensus size: 7
821224 TTTGTATCTG
821234 TGCATTT
1 TGCATTT
821241 T-CATTT
1 TGCATTT
*
821247 TGTATTCT
1 TGCATT-T
* *
821255 TACTTTT
1 TGCATTT
821262 TGCATCTT
1 TGCAT-TT
821270 TGCATTT
1 TGCATTT
*
821277 TTCATTT
1 TGCATTT
821284 TGCATT
1 TGCATT
821290 CATACTTTTA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
6 6 0.16
7 21 0.55
8 11 0.29
ACGTcount: A:0.14, C:0.16, G:0.09, T:0.61
Consensus pattern (7 bp):
TGCATTT
Done.