Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 291 of 311
Found at i:94661840 original size:21 final size:21
Alignment explanation
Indices: 94661816--94661903 Score: 97
Period size: 21 Copynumber: 4.2 Consensus size: 21
94661806 TTCGGGTGGA
*
94661816 TTAGCTCTTACGAGCTTCTAT
1 TTAGCTCTTATGAGCTTCTAT
94661837 TTAGCTCTTATGAGCTTCTAT
1 TTAGCTCTTATGAGCTTCTAT
* * * * *
94661858 TCAGCTATTTTGAGCTTTTGT
1 TTAGCTCTTATGAGCTTCTAT
* *
94661879 TAAGCTCTTATGAGCTT-TTT
1 TTAGCTCTTATGAGCTTCTAT
94661899 TTAGC
1 TTAGC
94661904 GTGATCCGGA
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
20 6 0.11
21 50 0.89
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (21 bp):
TTAGCTCTTATGAGCTTCTAT
Found at i:94662162 original size:30 final size:30
Alignment explanation
Indices: 94662128--94662200 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 30
94662118 ATGTTTAATA
94662128 TTAATG-ATATACATTGACATGGTAATTGGT
1 TTAATGAAT-TACATTGACATGGTAATTGGT
94662158 TTAATGGAATTACATTGACATGGTAATTGGT
1 TTAAT-GAATTACATTGACATGGTAATTGGT
*
94662189 TAAATGGAATTA
1 TTAAT-GAATTA
94662201 TGCTTATGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
30 5 0.12
31 33 0.82
32 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (30 bp):
TTAATGAATTACATTGACATGGTAATTGGT
Found at i:94662173 original size:31 final size:31
Alignment explanation
Indices: 94662137--94662200 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
94662127 ATTAATGATA
*
94662137 TACATTGACATGGTAATTGGTTTAATGGAAT
1 TACATTGACATGGTAATTGGTTAAATGGAAT
94662168 TACATTGACATGGTAATTGGTTAAATGGAAT
1 TACATTGACATGGTAATTGGTTAAATGGAAT
94662199 TA
1 TA
94662201 TGCTTATGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.34, C:0.06, G:0.22, T:0.38
Consensus pattern (31 bp):
TACATTGACATGGTAATTGGTTAAATGGAAT
Found at i:94666472 original size:237 final size:237
Alignment explanation
Indices: 94666053--94666489 Score: 628
Period size: 237 Copynumber: 1.8 Consensus size: 237
94666043 CGTGTGGACA
* **
94666053 GGGCGTGTAACTCGCTAGACTCATGTACGACACCAACAACGATTTTTAGTTTTTAGGTTTTTGGC
1 GGGCGTGTAACTCACTAGACTCATGTACGACACCAACAACGATTTTTAGTTTTTAGGTTTTCAGC
* * *
94666118 ACTTTGAGAAGGCATATATAAGGAAATAAAAAGGGAGAACAATAGTCGTCTTATTTTTGCACAAA
66 ACTTTGAGAAGGCATATATAAGAAAATAAAAAGGGAGAACAATAGTCCTCCTATTTTTGCACAAA
* *
94666183 AATTACCCAAAAGAACACCTTTGAAATTGATATTGAAGCAGTTCTCCATCAAGATTGAAGATTCC
131 AATTACCCAAAAGAACACCTTTGAAATTGATATTGAAGCAGATCTCCATCAAGATTAAAGATTCC
94666248 AAGCTAAATTAGAAGCTACACACGGTCAACAGTGTTCCACAC
196 AAGCTAAATTAGAAGCTACACACGGTCAACAGTGTTCCACAC
* * ***
94666290 GGGCGTGTAACTCACTAGACTCATGTATGACACCAGCGGGGATTTTT-GATTTTTAGGTTTTCAG
1 GGGCGTGTAACTCACTAGACTCATGTACGACACCAACAACGATTTTTAG-TTTTTAGGTTTTCAG
* *** **
94666354 CACTTTGAGAGGGCATATATAAGAAAATAAAAAGGGAGAATGGTAGTCCTCCTATTTTTGCATGA
65 CACTTTGAGAAGGCATATATAAGAAAATAAAAAGGGAGAACAATAGTCCTCCTATTTTTGCACAA
* * *
94666419 AAATTACCCAAAAGAACAGCC-TTGAAGTTGAT-TCTGAGGCAGATCTTCATCAAGATTAAAGAT
130 AAATTACCCAAAAGAACA-CCTTTGAAATTGATAT-TGAAGCAGATCTCCATCAAGATTAAAGAT
94666482 TCCAAGCT
193 TCCAAGCT
94666490 GATTTTCGAG
Statistics
Matches: 175, Mismatches: 22, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
236 2 0.01
237 171 0.98
238 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (237 bp):
GGGCGTGTAACTCACTAGACTCATGTACGACACCAACAACGATTTTTAGTTTTTAGGTTTTCAGC
ACTTTGAGAAGGCATATATAAGAAAATAAAAAGGGAGAACAATAGTCCTCCTATTTTTGCACAAA
AATTACCCAAAAGAACACCTTTGAAATTGATATTGAAGCAGATCTCCATCAAGATTAAAGATTCC
AAGCTAAATTAGAAGCTACACACGGTCAACAGTGTTCCACAC
Found at i:94667593 original size:46 final size:46
Alignment explanation
Indices: 94667523--94667796 Score: 415
Period size: 46 Copynumber: 6.0 Consensus size: 46
94667513 TTTGACACGA
* * * * * *
94667523 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
*** *
94667569 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
94667615 TGCCATGGTATCTTTCAACCATGGTTTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
94667661 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
94667707 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
94667753 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
94667797 AGAGCACACT
Statistics
Matches: 213, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 209 0.98
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:94670859 original size:22 final size:22
Alignment explanation
Indices: 94670833--94670895 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
94670823 CATCATAAAC
* *
94670833 AATAACAACAAAATAGTAGTAA
1 AATAACAATAAAATAGTAATAA
* * *
94670855 TATAATAGTAAAA-AGGTAATAA
1 AATAACAATAAAATA-GTAATAA
94670877 AATAACAATAAAATAGTAA
1 AATAACAATAAAATAGTAA
94670896 CAGAAAAGAA
Statistics
Matches: 31, Mismatches: 8, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
21 1 0.03
22 29 0.94
23 1 0.03
ACGTcount: A:0.63, C:0.05, G:0.10, T:0.22
Consensus pattern (22 bp):
AATAACAATAAAATAGTAATAA
Found at i:94671444 original size:163 final size:163
Alignment explanation
Indices: 94671174--94671669 Score: 967
Period size: 163 Copynumber: 3.0 Consensus size: 163
94671164 TTTGGACCTT
*
94671174 ATTTTTTTAAGCTACATTTTTTAATGATGTTAGCATGATAGTTCACGTGCCATACCTACTATGAT
1 ATTTTTTTAAGCTACATTTTTTAATGATGTTAGCATGGTAGTTCACGTGCCATACCTACTATGAT
94671239 GACACGTGTCAATTGTGTTATTCACCTTCATTTTTTTGATATTTTAAAGATAGAATATAATTTTA
66 GACACGTGTCAATTGTGTTATTCACCTTCATTTTTTTGATATTTTAAAGATAGAATATAATTTTA
94671304 AAATTATAATACATTATTTAAATAATATCAACA
131 AAATTATAATACATTATTTAAATAATATCAACA
94671337 ATTTTTTTAAGCTACATTTTTTAATGATGTTAGCATGGTAGTTCACGTGCCATACCTACTATGAT
1 ATTTTTTTAAGCTACATTTTTTAATGATGTTAGCATGGTAGTTCACGTGCCATACCTACTATGAT
94671402 GACACGTGTCAATTGTGTTATTCACCTTCATTTTTTTGATATTTTAAAGATAGAATATAATTTTA
66 GACACGTGTCAATTGTGTTATTCACCTTCATTTTTTTGATATTTTAAAGATAGAATATAATTTTA
94671467 AAATTATAATACATTATTTAAATAATATCAACA
131 AAATTATAATACATTATTTAAATAATATCAACA
94671500 ATTTTTTTAAGCTACATTTTTTAATGATGTTAGCATGGTAGTTCACGTGCCATACCTACTATGAT
1 ATTTTTTTAAGCTACATTTTTTAATGATGTTAGCATGGTAGTTCACGTGCCATACCTACTATGAT
*
94671565 GGCACGTGTCAATTGTGTTATTCACCTTCA-TTTTTTGATATTTTAAAGATAGAATATAATTTTA
66 GACACGTGTCAATTGTGTTATTCACCTTCATTTTTTTGATATTTTAAAGATAGAATATAATTTTA
94671629 AAATTATAATACATTATTTAAATAATATCAACA
131 AAATTATAATACATTATTTAAATAATATCAACA
94671662 ATTTTTTT
1 ATTTTTTT
94671670 GAACAATCTC
Statistics
Matches: 331, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
162 75 0.23
163 256 0.77
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.44
Consensus pattern (163 bp):
ATTTTTTTAAGCTACATTTTTTAATGATGTTAGCATGGTAGTTCACGTGCCATACCTACTATGAT
GACACGTGTCAATTGTGTTATTCACCTTCATTTTTTTGATATTTTAAAGATAGAATATAATTTTA
AAATTATAATACATTATTTAAATAATATCAACA
Found at i:94671995 original size:17 final size:17
Alignment explanation
Indices: 94671961--94672009 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
94671951 TTAATGGATC
*
94671961 AAATTTTAAT-TTTATAA
1 AAATTTAAATATTTA-AA
*
94671978 AACTATTAAATATTTAAA
1 AAAT-TTAAATATTTAAA
94671996 AAATTTAAATATTT
1 AAATTTAAATATTT
94672010 TTATTTCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 13 0.48
18 10 0.37
19 4 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATTTAAATATTTAAA
Found at i:94672909 original size:20 final size:20
Alignment explanation
Indices: 94672868--94672910 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
94672858 TACTTTTGTT
* *
94672868 TTTTAAAATTAAAATAATAA
1 TTTTAAAAATAAAATAAAAA
94672888 TTTTAAAAATAAACA-AAAAA
1 TTTTAAAAATAAA-ATAAAAA
94672908 TTT
1 TTT
94672911 CGTTTATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
TTTTAAAAATAAAATAAAAA
Found at i:94676685 original size:12 final size:12
Alignment explanation
Indices: 94676668--94676702 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
94676658 TTGGCCCGCC
94676668 TATATTAATTTT
1 TATATTAATTTT
94676680 TATATTAATTTT
1 TATATTAATTTT
94676692 TATA-TAATTTT
1 TATATTAATTTT
94676703 AAAATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 7 0.30
12 16 0.70
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
TATATTAATTTT
Found at i:94676862 original size:30 final size:30
Alignment explanation
Indices: 94676826--94676885 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
94676816 ACTTAACAAT
94676826 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
94676856 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
94676886 TAATAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.57, C:0.12, G:0.03, T:0.28
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:94680981 original size:19 final size:19
Alignment explanation
Indices: 94680936--94680996 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
94680926 ATCTAATTAC
94680936 AAATATTTAATTATTATATTT
1 AAATATTTAATTA-TA-ATTT
*
94680957 AAATATTTAAATATAATTT
1 AAATATTTAATTATAATTT
*
94680976 ATATATTATAATTA-AATTT
1 AAATATT-TAATTATAATTT
94680995 AA
1 AA
94680997 TAAATAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 7 0.20
21 12 0.34
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATATTTAATTATAATTT
Found at i:94691497 original size:137 final size:137
Alignment explanation
Indices: 94691251--94691528 Score: 520
Period size: 137 Copynumber: 2.0 Consensus size: 137
94691241 GAAATGCAAC
*
94691251 CATCAGGGCCATGTAAATTCTTATTTGGAAAGATCTTACATAAGATACCATTTTCACCACAAATT
1 CATCAGGGCCATGTAAATTCTCATTTGGAAAGATCTTACATAAGATACCATTTTCACCACAAATT
* *
94691316 TCTTGTTCTTTTCTTTTTTAAAATAAATAAAGAAGAGAAGAAATGGTTCTTCCCAATATACACAT
66 TCTTATGCTTTTCTTTTTTAAAATAAATAAAGAAGAGAAGAAATGGTTCTTCCCAATATACACAT
94691381 CATATAT
131 CATATAT
94691388 CATCAGGGCCATGTAAATTCTCATTTGGAAAGATCTTACATAAGATACCATTTTCACCACAAATT
1 CATCAGGGCCATGTAAATTCTCATTTGGAAAGATCTTACATAAGATACCATTTTCACCACAAATT
*
94691453 TCTTATGCTTTTCTTTTTTTAAATAAATAAAGAAGAGAAGAAATGGTTCTTCCCAATATACACAT
66 TCTTATGCTTTTCTTTTTTAAAATAAATAAAGAAGAGAAGAAATGGTTCTTCCCAATATACACAT
94691518 CATATAT
131 CATATAT
94691525 CATC
1 CATC
94691529 TAGGAACCAG
Statistics
Matches: 137, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 137 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.35
Consensus pattern (137 bp):
CATCAGGGCCATGTAAATTCTCATTTGGAAAGATCTTACATAAGATACCATTTTCACCACAAATT
TCTTATGCTTTTCTTTTTTAAAATAAATAAAGAAGAGAAGAAATGGTTCTTCCCAATATACACAT
CATATAT
Found at i:94696340 original size:17 final size:19
Alignment explanation
Indices: 94696318--94696356 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
94696308 TAGGGGAAGG
94696318 AAAGAAAG-A-AAAAGAGA
1 AAAGAAAGAAGAAAAGAGA
94696335 AAAGAAAGAAGAAAAGAGA
1 AAAGAAAGAAGAAAAGAGA
94696354 AAA
1 AAA
94696357 TTAAAGGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
19 11 0.55
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (19 bp):
AAAGAAAGAAGAAAAGAGA
Found at i:94697365 original size:18 final size:18
Alignment explanation
Indices: 94697339--94697373 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
94697329 TGTGTACCGC
*
94697339 TACTATTACTATTACTGT
1 TACTATTACCATTACTGT
*
94697357 TACTGTTACCATTACTG
1 TACTATTACCATTACTG
94697374 ACACAGTATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.20, G:0.09, T:0.46
Consensus pattern (18 bp):
TACTATTACCATTACTGT
Found at i:94697519 original size:18 final size:18
Alignment explanation
Indices: 94697496--94697530 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
94697486 TATTGAAGAC
*
94697496 TAACTGCTATTGAATAAT
1 TAACTGCTACTGAATAAT
*
94697514 TAACTGTTACTGAATAA
1 TAACTGCTACTGAATAA
94697531 ACGACTGATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.37
Consensus pattern (18 bp):
TAACTGCTACTGAATAAT
Found at i:94697537 original size:18 final size:18
Alignment explanation
Indices: 94697516--94697562 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
94697506 TGAATAATTA
94697516 ACTGTTACTGAATAAACG
1 ACTGTTACTGAATAAACG
* *
94697534 ACTGATACTGAATAAATG
1 ACTGTTACTGAATAAACG
94697552 A-TCGTTACTGA
1 ACT-GTTACTGA
94697563 TTAACCGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 1 0.04
18 24 0.96
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (18 bp):
ACTGTTACTGAATAAACG
Found at i:94699219 original size:29 final size:29
Alignment explanation
Indices: 94699177--94699347 Score: 114
Period size: 30 Copynumber: 5.8 Consensus size: 29
94699167 TAGCCTTCGG
*
94699177 TGGTCGTCACCATCCCTTTTCATTGTTGA
1 TGGTCATCACCATCCCTTTTCATTGTTGA
* * *
94699206 TGGTCATCATCATCTCTTTCCATAAT-TTGA
1 TGGTCATCACCATCCCTTTTCAT--TGTTGA
* * * * ** *
94699236 TAGTCA-AAGCTATCCTTTTTCATAATCCGA
1 TGGTCATCA-CCATCCCTTTTCATTGT-TGA
* * *
94699266 TAGCCAT-ATCTATCCCTTTTCATTGTTCGA
1 TGGTCATCA-CCATCCCTTTTCATTGTT-GA
*
94699296 TGGTCGTCACCATCCCTTTTCATTGTTGA
1 TGGTCATCACCATCCCTTTTCATTGTTGA
**
94699325 TGGTTGTCACCATCCCTTTTCAT
1 TGGTCATCACCATCCCTTTTCAT
94699348 AATTTGATAG
Statistics
Matches: 110, Mismatches: 24, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
29 45 0.41
30 63 0.57
31 2 0.02
ACGTcount: A:0.19, C:0.26, G:0.13, T:0.42
Consensus pattern (29 bp):
TGGTCATCACCATCCCTTTTCATTGTTGA
Found at i:94699311 original size:30 final size:29
Alignment explanation
Indices: 94699277--94699347 Score: 124
Period size: 29 Copynumber: 2.4 Consensus size: 29
94699267 AGCCATATCT
94699277 ATCCCTTTTCATTGTTCGATGGTCGTCACC
1 ATCCCTTTTCATTGTT-GATGGTCGTCACC
*
94699307 ATCCCTTTTCATTGTTGATGGTTGTCACC
1 ATCCCTTTTCATTGTTGATGGTCGTCACC
94699336 ATCCCTTTTCAT
1 ATCCCTTTTCAT
94699348 AATTTGATAG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
29 24 0.60
30 16 0.40
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.44
Consensus pattern (29 bp):
ATCCCTTTTCATTGTTGATGGTCGTCACC
Found at i:94701070 original size:30 final size:31
Alignment explanation
Indices: 94701034--94701102 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
94701024 GGTTTCATTT
* *
94701034 CAGTCACTCAAC-TTTTGAAAAA-TAACAAAA
1 CAGTCACT-AACGTTATAAAAAATTAACAAAA
*
94701064 CAGTCACTAACGTTATAAAAAATTGACAAAA
1 CAGTCACTAACGTTATAAAAAATTAACAAAA
94701095 CAGTCACT
1 CAGTCACT
94701103 GATTAATAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 3 0.09
30 16 0.47
31 15 0.44
ACGTcount: A:0.48, C:0.20, G:0.09, T:0.23
Consensus pattern (31 bp):
CAGTCACTAACGTTATAAAAAATTAACAAAA
Found at i:94703062 original size:3 final size:3
Alignment explanation
Indices: 94703056--94703112 Score: 78
Period size: 3 Copynumber: 19.0 Consensus size: 3
94703046 TTTTTTACAG
* * * *
94703056 TCT TCT TCT TCT ACT GCT GCT TCT TCT TAT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
94703104 TCT TCT TCT
1 TCT TCT TCT
94703113 CTGTTAAGGG
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.04, C:0.32, G:0.04, T:0.61
Consensus pattern (3 bp):
TCT
Found at i:94703200 original size:21 final size:20
Alignment explanation
Indices: 94703174--94703216 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
94703164 ACGTGGCAAT
*
94703174 TTAACTGGCCACATCAGCTAG
1 TTAACTGACCACATCAGC-AG
*
94703195 TTAACTTACCACATCAGCAG
1 TTAACTGACCACATCAGCAG
94703215 TT
1 TT
94703217 CTGTTAAAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (20 bp):
TTAACTGACCACATCAGCAG
Found at i:94703313 original size:30 final size:31
Alignment explanation
Indices: 94703248--94703316 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
94703238 ACTATTAATC
* * *
94703248 AGTGACTATTTTGTCACTTTTTTATAACGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
*
94703279 AGTGACTGTTTTGTTA-TTTTTCA-AAAGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
94703308 GAGTGACTG
1 -AGTGACTG
94703317 AAATGAAACT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 14 0.42
31 14 0.42
ACGTcount: A:0.23, C:0.10, G:0.19, T:0.48
Consensus pattern (31 bp):
AGTGACTGTTTTGTCACTTTTTCATAAAGTT
Found at i:94705314 original size:35 final size:35
Alignment explanation
Indices: 94705235--94705307 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
94705225 TTAATCTAAC
94705235 ATATAAAAATTAATTTATTCATTTTTTTAATAGCA
1 ATATAAAAATTAATTTATTCATTTTTTTAATAGCA
*
94705270 ATATAAAAATTAATTTATTCATTTTTTTAGTAGCA
1 ATATAAAAATTAATTTATTCATTTTTTTAATAGCA
94705305 ATA
1 ATA
94705308 ACAAAATATG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.48
Consensus pattern (35 bp):
ATATAAAAATTAATTTATTCATTTTTTTAATAGCA
Found at i:94705499 original size:20 final size:21
Alignment explanation
Indices: 94705452--94705501 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
94705442 ATGTCACATC
94705452 AGTATTCTTATCCTGAATTTCA
1 AGTATT-TTATCCTGAATTTCA
*
94705474 AG-ATTTTATCCTGAATTT-T
1 AGTATTTTATCCTGAATTTCA
94705493 AGTATTTTA
1 AGTATTTTA
94705502 ATTCGGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 2 0.08
20 19 0.73
21 3 0.12
22 2 0.08
ACGTcount: A:0.28, C:0.12, G:0.10, T:0.50
Consensus pattern (21 bp):
AGTATTTTATCCTGAATTTCA
Found at i:94710889 original size:13 final size:13
Alignment explanation
Indices: 94710871--94710897 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
94710861 TTGTAATTTA
94710871 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
94710884 AAAAAAGAAAAAG
1 AAAAAAGAAAAAG
94710897 A
1 A
94710898 TTGACCAGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAGAAAAAG
Found at i:94732102 original size:20 final size:23
Alignment explanation
Indices: 94732062--94732102 Score: 61
Period size: 20 Copynumber: 1.9 Consensus size: 23
94732052 ACTCTCACCT
94732062 GATAACCAATACAATATGTATGA
1 GATAACCAATACAATATGTATGA
94732085 GATAA-CAA-ACAA-ATGTAT
1 GATAACCAATACAATATGTAT
94732103 ATATCATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 4 0.22
22 3 0.17
23 5 0.28
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.24
Consensus pattern (23 bp):
GATAACCAATACAATATGTATGA
Found at i:94732602 original size:31 final size:31
Alignment explanation
Indices: 94732562--94732622 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
94732552 AACAGTGATT
*
94732562 ATAAGATCAACTTAGATCTACTCGTTGATAA
1 ATAAAATCAACTTAGATCTACTCGTTGATAA
94732593 ATAAAATCAACTTAGATCTACTCGTTGATA
1 ATAAAATCAACTTAGATCTACTCGTTGATA
94732623 GATATTGATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.16, G:0.11, T:0.33
Consensus pattern (31 bp):
ATAAAATCAACTTAGATCTACTCGTTGATAA
Found at i:94732745 original size:30 final size:30
Alignment explanation
Indices: 94732711--94732768 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
94732701 AAGTGTTTTA
*
94732711 AATAAAAAC-TTTAACATATTTTAATAACTT
1 AATAAAAACTTTTAA-ATAGTTTAATAACTT
94732741 AATAAAAACTTTTAAATAGTTTAATAAC
1 AATAAAAACTTTTAAATAGTTTAATAAC
94732769 AAAATTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.38
Consensus pattern (30 bp):
AATAAAAACTTTTAAATAGTTTAATAACTT
Found at i:94741053 original size:13 final size:11
Alignment explanation
Indices: 94741017--94741047 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
94741007 CTGCCTGTAT
94741017 TAATTTTTATA
1 TAATTTTTATA
*
94741028 TTATTTTTATA
1 TAATTTTTATA
94741039 TAATTTTTA
1 TAATTTTTA
94741048 AGTATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:94744692 original size:20 final size:20
Alignment explanation
Indices: 94744656--94744695 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
94744646 TCCTATTGTT
94744656 GTTTTGTTACTGTTTGCTGC
1 GTTTTGTTACTGTTTGCTGC
*
94744676 GTTTCTGTTTCTG-TTGCTGC
1 GTTT-TGTTACTGTTTGCTGC
94744696 TTCCGTCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.03, C:0.17, G:0.25, T:0.55
Consensus pattern (20 bp):
GTTTTGTTACTGTTTGCTGC
Found at i:94747097 original size:20 final size:20
Alignment explanation
Indices: 94747058--94747097 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
94747048 GATGCGTGGG
*
94747058 GAAGATGTCCGTAATTGGAC
1 GAAGATGTCCGTAATGGGAC
* *
94747078 GAAGATGTCTGTGATGGGAC
1 GAAGATGTCCGTAATGGGAC
94747098 CTGTTGCCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.35, T:0.25
Consensus pattern (20 bp):
GAAGATGTCCGTAATGGGAC
Found at i:94751521 original size:384 final size:384
Alignment explanation
Indices: 94750812--94751584 Score: 1528
Period size: 384 Copynumber: 2.0 Consensus size: 384
94750802 GCAAAGTTGA
*
94750812 AGAATAAAAACAGCATTTTTGTCTCCAGGATCATTAACCATGGTAACCCAGATCTTTCATTTATA
1 AGAATAAAAACAGCATTTTTGCCTCCAGGATCATTAACCATGGTAACCCAGATCTTTCATTTATA
94750877 TGATTGAAATTTAACTTTAATGCTACAAGTATTAAGGACTGTGCTGTACGTGTTTGAGATTATAC
66 TGATTGAAATTTAACTTTAATGCTACAAGTATTAAGGACTGTGCTGTACGTGTTTGAGATTATAC
94750942 AGTGAAGGGAAAGTTGAGTTTTGGGGCAAGAATAATTCTAGGAGGAGGAATTGGCAGTGTTTTCG
131 AGTGAAGGGAAAGTTGAGTTTTGGGGCAAGAATAATTCTAGGAGGAGGAATTGGCAGTGTTTTCG
94751007 GACAAATATTTATTGTGAAAGAAGGAGAGAAGCTGCTAAAGGCTTTCCAATGCCATCTGTGCACG
196 GACAAATATTTATTGTGAAAGAAGGAGAGAAGCTGCTAAAGGCTTTCCAATGCCATCTGTGCACG
94751072 ACAGCCGGTCCAATACCAGGGCTCTTGTTTATTTCCACTGAAAACGTTGCCTTCTGCGGTGAAAG
261 ACAGCCGGTCCAATACCAGGGCTCTTGTTTATTTCCACTGAAAACGTTGCCTTCTGCGGTGAAAG
94751137 ATGGATCAACGTTACTTGATCTACTGGACAAGTGCTTGCAACATTGGCTTACAAGGTTT
326 ATGGATCAACGTTACTTGATCTACTGGACAAGTGCTTGCAACATTGGCTTACAAGGTTT
94751196 AGAATAAAAACAGCATTTTTGCCTCCAGGATCATTAACCATGGTAACCCAGATCTTTCATTTATA
1 AGAATAAAAACAGCATTTTTGCCTCCAGGATCATTAACCATGGTAACCCAGATCTTTCATTTATA
*
94751261 TGATTGAAATTTAACTTTACTGCTACAAGTATTAAGGACTGTGCTGTACGTGTTTGAGATTATAC
66 TGATTGAAATTTAACTTTAATGCTACAAGTATTAAGGACTGTGCTGTACGTGTTTGAGATTATAC
94751326 AGTGAAGGGAAAGTTGAGTTTTGGGGCAAGAATAATTCTAGGAGGAGGAATTGGCAGTGTTTTCG
131 AGTGAAGGGAAAGTTGAGTTTTGGGGCAAGAATAATTCTAGGAGGAGGAATTGGCAGTGTTTTCG
94751391 GACAAATATTTATTGTGAAAGAAGGAGAGAAGCTGCTAAAGGCTTTCCAATGCCATCTGTGCACG
196 GACAAATATTTATTGTGAAAGAAGGAGAGAAGCTGCTAAAGGCTTTCCAATGCCATCTGTGCACG
94751456 ACAGCCGGTCCAATACCAGGGCTCTTGTTTATTTCCACTGAAAACGTTGCCTTCTGCGGTGAAAG
261 ACAGCCGGTCCAATACCAGGGCTCTTGTTTATTTCCACTGAAAACGTTGCCTTCTGCGGTGAAAG
94751521 ATGGATCAACGTTACTTGATCTACTGGACAAGTGCTTGCAACATTGGCTTACAAGGTTT
326 ATGGATCAACGTTACTTGATCTACTGGACAAGTGCTTGCAACATTGGCTTACAAGGTTT
94751580 AGAAT
1 AGAAT
94751585 TATTTTCCAT
Statistics
Matches: 387, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
384 387 1.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (384 bp):
AGAATAAAAACAGCATTTTTGCCTCCAGGATCATTAACCATGGTAACCCAGATCTTTCATTTATA
TGATTGAAATTTAACTTTAATGCTACAAGTATTAAGGACTGTGCTGTACGTGTTTGAGATTATAC
AGTGAAGGGAAAGTTGAGTTTTGGGGCAAGAATAATTCTAGGAGGAGGAATTGGCAGTGTTTTCG
GACAAATATTTATTGTGAAAGAAGGAGAGAAGCTGCTAAAGGCTTTCCAATGCCATCTGTGCACG
ACAGCCGGTCCAATACCAGGGCTCTTGTTTATTTCCACTGAAAACGTTGCCTTCTGCGGTGAAAG
ATGGATCAACGTTACTTGATCTACTGGACAAGTGCTTGCAACATTGGCTTACAAGGTTT
Found at i:94755038 original size:21 final size:21
Alignment explanation
Indices: 94755012--94755052 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
94755002 ATCTGCTCAA
* *
94755012 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
94755033 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
94755053 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:94759637 original size:19 final size:20
Alignment explanation
Indices: 94759609--94759755 Score: 105
Period size: 19 Copynumber: 7.5 Consensus size: 20
94759599 TGTTAAAATT
*
94759609 TTATATAAAT-TTATAAAAAG
1 TTATA-AAATATTATAAAAAC
* *
94759629 TTATAAAATAATCATAATAAC
1 TTATAAAAT-ATTATAAAAAC
94759650 TTAT-AAATATTATAAAAAC
1 TTATAAAATATTATAAAAAC
* *
94759669 TTATAAAA-ATTCTAAAAAA
1 TTATAAAATATTATAAAAAC
*
94759688 TATATTAAAAAATTAT--AAAC
1 T-TA-TAAAATATTATAAAAAC
*
94759708 TTATAAAAAATTCATAAAAA-
1 TTATAAAATATT-ATAAAAAC
* *
94759728 TTA-AAATTATTAT--AAAT
1 TTATAAAATATTATAAAAAC
94759745 TTATAAAATAT
1 TTATAAAATAT
94759756 ATGAATTATA
Statistics
Matches: 104, Mismatches: 12, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
16 3 0.03
17 3 0.03
18 17 0.16
19 37 0.36
20 21 0.20
21 19 0.18
22 4 0.04
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.37
Consensus pattern (20 bp):
TTATAAAATATTATAAAAAC
Found at i:94759717 original size:31 final size:33
Alignment explanation
Indices: 94759656--94759718 Score: 87
Period size: 30 Copynumber: 2.0 Consensus size: 33
94759646 TAACTTATAA
*
94759656 ATATTATAAAAACTTATAAAAATTCTAAAAAAT
1 ATATTATAAAAACTTATAAAAATTATAAAAAAT
*
94759689 ATATTA-AAAAA-TTAT-AAACTTATAAAAAAT
1 ATATTATAAAAACTTATAAAAATTATAAAAAAT
94759719 TCATAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 13 0.46
31 4 0.14
32 5 0.18
33 6 0.21
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (33 bp):
ATATTATAAAAACTTATAAAAATTATAAAAAAT
Found at i:94759744 original size:26 final size:28
Alignment explanation
Indices: 94759612--94759769 Score: 80
Period size: 30 Copynumber: 5.6 Consensus size: 28
94759602 TAAAATTTTA
* *
94759612 TATAAATTTATAAAAAGTT-ATAAAATAAT
1 TATAAACTTATAAAAAATTCAT-AAA-AAT
* *
94759641 CATAATAACTTAT-AAATATT-ATAAAAACT
1 TAT-A-AACTTATAAAAAATTCATAAAAA-T
* *
94759670 TATAAAAATTCTAAAAAATAT-ATTAAAAAAT
1 TAT-AAACTTATAAAAAAT-TCA-T-AAAAAT
94759701 TATAAACTTATAAAAAATTCATAAAAAT
1 TATAAACTTATAAAAAATTCATAAAAAT
* * *
94759729 TA-AAA-TTATTATAAATTTAT-AAAAT
1 TATAAACTTATAAAAAATTCATAAAAAT
*
94759754 ATATGAA-TTATAAAAA
1 -TATAAACTTATAAAAA
94759770 GGTTATTTAT
Statistics
Matches: 103, Mismatches: 16, Indels: 22
0.73 0.11 0.16
Matches are distributed among these distances:
25 5 0.05
26 14 0.14
27 12 0.12
28 15 0.15
29 17 0.17
30 24 0.23
31 11 0.11
32 5 0.05
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.35
Consensus pattern (28 bp):
TATAAACTTATAAAAAATTCATAAAAAT
Found at i:94772618 original size:25 final size:25
Alignment explanation
Indices: 94772573--94772621 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
94772563 CTTTATACAT
*
94772573 TTAGAATTAAACTCTTATATTTTTA
1 TTAGAATTAAACTCTCATATTTTTA
*
94772598 TTAGAATTTAA-TCTCACTATTTTT
1 TTAGAATTAAACTCTCA-TATTTTT
94772622 TAAATTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.53
Consensus pattern (25 bp):
TTAGAATTAAACTCTCATATTTTTA
Found at i:94773803 original size:9 final size:9
Alignment explanation
Indices: 94773768--94773877 Score: 53
Period size: 9 Copynumber: 11.7 Consensus size: 9
94773758 ATGATTTTTT
*
94773768 TAATTTTTA
1 TAATTTTAA
*
94773777 TAAGTTTATA
1 TAATTTTA-A
94773787 TCAATTTTAA
1 T-AATTTTAA
*
94773797 TAATTTTTA
1 TAATTTTAA
*
94773806 TGATTTTATA
1 TAATTTTA-A
*
94773816 GAATTTTAA
1 TAATTTTAA
94773825 TATATTTTTTAA
1 TA-A--TTTTAA
*
94773837 -AATTTAAA
1 TAATTTTAA
*
94773845 TATATTTTAT
1 TA-ATTTTAA
*
94773855 TAATTCT-A
1 TAATTTTAA
* *
94773863 TATTTTTTA
1 TAATTTTAA
94773872 TAATTT
1 TAATTT
94773878 ATTTGATTTT
Statistics
Matches: 75, Mismatches: 17, Indels: 18
0.68 0.15 0.16
Matches are distributed among these distances:
8 10 0.13
9 32 0.43
10 20 0.27
11 7 0.09
12 6 0.08
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (9 bp):
TAATTTTAA
Found at i:94773803 original size:29 final size:28
Alignment explanation
Indices: 94773768--94773833 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 28
94773758 ATGATTTTTT
94773768 TAATTTTTATAAGTTTATATCAATTTTAA
1 TAATTTTTATAAGTTTATA-CAATTTTAA
* * *
94773797 TAATTTTTATGATTTTATAGAATTTTAA
1 TAATTTTTATAAGTTTATACAATTTTAA
94773825 TATATTTTT
1 TA-ATTTTT
94773834 TAAAATTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 10 0.30
29 23 0.70
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.59
Consensus pattern (28 bp):
TAATTTTTATAAGTTTATACAATTTTAA
Found at i:94773840 original size:20 final size:20
Alignment explanation
Indices: 94773791--94773857 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
94773781 TTTATATCAA
94773791 TTTTAATAATTTT--TATGATT
1 TTTTAA-AATTTTAATAT-ATT
* *
94773811 TTATAGAATTTTAATATATT
1 TTTTAAAATTTTAATATATT
*
94773831 TTTTAAAATTTAAATATATT
1 TTTTAAAATTTTAATATATT
94773851 TTATTAA
1 TT-TTAA
94773858 TTCTATATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
19 6 0.15
20 26 0.67
21 7 0.18
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
TTTTAAAATTTTAATATATT
Found at i:94773842 original size:29 final size:29
Alignment explanation
Indices: 94773768--94773859 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
94773758 ATGATTTTTT
*
94773768 TAATTTTTATAAGTTTATATCAATTTTAA
1 TAATTTTTATAAATTTATATCAATTTTAA
* * *
94773797 TAATTTTTATGATTTTATA-GAATTTTAA
1 TAATTTTTATAAATTTATATCAATTTTAA
* *
94773825 TATATTTTT-TAAAATTTAAAT-ATATTTTAT
1 TA-ATTTTTAT-AAATTTATATCA-ATTTTAA
94773855 TAATT
1 TAATT
94773860 CTATATTTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
28 11 0.21
29 33 0.63
30 8 0.15
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (29 bp):
TAATTTTTATAAATTTATATCAATTTTAA
Found at i:94773865 original size:18 final size:17
Alignment explanation
Indices: 94773772--94773890 Score: 55
Period size: 20 Copynumber: 6.4 Consensus size: 17
94773762 TTTTTTTAAT
94773772 TTTTA-TAAGTTTATATCAA
1 TTTTATTAA-TTTATAT--A
* *
94773791 TTTTAATAATTTTTATGA
1 TTTTATTAATTTATAT-A
*
94773809 TTTTATAGAATTTTAATATA
1 TTTTAT-TAA-TTT-ATATA
94773829 TTTT-TTAAAATTTAAATATA
1 TTTTATT--AATTT--ATATA
*
94773849 TTTTATTAATTCTATATT
1 TTTTATTAATT-TATATA
*
94773867 TTTTA-TAATTTATTTGA
1 TTTTATTAATTTATAT-A
94773884 TTTTATT
1 TTTTATT
94773891 CGATTTTTTA
Statistics
Matches: 80, Mismatches: 9, Indels: 23
0.71 0.08 0.21
Matches are distributed among these distances:
16 4 0.05
17 10 0.12
18 16 0.20
19 21 0.26
20 24 0.30
21 5 0.06
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (17 bp):
TTTTATTAATTTATATA
Found at i:94773962 original size:27 final size:27
Alignment explanation
Indices: 94773932--94773992 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
94773922 TGTATATCAA
94773932 TTTTTATTTTT-AT-ATTTTATTAATAT
1 TTTTTATTTTTGATAATTTT-TTAATAT
*
94773958 TTTTTATTTTTGATAATTTTTTAATCT
1 TTTTTATTTTTGATAATTTTTTAATAT
94773985 TTTTTATT
1 TTTTTATT
94773993 GGAAAAATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 11 0.34
27 16 0.50
28 5 0.16
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (27 bp):
TTTTTATTTTTGATAATTTTTTAATAT
Found at i:94773974 original size:19 final size:19
Alignment explanation
Indices: 94773938--94773979 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
94773928 TCAATTTTTA
94773938 TTTTTATATTTTATTAATAT
1 TTTTTATATTTTATTAAT-T
94773958 TTTTTAT-TTTTGA-TAATT
1 TTTTTATATTTT-ATTAATT
94773976 TTTT
1 TTTT
94773980 AATCTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 5 0.24
19 8 0.38
20 8 0.38
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTTATATTTTATTAATT
Found at i:94779650 original size:16 final size:17
Alignment explanation
Indices: 94779626--94779658 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
94779616 AAGCTATTTA
94779626 CTTTAATAT-TATTTTT
1 CTTTAATATATATTTTT
*
94779642 CTTTTATATATATTTTT
1 CTTTAATATATATTTTT
94779659 TACTCATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (17 bp):
CTTTAATATATATTTTT
Found at i:94787454 original size:2 final size:2
Alignment explanation
Indices: 94787447--94787488 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
94787437 GTGAGAGGGG
* *
94787447 GA GA GA GA GA GA GA GA GA GA GA GC GA GA GA GA GA GA GC GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
94787489 AAGAAATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.45, C:0.05, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:94792119 original size:14 final size:14
Alignment explanation
Indices: 94792087--94792119 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
94792077 TTTACGAGGG
94792087 TTTTTTCTTTCTTT
1 TTTTTTCTTTCTTT
*
94792101 CTTTTTCTTT-TTT
1 TTTTTTCTTTCTTT
94792114 TTTTTT
1 TTTTTT
94792120 GGGGGTGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTTTTCTTTCTTT
Found at i:94794718 original size:69 final size:69
Alignment explanation
Indices: 94794581--94794718 Score: 199
Period size: 69 Copynumber: 2.0 Consensus size: 69
94794571 AAAATAAAAA
* * * *
94794581 TAAAAGTTTCACAAAATCCCAACACATCATAGGTACGTTGGATCGAAAGGCAGCATAATTGCATC
1 TAAAAATTTCACAAAATCCCAACACATCATAGATACGTTGGATCGAAAGGCAGCATAAATGCACC
94794646 AATG
66 AATG
*
94794650 TAAAAATTTCACAAAATCCCAACACA-CTATAGATACGTTGGATTGAAAGGCAG-ACTAAATGCA
1 TAAAAATTTCACAAAATCCCAACACATC-ATAGATACGTTGGATCGAAAGGCAGCA-TAAATGCA
94794713 CCAATG
64 CCAATG
94794719 ACAAACTCAC
Statistics
Matches: 62, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
68 2 0.03
69 60 0.97
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.22
Consensus pattern (69 bp):
TAAAAATTTCACAAAATCCCAACACATCATAGATACGTTGGATCGAAAGGCAGCATAAATGCACC
AATG
Found at i:94815244 original size:38 final size:38
Alignment explanation
Indices: 94815202--94815282 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 38
94815192 AGTTTAAATT
* *
94815202 TAAAAA-AAATATTTGCTTTAAAATAAAAATAAAACAAA
1 TAAAAAGAAAT-TTTACTTCAAAATAAAAATAAAACAAA
* *
94815240 TAAAAATGTAATTTTACTTCAAAATAAAAATAAAACAAT
1 TAAAAA-GAAATTTTACTTCAAAATAAAAATAAAACAAA
94815279 TAAA
1 TAAA
94815283 TTAAATTCTG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 6 0.16
39 28 0.76
40 3 0.08
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.28
Consensus pattern (38 bp):
TAAAAAGAAATTTTACTTCAAAATAAAAATAAAACAAA
Found at i:94824230 original size:29 final size:29
Alignment explanation
Indices: 94824183--94824240 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
94824173 TGATTGATAG
* *
94824183 TTCAGCTCATCAAAGGGAGACTGAAACCT
1 TTCAGCTCATCAAAAGGAGACTAAAACCT
*
94824212 TTCAGCTCATTAAAAGGAGACTAAAACCT
1 TTCAGCTCATCAAAAGGAGACTAAAACCT
94824241 CAAGACTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.22
Consensus pattern (29 bp):
TTCAGCTCATCAAAAGGAGACTAAAACCT
Found at i:94828955 original size:46 final size:46
Alignment explanation
Indices: 94828913--94829087 Score: 269
Period size: 46 Copynumber: 3.8 Consensus size: 46
94828903 ATGGTCTCAC
*
94828913 TCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAAGGTCTTAT
1 TCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCAAGGTCTTAT
* * *
94828959 TCACTTCCTGTCATGTTGCCATGGTATCTTTTAACCATGGTCTTAT
1 TCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCAAGGTCTTAT
* *
94829005 TCATTTCCTATCATGTTGCCATGGTATCTTTCAACCACGGTCTTAT
1 TCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCAAGGTCTTAT
* **
94829051 TCGTTTCCTGTCATGTTATCATGGTATCTTTCAACCA
1 TCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCA
94829088 TGTCTTACAC
Statistics
Matches: 117, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 117 1.00
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.43
Consensus pattern (46 bp):
TCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCAAGGTCTTAT
Found at i:94829040 original size:92 final size:92
Alignment explanation
Indices: 94828903--94829101 Score: 292
Period size: 92 Copynumber: 2.2 Consensus size: 92
94828893 TTTTTCAATT
* * *
94828903 ATGGTCTCACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAACCAAGGTCTTATTCACTTCCT
1 ATGGTCTTACTCATTTCCTATCATGTTGCCATGGTATCTTTCAACCAAGGTCTTATTCACTTCCT
* *
94828968 GTCATGTTGCCATGGTATCTTTTAACC
66 GTCATGTTACCATGGTATCTTTCAACC
* * **
94828995 ATGGTCTTATTCATTTCCTATCATGTTGCCATGGTATCTTTCAACCACGGTCTTATTCGTTTCCT
1 ATGGTCTTACTCATTTCCTATCATGTTGCCATGGTATCTTTCAACCAAGGTCTTATTCACTTCCT
*
94829060 GTCATGTTATCATGGTATCTTTCAACC
66 GTCATGTTACCATGGTATCTTTCAACC
*
94829087 AT-GTCTTACACATTT
1 ATGGTCTTACTCATTT
94829102 GAATCGCGAT
Statistics
Matches: 95, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
91 11 0.12
92 84 0.88
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.43
Consensus pattern (92 bp):
ATGGTCTTACTCATTTCCTATCATGTTGCCATGGTATCTTTCAACCAAGGTCTTATTCACTTCCT
GTCATGTTACCATGGTATCTTTCAACC
Found at i:94829138 original size:45 final size:45
Alignment explanation
Indices: 94829089--94829192 Score: 138
Period size: 45 Copynumber: 2.3 Consensus size: 45
94829079 TTTCAACCAT
* *
94829089 GTCTTACACATTTGAATCGCGATGCCATAGCGTCTTTCAGTTATG
1 GTCTTACACATTTCAATCGCGATGCCATAGCGTCTTTCAGCTATG
* * *
94829134 GTCTTACTA-GTCTCAATCGTGATGCCATAGCGTCTTTCAGCTATG
1 GTCTTAC-ACATTTCAATCGCGATGCCATAGCGTCTTTCAGCTATG
*
94829179 GTCTTACTCATTTC
1 GTCTTACACATTTC
94829193 TGGTATGATG
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
45 48 0.98
46 1 0.02
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (45 bp):
GTCTTACACATTTCAATCGCGATGCCATAGCGTCTTTCAGCTATG
Found at i:94829258 original size:33 final size:33
Alignment explanation
Indices: 94829216--94829356 Score: 101
Period size: 33 Copynumber: 4.3 Consensus size: 33
94829206 TAGTCCAACT
* *
94829216 ATGGTCTTACACATGCATTGCAATGGCCCAGCC
1 ATGGTCTTACACATGCATTGCTATAGCCCAGCC
* * * **
94829249 ATGGTCTTACAC-T-CGTGGTGTTATATCCCAGAT
1 ATGGTCTTACACATGCAT--TGCTATAGCCCAGCC
* * *
94829282 ATGGTCTTATCATCATG-A-TGCCATAGCCTAGCT
1 ATGGTCTTA-CA-CATGCATTGCTATAGCCCAGCC
** *
94829315 ATGGTCTTACACATATATTGCTATGGCCCAGCC
1 ATGGTCTTACACATGCATTGCTATAGCCCAGCC
94829348 ATGGTCTTA
1 ATGGTCTTA
94829357 TCCGTCAATT
Statistics
Matches: 82, Mismatches: 18, Indels: 16
0.71 0.16 0.14
Matches are distributed among these distances:
31 5 0.06
32 4 0.05
33 69 0.84
34 2 0.02
35 1 0.01
36 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (33 bp):
ATGGTCTTACACATGCATTGCTATAGCCCAGCC
Found at i:94830935 original size:11 final size:11
Alignment explanation
Indices: 94830919--94830948 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
94830909 ATATATACTA
94830919 AATAAAATAAT
1 AATAAAATAAT
94830930 AATAAAATAAT
1 AATAAAATAAT
94830941 AA-AAAATA
1 AATAAAATA
94830949 TCATTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.32
11 13 0.68
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:94833033 original size:42 final size:42
Alignment explanation
Indices: 94832954--94833033 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
94832944 GTGCAGGTTT
**
94832954 CACACGGCCAAGACACACACCCATGTTCTAGGTCGTGTAGCA
1 CACACGGCCAAGACACACACCCATGTTCTAGCCCGTGTAGCA
*
94832996 CACACGGCTAAGACACACACCCATGTCTCT-GCCCGTGT
1 CACACGGCCAAGACACACACCCATGT-TCTAGCCCGTGT
94833034 GCTCAATTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
42 31 0.91
43 3 0.09
ACGTcount: A:0.26, C:0.36, G:0.20, T:0.17
Consensus pattern (42 bp):
CACACGGCCAAGACACACACCCATGTTCTAGCCCGTGTAGCA
Found at i:94850321 original size:25 final size:25
Alignment explanation
Indices: 94850292--94850367 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
94850282 AGACATCCCG
94850292 AAATGATCTCAACGTTGCTATGACC
1 AAATGATCTCAACGTTGCTATGACC
* ** * *
94850317 AAATGATTTGGAC----C-A-CACG
1 AAATGATCTCAACGTTGCTATGACC
94850336 AAATGATCTCAACGTTGCTATGACC
1 AAATGATCTCAACGTTGCTATGACC
94850361 AAATGAT
1 AAATGAT
94850368 TTTGGAAGTA
Statistics
Matches: 35, Mismatches: 10, Indels: 12
0.61 0.18 0.21
Matches are distributed among these distances:
19 12 0.34
20 1 0.03
21 1 0.03
23 1 0.03
24 1 0.03
25 19 0.54
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (25 bp):
AAATGATCTCAACGTTGCTATGACC
Found at i:94856565 original size:15 final size:16
Alignment explanation
Indices: 94856545--94856577 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
94856535 ATAGAGATAT
94856545 AATAAA-ATATTAAAA
1 AATAAATATATTAAAA
*
94856560 AATAAATATTTTAAAA
1 AATAAATATATTAAAA
94856576 AA
1 AA
94856578 GAGAGACATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AATAAATATATTAAAA
Found at i:94857587 original size:11 final size:11
Alignment explanation
Indices: 94857571--94857596 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
94857561 AACAGTTTAT
94857571 CCCTATATATA
1 CCCTATATATA
94857582 CCCTATATATA
1 CCCTATATATA
94857593 CCCT
1 CCCT
94857597 TAACCCAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (11 bp):
CCCTATATATA
Found at i:94863153 original size:12 final size:12
Alignment explanation
Indices: 94863136--94863160 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
94863126 ATTAATTTTG
94863136 TTAAAAAATTAT
1 TTAAAAAATTAT
94863148 TTAAAAAATTAT
1 TTAAAAAATTAT
94863160 T
1 T
94863161 ATATTTTTAT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TTAAAAAATTAT
Found at i:94864186 original size:20 final size:20
Alignment explanation
Indices: 94864133--94864193 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
94864123 TCTCTCAATA
*
94864133 AAAAT-TTTA-AAAAAATTC
1 AAAATATTTATAAAAATTTC
* *
94864151 AAAATAATTT-TTAAAATTTT
1 AAAAT-ATTTATAAAAATTTC
*
94864171 AAAATATTTATAAAAATTCC
1 AAAATATTTATAAAAATTTC
94864191 AAA
1 AAA
94864194 TTTTATCTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
18 5 0.15
19 4 0.12
20 24 0.73
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAATATTTATAAAAATTTC
Found at i:94864194 original size:19 final size:18
Alignment explanation
Indices: 94864133--94864199 Score: 62
Period size: 19 Copynumber: 3.6 Consensus size: 18
94864123 TCTCTCAATA
*
94864133 AAAATTTTAAAAAAATTC
1 AAAATTTTATAAAAATTC
* * *
94864151 AAAATAATTTTTAAAATTTT
1 AAAAT--TTTATAAAAATTC
94864171 AAAATATTTATAAAAATTC
1 AAAAT-TTTATAAAAATTC
*
94864190 CAAATTTTAT
1 AAAATTTTAT
94864200 CTTTTTTAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
18 10 0.26
19 15 0.38
20 14 0.36
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (18 bp):
AAAATTTTATAAAAATTC
Found at i:94864243 original size:17 final size:18
Alignment explanation
Indices: 94864208--94864245 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
94864198 ATCTTTTTTA
94864208 AAAAATTATAAACATTAT
1 AAAAATTATAAACATTAT
94864226 AAAAATTA-AAA-ATATAT
1 AAAAATTATAAACAT-TAT
94864243 AAA
1 AAA
94864246 GAAAGTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 2 0.11
17 9 0.47
18 8 0.42
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAAATTATAAACATTAT
Found at i:94865609 original size:26 final size:25
Alignment explanation
Indices: 94865542--94865610 Score: 63
Period size: 26 Copynumber: 2.8 Consensus size: 25
94865532 TTTTAATATT
* * *
94865542 AATATAATTTTAAATATTATTTAAAAT
1 AATATAATTTT-AAT-TTAATCAAAAG
94865569 AATAT-ATTTT-A-TTAATCAATAAG
1 AATATAATTTTAATTTAATCAA-AAG
94865592 AATATAATTTTAATTTAAT
1 AATATAATTTTAATTTAAT
94865611 TTCTTAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
22 6 0.17
23 7 0.20
24 6 0.17
25 1 0.03
26 10 0.29
27 5 0.14
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (25 bp):
AATATAATTTTAATTTAATCAAAAG
Found at i:94865649 original size:25 final size:25
Alignment explanation
Indices: 94865592--94865649 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
94865582 AATCAATAAG
94865592 AATATAA-TTTTAATTTAATTTCTT
1 AATATAATTTTTAATTTAATTTCTT
94865616 AA-ATAAATTTTTAATTTTTAA-TT-TT
1 AATAT-AATTTTTAA--TTTAATTTCTT
94865641 AATATAATT
1 AATATAATT
94865650 ATTATTAATC
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
23 2 0.07
24 4 0.14
25 14 0.48
26 4 0.14
27 5 0.17
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (25 bp):
AATATAATTTTTAATTTAATTTCTT
Found at i:94866397 original size:19 final size:19
Alignment explanation
Indices: 94866375--94866423 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
94866365 AGTAATTACC
**
94866375 AAATAAAAATATTTTAAAA
1 AAATAAAAATATTGGAAAA
* *
94866394 AAATTAACATATTGGAAAA
1 AAATAAAAATATTGGAAAA
*
94866413 TAATAAAAATA
1 AAATAAAAATA
94866424 GATAAGCGAA
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (19 bp):
AAATAAAAATATTGGAAAA
Found at i:94871272 original size:21 final size:22
Alignment explanation
Indices: 94871221--94871275 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
94871211 TTTTAGTCGA
*
94871221 ATAGAATATATTATTATAAATT
1 ATAGAATATATGATTATAAATT
***
94871243 -TATTTTATATGA-TATAAATT
1 ATAGAATATATGATTATAAATT
94871263 ATAGAATATATGA
1 ATAGAATATATGA
94871276 AATTAGTGGA
Statistics
Matches: 25, Mismatches: 7, Indels: 3
0.71 0.20 0.09
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (22 bp):
ATAGAATATATGATTATAAATT
Found at i:94874486 original size:30 final size:30
Alignment explanation
Indices: 94874440--94874533 Score: 143
Period size: 30 Copynumber: 3.1 Consensus size: 30
94874430 TTTTATTATG
* *
94874440 CCAATATCTCGATACCCATATATTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
94874471 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
94874501 CCATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
94874531 CCA
1 CCA
94874534 TAAATATGGA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 52 0.88
31 7 0.12
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:94874525 original size:15 final size:15
Alignment explanation
Indices: 94874450--94874527 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
94874440 CCAATATCTC
94874450 GATACCCATATATTT
1 GATACCCATATATTT
**
94874465 GACTTTCCA-ATATTT
1 GA-TACCCATATATTT
*
94874480 GATACCCATATCTTT
1 GATACCCATATATTT
**
94874495 GACTTTCCAT-TATTT
1 GA-TACCCATATATTT
*
94874510 GATACCCATATCTTT
1 GATACCCATATATTT
94874525 GAT
1 GAT
94874528 TTTCCATAAA
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
14 9 0.19
15 30 0.62
16 9 0.19
ACGTcount: A:0.27, C:0.22, G:0.08, T:0.44
Consensus pattern (15 bp):
GATACCCATATATTT
Found at i:94878589 original size:17 final size:17
Alignment explanation
Indices: 94878567--94878614 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
94878557 GGTCCGCTCA
*
94878567 TATTTTATTTTTAATAT
1 TATTTTATTTTTAAAAT
94878584 TATTTT-TTATTTAAAAT
1 TATTTTATT-TTTAAAAT
94878601 TA--TTATTTTTAAAA
1 TATTTTATTTTTAAAA
94878615 ATATAATACA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
15 9 0.32
16 4 0.14
17 15 0.54
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTTTATTTTTAAAAT
Found at i:94882993 original size:19 final size:19
Alignment explanation
Indices: 94882969--94883015 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
94882959 AACTTTACAT
94882969 CAACTTATATCCAAGTATA
1 CAACTTATATCCAAGTATA
94882988 CAACTTATATCCAAGTATA
1 CAACTTATATCCAAGTATA
94883007 CAACTTATA
1 CAACTTATA
94883016 ATATTTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.43, C:0.21, G:0.04, T:0.32
Consensus pattern (19 bp):
CAACTTATATCCAAGTATA
Found at i:94883455 original size:25 final size:26
Alignment explanation
Indices: 94883401--94883455 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
94883391 TGATACAAAT
94883401 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
94883427 TGATAATGGGTTAGGTAAA-GTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
94883452 TGAT
1 TGAT
94883456 GGGAATTTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 10 0.34
26 19 0.66
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:94884870 original size:12 final size:12
Alignment explanation
Indices: 94884853--94884885 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
94884843 TCTTGCATAT
94884853 ATGATTAATAAC
1 ATGATTAATAAC
94884865 ATGATTAATAAC
1 ATGATTAATAAC
94884877 ATGATTAAT
1 ATGATTAAT
94884886 GGTTCTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.36
Consensus pattern (12 bp):
ATGATTAATAAC
Found at i:94885536 original size:16 final size:16
Alignment explanation
Indices: 94885510--94885542 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
94885500 TTTCAGGACT
94885510 TTTTTTATAATATTTTA
1 TTTTTTATAAT-TTTTA
94885527 TTTTTT-TAATTTTTA
1 TTTTTTATAATTTTTA
94885542 T
1 T
94885543 GACCTTTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 4 0.25
17 6 0.38
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTATAATTTTTA
Found at i:94892136 original size:14 final size:14
Alignment explanation
Indices: 94892097--94892139 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
94892087 TTTTTTTAAA
* *
94892097 TTAAAATTTAATTC
1 TTAAAATTTTATTT
* *
94892111 TTATATTTTTATTT
1 TTAAAATTTTATTT
94892125 TTAAAATTTTATTT
1 TTAAAATTTTATTT
94892139 T
1 T
94892140 ATATATTATT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (14 bp):
TTAAAATTTTATTT
Found at i:94902438 original size:20 final size:21
Alignment explanation
Indices: 94902409--94902449 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
94902399 TAATTAGTAC
94902409 TCTAAGTGGTT-ATATGATTT
1 TCTAAGTGGTTAATATGATTT
*
94902429 TCTAATTGGTTAATATGATTT
1 TCTAAGTGGTTAATATGATTT
94902450 GATAATGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.27, C:0.05, G:0.17, T:0.51
Consensus pattern (21 bp):
TCTAAGTGGTTAATATGATTT
Found at i:94902455 original size:21 final size:20
Alignment explanation
Indices: 94902415--94902455 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
94902405 GTACTCTAAG
**
94902415 TGGTTATATGATTTTCTAAT
1 TGGTTATATGATTTGATAAT
94902435 TGGTTAATATGATTTGATAAT
1 TGGTT-ATATGATTTGATAAT
94902456 GTATGATGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.29, C:0.02, G:0.17, T:0.51
Consensus pattern (20 bp):
TGGTTATATGATTTGATAAT
Found at i:94910254 original size:12 final size:12
Alignment explanation
Indices: 94910237--94910263 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
94910227 TTGAGTGGAA
94910237 AGTTTGCTGAGG
1 AGTTTGCTGAGG
94910249 AGTTTGCTGAGG
1 AGTTTGCTGAGG
94910261 AGT
1 AGT
94910264 CTGTTAGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.19, C:0.07, G:0.41, T:0.33
Consensus pattern (12 bp):
AGTTTGCTGAGG
Found at i:94916593 original size:4 final size:4
Alignment explanation
Indices: 94916584--94916620 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
94916574 TCAGGTAAAT
94916584 TACA TACA TACA TACA TACA TACA TACA TACA TACA T
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA T
94916621 TACCACTACG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:94925229 original size:20 final size:21
Alignment explanation
Indices: 94925201--94925251 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
94925191 ATTCACCTTG
*
94925201 ATTTTATTTAATTTTAAT-AA
1 ATTTGATTTAATTTTAATCAA
* *
94925221 ATTTGATTTGATTTTATTCAA
1 ATTTGATTTAATTTTAATCAA
94925242 A-TTGATTTAA
1 ATTTGATTTAA
94925252 ATGTTCCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (21 bp):
ATTTGATTTAATTTTAATCAA
Found at i:94925610 original size:23 final size:22
Alignment explanation
Indices: 94925582--94925624 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
94925572 GATATTTTAA
*
94925582 ATATAAATATTTATTTTATTTTT
1 ATATAAATATTT-GTTTATTTTT
94925605 ATATAAATATTTGTTTATTT
1 ATATAAATATTTGTTTATTT
94925625 ATATTTATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
ATATAAATATTTGTTTATTTTT
Found at i:94925903 original size:84 final size:85
Alignment explanation
Indices: 94925764--94925936 Score: 249
Period size: 84 Copynumber: 2.0 Consensus size: 85
94925754 GAGAGTAAAA
* * * * *
94925764 AATTAAAATTGAATAAAATCTGTTTTGGAATTTATTCTTGCCGTTTAACAGATTTTGTTCCATTT
1 AATTAAAATTGAATAAAATCTATTTCGGAACTTATTCTCGCCGTTTAACAGATTTTATTCCATTT
*
94925829 TAATTTTGTTTCCAAACTAG
66 TAATTTTGTTTCCAAACGAG
* * *
94925849 AATTAAAATTGAAT-AATTCTATTTCGGAACTTATTCTCGCCTTTTAACATATTTTATTCCATTT
1 AATTAAAATTGAATAAAATCTATTTCGGAACTTATTCTCGCCGTTTAACAGATTTTATTCCATTT
*
94925913 TGATTTTGTTTCCAAACGAG
66 TAATTTTGTTTCCAAACGAG
94925933 AATT
1 AATT
94925937 TTTACTATTT
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
84 64 0.82
85 14 0.18
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (85 bp):
AATTAAAATTGAATAAAATCTATTTCGGAACTTATTCTCGCCGTTTAACAGATTTTATTCCATTT
TAATTTTGTTTCCAAACGAG
Found at i:94935162 original size:23 final size:25
Alignment explanation
Indices: 94935128--94935181 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
94935118 CAATATAATC
94935128 ATTATTTAATTT-T-AGTAAAAATA
1 ATTATTTAATTTATCAGTAAAAATA
*
94935151 ATTAGTTT-ATTTATGCATTAAAAATA
1 ATTA-TTTAATTTAT-CAGTAAAAATA
94935177 ATTAT
1 ATTAT
94935182 ACTCTATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 8 0.31
24 4 0.15
25 1 0.04
26 13 0.50
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (25 bp):
ATTATTTAATTTATCAGTAAAAATA
Found at i:94935382 original size:20 final size:20
Alignment explanation
Indices: 94935357--94935396 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
94935347 GCCTTCGTTT
94935357 ATTTTTTGTAAAAGCAAATG
1 ATTTTTTGTAAAAGCAAATG
* *
94935377 ATTTTTTGTGAAAGTAAATG
1 ATTTTTTGTAAAAGCAAATG
94935397 TCTTTCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.17, T:0.42
Consensus pattern (20 bp):
ATTTTTTGTAAAAGCAAATG
Found at i:94936951 original size:3 final size:3
Alignment explanation
Indices: 94936943--94937002 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
94936933 TGCATTTACT
94936943 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
94936991 TCA TCA TCA TCA
1 TCA TCA TCA TCA
94937003 ACTTCCTCAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:94940700 original size:29 final size:29
Alignment explanation
Indices: 94940668--94940728 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
94940658 AACAAGAGTA
94940668 AAAACAAAGATAATTTCAAAATAAATTTT
1 AAAACAAAGATAATTTCAAAATAAATTTT
*
94940697 AAAACAAAGATAATTTCAAGATAAATTTT
1 AAAACAAAGATAATTTCAAAATAAATTTT
94940726 AAA
1 AAA
94940729 GAAGACTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.30
Consensus pattern (29 bp):
AAAACAAAGATAATTTCAAAATAAATTTT
Found at i:94946273 original size:27 final size:27
Alignment explanation
Indices: 94946235--94946297 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
94946225 ATACATACAT
* *
94946235 GTTGCGCCTATCTAACAAGCTCAACTA
1 GTTGAGCCTATCTAACAAGCACAACTA
* * *
94946262 GTTGAGCCTATCTGACAGGCACGACTA
1 GTTGAGCCTATCTAACAAGCACAACTA
*
94946289 GTTGTGCCT
1 GTTGAGCCT
94946298 TCTTGGTAGG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (27 bp):
GTTGAGCCTATCTAACAAGCACAACTA
Found at i:94949788 original size:14 final size:15
Alignment explanation
Indices: 94949761--94949789 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
94949751 AATTTTATGA
94949761 ATTTCATGATGTGTT
1 ATTTCATGATGTGTT
94949776 ATTTCAT-ATGTGTT
1 ATTTCATGATGTGTT
94949790 GATGATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.21, C:0.07, G:0.17, T:0.55
Consensus pattern (15 bp):
ATTTCATGATGTGTT
Found at i:94949982 original size:50 final size:51
Alignment explanation
Indices: 94949905--94950033 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
94949895 GACCATGGCA
94949905 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
94949956 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
94950006 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
94950034 CTGATCAGTG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:94950047 original size:31 final size:31
Alignment explanation
Indices: 94950009--94950157 Score: 228
Period size: 31 Copynumber: 4.8 Consensus size: 31
94949999 ACAAATGACA
*
94950009 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
94950040 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
94950071 AGTGAAAAGTGGTAG-TTCCGGCTACCTGATT
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
* *
94950102 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
94950133 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
94950158 AAGTGACAAG
Statistics
Matches: 107, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
30 2 0.02
31 104 0.97
32 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:94950252 original size:47 final size:46
Alignment explanation
Indices: 94950182--94950346 Score: 169
Period size: 47 Copynumber: 3.7 Consensus size: 46
94950172 AAGTGATTTC
* *
94950182 CGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
94950228 CTGTATAAGACCATATCTGGGATATGGCATCAGTGAGATATGTGATT
1 C-GTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
94950275 CGTGTAAGACCATAGCTGGGCTATGGCATC-----GATATATGAATA
1 CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATG-ATA
* * * *
94950317 TGTGTAAGACCATAGCTGGGCTATGGCATC
1 CGTATAAGACCATATCTGGGATATGGCATC
94950347 ATTATGTGAA
Statistics
Matches: 106, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
41 7 0.07
42 31 0.29
46 27 0.25
47 41 0.39
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (46 bp):
CGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:94950334 original size:42 final size:43
Alignment explanation
Indices: 94950276--94950390 Score: 171
Period size: 42 Copynumber: 2.7 Consensus size: 43
94950266 TATGTGATTC
*
94950276 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
94950318 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
94950360 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
94950391 GAAAACGAAG
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 64 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:94952569 original size:22 final size:22
Alignment explanation
Indices: 94952535--94952598 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
94952525 TCAACATTTT
*
94952535 AATAAATCA-ATAAAAATTATCA
1 AATAAAT-ATATAAAAATTATAA
*
94952557 AATAAATATATAATAA-TATAA
1 AATAAATATATAAAAATTATAA
*
94952578 AATTACATTATATAAAAATTA
1 AA-TA-AATATATAAAAATTA
94952599 CATTAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 7 0.21
22 15 0.44
23 10 0.29
24 2 0.06
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
AATAAATATATAAAAATTATAA
Found at i:94952592 original size:15 final size:16
Alignment explanation
Indices: 94952572--94952603 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
94952562 ATATATAATA
94952572 ATAT-AAAATTACATT
1 ATATAAAAATTACATT
94952587 ATATAAAAATTACATT
1 ATATAAAAATTACATT
94952603 A
1 A
94952604 AAAAATCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATAAAAATTACATT
Found at i:94952865 original size:113 final size:114
Alignment explanation
Indices: 94952652--94953102 Score: 714
Period size: 114 Copynumber: 3.9 Consensus size: 114
94952642 TATAATCATA
* * *
94952652 TACTAATACAAATTAACTATAAAATTATTTTTTT-AAATACATTACTAAAAAAAATCACAATACA
1 TACTAATA-AAA-TAGCTATAAAAATATTTTTTTAAAATATATTACT-AAAAAAATCACAATACA
94952716 CTAATACACACTAAACCACTAAACACTAACAA--TATATAACCTAATCTTAAAT
63 CTAAT--ACACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAAT
94952768 TACTAATAAAATAGCTATAAAAATATGTTTTTT-AAATATATTACT-AAAAAATCACAATACACT
1 TACTAATAAAATAGCTATAAAAATAT-TTTTTTAAAATATATTACTAAAAAAATCACAATACACT
*
94952831 AATACACTAAACCACTAAACACTAACAATTTATATAACCTAACCTTAAAT
65 AATACACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAAT
* *
94952881 TACTAATAAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAATTACAATACACAA
1 TACTAATAAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAATCACAATACACTA
*
94952946 ATACACTAAACCACTAAACACTAACAATTTATGTAACCTAATCTTAAAT
66 ATACACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAAT
* * *
94952995 TACTAATAAAATTGCTACAAAATTATTTTTTTAAAATATATTACTAAAAAAATCACAATACACTA
1 TACTAATAAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAATCACAATACACTA
*
94953060 ATACACTAAACTACTAAACACTAACAATTTATATAACCTAATC
66 ATACACTAAACCACTAAACACTAACAATTTATATAACCTAATC
94953103 AACTATAAAA
Statistics
Matches: 315, Mismatches: 15, Indels: 12
0.92 0.04 0.04
Matches are distributed among these distances:
111 25 0.08
112 6 0.02
113 78 0.25
114 178 0.57
115 20 0.06
116 8 0.03
ACGTcount: A:0.51, C:0.17, G:0.01, T:0.31
Consensus pattern (114 bp):
TACTAATAAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAATCACAATACACTA
ATACACTAAACCACTAAACACTAACAATTTATATAACCTAATCTTAAAT
Found at i:94952941 original size:227 final size:229
Alignment explanation
Indices: 94952652--94953100 Score: 721
Period size: 227 Copynumber: 2.0 Consensus size: 229
94952642 TATAATCATA
*
94952652 TACTAATACAAATTAACTATAAAATTATTTTTTTAAATACATTACTAAAAAAAATCACAATACAC
1 TACTAATACAAATTAACTATAAAAATATTTTTTTAAATACATTACTAAAAAAAATCACAATACAC
94952717 TAATACACACTAAACCACTAAACACTAACAA-TATATAACCTAATCTTAAATTACTAATAAAATA
66 -AA-ACACACTAAACCACTAAACACTAACAATTATATAACCTAATCTTAAATTACTAATAAAATA
*
94952781 GCTATAAAAATATGTTTTTT-AAATATATTACT-AAAAAATCACAATACACTAATACACTAAACC
129 GCTACAAAAATAT-TTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACC
94952844 ACTAAACACTAACAATTTATATAACCTAACCTTAAAT
193 ACTAAACACTAACAATTTATATAACCTAACCTTAAAT
* * *
94952881 TACTAATA-AAA-TAGCTATAAAAATATTTTTTTAAAATATATTACT-AAAAAAATTACAATACA
1 TACTAATACAAATTAACTATAAAAATATTTTTTT-AAATACATTACTAAAAAAAATCACAATACA
* * *
94952943 CAAATACACTAAACCACTAAACACTAACAATTTATGTAACCTAATCTTAAATTACTAATAAAATT
65 CAAACACACTAAACCACTAAACACTAACAA-TTATATAACCTAATCTTAAATTACTAATAAAATA
* *
94953008 GCTACAAAATTATTTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACTA
129 GCTACAAAAATATTTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACCA
94953073 CTAAACACTAACAATTTATATAACCTAA
194 CTAAACACTAACAATTTATATAACCTAA
94953101 TCAACTATAA
Statistics
Matches: 205, Mismatches: 10, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
225 26 0.13
226 8 0.04
227 90 0.44
228 73 0.36
229 8 0.04
ACGTcount: A:0.51, C:0.16, G:0.01, T:0.31
Consensus pattern (229 bp):
TACTAATACAAATTAACTATAAAAATATTTTTTTAAATACATTACTAAAAAAAATCACAATACAC
AAACACACTAAACCACTAAACACTAACAATTATATAACCTAATCTTAAATTACTAATAAAATAGC
TACAAAAATATTTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATACACTAAACCACT
AAACACTAACAATTTATATAACCTAACCTTAAAT
Found at i:94952987 original size:100 final size:99
Alignment explanation
Indices: 94952883--94953175 Score: 288
Period size: 114 Copynumber: 2.8 Consensus size: 99
94952873 CCTTAAATTA
* *
94952883 CTAATAAAATAGCTATAAAAATATTTTTTTAAAATATATTACTAAAAAAATTACAATACACAAAT
1 CTAATAAAATA-CTATAAAAATATTTTTTTAAAATATATTACTAAAAAAATCACAATACACTAAT
*
94952948 ACACTAAACCACTAAACACTAACAATTTATGTAAC
65 ACACTAAACCACTAAACACTAACAATTTATATAAC
* * *
94952983 CTAATCTTAAATTACTAATAAAATTGCTACAAAATTATTTTTTTAAAATATATTACTAAAAAAAT
1 CTAA---TAAAATACT-AT--AA-----A-AATA-T-TTTTTTAAAA-TATATTACTAAAAAAAT
*
94953048 CACAATACACTAATACACTAAACTACTAAACACTAACAATTTATATAAC
51 CACAATACACTAATACACTAAACCACTAAACACTAACAATTTATATAAC
* * *
94953097 CTAAT--CA-ACTATAAAATTATTTTTTTTTAAATCTATTATTACTAAAAAAATCACAATACACT
1 CTAATAAAATACTATAAAA--ATATTTTTTTAAA-ATA-TATTACTAAAAAAATCACAATACACT
94953159 AATACACTAAA-CACTAA
62 AATACACTAAACCACTAA
94953176 CAATTTGTAA
Statistics
Matches: 160, Mismatches: 14, Indels: 39
0.75 0.07 0.18
Matches are distributed among these distances:
99 16 0.10
100 43 0.27
101 1 0.01
102 2 0.01
103 8 0.05
105 4 0.03
107 2 0.01
108 3 0.02
110 1 0.01
111 4 0.03
112 1 0.01
113 9 0.06
114 66 0.41
ACGTcount: A:0.51, C:0.16, G:0.01, T:0.33
Consensus pattern (99 bp):
CTAATAAAATACTATAAAAATATTTTTTTAAAATATATTACTAAAAAAATCACAATACACTAATA
CACTAAACCACTAAACACTAACAATTTATATAAC
Found at i:94960130 original size:57 final size:57
Alignment explanation
Indices: 94960067--94960181 Score: 203
Period size: 57 Copynumber: 2.0 Consensus size: 57
94960057 TGTAAATATG
*
94960067 AAAAAGTTAAAGGACCAATAGTATAAATATTTTAAGAGTGGAATGATCTAGAAACTA
1 AAAAAGTTAAAGGACCAATAGTATAAATATTTTAAGAGTGGAATGAGCTAGAAACTA
* *
94960124 AAAAAGTTGAAGGACCAATAGTGTAAATATTTTAAGAGTGGAATGAGCTAGAAACTA
1 AAAAAGTTAAAGGACCAATAGTATAAATATTTTAAGAGTGGAATGAGCTAGAAACTA
94960181 A
1 A
94960182 GGAAAATGGA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.48, C:0.07, G:0.20, T:0.25
Consensus pattern (57 bp):
AAAAAGTTAAAGGACCAATAGTATAAATATTTTAAGAGTGGAATGAGCTAGAAACTA
Found at i:94960391 original size:20 final size:21
Alignment explanation
Indices: 94960357--94960410 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
94960347 TGATGATATT
*
94960357 TTATGATTA-TTTAATTAGATA
1 TTAT-ATTATTTTAATGAGATA
94960378 -TATATTATTTTAATGAGATA
1 TTATATTATTTTAATGAGATA
*
94960398 TTTTATTATTTTA
1 TTATATTATTTTA
94960411 TTATTATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 4 0.14
20 14 0.48
21 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (21 bp):
TTATATTATTTTAATGAGATA
Found at i:94963444 original size:13 final size:13
Alignment explanation
Indices: 94963426--94963456 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
94963416 CTTAAACTCG
94963426 TATATTTTATACA
1 TATATTTTATACA
*
94963439 TATATTTTATATA
1 TATATTTTATACA
94963452 TATAT
1 TATAT
94963457 ATACACAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (13 bp):
TATATTTTATACA
Found at i:94964842 original size:130 final size:132
Alignment explanation
Indices: 94964625--94964880 Score: 322
Period size: 130 Copynumber: 2.0 Consensus size: 132
94964615 AGATGAGATT
* * * *
94964625 TGATGTTTGGCAATTCGCGGAATTGTGCACTAACGTGTTGGGTTGCAATTTCGCATTTGTTCAAA
1 TGATATTTGGCAATTCGCGGAATCGTGCACTAACGTGTTGGGTAGCAATTTCCCATTTGTTCAAA
* * * ** *
94964690 ATAATCGAATATCATTTTAAAATTTTGCTCGTG-TCTT-TTAAAAT-CTCTAAAACGAAGGCGAT
66 ATAATCAAATATCACTTCAAAATTTCACTCG-GCTCTTCTAAAAATCCTCTAAAACGAAGGCGAT
94964752 ATG
130 ATG
** * *
94964755 TGATATTTGGCAATTCGCGGGCTCGTGCCCTAACGTGTTGGGTAGCAATTTCCCGA-TTGTTTAA
1 TGATATTTGGCAATTCGCGGAATCGTGCACTAACGTGTTGGGTAGCAATTTCCC-ATTTGTTCAA
* *
94964819 AATAATCAAATATCCCTTCAAAATTTCACTCGGCTCTTCTAAAAATCCTTTAAAACGAAGGC
65 AATAATCAAATATCACTTCAAAATTTCACTCGGCTCTTCTAAAAATCCTCTAAAACGAAGGC
94964881 AATACTCGGT
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
129 1 0.01
130 84 0.79
131 7 0.07
132 14 0.13
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (132 bp):
TGATATTTGGCAATTCGCGGAATCGTGCACTAACGTGTTGGGTAGCAATTTCCCATTTGTTCAAA
ATAATCAAATATCACTTCAAAATTTCACTCGGCTCTTCTAAAAATCCTCTAAAACGAAGGCGATA
TG
Found at i:94966177 original size:21 final size:21
Alignment explanation
Indices: 94966153--94966199 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
94966143 CTCTCTGATA
*
94966153 TGAAATGTGTAAGACCATGGT
1 TGAAATGTGTAAGACCATCGT
94966174 TGAAATGTGTAAGACCATCGT
1 TGAAATGTGTAAGACCATCGT
94966195 TGAAA
1 TGAAA
94966200 GATACCATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.36, C:0.11, G:0.26, T:0.28
Consensus pattern (21 bp):
TGAAATGTGTAAGACCATCGT
Found at i:94966227 original size:46 final size:46
Alignment explanation
Indices: 94966174--94966354 Score: 222
Period size: 46 Copynumber: 3.9 Consensus size: 46
94966164 AGACCATGGT
* * *
94966174 TGAAATGTGTAAGACCATCGTTGAAAGATACCATGGCAACCTGATA
1 TGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA
* *
94966220 TGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGATA
1 TGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA
* ** *
94966266 TTAAATGAACAAGACCATGGTTGAAAGATACCATGGC-ACTATGACA
1 TGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC-ATGATA
* * *
94966312 -GAAAATGAGTAAGACCATAGTTGAAAGATACTATGGCATCATG
1 TG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
94966355 TCAAAGATAA
Statistics
Matches: 118, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
45 2 0.02
46 115 0.97
47 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (46 bp):
TGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATA
Found at i:94969436 original size:46 final size:46
Alignment explanation
Indices: 94969379--94969545 Score: 156
Period size: 46 Copynumber: 3.5 Consensus size: 46
94969369 ACACACCGTA
94969379 GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
1 GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
* ** * * *
94969425 GCCATATCCCAGATATGGTCTTATACGGAAGCACGTAATCACATATCTCTGAT
1 GCCATAGCCCAGCCATGGTCTTACAC-GAATCACAT-ATCAC--A---CTGAT
* *
94969478 GCCATAGCCCAGCTATGGTCTTACAC-AGATCACATATCACATTGAT
1 GCCATAGCCCAGCCATGGTCTTACACGA-ATCACATATCACACTGAT
* * *
94969524 GCCATGGTCCAACCATGGTCTT
1 GCCATAGCCCAGCCATGGTCTT
94969546 TTCCGTCAAT
Statistics
Matches: 97, Mismatches: 16, Indels: 16
0.75 0.12 0.12
Matches are distributed among these distances:
46 44 0.45
47 7 0.07
48 5 0.05
49 1 0.01
50 1 0.01
51 6 0.06
52 5 0.05
53 28 0.29
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (46 bp):
GCCATAGCCCAGCCATGGTCTTACACGAATCACATATCACACTGAT
Found at i:94970711 original size:23 final size:22
Alignment explanation
Indices: 94970609--94970715 Score: 132
Period size: 21 Copynumber: 5.0 Consensus size: 22
94970599 CCTGATCAGT
*
94970609 ATACGACACATAA-GTGCCTGA
1 ATACGACACACAAGGTGCCTGA
*
94970630 A-ACGACACACGAGGTGCCTGA
1 ATACGACACACAAGGTGCCTGA
*
94970651 A-ACGACACACGAGGTGCCTG-
1 ATACGACACACAAGGTGCCTGA
94970671 ATACGACACACAAGGTGCCTGAA
1 ATACGACACACAAGGTGCCTG-A
* *
94970694 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAGGTGCCTGA
94970716 TCAGTATAGC
Statistics
Matches: 77, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
20 10 0.13
21 47 0.61
22 1 0.01
23 19 0.25
ACGTcount: A:0.36, C:0.26, G:0.23, T:0.14
Consensus pattern (22 bp):
ATACGACACACAAGGTGCCTGA
Found at i:94970932 original size:23 final size:24
Alignment explanation
Indices: 94970906--94971000 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 24
94970896 AAATGTCCAA
94970906 CCAAAACACACCAG-TATAATCCT
1 CCAAAACACACCAGATATAATCCT
94970929 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----ATATAATCCT
*
94970957 CCCAAACACACCAGAATAATATAATCCAT
1 CCAAAACACACCAG----ATATAATCC-T
94970986 CCAAAACACACCAGA
1 CCAAAACACACCAGA
94971001 ATAGCACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
23 14 0.23
25 1 0.02
28 33 0.53
29 14 0.23
ACGTcount: A:0.46, C:0.34, G:0.04, T:0.16
Consensus pattern (24 bp):
CCAAAACACACCAGATATAATCCT
Found at i:94971002 original size:29 final size:28
Alignment explanation
Indices: 94970920--94971003 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
94970910 AACACACCAG
* *
94970920 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
94970948 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
94970976 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
94971004 GCACAAAGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:94984688 original size:23 final size:23
Alignment explanation
Indices: 94984657--94984706 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
94984647 TTATCAATTT
*
94984657 AATATCAATTTAAAAAATTCAAAA
1 AATATCAATTTAAAAAA-TAAAAA
*
94984681 AATA-CAATTTTAAAAATAAAAA
1 AATATCAATTTAAAAAATAAAAA
94984703 AATA
1 AATA
94984707 AAAAAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 9 0.38
23 11 0.46
24 4 0.17
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (23 bp):
AATATCAATTTAAAAAATAAAAA
Found at i:94991440 original size:21 final size:21
Alignment explanation
Indices: 94991416--94991457 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
94991406 GTGAAGAAAA
*
94991416 GATTCTGACCTGAAAATAAGG
1 GATTCTGACCTCAAAATAAGG
94991437 GATTCTGACCTCAAAATAAGG
1 GATTCTGACCTCAAAATAAGG
94991458 ACAGCAATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (21 bp):
GATTCTGACCTCAAAATAAGG
Found at i:94991693 original size:27 final size:27
Alignment explanation
Indices: 94991655--94991706 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
94991645 CAAAAAAAAA
*
94991655 GGTGATGTGGGTGCCAGAGGCGGCACC
1 GGTGATGTGGGTGCCAAAGGCGGCACC
* *
94991682 GGTGGTGTGGGTTCCAAAGGCGGCA
1 GGTGATGTGGGTGCCAAAGGCGGCA
94991707 TCTAAGCAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.15, C:0.19, G:0.48, T:0.17
Consensus pattern (27 bp):
GGTGATGTGGGTGCCAAAGGCGGCACC
Found at i:94991815 original size:15 final size:15
Alignment explanation
Indices: 94991764--94991823 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 15
94991754 AAGCAGCAGC
94991764 AAGGAGAAGAAAATA-
1 AAGGAGAAGAAAA-AG
*
94991779 AAGG-GAAAGAAAGGAG
1 AAGGAG-AAGAAA-AAG
94991795 AA-GAGAAGAAAAAG
1 AAGGAGAAGAAAAAG
94991809 AAGGAGAAGGAAAAA
1 AAGGAGAA-GAAAAA
94991824 AAAAGAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
14 5 0.14
15 23 0.62
16 9 0.24
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (15 bp):
AAGGAGAAGAAAAAG
Found at i:94991830 original size:20 final size:20
Alignment explanation
Indices: 94991784--94991826 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
94991774 AAATAAAGGG
*
94991784 AAAGAAAGGAGAAGAGAAGAA
1 AAAG-AAGGAGAAGAGAAAAA
94991805 AAAGAAGGAGAAG-GAAAAA
1 AAAGAAGGAGAAGAGAAAAA
94991824 AAA
1 AAA
94991827 AGAAAAAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 9 0.43
21 4 0.19
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (20 bp):
AAAGAAGGAGAAGAGAAAAA
Found at i:94992125 original size:26 final size:24
Alignment explanation
Indices: 94992095--94992144 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
94992085 AAATAAAAAA
*
94992095 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
94992121 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
94992145 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:94992164 original size:21 final size:21
Alignment explanation
Indices: 94992115--94992173 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
94992105 ATAATAAATC
*
94992115 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
94992135 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
94992157 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
94992174 TTTTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:94993221 original size:44 final size:44
Alignment explanation
Indices: 94993173--94993262 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
94993163 AAATAAAAAG
*
94993173 TATAGGTTCATGAAAGTTGACTGGGAAGCAAAATGTGATTGACA
1 TATAGGTTCACGAAAGTTGACTGGGAAGCAAAATGTGATTGACA
*
94993217 TATAGGTTCACGAAAGTTGACTGTGAAGCAAAATGTGATTGACA
1 TATAGGTTCACGAAAGTTGACTGGGAAGCAAAATGTGATTGACA
94993261 TA
1 TA
94993263 CCAGGGATGG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.37, C:0.10, G:0.26, T:0.28
Consensus pattern (44 bp):
TATAGGTTCACGAAAGTTGACTGGGAAGCAAAATGTGATTGACA
Found at i:94997295 original size:17 final size:17
Alignment explanation
Indices: 94997273--94997311 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
94997263 CGGTAATAGT
94997273 ATGTTCCAATTTA-ATTA
1 ATGTTCCAA-TTAGATTA
94997290 ATGTTCCAATTAGATTA
1 ATGTTCCAATTAGATTA
94997307 ATGTT
1 ATGTT
94997312 GTAATATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (17 bp):
ATGTTCCAATTAGATTA
Found at i:95000031 original size:15 final size:13
Alignment explanation
Indices: 95000005--95000029 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94999995 GATTTTTAAA
95000005 ATATATTATTTTC
1 ATATATTATTTTC
95000018 ATATATTATTTT
1 ATATATTATTTT
95000030 TTTATCTTAT
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:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
ATATATTATTTTC
Found at i:95000163 original size:23 final size:23
Alignment explanation
Indices: 95000107--95000164 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
95000097 TTTCCCTTTG
*
95000107 TTTGTATTTCTAAAATATTCATAT
1 TTTGTATTT-TAAAATATACATAT
* *
95000131 TTTATTTTTTAAAATATAC-TAT
1 TTTGTATTTTAAAATATACATAT
95000153 TTTCGTATTTTA
1 TTT-GTATTTTA
95000165 TTTTATTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
22 6 0.21
23 15 0.54
24 7 0.25
ACGTcount: A:0.31, C:0.07, G:0.03, T:0.59
Consensus pattern (23 bp):
TTTGTATTTTAAAATATACATAT
Found at i:95000166 original size:139 final size:138
Alignment explanation
Indices: 94999997--95000730 Score: 1154
Period size: 139 Copynumber: 5.3 Consensus size: 138
94999987 TCGGATTCGA
* * *
94999997 TTTTTAAAATATATTATTTTCATATATTATTTTTTTATCTTATTTTAGTACATAATGTTTCAAAT
1 TTTTTAAAATATACTATTTTCGTATTTTA-TTTTTTATCTTATTTTAGTACATAATGTTTCAAAT
* * *
95000062 GTATTATTTTAGTGTTTTTTAAATAATCTTGATTTTTTCCCTTTGTTTGTATTTCTAAAATATTC
65 GTATTATTTTAGTGTTTTTTAAATAACCCTGATTTTGTCCCTTTGTTTGTATTTCTAAAATATTC
*
95000127 ATATTTTAT
130 AGATTTTAT
* *
95000136 TTTTTAAAATATACTATTTTCGTATTTTATTTTATTTTATTATTTTAGTACATAATGTTTCAAAT
1 TTTTTAAAATATACTATTTTCGTATTTTATTTT-TTATCTTATTTTAGTACATAATGTTTCAAAT
* *
95000201 GTATTATTTTAGTGTTTTTTAAATAACCCTGATTTTGTCCCTTTATTTTTATTTCTAAAATATTC
65 GTATTATTTTAGTGTTTTTTAAATAACCCTGATTTTGTCCCTTTGTTTGTATTTCTAAAATATTC
*
95000266 GGATTTTAT
130 AGATTTTAT
* *
95000275 TTTTTAAAATATACTATTTTTGTATTTTATTTTTTATCTTATTTTAGTACATAATGATTCAAATG
1 TTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTTATTTTAGTACATAATGTTTCAAATG
95000340 TATTATTTTAGTGTTTTTTTAAATAACCCTGATTTTGTCCCTTTGTTTGTATTTCTAAAATATT-
66 TATTATTTTAGTG-TTTTTTAAATAACCCTGATTTTGTCCCTTTGTTTGTATTTCTAAAATATTC
95000404 AGTATTTTAT
130 AG-ATTTTAT
*
95000414 TTTTTAAAATATACTATTTTCGCA-TTTATTTTTTATCTTATTTTAGTACATAATGTTTCAAATG
1 TTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTTATTTTAGTACATAATGTTTCAAATG
*
95000478 TATTATTTTAGTGTTTTTTAAATAACCCTGATTTTGTCCCTTTGTTTGTATTTCTAAAATATTCG
66 TATTATTTTAGTGTTTTTTAAATAACCCTGATTTTGTCCCTTTGTTTGTATTTCTAAAATATTCA
95000543 GATTTTAT
131 GATTTTAT
* * * *
95000551 TTTTTATAATATATTATTTTCGTATTTTA-TTTTTATCTTATTTTAGTACATAATGTTTTAAATA
1 TTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTTATTTTAGTACATAATGTTTCAAATG
* * * * *
95000615 TATTATTTTAGTGTTTTTTAAATAACCCTGATTTTATCCCTTTGTTTGTATTT-TATATTTTTTA
66 TATTATTTTAGTGTTTTTTAAATAACCCTGATTTTGTCCCTTTGTTTGTATTTCTAAAATATTCA
*
95000679 GATTTTAA
131 GATTTTAT
*
95000687 TTTTTAAAATATACTATTTTCGTATTTTA-TTTTTATATTATTTT
1 TTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTTATTTT
95000731 TATACTATTT
Statistics
Matches: 552, Mismatches: 38, Indels: 13
0.92 0.06 0.02
Matches are distributed among these distances:
136 54 0.10
137 163 0.30
138 104 0.19
139 231 0.42
ACGTcount: A:0.27, C:0.08, G:0.07, T:0.58
Consensus pattern (138 bp):
TTTTTAAAATATACTATTTTCGTATTTTATTTTTTATCTTATTTTAGTACATAATGTTTCAAATG
TATTATTTTAGTGTTTTTTAAATAACCCTGATTTTGTCCCTTTGTTTGTATTTCTAAAATATTCA
GATTTTAT
Done.