Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 23 of 250
Found at i:6671608 original size:6 final size:6
Alignment explanation
Indices: 6671597--6671621 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6671587 TTCTAATAAC
6671597 CATCTT CATCTT CATCTT CATCTT C
1 CATCTT CATCTT CATCTT CATCTT C
6671622 TTCTCACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (6 bp):
CATCTT
Found at i:6677788 original size:41 final size:39
Alignment explanation
Indices: 6677707--6677791 Score: 102
Period size: 39 Copynumber: 2.1 Consensus size: 39
6677697 CTACGCCCGT
*
6677707 TACAGATTTAGATATAGTTTAGGCCTTAGCCCATTTAGA
1 TACAGATTTAGATATAGTTTAGGCCTCAGCCCATTTAGA
*
6677746 TACA-ATTTCAGATATA-TATTAGGGCCTCAGTCCATTTCAGA
1 TACAGATTT-AGATATAGT-TTA-GGCCTCAGCCCATTT-AGA
6677787 TACAG
1 TACAG
6677792 TATGCACATA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
38 5 0.13
39 14 0.36
40 13 0.33
41 7 0.18
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (39 bp):
TACAGATTTAGATATAGTTTAGGCCTCAGCCCATTTAGA
Found at i:6680228 original size:17 final size:18
Alignment explanation
Indices: 6680191--6680233 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
6680181 GGCCTAAATT
6680191 CCACACGCTCGTGTGGGC
1 CCACACGCTCGTGTGGGC
* *
6680209 CCACATGCTTGTGT-GGC
1 CCACACGCTCGTGTGGGC
6680226 CCACACGC
1 CCACACGC
6680234 CCAGTTCAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.14, C:0.40, G:0.28, T:0.19
Consensus pattern (18 bp):
CCACACGCTCGTGTGGGC
Found at i:6688090 original size:18 final size:17
Alignment explanation
Indices: 6688067--6688101 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
6688057 AATTTTAAAA
6688067 ATATATATTAAAAATTTT
1 ATATAT-TTAAAAATTTT
*
6688085 ATATATTTTAAAATTTT
1 ATATATTTAAAAATTTT
6688102 GAGAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATATTTAAAAATTTT
Found at i:6692609 original size:95 final size:95
Alignment explanation
Indices: 6692446--6692636 Score: 355
Period size: 95 Copynumber: 2.0 Consensus size: 95
6692436 CAGGCAGATG
*
6692446 TGCCGGATCGACTGAGGTGGGACAACCTACTTTGGTATATGCTGCACATTACCGTGAGGACCGAG
1 TGCCGGATCGACTGAGGTGGGACAACCTACTTTGGTATATGCTACACATTACCGTGAGGACCGAG
6692511 ATGCTCCGGATGTCATTACGGGTACGCTTT
66 ATGCTCCGGATGTCATTACGGGTACGCTTT
6692541 TGCCGGATCGACTGAGGTGGGACAACCTACTTTGGTATATGCTACACATTACCGTGAGGACCGAG
1 TGCCGGATCGACTGAGGTGGGACAACCTACTTTGGTATATGCTACACATTACCGTGAGGACCGAG
* *
6692606 ATGCTCTGGATGTCATTACGGGTACGTTTT
66 ATGCTCCGGATGTCATTACGGGTACGCTTT
6692636 T
1 T
6692637 TATATTTGAT
Statistics
Matches: 93, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
95 93 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (95 bp):
TGCCGGATCGACTGAGGTGGGACAACCTACTTTGGTATATGCTACACATTACCGTGAGGACCGAG
ATGCTCCGGATGTCATTACGGGTACGCTTT
Found at i:6700624 original size:17 final size:17
Alignment explanation
Indices: 6700602--6700636 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
6700592 AAATTGAAAG
6700602 TAAGAATAGAGAAAATA
1 TAAGAATAGAGAAAATA
6700619 TAAGAATAGAGAAAATA
1 TAAGAATAGAGAAAATA
6700636 T
1 T
6700637 GTTAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (17 bp):
TAAGAATAGAGAAAATA
Found at i:6704456 original size:16 final size:16
Alignment explanation
Indices: 6704437--6704470 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
6704427 CAATCAACTG
6704437 AAAA-TTAATATTTTTA
1 AAAATTTAAT-TTTTTA
6704453 AAAATTTAATTTTTTA
1 AAAATTTAATTTTTTA
6704469 AA
1 AA
6704471 CATGTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAAATTTAATTTTTTA
Found at i:6706345 original size:15 final size:15
Alignment explanation
Indices: 6706325--6706370 Score: 65
Period size: 15 Copynumber: 3.0 Consensus size: 15
6706315 ACTTCCACTG
*
6706325 GAATTAAAATGAAAT
1 GAATTAAATTGAAAT
*
6706340 GAATTAAATTGAATT
1 GAATTAAATTGAAAT
6706355 GAATTGAAATTGAAAT
1 GAATT-AAATTGAAAT
6706371 ATCAACCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 18 0.67
16 9 0.33
ACGTcount: A:0.52, C:0.00, G:0.15, T:0.33
Consensus pattern (15 bp):
GAATTAAATTGAAAT
Found at i:6707765 original size:25 final size:26
Alignment explanation
Indices: 6707719--6707767 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
6707709 TTTAATTGTC
**
6707719 TTATTTTTATAATGAATATGATATAA
1 TTATTTTTATAAAAAATATGATATAA
*
6707745 TTATTTTT-TAAAAAATCTGATAT
1 TTATTTTTATAAAAAATATGATAT
6707768 GAGATTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 12 0.60
26 8 0.40
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (26 bp):
TTATTTTTATAAAAAATATGATATAA
Found at i:6708276 original size:21 final size:21
Alignment explanation
Indices: 6708224--6708277 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
6708214 GTGGCCCTAA
* *
6708224 ACATGGTCGTGTGGCTACTCT
1 ACATGCTCGTGTGGCTACTCC
* * *
6708245 ACATACCCGTGTGGTTACTCC
1 ACATGCTCGTGTGGCTACTCC
6708266 ACATGCTCGTGT
1 ACATGCTCGTGT
6708278 ACAATTCGAA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.17, C:0.28, G:0.24, T:0.31
Consensus pattern (21 bp):
ACATGCTCGTGTGGCTACTCC
Found at i:6714577 original size:30 final size:30
Alignment explanation
Indices: 6714541--6714602 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
6714531 TGACCAAACC
* *
6714541 TTAGTTTCTCCTAGCTATGGAGTTTCGGGT
1 TTAGTTTCTCCTAGCTATAGAGTTTCAGGT
*
6714571 TTAGTTTCTCCTAGTTATAGAGTTTCAGGT
1 TTAGTTTCTCCTAGCTATAGAGTTTCAGGT
6714601 TT
1 TT
6714603 CTTTTTCTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.16, C:0.15, G:0.23, T:0.47
Consensus pattern (30 bp):
TTAGTTTCTCCTAGCTATAGAGTTTCAGGT
Found at i:6720430 original size:20 final size:20
Alignment explanation
Indices: 6720405--6720442 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6720395 GTCAGTCCTA
* *
6720405 TAAATAGTGGGGTCAAATCG
1 TAAATAGTAGAGTCAAATCG
6720425 TAAATAGTAGAGTCAAAT
1 TAAATAGTAGAGTCAAAT
6720443 TATGAATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (20 bp):
TAAATAGTAGAGTCAAATCG
Found at i:6724963 original size:12 final size:12
Alignment explanation
Indices: 6724946--6725014 Score: 68
Period size: 12 Copynumber: 5.6 Consensus size: 12
6724936 GAAGCAGGAG
6724946 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
6724958 AGAAAAAGGGAA
1 AGAAAAAGAGAA
*
6724970 AGAAAAATA-AA
1 AGAAAAAGAGAA
6724981 AGGAGAAAGAGAGAA
1 A-GA-AAA-AGAGAA
* *
6724996 AGAAAAAGGGCA
1 AGAAAAAGAGAA
6725008 AGAAAAA
1 AGAAAAA
6725015 TAAAAGAGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
11 3 0.06
12 31 0.66
13 6 0.13
14 4 0.09
15 3 0.06
ACGTcount: A:0.70, C:0.01, G:0.28, T:0.01
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:6724987 original size:38 final size:37
Alignment explanation
Indices: 6724944--6725026 Score: 139
Period size: 38 Copynumber: 2.2 Consensus size: 37
6724934 GGGAAGCAGG
6724944 AGAGAAAAAGAGAAAGAAAAAGGGAAAGAAAAATAAA
1 AGAGAAAAAGAGAAAGAAAAAGGGAAAGAAAAATAAA
* *
6724981 AGGAGAAAGAGAGAAAGAAAAAGGGCAAGAAAAATAAA
1 A-GAGAAAAAGAGAAAGAAAAAGGGAAAGAAAAATAAA
6725019 AGAGAAAA
1 AGAGAAAA
6725027 TTAAGGATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
37 7 0.17
38 35 0.83
ACGTcount: A:0.70, C:0.01, G:0.27, T:0.02
Consensus pattern (37 bp):
AGAGAAAAAGAGAAAGAAAAAGGGAAAGAAAAATAAA
Found at i:6728339 original size:42 final size:42
Alignment explanation
Indices: 6728287--6728382 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
6728277 TATAATTATT
*
6728287 CACTGACTCAAAACCTGCTAGGGCC-AAGGCCTAATACAAATA
1 CACTGGCTCAAAACCTGCTA-GGCCTAAGGCCTAATACAAATA
* **
6728329 CACTGGCTCAAAGCCTGCTAGGCCTAAGGCCTTTTACAAATA
1 CACTGGCTCAAAACCTGCTAGGCCTAAGGCCTAATACAAATA
**
6728371 CACCAGCTCAAA
1 CACTGGCTCAAA
6728383 TTCTGCTTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
41 4 0.09
42 43 0.91
ACGTcount: A:0.34, C:0.30, G:0.17, T:0.19
Consensus pattern (42 bp):
CACTGGCTCAAAACCTGCTAGGCCTAAGGCCTAATACAAATA
Found at i:6732494 original size:55 final size:54
Alignment explanation
Indices: 6732430--6732553 Score: 142
Period size: 55 Copynumber: 2.3 Consensus size: 54
6732420 CAGCCCGTGT
* * * * **
6732430 GCAACACTGACTTTAGGGCACGGCCATGACACACGCCTGTGTGGCCTGCCTGTGG
1 GCAATACTGACTTTA-GACACGGCCATGACACACGCCCGCGTGGCCTAACTGTGG
* *
6732485 GCAATACTGACTTATAGACACGGCTATGGCACACGCCCGCGTGGCCTAACTGTGG
1 GCAATACTGACTT-TAGACACGGCCATGACACACGCCCGCGTGGCCTAACTGTGG
*
6732540 ACAATACTGA-TTTA
1 GCAATACTGACTTTA
6732554 AAAGTTTAAG
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
53 2 0.03
54 2 0.03
55 53 0.90
56 2 0.03
ACGTcount: A:0.23, C:0.28, G:0.27, T:0.22
Consensus pattern (54 bp):
GCAATACTGACTTTAGACACGGCCATGACACACGCCCGCGTGGCCTAACTGTGG
Found at i:6733466 original size:91 final size:94
Alignment explanation
Indices: 6733351--6733563 Score: 283
Period size: 94 Copynumber: 2.3 Consensus size: 94
6733341 GTGTATACAT
*
6733351 GCTGATAG-ATGTCCCAGACATGTCTTACACTAGCACGAAACT-TA-GCCGATG-CATGTCCCAG
1 GCTGAT-GCATGTCCCAGACATGTCTTACACTAGCACGAAACTCTACGCCGATGCCATGTCCCAA
* *
6733412 ACA-CGTCTTACACTGGCTATCATCATCGAG
65 ACATCGTCTTACACTGGCCATCATAAT-GAG
* ** *
6733442 GCTGATGCATGTCCCAAACATGTCTTACACTAGCACTTATCTCTACGCCGATGCCATGTCCCAAA
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACGAAACTCTACGCCGATGCCATGTCCCAAA
* * *
6733507 CATGGTTTTACACTGGCCATCATAATGTG
66 CATCGTCTTACACTGGCCATCATAATGAG
6733536 GCTGATGCATGTCCCAGACATGTCTTAC
1 GCTGATGCATGTCCCAGACATGTCTTAC
6733564 TTTAGCCCTG
Statistics
Matches: 106, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
90 1 0.01
91 36 0.34
92 2 0.02
93 7 0.07
94 41 0.39
95 19 0.18
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.27
Consensus pattern (94 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCACGAAACTCTACGCCGATGCCATGTCCCAAA
CATCGTCTTACACTGGCCATCATAATGAG
Found at i:6733467 original size:47 final size:46
Alignment explanation
Indices: 6733398--6733563 Score: 174
Period size: 47 Copynumber: 3.5 Consensus size: 46
6733388 AAACTTAGCC
* *
6733398 GATGCATGTCCCAGACACGTCTTACACTGGCTATCATCATCGAGGCT
1 GATGCATGTCCCAAACATGTCTTACACTGGC-ATCATCATCGAGGCT
* * * * *
6733445 GATGCATGTCCCAAACATGTCTTACACTAGCACTTATC-TCTACGCC
1 GATGCATGTCCCAAACATGTCTTACACTGGCA-TCATCATCGAGGCT
* * *
6733491 GATGCCATGTCCCAAACATGGTTTTACACTGGCCATCATAAT-GTGGCT
1 GATG-CATGTCCCAAACAT-GTCTTACACTGG-CATCATCATCGAGGCT
*
6733539 GATGCATGTCCCAGACATGTCTTAC
1 GATGCATGTCCCAAACATGTCTTAC
6733564 TTTAGCCCTG
Statistics
Matches: 97, Mismatches: 17, Indels: 11
0.78 0.14 0.09
Matches are distributed among these distances:
46 16 0.16
47 59 0.61
48 19 0.20
49 3 0.03
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
GATGCATGTCCCAAACATGTCTTACACTGGCATCATCATCGAGGCT
Found at i:6736800 original size:29 final size:30
Alignment explanation
Indices: 6736768--6736839 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 30
6736758 ATAATTGCAG
*
6736768 AAAATCTGTCAAATAAAGAATAAATGCGAA-
1 AAAAT-TGCCAAATAAAGAATAAATGCGAAC
* * *
6736798 AAAATGGCCAAATAATGAATAAATGTG-AC
1 AAAATTGCCAAATAAAGAATAAATGCGAAC
6736827 AAAATTGCCAAAT
1 AAAATTGCCAAAT
6736840 CCCTTCAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 1 0.03
29 30 0.83
30 5 0.14
ACGTcount: A:0.54, C:0.11, G:0.14, T:0.21
Consensus pattern (30 bp):
AAAATTGCCAAATAAAGAATAAATGCGAAC
Found at i:6744310 original size:10 final size:10
Alignment explanation
Indices: 6744295--6744354 Score: 68
Period size: 10 Copynumber: 6.0 Consensus size: 10
6744285 TAAATCTAAG
*
6744295 ATTTATTTTT
1 ATTTATCTTT
6744305 ATTTATCTTT
1 ATTTATCTTT
*
6744315 AATTATCTTT
1 ATTTATCTTT
* *
6744325 AATTACCTTT
1 ATTTATCTTT
6744335 ATTTAT-TTGT
1 ATTTATCTT-T
6744345 ATTTATCTTT
1 ATTTATCTTT
6744355 TAGAATTAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
9 2 0.05
10 39 0.91
11 2 0.05
ACGTcount: A:0.23, C:0.08, G:0.02, T:0.67
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:6763027 original size:25 final size:24
Alignment explanation
Indices: 6762973--6763029 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
6762963 TGTCATGTTA
*
6762973 ATAAATAATTTAAAATTATAAAAT
1 ATAAAAAATTTAAAATTATAAAAT
6762997 ATTAAAAAATTTAAAATTCA-AAGAAT
1 A-TAAAAAATTTAAAATT-ATAA-AAT
6763023 ATAAAAA
1 ATAAAAA
6763030 GTTCATAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 1 0.03
25 23 0.79
26 5 0.17
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (24 bp):
ATAAAAAATTTAAAATTATAAAAT
Found at i:6763684 original size:26 final size:26
Alignment explanation
Indices: 6763651--6763711 Score: 97
Period size: 26 Copynumber: 2.3 Consensus size: 26
6763641 AAAACATTTA
6763651 TTTTAAATTTAAAT-ATTTTTAATAAT
1 TTTTAAATTTAAATCA-TTTTAATAAT
6763677 TTTTAAATTTAAATCATTTTAATAAT
1 TTTTAAATTTAAATCATTTTAATAAT
*
6763703 TGTTAAATT
1 TTTTAAATT
6763712 ATAGTTTTGC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
26 32 0.97
27 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (26 bp):
TTTTAAATTTAAATCATTTTAATAAT
Found at i:6763696 original size:16 final size:15
Alignment explanation
Indices: 6763649--6763698 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
6763639 TAAAAACATT
6763649 TATTTTAAATTTAAA
1 TATTTTAAATTTAAA
*
6763664 TATTTTTAA--T-AA
1 TATTTTAAATTTAAA
6763676 T-TTTTAAATTTAAA
1 TATTTTAAATTTAAA
6763690 TCATTTTAA
1 T-ATTTTAA
6763699 TAATTGTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
11 6 0.21
12 3 0.11
13 2 0.07
14 3 0.11
15 8 0.29
16 6 0.21
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTTTAAATTTAAA
Found at i:6765872 original size:40 final size:40
Alignment explanation
Indices: 6765788--6765895 Score: 123
Period size: 40 Copynumber: 2.7 Consensus size: 40
6765778 GCTTTAGTGG
** *
6765788 CATTAGCAACGCTTTTTG-AAAACGCCGCTATAGATCGAT
1 CATTAGCGGCGCTTTTTGAAAAAAGCCGCTATAGATCGAT
* *
6765827 CATTAGCGGCG-TTTTTTAAAAAATGCCGCTATAGGTCGA-
1 CATTAGCGGCGCTTTTTGAAAAAA-GCCGCTATAGATCGAT
*
6765866 CTATTAGTGGCGCTTTTTGAAAAAAGCCGC
1 C-ATTAGCGGCGCTTTTTGAAAAAAGCCGC
6765896 AAAAAAATTA
Statistics
Matches: 58, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
38 5 0.09
39 14 0.24
40 28 0.48
41 11 0.19
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (40 bp):
CATTAGCGGCGCTTTTTGAAAAAAGCCGCTATAGATCGAT
Found at i:6765946 original size:154 final size:152
Alignment explanation
Indices: 6765522--6765962 Score: 553
Period size: 152 Copynumber: 2.9 Consensus size: 152
6765512 AAATAGGTTT
** * * * *
6765522 TTAGCGGCGTTTGGATAAAAAAAGCCGCTATAGATCAAGCATTAGCGGCGCTTTTTGAAAAATGC
1 TTAGCGGCGTTT-TTTAAAAAATGCCGCTATAGGTCGA-CATTAGCGGCGCTTTTTGAAAAAAGC
** * *
6765587 TACAAAAAAATTAAGCACAATGCTGTCGTTTTATGTTGAGCTTTAGTGGCATTAGCGGCGCTTTT
64 CGCAAAAAAATTAAGCACAATGCCGTCGTTTTATGTTGAGCTTTAGTGGCATTAGCGACGCTTTT
6765652 TGAAAAACGCCGCTATAGATCAAGC
129 TG-AAAACGCCGCTATAGATCAAGC
* ** * * * * * *
6765677 CTAGCGATGCTATTTAAAAAATGCCGCTGTAGGTCGACCACTAGCGGCAC--TTTGAAAAACGCC
1 TTAGCGGCGTTTTTTAAAAAATGCCGCTATAGGTCGA-CATTAGCGGCGCTTTTTGAAAAAAGCC
* ** * *
6765740 GTAAAAAAATTAAGCACAACACCGTTGTTTTATGTTGAGCTTTAGTGGCATTAGCAACGCTTTTT
65 GCAAAAAAATTAAGCACAATGCCGTCGTTTTATGTTGAGCTTTAGTGGCATTAGCGACGCTTTTT
* *
6765805 GAAAACGCCGCTATAGATCGATC
130 GAAAACGCCGCTATAGATCAAGC
*
6765828 ATTAGCGGCGTTTTTTAAAAAATGCCGCTATAGGTCGACTATTAGTGGCGCTTTTTGAAAAAAGC
1 -TTAGCGGCGTTTTTTAAAAAATGCCGCTATAGGTCGAC-ATTAGCGGCGCTTTTTGAAAAAAGC
* *
6765893 CGCAAAAAAATTAAGCACAATGCCATCGTTTTATGTTTAGCTTTAGTGGCATTAGCGACGCTTTT
64 CGCAAAAAAATTAAGCACAATGCCGTCGTTTTATGTTGAGCTTTAGTGGCATTAGCGACGCTTTT
6765958 TGAAA
129 TGAAA
6765963 TATTTATCAT
Statistics
Matches: 239, Mismatches: 43, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
151 21 0.09
152 108 0.45
154 103 0.43
155 7 0.03
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (152 bp):
TTAGCGGCGTTTTTTAAAAAATGCCGCTATAGGTCGACATTAGCGGCGCTTTTTGAAAAAAGCCG
CAAAAAAATTAAGCACAATGCCGTCGTTTTATGTTGAGCTTTAGTGGCATTAGCGACGCTTTTTG
AAAACGCCGCTATAGATCAAGC
Found at i:6765993 original size:7 final size:7
Alignment explanation
Indices: 6765978--6766103 Score: 76
Period size: 7 Copynumber: 17.7 Consensus size: 7
6765968 ATCATTATAT
*
6765978 TTTAGGG
1 TTTATGG
6765985 TTTATGG
1 TTTATGG
*
6765992 TTTAGGG
1 TTTATGG
*
6765999 TTTAAGG
1 TTTATGG
*
6766006 TTTAGGAG
1 TTTATG-G
6766014 TTACTAT--
1 TT--TATGG
*
6766021 TTTAAGG
1 TTTATGG
6766028 TTTATGG
1 TTTATGG
*
6766035 ATTATGGG
1 TTTAT-GG
*
6766043 TTTAGGG
1 TTTATGG
*
6766050 ATTATGG
1 TTTATGG
6766057 TTTATGG
1 TTTATGG
*
6766064 TTTAAGG
1 TTTATGG
* **
6766071 GTTGGGG
1 TTTATGG
*
6766078 TTTAAGG
1 TTTATGG
*
6766085 TTTAAGG
1 TTTATGG
6766092 TTTATGG
1 TTTATGG
6766099 TTTAT
1 TTTAT
6766104 ATCTTATAAT
Statistics
Matches: 92, Mismatches: 21, Indels: 12
0.74 0.17 0.10
Matches are distributed among these distances:
5 2 0.02
7 80 0.87
8 8 0.09
10 2 0.02
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.47
Consensus pattern (7 bp):
TTTATGG
Found at i:6765995 original size:14 final size:14
Alignment explanation
Indices: 6765978--6766103 Score: 87
Period size: 14 Copynumber: 8.9 Consensus size: 14
6765968 ATCATTATAT
6765978 TTTAGGGTTTATGG
1 TTTAGGGTTTATGG
*
6765992 TTTAGGGTTTAAGG
1 TTTAGGGTTTATGG
6766006 TTTAGGAGTTACTAT--
1 TTTAGG-GTT--TATGG
*
6766021 TTTAAGGTTTATGG
1 TTTAGGGTTTATGG
* *
6766035 ATTATGGGTTTAGGG
1 TTTA-GGGTTTATGG
* *
6766050 ATTATGGTTTATGG
1 TTTAGGGTTTATGG
**
6766064 TTTAAGGG-TTGGGG
1 TTT-AGGGTTTATGG
* *
6766078 TTTAAGGTTTAAGG
1 TTTAGGGTTTATGG
*
6766092 TTTATGGTTTAT
1 TTTAGGGTTTAT
6766104 ATCTTATAAT
Statistics
Matches: 87, Mismatches: 17, Indels: 16
0.73 0.14 0.13
Matches are distributed among these distances:
12 3 0.03
13 3 0.03
14 56 0.64
15 23 0.26
17 2 0.02
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.47
Consensus pattern (14 bp):
TTTAGGGTTTATGG
Found at i:6766007 original size:21 final size:21
Alignment explanation
Indices: 6765978--6766102 Score: 101
Period size: 21 Copynumber: 5.9 Consensus size: 21
6765968 ATCATTATAT
*
6765978 TTTAGGGTTTATGGTTTAGGG
1 TTTAAGGTTTATGGTTTAGGG
* *
6765999 TTTAAGGTTTAGGAGTTACTA--T
1 TTTAAGGTTTATG-GTT--TAGGG
*
6766021 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGTTTATGGTTTA-GGG
* * *
6766043 TTTAGGGATTATGGTTTATGG
1 TTTAAGGTTTATGGTTTAGGG
* ** *
6766064 TTTAAGGGTTGGGGTTTAAGG
1 TTTAAGGTTTATGGTTTAGGG
6766085 TTTAAGGTTTATGGTTTA
1 TTTAAGGTTTATGGTTTA
6766103 TATCTTATAA
Statistics
Matches: 80, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
19 2 0.03
21 46 0.57
22 30 0.38
24 2 0.03
ACGTcount: A:0.21, C:0.01, G:0.32, T:0.46
Consensus pattern (21 bp):
TTTAAGGTTTATGGTTTAGGG
Found at i:6766046 original size:15 final size:15
Alignment explanation
Indices: 6766026--6766073 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
6766016 ACTATTTTAA
6766026 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
6766041 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
* *
6766055 GGTTTATGGTTTAAG
1 GGTTTATGGATTATG
6766070 GGTT
1 GGTT
6766074 GGGGTTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:6767523 original size:9 final size:9
Alignment explanation
Indices: 6767507--6767567 Score: 104
Period size: 9 Copynumber: 6.8 Consensus size: 9
6767497 GGTATTTTTC
6767507 GGTAATTCG
1 GGTAATTCG
*
6767516 GTTAATTCG
1 GGTAATTCG
*
6767525 GTTAATTCG
1 GGTAATTCG
6767534 GGTAATTCG
1 GGTAATTCG
6767543 GGTAATTCG
1 GGTAATTCG
6767552 GGTAATTCG
1 GGTAATTCG
6767561 GGTAATT
1 GGTAATT
6767568 TTTAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.23, C:0.10, G:0.30, T:0.38
Consensus pattern (9 bp):
GGTAATTCG
Found at i:6767745 original size:12 final size:12
Alignment explanation
Indices: 6767728--6767752 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6767718 AGTAATTTCG
6767728 GGTCGGTTAACC
1 GGTCGGTTAACC
6767740 GGTCGGTTAACC
1 GGTCGGTTAACC
6767752 G
1 G
6767753 AATGAACACC
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:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:6770747 original size:43 final size:43
Alignment explanation
Indices: 6770604--6770962 Score: 331
Period size: 43 Copynumber: 8.5 Consensus size: 43
6770594 ATTTTTTTAC
* * * *
6770604 AAGGTCATGTTCTTTAGCAGCATTTGTGAGAAAAGCGCCGCTA
1 AAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTA
* * * * *
6770647 AAGGTCTAT-TT-TATAGTGGCATTTTTGGAAAAAGTGCCGCTA
1 AAGGTC-ATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTA
* * * **
6770689 AAGATC-TGTTTTATAGCGGCGTTTGTGGGAAAAGAGCCATTA
1 AAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTA
* * * *
6770731 AAGGTCATGTTCTATAGCTGCGATTGTGGG-AGAGCGCTGCTA
1 AAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTA
* * * * * *
6770773 AAGGTCATGTTCTATAGTGGGGTTTGTAGGAAAACCGTCTCTA
1 AAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTA
* * * **
6770816 AAAGTCATGTTCTATAGAGGCGTTTGTGGAAAAAATGCCGCTA
1 AAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTA
6770859 AAGGTCA-----TATAGCGGCGTTTGTGGGAAAAGCGCCGCTA
1 AAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTA
* * * *
6770897 AAAGTCATGTTCTATAGTGGCATTTATGGGAAAAGCGCCGCTA
1 AAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTA
* *
6770940 AATGTCATGTTTTATAGCGGCGT
1 AAGGTCATGTTCTATAGCGGCGT
6770963 GTTTCTATAT
Statistics
Matches: 250, Mismatches: 56, Indels: 20
0.77 0.17 0.06
Matches are distributed among these distances:
38 33 0.13
40 1 0.00
41 2 0.01
42 90 0.36
43 122 0.49
44 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (43 bp):
AAGGTCATGTTCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTA
Found at i:6770876 original size:38 final size:38
Alignment explanation
Indices: 6770828--6770904 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
6770818 AGTCATGTTC
* *
6770828 TATAGAGGCGTTTGTGGAAAAAATGCCGCTAAAGGTCA
1 TATAGAGGCGTTTGTGGAAAAAACGCCGCTAAAAGTCA
* * *
6770866 TATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCA
1 TATAGAGGCGTTTGTGGAAAAAACGCCGCTAAAAGTCA
6770904 T
1 T
6770905 GTTCTATAGT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (38 bp):
TATAGAGGCGTTTGTGGAAAAAACGCCGCTAAAAGTCA
Found at i:6770898 original size:81 final size:81
Alignment explanation
Indices: 6770626--6770947 Score: 267
Period size: 81 Copynumber: 3.9 Consensus size: 81
6770616 TTTAGCAGCA
* * * *
6770626 TTTGTGAGAAAAGCGCCGCTAAAGGTCTAT-TT-TATAGTGGCATTTTTGGAAAAAGTGCCGCTA
1 TTTGTGGGAAAAGCGCCGCTAAAAGTC-ATGTTCTATAGTGGCATTTGTGGAAAAAGCGCCGCTA
**
6770689 AAGATCTGTTTTATAGCGGCG
65 AAG----GTCATATAGCGGCG
* ** * * * *
6770710 TTTGTGGGAAAAGAGCCATTAAAGGTCATGTTCTATAGCT-GCGA-TTGTGG-GAGAGCGCTGCT
1 TTTGTGGGAAAAGCGCCGCTAAAAGTCATGTTCTATAG-TGGC-ATTTGTGGAAAAAGCGCCGCT
* *
6770772 AAAGGTCATGTTCTATAGTGGGG
64 AAAGGTCA-----TATAGCGGCG
* * * * * * **
6770795 TTTGTAGGAAAACCGTCTCTAAAAGTCATGTTCTATAGAGGCGTTTGTGGAAAAAATGCCGCTAA
1 TTTGTGGGAAAAGCGCCGCTAAAAGTCATGTTCTATAGTGGCATTTGTGGAAAAAGCGCCGCTAA
6770860 AGGTCATATAGCGGCG
66 AGGTCATATAGCGGCG
* *
6770876 TTTGTGGGAAAAGCGCCGCTAAAAGTCATGTTCTATAGTGGCATTTATGGGAAAAGCGCCGCTAA
1 TTTGTGGGAAAAGCGCCGCTAAAAGTCATGTTCTATAGTGGCATTTGTGGAAAAAGCGCCGCTAA
*
6770941 ATGTCAT
66 AGGTCAT
6770948 GTTTTATAGC
Statistics
Matches: 186, Mismatches: 40, Indels: 27
0.74 0.16 0.11
Matches are distributed among these distances:
80 2 0.01
81 69 0.37
83 2 0.01
84 37 0.20
85 59 0.32
86 17 0.09
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TTTGTGGGAAAAGCGCCGCTAAAAGTCATGTTCTATAGTGGCATTTGTGGAAAAAGCGCCGCTAA
AGGTCATATAGCGGCG
Found at i:6771327 original size:17 final size:18
Alignment explanation
Indices: 6771291--6771328 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
6771281 CCCTCTTTTT
6771291 TTTCTCACTCAGAATTTA
1 TTTCTCACTCAGAATTTA
* *
6771309 TTTCTCTCTCA-ACTTTA
1 TTTCTCACTCAGAATTTA
6771326 TTT
1 TTT
6771329 ATTTATTTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.21, C:0.24, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTCTCACTCAGAATTTA
Found at i:6772165 original size:27 final size:26
Alignment explanation
Indices: 6772100--6772166 Score: 62
Period size: 27 Copynumber: 2.5 Consensus size: 26
6772090 GAGGTCAGCC
* * *
6772100 GTGTTGGCGACGTTGTTTAGGAATAT
1 GTGTTGGCGATGTTGTATAGGAAGAT
* * *
6772126 GTGTCAGGTGATGTTGTATAGGGAGAT
1 GTGT-TGGCGATGTTGTATAGGAAGAT
6772153 GTGTTGGGCGATGT
1 GTGTT-GGCGATGT
6772167 AACCACACAA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
26 4 0.13
27 27 0.87
ACGTcount: A:0.18, C:0.06, G:0.40, T:0.36
Consensus pattern (26 bp):
GTGTTGGCGATGTTGTATAGGAAGAT
Found at i:6774952 original size:19 final size:19
Alignment explanation
Indices: 6774930--6774969 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
6774920 TCAAATTAAA
6774930 ACCATTCATGCCATCAAAC
1 ACCATTCATGCCATCAAAC
**
6774949 ACCATTTGTGCCATCAAAC
1 ACCATTCATGCCATCAAAC
6774968 AC
1 AC
6774970 ATACCAAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.35, G:0.07, T:0.23
Consensus pattern (19 bp):
ACCATTCATGCCATCAAAC
Found at i:6776150 original size:24 final size:24
Alignment explanation
Indices: 6776095--6776161 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
6776085 GTTGATAAAC
**
6776095 AGTAAGCTCTATTGAGCT-AAAAA
1 AGTAAGCTCTAACGAGCTGAAAAA
* *
6776118 AGTAAGCTCTAACGAGCTGAGAAT
1 AGTAAGCTCTAACGAGCTGAAAAA
6776142 AGTAAGCTCTAACGAGCTGA
1 AGTAAGCTCTAACGAGCTGA
6776162 TATATCGGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 16 0.41
24 23 0.59
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.22
Consensus pattern (24 bp):
AGTAAGCTCTAACGAGCTGAAAAA
Found at i:6783578 original size:48 final size:45
Alignment explanation
Indices: 6783471--6783582 Score: 129
Period size: 48 Copynumber: 2.4 Consensus size: 45
6783461 TCATGTTTGT
*
6783471 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAG-CAAATTATGA
*
6783517 GAGCCAGTGTAAGACTATGTCTGGGACATGACATC-G-AAATTGAGATGA
1 GAGCTAGTGTAAGAC-ATGTCTGGGACATG-CATCAGCAAATT---ATGA
*
6783565 GTGCTAGTGTAAGACATG
1 GAGCTAGTGTAAGACATG
6783583 CATGCATCGG
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
45 4 0.07
46 14 0.25
47 18 0.32
48 21 0.37
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCAAATTATGA
Found at i:6783727 original size:49 final size:49
Alignment explanation
Indices: 6783606--6783739 Score: 157
Period size: 49 Copynumber: 2.7 Consensus size: 49
6783596 CAAGATGTGT
*
6783606 CAGTGTAAGACCATGTCT-GGAACATGGCATCGGCACGGATATACGAGAGC
1 CAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCACCGATATA-GAGAGC
* * * * *
6783656 TAGTGTAAGACCATGTCCAGGACTTGGTATCGGC-CTCGATGAT-GATAGC
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCAC-CGAT-ATAGAGAGC
6783705 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
6783740 ACTTGTCCCA
Statistics
Matches: 70, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
49 36 0.51
50 30 0.43
51 4 0.06
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (49 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCGGCACCGATATAGAGAGC
Found at i:6784314 original size:16 final size:16
Alignment explanation
Indices: 6784293--6784324 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
6784283 AAGATGTATT
6784293 GTCATGGTTAAATGAA
1 GTCATGGTTAAATGAA
6784309 GTCATGGTTAAATGAA
1 GTCATGGTTAAATGAA
6784325 TGTCTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (16 bp):
GTCATGGTTAAATGAA
Found at i:6790961 original size:26 final size:26
Alignment explanation
Indices: 6790932--6790981 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
6790922 TTGGGTAAAT
* * * *
6790932 TTTTTCTTCTTCTTCTTCTTTTTAAG
1 TTTTTATTCTGCTACTTATTTTTAAG
6790958 TTTTTATTCTGCTACTTATTTTTA
1 TTTTTATTCTGCTACTTATTTTTA
6790982 TTTCATTTTA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.12, C:0.16, G:0.04, T:0.68
Consensus pattern (26 bp):
TTTTTATTCTGCTACTTATTTTTAAG
Found at i:6792511 original size:92 final size:92
Alignment explanation
Indices: 6792306--6792620 Score: 454
Period size: 92 Copynumber: 3.4 Consensus size: 92
6792296 GGATGGCCAT
* * * * * *
6792306 ATTGCATTATACCGCATGTACGTTAGCTACGCTACGTATCTTTGACTGAACTGGCA-ATTTACTA
1 ATTGCACTGTACCACATGTACGTTAGCTACGCTACGTACCTTTGACTGAACTGGCAGTTTTACTG
*
6792370 CAACCTATC-GATATAACGGATTACCGC
66 CAACCTATCAG-TATAGCGGATTACCGC
*
6792397 ATTGCACTGTACCATATGTACGTTAGCTACGCTACGTACCTTTGACTGAACTGGCAGTTTTACTG
1 ATTGCACTGTACCACATGTACGTTAGCTACGCTACGTACCTTTGACTGAACTGGCAGTTTTACTG
*
6792462 TAACCTATCAGTATAGCGGATTACCGC
66 CAACCTATCAGTATAGCGGATTACCGC
* * * * * * *
6792489 ATTGCACTGTACCGCATTTACGTTAGCTACGCTATGTACTTTTAACTGAACTGGTAGTTTTATTG
1 ATTGCACTGTACCACATGTACGTTAGCTACGCTACGTACCTTTGACTGAACTGGCAGTTTTACTG
6792554 CAACCTATCAGTATAGCGGATTACCGC
66 CAACCTATCAGTATAGCGGATTACCGC
*
6792581 ATTGCACTGTACCACATGTACGTTAGCTACGCTATGTACC
1 ATTGCACTGTACCACATGTACGTTAGCTACGCTACGTACC
6792621 ACTATCTGAT
Statistics
Matches: 201, Mismatches: 21, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
91 51 0.25
92 149 0.74
93 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (92 bp):
ATTGCACTGTACCACATGTACGTTAGCTACGCTACGTACCTTTGACTGAACTGGCAGTTTTACTG
CAACCTATCAGTATAGCGGATTACCGC
Found at i:6800535 original size:17 final size:18
Alignment explanation
Indices: 6800498--6800541 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
6800488 AAGGCAAAGT
6800498 AATTTGGTATGAAATTTG
1 AATTTGGTATGAAATTTG
6800516 AATTTGGT-TGATAA-TTG
1 AATTTGGTATGA-AATTTG
6800533 AATTATGGT
1 AATT-TGGT
6800542 GTCGATGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (18 bp):
AATTTGGTATGAAATTTG
Found at i:6805137 original size:21 final size:21
Alignment explanation
Indices: 6805113--6805154 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
6805103 TATTTATCAC
6805113 AAAGACAAATGAAATAGTAAT
1 AAAGACAAATGAAATAGTAAT
6805134 AAAGACAAATGAAATAGTAAT
1 AAAGACAAATGAAATAGTAAT
6805155 TAAATATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.62, C:0.05, G:0.14, T:0.19
Consensus pattern (21 bp):
AAAGACAAATGAAATAGTAAT
Found at i:6808812 original size:90 final size:90
Alignment explanation
Indices: 6808654--6808819 Score: 212
Period size: 90 Copynumber: 1.8 Consensus size: 90
6808644 ATGCCAAAGC
* * *
6808654 CATGTCCCTGACATGGTCTTACATGGGACTACATGTCGATGCCATATCCAAGATATGGTTCTATA
1 CATGTCCCAGACATGGTCTTACATGGGACTACATGTCGATGCCATATCCAAGACATGGTTCTACA
*
6808719 CGAAGTCTCATGTTGGTGCCGATGA
66 CGAAATCTCATGTTGGTGCCGATGA
* * **
6808744 CATGTCCCAGACATGGTCTTACATGGGACCTCGCAT-T-GATGCCATGTCTTAGACATGG-TCTT
1 CATGTCCCAGACATGGTCTTACATGGGA-CT-ACATGTCGATGCCATATCCAAGACATGGTTC-T
6808806 ACACGAAATCTCAT
63 ACACGAAATCTCAT
6808820 ATCAATGCCA
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
89 2 0.03
90 57 0.88
91 3 0.05
92 3 0.05
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.30
Consensus pattern (90 bp):
CATGTCCCAGACATGGTCTTACATGGGACTACATGTCGATGCCATATCCAAGACATGGTTCTACA
CGAAATCTCATGTTGGTGCCGATGA
Found at i:6808897 original size:48 final size:48
Alignment explanation
Indices: 6808823--6808995 Score: 168
Period size: 48 Copynumber: 3.6 Consensus size: 48
6808813 ATCTCATATC
* * * *
6808823 AATGCCATATCCCAAATATGGTCTTACACTGGCATACATAACAACGCA
1 AATGCCATGTCCCAGACATGGTCTTACACTGGCATACATATCAACGCA
* * * *
6808871 AATGCCATGTCCCAGACATGGCCTTACATTGGCCCT-CATATCAACGCC
1 AATGCCATGTCCCAGACATGGTCTTACACTGG-CATACATATCAACGCA
* * * * * * *
6808919 AATGCTATGTCCCACACATGATCTTACACTGACACACATATCAACACT
1 AATGCCATGTCCCAGACATGGTCTTACACTGGCATACATATCAACGCA
* * *
6808967 GATGCCATGTCCTAGACGTGGTCTTACAC
1 AATGCCATGTCCCAGACATGGTCTTACAC
6808996 GGGATCTTAT
Statistics
Matches: 99, Mismatches: 24, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
47 1 0.01
48 96 0.97
49 2 0.02
ACGTcount: A:0.31, C:0.31, G:0.14, T:0.24
Consensus pattern (48 bp):
AATGCCATGTCCCAGACATGGTCTTACACTGGCATACATATCAACGCA
Found at i:6817392 original size:41 final size:40
Alignment explanation
Indices: 6817345--6817427 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 40
6817335 TACCCCATAC
6817345 ATACCATATTTAAATGTAATAAACAAATTATACCCCAAAAG
1 ATACCATATTTAAATGTAATAAACAAATTATA-CCCAAAAG
6817386 ATACCATATTTAAATGTAATAAACAAATTATACCCAAAAG
1 ATACCATATTTAAATGTAATAAACAAATTATACCCAAAAG
6817426 AT
1 AT
6817428 TTGTTGATAG
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
40 10 0.24
41 32 0.76
ACGTcount: A:0.52, C:0.16, G:0.05, T:0.28
Consensus pattern (40 bp):
ATACCATATTTAAATGTAATAAACAAATTATACCCAAAAG
Found at i:6818068 original size:42 final size:42
Alignment explanation
Indices: 6817962--6818074 Score: 145
Period size: 42 Copynumber: 2.7 Consensus size: 42
6817952 ATGCTATGTG
* * * * * *
6817962 CCAGACATGGTCTTACACGAGACCTCACATCCATGCCATGTC
1 CCAGACATGGTCTTACACGAAATCTCATATCAACGCCATATC
6818004 CCAGACATGGTCTTACACGAAATCTCATATCAACGCCATATC
1 CCAGACATGGTCTTACACGAAATCTCATATCAACGCCATATC
* * *
6818046 CCAGATATGGTCTTACATGAAATCACATA
1 CCAGACATGGTCTTACACGAAATCTCATA
6818075 CCGATGCTGA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (42 bp):
CCAGACATGGTCTTACACGAAATCTCATATCAACGCCATATC
Found at i:6818202 original size:48 final size:49
Alignment explanation
Indices: 6817994--6818207 Score: 162
Period size: 48 Copynumber: 4.6 Consensus size: 49
6817984 CCTCACATCC
* *
6817994 ATGCCATGTCCCAGACATGGTCTTACAC-GAAATCTCATATCAACGCC-
1 ATGCCATGTCCCAGATATGGTCTTACACTGAAATCACATATCAACGCCG
* * * *
6818041 AT---A--TCCCAGATATGGTCTTACA-TGAAATCACATACCGATGCTG
1 ATGCCATGTCCCAGATATGGTCTTACACTGAAATCACATATCAACGCCG
* * * ** * * *
6818084 ACGCCATATTCCAGATATGGTCTTATGCT-AGCAT-ACATATCAGCGCGG
1 ATGCCATGTCCCAGATATGGTCTTACACTGA-AATCACATATCAACGCCG
* * * **
6818132 ATGCAATGTCCCAAATAGGGTCTTACACTGGCA-CACATATCAACGCCG
1 ATGCCATGTCCCAGATATGGTCTTACACTGAAATCACATATCAACGCCG
*
6818180 ATGCCATGTCCCAGACATGGTCTTACAC
1 ATGCCATGTCCCAGATATGGTCTTACAC
6818208 GGGATCTCAT
Statistics
Matches: 125, Mismatches: 31, Indels: 21
0.71 0.18 0.12
Matches are distributed among these distances:
42 32 0.26
43 1 0.01
44 1 0.01
46 1 0.01
47 2 0.02
48 85 0.68
49 3 0.02
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
ATGCCATGTCCCAGATATGGTCTTACACTGAAATCACATATCAACGCCG
Found at i:6824706 original size:15 final size:15
Alignment explanation
Indices: 6824666--6824706 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
6824656 GCGTGTGTCT
6824666 CAGCCGTGTGTGACA
1 CAGCCGTGTGTGACA
6824681 CATGGCC--GTGTGACA
1 CA--GCCGTGTGTGACA
6824696 CAGCCGTGTGT
1 CAGCCGTGTGT
6824707 CCCATTTAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 8
0.73 0.00 0.27
Matches are distributed among these distances:
13 3 0.14
15 16 0.73
17 3 0.14
ACGTcount: A:0.17, C:0.27, G:0.34, T:0.22
Consensus pattern (15 bp):
CAGCCGTGTGTGACA
Found at i:6832088 original size:67 final size:67
Alignment explanation
Indices: 6831969--6832098 Score: 172
Period size: 67 Copynumber: 1.9 Consensus size: 67
6831959 GCTAGGACAC
* * * * * *
6831969 GGCCGTGTGACCCAAGTTAGAGAGTTACACAGTCATGGATACGGGATAGGACATGGTCGTGTGGT
1 GGCCCTGTGACCCAAGTCAGAGAGTTACACAGGCATGGACACGCGATAGGACATGGCCGTGTGGT
6832034 TT
66 TT
* *
6832036 GGCCCTGTGACCCAAGTCAGAGAGTTACATAGGCATGGACAC-CGACTGGGACATGGCCGTGTG
1 GGCCCTGTGACCCAAGTCAGAGAGTTACACAGGCATGGACACGCGA-TAGGACATGGCCGTGTG
6832099 TCTTTATTTC
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
66 2 0.04
67 52 0.96
ACGTcount: A:0.24, C:0.21, G:0.34, T:0.22
Consensus pattern (67 bp):
GGCCCTGTGACCCAAGTCAGAGAGTTACACAGGCATGGACACGCGATAGGACATGGCCGTGTGGT
TT
Found at i:6833421 original size:11 final size:11
Alignment explanation
Indices: 6833405--6833429 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6833395 ATATGATATT
6833405 TTATTATTTTA
1 TTATTATTTTA
6833416 TTATTATTTTA
1 TTATTATTTTA
6833427 TTA
1 TTA
6833430 GTATATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:6836828 original size:28 final size:28
Alignment explanation
Indices: 6836788--6836842 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
6836778 ATTCATAACT
* *
6836788 ATTTTCAAACTTATTCAATGCTTATTAA
1 ATTTTCAAACTTAGTCAATACTTATTAA
6836816 ATTTTCAAACTTAGTCAATACTTATTA
1 ATTTTCAAACTTAGTCAATACTTATTA
6836843 GTGGCGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.04, T:0.45
Consensus pattern (28 bp):
ATTTTCAAACTTAGTCAATACTTATTAA
Found at i:6839364 original size:25 final size:26
Alignment explanation
Indices: 6839312--6839366 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 26
6839302 AAATCTAAGG
*
6839312 TTTCATTTTTCTTCCTCCTCTTTTTT
1 TTTCATTTTTCTTCCTCCCCTTTTTT
* *
6839338 TTTC-TTTTTCTT-TTCCCCTTTTCT
1 TTTCATTTTTCTTCCTCCCCTTTTTT
6839362 TTTCA
1 TTTCA
6839367 ACAGAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 13 0.52
25 8 0.32
26 4 0.16
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.69
Consensus pattern (26 bp):
TTTCATTTTTCTTCCTCCCCTTTTTT
Found at i:6859262 original size:23 final size:23
Alignment explanation
Indices: 6859235--6859281 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 23
6859225 TTAAATTAAG
6859235 TAAAAAATAA-TATAAA-T-TTTA
1 TAAAAAA-AATTATAAAGTGTTTA
6859256 TAAAAAAAATTATAAAGTGTTTA
1 TAAAAAAAATTATAAAGTGTTTA
6859279 TAA
1 TAA
6859282 TTTGTTAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 2 0.09
21 13 0.57
22 1 0.04
23 7 0.30
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (23 bp):
TAAAAAAAATTATAAAGTGTTTA
Found at i:6860020 original size:20 final size:20
Alignment explanation
Indices: 6859956--6860020 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
6859946 AAATTAAATA
*
6859956 ATTGTATCTCTTGGATTAAT
1 ATTGTATCTCTTGGTTTAAT
* *
6859976 ATTGCAT-T-TT--TTCATAT
1 ATTGTATCTCTTGGTTTA-AT
6859993 AGTTGTATCTCTTGGTTTAAT
1 A-TTGTATCTCTTGGTTTAAT
6860014 ATTGTAT
1 ATTGTAT
6860021 TTTTTTTTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 12
0.67 0.10 0.24
Matches are distributed among these distances:
16 2 0.06
17 3 0.09
18 7 0.21
19 2 0.06
20 14 0.41
21 3 0.09
22 3 0.09
ACGTcount: A:0.23, C:0.09, G:0.14, T:0.54
Consensus pattern (20 bp):
ATTGTATCTCTTGGTTTAAT
Found at i:6860811 original size:60 final size:62
Alignment explanation
Indices: 6860736--6860850 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 62
6860726 TAATATAAGG
* *
6860736 TAATATTCTGAATATTAATTTGGT-AAAATAAAGTTTA-ATAATTACAATATCTAAGTATAAA
1 TAATATTCTAAATATTAATTAGGTAAAAATAAAG-TTACATAATTACAATATCTAAGTATAAA
* *
6860797 TAATA-TCTAAATATTAATTAGGTAAAAATATAGTTACATAATTATAATATCTAA
1 TAATATTCTAAATATTAATTAGGTAAAAATAAAGTTACATAATTACAATATCTAA
6860851 TACAAATTGA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
60 19 0.40
61 29 0.60
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (62 bp):
TAATATTCTAAATATTAATTAGGTAAAAATAAAGTTACATAATTACAATATCTAAGTATAAA
Found at i:6864083 original size:20 final size:20
Alignment explanation
Indices: 6864035--6864085 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
6864025 TAGAGTAGGA
*
6864035 ATATCGATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
* *
6864055 ATTTTGATACCTTAAGAAAT
1 ATATCGATACCTTAAGAAAT
*
6864075 GTATCGATACC
1 ATATCGATACC
6864086 GGACCGATAC
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:6864434 original size:31 final size:31
Alignment explanation
Indices: 6864398--6864459 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
6864388 ATAGATTGCT
*
6864398 CCCCCT-TAATAAAAGTCATTTTAAATTTAAG
1 CCCCCTAT-ATAAAAATCATTTTAAATTTAAG
**
6864429 CCCCCTATATAAAAATCATTTTCTATTTAAG
1 CCCCCTATATAAAAATCATTTTAAATTTAAG
6864460 GCATAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.37, C:0.21, G:0.05, T:0.37
Consensus pattern (31 bp):
CCCCCTATATAAAAATCATTTTAAATTTAAG
Found at i:6877880 original size:25 final size:25
Alignment explanation
Indices: 6877843--6877908 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 25
6877833 AGTATGCCAT
*
6877843 AAGG-GTCAAACAGAATACACCACA
1 AAGGCGTCATACAGAATACACCACA
** **
6877867 AAGGCGTCATACAGAATATGCTGCA
1 AAGGCGTCATACAGAATACACCACA
*
6877892 AAGGCATCATACAGAAT
1 AAGGCGTCATACAGAAT
6877909 CATGTGTTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
24 4 0.11
25 31 0.89
ACGTcount: A:0.44, C:0.21, G:0.20, T:0.15
Consensus pattern (25 bp):
AAGGCGTCATACAGAATACACCACA
Found at i:6880331 original size:28 final size:29
Alignment explanation
Indices: 6880244--6880545 Score: 83
Period size: 28 Copynumber: 10.8 Consensus size: 29
6880234 GCTCTTGCGT
* *
6880244 ACTCTTGCTT-AAGGAATAGTCCTTGTAG
1 ACTCTTGCTTGAAGGAATAGTCCATGTGG
* * * * * *
6880272 AATCTTGCTTGAATG-ATGGTTCATGCGA
1 ACTCTTGCTTGAAGGAATAGTCCATGTGG
*
6880300 ACTCTTGCTTGAA-GAATAGTCCCTGTGG
1 ACTCTTGCTTGAAGGAATAGTCCATGTGG
** * * * **
6880328 ACTCTTTTTTGAAAG-ATAATTCATGCAG
1 ACTCTTGCTTGAAGGAATAGTCCATGTGG
** * * * **
6880356 ACTCTTTTTTGAAAG-ATAATTCATGCAG
1 ACTCTTGCTTGAAGGAATAGTCCATGTGG
* * * * *
6880384 ACTCTTTCTTGAA-AAATAATTCATGCGG
1 ACTCTTGCTTGAAGGAATAGTCCATGTGG
* * * * **
6880412 ACTCTTTCTTGAAAG-ATAATTCATG-CA
1 ACTCTTGCTTGAAGGAATAGTCCATGTGG
* * * **
6880439 AGCTCTTGCTTGAA-AAATAATCCTTGTAA
1 A-CTCTTGCTTGAAGGAATAGTCCATGTGG
* * *
6880468 ACTCTTGCTTGAAAGACA-A-TTCAAGTGG
1 ACTCTTGCTTGAAGGA-ATAGTCCATGTGG
* *
6880496 ACTCTTACTTGAATG-ATAGTCCATGTGG
1 ACTCTTGCTTGAAGGAATAGTCCATGTGG
6880524 ACTC-TGTCTTGAA-GAATAGTCC
1 ACTCTTG-CTTGAAGGAATAGTCC
6880546 CTGCATATAG
Statistics
Matches: 217, Mismatches: 43, Indels: 28
0.75 0.15 0.10
Matches are distributed among these distances:
26 1 0.00
27 5 0.02
28 202 0.93
29 8 0.04
30 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (29 bp):
ACTCTTGCTTGAAGGAATAGTCCATGTGG
Found at i:6880351 original size:56 final size:56
Alignment explanation
Indices: 6880239--6880545 Score: 162
Period size: 56 Copynumber: 5.5 Consensus size: 56
6880229 GGTTAGCTCT
* * * * * **
6880239 TGCGTACTCTTGCTT-AAGGAATAGTCCTTGTAGAATCTTGCTTGAATGATGGTTCA
1 TGCGAACTCTTGCTTGAA-GAATAGTCCATGTAGACTCTTTCTTGAAAGATAATTCA
* * *
6880295 TGCGAACTCTTGCTTGAAGAATAGTCCCTGTGGACTCTTTTTTGAAAGATAATTCA
1 TGCGAACTCTTGCTTGAAGAATAGTCCATGTAGACTCTTTCTTGAAAGATAATTCA
** * * * *
6880351 TGC-AGACTCTTTTTTGAA-AGATAATTCATGCAGACTCTTTCTTGAAAAATAATTCA
1 TGCGA-ACTCTTGCTTGAAGA-ATAGTCCATGTAGACTCTTTCTTGAAAGATAATTCA
* * * * * * * * *
6880407 TGCGGACTCTTTCTTGAA-AGATAATTCATGCA-AGCTCTTGCTTGAAAAATAATCCT
1 TGCGAACTCTTGCTTGAAGA-ATAGTCCATGTAGA-CTCTTTCTTGAAAGATAATTCA
** * * * * * * *
6880463 TGTAAACTCTTGCTTGAAAGACA-A-TTCAAGTGGACTCTTACTTGAATGATAGTCCA
1 TGCGAACTCTTGCTTG-AAGA-ATAGTCCATGTAGACTCTTTCTTGAAAGATAATTCA
* *
6880519 TGTGGACTC-TGTCTTGAAGAATAGTCC
1 TGCGAACTCTTG-CTTGAAGAATAGTCC
6880546 CTGCATATAG
Statistics
Matches: 201, Mismatches: 39, Indels: 22
0.77 0.15 0.08
Matches are distributed among these distances:
54 1 0.00
55 10 0.05
56 182 0.91
57 6 0.03
58 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (56 bp):
TGCGAACTCTTGCTTGAAGAATAGTCCATGTAGACTCTTTCTTGAAAGATAATTCA
Found at i:6880445 original size:84 final size:84
Alignment explanation
Indices: 6880291--6880513 Score: 243
Period size: 84 Copynumber: 2.7 Consensus size: 84
6880281 TGAATGATGG
* * * * *
6880291 TTCATGC-GAACTCTTGCTTGAAGAATAGTCCCTGTGGACTCTTTTTTGAAAGATAATTCATGCA
1 TTCATGCAG-ACTCTTGCTTGAAAAATAATTCATGTGGACTCTTTCTTGAAAGATAATTCATGCA
** *
6880355 GACTCTTTTTTGAAAGATAA
65 GACTCTTGCTTGAAAAATAA
* *
6880375 TTCATGCAGACTCTTTCTTGAAAAATAATTCATGCGGACTCTTTCTTGAAAGATAATTCATGCA-
1 TTCATGCAGACTCTTGCTTGAAAAATAATTCATGTGGACTCTTTCTTGAAAGATAATTCATGCAG
6880439 AGCTCTTGCTTGAAAAATAA
66 A-CTCTTGCTTGAAAAATAA
* * * * * * * * *
6880459 TCCTTGTAAACTCTTGCTTGAAAGACAATTCAAGTGGACTCTTACTTGAATGATA
1 TTCATGCAGACTCTTGCTTGAAAAATAATTCATGTGGACTCTTTCTTGAAAGATA
6880514 GTCCATGTGG
Statistics
Matches: 116, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
83 1 0.01
84 114 0.98
85 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.35
Consensus pattern (84 bp):
TTCATGCAGACTCTTGCTTGAAAAATAATTCATGTGGACTCTTTCTTGAAAGATAATTCATGCAG
ACTCTTGCTTGAAAAATAA
Found at i:6890479 original size:27 final size:27
Alignment explanation
Indices: 6890400--6890506 Score: 97
Period size: 27 Copynumber: 4.0 Consensus size: 27
6890390 AAACATACAT
* * * *
6890400 CACATAGGGGTAAAACAGTCATCTTAA
1 CACATAAGGGCAAAACAGTCATTTTAC
* * * *
6890427 CATAAAAGGGAAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
6890454 CACATAAGGGCAAAACAGTCACTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * * *
6890481 CTCTTAAAGGCAAAATAGTCATTTTA
1 CACATAAGGGCAAAACAGTCATTTTA
6890507 TTAATTAAGA
Statistics
Matches: 63, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:6890648 original size:18 final size:17
Alignment explanation
Indices: 6890622--6890655 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6890612 CCATATTGCG
6890622 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
*
6890640 GCCCGTGTGGCCCACA
1 GCCCATGTGGCCCACA
6890656 AAGCCCAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.44, G:0.29, T:0.12
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:6894991 original size:36 final size:35
Alignment explanation
Indices: 6894945--6895013 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 35
6894935 CAAGTTTCAC
6894945 AAAATTTACAAT-TCAATCAC-TAAAATTTTAATTCT
1 AAAATTTACAATGT-AATC-CTTAAAATTTTAATTCT
*
6894980 AAAATTTTACAATGTAATCCTTAATATTTTAATT
1 AAAA-TTTACAATGTAATCCTTAAAATTTTAATT
6895014 TTTTACCATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
35 5 0.17
36 24 0.80
37 1 0.03
ACGTcount: A:0.43, C:0.12, G:0.01, T:0.43
Consensus pattern (35 bp):
AAAATTTACAATGTAATCCTTAAAATTTTAATTCT
Found at i:6899170 original size:43 final size:43
Alignment explanation
Indices: 6899098--6899204 Score: 142
Period size: 43 Copynumber: 2.5 Consensus size: 43
6899088 GTTTATCTAA
* * *
6899098 AAAAATGCCGTTAAAGGTCATGACCTTTAGCGGCGCTTCTCCC
1 AAAAACGCCGCTAAAGGTCATGACCTTTAGCGACGCTTCTCCC
* * *
6899141 ACAAACGCCGCTAAAGGTCATGACCTTTAGCGATGTTTCTCCC
1 AAAAACGCCGCTAAAGGTCATGACCTTTAGCGACGCTTCTCCC
**
6899184 AAAAACGTAGCTAAAGGTCAT
1 AAAAACGCCGCTAAAGGTCAT
6899205 AATTTAAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGGTCATGACCTTTAGCGACGCTTCTCCC
Found at i:6900312 original size:16 final size:16
Alignment explanation
Indices: 6900291--6900321 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6900281 CCTTACACCT
*
6900291 AAAGATTTTTTAAAGA
1 AAAGATTTTTCAAAGA
6900307 AAAGATTTTTCAAAG
1 AAAGATTTTTCAAAG
6900322 TATGATTCTT
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:0.48, C:0.03, G:0.13, T:0.35
Consensus pattern (16 bp):
AAAGATTTTTCAAAGA
Found at i:6903341 original size:179 final size:179
Alignment explanation
Indices: 6903020--6903869 Score: 1307
Period size: 179 Copynumber: 4.8 Consensus size: 179
6903010 CTCCAATTGC
* * ** *
6903020 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAAGCTAGTGGCTAAAATCTGCTCCATTGTTGACA
1 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGG-TAAAATCTGCTCCATTGCCGATA
* * *
6903085 CATGGAGATAAGATTCACCATTTTC---GATCTACTCCACTGCGACTTCAGGGAGATAAGATAC-
65 CATGGAGATAAGATTCACCATCTGCAAAGATCTACTCCACTGCAACTTCAGGGAGATAAGAT-CT
*
6903146 TCAATTTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCCA-TCTT
129 TCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACT-CATTCTT
* * * * *
6903197 CAACCTACTCTCTTGCTACCTTAAAGAGATAAGGCTGGTGGTAAAATCTACTCCATTACCGATAC
1 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATAC
* * *
6903262 ATGGAGATAAGATTCACCATCTGCGAAGATCTACTCCACTGGAACTTCAGGGAGAAAAGATCTTC
66 ATGGAGATAAGATTCACCATCTGCAAAGATCTACTCCACTGCAACTTCAGGGAGATAAGATCTTC
* *
6903327 AATCTTCAGTCTGCTTTCTTGCTACCTTAAAAAGATAAGACTCATTCTT
131 AATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCATTCTT
* *
6903376 CAACCTGCTCTCTTGCTGCCTCAAAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATAC
1 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATAC
* * *
6903441 ATGGAGATAAGATTCACCATCTGTAAAGATCTACTCGACTGCCACTTCAGGGAGATAAGATCTTC
66 ATGGAGATAAGATTCACCATCTGCAAAGATCTACTCCACTGCAACTTCAGGGAGATAAGATCTTC
6903506 AATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCATTCTT
131 AATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCATTCTT
*
6903555 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCTATTGCCGATAC
1 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATAC
* * * *
6903620 ATGAAGATAAGATTCACCATCTGTAAAGATCTACTCGACTGCCACTTCAGGGAGATAAGATCTTC
66 ATGGAGATAAGATTCACCATCTGCAAAGATCTACTCCACTGCAACTTCAGGGAGATAAGATCTTC
6903685 AATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCATTCTT
131 AATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCATTCTT
*
6903734 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTACCGATAC
1 CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATAC
* * * * *
6903799 ATGGAGATAAGATTCACCATCTGCGAAGATCTGCTTCATTGCAA-TCTCAGGGAGATAAGATCCT
66 ATGGAGATAAGATTCACCATCTGCAAAGATCTACTCCACTGCAACT-TCAGGGAGATAAGATCTT
6903863 CAATCTT
130 CAATCTT
6903870 TACCAATGCC
Statistics
Matches: 621, Mismatches: 46, Indels: 10
0.92 0.07 0.01
Matches are distributed among these distances:
176 41 0.07
177 36 0.06
178 4 0.01
179 540 0.87
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (179 bp):
CAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTAAAATCTGCTCCATTGCCGATAC
ATGGAGATAAGATTCACCATCTGCAAAGATCTACTCCACTGCAACTTCAGGGAGATAAGATCTTC
AATCTTCAGTCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCATTCTT
Found at i:6903563 original size:43 final size:45
Alignment explanation
Indices: 6903493--6903587 Score: 131
Period size: 43 Copynumber: 2.2 Consensus size: 45
6903483 CACTTCAGGG
** *
6903493 AGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAA
1 AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
* *
6903538 AGATAAGA-C-TCATTCTTCAACCTGCTCTCTTGCTACCTCAGAG
1 AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
6903581 AGATAAG
1 AGATAAG
6903588 GCTGGTGGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
43 36 0.80
44 1 0.02
45 8 0.18
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (45 bp):
AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
Found at i:6903742 original size:43 final size:45
Alignment explanation
Indices: 6903672--6903766 Score: 131
Period size: 43 Copynumber: 2.2 Consensus size: 45
6903662 CACTTCAGGG
** *
6903672 AGATAAGATCTTCAATCTTCAGTCTGCTTTCTTGCTACCTCAGAA
1 AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
* *
6903717 AGATAAGA-C-TCATTCTTCAACCTGCTCTCTTGCTACCTCAGAG
1 AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
6903760 AGATAAG
1 AGATAAG
6903767 GCTGGTGGTA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
43 36 0.80
44 1 0.02
45 8 0.18
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.32
Consensus pattern (45 bp):
AGATAAGATCTTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAA
Found at i:6905076 original size:53 final size:54
Alignment explanation
Indices: 6904993--6905152 Score: 209
Period size: 54 Copynumber: 2.9 Consensus size: 54
6904983 ATTTTCTCTT
6904993 TTTTCATTTTTATTATTGAGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGG-CCC
1 TTTTCATTTTTA-T-TTG-GTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGACCC
* * *
6905049 TTTTCATTTTTATTTGGTTTCAAAGCGCCCTTTACGAGTTTTCACTTTGGACCC
1 TTTTCATTTTTATTTGGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGACCC
* *
6905103 TTTT--TTTTTTTTTAAAGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGG
1 TTTTCATTTTTATTT--GGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGG
6905153 GCTTCCCTTG
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
52 8 0.09
53 31 0.33
54 41 0.44
55 1 0.01
56 12 0.13
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (54 bp):
TTTTCATTTTTATTTGGTCTCAAAGCGCCCTTTGCGGGTTTTCACTTTGGACCC
Found at i:6906608 original size:15 final size:15
Alignment explanation
Indices: 6906572--6906624 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
6906562 ACATAACATA
* *
6906572 TATATAAAAAAACAA
1 TATATAAAAAAATAT
*
6906587 TAAATAAAAAAATAT
1 TATATAAAAAAATAT
* *
6906602 TATATAATAAAATGT
1 TATATAAAAAAATAT
*
6906617 AATATAAA
1 TATATAAA
6906625 TATATAAGAA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (15 bp):
TATATAAAAAAATAT
Found at i:6906702 original size:11 final size:11
Alignment explanation
Indices: 6906602--6906703 Score: 59
Period size: 11 Copynumber: 8.8 Consensus size: 11
6906592 AAAAAAATAT
6906602 TATATAATAAA
1 TATATAATAAA
*
6906613 -ATGTAATATAAA
1 TATAT-A-ATAAA
*
6906625 TATATAAGAAA
1 TATATAATAAA
6906636 TATAATAGATATAA
1 TAT-ATA-ATA-AA
*
6906650 TATAAAATAACA
1 TATATAATAA-A
*
6906662 TGTA-AA-ACAA
1 TATATAATA-AA
6906672 TATATATATAAA
1 TATATA-ATAAA
6906684 TA-ATTAATAAA
1 TATA-TAATAAA
6906695 TATATAATA
1 TATATAATA
6906704 TATGTGAAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 26
0.68 0.07 0.25
Matches are distributed among these distances:
10 8 0.11
11 26 0.37
12 24 0.34
13 8 0.11
14 5 0.07
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (11 bp):
TATATAATAAA
Found at i:6908443 original size:83 final size:83
Alignment explanation
Indices: 6908288--6908539 Score: 344
Period size: 83 Copynumber: 3.0 Consensus size: 83
6908278 GTCGAATCAA
* * ** * * * * *
6908288 CTTGAATCCGTTTGAGAATGTTTGAGAGTTATATCTACCA-GTCCTCGATTTGTCCCTTGTAAGC
1 CTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTAGATTTGTTCCTTGTAAGC
6908352 ACAAGGATGCCAAACCAT
66 ACAAGGATGCCAAACCAT
* *
6908370 CTTGAGTTTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTAGATTTGTTCATTGTAAGC
1 CTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTAGATTTGTTCCTTGTAAGC
6908435 ACAAGGATGCCAAACCAT
66 ACAAGGATGCCAAACCAT
* *
6908453 CTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTGATTTGTTCCTTGTAAAC
1 CTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTAGATTTGTTCCTTGTAAGC
* * * *
6908518 AAAAGAATACCAAATCAT
66 ACAAGGATGCCAAACCAT
6908536 CTTG
1 CTTG
6908540 GATCTGCTTC
Statistics
Matches: 150, Mismatches: 19, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
82 32 0.21
83 118 0.79
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (83 bp):
CTTGAGTCTGTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTAGATTTGTTCCTTGTAAGC
ACAAGGATGCCAAACCAT
Found at i:6908674 original size:119 final size:119
Alignment explanation
Indices: 6908463--6908935 Score: 770
Period size: 119 Copynumber: 4.0 Consensus size: 119
6908453 CTTGAGTCTG
* * * * * *
6908463 TTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTTGATTTGTTCCTTGTAAACAAAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
*
6908528 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCCATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
6908582 TTTGAGAACGTCTGAGAG-CAAAATCTGCTATGTCTTCGATTTGTTTCTTGTAAACACAAGAATA
1 TTTGAGAACGTCTGAGAGTC-AAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATA
* *
6908646 CCAAACCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGTTATA
65 CCAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
6908701 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
6908766 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
* *
6908820 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCAATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* **
6908885 CAAATCATCTTGGATCTGCTTCAGCATAAATGTCTGAA-GTCTAGATCTGCT
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGT-TAGATCTGCT
6908936 GTCTTCAATT
Statistics
Matches: 331, Mismatches: 20, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
118 3 0.01
119 327 0.99
120 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (119 bp):
TTTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
Found at i:6920788 original size:15 final size:15
Alignment explanation
Indices: 6920770--6920816 Score: 53
Period size: 14 Copynumber: 3.1 Consensus size: 15
6920760 TGATATACAT
6920770 AACATATATATAAAA
1 AACATATATATAAAA
*
6920785 AACA-ATAAATAAAA
1 AACATATATATAAAA
6920799 AA-ATATTATATAATAA
1 AACATA-TATATAA-AA
6920815 AA
1 AA
6920817 TGTAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 1 0.04
14 12 0.44
15 10 0.37
16 4 0.15
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (15 bp):
AACATATATATAAAA
Found at i:6920817 original size:15 final size:14
Alignment explanation
Indices: 6920762--6920907 Score: 58
Period size: 15 Copynumber: 10.4 Consensus size: 14
6920752 GCGATACATG
*
6920762 ATATACATAACATAT
1 ATATA-ATAAAATAT
*
6920777 ATATAA-AAAACAAT
1 ATATAATAAAA-TAT
* *
6920791 AAATAAAAAAATATT
1 ATATAATAAAATA-T
*
6920806 ATATAATAAAATGT
1 ATATAATAAAATAT
6920820 A-AT-AT-AAATAT
1 ATATAATAAAATAT
* *
6920831 ATATGAAATATAATAG
1 ATAT--AATAAAATAT
*
6920847 ATATAATATAAAATAAC
1 ATAT-A-ATAAAAT-AT
*
6920864 ATGTAA-AACAATAT
1 ATATAATAA-AATAT
6920878 ATAT-AT-AAATA-
1 ATATAATAAAATAT
6920889 AT-TAATAAATATAT
1 ATATAATAAA-ATAT
6920903 ATATA
1 ATATA
6920908 TGTGAAAATA
Statistics
Matches: 99, Mismatches: 15, Indels: 34
0.67 0.10 0.23
Matches are distributed among these distances:
10 1 0.01
11 10 0.10
12 10 0.10
13 10 0.10
14 19 0.19
15 30 0.30
16 15 0.15
17 4 0.04
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (14 bp):
ATATAATAAAATAT
Found at i:6922605 original size:83 final size:83
Alignment explanation
Indices: 6922435--6922700 Score: 336
Period size: 83 Copynumber: 3.2 Consensus size: 83
6922425 CAATTTGTAG
* * * * * ** * * *
6922435 GGATGCCGAATCAACTTGAATCCGTTTGAGAATGTTTGAGAGTTATATCTACCA-GTCCTCGATT
1 GGATGCCAAACCATCTTGAGTCTGTTTGAGAAAATTTGAGAGTCATATCTGCAATGTCCTCGATT
*
6922499 TGTCCCTTGTAAGCACAA
66 TGTTCCTTGTAAGCACAA
* * * *
6922517 GGATGCCAAACCATCTTGAGTTTTTTTGAGAACATTTGAGAGTCATATCTGCAATGTCCTAGATT
1 GGATGCCAAACCATCTTGAGTCTGTTTGAGAAAATTTGAGAGTCATATCTGCAATGTCCTCGATT
6922582 TGTTCCTTGTAAGCACAA
66 TGTTCCTTGTAAGCACAA
*
6922600 GGATGCCAAACCATCTTGAGTCTGTTTGAGAAAATTTGAGAGTCATATTTGCAATGTCCTCGATT
1 GGATGCCAAACCATCTTGAGTCTGTTTGAGAAAATTTGAGAGTCATATCTGCAATGTCCTCGATT
* *
6922665 TGTTCCATGTAAACACAA
66 TGTTCCTTGTAAGCACAA
* * *
6922683 GAATACCAAATCATCTTG
1 GGATGCCAAACCATCTTG
6922701 GATCTACTTC
Statistics
Matches: 159, Mismatches: 24, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
82 42 0.26
83 117 0.74
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (83 bp):
GGATGCCAAACCATCTTGAGTCTGTTTGAGAAAATTTGAGAGTCATATCTGCAATGTCCTCGATT
TGTTCCTTGTAAGCACAA
Found at i:6922838 original size:119 final size:119
Alignment explanation
Indices: 6922624--6923075 Score: 643
Period size: 119 Copynumber: 3.8 Consensus size: 119
6922614 CTTGAGTCTG
* * * * * *
6922624 TTTGAGAAAATTTGAGAGTCATATTTGCAATGTCCTCGATTTGTTCCATGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * *
6922689 CAAATCATCTTGGATCTACTTCAGTATAAACATCTAAAGGTTAAATCTGCCATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTAAAGGTTAGATCTGCTATA
* * * * * *
6922743 TTAGAGAACATCTGAGAGCCAAATCTGCTATGTCTTTGATTTGTTTCTTGTAAATACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * *
6922808 CAAATCATCTTGGATCTGCTTGAGTATAAACATCTCAAGGTTAGATCTGTTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTAAAGGTTAGATCTGCTATA
*
6922862 TTTGAGAACATCTAAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* * *
6922927 CAAATTATCTTGGATCTGCTTCAGTAGAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTAAAGGTTAGATCTGCTATA
* * * * *
6922981 TTTGAGGACGTCTGAAAGTCAAATCTGCTATGTCCTCAATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
* *
6923046 CAAATCATCTTAGATCTGCTTCAGCATAAA
66 CAAATCATCTTGGATCTGCTTCAGTATAAA
6923076 TGTCTGAAGT
Statistics
Matches: 293, Mismatches: 40, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
119 293 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (119 bp):
TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTAAAGGTTAGATCTGCTATA
Found at i:6926625 original size:25 final size:24
Alignment explanation
Indices: 6926597--6926652 Score: 58
Period size: 27 Copynumber: 2.2 Consensus size: 24
6926587 AAGAACAATC
6926597 TTCTCAAGACCTCAATGTGTTCTTT
1 TTCTCAAGA-CTCAATGTGTTCTTT
**
6926622 TTCTGTTCGCGACTCAATGTGTTCTTT
1 TTC---TCAAGACTCAATGTGTTCTTT
6926649 TTCT
1 TTCT
6926653 GTTCGCGACT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
24 1 0.04
25 3 0.12
27 18 0.69
28 4 0.15
ACGTcount: A:0.14, C:0.23, G:0.14, T:0.48
Consensus pattern (24 bp):
TTCTCAAGACTCAATGTGTTCTTT
Found at i:6926638 original size:27 final size:27
Alignment explanation
Indices: 6926607--6926662 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
6926597 TTCTCAAGAC
6926607 CTCAATGTGTTCTTTTTCTGTTCGCGA
1 CTCAATGTGTTCTTTTTCTGTTCGCGA
6926634 CTCAATGTGTTCTTTTTCTGTTCGCGA
1 CTCAATGTGTTCTTTTTCTGTTCGCGA
6926661 CT
1 CT
6926663 TGGCAATCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (27 bp):
CTCAATGTGTTCTTTTTCTGTTCGCGA
Found at i:6931339 original size:13 final size:13
Alignment explanation
Indices: 6931323--6931347 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6931313 TAACATATAT
6931323 ATAAAAAAAATAA
1 ATAAAAAAAATAA
6931336 ATAAAAAAAATA
1 ATAAAAAAAATA
6931348 TTATATAATA
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (13 bp):
ATAAAAAAAATAA
Found at i:6931373 original size:16 final size:16
Alignment explanation
Indices: 6931306--6931402 Score: 57
Period size: 15 Copynumber: 6.4 Consensus size: 16
6931296 ACGATACATG
* *
6931306 ATATACATAACATAT-
1 ATATAAATAAAATATA
6931321 ATATAAA-AAAA-ATA
1 ATATAAATAAAATATA
* *
6931335 A-ATAAAAAAAATATT
1 ATATAAATAAAATATA
*
6931350 ATAT-AATAAAATGTA
1 ATATAAATAAAATATA
*
6931365 ATATAAATATATAAGA-A
1 ATATAAATA-A-AATATA
*
6931382 ATAT-AAT-AGATATA
1 ATATAAATAAAATATA
6931396 ATATAAA
1 ATATAAA
6931403 ATAACATGTA
Statistics
Matches: 63, Mismatches: 10, Indels: 18
0.69 0.11 0.20
Matches are distributed among these distances:
13 9 0.14
14 14 0.22
15 23 0.37
16 9 0.14
17 6 0.10
18 2 0.03
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (16 bp):
ATATAAATAAAATATA
Found at i:6931412 original size:48 final size:48
Alignment explanation
Indices: 6931330--6931443 Score: 115
Period size: 48 Copynumber: 2.4 Consensus size: 48
6931320 TATATAAAAA
* * * * * * *
6931330 AAATAAATAAAAAAAATATTATATAATAAAATGTAATATAA-ATATAT
1 AAATAATTAATAAATATAATATAAAATAAAATGTAAAACAATATATAT
* *
6931377 AAGA-AATATAATAGATATAATATAAAATAACATGTAAAACAATATATAT
1 AA-ATAAT-TAATAAATATAATATAAAATAAAATGTAAAACAATATATAT
6931426 AAATAATTAATAAATATA
1 AAATAATTAATAAATATA
6931444 TAATATATGT
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
47 4 0.08
48 38 0.72
49 11 0.21
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (48 bp):
AAATAATTAATAAATATAATATAAAATAAAATGTAAAACAATATATAT
Found at i:6935045 original size:21 final size:22
Alignment explanation
Indices: 6935017--6935065 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
6935007 TTTCAGAGAC
6935017 CATAAATTGT-AGCATTTAACA
1 CATAAATTGTCAGCATTTAACA
* *
6935038 CCTAAATTTTCAGCATTTAACA
1 CATAAATTGTCAGCATTTAACA
6935060 CATAAA
1 CATAAA
6935066 ATGGTTTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.33
Consensus pattern (22 bp):
CATAAATTGTCAGCATTTAACA
Found at i:6939206 original size:6 final size:6
Alignment explanation
Indices: 6939195--6939227 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
6939185 AAATGAGTAT
6939195 GTGGGA GTGGGA GTGGGA GTGGGA GTGGGA GTG
1 GTGGGA GTGGGA GTGGGA GTGGGA GTGGGA GTG
6939228 TGAATGAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.15, C:0.00, G:0.67, T:0.18
Consensus pattern (6 bp):
GTGGGA
Found at i:6940715 original size:7 final size:7
Alignment explanation
Indices: 6940703--6940844 Score: 81
Period size: 7 Copynumber: 19.9 Consensus size: 7
6940693 ACTAATTAAT
6940703 CTAAACC
1 CTAAACC
*
6940710 CTAAACT
1 CTAAACC
*
6940717 CTTAACC
1 CTAAACC
*
6940724 TCT-ATCC
1 -CTAAACC
* *
6940731 CAAAAACA
1 C-TAAACC
*
6940739 CTAAACA
1 CTAAACC
6940746 CTAAAACC
1 CT-AAACC
* *
6940754 TTAAACT
1 CTAAACC
6940761 CTAAACC
1 CTAAACC
* *
6940768 TTTAACC
1 CTAAACC
6940775 CTAAACC
1 CTAAACC
*
6940782 CTTACACC
1 C-TAAACC
* *
6940790 TTAAACT
1 CTAAACC
6940797 CT-AACC
1 CTAAACC
*
6940803 TTAAACC
1 CTAAACC
6940810 CTTAAACC
1 C-TAAACC
6940818 CTAAACC
1 CTAAACC
6940825 CTAAACC
1 CTAAACC
* *
6940832 ATAATCC
1 CTAAACC
6940839 CTAAAC
1 CTAAAC
6940845 GCATAATTCA
Statistics
Matches: 99, Mismatches: 29, Indels: 14
0.70 0.20 0.10
Matches are distributed among these distances:
6 5 0.05
7 72 0.73
8 22 0.22
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.23
Consensus pattern (7 bp):
CTAAACC
Found at i:6940779 original size:36 final size:34
Alignment explanation
Indices: 6940703--6940830 Score: 121
Period size: 36 Copynumber: 3.6 Consensus size: 34
6940693 ACTAATTAAT
* * ** *
6940703 CTAAACCCTAAACTCTTAACCTCTATCCCAAAAACA
1 CTAAACCCTAAAC-CTTAAACTCTA-ACCTTAAACC
* *
6940739 CTAAACACTAAAACCTTAAACTCTAAACCTTTAACC
1 CTAAACCCT-AAACCTTAAACTCT-AACCTTAAACC
*
6940775 CTAAACCCTTACACCTTAAACTCTAACCTTAAACC
1 CTAAACCC-TAAACCTTAAACTCTAACCTTAAACC
*
6940810 CTTAAACCCTAAACCCTAAAC
1 C-TAAACCCTAAACCTTAAAC
6940831 CATAATCCCT
Statistics
Matches: 76, Mismatches: 12, Indels: 9
0.78 0.12 0.09
Matches are distributed among these distances:
35 21 0.28
36 49 0.64
37 6 0.08
ACGTcount: A:0.41, C:0.35, G:0.00, T:0.23
Consensus pattern (34 bp):
CTAAACCCTAAACCTTAAACTCTAACCTTAAACC
Found at i:6940794 original size:15 final size:14
Alignment explanation
Indices: 6940746--6940831 Score: 75
Period size: 15 Copynumber: 6.0 Consensus size: 14
6940736 ACACTAAACA
* *
6940746 CTAAAACCTTAAACT
1 CTAAACCCTT-AACC
*
6940761 CTAAACCTTTAACC
1 CTAAACCCTTAACC
6940775 CTAAACCCTTACACC
1 CTAAACCCTTA-ACC
* *
6940790 TTAAACTC-TAACC
1 CTAAACCCTTAACC
*
6940803 TTAAACCCTTAAACC
1 CTAAACCCTT-AACC
*
6940818 CTAAACCCTAAACC
1 CTAAACCCTTAACC
6940832 ATAATCCCTA
Statistics
Matches: 59, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
13 10 0.17
14 20 0.34
15 29 0.49
ACGTcount: A:0.40, C:0.36, G:0.00, T:0.24
Consensus pattern (14 bp):
CTAAACCCTTAACC
Found at i:6940801 original size:28 final size:28
Alignment explanation
Indices: 6940746--6940828 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
6940736 ACACTAAACA
* * *
6940746 CTAAAACCTTAAACTCTAAACCTTTAACC
1 CTAAACCCTTAAACCCTAAACC-CTAACC
* * *
6940775 CTAAACCCTTACACCTTAAACTCTAACC
1 CTAAACCCTTAAACCCTAAACCCTAACC
*
6940803 TTAAACCCTTAAACCCTAAACCCTAA
1 CTAAACCCTTAAACCCTAAACCCTAA
6940829 ACCATAATCC
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
28 27 0.61
29 17 0.39
ACGTcount: A:0.40, C:0.35, G:0.00, T:0.25
Consensus pattern (28 bp):
CTAAACCCTTAAACCCTAAACCCTAACC
Found at i:6940851 original size:15 final size:14
Alignment explanation
Indices: 6940812--6940851 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
6940802 CTTAAACCCT
* *
6940812 TAAACCCTAAACCC
1 TAAACCATAATCCC
6940826 TAAACCATAATCCC
1 TAAACCATAATCCC
6940840 TAAACGCATAAT
1 TAAAC-CATAAT
6940852 TCATCATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.45, C:0.33, G:0.03, T:0.20
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:6940876 original size:25 final size:24
Alignment explanation
Indices: 6940848--6940905 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
6940838 CCTAAACGCA
6940848 TAATTCATCATAAACCTTCAAATAC
1 TAATTCATCATAAACCTT-AAATAC
* * *
6940873 TAATTAACTCCTAAACCTTAAATCC
1 TAATTCA-TCATAAACCTTAAATAC
*
6940898 TAAATCAT
1 TAATTCAT
6940906 ATATCTTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
24 1 0.04
25 16 0.59
26 10 0.37
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.33
Consensus pattern (24 bp):
TAATTCATCATAAACCTTAAATAC
Found at i:6941159 original size:41 final size:41
Alignment explanation
Indices: 6941100--6941254 Score: 220
Period size: 41 Copynumber: 3.8 Consensus size: 41
6941090 GTTATACGAC
* * *
6941100 TTTTAGCGGCGTTCTACCGAAAGCGCCGCTTATGCTTTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
**
6941141 TTTTAGCGGCGTTTTACCGAAAGCGCAACTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
**
6941182 TTTTAGCGGCGTTTTACCGAAAGCAACGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
** *
6941223 TTTTAGCGGCGTTTTACTAAAAACGCCGCTAA
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAA
6941255 AAACGCTACT
Statistics
Matches: 100, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 100 1.00
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
Found at i:6943636 original size:11 final size:11
Alignment explanation
Indices: 6943620--6943658 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
6943610 AAATCTTAAC
6943620 TTTTTTATATA
1 TTTTTTATATA
* *
6943631 TTTTTTAGATT
1 TTTTTTATATA
6943642 TTTTTTATA-A
1 TTTTTTATATA
6943652 TTTTTTA
1 TTTTTTA
6943659 AAAATATAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 7 0.29
11 17 0.71
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (11 bp):
TTTTTTATATA
Found at i:6943701 original size:27 final size:27
Alignment explanation
Indices: 6943671--6943726 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
6943661 AATATAAATT
*
6943671 TTGAAAATT-TTTTAAATATTTTGAAAA
1 TTGAAAATTATTTTAAA-ATTTTCAAAA
*
6943698 TTGAAAATTATTTTGAAATTTTCAAAA
1 TTGAAAATTATTTTAAAATTTTCAAAA
6943725 TT
1 TT
6943727 ATTTTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (27 bp):
TTGAAAATTATTTTAAAATTTTCAAAA
Found at i:6943739 original size:20 final size:20
Alignment explanation
Indices: 6943668--6943738 Score: 76
Period size: 19 Copynumber: 3.6 Consensus size: 20
6943658 AAAAATATAA
**
6943668 ATTTTGAAAATTTTTTAAA-T
1 ATTTTG-AAATTTTCAAAATT
* *
6943688 ATTTTGAAA-ATTGAAAATT
1 ATTTTGAAATTTTCAAAATT
6943707 ATTTTGAAATTTTCAAAATT
1 ATTTTGAAATTTTCAAAATT
6943727 ATTTT-AAATTTT
1 ATTTTGAAATTTT
6943739 TTTTATATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
18 5 0.11
19 20 0.45
20 19 0.43
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (20 bp):
ATTTTGAAATTTTCAAAATT
Found at i:6946516 original size:13 final size:13
Alignment explanation
Indices: 6946498--6946525 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
6946488 AATTTTTATT
6946498 AGGGGTTAATTTG
1 AGGGGTTAATTTG
6946511 AGGGGTTAATTTG
1 AGGGGTTAATTTG
6946524 AG
1 AG
6946526 TTAAAGTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.00, G:0.39, T:0.36
Consensus pattern (13 bp):
AGGGGTTAATTTG
Found at i:6949065 original size:22 final size:22
Alignment explanation
Indices: 6949035--6949092 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
6949025 TATGCCTGTC
*
6949035 CACATGGGCATGTGAAAGGTTG
1 CACATGGGCGTGTGAAAGGTTG
*
6949057 CACACGGGCGTGTGAAAGGTTG
1 CACATGGGCGTGTGAAAGGTTG
6949079 CACATGGGCGTGTG
1 CACATGGGCGTGTG
6949093 GAAACTGGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.22, C:0.17, G:0.40, T:0.21
Consensus pattern (22 bp):
CACATGGGCGTGTGAAAGGTTG
Found at i:6951763 original size:23 final size:23
Alignment explanation
Indices: 6951733--6951779 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
6951723 AAGGTAAGTA
*
6951733 AACCATCGAATTCGTATGAACTT
1 AACCATCGAATTCATATGAACTT
6951756 AACCATCGAATTCATATGAACTT
1 AACCATCGAATTCATATGAACTT
6951779 A
1 A
6951780 CTAAGTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (23 bp):
AACCATCGAATTCATATGAACTT
Found at i:6959571 original size:16 final size:18
Alignment explanation
Indices: 6959534--6959573 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
6959524 AATGAATACA
6959534 TGTTGTGGAAAGCATATG
1 TGTTGTGGAAAGCATATG
6959552 TGTT-TGGAAA-CATGAT-
1 TGTTGTGGAAAGCAT-ATG
6959568 TGTTGT
1 TGTTGT
6959574 TGAGCCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 7 0.35
17 9 0.45
18 4 0.20
ACGTcount: A:0.25, C:0.05, G:0.30, T:0.40
Consensus pattern (18 bp):
TGTTGTGGAAAGCATATG
Found at i:6960876 original size:20 final size:21
Alignment explanation
Indices: 6960827--6960876 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
6960817 TAATTTTAGA
6960827 ATTTAT-TTTCATTTATCTTT
1 ATTTATCTTTCATTTATCTTT
* * *
6960847 AATTACCTTT-ATTTATTTTT
1 ATTTATCTTTCATTTATCTTT
6960867 ATTTATCTTT
1 ATTTATCTTT
6960877 TAGAATAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 21 0.88
21 3 0.12
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.68
Consensus pattern (21 bp):
ATTTATCTTTCATTTATCTTT
Found at i:6961628 original size:17 final size:18
Alignment explanation
Indices: 6961596--6961629 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6961586 TATTCTTCAT
*
6961596 TTTAATTTTTGCAATTTA
1 TTTAATTTTCGCAATTTA
6961614 TTTAA-TTTCGCAATTT
1 TTTAATTTTCGCAATTT
6961630 CAGTTCAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (18 bp):
TTTAATTTTCGCAATTTA
Found at i:6967249 original size:11 final size:11
Alignment explanation
Indices: 6967233--6967262 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
6967223 ACAACCCAAT
6967233 TTTTATTTTTA
1 TTTTATTTTTA
6967244 TTTTATTTTTA
1 TTTTATTTTTA
6967255 -TTTATTTT
1 TTTTATTTT
6967263 ATCCTATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.42
11 11 0.58
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:6967272 original size:17 final size:15
Alignment explanation
Indices: 6967235--6967289 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
6967225 AACCCAATTT
6967235 TTATT-TTTATTTTA
1 TTATTATTTATTTTA
*
6967249 TTTTTATTTATTTTA
1 TTATTATTTATTTTA
6967264 TCCTATTATTT-TATTTA
1 T--TATTATTTAT-TTTA
6967281 TTATT-TTTA
1 TTATTATTTA
6967290 GATATTAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
14 7 0.21
15 14 0.41
16 1 0.03
17 12 0.35
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (15 bp):
TTATTATTTATTTTA
Found at i:6967392 original size:23 final size:22
Alignment explanation
Indices: 6967361--6967404 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
6967351 AAAGACAAAA
*
6967361 AACCTGCAGCCAATTAGCCCAT
1 AACCTGCAGCCAAATAGCCCAT
6967383 AACCTTGCAGCCAAATAGCCCA
1 AACC-TGCAGCCAAATAGCCCA
6967405 CTCAAGCCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.34, C:0.36, G:0.14, T:0.16
Consensus pattern (22 bp):
AACCTGCAGCCAAATAGCCCAT
Found at i:6967659 original size:20 final size:20
Alignment explanation
Indices: 6967634--6967673 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6967624 TTTTATCTAC
*
6967634 TGTTGTTGCTGCTATTTTTG
1 TGTTGTTGATGCTATTTTTG
*
6967654 TGTTGTTGATGCTGTTTTTG
1 TGTTGTTGATGCTATTTTTG
6967674 CTTTATAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.05, C:0.07, G:0.28, T:0.60
Consensus pattern (20 bp):
TGTTGTTGATGCTATTTTTG
Found at i:6967956 original size:6 final size:6
Alignment explanation
Indices: 6967945--6967978 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
6967935 AGACAACCCA
6967945 ATTTTT ATTTTT ATTTTT -TATTTT ATTTTT ATTT
1 ATTTTT ATTTTT ATTTTT AT-TTTT ATTTTT ATTT
6967979 ATTTTATCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 1 0.04
6 24 0.92
7 1 0.04
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
ATTTTT
Found at i:6967964 original size:13 final size:13
Alignment explanation
Indices: 6967946--6968010 Score: 53
Period size: 13 Copynumber: 4.9 Consensus size: 13
6967936 GACAACCCAA
6967946 TTTTTATTTTTAT
1 TTTTTATTTTTAT
6967959 TTTTTA-TTTTAT
1 TTTTTATTTTTAT
*
6967971 TTTTATTTATTTTAT
1 TTTT-TAT-TTTTAT
* *
6967986 CCTATTA-TTTTAT
1 -TTTTTATTTTTAT
*
6967999 TTATTATTTTTA
1 TTTTTATTTTTA
6968011 GATATTAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
12 15 0.36
13 18 0.43
15 7 0.17
16 2 0.05
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTATTTTTAT
Found at i:6968005 original size:12 final size:12
Alignment explanation
Indices: 6967953--6968008 Score: 58
Period size: 12 Copynumber: 4.3 Consensus size: 12
6967943 CAATTTTTAT
*
6967953 TTTTATTTTTTA
1 TTTTATTTATTA
6967965 TTTTATTTTTATTTA
1 TTTTA--TTTA-TTA
*
6967980 TTTTATCCTATTA
1 TTTTAT-TTATTA
6967993 TTTTATTTATTA
1 TTTTATTTATTA
6968005 TTTT
1 TTTT
6968009 TAGATATTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
12 14 0.38
13 10 0.27
14 5 0.14
15 8 0.22
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTATTTATTA
Found at i:6968113 original size:23 final size:22
Alignment explanation
Indices: 6968082--6968125 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
6968072 AAATATAAAA
6968082 AACCTGCAGCC-AATCAGCCCAT
1 AACCTGCAGCCAAAT-AGCCCAT
6968104 AACCTTGCAGCCAAATAGCCCA
1 AACC-TGCAGCCAAATAGCCCA
6968126 CTCAAGCCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 4 0.20
23 13 0.65
24 3 0.15
ACGTcount: A:0.34, C:0.39, G:0.14, T:0.14
Consensus pattern (22 bp):
AACCTGCAGCCAAATAGCCCAT
Found at i:6969725 original size:10 final size:10
Alignment explanation
Indices: 6969710--6969759 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
6969700 TAATTTTAGG
6969710 ATTTAT-TTT
1 ATTTATCTTT
6969719 CATTTATCTTT
1 -ATTTATCTTT
*
6969730 AATTATCTTT
1 ATTTATCTTT
6969740 ATTTAT-TTGT
1 ATTTATCTT-T
*
6969750 ATTTACCTTT
1 ATTTATCTTT
6969760 TAGAATATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 2 0.06
10 27 0.79
11 5 0.15
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.66
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:6973275 original size:27 final size:26
Alignment explanation
Indices: 6973222--6973280 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
6973212 TTTTAACCAC
*
6973222 CACTTTTTACATTTTTACAAATTAAT
1 CACTTTTTACATTTTTACAAATAAAT
* *
6973248 CCCTTTTTGACATTTTTGTCAAA-AAAT
1 CACTTTTT-ACATTTTT-ACAAATAAAT
6973275 CACTTT
1 CACTTT
6973281 ACAAAACTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
26 7 0.26
27 16 0.59
28 4 0.15
ACGTcount: A:0.31, C:0.19, G:0.03, T:0.47
Consensus pattern (26 bp):
CACTTTTTACATTTTTACAAATAAAT
Found at i:6982373 original size:23 final size:22
Alignment explanation
Indices: 6982317--6982382 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 22
6982307 ATAAACATAA
*
6982317 AAAATTAAAAATAATAAT-ATT
1 AAAATTAAAAATGATAATAATT
6982338 AACAACTTAAAAATGATAATAATT
1 AA-AA-TTAAAAATGATAATAATT
6982362 AAAATTAAAAAATG-TAATAAT
1 AAAATT-AAAAATGATAATAAT
6982383 ATTTTCTTAC
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
21 2 0.05
22 11 0.28
23 22 0.55
24 5 0.12
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (22 bp):
AAAATTAAAAATGATAATAATT
Found at i:6985544 original size:36 final size:36
Alignment explanation
Indices: 6985497--6985570 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
6985487 TTGAAAGTTG
6985497 TTGAAAATGCTTTATCAAAGGTGGTCAGAATTTTCC
1 TTGAAAATGCTTTATCAAAGGTGGTCAGAATTTTCC
6985533 TTGAAAATGCTTTATCAAAGGTGGTCAGAATTTTCC
1 TTGAAAATGCTTTATCAAAGGTGGTCAGAATTTTCC
6985569 TT
1 TT
6985571 TAAATGTGAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.38
Consensus pattern (36 bp):
TTGAAAATGCTTTATCAAAGGTGGTCAGAATTTTCC
Found at i:6989533 original size:15 final size:15
Alignment explanation
Indices: 6989513--6989543 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
6989503 CCAACCTTCA
6989513 AATTTTACCTCAATT
1 AATTTTACCTCAATT
6989528 AATTTTACCTCAATT
1 AATTTTACCTCAATT
6989543 A
1 A
6989544 TACATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.45
Consensus pattern (15 bp):
AATTTTACCTCAATT
Found at i:6993275 original size:92 final size:92
Alignment explanation
Indices: 6993139--6993332 Score: 286
Period size: 92 Copynumber: 2.1 Consensus size: 92
6993129 TTGATTTTAG
* *
6993139 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATAATTA
1 TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTA-AATTA
*
6993203 TAT-TAAT-ATTAATTATTTTAAATTGTA
65 TATGTAATAATT-ATTATTTTAAATTATA
* *
6993230 TAAATTCATATAAGAAAATTTTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTA
1 TAAATTCATATAAGAAAA-TTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTA
6993295 TATGTAATAATTATTATTTTAAATTATA
65 TATGTAATAATTATTATTTTAAATTATA
*
6993323 CAAATTCATA
1 TAAATTCATA
6993333 AACTATAATC
Statistics
Matches: 93, Mismatches: 6, Indels: 6
0.89 0.06 0.06
Matches are distributed among these distances:
91 17 0.18
92 43 0.46
93 30 0.32
94 3 0.03
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (92 bp):
TAAATTCATATAAGAAAATTTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTAT
ATGTAATAATTATTATTTTAAATTATA
Found at i:6993380 original size:48 final size:52
Alignment explanation
Indices: 6993310--6993408 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 52
6993300 AATAATTATT
6993310 ATTTTAAATTATACAAATTCATA-AACT-A-T-AATCATATTAGTTATAATA
1 ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
* * **
6993358 ATTTTAAATTTTATTAAA-TCATATATTTAATTAAATCATATTAGTTATAAT
1 ATTTTAAATTATA-CAAATTCATATAACTAATTAAATCATATTAGTTATAAT
6993409 CATATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
48 17 0.40
49 5 0.12
50 1 0.02
51 1 0.02
52 18 0.43
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (52 bp):
ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
Found at i:6993390 original size:17 final size:17
Alignment explanation
Indices: 6993365--6993398 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6993355 ATAATTTTAA
*
6993365 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
6993382 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
6993399 TAGTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Done.