Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 37 of 222
Found at i:11026084 original size:132 final size:132
Alignment explanation
Indices: 11025958--11026447 Score: 673
Period size: 132 Copynumber: 3.7 Consensus size: 132
11025948 TTCAATTTGC
* *
11025958 TCCACTACTGCTTAGGGGGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGAAGGT
1 TCCACTACTGCTTAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGT
*
11026023 AAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATATTCAATCT
66 AAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCT
11026088 AT
131 AT
* * * * * *
11026090 TCCACTACTGCCTAGGGATATAGAATTTCTGGCTTGAATGTACTCCACTGTAACTACAGTGAGGT
1 TCCACTACTGCTTAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGT
* * *
11026155 AAAAT-TCGCCATCTTCGATCTGCTCCACTACTGCTTAGGAAGATAATATCTGTAATCCTCAATC
66 AAAATCT-GCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATC
11026219 TAT
130 TAT
* *
11026222 TCCACTGCTGCTTAGGGAGATAGAATTTA-TGGCTTCAATATACTCCACTGTAACCACAGGGAGG
1 TCCACTACTGCTTAGGGAGATAGAA-TTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGG
* * * * *
11026286 TAAAACCCT-CCATCTTCGATCTGCTCTACGACTGTTTAGGGAGATAAGATCTGAAATCTTCAAT
65 TAAAA-TCTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
11026350 CTAT
129 CTAT
* ** * * *
11026354 TCCACTGCCAAC-CAGGGAGATAGAATTACTAGCTTCAATGTACTCCACTGTAATCACAGGGAGG
1 TCCACT-ACTGCTTAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGG
* *
11026418 TAAAATTTGTCATCTTCGATCTGCTCCACT
65 TAAAATCTGCCATCTTCGATCTGCTCCACT
11026448 GTCGATACAG
Statistics
Matches: 311, Mismatches: 40, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
131 5 0.02
132 301 0.97
133 4 0.01
134 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (132 bp):
TCCACTACTGCTTAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCACAGGGAGGT
AAAATCTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCT
AT
Found at i:11026528 original size:88 final size:88
Alignment explanation
Indices: 11026430--11026670 Score: 356
Period size: 88 Copynumber: 2.7 Consensus size: 88
11026420 AAATTTGTCA
* * * * * * * *
11026430 TCTTCGATCTGCTCCACTGTCGATACAGGAGGGCAAGATCTACTATTTTCAACATGATCCACTAC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
11026495 AACCGAGGGAGGCAAGGCTTGTG
66 AACCGAGGGAGGCAAGGCTTGTG
* * *
11026518 TCTTCAATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCTATTAC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
*
11026583 AACCGATGGAGGCAAGGCTTGTG
66 AACCGAGGGAGGCAAGGCTTGTG
* *
11026606 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAATATTTGCTATCTTCAACCTGCTCCACTAC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
11026671 TGCTCAGAGA
Statistics
Matches: 136, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 136 1.00
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (88 bp):
TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTAC
AACCGAGGGAGGCAAGGCTTGTG
Found at i:11026552 original size:44 final size:44
Alignment explanation
Indices: 11026504--11026641 Score: 124
Period size: 44 Copynumber: 3.1 Consensus size: 44
11026494 CAACCGAGGG
11026504 AGGCAAGGCTTGTGTCTTCAATCTGCTTCGCTGTCGATGCAGGA
1 AGGCAAGGCTTGTGTCTTCAATCTGCTTCGCTGTCGATGCAGGA
* * * ** **
11026548 AGGCAA-GATCTGCTATCTTCAACCTGC-TCTAT-TAC-AACCGATGG-
1 AGGCAAGGCT-TG-TGTCTTCAATCTGCTTCGCTGT-CGATGC-A-GGA
*
11026592 AGGCAAGGCTTGTGTCTTCGATCTGCTTCGCTGTCGATGCAGGA
1 AGGCAAGGCTTGTGTCTTCAATCTGCTTCGCTGTCGATGCAGGA
11026636 AGGCAA
1 AGGCAA
11026642 TATTTGCTAT
Statistics
Matches: 69, Mismatches: 15, Indels: 20
0.66 0.14 0.19
Matches are distributed among these distances:
43 18 0.26
44 32 0.46
45 19 0.28
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.28
Consensus pattern (44 bp):
AGGCAAGGCTTGTGTCTTCAATCTGCTTCGCTGTCGATGCAGGA
Found at i:11026569 original size:45 final size:45
Alignment explanation
Indices: 11026518--11026663 Score: 115
Period size: 45 Copynumber: 3.3 Consensus size: 45
11026508 AAGGCTTGTG
*
11026518 TCTTCAATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTA
1 TCTTCAACCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTA
** ** * *
11026563 TCTTCAACCTGC-TCTAT-TAC-AACCGATGG-AGGCAAG-GCTTG-TG
1 TCTTCAACCTGCTTCGCTGT-CGATGC-A-GGAAGGCAAGATC-TGCTA
* * * *
11026606 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAATATTTGCTA
1 TCTTCAACCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTA
11026651 TCTTCAACCTGCT
1 TCTTCAACCTGCT
11026664 CCACTACTGC
Statistics
Matches: 72, Mismatches: 19, Indels: 20
0.65 0.17 0.18
Matches are distributed among these distances:
43 17 0.24
44 27 0.38
45 28 0.39
ACGTcount: A:0.21, C:0.25, G:0.23, T:0.31
Consensus pattern (45 bp):
TCTTCAACCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTA
Found at i:11027997 original size:18 final size:17
Alignment explanation
Indices: 11027971--11028015 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
11027961 CCTCTCATTC
11027971 TTTTTTTTTTCTTCTTT
1 TTTTTTTTTTCTTCTTT
*
11027988 TTTTTCTTTTTTTTCTTT
1 TTTTT-TTTTTCTTCTTT
*
11028006 TTTGTTTTTT
1 TTTTTTTTTT
11028016 GAATCTAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.00, C:0.09, G:0.02, T:0.89
Consensus pattern (17 bp):
TTTTTTTTTTCTTCTTT
Found at i:11027999 original size:21 final size:22
Alignment explanation
Indices: 11027973--11028014 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
11027963 TCTCATTCTT
11027973 TTTTTTTTCTTCTTT-TTTTTC
1 TTTTTTTTCTTCTTTGTTTTTC
*
11027994 TTTTTTTTCTTTTTTGTTTTT
1 TTTTTTTTCTTCTTTGTTTTT
11028015 TGAATCTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.00, C:0.10, G:0.02, T:0.88
Consensus pattern (22 bp):
TTTTTTTTCTTCTTTGTTTTTC
Found at i:11028015 original size:9 final size:9
Alignment explanation
Indices: 11027971--11028008 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
11027961 CCTCTCATTC
11027971 TTTTT-TTT
1 TTTTTCTTT
*
11027979 TTCTTCTTT
1 TTTTTCTTT
11027988 TTTTTCTTT
1 TTTTTCTTT
11027997 TTTTTCTTT
1 TTTTTCTTT
11028006 TTT
1 TTT
11028009 GTTTTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
8 4 0.15
9 23 0.85
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:11035069 original size:27 final size:27
Alignment explanation
Indices: 11034998--11035069 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
11034988 TTGAGAGACC
*
11034998 TAGCACAAGCATTCATAAGGCAATATT
1 TAGCACAAGCATTCATGAGGCAATATT
* *
11035025 TAGCACAAACATTCATGAGGCACTATT
1 TAGCACAAGCATTCATGAGGCAATATT
* *
11035052 TAGCATAAGCATTGATGA
1 TAGCACAAGCATTCATGA
11035070 AACTTATGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.39, C:0.18, G:0.17, T:0.26
Consensus pattern (27 bp):
TAGCACAAGCATTCATGAGGCAATATT
Found at i:11037660 original size:16 final size:18
Alignment explanation
Indices: 11037631--11037663 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
11037621 GTTCAAATCT
11037631 ATGATAAAATCGTGAAAC
1 ATGATAAAATCGTGAAAC
11037649 ATGA-AAAA-CGTGAAA
1 ATGATAAAATCGTGAAA
11037664 TGGTAAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.55, C:0.09, G:0.18, T:0.18
Consensus pattern (18 bp):
ATGATAAAATCGTGAAAC
Found at i:11038757 original size:21 final size:20
Alignment explanation
Indices: 11038732--11038772 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
11038722 ATTAAAATAT
* *
11038732 TATAATAATATAATAATTTTA
1 TATAAAAATAT-ATAAATTTA
11038753 TATAAAAATATATAAATTTA
1 TATAAAAATATATAAATTTA
11038773 AAACCATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TATAAAAATATATAAATTTA
Found at i:11038960 original size:18 final size:18
Alignment explanation
Indices: 11038939--11038973 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11038929 TTGTTAAAAA
*
11038939 TATAGATTTTTAAATTTT
1 TATACATTTTTAAATTTT
*
11038957 TATACATTTTTTAATTT
1 TATACATTTTTAAATTT
11038974 CTAAAATTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (18 bp):
TATACATTTTTAAATTTT
Found at i:11038967 original size:19 final size:19
Alignment explanation
Indices: 11038945--11039021 Score: 70
Period size: 19 Copynumber: 4.1 Consensus size: 19
11038935 AAAATATAGA
*
11038945 TTTTTAAATTTTTATACAT
1 TTTTTAAATTTTTATAAAT
*
11038964 TTTTT-AATTTCTA-AAAT
1 TTTTTAAATTTTTATAAAT
11038981 TATTTTAAATTATTT-TAAAT
1 T-TTTTAAATT-TTTATAAAT
* * *
11039001 TATTTCAATTTTTTTAAAT
1 TTTTTAAATTTTTATAAAT
11039020 TT
1 TT
11039022 ATTTCCAAAC
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
17 4 0.09
18 14 0.30
19 22 0.47
20 7 0.15
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTTAAATTTTTATAAAT
Found at i:11038992 original size:10 final size:10
Alignment explanation
Indices: 11038977--11039025 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
11038967 TTAATTTCTA
11038977 AAATTATTTT
1 AAATTATTTT
11038987 AAATTATTTT
1 AAATTATTTT
11038997 AAATTA-TTT
1 AAATTATTTT
* *
11039006 CAATTTTTTT
1 AAATTATTTT
11039016 AAATTTATTT
1 AAA-TTATTT
11039026 CCAAACACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 7 0.21
10 21 0.64
11 5 0.15
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (10 bp):
AAATTATTTT
Found at i:11045073 original size:18 final size:18
Alignment explanation
Indices: 11045039--11045085 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
11045029 ACAAATTGAA
*
11045039 TTAA-ATTTTTAATATTTT
1 TTAATATTTATAATA-TTT
11045057 TTAATATTTATAA-ATTT
1 TTAATATTTATAATATTT
11045074 TTAATGATTTAT
1 TTAAT-ATTTAT
11045086 TTAATCGAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 8 0.31
18 11 0.42
19 7 0.27
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
TTAATATTTATAATATTT
Found at i:11047642 original size:348 final size:346
Alignment explanation
Indices: 11046998--11047687 Score: 1141
Period size: 348 Copynumber: 2.0 Consensus size: 346
11046988 TCTAAGGCAG
* *
11046998 CATTTTGAGAAGTGGGCACTTCCTTATTTACCTTGAAAGCAATATTTTTATCACATTTTCATTTG
1 CATTCTGAGAAGTGGGCACTTCCTTATTTACCTTGAAAGCAATATGTTTATCACATTTTCATTTG
*
11047063 CTATGCTTTGCTTTATCTAAATTCATCTCAAAGGTTTGTAAAAAACCAATTAGCTCATCTATAGC
66 CTATGCTTTGCTTTATCTAAATTCATCTCAAAGGTTTGTAAAAAACCAATGAGCTCATCTATAGC
*
11047128 CAATTGTGAAGATTTTCGACTTCCTCAATAGCAATAACCTCGATGGAGAACCTCTAAAGGAGAGA
131 CAATTGTCAAGATTTTCGACTTCCTCAATAGCAATAACCTCGATGGAGAACCTCTAAAGGAGAGA
*
11047193 TCTTAGCACTTTTCTCACAAACTTAACATTCAAATACTCCTCTCCCAATGCAAAAGTTTGGTTTG
196 TCTTAGCACTTTTCTCACAAACTTAACATTCAAATACTCCTCTCCCAATGCAAAAGTCTGGTTTG
****
11047258 AAAAATCACATAATTTGGTGTTAAAACTCCCCAATTATCTCTGATTCTTACATTCTCAAACTTTC
261 AAAAATCACATAATTTAACATTAAAACTCCCCAATTATCTCTGATTCTTACATTCTCAAACTTTC
*
11047323 AAACTTAGAAGTCAGCATTTA
326 AAACTTAGAAGCCAGCATTTA
11047344 CATTCTGAGAAGTGGGCACTT-CTTCATTTA-CTTGGAAAGCAATATGTTTATCACATTTTCATT
1 CATTCTGAGAAGTGGGCACTTCCTT-ATTTACCTT-GAAAGCAATATGTTTATCACATTTTCATT
* * * *
11047407 TGCTATGCTTTGCTTTTGTCTAAATTTATCTCAAAGGTTTGTAAAGAACCAGTGAGCTCATCTAT
64 TGCTATGCTTTGC-TTTATCTAAATTCATCTCAAAGGTTTGTAAAAAACCAATGAGCTCATCTAT
* * *
11047472 AGCTAATTGCTCAAGATTTTCGACTTCTTCAATAGCAATAACCTCGATGGAGAACCTCTAAGGGA
128 AGCCAATTG-TCAAGATTTTCGACTTCCTCAATAGCAATAACCTCGATGGAGAACCTCTAAAGGA
*
11047537 GAGATCTTAGCACTTTTCTCACAAACTTAACATTCAAATACTCCTCTCCTAATGCAAAAGTCTGG
192 GAGATCTTAGCACTTTTCTCACAAACTTAACATTCAAATACTCCTCTCCCAATGCAAAAGTCTGG
* * *
11047602 TTTGACAAATCACATAATTTAACATTAAAACTCTCCAATTATCTCTTATTCTTACATTCTCAAAC
257 TTTGAAAAATCACATAATTTAACATTAAAACTCCCCAATTATCTCTGATTCTTACATTCTCAAAC
11047667 TTTCAAACTTAGAAGCCAGCA
322 TTTCAAACTTAGAAGCCAGCA
11047688 ATTATATTTT
Statistics
Matches: 319, Mismatches: 21, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
345 6 0.02
346 66 0.21
347 54 0.17
348 193 0.61
ACGTcount: A:0.32, C:0.21, G:0.12, T:0.35
Consensus pattern (346 bp):
CATTCTGAGAAGTGGGCACTTCCTTATTTACCTTGAAAGCAATATGTTTATCACATTTTCATTTG
CTATGCTTTGCTTTATCTAAATTCATCTCAAAGGTTTGTAAAAAACCAATGAGCTCATCTATAGC
CAATTGTCAAGATTTTCGACTTCCTCAATAGCAATAACCTCGATGGAGAACCTCTAAAGGAGAGA
TCTTAGCACTTTTCTCACAAACTTAACATTCAAATACTCCTCTCCCAATGCAAAAGTCTGGTTTG
AAAAATCACATAATTTAACATTAAAACTCCCCAATTATCTCTGATTCTTACATTCTCAAACTTTC
AAACTTAGAAGCCAGCATTTA
Found at i:11049382 original size:42 final size:42
Alignment explanation
Indices: 11049335--11049478 Score: 112
Period size: 42 Copynumber: 3.5 Consensus size: 42
11049325 CGAAGGCTAC
* *
11049335 ACAGAAGCACATAAGTGCTAAACGAAAACCCGTAAGGGTTGA
1 ACAGAAGCACATAAGAGCTAAACGAAAACCCATAAGGGTTGA
* * * *
11049377 ACAGAAGCTCATAGGAGCTGAACGGAAACCCATAAGGGTT-A
1 ACAGAAGCACATAAGAGCTAAACGAAAACCCATAAGGGTTGA
* * * * * * * *
11049418 ATCTGAATCTCAGAAGAGCTAAATG-AAACCTATTAGGGTTAA
1 A-CAGAAGCACATAAGAGCTAAACGAAAACCCATAAGGGTTGA
* * *
11049460 ACTGAAGCTCAAAAGAGCT
1 ACAGAAGCACATAAGAGCT
11049479 GAACTGGGAC
Statistics
Matches: 84, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
41 31 0.37
42 53 0.63
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (42 bp):
ACAGAAGCACATAAGAGCTAAACGAAAACCCATAAGGGTTGA
Found at i:11049458 original size:41 final size:41
Alignment explanation
Indices: 11049351--11049501 Score: 122
Period size: 42 Copynumber: 3.6 Consensus size: 41
11049341 GCACATAAGT
* * * * * *
11049351 GCTAAACGAAAACCCGTAAGGGTTGAACAGAAGCTCATAGGA
1 GCTAAATG-AAACCCATAAGGGTTAAACTGAAGCTCAAAAGA
** * * *
11049393 GCTGAACGGAAACCCATAAGGGTTAATCTGAATCTCAGAAGA
1 GCT-AAATGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGA
* *
11049435 GCTAAATGAAACCTATTAGGGTTAAACTGAAGCTCAAAAGA
1 GCTAAATGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGA
* ** *
11049476 GCTGAACTGGGACCCAGAAGGGTTAA
1 GCT-AAATGAAACCCATAAGGGTTAA
11049502 TCTAAAACTC
Statistics
Matches: 85, Mismatches: 22, Indels: 4
0.77 0.20 0.04
Matches are distributed among these distances:
41 34 0.40
42 48 0.56
43 3 0.04
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (41 bp):
GCTAAATGAAACCCATAAGGGTTAAACTGAAGCTCAAAAGA
Found at i:11049499 original size:83 final size:83
Alignment explanation
Indices: 11049369--11049527 Score: 203
Period size: 83 Copynumber: 1.9 Consensus size: 83
11049359 AAAACCCGTA
* * * * * *
11049369 AGGGTTGAACAGAAGCTCATAGGAGCTGAACGGAAACCCATAAGGGTTAATCTGAATCTCAGAAG
1 AGGGTTAAACAGAAGCTCAAAAGAGCTGAACGGAAACCCAGAAGGGTTAATCTAAAACTCAGAAG
11049434 AGCTAAATGAAACCTATT
66 AGCTAAATGAAACCTATT
* * * *
11049452 AGGGTTAAACTGAAGCTCAAAAGAGCTGAACTGG-GACCCAGAAGGGTTAATCTAAAACTCATAT
1 AGGGTTAAACAGAAGCTCAAAAGAGCTGAAC-GGAAACCCAGAAGGGTTAATCTAAAACTCAGAA
*
11049516 GAGTTAAATGAA
65 GAGCTAAATGAA
11049528 GCTTATGACA
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
83 62 0.97
84 2 0.03
ACGTcount: A:0.40, C:0.16, G:0.24, T:0.21
Consensus pattern (83 bp):
AGGGTTAAACAGAAGCTCAAAAGAGCTGAACGGAAACCCAGAAGGGTTAATCTAAAACTCAGAAG
AGCTAAATGAAACCTATT
Found at i:11049544 original size:83 final size:83
Alignment explanation
Indices: 11049380--11049544 Score: 179
Period size: 83 Copynumber: 2.0 Consensus size: 83
11049370 GGGTTGAACA
* * * * *
11049380 GAAGCTCATAGGAGCTGAACGGAAACCCATAAGGGTTAATCTGAATCTCAGAAGAGCTAAATGAA
1 GAAGCTCAAAAGAGCTGAACGGAAACCCAGAAGGGTTAATCTAAAACTCAGAAGAGCTAAATGAA
* ** *
11049445 ACCTATTAGGGTTAAACT
66 ACCTATGACAGCTAAACT
* * * *
11049463 GAAGCTCAAAAGAGCTGAACTGG-GACCCAGAAGGGTTAATCTAAAACTCATATGAGTTAAATGA
1 GAAGCTCAAAAGAGCTGAAC-GGAAACCCAGAAGGGTTAATCTAAAACTCAGAAGAGCTAAATGA
* *
11049527 AGCTTATGACAGCTAAAC
65 AACCTATGACAGCTAAAC
11049545 AGAAAGCAAA
Statistics
Matches: 66, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
83 64 0.97
84 2 0.03
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.21
Consensus pattern (83 bp):
GAAGCTCAAAAGAGCTGAACGGAAACCCAGAAGGGTTAATCTAAAACTCAGAAGAGCTAAATGAA
ACCTATGACAGCTAAACT
Found at i:11050042 original size:22 final size:23
Alignment explanation
Indices: 11049990--11050043 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
11049980 CGTTTTTAAT
*
11049990 TAAAATTAAAATTATATTTGTAA
1 TAAAATTAAAACTATATTTGTAA
*
11050013 TAAAATTAAAACTA-A-TTGTTA
1 TAAAATTAAAACTATATTTGTAA
11050034 TCAAAATTAA
1 T-AAAATTAA
11050044 TTGTTATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 6 0.21
22 9 0.32
23 13 0.46
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.39
Consensus pattern (23 bp):
TAAAATTAAAACTATATTTGTAA
Found at i:11050044 original size:16 final size:16
Alignment explanation
Indices: 11050020--11050057 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
11050010 TAATAAAATT
*
11050020 AAAACTAATTGTTATC
1 AAAATTAATTGTTATC
*
11050036 AAAATTAATTGTTATT
1 AAAATTAATTGTTATC
11050052 AAAATT
1 AAAATT
11050058 GTATCAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (16 bp):
AAAATTAATTGTTATC
Found at i:11050294 original size:52 final size:52
Alignment explanation
Indices: 11050216--11050319 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
11050206 ATTGCATGTT
*
11050216 CACCATCCTGTTCACGGGACATTGAATCACTTGGGTCTCTTTCTATTAAACA
1 CACCATCCTATTCACGGGACATTGAATCACTTGGGTCTCTTTCTATTAAACA
*
11050268 CACCATCCTATTCACTGGACATTGAATCACTTGGGTCTCTTTCTATTAAACA
1 CACCATCCTATTCACGGGACATTGAATCACTTGGGTCTCTTTCTATTAAACA
11050320 ATTAAAAGGA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.26, C:0.27, G:0.13, T:0.34
Consensus pattern (52 bp):
CACCATCCTATTCACGGGACATTGAATCACTTGGGTCTCTTTCTATTAAACA
Found at i:11050521 original size:16 final size:16
Alignment explanation
Indices: 11050500--11050533 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
11050490 TTTATAGCAA
11050500 TAAACATACTTAATTT
1 TAAACATACTTAATTT
11050516 TAAACATACTTAATTT
1 TAAACATACTTAATTT
11050532 TA
1 TA
11050534 TCCTGTCACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (16 bp):
TAAACATACTTAATTT
Found at i:11053003 original size:45 final size:45
Alignment explanation
Indices: 11052939--11053034 Score: 158
Period size: 45 Copynumber: 2.1 Consensus size: 45
11052929 AGCAAGGCAA
11052939 TAATGTGAAATTTCTAGCTAATGTTCCATTATATAAACAATAGGC
1 TAATGTGAAATTTCTAGCTAATGTTCCATTATATAAACAATAGGC
* *
11052984 TAATGTGAAATTT-TGAGCTAATTTTCCATTATATAAACAATCGGC
1 TAATGTGAAATTTCT-AGCTAATGTTCCATTATATAAACAATAGGC
11053029 TAATGT
1 TAATGT
11053035 TCCATTTATA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 1 0.02
45 47 0.98
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (45 bp):
TAATGTGAAATTTCTAGCTAATGTTCCATTATATAAACAATAGGC
Found at i:11054485 original size:10 final size:10
Alignment explanation
Indices: 11054470--11054501 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
11054460 ACTTAAAATT
11054470 ATATATAATG
1 ATATATAATG
*
11054480 ATATATAATA
1 ATATATAATG
11054490 ATATATAATG
1 ATATATAATG
11054500 AT
1 AT
11054502 GGGGATGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (10 bp):
ATATATAATG
Found at i:11064150 original size:23 final size:23
Alignment explanation
Indices: 11064105--11064175 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
11064095 CTTAATATTT
* *
11064105 AAGTAAATAT-ATATAATATAATA
1 AAGTAAATATAATA-AAAAAAATA
11064128 AAGTAAATATAATAAAAAAAAT-
1 AAGTAAATATAATAAAAAAAATA
*
11064150 AAGTAAATGA-AATAAAGAAAGATA
1 AAGTAAAT-ATAATAAA-AAAAATA
11064174 AA
1 AA
11064176 ATCAAAATCA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 14 0.34
23 22 0.54
24 5 0.12
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (23 bp):
AAGTAAATATAATAAAAAAAATA
Found at i:11064207 original size:10 final size:11
Alignment explanation
Indices: 11064192--11064233 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
11064182 ATCAAAATTG
11064192 AGAAAG-AAAA
1 AGAAAGAAAAA
11064202 AGAAAGAAAAA
1 AGAAAGAAAAA
*
11064213 AAAAAGAAAAAA
1 AGAAAG-AAAAA
11064225 AGAAAGAAA
1 AGAAAGAAA
11064234 CAGACGCAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 6 0.21
11 12 0.43
12 10 0.36
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AGAAAGAAAAA
Found at i:11070767 original size:30 final size:30
Alignment explanation
Indices: 11070705--11070775 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 30
11070695 AACCTCACCA
* * **
11070705 CCACCTCCACCACCACACAATCCAGTTTCT
1 CCACCACCACCACCACACAATCCAATCACT
* *
11070735 CCACCACCACCACCCCACCATCCAATCACT
1 CCACCACCACCACCACACAATCCAATCACT
*
11070765 CCACCGCCACC
1 CCACCACCACC
11070776 TCATGTACAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.27, C:0.58, G:0.03, T:0.13
Consensus pattern (30 bp):
CCACCACCACCACCACACAATCCAATCACT
Found at i:11070804 original size:24 final size:24
Alignment explanation
Indices: 11070763--11070821 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
11070753 CATCCAATCA
* *
11070763 CTCCACCGCCACCTCATGTACATC
1 CTCCACCACCACCCCATGTACATC
* * *
11070787 CTCCACCACCTCCCCATGTGCGTC
1 CTCCACCACCACCCCATGTACATC
*
11070811 CACCACCACCA
1 CTCCACCACCA
11070822 GCACCACTTC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.54, G:0.08, T:0.17
Consensus pattern (24 bp):
CTCCACCACCACCCCATGTACATC
Found at i:11073737 original size:20 final size:20
Alignment explanation
Indices: 11073698--11073739 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
11073688 TTGTTAGAGT
*
11073698 TAATATAGTCAAAGCAGTTG
1 TAATATAGTCAAAACAGTTG
*
11073718 TAATATAGTCAAAACCGTTG
1 TAATATAGTCAAAACAGTTG
11073738 TA
1 TA
11073740 CCGTTGTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (20 bp):
TAATATAGTCAAAACAGTTG
Found at i:11073768 original size:15 final size:15
Alignment explanation
Indices: 11073748--11073778 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11073738 TACCGTTGTA
11073748 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
11073763 AGTCTGTTAGCAGTT
1 AGTCTGTTAGCAGTT
11073778 A
1 A
11073779 AAGATGATAG
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:0.23, C:0.13, G:0.26, T:0.39
Consensus pattern (15 bp):
AGTCTGTTAGCAGTT
Found at i:11078447 original size:20 final size:20
Alignment explanation
Indices: 11078408--11078449 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
11078398 ATGTTAGAGT
*
11078408 TAATATAGTCAAAGCAGTTG
1 TAATATAGTCAAAACAGTTG
*
11078428 TAATATAGTCAAAACCGTTG
1 TAATATAGTCAAAACAGTTG
11078448 TA
1 TA
11078450 CCGTTGTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (20 bp):
TAATATAGTCAAAACAGTTG
Found at i:11078478 original size:15 final size:15
Alignment explanation
Indices: 11078458--11078488 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11078448 TACCGTTGTA
11078458 AGTCTATTAGCAGTT
1 AGTCTATTAGCAGTT
11078473 AGTCTATTAGCAGTT
1 AGTCTATTAGCAGTT
11078488 A
1 A
11078489 AAGATGATAG
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:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (15 bp):
AGTCTATTAGCAGTT
Found at i:11103155 original size:27 final size:26
Alignment explanation
Indices: 11103099--11103171 Score: 65
Period size: 27 Copynumber: 2.6 Consensus size: 26
11103089 AAAAGGGTAC
* *
11103099 AAAATATATACATGTACATATATAAA
1 AAAATATATACATATACATAGATAAA
*
11103125 AAAAGTATATACATATATATAGATTATAA
1 AAAA-TATATACATATACATAGA-TA-AA
*
11103154 AAAAGATAATTACATATA
1 AAAATAT-A-TACATATA
11103172 TATATAAACA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
26 4 0.11
27 15 0.39
28 4 0.11
29 7 0.18
30 8 0.21
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (26 bp):
AAAATATATACATATACATAGATAAA
Found at i:11103356 original size:17 final size:17
Alignment explanation
Indices: 11103334--11103377 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
11103324 TAGGAAATAA
11103334 AAAATGTATATGTATAT
1 AAAATGTATATGTATAT
*
11103351 AAAATGTAAATGTATAT
1 AAAATGTATATGTATAT
*
11103368 -ATATGTATAT
1 AAAATGTATAT
11103378 AAAAGTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
AAAATGTATATGTATAT
Found at i:11103403 original size:33 final size:33
Alignment explanation
Indices: 11103306--11103409 Score: 80
Period size: 33 Copynumber: 3.3 Consensus size: 33
11103296 ATAAAAGTAT
* * *
11103306 ATATATGCATATAAAAGTTA-GGAAATA-AAAA
1 ATATATGTATATAAAAGTTATGCAAATAGAATA
* *
11103337 ATGTATATGTATAT-AAA---ATGTAAAT-GTAT-
1 A--TATATGTATATAAAAGTTATGCAAATAGAATA
11103366 ATATATGTATATAAAAGTTATGCAAATAGAATA
1 ATATATGTATATAAAAGTTATGCAAATAGAATA
*
11103399 ATATATATATA
1 ATATATGTATA
11103410 ATATGTGCAT
Statistics
Matches: 56, Mismatches: 7, Indels: 18
0.69 0.09 0.22
Matches are distributed among these distances:
27 11 0.20
28 3 0.05
29 2 0.04
30 6 0.11
31 8 0.14
32 6 0.11
33 20 0.36
ACGTcount: A:0.52, C:0.02, G:0.12, T:0.35
Consensus pattern (33 bp):
ATATATGTATATAAAAGTTATGCAAATAGAATA
Found at i:11103404 original size:60 final size:59
Alignment explanation
Indices: 11103297--11103409 Score: 147
Period size: 60 Copynumber: 1.9 Consensus size: 59
11103287 AAAAAATATA
* *
11103297 TAAAAGTATATATATGCATATAAAAGTTAGGAAATAAAAAATGTATATGTATATAAAATG
1 TAAAAGTATATATATGCATATAAAAGTTAGCAAATAAAAAA-GTATATATATATAAAATG
* * *
11103357 TAAATGTATATATATGTATATAAAAGTTATGCAAATAGAATAA-TATATATATA
1 TAAAAGTATATATATGCATATAAAAGTTA-GCAAATA-AAAAAGTATATATATA
11103410 ATATGTGCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
60 36 0.78
61 6 0.13
62 4 0.09
ACGTcount: A:0.52, C:0.02, G:0.12, T:0.35
Consensus pattern (59 bp):
TAAAAGTATATATATGCATATAAAAGTTAGCAAATAAAAAAGTATATATATATAAAATG
Found at i:11103504 original size:3 final size:3
Alignment explanation
Indices: 11103496--11103531 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
11103486 GTATTTATAG
* *
11103496 TAA TAA TAA TAA TGA TAA TAA TAA CAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
11103532 CTTAATAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:11103897 original size:21 final size:21
Alignment explanation
Indices: 11103871--11103948 Score: 147
Period size: 21 Copynumber: 3.7 Consensus size: 21
11103861 AATCATATCT
*
11103871 TCTAAGATTGCATAAATCATA
1 TCTAAGATTGCATATATCATA
11103892 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
11103913 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
11103934 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
11103949 CCTTGAAGAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.37
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:11104174 original size:28 final size:30
Alignment explanation
Indices: 11104134--11104227 Score: 120
Period size: 28 Copynumber: 3.0 Consensus size: 30
11104124 AAGTATCAAC
11104134 TTAAGAAAAAATGTCAAGTTTAGGTA-CAAA
1 TTAA-AAAAAATGTCAAGTTTAGGTACCAAA
*
11104164 TT-AAAAAAATGTCAAGTTTGGGTACCAAA
1 TTAAAAAAAATGTCAAGTTTAGGTACCAAA
11104193 TTAGAAAAAAAAATTGTCAAGTTTAGGTACCAAA
1 TT---AAAAAAAA-TGTCAAGTTTAGGTACCAAA
11104227 T
1 T
11104228 GTTATATTAA
Statistics
Matches: 56, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
28 20 0.36
29 7 0.12
30 2 0.04
33 7 0.12
34 20 0.36
ACGTcount: A:0.48, C:0.09, G:0.16, T:0.28
Consensus pattern (30 bp):
TTAAAAAAAATGTCAAGTTTAGGTACCAAA
Found at i:11105183 original size:24 final size:23
Alignment explanation
Indices: 11105156--11105228 Score: 69
Period size: 21 Copynumber: 3.2 Consensus size: 23
11105146 ACAAAAAAGA
11105156 TTTGTCTAAGTCACTTCGTTTCTT
1 TTTGTCTAAGTCACTTC-TTTCTT
* **
11105180 TTTGTCCAAGTTGCTTC--TCTT
1 TTTGTCTAAGTCACTTCTTTCTT
* * *
11105201 TTTTTCTAACTCACTTCTTTTTT
1 TTTGTCTAAGTCACTTCTTTCTT
11105224 TTTGT
1 TTTGT
11105229 GAGTTTCGGG
Statistics
Matches: 37, Mismatches: 10, Indels: 5
0.71 0.19 0.10
Matches are distributed among these distances:
21 16 0.43
23 7 0.19
24 14 0.38
ACGTcount: A:0.11, C:0.21, G:0.10, T:0.59
Consensus pattern (23 bp):
TTTGTCTAAGTCACTTCTTTCTT
Found at i:11107246 original size:13 final size:13
Alignment explanation
Indices: 11107228--11107253 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11107218 ATACTTAGTT
11107228 GACATTCATAAAA
1 GACATTCATAAAA
11107241 GACATTCATAAAA
1 GACATTCATAAAA
11107254 AGTATCTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (13 bp):
GACATTCATAAAA
Found at i:11107584 original size:18 final size:18
Alignment explanation
Indices: 11107561--11107622 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
11107551 GGTGATATCA
11107561 ATATTGATGACAGTGACG
1 ATATTGATGACAGTGACG
* *
11107579 ATATTGATG-CTAGTCATG
1 ATATTGATGAC-AGTGACG
* *
11107597 CTATTGATGATAGTGAC-
1 ATATTGATGACAGTGACG
11107614 ACTATTGAT
1 A-TATTGAT
11107623 CGTGACCTTG
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
17 1 0.03
18 33 0.97
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (18 bp):
ATATTGATGACAGTGACG
Found at i:11112851 original size:29 final size:29
Alignment explanation
Indices: 11112818--11112875 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
11112808 GAACCCACAT
11112818 CAAGATTAGGGTTCCAACAGTTGATAAAC
1 CAAGATTAGGGTTCCAACAGTTGATAAAC
11112847 CAAGATTAGGGTTCCAACAGTTGATAAAC
1 CAAGATTAGGGTTCCAACAGTTGATAAAC
11112876 ATAGCAACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (29 bp):
CAAGATTAGGGTTCCAACAGTTGATAAAC
Found at i:11113773 original size:49 final size:49
Alignment explanation
Indices: 11113716--11113819 Score: 174
Period size: 49 Copynumber: 2.1 Consensus size: 49
11113706 TCATGTGTTA
* *
11113716 TAATTTTATAAAGTGTTGAGCTTTTGATTCATGATATTGAAA-TTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATT-AAACTTAATTT
11113765 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
11113814 TAATTT
1 TAATTT
11113820 GATTTTTTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
48 3 0.06
49 49 0.94
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.50
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTT
Found at i:11115243 original size:21 final size:21
Alignment explanation
Indices: 11115202--11115244 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
11115192 AATAAAGTAG
* *
11115202 ATTATATATTATTTTTATAGT
1 ATTATATAATATATTTATAGT
11115223 ATTATATAATATGATTT-TAGT
1 ATTATATAATAT-ATTTATAGT
11115244 A
1 A
11115245 AATTCATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (21 bp):
ATTATATAATATATTTATAGT
Found at i:11115285 original size:20 final size:18
Alignment explanation
Indices: 11115271--11115425 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
11115261 ATTATCTAGT
11115271 TTTTTATTAAATTATATA
1 TTTTTATTAAATTATATA
11115289 TTTTTATTAAATTATAT-
1 TTTTTATTAAATTATATA
**
11115306 TTAATATT-AA-T-TAT-
1 TTTTTATTAAATTATATA
** * *
11115320 TTTAAATTATATTTTATA
1 TTTTTATTAAATTATATA
* * * *
11115338 GTGTTA-TATATTAT-GA
1 TTTTTATTAAATTATATA
*
11115354 -TTTTAGTAAATTCATATA
1 TTTTTATTAAATT-ATATA
* ** *
11115372 ATAATATTTAATATTA-AGA
1 TTTTTA-TTAA-ATTATATA
*
11115391 ATTTTATTAAATTATATA
1 TTTTTATTAAATTATATA
11115409 TTTTTATTAAATTATAT
1 TTTTTATTAAATTATAT
11115426 TTAATAATAA
Statistics
Matches: 104, Mismatches: 22, Indels: 22
0.70 0.15 0.15
Matches are distributed among these distances:
14 9 0.09
15 6 0.06
16 9 0.09
17 22 0.21
18 42 0.40
19 9 0.09
20 4 0.04
21 3 0.03
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTTTATTAAATTATATA
Found at i:11115431 original size:120 final size:120
Alignment explanation
Indices: 11115209--11115685 Score: 836
Period size: 120 Copynumber: 4.0 Consensus size: 120
11115199 TAGATTATAT
* *
11115209 ATTAT-TTTTATAGTATTATATAATATGATTTTAGTAAATTCATATAAGAATAATT-AT-CT-AG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAG
** *
11115270 TTTTTTATTAAATTATATATTTTTATTAAATTATATTTAATATTAATTATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
* * *
11115325 ATTATATTTTATAGTGTTATATATTATGATTTTAGTAAATTCATATAATAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAG
11115390 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
*
11115445 ATTATATTTTACAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAG
11115510 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
11115565 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAG
*
11115630 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
11115685 A
1 A
11115686 ATATGATTAA
Statistics
Matches: 343, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
116 5 0.01
117 46 0.13
118 2 0.01
119 1 0.00
120 289 0.84
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (120 bp):
ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATACTAAG
AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAA
Found at i:11115916 original size:16 final size:16
Alignment explanation
Indices: 11115895--11115950 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
11115885 AATTGAATTA
*
11115895 CTATTACACCTATATT
1 CTATTACACCTCTATT
*
11115911 CTATTACAGCTCTATT
1 CTATTACACCTCTATT
*
11115927 CTATTACACTTCTATT
1 CTATTACACCTCTATT
*
11115943 CCATTACA
1 CTATTACA
11115951 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.29, C:0.27, G:0.02, T:0.43
Consensus pattern (16 bp):
CTATTACACCTCTATT
Found at i:11118972 original size:10 final size:10
Alignment explanation
Indices: 11118957--11118990 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
11118947 GAATTAAGAT
11118957 AAAAATATAA
1 AAAAATATAA
11118967 AAAAAT-TAAA
1 AAAAATAT-AA
11118977 AAAAATATAA
1 AAAAATATAA
11118987 AAAA
1 AAAA
11118991 TAATTTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 1 0.05
10 20 0.91
11 1 0.05
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (10 bp):
AAAAATATAA
Found at i:11119005 original size:14 final size:14
Alignment explanation
Indices: 11118986--11119015 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11118976 AAAAAATATA
11118986 AAAAATAATTTAAT
1 AAAAATAATTTAAT
*
11119000 AAAAATAATTTCAT
1 AAAAATAATTTAAT
11119014 AA
1 AA
11119016 CTAAAATTTA
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:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (14 bp):
AAAAATAATTTAAT
Found at i:11120458 original size:24 final size:24
Alignment explanation
Indices: 11120399--11120458 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 24
11120389 TTAAGTAGTG
* * *
11120399 ATACATGATAAAATTTAAAATAATA
1 ATACATAAT-AAACTTAAAATAAAA
* *
11120424 ATACGTAATAAACTTATAATAAAA
1 ATACATAATAAACTTAAAATAAAA
*
11120448 ATACATTATAA
1 ATACATAATAA
11120459 TTTAAAAAAT
Statistics
Matches: 28, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
24 21 0.75
25 7 0.25
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.32
Consensus pattern (24 bp):
ATACATAATAAACTTAAAATAAAA
Found at i:11132407 original size:84 final size:83
Alignment explanation
Indices: 11132301--11132557 Score: 340
Period size: 83 Copynumber: 3.1 Consensus size: 83
11132291 TAACGAAAAA
* * * *
11132301 CGCCGCTAAAAAACATGATCTTTAGCGGCGTTTTCCCTTAAGCGTAGCTAAAGATCATGTTCTTT
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTT-CCTTAAGCGTCGCTAAAGAACATGTTCTTT
11132366 AGCGGCG-TTTTTCCTTAAG
65 AGCGGCGATTTTT-CTTAAG
*
11132385 CGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTCCTTAAGCGTCGCTAAAGAACATGTTCTTT
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTCCTTAAGCGTCGCTAAAGAACATGTTCTTT
11132450 AGCGGCGATTTTT-TTAAG
65 AGCGGCGATTTTTCTTAAG
* * * *
11132468 CGCCTCTAAAGAACATGTTCTTTAGCGGCGTTTT-TTTATGAGCGCCGCTAAAAAACATGTTCTT
1 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTCCTTA--AGCGTCGCTAAAGAACATGTTCTT
* *
11132532 TAGCGGCGCTTTTTCTTTGAG
64 TAGCGGCGATTTTTC-TTAAG
11132553 CGCCG
1 CGCCG
11132558 TTACAAAAAC
Statistics
Matches: 154, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
81 3 0.02
82 4 0.03
83 68 0.44
84 62 0.40
85 17 0.11
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (83 bp):
CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTCCTTAAGCGTCGCTAAAGAACATGTTCTTTA
GCGGCGATTTTTCTTAAG
Found at i:11132545 original size:42 final size:41
Alignment explanation
Indices: 11132260--11132557 Score: 330
Period size: 42 Copynumber: 7.1 Consensus size: 41
11132250 AACTAAAAAT
* * * ** ** *
11132260 GCCGTTAAAGAACATGATCTTTAGCGGCGCTTAACGAAAAAC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTC-TTAAGC
* * *
11132302 GCCGCTAAAAAACATGATCTTTAGCGGCGTTTTCCCTTAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTT-TCTTAAGC
** *
11132344 GTAGCTAAAGATCATGTTCTTTAGCGGCGTTTTTCCTTAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTT-CTTAAGC
*
11132386 GCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTCCTTAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTT-CTTAAGC
*
11132428 GTCGCTAAAGAACATGTTCTTTAGCGGCGATTTTT-TTAAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTTCTTAAGC
*
11132469 GCCTCTAAAGAACATGTTCTTTAGCGGCGTTTTT-TTATGAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTCTTA--AGC
* *
11132511 GCCGCTAAAAAACATGTTCTTTAGCGGCGCTTTTTCTTTGAGC
1 GCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTTTC-TTAAGC
11132554 GCCG
1 GCCG
11132558 TTACAAAAAC
Statistics
Matches: 225, Mismatches: 23, Indels: 15
0.86 0.09 0.06
Matches are distributed among these distances:
40 8 0.04
41 33 0.15
42 164 0.73
43 18 0.08
45 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (41 bp):
GCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTCTTAAGC
Found at i:11132959 original size:21 final size:21
Alignment explanation
Indices: 11132935--11132976 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
11132925 ATTTCTTTTG
11132935 AACCTCTGCTTCTCTCGCTGC
1 AACCTCTGCTTCTCTCGCTGC
*
11132956 AACCTCTGCTTCTTTCGCTGC
1 AACCTCTGCTTCTCTCGCTGC
11132977 CGCATTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.10, C:0.40, G:0.14, T:0.36
Consensus pattern (21 bp):
AACCTCTGCTTCTCTCGCTGC
Found at i:11138452 original size:9 final size:9
Alignment explanation
Indices: 11138424--11138648 Score: 216
Period size: 9 Copynumber: 24.8 Consensus size: 9
11138414 ATTTGCACGG
*
11138424 GTAAGCTAT
1 GTAAGTTAT
* *
11138433 TTAATTTAT
1 GTAAGTTAT
11138442 GTAAGTTAT
1 GTAAGTTAT
11138451 GTAAGTTAT
1 GTAAGTTAT
* *
11138460 TTAATTTAT
1 GTAAGTTAT
*
11138469 GTAGGTTAT
1 GTAAGTTAT
* *
11138478 GTAAGTCCAC
1 GTAAGT-TAT
* *
11138488 GGAATTTAT
1 GTAAGTTAT
*
11138497 ATAAGTTAT
1 GTAAGTTAT
11138506 GTAAGTTAT
1 GTAAGTTAT
* *
11138515 TTAATTTAT
1 GTAAGTTAT
11138524 GTAAGTTAT
1 GTAAGTTAT
11138533 GTAAGTTAT
1 GTAAGTTAT
* *
11138542 TTAATTTAT
1 GTAAGTTAT
*
11138551 GTAGGTTAT
1 GTAAGTTAT
11138560 GTAAGTTAT
1 GTAAGTTAT
11138569 GTAAGTTAT
1 GTAAGTTAT
* *
11138578 TTAATTTAT
1 GTAAGTTAT
*
11138587 GCAAGTTTAT
1 GTAAG-TTAT
11138597 GTAAGTTAT
1 GTAAGTTAT
* *
11138606 TTAATTTAT
1 GTAAGTTAT
11138615 GTAAGTTAT
1 GTAAGTTAT
*
11138624 GTAAGTTGT
1 GTAAGTTAT
* *
11138633 ATAATTTAT
1 GTAAGTTAT
11138642 GTAAGTT
1 GTAAGTT
11138649 TCTATATATG
Statistics
Matches: 167, Mismatches: 47, Indels: 4
0.77 0.22 0.02
Matches are distributed among these distances:
9 154 0.92
10 13 0.08
ACGTcount: A:0.32, C:0.02, G:0.17, T:0.48
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:11138730 original size:22 final size:23
Alignment explanation
Indices: 11138702--11138772 Score: 63
Period size: 27 Copynumber: 2.9 Consensus size: 23
11138692 TATAAAGTAT
* *
11138702 TATGTAATTTAT-TATGTTATTA
1 TATGTAAGTTATGTAAGTTATTA
11138724 TATGTAAGTTATGTAAGTTATTTAA
1 TATGTAAGTTATGTAAGTTA-TT-A
*
11138749 TTTATGTAAGTTATGCAAGCTTAT
1 --TATGTAAGTTATGTAAG-TTAT
11138773 ATACAAGTTA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
22 11 0.28
23 6 0.15
24 2 0.05
25 1 0.03
27 17 0.43
28 3 0.08
ACGTcount: A:0.32, C:0.03, G:0.14, T:0.51
Consensus pattern (23 bp):
TATGTAAGTTATGTAAGTTATTA
Found at i:11138738 original size:9 final size:9
Alignment explanation
Indices: 11138724--11138786 Score: 63
Period size: 9 Copynumber: 6.7 Consensus size: 9
11138714 TATGTTATTA
11138724 TATGTAAGT
1 TATGTAAGT
11138733 TATGTAAGT
1 TATGTAAGT
* *
11138742 TATTTAATT
1 TATGTAAGT
11138751 TATGTAAGT
1 TATGTAAGT
*
11138760 TATGCAAGCT
1 TATGTAAG-T
*
11138770 TATATACAAGT
1 TATGT--AAGT
11138781 TATGTA
1 TATGTA
11138787 TTATAACATA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
9 31 0.72
10 4 0.09
11 5 0.12
12 3 0.07
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (9 bp):
TATGTAAGT
Found at i:11138754 original size:27 final size:27
Alignment explanation
Indices: 11138713--11138772 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
11138703 ATGTAATTTA
*
11138713 TTATGTTATTATATGTAAGTTATGTAAG
1 TTATGTAATT-TATGTAAGTTATGTAAG
* *
11138741 TTATTTAATTTATGTAAGTTATGCAAG
1 TTATGTAATTTATGTAAGTTATGTAAG
11138768 CTTAT
1 -TTAT
11138773 ATACAAGTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 16 0.57
28 12 0.43
ACGTcount: A:0.32, C:0.03, G:0.15, T:0.50
Consensus pattern (27 bp):
TTATGTAATTTATGTAAGTTATGTAAG
Found at i:11138874 original size:21 final size:21
Alignment explanation
Indices: 11138850--11138900 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
11138840 AATTATTATG
11138850 TAAGTTATGCAAGCTTAAATA
1 TAAGTTATGCAAGCTTAAATA
*
11138871 TAAGTTATGCAAGCTTATATA
1 TAAGTTATGCAAGCTTAAATA
*
11138892 CAAGTTATG
1 TAAGTTATG
11138901 TATTATAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (21 bp):
TAAGTTATGCAAGCTTAAATA
Found at i:11138897 original size:116 final size:116
Alignment explanation
Indices: 11138755--11138995 Score: 464
Period size: 116 Copynumber: 2.1 Consensus size: 116
11138745 TTAATTTATG
11138755 TAAGTTATGCAAGCTTATATACAAGTTATGTATTATAACATAAAGTATTATGTAATTTATTATGT
1 TAAGTTATGCAAGCTTATATACAAGTTATGTATTATAACATAAAGTATTATGTAATTTATTATGT
*
11138820 TATTATATATAAGTTATGTAAATTATTATGTAAGTTATGCAAGCTTAAATA
66 TATTATATATAAGCTATGTAAATTATTATGTAAGTTATGCAAGCTTAAATA
11138871 TAAGTTATGCAAGCTTATATACAAGTTATGTATTATAACATAAAGTATTATGTAATTTATTATGT
1 TAAGTTATGCAAGCTTATATACAAGTTATGTATTATAACATAAAGTATTATGTAATTTATTATGT
*
11138936 TATTATATATAAGCTATGTAATTTATTATGTAAGTTATGCAAGCTTAAATA
66 TATTATATATAAGCTATGTAAATTATTATGTAAGTTATGCAAGCTTAAATA
11138987 TAAGTTATG
1 TAAGTTATG
11138996 TATTATATAA
Statistics
Matches: 123, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 123 1.00
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.43
Consensus pattern (116 bp):
TAAGTTATGCAAGCTTATATACAAGTTATGTATTATAACATAAAGTATTATGTAATTTATTATGT
TATTATATATAAGCTATGTAAATTATTATGTAAGTTATGCAAGCTTAAATA
Found at i:11139151 original size:16 final size:16
Alignment explanation
Indices: 11139119--11139156 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
11139109 GAAAACGAAG
* *
11139119 TAAA-TTTAATACTAA
1 TAAATTTTAAGACAAA
11139134 TAAATTTTAAGACAAA
1 TAAATTTTAAGACAAA
11139150 TAAATTT
1 TAAATTT
11139157 AGAAAACCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 4 0.20
16 16 0.80
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (16 bp):
TAAATTTTAAGACAAA
Found at i:11140203 original size:27 final size:29
Alignment explanation
Indices: 11140149--11140203 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
11140139 TAATTATCAC
*
11140149 AACAATAAACTTAATAATAATTGATAAAGT
1 AACAATAAACTTAATAATAAAT-ATAAAGT
*
11140179 AACAATCAACTTAAT-ATAAAT-TAAA
1 AACAATAAACTTAATAATAAATATAAA
11140204 TCAGAAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
29 5 0.22
30 14 0.61
ACGTcount: A:0.58, C:0.09, G:0.04, T:0.29
Consensus pattern (29 bp):
AACAATAAACTTAATAATAAATATAAAGT
Found at i:11140261 original size:15 final size:15
Alignment explanation
Indices: 11140238--11140270 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
11140228 TGGTAAAGTA
11140238 ACAGATACAGGAAGC
1 ACAGATACAGGAAGC
*
11140253 ACAGTTACAGGAAGC
1 ACAGATACAGGAAGC
11140268 ACA
1 ACA
11140271 TGAAGCACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.09
Consensus pattern (15 bp):
ACAGATACAGGAAGC
Found at i:11142652 original size:14 final size:15
Alignment explanation
Indices: 11142621--11142682 Score: 51
Period size: 14 Copynumber: 4.3 Consensus size: 15
11142611 ATTAACTATA
11142621 AACCCCTAAACCCAT
1 AACCCCTAAACCCAT
11142636 AACCCCT-AACCTC-T
1 AACCCCTAAACC-CAT
*
11142650 AA-CCCTAAACTCAT
1 AACCCCTAAACCCAT
* *
11142664 GAACCCTTAACCCCA-
1 -AACCCCTAAACCCAT
11142679 AACC
1 AACC
11142683 TTAAACCATA
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
13 5 0.13
14 15 0.39
15 10 0.26
16 8 0.21
ACGTcount: A:0.37, C:0.45, G:0.02, T:0.16
Consensus pattern (15 bp):
AACCCCTAAACCCAT
Found at i:11142670 original size:28 final size:27
Alignment explanation
Indices: 11142624--11142711 Score: 86
Period size: 28 Copynumber: 3.1 Consensus size: 27
11142614 AACTATAAAC
11142624 CCCTAAACCCATAACCCCTAACCTCTAA
1 CCCTAAA-CCATAACCCCTAACCTCTAA
* * *
11142652 CCCTAAACTCATGAACCCTTAACCCCAAA
1 CCCTAAAC-CAT-AACCCCTAACCTCTAA
* * *
11142681 CCTTAAACCATAATCCATAAGCCTCTAA
1 CCCTAAACCATAACCCCTAA-CCTCTAA
11142709 CCC
1 CCC
11142712 ATATCCCTTA
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
27 8 0.17
28 20 0.42
29 20 0.42
ACGTcount: A:0.36, C:0.42, G:0.02, T:0.19
Consensus pattern (27 bp):
CCCTAAACCATAACCCCTAACCTCTAA
Found at i:11142908 original size:27 final size:28
Alignment explanation
Indices: 11142857--11142910 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
11142847 AACTATAAAG
*
11142857 CCTTAAACCCCTAACCCCAGCCCTTAAC
1 CCTTAAACCCCTAACCCCAACCCTTAAC
* *
11142885 CCTT-AACCCTTAACCCCAATCCTTAA
1 CCTTAAACCCCTAACCCCAACCCTTAA
11142911 ACCATATCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.30, C:0.46, G:0.02, T:0.22
Consensus pattern (28 bp):
CCTTAAACCCCTAACCCCAACCCTTAAC
Found at i:11142910 original size:13 final size:13
Alignment explanation
Indices: 11142862--11142910 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
11142852 TAAAGCCTTA
*
11142862 AACCCCTAACCCC
1 AACCCTTAACCCC
* *
11142875 AGCCCTTAACCCTT
1 AACCCTTAACCC-C
11142889 AACCCTTAACCCC
1 AACCCTTAACCCC
*
11142902 AATCCTTAA
1 AACCCTTAA
11142911 ACCATATCCA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
13 18 0.62
14 11 0.38
ACGTcount: A:0.31, C:0.47, G:0.02, T:0.20
Consensus pattern (13 bp):
AACCCTTAACCCC
Found at i:11142929 original size:21 final size:22
Alignment explanation
Indices: 11142905--11142950 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
11142895 TAACCCCAAT
11142905 CCTTAAACCATATCC-ATAAAC
1 CCTTAAACCATATCCTATAAAC
* *
11142926 CCTTAACCCATATCCTTTAAAC
1 CCTTAAACCATATCCTATAAAC
11142948 CCT
1 CCT
11142951 AAATTAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (22 bp):
CCTTAAACCATATCCTATAAAC
Found at i:11143803 original size:114 final size:114
Alignment explanation
Indices: 11143585--11143887 Score: 292
Period size: 114 Copynumber: 2.6 Consensus size: 114
11143575 ATTTTTAGAC
* * * ** * * *
11143585 AAGCGCCACTAAAGTCTCTAAAACCTAAATTGGAAATGACATA-GTTTTCTTAATAGTTTTGCGG
1 AAGCGCCACTAAAGTCCCCAAAACCTAAACTAAAAACGGCA-ACGTTTTCTTAACAGTTTTGCGG
* *
11143649 CACTTCTGATAAAGCGCCACTAAAGCTTCGCTACTACGGCGTTTTCCGA-A
65 CGCTTATGATAAAGCGCCACTAAAGCTTCGCTACTACGGCGTTTTCC-ATA
* * * * ** * *
11143699 AATCGCCACTAACGTCTCGAAAAGGTAAA-TGAAAAATGGCAACGTTTTCTTAACAGTCTTGCGG
1 AAGCGCCACTAAAGTCCCCAAAACCTAAACT-AAAAACGGCAACGTTTTCTTAACAGTTTTGCGG
* ** * *
11143763 CGCTTATGATAAAGCGCCGCTAATTCTT-GACTA-TAGCGGCGTTTTTCATT
65 CGCTTATGATAAAGCGCCACTAAAGCTTCG-CTACTA-CGGCGTTTTCCATA
11143813 AAGCGCCACTAAAGTCCCCAAAACCTAAACTAAAAACGGCAACGTTTTTCTTAACAGTTTTTGCG
1 AAGCGCCACTAAAGTCCCCAAAACCTAAACTAAAAACGGCAACG-TTTTCTTAACAG-TTTTGCG
*
11143878 GCGTTTATGA
64 GCGCTTATGA
11143888 CCAAACACCG
Statistics
Matches: 155, Mismatches: 26, Indels: 14
0.79 0.13 0.07
Matches are distributed among these distances:
113 6 0.04
114 121 0.78
115 13 0.08
116 15 0.10
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (114 bp):
AAGCGCCACTAAAGTCCCCAAAACCTAAACTAAAAACGGCAACGTTTTCTTAACAGTTTTGCGGC
GCTTATGATAAAGCGCCACTAAAGCTTCGCTACTACGGCGTTTTCCATA
Found at i:11143937 original size:116 final size:114
Alignment explanation
Indices: 11143730--11143937 Score: 249
Period size: 116 Copynumber: 1.8 Consensus size: 114
11143720 AAGGTAAATG
* * * *
11143730 AAAAATGGCAACGTTTTCTTAACAGTCTTGCGGCGCTTATGATAAAGCGCCGCTAATTCTTGACT
1 AAAAACGGCAACGTTTTCTTAACAGTCTTGCGGCGCTTATGACAAAGCACCGATAATTCTTGACT
* * **
11143795 ATAGCGGCGTTTTTCATTAAGCGCCACTAAAGTCCCCAAAACCTAAACT
66 ATAGCGGCGTTTCTAAGAAAGCGCCACTAAAGTCCCCAAAACCTAAACT
* *
11143844 AAAAACGGCAACGTTTTTCTTAACAGTTTTTGCGGCGTTTATGACCAAA-CACCGATAATTCTTG
1 AAAAACGGCAACG-TTTTCTTAACAG-TCTTGCGGCGCTTATGA-CAAAGCACCGATAATTCTTG
* * *
11143908 -CATATTGCGGTGTTTCTAAGAAAGGGCCAC
63 AC-TATAGCGGCGTTTCTAAGAAAGCGCCAC
11143938 AAATGTTTAA
Statistics
Matches: 77, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
114 12 0.16
115 13 0.17
116 49 0.64
117 3 0.04
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (114 bp):
AAAAACGGCAACGTTTTCTTAACAGTCTTGCGGCGCTTATGACAAAGCACCGATAATTCTTGACT
ATAGCGGCGTTTCTAAGAAAGCGCCACTAAAGTCCCCAAAACCTAAACT
Found at i:11151828 original size:19 final size:19
Alignment explanation
Indices: 11151806--11151843 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
11151796 AAAATCAAAC
11151806 TCAAAAGCAAAAG-AAAAAA
1 TCAAAA-CAAAAGTAAAAAA
*
11151825 TCAAAATAAAAGTAAAAAA
1 TCAAAACAAAAGTAAAAAA
11151844 ATGAAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.74, C:0.08, G:0.08, T:0.11
Consensus pattern (19 bp):
TCAAAACAAAAGTAAAAAA
Found at i:11151842 original size:25 final size:25
Alignment explanation
Indices: 11151788--11151842 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
11151778 AAAAGATGAA
* *
11151788 AAAAAGGAAAAATCAAACTCAAAAG
1 AAAAAGAAAAAATCAAAATCAAAAG
*
11151813 CAAAAGAAAAAATCAAAAT-AAAAG
1 AAAAAGAAAAAATCAAAATCAAAAG
11151837 TAAAAA
1 -AAAAA
11151843 AATGAAAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
24 5 0.20
25 20 0.80
ACGTcount: A:0.73, C:0.09, G:0.09, T:0.09
Consensus pattern (25 bp):
AAAAAGAAAAAATCAAAATCAAAAG
Found at i:11151874 original size:15 final size:15
Alignment explanation
Indices: 11151832--11151876 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
11151822 AAATCAAAAT
*
11151832 AAAAGTAAAAAAATGA
1 AAAAG-AAAAAAAGGA
*
11151848 AAATG-AAAAAAGGA
1 AAAAGAAAAAAAGGA
11151862 AAAAGAAAAAAAGGA
1 AAAAGAAAAAAAGGA
11151877 GAGGCCAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
14 12 0.48
15 9 0.36
16 4 0.16
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.07
Consensus pattern (15 bp):
AAAAGAAAAAAAGGA
Found at i:11154087 original size:44 final size:44
Alignment explanation
Indices: 11154038--11154157 Score: 125
Period size: 44 Copynumber: 2.7 Consensus size: 44
11154028 ATCGCATTAG
11154038 GTCTTACCTCCCTGAGGTTGCAGTGGAGCAGACTGAGAAAACAA
1 GTCTTACCTCCCTGAGGTTGCAGTGGAGCAGACTGAGAAAACAA
* * * * * * * *
11154082 GTCTTATCTCCCTAAGGTTACAGCGGAGTAGACTGAGTAAGCAG
1 GTCTTACCTCCCTGAGGTTGCAGTGGAGCAGACTGAGAAAACAA
* * *
11154126 GTGTTATCC-CCTTGAGGTTGCAGTGGGGCAGA
1 GTCTTA-CCTCCCTGAGGTTGCAGTGGAGCAGA
11154158 TCGAAGATGA
Statistics
Matches: 59, Mismatches: 16, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
44 58 0.98
45 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (44 bp):
GTCTTACCTCCCTGAGGTTGCAGTGGAGCAGACTGAGAAAACAA
Found at i:11154423 original size:89 final size:88
Alignment explanation
Indices: 11154268--11154649 Score: 289
Period size: 89 Copynumber: 4.4 Consensus size: 88
11154258 GCATCAGGTT
* * * ** * *
11154268 TTATCTCCGTGAGGTTGCAGTGGAGCAGACTG-AGTAAGCAGGTCTTATCCCCCAGAGGTTGCAG
1 TTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAG-ACG-AAATCTTATCTCCCTGAGGTTGCAG
*
11154332 TGGGGCAGATCGAAGATGATAAATC
64 TGGAGCAGATCGAAGATGATAAATC
* * *
11154357 TTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGATAATCCTATCTCCCTGAAGTTGTAGT
1 TTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGA-AATCTTATCTCCCTGAGGTTGCAGT
* * *
11154422 GGAGCGGAT-TAACG-TAATAAATC
65 GGAGCAGATCGAA-GATGATAAATC
* * * ** * * * **
11154445 TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCA-TC-AGGTCTTATCTCCCTGAGGTTGCAGTG
1 TTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGAAATCTTATCTCCCTGAGGTTGCAGTG
* **
11154508 GAGCAGA-CTG-AGTAAGA-AGGTC
66 GAGCAGATC-GAAG-ATGATAAATC
* * * *
11154530 TTATCCCCCTGATGTTGCAGTGGGGCAGATCT-AAGATGATAAATCTTATCTCCCTGAGGTTGCA
1 TTATCTCCCTGAGGTTGCAGTGGAGCAGAT-TGAAGACG--AAATCTTATCTCCCTGAGGTTGCA
* *
11154594 GTGGAGCAGATTGAAGACGAT-AATC
63 GTGGAGCAGATCGAAGATGATAAATC
* **
11154619 CTATCTTACTGAGGTTGCAGTGGAGCAGATT
1 TTATCTCCCTGAGGTTGCAGTGGAGCAGATT
11154650 AAAGCCAATC
Statistics
Matches: 222, Mismatches: 56, Indels: 31
0.72 0.18 0.10
Matches are distributed among these distances:
84 1 0.00
85 55 0.25
86 2 0.01
87 1 0.00
88 39 0.18
89 120 0.54
90 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (88 bp):
TTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGAAATCTTATCTCCCTGAGGTTGCAGTG
GAGCAGATCGAAGATGATAAATC
Found at i:11154469 original size:218 final size:218
Alignment explanation
Indices: 11153942--11154653 Score: 912
Period size: 218 Copynumber: 3.2 Consensus size: 218
11153932 AACAGATCGG
* * **
11153942 TGAAGCCGATAATCTTATCTCCCTGAAGTTGTAGTGGAGTGGATTAAAGTAATAGATCTTATCTC
1 TGAAGACGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAATAGATCTTATCTC
* * *
11154007 TCTGAAGCTGCAGTAGAGTGGATCGCATTAGGTCTTACCTCCCTGAGGTTGCAGTGGAGCAGACT
66 TCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACT
* * * * * * * * * * ** *
11154072 GAGAAAACAAGTCTTATCTCCCTA-AGGTTACAGCGGAGTAGA-CTG-AG-TAAGCAGGTGTTAT
131 GAGTAAGCAGGTCTTATC-CCCCAGAGGTTGCAGTGGGGCAGATC-GAAGATGA-TAAATCTTAT
*
11154133 C-CCCTTGAGGTTGCAGTGGGGCAGAT
193 CTCCC-TGAGGTTGCAGTGGAGCAGAT
* * * *
11154159 CGAAGATGATAAATCTTATCTCTCCTATCTTCCTGAAGTTGTAGTGGAGAAGATTAAAGTAATAG
1 TGAAGACGAT--A----A----TCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAATAG
* * *
11154224 ATCTTATCTCTTTGAAGTTGCAGTAGAGTGGATCGCATCAGGTTTTATCTCCGTGAGGTTGCAGT
56 ATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGT
11154289 GGAGCAGACTGAGTAAGCAGGTCTTATCCCCCAGAGGTTGCAGTGGGGCAGATCGAAGATGATAA
121 GGAGCAGACTGAGTAAGCAGGTCTTATCCCCCAGAGGTTGCAGTGGGGCAGATCGAAGATGATAA
11154354 ATCTTATCTCCCTGAGGTTGCAGTGGAGCAGAT
186 ATCTTATCTCCCTGAGGTTGCAGTGGAGCAGAT
* * *
11154387 TGAAGACGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAACGTAATAAATCTTATCTC
1 TGAAGACGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAATAGATCTTATCTC
11154452 TCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACT
66 TCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACT
* * * *
11154517 GAGTAAGAAGGTCTTATCCCCCTGATGTTGCAGTGGGGCAGATCTAAGATGATAAATCTTATCTC
131 GAGTAAGCAGGTCTTATCCCCCAGAGGTTGCAGTGGGGCAGATCGAAGATGATAAATCTTATCTC
11154582 CCTGAGGTTGCAGTGGAGCAGAT
196 CCTGAGGTTGCAGTGGAGCAGAT
** * *
11154605 TGAAGACGATAATCCTATCTTACTGAGGTTGCAGTGGAGCAGATTAAAG
1 TGAAGACGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAG
11154654 CCAATCCCCC
Statistics
Matches: 433, Mismatches: 47, Indels: 29
0.85 0.09 0.06
Matches are distributed among these distances:
217 7 0.02
218 237 0.55
219 1 0.00
222 1 0.00
223 1 0.00
226 5 0.01
227 138 0.32
228 38 0.09
229 5 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (218 bp):
TGAAGACGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGTAATAGATCTTATCTC
TCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGACT
GAGTAAGCAGGTCTTATCCCCCAGAGGTTGCAGTGGGGCAGATCGAAGATGATAAATCTTATCTC
CCTGAGGTTGCAGTGGAGCAGAT
Found at i:11154540 original size:129 final size:130
Alignment explanation
Indices: 11154355--11154595 Score: 319
Period size: 129 Copynumber: 1.9 Consensus size: 130
11154345 AGATGATAAA
* * * *
11154355 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGATAATCCTATCTCCCTGAAGTTGTA
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAGAAGATAATCCTATCCCCCTGAAGTTGCA
* *
11154420 GTGGAGCGGAT-TAACG-TAATAAATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAG
66 GTGGAGCAGATCTAA-GATAATAAATCTTATCTCCCTGAAGTTGCAGTAGAGTGGATCGCATCAG
11154483 G
130 G
* * *
11154484 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTG-AGTAAGA-AGGTCTTATCCCCCTGATGTTG
1 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAG-AAGATA-ATCCTATCCCCCTGAAGTTG
* * *
11154547 CAGTGGGGCAGATCTAAGATGATAAATCTTATCTCCCTGAGGTTGCAGT
64 CAGTGGAGCAGATCTAAGATAATAAATCTTATCTCCCTGAAGTTGCAGT
11154596 GGAGCAGATT
Statistics
Matches: 96, Mismatches: 12, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
128 3 0.03
129 63 0.66
130 30 0.31
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (130 bp):
TCTTATCTCCCTGAGGTTGCAGTGGAGCAGACTGAAGAAGATAATCCTATCCCCCTGAAGTTGCA
GTGGAGCAGATCTAAGATAATAAATCTTATCTCCCTGAAGTTGCAGTAGAGTGGATCGCATCAGG
Found at i:11154638 original size:174 final size:173
Alignment explanation
Indices: 11154306--11154639 Score: 394
Period size: 174 Copynumber: 1.9 Consensus size: 173
11154296 ACTGAGTAAG
* * *
11154306 CAGGTCTTATCCCCCAGAGGTTGCAGTGGGGCAGATCGAAGATGATAAATCTTATCTCCCTGAGG
1 CAGGTCTTATCCCCCAGAGGTTGCAGTGGAGCAGATCGAAGAAGATAAATCTTATCCCCCTGAGG
* *
11154371 TTGCAGTGGAGCAGATTGAAGACGATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAACG
66 TTGCAGTGGAGCAGATTGAAGACGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAACG
*
11154436 TAATAAATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCAT
131 -AATAAATCCTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCAT
* * **
11154480 CAGGTCTTATCTCCCTGAGGTTGCAGTGGAGCAGA-CTG-AGTAAGA-AGGTCTTATCCCCCTGA
1 CAGGTCTTATCCCCCAGAGGTTGCAGTGGAGCAGATC-GAAG-AAGATAAATCTTATCCCCCTGA
* * * * *
11154542 TGTTGCAGTGGGGCAGATCT-AAGATGATAAATCTTATCTCCCTGAGGTTGCAGTGGAGCAGATT
64 GGTTGCAGTGGAGCAGAT-TGAAGACGAT-AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATT
*
11154606 GAA-GACGAT-AATCCTATCT-TACTGAGGTTGCAGT
127 -AACGA--ATAAATCCTATCTCT-CTGAAGTTGCAGT
11154640 GGAGCAGATT
Statistics
Matches: 136, Mismatches: 16, Indels: 16
0.81 0.10 0.10
Matches are distributed among these distances:
173 42 0.31
174 90 0.66
175 4 0.03
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (173 bp):
CAGGTCTTATCCCCCAGAGGTTGCAGTGGAGCAGATCGAAGAAGATAAATCTTATCCCCCTGAGG
TTGCAGTGGAGCAGATTGAAGACGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAACG
AATAAATCCTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCAT
Found at i:11154648 original size:44 final size:44
Alignment explanation
Indices: 11154268--11154649 Score: 291
Period size: 44 Copynumber: 8.7 Consensus size: 44
11154258 GCATCAGGTT
* * * **
11154268 TTATCTCCGTGAGGTTGCAGTGGAGCAGACTG-AGTAAGCA-GGTC
1 TTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAG-ACG-ATAATC
* * * * *
11154312 TTATCCCCCAGAGGTTGCAGTGGGGCAGATCGAAGATGATAAATC
1 TTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGAT-AATC
11154357 TTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGATAATC
1 TTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGATAATC
* * * *
11154401 CTATCTCCCTGAAGTTGTAGTGGAGCGGATT--A-ACGTAATAAATC
1 TTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACG--AT-AATC
* * * ** * * * **
11154445 TTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCA-TC-A-GGTC
1 TTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGATAATC
* * *
11154486 TTATCTCCCTGAGGTTGCAGTGGAGCAGACTG-AGTAAGA-AGGTC
1 TTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAG-ACGATA-ATC
* * * *
11154530 TTATCCCCCTGATGTTGCAGTGGGGCAGATCT-AAGATGATAAATC
1 TTATCTCCCTGAGGTTGCAGTGGAGCAGAT-TGAAGACGAT-AATC
11154575 TTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGATAATC
1 TTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGATAATC
* **
11154619 CTATCTTACTGAGGTTGCAGTGGAGCAGATT
1 TTATCTCCCTGAGGTTGCAGTGGAGCAGATT
11154650 AAAGCCAATC
Statistics
Matches: 271, Mismatches: 50, Indels: 34
0.76 0.14 0.10
Matches are distributed among these distances:
40 1 0.00
41 30 0.11
42 1 0.00
43 5 0.02
44 153 0.56
45 78 0.29
46 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (44 bp):
TTATCTCCCTGAGGTTGCAGTGGAGCAGATTGAAGACGATAATC
Found at i:11162811 original size:30 final size:29
Alignment explanation
Indices: 11162774--11162854 Score: 107
Period size: 25 Copynumber: 2.9 Consensus size: 29
11162764 CCAATATCTC
11162774 GATACCCATATCTTTGACTTTCCAATATTT
1 GATACCCATATCTTTGACTTTCC-ATATTT
*
11162804 TATACCCATATCTTTGAC-TT---TATTT
1 GATACCCATATCTTTGACTTTCCATATTT
*
11162829 GATACCCATATCTTTGGCTTTCCATA
1 GATACCCATATCTTTGACTTTCCATA
11162855 AATATAGATG
Statistics
Matches: 44, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
25 21 0.48
26 2 0.05
29 4 0.09
30 17 0.39
ACGTcount: A:0.25, C:0.23, G:0.07, T:0.44
Consensus pattern (29 bp):
GATACCCATATCTTTGACTTTCCATATTT
Found at i:11163442 original size:35 final size:35
Alignment explanation
Indices: 11163402--11163497 Score: 111
Period size: 35 Copynumber: 2.7 Consensus size: 35
11163392 TTCACTTGGC
* * *
11163402 TTTATTAATGGAAAATTTAGGTCTTCCTTTTTCGT
1 TTTATTAATGGAAATTTTAAGTCTTCCATTTTCGT
* ** ** *
11163437 TTTATTCATGGAAATTTTACTTCTTTGATTTTGGT
1 TTTATTAATGGAAATTTTAAGTCTTCCATTTTCGT
11163472 TTTATTAATGGAAATTTTAAGTCTTC
1 TTTATTAATGGAAATTTTAAGTCTTC
11163498 AGTTTGCTTT
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
35 49 1.00
ACGTcount: A:0.24, C:0.09, G:0.14, T:0.53
Consensus pattern (35 bp):
TTTATTAATGGAAATTTTAAGTCTTCCATTTTCGT
Found at i:11165194 original size:16 final size:15
Alignment explanation
Indices: 11165173--11165203 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
11165163 GGCATGTGTC
11165173 TATTTTTTTAAATATT
1 TATTTTTTT-AATATT
11165189 TATTTTTTTAATATT
1 TATTTTTTTAATATT
11165204 ATATACTACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTTTTTTAATATT
Found at i:11165947 original size:22 final size:22
Alignment explanation
Indices: 11165917--11165962 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
11165907 CTTCAGGATG
11165917 AAAGATAAATAATA-AATTTTAT
1 AAAGATAAA-AATATAATTTTAT
* *
11165939 AAAGTTAAAACTATAATTTTAT
1 AAAGATAAAAATATAATTTTAT
11165961 AA
1 AA
11165963 TTATATTAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (22 bp):
AAAGATAAAAATATAATTTTAT
Found at i:11167059 original size:13 final size:13
Alignment explanation
Indices: 11167043--11167067 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11167033 CAAGTATTCA
11167043 ACCCAACCCAATT
1 ACCCAACCCAATT
11167056 ACCCAACCCAAT
1 ACCCAACCCAAT
11167068 CATAAAAATT
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:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:11167105 original size:12 final size:12
Alignment explanation
Indices: 11167090--11167138 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
11167080 AAATAATTTA
*
11167090 AAAAATAAAAAT
1 AAAACTAAAAAT
*
11167102 AAAATTCTAAAACT
1 AAAA--CTAAAAAT
*
11167116 AAAACTAAAACT
1 AAAACTAAAAAT
11167128 AAAACTAAAAA
1 AAAACTAAAAA
11167139 ACATATAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
12 22 0.69
14 10 0.31
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.18
Consensus pattern (12 bp):
AAAACTAAAAAT
Found at i:11167117 original size:6 final size:6
Alignment explanation
Indices: 11167108--11167137 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
11167098 AAATAAAATT
11167108 CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAAA
11167138 AACATATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:11175841 original size:91 final size:90
Alignment explanation
Indices: 11175744--11175923 Score: 256
Period size: 91 Copynumber: 2.0 Consensus size: 90
11175734 AGAGTGACAC
* *
11175744 TATTTATGTTGTTTTAAGGGCTGATGTTTGGTGTATTAATGTAGCAAAAAAATTCTTGTTTAG-T
1 TATTTATATTGTTTTAAGGGCTGATGTTTGGTGTATTAATGCAGC-AAAAAATTCTTGTTTAGAT
* *
11175808 CGTCAATTAATGTTGTCT-AAGTGACTG
65 -GTCAATAAATGTGGTCTGAA-TGACTG
* * *
11175835 TATTTATATTGTTTTAAGGGCTGCTGTTTGGTGTATTAATGCAGCAGAAAATTGTTGTTTAGATG
1 TATTTATATTGTTTTAAGGGCTGATGTTTGGTGTATTAATGCAGCAAAAAATTCTTGTTTAGATG
11175900 TCAATAAATGTGGTCTGAATGACT
66 TCAATAAATGTGGTCTGAATGACT
11175924 TTAAATTATG
Statistics
Matches: 80, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
90 35 0.44
91 45 0.56
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.43
Consensus pattern (90 bp):
TATTTATATTGTTTTAAGGGCTGATGTTTGGTGTATTAATGCAGCAAAAAATTCTTGTTTAGATG
TCAATAAATGTGGTCTGAATGACTG
Found at i:11176984 original size:43 final size:43
Alignment explanation
Indices: 11176925--11177081 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 43
11176915 CGTGTTTTCG
* ** * * *
11176925 TGTAAGACCACATCTGGGATGTTGGCATCGATTTATGTTTACG
1 TGTAAGACCACGTCTGGGACATTGGCATTGATTTATGATTACA
* *
11176968 TGTAAGACCATGTCTGGGACATCGGCATTG-TATT-TGATT-CA
1 TGTAAGACCACGTCTGGGACATTGGCATTGAT-TTATGATTACA
* * * *
11177009 TGTAAGACC-CTGTCTGAGATAGTGGCATTGATATATGATTACA
1 TGTAAGACCAC-GTCTGGGACATTGGCATTGATTTATGATTACA
11177052 TGTAAGACCACGTCTGGGACATTGGCATTG
1 TGTAAGACCACGTCTGGGACATTGGCATTG
11177082 TACGAGTTTT
Statistics
Matches: 91, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
41 26 0.29
42 11 0.12
43 53 0.58
44 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATTGATTTATGATTACA
Found at i:11180760 original size:21 final size:21
Alignment explanation
Indices: 11180734--11180775 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
11180724 GTCTAATGGT
11180734 GGTTGTTACATCCTTTATAAA
1 GGTTGTTACATCCTTTATAAA
11180755 GGTTGTTACATCCTTTATAAA
1 GGTTGTTACATCCTTTATAAA
11180776 TCACCATATA
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:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (21 bp):
GGTTGTTACATCCTTTATAAA
Found at i:11181712 original size:11 final size:9
Alignment explanation
Indices: 11181631--11181730 Score: 75
Period size: 9 Copynumber: 11.0 Consensus size: 9
11181621 ATTTTTTAAT
11181631 ATTA-AAAA
1 ATTATAAAA
11181639 ATT-TAAAA
1 ATTATAAAA
*
11181647 A-TATGAAA
1 ATTATAAAA
*
11181655 ATTGATATGAA
1 ATT-ATA-AAA
*
11181666 CTTATAAAA
1 ATTATAAAA
11181675 ATTATTAAAA
1 ATTA-TAAAA
11181685 AGTTATAAAA
1 A-TTATAAAA
11181695 ATTATAAAA
1 ATTATAAAA
*
11181704 ATCTA-ATAA
1 AT-TATAAAA
11181713 ATTAT-AAA
1 ATTATAAAA
11181721 ATTAATAAAA
1 ATT-ATAAAA
11181731 CATATTTAAA
Statistics
Matches: 73, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
7 1 0.01
8 20 0.27
9 23 0.32
10 22 0.30
11 7 0.10
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (9 bp):
ATTATAAAA
Found at i:11181714 original size:18 final size:16
Alignment explanation
Indices: 11181693--11181729 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
11181683 AAAGTTATAA
11181693 AAATTATAAAAATCTAAT
1 AAATTAT-AAAAT-TAAT
11181711 AAATTATAAAATTAAT
1 AAATTATAAAATTAAT
11181727 AAA
1 AAA
11181730 ACATATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.37
17 5 0.26
18 7 0.37
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTATAAAATTAAT
Found at i:11182272 original size:8 final size:9
Alignment explanation
Indices: 11182221--11182424 Score: 74
Period size: 10 Copynumber: 21.7 Consensus size: 9
11182211 CCAGTTCAAT
11182221 TTTTTATAA
1 TTTTTATAA
*
11182230 GTTTATATCAA
1 -TTTTTAT-AA
* *
11182241 TTTTAATGTA
1 TTTTTAT-AA
11182251 TTTTTATAA
1 TTTTTATAA
11182260 TTTTTATAA
1 TTTTTATAA
*
11182269 TTTTTTATTA
1 -TTTTTATAA
*
11182279 TTTTTAAGAA
1 TTTTT-ATAA
* *
11182289 TTATAATACA
1 TTTTTATA-A
11182299 TATTTTAT--
1 T-TTTTATAA
** *
11182307 TTTAAATATT
1 TTTTTATA-A
11182317 TTTTTATTAA
1 TTTTTA-TAA
11182327 -TTTTATAA
1 TTTTTATAA
* *
11182335 TTTATAAGAA
1 TTT-TTATAA
11182345 TTTTTAT-A
1 TTTTTATAA
* *
11182353 TTATTACAA
1 TTTTTATAA
* *
11182362 TATTTATATT
1 TTTTTATA-A
11182372 TTTTTATAA
1 TTTTTATAA
*
11182381 TTTTAATAA
1 TTTTTATAA
* *
11182390 GTTTATATCA
1 -TTTTTATAA
*
11182400 TTTTTATTAT
1 TTTTTA-TAA
*
11182410 TTTTTATGA
1 TTTTTATAA
11182419 TTTTTA
1 TTTTTA
11182425 ATCATGTTTA
Statistics
Matches: 138, Mismatches: 41, Indels: 31
0.66 0.20 0.15
Matches are distributed among these distances:
7 4 0.03
8 10 0.07
9 52 0.38
10 64 0.46
11 8 0.06
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:11182273 original size:19 final size:19
Alignment explanation
Indices: 11182250--11182424 Score: 83
Period size: 19 Copynumber: 9.4 Consensus size: 19
11182240 ATTTTAATGT
11182250 ATTTTTATAA-TTTTTATA
1 ATTTTTATAATTTTTTATA
* * *
11182268 ATTTTTTATTATTTTTAAGA
1 A-TTTTTATAATTTTTTATA
* * *
11182288 ATTATAATACATATTTTAT-
1 ATTTTTATA-ATTTTTTATA
** *
11182307 -TTTAAATATTTTTTTATTA
1 ATTTTTATAATTTTTTA-TA
* * *
11182326 A-TTTTATAATTTATAAGA
1 ATTTTTATAATTTTTTATA
* *
11182344 ATTTTTAT-A-TTATTACA
1 ATTTTTATAATTTTTTATA
* *
11182361 ATATTTATATTTTTTTATA
1 ATTTTTATAATTTTTTATA
* * * *
11182380 ATTTTAATAAGTTTATATC
1 ATTTTTATAATTTTTTATA
* *
11182399 ATTTTTATTATTTTTTATG
1 ATTTTTATAATTTTTTATA
11182418 ATTTTTA
1 ATTTTTA
11182425 ATCATGTTTA
Statistics
Matches: 112, Mismatches: 36, Indels: 17
0.68 0.22 0.10
Matches are distributed among these distances:
17 19 0.17
18 11 0.10
19 69 0.62
20 13 0.12
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (19 bp):
ATTTTTATAATTTTTTATA
Found at i:11186140 original size:36 final size:36
Alignment explanation
Indices: 11186093--11186165 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
11186083 CTAACTACAC
11186093 TAACTGCATATGATAAATCTGGACATGAACAAACCA
1 TAACTGCATATGATAAATCTGGACATGAACAAACCA
*
11186129 TAACTGCATATGATAAATCTGGACGTGAACAAACCA
1 TAACTGCATATGATAAATCTGGACATGAACAAACCA
11186165 T
1 T
11186166 GGCTTACATG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.23
Consensus pattern (36 bp):
TAACTGCATATGATAAATCTGGACATGAACAAACCA
Found at i:11188458 original size:193 final size:193
Alignment explanation
Indices: 11188129--11188515 Score: 720
Period size: 193 Copynumber: 2.0 Consensus size: 193
11188119 ACCTGCAATT
* *
11188129 CTACGTGAAGCATTATTTCCCATCAAGACAATACCTTCAGACATTGTTTCGTAAGTTGTAAATCA
1 CTACGTGAAGCATTATTTCCCATCAACACAATACCTTCAGACATTGTTTCGTAAGTTGTAAACCA
*
11188194 ATCCCGATTGGGACTCATGTGGAAGGTACAACCCGAATCAAGAATCCACTCTTCGCTCGCTTTAG
66 ATCCCGATTGGGACTCATGTGGAAGGTACAACCCGAATCAAGAATCCACTCCTCGCTCGCTTTAG
* *
11188259 AATTATTGACAGAAGCGACTAGAAGTTTACTATCACTGTAATATTCTACAACATCAGCTTTAC
131 AATTATTGACAGAAGCGACTAGAAGTTCACTATCACTGTAATATTCTACAACATCAACTTTAC
11188322 CTACGTGAAGCATTATTTCCCATCAACACAATACCTTCAGACATTGTTTCGTAAGTTGTAAACCA
1 CTACGTGAAGCATTATTTCCCATCAACACAATACCTTCAGACATTGTTTCGTAAGTTGTAAACCA
11188387 ATCCCGATTGGGACTCATGTGGAAGGTACAACCCGAATCAAGAATCCACTCCTCGCTCGCTTTAG
66 ATCCCGATTGGGACTCATGTGGAAGGTACAACCCGAATCAAGAATCCACTCCTCGCTCGCTTTAG
*
11188452 AATTATTGACAGAAGCGACTAGAAGTTCACTATCGCTGTAATATTCTACAACATCAACTTTAC
131 AATTATTGACAGAAGCGACTAGAAGTTCACTATCACTGTAATATTCTACAACATCAACTTTAC
11188515 C
1 C
11188516 AGAATTTTCT
Statistics
Matches: 188, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
193 188 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.29
Consensus pattern (193 bp):
CTACGTGAAGCATTATTTCCCATCAACACAATACCTTCAGACATTGTTTCGTAAGTTGTAAACCA
ATCCCGATTGGGACTCATGTGGAAGGTACAACCCGAATCAAGAATCCACTCCTCGCTCGCTTTAG
AATTATTGACAGAAGCGACTAGAAGTTCACTATCACTGTAATATTCTACAACATCAACTTTAC
Found at i:11192860 original size:16 final size:17
Alignment explanation
Indices: 11192829--11192861 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11192819 AAATTGTAAC
11192829 AATAAAACGTAAAATAG
1 AATAAAACGTAAAATAG
*
11192846 AATAAAATG-AAAATAG
1 AATAAAACGTAAAATAG
11192862 GGACCGCACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.67, C:0.03, G:0.12, T:0.18
Consensus pattern (17 bp):
AATAAAACGTAAAATAG
Found at i:11194005 original size:21 final size:20
Alignment explanation
Indices: 11193979--11194043 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 20
11193969 GTTCTGCTTT
11193979 AAAAAATAAAAGTAAAAGTAA
1 AAAAAATAAAAGTAAAA-TAA
11194000 AAAAAATAAAAACG-AAAA-AA
1 AAAAAAT-AAAA-GTAAAATAA
*
11194020 ATAAAAATAAAAATAAAAATAA
1 A-AAAAATAAAAGT-AAAATAA
11194042 AA
1 AA
11194044 CAACTACCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
20 7 0.19
21 18 0.49
22 11 0.30
23 1 0.03
ACGTcount: A:0.82, C:0.02, G:0.05, T:0.12
Consensus pattern (20 bp):
AAAAAATAAAAGTAAAATAA
Found at i:11194009 original size:15 final size:15
Alignment explanation
Indices: 11193981--11194043 Score: 60
Period size: 15 Copynumber: 4.3 Consensus size: 15
11193971 TCTGCTTTAA
*
11193981 AAAATAAAAGTAAAAGT
1 AAAA-AAAA-TAAAAAT
*
11193998 AAAAAAAATAAAAAC
1 AAAAAAAATAAAAAT
*
11194013 GAAAAAAATAAAAAT
1 AAAAAAAATAAAAAT
11194028 ---AAAAATAAAAAT
1 AAAAAAAATAAAAAT
11194040 AAAA
1 AAAA
11194044 CAACTACCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
12 12 0.31
15 19 0.49
16 4 0.10
17 4 0.10
ACGTcount: A:0.81, C:0.02, G:0.05, T:0.13
Consensus pattern (15 bp):
AAAAAAAATAAAAAT
Found at i:11194010 original size:6 final size:6
Alignment explanation
Indices: 11193980--11194043 Score: 62
Period size: 6 Copynumber: 10.7 Consensus size: 6
11193970 TTCTGCTTTA
* *
11193980 AAAAAT AAAAGT AAAAGT AAAAA- AAATAA- AAACGAA- AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA-AAT AAA--AAT AAAAAT AAAAAT
11194028 AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAA
11194044 CAACTACCTT
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
5 5 0.10
6 42 0.81
7 5 0.10
ACGTcount: A:0.81, C:0.02, G:0.05, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:11194816 original size:22 final size:21
Alignment explanation
Indices: 11194765--11194818 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
11194755 TTTAATTAAA
** *
11194765 ATTAAAATTAAAATTTTTTTT
1 ATTAAAATTAAAATAATTGTT
*
11194786 AATAAAATTAAAACTAATTGTT
1 ATTAAAATTAAAA-TAATTGTT
11194808 ATTAAAATTAA
1 ATTAAAATTAA
11194819 TTGTTAGTAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (21 bp):
ATTAAAATTAAAATAATTGTT
Found at i:11194831 original size:16 final size:16
Alignment explanation
Indices: 11194794--11194833 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
11194784 TTAATAAAAT
* *
11194794 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
11194810 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
11194826 TAAAATTA
1 TAAAATTA
11194834 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:11194863 original size:59 final size:64
Alignment explanation
Indices: 11194800--11195013 Score: 242
Period size: 59 Copynumber: 3.5 Consensus size: 64
11194790 AAATTAAAAC
* *
11194800 TAATTGTTATTAAAAT-T-A-A-TTG-TTAGTAAAATTATCAAATTATTAATTGTTAATTGTAT
1 TAATTGTTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTGTTAATTGTAT
*
11194859 TAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTG-T-ATT-AA
1 TAATTG-T-TAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTGTTAATTGTA
11194921 T
64 T
* *
11194922 T-GTTG-TAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTG-T-ATT-AAT
1 TAATTGTTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTGTTAATTGTAT
* *
11194981 T-GTTG-TAACAAAATCTAACATTTGATTAGTAAA
1 TAATTGTTAATAAAATCTAACATTTGATTAGTAAA
11195014 ACAAACTTGA
Statistics
Matches: 143, Mismatches: 5, Indels: 14
0.88 0.03 0.09
Matches are distributed among these distances:
59 92 0.64
60 1 0.01
61 8 0.06
62 4 0.03
63 4 0.03
64 4 0.03
65 4 0.03
66 26 0.18
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (64 bp):
TAATTGTTAATAAAATCTAACATTTGATTAGTAAATTTATCAAATTATTAATTGTTAATTGTAT
Found at i:11195049 original size:59 final size:57
Alignment explanation
Indices: 11194844--11195013 Score: 277
Period size: 59 Copynumber: 2.9 Consensus size: 57
11194834 TCAAATTATT
* *
11194844 AATTGTTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA--TATCA
*
11194903 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA--TATCA
11194962 AATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
1 AATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAA
11195014 ACAAACTTGA
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 109 1.00
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (57 bp):
AATTATTAATTGTATTAATTGTTGTAACAAAATCTAACATTTGATTAGTAAATATCA
Found at i:11195104 original size:23 final size:24
Alignment explanation
Indices: 11195078--11195130 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
11195068 GTAAATAAAC
11195078 TTAAAATAAAAAACTAT-TATAT-T
1 TTAAAATAAAAAA-TATATATATAT
*
11195101 TTAAAA-ATAAAATATATATATAT
1 TTAAAATAAAAAATATATATATAT
11195124 TTAAAAT
1 TTAAAAT
11195131 TTTTCGGGCC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 3 0.12
22 10 0.38
23 13 0.50
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
TTAAAATAAAAAATATATATATAT
Found at i:11195109 original size:24 final size:23
Alignment explanation
Indices: 11195080--11195129 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
11195070 AAATAAACTT
11195080 AAAATAAAAAACTAT-TATATTTTA
1 AAAATAAAAAA-TATATATA-TTTA
*
11195104 AAAATAAAATATATATATATTTA
1 AAAATAAAAAATATATATATTTA
11195127 AAA
1 AAA
11195130 TTTTTCGGGC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (23 bp):
AAAATAAAAAATATATATATTTA
Found at i:11198172 original size:2 final size:2
Alignment explanation
Indices: 11198165--11198208 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
11198155 AGTTGAAGTA
11198165 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
11198207 AG
1 AG
11198209 GTGTAAAACC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11201443 original size:19 final size:19
Alignment explanation
Indices: 11201405--11201443 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
11201395 ACATGTCAAT
* * *
11201405 ATTTAATTATTTTTTTAAA
1 ATTTAATAATATTTTAAAA
11201424 ATTTAATAATATTTTAAAA
1 ATTTAATAATATTTTAAAA
11201443 A
1 A
11201444 ATATTTTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTAATAATATTTTAAAA
Found at i:11201470 original size:40 final size:40
Alignment explanation
Indices: 11201402--11201479 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 40
11201392 CAGACATGTC
*
11201402 AATATTTAATTATTTTTTTAAAATTTAATAATATTTTAAAA
1 AATATTTAATTATATTTTTAAAATTTAATAAT-TTTTAAAA
*
11201443 AATATTT-TTTATATTTTTAATAA-TTAATAATTTTTAA
1 AATATTTAATTATATTTTTAA-AATTTAATAATTTTTAA
11201480 TTTTTAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 6 0.18
40 19 0.56
41 9 0.26
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (40 bp):
AATATTTAATTATATTTTTAAAATTTAATAATTTTTAAAA
Found at i:11202663 original size:55 final size:56
Alignment explanation
Indices: 11202604--11202709 Score: 153
Period size: 56 Copynumber: 1.9 Consensus size: 56
11202594 CTTTTACTTT
11202604 CCCCAAAA-AAAATTTACTTCTCCTCAAA-CCCCCAAAACTTTTTTCCTTTTATCCC
1 CCCCAAAATAAAATTTACTTC-CCTCAAACCCCCCAAAACTTTTTTCCTTTTATCCC
** * *
11202659 CCCCAAAATAACTTTTACTTCCCTCAAACCCCCCCAAATTTTTTTCCTTTT
1 CCCCAAAATAAAATTTACTTCCCTCAAACCCCCCAAAACTTTTTTCCTTTT
11202710 GCTTTCCCCT
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
55 15 0.33
56 30 0.67
ACGTcount: A:0.28, C:0.37, G:0.00, T:0.35
Consensus pattern (56 bp):
CCCCAAAATAAAATTTACTTCCCTCAAACCCCCCAAAACTTTTTTCCTTTTATCCC
Found at i:11204141 original size:2 final size:2
Alignment explanation
Indices: 11204134--11204182 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
11204124 TAATACCCTT
11204134 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
11204176 TC TC TC T
1 TC TC TC T
11204183 TTCGGCTACC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:11210337 original size:6 final size:6
Alignment explanation
Indices: 11210326--11210366 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
11210316 TACATATTAT
11210326 TACACA TACACA TACACA TACACA TACACA TACACA TACAC
1 TACACA TACACA TACACA TACACA TACACA TACACA TACAC
11210367 TTTTACTTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.49, C:0.34, G:0.00, T:0.17
Consensus pattern (6 bp):
TACACA
Found at i:11212610 original size:22 final size:20
Alignment explanation
Indices: 11212571--11212610 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
11212561 ATTATTGATA
*
11212571 AATTGATGAATTATGCTTGG
1 AATTGATGAATTAAGCTTGG
11212591 AATTGATAGATATTAAGCTT
1 AATTGAT-GA-ATTAAGCTT
11212611 AGATCACACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 2 0.12
22 8 0.47
ACGTcount: A:0.35, C:0.05, G:0.20, T:0.40
Consensus pattern (20 bp):
AATTGATGAATTAAGCTTGG
Found at i:11213802 original size:45 final size:45
Alignment explanation
Indices: 11213736--11213864 Score: 179
Period size: 45 Copynumber: 2.9 Consensus size: 45
11213726 ATACGCTAAG
*
11213736 ATGAGTAAGACCATAACTGAAAGATGCTATGACATCATGATA-AA
1 ATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGATAGAA
* * *
11213780 TATGAGTAAGACCTTAGTTGAAAGATTCTATGACATCATGATAGAA
1 -ATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGATAGAA
* * *
11213826 ATGAGTAAGACCATGGCTGAAAAATGCTATGAAATCATG
1 ATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATG
11213865 TGAAAGTACA
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
45 71 0.97
46 2 0.03
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.26
Consensus pattern (45 bp):
ATGAGTAAGACCATAGCTGAAAGATGCTATGACATCATGATAGAA
Found at i:11219470 original size:62 final size:61
Alignment explanation
Indices: 11219382--11219497 Score: 180
Period size: 62 Copynumber: 1.9 Consensus size: 61
11219372 ATTAATATAA
* * *
11219382 TATATATCAAGATAAATATTAGATTAAATTTAATATTAAATTTTATTAAAATAATAGAATGTT
1 TATATATCAAGATAAACATTAAATTAAATTTAATATTAAA--CTATTAAAATAATAGAATGTT
11219445 TATATA-CAAGATAAACATTAAATTAAATTTAATATTAAACTATTAAAATAATA
1 TATATATCAAGATAAACATTAAATTAAATTTAATATTAAACTATTAAAATAATA
11219498 TTATTTTTGG
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
60 13 0.26
62 31 0.62
63 6 0.12
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.40
Consensus pattern (61 bp):
TATATATCAAGATAAACATTAAATTAAATTTAATATTAAACTATTAAAATAATAGAATGTT
Found at i:11220989 original size:30 final size:30
Alignment explanation
Indices: 11220943--11221013 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
11220933 GAATAAAATG
*
11220943 CTCACTTT-ACTCTTTTACAAGATTATAGA
1 CTCACTTTGATTCTTTTACAAGATTATAGA
* *
11220972 CTCACTTTGATTCTTTTACAGGATTATAGG
1 CTCACTTTGATTCTTTTACAAGATTATAGA
11221002 CTCA-TTTAGATT
1 CTCACTTT-GATT
11221014 ATCTACTGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 11 0.30
30 26 0.70
ACGTcount: A:0.27, C:0.18, G:0.11, T:0.44
Consensus pattern (30 bp):
CTCACTTTGATTCTTTTACAAGATTATAGA
Found at i:11228305 original size:25 final size:25
Alignment explanation
Indices: 11228272--11228324 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
11228262 TTAGGACGTT
11228272 TTTAGCCGCTATAACTAGCTTATTG
1 TTTAGCCGCTATAACTAGCTTATTG
11228297 TTTAGCCGCTATAACTAGCTTATTG
1 TTTAGCCGCTATAACTAGCTTATTG
11228322 TTT
1 TTT
11228325 GGAGGAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.43
Consensus pattern (25 bp):
TTTAGCCGCTATAACTAGCTTATTG
Found at i:11230856 original size:22 final size:23
Alignment explanation
Indices: 11230794--11230856 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 23
11230784 ACAAAGAACA
**
11230794 CAAAGTACT-AAGTAGAGAGTAT
1 CAAAGTACTGAACAAGAGAGTAT
*
11230816 CGAAGTACTGAACAA-AGAGTAT
1 CAAAGTACTGAACAAGAGAGTAT
*
11230838 CAAAGTATTGAA-AAGAGAG
1 CAAAGTACTGAACAAGAGAG
11230857 CACAAAAGTG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
21 2 0.06
22 29 0.85
23 3 0.09
ACGTcount: A:0.48, C:0.10, G:0.24, T:0.19
Consensus pattern (23 bp):
CAAAGTACTGAACAAGAGAGTAT
Found at i:11230995 original size:17 final size:18
Alignment explanation
Indices: 11230975--11231009 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
11230965 TATACATTAT
11230975 CATAACATCT-CCATGAA
1 CATAACATCTACCATGAA
*
11230992 CATATCATCTACCATGAA
1 CATAACATCTACCATGAA
11231010 ACGTTTCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.40, C:0.29, G:0.06, T:0.26
Consensus pattern (18 bp):
CATAACATCTACCATGAA
Found at i:11234408 original size:33 final size:33
Alignment explanation
Indices: 11234328--11234410 Score: 89
Period size: 33 Copynumber: 2.5 Consensus size: 33
11234318 ACACATGCTC
* *
11234328 GTGTGGTCCACACAGCCCAAAATGCCCTAAGCT
1 GTGTAGTCCACACGGCCCAAAATGCCCTAAGCT
* *
11234361 GTGTAGTCCGCACGGCCCAAAATGGCCT-AGACT
1 GTGTAGTCCACACGGCCCAAAATGCCCTAAG-CT
*
11234394 GTGT-GTCATACACGGCC
1 GTGTAGTC-CACACGGCC
11234411 GTGTGTCACA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
32 5 0.12
33 37 0.88
ACGTcount: A:0.24, C:0.31, G:0.25, T:0.19
Consensus pattern (33 bp):
GTGTAGTCCACACGGCCCAAAATGCCCTAAGCT
Done.