Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 316 of 335
Found at i:93170722 original size:2 final size:2
Alignment explanation
Indices: 93170715--93170746 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
93170705 ATATGTGTAG
93170715 AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
93170747 AAGATTCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:93171214 original size:15 final size:16
Alignment explanation
Indices: 93171196--93171225 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
93171186 GGTTTTGGGC
93171196 TGTTGGG-TTTTTAGA
1 TGTTGGGCTTTTTAGA
93171211 TGTTGGGCTTTTTAG
1 TGTTGGGCTTTTTAG
93171226 CCTGGGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.10, C:0.03, G:0.33, T:0.53
Consensus pattern (16 bp):
TGTTGGGCTTTTTAGA
Found at i:93172261 original size:205 final size:205
Alignment explanation
Indices: 93171597--93172552 Score: 1468
Period size: 205 Copynumber: 4.7 Consensus size: 205
93171587 AAATCTGTTT
* * *
93171597 CTTCGATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTACCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCAC
* * * *
93171662 GTGAAAGCCAAATCAGCTATGTCTTCAATTTGCTCCTTGTAAGCATAAGGATGCCAAATCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* * * * *
93171727 GGATCTTGCTTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTATCTACTCTCCGTCAAAATG
131 GGATC-TACTTCAGTATAAACATCTGAAGGCTAGATCTGCTATGTATCTGCTCTCCATCGAAATG
93171792 GAGATGCCAGA
195 GAGATGCCAGA
* * *
93171803 CTTTGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGTTTTAGTGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCAC
* * *
93171868 GCAAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAATGATGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
** * * * *
93171933 GGATCTACTTCAGTATAAACATCT-AAGTTTGGATCTGCTATGTGTCTGCCCTCCGTCGAAATGG
131 GGATCTACTTCAGTATAAACATCTGAAGGCTAGATCTGCTATGTATCTGCTCTCCATCGAAATGG
*
93171997 AGATGCCAGG
196 AGATGCCAGA
*
93172007 CTTCGACTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCAC
** * *
93172072 ATGAAAACCAAATCAGCTATGTCTTCGATTTGCTCTTTGTAAGCACAAGAATGCCAAATCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* *
93172137 AGATCTACTTCAGTGA-AATCATCTGAAGGCTAGATCTGCTATGTATCTGCTCTCCATCGAAATG
131 GGATCTACTTCAGT-ATAAACATCTGAAGGCTAGATCTGCTATGTATCTGCTCTCCATCGAAATG
93172201 GAGATGCCAGA
195 GAGATGCCAGA
*
93172212 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGTAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCAC
*
93172277 GCGAAAACCAAATCAGCTATGTCTTCGATTTGCTACTTGTAAGCACAAGGATGCCAAATCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
* * * * *
93172342 AGATCTACTTCAGTGA-AATCATTTGAAGGCTAGATCTTCTATGTATCTGCTCTCCATTGAAATG
131 GGATCTACTTCAGT-ATAAACATCTGAAGGCTAGATCTGCTATGTATCTGCTCTCCATCGAAATG
93172406 GAGATGCCAGA
195 GAGATGCCAGA
* * * *
93172417 CTTCGACTTGTTATCTGACAATACAGAGTTGCCAAATCATCTTAGACTTGTTTTAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCAC
*
93172482 GCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
93172547 GGATCT
131 GGATCT
93172553 GCTTTAGCCA
Statistics
Matches: 687, Mismatches: 61, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
204 180 0.26
205 385 0.56
206 122 0.18
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGACTTGCTTTAGCGTAAGCAC
GCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAATCATCTT
GGATCTACTTCAGTATAAACATCTGAAGGCTAGATCTGCTATGTATCTGCTCTCCATCGAAATGG
AGATGCCAGA
Found at i:93180979 original size:16 final size:16
Alignment explanation
Indices: 93180958--93180990 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
93180948 TAAAAGATTA
93180958 AAAGTAA-ATAATACAC
1 AAAGTAATAT-ATACAC
93180974 AAAGTAATATATACAC
1 AAAGTAATATATACAC
93180990 A
1 A
93180991 GGAAAAGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.61, C:0.12, G:0.06, T:0.21
Consensus pattern (16 bp):
AAAGTAATATATACAC
Found at i:93181762 original size:2 final size:2
Alignment explanation
Indices: 93181755--93181793 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
93181745 ATATGTGTAG
93181755 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
93181794 AAAGAGAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:93182243 original size:15 final size:16
Alignment explanation
Indices: 93182225--93182254 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
93182215 GGTTTTGGGC
93182225 TGTTGGG-TTTTTAGA
1 TGTTGGGCTTTTTAGA
93182240 TGTTGGGCTTTTTAG
1 TGTTGGGCTTTTTAG
93182255 CCCGGGCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.10, C:0.03, G:0.33, T:0.53
Consensus pattern (16 bp):
TGTTGGGCTTTTTAGA
Found at i:93183204 original size:10 final size:10
Alignment explanation
Indices: 93183189--93183221 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
93183179 AGGTTACCAT
93183189 ATTTTATTTC
1 ATTTTATTTC
*
93183199 ATTTTATTTT
1 ATTTTATTTC
93183209 ATTTT-TTTC
1 ATTTTATTTC
93183218 ATTT
1 ATTT
93183222 ACAAATCTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 7 0.33
10 14 0.67
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (10 bp):
ATTTTATTTC
Found at i:93183975 original size:3 final size:3
Alignment explanation
Indices: 93183959--93184028 Score: 54
Period size: 3 Copynumber: 23.7 Consensus size: 3
93183949 TATTTATTCC
* ** * *
93183959 TAT TAT T-T TA- TAT TAT TGT CGT TAT TAA TAT ATAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT
* *
93184003 CAT TAA TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
93184029 CTAATATCAC
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
2 4 0.08
3 46 0.88
4 2 0.04
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:93184117 original size:26 final size:25
Alignment explanation
Indices: 93184066--93184119 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
93184056 AGCAAATCAC
*
93184066 TATCATCGTTTTTTATTACTATTAT
1 TATCATCGTTTTTTATTAATATTAT
*
93184091 TATCATCATTTTTTTATCTAATA-TAT
1 TATCATC-GTTTTTTAT-TAATATTAT
93184117 TAT
1 TAT
93184120 TAACCTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 7 0.28
26 14 0.56
27 4 0.16
ACGTcount: A:0.28, C:0.11, G:0.02, T:0.59
Consensus pattern (25 bp):
TATCATCGTTTTTTATTAATATTAT
Found at i:93184133 original size:3 final size:3
Alignment explanation
Indices: 93184127--93184171 Score: 65
Period size: 3 Copynumber: 15.3 Consensus size: 3
93184117 TATTAACCTT
* *
93184127 TTA TTA TTA TTA CTA TTA -TA TTA TTA CTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
93184172 ATTTTCTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:93184136 original size:17 final size:15
Alignment explanation
Indices: 93184127--93184167 Score: 75
Period size: 14 Copynumber: 2.8 Consensus size: 15
93184117 TATTAACCTT
93184127 TTATTATTATTACTA
1 TTATTATTATTACTA
93184142 TTA-TATTATTACTA
1 TTATTATTATTACTA
93184156 TTATTATTATTA
1 TTATTATTATTA
93184168 TTATATTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (15 bp):
TTATTATTATTACTA
Found at i:93184143 original size:26 final size:28
Alignment explanation
Indices: 93184078--93184145 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 28
93184068 TCATCGTTTT
*
93184078 TTATTACTATTATTATCATCATTTTTTTA
1 TTATTACTATTATTA-CATCATTTTATTA
* *
93184107 TCTAATA-TATTATTA-A-CCTTTTATTA
1 T-TATTACTATTATTACATCATTTTATTA
93184133 TTATTACTATTAT
1 TTATTACTATTAT
93184146 ATTATTACTA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
25 4 0.12
26 15 0.45
27 1 0.03
29 9 0.27
30 4 0.12
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (28 bp):
TTATTACTATTATTACATCATTTTATTA
Found at i:93184374 original size:3 final size:3
Alignment explanation
Indices: 93184345--93184610 Score: 209
Period size: 3 Copynumber: 88.7 Consensus size: 3
93184335 CAAACTTTAG
* * * **
93184345 ATT ATTT ATT ATT -TGT ATT GTT GTT ATT ATT ACTT TTT ATT ATT ACC
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT
* * * **
93184392 ATT ATT ATT ACT ATT ATT TTT ACTT -TT ATT ACT ATT ACC A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT
93184436 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * * *
93184484 ATT ATT TTCT ATT ACT ATT ATC GTT ATT ATT AAT ACT AAT ATT AAT
1 ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
93184530 ATT CTT ATT ATT ACT ATT ATT ATT ATC ATT AGT ATT ATT ATT -TT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** * * *
93184576 ACC ACT ATT ATT ATT ATC AAT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
93184611 CGTTTTCATT
Statistics
Matches: 207, Mismatches: 47, Indels: 18
0.76 0.17 0.07
Matches are distributed among these distances:
2 8 0.04
3 189 0.91
4 10 0.05
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:93186316 original size:25 final size:25
Alignment explanation
Indices: 93186282--93186330 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
93186272 GCGGTGAAAG
93186282 TATAAATTGGGAGAAAATGTTTAAT
1 TATAAATTGGGAGAAAATGTTTAAT
93186307 TATAAATTGGGAGAAAATGTTTAA
1 TATAAATTGGGAGAAAATGTTTAA
93186331 AGCTTGGTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.35
Consensus pattern (25 bp):
TATAAATTGGGAGAAAATGTTTAAT
Found at i:93187722 original size:30 final size:28
Alignment explanation
Indices: 93187688--93187747 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 28
93187678 CATTTAATTC
93187688 ATTTCTAAACTATTAAAAATAATTTTTATA
1 ATTTCT-AACTATTAAAAATAA-TTTTATA
* *
93187718 ATTTCTAATTTTTAAAAATAATTTTATA
1 ATTTCTAACTATTAAAAATAATTTTATA
93187746 AT
1 AT
93187748 ATTTTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 9 0.32
29 13 0.46
30 6 0.21
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (28 bp):
ATTTCTAACTATTAAAAATAATTTTATA
Found at i:93187760 original size:18 final size:17
Alignment explanation
Indices: 93187737--93187773 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
93187727 TTTTAAAAAT
93187737 AATTTTATAATATTTTAA
1 AATTTTATAA-ATTTTAA
*
93187755 AATTTTTTAAATTTTAA
1 AATTTTATAAATTTTAA
93187772 AA
1 AA
93187774 AATTAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AATTTTATAAATTTTAA
Found at i:93188230 original size:6 final size:6
Alignment explanation
Indices: 93188219--93188243 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
93188209 TAAACAAATT
93188219 ATTTAA ATTTAA ATTTAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA ATTTAA A
93188244 AAATTTATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATTTAA
Found at i:93188272 original size:23 final size:23
Alignment explanation
Indices: 93188243--93188288 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
93188233 TTAAATTTAA
93188243 AAAATTTATTCCAATGCTTTTGT
1 AAAATTTATTCCAATGCTTTTGT
93188266 AAAATTTATTCCAATGCTTTTGT
1 AAAATTTATTCCAATGCTTTTGT
93188289 TAACTCATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.48
Consensus pattern (23 bp):
AAAATTTATTCCAATGCTTTTGT
Found at i:93189094 original size:3 final size:3
Alignment explanation
Indices: 93189086--93189111 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
93189076 CTCTCTATTC
93189086 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
93189112 CTCCTCCTCT
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:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:93192795 original size:45 final size:45
Alignment explanation
Indices: 93192699--93192798 Score: 121
Period size: 45 Copynumber: 2.2 Consensus size: 45
93192689 TCTGCATTTA
* *
93192699 TTTTGTTATGAACCCATAGCCATAGGCAAATTCCATCTACAACAG
1 TTTTGTTATGAACCCACAACCATAGGCAAATTCCATCTACAACAG
* * * * *
93192744 TCTTGTTGTGTACCCACAACCATAGGCAGATTCCATCTACATC-G
1 TTTTGTTATGAACCCACAACCATAGGCAAATTCCATCTACAACAG
93192788 TTTTTGTTATG
1 -TTTTGTTATG
93192799 CATACATAAC
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
44 1 0.02
45 44 0.98
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (45 bp):
TTTTGTTATGAACCCACAACCATAGGCAAATTCCATCTACAACAG
Found at i:93195626 original size:21 final size:20
Alignment explanation
Indices: 93195602--93195642 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
93195592 TTTTGAACTC
*
93195602 CTGGTCTTAAGTTTTTGGTTT
1 CTGGTCTTAA-ATTTTGGTTT
*
93195623 CTGGTTTTAAATTTTGGTTT
1 CTGGTCTTAAATTTTGGTTT
93195643 TTGGAAGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.12, C:0.07, G:0.22, T:0.59
Consensus pattern (20 bp):
CTGGTCTTAAATTTTGGTTT
Found at i:93196343 original size:15 final size:16
Alignment explanation
Indices: 93196299--93196347 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 16
93196289 TGTTCGTATT
93196299 TATTTATGTTTATAATTAA
1 TATTTAT-TTTA-AA-TAA
93196318 TATTTATTTTTAAATAA
1 TATTTA-TTTTAAATAA
93196335 T-TTTATTTTAAAT
1 TATTTATTTTAAAT
93196348 CTTTTAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.28
16 4 0.14
17 4 0.14
18 2 0.07
19 10 0.34
20 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (16 bp):
TATTTATTTTAAATAA
Found at i:93199608 original size:10 final size:10
Alignment explanation
Indices: 93199593--93199649 Score: 57
Period size: 11 Copynumber: 5.8 Consensus size: 10
93199583 AATAATTAAA
93199593 ATTATAAATT
1 ATTATAAATT
93199603 ATTATAAAATT
1 ATTAT-AAATT
93199614 ATTATAAATT
1 ATTATAAATT
* *
93199624 AATTAAAAATC
1 -ATTATAAATT
93199635 A-TA-AAATT
1 ATTATAAATT
93199643 -TTATAAA
1 ATTATAAA
93199650 ATAAATTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
8 6 0.15
9 5 0.12
10 11 0.28
11 18 0.45
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (10 bp):
ATTATAAATT
Found at i:93199612 original size:18 final size:18
Alignment explanation
Indices: 93199589--93199651 Score: 58
Period size: 18 Copynumber: 3.3 Consensus size: 18
93199579 AAAGAATAAT
93199589 TAAAATTATAAATTATTA
1 TAAAATTATAAATTATTA
93199607 TAAAATTATTATAAATTAATTA
1 T-AAA--ATTATAAATT-ATTA
*
93199629 -AAAATCATAAAATT-TTA
1 TAAAATTAT-AAATTATTA
93199646 TAAAAT
1 TAAAAT
93199652 AAATTAAAAC
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
17 3 0.08
18 10 0.26
19 8 0.21
20 3 0.08
21 10 0.26
22 4 0.11
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAAATTATAAATTATTA
Found at i:93199619 original size:21 final size:21
Alignment explanation
Indices: 93199593--93199651 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
93199583 AATAATTAAA
*
93199593 ATTATAAATTATTATAAAATT
1 ATTATAAATTATTATAAAATC
93199614 ATTATAAATTAATTA-AAAATC
1 ATTATAAATT-ATTATAAAATC
93199635 A-TA-AAATT-TTATAAAAT
1 ATTATAAATTATTATAAAAT
93199652 AAATTAAAAC
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
17 3 0.09
18 5 0.14
19 5 0.14
20 2 0.06
21 16 0.46
22 4 0.11
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTATAAATTATTATAAAATC
Found at i:93199650 original size:10 final size:11
Alignment explanation
Indices: 93199593--93199651 Score: 58
Period size: 10 Copynumber: 5.9 Consensus size: 11
93199583 AATAATTAAA
93199593 ATTAT-AAATT
1 ATTATAAAATT
93199603 ATTATAAAATT
1 ATTATAAAATT
93199614 ATTAT-AAATT
1 ATTATAAAATT
*
93199624 AAT-TAAAA--
1 ATTATAAAATT
*
93199632 ATCATAAAATT
1 ATTATAAAATT
93199643 -TTATAAAAT
1 ATTATAAAAT
93199652 AAATTAAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
8 1 0.03
9 6 0.15
10 23 0.57
11 10 0.25
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (11 bp):
ATTATAAAATT
Found at i:93199898 original size:18 final size:18
Alignment explanation
Indices: 93199887--93199922 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
93199877 ATTTTATACG
93199887 TTTTAATAATTTCTAAAA
1 TTTTAATAATTTCTAAAA
*
93199905 TTTTAATAATTTATAAAA
1 TTTTAATAATTTCTAAAA
93199923 AAAACTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTTAATAATTTCTAAAA
Found at i:93200013 original size:17 final size:17
Alignment explanation
Indices: 93199988--93200020 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
93199978 ATTATTTGAA
93199988 TTATATTTTATAATTTT
1 TTATATTTTATAATTTT
*
93200005 TTATTTTTTATAATTT
1 TTATATTTTATAATTT
93200021 CGAAATGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTATATTTTATAATTTT
Found at i:93200676 original size:17 final size:16
Alignment explanation
Indices: 93200649--93200719 Score: 56
Period size: 17 Copynumber: 4.2 Consensus size: 16
93200639 GCTACATCAA
*
93200649 AAAATAATTTAAAATTAT
1 AAAA-AATTTAAAA-AAT
93200667 AAAAAATTTAAAAAAT
1 AAAAAATTTAAAAAAT
*
93200683 AAAAAA--TAAAAAGTT
1 AAAAAATTTAAAAA-AT
*
93200698 CATAAAAATTCAAAAAAT
1 -A-AAAAATTTAAAAAAT
93200716 AAAA
1 AAAA
93200720 GAGTATGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
14 6 0.14
15 1 0.02
16 12 0.27
17 15 0.34
18 5 0.11
19 5 0.11
ACGTcount: A:0.70, C:0.03, G:0.01, T:0.25
Consensus pattern (16 bp):
AAAAAATTTAAAAAAT
Found at i:93200817 original size:52 final size:52
Alignment explanation
Indices: 93200760--93200864 Score: 201
Period size: 52 Copynumber: 2.0 Consensus size: 52
93200750 AGCTACCATG
93200760 TTTAAAAATTTAATGGTTAATTTTCAATAAAAAATAGCAAGTCAACTATTTT
1 TTTAAAAATTTAATGGTTAATTTTCAATAAAAAATAGCAAGTCAACTATTTT
*
93200812 TTTAAAAATTTAATGGTTAATTTTCAATAAAAAATAGCAAGTCAACTGTTTT
1 TTTAAAAATTTAATGGTTAATTTTCAATAAAAAATAGCAAGTCAACTATTTT
93200864 T
1 T
93200865 GAAAGGTTTA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.41
Consensus pattern (52 bp):
TTTAAAAATTTAATGGTTAATTTTCAATAAAAAATAGCAAGTCAACTATTTT
Found at i:93200842 original size:25 final size:25
Alignment explanation
Indices: 93200762--93200844 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 25
93200752 CTACCATGTT
93200762 TAAAAATTTAATGGTTAATTTTCAA
1 TAAAAATTTAATGGTTAATTTTCAA
* * * ***
93200787 TAAAAA-ATAGCA-AGTCAACTATTTTTT
1 TAAAAATTTA--ATGGTTAA-T-TTTCAA
93200814 TAAAAATTTAATGGTTAATTTTCAA
1 TAAAAATTTAATGGTTAATTTTCAA
93200839 TAAAAA
1 TAAAAA
93200845 ATAGCAAGTC
Statistics
Matches: 40, Mismatches: 12, Indels: 12
0.62 0.19 0.19
Matches are distributed among these distances:
24 2 0.05
25 19 0.47
26 4 0.10
27 13 0.32
28 2 0.05
ACGTcount: A:0.47, C:0.06, G:0.07, T:0.40
Consensus pattern (25 bp):
TAAAAATTTAATGGTTAATTTTCAA
Found at i:93202001 original size:12 final size:14
Alignment explanation
Indices: 93201973--93202009 Score: 53
Period size: 12 Copynumber: 2.9 Consensus size: 14
93201963 AAAAATTAAT
93201973 TTTA-AAAAAATCA
1 TTTATAAAAAATCA
93201986 TTTATAAAAAA-C-
1 TTTATAAAAAATCA
93201998 TTTATAAAAAAT
1 TTTATAAAAAAT
93202010 TGTAATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 11 0.50
13 5 0.23
14 6 0.27
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.35
Consensus pattern (14 bp):
TTTATAAAAAATCA
Found at i:93203503 original size:116 final size:116
Alignment explanation
Indices: 93203366--93203597 Score: 455
Period size: 116 Copynumber: 2.0 Consensus size: 116
93203356 CATCGACAGT
93203366 GGGTTTTTTTTGGTTTCGTACCATTTGTTGTTTTTCGGGACAGAAGATACACACCTGATCATTTT
1 GGGTTTTTTTTGGTTTCGTACCATTTGTTGTTTTTCGGGACAGAAGATACACACCTGATCATTTT
*
93203431 TTTATGCCAACACAATAGCAACAATACCAGCACCTAAAAATGGCATTCAGA
66 TTGATGCCAACACAATAGCAACAATACCAGCACCTAAAAATGGCATTCAGA
93203482 GGGTTTTTTTTGGTTTCGTACCATTTGTTGTTTTTCGGGACAGAAGATACACACCTGATCATTTT
1 GGGTTTTTTTTGGTTTCGTACCATTTGTTGTTTTTCGGGACAGAAGATACACACCTGATCATTTT
93203547 TTGATGCCAACACAATAGCAACAATACCAGCACCTAAAAATGGCATTCAGA
66 TTGATGCCAACACAATAGCAACAATACCAGCACCTAAAAATGGCATTCAGA
93203598 ATGAACTATT
Statistics
Matches: 115, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 115 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (116 bp):
GGGTTTTTTTTGGTTTCGTACCATTTGTTGTTTTTCGGGACAGAAGATACACACCTGATCATTTT
TTGATGCCAACACAATAGCAACAATACCAGCACCTAAAAATGGCATTCAGA
Found at i:93210978 original size:25 final size:26
Alignment explanation
Indices: 93210949--93211001 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 26
93210939 ACAAACAAGT
* *
93210949 AATTTAAAAATTATAA-AAAAATTAA
1 AATTTAAAAATTAAAATAAAAAATAA
93210974 AATTTAAAAATTAAAATAAAAAATAA
1 AATTTAAAAATTAAAATAAAAAATAA
93211000 AA
1 AA
93211002 AAGTATGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 15 0.60
26 10 0.40
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (26 bp):
AATTTAAAAATTAAAATAAAAAATAA
Found at i:93210996 original size:14 final size:14
Alignment explanation
Indices: 93210961--93210996 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
93210951 TTTAAAAATT
93210961 ATAAAAAAATTAAA
1 ATAAAAAAATTAAA
**
93210975 ATTTAAAAATTAAA
1 ATAAAAAAATTAAA
93210989 ATAAAAAA
1 ATAAAAAA
93210997 TAAAAAAGTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (14 bp):
ATAAAAAAATTAAA
Found at i:93212470 original size:18 final size:17
Alignment explanation
Indices: 93212447--93212486 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
93212437 CCAAAATTCT
*
93212447 ACACGCCCGTGTGGGCCC
1 ACACGCCCATGT-GGCCC
*
93212465 ACACGCCTATGTGGCCC
1 ACACGCCCATGTGGCCC
93212482 ACACG
1 ACACG
93212487 GTCCAATCGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.17, C:0.42, G:0.28, T:0.12
Consensus pattern (17 bp):
ACACGCCCATGTGGCCC
Found at i:93214809 original size:17 final size:17
Alignment explanation
Indices: 93214789--93214821 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
93214779 ATTCTGGTTA
93214789 TTAACATATTATTATTT
1 TTAACATATTATTATTT
*
93214806 TTAACTTATTATTATT
1 TTAACATATTATTATT
93214822 ATTAGTTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (17 bp):
TTAACATATTATTATTT
Found at i:93215222 original size:23 final size:21
Alignment explanation
Indices: 93215180--93215222 Score: 59
Period size: 23 Copynumber: 2.0 Consensus size: 21
93215170 TTCTTATTAT
93215180 TACTATTATTTATTAGTATTC
1 TACTATTATTTATTAGTATTC
*
93215201 TACTATTACTATTGTTAGTATT
1 TACTATTA-T-TTATTAGTATT
93215223 TTTAAAATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 8 0.42
22 1 0.05
23 10 0.53
ACGTcount: A:0.28, C:0.09, G:0.07, T:0.56
Consensus pattern (21 bp):
TACTATTATTTATTAGTATTC
Found at i:93215502 original size:2 final size:2
Alignment explanation
Indices: 93215491--93215536 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
93215481 ATTTTAATAC
* *
93215491 TA TA -A TA TA TA TA CA TG TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
93215532 TA TA T
1 TA TA T
93215537 TACGTATATG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:93221348 original size:81 final size:81
Alignment explanation
Indices: 93221213--93221376 Score: 310
Period size: 81 Copynumber: 2.0 Consensus size: 81
93221203 GTCGCTACAC
93221213 ACTTAGAACACTTAACCACTAAAATAGATACAAATTTAGGACTATTAAATATTGAAACATATTTA
1 ACTTAGAACACTTAACCACTAAAATAGATACAAATTTAGGACTATTAAATATTGAAACATATTTA
93221278 TAAAATTTGAGGCGTT
66 TAAAATTTGAGGCGTT
*
93221294 ACTTAGAACACTTAACCACTAAAATAGATACAAATTTATGACTATTAAATATTGAAACATATTTA
1 ACTTAGAACACTTAACCACTAAAATAGATACAAATTTAGGACTATTAAATATTGAAACATATTTA
*
93221359 TAAAATTTGGGGCGTT
66 TAAAATTTGAGGCGTT
93221375 AC
1 AC
93221377 ATCTAAACTA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.44, C:0.13, G:0.11, T:0.32
Consensus pattern (81 bp):
ACTTAGAACACTTAACCACTAAAATAGATACAAATTTAGGACTATTAAATATTGAAACATATTTA
TAAAATTTGAGGCGTT
Found at i:93225830 original size:2 final size:2
Alignment explanation
Indices: 93225823--93225861 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
93225813 ATAATATTCT
93225823 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
93225862 AAAGAAAGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:93244106 original size:44 final size:42
Alignment explanation
Indices: 93244032--93244188 Score: 104
Period size: 44 Copynumber: 3.6 Consensus size: 42
93244022 CACAGATCTT
* * * * *
93244032 ACCCCATAAGCAGTAGGGGAATAGATTGAAGGCAACGAACTTTA
1 ACCCCCTAAGCAGTAGGGTAAAAG-CTGAAGACAA-GAACTTTA
* *
93244076 ACCCCCTAAGCAGTAGGGTAACAAGCTGAAGTTCATAGATC-TTA
1 ACCCCCTAAGCAGTAGGGTAA-AAGCTGAAG-ACA-AGAACTTTA
* * * * *
93244120 TCACCCTAAGCAGTAGGG-AAATAGATCGAAGATAATGAGCTTTA
1 ACCCCCTAAGCAGTAGGGTAAA-AGCT-GAAGACAA-GAACTTTA
93244164 ACCCCC-AAGCAGTAGGGTAACAAGC
1 ACCCCCTAAGCAGTAGGGTAA-AAGC
93244189 CAAATTTACA
Statistics
Matches: 89, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
42 2 0.02
43 20 0.22
44 58 0.65
45 8 0.09
46 1 0.01
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (42 bp):
ACCCCCTAAGCAGTAGGGTAAAAGCTGAAGACAAGAACTTTA
Found at i:93244186 original size:87 final size:86
Alignment explanation
Indices: 93244016--93244229 Score: 243
Period size: 88 Copynumber: 2.5 Consensus size: 86
93244006 CTAGAATCAG
* * *
93244016 TGAATTCACAGATCTTACCCCATAAGCAGTAGGGGAATAGATTGAAGGCAACGAACTTTAACCCC
1 TGAATTCACAGATCTTACCCCATAAGCAGTAGGGAAATAGATCGAAGACAACGAACTTTAACCCC
93244081 CTAAGCAGTAGGGTAACAAGC
66 CTAAGCAGTAGGGTAACAAGC
* * * *
93244102 TGAAGTTCATAGATCTTATCACCC-TAAGCAGTAGGGAAATAGATCGAAGATAATGAGCTTTAAC
1 TGAA-TTCACAGATCTTA-C-CCCATAAGCAGTAGGGAAATAGATCGAAGACAACGAACTTTAAC
93244166 CCCC-AAGCAGTAGGGTAACAAGC
63 CCCCTAAGCAGTAGGGTAACAAGC
** * * * * * *
93244189 CAAATTTACAAACCTTAACCCCCTAAGTAGTAGGGTAATAG
1 TGAATTCACAGATCTT-ACCCCATAAGCAGTAGGGAAATAG
93244230 GCTGAAAATT
Statistics
Matches: 108, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
85 3 0.03
86 29 0.27
87 34 0.31
88 39 0.36
89 3 0.03
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.21
Consensus pattern (86 bp):
TGAATTCACAGATCTTACCCCATAAGCAGTAGGGAAATAGATCGAAGACAACGAACTTTAACCCC
CTAAGCAGTAGGGTAACAAGC
Found at i:93244438 original size:85 final size:87
Alignment explanation
Indices: 93244327--93244623 Score: 526
Period size: 87 Copynumber: 3.4 Consensus size: 87
93244317 CAGATTGAAG
* *
93244327 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATTGAAGGTGATGAGTCTTAAACCCTT
1 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGAGTCTTAAACCCCT
93244392 AAGCAGTAGGGTAACAGGCTAA
66 AAGCAGTAGGGTAACAGGCTAA
93244414 ATTTACA-ATCTTAA-CCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGAGTCTTAAACCCCT
1 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGAGTCTTAAACCCCT
*
93244477 AAGCAGTAGTGTAACAGGCTAA
66 AAGCAGTAGGGTAACAGGCTAA
93244499 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGAGTCTTAAACCCCT
1 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGAGTCTTAAACCCCT
*
93244564 AAGTAGTAGGGTAACAGGCTAA
66 AAGCAGTAGGGTAACAGGCTAA
* *
93244586 ATTTACAGATCTTAAACCCCTAAGCAGTAGGGTAACAG
1 ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAG
93244624 GCTGATTTTA
Statistics
Matches: 201, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
85 75 0.37
86 14 0.07
87 112 0.56
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.23
Consensus pattern (87 bp):
ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGGTGATGAGTCTTAAACCCCT
AAGCAGTAGGGTAACAGGCTAA
Found at i:93244688 original size:44 final size:43
Alignment explanation
Indices: 93244336--93244712 Score: 275
Period size: 44 Copynumber: 8.7 Consensus size: 43
93244326 GATTTACAGA
* ** **
93244336 TCTTAACCCCCTAAGCAGTAGGGAAACA-GATTGAAGGTGATGAG
1 TCTTAAACCCCTAAGCAGTAGGGAAACAGGA-T-AAATTGACAAG
* * * *
93244380 TCTTAAACCCTTAAGCAGTAGGGTAACAGGCTAAATTTACAA-
1 TCTTAAACCCCTAAGCAGTAGGGAAACAGGATAAATTGACAAG
** **
93244422 TCTT-AACCCCTAAGCAGTAGGGAAACA-GATCGAAGGTGATGAG
1 TCTTAAACCCCTAAGCAGTAGGGAAACAGGAT--AAATTGACAAG
* * * *
93244465 TCTTAAACCCCTAAGCAGTAGTGTAACAGGCTAAATTTAC-AG
1 TCTTAAACCCCTAAGCAGTAGGGAAACAGGATAAATTGACAAG
* ** **
93244507 ATCTTAACCCCCTAAGCAGTAGGGAAACA-GATCGAAGGTGATGAG
1 -TCTTAAACCCCTAAGCAGTAGGGAAACAGGAT--AAATTGACAAG
* * * *
93244552 TCTTAAACCCCTAAGTAGTAGGGTAACAGGCTAAATTTAC-AG
1 TCTTAAACCCCTAAGCAGTAGGGAAACAGGATAAATTGACAAG
* * * * *
93244594 ATCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGATTTTACAAG
1 -TCTTAAACCCCTAAGCAGTAGGGAAACAGGATAAATTGACAAG
*
93244638 ATCTTAAACCCCTAAGCAGTAGGGAAAC-GGATCAATGATGACAAG
1 -TCTTAAACCCCTAAGCAGTAGGGAAACAGGATAAAT--TGACAAG
* * * *
93244683 CCTTAACCCCCTAAGTAGTAGGGTAACAGG
1 TCTTAAACCCCTAAGCAGTAGGGAAACAGG
93244713 TTGAAAATCA
Statistics
Matches: 265, Mismatches: 52, Indels: 31
0.76 0.15 0.09
Matches are distributed among these distances:
40 2 0.01
41 21 0.08
42 15 0.06
43 84 0.32
44 128 0.48
45 15 0.06
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (43 bp):
TCTTAAACCCCTAAGCAGTAGGGAAACAGGATAAATTGACAAG
Found at i:93247988 original size:333 final size:333
Alignment explanation
Indices: 93247314--93248009 Score: 690
Period size: 333 Copynumber: 2.1 Consensus size: 333
93247304 CGTATTTGGT
* * * ** * * * **
93247314 AATTTGAGATAATCGTGCCCTAACTTACTGGGTTTCGATTTTTCTCATTTAATTTAAATAACGGA
1 AATTCGAGATAATCGTACCCTAACTCACTGGGCCTCGACTTTTCTCATTCAATCTAAATAACAAA
** * * * *
93247379 ATACTCTTTTAAATTGCTATACGAGTTTTGAAAAGGCTCATTCTCGGAAATACGAAGTGTTGTGC
66 ATACTCTTTTAAATCACAACACGAGTTTTAAAAAGGCTCATTCTCGGAAATACGAAGTGTGGTGC
* * **
93247444 CCTAACTTACCGGGTATGATATTTCGTCACCTAGAAATATGAATTTGTTTTAAAATAAAGGCAAT
131 CCTAACTTACCGGGTATGACATTTCGTCACCTAGAAATAAGAATTTGTTCGAAAATAAAGGCAAT
* ** *
93247509 ATTCGGTGTTTGAGAACTCGAAAAACGTACCCTAACTTACTGGGTTTCGATTTTTCCAGTTTACT
196 ATTCGGTGTTGGAGAACTCGAAAAACGTACCCTAACTTACTGGGTTTCGATTTTTCCAGTCCACC
* * *
93247574 CTAAATAACCGAATACCCTTCTAACAAATTAAAAGACGTAAGTTTTATACAAAAGGCAAGCTCGC
261 CTAAATAACCGAATACCCTTCTAACAAATTAAAAGACATAAGTTTTAAACAAAAGGCAAGCTCAC
93247639 TCTAAAAA
326 TCTAAAAA
*
93247647 AATTCGAGATAATCGTACCCTAACTCACTGGGCCTCGACTTTTCTCATTCAATCTAAAT-GCAAA
1 AATTCGAGATAATCGTACCCTAACTCACTGGGCCTCGACTTTTCTCATTCAATCTAAATAACAAA
* * * * * ** * *
93247711 ATATTCTTTTAAATCACAACATGAGTTTTAAAAAATGCTTATTTTCGGGGATGCGAGGTGTGGTG
66 ATACTCTTTTAAATCACAACACGAGTTTT-AAAAAGGCTCATTCTCGGAAATACGAAGTGTGGTG
* * * * * * *
93247776 CCCTAACTTACTGGGTATGACATTTTGTTACTTCGAAATAAG-ATTT-TTCGCAAATAAAGGCGA
130 CCCTAACTTACCGGGTATGACATTTCGTCACCTAGAAATAAGAATTTGTTCGAAAATAAAGGCAA
* * * * *
93247839 TATTTGGTGTTCGGA-AATTCGAGGAAACGTGCCCTAACTTACTGGGTTTCGA-TTTTCCTCGTC
195 TATTCGGTGTT-GGAGAACTCGA-AAAACGTACCCTAACTTACTGGGTTTCGATTTTTCC-AGTC
* * * * * * *
93247902 CGCCCTAACTAACCGAATATCCTTTTAA-AAGAGGTTAAAATACAT-CGATTTTAAATAAAAGGC
257 CACCCTAAATAACCGAATACCCTTCTAACAA-A--TTAAAAGACATAAG-TTTTAAACAAAAGGC
* * *
93247965 GAGCTCATTCT-CAAA
318 AAGCTCACTCTAAAAA
* ** *
93247980 AGTTCGAGAT-GCCGTATCCTAACTCACTGG
1 AATTCGAGATAATCGTACCCTAACTCACTGG
93248010 ATATGACGTA
Statistics
Matches: 292, Mismatches: 63, Indels: 17
0.78 0.17 0.05
Matches are distributed among these distances:
331 37 0.13
332 100 0.34
333 125 0.43
334 30 0.10
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (333 bp):
AATTCGAGATAATCGTACCCTAACTCACTGGGCCTCGACTTTTCTCATTCAATCTAAATAACAAA
ATACTCTTTTAAATCACAACACGAGTTTTAAAAAGGCTCATTCTCGGAAATACGAAGTGTGGTGC
CCTAACTTACCGGGTATGACATTTCGTCACCTAGAAATAAGAATTTGTTCGAAAATAAAGGCAAT
ATTCGGTGTTGGAGAACTCGAAAAACGTACCCTAACTTACTGGGTTTCGATTTTTCCAGTCCACC
CTAAATAACCGAATACCCTTCTAACAAATTAAAAGACATAAGTTTTAAACAAAAGGCAAGCTCAC
TCTAAAAA
Found at i:93250128 original size:26 final size:26
Alignment explanation
Indices: 93250099--93250204 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
93250089 TGATACAAAT
93250099 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
93250125 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93250151 TGATAATGGGTTAGGTAAA--TTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93250175 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93250201 TGAT
1 TGAT
93250205 GGGAATTTCA
Statistics
Matches: 76, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
24 23 0.30
26 53 0.70
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:93250189 original size:50 final size:51
Alignment explanation
Indices: 93250099--93250204 Score: 187
Period size: 50 Copynumber: 2.1 Consensus size: 51
93250089 TGATACAAAT
*
93250099 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAA-GTTCCATGATAATGGGTTAGGTAAATGTTCCA
93250151 TGATAATGGGTTAGGTAAA-TTCCATGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAAGTTCCATGATAATGGGTTAGGTAAATGTTCCA
93250201 TGAT
1 TGAT
93250205 GGGAATTTCA
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
50 34 0.64
52 19 0.36
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.36
Consensus pattern (51 bp):
TGATAATGGGTTAGGTAAAGTTCCATGATAATGGGTTAGGTAAATGTTCCA
Found at i:93253534 original size:24 final size:24
Alignment explanation
Indices: 93253507--93253552 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
93253497 ATAAGTAACT
* * *
93253507 TTGTAAAAGATTTAGTAATTTACA
1 TTGTAAAAAATTCAATAATTTACA
93253531 TTGTAAAAAATTCAATAATTTA
1 TTGTAAAAAATTCAATAATTTA
93253553 TTGAAAATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.41
Consensus pattern (24 bp):
TTGTAAAAAATTCAATAATTTACA
Found at i:93254855 original size:18 final size:16
Alignment explanation
Indices: 93254834--93254869 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
93254824 CCTTTCCCCC
93254834 CTCCCTTCTCTTTTCTTT
1 CTCCCTTCT-TTTT-TTT
93254852 CTCCCTTCTTTTTTTT
1 CTCCCTTCTTTTTTTT
93254868 CT
1 CT
93254870 TTCTCTCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 4 0.22
18 9 0.50
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (16 bp):
CTCCCTTCTTTTTTTT
Found at i:93257136 original size:20 final size:20
Alignment explanation
Indices: 93257111--93257170 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
93257101 AAATGTATAA
93257111 AAAATTATATTTTAAAATTT
1 AAAATTATATTTTAAAATTT
**
93257131 AAAATTAT-TTAAAAAAATTTT
1 AAAATTATATT-TTAAAA-TTT
*
93257152 AAAA-TGTATTTTAAAATTT
1 AAAATTATATTTTAAAATTT
93257171 TTAAAAATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
19 5 0.16
20 18 0.56
21 9 0.28
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
AAAATTATATTTTAAAATTT
Found at i:93257152 original size:21 final size:21
Alignment explanation
Indices: 93257124--93257176 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
93257114 ATTATATTTT
93257124 AAAA-TTTAAAAT-TATTTAAA
1 AAAATTTTAAAATGTATTT-AA
*
93257144 AAAATTTTAAAATGTATTTTA
1 AAAATTTTAAAATGTATTTAA
*
93257165 AAATTTTTAAAA
1 AAAATTTTAAAA
93257177 ATTAATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 4 0.14
21 20 0.69
22 5 0.17
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
AAAATTTTAAAATGTATTTAA
Found at i:93257179 original size:10 final size:11
Alignment explanation
Indices: 93257127--93257180 Score: 51
Period size: 10 Copynumber: 5.1 Consensus size: 11
93257117 ATATTTTAAA
93257127 ATTT-AAAATT
1 ATTTAAAAATT
*
93257137 ATTTAAAAA-A
1 ATTTAAAAATT
*
93257147 ATTTTAAAATGT
1 ATTTAAAAAT-T
*
93257159 ATTTTAAAATT
1 ATTTAAAAATT
93257170 -TTTAAAAATT
1 ATTTAAAAATT
93257180 A
1 A
93257181 ATTTTTTCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
10 21 0.58
11 5 0.14
12 10 0.28
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (11 bp):
ATTTAAAAATT
Found at i:93263544 original size:16 final size:17
Alignment explanation
Indices: 93263523--93263562 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
93263513 TTTTATATGG
*
93263523 ATTTTACT-TTTATTTT
1 ATTTTACTATATATTTT
93263539 ATTTTACTACTATATTTT
1 ATTTTACTA-TATATTTT
93263557 ATTTTA
1 ATTTTA
93263563 ATAAGAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
18 13 0.62
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTTACTATATATTTT
Found at i:93263659 original size:21 final size:20
Alignment explanation
Indices: 93263635--93263679 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
93263625 AAAATTAAAA
93263635 AAAATTAAAAATATTATTTTG
1 AAAATTAAAAA-ATTATTTTG
** *
93263656 AAAATTTGAAAATTATTTTT
1 AAAATTAAAAAATTATTTTG
93263676 AAAA
1 AAAA
93263680 AATCCCTCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (20 bp):
AAAATTAAAAAATTATTTTG
Found at i:93263861 original size:16 final size:16
Alignment explanation
Indices: 93263840--93263871 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
93263830 CAAATGTAAC
93263840 AGCCCTAATAAAATTT
1 AGCCCTAATAAAATTT
93263856 AGCCCTAATAAAATTT
1 AGCCCTAATAAAATTT
93263872 CTAACACAAA
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:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (16 bp):
AGCCCTAATAAAATTT
Found at i:93264854 original size:19 final size:21
Alignment explanation
Indices: 93264825--93264880 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
93264815 TAATTTAGGG
93264825 TTTTA-GAAAA-TTTTAA-AA
1 TTTTATGAAAATTTTTAAGAA
93264843 TTTTATGAAAATTTTTAAGAA
1 TTTTATGAAAATTTTTAAGAA
**
93264864 TTTTATGGTAATTTTTA
1 TTTTATGAAAATTTTTA
93264881 TTAAGGATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 5 0.15
19 5 0.15
20 6 0.18
21 17 0.52
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (21 bp):
TTTTATGAAAATTTTTAAGAA
Found at i:93265092 original size:16 final size:16
Alignment explanation
Indices: 93265056--93265094 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
93265046 TATATTATGA
* *
93265056 ATTTTTTTAGTTTTTT
1 ATTTTTTTACTTTTCT
*
93265072 TTTTTTTTACTTTTCT
1 ATTTTTTTACTTTTCT
93265088 ATTTTTT
1 ATTTTTT
93265095 ATAAAAGAAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.10, C:0.05, G:0.03, T:0.82
Consensus pattern (16 bp):
ATTTTTTTACTTTTCT
Found at i:93266391 original size:14 final size:13
Alignment explanation
Indices: 93266349--93266391 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
93266339 TTCTCTTTCG
93266349 GGTTTTGATTTTCA
1 GGTTTTGATTTT-A
*
93266363 AGTTTTGAGTTTTA
1 GGTTTTGA-TTTTA
93266377 GGTTTTGGATTTTA
1 GGTTTT-GATTTTA
93266391 G
1 G
93266392 AATTCATGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 19 0.76
15 6 0.24
ACGTcount: A:0.16, C:0.02, G:0.26, T:0.56
Consensus pattern (13 bp):
GGTTTTGATTTTA
Found at i:93268410 original size:23 final size:23
Alignment explanation
Indices: 93268375--93268422 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
93268365 GACCAAAGTA
*
93268375 CATAATGTGTAAACATTGAGGGT
1 CATAATGTATAAACATTGAGGGT
* * *
93268398 CATAATTTATAAATATTGAGTGT
1 CATAATGTATAAACATTGAGGGT
93268421 CA
1 CA
93268423 AAGTTGCTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (23 bp):
CATAATGTATAAACATTGAGGGT
Found at i:93271294 original size:18 final size:18
Alignment explanation
Indices: 93271271--93271305 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
93271261 CATGGATTCC
93271271 TAAATAGGAAATATTTTA
1 TAAATAGGAAATATTTTA
93271289 TAAATAGGAAATATTTT
1 TAAATAGGAAATATTTT
93271306 CAAAACCCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (18 bp):
TAAATAGGAAATATTTTA
Found at i:93271590 original size:18 final size:18
Alignment explanation
Indices: 93271569--93271605 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
93271559 CCCCATGTTA
93271569 TGCGAACCCCCTTGCATG
1 TGCGAACCCCCTTGCATG
93271587 TGCGAACCCCCTTGCATG
1 TGCGAACCCCCTTGCATG
93271605 T
1 T
93271606 ACGAGCCCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.38, G:0.22, T:0.24
Consensus pattern (18 bp):
TGCGAACCCCCTTGCATG
Found at i:93271614 original size:18 final size:18
Alignment explanation
Indices: 93271571--93271614 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
93271561 CCATGTTATG
*
93271571 CGAACCCCCTTGCATGTG
1 CGAACCCCCTTGCATGTA
93271589 CGAACCCCCTTGCATGTA
1 CGAACCCCCTTGCATGTA
*
93271607 CGAGCCCC
1 CGAACCCC
93271615 GTGTGCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.18, C:0.43, G:0.20, T:0.18
Consensus pattern (18 bp):
CGAACCCCCTTGCATGTA
Found at i:93273365 original size:24 final size:21
Alignment explanation
Indices: 93273322--93273368 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
93273312 TATTGTTACT
93273322 ATTATTTTTATTAATATATTA
1 ATTATTTTTATTAATATATTA
*
93273343 ATTATTTTTTTTAA-AGTATT-
1 ATTATTTTTATTAATA-TATTA
93273363 ATTATT
1 ATTATT
93273369 ACTAATGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
ATTATTTTTATTAATATATTA
Found at i:93273431 original size:13 final size:14
Alignment explanation
Indices: 93273407--93273437 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
93273397 ATTATTATCA
93273407 ATATTAATATATGT
1 ATATTAATATATGT
93273421 ATATT-ATATATGT
1 ATATTAATATATGT
93273434 ATAT
1 ATAT
93273438 ATTCATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (14 bp):
ATATTAATATATGT
Found at i:93273726 original size:21 final size:20
Alignment explanation
Indices: 93273693--93273735 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
93273683 TTTTATATAC
93273693 TATTACATGTATACTTCTAA
1 TATTACATGTATACTTCTAA
* *
93273713 TATTATATCGTATATTTCTAA
1 TATTACAT-GTATACTTCTAA
93273734 TA
1 TA
93273736 CCATCATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.49
Consensus pattern (20 bp):
TATTACATGTATACTTCTAA
Found at i:93292580 original size:53 final size:53
Alignment explanation
Indices: 93292499--93292644 Score: 213
Period size: 53 Copynumber: 2.7 Consensus size: 53
93292489 CTTACACGGT
* *
93292499 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
93292554 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
**
93292607 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTA
93292645 AACAGGCACA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
52 1 0.01
53 77 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:93294995 original size:30 final size:30
Alignment explanation
Indices: 93294937--93294997 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
93294927 TTCCCGAGCC
* *
93294937 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATACAAAAGTT
* *
93294967 TAGGGGCAAAAATGTAATTTTACCAAAGTT
1 TAGGGGCAAAAATGTAATTATACAAAAGTT
93294997 T
1 T
93294998 GTATTAAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATACAAAAGTT
Found at i:93295435 original size:16 final size:16
Alignment explanation
Indices: 93295414--93295453 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
93295404 CACTAGGATG
93295414 GTTGAGTTCCGAACTC
1 GTTGAGTTCCGAACTC
93295430 GTTGAGTTCCGAACTC
1 GTTGAGTTCCGAACTC
93295446 GTTGAGTT
1 GTTGAGTT
93295454 GAGTCCGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.17, C:0.20, G:0.28, T:0.35
Consensus pattern (16 bp):
GTTGAGTTCCGAACTC
Found at i:93304897 original size:2 final size:2
Alignment explanation
Indices: 93304862--93304888 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
93304852 TTTTTATTAC
93304862 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
93304889 TTCATATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:93304904 original size:15 final size:17
Alignment explanation
Indices: 93304862--93304905 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 17
93304852 TTTTTATTAC
*
93304862 TATATATATATAT-ATA
1 TATATATATATTTCATA
93304878 TATATATATATTTCATA
1 TATATATATATTTCATA
93304895 TAT-TAT-TATTT
1 TATATATATATTT
93304906 GTTTTTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 5 0.19
16 15 0.58
17 6 0.23
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (17 bp):
TATATATATATTTCATA
Found at i:93304957 original size:23 final size:21
Alignment explanation
Indices: 93304931--93304986 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 21
93304921 CTTGCTTTTA
93304931 TATTATATATTGTAAGATTATTT
1 TATTATATATT-TAAGATTA-TT
*
93304954 TATTATATATATTAATATTATT
1 TATTATATAT-TTAAGATTATT
*
93304976 TATTATCTATT
1 TATTATATATT
93304987 ACTTTTCACA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 1 0.03
22 11 0.37
23 17 0.57
24 1 0.03
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.59
Consensus pattern (21 bp):
TATTATATATTTAAGATTATT
Found at i:93305025 original size:16 final size:16
Alignment explanation
Indices: 93305004--93305043 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
93304994 ACAAATTATT
93305004 ATTATTATTTTACATC
1 ATTATTATTTTACATC
* * *
93305020 ATTATTTTTTTATATT
1 ATTATTATTTTACATC
93305036 ATTATTAT
1 ATTATTAT
93305044 ATTTTTACTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTATTATTTTACATC
Found at i:93305745 original size:33 final size:33
Alignment explanation
Indices: 93305700--93305774 Score: 134
Period size: 33 Copynumber: 2.3 Consensus size: 33
93305690 TTGATATTGT
93305700 ATTACT-CTTTTTTGTATATCATGCATTATTTA
1 ATTACTACTTTTTTGTATATCATGCATTATTTA
*
93305732 ATTATTACTTTTTTGTATATCATGCATTATTTA
1 ATTACTACTTTTTTGTATATCATGCATTATTTA
93305765 ATTACTACTT
1 ATTACTACTT
93305775 CGTATGTTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 5 0.12
33 35 0.88
ACGTcount: A:0.27, C:0.12, G:0.05, T:0.56
Consensus pattern (33 bp):
ATTACTACTTTTTTGTATATCATGCATTATTTA
Found at i:93307632 original size:2 final size:2
Alignment explanation
Indices: 93307627--93307655 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
93307617 AAGGAAGCTA
93307627 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
93307656 ATTAAATGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:93309718 original size:2 final size:2
Alignment explanation
Indices: 93309711--93309742 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
93309701 ATAAAGTACA
*
93309711 AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93309743 TAGAGAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:93311021 original size:33 final size:33
Alignment explanation
Indices: 93310979--93311045 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
93310969 GTCCCCAGTG
93310979 GAGTCGCCAAGCTGTCGAAACCATTTTTTTAAA
1 GAGTCGCCAAGCTGTCGAAACCATTTTTTTAAA
93311012 GAGTCGCCAAGCTGTCGAAACCATTTTTTTAAA
1 GAGTCGCCAAGCTGTCGAAACCATTTTTTTAAA
93311045 G
1 G
93311046 GGGTTTGAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (33 bp):
GAGTCGCCAAGCTGTCGAAACCATTTTTTTAAA
Found at i:93311950 original size:19 final size:19
Alignment explanation
Indices: 93311926--93312051 Score: 183
Period size: 19 Copynumber: 6.9 Consensus size: 19
93311916 AATCATATCT
*
93311926 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
93311945 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
93311963 TCTAAGATTG--TACCATA
1 TCTAAGATTGCATATCATA
93311980 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
93311998 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
93312015 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATATCATA
93312034 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
93312052 TGAAGATTAT
Statistics
Matches: 96, Mismatches: 5, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
17 31 0.32
18 31 0.32
19 34 0.35
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:93311987 original size:35 final size:35
Alignment explanation
Indices: 93311926--93312043 Score: 191
Period size: 35 Copynumber: 3.3 Consensus size: 35
93311916 AATCATATCT
93311926 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
*
93311963 TCTAAGATTGTACCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
93311998 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
93312034 TCTAAGATTG
1 TCTAAGATTG
93312044 CATATCATTG
Statistics
Matches: 77, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
35 52 0.68
36 15 0.19
37 10 0.13
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:93314503 original size:2 final size:2
Alignment explanation
Indices: 93314498--93314532 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
93314488 AAGGAAGCTA
93314498 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
93314533 ATTAAATGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:93322147 original size:26 final size:26
Alignment explanation
Indices: 93322111--93322272 Score: 245
Period size: 26 Copynumber: 6.2 Consensus size: 26
93322101 CATGAAATTC
93322111 TTATCATGAAACATTTACCTAA-CTCA
1 TTATCATGAAACATTTACCTAACCT-A
* *
93322137 TTATCATGAAATATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
93322163 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* *
93322189 TTATCATGAAGCATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
93322215 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
*
93322241 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
93322267 TTATCA
1 TTATCA
93322273 ATTTGTATCA
Statistics
Matches: 124, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
26 123 0.99
27 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:93322206 original size:78 final size:78
Alignment explanation
Indices: 93322111--93322272 Score: 279
Period size: 78 Copynumber: 2.1 Consensus size: 78
93322101 CATGAAATTC
* *
93322111 TTATCATGAAACATTTACCTAACTCATTATCATGAAATATTTACCTAACCCATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
93322176 TTTACCTAACCTA
66 TTTACCTAACCTA
* * *
93322189 TTATCATGAAGCATTTACCTAACCCATTATCATGGAACATTTACCTAACCTATTATCATGGAACA
1 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
93322254 TTTACCTAACCTA
66 TTTACCTAACCTA
93322267 TTATCA
1 TTATCA
93322273 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
78 79 1.00
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.35
Consensus pattern (78 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCATTATCATGGAACA
TTTACCTAACCTA
Found at i:93322807 original size:12 final size:13
Alignment explanation
Indices: 93322785--93322815 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
93322775 CCTTAAAACC
93322785 AAATGAAATAAAT
1 AAATGAAATAAAT
93322798 AAAT-AAATAAAT
1 AAATGAAATAAAT
93322810 AAATGA
1 AAATGA
93322816 TTGTTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (13 bp):
AAATGAAATAAAT
Found at i:93324176 original size:3 final size:3
Alignment explanation
Indices: 93324168--93324281 Score: 62
Period size: 3 Copynumber: 38.7 Consensus size: 3
93324158 TATTTATTTC
* *
93324168 TAT TAT TA- TAT ATAT AAT T-T TAT TAT TAT TAT TAT TAT T-T GTTT
1 TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
* * ** * *
93324212 TAT TTT TAA CCT TAT TTT TA- TAT TAT ATAT TA- TAT AAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
93324255 TA- TAT TAT TAT TATT TAT TAT ATAT TA
1 TAT TAT TAT TAT TA-T TAT TAT -TAT TA
93324282 CTTTTCACAA
Statistics
Matches: 84, Mismatches: 15, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
2 13 0.15
3 58 0.69
4 13 0.15
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:93324177 original size:20 final size:19
Alignment explanation
Indices: 93324154--93324286 Score: 69
Period size: 20 Copynumber: 6.7 Consensus size: 19
93324144 AATCTAACCC
*
93324154 TATATATTTATTTCTATTAT
1 TATATATTAATTT-TATTAT
93324174 TATATATATAATTTTATTAT
1 TATATAT-TAATTTTATTAT
*
93324194 TAT-TATTATTATTTGTTTTAT
1 TATATATTA--ATTT-TATTAT
* *
93324215 T-TTTAACCTTATTTTTA-TAT
1 TATAT-A--TTAATTTTATTAT
* *
93324235 TATATATT-ATATAATTAT
1 TATATATTAATTTTATTAT
*
93324253 TTTATATT-ATTATTATTTAT
1 TATATATTAATT-TTA-TTAT
*
93324273 TATATATTACTTTT
1 TATATATTAATTTT
93324287 CACAAAATAT
Statistics
Matches: 87, Mismatches: 13, Indels: 26
0.69 0.10 0.21
Matches are distributed among these distances:
17 3 0.03
18 16 0.18
19 5 0.06
20 39 0.45
21 17 0.20
22 4 0.05
24 3 0.03
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.65
Consensus pattern (19 bp):
TATATATTAATTTTATTAT
Found at i:93324242 original size:7 final size:7
Alignment explanation
Indices: 93324230--93324281 Score: 58
Period size: 7 Copynumber: 8.0 Consensus size: 7
93324220 ACCTTATTTT
93324230 TATATTA
1 TATATTA
93324237 TATATTA
1 TATATTA
93324244 TATA--A
1 TATATTA
*
93324249 T-TATTT
1 TATATTA
93324255 TATATTA
1 TATATTA
93324262 T-TATTA
1 TATATTA
*
93324268 TTTATTA
1 TATATTA
93324275 TATATTA
1 TATATTA
93324282 CTTTTCACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
4 2 0.05
5 2 0.05
6 7 0.18
7 27 0.71
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TATATTA
Found at i:93324327 original size:14 final size:14
Alignment explanation
Indices: 93324293--93324330 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
93324283 TTTTCACAAA
*
93324293 ATATTATTAT-TTT
1 ATATTATTATCTAT
*
93324306 ACATTATTATCTAT
1 ATATTATTATCTAT
93324320 ATATTATTATC
1 ATATTATTATC
93324331 ATTAAAGGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (14 bp):
ATATTATTATCTAT
Found at i:93324505 original size:27 final size:27
Alignment explanation
Indices: 93324464--93324530 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
93324454 CATTAATTAC
* *
93324464 TTATTTTATAT-TATTCTA-AACTTATAT
1 TTATTATATATATATTATATAA-TTAT-T
93324491 TTA-TATATATATATTATATAATTATT
1 TTATTATATATATATTATATAATTATT
*
93324517 TTATTATAAATATA
1 TTATTATATATATA
93324531 AATTCTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 10 0.29
27 22 0.65
28 2 0.06
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (27 bp):
TTATTATATATATATTATATAATTATT
Found at i:93327521 original size:685 final size:686
Alignment explanation
Indices: 93325808--93327669 Score: 2034
Period size: 685 Copynumber: 2.6 Consensus size: 686
93325798 ATTACATTTT
* **
93325808 ACCTTTAAATTAATATTCTTAAAA-TTGCAAAATATTTGAACAAGCATAGAGTTTTGATGGCTTA
1 ACCTTTAAAATAATATTCTTAAAACCAG-AAAATATTTGAACAAGCATAGAGTTTTGATGGCTTA
* * * * *
93325872 AAACGAGCCAAATAATCATGAAAATTCTAAAATATAAAACACAATTTTTTTTATTTTATTTCATT
65 AAACGAGCCAAAAAATAATGAAAATTCTGAAATATAAAATACAATTTTTTTCATTTTATTTCATT
*
93325937 TTAGTATTATTGTTATCCAAATTATGTTTTATTAAATTAAGCATCATATTATATTATTTTTCAAA
130 TTAATATTATTGTTATCCAAATTATG--TT-TT--ATT----A--A-A-T-TA--A-TTTT-AAA
* * * *
93326002 ATTTTTTGTTGAATTTTTTATTTAAATATATTACAAAATTGTAGAATTATCACACGTGTTAAGGT
177 ATTTTTTGTTGAATTTTTTATTTATATATATTACAAAATTGTAAAATTATCACACATGTTAAGTT
* * * ** ** * *
93326067 ACTCGATAAGTTT-TTCCACTATCGAAATGCCTTGGAATCGAAATACCAAACCGAAACCAAATCA
242 ACTCG-TAA-TTTATTACACAATCGAAAT-CCTTTGAATCGAAACCCCAAACAAAAACCGAATCC
* *
93326131 AAAACCCAAAACC--A--AAACTAAAAGTGAAAGCCCAAACTGACACCGAATCTAAAACTCCAAA
304 AAACCCCAAAACCAAATGAAACT-AAAGTGAAAGCCCAAACCGACACCGAATCTAAAACTCCAAA
* * * * * *
93326192 GTGAAAACTAAACTAAAACCAAAATCGAAAACCCAAACTTAAGGCTTTTAACATATTTGGTAACT
368 CTGAAAACTAATCTGAAACCTAAATTGAAAACCC-AACTTAAGGCTTTCAACATATTTGGTAACT
* * *
93326257 AAATTTAAGGCTTTTTAAAACCATTTATTGTTTCTCATTCTAATCGAACTTTAAATGATTTCTAC
432 ACATTTAAGGCCTTTTAAAACCATCTATTGTTTCTCATTCTAATCGAACTTTAAATGATTTCTAC
* *
93326322 TGTATGAAATGTGATCTTTCCGTTGGTCTGTTTTTCTAGCCAAATTGAATTCTGTCTTAGATGAA
497 TGTATGAAATGTAATCTTTCCATTGGTCTGTTTTTCTAGCCAAATTGAATTCTGTCTTAGATGAA
* *
93326387 CTAAGCTCCCAAAGTAGCCTAATTGAAATAGGAAACCTAGAAATTCTGAGCAAATTGCGGCGATT
562 CTAAGCTCCCAAAGTAGCC--------AT----AACCTAGAAATTCTGAGCAAATTGCGACCATT
*
93326452 TGTAATATTTTTAGCACCAAAATCTTAAGCTTTTAGTGATTGGTTTTCATAAAACAAAATCTCTA
615 TGTAATATTTTGAGCACCAAAATCTTAAGCTTTTAGTGATTGGTTTTCATAAAACAAAA----TA
*
93326517 GTTTTAGAATAACATTTG
676 --TTT---AT-ACA-TAG
* *
93326535 ACCTTTAAAATAATATTCTTAAAACCGGAAAATATTTGAACGAGCATAGAGTTTTGATGGCTTAA
1 ACCTTTAAAATAATATTCTTAAAACCAGAAAATATTTGAACAAGCATAGAGTTTTGATGGCTTAA
93326600 AACGAGCCAAAAAATAATGAAAATTCTGAAATATAAAATACAATTTTTTTTCATTTTCATATT-A
66 AACGAGCCAAAAAATAATGAAAATTCTGAAATATAAAATACAA-TTTTTTTCATTTT-AT-TTCA
* * * * ** *
93326664 TTGTTATCCAAATTATGTTTTAT-TAAATTAAAAGTCATATTAAATTAATTTTCAAAATTTTTAG
128 TT-TTA---ATATTAT-TGTTATCCAAATT--ATGTTTTATTAAATTAATTTT-AAAATTTTTTG
*
93326728 TTGAATTTTTTA-TTATATATATTACAAAATTATAAAATTATCACACATGTTAAGTTACTCGGTA
185 TTGAATTTTTTATTTATATATATTACAAAATTGTAAAATTATCACACATGTTAAGTTACTC-GTA
** * * *
93326792 GGTTATCACACAATTGAAATGCTTTGGAATCGAAACCCCAAACAAAAACCGAATCCAAACCCCAA
249 ATTTATTACACAATCGAAATCCTTT-GAATCGAAACCCCAAACAAAAACCGAATCCAAACCCCAA
* * *
93326857 AACCGAAACTGAAACTGAAAGTGAAAGCCCAAACCAACAACAAATCTAAAACTCCAAACTGAAAA
313 AACC-AAA-TGAAACT-AAAGTGAAAGCCCAAACCGACACCGAATCTAAAACTCCAAACTGAAAA
* *
93326922 CTAATCTGAAACCTAAGTTGAAAACCCAAGTTAAGGGCTTTCAACATATTTGGGTAACTACATTT
375 CTAATCTGAAACCTAAATTGAAAACCCAACTTAA-GGCTTTCAACATATTT-GGTAACTACATTT
** * **
93326987 AAGGCCTTTTAAAACCATCTATTGTTTCTCATTCTTGTCGAAGTTTAAATGATTTCTGTTGTAAT
438 AAGGCCTTTTAAAACCATCTATTGTTTCTCATTCTAATCGAACTTTAAATGATTTCTACTGT-AT
* * * * *
93327052 GAAATGTAATCTTTCCATTGGTTTGTTTTTCTAGCTAAATTGAGTTTTGTCTTAGATGAATTAAG
502 GAAATGTAATCTTTCCATTGGTCTGTTTTTCTAGCCAAATTGAATTCTGTCTTAGATGAACTAAG
* * *
93327117 TTCCCAAAGTAG-C-T-ACCTAGAAATTCTGAGCAAATTGTGACCATTTGTAATATTTTGAGCCC
567 CTCCCAAAGTAGCCATAACCTAGAAATTCTGAGCAAATTGCGACCATTTGTAATATTTTGAGCAC
* * *
93327179 CAAAATCTTAGGCTTTTGGTGATTGGTTTTCATAAAAC-GAA-A-TT-T-C-TAG
632 CAAAATCTTAAGCTTTTAGTGATTGGTTTTCATAAAACAAAATATTTATACATAG
*
93327228 ACCTTTAAAATAATATTCTTAAAACCAGAAAATATTTGAACAAGCATAAAGTTTTGATGGCTT-A
1 ACCTTTAAAATAATATTCTTAAAACCAGAAAATATTTGAACAAGCATAGAGTTTTGATGGCTTAA
93327292 AACGAGCCAAAAAATAATGAAAATTCTGAAATATAAAATAC-ATTTTTTTCCATTTTATTTCA-T
66 AACGAGCCAAAAAATAATGAAAATTCTGAAATATAAAATACAATTTTTTT-CATTTTATTTCATT
93327355 TTAATATTATTGTTATCCAAATTATGTTTTATTAAATTAATTTTAAAATTTTTTTGTTGAATTTT
130 TTAATATTATTGTTATCCAAATTATGTTTTATTAAATTAATTTTAAAA-TTTTTTGTTGAATTTT
* *
93327420 ATTATTTATATATATTACAAAATTGTAAAATTATCACACATGTTAAGTTATTCAGTAATTTATTG
194 -TTATTTATATATATTACAAAATTGTAAAATTATCACACATGTTAAGTTACTC-GTAATTTATTA
* * *
93327485 CACAATCAAAATACCTTTGAATCAAAACCCCAAACAAAAACCGAATCCAAACTCCAAAACCAAAA
257 CACAATCGAAAT-CCTTTGAATCGAAACCCCAAACAAAAACCGAATCCAAACCCCAAAACC-AAA
* * * * *
93327550 TTGAAA-TTAA---AAA-CCCAAATCGACACCGTATTTAAAACCCCAAACCT-AAAACTAAAT-T
320 -TGAAACTAAAGTGAAAGCCCAAACCGACACCGAATCTAAAACTCCAAA-CTGAAAACT-AATCT
*
93327608 GAAACCTAAATTGAAAACCTAAACTTTTAAGGCTTTCAACATATTTAGGTAACTACATTTAA
382 GAAACCTAAATTGAAAACC-CAAC--TTAAGGCTTTCAACATATTT-GGTAACTACATTTAA
93327670 ACCATCTTAC
Statistics
Matches: 989, Mismatches: 111, Indels: 116
0.81 0.09 0.10
Matches are distributed among these distances:
679 49 0.05
680 10 0.01
681 31 0.03
682 8 0.01
683 35 0.04
684 9 0.01
685 123 0.12
686 4 0.00
688 3 0.00
689 3 0.00
690 10 0.01
691 7 0.01
692 42 0.04
693 62 0.06
695 1 0.00
697 1 0.00
701 2 0.00
704 1 0.00
709 2 0.00
710 79 0.08
715 1 0.00
716 5 0.01
717 92 0.09
718 28 0.03
719 1 0.00
720 1 0.00
721 2 0.00
722 7 0.01
723 86 0.09
724 69 0.07
725 71 0.07
726 1 0.00
727 98 0.10
728 13 0.01
729 5 0.01
730 8 0.01
732 1 0.00
733 11 0.01
734 5 0.01
735 2 0.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (686 bp):
ACCTTTAAAATAATATTCTTAAAACCAGAAAATATTTGAACAAGCATAGAGTTTTGATGGCTTAA
AACGAGCCAAAAAATAATGAAAATTCTGAAATATAAAATACAATTTTTTTCATTTTATTTCATTT
TAATATTATTGTTATCCAAATTATGTTTTATTAAATTAATTTTAAAATTTTTTGTTGAATTTTTT
ATTTATATATATTACAAAATTGTAAAATTATCACACATGTTAAGTTACTCGTAATTTATTACACA
ATCGAAATCCTTTGAATCGAAACCCCAAACAAAAACCGAATCCAAACCCCAAAACCAAATGAAAC
TAAAGTGAAAGCCCAAACCGACACCGAATCTAAAACTCCAAACTGAAAACTAATCTGAAACCTAA
ATTGAAAACCCAACTTAAGGCTTTCAACATATTTGGTAACTACATTTAAGGCCTTTTAAAACCAT
CTATTGTTTCTCATTCTAATCGAACTTTAAATGATTTCTACTGTATGAAATGTAATCTTTCCATT
GGTCTGTTTTTCTAGCCAAATTGAATTCTGTCTTAGATGAACTAAGCTCCCAAAGTAGCCATAAC
CTAGAAATTCTGAGCAAATTGCGACCATTTGTAATATTTTGAGCACCAAAATCTTAAGCTTTTAG
TGATTGGTTTTCATAAAACAAAATATTTATACATAG
Found at i:93327627 original size:13 final size:13
Alignment explanation
Indices: 93327597--93327630 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
93327587 CCCCAAACCT
93327597 AAAA-CTAAATTG
1 AAAACCTAAATTG
93327609 -AAACCTAAATTG
1 AAAACCTAAATTG
93327621 AAAACCTAAA
1 AAAACCTAAA
93327631 CTTTTAAGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 3 0.15
12 8 0.40
13 9 0.45
ACGTcount: A:0.59, C:0.15, G:0.06, T:0.21
Consensus pattern (13 bp):
AAAACCTAAATTG
Found at i:93328136 original size:21 final size:21
Alignment explanation
Indices: 93328078--93328124 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
93328068 CAAATTATTT
93328078 TTTATTGGATATATATAATTA
1 TTTATTGGATATATATAATTA
93328099 TTTATTGGATATATATAATTA
1 TTTATTGGATATATATAATTA
93328120 TTTAT
1 TTTAT
93328125 GTATGCAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (21 bp):
TTTATTGGATATATATAATTA
Found at i:93329438 original size:2 final size:2
Alignment explanation
Indices: 93329431--93329468 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
93329421 ATCCTTTCTC
93329431 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93329469 TATTCACATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93330222 original size:31 final size:30
Alignment explanation
Indices: 93330151--93330224 Score: 80
Period size: 30 Copynumber: 2.4 Consensus size: 30
93330141 TTTTTATCAC
*
93330151 AATTGATTCCTAAACTATACGTTATATCCA
1 AATTGATACCTAAACTATACGTTATATCCA
* *
93330181 AAGTGATACCTAAACTATAATGTCT-T-TCCTA
1 AATTGATACCTAAACTAT-ACGT-TATATCC-A
93330212 AATTGATACCTAA
1 AATTGATACCTAA
93330225 TTTTTTTTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 19 0.51
31 17 0.46
32 1 0.03
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.35
Consensus pattern (30 bp):
AATTGATACCTAAACTATACGTTATATCCA
Found at i:93330804 original size:31 final size:31
Alignment explanation
Indices: 93330769--93330834 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
93330759 GCTAAGGTAA
* *
93330769 TTTGAGTAA-CGAAGTATAAATTAAGTATTAT
1 TTTGAGTAATCGAA-TATAAATTAAGGAGTAT
* *
93330800 TTTGAGTAATGGAATATAATTTAAGGAGTAT
1 TTTGAGTAATCGAATATAAATTAAGGAGTAT
93330831 TTTG
1 TTTG
93330835 TAATTTAACC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 27 0.90
32 3 0.10
ACGTcount: A:0.38, C:0.02, G:0.20, T:0.41
Consensus pattern (31 bp):
TTTGAGTAATCGAATATAAATTAAGGAGTAT
Found at i:93337078 original size:2 final size:2
Alignment explanation
Indices: 93337071--93337108 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
93337061 GATGGAATTA
93337071 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93337109 GAAAATTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93346291 original size:19 final size:21
Alignment explanation
Indices: 93346267--93346316 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
93346257 GGTAAATTTT
93346267 TTAATATATA-TATTTATAA-
1 TTAATATATATTATTTATAAC
*
93346286 TTAATATAGTATTTTTTATAAC
1 TTAATATA-TATTATTTATAAC
*
93346308 ATAATATAT
1 TTAATATAT
93346317 TTAGATTGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 8 0.31
20 2 0.08
21 9 0.35
22 7 0.27
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
TTAATATATATTATTTATAAC
Found at i:93346740 original size:54 final size:53
Alignment explanation
Indices: 93346657--93346803 Score: 204
Period size: 54 Copynumber: 2.7 Consensus size: 53
93346647 CAAGCAAGTC
* *
93346657 CAACTCAAGAACTCTTTCCATTCATCTTGTTATCACAGGCGCAGGCAACTCCTT
1 CAACTC-AGAACTCTTTCCATTCATCTTGTGATCACAGGCACAGGCAACTCCTT
* * *
93346711 CAACTCAGAAGCTCTTTCCATTCACCTTGTGATCACAGGTACAGGCAAGTCCTT
1 CAACTCAGAA-CTCTTTCCATTCATCTTGTGATCACAGGCACAGGCAACTCCTT
* *
93346765 CAACTCAAAAACTCTTTCCATTCATCATGTGATCACAGG
1 CAACTC-AGAACTCTTTCCATTCATCTTGTGATCACAGG
93346804 ACAAGATAAC
Statistics
Matches: 83, Mismatches: 8, Indels: 4
0.87 0.08 0.04
Matches are distributed among these distances:
53 4 0.05
54 76 0.92
55 3 0.04
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.29
Consensus pattern (53 bp):
CAACTCAGAACTCTTTCCATTCATCTTGTGATCACAGGCACAGGCAACTCCTT
Found at i:93348355 original size:18 final size:20
Alignment explanation
Indices: 93348334--93348373 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
93348324 TTTTTTAAAA
93348334 TATAAAT-TTTT-AAATTTT
1 TATAAATATTTTGAAATTTT
*
93348352 TATAAATATTTTGTAATTTT
1 TATAAATATTTTGAAATTTT
93348372 TA
1 TA
93348374 CTGAGAGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 4 0.21
20 8 0.42
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (20 bp):
TATAAATATTTTGAAATTTT
Found at i:93352578 original size:12 final size:12
Alignment explanation
Indices: 93352561--93352587 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
93352551 TTGGAGATTT
93352561 TGCACTTATGTG
1 TGCACTTATGTG
93352573 TGCACTTATGTG
1 TGCACTTATGTG
93352585 TGC
1 TGC
93352588 TTTATATCGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.19, G:0.26, T:0.41
Consensus pattern (12 bp):
TGCACTTATGTG
Found at i:93359013 original size:21 final size:19
Alignment explanation
Indices: 93358956--93359014 Score: 50
Period size: 21 Copynumber: 2.9 Consensus size: 19
93358946 TTTAAAAACA
*
93358956 TAATTGAGTGAAATATATGAT
1 TAATT-AGT-AAATATATTAT
93358977 TAATT-GTAAA-ACTATTAT
1 TAATTAGTAAATA-TATTAT
93358995 TGAATTAGTCAAATATATTA
1 T-AATTAGT-AAATATATTA
93359015 ATGTATTTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
17 1 0.03
18 9 0.28
19 6 0.19
20 2 0.06
21 13 0.41
22 1 0.03
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (19 bp):
TAATTAGTAAATATATTAT
Found at i:93359276 original size:27 final size:27
Alignment explanation
Indices: 93359242--93359294 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
93359232 ATATATATTA
93359242 ATTTCAAACTTAATTA-CGTTGTTTTG
1 ATTTCAAACTTAATTATCGTTGTTTTG
* *
93359268 ATTTACAAATTTTATTATCGTTGTTTT
1 ATTT-CAAACTTAATTATCGTTGTTTT
93359295 TCTTTCCCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 4 0.17
27 10 0.43
28 9 0.39
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.55
Consensus pattern (27 bp):
ATTTCAAACTTAATTATCGTTGTTTTG
Found at i:93359638 original size:35 final size:35
Alignment explanation
Indices: 93359592--93359661 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
93359582 ATTAATCTAC
93359592 TAACTTATTGTTGACGCGACAATTTTTTATGTTTG
1 TAACTTATTGTTGACGCGACAATTTTTTATGTTTG
*
93359627 TAACTTATTGTTGACGCGGCAATTTTTTATGTTTG
1 TAACTTATTGTTGACGCGACAATTTTTTATGTTTG
93359662 GCTAGAGTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.21, C:0.11, G:0.19, T:0.49
Consensus pattern (35 bp):
TAACTTATTGTTGACGCGACAATTTTTTATGTTTG
Found at i:93363676 original size:16 final size:18
Alignment explanation
Indices: 93363655--93363693 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
93363645 TGTTGATAAT
*
93363655 TTAAAAA-A-TATATGGA
1 TTAAAAATATTATATAGA
93363671 TTAAAAATATTATATAGA
1 TTAAAAATATTATATAGA
93363689 TTAAA
1 TTAAA
93363694 TTCATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 7 0.35
17 1 0.05
18 12 0.60
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (18 bp):
TTAAAAATATTATATAGA
Found at i:93375699 original size:18 final size:18
Alignment explanation
Indices: 93375676--93375714 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
93375666 ACAGTATTGT
*
93375676 TAATTTTATCTCATCTAC
1 TAATTTCATCTCATCTAC
93375694 TAATTTCATCTCATCTAC
1 TAATTTCATCTCATCTAC
93375712 TAA
1 TAA
93375715 CGGCACGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (18 bp):
TAATTTCATCTCATCTAC
Found at i:93375845 original size:18 final size:18
Alignment explanation
Indices: 93375819--93375856 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
93375809 AGATTGAGTT
93375819 TTAAATATTAATTATATA
1 TTAAATATTAATTATATA
*
93375837 TTAATTATTAATTATATA
1 TTAAATATTAATTATATA
93375855 TT
1 TT
93375857 TATATTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTAAATATTAATTATATA
Found at i:93375979 original size:16 final size:17
Alignment explanation
Indices: 93375960--93375999 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
93375950 TTTTTAATGT
*
93375960 ATTAATTTTTATA-AAA
1 ATTAATTTTTAAATAAA
93375976 ATTAA-TTTTAAATAAA
1 ATTAATTTTTAAATAAA
93375992 ATTAATTT
1 ATTAATTT
93376000 GAACAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 6 0.29
16 13 0.62
17 2 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTAATTTTTAAATAAA
Found at i:93381403 original size:18 final size:18
Alignment explanation
Indices: 93381380--93381445 Score: 114
Period size: 18 Copynumber: 3.7 Consensus size: 18
93381370 AAAATGTGAG
* *
93381380 AAATGATGTTCGCATTTT
1 AAATGATGTTCACATTTC
93381398 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
93381416 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
93381434 AAATGATGTTCA
1 AAATGATGTTCA
93381446 AATTGATGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:93381969 original size:72 final size:71
Alignment explanation
Indices: 93381869--93382040 Score: 229
Period size: 72 Copynumber: 2.4 Consensus size: 71
93381859 AACAAAAATC
* * * *
93381869 CTAAACTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTA
1 CTAAATTACTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTTA
93381934 TCTAT-
66 TCTATA
* * * *
93381939 GTGTAATCTACTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGTTATTGAATTTATGTTCTACT
1 CT-AAAT-TACTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACT
*
93382004 TATTTATA
64 TATCTATA
*
93382012 CTAAATTAGTTTTATCAATAGTTGTTTAT
1 CTAAATTACTTTTATCAATAGTTGTTTAT
93382041 ATATGATTTT
Statistics
Matches: 86, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
70 1 0.01
71 23 0.27
72 61 0.71
73 1 0.01
ACGTcount: A:0.25, C:0.08, G:0.13, T:0.54
Consensus pattern (71 bp):
CTAAATTACTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTTA
TCTATA
Found at i:93383469 original size:12 final size:12
Alignment explanation
Indices: 93383454--93383488 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
93383444 CGACGACGAC
93383454 GATGATGGTGAT
1 GATGATGGTGAT
93383466 GATGATGGTGAT
1 GATGATGGTGAT
*
93383478 GATGACGGTGA
1 GATGATGGTGA
93383489 ATCAAACAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.26, C:0.03, G:0.43, T:0.29
Consensus pattern (12 bp):
GATGATGGTGAT
Found at i:93384089 original size:13 final size:13
Alignment explanation
Indices: 93384071--93384157 Score: 129
Period size: 13 Copynumber: 6.7 Consensus size: 13
93384061 CTTAAAATTT
*
93384071 TCAAAAGTACTTC
1 TCAAAAGCACTTC
*
93384084 TCAAAAACACTTC
1 TCAAAAGCACTTC
93384097 TCAAAAGCACTTC
1 TCAAAAGCACTTC
*
93384110 TCAAAAGCACTTT
1 TCAAAAGCACTTC
* *
93384123 TCCATAGCACTTC
1 TCAAAAGCACTTC
93384136 TCAAAAGCACTTC
1 TCAAAAGCACTTC
93384149 TCAAAAGCA
1 TCAAAAGCA
93384158 TTGCCAAACT
Statistics
Matches: 65, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 65 1.00
ACGTcount: A:0.39, C:0.29, G:0.07, T:0.25
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:93385990 original size:9 final size:9
Alignment explanation
Indices: 93385962--93385997 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
93385952 CTTCTGTGAA
*
93385962 AAAAAAAAT
1 AAAATAAAT
93385971 AAAATAGAAT
1 AAAATA-AAT
93385981 AAAATAAAT
1 AAAATAAAT
93385990 AAAATAAA
1 AAAATAAA
93385998 GAACACACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 16 0.64
10 9 0.36
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.17
Consensus pattern (9 bp):
AAAATAAAT
Found at i:93390445 original size:9 final size:9
Alignment explanation
Indices: 93390420--93390450 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
93390410 AATTTGTGAA
93390420 AAATAAAAT
1 AAATAAAAT
93390429 AGAATAAAAT
1 A-AATAAAAT
93390439 AAATAAAAT
1 AAATAAAAT
93390448 AAA
1 AAA
93390451 GAACACACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (9 bp):
AAATAAAAT
Found at i:93392023 original size:13 final size:14
Alignment explanation
Indices: 93392007--93392042 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
93391997 CAATCTCATA
93392007 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
93392020 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
93392033 TCTC-ATTTCA
1 TCTCAATTTCA
93392043 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:93392032 original size:18 final size:19
Alignment explanation
Indices: 93391994--93392034 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
93391984 TGGTTCATGT
93391994 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
93392013 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
93392031 TTTC
1 TTTC
93392035 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:93392224 original size:39 final size:38
Alignment explanation
Indices: 93392157--93392291 Score: 101
Period size: 39 Copynumber: 3.4 Consensus size: 38
93392147 ACCAATATGG
* * *
93392157 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGAAATATTTGA
* * * *
93392196 CACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGAAATATTTGA
* * * * *
93392234 TACCCAGTACCTCATCGAATCTATCCGAAGAAATATAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGAAATAT-TTGA
*
93392275 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
93392292 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGAAATATTTGA
Found at i:93392557 original size:18 final size:19
Alignment explanation
Indices: 93392531--93392569 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
93392521 TTTCAATTCA
93392531 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
93392550 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
93392568 AT
1 AT
93392570 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:93393895 original size:5 final size:5
Alignment explanation
Indices: 93393885--93393937 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
93393875 TTACTTATTT
* *
93393885 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
93393933 ATATA
1 ATATA
93393938 TATTTTAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 30 0.73
6 7 0.17
7 4 0.10
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:93393901 original size:12 final size:12
Alignment explanation
Indices: 93393884--93393939 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
93393874 TTTACTTATT
93393884 TATATAATATAA
1 TATATAATATAA
93393896 TATATAATATAATA
1 TATATAATAT-A-A
93393910 TACTATAATATAA
1 TA-TATAATATAA
*
93393923 TA-ATAATTTAA
1 TATATAATATAA
93393934 TATATA
1 TATATA
93393940 TTTTAACACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:93398480 original size:13 final size:14
Alignment explanation
Indices: 93398464--93398499 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
93398454 CAATCTCATA
93398464 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
93398477 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
93398490 TCTC-ATTTCA
1 TCTCAATTTCA
93398500 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:93398489 original size:18 final size:19
Alignment explanation
Indices: 93398451--93398491 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
93398441 TGGTTCATGT
93398451 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
93398470 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
93398488 TTTC
1 TTTC
93398492 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Done.