Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 211 of 333
Found at i:69265359 original size:40 final size:39
Alignment explanation
Indices: 69265259--69265470 Score: 228
Period size: 40 Copynumber: 5.3 Consensus size: 39
69265249 GCTCCTCGTT
* * * * * *
69265259 CAAATGCCTTCGGGACATAGCCTGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTT-GTATCTCGCA
* ** *
69265299 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTT-GTATCTCGCA
* *
69265338 CGAATGCCTTCGGGACTTAACCCGGATTTACTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTT-GTATCTCGCA
* * *
69265378 CAAAGGCCTTCGGGGCTTAACCCGAAATTTGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCG-GATTTGTATCTCGCA
*
69265418 CAAATGCCTTCGGGGCTTAACCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTGTATCTCGCA
69265458 CAAATGCCTTCGG
1 CAAATGCCTTCGG
69265471 ATCTTAGTCC
Statistics
Matches: 152, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
39 33 0.22
40 115 0.76
41 4 0.03
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTGTATCTCGCA
Found at i:69265532 original size:41 final size:41
Alignment explanation
Indices: 69265455--69265532 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
69265445 TTTGTATCTC
* * *
69265455 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
69265496 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
69265533 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:69273305 original size:40 final size:39
Alignment explanation
Indices: 69273207--69273463 Score: 281
Period size: 39 Copynumber: 6.6 Consensus size: 39
69273197 TCCTCGTTCA
* * * * *
69273207 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
69273246 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
69273285 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
69273325 GAATGCCTTCGGGACTTAACCCGGATTT-ATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* *
69273364 AATGCCTTCGGG-CTTAACCCGGATTT-GTATCTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
* ** * ** *
69273401 AAAGCCTTC-GGATCTTAGTCCGGATAT-ATTCCTTAGCAC
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
* *
69273440 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
69273464 CAGCATTCAA
Statistics
Matches: 195, Mismatches: 18, Indels: 10
0.87 0.08 0.04
Matches are distributed among these distances:
36 2 0.01
37 31 0.16
38 25 0.13
39 69 0.35
40 68 0.35
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
Found at i:69273308 original size:79 final size:77
Alignment explanation
Indices: 69273207--69273411 Score: 288
Period size: 79 Copynumber: 2.6 Consensus size: 77
69273197 TCCTCGTTCA
* * * *
69273207 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGGACATAACCCGGATT
69273272 TAACAACTCGCAC
66 T-ACAACTCGCAC
* *
69273285 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGA
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-AATGCCTTCGGGACATAACCCGGA
*
69273350 TTTATAACTCGCAC
64 TTTACAACTCGCAC
* *
69273364 AATGCCTTCGGG-CTTAACCCGGATTT-GTATCTCGCACAAAGCCTTCGG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGG
69273412 ATCTTAGTCC
Statistics
Matches: 115, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
75 10 0.09
76 9 0.08
77 14 0.12
78 12 0.10
79 44 0.38
80 26 0.23
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (77 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGGACATAACCCGGATT
TACAACTCGCAC
Found at i:69275515 original size:50 final size:47
Alignment explanation
Indices: 69275389--69275515 Score: 150
Period size: 47 Copynumber: 2.6 Consensus size: 47
69275379 GTATAGTGTC
**
69275389 GATGCCATGTCCCAGACATGGTCTTACACTGGCTAATCCATCAAGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTAACTAATCCATCAAGTT
* * *
69275436 GATACCATGTCCCAGACATGGTCTTACACTAACT-CTCACAT-ATCCGTGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAACTAATC-CATCA--AGT--T
69275486 GATGCCATGTCCCAGACATGGTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
69275516 GACACATTTT
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
46 3 0.04
47 34 0.49
48 2 0.03
50 30 0.43
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAACTAATCCATCAAGTT
Found at i:69285999 original size:46 final size:46
Alignment explanation
Indices: 69285948--69286114 Score: 207
Period size: 46 Copynumber: 3.6 Consensus size: 46
69285938 TTAGCCGACA
69285948 CATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTGGCCGATG
* **
69285994 CATGTCCCAGACATGTCTTACACAAGCTCTTGTC-TCAA--T-GCTAATG
1 CATGTCCCAGACATGTCTTACACTAGCTC---TCAT-AATGTGGCCGATG
*
69286040 CCATGTCCCAGACATGATCTTACACTGGCTCTCATAATGTGGCCGATG
1 -CATGTCCCAGACATG-TCTTACACTAGCTCTCATAATGTGGCCGATG
*
69286088 CATGTCCTAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
69286115 ACACAAATGA
Statistics
Matches: 102, Mismatches: 9, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
45 4 0.04
46 45 0.44
47 31 0.30
48 18 0.18
49 4 0.04
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTGGCCGATG
Found at i:69286092 original size:47 final size:48
Alignment explanation
Indices: 69285751--69286111 Score: 314
Period size: 47 Copynumber: 7.8 Consensus size: 48
69285741 CACAGGGTAT
69285751 AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCA
1 AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-CATCA
*
69285800 AGT--CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCCATCA
1 AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-CATCA
*
69285847 AGT--CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATCCATCA
1 AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-CATCA
* * * * * ** **
69285894 AGT--CAATGCCATGTCCCAGAGATGGTCTTACGCTGACACATTTTTT
1 AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCA
*
69285940 A--GCCGA--CACATGTCCCAGACAT-GTCTTACACTAGCTC-TCAT-A
1 AGTGCCGATGC-CATGTCCCAGACATGGTCTTACACTGGCTCATCATCA
** *
69285982 ATGTGGCCGATG-CATGTCCCAGACAT-GTCTTACACAAGCTCTTGTC-TCA
1 A-GT-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC--ATCATCA
** *
69286031 A-TGCTAATGCCATGTCCCAGACATGATCTTACACTGGCTC-TCAT-A
1 AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCA
*
69286076 ATGTGGCCGATG-CATGTCCTAGACAT-GTCTTACACT
1 A-GT-GCCGATGCCATGTCCCAGACATGGTCTTACACT
69286112 AGCACACAAA
Statistics
Matches: 263, Mismatches: 30, Indels: 41
0.79 0.09 0.12
Matches are distributed among these distances:
42 1 0.00
43 2 0.01
44 12 0.05
45 17 0.06
46 52 0.20
47 154 0.59
48 18 0.07
49 7 0.03
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (48 bp):
AGTGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCA
Found at i:69289135 original size:48 final size:48
Alignment explanation
Indices: 69289051--69289213 Score: 179
Period size: 48 Copynumber: 3.4 Consensus size: 48
69289041 ATACTAGGGT
*
69289051 TATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGA
1 TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGA
* * * * **
69289099 TATGAGAGCTAGTGTAAGACCATTTCTTGG-ATATGGCATC-AGCCTCAA
1 TATGAGAGCCAGTGTAAGACCATGT-TTGGAACATGGCATCGA-CATTGA
* *
69289147 TATGTA-AGCCAGTGTAAGACCATGTTTGGAACATGGCAACGGCATTGA
1 TATG-AGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGA
* *
69289195 TAGGAGAGCTAGTGTAAGA
1 TATGAGAGCCAGTGTAAGA
69289214 AGAAGTTTGA
Statistics
Matches: 92, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
47 6 0.07
48 81 0.88
49 5 0.05
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (48 bp):
TATGAGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGA
Found at i:69291674 original size:18 final size:18
Alignment explanation
Indices: 69291647--69291685 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
69291637 TGCTTCTAAG
*
69291647 AAGCGCTTTTGGGACAAA
1 AAGCGCTTTTGAGACAAA
* *
69291665 AAGCGGTTTTGAGAGAAA
1 AAGCGCTTTTGAGACAAA
69291683 AAG
1 AAG
69291686 TGTTTTTCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.31, T:0.21
Consensus pattern (18 bp):
AAGCGCTTTTGAGACAAA
Found at i:69295182 original size:5 final size:5
Alignment explanation
Indices: 69295172--69295199 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
69295162 CCAAAAATAA
69295172 TATTT TATTT TATTT TATTT TATTT TAT
1 TATTT TATTT TATTT TATTT TATTT TAT
69295200 GGTTGGTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TATTT
Found at i:69295301 original size:42 final size:42
Alignment explanation
Indices: 69295239--69295324 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
69295229 AAAATTTTGG
*
69295239 TACGAAAATTTTACCGATTGTGTGTTTAATTAGGGAAAGGAC
1 TACGAAAATTTTACCAATTGTGTGTTTAATTAGGGAAAGGAC
69295281 TACGAAAATTTTACCAATTGTGTGTTTAATTAGGGAAAGGAC
1 TACGAAAATTTTACCAATTGTGTGTTTAATTAGGGAAAGGAC
69295323 TA
1 TA
69295325 AATTACATAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.34
Consensus pattern (42 bp):
TACGAAAATTTTACCAATTGTGTGTTTAATTAGGGAAAGGAC
Found at i:69304234 original size:24 final size:24
Alignment explanation
Indices: 69304207--69304252 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
69304197 AGAAGACTAT
*
69304207 ATATAAAAATATAATAAATAAACA
1 ATATAAAAATAAAATAAATAAACA
*
69304231 ATATTAAAATAAAATAAATAAA
1 ATATAAAAATAAAATAAATAAA
69304253 TAAAAATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (24 bp):
ATATAAAAATAAAATAAATAAACA
Found at i:69304240 original size:15 final size:15
Alignment explanation
Indices: 69304209--69304260 Score: 65
Period size: 15 Copynumber: 3.6 Consensus size: 15
69304199 AAGACTATAT
69304209 ATAAAAATATAATAA
1 ATAAAAATATAATAA
*
69304224 ATAAACAATATTA-AA
1 ATAAA-AATATAATAA
69304239 AT-AAAATA-AATAA
1 ATAAAAATATAATAA
69304252 ATAAAAATA
1 ATAAAAATA
69304261 CATATTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
12 1 0.03
13 8 0.25
14 8 0.25
15 9 0.28
16 6 0.19
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (15 bp):
ATAAAAATATAATAA
Found at i:69304258 original size:14 final size:14
Alignment explanation
Indices: 69304209--69304260 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
69304199 AAGACTATAT
69304209 ATAAAAATATAATAA
1 ATAAAAATA-AATAA
*
69304224 ATAAACAAT-ATTAA
1 ATAAA-AATAAATAA
69304238 A-ATAAAATAAATAA
1 ATA-AAAATAAATAA
69304252 ATAAAAATA
1 ATAAAAATA
69304261 CATATTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
13 4 0.13
14 18 0.58
15 6 0.19
16 3 0.10
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (14 bp):
ATAAAAATAAATAA
Found at i:69312702 original size:21 final size:21
Alignment explanation
Indices: 69312678--69312719 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
69312668 TTGCTTCCCA
69312678 TTTTCTTCTTTCTTTCACTTTT
1 TTTTCTT-TTTCTTTCACTTTT
*
69312700 TTTTCTTTTTCTTTCTCTTT
1 TTTTCTTTTTCTTTCACTTT
69312720 CATTTGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.76
Consensus pattern (21 bp):
TTTTCTTTTTCTTTCACTTTT
Found at i:69312730 original size:27 final size:28
Alignment explanation
Indices: 69312678--69312732 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
69312668 TTGCTTCCCA
* *
69312678 TTTTCTTCTTTCTTTCACTTTTTTTTCT
1 TTTTCTTCTCTCTTTCACTTTGTTTTCT
69312706 TTTTCTT-TCTCTTTCA-TTTGGTTTTCT
1 TTTTCTTCTCTCTTTCACTTT-GTTTTCT
69312733 ACTCAAATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 3 0.12
27 14 0.58
28 7 0.29
ACGTcount: A:0.04, C:0.20, G:0.04, T:0.73
Consensus pattern (28 bp):
TTTTCTTCTCTCTTTCACTTTGTTTTCT
Found at i:69316265 original size:50 final size:49
Alignment explanation
Indices: 69316184--69316302 Score: 123
Period size: 49 Copynumber: 2.4 Consensus size: 49
69316174 CACTGTTGAT
* * * *
69316184 GCCACACGGCCGTGTGTGACACACGGTCTAGGCTAATTTAGGCCGTATGG
1 GCCACACGGGCATGTGGGTCACACGGTCTAGGC-AATTTAGGCCGTATGG
* * * *
69316234 GCCACACGGGCATGTGGGTCACACTGG-CTAGGCATTTTGGGTCGTGTGG
1 GCCACACGGGCATGTGGGTCACAC-GGTCTAGGCAATTTAGGCCGTATGG
* *
69316283 GCCACATGGGCTTGTGGGTC
1 GCCACACGGGCATGTGGGTC
69316303 CAAAATTTAG
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
49 30 0.52
50 26 0.45
51 2 0.03
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (49 bp):
GCCACACGGGCATGTGGGTCACACGGTCTAGGCAATTTAGGCCGTATGG
Found at i:69320445 original size:43 final size:42
Alignment explanation
Indices: 69320352--69320502 Score: 140
Period size: 43 Copynumber: 3.5 Consensus size: 42
69320342 GATTTTCGAG
* * *
69320352 ATGTGATTACATGTAAGACCATGTTTGGGACATTGGTATTGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
* **
69320394 ATTGTGATTACGTGTAAGACCATGTCTAAGACATTGGCATCGTT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T
* * * * * * * *
69320438 ATATGATTTCGTATAAGATCTTATCTGGGACAATGGCATCGAT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCG-T
*
69320481 ATGTGATAACATGTAAGACCAT
1 ATGTGATTACATGTAAGACCAT
69320503 ATCCGGGATA
Statistics
Matches: 84, Mismatches: 23, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
42 1 0.01
43 81 0.96
44 2 0.02
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGT
Found at i:69336560 original size:28 final size:28
Alignment explanation
Indices: 69336519--69336644 Score: 209
Period size: 28 Copynumber: 4.5 Consensus size: 28
69336509 TAAATTGTAC
69336519 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
**
69336547 AGCACTAAACGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
69336575 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
69336603 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
69336630 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
69336645 GACTTAATAT
Statistics
Matches: 92, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
27 23 0.25
28 69 0.75
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:69336774 original size:29 final size:29
Alignment explanation
Indices: 69336723--69336788 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
69336713 GCGGAAAAGG
69336723 TAAGTGTGTGAACTTGAAATGCATGGCAC
1 TAAGTGTGTGAACTTGAAATGCATGGCAC
* *
69336752 TAAGTGTGTG-AGTTTAAAGTGCATGGCAC
1 TAAGTGTGTGAACTTGAAA-TGCATGGCAC
69336781 TAAGTGTG
1 TAAGTGTG
69336789 CGCGGTTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 6 0.18
29 28 0.82
ACGTcount: A:0.29, C:0.11, G:0.30, T:0.30
Consensus pattern (29 bp):
TAAGTGTGTGAACTTGAAATGCATGGCAC
Found at i:69338413 original size:23 final size:22
Alignment explanation
Indices: 69338370--69338427 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
69338360 AAAAGGTATC
* *
69338370 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
69338391 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
69338414 TGCATATCATATCT
1 TACAAATCATATCT
69338428 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:69338430 original size:19 final size:19
Alignment explanation
Indices: 69338406--69338511 Score: 157
Period size: 18 Copynumber: 5.8 Consensus size: 19
69338396 AATCATATCT
69338406 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
69338425 TCTAAGATTGCA-ATGATA
1 TCTAAGATTGCATATCATA
69338443 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
69338460 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
69338479 TCAAATATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
69338497 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
69338512 TGAAGATTAT
Statistics
Matches: 77, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
17 15 0.19
18 31 0.40
19 31 0.40
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:69338504 original size:37 final size:37
Alignment explanation
Indices: 69338409--69338511 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
69338399 CATATCTTCT
* *
69338409 AAGATTGCATATCATATCTAAGATTGCA-ATGATATCT
1 AAGATTGCA-ATCATATCTAAGATTGCATATCATATCA
*
69338446 AAGATTG-TATCATATCTAAGATTGCATATCATATCA
1 AAGATTGCAATCATATCTAAGATTGCATATCATATCA
*
69338482 AATATTGCAATCATATCTAAGATTGCATAT
1 AAGATTGCAATCATATCTAAGATTGCATAT
69338512 TGAAGATTAT
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
35 18 0.31
36 13 0.22
37 28 0.47
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.36
Consensus pattern (37 bp):
AAGATTGCAATCATATCTAAGATTGCATATCATATCA
Found at i:69339046 original size:87 final size:87
Alignment explanation
Indices: 69338906--69339074 Score: 207
Period size: 87 Copynumber: 1.9 Consensus size: 87
69338896 ACAATACAGA
* *
69338906 GATGCCAAATCATCTTAGATCTACTTCAGCATAAACACGTGAAAGCCAAATCTGCTGTGTCTTCG
1 GATGCCAAATCATCTTAGATCTACTTCAGCATAAACACGTGAAAGCCAAATCTGCTATGTCTTCA
*
69338971 ATTTGCTCCTTGTAAACACAAG
66 ATCTGCTCCTTGTAAACACAAG
* * * * * *
69338993 GATGCCAAATCATCTTGGATCTGCTTCAGTA-AAATCATC-TGAAGGTCAGATCTGCTATGTCTT
1 GATGCCAAATCATCTTAGATCTACTTCAGCATAAA-CA-CGTGAAAGCCAAATCTGCTATGTCTT
* *
69339056 TAATCTGCTTCTTGTAAAC
64 CAATCTGCTCCTTGTAAAC
69339075 TTATGACTGT
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
86 3 0.04
87 65 0.94
88 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (87 bp):
GATGCCAAATCATCTTAGATCTACTTCAGCATAAACACGTGAAAGCCAAATCTGCTATGTCTTCA
ATCTGCTCCTTGTAAACACAAG
Found at i:69339260 original size:261 final size:261
Alignment explanation
Indices: 69338796--69339283 Score: 721
Period size: 261 Copynumber: 1.9 Consensus size: 261
69338786 CATGGTCCTC
**
69338796 AATCTGCTCATTGCAAACTCAAGACTGTCATGTTGATATCTTCAATCTGCTCTTTGTCAAACACA
1 AATCTGCTCATTGCAAACTCAAGACTGTCATGTTGATATCTTCAATCTGCTCTCCGTCAAACACA
* * *
69338861 GAGACGCCAAATCTGCTTTTTCGATTTGTTTTCTGACAATACAGAGATGCCAAATCATCTTAGAT
66 GAGACGCCAAATCTGATTTTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGAT
* * * * *
69338926 CTACTTCAGCATAAACACGTGAAAGCCAAATCTGCTGTGTCTTCGATTTGCTCCTTGTAAACACA
131 CTACTTCAGCATAAACACGCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTATAAACACA
*
69338991 AGGATGCCAAATCATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTCAGATCTGCTATGTCTT
196 AGGATGCCAAACCATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTCAGATCTGCTATGTCTT
69339056 T
261 T
* * * * * *
69339057 AATCTGCTTC-TTGTAAACTTATGACTGTCCTGTTGATATCTTCAATCTGCTCTCCG-CTGAATA
1 AATCTGC-TCATTGCAAACTCAAGACTGTCATGTTGATATCTTCAATCTGCTCTCCGTC-AAACA
69339120 CAGAGACGCCAAATCT-ATTTCTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTA
64 CAGAGACGCCAAATCTGATTT-TTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTA
* * * * * *
69339184 GATTTGCTTCAGCGTAAGCACGCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTATAAGC
128 GATCTACTTCAGCATAAACACGCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTATAAAC
69339249 ACAAGGATGCCAAACCATCTTGGATCTGCTTCAGT
193 ACAAGGATGCCAAACCATCTTGGATCTGCTTCAGT
69339284 CATCTGAAGG
Statistics
Matches: 201, Mismatches: 23, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
260 4 0.02
261 195 0.97
262 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (261 bp):
AATCTGCTCATTGCAAACTCAAGACTGTCATGTTGATATCTTCAATCTGCTCTCCGTCAAACACA
GAGACGCCAAATCTGATTTTTCGATTTGTTCTCTAACAATACAGAGATGCCAAATCATCTTAGAT
CTACTTCAGCATAAACACGCGAAAACCAAATCAGCTATGTCTTCGATTTGCTCCTTATAAACACA
AGGATGCCAAACCATCTTGGATCTGCTTCAGTAAAATCATCTGAAGGTCAGATCTGCTATGTCTT
T
Found at i:69339794 original size:205 final size:201
Alignment explanation
Indices: 69339140--69339887 Score: 1187
Period size: 200 Copynumber: 3.7 Consensus size: 201
69339130 AAATCTATTT
69339140 CTTCGATTTGTTCTCT-AACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCA
1 CTTCGATTTGTTCTCTGAA-AATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCA
*
69339204 CGCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTATAAGCACAAGGATGCCAAACCATCT
65 CGCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
69339269 TGGATCTGCTTCAG-TCATCTGAAGGTTAGATATGCTATGTATCTGCTCTCCGTCGAAATGGAGA
130 TGGATCTGCTTCAGATCATCTGAAGGTTAGATATGCTATGTATCTGCTCTCCGTCGAAATGGAGA
69339333 TGCCAGA
195 TGCCAGA
* * *
69339340 CTTCGATTTGTTCTCTGAAAATATAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAGCAC
1 CTTCGATTTGTTCTCTGAAAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * *
69339405 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGAATGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * * *
69339470 GAATCTGCTTCA-ATCATCTAAAGGTTAGATCTGCTATGTATCTACTCTCCGTCGAAATGGAGAT
131 GGATCTGCTTCAGATCATCTGAAGGTTAGATATGCTATGTATCTGCTCTCCGTCGAAATGGAGAT
69339534 GCCAGA
196 GCCAGA
* * *
69339540 CTTCAATTTGTTCTCTGAAAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCCTAAACAC
1 CTTCGATTTGTTCTCTGAAAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * * *
69339605 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTGCCTTGTAAGCATAAGGATGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
69339670 GGATCTGCTTCAGTATAAACATCTGAAGGTTAGATTTGCTATGTATTTGCTCTCCGTCGAAATAG
131 GGATCTGCTTCAG-AT---CATCTGAAGGTTAGATATGCTATGTATCTGCTCTCCGTCGAAATGG
*
69339735 AGATGCCAAA
192 AGATGCCAGA
*
69339745 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGAAAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
* * *
69339810 GCGAAAACAAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
69339875 GGATCTTGCTTCA
131 GGATC-TGCTTCA
69339888 ACCAGATCTA
Statistics
Matches: 503, Mismatches: 37, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
200 318 0.63
201 2 0.00
202 2 0.00
205 174 0.35
206 7 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (201 bp):
CTTCGATTTGTTCTCTGAAAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
GCGAAAACCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGCTTCAGATCATCTGAAGGTTAGATATGCTATGTATCTGCTCTCCGTCGAAATGGAGAT
GCCAGA
Found at i:69340843 original size:7 final size:7
Alignment explanation
Indices: 69340831--69340886 Score: 60
Period size: 7 Copynumber: 7.7 Consensus size: 7
69340821 CGCCTATTCA
69340831 TTTTTCT
1 TTTTTCT
69340838 TTTTTCT
1 TTTTTCT
*
69340845 TTTTCCT
1 TTTTTCT
69340852 TTTTT-T
1 TTTTTCT
69340858 CTTTTTCTT
1 -TTTTTC-T
*
69340867 TTTTTTT
1 TTTTTCT
69340874 TCTTTTCT
1 T-TTTTCT
69340882 TTTTT
1 TTTTT
69340887 TCCCTTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
6 1 0.02
7 28 0.68
8 11 0.27
9 1 0.02
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTCT
Found at i:69340847 original size:6 final size:6
Alignment explanation
Indices: 69340831--69340885 Score: 60
Period size: 6 Copynumber: 8.8 Consensus size: 6
69340821 CGCCTATTCA
69340831 TTTTTC TTTTTTC TTTTTCC TTTTTTTC TTTTTC TTTTT- TTTTTC -TTTTC
1 TTTTTC -TTTTTC TTTTT-C --TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
69340881 TTTTT
1 TTTTT
69340886 TTCCCTTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
5 10 0.23
6 20 0.47
7 7 0.16
8 1 0.02
9 5 0.12
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:69340857 original size:22 final size:22
Alignment explanation
Indices: 69340831--69340886 Score: 78
Period size: 21 Copynumber: 2.5 Consensus size: 22
69340821 CGCCTATTCA
69340831 TTTTTCTTTTTTCTTTTTCCTT
1 TTTTTCTTTTTTCTTTTTCCTT
**
69340853 TTTTTC-TTTTTCTTTTTTTTT
1 TTTTTCTTTTTTCTTTTTCCTT
69340874 TCTTTTCTTTTTT
1 T-TTTTCTTTTTT
69340887 TCCCTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 14 0.47
22 11 0.37
23 5 0.17
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (22 bp):
TTTTTCTTTTTTCTTTTTCCTT
Found at i:69340863 original size:16 final size:14
Alignment explanation
Indices: 69340831--69340888 Score: 73
Period size: 15 Copynumber: 4.0 Consensus size: 14
69340821 CGCCTATTCA
69340831 TTTTTC-TTTTTTC
1 TTTTTCTTTTTTTC
69340844 TTTTTCCTTTTTTTC
1 TTTTT-CTTTTTTTC
*
69340859 TTTTTCTTTTTTTTT
1 TTTTTC-TTTTTTTC
69340874 TCTTTTCTTTTTTTC
1 T-TTTTCTTTTTTTC
69340889 CCTTTTTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
13 5 0.13
14 2 0.05
15 27 0.69
16 5 0.13
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTTCTTTTTTTC
Found at i:69340893 original size:15 final size:14
Alignment explanation
Indices: 69340832--69340898 Score: 57
Period size: 15 Copynumber: 4.6 Consensus size: 14
69340822 GCCTATTCAT
*
69340832 TTTTC-TTTTTTCT
1 TTTTCTTTTTTTCC
*
69340845 TTTTCCTTTTTTTCT
1 TTTT-CTTTTTTTCC
*
69340860 TTTTCTTTTTTTTTTC
1 TTTTC--TTTTTTTCC
69340876 TTTTCTTTTTTTCCC
1 TTTTCTTTTTTT-CC
69340891 TTTT-TTTT
1 TTTTCTTTT
69340899 GAAATAGAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
13 4 0.09
14 13 0.28
15 17 0.37
16 12 0.26
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTCTTTTTTTCC
Found at i:69340894 original size:22 final size:20
Alignment explanation
Indices: 69340831--69340896 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
69340821 CGCCTATTCA
69340831 TTTTTCTTTTTTCTTTTTCCT
1 TTTTTCTTTTTT-TTTTTCCT
*
69340852 TTTTT-TCTTTTTCTTTT--T
1 TTTTTCT-TTTTTTTTTTCCT
69340870 TTTTTCTTTTCTTTTTTTCCCT
1 TTTTTCTTTT-TTTTTTT-CCT
69340892 TTTTT
1 TTTTT
69340897 TTGAAATAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
18 9 0.24
19 7 0.19
20 5 0.14
21 10 0.27
22 6 0.16
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (20 bp):
TTTTTCTTTTTTTTTTTCCT
Found at i:69342956 original size:39 final size:39
Alignment explanation
Indices: 69342921--69343451 Score: 533
Period size: 39 Copynumber: 13.5 Consensus size: 39
69342911 GGATATAGTA
* * * * *
69342921 CCAGTACGAAGCCTGCGGACCTTAAGTCCGAATATAGTA
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * * * * *
69342960 CAAGCATGAAACCTACGGATCATAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * * *
69342999 CCAGCATGAAGCCTGCGGGTCTTTAAGCCCGGATACAATT
1 CCAGCACGAAGCCTGC-GGACCTTAAGTCCGGATACAATT
* * * *
69343039 CCAGCACGAAGCCTGTGGGTCTTTAAGCCCGGATACAATT
1 CCAGCACGAAGCCTG-CGGACCTTAAGTCCGGATACAATT
*
69343079 CCAGCACGAAGCCTGCAGACCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
*
69343118 CCAGCACGAAGCCTGCAGACCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * * * * *
69343157 CCAGCACAAAGCTTGCGGGTCTTTAAGCCCGGATATAATT
1 CCAGCACGAAGCCTGC-GGACCTTAAGTCCGGATACAATT
* * * *
69343197 CCAGCA-TATAGCCTGCGGGTCTTTAAGCCCGGATACAATT
1 CCAGCACGA-AGCCTGC-GGACCTTAAGTCCGGATACAATT
* *
69343237 CCAGCACGAAGCTTGCGGACCTTAAGTCTGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
*
69343276 CCAGCACGACGCCTGCGGACCTTAAGTCCGGATACAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* * * * * *
69343315 CTAGCACAAAGCCTGCGGGTCTTTAAGCCCGGATATAATT
1 CCAGCACGAAGCCTGC-GGACCTTAAGTCCGGATACAATT
** * * * *
69343355 CCAGCATAAAGCCTGCGGGTCTTTAAGCCCAGATACAATT
1 CCAGCACGAAGCCTGC-GGACCTTAAGTCCGGATACAATT
* * *
69343395 CCAGCATGAAGCTTGCGGACCTTAAGTCCGGATAAAATT
1 CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
* *
69343434 CTAGCACAAAGCCTGCGG
1 CCAGCACGAAGCCTGCGG
69343452 GTCTTTAAGC
Statistics
Matches: 419, Mismatches: 67, Indels: 12
0.84 0.13 0.02
Matches are distributed among these distances:
39 214 0.51
40 204 0.49
41 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.21
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATT
Found at i:69343034 original size:40 final size:40
Alignment explanation
Indices: 69342982--69343468 Score: 572
Period size: 40 Copynumber: 12.3 Consensus size: 40
69342972 CTACGGATCA
* *
69342982 TAAGTCCGGATACAATTCCAGCATGAAGCCTGCGGGTCTT
1 TAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTT
*
69343022 TAAGCCCGGATACAATTCCAGCACGAAGCCTGTGGGTCTT
1 TAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTT
* * *
69343062 TAAGCCCGGATACAATTCCAGCACGAAGCCTGC-AGACCT
1 TAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTT
* * * *
69343101 TAAGTCCGGATACAATTCCAGCACGAAGCCTGC-AGACCT
1 TAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTT
* * *
69343140 TAAGTCCGGATACAATTCCAGCACAAAGCTTGCGGGTCTT
1 TAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTT
* *
69343180 TAAGCCCGGATATAATTCCAGCA-TATAGCCTGCGGGTCTT
1 TAAGCCCGGATACAATTCCAGCACGA-AGCCTGCGGGTCTT
* * *
69343220 TAAGCCCGGATACAATTCCAGCACGAAGCTTGC-GGACCT
1 TAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTT
* * * * *
69343259 TAAGTCTGGATACAATTCCAGCACGACGCCTGC-GGACCT
1 TAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTT
* * *
69343298 TAAGTCCGGATACAATTCTAGCACAAAGCCTGCGGGTCTT
1 TAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTT
* **
69343338 TAAGCCCGGATATAATTCCAGCATAAAGCCTGCGGGTCTT
1 TAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTT
* * * * *
69343378 TAAGCCCAGATACAATTCCAGCATGAAGCTTGC-GGACCT
1 TAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTT
* * * *
69343417 TAAGTCCGGATAAAATTCTAGCACAAAGCCTGCGGGTCTT
1 TAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTT
*
69343457 TAAGCTCGGATA
1 TAAGCCCGGATA
69343469 TACATCAAAT
Statistics
Matches: 389, Mismatches: 53, Indels: 10
0.86 0.12 0.02
Matches are distributed among these distances:
39 171 0.44
40 217 0.56
41 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (40 bp):
TAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGGTCTT
Found at i:69343177 original size:158 final size:157
Alignment explanation
Indices: 69342888--69343451 Score: 768
Period size: 158 Copynumber: 3.6 Consensus size: 157
69342878 TCACCAACAC
* * ** * * * * *
69342888 AAAGCCTACGGGACTTTAAGCTTGGATATAGTACCAGTACGAAGCCTGCGGACCTTAAGTCCGAA
1 AAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGA
* * * * * * * * * **
69342953 TATAGTACAAGCATGAAACCTACGGATCATAAGTCCGGATACAATTCCAGCATGAAGCCTGCGGG
66 TACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACAAAGCCTGCGGG
*
69343018 TCTTTAAGCCCGGATACAATTCCAGCA
131 TCTTTAAGCCCGGATATAATTCCAGCA
* * *
69343045 CGAAGCCTGTGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCAGACCTTAAGTCCGG
1 -AAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGG
* *
69343110 ATACAATTCCAGCACGAAGCCTGCAGACCTTAAGTCCGGATACAATTCCAGCACAAAGCTTGCGG
65 ATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACAAAGCCTGCGG
69343175 GTCTTTAAGCCCGGATATAATTCCAGCA
130 GTCTTTAAGCCCGGATATAATTCCAGCA
* * *
69343203 TATAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCTTGCGGACCTTAAGTCTGG
1 -AAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGG
* *
69343268 ATACAATTCCAGCACGACGCCTGCGGACCTTAAGTCCGGATACAATTCTAGCACAAAGCCTGCGG
65 ATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACAAAGCCTGCGG
69343333 GTCTTTAAGCCCGGATATAATTCCAGCA
130 GTCTTTAAGCCCGGATATAATTCCAGCA
* * *
69343361 TAAAGCCTGCGGGTCTTTAAGCCCAGATACAATTCCAGCATGAAGCTTGCGGACCTTAAGTCCGG
1 -AAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGG
* * *
69343426 ATAAAATTCTAGCACAAAGCCTGCGG
65 ATACAATTCCAGCACGAAGCCTGCGG
69343452 GTCTTTAAGC
Statistics
Matches: 361, Mismatches: 45, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
158 361 1.00
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.22
Consensus pattern (157 bp):
AAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGA
TACAATTCCAGCACGAAGCCTGCGGACCTTAAGTCCGGATACAATTCCAGCACAAAGCCTGCGGG
TCTTTAAGCCCGGATATAATTCCAGCA
Found at i:69343470 original size:119 final size:118
Alignment explanation
Indices: 69342982--69343468 Score: 582
Period size: 119 Copynumber: 4.1 Consensus size: 118
69342972 CTACGGATCA
* * * *
69342982 TAAGTCCGGATACAATTCCAGCATGAAGCCTGCGGGTCTTTAAGCCCGGATACAATTCCAGCACG
1 TAAGCCCGGATACAATTCCAGCACGAAGCCTGC-GGACCTTAAGCCCGGATACAATTCCAGCACG
* * * * * *
69343047 AAGCCTGTG-GGTCTTTAAGCCCGGATACAATTCCAGCACGAAGCCTGC-AGACCT
65 AAG-CT-TGCGGACCTTAAGCCCGGATACAATTCCAGCACAAAGCCTGCGGGTCTT
* * * *
69343101 TAAGTCCGGATACAATTCCAGCACGAAGCCTGCAGACCTTAAGTCCGGATACAATTCCAGCACAA
1 TAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGCCCGGATACAATTCCAGCACGA
* * * * *
69343166 AGCTTGCGGGTCTTTAAGCCCGGATATAATTCCAGCATATAGCCTGCGGGTCTT
66 AGCTTGC-GGACCTTAAGCCCGGATACAATTCCAGCACAAAGCCTGCGGGTCTT
* * *
69343220 TAAGCCCGGATACAATTCCAGCACGAAGCTTGCGGACCTTAAGTCTGGATACAATTCCAGCACGA
1 TAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGCCCGGATACAATTCCAGCACGA
* * * *
69343285 CGCCTGCGGACCTTAAGTCCGGATACAATTCTAGCACAAAGCCTGCGGGTCTT
66 AGCTTGCGGACCTTAAGCCCGGATACAATTCCAGCACAAAGCCTGCGGGTCTT
* ** * * * *
69343338 TAAGCCCGGATATAATTCCAGCATAAAGCCTGCGGGTCTTTAAGCCCAGATACAATTCCAGCATG
1 TAAGCCCGGATACAATTCCAGCACGAAGCCTGC-GGACCTTAAGCCCGGATACAATTCCAGCACG
* * *
69343403 AAGCTTGCGGACCTTAAGTCCGGATAAAATTCTAGCACAAAGCCTGCGGGTCTT
65 AAGCTTGCGGACCTTAAGCCCGGATACAATTCCAGCACAAAGCCTGCGGGTCTT
*
69343457 TAAGCTCGGATA
1 TAAGCCCGGATA
69343469 TACATCAAAT
Statistics
Matches: 323, Mismatches: 41, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
116 2 0.01
117 2 0.01
118 132 0.41
119 187 0.58
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (118 bp):
TAAGCCCGGATACAATTCCAGCACGAAGCCTGCGGACCTTAAGCCCGGATACAATTCCAGCACGA
AGCTTGCGGACCTTAAGCCCGGATACAATTCCAGCACAAAGCCTGCGGGTCTT
Found at i:69347226 original size:46 final size:46
Alignment explanation
Indices: 69347159--69347330 Score: 151
Period size: 46 Copynumber: 3.8 Consensus size: 46
69347149 TGTAACCTGC
69347159 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* * *
69347205 CCATAAGTGAACTCAGACTCAACTCAACAAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * *
69347255 -C-TCA-CGAACTCGGACTCAACT---CGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* * *
69347295 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGG
69347331 ATGCCCAAAT
Statistics
Matches: 101, Mismatches: 13, Indels: 24
0.73 0.09 0.17
Matches are distributed among these distances:
39 2 0.02
40 3 0.03
41 2 0.02
42 2 0.02
43 16 0.16
44 7 0.07
46 43 0.43
47 15 0.15
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:69347314 original size:90 final size:91
Alignment explanation
Indices: 69347166--69347335 Score: 252
Period size: 90 Copynumber: 1.9 Consensus size: 91
69347156 TGCCCATAAG
* *
69347166 CGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCAGACTCAACT--ACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
69347231 ACAAGCTCGGATGCCTAGTTACATCTCA
64 ACAAGCTCGGATGCCTAGTTACATCTCA
* * *
69347259 CGAACTCGGACTCAACT-CGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 CGAACTCAGACTCAACTACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
* *
69347323 GAGTTCGGATGCC
66 AAGCTCGGATGCC
69347336 CAAATATCCT
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
90 54 0.77
93 16 0.23
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.21
Consensus pattern (91 bp):
CGAACTCAGACTCAACTACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAAC
AAGCTCGGATGCCTAGTTACATCTCA
Found at i:69349696 original size:23 final size:23
Alignment explanation
Indices: 69349666--69349721 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
69349656 CTTCCTCATG
*
69349666 TATCCCTCCTTCTCCGGGTAAGC
1 TATCCCTCCTTCTCCGAGTAAGC
69349689 TATCCCTCCTTCTCCGAGTAAGC
1 TATCCCTCCTTCTCCGAGTAAGC
69349712 TATCCCTCCT
1 TATCCCTCCT
69349722 GACACAAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.14, C:0.41, G:0.12, T:0.32
Consensus pattern (23 bp):
TATCCCTCCTTCTCCGAGTAAGC
Found at i:69351649 original size:46 final size:45
Alignment explanation
Indices: 69351580--69351755 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
69351570 TATTTGGGCA
69351580 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
69351626 TTCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
69351673 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
69351719 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
69351756 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:69351735 original size:93 final size:93
Alignment explanation
Indices: 69351576--69351748 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
69351566 GGGATATTTG
* **
69351576 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
69351641 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
69351669 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
69351734 TTGAGTCTGAGTTCG
66 TTGAGTCCGAGTTCG
69351749 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:69354729 original size:30 final size:31
Alignment explanation
Indices: 69354651--69354729 Score: 92
Period size: 30 Copynumber: 2.6 Consensus size: 31
69354641 CATAGTATCG
* * *
69354651 TATCTTGGGTTTCTTTA-TCCTGGATATCTT
1 TATCTTGGATTTCTTTATTCCAGGATATCTC
*
69354681 TAT-TCTGGATTTCTTTATTCCAGG-TTTCTC
1 TATCT-TGGATTTCTTTATTCCAGGATATCTC
69354711 TATCTTGGATTTCTTTATT
1 TATCTTGGATTTCTTTATT
69354730 TGGTTTTCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
29 1 0.02
30 35 0.83
31 6 0.14
ACGTcount: A:0.14, C:0.16, G:0.14, T:0.56
Consensus pattern (31 bp):
TATCTTGGATTTCTTTATTCCAGGATATCTC
Found at i:69354737 original size:14 final size:15
Alignment explanation
Indices: 69354660--69354739 Score: 76
Period size: 15 Copynumber: 5.4 Consensus size: 15
69354650 GTATCTTGGG
*
69354660 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
69354675 TATCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
69354690 TTTCTTTATTCCAGG-
1 TTTCTTTATT-CTGGA
*
69354705 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
69354720 TTTCTTTATT-TGGT
1 TTTCTTTATTCTGGA
69354734 TTTCTT
1 TTTCTT
69354740 GTTACCTTTG
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
13 1 0.02
14 12 0.23
15 36 0.68
16 4 0.08
ACGTcount: A:0.12, C:0.16, G:0.12, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:69357840 original size:16 final size:15
Alignment explanation
Indices: 69357819--69357866 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
69357809 GATGGGAATA
69357819 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
69357835 ATAAAATATTAAAAT
1 ATAAAATATTAAAAT
*
69357850 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
69357866 A
1 A
69357867 ATAATAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:69357849 original size:8 final size:8
Alignment explanation
Indices: 69357815--69357866 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
69357805 CAATGATGGG
*
69357815 AATAATAA
1 AATATTAA
69357823 AATATATAA
1 AATAT-TAA
69357832 AATA-TAA
1 AATATTAA
69357839 AATATTAA
1 AATATTAA
*
69357847 AATATCAA
1 AATATTAA
*
69357855 AATATTAG
1 AATATTAA
69357863 AATA
1 AATA
69357867 ATAATAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 24 0.63
9 7 0.18
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (8 bp):
AATATTAA
Found at i:69357866 original size:24 final size:24
Alignment explanation
Indices: 69357814--69357870 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
69357804 ACAATGATGG
*
69357814 GAATAATAAAATATATAAAATATA
1 GAATAATAAAATATACAAAATATA
* *
69357838 AAATATTAAAATAT-CAAAATATTA
1 GAATAATAAAATATACAAAATA-TA
69357862 GAATAATAA
1 GAATAATAA
69357871 TAATTAATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.30
Consensus pattern (24 bp):
GAATAATAAAATATACAAAATATA
Found at i:69358029 original size:23 final size:19
Alignment explanation
Indices: 69357978--69358036 Score: 55
Period size: 23 Copynumber: 2.8 Consensus size: 19
69357968 ATACTACATC
69357978 AATATGTACATATATAAAA
1 AATATGTACATATATAAAA
**
69357997 AATAAATACATGATAATATTAAA
1 AATATGTACAT-AT-ATA--AAA
69358020 AATATGTACATAATATA
1 AATATGTACAT-ATATA
69358037 GTGTTAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 9 0.29
20 2 0.06
21 3 0.10
22 3 0.10
23 14 0.45
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (19 bp):
AATATGTACATATATAAAA
Found at i:69358047 original size:24 final size:22
Alignment explanation
Indices: 69357995--69358078 Score: 80
Period size: 22 Copynumber: 3.7 Consensus size: 22
69357985 ACATATATAA
* *
69357995 AAAATAAATACATGATAATA-TT
1 AAAATATATACATAAT-ATAGTT
*
69358017 AAAAATATGTACATAATATAGTGTT
1 -AAAATATATACATAATATA--GTT
*
69358042 AAAATACATACATAATATAGTT
1 AAAATATATACATAATATAGTT
*
69358064 AAGATATATACATAA
1 AAAATATATACATAA
69358079 GATAACATGT
Statistics
Matches: 51, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
22 19 0.37
23 13 0.25
24 17 0.33
25 2 0.04
ACGTcount: A:0.55, C:0.06, G:0.07, T:0.32
Consensus pattern (22 bp):
AAAATATATACATAATATAGTT
Found at i:69358074 original size:22 final size:23
Alignment explanation
Indices: 69358018--69358078 Score: 79
Period size: 24 Copynumber: 2.7 Consensus size: 23
69358008 GATAATATTA
*
69358018 AAAATATGTACATAATATAGTGTT
1 AAAATATATACATAATATAG-GTT
*
69358042 AAAATACATACATAATATA-GTT
1 AAAATATATACATAATATAGGTT
*
69358064 AAGATATATACATAA
1 AAAATATATACATAA
69358079 GATAACATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 16 0.48
24 17 0.52
ACGTcount: A:0.52, C:0.07, G:0.08, T:0.33
Consensus pattern (23 bp):
AAAATATATACATAATATAGGTT
Found at i:69358131 original size:25 final size:25
Alignment explanation
Indices: 69358103--69358236 Score: 93
Period size: 25 Copynumber: 5.6 Consensus size: 25
69358093 AAAAAAATAT
69358103 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * *
69358128 ATATATAAATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
* * *
69358153 ATATATATACGTAATATAAAATTTAA-
1 ATATATA-A-ATAATATAATATTAAAG
** *
69358179 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
69358201 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
69358224 AAATAT-AATAATA
1 ATATATAAATAATA
69358237 ACAAAAAAAA
Statistics
Matches: 84, Mismatches: 19, Indels: 14
0.72 0.16 0.12
Matches are distributed among these distances:
21 3 0.04
22 13 0.15
23 18 0.21
24 5 0.06
25 33 0.39
26 2 0.02
27 10 0.12
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:69358754 original size:30 final size:30
Alignment explanation
Indices: 69358718--69358892 Score: 296
Period size: 30 Copynumber: 5.8 Consensus size: 30
69358708 TAGGTACAAG
* *
69358718 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
69358748 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
69358778 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
69358808 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
69358838 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
69358868 TGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGT
69358893 TGAGAAAAGT
Statistics
Matches: 135, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 135 1.00
ACGTcount: A:0.22, C:0.03, G:0.49, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:69358811 original size:60 final size:60
Alignment explanation
Indices: 69358718--69358892 Score: 332
Period size: 60 Copynumber: 2.9 Consensus size: 60
69358708 TAGGTACAAG
*
69358718 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
69358778 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
*
69358838 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGT
69358893 TGAGAAAAGT
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 113 1.00
ACGTcount: A:0.22, C:0.03, G:0.49, T:0.25
Consensus pattern (60 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
Found at i:69359489 original size:14 final size:14
Alignment explanation
Indices: 69359470--69359519 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
69359460 GAGTTGATTT
* *
69359470 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
69359484 TTGAAAAAACAGAAA
1 TTG-AAAAACAGAAA
*
69359499 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
69359513 TT-AAAAA
1 TTGAAAAA
69359520 GACCTCAGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 15 0.48
15 12 0.39
ACGTcount: A:0.64, C:0.04, G:0.12, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:69359634 original size:73 final size:74
Alignment explanation
Indices: 69359499--69359741 Score: 303
Period size: 75 Copynumber: 3.3 Consensus size: 74
69359489 AAAACAGAAA
* * ** *
69359499 TTGA-AAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCGAGACTCAACTCACCTCTT-GCAAT
1 TTGACAAA-CAGAAATTGAAAATACCTCAGC--GTGTCCCGAGGCTCAACTCACCT-TTCGCAAT
*
69359562 ATGAGTT-AATTT
62 ATGAGTTGATTTT
*
69359574 TTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGCAATATGA
1 TTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGCAATATGA
69359639 GTTGATTTT
66 GTTGATTTT
* * * *
69359648 TTGAAAAACAGAAATTTAAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGACAAACAGAAA-TTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGCAATATG
69359713 AGTTGATTTT
65 AGTTGATTTT
* *
69359723 TTTACGAACAGAAATTGAA
1 TTGACAAACAGAAATTGAA
69359742 GAACAGAAAT
Statistics
Matches: 148, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
72 2 0.01
73 32 0.22
74 21 0.14
75 90 0.61
76 3 0.02
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (74 bp):
TTGACAAACAGAAATTGAAAATACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGCAATATGA
GTTGATTTT
Found at i:69359747 original size:14 final size:14
Alignment explanation
Indices: 69359728--69359755 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
69359718 ATTTTTTTAC
69359728 GAACAGAAATTGAA
1 GAACAGAAATTGAA
69359742 GAACAGAAATTGAA
1 GAACAGAAATTGAA
69359756 AAGACCTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.21, T:0.14
Consensus pattern (14 bp):
GAACAGAAATTGAA
Found at i:69359800 original size:90 final size:88
Alignment explanation
Indices: 69359648--69359896 Score: 346
Period size: 90 Copynumber: 2.8 Consensus size: 88
69359638 AGTTGATTTT
*
69359648 TTGAAAAACAGAAATTTAAAAATACCTCAGC-GTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAA-TTGAAAATACCTCAGCTGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
69359712 GAGTTGATTTTTTT-ACGAACAGAAA
65 GAGTTGATTTTTTTGA--AACAGAAA
* * *
69359737 TTGAAGAACAGAAATTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAATACCTCAGC-TGTG-TCCTGAGGCTCAACTCACCTCTCGCAATA
*
69359801 TGAGTTGATTTTTTTGAAACATAAA
64 TGAGTTGATTTTTTTGAAACAGAAA
*
69359826 TT-AAAAAAACGAAAATTGAAAATACCTCAG-TGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACA-G-AAATTGAAAATACCTCAGCTGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
69359889 TGAGTTGA
64 TGAGTTGA
69359897 AATTAAAACA
Statistics
Matches: 144, Mismatches: 9, Indels: 15
0.86 0.05 0.09
Matches are distributed among these distances:
87 2 0.01
88 56 0.39
89 23 0.16
90 60 0.42
91 3 0.02
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (88 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCTGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTTTTTGAAACAGAAA
Found at i:69359941 original size:72 final size:73
Alignment explanation
Indices: 69359823--69359964 Score: 232
Period size: 72 Copynumber: 2.0 Consensus size: 73
69359813 TTTGAAACAT
* * *
69359823 AAATTAAAAAAACGAAAATTGAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
1 AAATTAAAAAAACAAAAATTGAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
69359888 ATGAGTTG
66 ATGAGTTG
* *
69359896 AAATT-AAAACACAAAAATTGAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTTGCAAT
1 AAATTAAAAAAACAAAAATTGAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
69359960 ATGAG
66 ATGAG
69359965 CTGATTTTGA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
72 59 0.92
73 5 0.08
ACGTcount: A:0.39, C:0.23, G:0.15, T:0.23
Consensus pattern (73 bp):
AAATTAAAAAAACAAAAATTGAAAATACCTCAGTGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTG
Found at i:69360261 original size:174 final size:181
Alignment explanation
Indices: 69359939--69360269 Score: 419
Period size: 184 Copynumber: 1.9 Consensus size: 181
69359929 GTGCCCCGAG
* * *
69359939 GCTCAACTCACCTCTTGCAATATGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCAC
1 GCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAAAAATTAAAAGGTTCAACCCAC
* * * * *
69360004 CTCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTGTCCTGAGGCT
66 CTCTCGCAATATGAGTTCAATCTTGACAAACA-AAA-T-AAATTACCTCAGCGTGCCCCGAGGCT
69360069 CAACTCACCTCTCGCAATATGAATTGAAAAAAATACCACAGTGTGTAATCTGAA
128 CAACTCACCTCTCGCAATATGAATTGAAAAAAATACCACAGTGTGTAATCTGAA
* *
69360123 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA-CAAAAATTAAAAGGCTT-AACTC
1 GCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTGAAAAAGCAAAAATTAAAAGG-TTCAACCC
* **
69360186 ACCTCTCGCAATATGAG-TCAAT-TT-A-AAAC-TAA-AAA-TACCTTGGCGTGCCCCGAGGCTC
64 ACCTCTCGCAATATGAGTTCAATCTTGACAAACAAAATAAATTACCTCAGCGTGCCCCGAGGCTC
* *
69360244 AACTCACTTCTCGCAATATGAGTTGA
129 AACTCACCTCTCGCAATATGAATTGA
69360270 TTTTGAAAAA
Statistics
Matches: 130, Mismatches: 15, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
174 42 0.32
175 3 0.02
178 2 0.02
180 4 0.03
181 1 0.01
182 2 0.02
183 3 0.02
184 61 0.47
185 12 0.09
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (181 bp):
GCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAAAAATTAAAAGGTTCAACCCAC
CTCTCGCAATATGAGTTCAATCTTGACAAACAAAATAAATTACCTCAGCGTGCCCCGAGGCTCAA
CTCACCTCTCGCAATATGAATTGAAAAAAATACCACAGTGTGTAATCTGAA
Found at i:69360396 original size:76 final size:72
Alignment explanation
Indices: 69360228--69360494 Score: 390
Period size: 72 Copynumber: 3.6 Consensus size: 72
69360218 AAATACCTTG
* * * * * *
69360228 GCGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTTAAAA
1 GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAACAGAAA-TTGAAA
*
69360293 ATACCTCA
65 TTACCTCA
*
69360301 GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTG
1 GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTAAAAACAGAAATTG
69360366 AAATTACCTCA
62 AAATTACCTCA
* *
69360377 GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTAAAAACAGAAATCGAAAT
1 GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAACAGAAATTGAAAT
69360442 TACCTCA
66 TACCTCA
*
69360449 GCGTGTCCTGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTT
1 GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
69360495 CCTTGGAAAG
Statistics
Matches: 177, Mismatches: 13, Indels: 9
0.89 0.07 0.05
Matches are distributed among these distances:
72 71 0.40
73 39 0.22
76 54 0.31
77 13 0.07
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (72 bp):
GCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAACAGAAATTGAAAT
TACCTCA
Found at i:69368769 original size:7 final size:8
Alignment explanation
Indices: 69368757--69368790 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
69368747 ATAATAAAAT
69368757 ATAT-AAA
1 ATATCAAA
69368764 ATAT-AAA
1 ATATCAAA
69368771 ATATCAAA
1 ATATCAAA
69368779 ATATCAAA
1 ATATCAAA
69368787 ATAT
1 ATAT
69368791 TAGAATAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 11 0.42
8 15 0.58
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (8 bp):
ATATCAAA
Found at i:69368797 original size:16 final size:15
Alignment explanation
Indices: 69368750--69368797 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
69368740 GATGGGAATA
69368750 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
*
69368766 ATAAAATATCAAAAT
1 ATAAAATATTAAAAT
*
69368781 ATCAAAATATTAGAAT
1 AT-AAAATATTAAAAT
69368797 A
1 A
69368798 ATAATAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 7 0.25
16 21 0.75
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:69369009 original size:22 final size:24
Alignment explanation
Indices: 69368924--69369010 Score: 83
Period size: 25 Copynumber: 3.7 Consensus size: 24
69368914 TGTACATATA
* *
69368924 TAAAAATAAATACATGATAATA--T
1 TAAAAATATATACATAAT-ATAGGT
*
69368947 TAAAAATATGTACATAATATAGTGT
1 TAAAAATATATACATAATATAG-GT
*
69368972 TAAAAATACATACATAATATA-GT
1 TAAAAATATATACATAATATAGGT
*
69368995 T-AAGATATATACATAA
1 TAAAAATATATACATAA
69369011 GATAACATGT
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
22 16 0.30
23 18 0.33
25 20 0.37
ACGTcount: A:0.55, C:0.06, G:0.07, T:0.32
Consensus pattern (24 bp):
TAAAAATATATACATAATATAGGT
Found at i:69369068 original size:14 final size:13
Alignment explanation
Indices: 69369024--69369080 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 13
69369014 AACATGTAGA
*
69369024 AAAATATATATAT
1 AAAATATATAAAT
69369037 -AAATAATATAATATT
1 AAAAT-ATATAA-A-T
69369052 AAAGATATATAAAT
1 AAA-ATATATAAAT
69369066 AAAATAGTATAAAT
1 AAAATA-TATAAAT
69369080 A
1 A
69369081 TATATATACG
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
12 4 0.11
13 8 0.22
14 13 0.35
15 2 0.05
16 8 0.22
17 2 0.05
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (13 bp):
AAAATATATAAAT
Found at i:69369678 original size:30 final size:30
Alignment explanation
Indices: 69369642--69369839 Score: 275
Period size: 30 Copynumber: 6.8 Consensus size: 30
69369632 TAGGTACAAG
* *
69369642 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
69369672 TGGTGGTGGAAAAAGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
69369702 TGGTGGTGG-AAA--A--GG--AGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
69369725 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
* *
69369755 TGGTGGTGGAAAAAGAGTGGGTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
69369785 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
*
69369815 TGGTGGTGGAAGAGGAGTGGCTAGT
1 TGGTGGTGGAAAAGGAGTGGCTAGT
69369840 TGAGAAAAGT
Statistics
Matches: 149, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
23 17 0.11
24 3 0.02
25 2 0.01
27 1 0.01
28 2 0.01
29 3 0.02
30 121 0.81
ACGTcount: A:0.22, C:0.03, G:0.51, T:0.25
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
Found at i:69369727 original size:53 final size:53
Alignment explanation
Indices: 69369664--69369834 Score: 252
Period size: 53 Copynumber: 3.1 Consensus size: 53
69369654 AGGTGTGGCT
* *
69369664 AGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGGTGGTGGAAAAGG
1 AGTGGAGTTGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGG
69369717 AGTGGAGTTGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGG
1 AGTGGAGTTGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGG--AAA-A---GG
*
69369776 TAGTGGAGTTGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAGAGG
1 -AGTGGAGTTGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGG
69369830 AGTGG
1 AGTGG
69369835 CTAGTTGAGA
Statistics
Matches: 108, Mismatches: 3, Indels: 14
0.86 0.02 0.11
Matches are distributed among these distances:
53 50 0.46
54 2 0.02
55 3 0.03
56 1 0.01
57 1 0.01
58 2 0.02
59 2 0.02
60 47 0.44
ACGTcount: A:0.23, C:0.02, G:0.51, T:0.24
Consensus pattern (53 bp):
AGTGGAGTTGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAGG
Found at i:69369781 original size:83 final size:83
Alignment explanation
Indices: 69369642--69369804 Score: 299
Period size: 83 Copynumber: 2.0 Consensus size: 83
69369632 TAGGTACAAG
*
69369642 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGGTG
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGGTG
69369707 GTGGAAAAGGAGTGGAGT
66 GTGGAAAAGGAGTGGAGT
*
69369725 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGGTAGTGGAGTTGGTG
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGGTG
*
69369790 GTGGAAAAGGTGTGG
66 GTGGAAAAGGAGTGG
69369805 CTAGTGGAGT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 77 1.00
ACGTcount: A:0.23, C:0.02, G:0.51, T:0.25
Consensus pattern (83 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGTTGGTGGTGGAAAAAGAGTGGCTAGTGGAGTTGGTG
GTGGAAAAGGAGTGGAGT
Found at i:69373052 original size:23 final size:22
Alignment explanation
Indices: 69373009--69373066 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
69372999 AAAAGGTATC
* *
69373009 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
69373030 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
69373053 TGCATATCATATCT
1 TACAAATCATATCT
69373067 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:69373060 original size:17 final size:19
Alignment explanation
Indices: 69373045--69373167 Score: 159
Period size: 19 Copynumber: 6.8 Consensus size: 19
69373035 AATCATATCT
69373045 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
69373064 TCTAAGATTGCA-ATGATA
1 TCTAAGATTGCATATCATA
69373082 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
*
69373099 TCTAAGATTGCATATCATG
1 TCTAAGATTGCATATCATA
* *
69373118 TCAAATATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
69373136 TCTAAGATTG--TATCACA
1 TCTAAGATTGCATATCATA
69373153 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
69373168 TGAAGATTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
17 30 0.34
18 28 0.31
19 31 0.35
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:69373113 original size:54 final size:54
Alignment explanation
Indices: 69373045--69373167 Score: 201
Period size: 54 Copynumber: 2.3 Consensus size: 54
69373035 AATCATATCT
* * *
69373045 TCTAAGATTGCATATCATATCTAAGATTGCAATGATATCTAAGATTGTATCATA
1 TCTAAGATTGCATATCATATCAAAGATTGCAATCATATCTAAGATTGTATCACA
* *
69373099 TCTAAGATTGCATATCATGTCAAATATTGCAATCATATCTAAGATTGTATCACA
1 TCTAAGATTGCATATCATATCAAAGATTGCAATCATATCTAAGATTGTATCACA
69373153 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
69373168 TGAAGATTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 64 1.00
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (54 bp):
TCTAAGATTGCATATCATATCAAAGATTGCAATCATATCTAAGATTGTATCACA
Found at i:69373164 original size:35 final size:36
Alignment explanation
Indices: 69373045--69373164 Score: 145
Period size: 35 Copynumber: 3.3 Consensus size: 36
69373035 AATCATATCT
* *
69373045 TCTAAGATTGCATATCATATCTAAGATTGCAATGATA
1 TCTAAGATTGCA-ATCATATCTAAGATTGCTATCATA
* *
69373082 TCTAAGATTG-TATCATATCTAAGATTGCATATCATG
1 TCTAAGATTGCAATCATATCTAAGATTGC-TATCATA
* * *
69373118 TCAAATATTGCAATCATATCTAAGATTG-TATCACA
1 TCTAAGATTGCAATCATATCTAAGATTGCTATCATA
69373153 TCTAAGATTGCA
1 TCTAAGATTGCA
69373165 TATTGAAGAT
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
35 32 0.46
36 12 0.17
37 26 0.37
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (36 bp):
TCTAAGATTGCAATCATATCTAAGATTGCTATCATA
Found at i:69374267 original size:46 final size:48
Alignment explanation
Indices: 69374140--69374355 Score: 209
Period size: 45 Copynumber: 4.6 Consensus size: 48
69374130 GAGAGCCAAC
* * * * * *
69374140 GTAAGACCATGTCTGGGACATGGCATCAG-TATTGAGACGAAAGCTAAT
1 GTAAGACCATGTCTGGGACATGGCATCGGCTA-CGAGATGTAAGCCAGT
69374188 GTAAGA-CATGTCTGGG-CAT-GCATCGGCCT-CGAGATGTAAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGG-CTACGAGATGTAAGCCAGT
* * *
69374233 GTAAGA-CATGTATGGGACAT-GCATCGGCTACGAGATGT-A-TCAGG
1 GTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGTAAGCCAGT
*
69374277 GTAAGACCATGTCCGGGACATGGCATCGGC-ACAGAGATGTTAGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCTAC-GAGATG-TA-AGCCAGT
* *
69374327 ATAAGACCATGTCTAGGACATGGCATCGG
1 GTAAGACCATGTCTGGGACATGGCATCGG
69374356 TATTACAACC
Statistics
Matches: 141, Mismatches: 16, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
44 9 0.06
45 49 0.35
46 35 0.25
47 12 0.09
48 6 0.04
49 1 0.01
50 29 0.21
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.21
Consensus pattern (48 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCTACGAGATGTAAGCCAGT
Found at i:69376127 original size:28 final size:28
Alignment explanation
Indices: 69376092--69376158 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
69376082 AAAAAAAATT
* *
69376092 GCACTAAGTGTGCAAG-TCTGATTATTGA
1 GCACTAAGTGTGCAAGCT-TAAGTATTGA
*
69376120 GCACTAAGTGTGCAAGCTTAAGTATTTA
1 GCACTAAGTGTGCAAGCTTAAGTATTGA
69376148 GCACTAAGTGT
1 GCACTAAGTGT
69376159 ACGAATTTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
28 34 0.97
29 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGCTTAAGTATTGA
Found at i:69387158 original size:11 final size:11
Alignment explanation
Indices: 69387142--69387168 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
69387132 GAACAAACAT
69387142 GTCACACATGG
1 GTCACACATGG
69387153 GTCACACATGG
1 GTCACACATGG
69387164 GTCAC
1 GTCAC
69387169 TTTTCATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.30, G:0.26, T:0.19
Consensus pattern (11 bp):
GTCACACATGG
Found at i:69391752 original size:46 final size:46
Alignment explanation
Indices: 69391574--69391935 Score: 212
Period size: 49 Copynumber: 7.7 Consensus size: 46
69391564 TTTGTGTATT
* *
69391574 AGTGTAAGA-CATGTCTGGGACATGCATCGGCCAC-ATTAT-TAAAGCT
1 AGTGTAAGACCATGTCTGGGACATGCATCGG-CACGA-GATGT-AAGCC
* * * * *
69391620 AGTGTAAGACCATGTTTGGGACATGGCACCGGCATTGAGACG-AGAGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCA-CGAGATGTA-AGCC
*
69391668 AGTGTAAGA-CATGTCTGGG-CATGCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGCATCGG-CACGAGATGTAAGCC
* *
69391713 AGTGTAAGA-TATGTCTGGGACATGCATCGGCTACGAGATGT--GTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGC-ACGAGATGTAAGCC
* * * * *
69391757 AGTGTAAGACTATGTCCGGGACAAGGCATCAGCATGGAGAT-TGAGAGCC
1 AGTGTAAGACCATGTCTGGGAC-ATGCATCGGCA-CGAGATGT-A-AGCC
* * * *
69391806 AGTGTAAGACCATGTCTGGGACATGGCGTCAGCTTCGA-AT-TCAATAGTC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGC-ACGAGATGT--A-AGCC
* * ** *
69391855 AGTATAAAACCATGTCTGGGACATGGCATC-G-ACTTGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCACGAGAT-G-TAAGCC
*
69391902 AATGTAAGACCATGTCTGGGACATGGCATCGGCA
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCA
69391936 TTACACCCTA
Statistics
Matches: 251, Mismatches: 39, Indels: 49
0.74 0.12 0.14
Matches are distributed among these distances:
44 11 0.04
45 46 0.18
46 46 0.18
47 57 0.23
48 26 0.10
49 64 0.25
50 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCACGAGATGTAAGCC
Found at i:69393101 original size:21 final size:20
Alignment explanation
Indices: 69393077--69393116 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
69393067 GTTATAATGA
*
69393077 CCACACGTGCGTGTTGCCCTT
1 CCACACGGGCGTG-TGCCCTT
*
69393098 CCACATGGGCGTGTGCCCT
1 CCACACGGGCGTGTGCCCT
69393117 ATTTCAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.10, C:0.38, G:0.28, T:0.25
Consensus pattern (20 bp):
CCACACGGGCGTGTGCCCTT
Found at i:69406360 original size:19 final size:19
Alignment explanation
Indices: 69406336--69406373 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
69406326 TATAATTCTT
69406336 TTACCTGCAAAAACTTTCG
1 TTACCTGCAAAAACTTTCG
*
69406355 TTACCTGCATAAACTTTCG
1 TTACCTGCAAAAACTTTCG
69406374 CTTATTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.11, T:0.34
Consensus pattern (19 bp):
TTACCTGCAAAAACTTTCG
Found at i:69412958 original size:3 final size:3
Alignment explanation
Indices: 69412950--69412974 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
69412940 AGATATTTAC
69412950 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
69412975 CAATTAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:69413132 original size:12 final size:12
Alignment explanation
Indices: 69413115--69413140 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
69413105 AAAGAAATAA
69413115 AATAAATAAAAG
1 AATAAATAAAAG
69413127 AATAAATAAAAG
1 AATAAATAAAAG
69413139 AA
1 AA
69413141 AGAAAAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (12 bp):
AATAAATAAAAG
Found at i:69413186 original size:15 final size:15
Alignment explanation
Indices: 69413136--69413190 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
69413126 GAATAAATAA
* *
69413136 AAGAAAGAAAAACAAG
1 AAGAAAGAAATA-GAG
*
69413152 AA-AAAGAAGTAGAG
1 AAGAAAGAAATAGAG
69413166 AAGAAACGAAATAGA-
1 AAGAAA-GAAATAGAG
69413181 AAGAAAGAAA
1 AAGAAAGAAA
69413191 GAAGAAAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
14 8 0.24
15 16 0.48
16 9 0.27
ACGTcount: A:0.71, C:0.04, G:0.22, T:0.04
Consensus pattern (15 bp):
AAGAAAGAAATAGAG
Found at i:69413215 original size:26 final size:25
Alignment explanation
Indices: 69413122--69413216 Score: 70
Period size: 26 Copynumber: 3.6 Consensus size: 25
69413112 TAAAATAAAT
*
69413122 AAAAGAATAAATA-AAAGAAAGAAAA-
1 AAAAGAA-AAAGAGAAAG-AAGAAAAG
* * *
69413147 ACAAGAAAAAGAAGTAGAGAAGAAACG
1 AAAAGAAAAAG-AG-AAAGAAGAAAAG
69413174 AAATAGAAAGAA-AGAAAGAAGAAAAG
1 AAA-AGAAA-AAGAGAAAGAAGAAAAG
69413200 AAAAGAAAAAGGAGAAA
1 AAAAGAAAAA-GAGAAA
69413217 TTAGGGTTTG
Statistics
Matches: 55, Mismatches: 7, Indels: 15
0.71 0.09 0.19
Matches are distributed among these distances:
24 5 0.09
25 12 0.22
26 24 0.44
27 7 0.13
28 5 0.09
29 2 0.04
ACGTcount: A:0.73, C:0.02, G:0.21, T:0.04
Consensus pattern (25 bp):
AAAAGAAAAAGAGAAAGAAGAAAAG
Found at i:69416077 original size:17 final size:17
Alignment explanation
Indices: 69416055--69416095 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
69416045 GGAATGATAG
69416055 TAAAATTATTAATTTGT
1 TAAAATTATTAATTTGT
69416072 TAAAATTATTAATTTGT
1 TAAAATTATTAATTTGT
*
69416089 TACAATT
1 TAAAATT
69416096 TAGTACAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.51
Consensus pattern (17 bp):
TAAAATTATTAATTTGT
Found at i:69426737 original size:25 final size:25
Alignment explanation
Indices: 69426689--69426736 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
69426679 TCAAAAGGTT
69426689 AAAAAATTATAAAAATTATTAAAAG
1 AAAAAATTATAAAAATTATTAAAAG
*
69426714 AAAAACTTAT-AAAATTATTAAAA
1 AAAAAATTATAAAAATTATTAAAA
69426737 ATATTTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (25 bp):
AAAAAATTATAAAAATTATTAAAAG
Found at i:69427133 original size:16 final size:17
Alignment explanation
Indices: 69427112--69427144 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
69427102 ACTCAATAAA
69427112 AAATAAAATGTC-CTAT
1 AAATAAAATGTCACTAT
*
69427128 AAATAAATTGTCACTAT
1 AAATAAAATGTCACTAT
69427145 TTTTTGACAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (17 bp):
AAATAAAATGTCACTAT
Found at i:69435684 original size:20 final size:19
Alignment explanation
Indices: 69435663--69435704 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
69435653 TTAAAAAATA
*
69435663 TATAAAT-TTTAGAATTTT
1 TATAAATATTTTGAATTTT
69435681 TATAAATATTTTGAATTTT
1 TATAAATATTTTGAATTTT
69435700 T-TAAA
1 TATAAA
69435705 ATCATTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:69435706 original size:19 final size:21
Alignment explanation
Indices: 69435668--69435726 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
69435658 AAATATATAA
69435668 ATTTTAGAA-TTTTTATAAAT-
1 ATTTT-GAATTTTTTATAAATC
69435688 ATTTTGAATTTTTTA-AAATC
1 ATTTTGAATTTTTTATAAATC
* *
69435708 ATTTTAAATTACTTTATAA
1 ATTTTGAATT-TTTTATAA
69435727 TTTTTATTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
19 7 0.21
20 20 0.61
21 4 0.12
22 2 0.06
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.54
Consensus pattern (21 bp):
ATTTTGAATTTTTTATAAATC
Found at i:69435711 original size:20 final size:20
Alignment explanation
Indices: 69435663--69435717 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
69435653 TTAAAAAATA
*
69435663 TATAAAT-TTTAGAA-TTTT
1 TATAAATATTTTGAATTTTT
69435681 TATAAATATTTTGAATTTTT
1 TATAAATATTTTGAATTTTT
*
69435701 TA-AAATCATTTTAAATT
1 TATAAAT-ATTTTGAATT
69435718 ACTTTATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 7 0.22
19 10 0.31
20 15 0.47
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (20 bp):
TATAAATATTTTGAATTTTT
Found at i:69437959 original size:48 final size:47
Alignment explanation
Indices: 69437889--69438111 Score: 196
Period size: 49 Copynumber: 4.6 Consensus size: 47
69437879 CCCCTATGCG
* * *
69437889 TTTGGGAGCAAAGTTTTATTATTA-CTTCCCTAAGCCTCTCTCAATACA
1 TTTGGGAG-AAGGTTTTATTATTACCTTCCGTAAGCCTCTCTC-ACACA
* * * * *
69437937 TTTGGGAGTAAGGTTTTGTTATTACCTTCCGTAAGCTTCCCCCTACGCA
1 TTTGGGAG-AAGGTTTTATTATTACCTTCCGTAAGCCTCTCTC-ACACA
* * *
69437986 TCTAGGAGAAAGGTTTTATTATTACCTTCCGTAAGCCTCCTCTCACACG
1 TTTGGGAG-AAGGTTTTATTATTACCTTCCGTAAGCCT-CTCTCACACA
* * **
69438035 TTTGGGAGAAGGGTTTTATTAATACCTTCCGTAAGCCTCCCATCGTACA
1 TTTGGGAGAA-GGTTTTATTATTACCTTCCGTAAGCCTCTC-TCACACA
* * *
69438084 TCTGGAAGCAAAGTTTTATTATTACCTT
1 TTTGGGAG-AAGGTTTTATTATTACCTT
69438112 TTGTAAGTGT
Statistics
Matches: 140, Mismatches: 30, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
48 25 0.18
49 110 0.79
50 5 0.04
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (47 bp):
TTTGGGAGAAGGTTTTATTATTACCTTCCGTAAGCCTCTCTCACACA
Found at i:69438061 original size:98 final size:97
Alignment explanation
Indices: 69437852--69438108 Score: 265
Period size: 98 Copynumber: 2.6 Consensus size: 97
69437842 CCAATAATGA
* ** * * * * * *
69437852 GTTTTATTATTACCTTTTGTTAGTCTCCCCCTATGCGTTTGGGAGCAAAGTTTTATTATTACTTC
1 GTTTTATTAATACCTTCCGTAAGCCTCCCCCTACGCATCTAGGAGCAAAGTTTTATTATTACTTC
*
69437917 CCTAAGCCTCTCTCAATACATTTGGGAGTAAG
66 CCTAAGCCTCTCTCAACACATTTGGGAGTAAG
* * *
69437949 GTTTTGTTATTACCTTCCGTAAGCTTCCCCCTACGCATCTAGGAG-AAAGGTTTTATTATTACCT
1 GTTTTATTAATACCTTCCGTAAGCCTCCCCCTACGCATCTAGGAGCAAA-GTTTTATTATTA-CT
* *
69438013 TCCGTAAGCCTCCTCTC-ACACGTTTGGGAG-AAGG
64 TCCCTAAGCCT-CTCTCAACACATTTGGGAGTAA-G
*
69438047 GTTTTATTAATACCTTCCGTAAGCCT-CCCAT-CGTACATCT-GGAAGCAAAGTTTTATTATTAC
1 GTTTTATTAATACCTTCCGTAAGCCTCCCCCTACG--CATCTAGG-AGCAAAGTTTTATTATTAC
69438109 CTTTTGTAAG
Statistics
Matches: 135, Mismatches: 17, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
96 5 0.04
97 56 0.41
98 66 0.49
99 8 0.06
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (97 bp):
GTTTTATTAATACCTTCCGTAAGCCTCCCCCTACGCATCTAGGAGCAAAGTTTTATTATTACTTC
CCTAAGCCTCTCTCAACACATTTGGGAGTAAG
Found at i:69438118 original size:98 final size:97
Alignment explanation
Indices: 69437893--69438111 Score: 270
Period size: 98 Copynumber: 2.2 Consensus size: 97
69437883 TATGCGTTTG
* * *
69437893 GGAGCAAAGTTTTATTATTA-CTTCCCTAAGCCTCTCTCAATACATTTGGGAGTAAGGTTTTGTT
1 GGAGCAAAGTTTTATTATTACCTTCCGTAAGCCTCTCTCAACACATTTGGGAGTAAGGTTTTATT
* *
69437957 ATTACCTTCCGTAAGCTTCCCCCTACGCATCTA
66 AATACCTTCCGTAAGCCTCCCCCTAC-CATCTA
*
69437990 GGAG-AAAGGTTTTATTATTACCTTCCGTAAGCCTCCTCTC-ACACGTTTGGGAG-AAGGGTTTT
1 GGAGCAAA-GTTTTATTATTACCTTCCGTAAGCCT-CTCTCAACACATTTGGGAGTAA-GGTTTT
*
69438052 ATTAATACCTTCCGTAAGCCTCCCATCGTA-CATCT-
63 ATTAATACCTTCCGTAAGCCTCCC--CCTACCATCTA
69438087 GGAAGCAAAGTTTTATTATTACCTT
1 GG-AGCAAAGTTTTATTATTACCTT
69438112 TTGTAAGTGT
Statistics
Matches: 107, Mismatches: 7, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
96 3 0.03
97 20 0.19
98 73 0.68
99 8 0.07
100 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (97 bp):
GGAGCAAAGTTTTATTATTACCTTCCGTAAGCCTCTCTCAACACATTTGGGAGTAAGGTTTTATT
AATACCTTCCGTAAGCCTCCCCCTACCATCTA
Found at i:69440669 original size:18 final size:18
Alignment explanation
Indices: 69440646--69440683 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
69440636 TAGCCGTGTG
*
69440646 TTCTTTCTCTTCTTTTCT
1 TTCTTTCTCTTCTTTCCT
*
69440664 TTCTTTCTTTTCTTTCCT
1 TTCTTTCTCTTCTTTCCT
69440682 TT
1 TT
69440684 TTAATTTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (18 bp):
TTCTTTCTCTTCTTTCCT
Found at i:69448803 original size:21 final size:20
Alignment explanation
Indices: 69448763--69448804 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
69448753 GGATTTAGAA
*
69448763 TTGAATTATAAATTTATTTT
1 TTGAATTATAAATGTATTTT
69448783 TTGAGATTA-AAATGTATTTT
1 TTGA-ATTATAAATGTATTTT
69448803 TT
1 TT
69448805 ATTAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (20 bp):
TTGAATTATAAATGTATTTT
Found at i:69451204 original size:19 final size:18
Alignment explanation
Indices: 69451176--69451211 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
69451166 AAGTTACCTT
69451176 CTTTGTTTCTGGTTTTGA
1 CTTTGTTTCTGGTTTTGA
*
69451194 CTTTGGTTTCTGTTTTTG
1 CTTT-GTTTCTGGTTTTG
69451212 TTTGTGGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.03, C:0.11, G:0.22, T:0.64
Consensus pattern (18 bp):
CTTTGTTTCTGGTTTTGA
Found at i:69454335 original size:11 final size:10
Alignment explanation
Indices: 69454315--69454350 Score: 63
Period size: 10 Copynumber: 3.5 Consensus size: 10
69454305 TTCATTTTCT
69454315 AAAAGCAAAAA
1 AAAAG-AAAAA
69454326 AAAAGAAAAA
1 AAAAGAAAAA
69454336 AAAAGAAAAA
1 AAAAGAAAAA
69454346 AAAAG
1 AAAAG
69454351 GTTTGGCACA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 20 0.80
11 5 0.20
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:69462077 original size:2 final size:2
Alignment explanation
Indices: 69462011--69462060 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
69462001 TACTCTGTAC
69462011 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
69462053 GA GA GA GA
1 GA GA GA GA
69462061 CTTGATGAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:69462734 original size:25 final size:27
Alignment explanation
Indices: 69462678--69462734 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
69462668 TTCTTCAATA
**
69462678 TAATTATTATAGGTATTTTAATAAATT
1 TAATTATTATAAATATTTTAATAAATT
*
69462705 AAATTATTATAAATA-TTT-ATAAATT
1 TAATTATTATAAATATTTTAATAAATT
69462730 TAATT
1 TAATT
69462735 TAAGTTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 11 0.42
26 3 0.12
27 12 0.46
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.51
Consensus pattern (27 bp):
TAATTATTATAAATATTTTAATAAATT
Found at i:69471210 original size:40 final size:40
Alignment explanation
Indices: 69471137--69471241 Score: 104
Period size: 40 Copynumber: 2.6 Consensus size: 40
69471127 ACTATGTTTG
* * *
69471137 GCACTTAGTGTGCGATTCGAGATAGCTTTGGCTATATAAA
1 GCACTTAGTGTGCGATACGAGATAACTTCGGCTATATAAA
* ***
69471177 GCACTTAGTGTGCGAATAGGA-ATAACTTCGGCTATATGTG
1 GCACTTAGTGTGCG-ATACGAGATAACTTCGGCTATATAAA
* *
69471217 GCACTAAGTGTGTGATACCGAGATA
1 GCACTTAGTGTGCGATA-CGAGATA
69471242 GTTTCAGTTT
Statistics
Matches: 52, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
39 3 0.06
40 42 0.81
41 7 0.13
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (40 bp):
GCACTTAGTGTGCGATACGAGATAACTTCGGCTATATAAA
Found at i:69475602 original size:25 final size:27
Alignment explanation
Indices: 69475565--69475617 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
69475555 TTAAACATGC
69475565 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
69475591 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
69475617 A
1 A
69475618 AAACTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:69477136 original size:26 final size:26
Alignment explanation
Indices: 69477106--69477187 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
69477096 TGAAATGCCC
69477106 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
69477132 ATCATGGAACATTTACCGAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
69477158 ATCATGGAACATTTACATAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
69477184 ATCA
1 ATCA
69477188 ATTTTTATCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.37, C:0.26, G:0.09, T:0.29
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:69483658 original size:25 final size:27
Alignment explanation
Indices: 69483621--69483673 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
69483611 TTAAACATGC
69483621 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
69483647 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
69483673 A
1 A
69483674 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:69485165 original size:40 final size:40
Alignment explanation
Indices: 69485067--69485329 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
69485057 TCCTCGTTCA
* * * * *
69485067 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
69485106 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
69485146 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCTCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
69485186 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
69485226 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
69485266 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
69485306 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
69485330 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:69485338 original size:41 final size:41
Alignment explanation
Indices: 69485261--69485338 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
69485251 TTAGTATCTC
* * *
69485261 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
69485302 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
69485339 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:69488355 original size:26 final size:26
Alignment explanation
Indices: 69488325--69488380 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
69488315 TGAAATGCCC
69488325 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
69488351 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
69488377 ATCA
1 ATCA
69488381 ATTTTTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:69489211 original size:15 final size:16
Alignment explanation
Indices: 69489183--69489213 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
69489173 GGATGTGAAT
69489183 TTGAGTAGTGAAATGG
1 TTGAGTAGTGAAATGG
69489199 TTGAGTA-TGAAATGG
1 TTGAGTAGTGAAATGG
69489214 CATGAAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (16 bp):
TTGAGTAGTGAAATGG
Found at i:69492946 original size:21 final size:20
Alignment explanation
Indices: 69492922--69492960 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
69492912 AAACTTGTTT
69492922 ATCTATCAACAAACATTCATA
1 ATCTATCAACAAA-ATTCATA
*
69492943 ATCTATCAATAAAATTCA
1 ATCTATCAACAAAATTCA
69492961 AAATACACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.49, C:0.21, G:0.00, T:0.31
Consensus pattern (20 bp):
ATCTATCAACAAAATTCATA
Found at i:69498612 original size:42 final size:43
Alignment explanation
Indices: 69498558--69498667 Score: 136
Period size: 43 Copynumber: 2.6 Consensus size: 43
69498548 ATTTACGTGC
* *
69498558 AAGACGATGTTTGGGACA-TCGGCATCG-TATTTGATTTCATGT
1 AAGACCATGTTTGGGACAGT-GGCATCGATATTTGATTACATGT
*
69498600 AAGACCATGTTTGGGATAGTGGCATCGATATTTGATTACATGT
1 AAGACCATGTTTGGGACAGTGGCATCGATATTTGATTACATGT
* *
69498643 AAGACCACGTCTGGGAC-GTTGGCAT
1 AAGACCATGTTTGGGACAG-TGGCAT
69498668 TGTACGAGCT
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
42 24 0.41
43 35 0.59
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.32
Consensus pattern (43 bp):
AAGACCATGTTTGGGACAGTGGCATCGATATTTGATTACATGT
Found at i:69498666 original size:43 final size:43
Alignment explanation
Indices: 69498523--69498667 Score: 134
Period size: 43 Copynumber: 3.4 Consensus size: 43
69498513 TAAGGTCACA
* * * * *
69498523 TCTGGGATGTTGGCATCGAT-TTGAGATTTACGTGCAAGACGATG
1 TCTGGGACGTTGGCATCGATATT-TGA-TTACATGTAAGACCATG
* * * *
69498567 TTTGGGACATCGGCATCG-TATTTGATTTCATGTAAGACCATG
1 TCTGGGACGTTGGCATCGATATTTGATTACATGTAAGACCATG
* * *
69498609 TTTGGGATAG-TGGCATCGATATTTGATTACATGTAAGACCACG
1 TCTGGGA-CGTTGGCATCGATATTTGATTACATGTAAGACCATG
69498652 TCTGGGACGTTGGCAT
1 TCTGGGACGTTGGCAT
69498668 TGTACGAGCT
Statistics
Matches: 81, Mismatches: 16, Indels: 9
0.76 0.15 0.08
Matches are distributed among these distances:
42 28 0.35
43 37 0.46
44 16 0.20
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (43 bp):
TCTGGGACGTTGGCATCGATATTTGATTACATGTAAGACCATG
Found at i:69501498 original size:30 final size:30
Alignment explanation
Indices: 69501464--69501530 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
69501454 ACTAGGGGAT
69501464 ACACGGCCGTGTAACATGCCCGTGTATCAC
1 ACACGGCCGTGTAACATGCCCGTGTATCAC
**
69501494 ACACGGCCGTGTAACATGCTTGTGTATCAC
1 ACACGGCCGTGTAACATGCCCGTGTATCAC
69501524 ACACGGC
1 ACACGGC
69501531 TGAGACACAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.21
Consensus pattern (30 bp):
ACACGGCCGTGTAACATGCCCGTGTATCAC
Found at i:69512245 original size:14 final size:15
Alignment explanation
Indices: 69512226--69512255 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
69512216 ATATTTAACT
69512226 TGTTCTTAATT-ATG
1 TGTTCTTAATTCATG
69512240 TGTTCTTAATTCATG
1 TGTTCTTAATTCATG
69512255 T
1 T
69512256 TTTGATATCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.20, C:0.10, G:0.13, T:0.57
Consensus pattern (15 bp):
TGTTCTTAATTCATG
Found at i:69514769 original size:174 final size:174
Alignment explanation
Indices: 69514478--69514803 Score: 589
Period size: 174 Copynumber: 1.9 Consensus size: 174
69514468 AACTCAAGGT
* *
69514478 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
69514543 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
69514608 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTTGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTTGCAC
*
69514652 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
69514717 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGTCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
*
69514782 ACTTTAAACTCGCACACTTAGT
131 ACTTTAAACTCACACACTTAGT
69514804 TCTGTACAAT
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 145 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTTGCAC
Found at i:69514797 original size:29 final size:29
Alignment explanation
Indices: 69514758--69514833 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 29
69514748 CTTAATAATC
69514758 AACCACGCACACTTAGTGTCATGTAC-TTTA
1 AACC-CGCACACTTAGTGTC-TGTACATTTA
*
69514788 AACTCGCACACTTAGT-TCTGTACAATTTA
1 AACCCGCACACTTAGTGTCTGTAC-ATTTA
69514817 AACCCGCACACTTAGTG
1 AACCCGCACACTTAGTG
69514834 CCAATCTCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
28 2 0.05
29 31 0.76
30 3 0.07
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (29 bp):
AACCCGCACACTTAGTGTCTGTACATTTA
Found at i:69522597 original size:45 final size:45
Alignment explanation
Indices: 69522530--69522763 Score: 359
Period size: 45 Copynumber: 5.2 Consensus size: 45
69522520 CGGACTTCGG
69522530 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
*
69522575 GCCTAGCAGGCTATGATACCGGTGAAATACTATTCGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
* *
69522620 GCCTAGCAGGCTATGATGCCGGTGAGATATTATTCGGGCCTTTGA
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
* *
69522665 GCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGG-CTTTCGA
1 GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTT-GA
* *
69522710 GCCTAGCAGGCTATAATGCCGGTGAAATGA-TA-TCGGGCC-TCGA
1 GCCTAGCAGGCTATGATGCCGGTGAAAT-ACTATTCGGGCCTTTGA
69522753 GCCTAGCAGGC
1 GCCTAGCAGGC
69522764 GAAATGCCAG
Statistics
Matches: 178, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
43 13 0.07
44 10 0.06
45 154 0.87
46 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (45 bp):
GCCTAGCAGGCTATGATGCCGGTGAAATACTATTCGGGCCTTTGA
Found at i:69529018 original size:40 final size:40
Alignment explanation
Indices: 69528963--69529140 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
69528953 TGGATGATAA
* * * *
69528963 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTA-TAT
69529003 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
69529043 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* * *
69529083 CCGGGCTATGTCCTGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
* *
69529123 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
69529141 TACTTGGCTT
Statistics
Matches: 125, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
39 15 0.12
40 110 0.88
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:69541515 original size:40 final size:40
Alignment explanation
Indices: 69541460--69541641 Score: 267
Period size: 40 Copynumber: 4.6 Consensus size: 40
69541450 TATTCGGATG
69541460 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
69541500 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
69541540 ATTTCCGGGCTAAGACCCGAAGGCATGTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
69541580 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGCG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
69541620 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
69541642 TACTTGGTTT
Statistics
Matches: 126, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 14 0.11
40 112 0.89
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:69548628 original size:23 final size:24
Alignment explanation
Indices: 69548567--69548645 Score: 83
Period size: 23 Copynumber: 3.4 Consensus size: 24
69548557 AGCTGATGGG
*
69548567 CAGTAAGCTCTAT-TGAGCTGAAA
1 CAGTAAGCTCTATACGAGCTGAAA
* * *
69548590 CGGTAAGCTCT-GACGAGCTGAAT
1 CAGTAAGCTCTATACGAGCTGAAA
*
69548613 CAGTAAGCT-TATACGAGATGAGAA
1 CAGTAAGCTCTATACGAGCTGA-AA
69548637 CAGTAAGCT
1 CAGTAAGCT
69548646 TTTACAAATT
Statistics
Matches: 45, Mismatches: 8, Indels: 5
0.78 0.14 0.09
Matches are distributed among these distances:
22 1 0.02
23 34 0.76
24 10 0.22
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (24 bp):
CAGTAAGCTCTATACGAGCTGAAA
Found at i:69552933 original size:27 final size:27
Alignment explanation
Indices: 69552892--69552945 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
69552882 TGTCATGTGA
* * *
69552892 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGACAAATTACTATTACATG
*
69552919 AATTGAATGATAAATTACTATTACATG
1 AATTGAATGACAAATTACTATTACATG
69552946 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (27 bp):
AATTGAATGACAAATTACTATTACATG
Found at i:69553324 original size:50 final size:49
Alignment explanation
Indices: 69553191--69553374 Score: 201
Period size: 50 Copynumber: 3.7 Consensus size: 49
69553181 ATCTATTGTG
* * *
69553191 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGACTACTACGTGTA-TCGATAA-TT
* * * **
69553242 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGACTACTACGTGTATC-GATAATT
* *
69553292 AGGTCACGTGTGTAGTACTAAGTGCAGACTACTACATGTACTGGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGACTACTACGTGTA-TCGATAATT
* *
69553342 -GGTCGA-ATGTGTAGTACTAAGTACAGACTACTA
1 AGGTC-ACGTGTGTAGTACTAAGTGCAGACTACTA
69553375 TGCATACCAG
Statistics
Matches: 115, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
49 29 0.25
50 46 0.40
51 40 0.35
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (49 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGACTACTACGTGTATCGATAATT
Found at i:69555126 original size:14 final size:14
Alignment explanation
Indices: 69555107--69555141 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
69555097 TGTTTCACTA
*
69555107 AAAATGGTTTTCAG
1 AAAATGATTTTCAG
*
69555121 AAAATGATTTTTAG
1 AAAATGATTTTCAG
69555135 AAAATGA
1 AAAATGA
69555142 CTTACTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.03, G:0.17, T:0.34
Consensus pattern (14 bp):
AAAATGATTTTCAG
Found at i:69556220 original size:14 final size:14
Alignment explanation
Indices: 69556203--69556229 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
69556193 GTAAAACAAT
69556203 GAAAATATTTTACA
1 GAAAATATTTTACA
69556217 GAAAATATTTTAC
1 GAAAATATTTTAC
69556230 TTACAAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (14 bp):
GAAAATATTTTACA
Found at i:69558551 original size:22 final size:22
Alignment explanation
Indices: 69558513--69558554 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
69558503 GGGTGGACTG
69558513 TTTTGGGGAGAAGATTAAGGGA
1 TTTTGGGGAGAAGATTAAGGGA
*
69558535 TTTTGGTGAGGAA-ATTAAGG
1 TTTTGGGGA-GAAGATTAAGG
69558555 AGTGAGGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.31, C:0.00, G:0.38, T:0.31
Consensus pattern (22 bp):
TTTTGGGGAGAAGATTAAGGGA
Found at i:69580756 original size:56 final size:56
Alignment explanation
Indices: 69580674--69580792 Score: 168
Period size: 56 Copynumber: 2.1 Consensus size: 56
69580664 TTACTCGTAA
* * * *
69580674 ACACATA-TCGAATCACATATCAATGCCAACGTATTAAACGTGGTCTTACTCACAC
1 ACACATATTGGAATCAAATATCAATGCCAACGTATTAAACATGGTCTAACTCACAC
* * *
69580729 ATACATATTGGAATCAAATATCGATGCCAACGTATTAAACATGGTCTAACTCGCAC
1 ACACATATTGGAATCAAATATCAATGCCAACGTATTAAACATGGTCTAACTCACAC
69580785 ACACATAT
1 ACACATAT
69580793 CATACAATGC
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
55 6 0.11
56 49 0.89
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (56 bp):
ACACATATTGGAATCAAATATCAATGCCAACGTATTAAACATGGTCTAACTCACAC
Done.