Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 36 of 770
Found at i:10161910 original size:73 final size:72
Alignment explanation
Indices: 10161799--10162224 Score: 481
Period size: 73 Copynumber: 5.9 Consensus size: 72
10161789 TTTGGGTACT
* * * ** * ** **
10161799 CTGAGGTATCTTTAATTCATGTTTTCAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCA
1 CTGAGGTATTTTTAGTTTATG-TTTCAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCA
10161864 GGTCACACG
65 GGT-ACACG
*
10161873 TTGAGGTATTTTTAGTTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAG
1 CTGAGGTATTTTTAGTTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAG
10161938 GT-CACG
66 GTACACG
* * * *
10161944 CTGAGGTATTTTAATTCCTTTTGTTTCAAAAAATTGACTCATATTACGAGAGGTGAGTCAAGCCT
1 CTGAGGTATTTTTAGT--TTATGTTTC-AAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCT
*
10162009 CAGGACACACG
63 CAGG-TACACG
*
10162020 CTGAGGTATTTTTAGTTTATGTTTCAAAAATTGACTCATATTGCAAGAGGTGAGTCAAGCCTCAG
1 CTGAGGTATTTTTAGTTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAG
10162085 GT-CACG
66 GTACACG
* * * * **
10162091 CTGAGGTATTTTAATTCCTTTTGTTTCAAAAA-TCAGCTCATATTGCGAGAGGTGAGTTGAGCCT
1 CTGAGGTATTTTTAGT--TTATGTTTCAAAAATTGA-CTCATATTGCGAGAGGTGAGTCAAGCCT
10162155 C-GG-AGCACG
63 CAGGTA-CACG
*
10162164 CTGAGGTATTTTTAGTTTATGTTT-AGAAAA-T-ACTCATATTACGAGAGGTGAGTCAAGCCTC
1 CTGAGGTATTTTTAGTTTATGTTTCA-AAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTC
10162225 GGGGCATGCT
Statistics
Matches: 305, Mismatches: 36, Indels: 27
0.83 0.10 0.07
Matches are distributed among these distances:
69 26 0.09
70 2 0.01
71 47 0.15
72 4 0.01
73 143 0.47
74 65 0.21
76 18 0.06
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (72 bp):
CTGAGGTATTTTTAGTTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAGTCAAGCCTCAG
GTACACG
Found at i:10162018 original size:147 final size:146
Alignment explanation
Indices: 10161799--10162244 Score: 602
Period size: 147 Copynumber: 3.1 Consensus size: 146
10161789 TTTGGGTACT
* * * ** ** **
10161799 CTGAGGTATCTTTAATT-CATGT-TTTCAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCT
1 CTGAGGTAT-TTTAATTCCTTTTGTTTCAAAAATCAGCTCATATTACGAGAGGTGAGTCAAGCCT
* *
10161862 CAGGTCACACGTTGAGGTATTTTTAGTTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAG
65 CAGGACACACGCTGAGGTATTTTTAGTTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAG
10161927 TCAAGCCTCAGGTCACG
130 TCAAGCCTCAGGTCACG
*
10161944 CTGAGGTATTTTAATTCCTTTTGTTTCAAAAAAT-TGACTCATATTACGAGAGGTGAGTCAAGCC
1 CTGAGGTATTTTAATTCCTTTTGTTTC-AAAAATCAG-CTCATATTACGAGAGGTGAGTCAAGCC
*
10162008 TCAGGACACACGCTGAGGTATTTTTAGTTTATGTTTCAAAAATTGACTCATATTGCAAGAGGTGA
64 TCAGGACACACGCTGAGGTATTTTTAGTTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGA
10162073 GTCAAGCCTCAGGTCACG
129 GTCAAGCCTCAGGTCACG
* **
10162091 CTGAGGTATTTTAATTCCTTTTGTTTCAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTC
1 CTGAGGTATTTTAATTCCTTTTGTTTCAAAAATCAGCTCATATTACGAGAGGTGAGTCAAGCCTC
* *
10162156 -GGA-GCACGCTGAGGTATTTTTAGTTTATGTTT-AGAAAA-T-ACTCATATTACGAGAGGTGAG
66 AGGACACACGCTGAGGTATTTTTAGTTTATGTTTCA-AAAATTGACTCATATTGCGAGAGGTGAG
* * *
10162216 TCAAGCCTCGGGGCATG
130 TCAAGCCTCAGGTCACG
*
10162233 CTGAGGTCTTTT
1 CTGAGGTATTTT
10162245 CGATTTCTGC
Statistics
Matches: 271, Mismatches: 24, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
142 44 0.16
143 2 0.01
144 39 0.14
145 15 0.06
146 36 0.13
147 135 0.50
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.34
Consensus pattern (146 bp):
CTGAGGTATTTTAATTCCTTTTGTTTCAAAAATCAGCTCATATTACGAGAGGTGAGTCAAGCCTC
AGGACACACGCTGAGGTATTTTTAGTTTATGTTTCAAAAATTGACTCATATTGCGAGAGGTGAGT
CAAGCCTCAGGTCACG
Found at i:10162259 original size:14 final size:14
Alignment explanation
Indices: 10162240--10162275 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
10162230 ATGCTGAGGT
* *
10162240 CTTTTCGATTTCTG
1 CTTTTCAATTTCTA
10162254 CTTTTCAATTTCTA
1 CTTTTCAATTTCTA
10162268 CTTTTCAA
1 CTTTTCAA
10162276 AAAAATCAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.22, G:0.06, T:0.56
Consensus pattern (14 bp):
CTTTTCAATTTCTA
Found at i:10162346 original size:13 final size:13
Alignment explanation
Indices: 10162328--10162352 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10162318 CACACTGAGG
10162328 TATTTTCAATTTC
1 TATTTTCAATTTC
10162341 TATTTTCAATTT
1 TATTTTCAATTT
10162353 ATGTTGTTCA
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:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (13 bp):
TATTTTCAATTTC
Found at i:10163326 original size:16 final size:16
Alignment explanation
Indices: 10163305--10163336 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10163295 GCCCAATAAC
*
10163305 CTAAACTACCAGCCCA
1 CTAAACTAACAGCCCA
10163321 CTAAACTAACAGCCCA
1 CTAAACTAACAGCCCA
10163337 TTACACAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.41, G:0.06, T:0.12
Consensus pattern (16 bp):
CTAAACTAACAGCCCA
Found at i:10163950 original size:6 final size:6
Alignment explanation
Indices: 10163939--10163963 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
10163929 GTGTACGGTG
10163939 GCCGGC GCCGGC GCCGGC GCCGGC G
1 GCCGGC GCCGGC GCCGGC GCCGGC G
10163964 AGGCTCCGGT
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:0.00, C:0.48, G:0.52, T:0.00
Consensus pattern (6 bp):
GCCGGC
Found at i:10164028 original size:16 final size:16
Alignment explanation
Indices: 10164009--10164044 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
10163999 CCTTTCCCCC
10164009 CTCTCCTTCCTCCCTT
1 CTCTCCTTCCTCCCTT
* *
10164025 CTCTCTTTTCTCCCTT
1 CTCTCCTTCCTCCCTT
10164041 CTCT
1 CTCT
10164045 TTCTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (16 bp):
CTCTCCTTCCTCCCTT
Found at i:10169010 original size:27 final size:26
Alignment explanation
Indices: 10168953--10169013 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
10168943 ATTACCTAGA
*
10168953 ACCCCTATATGTAACATGACTGTTTT
1 ACCCCTATATGTAACATGACTGTATT
* *
10168979 GCCCCTATATGGTAAGATGA-TCGTATT
1 ACCCCTATAT-GTAACATGACT-GTATT
10169006 ACCCCTAT
1 ACCCCTAT
10169014 GTGATGTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 10 0.34
27 19 0.66
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (26 bp):
ACCCCTATATGTAACATGACTGTATT
Found at i:10172218 original size:20 final size:23
Alignment explanation
Indices: 10172171--10172219 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 23
10172161 TAGTTTTTAA
*
10172171 TATTTAATATATTTTATTAAGAT
1 TATTTAATATATTTTATTAACAT
10172194 T-TTTAAT-T-TTTTATT-ACAT
1 TATTTAATATATTTTATTAACAT
10172213 TATTTAA
1 TATTTAA
10172220 ACATTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 4 0.17
20 12 0.50
21 1 0.04
22 6 0.25
23 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (23 bp):
TATTTAATATATTTTATTAACAT
Found at i:10173665 original size:18 final size:17
Alignment explanation
Indices: 10173644--10173687 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
10173634 TTTTAAAAAA
10173644 TATAAATTTTGAAAATTT
1 TATAAATTTT-AAAATTT
*
10173662 TATAAATGTTTTAAATTT
1 TATAAAT-TTTAAAATTT
*
10173680 TAAAAATT
1 TATAAATT
10173688 ATTTTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 19 0.83
19 3 0.13
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (17 bp):
TATAAATTTTAAAATTT
Found at i:10173694 original size:19 final size:19
Alignment explanation
Indices: 10173656--10173717 Score: 72
Period size: 20 Copynumber: 3.3 Consensus size: 19
10173646 TAAATTTTGA
* *
10173656 AAATTTTATAAA-TGTTTT
1 AAATTTTAAAAATTATTTT
10173674 AAATTTTAAAAATTATTTT
1 AAATTTTAAAAATTATTTT
*
10173693 AAATTTTTGAAAATTATTTT
1 AAA-TTTTAAAAATTATTTT
*
10173713 GAATT
1 AAATT
10173718 ATTTTGAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 11 0.29
19 10 0.26
20 17 0.45
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
AAATTTTAAAAATTATTTT
Found at i:10174037 original size:21 final size:21
Alignment explanation
Indices: 10174001--10174050 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
10173991 TTGTCACCAT
*
10174001 ATATTTTGAAATTAAAAAA-A
1 ATATTTTTAAATTAAAAAATA
10174021 ATATTTTTAAATGTAAAAAATA
1 ATATTTTTAAAT-TAAAAAATA
*
10174043 TTATTTTT
1 ATATTTTT
10174051 TAATAAATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 11 0.42
21 7 0.27
22 8 0.31
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (21 bp):
ATATTTTTAAATTAAAAAATA
Found at i:10174768 original size:26 final size:24
Alignment explanation
Indices: 10174725--10174782 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 24
10174715 TTATTTCATT
* *
10174725 AAATAAA-AAATTTTAAAATATAA
1 AAATAAATACATTTAAAAATATAA
10174748 TAAATCAAATACATTTAAAAATATAA
1 -AAAT-AAATACATTTAAAAATATAA
10174774 AAATAAATA
1 AAATAAATA
10174783 TTAAAATAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 9 0.30
25 7 0.23
26 14 0.47
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.29
Consensus pattern (24 bp):
AAATAAATACATTTAAAAATATAA
Found at i:10178112 original size:5 final size:5
Alignment explanation
Indices: 10178102--10178133 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
10178092 TTGTGTGTTC
10178102 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
10178134 TCACAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:10178116 original size:9 final size:9
Alignment explanation
Indices: 10178102--10178132 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
10178092 TTGTGTGTTC
10178102 TTTATTTTA
1 TTTATTTTA
10178111 TTTATTTTA
1 TTTATTTTA
10178120 TTTTATTTTA
1 -TTTATTTTA
10178130 TTT
1 TTT
10178133 TTCACAAATT
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:10182542 original size:5 final size:5
Alignment explanation
Indices: 10182532--10182563 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
10182522 TTGTGTGTTC
10182532 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
10182564 TCACAGTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:10182546 original size:9 final size:9
Alignment explanation
Indices: 10182532--10182562 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
10182522 TTGTGTGTTC
10182532 TTTATTTTA
1 TTTATTTTA
10182541 TTTATTTTA
1 TTTATTTTA
10182550 TTTTATTTTA
1 -TTTATTTTA
10182560 TTT
1 TTT
10182563 TTCACAGTAA
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:10191024 original size:42 final size:42
Alignment explanation
Indices: 10190974--10191100 Score: 157
Period size: 42 Copynumber: 3.0 Consensus size: 42
10190964 CTTCATTTTC
** *
10190974 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
* ** *
10191016 TTGATGCCATAGCCCGGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
* * *
10191058 TCAATGTCATAGCCCAACTATGGTCTTACACA-AATCACATA
1 TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
10191099 TC
1 TC
10191101 TCACTGATGC
Statistics
Matches: 71, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
41 9 0.13
42 62 0.87
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (42 bp):
TCGATGCCATAGCCCAACTATGGTCTTACACATATTCACATA
Found at i:10191131 original size:46 final size:44
Alignment explanation
Indices: 10190992--10191131 Score: 119
Period size: 42 Copynumber: 3.2 Consensus size: 44
10190982 ATAGTTCAAC
** * * * *
10190992 TATGGTCTTACACATCTTCACATAT--TGATGCCATAGCCCGGC
1 TATGGTCTTACACAAATACATATATCATGATGCCATAGCCCAGA
* * *
10191034 TATGGTCTTACACATATTCATATATCA--ATGTCATAGCCCA-A
1 TATGGTCTTACACAAATACATATATCATGATGCCATAGCCCAGA
* *
10191075 CTATGGTCTTACACAAATCACATATCTCACTGATGCCATATCCCAGA
1 -TATGGTCTTACACAAAT-ACATATATCA-TGATGCCATAGCCCAGA
10191122 TATGGTCTTA
1 TATGGTCTTA
10191132 TACGGAAATC
Statistics
Matches: 80, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
42 50 0.62
43 8 0.10
46 21 0.26
47 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (44 bp):
TATGGTCTTACACAAATACATATATCATGATGCCATAGCCCAGA
Found at i:10191188 original size:31 final size:31
Alignment explanation
Indices: 10191153--10191331 Score: 263
Period size: 31 Copynumber: 5.8 Consensus size: 31
10191143 CTTGTCACTT
*
10191153 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
10191184 GTAGCCGGAGCTACCATTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
10191215 GTAGCCGGAGCTACCACTTTTCACTGATCAA
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
10191246 GTAGCCGGAA-CTATCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
10191277 GTAGCAGAAGCTACCACTTTTCACTGATCA-
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
10191307 GTAGCTGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
10191332 TGTCATTTGT
Statistics
Matches: 135, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
30 27 0.20
31 106 0.79
32 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:10191413 original size:50 final size:50
Alignment explanation
Indices: 10191307--10191483 Score: 275
Period size: 50 Copynumber: 3.5 Consensus size: 50
10191297 TCACTGATCA
* * * * *
10191307 GTAGCTGAAGCTACCACTTTTCACTTGTCA-TTTGTCATTGATCACATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCACTTT-TCCTTGATCAGATAAGT
10191358 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
10191408 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
*
10191458 GTAGCCGAAACTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
10191484 GTTGCCATGG
Statistics
Matches: 119, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
50 93 0.78
51 26 0.22
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCACTTTTCCTTGATCAGATAAGT
Found at i:10199573 original size:19 final size:19
Alignment explanation
Indices: 10199526--10199573 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
10199516 TTTTGAATAA
*
10199526 ATATTTTTTCATTCTTTAT
1 ATATTTTTTCATTCTTTAG
*
10199545 ATATTATTTT-TTTCTTTAG
1 ATATT-TTTTCATTCTTTAG
10199564 ACTATTTTTT
1 A-TATTTTTT
10199574 AAAATATACT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.21, C:0.08, G:0.02, T:0.69
Consensus pattern (19 bp):
ATATTTTTTCATTCTTTAG
Found at i:10201073 original size:16 final size:15
Alignment explanation
Indices: 10201044--10201085 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
10201034 AATCAAAACG
10201044 AAAAAAGAAAAATCA
1 AAAAAAGAAAAATCA
*
10201059 AAAAAAGAATCAATCA
1 AAAAAAGAA-AAATCA
*
10201075 AAAAAATAAAA
1 AAAAAAGAAAA
10201086 TAAAAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.79, C:0.07, G:0.05, T:0.10
Consensus pattern (15 bp):
AAAAAAGAAAAATCA
Found at i:10202284 original size:64 final size:64
Alignment explanation
Indices: 10202211--10202465 Score: 395
Period size: 64 Copynumber: 4.0 Consensus size: 64
10202201 CATTCATAAT
10202211 ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCATC
1 ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCATC
*
10202275 ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCGTCCTAATTATTTGACATCAA-CATC
1 ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACAT-AAGCATC
* * * *
10202339 ATATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCGTCCTAATTATTTAACATCAGCATC
1 ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCATC
* * * * * *
10202403 ACATCTAGTAAGGAGTATTTGATTCATTTTGATAATAACATCCTAATTATTTGGCATAAGCAT
1 ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
10202466 GATACATGAA
Statistics
Matches: 175, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
63 1 0.01
64 172 0.98
65 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (64 bp):
ACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCATC
Found at i:10203014 original size:112 final size:111
Alignment explanation
Indices: 10202800--10203022 Score: 295
Period size: 112 Copynumber: 2.0 Consensus size: 111
10202790 CCTGAAGTAG
* ** * *
10202800 CAAGGAAGTAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAATTGTGGAGCAGATCGAAAATG
1 CAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAACAGTGAAGCAGATCCAAAATG
* ** *
10202865 GCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
66 GCGAATCTTATCTCCATGTATCGCCAATAAAGCAGATTTAAGCCAC
* ***
10202911 CAAGGAAGCAGACTGAAGATTGAAGGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGA-CCAAAGA
1 CAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCT-AAGCAACAGTGAAGCAGATCCAAA-A
*
10202975 TGGCGAATCTTATCTCCATGTATCGCCAATAAAGTAGATTTAAGCCAC
64 TGGCGAATCTTATCTCCATGTATCGCCAATAAAGCAGATTTAAGCCAC
10203023 AAGCCTTATC
Statistics
Matches: 96, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
111 40 0.42
112 56 0.58
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (111 bp):
CAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAACAGTGAAGCAGATCCAAAATG
GCGAATCTTATCTCCATGTATCGCCAATAAAGCAGATTTAAGCCAC
Found at i:10203331 original size:176 final size:176
Alignment explanation
Indices: 10202911--10204443 Score: 1587
Period size: 176 Copynumber: 8.6 Consensus size: 176
10202901 TTTTAGCCAC
* * * ** * *
10202911 CAAGGAAGCAGACTGAAGATTGAAGGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACCAAAGAT
1 CAAGGAAGTAGACTGAAGATTGAAGATCTTATCTCCCT-AAGTAGTTGTGGAGCAGATCAAAGAT
* ** * * * * *
10202976 GGCGAATCTTATCTCCATGTATCGCCAATAAAGTAGATTTAAGCCACAAGCCTTATCTCCCTGAT
65 GGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAG
* * * ** * *
10203041 GTTGC-AGTGGAGCAGGCT-CAATATACAAGTCTTATCTCCCTGAGGTTA-
130 GTAGCAAG-AGAGCAGGTTGGGAT-TA-TAGTCTTATCTTCCTGAGG-TAG
* * * * * * *
10203089 C-AGTGGAGCAGACTGAAGATTGAAGATCTTATCTCCTTAAGTAGCTATGGAGTAGATCGAAGAT
1 CAAG-GAAGTAGACTGAAGATTGAAGATCTTATCTCCCTAAGTAGTTGTGGAGCAGATCAAAGAT
* * *
10203153 GGCGAGTCTTATCTCCATGTATCAGTAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAG
65 GGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAG
* * * * * *
10203218 GTAGCAAAAGAGTAGGCTGGGATTATAGTCTTATCTTCTTGAGGCAA
130 GTAGCAAGAGAGCAGGTTGGGATTATAGTCTTATCTTCCTGAGGTAG
* * *
10203265 CAAGGAAGTAGACTGAAGATTAAAGATTTTATCTCCCTAAGCAGTTGTGGAGCAGATCAAAGATG
1 CAAGGAAGTAGACTGAAGATTGAAGATCTTATCTCCCTAAGTAGTTGTGGAGCAGATCAAAGATG
* * * * * **
10203330 GCGAATCTTATCTCTATGTATTGGCAATAGAGTAGATTTTAGCCACTAGCCTTATCTC-CCAAGG
66 GCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGG
* * *
10203394 TAGCAAGAGAGCAGGTTGGCATTTGTAGTATTATCTTCCTGAGGTAG
131 TAGCAAGAGAGCAGGTTGGGA-TTATAGTCTTATCTTCCTGAGGTAG
* * * *
10203441 CATGGAAGTAAACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTTGTGGAGCAGATCGAAGATG
1 CAAGGAAGTAGACTGAAGATTGAAGATCTTATCTCCCTAAGTAGTTGTGGAGCAGATCAAAGATG
* * **
10203506 ACGAACCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACCAGTTTTATCTCTCTGAGG
66 GCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGG
* *
10203571 TAGCAAGAGAGCAGGTTGAAGTTTGA-AGTCTTATCTTCCTGAGGTAG
131 TAGCAAGAGAGCAGGTTG-GGATT-ATAGTCTTATCTTCCTGAGGTAG
* * * * *
10203618 CAAGGAAGCAGACTGAAGATTGAAGGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACCAAAGAT
1 CAAGGAAGTAGACTGAAGATTGAAGATCTTATCTCCCT-AAGTAGTTGTGGAGCAGATCAAAGAT
* ** * * * *
10203683 GGTGAATCTTATCTTTATGTATCGGTAATGGAGTAGATTTAAGCCACAAGCCTTATCTCTCTGAA
65 GGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTG-A
* * * ** * *
10203748 GTTA-C-AGTGGAGCAGGCT-CAATATACAAGTCTTATC-TCTCTGAGGTTG
129 GGTAGCAAG-AGAGCAGGTTGGGAT-TA-TAGTCTTATCTTC-CTGAGGTAG
* * * * * *
10203796 CAGTGGAGCAGATTGAAGACTGAAGATTGAAGATCTTATCTCCTTGAGCAGCTGTGGAGTAGATC
1 CA-AGGA--AG--T--AGACTGAAGATTGAAGATCTTATCTCCCTAAGTAGTTGTGGAGCAGATC
* * *
10203861 AAAGATGGCAAATCTTATCTCCATGTATCGGCAATAGAGCAAATTTTAGCCACCAGCCTTATCTC
59 AAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACCAGCCTTATCTC
* *
10203926 TCTGAGGTAGCAAGAGAGCAGGTTGGGATTATAGTTTTATCTTCTTGAGGTAG
124 TCTGAGGTAGCAAGAGAGCAGGTTGGGATTATAGTCTTATCTTCCTGAGGTAG
* * * * * *
10203979 CAAGGAAGTAGACTGAAAATTGAAAATTTTATCTCCCTACGTAGTTGTGGAGTAGATCGAAGATG
1 CAAGGAAGTAGACTGAAGATTGAAGATCTTATCTCCCTAAGTAGTTGTGGAGCAGATCAAAGATG
* * * * **
10204044 GCGAATCTTATCTCCATATATCGGTAATAGAGCAGATTTTAGCCACTAGCCTTATCTC-CCAAGG
66 GCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGG
* * *
10204108 TAGCAAGAGAGCAGGTTGGCGTTTGTAGTCTTATCTTTCTGAGGTAG
131 TAGCAAGAGAGCAGGTTGG-GATTATAGTCTTATCTTCCTGAGGTAG
* * *
10204155 CAAGGAAGTAGATTGAAGATTGAAGATCTTATCTCCCTAAGCAGTTGTGGAGCAGATCGAAGATG
1 CAAGGAAGTAGACTGAAGATTGAAGATCTTATCTCCCTAAGTAGTTGTGGAGCAGATCAAAGATG
* * * **
10204220 ACGAACCTTATCTCCATGTATCGACAATGGAGCAGATTTTAGCCACCAGTTTTATCTCTCTGAGG
66 GCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGG
* * *
10204285 TAGCAAGAGAGTAGGTTGAAGTTTGA-AGTCTTATCTTCCTGAGGTAG
131 TAGCAAGAGAGCAGGTTG-GGATT-ATAGTCTTATCTTCCTGAGGTAG
* * * * * *
10204332 TAAGGAAGCAGACTGAAGATTGAAGGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACCAAAGAT
1 CAAGGAAGTAGACTGAAGATTGAAGATCTTATCTCCCT-AAGTAGTTGTGGAGCAGATCAAAGAT
* ** * * *
10204397 GGTGAATCTTATCTTTATGTATCGGTAATGGAGTAGATTTAAGCCAC
65 GGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
10204444 AATATCGGTA
Statistics
Matches: 1123, Mismatches: 200, Indels: 64
0.81 0.14 0.05
Matches are distributed among these distances:
175 45 0.04
176 478 0.43
177 253 0.23
178 196 0.17
179 7 0.01
180 2 0.00
181 2 0.00
182 3 0.00
183 21 0.02
184 85 0.08
185 31 0.03
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (176 bp):
CAAGGAAGTAGACTGAAGATTGAAGATCTTATCTCCCTAAGTAGTTGTGGAGCAGATCAAAGATG
GCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGG
TAGCAAGAGAGCAGGTTGGGATTATAGTCTTATCTTCCTGAGGTAG
Found at i:10203605 original size:44 final size:45
Alignment explanation
Indices: 10203557--10203657 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 45
10203547 GCCACCAGTT
** *
10203557 TTATCTCTCTGAGGTAGCAA-GAGAGCAGGTTGAAGTTTGAA-GTC
1 TTATCTCTCTGAGGTAGCAAGGA-AGCAGACTGAAGATTGAAGGTC
10203601 TTATCT-TCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGGTC
1 TTATCTCT-CTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGGTC
*
10203646 TTATCTCCCTGA
1 TTATCTCTCTGA
10203658 AGTTGTAGTG
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
43 1 0.02
44 33 0.67
45 15 0.31
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (45 bp):
TTATCTCTCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGGTC
Found at i:10203759 original size:44 final size:44
Alignment explanation
Indices: 10203711--10203815 Score: 111
Period size: 44 Copynumber: 2.4 Consensus size: 44
10203701 GTATCGGTAA
* * *
10203711 TGGAGTAGATTTAAGCCACAAGCCTTATCTCTCTGAAGTTACAG
1 TGGAGCAGATTCAAGACACAAGCCTTATCTCTCTGAAGTTACAG
** * * * * *
10203755 TGGAGCAGGCTCAATATACAAGTCTTATCTCTCTGAGGTTGCAG
1 TGGAGCAGATTCAAGACACAAGCCTTATCTCTCTGAAGTTACAG
*
10203799 TGGAGCAGATTGAAGAC
1 TGGAGCAGATTCAAGAC
10203816 TGAAGATTGA
Statistics
Matches: 46, Mismatches: 15, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
44 46 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (44 bp):
TGGAGCAGATTCAAGACACAAGCCTTATCTCTCTGAAGTTACAG
Found at i:10204272 original size:714 final size:707
Alignment explanation
Indices: 10202911--10204445 Score: 2550
Period size: 714 Copynumber: 2.2 Consensus size: 707
10202901 TTTTAGCCAC
* *
10202911 CAAGGAAGCAGACTGAAGATTGAAGGTCTTATCTCCCTGAAGTTGCAGTGAAGCAGACCAAAGAT
1 CAAGGAAGCAGACTGAAGATTGAAGGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACCAAAGAT
* ** ** ** *
10202976 GGCGAATCTTATCTCCATGTATCGCCAATAAAGTAGATTTAAGCCACAAGCCTTATCTCCCTGAT
66 GGTGAATCTTATCTTTATGTATCGGTAATGGAGTAGATTTAAGCCACAAGCCTTATCTCCCTGAA
*
10203041 GTTGCAGTGGAGCAGGCTCAATATACAAGTCTTATCTCCCTGAGGTTACAGTGGAGCAGACTGAA
131 GTTACAGTGGAGCAGGCTCAATATACAAGTCTTATCTCCCTGAGGTTACAGTGGAGCAGACTGAA
* * * *
10203106 GATTGAAGATCTTATCTCCTTAAGTAGCTATGGAGTAGATCGAAGATGGCGAGTCTTATCTCCAT
196 GATTGAAGATCTTATCTCCTTAAGCAGCTATGGAGTAGATCAAAGATGGCAAATCTTATCTCCAT
* * * *
10203171 GTATCAGTAATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAAAGAGTAGGCT
261 GTATCAGCAATAGAGCAAATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAAAGAGCAGGCT
*
10203236 GGGATTATAGTCTTATCTTCTTGAGGCAACAAGGAAGTAGACTGAAGATTAAAGATTTTATCTCC
326 GGGATTATAGTCTTATCTTCTTGAGGCAACAAGGAAGTAGACTGAAAATTAAAGATTTTATCTCC
* * * *
10203301 CTAAGCAGTTGTGGAGCAGATCAAAGATGGCGAATCTTATCTCTATGTATTGGCAATAGAGTAGA
391 CTAAGCAGTTGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCATATATCGGCAATAGAGCAGA
10203366 TTTTAGCCACTAGCCTTATCTCCCAAGGTAGCAAGAGAGCAGGTTGGCATTTGTAGTATTATCTT
456 TTTTAGCCACTAGCCTTATCTCCCAAGGTAGCAAGAGAGCAGGTTGGCATTTGTAGTATTATCTT
*
10203431 CCTGAGGTAGCATGGAAGTAAACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTTGTGGAGCAG
521 CCTGAGGTAGCAAGGAAGTAAACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTTGTGGAGCAG
*
10203496 ATCGAAGATGACGAACCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACCAGTTTTAT
586 ATCGAAGATGACGAACCTTATCTCCATGTATCGACAATGGAGCAGATTTTAGCCACCAGTTTTAT
10203561 CTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGTTTGAAGTCTTATCTTCCTGAGGTAG
651 CTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGTTTGAAGTCTTATCTTCCTGAGGTAG
10203618 CAAGGAAGCAGACTGAAGATTGAAGGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACCAAAGAT
1 CAAGGAAGCAGACTGAAGATTGAAGGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACCAAAGAT
*
10203683 GGTGAATCTTATCTTTATGTATCGGTAATGGAGTAGATTTAAGCCACAAGCCTTATCTCTCTGAA
66 GGTGAATCTTATCTTTATGTATCGGTAATGGAGTAGATTTAAGCCACAAGCCTTATCTCCCTGAA
* *
10203748 GTTACAGTGGAGCAGGCTCAATATACAAGTCTTATCTCTCTGAGGTTGCAGTGGAGCAGATTGAA
131 GTTACAGTGGAGCAGGCTCAATATACAAGTCTTATCTCCCTGAGGTTACAGTGGAGC-------A
* *
10203813 GACTGAAGATTGAAGATCTTATCTCCTTGAGCAGCTGTGGAGTAGATCAAAGATGGCAAATCTTA
189 GACTGAAGATTGAAGATCTTATCTCCTTAAGCAGCTATGGAGTAGATCAAAGATGGCAAATCTTA
* *
10203878 TCTCCATGTATCGGCAATAGAGCAAATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGA
254 TCTCCATGTATCAGCAATAGAGCAAATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAAAGA
* * * *
10203943 GCAGGTTGGGATTATAGTTTTATCTTCTTGAGGTAGCAAGGAAGTAGACTGAAAATTGAAA-ATT
319 GCAGGCTGGGATTATAGTCTTATCTTCTTGAGGCAACAAGGAAGTAGACTGAAAATT-AAAGATT
* * * * *
10204007 TTATCTCCCTACGTAGTTGTGGAGTAGATCGAAGATGGCGAATCTTATCTCCATATATCGGTAAT
383 TTATCTCCCTAAGCAGTTGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCATATATCGGCAAT
*
10204072 AGAGCAGATTTTAGCCACTAGCCTTATCTCCCAAGGTAGCAAGAGAGCAGGTTGGCGTTTGTAGT
448 AGAGCAGATTTTAGCCACTAGCCTTATCTCCCAAGGTAGCAAGAGAGCAGGTTGGCATTTGTAGT
* * * *
10204137 CTTATCTTTCTGAGGTAGCAAGGAAGTAGATTGAAGATTGAAGATCTTATCTCCCTAAGCAGTTG
513 ATTATCTTCCTGAGGTAGCAAGGAAGTAAACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTTG
10204202 TGGAGCAGATCGAAGATGACGAACCTTATCTCCATGTATCGACAATGGAGCAGATTTTAGCCACC
578 TGGAGCAGATCGAAGATGACGAACCTTATCTCCATGTATCGACAATGGAGCAGATTTTAGCCACC
*
10204267 AGTTTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAGTTTGAAGTCTTATCTTCCTGAGGTAG
643 AGTTTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGTTTGAAGTCTTATCTTCCTGAGGTAG
*
10204332 TAAGGAAGCAGACTGAAGATTGAAGGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACCAAAGAT
1 CAAGGAAGCAGACTGAAGATTGAAGGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACCAAAGAT
10204397 GGTGAATCTTATCTTTATGTATCGGTAATGGAGTAGATTTAAGCCACAA
66 GGTGAATCTTATCTTTATGTATCGGTAATGGAGTAGATTTAAGCCACAA
10204446 TATCGGTAAT
Statistics
Matches: 771, Mismatches: 49, Indels: 9
0.93 0.06 0.01
Matches are distributed among these distances:
707 173 0.22
714 595 0.77
715 3 0.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.29
Consensus pattern (707 bp):
CAAGGAAGCAGACTGAAGATTGAAGGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACCAAAGAT
GGTGAATCTTATCTTTATGTATCGGTAATGGAGTAGATTTAAGCCACAAGCCTTATCTCCCTGAA
GTTACAGTGGAGCAGGCTCAATATACAAGTCTTATCTCCCTGAGGTTACAGTGGAGCAGACTGAA
GATTGAAGATCTTATCTCCTTAAGCAGCTATGGAGTAGATCAAAGATGGCAAATCTTATCTCCAT
GTATCAGCAATAGAGCAAATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAAAGAGCAGGCT
GGGATTATAGTCTTATCTTCTTGAGGCAACAAGGAAGTAGACTGAAAATTAAAGATTTTATCTCC
CTAAGCAGTTGTGGAGCAGATCAAAGATGGCGAATCTTATCTCCATATATCGGCAATAGAGCAGA
TTTTAGCCACTAGCCTTATCTCCCAAGGTAGCAAGAGAGCAGGTTGGCATTTGTAGTATTATCTT
CCTGAGGTAGCAAGGAAGTAAACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTTGTGGAGCAG
ATCGAAGATGACGAACCTTATCTCCATGTATCGACAATGGAGCAGATTTTAGCCACCAGTTTTAT
CTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGTTTGAAGTCTTATCTTCCTGAGGTAG
Found at i:10204319 original size:44 final size:45
Alignment explanation
Indices: 10204271--10204371 Score: 109
Period size: 44 Copynumber: 2.3 Consensus size: 45
10204261 GCCACCAGTT
* ** *
10204271 TTATCTCTCTGAGGTAGCAA-GAGAGTAGGTTGAAGTTTGAA-GTC
1 TTATCTCTCTGAGGTAGCAAGGA-AGCAGACTGAAGATTGAAGGTC
*
10204315 TTATCT-TCCTGAGGTAGTAAGGAAGCAGACTGAAGATTGAAGGTC
1 TTATCTCT-CTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGGTC
*
10204360 TTATCTCCCTGA
1 TTATCTCTCTGA
10204372 AGTTGTAGTG
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
43 1 0.02
44 31 0.66
45 15 0.32
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (45 bp):
TTATCTCTCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGGTC
Found at i:10204396 original size:45 final size:44
Alignment explanation
Indices: 10204307--10204410 Score: 104
Period size: 45 Copynumber: 2.3 Consensus size: 44
10204297 AGGTTGAAGT
* * **
10204307 TTGAAGTCTTATCTTCCTGAGGTAGTAAGGAAGCAGACTGAAGA
1 TTGAAGTCTTATCTCCCTGAAGTAGTAAGGAAGCAGACCAAAGA
* *
10204351 TTGAAGGTCTTATCTCCCTGAAGTTGT-AGTGGAGCAGACCAAAGA
1 TTGAA-GTCTTATCTCCCTGAAGTAGTAAG-GAAGCAGACCAAAGA
10204396 TGGTGAA-TCTTATCT
1 T--TGAAGTCTTATCT
10204411 TTATGTATCG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
44 7 0.14
45 39 0.78
47 4 0.08
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (44 bp):
TTGAAGTCTTATCTCCCTGAAGTAGTAAGGAAGCAGACCAAAGA
Found at i:10204450 original size:30 final size:30
Alignment explanation
Indices: 10204416--10204475 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
10204406 TATCTTTATG
10204416 TATCGGTAATGGAGTAGATTTAAGCCACAA
1 TATCGGTAATGGAGTAGATTTAAGCCACAA
10204446 TATCGGTAATGGAGTAGATTTAAGCCACAA
1 TATCGGTAATGGAGTAGATTTAAGCCACAA
10204476 GCCTTATCTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (30 bp):
TATCGGTAATGGAGTAGATTTAAGCCACAA
Found at i:10204721 original size:568 final size:565
Alignment explanation
Indices: 10203988--10205008 Score: 1458
Period size: 568 Copynumber: 1.8 Consensus size: 565
10203978 GCAAGGAAGT
* * * * *
10203988 AGACTGAAAATTGAAAATTTTATCTCCCTACGTAGTTGTGGAGTAGATCGAAGATGGCGAATCTT
1 AGACTGAAAATTGAAAATCTTATCTCCCTACGCAGCTGTGGAGTAGATCAAAGATGGCAAATCTT
* * *
10204053 ATCTCCATATATCGGTAATAGAGCAGATTTTAGCCACTAGCCTTATCTCCCAAGGTAGCAAGAGA
66 ATCTCCATATATCGGCAATAGAGCAAATTTTAGCCACCAGCCTTATCTCCCAAGGTAGCAAGAGA
* * * * *
10204118 GCAGGTTGGCGTTTGTAGTCTTATCTTTCTGAGGTAGCAAGGAAGTAGATTGAAGATTGAAGATC
131 GCAGGTTGGCGATTATAGTCTTATCTTTCTGAGGTAGCAAGGAAGTAGACTGAAAATTGAAAATC
* * *
10204183 TTATCTCCCTA-AGCAGTTGTGGAGCAGATCGAAGATGACGAACCTTATCTCCATGTATCGACAA
196 TTATCTCCCTACA-CAGTTGTGAAGCAGATCGAAAATGACGAACCTTATCTCCATATATCGACAA
* ** * * *
10204247 TGGAGCAGATTTTAGCCACCAGTTTTATCTCTCTGAGGTAGCAAGAGAGTAGGTTGAAGTTTG-A
260 TCGAGCAGATTTTAGCCACCAGCATTATCTC-CT-AGGTAGAAAGAGAGCAGGTTGAAGATTGTA
* **
10204311 AGTCTTATCTTCCTGAGGTAGTAAGGAAGCAGACTGAAGATTGAAGGTCTTATCTCCCTGAAGTT
323 A-TCTTATCTTCCTGAGGTAGTAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCT-AAGCA
* ** * * *
10204376 GTAGTGGAGCAGACCAAAGATGGTGAATCTTATCTTTATGTATCGGTAATGGAGTAGATTTAAGC
386 GTAGTGGAGCAGACCAAAGATGGCGAATCTTATCTCCATGTATCGGCAATAGAGCAGATTTAAGC
10204441 CACAATATCGGTAATGGAGTAGATTTAAGCCACAAGCCTTATCTCTCTGAAGTTACAGTGGAGCA
451 CACAATATCGGTAATGGAGTAGATTTAAGCCACAAGCCTTATCTCTCTGAAGTTACAGTGGAGCA
10204506 GGCTCAATATACAAGTCTTATCTCTCTGAGGTTGCAGTGGAGCAGACTAA
516 GGCTCAATATACAAGTCTTATCTCTCTGAGGTTGCAGTGGAGCAGACTAA
* * *
10204556 AGACTGAAGATTGAAGATCTTATCTCCTTGA-GCAGCTGTGGAGTAGATCAAAGATGGCAAATCT
1 AGACTGAAAATTGAAAATCTTATCTCCCT-ACGCAGCTGTGGAGTAGATCAAAGATGGCAAATCT
* **
10204620 TATCTCCATGTATCGGCAATAGAGCAAATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGA
65 TATCTCCATATATCGGCAATAGAGCAAATTTTAGCCACCAGCCTTATCTC-CCAAGGTAGCAAGA
*
10204685 GAGCAGGTTGG-GATTATAGTTTTATC-TTCTTGAGGTAGCAAGGAAGTAGACTGAAAATTGAAA
129 GAGCAGGTTGGCGATTATAGTCTTATCTTTC-TGAGGTAGCAAGGAAGTAGACTGAAAATTGAAA
* * * * *
10204748 ATTTTATCTCCCTACACAGTTGTGAAGTAGATCGAAAATGGCGAATCTTATCTCCATATATCGGC
193 ATCTTATCTCCCTACACAGTTGTGAAGCAGATCGAAAATGACGAACCTTATCTCCATATATCGAC
* * * **
10204813 AATCGAGCAGATTTTAGCCACTAGCATTATCTCCTAGGTAGAAATATAGCAGGTTGGCGATTGTA
258 AATCGAGCAGATTTTAGCCACCAGCATTATCTCCTAGGTAGAAAGAGAGCAGGTTGAAGATTGTA
*
10204878 ATCTTATCTTCTTGAGGTAGTAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGT
323 ATCTTATCTTCCTGAGGTAGTAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGT
* * * *
10204943 TGTGGAGCAGAGCGAGGATGGCGAATCTTATCTCCATGTATCGGCAATAGAGCAGATTTAAGCCA
388 AGTGGAGCAGACCAAAGATGGCGAATCTTATCTCCATGTATCGGCAATAGAGCAGATTTAAGCCA
10205008 C
453 C
10205009 CGGTCCTATT
Statistics
Matches: 395, Mismatches: 53, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
565 61 0.15
566 76 0.19
567 7 0.02
568 226 0.57
569 25 0.06
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (565 bp):
AGACTGAAAATTGAAAATCTTATCTCCCTACGCAGCTGTGGAGTAGATCAAAGATGGCAAATCTT
ATCTCCATATATCGGCAATAGAGCAAATTTTAGCCACCAGCCTTATCTCCCAAGGTAGCAAGAGA
GCAGGTTGGCGATTATAGTCTTATCTTTCTGAGGTAGCAAGGAAGTAGACTGAAAATTGAAAATC
TTATCTCCCTACACAGTTGTGAAGCAGATCGAAAATGACGAACCTTATCTCCATATATCGACAAT
CGAGCAGATTTTAGCCACCAGCATTATCTCCTAGGTAGAAAGAGAGCAGGTTGAAGATTGTAATC
TTATCTTCCTGAGGTAGTAAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGT
GGAGCAGACCAAAGATGGCGAATCTTATCTCCATGTATCGGCAATAGAGCAGATTTAAGCCACAA
TATCGGTAATGGAGTAGATTTAAGCCACAAGCCTTATCTCTCTGAAGTTACAGTGGAGCAGGCTC
AATATACAAGTCTTATCTCTCTGAGGTTGCAGTGGAGCAGACTAA
Found at i:10204945 original size:175 final size:176
Alignment explanation
Indices: 10204556--10205009 Score: 619
Period size: 175 Copynumber: 2.6 Consensus size: 176
10204546 AGCAGACTAA
* * * *
10204556 AGACTGAAGATTGAAGATCTTATCTCCTTGAGCAGCTGTGGAGTAGATC-AAAGATGGCAAATCT
1 AGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTTGTGGAGTAGATCGAAA-ATGGCGAATCT
* * *
10204620 TATCTCCATGTATCGGCAATAGAGCAAATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGA
65 TATCTCCATGTATCGGCAATAGAGCAGATTTTAGCCACCAGCATTATCTCTCTGAGGTAGAAAGA
* * *
10204685 GAGCAGGTTGGGATTATAGTTTTATCTTCTTGAGGTAGCAAGGAAGT
130 GAGCAGGTTGGGATTATAATCTTATCTTCTTGAGGTAGCAAGGAAGC
* * * *
10204732 AGACTGAAAATTGAAAATTTTATCTCCCTACA-CAGTTGTGAAGTAGATCGAAAATGGCGAATCT
1 AGACTGAAGATTGAAGATCTTATCTCCCTA-AGCAGTTGTGGAGTAGATCGAAAATGGCGAATCT
* * * *
10204796 TATCTCCATATATCGGCAATCGAGCAGATTTTAGCCACTAGCATTATCTC-CT-AGGTAGAAATA
65 TATCTCCATGTATCGGCAATAGAGCAGATTTTAGCCACCAGCATTATCTCTCTGAGGTAGAAAGA
* * *
10204859 TAGCAGGTTGGCGATTGTAATCTTATCTTCTTGAGGTAGTAAGGAAGC
130 GAGCAGGTTGG-GATTATAATCTTATCTTCTTGAGGTAGCAAGGAAGC
* * **
10204907 AGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTTGTGGAGCAGAGCGAGGATGGCGAATCTT
1 AGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTTGTGGAGTAGATCGAAAATGGCGAATCTT
*
10204972 ATCTCCATGTATCGGCAATAGAGCAGATTTAAGCCACC
66 ATCTCCATGTATCGGCAATAGAGCAGATTTTAGCCACC
10205010 GGTCCTATTT
Statistics
Matches: 241, Mismatches: 33, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
174 20 0.08
175 122 0.51
176 95 0.39
177 4 0.02
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (176 bp):
AGACTGAAGATTGAAGATCTTATCTCCCTAAGCAGTTGTGGAGTAGATCGAAAATGGCGAATCTT
ATCTCCATGTATCGGCAATAGAGCAGATTTTAGCCACCAGCATTATCTCTCTGAGGTAGAAAGAG
AGCAGGTTGGGATTATAATCTTATCTTCTTGAGGTAGCAAGGAAGC
Found at i:10211337 original size:22 final size:20
Alignment explanation
Indices: 10211303--10211347 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 20
10211293 AATTTAAAAG
10211303 ATTTAAAAAAATA-ATAATTA
1 ATTTAAAAAAATATA-AATTA
10211323 ATTTATAAAATAATATAAATTA
1 ATTTA-AAAA-AATATAAATTA
10211345 ATT
1 ATT
10211348 GAGTTTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.23
21 4 0.18
22 12 0.55
23 1 0.05
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTTAAAAAAATATAAATTA
Found at i:10215326 original size:20 final size:18
Alignment explanation
Indices: 10215290--10215340 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
10215280 AATTATTATC
*
10215290 AAAATATAATTAAAATAT
1 AAAAAATAATTAAAATAT
*
10215308 AAAAAATAATT-TAATA-
1 AAAAAATAATTAAAATAT
*
10215324 ATAAAATAATTAAAATA
1 AAAAAATAATTAAAATA
10215341 GTAATTAATG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 10 0.36
17 8 0.29
18 10 0.36
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AAAAAATAATTAAAATAT
Found at i:10215331 original size:16 final size:16
Alignment explanation
Indices: 10215306--10215368 Score: 53
Period size: 16 Copynumber: 4.1 Consensus size: 16
10215296 TAATTAAAAT
10215306 ATAA-AAAATAATTTA
1 ATAATAAAATAATTTA
10215321 ATAATAAAATAA-TTA
1 ATAATAAAATAATTTA
* *
10215336 A-AATAGTAATTAATGTA
1 ATAATA--AAATAATTTA
*
10215353 ATTATAAAAT-ATTTA
1 ATAATAAAATAATTTA
10215368 A
1 A
10215369 AAAATTATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
14 4 0.11
15 13 0.34
16 15 0.39
17 3 0.08
18 3 0.08
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (16 bp):
ATAATAAAATAATTTA
Found at i:10217157 original size:2 final size:2
Alignment explanation
Indices: 10217150--10217186 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
10217140 TCAAATATTC
10217150 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 A
10217187 AACGTTACCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10220059 original size:30 final size:30
Alignment explanation
Indices: 10220025--10220089 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
10220015 CAACTTCACA
* *
10220025 AACAAGTACCTCTAAAGTAATAACAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
** *
10220055 AACAAATGTCTTTAAAATAATAACAAAATT
1 AACAAATACCTCTAAAATAATAACAAAATT
10220085 AACAA
1 AACAA
10220090 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.25
Consensus pattern (30 bp):
AACAAATACCTCTAAAATAATAACAAAATT
Found at i:10224465 original size:16 final size:16
Alignment explanation
Indices: 10224444--10224476 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
10224434 ACGTCGTGCT
10224444 TGATAAAATTGTTGGG
1 TGATAAAATTGTTGGG
10224460 TGATAAAATTGTTGGG
1 TGATAAAATTGTTGGG
10224476 T
1 T
10224477 TTTAACAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.39
Consensus pattern (16 bp):
TGATAAAATTGTTGGG
Found at i:10225834 original size:22 final size:22
Alignment explanation
Indices: 10225808--10225849 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
10225798 AACTCATTAA
10225808 TCAACTCTTCTTTGCTTCCAGT
1 TCAACTCTTCTTTGCTTCCAGT
*
10225830 TCAACTCTTTTTTGCTTCCA
1 TCAACTCTTCTTTGCTTCCA
10225850 TTTACAAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.31, G:0.07, T:0.48
Consensus pattern (22 bp):
TCAACTCTTCTTTGCTTCCAGT
Found at i:10245209 original size:17 final size:17
Alignment explanation
Indices: 10245187--10245236 Score: 77
Period size: 17 Copynumber: 3.1 Consensus size: 17
10245177 TGCACAAAAA
10245187 AAATGGTGTAAGTAATG
1 AAATGGTGTAAGTAATG
10245204 AAATGGTGTAAGTAATG
1 AAATGGTGTAAGTAATG
*
10245221 AAAT--TGTAAGTTATG
1 AAATGGTGTAAGTAATG
10245236 A
1 A
10245237 GATATATGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 11 0.34
17 21 0.66
ACGTcount: A:0.42, C:0.00, G:0.26, T:0.32
Consensus pattern (17 bp):
AAATGGTGTAAGTAATG
Found at i:10246633 original size:4 final size:5
Alignment explanation
Indices: 10246608--10246639 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
10246598 GTTACTGTGA
10246608 AAAAT AAAAT AAAAT AAAAT -AAAT -AAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
10246640 ATACACAGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 8 0.31
5 18 0.69
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:10247626 original size:7 final size:7
Alignment explanation
Indices: 10247614--10247651 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
10247604 CTAAAGCTAC
10247614 CACTTAT
1 CACTTAT
10247621 CACTTAT
1 CACTTAT
10247628 CACTTAT
1 CACTTAT
10247635 CACTTAT
1 CACTTAT
*
10247642 CACTTGT
1 CACTTAT
10247649 CAC
1 CAC
10247652 GGATCAGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.26, C:0.32, G:0.03, T:0.39
Consensus pattern (7 bp):
CACTTAT
Found at i:10247649 original size:65 final size:65
Alignment explanation
Indices: 10247573--10247703 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
10247563 CTAATCACAT
*
10247573 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTATCACTTATCAC
1 TTATCACTTGTCACGGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTATCACTTATCAC
*
10247638 TTATCACTTGTCACGGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTATCAC
1 TTATCACTTGTCACGGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTATCACTTATCAC
10247703 T
1 T
10247704 GATTAGATAA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (65 bp):
TTATCACTTGTCACGGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTATCACTTATCAC
Found at i:10247657 original size:21 final size:21
Alignment explanation
Indices: 10247614--10247657 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
10247604 CTAAAGCTAC
**
10247614 CACTTATCACTTATCACTTAT
1 CACTTATCACTTATCACGGAT
*
10247635 CACTTATCACTTGTCACGGAT
1 CACTTATCACTTATCACGGAT
10247656 CA
1 CA
10247658 GATAAGTGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.30, G:0.07, T:0.36
Consensus pattern (21 bp):
CACTTATCACTTATCACGGAT
Found at i:10247688 original size:51 final size:51
Alignment explanation
Indices: 10247628--10247752 Score: 187
Period size: 51 Copynumber: 2.5 Consensus size: 51
10247618 TATCACTTAT
* *
10247628 CACTTATCACTTATCACTTGTCACGGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTGTCACTTATCACGGATCAGATAAGTGTAGCTAAAGCTAC
* * * *
10247679 CACTTATCACTTGTCACTTATCACTGATTAGATAAGTGTAGCTGAGGCTAC
1 CACTTATCACTTGTCACTTATCACGGATCAGATAAGTGTAGCTAAAGCTAC
*
10247730 CACTTATCACTTGTCACTGATCA
1 CACTTATCACTTGTCACTTATCA
10247753 GATGTACTCA
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (51 bp):
CACTTATCACTTGTCACTTATCACGGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:10253229 original size:26 final size:26
Alignment explanation
Indices: 10253176--10253280 Score: 153
Period size: 26 Copynumber: 4.2 Consensus size: 26
10253166 TGGTACAAAT
10253176 TGATAATGGGTTAGGT--A-ATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
10253199 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
10253225 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
10253251 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
10253277 TGAT
1 TGAT
10253281 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
23 15 0.20
25 1 0.01
26 59 0.79
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:10253233 original size:49 final size:51
Alignment explanation
Indices: 10253176--10253280 Score: 169
Period size: 52 Copynumber: 2.1 Consensus size: 51
10253166 TGGTACAAAT
10253176 TGATAATGGGTTAGGT-AA-TTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAAGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
10253225 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAA-GTTCCATGATAATGGATTAGGTAAATATTCCA
10253277 TGAT
1 TGAT
10253281 GGGCATTTCA
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
49 16 0.31
50 2 0.04
52 33 0.65
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (51 bp):
TGATAATGGGTTAGGTAAAGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:10254898 original size:27 final size:28
Alignment explanation
Indices: 10254867--10254940 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 28
10254857 GGAAGCGTCC
* *
10254867 TGGTGGATATGCCACAAT-TATCTGATA
1 TGGTGGCTCTGCCACAATATATCTGATA
* *
10254894 TGGTGGCTCTGCCAC-ATATATCTGTTC
1 TGGTGGCTCTGCCACAATATATCTGATA
10254921 TGGTGGCTCTGCCACAATAT
1 TGGTGGCTCTGCCACAATAT
10254941 TTGTATTTGG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
26 2 0.05
27 35 0.85
28 4 0.10
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.34
Consensus pattern (28 bp):
TGGTGGCTCTGCCACAATATATCTGATA
Found at i:10254951 original size:27 final size:27
Alignment explanation
Indices: 10254867--10254970 Score: 97
Period size: 27 Copynumber: 3.9 Consensus size: 27
10254857 GGAAGCGTCC
* *
10254867 TGGTGGATATGCCACAATTATCTG-ATA
1 TGGTGGCTCTGCCACAA-TATCTGTATA
*
10254894 TGGTGGCTCTGCCACATATATCTGT-TC
1 TGGTGGCTCTGCCACA-ATATCTGTATA
* *
10254921 TGGTGGCTCTGCCACAATATTTGTATT
1 TGGTGGCTCTGCCACAATATCTGTATA
* *
10254948 TGGTGACT-TCGTCACAATATCTG
1 TGGTGGCTCT-GCCACAATATCTG
10254971 GCAGCCTTGC
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
26 8 0.12
27 56 0.86
28 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (27 bp):
TGGTGGCTCTGCCACAATATCTGTATA
Found at i:10261193 original size:26 final size:26
Alignment explanation
Indices: 10261164--10261270 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
10261154 TGGTACAAAT
10261164 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
10261190 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10261216 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
10261241 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
10261267 TGAT
1 TGAT
10261271 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
25 23 0.31
26 52 0.69
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:10261236 original size:51 final size:52
Alignment explanation
Indices: 10261164--10261270 Score: 189
Period size: 51 Copynumber: 2.1 Consensus size: 52
10261154 TGGTACAAAT
10261164 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
* *
10261216 TGATAAT-GGTTAGGTAAATGTTCCATGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
10261267 TGAT
1 TGAT
10261271 GGGCATTTCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
51 46 0.87
52 7 0.13
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCCA
Found at i:10262915 original size:54 final size:54
Alignment explanation
Indices: 10262850--10262993 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
10262840 TGGAGGAAGC
*
10262850 GTCCTGGTGGCTATGCCACAATTATCTGATATGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
10262904 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
10262958 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
10262994 ACTTCGTCAC
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 6 0.07
54 80 0.93
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:10263004 original size:27 final size:27
Alignment explanation
Indices: 10262853--10263011 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
10262843 AGGAAGCGTC
*
10262853 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
* *
10262880 ATGGTGGCTCTGCCACATATATCTGT-C
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
*
10262907 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
10262934 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
10262961 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
10262988 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
10263012 GCAGCCTTGC
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 103 0.90
28 2 0.02
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:10263005 original size:81 final size:80
Alignment explanation
Indices: 10262853--10263011 Score: 207
Period size: 81 Copynumber: 2.0 Consensus size: 80
10262843 AGGAAGCGTC
*
10262853 CTGGTGGCTATGCCACAATTATCTGATATGGTGGCTCTGCCACATATATCTGTCCTGGTGGCTAT
1 CTGGTGGCTATGCCACAATTATCTGATATGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
10262918 GCCACAATTATCTGAT
66 GCCACAA-TATCTGAT
* * * *
10262934 CTGGTGGCTCTGCCAC-ATATATCTGTTCTGGTGGCTCTGCCACA-ATATCTGTATCTGGTGACT
1 CTGGTGGCTATGCCACAAT-TATCTGATATGGTGGCTCTGCCACATATATCTGT-CCTGGTGACT
*
10262997 -TCGTCACAATATCTG
64 AT-GCCACAATATCTG
10263012 GCAGCCTTGC
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
80 17 0.25
81 52 0.75
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (80 bp):
CTGGTGGCTATGCCACAATTATCTGATATGGTGGCTCTGCCACATATATCTGTCCTGGTGACTAT
GCCACAATATCTGAT
Found at i:10268239 original size:18 final size:18
Alignment explanation
Indices: 10268193--10268241 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 18
10268183 GATTATTGAT
10268193 TTAATATAA-ATATATAA
1 TTAATATAATATATATAA
*
10268210 TTATTATTTAATATATATAA
1 TTA--ATATAATATATATAA
10268230 TTAATATAATAT
1 TTAATATAATAT
10268242 TATTTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.11
18 8 0.30
19 5 0.19
20 11 0.41
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAATATAATATATATAA
Found at i:10273163 original size:21 final size:21
Alignment explanation
Indices: 10273118--10273182 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 21
10273108 TGAAAATATC
*
10273118 AAAAATAATGAAAACAATAATAT
1 AAAAA-AATAAAAACAATAA-AT
10273141 AAAAAAATAAAAACAATAAAT
1 AAAAAAATAAAAACAATAAAT
*
10273162 AAACAAATAAATAA-AATAAAT
1 AAAAAAATAAA-AACAATAAAT
10273183 TGAAATAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.49
22 15 0.38
23 5 0.13
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (21 bp):
AAAAAAATAAAAACAATAAAT
Found at i:10283157 original size:30 final size:29
Alignment explanation
Indices: 10283123--10283185 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
10283113 TCAAGTTGGG
*
10283123 TTAAATCCAAATATTATAATTCTATATTTT
1 TTAAATCCAAATATAATAATTCTAT-TTTT
* **
10283153 TTAAATGCATGTATAATAATTCTATTTTT
1 TTAAATCCAAATATAATAATTCTATTTTT
10283182 TTAA
1 TTAA
10283186 TAAAACAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 8 0.28
30 21 0.72
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (29 bp):
TTAAATCCAAATATAATAATTCTATTTTT
Found at i:10288406 original size:30 final size:30
Alignment explanation
Indices: 10288383--10288452 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 30
10288373 TAAAAACTTA
10288383 AATATAATAATAAATTATATTAAATAATTT
1 AATATAATAATAAATTATATTAAATAATTT
* *
10288413 AATACAATGATAAATTATATTTAAATAATTT
1 AATATAATAATAAATTATA-TTAAATAATTT
10288444 AATATAATA
1 AATATAATA
10288453 GTACAAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
30 17 0.49
31 18 0.51
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (30 bp):
AATATAATAATAAATTATATTAAATAATTT
Found at i:10288440 original size:31 final size:31
Alignment explanation
Indices: 10288361--10288447 Score: 108
Period size: 30 Copynumber: 2.9 Consensus size: 31
10288351 AATAATGATA
* * *
10288361 GATAAAATAT-TTTAAA-AACTTAAATATAAT
1 GATAAATTATATTTAAATAA-TTTAATACAAT
*
10288391 AATAAATTATA-TTAAATAATTTAATACAAT
1 GATAAATTATATTTAAATAATTTAATACAAT
10288421 GATAAATTATATTTAAATAATTTAATA
1 GATAAATTATATTTAAATAATTTAATA
10288448 TAATAGTACA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
30 32 0.65
31 17 0.35
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (31 bp):
GATAAATTATATTTAAATAATTTAATACAAT
Found at i:10289045 original size:52 final size:51
Alignment explanation
Indices: 10288942--10289049 Score: 148
Period size: 52 Copynumber: 2.1 Consensus size: 51
10288932 AAAAAGTAGA
10288942 AAAACAATTTTTCACCGTAGTTGACCCAAAAATCAGTTATCCTTCTCGGTGT
1 AAAACAATTTTTCACCGTAGTTGACCCAAAAATCAGTTATCC-TCTCGGTGT
* *
10288994 AAAACAATTTTTCACCGTAATTTTGACCGCAAAAATCAGTTA-CC-CTTGGTGT
1 AAAACAATTTTTCACCGT-A-GTTGACC-CAAAAATCAGTTATCCTCTCGGTGT
10289046 AAAA
1 AAAA
10289050 GCACCTTTGG
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
52 29 0.57
53 1 0.02
54 8 0.16
55 13 0.25
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.31
Consensus pattern (51 bp):
AAAACAATTTTTCACCGTAGTTGACCCAAAAATCAGTTATCCTCTCGGTGT
Found at i:10292775 original size:15 final size:15
Alignment explanation
Indices: 10292755--10292790 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
10292745 TTCAGATGCT
10292755 GATGAAGAAGAGGAG
1 GATGAAGAAGAGGAG
* *
10292770 GATGAAGAAGATGAT
1 GATGAAGAAGAGGAG
10292785 GATGAA
1 GATGAA
10292791 TTCGACAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.39, T:0.14
Consensus pattern (15 bp):
GATGAAGAAGAGGAG
Found at i:10298564 original size:131 final size:131
Alignment explanation
Indices: 10298314--10298832 Score: 665
Period size: 131 Copynumber: 4.0 Consensus size: 131
10298304 TAATTATTCA
** ** * *
10298314 TTTAAAAACTCTAT-AAAACGAAGGCGATGTTCGATATTTGGCAATTCGCGGAATCGTGCCCTAT
1 TTTAAAAACTCT-TCAAAACGAAGGTAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAT
* * * * *
10298378 CGTGCTGGGTTGC-ACTTTCTCGTTTGCTCAAAATAATCGAATG-TCCCTTTTGAATTTCACTCA
65 CGTGCTGGGTTGCGA-TTTTTCATTTGTTCAAAATAATCGAA-GATTCCTTTGGAATTTCACTCA
*
10298441 TGTT
128 TGTC
** * ** *
10298445 TTCTAAAAACTCTTTGAAACGAAGGAAATGTTTGATGTTTGGCAATTC-GGGAATCGTGCCCTAT
1 TT-TAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAT
*
10298509 CGTGCTGGGTTGCGATTTTTCATTTGTTC-AAATCAATCGAAGATTCTTTTGGAATTTCACTCAT
65 CGTGCTGGGTTGCGATTTTTCATTTGTTCAAAAT-AATCGAAGATTCCTTTGGAATTTCACTCAT
*
10298573 GCC
129 GTC
*
10298576 TTTAAAAACTCTTCAAAATGAAGGTAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
1 TTTAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
*
10298641 GTGTTGGGTTGCGATTTTTCATTTGTTC-AAATCAATCGAAGATTCCTTTGGAATTTCACTCATG
66 GTGCTGGGTTGCGATTTTTCATTTGTTCAAAAT-AATCGAAGATTCCTTTGGAATTTCACTCATG
10298705 TC
130 TC
* *
10298707 TTTAAAAACTCTTCAAAATGAAGGTAATACTCGATGTTTGGCAATTCGGGGAAACGTGCCCTATC
1 TTTAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
* * * * *
10298772 GTGCTGGGTCGCGA-TTTCCTATTTGTTCAAAATAATTGAATATTCCTTTAGAATTTCACTC
66 GTGCTGGGTTGCGATTTTTC-ATTTGTTCAAAATAATCGAAGATTCCTTTGGAATTTCACTC
10298833 GTGCTCTCTA
Statistics
Matches: 349, Mismatches: 31, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
130 47 0.13
131 259 0.74
132 43 0.12
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.36
Consensus pattern (131 bp):
TTTAAAAACTCTTCAAAACGAAGGTAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
GTGCTGGGTTGCGATTTTTCATTTGTTCAAAATAATCGAAGATTCCTTTGGAATTTCACTCATGT
C
Found at i:10299398 original size:5 final size:5
Alignment explanation
Indices: 10299388--10299436 Score: 71
Period size: 5 Copynumber: 9.8 Consensus size: 5
10299378 TTTAATGGAT
* * *
10299388 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTAA TATTA TATTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
10299437 TTACCAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 40 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:10299536 original size:13 final size:14
Alignment explanation
Indices: 10299510--10299554 Score: 65
Period size: 13 Copynumber: 3.2 Consensus size: 14
10299500 AATTAAATTC
10299510 AATACTTAATTTTTT
1 AATACTTAA-TTTTT
10299525 AATACTT-ATTTTT
1 AATACTTAATTTTT
*
10299538 AACACTTAATTTTT
1 AATACTTAATTTTT
10299552 AAT
1 AAT
10299555 CTATCATGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 11 0.41
14 9 0.33
15 7 0.26
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.56
Consensus pattern (14 bp):
AATACTTAATTTTT
Found at i:10299594 original size:6 final size:6
Alignment explanation
Indices: 10299575--10299620 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
10299565 TAACCTAAAT
* *
10299575 AATAAG AATCAG AATAAG AATAAG AATAAG AATAAG AATAAT AATA
1 AATAAG AATAAG AATAAG AATAAG AATAAG AATAAG AATAAG AATA
10299621 GTGATTGAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.65, C:0.02, G:0.13, T:0.20
Consensus pattern (6 bp):
AATAAG
Found at i:10301875 original size:93 final size:93
Alignment explanation
Indices: 10301763--10301934 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
10301753 CGCCCATAAG
* *
10301763 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10301828 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
10301856 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10301921 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
10301935 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:10301931 original size:46 final size:46
Alignment explanation
Indices: 10301756--10301931 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
10301746 TGTAACCCGC
* * *
10301756 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
10301802 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
10301852 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
10301895 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
10301932 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:10309415 original size:93 final size:93
Alignment explanation
Indices: 10309303--10309474 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
10309293 CGCCCATAAG
* *
10309303 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10309368 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
10309396 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10309461 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
10309475 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:10309471 original size:46 final size:46
Alignment explanation
Indices: 10309296--10309471 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
10309286 TGTAACCCGC
* * *
10309296 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
10309342 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
10309392 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
10309435 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
10309472 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:10316018 original size:71 final size:72
Alignment explanation
Indices: 10315935--10316079 Score: 283
Period size: 72 Copynumber: 2.0 Consensus size: 72
10315925 TTGAAAAAAG
10315935 AAAATCAAACAGCAATTGTATAAGGAAAGT-GCCTTAAATATATATTTACTGTAGATTAAATGAA
1 AAAATCAAACAGCAATTGTATAAGGAAAGTGGCCTTAAATATATATTTACTGTAGATTAAATGAA
10315999 AACAGAC
66 AACAGAC
10316006 AAAATCAAACAGCAATTGTATAAGGAAAGTGGCCTTAAATATATATTTACTGTAGATTAAATGAA
1 AAAATCAAACAGCAATTGTATAAGGAAAGTGGCCTTAAATATATATTTACTGTAGATTAAATGAA
10316071 AACAGAC
66 AACAGAC
10316078 AA
1 AA
10316080 GTGTTCAAGT
Statistics
Matches: 73, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
71 30 0.41
72 43 0.59
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.26
Consensus pattern (72 bp):
AAAATCAAACAGCAATTGTATAAGGAAAGTGGCCTTAAATATATATTTACTGTAGATTAAATGAA
AACAGAC
Found at i:10316452 original size:7 final size:7
Alignment explanation
Indices: 10316432--10316515 Score: 159
Period size: 7 Copynumber: 11.9 Consensus size: 7
10316422 GATGTTCCAA
10316432 AAACCCT
1 AAACCCT
10316439 AAAACCCT
1 -AAACCCT
10316447 AAACCCT
1 AAACCCT
10316454 AAACCCT
1 AAACCCT
10316461 AAACCCT
1 AAACCCT
10316468 AAACCCT
1 AAACCCT
10316475 AAACCCT
1 AAACCCT
10316482 AAACCCT
1 AAACCCT
10316489 AAACCCT
1 AAACCCT
10316496 AAACCCT
1 AAACCCT
10316503 AAACCCT
1 AAACCCT
10316510 AAACCC
1 AAACCC
10316516 CAAAAGTACC
Statistics
Matches: 76, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
7 69 0.91
8 7 0.09
ACGTcount: A:0.44, C:0.43, G:0.00, T:0.13
Consensus pattern (7 bp):
AAACCCT
Found at i:10320952 original size:39 final size:39
Alignment explanation
Indices: 10320888--10320970 Score: 121
Period size: 39 Copynumber: 2.1 Consensus size: 39
10320878 GAGATTGACG
*
10320888 GGTGGACCGATGGTGACTACCTGACTGGTGAACAATGAT
1 GGTGGACCGATGGTGACTACCTGACTGGTGAACAACGAT
* * * *
10320927 GGTGTACCGGTGGTGACTGCCTGACTGGTGAACGACGAT
1 GGTGGACCGATGGTGACTACCTGACTGGTGAACAACGAT
10320966 GGTGG
1 GGTGG
10320971 TGGCCGGTGG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.20, C:0.18, G:0.39, T:0.23
Consensus pattern (39 bp):
GGTGGACCGATGGTGACTACCTGACTGGTGAACAACGAT
Found at i:10324515 original size:16 final size:16
Alignment explanation
Indices: 10324464--10324517 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
10324454 TCCGCCGGGT
*
10324464 GGGATATACCTCAGCC
1 GGGATATACCTAAGCC
* **
10324480 GGGCTAT-CCTAAGTA
1 GGGATATACCTAAGCC
*
10324495 AGGATATACCTAAGCC
1 GGGATATACCTAAGCC
10324511 GGGATAT
1 GGGATAT
10324518 CCTCGGAACG
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (16 bp):
GGGATATACCTAAGCC
Found at i:10324731 original size:41 final size:43
Alignment explanation
Indices: 10324638--10324731 Score: 122
Period size: 41 Copynumber: 2.3 Consensus size: 43
10324628 CGAACCGGGA
* * *
10324638 TGGGATATCAGAGGGATATCCCCGGAATTGATTATTCTAAGAG
1 TGGGATATGAGAGGGATATCCCCGGAATAGATTATTCCAAGAG
* *
10324681 -GGGAAATGAGAGGGATA-CCCTGGAATAGATTATTCCAAG-G
1 TGGGATATGAGAGGGATATCCCCGGAATAGATTATTCCAAGAG
10324721 TGGGATATGAG
1 TGGGATATGAG
10324732 CGGTATTTAC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
40 1 0.02
41 28 0.64
42 15 0.34
ACGTcount: A:0.32, C:0.12, G:0.32, T:0.24
Consensus pattern (43 bp):
TGGGATATGAGAGGGATATCCCCGGAATAGATTATTCCAAGAG
Found at i:10329958 original size:3 final size:3
Alignment explanation
Indices: 10329868--10329942 Score: 73
Period size: 3 Copynumber: 25.0 Consensus size: 3
10329858 ATTTATTTAC
10329868 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATGT ATT -TT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
** * * *
10329912 ACC ATT AATT ATT ATT ACT ACT ACT ATT ATT
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT
10329943 TTGTTAGCAT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
2 4 0.06
3 53 0.84
4 6 0.10
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:10330185 original size:3 final size:3
Alignment explanation
Indices: 10330044--10330165 Score: 108
Period size: 3 Copynumber: 41.0 Consensus size: 3
10330034 AGTATTTTCC
* * * *
10330044 ATT ATT ATT ATT ATT ATC ACT ACT ATC ATT ATT ATT ATT ATT A-T ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** * * *
10330091 ACG A-T ACCTCT -TT ATT ATT ATT ACT ATT -GT ATT ATT ATC ATT ATT
1 ATT ATT A--T-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10330136 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10330166 TCCCTTTTTT
Statistics
Matches: 97, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
2 5 0.05
3 91 0.94
6 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:10330293 original size:26 final size:26
Alignment explanation
Indices: 10330237--10330293 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
10330227 TTTTAGCACA
*
10330237 TTTATTTTATTTATTTATCATTTACT
1 TTTATTTTATTTATTTATCATCTACT
*
10330263 CTTATTATTA-TTATTTCATCATCTA-T
1 TTTATT-TTATTTATTT-ATCATCTACT
10330289 TTTAT
1 TTTAT
10330294 CTATAGTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
26 16 0.62
27 10 0.38
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.65
Consensus pattern (26 bp):
TTTATTTTATTTATTTATCATCTACT
Found at i:10334713 original size:16 final size:16
Alignment explanation
Indices: 10334692--10334727 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
10334682 CTTGATATGA
10334692 ACATTTTAATTCTGTC
1 ACATTTTAATTCTGTC
10334708 ACATTTTAATTCTGTC
1 ACATTTTAATTCTGTC
10334724 ACAT
1 ACAT
10334728 ATACGCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (16 bp):
ACATTTTAATTCTGTC
Found at i:10343152 original size:35 final size:35
Alignment explanation
Indices: 10343113--10343186 Score: 148
Period size: 35 Copynumber: 2.1 Consensus size: 35
10343103 AAGAAAACAA
10343113 CACTTAGTTAACATCTTCTAATGCAACACAATAAC
1 CACTTAGTTAACATCTTCTAATGCAACACAATAAC
10343148 CACTTAGTTAACATCTTCTAATGCAACACAATAAC
1 CACTTAGTTAACATCTTCTAATGCAACACAATAAC
10343183 CACT
1 CACT
10343187 CATAACTACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.39, C:0.27, G:0.05, T:0.28
Consensus pattern (35 bp):
CACTTAGTTAACATCTTCTAATGCAACACAATAAC
Found at i:10356032 original size:78 final size:78
Alignment explanation
Indices: 10355903--10356053 Score: 248
Period size: 78 Copynumber: 1.9 Consensus size: 78
10355893 GTACACAAAG
* *
10355903 TCCATGGTGATCGCTATCAACATGATCACCAACTCTCCTAGCTGATGAGATCAAGGGATCAGGGT
1 TCCATGGTGATCACTATCAACATGATCACCAACTCTCCCAGCTGATGAGATCAAGGGATCAGGGT
10355968 TTAATGGTCGAAC
66 TTAATGGTCGAAC
* * *
10355981 TCCATGGTGATCATTATCAACATGATCACCAACTCTCCCAGCTGGTGAGATCAAGGGATCATGGT
1 TCCATGGTGATCACTATCAACATGATCACCAACTCTCCCAGCTGATGAGATCAAGGGATCAGGGT
*
10356046 TTACTGGT
66 TTAATGGT
10356054 AGACTATGAG
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
78 67 1.00
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (78 bp):
TCCATGGTGATCACTATCAACATGATCACCAACTCTCCCAGCTGATGAGATCAAGGGATCAGGGT
TTAATGGTCGAAC
Found at i:10375308 original size:39 final size:39
Alignment explanation
Indices: 10375216--10375378 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
10375206 GGTGGTGACG
* * * * *
10375216 GGTGGACCGATGGTGACTACCTGACTGCTGAACCTATAAT
1 GGTGGACCGGTGGTGACTGCCTGACTGGTGAA-CGATGAT
10375256 GGTGGACCGGTGGTGACTGCCTGACTGGTGAACGATGAT
1 GGTGGACCGGTGGTGACTGCCTGACTGGTGAACGATGAT
10375295 GGTGGACCGGTGGTGACTGCCTGACTGGTGAACGATGAT
1 GGTGGACCGGTGGTGACTGCCTGACTGGTGAACGATGAT
*
10375334 GGTGGACCGGTGGTGACTGCCTGACTGGTGAACGACGAT
1 GGTGGACCGGTGGTGACTGCCTGACTGGTGAACGATGAT
10375373 GGTGGA
1 GGTGGA
10375379 GAAGGCAAAG
Statistics
Matches: 117, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 88 0.75
40 29 0.25
ACGTcount: A:0.20, C:0.19, G:0.39, T:0.23
Consensus pattern (39 bp):
GGTGGACCGGTGGTGACTGCCTGACTGGTGAACGATGAT
Found at i:10376698 original size:6 final size:6
Alignment explanation
Indices: 10376689--10376715 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
10376679 CAATGATGAT
10376689 GATCTG GATCTG GATCTG GATCTG GAT
1 GATCTG GATCTG GATCTG GATCTG GAT
10376716 GTTTTGGCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.15, G:0.33, T:0.33
Consensus pattern (6 bp):
GATCTG
Found at i:10380193 original size:17 final size:16
Alignment explanation
Indices: 10380171--10380204 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10380161 CATACAATAT
10380171 GGGAAGAAGAAAAAAAA
1 GGGAAG-AGAAAAAAAA
*
10380188 GGGAAGAGAAGAAAAA
1 GGGAAGAGAAAAAAAA
10380204 G
1 G
10380205 AACAGCAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (16 bp):
GGGAAGAGAAAAAAAA
Found at i:10380577 original size:21 final size:21
Alignment explanation
Indices: 10380553--10380593 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
10380543 AACTAAAACC
10380553 TAAATCTATTAATAGTTTAAA
1 TAAATCTATTAATAGTTTAAA
10380574 TAAATCTATTAATAGTTTAA
1 TAAATCTATTAATAGTTTAA
10380594 GGACCTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (21 bp):
TAAATCTATTAATAGTTTAAA
Found at i:10390400 original size:5 final size:5
Alignment explanation
Indices: 10390390--10390421 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
10390380 TTGTGTGTTC
10390390 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
10390422 TTTCACAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:10393348 original size:93 final size:93
Alignment explanation
Indices: 10393236--10393407 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
10393226 GCCCATAAGT
* *
10393236 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
10393301 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
10393329 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
10393394 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
10393408 CAAATATCCT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:10393403 original size:46 final size:46
Alignment explanation
Indices: 10393228--10393403 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
10393218 TGTAACCCGC
* * *
10393228 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
10393274 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
10393324 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
10393367 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
10393404 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:10395791 original size:15 final size:15
Alignment explanation
Indices: 10395688--10395782 Score: 113
Period size: 15 Copynumber: 6.4 Consensus size: 15
10395678 CAAAGATAAC
*
10395688 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
10395702 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
10395717 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
*
10395732 ACGAAATCCAGAATA
1 AAGAAATCCAGAATA
10395747 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
10395762 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
10395777 AAGAAA
1 AAGAAA
10395783 CCCAAGATAC
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
14 9 0.13
15 58 0.85
16 1 0.01
ACGTcount: A:0.58, C:0.15, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:10403000 original size:5 final size:5
Alignment explanation
Indices: 10402990--10403021 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
10402980 TTGTGTGTTC
10402990 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
10403022 TTTCACATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:10404277 original size:40 final size:40
Alignment explanation
Indices: 10404222--10404415 Score: 311
Period size: 40 Copynumber: 4.8 Consensus size: 40
10404212 TTATTTGATG
*
10404222 TGGAATTGTATCCGGGCTTAAAGTCCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
10404262 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
*
10404302 TAGAAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 T-GGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
10404343 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* * *
10404383 TGGAA-TGACATCCGGG-TTAAAAACCTGCAGGCT
1 TGGAATTG-TATCCGGGCTTAAAGACCCGCAGGCT
10404416 GTGCTAGATA
Statistics
Matches: 146, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 17 0.12
40 90 0.62
41 39 0.27
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:10404360 original size:81 final size:81
Alignment explanation
Indices: 10404225--10404383 Score: 309
Period size: 81 Copynumber: 2.0 Consensus size: 81
10404215 TTTGATGTGG
*
10404225 AATTGTATCCGGGCTTAAAGTCCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCG
1 AATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCG
10404290 CAGGCTTCGTGCTAGA
66 CAGGCTTCGTGCTAGA
10404306 AATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCG
1 AATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCG
10404371 CAGGCTTCGTGCT
66 CAGGCTTCGTGCT
10404384 GGAATGACAT
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 77 1.00
ACGTcount: A:0.21, C:0.25, G:0.28, T:0.26
Consensus pattern (81 bp):
AATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCG
CAGGCTTCGTGCTAGA
Found at i:10406617 original size:14 final size:14
Alignment explanation
Indices: 10406600--10406630 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
10406590 TATATATAGT
10406600 ATAATGAATAAAGA
1 ATAATGAATAAAGA
*
10406614 ATAATGAGTAAAGA
1 ATAATGAATAAAGA
10406628 ATA
1 ATA
10406631 GAAAAGTTAC
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:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (14 bp):
ATAATGAATAAAGA
Found at i:10406664 original size:4 final size:4
Alignment explanation
Indices: 10406655--10406745 Score: 78
Period size: 4 Copynumber: 22.5 Consensus size: 4
10406645 AGCAAACGTG
* * * * **
10406655 AGAA AGAA AGAA AGAA AGAA AGAT AGAA AGACT A-AC AGAG AGCAA ACGTG
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGA-A AGAA AGAA AG-AA A-GAA
*
10406705 AGAA TGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A-AA AG
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AG
10406746 GGAAATTTGA
Statistics
Matches: 70, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
3 4 0.06
4 61 0.87
5 4 0.06
6 1 0.01
ACGTcount: A:0.66, C:0.04, G:0.25, T:0.04
Consensus pattern (4 bp):
AGAA
Found at i:10406693 original size:50 final size:50
Alignment explanation
Indices: 10406639--10406735 Score: 176
Period size: 50 Copynumber: 1.9 Consensus size: 50
10406629 TAGAAAAGTT
*
10406639 ACAGAGAGCAAACGTGAGAAAGAAAGAAAGAAAGAAAGATAGAAAGACTA
1 ACAGAGAGCAAACGTGAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGACTA
*
10406689 ACAGAGAGCAAACGTGAGAATGAAAGAAAGAAAGAAAGAAAGAAAGA
1 ACAGAGAGCAAACGTGAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGA
10406736 AAGAAAAAAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.61, C:0.07, G:0.27, T:0.05
Consensus pattern (50 bp):
ACAGAGAGCAAACGTGAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGACTA
Found at i:10409694 original size:17 final size:17
Alignment explanation
Indices: 10409672--10409705 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
10409662 ACTTAAGTGA
10409672 ATAACAAGATCAAATCT
1 ATAACAAGATCAAATCT
10409689 ATAACAAGATCAAATCT
1 ATAACAAGATCAAATCT
10409706 TAAAACCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.18, G:0.06, T:0.24
Consensus pattern (17 bp):
ATAACAAGATCAAATCT
Found at i:10417399 original size:16 final size:18
Alignment explanation
Indices: 10417367--10417399 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
10417357 CAGCCAGTAC
10417367 TGTCCTGTTGCAGCCAAA
1 TGTCCTGTTGCAGCCAAA
10417385 TGTCCT-TTG-AGCCAA
1 TGTCCTGTTGCAGCCAA
10417400 GGCTCAAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 3 0.20
18 6 0.40
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.30
Consensus pattern (18 bp):
TGTCCTGTTGCAGCCAAA
Found at i:10421156 original size:36 final size:37
Alignment explanation
Indices: 10421083--10421158 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 37
10421073 GTCAAAGCAC
*
10421083 ATATATATAATGAGTTTAATTAAATTATAGCAAATCAA
1 ATATATATAATGAGTTT-ATTAAATTAAAGCAAATCAA
* *
10421121 ATATATATAATGAG-TT-TTACAATTAAAGTATATCAA
1 ATATATATAATGAGTTTATTA-AATTAAAGCAAATCAA
10421157 AT
1 AT
10421159 GAAAAAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
35 3 0.09
36 15 0.44
37 2 0.06
38 14 0.41
ACGTcount: A:0.49, C:0.05, G:0.08, T:0.38
Consensus pattern (37 bp):
ATATATATAATGAGTTTATTAAATTAAAGCAAATCAA
Found at i:10421158 original size:41 final size:38
Alignment explanation
Indices: 10421074--10421158 Score: 107
Period size: 38 Copynumber: 2.2 Consensus size: 38
10421064 ATGTAATGAG
* * *
10421074 TCAAAGCACATATATATAATGAGTTTAATTAAATTATA
1 TCAAATCAAATATATATAATGAGTTTAATTAAAGTATA
*
10421112 GCAAATCAAATATATATAATGAGTTTTACAATTAAAGTATA
1 TCAAATCAAATATATATAATGAG-TTT--AATTAAAGTATA
10421153 TCAAAT
1 TCAAAT
10421159 GAAAAAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
38 20 0.51
39 3 0.08
41 16 0.41
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.35
Consensus pattern (38 bp):
TCAAATCAAATATATATAATGAGTTTAATTAAAGTATA
Found at i:10425121 original size:90 final size:90
Alignment explanation
Indices: 10425017--10425187 Score: 272
Period size: 90 Copynumber: 1.9 Consensus size: 90
10425007 TCTCACTTGA
* *
10425017 AACACCACGGAAACTCTGTTGCTTTTCAGAGTGTTTAAAACTTTGTTGCTTCTCCAGGAG-CCGT
1 AACACCACGAAAACTCTGCTGCTTTTCAGAGTGTTTAAAACTTTGTTGCTTCTCCAGGAGTCC-T
10425081 TGAGGAGGTGGTTGTTTTTCTGTCAT
65 TGAGGAGGTGGTTGTTTTTCTGTCAT
* * *
10425107 AACACCGCGAAAACTCTGCTGTTTTTCAGATTGTTTAAAACTTTGTTGCTTCTCCAGGAGTCCTT
1 AACACCACGAAAACTCTGCTGCTTTTCAGAGTGTTTAAAACTTTGTTGCTTCTCCAGGAGTCCTT
*
10425172 GAGGAGGTTGTTGTTT
66 GAGGAGGTGGTTGTTT
10425188 AAAACTCTGC
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
90 72 0.97
91 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.37
Consensus pattern (90 bp):
AACACCACGAAAACTCTGCTGCTTTTCAGAGTGTTTAAAACTTTGTTGCTTCTCCAGGAGTCCTT
GAGGAGGTGGTTGTTTTTCTGTCAT
Found at i:10426064 original size:26 final size:23
Alignment explanation
Indices: 10426035--10426081 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 23
10426025 CACTGAAATT
*
10426035 AGATACAATAATAATATTATAATATA
1 AGATA-AAAAATAA-ATTA-AATATA
10426061 AGATAAAAAATAAATTAAATA
1 AGATAAAAAATAAATTAAATA
10426082 CATTATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 4 0.20
24 4 0.20
25 7 0.35
26 5 0.25
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (23 bp):
AGATAAAAAATAAATTAAATATA
Found at i:10426475 original size:22 final size:22
Alignment explanation
Indices: 10426423--10426479 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
10426413 TATGCACCGA
* *
10426423 TAAACAGAGAGCAATGATGTAT
1 TAAACAGAGAGCAAGGATGTAC
* * * *
10426445 TACATAGAGAGCACGGATGTGC
1 TAAACAGAGAGCAAGGATGTAC
10426467 TAAACAGAGAGCA
1 TAAACAGAGAGCA
10426480 TTAATGTGCT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.42, C:0.14, G:0.26, T:0.18
Consensus pattern (22 bp):
TAAACAGAGAGCAAGGATGTAC
Found at i:10428069 original size:57 final size:57
Alignment explanation
Indices: 10427981--10428095 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
10427971 ATATCTCCAA
10427981 TGTATTAATTGTAGGAACTTATTCTAATTAAGCATGGCTTGGCATGCCTGACAGGTT
1 TGTATTAATTGTAGGAACTTATTCTAATTAAGCATGGCTTGGCATGCCTGACAGGTT
10428038 TGTATTAATTGTAGGAACTTATTCTAATTAAGCATGGCTTGGCATGCCTGACAGGTT
1 TGTATTAATTGTAGGAACTTATTCTAATTAAGCATGGCTTGGCATGCCTGACAGGTT
10428095 T
1 T
10428096 AGCTTTAGGA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (57 bp):
TGTATTAATTGTAGGAACTTATTCTAATTAAGCATGGCTTGGCATGCCTGACAGGTT
Found at i:10430038 original size:23 final size:23
Alignment explanation
Indices: 10429995--10430038 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
10429985 AATAAGCAAT
*
10429995 AATTCAAAATAATTAAATAAAAA
1 AATTCAAAATAAATAAATAAAAA
*
10430018 AATT-AAAACTAAATAATTAAA
1 AATTCAAAA-TAAATAAATAAA
10430039 TTTCTATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (23 bp):
AATTCAAAATAAATAAATAAAAA
Found at i:10440324 original size:43 final size:44
Alignment explanation
Indices: 10440277--10440366 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
10440267 TCTAAACTCA
10440277 AAAAAAAAAAACTT-ATTTGCTTCAAAAT-AAAAATAAAACAATT
1 AAAAAAAAAAA-TTCATTTGCTTCAAAATAAAAAATAAAACAATT
*
10440320 -AAAAAAATAATTCCATTTGCTTCAAAATAAAAAATAAAACAATT
1 AAAAAAAAAAATT-CATTTGCTTCAAAATAAAAAATAAAACAATT
10440364 AAA
1 AAA
10440367 TTCAGGTTAG
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
41 2 0.05
42 9 0.21
43 14 0.33
44 15 0.36
45 2 0.05
ACGTcount: A:0.62, C:0.10, G:0.02, T:0.26
Consensus pattern (44 bp):
AAAAAAAAAAATTCATTTGCTTCAAAATAAAAAATAAAACAATT
Found at i:10448218 original size:69 final size:69
Alignment explanation
Indices: 10448107--10448245 Score: 269
Period size: 69 Copynumber: 2.0 Consensus size: 69
10448097 TCCTCAGAAG
10448107 TTAAATTACATTTGTGATAGACAATGTGCAACCTGCAGCTCTCTCCAACTTTCTCTAGAACTTAA
1 TTAAATTACATTTGTGATAGACAATGTGCAACCTGCAGCTCTCTCCAACTTTCTCTAGAACTTAA
10448172 CCTT
66 CCTT
*
10448176 TTAAATTACATTTGTGATAGACAATGTGCAAGCTGCAGCTCTCTCCAACTTTCTCTAGAACTTAA
1 TTAAATTACATTTGTGATAGACAATGTGCAACCTGCAGCTCTCTCCAACTTTCTCTAGAACTTAA
10448241 CCTT
66 CCTT
10448245 T
1 T
10448246 CTTAGGCATC
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (69 bp):
TTAAATTACATTTGTGATAGACAATGTGCAACCTGCAGCTCTCTCCAACTTTCTCTAGAACTTAA
CCTT
Found at i:10451821 original size:20 final size:20
Alignment explanation
Indices: 10451798--10451840 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
10451788 TTAGGTTGGG
* *
10451798 TGTGGTTCATTTATCTCGAT
1 TGTGGCTCAATTATCTCGAT
*
10451818 TGTGGCTCAATTATCTTGAT
1 TGTGGCTCAATTATCTCGAT
10451838 TGT
1 TGT
10451841 AAATGATTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.16, C:0.14, G:0.21, T:0.49
Consensus pattern (20 bp):
TGTGGCTCAATTATCTCGAT
Found at i:10458185 original size:6 final size:6
Alignment explanation
Indices: 10458174--10458202 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
10458164 TCATTAAAAC
10458174 CCATCA CCATCA CCATCA CCATCA CCATC
1 CCATCA CCATCA CCATCA CCATCA CCATC
10458203 TCAAATCTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.31, C:0.52, G:0.00, T:0.17
Consensus pattern (6 bp):
CCATCA
Found at i:10464315 original size:12 final size:12
Alignment explanation
Indices: 10464298--10464322 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10464288 CCCTCTGCAA
10464298 TCATCTATGACC
1 TCATCTATGACC
10464310 TCATCTATGACC
1 TCATCTATGACC
10464322 T
1 T
10464323 TGATGCTCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.32, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATCTATGACC
Found at i:10468967 original size:10 final size:10
Alignment explanation
Indices: 10468946--10468976 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
10468936 ATTTATATTC
10468946 TAAAAGATAAA
1 TAAAA-ATAAA
10468957 TAAAAATAAA
1 TAAAAATAAA
10468967 TAAAAATAAA
1 TAAAAATAAA
10468977 AGGTAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.75
11 5 0.25
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.19
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:10470198 original size:28 final size:28
Alignment explanation
Indices: 10470158--10470213 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
10470148 CTAAACTAAA
*
10470158 TTGGGACAATCAAACTGGTTCACAATAG
1 TTGGGACAATCAAACTAGTTCACAATAG
10470186 TTGGGACAATCAAACTAGTTCACAATAG
1 TTGGGACAATCAAACTAGTTCACAATAG
10470214 GCTTTCCTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.25
Consensus pattern (28 bp):
TTGGGACAATCAAACTAGTTCACAATAG
Found at i:10472626 original size:7 final size:7
Alignment explanation
Indices: 10472614--10472652 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
10472604 AAAGAAACTT
10472614 AATTTTA
1 AATTTTA
10472621 AATTTTA
1 AATTTTA
10472628 AATTTTA
1 AATTTTA
10472635 AATTTTA
1 AATTTTA
10472642 AATTTTA
1 AATTTTA
10472649 AATT
1 AATT
10472653 ATTTTAATTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTTA
Found at i:10473392 original size:24 final size:23
Alignment explanation
Indices: 10473356--10473409 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 23
10473346 AAAAAAATAA
*
10473356 ATTTTAAAGTTTTTATTTTTTATAAT
1 ATTTT-AA-TTTTTAATTTTTA-AAT
*
10473382 CTTTTAATTTTTAATTTTTAAAT
1 ATTTTAATTTTTAATTTTTAAAT
10473405 ATTTT
1 ATTTT
10473410 TTATCATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 7 0.28
24 12 0.48
25 2 0.08
26 4 0.16
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (23 bp):
ATTTTAATTTTTAATTTTTAAAT
Found at i:10473557 original size:15 final size:15
Alignment explanation
Indices: 10473537--10473566 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10473527 ATTTTTTATA
*
10473537 TTATTTTTTATATTT
1 TTATTTTTTAGATTT
10473552 TTATTTTTTAGATTT
1 TTATTTTTTAGATTT
10473567 ATTTTAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (15 bp):
TTATTTTTTAGATTT
Found at i:10473715 original size:27 final size:29
Alignment explanation
Indices: 10473671--10473724 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
10473661 AAATTTTTAA
* *
10473671 TTATTTTACTATTTTAAATA-TAAAATAT
1 TTATTTTACTATTGTAAAAATTAAAATAT
10473699 TTATTTTA-TATTGTAAAAATTAAAAT
1 TTATTTTACTATTGTAAAAATTAAAAT
10473725 TAATTATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (29 bp):
TTATTTTACTATTGTAAAAATTAAAATAT
Found at i:10488423 original size:22 final size:22
Alignment explanation
Indices: 10488389--10488432 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
10488379 CGTGAATAAG
*
10488389 TTGTTTTGATGTTCTTTCACTA
1 TTGTTTTGATGTTATTTCACTA
*
10488411 TTGTTTT-ACTGTTATTTTACTA
1 TTGTTTTGA-TGTTATTTCACTA
10488433 CTATTGTAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.16, C:0.11, G:0.11, T:0.61
Consensus pattern (22 bp):
TTGTTTTGATGTTATTTCACTA
Found at i:10489605 original size:82 final size:82
Alignment explanation
Indices: 10489464--10489627 Score: 238
Period size: 82 Copynumber: 2.0 Consensus size: 82
10489454 AAAAAATTAG
* * ** *
10489464 GCCCTTTTAAAATATGGGTTGGGTTCAAGCTTGAACATTCAAGGCTTGAGCCCGGCTCGACCTAT
1 GCCCTTTTAAAATATGGGTTGAGTTCAAGCTTGAACATTCAAGGCTCGAGCCCAACTCGACCCAT
* *
10489529 TTTTAAGTTTGTAATAC
66 TTTTAAGCTTATAATAC
* * *
10489546 GCCCTTTTAAAATATGGGTTGAGTTTAAGCTTGAACATTCAAGGCTCGAGTCCAACTCGACCCGT
1 GCCCTTTTAAAATATGGGTTGAGTTCAAGCTTGAACATTCAAGGCTCGAGCCCAACTCGACCCAT
10489611 TTTTAAGCTTATAATAC
66 TTTTAAGCTTATAATAC
10489628 CTTATATTGT
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
82 72 1.00
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (82 bp):
GCCCTTTTAAAATATGGGTTGAGTTCAAGCTTGAACATTCAAGGCTCGAGCCCAACTCGACCCAT
TTTTAAGCTTATAATAC
Found at i:10490139 original size:12 final size:12
Alignment explanation
Indices: 10490105--10490142 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
10490095 CACCAGTAAT
*
10490105 CCAAAACCAAAA
1 CCAAAACCAATA
10490117 CCAAAACCAATA
1 CCAAAACCAATA
*
10490129 CCAATACCAATA
1 CCAAAACCAATA
10490141 CC
1 CC
10490143 GTTTCCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.55, C:0.37, G:0.00, T:0.08
Consensus pattern (12 bp):
CCAAAACCAATA
Found at i:10490142 original size:6 final size:6
Alignment explanation
Indices: 10490105--10490138 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
10490095 CACCAGTAAT
* *
10490105 CCAAAA CCAAAA CCAAAA CCAATA CCAATA CCAA
1 CCAAAA CCAAAA CCAAAA CCAAAA CCAAAA CCAA
10490139 TACCGTTTCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.59, C:0.35, G:0.00, T:0.06
Consensus pattern (6 bp):
CCAAAA
Done.