Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 346 of 352
Found at i:110636521 original size:62 final size:63
Alignment explanation
Indices: 110636401--110636524 Score: 189
Period size: 63 Copynumber: 2.0 Consensus size: 63
110636391 AAGAACCTCC
*
110636401 ATTTTTTTTTCTTCACACAAAAAAGAGTTTAGAATATTAGGAGTGATGTAGCTCAATTTATAT
1 ATTTTTTTTTCTTCACACAAAAAAGAGCTTAGAATATTAGGAGTGATGTAGCTCAATTTATAT
* **
110636464 ATTTTTTTTTCTTCACACGACCAAGAGCTTAGAATATTATGG-GTGA-GTAGCTCAATTTATA
1 ATTTTTTTTTCTTCACACAAAAAAGAGCTTAGAATATTA-GGAGTGATGTAGCTCAATTTATA
110636525 CATATACAAG
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
62 15 0.27
63 39 0.70
64 2 0.04
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.40
Consensus pattern (63 bp):
ATTTTTTTTTCTTCACACAAAAAAGAGCTTAGAATATTAGGAGTGATGTAGCTCAATTTATAT
Found at i:110648649 original size:3 final size:3
Alignment explanation
Indices: 110648641--110648669 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
110648631 ATCACATGTT
110648641 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
110648670 TGGGTGTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:110648856 original size:73 final size:74
Alignment explanation
Indices: 110648674--110648856 Score: 341
Period size: 74 Copynumber: 2.5 Consensus size: 74
110648664 ATTATTTGGG
*
110648674 TGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTTATTT
1 TGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTTATTT
110648739 TTAAGTGAA
66 TTAAGTGAA
110648748 TGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTTA-TT
1 TGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTTATTT
*
110648812 TTAAGTGGA
66 TTAAGTGAA
110648821 TGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
110648857 GTCAAGTTGT
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
73 46 0.43
74 61 0.57
ACGTcount: A:0.28, C:0.07, G:0.23, T:0.42
Consensus pattern (74 bp):
TGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTTATTT
TTAAGTGAA
Found at i:110651137 original size:17 final size:18
Alignment explanation
Indices: 110651104--110651137 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
110651094 TGTTTTCTTT
*
110651104 TTTTTTTTAATATATTTC
1 TTTTTTTTAATAGATTTC
110651122 TTTTTTTTAAT-GATTT
1 TTTTTTTTAATAGATTT
110651138 ATTCAATCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTTTTTTAATAGATTTC
Found at i:110657770 original size:113 final size:113
Alignment explanation
Indices: 110657567--110657792 Score: 398
Period size: 113 Copynumber: 2.0 Consensus size: 113
110657557 CTAAAAAGAC
*
110657567 CGTTTTGTATACTAATAGAGGAATATCAGCCTTATTATATAAAGTTGTATTTCAATTTTCAACCA
1 CGTTTTGTATACTAATAGAGGAATATCAGCCTTATTATATAAAGTTGCATTTCAATTTTCAACCA
* *
110657632 TCAGTGTCAGTTAAGTTCAAGTGGTGTATGTCTGAGGTGCAATGAGAA
66 TCAGTGTCAGTTAAGTTCAAATGGTGTATGTATGAGGTGCAATGAGAA
* *
110657680 CGTTTTGTATACTAATAGAGGAATATCAGCTTTATTATATAAAGTTGCATTTCAATTTTCAGCCA
1 CGTTTTGTATACTAATAGAGGAATATCAGCCTTATTATATAAAGTTGCATTTCAATTTTCAACCA
*
110657745 TCAGTGTCAGTTAAGTTCAAATGGTGTATGTATGAGGTGCAGTGAGAA
66 TCAGTGTCAGTTAAGTTCAAATGGTGTATGTATGAGGTGCAATGAGAA
110657793 ATGGTATTAT
Statistics
Matches: 107, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 107 1.00
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (113 bp):
CGTTTTGTATACTAATAGAGGAATATCAGCCTTATTATATAAAGTTGCATTTCAATTTTCAACCA
TCAGTGTCAGTTAAGTTCAAATGGTGTATGTATGAGGTGCAATGAGAA
Found at i:110662231 original size:3 final size:3
Alignment explanation
Indices: 110662223--110662250 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
110662213 AAGTATTTTC
110662223 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
110662251 ACAAACTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:110667697 original size:20 final size:20
Alignment explanation
Indices: 110667674--110667711 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
110667664 TTAAAAAGAT
*
110667674 TTTTTAAA-ATTATTTTTAA
1 TTTTTAAATAATATTTTTAA
110667693 TTTTTAAATAATATTTTTA
1 TTTTTAAATAATATTTTTA
110667712 CATATATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTAAATAATATTTTTAA
Found at i:110669675 original size:21 final size:20
Alignment explanation
Indices: 110669645--110669688 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
110669635 ATAATGCATT
*
110669645 TTAAAAAAATATATTTATTGA
1 TTAAAAAAATATAATT-TTGA
* *
110669666 TTAAATAAATTTAATTTTGA
1 TTAAAAAAATATAATTTTGA
110669686 TTA
1 TTA
110669689 CATACAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (20 bp):
TTAAAAAAATATAATTTTGA
Found at i:110672910 original size:7 final size:7
Alignment explanation
Indices: 110672898--110672928 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
110672888 CCATCTCCAT
110672898 TTCTTTC
1 TTCTTTC
*
110672905 TTCTTTA
1 TTCTTTC
110672912 TTCTTTC
1 TTCTTTC
110672919 TTCTTTC
1 TTCTTTC
110672926 TTC
1 TTC
110672929 CCTGGATTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.71
Consensus pattern (7 bp):
TTCTTTC
Found at i:110680372 original size:21 final size:21
Alignment explanation
Indices: 110680340--110680380 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
110680330 GAACATTTGG
110680340 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
110680361 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
110680381 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:110684254 original size:29 final size:30
Alignment explanation
Indices: 110684219--110684280 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
110684209 TGTAATAATG
* *
110684219 ATATATACACAATATGGTA-TTAAGAATAT
1 ATATATACACAATATAGTATTTAAAAATAT
110684248 ATATATACACAATATAGTATTTAAAAATAT
1 ATATATACACAATATAGTATTTAAAAATAT
110684278 ATA
1 ATA
110684281 CATAAGATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 18 0.60
30 12 0.40
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.35
Consensus pattern (30 bp):
ATATATACACAATATAGTATTTAAAAATAT
Found at i:110684296 original size:24 final size:22
Alignment explanation
Indices: 110684269--110684359 Score: 58
Period size: 24 Copynumber: 3.8 Consensus size: 22
110684259 ATATAGTATT
110684269 TAAAAATATATACATAAGATGGTA
1 TAAAAATATATACATAA-AT-GTA
* *
110684293 TAAAAACATGTACATGGAAATGTA
1 TAAAAATATATACAT--AAATGTA
* *
110684317 TAAGAA-ATATACATAATTAGTAATA
1 TAAAAATATATACATAA--A-T-GTA
110684342 TTAAAAATATATACATAA
1 -TAAAAATATATACATAA
110684360 CATACATAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
21 2 0.04
23 8 0.15
24 22 0.42
25 4 0.08
26 7 0.13
27 10 0.19
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.30
Consensus pattern (22 bp):
TAAAAATATATACATAAATGTA
Found at i:110684477 original size:14 final size:14
Alignment explanation
Indices: 110684460--110684558 Score: 64
Period size: 14 Copynumber: 7.0 Consensus size: 14
110684450 ACATATATAC
110684460 ATATATAAATAATA
1 ATATATAAATAATA
*
110684474 ATATTAGAAAT-ATA
1 ATA-TATAAATAATA
*
110684488 CA-ATATAATATTATA
1 -ATATATAA-ATAATA
*
110684503 A-ATATACAT-ATA
1 ATATATAAATAATA
110684515 ATAGTATAAAATAATA
1 ATA-TAT-AAATAATA
*
110684531 A-ATAATATATAATA
1 ATAT-ATAAATAATA
*
110684545 ATATATAAAAAATA
1 ATATATAAATAATA
110684559 TAATATTGAA
Statistics
Matches: 68, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
12 4 0.06
13 7 0.10
14 35 0.51
15 18 0.26
16 4 0.06
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (14 bp):
ATATATAAATAATA
Found at i:110684495 original size:21 final size:21
Alignment explanation
Indices: 110684462--110684517 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
110684452 ATATATACAT
110684462 ATATA-AATAATAATATTAGAA
1 ATATACAAT-ATAATATTAGAA
*
110684483 ATATACAATATAATATTATAA
1 ATATACAATATAATATTAGAA
110684504 ATATAC-ATATAATA
1 ATATACAATATAATA
110684518 GTATAAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
20 8 0.24
21 22 0.67
22 3 0.09
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.36
Consensus pattern (21 bp):
ATATACAATATAATATTAGAA
Found at i:110684539 original size:17 final size:18
Alignment explanation
Indices: 110684489--110684549 Score: 70
Period size: 17 Copynumber: 3.3 Consensus size: 18
110684479 AGAAATATAC
*
110684489 AATATAATATTATAAATAT
1 AATATAATAATATAAA-AT
*
110684508 ACATATAATAGTATAAAAT
1 A-ATATAATAATATAAAAT
*
110684527 AATA-AATAATATATAAT
1 AATATAATAATATAAAAT
110684544 AATATA
1 AATATA
110684550 TAAAAAATAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 15 0.41
18 4 0.11
19 4 0.11
20 14 0.38
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
AATATAATAATATAAAAT
Found at i:110684559 original size:19 final size:20
Alignment explanation
Indices: 110684512--110684610 Score: 66
Period size: 20 Copynumber: 5.0 Consensus size: 20
110684502 AAATATACAT
110684512 ATAATAGTATAA-AATAATAA
1 ATAATA-TATAATAATAATAA
110684532 ATAATATATAATAATATATAA
1 ATAATATATAATAATA-ATAA
*
110684553 A-AA-ATATAATATTGAA-AA
1 ATAATATATAATAAT-AATAA
* *
110684571 CATATATATATAA-CATATATGA
1 -ATA-ATATATAATAATA-ATAA
*
110684593 AGAATATATAAT-ATAATA
1 ATAATATATAATAATAATA
110684611 TTTAAACATT
Statistics
Matches: 63, Mismatches: 6, Indels: 21
0.70 0.07 0.23
Matches are distributed among these distances:
18 2 0.03
19 18 0.29
20 26 0.41
21 10 0.16
22 7 0.11
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (20 bp):
ATAATATATAATAATAATAA
Found at i:110684664 original size:3 final size:3
Alignment explanation
Indices: 110684656--110684961 Score: 74
Period size: 3 Copynumber: 101.7 Consensus size: 3
110684646 AAATAACGAC
* *
110684656 TAA TAA TAA TAA TAA TAA TAA TAT TAGA -AA TAA TAA TGA -AA TATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TA-A
* * * * *
110684701 TAA AAA GAA -AA T-A TAA T-A TAA TAG TAA TAT TAA -AA TAA -AG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
110684744 TTAA -AA TAG TAC T-A TATA TAA -ACA TATA TACA TACA TATA CAA T-A
1 -TAA TAA TAA TAA TAA TA-A TAA TA-A TA-A TA-A TA-A TA-A TAA TAA
* *
110684789 TACA TACA CTAA TAT TAA TAA TAA TAA TAA -AA CTGGA -AA TAA TAA
1 TA-A TA-A -TAA TAA TAA TAA TAA TAA TAA TAA -T-AA TAA TAA TAA
* * * * **
110684834 TAA TTAA TAA TTA TAA TACG TTA GAA -AA TAA TTAA T-A TGT TAA TAA
1 TAA -TAA TAA TAA TAA TA-A TAA TAA TAA TAA -TAA TAA TAA TAA TAA
* * * * *
110684880 AAA TAA TAG TAA TGAA -AA TAA TAC TAA CAG TAA TAA TAA -ATA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
* *
110684925 TAA TAGA -AA TAA -AA TAA TAG TAA TAA TAT TAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
110684962 TGTAAAAAAA
Statistics
Matches: 221, Mismatches: 48, Indels: 68
0.66 0.14 0.20
Matches are distributed among these distances:
2 30 0.14
3 149 0.67
4 39 0.18
5 3 0.01
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:110684886 original size:36 final size:35
Alignment explanation
Indices: 110684798--110684901 Score: 90
Period size: 36 Copynumber: 3.0 Consensus size: 35
110684788 ATACATACAC
* * *
110684798 TAAT-ATTAATAATAATAATA-AAACTGGAAATAA-
1 TAATAATTAATAAAAATAATAGTAA-TGAAAATAAT
** *
110684831 TAATAATTAATAATTATAATACGTTA-GAAAATAAT
1 TAATAATTAATAAAAATAATA-GTAATGAAAATAAT
*
110684866 TAATATGTTAATAAAAATAATAGTAATGAAAATAAT
1 TAATA-ATTAATAAAAATAATAGTAATGAAAATAAT
110684902 ACTAACAGTA
Statistics
Matches: 57, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
33 4 0.07
34 22 0.39
35 8 0.14
36 23 0.40
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.34
Consensus pattern (35 bp):
TAATAATTAATAAAAATAATAGTAATGAAAATAAT
Found at i:110684940 original size:14 final size:14
Alignment explanation
Indices: 110684917--110684950 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
110684907 CAGTAATAAT
*
110684917 AAATATAATAATAG
1 AAATAAAATAATAG
110684931 AAATAAAATAATAG
1 AAATAAAATAATAG
*
110684945 TAATAA
1 AAATAA
110684951 TATTAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (14 bp):
AAATAAAATAATAG
Found at i:110685373 original size:36 final size:34
Alignment explanation
Indices: 110685294--110685373 Score: 83
Period size: 36 Copynumber: 2.3 Consensus size: 34
110685284 CGAATTGGGT
*
110685294 TAGG-CCAAAACGACGTCGTTTTGGGGCTTAAGTA
1 TAGGCCCAAAACGACGTCATTTTGGGGCTTAAG-A
*
110685328 TAGCCCCCAAAACGACGTCATTTTGGAAGGCTATAA-A
1 TAG-GCCCAAAACGACGTCATTTTGG--GGCT-TAAGA
110685365 TAGGCCCAA
1 TAGGCCCAA
110685374 TTTCAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
34 3 0.08
36 24 0.63
37 4 0.11
38 4 0.11
39 3 0.08
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.23
Consensus pattern (34 bp):
TAGGCCCAAAACGACGTCATTTTGGGGCTTAAGA
Found at i:110687473 original size:158 final size:158
Alignment explanation
Indices: 110687185--110687502 Score: 555
Period size: 158 Copynumber: 2.0 Consensus size: 158
110687175 TTTTAGAGGG
*
110687185 AGGGTGATTCGATTTAAAATATAAGAGCGAGGTTACTATTTGGTTAGTGAAATTAGTGTGTGAGA
1 AGGGTGATTCGATTTAAAATATAAGAGCAAGGTTACTATTTGGTTAGTGAAATTAGTGTGTGAGA
* * * *
110687250 CTTATATTAGAGCTTGTACTTATTGAAGTATAATAGATTAACTATTAGGGCAAGGCCTCGCAGAC
66 CTTATATCAGAGCTTGTACTTATTGAAGTATAATAGATAAACTATCAGGGCAAGGCCTCACAGAC
110687315 TTAGGAAATTTCCGAACTACGTGAACAA
131 TTAGGAAATTTCCGAACTACGTGAACAA
*
110687343 AGGGTGATTCGATTTAAAATATAAGAGCAAGGTTACTATTTGGTTAGTGAATTTAGTGTGTGAGA
1 AGGGTGATTCGATTTAAAATATAAGAGCAAGGTTACTATTTGGTTAGTGAAATTAGTGTGTGAGA
* *
110687408 CTTATATCAGAGCTTGTACTTATTGAAGTATAGTGGATAAACTATCAGGGCAAGGCCTCACAGAC
66 CTTATATCAGAGCTTGTACTTATTGAAGTATAATAGATAAACTATCAGGGCAAGGCCTCACAGAC
*
110687473 TTAGGAAATTTCCGAACTGCGTGAACAA
131 TTAGGAAATTTCCGAACTACGTGAACAA
110687501 AG
1 AG
110687503 TTTTTGGTAT
Statistics
Matches: 151, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
158 151 1.00
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.31
Consensus pattern (158 bp):
AGGGTGATTCGATTTAAAATATAAGAGCAAGGTTACTATTTGGTTAGTGAAATTAGTGTGTGAGA
CTTATATCAGAGCTTGTACTTATTGAAGTATAATAGATAAACTATCAGGGCAAGGCCTCACAGAC
TTAGGAAATTTCCGAACTACGTGAACAA
Found at i:110688706 original size:30 final size:30
Alignment explanation
Indices: 110688672--110688735 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 30
110688662 AAATCAGCTT
110688672 AAGAACTTGAGAAAAAACCAGAGAATGAAG
1 AAGAACTTGAGAAAAAACCAGAGAATGAAG
* *
110688702 AAGAATTTGTGAAAAAACCAGAGAATGAAG
1 AAGAACTTGAGAAAAAACCAGAGAATGAAG
110688732 AAGA
1 AAGA
110688736 TTTTATTACA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.56, C:0.08, G:0.23, T:0.12
Consensus pattern (30 bp):
AAGAACTTGAGAAAAAACCAGAGAATGAAG
Found at i:110695831 original size:47 final size:47
Alignment explanation
Indices: 110695768--110695986 Score: 330
Period size: 47 Copynumber: 4.7 Consensus size: 47
110695758 CCCTTCGGGA
* * *
110695768 CTTATCACATTTATACACTTTCACATCCATCACATTGACCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
110695815 CTTATCACATACATACACTTTCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
110695862 CTTATCTCATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
110695909 CTTATCACATATATACACTTTCACATTCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
110695956 CTTATCACATATATATATTTTCACATTCATC
1 CTTATCACATATATACACTTTCACATTCATC
110695987 GCATAAAATC
Statistics
Matches: 155, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 155 1.00
ACGTcount: A:0.28, C:0.29, G:0.07, T:0.36
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:110702653 original size:4 final size:4
Alignment explanation
Indices: 110702644--110702673 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
110702634 TGAATGGCAT
110702644 CATA CATA CATA CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CATA CA
110702674 CTGTTAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (4 bp):
CATA
Found at i:110707732 original size:21 final size:22
Alignment explanation
Indices: 110707703--110707743 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
110707693 AAATGGGGTC
* *
110707703 TTAACTTTTTTTTCTATTTTAT
1 TTAACTTTTTTCTATATTTTAT
110707725 TTAA-TTTTTTCTATATTTT
1 TTAACTTTTTTCTATATTTT
110707744 CAAATAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (22 bp):
TTAACTTTTTTCTATATTTTAT
Found at i:110716228 original size:21 final size:20
Alignment explanation
Indices: 110716197--110716237 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
110716187 GTTCAATGAG
*
110716197 TTTTTATAATTAATTTTTAA
1 TTTTTATAATTAATTCTTAA
*
110716217 TTTTTATAAATTTATTCTTAA
1 TTTTTAT-AATTAATTCTTAA
110716238 ATCAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTATAATTAATTCTTAA
Found at i:110716257 original size:18 final size:19
Alignment explanation
Indices: 110716226--110716269 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
110716216 ATTTTTATAA
* *
110716226 ATTTATTCTTAAATCAAAT-
1 ATTT-TTCTGAAATAAAATC
110716245 ATTTTTCTGAAATAAAATC
1 ATTTTTCTGAAATAAAATC
110716264 ATTTTT
1 ATTTTT
110716270 TTCTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (19 bp):
ATTTTTCTGAAATAAAATC
Found at i:110717441 original size:20 final size:20
Alignment explanation
Indices: 110717416--110717557 Score: 85
Period size: 20 Copynumber: 7.0 Consensus size: 20
110717406 GTACTAAAGT
110717416 TTATGAGGAAATATCAAAAA
1 TTATGAGGAAATATCAAAAA
* * *
110717436 TTATGAGTAAGTACCAAAAA
1 TTATGAGGAAATATCAAAAA
* * *
110717456 ATACGAGGAAATATAAAAAAA
1 TTATGAGGAAATAT-CAAAAA
110717477 TCT-TGA--AAAGTATCAAAAAAA
1 T-TATGAGGAAA-TATC--AAAAA
* * *
110717498 ATATGAGGAAATACCGAAAA
1 TTATGAGGAAATATCAAAAA
* *
110717518 TTATAAGGAAGA-ATAAAAAA
1 TTATGAGGAA-ATATCAAAAA
* *
110717538 TTAGGAGGAAATAGCAAAAA
1 TTATGAGGAAATATCAAAAA
110717558 CAATATGAGT
Statistics
Matches: 88, Mismatches: 24, Indels: 20
0.67 0.18 0.15
Matches are distributed among these distances:
19 4 0.05
20 61 0.69
21 16 0.18
22 4 0.05
23 3 0.03
ACGTcount: A:0.58, C:0.06, G:0.16, T:0.20
Consensus pattern (20 bp):
TTATGAGGAAATATCAAAAA
Found at i:110717983 original size:21 final size:19
Alignment explanation
Indices: 110717938--110717974 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
110717928 AACAACTTAC
* *
110717938 GAGGAAATATAAAAAAATT
1 GAGGAAACACAAAAAAATT
110717957 GAGGAAACACAAAAAAAT
1 GAGGAAACACAAAAAAAT
110717975 ATGAAGGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.05, G:0.16, T:0.14
Consensus pattern (19 bp):
GAGGAAACACAAAAAAATT
Found at i:110719779 original size:29 final size:29
Alignment explanation
Indices: 110719723--110719801 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 29
110719713 ATCTCAAAAT
110719723 TATACATGAACTTTGATTCAATGTGCAATT-
1 TATACATGAACTTTGATT--ATGTGCAATTA
110719753 TGATACATGAACTTTGATT-TGATGCAATTA
1 T-ATACATGAACTTTGATTATG-TGCAATTA
110719783 TATACATGAATCTTTGATT
1 TATACATGAA-CTTTGATT
110719802 GTGGTTCAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
28 2 0.04
29 16 0.36
30 10 0.22
31 17 0.38
ACGTcount: A:0.33, C:0.11, G:0.14, T:0.42
Consensus pattern (29 bp):
TATACATGAACTTTGATTATGTGCAATTA
Found at i:110721953 original size:31 final size:30
Alignment explanation
Indices: 110721918--110721988 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
110721908 TTAGTAAAGG
* * *
110721918 TAAAATTATACTTTGACCCTCTTAAAATTTA
1 TAAAATTATAATTTAACCCT-TTAAAAATTA
* *
110721949 TAAAATTTTAATTTAATCCTTTAAAAATTA
1 TAAAATTATAATTTAACCCTTTAAAAATTA
*
110721979 TAAAAATATA
1 TAAAATTATA
110721989 GGTTATTCAA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
30 17 0.52
31 16 0.48
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.42
Consensus pattern (30 bp):
TAAAATTATAATTTAACCCTTTAAAAATTA
Found at i:110723185 original size:17 final size:18
Alignment explanation
Indices: 110723158--110723191 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
110723148 TACAAAATTC
*
110723158 AACAAATTACAACTATAA
1 AACAAATTACAAATATAA
110723176 AACAAA-TACAAATATA
1 AACAAATTACAAATATA
110723192 TTTAAACACC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.65, C:0.15, G:0.00, T:0.21
Consensus pattern (18 bp):
AACAAATTACAAATATAA
Found at i:110726937 original size:19 final size:19
Alignment explanation
Indices: 110726913--110726952 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
110726903 GATTCTGATC
*
110726913 ATTTATATGTAAATATTAT
1 ATTTATATGCAAATATTAT
110726932 ATTTATATGCAAATATTAT
1 ATTTATATGCAAATATTAT
110726951 AT
1 AT
110726953 AATAAGATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (19 bp):
ATTTATATGCAAATATTAT
Found at i:110732395 original size:25 final size:23
Alignment explanation
Indices: 110732357--110732409 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 23
110732347 AAATATAAGA
*
110732357 AATAATAGAATAATGGCAA-TAAT
1 AATAATAGAATAATAG-AATTAAT
110732380 AATAAGTAGTAATAATAGAATTAAT
1 AATAA-TAG-AATAATAGAATTAAT
110732405 AATAA
1 AATAA
110732410 AAATAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 5 0.19
24 5 0.19
25 16 0.62
ACGTcount: A:0.58, C:0.02, G:0.11, T:0.28
Consensus pattern (23 bp):
AATAATAGAATAATAGAATTAAT
Found at i:110736250 original size:17 final size:17
Alignment explanation
Indices: 110736228--110736260 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
110736218 AAAATTCCTA
110736228 AATTTTCTATTTTGATG
1 AATTTTCTATTTTGATG
110736245 AATTTTCTATTTTGAT
1 AATTTTCTATTTTGAT
110736261 CGATGAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.06, G:0.09, T:0.61
Consensus pattern (17 bp):
AATTTTCTATTTTGATG
Found at i:110741105 original size:60 final size:59
Alignment explanation
Indices: 110741025--110741158 Score: 142
Period size: 60 Copynumber: 2.2 Consensus size: 59
110741015 AAAAATATAT
* * * * * * *
110741025 ATTTTTAAATTTTTACAATTAGGACTAAATTGATAGATTTTGTAAATATTGAGAGTTAA
1 ATTTTTAATTTTTTACAATTAGAACTAAAATGACAAATTTTGTAAACATTGAGAGCTAA
* * * *
110741084 ATTTATTAATTTTTTAGAATTATAACTAAAATGGCAAATTTTGTAAACATTGAGGGCTAA
1 ATTT-TTAATTTTTTACAATTAGAACTAAAATGACAAATTTTGTAAACATTGAGAGCTAA
*
110741144 ATTTGTTCATTTTTT
1 ATTT-TTAATTTTTT
110741159 TATATTTAGA
Statistics
Matches: 61, Mismatches: 13, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
59 4 0.07
60 57 0.93
ACGTcount: A:0.37, C:0.05, G:0.13, T:0.46
Consensus pattern (59 bp):
ATTTTTAATTTTTTACAATTAGAACTAAAATGACAAATTTTGTAAACATTGAGAGCTAA
Found at i:110761622 original size:31 final size:31
Alignment explanation
Indices: 110761565--110761625 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
110761555 GTAGCAAGTT
* * *
110761565 GACTTTTTTTGAAAGGTTGATGGTCAAATTA
1 GACTTTTTCTAAAAGGTTGAAGGTCAAATTA
110761596 GACTTTTTCTAAAAGGTT-AAGAGTCAAATT
1 GACTTTTTCTAAAAGGTTGAAG-GTCAAATT
110761626 TAACTAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (31 bp):
GACTTTTTCTAAAAGGTTGAAGGTCAAATTA
Found at i:110763334 original size:17 final size:20
Alignment explanation
Indices: 110763299--110763339 Score: 61
Period size: 17 Copynumber: 2.2 Consensus size: 20
110763289 TATAATTTTA
110763299 AAAAATATATATAATACATC
1 AAAAATATATATAATACATC
110763319 AAAAATA-ATA-AA-ACATC
1 AAAAATATATATAATACATC
110763336 AAAA
1 AAAA
110763340 TAAATATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.43
18 2 0.10
19 3 0.14
20 7 0.33
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.22
Consensus pattern (20 bp):
AAAAATATATATAATACATC
Found at i:110763431 original size:30 final size:30
Alignment explanation
Indices: 110763397--110763459 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
110763387 ACTTAACAAG
110763397 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* *
110763427 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
110763457 CAA
1 CAA
110763460 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:110765331 original size:3 final size:3
Alignment explanation
Indices: 110765323--110765348 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
110765313 ACCACCGCTT
110765323 TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TG
110765349 GGGTTGATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:110767434 original size:3 final size:3
Alignment explanation
Indices: 110767426--110767453 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
110767416 TTACTCTCAA
110767426 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
110767454 ACTGTTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:110779647 original size:20 final size:19
Alignment explanation
Indices: 110779632--110779675 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 19
110779622 ATGTTTACTG
110779632 TATGATCCATATGTTTTAAA
1 TATGATCCATATG-TTTAAA
110779652 TATGATCCATATGTTTTAAA
1 TATGATCCATATG-TTTAAA
110779672 TATG
1 TATG
110779676 CTTCATGTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.45
Consensus pattern (19 bp):
TATGATCCATATGTTTAAA
Found at i:110780974 original size:18 final size:18
Alignment explanation
Indices: 110780951--110780990 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
110780941 TAAATATATC
*
110780951 ATTTGATATATGAGTTTA
1 ATTTGATATATGAGATTA
* *
110780969 ATTTGATCTTTGAGATTA
1 ATTTGATATATGAGATTA
110780987 ATTT
1 ATTT
110780991 TAGTGTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.53
Consensus pattern (18 bp):
ATTTGATATATGAGATTA
Found at i:110781270 original size:13 final size:13
Alignment explanation
Indices: 110781252--110781276 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
110781242 TTTACGGTAA
110781252 AAAAATTAAATTG
1 AAAAATTAAATTG
110781265 AAAAATTAAATT
1 AAAAATTAAATT
110781277 TTAAAGGGAT
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:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
AAAAATTAAATTG
Found at i:110783051 original size:19 final size:19
Alignment explanation
Indices: 110783000--110783059 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 19
110782990 TTAGTAAATT
110783000 TATTTTT-AT-ATTTTTT-
1 TATTTTTAATAATTTTTTA
**
110783016 TAGATTTAATATTATTTTTTA
1 TATTTTTAATA--ATTTTTTA
110783037 TATTTTTAATAATTTTTTA
1 TATTTTTAATAATTTTTTA
110783056 -ATTT
1 TATTT
110783060 GAAATGGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
16 5 0.14
17 2 0.06
18 4 0.11
19 8 0.23
20 7 0.20
21 9 0.26
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (19 bp):
TATTTTTAATAATTTTTTA
Found at i:110783071 original size:37 final size:38
Alignment explanation
Indices: 110783000--110783091 Score: 93
Period size: 37 Copynumber: 2.4 Consensus size: 38
110782990 TTAGTAAATT
* *
110783000 TATTTTTATATTTTTTTAGATTTAATATTATTTTT-TA
1 TATTTTTATAATTTTTTAGATTTAATATGATTTTTGTA
*
110783037 TATTTTTAATAATTTTTTA-ATTTGAA-ATGGTTTTTGTA
1 TATTTTT-ATAATTTTTTAGATTT-AATATGATTTTTGTA
*
110783075 -ATTTTTTATGATTTTTT
1 TA-TTTTTATAATTTTTT
110783092 TTAAACTTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
37 28 0.60
38 19 0.40
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (38 bp):
TATTTTTATAATTTTTTAGATTTAATATGATTTTTGTA
Found at i:110783089 original size:19 final size:19
Alignment explanation
Indices: 110783002--110783091 Score: 51
Period size: 19 Copynumber: 4.8 Consensus size: 19
110782992 AGTAAATTTA
110783002 TTTTTAT-ATTTTTTTAGAT
1 TTTTTATGA-TTTTTTAGAT
** * *
110783021 TTAATATTATTTTTTATAT
1 TTTTTATGATTTTTTAGAT
* *
110783040 TTTTAATAATTTTTTA-AT
1 TTTTTATGATTTTTTAGAT
*** *
110783058 TTGAAATGGTTTTTGTA-AT
1 TTTTTATGATTTTT-TAGAT
110783077 TTTTTATGATTTTTT
1 TTTTTATGATTTTTT
110783092 TTAAACTTTT
Statistics
Matches: 54, Mismatches: 15, Indels: 5
0.73 0.20 0.07
Matches are distributed among these distances:
18 13 0.24
19 40 0.74
20 1 0.02
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.68
Consensus pattern (19 bp):
TTTTTATGATTTTTTAGAT
Found at i:110783092 original size:38 final size:38
Alignment explanation
Indices: 110783002--110783092 Score: 98
Period size: 38 Copynumber: 2.4 Consensus size: 38
110782992 AGTAAATTTA
*
110783002 TTTTTATATTTTTTTAGATTTAATATTATTTTTTATAT
1 TTTTTATATTTTTTTAGATTTAATATGATTTTTTATAT
* * *
110783040 TTTTAATAATTTTTTA-ATTTGAA-ATGGTTTTTGTA-AT
1 TTTTTATATTTTTTTAGATTT-AATATGATTTTT-TATAT
110783077 TTTTTATGATTTTTTT
1 TTTTTAT-ATTTTTTT
110783093 TAAACTTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
37 19 0.43
38 25 0.57
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (38 bp):
TTTTTATATTTTTTTAGATTTAATATGATTTTTTATAT
Found at i:110783443 original size:11 final size:11
Alignment explanation
Indices: 110783429--110783460 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
110783419 TAACATTTAT
110783429 TTATAAAATTA
1 TTATAAAATTA
110783440 TTATAAAA-TA
1 TTATAAAATTA
110783450 TT-TAAAATTA
1 TTATAAAATTA
110783460 T
1 T
110783461 ACATTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.25
10 7 0.35
11 8 0.40
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TTATAAAATTA
Found at i:110789060 original size:2 final size:2
Alignment explanation
Indices: 110789055--110789088 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
110789045 ATATATATGT
110789055 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
110789089 TCCCCAAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:110791376 original size:32 final size:32
Alignment explanation
Indices: 110791333--110791393 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
110791323 TTTGGGGTCC
110791333 AATTTGATACCTGAAT-TTTATTATTTTTTCCT
1 AATTTGATACCT-AATCTTTATTATTTTTTCCT
* * *
110791365 AATTTGGTACCTAATCTTTTTTTTTTTTT
1 AATTTGATACCTAATCTTTATTATTTTTT
110791394 GAGATTTGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 3 0.12
32 22 0.88
ACGTcount: A:0.21, C:0.11, G:0.07, T:0.61
Consensus pattern (32 bp):
AATTTGATACCTAATCTTTATTATTTTTTCCT
Found at i:110791803 original size:6 final size:6
Alignment explanation
Indices: 110791792--110792475 Score: 570
Period size: 6 Copynumber: 116.5 Consensus size: 6
110791782 TGCCAAATTA
*
110791792 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGGG AGAGAG AGAGAG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
* * * * * * * * * * *
110791840 AGGGAG AGAGTG GGAGGG AGGGAG GGAGGG AGGGGG AGGGAG AGGGAG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
* * * * * *
110791888 AGGGGG AGAGAG AGAGAG AG-GGG AGAGGG AGAGGG AGAGAG AGAGGG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
* * *
110791935 AGAGAG AGAGGG AGAGAG AGAGAG AGAGAG A-AG-G AGAGGG AGAGGG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
* * * *
110791981 AGAGAG GGAGGG AGAGAG AGAGAG AGAGAG AGAGGG AGAAAG AGAGAG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
* * * * * *
110792029 GGAGGG TGAGAG -GA-AG AGA-AG -GAGGG AGAGAG GGAGAG GGAGAG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
* * * * * *
110792073 AGAGGG AG-GGG AGAGGG AGAGAG GGAGAG AGGGAG AGAGAG AGGGAG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
* * * * * * *
110792120 GGAGGG AGAGAG AGAGGG AGAGAG -GAGGG GGAGAG GGAGAG GGAGAG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
* *
110792167 AGAGAG GGAGAG AGAGAG AG-GAG AGAGGG AGAGAG AGAGAG AGAGAG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
* * * * * *
110792214 GGAGAG AGAGAG AGAGGG AGAGAG GGAGGG AGAGAG TGAGAG GGAGAG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
* * * * * *
110792262 AGAGAG AGAGGG AGAAAG AGAGAG GGAGGG TGAGGG AGAGAG AG-GA-
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
* * * * *
110792308 AGAGA- AG-GAG GGAGAG AGGGAG AGAGGG AGGGAG AGAGAG -GAGGG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
* * * * * *
110792353 GGAGAG AGAGGG AGAGGG AGAGGG AGAGAG GGAGAG AGGGAG AGAGAG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
* * * * * * * *
110792401 AGGGAG GGAGGG AGAGAG AGAGGG AGTGAG AGGGAG AGGGAG AGGGAG
1 AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG AGAGAG
110792449 AGAGAG AGAGAG AGAGAG AGAGAG AGA
1 AGAGAG AGAGAG AGAGAG AGAGAG AGA
110792476 ATGAGAGTCA
Statistics
Matches: 554, Mismatches: 111, Indels: 26
0.80 0.16 0.04
Matches are distributed among these distances:
4 10 0.02
5 40 0.07
6 504 0.91
ACGTcount: A:0.39, C:0.00, G:0.60, T:0.01
Consensus pattern (6 bp):
AGAGAG
Found at i:110791805 original size:8 final size:8
Alignment explanation
Indices: 110791792--110792475 Score: 570
Period size: 8 Copynumber: 87.4 Consensus size: 8
110791782 TGCCAAATTA
110791792 AGAGAGAG
1 AGAGAGAG
110791800 AGAGAGAG
1 AGAGAGAG
110791808 AGAGAGAG
1 AGAGAGAG
110791816 AGAGAGAG
1 AGAGAGAG
*
110791824 AGGGAGAG
1 AGAGAGAG
110791832 AGAGAGAG
1 AGAGAGAG
*
110791840 AGGGAGAG
1 AGAGAGAG
* *
110791848 AGTGGGAG
1 AGAGAGAG
* *
110791856 GGAGGGAG
1 AGAGAGAG
* *
110791864 GGAGGGAG
1 AGAGAGAG
* * *
110791872 GGGGAGGG
1 AGAGAGAG
*
110791880 AGAGGGAG
1 AGAGAGAG
* *
110791888 AGGGGGAG
1 AGAGAGAG
110791896 AGAGAGAG
1 AGAGAGAG
*
110791904 AGAG-GGG
1 AGAGAGAG
*
110791911 AGAGGGAG
1 AGAGAGAG
*
110791919 AGGGAGAG
1 AGAGAGAG
*
110791927 AGAGAGGG
1 AGAGAGAG
110791935 AGAGAGAG
1 AGAGAGAG
*
110791943 AGGGAGAG
1 AGAGAGAG
110791951 AGAGAGAG
1 AGAGAGAG
110791959 AGAGAGA-
1 AGAGAGAG
110791966 AG-GAGAG
1 AGAGAGAG
* *
110791973 GGAGAGGG
1 AGAGAGAG
*
110791981 AGAGAGGG
1 AGAGAGAG
*
110791989 AGGGAGAG
1 AGAGAGAG
110791997 AGAGAGAG
1 AGAGAGAG
110792005 AGAGAGAG
1 AGAGAGAG
* *
110792013 AGGGAGAA
1 AGAGAGAG
110792021 AGAGAGAG
1 AGAGAGAG
* * *
110792029 GGAGGGTG
1 AGAGAGAG
110792037 AGAG-GA-
1 AGAGAGAG
110792043 AGAGA-AG
1 AGAGAGAG
*
110792050 -GAGGGAG
1 AGAGAGAG
*
110792057 AGAGGGAG
1 AGAGAGAG
*
110792065 AGGGAGAG
1 AGAGAGAG
*
110792073 AGAGGGAG
1 AGAGAGAG
*
110792081 -GGGAGAG
1 AGAGAGAG
*
110792088 GGAGAGAG
1 AGAGAGAG
*
110792096 GGAGAGAG
1 AGAGAGAG
*
110792104 GGAGAGAG
1 AGAGAGAG
*
110792112 AGAGGGAG
1 AGAGAGAG
* *
110792120 GGAGGGAG
1 AGAGAGAG
110792128 AGAGAGAG
1 AGAGAGAG
*
110792136 GGAGAGAG
1 AGAGAGAG
* *
110792144 -GAGGGGG
1 AGAGAGAG
*
110792151 AGAGGGAG
1 AGAGAGAG
*
110792159 AGGGAGAG
1 AGAGAGAG
*
110792167 AGAGAGGG
1 AGAGAGAG
110792175 AGAGAGAG
1 AGAGAGAG
110792183 AGAG-GAG
1 AGAGAGAG
*
110792190 AGAGGGAG
1 AGAGAGAG
110792198 AGAGAGAG
1 AGAGAGAG
110792206 AGAGAGAG
1 AGAGAGAG
*
110792214 GGAGAGAG
1 AGAGAGAG
110792222 AGAGAGAG
1 AGAGAGAG
*
110792230 GGAGAGAG
1 AGAGAGAG
* *
110792238 GGAGGGAG
1 AGAGAGAG
*
110792246 AGAGTGAG
1 AGAGAGAG
*
110792254 AGGGAGAG
1 AGAGAGAG
110792262 AGAGAGAG
1 AGAGAGAG
* *
110792270 AGGGAGAA
1 AGAGAGAG
110792278 AGAGAGAG
1 AGAGAGAG
* * *
110792286 GGAGGGTG
1 AGAGAGAG
*
110792294 AGGGAGAG
1 AGAGAGAG
110792302 AGAG-GA-
1 AGAGAGAG
110792308 AGAGA-AG
1 AGAGAGAG
*
110792315 -GAGGGAG
1 AGAGAGAG
*
110792322 AGAGGGAG
1 AGAGAGAG
*
110792330 AGAGGGAG
1 AGAGAGAG
*
110792338 GGAGAGAG
1 AGAGAGAG
*
110792346 AG-GAGGG
1 AGAGAGAG
*
110792353 GGAGAGAG
1 AGAGAGAG
*
110792361 AGGGAGAG
1 AGAGAGAG
* *
110792369 GGAGAGGG
1 AGAGAGAG
*
110792377 AGAGAGGG
1 AGAGAGAG
*
110792385 AGAGAGGG
1 AGAGAGAG
110792393 AGAGAGAG
1 AGAGAGAG
* *
110792401 AGGGAGGG
1 AGAGAGAG
*
110792409 AGGGAGAG
1 AGAGAGAG
*
110792417 AGAGAGGG
1 AGAGAGAG
*
110792425 AGTGAGAG
1 AGAGAGAG
* *
110792433 GGAGAGGG
1 AGAGAGAG
*
110792441 AGAGGGAG
1 AGAGAGAG
110792449 AGAGAGAG
1 AGAGAGAG
110792457 AGAGAGAG
1 AGAGAGAG
110792465 AGAGAGAG
1 AGAGAGAG
110792473 AGA
1 AGA
110792476 ATGAGAGTCA
Statistics
Matches: 548, Mismatches: 113, Indels: 30
0.79 0.16 0.04
Matches are distributed among these distances:
6 20 0.04
7 38 0.07
8 490 0.89
ACGTcount: A:0.39, C:0.00, G:0.60, T:0.01
Consensus pattern (8 bp):
AGAGAGAG
Found at i:110795315 original size:4 final size:4
Alignment explanation
Indices: 110795306--110795335 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
110795296 TGCTTAAAGT
110795306 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA AT
110795336 CAAAGTTGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Found at i:110795693 original size:20 final size:20
Alignment explanation
Indices: 110795668--110795705 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
110795658 CACTGAAAAC
110795668 ATATTATCATCTTATTTTAT
1 ATATTATCATCTTATTTTAT
110795688 ATATTATCATCTTATTTT
1 ATATTATCATCTTATTTT
110795706 TGGGTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.00, T:0.61
Consensus pattern (20 bp):
ATATTATCATCTTATTTTAT
Found at i:110796319 original size:12 final size:13
Alignment explanation
Indices: 110796302--110796339 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
110796292 TAAACATATG
110796302 TTAAAAATTAAT-
1 TTAAAAATTAATA
*
110796314 TTAAAAATAAATA
1 TTAAAAATTAATA
110796327 TTATAAAATTAAT
1 TTA-AAAATTAAT
110796340 GATTTTGCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 3 0.14
14 8 0.36
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TTAAAAATTAATA
Found at i:110797518 original size:80 final size:82
Alignment explanation
Indices: 110797378--110797547 Score: 249
Period size: 80 Copynumber: 2.0 Consensus size: 82
110797368 ATAATTATTT
110797378 TTTATTATTGAATTAGTGTCGTAGAGCCAAGAGTTACGGAACGAACCATTTTAGTATTATAAATA
1 TTTATTATTGAATTAGTGTCGTAGA--CAAGAGTTACGGAACGAA-CA--TTAGTATTATAAATA
110797443 TATAAAAATTGTGTTGATGAAA
61 TATAAAAATTGTGTTGATGAAA
110797465 TTTATTATTGAATTAAGTGTCGTAGA-AA-AGTTAACGGAACGAA-A-TAGTATTATAAATATAT
1 TTTATTATTGAATT-AGTGTCGTAGACAAGAGTT-ACGGAACGAACATTAGTATTATAAATATAT
110797526 AAAAATTGTGTTGATGAAA
64 AAAAATTGTGTTGATGAAA
110797545 TTT
1 TTT
110797548 TTTAATAAAA
Statistics
Matches: 81, Mismatches: 0, Indels: 11
0.88 0.00 0.12
Matches are distributed among these distances:
80 39 0.48
83 1 0.01
84 4 0.05
85 12 0.15
87 14 0.17
88 11 0.14
ACGTcount: A:0.40, C:0.06, G:0.18, T:0.36
Consensus pattern (82 bp):
TTTATTATTGAATTAGTGTCGTAGACAAGAGTTACGGAACGAACATTAGTATTATAAATATATAA
AAATTGTGTTGATGAAA
Found at i:110800086 original size:17 final size:16
Alignment explanation
Indices: 110800049--110800079 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
110800039 CCGAGAAATA
*
110800049 AAAAAAAAAAAAAGAG
1 AAAAGAAAAAAAAGAG
110800065 AAAAGAAAAAAAAGA
1 AAAAGAAAAAAAAGA
110800080 AGCAAAGCTT
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:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAAAGAG
Found at i:110804279 original size:29 final size:29
Alignment explanation
Indices: 110804237--110804294 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
110804227 GCGCGAAAGG
110804237 GACGCCCTAAGCCGAAACCCTTTTCCTTT
1 GACGCCCTAAGCCGAAACCCTTTTCCTTT
110804266 GACGCCCTAAGCCGAAACCCTTTTCCTTT
1 GACGCCCTAAGCCGAAACCCTTTTCCTTT
110804295 CTTTTTTTTT
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:0.21, C:0.38, G:0.14, T:0.28
Consensus pattern (29 bp):
GACGCCCTAAGCCGAAACCCTTTTCCTTT
Found at i:110808246 original size:24 final size:25
Alignment explanation
Indices: 110808214--110808264 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 25
110808204 ATATGGTACG
110808214 CAAGGAATAGTAAAT-TTCCTGACA
1 CAAGGAATAGTAAATATTCCTGACA
*
110808238 CAAGGAATAGTAATTATTCCTGACA
1 CAAGGAATAGTAAATATTCCTGACA
110808263 CA
1 CA
110808265 TTCCTAATAC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (25 bp):
CAAGGAATAGTAAATATTCCTGACA
Found at i:110812543 original size:5 final size:5
Alignment explanation
Indices: 110812533--110812568 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
110812523 TTATGTTTTA
110812533 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
110812569 AAACTAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:110816637 original size:8 final size:8
Alignment explanation
Indices: 110816626--110816650 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
110816616 GTTTAGTATT
110816626 TTATTATA
1 TTATTATA
110816634 TTATTATA
1 TTATTATA
110816642 TTATTATA
1 TTATTATA
110816650 T
1 T
110816651 AATAAAGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTATTATA
Found at i:110816683 original size:5 final size:5
Alignment explanation
Indices: 110816673--110816703 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
110816663 TTATGTTTTA
110816673 ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
110816704 AAACTAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:110816744 original size:21 final size:20
Alignment explanation
Indices: 110816711--110816750 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
110816701 TATAAACTAA
*
110816711 AGAAACAAATGAAAGGAAAT
1 AGAAACAAATGAAACGAAAT
110816731 AGAAACAGAATGAAACGAAA
1 AGAAACA-AATGAAACGAAA
110816751 CAGAGAGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.65, C:0.07, G:0.20, T:0.07
Consensus pattern (20 bp):
AGAAACAAATGAAACGAAAT
Found at i:110821476 original size:13 final size:13
Alignment explanation
Indices: 110821458--110821485 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
110821448 TATTGATAAT
110821458 TAAATCACAATTA
1 TAAATCACAATTA
110821471 TAAATCACAATTA
1 TAAATCACAATTA
110821484 TA
1 TA
110821486 TTGATAATTA
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:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAATCACAATTA
Found at i:110821504 original size:17 final size:17
Alignment explanation
Indices: 110821482--110821529 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
110821472 AAATCACAAT
*
110821482 TATATTGATAATTAAAA
1 TATATTGAAAATTAAAA
* *
110821499 TATATTTAAAATTAAAT
1 TATATTGAAAATTAAAA
*
110821516 TAAATCTGAAAATT
1 TATAT-TGAAAATT
110821530 TAACCATGAG
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 18 0.72
18 7 0.28
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (17 bp):
TATATTGAAAATTAAAA
Found at i:110825136 original size:35 final size:34
Alignment explanation
Indices: 110825090--110825428 Score: 401
Period size: 35 Copynumber: 9.7 Consensus size: 34
110825080 TTTCCTCATT
* *
110825090 GAAATACCATACCTACATTTCACAACTCGGTATGG
1 GAAATACCATACCTACGTTTCACAACTCAGTAT-G
*
110825125 GAAATGCCATACCTACGTTTCACAACTCAGTATG
1 GAAATACCATACCTACGTTTCACAACTCAGTATG
* * *
110825159 GTCAATACCATACCTAGGTTTCACAACTCGGTATAG
1 G-AAATACCATACCTACGTTTCACAACTCAGTAT-G
** *
110825195 TTAATACCATACCTACGTTTCACAACTTAGTATG
1 GAAATACCATACCTACGTTTCACAACTCAGTATG
* *
110825229 GATGATACCGTACCTACGTTTCACAACTCAGTATG
1 GA-AATACCATACCTACGTTTCACAACTCAGTATG
* *
110825264 GATGATACCGTACCTACGTTTCACAACTCAGTAT-
1 GA-AATACCATACCTACGTTTCACAACTCAGTATG
*
110825298 GAATGATACCGTACCTACGTTTCACAACTCAGTATG
1 GAA--ATACCATACCTACGTTTCACAACTCAGTATG
* * *
110825334 GATGATACCGTACCTATGTTTCACAACTCAGTATG
1 GA-AATACCATACCTACGTTTCACAACTCAGTATG
* *
110825369 GTTAATACCATACTTACGTTTCACAACTCAGTATG
1 G-AAATACCATACCTACGTTTCACAACTCAGTATG
*
110825404 GTTAATACCATACCTACGTTTCACA
1 G-AAATACCATACCTACGTTTCACA
110825429 CTTTGCCATG
Statistics
Matches: 270, Mismatches: 26, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
34 5 0.02
35 262 0.97
36 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (34 bp):
GAAATACCATACCTACGTTTCACAACTCAGTATG
Found at i:110825440 original size:105 final size:105
Alignment explanation
Indices: 110825092--110825428 Score: 478
Period size: 105 Copynumber: 3.2 Consensus size: 105
110825082 TCCTCATTGA
* ** * * *
110825092 AATACCATACCTACATTTCACAACTCGGTATGGGA-AATGCCATACCTACGTTTCACAACTCAGT
1 AATACCATACCTACGTTTCACAACTTAGTAT-GGATGATACCGTACCTACGTTTCACAACTCAGT
* * * *
110825156 ATGGTCAATACCATACCTAGGTTTCACAACTCGGTATAGTT
65 ATGGTTAATACCATACCTACGTTTCACAACTCAGTATGGTT
110825197 AATACCATACCTACGTTTCACAACTTAGTATGGATGATACCGTACCTACGTTTCACAACTCAGTA
1 AATACCATACCTACGTTTCACAACTTAGTATGGATGATACCGTACCTACGTTTCACAACTCAGTA
* * * **
110825262 TGGATGATACCGTACCTACGTTTCACAACTCAGTATGAAT
66 TGGTTAATACCATACCTACGTTTCACAACTCAGTATGGTT
* * * *
110825302 GATACCGTACCTACGTTTCACAACTCAGTATGGATGATACCGTACCTATGTTTCACAACTCAGTA
1 AATACCATACCTACGTTTCACAACTTAGTATGGATGATACCGTACCTACGTTTCACAACTCAGTA
*
110825367 TGGTTAATACCATACTTACGTTTCACAACTCAGTATGGTT
66 TGGTTAATACCATACCTACGTTTCACAACTCAGTATGGTT
110825407 AATACCATACCTACGTTTCACA
1 AATACCATACCTACGTTTCACA
110825429 CTTTGCCATG
Statistics
Matches: 204, Mismatches: 27, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
104 3 0.01
105 201 0.99
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (105 bp):
AATACCATACCTACGTTTCACAACTTAGTATGGATGATACCGTACCTACGTTTCACAACTCAGTA
TGGTTAATACCATACCTACGTTTCACAACTCAGTATGGTT
Found at i:110830118 original size:16 final size:17
Alignment explanation
Indices: 110830089--110830124 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
110830079 TATTATGGAT
*
110830089 ATATATGTGTAAATGTG
1 ATATATGTGCAAATGTG
110830106 ATAT-TGTGCAAATGTG
1 ATATATGTGCAAATGTG
110830122 ATA
1 ATA
110830125 ATTGGATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.36, C:0.03, G:0.22, T:0.39
Consensus pattern (17 bp):
ATATATGTGCAAATGTG
Found at i:110830983 original size:5 final size:5
Alignment explanation
Indices: 110830973--110830997 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
110830963 CCAACTTGTA
110830973 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
110830998 ATATACCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:110831872 original size:40 final size:38
Alignment explanation
Indices: 110831821--110831933 Score: 109
Period size: 39 Copynumber: 2.9 Consensus size: 38
110831811 TCCAGTCACT
* * *
110831821 AGCACAAAGCCTTCGGGACTTTAAGCCCAGATATATTCCC
1 AGCACATAGCCTAC-GGACTTTAAGTCCAGATATATT-CC
* * *
110831861 AGCACGTAGCCTACGGACCTTAAGTCCGGATATAATTCC
1 AGCACATAGCCTACGGACTTTAAGTCCAGATAT-ATTCC
* * * *
110831900 TGCATATAGCCTGCGAACTTTAAGTCCAGATATA
1 AGCACATAGCCTACGGACTTTAAGTCCAGATATA
110831934 ATTCTCAAAT
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
38 1 0.02
39 44 0.75
40 14 0.24
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (38 bp):
AGCACATAGCCTACGGACTTTAAGTCCAGATATATTCC
Found at i:110842674 original size:4 final size:4
Alignment explanation
Indices: 110842667--110842697 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
110842657 GTATACATGC
110842667 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATG
110842698 GGTTCATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:110847834 original size:12 final size:12
Alignment explanation
Indices: 110847811--110847840 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
110847801 GTAAATACCT
110847811 ATAAAA-TAATA
1 ATAAAATTAATA
110847822 ATAAAATTAATA
1 ATAAAATTAATA
110847834 ATAAAAT
1 ATAAAAT
110847841 AAGAGTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.33
12 12 0.67
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
ATAAAATTAATA
Found at i:110848563 original size:13 final size:13
Alignment explanation
Indices: 110848537--110848574 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
110848527 TTCATTAAGA
* *
110848537 AATTTTAAAAAAT
1 AATTTTATATAAT
110848550 AATTTTATATAAT
1 AATTTTATATAAT
110848563 -ATTTTATATAAT
1 AATTTTATATAAT
110848575 TTTATAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATTTTATATAAT
Found at i:110849232 original size:17 final size:18
Alignment explanation
Indices: 110849206--110849240 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
110849196 AATCAAAAAT
*
110849206 TAAATTATAAAAA-TATA
1 TAAATCATAAAAAGTATA
110849223 TAAATCATAAAAAGTATA
1 TAAATCATAAAAAGTATA
110849241 ATATGACATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (18 bp):
TAAATCATAAAAAGTATA
Found at i:110850527 original size:16 final size:16
Alignment explanation
Indices: 110850506--110850536 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
110850496 AAGTGAGACT
110850506 AAAATTTAATTTTTAA
1 AAAATTTAATTTTTAA
110850522 AAAATTTAATTTTTA
1 AAAATTTAATTTTTA
110850537 TATTCTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AAAATTTAATTTTTAA
Found at i:110851700 original size:7 final size:7
Alignment explanation
Indices: 110851688--110851712 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
110851678 AAAAAAGGGT
110851688 AAAAGAA
1 AAAAGAA
110851695 AAAAGAA
1 AAAAGAA
110851702 AAAAGAA
1 AAAAGAA
110851709 AAAA
1 AAAA
110851713 AAATGAAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:110852098 original size:6 final size:6
Alignment explanation
Indices: 110852084--110852113 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
110852074 GAAGGAAGGA
*
110852084 AGGGGG AGGGTG AGGGTG AGGGTG AGGGTG
1 AGGGTG AGGGTG AGGGTG AGGGTG AGGGTG
110852114 GCTTGAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.70, T:0.13
Consensus pattern (6 bp):
AGGGTG
Found at i:110852563 original size:26 final size:26
Alignment explanation
Indices: 110852533--110852589 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
110852523 TATTTTTTCA
*
110852533 ATAAATAAAAAATAAGGAATATACTT
1 ATAAATAAAAAAGAAGGAATATACTT
* * * *
110852559 ATAAATTAAAAAGAATGTATATATTT
1 ATAAATAAAAAAGAAGGAATATACTT
110852585 ATAAA
1 ATAAA
110852590 CTATTATTAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.32
Consensus pattern (26 bp):
ATAAATAAAAAAGAAGGAATATACTT
Found at i:110853400 original size:52 final size:52
Alignment explanation
Indices: 110853342--110853461 Score: 186
Period size: 52 Copynumber: 2.3 Consensus size: 52
110853332 ATATAATAAT
* *
110853342 AAAATTATATTTTAACCCTCCTAAAAAATTTTTATTCTTTTTTAGTTCCCAA
1 AAAATTATATTTTAACCCTCCTAAAAAATTGTTATTCCTTTTTAGTTCCCAA
* **
110853394 AAAATTATACTTTAACCCTCCTAAAAAATTGTTATTCCTTTTTAGTTCCCCT
1 AAAATTATATTTTAACCCTCCTAAAAAATTGTTATTCCTTTTTAGTTCCCAA
*
110853446 AAAATAATATTTTAAC
1 AAAATTATATTTTAAC
110853462 TCCCCCGAGC
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.43
Consensus pattern (52 bp):
AAAATTATATTTTAACCCTCCTAAAAAATTGTTATTCCTTTTTAGTTCCCAA
Found at i:110857043 original size:22 final size:21
Alignment explanation
Indices: 110857014--110857054 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
110857004 TTCGAGTTTC
110857014 TGTCAAAA-TTTAAGGCATTGT
1 TGTCAAAACTTT-AGGCATTGT
110857035 TGTCTAAAACTTTAGGCATT
1 TGTC-AAAACTTTAGGCATT
110857055 TGAGAAGGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.22
22 11 0.61
23 3 0.17
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.39
Consensus pattern (21 bp):
TGTCAAAACTTTAGGCATTGT
Found at i:110860794 original size:3 final size:3
Alignment explanation
Indices: 110860786--110860813 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
110860776 TTTAGAAGTA
110860786 CGG CGG CGG CGG CGG CGG CGG CGG CGG C
1 CGG CGG CGG CGG CGG CGG CGG CGG CGG C
110860814 AGCGAGGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.36, G:0.64, T:0.00
Consensus pattern (3 bp):
CGG
Found at i:110861694 original size:6 final size:6
Alignment explanation
Indices: 110861683--110861717 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
110861673 TAATCTTCAT
110861683 TCCCCA TCCCCA TCCCCA TCCCCA TCCCCA TCCCC
1 TCCCCA TCCCCA TCCCCA TCCCCA TCCCCA TCCCC
110861718 CTCAGGCTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.14, C:0.69, G:0.00, T:0.17
Consensus pattern (6 bp):
TCCCCA
Found at i:110880537 original size:9 final size:9
Alignment explanation
Indices: 110880523--110880547 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
110880513 CTTGGGTCAA
110880523 AACCTCTTC
1 AACCTCTTC
110880532 AACCTCTTC
1 AACCTCTTC
110880541 AACCTCT
1 AACCTCT
110880548 AATTCCTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.44, G:0.00, T:0.32
Consensus pattern (9 bp):
AACCTCTTC
Found at i:110880635 original size:21 final size:21
Alignment explanation
Indices: 110880609--110880649 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
110880599 ATCTGCTCAA
* *
110880609 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
110880630 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
110880650 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:110888172 original size:30 final size:30
Alignment explanation
Indices: 110888138--110888203 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
110888128 TTAATAATAA
*
110888138 AAAAATTATACTTT-ATCCTCTAAAAATTAT
1 AAAAATT-TAATTTAATCCTCTAAAAATTAT
** *
110888168 AAAAATTTAATTTAATTTTTTAAAAATTAT
1 AAAAATTTAATTTAATCCTCTAAAAATTAT
110888198 AAAAAT
1 AAAAAT
110888204 ATAAACGGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 5 0.16
30 26 0.84
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (30 bp):
AAAAATTTAATTTAATCCTCTAAAAATTAT
Found at i:110889310 original size:110 final size:112
Alignment explanation
Indices: 110889039--110889378 Score: 508
Period size: 110 Copynumber: 3.0 Consensus size: 112
110889029 AAAATTTTTT
*
110889039 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGT-CAACCAAAAAAAAAATTCGAATTTTTTA
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACCAAAAAAAAATTTCGAATTTTTT-
* * *
110889103 GAGCAAAAAAAAATTTTTTTGCTCTCTAAAAATACGAGTTTTAAAAAAAAAAA
65 --TC---AAAAATTTTTTTTTCTCTCTAAAAATACGAGTTTTAAAAAAAAAAA
110889156 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAA-CAAAAAAAAATTTCGAATTTTTTT
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACCAAAAAAAAATTTCGAATTTTTTT
110889220 C-AAAATTTTTTTTTCTCTCTAAAAATACGAGTTTTAAAAAAAAAAA
66 CAAAAATTTTTTTTTCTCTCTAAAAATACGAGTTTTAAAAAAAAAAA
* *
110889266 TTTT-GGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACCAAAAAAAAATTTTGATTTTTTTT
1 TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACCAAAAAAAAATTTCGAATTTTTTT
*
110889330 CAAAAAAATTTTTTTTTGCTCTCTAAAAATACGAATTTTAAAAAAAAAA
66 C--AAAAATTTTTTTTT-CTCTCTAAAAATACGAGTTTTAAAAAAAAAA
110889379 TTCATATTTT
Statistics
Matches: 210, Mismatches: 7, Indels: 15
0.91 0.03 0.06
Matches are distributed among these distances:
109 35 0.17
110 70 0.33
113 13 0.06
114 31 0.15
117 58 0.28
118 3 0.01
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (112 bp):
TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAACCAAAAAAAAATTTCGAATTTTTTT
CAAAAATTTTTTTTTCTCTCTAAAAATACGAGTTTTAAAAAAAAAAA
Found at i:110889656 original size:115 final size:115
Alignment explanation
Indices: 110889516--110889845 Score: 510
Period size: 115 Copynumber: 2.9 Consensus size: 115
110889506 AAACTCCAAT
110889516 AACTCGTATTTTTAGAGAGCAAAAAAATTTTTTTTGAAAAAAATTCGAAATTTTTTTTTTGGTTG
1 AACTCGTATTTTTAGAGAGCAAAAAAATTTTTTTTGAAAAAAATTCGAAATTTTTTTTTTGGTTG
*
110889581 TACTGGGTGCCGGCCATTGACAGGCTAGCACCCAAAATTTTTTTTTTTAA
66 TACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTTAA
* *
110889631 AACTCGTATTTTTAAAGAGCAAAAAAAAATTTTTTTGAAAAAAATTCGAAATTTTTTTTTT-GTT
1 AACTCGTATTTTTAGAGAGC-AAAAAAATTTTTTTTGAAAAAAATTCGAAATTTTTTTTTTGGTT
110889695 GTACTGGGTGCCGGCCATTGACAGGCCAGCACCC-AAATTTTTTTTTTTAA
65 GTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTTAA
**
110889745 AACTCGTATTTTTAGAGAGCAAAAATAATTTTTTTGCTCTAAAAAATTCG-AA--TTTTTTTTGG
1 AACTCGTATTTTTAGAGAGCAAAAA-AATTTTTTT--TGAAAAAAATTCGAAATTTTTTTTTTGG
** *
110889807 TTG-ACTGGGTGCAAGCTATTGACAGGCCAGCACCCAAAA
63 TTGTACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAA
110889846 AAAAATTTTT
Statistics
Matches: 199, Mismatches: 10, Indels: 13
0.90 0.05 0.06
Matches are distributed among these distances:
113 42 0.21
114 50 0.25
115 57 0.29
116 50 0.25
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (115 bp):
AACTCGTATTTTTAGAGAGCAAAAAAATTTTTTTTGAAAAAAATTCGAAATTTTTTTTTTGGTTG
TACTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAATTTTTTTTTTTAA
Found at i:110891873 original size:22 final size:22
Alignment explanation
Indices: 110891829--110891873 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
110891819 AAAATATCTT
*
110891829 TAAAATAATATAATTTATTTTA
1 TAAAATAATATAATTTATATTA
*
110891851 TAAAATAAATATATTTTA-ATTA
1 TAAAAT-AATATAATTTATATTA
110891873 T
1 T
110891874 TACTCAACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TAAAATAATATAATTTATATTA
Found at i:110896222 original size:24 final size:23
Alignment explanation
Indices: 110896180--110896224 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 23
110896170 CGAATCAAAC
110896180 TTTTTTAAAAATATTTTTTATAA
1 TTTTTTAAAAATATTTTTTATAA
110896203 TTTTTTAAATAAT-TTATTTTAT
1 TTTTTTAAA-AATATT-TTTTAT
110896225 TAAACCAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTTTAAAAATATTTTTTATAA
Found at i:110904377 original size:21 final size:21
Alignment explanation
Indices: 110904351--110904391 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
110904341 ATCTGCTCAA
* *
110904351 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
110904372 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
110904392 TCGCTTGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:110912936 original size:9 final size:9
Alignment explanation
Indices: 110912922--110912946 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
110912912 ACAAAGAGCT
110912922 GCAGCTTTA
1 GCAGCTTTA
110912931 GCAGCTTTA
1 GCAGCTTTA
110912940 GCAGCTT
1 GCAGCTT
110912947 CATTTAATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (9 bp):
GCAGCTTTA
Found at i:110913341 original size:66 final size:65
Alignment explanation
Indices: 110913233--110913364 Score: 183
Period size: 66 Copynumber: 2.0 Consensus size: 65
110913223 TGCAGACTCA
* ** * *
110913233 AGTGAAGTGAACCCTTCTGAAGCTGATGATTCTGTAGGGGTTGCCAAAACCAATAAGGAAGACTT
1 AGTGAAGCGAACCCTTCTGAAGCTGATGATTCTCAAGAGGTTGCCAAAACCAACAAGGAAGA-TT
110913298 G
65 G
* * *
110913299 AGTGAAGCGAACCCTTCTGGAGCTGATGGTTCTCAAGAGGTTGCTAAAACCAACAAGGAAGATTG
1 AGTGAAGCGAACCCTTCTGAAGCTGATGATTCTCAAGAGGTTGCCAAAACCAACAAGGAAGATTG
110913364 A
1 A
110913365 AAACCGAAGG
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
65 4 0.07
66 54 0.93
ACGTcount: A:0.33, C:0.17, G:0.27, T:0.23
Consensus pattern (65 bp):
AGTGAAGCGAACCCTTCTGAAGCTGATGATTCTCAAGAGGTTGCCAAAACCAACAAGGAAGATTG
Found at i:110915676 original size:4 final size:4
Alignment explanation
Indices: 110915667--110915711 Score: 54
Period size: 4 Copynumber: 11.0 Consensus size: 4
110915657 GAAATGCACC
* **
110915667 TTTA TTTA TTTA TGTA TTTA TTTA TTTA TTTTA CATA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA
110915712 AAGAAAGGGC
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
4 30 0.88
5 4 0.12
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (4 bp):
TTTA
Found at i:110924642 original size:14 final size:14
Alignment explanation
Indices: 110924623--110924653 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
110924613 CAGGTATGTT
*
110924623 TTTTGATATGTTTA
1 TTTTGACATGTTTA
110924637 TTTTGACATGTTTA
1 TTTTGACATGTTTA
110924651 TTT
1 TTT
110924654 ATTTATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.13, T:0.65
Consensus pattern (14 bp):
TTTTGACATGTTTA
Found at i:110932200 original size:3 final size:3
Alignment explanation
Indices: 110932194--110932227 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
110932184 GCTGCAGCTT
110932194 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
110932228 GGTAGCTTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:110938398 original size:19 final size:18
Alignment explanation
Indices: 110938376--110938421 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
110938366 AATAATAACG
*
110938376 ATAATATTAAAAATAAGTA
1 ATAATAATAAAAAT-AGTA
*
110938395 ATAATAATGAAAATAGTA
1 ATAATAATAAAAATAGTA
*
110938413 AGAATAATA
1 ATAATAATA
110938422 TGGTATTAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (18 bp):
ATAATAATAAAAATAGTA
Found at i:110938409 original size:28 final size:28
Alignment explanation
Indices: 110938366--110938419 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
110938356 CATATACGTA
* *
110938366 AATAATAACGATAATATTAAAAATAAGT
1 AATAATAACGAAAATAGTAAAAATAAGT
* *
110938394 AATAATAATGAAAATAGTAAGAATAA
1 AATAATAACGAAAATAGTAAAAATAA
110938420 TATGGTATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.63, C:0.02, G:0.09, T:0.26
Consensus pattern (28 bp):
AATAATAACGAAAATAGTAAAAATAAGT
Found at i:110938418 original size:18 final size:19
Alignment explanation
Indices: 110938385--110938420 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
110938375 GATAATATTA
*
110938385 AAAATAAGTAATAATAATG
1 AAAATAAGTAAGAATAATG
110938404 AAAAT-AGTAAGAATAAT
1 AAAATAAGTAAGAATAAT
110938421 ATGGTATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.64, C:0.00, G:0.11, T:0.25
Consensus pattern (19 bp):
AAAATAAGTAAGAATAATG
Found at i:110938959 original size:22 final size:25
Alignment explanation
Indices: 110938911--110938960 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
110938901 AAACACGTGC
*
110938911 ATAATAATATACATACTATATATAA
1 ATAATAATATACATAATATATATAA
*
110938936 ATAAT-ATATGCATAATAT-TA-AA
1 ATAATAATATACATAATATATATAA
110938958 ATA
1 ATA
110938961 GAGACATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 5 0.22
23 2 0.09
24 11 0.48
25 5 0.22
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.36
Consensus pattern (25 bp):
ATAATAATATACATAATATATATAA
Found at i:110940441 original size:16 final size:16
Alignment explanation
Indices: 110940420--110940451 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
110940410 GGGGACATCA
110940420 ATATATATATATACAC
1 ATATATATATATACAC
110940436 ATATATATATATACAC
1 ATATATATATATACAC
110940452 CTCAGCTTGT
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:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATATATATATACAC
Found at i:110958596 original size:90 final size:90
Alignment explanation
Indices: 110958443--110958622 Score: 360
Period size: 90 Copynumber: 2.0 Consensus size: 90
110958433 TCAGGCCATC
110958443 ATATAGGGTTCGAAAAAGAAAGAGAGTACTTTTAAATTTTGATTAGGATAATATTTTAATTTTCT
1 ATATAGGGTTCGAAAAAGAAAGAGAGTACTTTTAAATTTTGATTAGGATAATATTTTAATTTTCT
110958508 AGTATTTTATCTTGTGATTTATTTT
66 AGTATTTTATCTTGTGATTTATTTT
110958533 ATATAGGGTTCGAAAAAGAAAGAGAGTACTTTTAAATTTTGATTAGGATAATATTTTAATTTTCT
1 ATATAGGGTTCGAAAAAGAAAGAGAGTACTTTTAAATTTTGATTAGGATAATATTTTAATTTTCT
110958598 AGTATTTTATCTTGTGATTTATTTT
66 AGTATTTTATCTTGTGATTTATTTT
110958623 TAGATAACTC
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 90 1.00
ACGTcount: A:0.33, C:0.04, G:0.16, T:0.47
Consensus pattern (90 bp):
ATATAGGGTTCGAAAAAGAAAGAGAGTACTTTTAAATTTTGATTAGGATAATATTTTAATTTTCT
AGTATTTTATCTTGTGATTTATTTT
Found at i:110960141 original size:18 final size:18
Alignment explanation
Indices: 110960109--110960143 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
110960099 ATGTTTTCTT
**
110960109 AAATGGAAATGGAAAATG
1 AAATGGAAAAAGAAAATG
110960127 AAATGGAAAAAGAAAAT
1 AAATGGAAAAAGAAAAT
110960144 ATGTGACCAA
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:0.63, C:0.00, G:0.23, T:0.14
Consensus pattern (18 bp):
AAATGGAAAAAGAAAATG
Found at i:110961765 original size:20 final size:21
Alignment explanation
Indices: 110961740--110961779 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
110961730 GAGAATGAAA
*
110961740 AAAAAT-CACAAAAAAAAAGC
1 AAAAATGCAAAAAAAAAAAGC
110961760 AAAAATGCAAAAAAAAAAAG
1 AAAAATGCAAAAAAAAAAAG
110961780 AACAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.78, C:0.10, G:0.07, T:0.05
Consensus pattern (21 bp):
AAAAATGCAAAAAAAAAAAGC
Found at i:110963293 original size:18 final size:18
Alignment explanation
Indices: 110963261--110963295 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
110963251 ATGGTTTCTT
**
110963261 AAATGGAAATGGAAAATG
1 AAATGGAAAAAGAAAATG
110963279 AAATGGAAAAAGAAAAT
1 AAATGGAAAAAGAAAAT
110963296 ATGTGACCAA
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:0.63, C:0.00, G:0.23, T:0.14
Consensus pattern (18 bp):
AAATGGAAAAAGAAAATG
Found at i:110976285 original size:10 final size:11
Alignment explanation
Indices: 110976257--110976289 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
110976247 AATTAAATTC
110976257 TAAAAGATAAA
1 TAAAAGATAAA
110976268 TAAAAGATAAA
1 TAAAAGATAAA
110976279 T-AAAGATAAA
1 TAAAAGATAAA
110976289 T
1 T
110976290 GCTAAAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.21
Consensus pattern (11 bp):
TAAAAGATAAA
Found at i:110977878 original size:32 final size:32
Alignment explanation
Indices: 110977842--110977906 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
110977832 TGTATGCATT
110977842 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
110977874 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
110977906 T
1 T
110977907 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:110979440 original size:26 final size:26
Alignment explanation
Indices: 110979388--110979440 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
110979378 TTTATAGTTT
*
110979388 TACCCCTAGGAGATAAATTATCGAAA
1 TACCCCTAGGAGATAAATTACCGAAA
* *
110979414 TACCCCTAGG-GTTAAATTGACCTAAA
1 TACCCCTAGGAGATAAATT-ACCGAAA
110979440 T
1 T
110979441 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (26 bp):
TACCCCTAGGAGATAAATTACCGAAA
Found at i:110985075 original size:32 final size:32
Alignment explanation
Indices: 110985039--110985104 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
110985029 TAAGAGATCG
*
110985039 ATTAAAGGAGGCATCTGATAGAGAGAAGTCGT
1 ATTAAAGGAGGCATCTGATAGACAGAAGTCGT
110985071 ATTAAAGGAGGCATCTGATAGACAGAAGTCGT
1 ATTAAAGGAGGCATCTGATAGACAGAAGTCGT
110985103 AT
1 AT
110985105 GCGTATCTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.11, G:0.29, T:0.23
Consensus pattern (32 bp):
ATTAAAGGAGGCATCTGATAGACAGAAGTCGT
Found at i:110985934 original size:32 final size:32
Alignment explanation
Indices: 110985898--110985962 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
110985888 TGTATGCATT
110985898 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
110985930 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
110985962 T
1 T
110985963 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:110987476 original size:26 final size:26
Alignment explanation
Indices: 110987446--110987498 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
110987436 TTTATAGTTT
110987446 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
110987472 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
110987498 T
1 T
110987499 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:110990396 original size:39 final size:40
Alignment explanation
Indices: 110990296--110990487 Score: 187
Period size: 40 Copynumber: 4.8 Consensus size: 40
110990286 TCGAATGATG
* * * *
110990296 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTAAT
*
110990335 ATCCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAT
* * * *
110990376 TCCGAGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAT
* *
110990415 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAT
* * *
110990454 AACCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGT
110990488 AGCTATATCC
Statistics
Matches: 127, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
39 34 0.27
40 84 0.66
41 9 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAT
Found at i:110990502 original size:79 final size:79
Alignment explanation
Indices: 110990349--110990513 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
110990339 GGACTAAGAT
* **
110990349 CCGAAGGCATTTGTACGAGTTACTAATTCCGAGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTACGAGTTACTAATACCGAGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
110990414 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * * *
110990428 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTACGAGTTACTAAT-ACCGAGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
110990491 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
110990507 CCGAAGG
1 CCGAAGG
110990514 TACGTGATTC
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 24 0.33
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTACGAGTTACTAATACCGAGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:110992844 original size:23 final size:23
Alignment explanation
Indices: 110992808--110992857 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 23
110992798 TTAAATTTGA
* *
110992808 TTAAATTACTTAAATTAATTAATTT
1 TTAAATTAC-TAAA-CAAATAATTT
110992833 TTAAATTA-TAAACAAATAATTT
1 TTAAATTACTAAACAAATAATTT
110992855 TTA
1 TTA
110992858 TTCCTTTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 11 0.48
23 4 0.17
25 8 0.35
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (23 bp):
TTAAATTACTAAACAAATAATTT
Found at i:110993687 original size:27 final size:27
Alignment explanation
Indices: 110993631--110993683 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
110993621 ATTACTTGAA
110993631 TTATAAATAAAATAACTGAAATTTATG
1 TTATAAATAAAATAACTGAAATTTATG
* *
110993658 TTATATATAAAAT-ATTGAAATTTATG
1 TTATAAATAAAATAACTGAAATTTATG
110993684 GTTAGTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.42
Consensus pattern (27 bp):
TTATAAATAAAATAACTGAAATTTATG
Found at i:110995583 original size:9 final size:9
Alignment explanation
Indices: 110995546--110995702 Score: 60
Period size: 9 Copynumber: 16.8 Consensus size: 9
110995536 ACATGTGACA
*
110995546 AAAAATGAT
1 AAAAATTAT
110995555 AAAAAATTAAT
1 -AAAAATT-AT
* *
110995566 AATAGTTAT
1 AAAAATTAT
110995575 AAAAATTATT
1 AAAAATTA-T
**
110995585 AAATTTTAAT
1 AAAAATT-AT
110995595 AAAAA-TAT
1 AAAAATTAT
110995603 -AAAA-TATT
1 AAAAATTA-T
110995611 AAAAATTAT
1 AAAAATTAT
110995620 AAAAATCGTA-
1 AAAAAT--TAT
110995630 AAAGAATTAT
1 AAA-AATTAT
110995640 -AAAATATAT
1 AAAAAT-TAT
110995649 AGAAACA-TA-
1 A-AAA-ATTAT
110995658 AAAAATTAT
1 AAAAATTAT
*
110995667 -AAAATTTT
1 AAAAATTAT
* *
110995675 ATAAATTCGT
1 AAAAATT-AT
110995685 AAGAAAATTAT
1 -A-AAAATTAT
110995696 AAAAATT
1 AAAAATT
110995703 TATTATTTTA
Statistics
Matches: 113, Mismatches: 14, Indels: 41
0.67 0.08 0.24
Matches are distributed among these distances:
7 7 0.06
8 18 0.16
9 39 0.35
10 30 0.27
11 13 0.12
12 6 0.05
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Found at i:110995598 original size:19 final size:19
Alignment explanation
Indices: 110995556--110995612 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
110995546 AAAAATGATA
110995556 AAAAAT-TAATAATAGTT-AT
1 AAAAATATAA-AATA-TTAAT
* *
110995575 AAAAATTATTAAATTTTAAT
1 AAAAA-TATAAAATATTAAT
110995595 AAAAATATAAAATATTAA
1 AAAAATATAAAATATTAA
110995613 AAATTATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
19 18 0.58
20 11 0.35
21 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAAATATAAAATATTAAT
Found at i:110995638 original size:56 final size:58
Alignment explanation
Indices: 110995576--110995704 Score: 142
Period size: 56 Copynumber: 2.3 Consensus size: 58
110995566 AATAGTTATA
* * *
110995576 AAAATTATTAAATTTTAATAAAAATATAAAATATTA-AAAATTATA-AAAATCGTAA-
1 AAAATTATTAAAATTTAATAAAAACATAAAAAATTATAAAATTATATAAAATCGTAAG
* * * *
110995631 AAGAATTA-TAAAATAT-ATAGAAACATAAAAAATTATAAAATTTTATAAATTCGTAAG
1 AA-AATTATTAAAATTTAATAAAAACATAAAAAATTATAAAATTATATAAAATCGTAAG
*
110995688 AAAATTATAAAAATTTA
1 AAAATTATTAAAATTTA
110995705 TTATTTTATT
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
54 16 0.27
55 16 0.27
56 19 0.32
57 8 0.14
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.33
Consensus pattern (58 bp):
AAAATTATTAAAATTTAATAAAAACATAAAAAATTATAAAATTATATAAAATCGTAAG
Found at i:110996178 original size:15 final size:14
Alignment explanation
Indices: 110996156--110996198 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
110996146 TCTATTTTAT
110996156 TTATATTAGGATAA
1 TTATATTAGGATAA
*
110996170 TTAATATTAAGATAA
1 TT-ATATTAGGATAA
110996185 -T-TATTAGGATAA
1 TTATATTAGGATAA
110996197 TT
1 TT
110996199 TAATTTTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
12 10 0.40
13 1 0.04
14 3 0.12
15 11 0.44
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (14 bp):
TTATATTAGGATAA
Found at i:110996214 original size:13 final size:13
Alignment explanation
Indices: 110996196--110996220 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
110996186 TATTAGGATA
110996196 ATTTAATTTTAAG
1 ATTTAATTTTAAG
110996209 ATTTAATTTTAA
1 ATTTAATTTTAA
110996221 TTATCTTTAT
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:0.00, G:0.04, T:0.56
Consensus pattern (13 bp):
ATTTAATTTTAAG
Done.