Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 13 of 189
Found at i:4236816 original size:15 final size:15
Alignment explanation
Indices: 4236784--4236826 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
4236774 ATTTTGAATT
*
4236784 TTTAGAATTTTT-TA
1 TTTAAAATTTTTATA
*
4236798 TTTAAAATTTTTATG
1 TTTAAAATTTTTATA
4236813 TTTAAAATATTTTA
1 TTTAAAAT-TTTTA
4236827 ACCTAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 11 0.44
15 9 0.36
16 5 0.20
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (15 bp):
TTTAAAATTTTTATA
Found at i:4237245 original size:9 final size:9
Alignment explanation
Indices: 4237228--4237264 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
4237218 TGAGTTTTCG
4237228 AATTCGAAT
1 AATTCGAAT
*
4237237 AACTCGAAT
1 AATTCGAAT
4237246 AATTCGAAT
1 AATTCGAAT
4237255 AATTCGAAT
1 AATTCGAAT
4237264 A
1 A
4237265 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:4237517 original size:30 final size:31
Alignment explanation
Indices: 4237483--4237542 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
4237473 AAACCTTTTA
*
4237483 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
4237513 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
4237543 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:4244033 original size:30 final size:28
Alignment explanation
Indices: 4243997--4244092 Score: 84
Period size: 31 Copynumber: 3.1 Consensus size: 28
4243987 TATTTTTAAA
4243997 AAAAATTATAAAATATATAGAAAATTATTT
1 AAAAATTATAAAAT-TATA-AAAATTATTT
* *
4244027 AAAAATTATCAAGAATTATAATAATTTTTT
1 AAAAATTAT-AA-AATTATAAAAATTATTT
* *
4244057 AAAAAAGTATTAAAATTTAATAAAAGTTATTT
1 -AAAAATTA-TAAAA-TT-ATAAAAATTATTT
4244089 AAAA
1 AAAA
4244093 TTACATTAGA
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
30 19 0.35
31 21 0.39
32 14 0.26
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (28 bp):
AAAAATTATAAAATTATAAAAATTATTT
Found at i:4244090 original size:21 final size:18
Alignment explanation
Indices: 4244054--4244094 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 18
4244044 ATAATAATTT
4244054 TTTAAAAAAGTATTAAAA
1 TTTAAAAAAGTATTAAAA
4244072 TTTAATAAAAGTTATTTAAAA
1 TTTAA-AAAAG-TA-TTAAAA
4244093 TT
1 TT
4244095 ACATTAGACA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 5 0.25
20 2 0.10
21 8 0.40
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (18 bp):
TTTAAAAAAGTATTAAAA
Found at i:4244505 original size:10 final size:10
Alignment explanation
Indices: 4244482--4244583 Score: 77
Period size: 10 Copynumber: 10.4 Consensus size: 10
4244472 TAATTAATTA
4244482 AATTTTTAAT
1 AATTTTTAAT
*
4244492 -ATTTTTATT
1 AATTTTTAAT
4244501 AATTTTTAAT
1 AATTTTTAAT
* *
4244511 AA-TTTCAGT
1 AATTTTTAAT
*
4244520 AATTTTTTTAT
1 AA-TTTTTAAT
*
4244531 AATTATTAAT
1 AATTTTTAAT
4244541 -ATTTTTAAAT
1 AATTTTT-AAT
**
4244551 AATTTTCCAT
1 AATTTTTAAT
*
4244561 -ATTTTCAAT
1 AATTTTTAAT
*
4244570 AATTTTTTAT
1 AATTTTTAAT
4244580 AATT
1 AATT
4244584 ATTTGAAAAA
Statistics
Matches: 71, Mismatches: 15, Indels: 12
0.72 0.15 0.12
Matches are distributed among these distances:
9 28 0.39
10 32 0.45
11 11 0.15
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (10 bp):
AATTTTTAAT
Found at i:4244515 original size:20 final size:20
Alignment explanation
Indices: 4244482--4244583 Score: 77
Period size: 19 Copynumber: 5.2 Consensus size: 20
4244472 TAATTAATTA
*
4244482 AATTTTTAAT-ATTTTTATT
1 AATTTTTAATAATTTTTAAT
* *
4244501 AATTTTTAATAA-TTTCAGT
1 AATTTTTAATAATTTTTAAT
* *
4244520 AATTTTTTTATAATTATTAAT
1 AA-TTTTTAATAATTTTTAAT
**
4244541 -ATTTTTAAATAATTTTCCAT
1 AATTTTT-AATAATTTTTAAT
* *
4244561 -ATTTTCAATAATTTTTTAT
1 AATTTTTAATAATTTTTAAT
4244580 AATT
1 AATT
4244584 ATTTGAAAAA
Statistics
Matches: 65, Mismatches: 13, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
19 33 0.51
20 28 0.43
21 4 0.06
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (20 bp):
AATTTTTAATAATTTTTAAT
Found at i:4244545 original size:19 final size:20
Alignment explanation
Indices: 4244472--4244554 Score: 59
Period size: 19 Copynumber: 4.2 Consensus size: 20
4244462 TATTTATTTT
4244472 TAATTAATTAA-ATTTTTAA
1 TAATTAATTAATATTTTTAA
* *
4244491 T-ATT-TTTATTAATTTTTAA
1 TAATTAATTAAT-ATTTTTAA
* * *
4244510 TAATTTCAGTAAT-TTTTTTA
1 TAA-TTAATTAATATTTTTAA
4244530 TAATT-ATTAATATTTTTAAA
1 TAATTAATTAATATTTTT-AA
4244550 TAATT
1 TAATT
4244555 TTCCATATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 13
0.70 0.11 0.19
Matches are distributed among these distances:
17 3 0.06
18 8 0.16
19 17 0.35
20 16 0.33
21 2 0.04
22 3 0.06
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (20 bp):
TAATTAATTAATATTTTTAA
Found at i:4244554 original size:31 final size:29
Alignment explanation
Indices: 4244463--4244556 Score: 93
Period size: 28 Copynumber: 3.2 Consensus size: 29
4244453 AATTTTGGTT
4244463 ATTTATTTTTAATTAATTAA-ATTTTTAAT-
1 ATTT-TTTTTAATT-ATTAATATTTTTAATA
* * * * *
4244492 ATTTTTATTAATTTTTAATAATTTCAGTA
1 ATTTTTTTTAATTATTAATATTTTTAATA
4244521 ATTTTTTTATAATTATTAATATTTTTAAATA
1 ATTTTTTT-TAATTATTAATATTTTT-AATA
4244552 ATTTT
1 ATTTT
4244557 CCATATTTTC
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
27 4 0.08
28 14 0.27
29 11 0.22
30 14 0.27
31 8 0.16
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (29 bp):
ATTTTTTTTAATTATTAATATTTTTAATA
Found at i:4244576 original size:49 final size:49
Alignment explanation
Indices: 4244482--4244586 Score: 140
Period size: 49 Copynumber: 2.1 Consensus size: 49
4244472 TAATTAATTA
* * * *
4244482 AATTTTTAATATTTTTATTAATTTTTAATAATTTCAGTAATTTTTTTAT
1 AATTATTAATATTTTTAATAATTTTCAATAATTTCAATAATTTTTTTAT
* *
4244531 AATTATTAATATTTTTAAATAATTTTCCATATTTTCAATAA-TTTTTTAT
1 AATTATTAATATTTTT-AATAATTTTCAATAATTTCAATAATTTTTTTAT
4244580 AATTATT
1 AATTATT
4244587 TGAAAAACCA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
49 30 0.61
50 19 0.39
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.60
Consensus pattern (49 bp):
AATTATTAATATTTTTAATAATTTTCAATAATTTCAATAATTTTTTTAT
Found at i:4245237 original size:19 final size:19
Alignment explanation
Indices: 4245213--4245290 Score: 93
Period size: 19 Copynumber: 4.1 Consensus size: 19
4245203 ATTCCCAAAC
*
4245213 TAATTTTCGTCAGAAATGG
1 TAATTTTTGTCAGAAATGG
* *
4245232 TAATTTTTGTGAGAAATGAT
1 TAATTTTTGTCAGAAATG-G
* * *
4245252 TAGTTTTTGTCAAAAACGG
1 TAATTTTTGTCAGAAATGG
4245271 TAATTTTTGTCAGAAATGG
1 TAATTTTTGTCAGAAATGG
4245290 T
1 T
4245291 TGGAAACAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
19 33 0.70
20 14 0.30
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.41
Consensus pattern (19 bp):
TAATTTTTGTCAGAAATGG
Found at i:4248175 original size:9 final size:9
Alignment explanation
Indices: 4248161--4248194 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
4248151 TTACTCACAT
4248161 TTTTAAAAC
1 TTTTAAAAC
4248170 TTTTAAAAC
1 TTTTAAAAC
*
4248179 TTGTAAAA-
1 TTTTAAAAC
4248187 TTTTAAAA
1 TTTTAAAA
4248195 AAGGGGCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (9 bp):
TTTTAAAAC
Found at i:4249712 original size:13 final size:13
Alignment explanation
Indices: 4249660--4249712 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
4249650 AGTTCTTCAT
*
4249660 TGCTTTTGAAAAG
1 TGCTTTTAAAAAG
* * *
4249673 TGCTATGAAAAAA
1 TGCTTTTAAAAAG
* *
4249686 TGCTTTTTAGAAG
1 TGCTTTTAAAAAG
4249699 TGCTTTTAAAAAG
1 TGCTTTTAAAAAG
4249712 T
1 T
4249713 TTGGTTTAAA
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.38
Consensus pattern (13 bp):
TGCTTTTAAAAAG
Found at i:4254396 original size:13 final size:13
Alignment explanation
Indices: 4254380--4254409 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4254370 AGTTTTTATT
*
4254380 TTTATTTATTTTG
1 TTTATTTATTTGG
4254393 TTTATTTATTTGG
1 TTTATTTATTTGG
4254406 TTTA
1 TTTA
4254410 AATTCATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (13 bp):
TTTATTTATTTGG
Found at i:4258646 original size:8 final size:8
Alignment explanation
Indices: 4258635--4258669 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
4258625 AAACGAAAAG
4258635 AAAAATGA
1 AAAAATGA
4258643 AAAAATGA
1 AAAAATGA
4258651 AAAAATGA
1 AAAAATGA
4258659 AAAAA-GA
1 AAAAATGA
4258666 AAAA
1 AAAA
4258670 GAAAAAGGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.80, C:0.00, G:0.11, T:0.09
Consensus pattern (8 bp):
AAAAATGA
Found at i:4258656 original size:16 final size:15
Alignment explanation
Indices: 4258630--4258669 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
4258620 GAAAAAAACG
4258630 AAAAG-AAAAATGAA
1 AAAAGAAAAAATGAA
4258644 AAAATGAAAAAATGAA
1 AAAA-GAAAAAATGAA
4258660 AAAAGAAAAA
1 AAAAGAAAAA
4258670 GAAAAAGGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.17
15 7 0.29
16 13 0.54
ACGTcount: A:0.80, C:0.00, G:0.12, T:0.07
Consensus pattern (15 bp):
AAAAGAAAAAATGAA
Found at i:4258676 original size:6 final size:7
Alignment explanation
Indices: 4258630--4258675 Score: 58
Period size: 8 Copynumber: 6.4 Consensus size: 7
4258620 GAAAAAAACG
4258630 AAAAGAA
1 AAAAGAA
*
4258637 AAATGAA
1 AAAAGAA
4258644 AAAATGAA
1 AAAA-GAA
4258652 AAAATGAA
1 AAAA-GAA
4258660 AAAAG-A
1 AAAAGAA
4258666 AAAAGAA
1 AAAAGAA
4258673 AAA
1 AAA
4258676 GGAGAGGCCA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 6 0.17
7 14 0.40
8 15 0.43
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (7 bp):
AAAAGAA
Found at i:4260116 original size:3 final size:3
Alignment explanation
Indices: 4260098--4260148 Score: 52
Period size: 3 Copynumber: 17.0 Consensus size: 3
4260088 TTAAATACTC
* *
4260098 TTA TTA TTT TTA -TA TTA TTAA TT- TTA TTA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
4260142 TGTA TTA
1 T-TA TTA
4260149 GTTTATGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 4 0.10
3 30 0.75
4 6 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:4260128 original size:15 final size:15
Alignment explanation
Indices: 4260098--4260148 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
4260088 TTAAATACTC
*
4260098 TTATTATTTTTA-TA
1 TTATTAATTTTATTA
4260112 TTATTAATTTTATTA
1 TTATTAATTTTATTA
*
4260127 TTATTAATATTATTA
1 TTATTAATTTTATTA
4260142 TGTATTA
1 T-TATTA
4260149 GTTTATGTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.33
15 17 0.52
16 5 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (15 bp):
TTATTAATTTTATTA
Found at i:4260567 original size:27 final size:27
Alignment explanation
Indices: 4260522--4260573 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
4260512 TATTAGTTAC
*
4260522 GCATATATTCTTTACATTATCTTATGT
1 GCATATATTCTTTACATTATATTATGT
*
4260549 GCATATATT-TTTCATATTATATTAT
1 GCATATATTCTTT-ACATTATATTAT
4260574 ATACCTATCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 3 0.14
27 19 0.86
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.54
Consensus pattern (27 bp):
GCATATATTCTTTACATTATATTATGT
Found at i:4261932 original size:108 final size:108
Alignment explanation
Indices: 4261743--4261938 Score: 322
Period size: 108 Copynumber: 1.8 Consensus size: 108
4261733 TTTGTATTCT
4261743 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAATTTTCATCTT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAATTTTCATCTT
4261808 ATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCTC
66 ATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCTC
* ** *
4261851 AGCAAAATTTGCTATCTTGATTGATTTGTTTGTTTAGAGCTTTGCTCTCAACAAAATTTT-ATTT
1 AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAAC-AAATTTTCATCT
* *
4261915 TGTCCATTTTGATAATCTTTTTCA
65 TATCCATTGTGATAATCTTTTTCA
4261939 AGCATTTTTC
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
108 74 0.91
109 7 0.09
ACGTcount: A:0.25, C:0.17, G:0.11, T:0.47
Consensus pattern (108 bp):
AGCAAAATTTGCTATCTTGATTAATTTGTTCATTTAGAGCTTTGCTCTCAACAAATTTTCATCTT
ATCCATTGTGATAATCTTTTTCATCTTATTCATCTCGTATCTC
Found at i:4262569 original size:87 final size:87
Alignment explanation
Indices: 4262383--4263245 Score: 1160
Period size: 87 Copynumber: 9.9 Consensus size: 87
4262373 AAATAGATTA
* * *
4262383 TTGCCTCCATCGGTTGCAATGGAGCTGGTCAAAGATAGTAGATCTTACCTT-CTGCATTAACAGC
1 TTGCCTCCATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGC
* * *
4262447 GAAGCAGATCGAAAAAAAAACA
66 GAAGCAGATCGAAAACAAAGCC
* * *
4262469 TTGCCTCCATCGTTTGCAGTGGAGCTGGTCAAAGAGAGCAAATCTTGCCTTCCTGCATTAACAGC
1 TTGCCTCCATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGC
* *
4262534 GAAGCAGATCAAAAACAAAACC
66 GAAGCAGATCGAAAACAAAGCC
* * * * ** * *
4262556 TTGCCTCCCTCGTTTGTAGTGGAGCCGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTAACCGC
1 TTGCCTCCATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGC
4262621 GAAGCAGATCGAAAACAAAGCC
66 GAAGCAGATCGAAAACAAAGCC
4262643 TTGCCTCCATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGC
1 TTGCCTCCATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGC
*
4262708 GAAGCAGATCGAAAACAAAGCA
66 GAAGCAGATCGAAAACAAAGCC
* * ** *
4262730 TTTCCTCCATCGGTTGCAGTGGAGTTGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTAACAGC
1 TTGCCTCCATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGC
4262795 GAAGCAGATCGAAAACAAAGCC
66 GAAGCAGATCGAAAACAAAGCC
*
4262817 TTACCTCCATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGC
1 TTGCCTCCATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGC
*
4262882 GAAGCAGATCAAAAACAAAGCC
66 GAAGCAGATCGAAAACAAAGCC
*
4262904 TTACCTCCATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGC
1 TTGCCTCCATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGC
4262969 GAAGCAGATCGAAAACAAAGCC
66 GAAGCAGATCGAAAACAAAGCC
* ** ** *
4262991 TTTCCTCCATCGGTTGCAGTGGAATTGGTTGAAGACAGCAGATCTTGCCTTCCTGCATTAACAGC
1 TTGCCTCCATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGC
4263056 GAAGCAGATCGAACACACAAA-CC
66 GAAGCAGATCGAA-A-ACAAAGCC
* * ** ** * *
4263079 TTGCTTCTC-TCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATTAACAG
1 TTGCCTC-CATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACAG
4263143 CGAAGCAGATCGAAGACACAAA-CC
65 CGAAGCAGATCGAA-A-ACAAAGCC
* * ** * * * * **
4263167 TTGCCTCTC-TCGTTTGTAGCAGAACTGGTTAAAGATAGCAGATATTGCCTTCCTGTATTTGGCA
1 TTGCCTC-CATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGCA-TTAACA
4263231 GCGAAGCAGATCGAA
64 GCGAAGCAGATCGAA
4263246 GATGGCAGAT
Statistics
Matches: 706, Mismatches: 66, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
86 45 0.06
87 507 0.72
88 129 0.18
89 25 0.04
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (87 bp):
TTGCCTCCATCGGTTGCAGTGGAGCTGGTCAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGC
GAAGCAGATCGAAAACAAAGCC
Found at i:4263160 original size:45 final size:45
Alignment explanation
Indices: 4263021--4263160 Score: 128
Period size: 45 Copynumber: 3.2 Consensus size: 45
4263011 GGAATTGGTT
*
4263021 GAAGACAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATC
1 GAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATC
* * * * ** * * *
4263066 GAACAC-ACAAACCTTG-CTTCTCT-CGGTT-GTAGC-AGAGCTGGTT
1 GAAGACAACAGATCTTGCCTTC-CTGC-ATTAACAGCGA-AGCAGATC
4263109 GAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATC
1 GAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATC
4263154 GAAGACA
1 GAAGACA
4263161 CAAACCTTGC
Statistics
Matches: 68, Mismatches: 19, Indels: 16
0.66 0.18 0.16
Matches are distributed among these distances:
42 1 0.01
43 18 0.26
44 23 0.34
45 25 0.37
46 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.22, T:0.21
Consensus pattern (45 bp):
GAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATC
Found at i:4263268 original size:46 final size:46
Alignment explanation
Indices: 4263198--4263402 Score: 109
Period size: 46 Copynumber: 4.5 Consensus size: 46
4263188 GAACTGGTTA
* * * *
4263198 AAGATAGCAGATATTGCCTTCCTGTATTTGGCAGCGAAGCAGATCG
1 AAGATGGCAGATTTTACCTCCCTGTATTTGGCAGCGAAGCAGATCG
* * * * * * *
4263244 AAGATGGCAGATTTTACCTCCCTGTGA-CT-ACAGTGGAGTACATTG
1 AAGATGGCAGATTTTACCTCCCTGT-ATTTGGCAGCGAAGCAGATCG
* * * * * * * * *
4263289 AAG-TCG-ATAACTCTATCTCCCTG--GTTGGCAGTGGAA-TAGATTG
1 AAGATGGCA-GATTTTACCTCCCTGTATTTGGCAG-CGAAGCAGATCG
* * * * *
4263332 AAGATTGCAGATCTTGCTTTCCTGTATTTGGCAGCGAAGCAGATCG
1 AAGATGGCAGATTTTACCTCCCTGTATTTGGCAGCGAAGCAGATCG
4263378 AAGATGGCAGATTTTACCTCCCTGT
1 AAGATGGCAGATTTTACCTCCCTGT
4263403 GACTACAGTG
Statistics
Matches: 110, Mismatches: 39, Indels: 20
0.65 0.23 0.12
Matches are distributed among these distances:
42 1 0.01
43 13 0.12
44 24 0.22
45 17 0.15
46 54 0.49
47 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (46 bp):
AAGATGGCAGATTTTACCTCCCTGTATTTGGCAGCGAAGCAGATCG
Found at i:4263378 original size:134 final size:134
Alignment explanation
Indices: 4263198--4263874 Score: 792
Period size: 134 Copynumber: 5.1 Consensus size: 134
4263188 GAACTGGTTA
* *
4263198 AAGATAGCAGATATTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCT
1 AAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCT
* ** ****
4263263 CCCTGTGACTACAGTGGAGTACATTGAAGTCGATAACTCTATCTCCCTGGTTGGCAGTGGAATAG
66 CCCTGTGACTACAGTGGAGTACATTGAAGCCGATAGTTCTATCTCCCTGGGCAACAGTGGAATAG
*
4263328 ATTG
131 ATCG
*
4263332 AAGATTGCAGATCTTGCTTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCT
1 AAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCT
*
4263397 CCCTGTGACTACAGTGGAGTACATTGAAGCCGATAGTTCTATCTTCCTGGGCAACAGTGGAATAG
66 CCCTGTGACTACAGTGGAGTACATTGAAGCCGATAGTTCTATCTCCCTGGGCAACAGTGGAATAG
4263462 ATCG
131 ATCG
* ** * * * * * * *
4263466 AAGATTACAGATCTTATCTCCCTAAGCA-AT---AGTGGAGCAGGTCGAAGATGGCGGATTTTAC
1 AAGATTGCAGATCTTGCCTTCCT--GTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTAC
* * *
4263527 CTCCC--TGATTACGGTGGAGTACATTAAAGCC-AGTAGTTCTATCTCCCTGGGCAACAGTGGAA
64 CTCCCTGTGACTACAGTGGAGTACATTGAAGCCGA-TAGTTCTATCTCCCTGGGCAACAGTGGAA
4263589 TAGAGT-G
128 TAGA-TCG
4263596 AAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCT
1 AAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCT
*
4263661 CCCTGTGACTACAGTGGAGTACATTGAAGCCGATAGTTCTATCTTCCTGGGCAACAGTGGAATAG
66 CCCTGTGACTACAGTGGAGTACATTGAAGCCGATAGTTCTATCTCCCTGGGCAACAGTGGAATAG
4263726 ATCG
131 ATCG
* ** * * * * * * *
4263730 AAGATTACAGATCTTATCTCCCTAAGCA-AT---AGTGGAGCAGGTCGAAGATGGCGGATTTTAC
1 AAGATTGCAGATCTTGCCTTCCT--GTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTAC
* * * * *
4263791 CTCCC--TGATTACGGTAGAGTACATTAAAGCC-AGTAGTTCTATCTCCCTAGGCAACAGTGGAA
64 CTCCCTGTGACTACAGTGGAGTACATTGAAGCCGA-TAGTTCTATCTCCCTGGGCAACAGTGGAA
4263853 TAGAGT-G
128 TAGA-TCG
*
4263860 AAGATTACAGATCTT
1 AAGATTGCAGATCTT
4263875 ATCTCCCTAA
Statistics
Matches: 470, Mismatches: 57, Indels: 36
0.83 0.10 0.06
Matches are distributed among these distances:
128 2 0.00
129 3 0.01
130 144 0.31
131 2 0.00
132 96 0.20
133 1 0.00
134 215 0.46
135 3 0.01
136 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (134 bp):
AAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGCGAAGCAGATCGAAGATGGCAGATTTTACCT
CCCTGTGACTACAGTGGAGTACATTGAAGCCGATAGTTCTATCTCCCTGGGCAACAGTGGAATAG
ATCG
Found at i:4263605 original size:264 final size:264
Alignment explanation
Indices: 4263235--4263874 Score: 1093
Period size: 264 Copynumber: 2.4 Consensus size: 264
4263225 TTGGCAGCGA
* * * * * * *
4263235 AGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGTC-GATAA
1 AGCAGGTCGAAGATGGCGGATTTTACCTCCC--TGATTACGGTGGAGTACATTAAAGCCAG-TAG
* **** * *
4263299 CTCTATCTCCCTGGTTGGCAGTGGAATAGATTGAAGATTGCAGATCTTGCTTTCCTGTATTTGGC
63 TTCTATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGC
4263364 AGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCG
128 AGCGAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCG
4263429 ATAGTTCTATCTTCCTGGGCAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCA
193 ATAGTTCTATCTTCCTGGGCAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCA
4263494 ATAGTGG
258 ATAGTGG
4263501 AGCAGGTCGAAGATGGCGGATTTTACCTCCCTGATTACGGTGGAGTACATTAAAGCCAGTAGTTC
1 AGCAGGTCGAAGATGGCGGATTTTACCTCCCTGATTACGGTGGAGTACATTAAAGCCAGTAGTTC
4263566 TATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGC
66 TATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGC
4263631 GAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATA
131 GAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATA
4263696 GTTCTATCTTCCTGGGCAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATA
196 GTTCTATCTTCCTGGGCAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATA
4263761 GTGG
261 GTGG
*
4263765 AGCAGGTCGAAGATGGCGGATTTTACCTCCCTGATTACGGTAGAGTACATTAAAGCCAGTAGTTC
1 AGCAGGTCGAAGATGGCGGATTTTACCTCCCTGATTACGGTGGAGTACATTAAAGCCAGTAGTTC
* *
4263830 TATCTCCCTAGGCAACAGTGGAATAGAGTGAAGATTACAGATCTT
66 TATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATTGCAGATCTT
4263875 ATCTCCCTAA
Statistics
Matches: 356, Mismatches: 17, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
264 326 0.92
265 1 0.00
266 29 0.08
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (264 bp):
AGCAGGTCGAAGATGGCGGATTTTACCTCCCTGATTACGGTGGAGTACATTAAAGCCAGTAGTTC
TATCTCCCTGGGCAACAGTGGAATAGAGTGAAGATTGCAGATCTTGCCTTCCTGTATTTGGCAGC
GAAGCAGATCGAAGATGGCAGATTTTACCTCCCTGTGACTACAGTGGAGTACATTGAAGCCGATA
GTTCTATCTTCCTGGGCAACAGTGGAATAGATCGAAGATTACAGATCTTATCTCCCTAAGCAATA
GTGG
Found at i:4264579 original size:82 final size:82
Alignment explanation
Indices: 4263871--4264557 Score: 980
Period size: 82 Copynumber: 8.4 Consensus size: 82
4263861 AGATTACAGA
* * * * *
4263871 TCTTATCTCCCTAAGAAATAGTGGAGCAGATC-GCATCA-AG-TCTTATCTCCCTAAGTAATAGC
1 TCTTATCTCCCTAAGCAATAGTGGAGCAGA-CAGAACCACAGATCTTATCTCCCTAAGCAATAGT
* * * *
4263933 AGAGCACA-CAGAACCACAGG
65 GGAGCAGATC-GCATCA-A-G
* * *
4263953 TCTTATCTCCCTAAGCAGTAGTGGAGCAGATC-GCATCA-AG-TCTTATCTCCCTAAGCAATAGT
1 TCTTATCTCCCTAAGCAATAGTGGAGCAGA-CAGAACCACAGATCTTATCTCCCTAAGCAATAGT
* *
4264015 GGAGCAGA-CAGAACCACAG
65 GGAGCAGATC-GCATCA-AG
4264034 ATCTTATCTCCCTAAGCAATAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAATAGT
1 -TCTTATCTCCCTAAGCAATAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAATAGT
4264099 GGAGCAGATCGCATCAAG
65 GGAGCAGATCGCATCAAG
*
4264117 TCTTATCTCCCTAAGCAATAGTAGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAATAGTG
1 TCTTATCTCCCTAAGCAATAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAATAGTG
4264182 GAGCAGATCGCATCAAG
66 GAGCAGATCGCATCAAG
*
4264199 TCTTATCTCCCTAAGCAATAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTG
1 TCTTATCTCCCTAAGCAATAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAATAGTG
4264264 GAGCAGATCGCATCAAG
66 GAGCAGATCGCATCAAG
* * *
4264281 TCTTACCT-CCTAAAGCAATAGTGGAGCAGACAGAACCACAGATCATATCTCCTTAAGCAATAGT
1 TCTTATCTCCCT-AAGCAATAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAATAGT
4264345 GGAGCAGATCGCATCAAG
65 GGAGCAGATCGCATCAAG
*
4264363 TCTTATCTCCCTAAGCAATAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAGTAGTG
1 TCTTATCTCCCTAAGCAATAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAATAGTG
4264428 GAGCAGATCGCATCAAG
66 GAGCAGATCGCATCAAG
* *
4264445 TCTTATCTCCCTAAGCAATAGTGGAGTAGACAGAACCACAGATCTTAT-TCCCCTAAGCAGTAGT
1 TCTTATCTCCCTAAGCAATAGTGGAGCAGACAGAACCACAGATCTTATCT-CCCTAAGCAATAGT
* * *
4264509 GGAGTAGATCACATCCAG
65 GGAGCAGATCGCATCAAG
*
4264527 TCTTATCTCCCTAAGCAGTAGTGGAGCAGAC
1 TCTTATCTCCCTAAGCAATAGTGGAGCAGAC
4264558 TAAAAACACA
Statistics
Matches: 569, Mismatches: 28, Indels: 16
0.93 0.05 0.03
Matches are distributed among these distances:
81 6 0.01
82 521 0.92
83 7 0.01
84 34 0.06
85 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (82 bp):
TCTTATCTCCCTAAGCAATAGTGGAGCAGACAGAACCACAGATCTTATCTCCCTAAGCAATAGTG
GAGCAGATCGCATCAAG
Found at i:4266171 original size:13 final size:13
Alignment explanation
Indices: 4266155--4266184 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
4266145 AGTTTTTATT
*
4266155 TTTATTTATTTTG
1 TTTATTTATTTGG
4266168 TTTATTTATTTGG
1 TTTATTTATTTGG
4266181 TTTA
1 TTTA
4266185 AATTCATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (13 bp):
TTTATTTATTTGG
Found at i:4269745 original size:19 final size:21
Alignment explanation
Indices: 4269721--4269760 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
4269711 TCAACAACAA
4269721 TTTTTT-TCAAATTTT-TATT
1 TTTTTTCTCAAATTTTATATT
4269740 TTTTTTCTCAAATTTTATATT
1 TTTTTTCTCAAATTTTATATT
4269761 AAAAATTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.32
20 9 0.47
21 4 0.21
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTTTCTCAAATTTTATATT
Found at i:4274063 original size:22 final size:22
Alignment explanation
Indices: 4274004--4274100 Score: 63
Period size: 21 Copynumber: 4.3 Consensus size: 22
4273994 TCATTCTATG
* *
4274004 TTAAAAATACATAA-TTATAAA
1 TTAATAATAAATAATTTATAAA
* * *
4274025 TTAATAATATATGATTTATAAT
1 TTAATAATAAATAATTTATAAA
* *
4274047 TTACTAATAAATAATTTTGTTTATAAT
1 TTAATAATAAATAA-----TTTATAAA
*
4274074 TTAAAAATAAATAA-TTATAAA
1 TTAATAATAAATAATTTATAAA
4274095 TTAATA
1 TTAATA
4274101 GTATTGATGG
Statistics
Matches: 59, Mismatches: 11, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
21 22 0.37
22 17 0.29
27 20 0.34
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
TTAATAATAAATAATTTATAAA
Found at i:4274140 original size:70 final size:69
Alignment explanation
Indices: 4274004--4274159 Score: 152
Period size: 70 Copynumber: 2.2 Consensus size: 69
4273994 TCATTCTATG
* * * ***
4274004 TTAAAAATACATAATTATAAATTAATAATATATGATTTATAATTTACTAATAAATAATTTTGTTT
1 TTAAAAATAAATAATTATAAATTAATAATATATGATGTATAAGTTACTAATAAATAATTAAATTT
4274069 ATAA
66 ATAA
* * * ** *
4274073 TTTAAAAATAAATAATTATAAATTAATAGTAT-TGATGGTCTAAGTTATTAATATGTTATTAAAT
1 -TTAAAAATAAATAATTATAAATTAATAATATATGAT-GTATAAGTTACTAATAAATAATTAAAT
*
4274137 TTATTA
64 TTATAA
* *
4274143 CTAAAAATAAATTATTA
1 TTAAAAATAAATAATTA
4274160 AATCTTTACT
Statistics
Matches: 70, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
69 19 0.27
70 51 0.73
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (69 bp):
TTAAAAATAAATAATTATAAATTAATAATATATGATGTATAAGTTACTAATAAATAATTAAATTT
ATAA
Found at i:4281419 original size:17 final size:20
Alignment explanation
Indices: 4281379--4281425 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 20
4281369 AAATTAAAAA
4281379 TAATAAT-ATAACTTTTAAG
1 TAATAATAATAACTTTTAAG
4281398 TAATAATAATAAC-TTT-AG
1 TAATAATAATAACTTTTAAG
4281416 -AATAATAATA
1 TAATAATAATA
4281426 CACAATAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 10 0.37
18 2 0.07
19 10 0.37
20 5 0.19
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.38
Consensus pattern (20 bp):
TAATAATAATAACTTTTAAG
Found at i:4282353 original size:27 final size:28
Alignment explanation
Indices: 4282323--4282390 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 28
4282313 ATTTTTTTTA
4282323 TTTTTAATTTTAAAACTTTTAAAAT-AT
1 TTTTTAATTTTAAAACTTTTAAAATAAT
* *** *
4282350 TTTTTTATTTTTTTATTTTTAAAATAAT
1 TTTTTAATTTTAAAACTTTTAAAATAAT
4282378 TTTTTAATGTTTA
1 TTTTTAAT-TTTA
4282391 TTAAAAAATG
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
27 20 0.62
28 9 0.28
29 3 0.09
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (28 bp):
TTTTTAATTTTAAAACTTTTAAAATAAT
Found at i:4284500 original size:38 final size:39
Alignment explanation
Indices: 4284458--4284532 Score: 100
Period size: 37 Copynumber: 1.9 Consensus size: 39
4284448 GAACTATAAC
4284458 TTAATTTTCCTAAAAACACTTTCATG-TTT-ACCAATTAT
1 TTAA-TTTCCTAAAAACACTTTCATGTTTTAACCAATTAT
* * *
4284496 TTAATTTCTTAGAAACATTTTCATGTTTTAACCAATT
1 TTAATTTCCTAAAAACACTTTCATGTTTTAACCAATT
4284533 CTTCCATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 18 0.56
38 7 0.22
39 7 0.22
ACGTcount: A:0.33, C:0.16, G:0.04, T:0.47
Consensus pattern (39 bp):
TTAATTTCCTAAAAACACTTTCATGTTTTAACCAATTAT
Found at i:4284593 original size:19 final size:20
Alignment explanation
Indices: 4284571--4284619 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
4284561 TTTAATTTTT
*
4284571 TCTTT-ATGTTTTAAGTAAC
1 TCTTTCATGTTTTAAATAAC
* *
4284590 TCTTTCATCTTTTAAATAAT
1 TCTTTCATGTTTTAAATAAC
4284610 TCTTTCATGT
1 TCTTTCATGT
4284620 ATTACTTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.24, C:0.14, G:0.06, T:0.55
Consensus pattern (20 bp):
TCTTTCATGTTTTAAATAAC
Found at i:4286581 original size:3 final size:3
Alignment explanation
Indices: 4286539--4286688 Score: 81
Period size: 3 Copynumber: 50.0 Consensus size: 3
4286529 ATTTCGATAG
* * * * * ** *
4286539 TAT TAT CAT TAT TGT TAC TAT TAT TTT TAA TAT TGC TAT TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
4286587 TGT GCTAT TAT TAT TAT TACT TAC T-T TAT TAT TAT CAT TAT CAT TAT
1 TAT --TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
4286634 T-T T-T TAT TAT TAC TAA TAT TAT TAT TTT TAT TTT TAC TAC TAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4286680 TAT TAT TAT
1 TAT TAT TAT
4286689 ACATTGTTAT
Statistics
Matches: 107, Mismatches: 35, Indels: 10
0.70 0.23 0.07
Matches are distributed among these distances:
2 5 0.05
3 97 0.91
4 3 0.03
5 2 0.02
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:4286645 original size:25 final size:25
Alignment explanation
Indices: 4286611--4286672 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
4286601 TATTACTTAC
*
4286611 TTTATTATTA-TCATTATCATTATTT
1 TTTATTATTACT-AATATCATTATTT
*
4286636 TTTATTATTACTAATATTATTA-TT
1 TTTATTATTACTAATATCATTATTT
*
4286660 TTTATTTTTACTA
1 TTTATTATTACTA
4286673 CTATTGTTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
24 14 0.42
25 18 0.55
26 1 0.03
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (25 bp):
TTTATTATTACTAATATCATTATTT
Found at i:4286696 original size:16 final size:18
Alignment explanation
Indices: 4286656--4286699 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
4286646 CTAATATTAT
* *
4286656 TATTTTTATTTTTACTAC
1 TATTGTTATTATTACTAC
4286674 TATTGTTATTATTA-TAC
1 TATTGTTATTATTACTAC
4286691 -ATTGTTATT
1 TATTGTTATT
4286700 TTTAAACTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 9 0.38
17 3 0.12
18 12 0.50
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.64
Consensus pattern (18 bp):
TATTGTTATTATTACTAC
Found at i:4286876 original size:24 final size:23
Alignment explanation
Indices: 4286826--4286879 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 23
4286816 TATCTTACTA
4286826 TTTTATTATTTCATCATTTTTGC
1 TTTTATTATTTCATCATTTTTGC
*
4286849 TTTTATTATTT-ATCTTATTTTTGT
1 TTTTATTATTTCATC--ATTTTTGC
4286873 TTTTATT
1 TTTTATT
4286880 CTTATTATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 3 0.11
23 11 0.39
24 14 0.50
ACGTcount: A:0.17, C:0.07, G:0.04, T:0.72
Consensus pattern (23 bp):
TTTTATTATTTCATCATTTTTGC
Found at i:4291300 original size:17 final size:16
Alignment explanation
Indices: 4291268--4291303 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
4291258 GAACCGACTG
*
4291268 TTCTTTTTCTTTTTCT
1 TTCTTTTTCTTCTTCT
4291284 TTCTTTTTCCTTCTTCT
1 TTCTTTTT-CTTCTTCT
4291301 TTC
1 TTC
4291304 AACTCAAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (16 bp):
TTCTTTTTCTTCTTCT
Found at i:4291407 original size:16 final size:16
Alignment explanation
Indices: 4291388--4291451 Score: 67
Period size: 16 Copynumber: 3.9 Consensus size: 16
4291378 GCCCCTCATA
4291388 TCTTTTCTCCTCTTTC
1 TCTTTTCTCCTCTTTC
* *
4291404 TCTTCTCTCTTCTTTC
1 TCTTTTCTCCTCTTTC
**
4291420 TCTTTT-TTTTCTTTTC
1 TCTTTTCTCCTC-TTTC
4291436 TCTTTTCTTCCTCTTT
1 TCTTTTC-TCCTCTTT
4291452 TTTCTCTTCT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
15 4 0.10
16 29 0.74
17 3 0.08
18 3 0.08
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
TCTTTTCTCCTCTTTC
Found at i:4291420 original size:25 final size:22
Alignment explanation
Indices: 4291388--4291458 Score: 63
Period size: 25 Copynumber: 3.0 Consensus size: 22
4291378 GCCCCTCATA
4291388 TCTTTTCTCCTCTTTCTCTTCTC
1 TCTTTTCTCCTCTTT-TCTTCTC
* * *
4291411 TCTTCTTTCTCTTTTTTTTCTTTTC
1 TC-T-TTTCTC-CTCTTTTCTTCTC
4291436 TCTTTTCTTCCTCTTTT-TTCTC
1 TCTTTTCT-CCTCTTTTCTTCTC
4291458 T
1 T
4291459 TCTTGTTTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
22 5 0.13
23 12 0.32
24 3 0.08
25 14 0.37
26 4 0.11
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (22 bp):
TCTTTTCTCCTCTTTTCTTCTC
Found at i:4291421 original size:9 final size:9
Alignment explanation
Indices: 4291391--4291462 Score: 60
Period size: 9 Copynumber: 8.2 Consensus size: 9
4291381 CCTCATATCT
*
4291391 TTTCTCCTC
1 TTTCTCTTC
4291400 TTTCTCTTC
1 TTTCTCTTC
4291409 --TCTCTTC
1 TTTCTCTTC
*
4291416 TTTCTCTTT
1 TTTCTCTTC
*
4291425 TTTTTCTT-
1 TTTCTCTTC
*
4291433 TTCTCTTTTC
1 TT-TCTCTTC
* *
4291443 TTCCTCTTT
1 TTTCTCTTC
4291452 TTTCTCTTC
1 TTTCTCTTC
4291461 TT
1 TT
4291463 GTTTTGCTTA
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
7 7 0.14
8 2 0.04
9 38 0.78
10 2 0.04
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTCTCTTC
Found at i:4291438 original size:27 final size:27
Alignment explanation
Indices: 4291400--4291459 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
4291390 TTTTCTCCTC
* *
4291400 TTTCTCTTCTCTCTTCTTTCTCTTTTT
1 TTTCTTTTCTCTCTTCTTCCTCTTTTT
*
4291427 TTTCTTTTCTCTTTTCTTCCTCTTTTT
1 TTTCTTTTCTCTCTTCTTCCTCTTTTT
*
4291454 TCTCTT
1 TTTCTT
4291460 CTTGTTTTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (27 bp):
TTTCTTTTCTCTCTTCTTCCTCTTTTT
Found at i:4291461 original size:25 final size:27
Alignment explanation
Indices: 4291400--4291461 Score: 83
Period size: 25 Copynumber: 2.4 Consensus size: 27
4291390 TTTTCTCCTC
*
4291400 TTTCTCTTCTCTCTTCTTTCTCTTTTT
1 TTTCTCTTCTCTCTTCTTTCTCTCTTT
* *
4291427 TTTCTTTTCTCTTTTC-TTC-CTCTTT
1 TTTCTCTTCTCTCTTCTTTCTCTCTTT
4291452 TTTCTCTTCT
1 TTTCTCTTCT
4291462 TGTTTTGCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 14 0.45
26 3 0.10
27 14 0.45
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (27 bp):
TTTCTCTTCTCTCTTCTTTCTCTCTTT
Found at i:4292053 original size:30 final size:31
Alignment explanation
Indices: 4291979--4292100 Score: 153
Period size: 31 Copynumber: 4.1 Consensus size: 31
4291969 CAAAACTTTC
* * * *
4291979 AGGGTCAAAATGTAATTTTAGAAAAATTTAG
1 AGGGTTAAAATGTAATTTTAGGAAAAGTTGG
4292010 AGGGTTAAAATGTAATTTTAGGAAAAGTTGG
1 AGGGTTAAAATGTAATTTTAGGAAAAGTTGG
* * *
4292041 AGGG-TCAAATGTAATTTTAGGATAA-TT-T
1 AGGGTTAAAATGTAATTTTAGGAAAAGTTGG
4292069 AGGGTTAAAATGTAATTTTAGG-AAAGTTGG
1 AGGGTTAAAATGTAATTTTAGGAAAAGTTGG
4292099 AG
1 AG
4292101 ACCAAAATGT
Statistics
Matches: 78, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
28 6 0.08
29 20 0.26
30 21 0.27
31 31 0.40
ACGTcount: A:0.39, C:0.02, G:0.25, T:0.34
Consensus pattern (31 bp):
AGGGTTAAAATGTAATTTTAGGAAAAGTTGG
Found at i:4292089 original size:59 final size:60
Alignment explanation
Indices: 4291979--4292114 Score: 197
Period size: 59 Copynumber: 2.3 Consensus size: 60
4291969 CAAAACTTTC
4291979 AGGGTCAAAATGTAATTTTAGAAAAATTTAGAGGGTTAAAATGTAATTTTAGGAAAAGTTGG
1 AGGGTCAAAATGTAATTTTAGAAAAATTTA-AGGGTTAAAATGTAATTTTAGG-AAAGTTGG
* *
4292041 AGGGTC-AAATGTAATTTTAGGATAATTT-AGGGTTAAAATGTAATTTTAGGAAAGTTGG
1 AGGGTCAAAATGTAATTTTAGAAAAATTTAAGGGTTAAAATGTAATTTTAGGAAAGTTGG
**
4292099 A-GACCAAAATGTAATT
1 AGGGTCAAAATGTAATT
4292115 AGTTAATTTT
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
57 2 0.03
58 19 0.28
59 22 0.32
61 20 0.29
62 6 0.09
ACGTcount: A:0.40, C:0.03, G:0.24, T:0.33
Consensus pattern (60 bp):
AGGGTCAAAATGTAATTTTAGAAAAATTTAAGGGTTAAAATGTAATTTTAGGAAAGTTGG
Found at i:4292107 original size:29 final size:28
Alignment explanation
Indices: 4291982--4292114 Score: 108
Period size: 29 Copynumber: 4.5 Consensus size: 28
4291972 AACTTTCAGG
* * *
4291982 GTCAAAATGTAATTTTAGAAAAATTTAGAGG
1 GTCAAAATGTAATTTTAG-GAAAGTT-G-GA
*
4292013 GTTAAAATGTAATTTTAGGAAAAGTTGGA
1 GTCAAAATGTAATTTTAGG-AAAGTTGGA
*
4292042 GGGTC-AAATGTAATTTTAGGATAATTTAGG-
1 --GTCAAAATGTAATTTTAGGA-AAGTT-GGA
*
4292072 GTTAAAATGTAATTTTAGGAAAGTTGGA
1 GTCAAAATGTAATTTTAGGAAAGTTGGA
*
4292100 GACCAAAATGTAATT
1 G-TCAAAATGTAATT
4292115 AGTTAATTTT
Statistics
Matches: 84, Mismatches: 10, Indels: 18
0.75 0.09 0.16
Matches are distributed among these distances:
27 2 0.02
28 7 0.08
29 29 0.35
30 20 0.24
31 26 0.31
ACGTcount: A:0.41, C:0.03, G:0.23, T:0.34
Consensus pattern (28 bp):
GTCAAAATGTAATTTTAGGAAAGTTGGA
Found at i:4301628 original size:27 final size:27
Alignment explanation
Indices: 4301566--4301620 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
4301556 AACTAGAGTA
4301566 TGTTAAAATTTTGAATATTTTGAGTTG
1 TGTTAAAATTTTGAATATTTTGAGTTG
4301593 TGTTAAAATTTTGAATATTTTGAGTTG
1 TGTTAAAATTTTGAATATTTTGAGTTG
4301620 T
1 T
4301621 TTTGAAATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.00, G:0.18, T:0.53
Consensus pattern (27 bp):
TGTTAAAATTTTGAATATTTTGAGTTG
Found at i:4311345 original size:13 final size:12
Alignment explanation
Indices: 4311314--4311351 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
4311304 ATTATTTTTT
4311314 AAATAATTATAA
1 AAATAATTATAA
4311326 AAA-AATTATAGA
1 AAATAATTATA-A
4311338 AAATAATT-TAA
1 AAATAATTATAA
4311349 AAA
1 AAA
4311352 CTACTAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 11 0.46
12 9 0.38
13 4 0.17
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (12 bp):
AAATAATTATAA
Found at i:4312277 original size:22 final size:23
Alignment explanation
Indices: 4312233--4312277 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
4312223 ATATAGAAAA
4312233 ATAATATTATATTTTGTACTTTTCC
1 ATAATATTATA--TTGTACTTTTCC
*
4312258 ATAATATTATA-TGTATTTTT
1 ATAATATTATATTGTACTTTT
4312278 TTAGGTTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 8 0.42
25 11 0.58
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (23 bp):
ATAATATTATATTGTACTTTTCC
Found at i:4312979 original size:13 final size:14
Alignment explanation
Indices: 4312954--4312982 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4312944 ACCTGACTTG
4312954 TTCATATTTAATTT
1 TTCATATTTAATTT
4312968 TTCATA-TTAATTT
1 TTCATATTTAATTT
4312981 TT
1 TT
4312983 ATGTTAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (14 bp):
TTCATATTTAATTT
Found at i:4313006 original size:15 final size:17
Alignment explanation
Indices: 4312975--4313008 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
4312965 TTTTTCATAT
4312975 TAATTTTTATGTTAAAA
1 TAATTTTTATGTTAAAA
4312992 TAATTTTT-T-TTAAAA
1 TAATTTTTATGTTAAAA
4313007 TA
1 TA
4313009 TAATACACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 1 0.06
17 8 0.47
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TAATTTTTATGTTAAAA
Found at i:4313138 original size:27 final size:28
Alignment explanation
Indices: 4313092--4313155 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 28
4313082 AGACATTATC
*
4313092 ATAAATATAATAAATGTTTTATTATATT
1 ATAAATATAATAAATATTTTATTATATT
*
4313120 ATAAATA-AATAAATATTTTATTGTA-T
1 ATAAATATAATAAATATTTTATTATATT
4313146 -TAAATATAAT
1 ATAAATATAAT
4313156 TTTTAAAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
25 6 0.18
26 4 0.12
27 16 0.48
28 7 0.21
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (28 bp):
ATAAATATAATAAATATTTTATTATATT
Found at i:4317383 original size:31 final size:31
Alignment explanation
Indices: 4317345--4317413 Score: 138
Period size: 31 Copynumber: 2.2 Consensus size: 31
4317335 ATGGTGTGAC
4317345 CCGCGCGGTGACCCGACCCGAAGGGGAGGAT
1 CCGCGCGGTGACCCGACCCGAAGGGGAGGAT
4317376 CCGCGCGGTGACCCGACCCGAAGGGGAGGAT
1 CCGCGCGGTGACCCGACCCGAAGGGGAGGAT
4317407 CCGCGCG
1 CCGCGCG
4317414 CTCTGACGTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.17, C:0.35, G:0.42, T:0.06
Consensus pattern (31 bp):
CCGCGCGGTGACCCGACCCGAAGGGGAGGAT
Found at i:4318172 original size:20 final size:18
Alignment explanation
Indices: 4318137--4318171 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4318127 ATTTATATAT
4318137 AATATATACGCATTTTTA
1 AATATATACGCATTTTTA
*
4318155 AATATATATGCATTTTT
1 AATATATACGCATTTTT
4318172 TAAAGGCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.49
Consensus pattern (18 bp):
AATATATACGCATTTTTA
Found at i:4319392 original size:22 final size:23
Alignment explanation
Indices: 4319365--4319407 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
4319355 TTATAATCAA
4319365 ATATAAACACATAATT-TTATTT
1 ATATAAACACATAATTATTATTT
* *
4319387 ATATAAATATATAATTATTAT
1 ATATAAACACATAATTATTAT
4319408 ATTTTATACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (23 bp):
ATATAAACACATAATTATTATTT
Found at i:4330642 original size:4 final size:4
Alignment explanation
Indices: 4330633--4330745 Score: 63
Period size: 4 Copynumber: 27.8 Consensus size: 4
4330623 ACGGTTTCCT
* * *
4330633 TTTA TTTA TTTA TTTA -TTA TTCCT- TTTA TTTTA TTCA TTTA CTTA CTTA
1 TTTA TTTA TTTA TTTA TTTA TT--TA TTTA -TTTA TTTA TTTA TTTA TTTA
* * * **
4330682 CTTA TTTA TTTA TATA -TTA TTCA TTTA TTTA CTTT- TTTA TTCTAA TTCC
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TT-T-A TTTA
*
4330731 TTTA TTCA TTTA TTT
1 TTTA TTTA TTTA TTT
4330746 GTTATTCCTT
Statistics
Matches: 85, Mismatches: 14, Indels: 20
0.71 0.12 0.17
Matches are distributed among these distances:
3 9 0.11
4 62 0.73
5 10 0.12
6 4 0.05
ACGTcount: A:0.23, C:0.11, G:0.00, T:0.66
Consensus pattern (4 bp):
TTTA
Found at i:4334510 original size:80 final size:80
Alignment explanation
Indices: 4334377--4334537 Score: 322
Period size: 80 Copynumber: 2.0 Consensus size: 80
4334367 AAATACAGTA
4334377 AGGAGTGGGAAAATAGATGTGGAAGAAACGCTAAAAGATCAGCCCCGAGAAAGAAGAAAAATAAA
1 AGGAGTGGGAAAATAGATGTGGAAGAAACGCTAAAAGATCAGCCCCGAGAAAGAAGAAAAATAAA
4334442 GTGAACATCGCAAGC
66 GTGAACATCGCAAGC
4334457 AGGAGTGGGAAAATAGATGTGGAAGAAACGCTAAAAGATCAGCCCCGAGAAAGAAGAAAAATAAA
1 AGGAGTGGGAAAATAGATGTGGAAGAAACGCTAAAAGATCAGCCCCGAGAAAGAAGAAAAATAAA
4334522 GTGAACATCGCAAGC
66 GTGAACATCGCAAGC
4334537 A
1 A
4334538 TGTATAATAA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.48, C:0.14, G:0.27, T:0.11
Consensus pattern (80 bp):
AGGAGTGGGAAAATAGATGTGGAAGAAACGCTAAAAGATCAGCCCCGAGAAAGAAGAAAAATAAA
GTGAACATCGCAAGC
Found at i:4347895 original size:38 final size:38
Alignment explanation
Indices: 4347853--4347928 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
4347843 ACTTAAATAT
4347853 ATCATGAAAAACGACTCATAAAGGATCACACTTAGAAA
1 ATCATGAAAAACGACTCATAAAGGATCACACTTAGAAA
4347891 ATCATGAAAAACGACTCATAAAGGATCACACTTAGAAA
1 ATCATGAAAAACGACTCATAAAGGATCACACTTAGAAA
4347929 GTCAAGACAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.50, C:0.18, G:0.13, T:0.18
Consensus pattern (38 bp):
ATCATGAAAAACGACTCATAAAGGATCACACTTAGAAA
Found at i:4350127 original size:30 final size:29
Alignment explanation
Indices: 4350084--4350151 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 29
4350074 ACATTCTCGT
* *
4350084 ATACAGAATCAGATGTATTTTCATAA-TCAG
1 ATACA-AATCAGATGCATATTCA-AATTCAG
4350114 ATACAAATACAGATGCATATTCAAATTCAG
1 ATACAAAT-CAGATGCATATTCAAATTCAG
4350144 ATACAAAT
1 ATACAAAT
4350152 GTAGACACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 5 0.15
30 29 0.85
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (29 bp):
ATACAAATCAGATGCATATTCAAATTCAG
Found at i:4351005 original size:23 final size:23
Alignment explanation
Indices: 4350968--4351040 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
4350958 CATCAACAGT
* *
4350968 GTAATATCCCGAAAATTACTACT
1 GTAATACCCCGAAAATTACTACA
*
4350991 GTAATACCCCAAAAATTACTACA
1 GTAATACCCCGAAAATTACTACA
4351014 GTAATACCCCGAAAATTACTACA
1 GTAATACCCCGAAAATTACTACA
4351037 GTAA
1 GTAA
4351041 GGAAGTAGGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.25
Consensus pattern (23 bp):
GTAATACCCCGAAAATTACTACA
Found at i:4361510 original size:17 final size:18
Alignment explanation
Indices: 4361478--4361524 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
4361468 TATTAAACCA
4361478 ATAATT-TATATTTAAA-T
1 ATAATTATAT-TTTAAACT
*
4361495 ATTATTATATTTTAAACT
1 ATAATTATATTTTAAACT
4361513 ATAATTCATATT
1 ATAATT-ATATT
4361525 AAAAGTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 11 0.44
18 9 0.36
19 5 0.20
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (18 bp):
ATAATTATATTTTAAACT
Found at i:4361526 original size:17 final size:18
Alignment explanation
Indices: 4361468--4361539 Score: 58
Period size: 18 Copynumber: 4.1 Consensus size: 18
4361458 TATTTTTATG
* * *
4361468 TATTAAACCAATAATTTA
1 TATTAAAACTATAATTCA
* *
4361486 TATTTAAA-TATTATT-A
1 TATTAAAACTATAATTCA
*
4361502 TATTTTAAACTATAATTCA
1 TA-TTAAAACTATAATTCA
*
4361521 TATTAAAAGTATAATTCA
1 TATTAAAACTATAATTCA
4361539 T
1 T
4361540 GAAAATATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
16 3 0.07
17 11 0.25
18 27 0.61
19 3 0.07
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.46
Consensus pattern (18 bp):
TATTAAAACTATAATTCA
Found at i:4364853 original size:28 final size:28
Alignment explanation
Indices: 4364821--4364914 Score: 134
Period size: 28 Copynumber: 3.4 Consensus size: 28
4364811 TAATGAGATT
*
4364821 AGCACTAAGTATGTGAGTTTAATTGTAA
1 AGCACTAAGTATGCGAGTTTAATTGTAA
* *
4364849 AGCACTAAGTGTGCGAGTTTAATGGTAA
1 AGCACTAAGTATGCGAGTTTAATTGTAA
* * *
4364877 AGCACTAAGTATGCGAGTTTGATTATTA
1 AGCACTAAGTATGCGAGTTTAATTGTAA
4364905 AGCACTAAGT
1 AGCACTAAGT
4364915 GTGTGAACTT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 58 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTATGCGAGTTTAATTGTAA
Found at i:4366164 original size:46 final size:46
Alignment explanation
Indices: 4366097--4366281 Score: 293
Period size: 46 Copynumber: 4.0 Consensus size: 46
4366087 ACATTGCTAT
4366097 AACTCAGTATGGTTTTCTTCAC-GAAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTG-AAATACCATACCTACTTTTCAC
* *
4366143 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTTAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
*
4366189 AACTCAGTATGGTTTTCTTTA-TCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACT-GAAATACCATACCTACTTTTCAC
* *
4366235 AACTCAGTATGGTTTTCTTCACTGAAATACCATACATACGTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
4366281 A
1 A
4366282 CTTTGCCATG
Statistics
Matches: 128, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
45 1 0.01
46 125 0.98
47 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
Found at i:4368268 original size:107 final size:107
Alignment explanation
Indices: 4368122--4368722 Score: 770
Period size: 112 Copynumber: 5.6 Consensus size: 107
4368112 CGAAAAAGAA
* *
4368122 AAAAAACAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAA
1 AAAAAA-ATAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAA
***
4368187 AAAATTTTTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACG
65 AAAAAAATTA-TTTTTTTCGTGTCAGAATCAGATAAAAAATACG
4368231 AAAAAAATAAAAAAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGA
1 AAAAAAATAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC-AA-A
4368295 AAAAAAAATTATTTTTTTTCGTGTCAGAATCAGAT----AA-A--
64 AAAAAAAATTA-TTTTTTTCGTGTCAGAATCAGATAAAAAATACG
* *
4368333 AAAATAA-AAAAAAA--TTGGGTGCTAGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGA
1 AAAAAAATAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA-A
4368395 AAAAAAATTATTTTTTTCGTGTCAGAATCAGATAAATAAATAC-
65 AAAAAAATTATTTTTTTCGTGTCAGAATCAGATAAA-AAATACG
* * *
4368438 AAAAAAATTTAAAAAAAAAATTTTTGGATGCTGGCCTGTCAATGGACGGCACCCAGTACGCAGTA
1 AAAAAAA--T---AAAAAAA-TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTA
4368503 CAAAGAAAAAAAA--A----TTTCGTGTCAGAATCAGATAAAAAATACG
60 CAAA-AAAAAAAATTATTTTTTTCGTGTCAGAATCAGATAAAAAATACG
4368546 AAAAAAATAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
1 AAAAAAAT--AAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC-AA
4368611 GAAAAAAAAATTATTTTTTTCGTGTCAGAATCAGATAAAAAAATACG
63 -AAAAAAAAATTATTTTTTTCGTGTCAGAATCAGAT-AAAAAATACG
* * *
4368658 AAAAAAAATTAAAAAAATTTTGGGTGCTGGCCTGTCAATGGTCGGCACCTAGTACGCAGTACAAA
1 -AAAAAAA-TAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
4368723 GAAATTTTTT
Statistics
Matches: 444, Mismatches: 17, Indels: 61
0.85 0.03 0.12
Matches are distributed among these distances:
98 24 0.05
99 13 0.03
100 42 0.09
101 7 0.02
102 6 0.01
103 2 0.00
104 44 0.10
105 27 0.06
106 2 0.00
107 51 0.11
108 39 0.09
109 39 0.09
110 1 0.00
111 28 0.06
112 60 0.14
113 7 0.02
114 52 0.12
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.24
Consensus pattern (107 bp):
AAAAAAATAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAAA
AAAAAATTATTTTTTTCGTGTCAGAATCAGATAAAAAATACG
Found at i:4368366 original size:100 final size:101
Alignment explanation
Indices: 4368121--4368726 Score: 600
Period size: 107 Copynumber: 5.7 Consensus size: 101
4368111 ACGAAAAAGA
4368121 AAAAAAACAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC-AA
1 AAAAAAA-AAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAA
***
4368185 -AAAAAATTTTTATTTTTTTTCGTGTCAGAATCAGAT
65 GAAAAAAAAATTATTTTTTTTCGTGTCAGAATCAGAT
4368221 AAAAAATACGAAAAAAATAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACA
1 ----AA-A--AAAAAAA-AAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACA
4368286 GTACAAAGAAAAAAAAATTATTTTTTTTCGTGTCAGAATCAGAT
58 GTACAAAGAAAAAAAAATTATTTTTTTTCGTGTCAGAATCAGAT
* *
4368330 AAAAAAATAAAAAAAAA-TTGGGTGCTAGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAG
1 AAAAAAAAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAG
4368394 -AAAAAAAATTA-TTTTTTTCGTGTCAGAATCAGATAAATAAAT
66 AAAAAAAAATTATTTTTTTTCGTGTCAGAATCAG--------AT
* * *
4368436 ACAAAAAAATTTAAAAAAAAAATTTTTGGATGCTGGCCTGTCAATGGACGGCACCCAGTACGCAG
1 --AAAAAAA---AAAAAAAAAA--TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAG
** * ** ** *
4368501 TACAAAG-AAAAAAAA--ATTTCGTGTCAGAATCAGATAAAAAAT
59 TACAAAGAAAAAAAAATTATTTTTTTTC-GTGTCAGA-ATCAGAT
4368543 ACGAAAAAAATAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC
1 A--AAAAAAA-AAAAAAAAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTAC
4368608 AAAGAAAAAAAAATTA-TTTTTTTCGTGTCAGAATCAGAT
62 AAAGAAAAAAAAATTATTTTTTTTCGTGTCAGAATCAGAT
* *
4368647 AAAAAAATACGAAAAAAAATTAAAAAAATTTTGGGTGCTGGCCTGTCAATGGTCGGCACCTAGTA
1 ------A-A--AAAAAAAA--AAAAAAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTA
*
4368712 CGCAGTACAAAGAAA
54 CACAGTACAAAGAAA
4368727 TTTTTTTTTT
Statistics
Matches: 428, Mismatches: 33, Indels: 74
0.80 0.06 0.14
Matches are distributed among these distances:
98 21 0.05
99 11 0.03
100 46 0.11
101 7 0.02
102 6 0.01
104 54 0.13
105 27 0.06
106 10 0.02
107 64 0.15
108 9 0.02
109 34 0.08
110 3 0.01
111 15 0.04
112 57 0.13
113 5 0.01
114 57 0.13
115 2 0.00
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.23
Consensus pattern (101 bp):
AAAAAAAAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAG
AAAAAAAAATTATTTTTTTTCGTGTCAGAATCAGAT
Found at i:4368380 original size:207 final size:210
Alignment explanation
Indices: 4368114--4368726 Score: 837
Period size: 207 Copynumber: 2.9 Consensus size: 210
4368104 CGGATATACG
* *
4368114 AAAAAGAAAAAAAACAAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACA
1 AAAAATAAAAAAAA-TAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACA
***
4368179 GTACAAAAAAAATTTTTATTTTTTTTCGTGTCAGAATCAGATAAAAAATACGAAAAAAA-TAAAA
65 GTACAAAAAAAAAAATTA-TTTTTTTCGTGTCAGAATCAGATAAAAAATACGAAAAAAATTAAAA
* *
4368243 AAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGTACAAAGAAAAAAAAATTAT
129 AAATTTTGGGTGCTGGCCTGTCAATGGACGGCACCCAGTACGCAGTACAAAGAAAAAAAAA--AT
** * **
4368307 TTTTTTTC-GTGTCAGA-A
192 TTCGTGTCAGAATCAGATA
** * *
4368324 TCAGAT-AAAAAAATAAAAAAAAA-TTGGGTGCTAGCCTGTCAATGGCCGGCACCCAGTACACAG
1 AAAAATAAAAAAAATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAG
4368387 TACAAAGAAAAAAAATTATTTTTTTCGTGTCAGAATCAGATAAATAAATAC-AAAAAAATTTAAA
66 TACAAA-AAAAAAAATTATTTTTTTCGTGTCAGAATCAGATAAA-AAATACGAAAAAAA-TT---
*
4368451 AAAAAAATTTTTGGATGCTGGCCTGTCAATGGACGGCACCCAGTACGCAGTACAAAG-AAAAAAA
125 AAAAAAA-TTTTGGGTGCTGGCCTGTCAATGGACGGCACCCAGTACGCAGTACAAAGAAAAAAAA
4368515 AATTTCGTGTCAGAATCAGATA
189 AATTTCGTGTCAGAATCAGATA
4368537 AAAAATACGAAAAAAATAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACA
1 AAAAATA--AAAAAAATAAAAAAAAA-TTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACA
4368602 CAGTACAAAGAAAAAAAAATTATTTTTTTCGTGTCAGAATCAGATAAAAAAATACGAAAAAAAAT
63 CAGTAC-AA-AAAAAAAAATTATTTTTTTCGTGTCAGAATCAGAT-AAAAAATACG-AAAAAAAT
* *
4368667 TAAAAAAATTTTGGGTGCTGGCCTGTCAATGGTCGGCACCTAGTACGCAGTACAAAGAAA
124 TAAAAAAATTTTGGGTGCTGGCCTGTCAATGGACGGCACCCAGTACGCAGTACAAAGAAA
4368727 TTTTTTTTTT
Statistics
Matches: 357, Mismatches: 24, Indels: 37
0.85 0.06 0.09
Matches are distributed among these distances:
207 78 0.22
208 23 0.06
209 8 0.02
210 2 0.01
211 7 0.02
212 13 0.04
213 12 0.03
214 45 0.13
216 63 0.18
217 9 0.03
218 42 0.12
219 42 0.12
220 6 0.02
221 7 0.02
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.23
Consensus pattern (210 bp):
AAAAATAAAAAAAATAAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAG
TACAAAAAAAAAAATTATTTTTTTCGTGTCAGAATCAGATAAAAAATACGAAAAAAATTAAAAAA
ATTTTGGGTGCTGGCCTGTCAATGGACGGCACCCAGTACGCAGTACAAAGAAAAAAAAAATTTCG
TGTCAGAATCAGATA
Found at i:4368934 original size:73 final size:72
Alignment explanation
Indices: 4368841--4368983 Score: 243
Period size: 73 Copynumber: 2.0 Consensus size: 72
4368831 TTTTTAAATT
*
4368841 TTTTTTCGTATTTTTTTATCTGATTCTGACACGAAAAAAAAATAAATTTTTTTTCTTTGTACTGT
1 TTTTTTCCTATTTTTTTATCTGATTCTGACACGAAAAAAAAAT-AA-TTTTTTTCTTTGTACTGT
4368906 GTACTGGAA
64 GTACTGGAA
*
4368915 TTTTTTCCTA-TTTTTTATCTGATTCTGACGCGAAAAAAAAATAATTTTTTTCTTTGTACTGTGT
1 TTTTTTCCTATTTTTTTATCTGATTCTGACACGAAAAAAAAATAATTTTTTTCTTTGTACTGTGT
4368979 ACTGG
66 ACTGG
4368984 GTGCCGGCCA
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
71 25 0.37
72 2 0.03
73 31 0.46
74 9 0.13
ACGTcount: A:0.27, C:0.12, G:0.13, T:0.49
Consensus pattern (72 bp):
TTTTTTCCTATTTTTTTATCTGATTCTGACACGAAAAAAAAATAATTTTTTTCTTTGTACTGTGT
ACTGGAA
Found at i:4376027 original size:13 final size:13
Alignment explanation
Indices: 4376009--4376042 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
4375999 GGTAGGCAAC
4376009 TTTTTTTTGCGGT
1 TTTTTTTTGCGGT
*
4376022 TTTTTTTTGCTGT
1 TTTTTTTTGCGGT
4376035 TTTTTTTT
1 TTTTTTTT
4376043 AGCTTCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.00, C:0.06, G:0.15, T:0.79
Consensus pattern (13 bp):
TTTTTTTTGCGGT
Found at i:4378281 original size:33 final size:32
Alignment explanation
Indices: 4378201--4378317 Score: 92
Period size: 33 Copynumber: 3.6 Consensus size: 32
4378191 GTGTCATAGT
* *
4378201 CCAACTATGGTCTTACA-CATGCATTGCCATGAC
1 CCAACTATGGTCTTACATCA-G-AATGCCATAAC
** * **
4378234 CCTGCTATGATCTTACATTTGTAATGCCATAAC
1 CCAACTATGGTCTTACATCAG-AATGCCATAAC
* * *
4378267 CCAATTATGGTCTTATCATCAGAATTCCATAGC
1 CCAACTATGGTCTTA-CATCAGAATGCCATAAC
*
4378300 CCAGCTATGGTCTTACAT
1 CCAACTATGGTCTTACAT
4378318 ATAAACACGG
Statistics
Matches: 64, Mismatches: 18, Indels: 5
0.74 0.21 0.06
Matches are distributed among these distances:
32 3 0.05
33 57 0.89
34 4 0.06
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.32
Consensus pattern (32 bp):
CCAACTATGGTCTTACATCAGAATGCCATAAC
Found at i:4381409 original size:17 final size:15
Alignment explanation
Indices: 4381365--4381402 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
4381355 TAAAATTTCT
*
4381365 AAAAT-TATGATAAA
1 AAAATATATTATAAA
*
4381379 AAAGTATATTATAAA
1 AAAATATATTATAAA
4381394 AAAATATAT
1 AAAATATAT
4381403 GTTATAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (15 bp):
AAAATATATTATAAA
Found at i:4382367 original size:21 final size:21
Alignment explanation
Indices: 4382329--4382375 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
4382319 CATTTAAAAT
*
4382329 TTTTTTTATCATACTAATA-A
1 TTTTTTTATAATACTAATATA
*
4382349 TTTTTTTATAATAATTAATATA
1 TTTTTTTATAAT-ACTAATATA
4382371 TTTTT
1 TTTTT
4382376 AAAAAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 11 0.48
21 6 0.26
22 6 0.26
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTTTTATAATACTAATATA
Found at i:4388843 original size:21 final size:21
Alignment explanation
Indices: 4388817--4388857 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4388807 AGACGAGCAA
* *
4388817 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
4388838 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
4388858 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:4397503 original size:53 final size:53
Alignment explanation
Indices: 4397420--4397525 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
4397410 ATCACCTGTT
* *
4397420 CGTCGAGGTATCTCTTTTGACCATCGATATAAATCTTTAAGATATATGTCGAC
1 CGTCGAGGTATCTCTTTTGACCATCAATATAAATCTTTAAGATATATATCGAC
4397473 CGTCGAGGTATCTCTTTTGACCATCAATATAAATCTTTAAGATATATATCGAC
1 CGTCGAGGTATCTCTTTTGACCATCAATATAAATCTTTAAGATATATATCGAC
4397526 GGATTTTGAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (53 bp):
CGTCGAGGTATCTCTTTTGACCATCAATATAAATCTTTAAGATATATATCGAC
Found at i:4402676 original size:3 final size:3
Alignment explanation
Indices: 4402668--4402692 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4402658 GCAGTCCCTA
4402668 ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG A
4402693 CGAACAGGAA
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:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:4404165 original size:22 final size:23
Alignment explanation
Indices: 4404134--4404176 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
4404124 AAAAATATAT
*
4404134 TAAATTTATAAATTT-ATTATCA
1 TAAATATATAAATTTAATTATCA
*
4404156 TAAATATATAAGTTTAATTAT
1 TAAATATATAAATTTAATTAT
4404177 TATTTAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (23 bp):
TAAATATATAAATTTAATTATCA
Found at i:4404331 original size:6 final size:6
Alignment explanation
Indices: 4404320--4404348 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
4404310 TATATTATTT
4404320 AATATA AATATA AATATA AATATA AATAT
1 AATATA AATATA AATATA AATATA AATAT
4404349 TTATTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AATATA
Found at i:4405426 original size:13 final size:13
Alignment explanation
Indices: 4405408--4405435 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
4405398 TAAGTTTAAA
4405408 TTAATTTAAATTT
1 TTAATTTAAATTT
4405421 TTAATTTAAATTT
1 TTAATTTAAATTT
4405434 TT
1 TT
4405436 GGATTGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTAATTTAAATTT
Found at i:4412672 original size:22 final size:22
Alignment explanation
Indices: 4412624--4412674 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
4412614 TTTTTCTTGC
* * *
4412624 TATTTTTCTACTATTTTGTTAT
1 TATTTTACTACTATGTTGCTAT
* *
4412646 CATTTTACTATTATGTTGCTAT
1 TATTTTACTACTATGTTGCTAT
4412668 TATTTTA
1 TATTTTA
4412675 TTGTTATTAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.10, G:0.06, T:0.63
Consensus pattern (22 bp):
TATTTTACTACTATGTTGCTAT
Found at i:4418925 original size:4 final size:4
Alignment explanation
Indices: 4418916--4418953 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
4418906 ATCTACTTCA
4418916 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA
4418954 ATCTAGCTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:4466948 original size:21 final size:22
Alignment explanation
Indices: 4466924--4466973 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
4466914 TTTCCCCCTA
4466924 CTGTTTTACTG-CTTTATGTTG
1 CTGTTTTACTGTCTTTATGTTG
* *
4466945 CTGTTTTATTGTTTTTATGTTG
1 CTGTTTTACTGTCTTTATGTTG
*
4466967 TTGTTTT
1 CTGTTTT
4466974 GTTACAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.08, C:0.08, G:0.18, T:0.66
Consensus pattern (22 bp):
CTGTTTTACTGTCTTTATGTTG
Found at i:4474103 original size:15 final size:16
Alignment explanation
Indices: 4474073--4474105 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4474063 TAATGTCTCT
4474073 TTTTTTAAAATATTTA
1 TTTTTTAAAATATTTA
*
4474089 TTTTTTAATAT-TTTA
1 TTTTTTAAAATATTTA
4474104 TT
1 TT
4474106 ATACCCTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTTAAAATATTTA
Found at i:4485551 original size:20 final size:20
Alignment explanation
Indices: 4485520--4485569 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
4485510 GCTTACATTA
4485520 TTATTA-TTTATTTCATTT-C
1 TTATTATTTTATTT-ATTTGC
4485539 ATT-TTATTTTATTTATTTGC
1 -TTATTATTTTATTTATTTGC
4485559 TTATTATTTTA
1 TTATTATTTTA
4485570 GTATCGATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (20 bp):
TTATTATTTTATTTATTTGC
Found at i:4485713 original size:15 final size:15
Alignment explanation
Indices: 4485693--4485726 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4485683 TTATCGTTGA
4485693 TTATTATTATTGTT-T
1 TTATTA-TATTGTTAT
4485708 TTATTATATTGTTAT
1 TTATTATATTGTTAT
4485723 TTAT
1 TTAT
4485727 ATCATTAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (15 bp):
TTATTATATTGTTAT
Found at i:4486353 original size:108 final size:108
Alignment explanation
Indices: 4485947--4486388 Score: 597
Period size: 109 Copynumber: 4.1 Consensus size: 108
4485937 TATCCAAATA
* * *
4485947 AAAATTTCAAAAT-AGGTAATATTTTGCGTTTGGAAGTTCGAGAAAACGTGCCCTAACTTGCTGG
1 AAAATTTCAAAATAAGGCAATATTTTACGTTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTGG
*
4486011 GTCTCGA-TTTTTCGTTCGACCAAATAGCTAAAATATCCTTTT
66 GTTTCGATTTTTTCGTTCGACCAAATAGCTAAAATATCCTTTT
*
4486053 AAAATTTCAAAATAAGGCAATATTTTACGTTTGGAAGTTCGAGAAAATGTGCCCTAACGTGCTGG
1 AAAATTTCAAAATAAGGCAATATTTTACGTTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTGG
4486118 GTTTCGATTTTTTTCGTTCGACCAAATAGCTAAAAATATCCTTTT
66 GTTTCGA-TTTTTTCGTTCGACCAAATAGCT-AAAATATCCTTTT
* * *
4486163 AAAATTTCAAAATAAGGCAATATTTCACGTTTGGAAGTTCGA-AAAACGTGCCCTAACGTGTTAG
1 AAAATTTCAAAATAAGGCAATATTTTACGTTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTGG
* *
4486227 GTTTCGATTTTTTTCGTTTGACCAAATAGCTAAAATATCCTTCT
66 GTTTCGA-TTTTTTCGTTCGACCAAATAGCTAAAATATCCTTTT
* * * * * * **
4486271 AAAATTTCATAATAAAGGTAATATTTTGCATTTGAAAATTCGAGAAAGTGTGCCCTAACGTGCTG
1 AAAATTTCAAAAT-AAGGCAATATTTTACGTTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTG
* * * * *
4486336 GGTTTTGA-TTTCTCGTTTGACCAAATAGC-CAAATATCCTCTT
65 GGTTTCGATTTTTTCGTTCGACCAAATAGCTAAAATATCCTTTT
*
4486378 AAAACTTCAAA
1 AAAATTTCAAA
4486389 GTATGTTTTT
Statistics
Matches: 301, Mismatches: 29, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
106 13 0.04
107 72 0.24
108 44 0.15
109 94 0.31
110 78 0.26
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (108 bp):
AAAATTTCAAAATAAGGCAATATTTTACGTTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTGG
GTTTCGATTTTTTCGTTCGACCAAATAGCTAAAATATCCTTTT
Found at i:4487605 original size:21 final size:22
Alignment explanation
Indices: 4487580--4487623 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
4487570 GGATTTATAT
4487580 TATTCGGG-GTGTGTT-GTTGGA
1 TATTCGGGTGTGT-TTGGTTGGA
*
4487601 TATTCTGGTGTGTTTGGTTGGA
1 TATTCGGGTGTGTTTGGTTGGA
4487623 T
1 T
4487624 CCATATATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.09, C:0.05, G:0.39, T:0.48
Consensus pattern (22 bp):
TATTCGGGTGTGTTTGGTTGGA
Found at i:4491904 original size:29 final size:30
Alignment explanation
Indices: 4491845--4491902 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
4491835 TCCGAGCCTT
*
4491845 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
4491875 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
4491903 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:4492132 original size:13 final size:13
Alignment explanation
Indices: 4492114--4492145 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
4492104 TTTCCAGCAA
4492114 TTATGAATTTATT
1 TTATGAATTTATT
4492127 TTATGAATTTATT
1 TTATGAATTTATT
*
4492140 TGATGA
1 TTATGA
4492146 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:4492353 original size:50 final size:50
Alignment explanation
Indices: 4492240--4492481 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
4492230 ATTTGGGTAA
* * *
4492240 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
4492296 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
4492346 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
4492396 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
4492446 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
4492482 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:4492429 original size:100 final size:103
Alignment explanation
Indices: 4492240--4492489 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
4492230 ATTTGGGTAA
4492240 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
4492305 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
4492346 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
4492408 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
4492446 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
4492490 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:4494504 original size:11 final size:11
Alignment explanation
Indices: 4494490--4494555 Score: 60
Period size: 11 Copynumber: 6.0 Consensus size: 11
4494480 ATATCAAAAC
4494490 AATAACAACAA
1 AATAACAACAA
*
4494501 AATAATAACAA
1 AATAACAACAA
* * *
4494512 TATAATAGCAA
1 AATAACAACAA
** *
4494523 AATGTCATCAA
1 AATAACAACAA
*
4494534 AACAACAACAA
1 AATAACAACAA
4494545 AATAACAACAA
1 AATAACAACAA
4494556 GAAAAAGAAT
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 42 1.00
ACGTcount: A:0.65, C:0.17, G:0.03, T:0.15
Consensus pattern (11 bp):
AATAACAACAA
Found at i:4494838 original size:10 final size:11
Alignment explanation
Indices: 4494815--4494840 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4494805 GGAGTATAAT
4494815 AAAATATTTAA
1 AAAATATTTAA
4494826 AAAATATTTAA
1 AAAATATTTAA
4494837 AAAA
1 AAAA
4494841 GAGACACATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (11 bp):
AAAATATTTAA
Found at i:4505001 original size:15 final size:17
Alignment explanation
Indices: 4504971--4505003 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4504961 TTGGGGAGGG
4504971 ATTTTTTATTCTTTAAA
1 ATTTTTTATTCTTTAAA
4504988 ATTTTTT-TTC-TTAAA
1 ATTTTTTATTCTTTAAA
4505003 A
1 A
4505004 GACTATTCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 3 0.19
17 7 0.44
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTTTTTATTCTTTAAA
Found at i:4512594 original size:16 final size:18
Alignment explanation
Indices: 4512555--4512588 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4512545 TAAGTTTATA
4512555 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
4512572 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
4512589 AATTTAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:4515458 original size:715 final size:715
Alignment explanation
Indices: 4514088--4515522 Score: 2870
Period size: 715 Copynumber: 2.0 Consensus size: 715
4514078 TGTTTGTTCA
4514088 CTAAAACAAAACTTTCCCATCTTTTAGCATTCTCATTTACATATACTGAAGAGTATGTGGATTTG
1 CTAAAACAAAACTTTCCCATCTTTTAGCATTCTCATTTACATATACTGAAGAGTATGTGGATTTG
4514153 AAGCAAAATCATACAAGTGTCAATGGAGAAACATACTGCAAGTTCCAAAACTCAATAAGAAATTA
66 AAGCAAAATCATACAAGTGTCAATGGAGAAACATACTGCAAGTTCCAAAACTCAATAAGAAATTA
4514218 GACATTCGGGTAGCTGCAAATACCAGTCATTGAAATGGGAGGTTTGATCTAATTACAAGAGATAC
131 GACATTCGGGTAGCTGCAAATACCAGTCATTGAAATGGGAGGTTTGATCTAATTACAAGAGATAC
4514283 TCCTCAGTTACAACAGTGGGGATGGTTAGCTCTCTAGTGTAATAAATTGGTTTTACCTCTACCAA
196 TCCTCAGTTACAACAGTGGGGATGGTTAGCTCTCTAGTGTAATAAATTGGTTTTACCTCTACCAA
4514348 ATTTTTCAAACTCCCTGAAATTGCACAACCAAGCCTGACATATATGTCTTCACACAATCGAAAAT
261 ATTTTTCAAACTCCCTGAAATTGCACAACCAAGCCTGACATATATGTCTTCACACAATCGAAAAT
4514413 GCAACCATGGCATCCCAACATCTGTTTTCATTTGATAGCTGAGCCAATGATGGCAGGAGTCGGTT
326 GCAACCATGGCATCCCAACATCTGTTTTCATTTGATAGCTGAGCCAATGATGGCAGGAGTCGGTT
4514478 ACAGATCATCTACACCTCTGTTTGCCAGCATTCAAAGGAGAACCTCTGATGCTTTTAGATTGAGT
391 ACAGATCATCTACACCTCTGTTTGCCAGCATTCAAAGGAGAACCTCTGATGCTTTTAGATTGAGT
4514543 GTTGGAGAGTTGCTGAGATCCCTCTGGTTTCTTCTTTCGCCTCCCTTGTTGAGATAGACGAGAGT
456 GTTGGAGAGTTGCTGAGATCCCTCTGGTTTCTTCTTTCGCCTCCCTTGTTGAGATAGACGAGAGT
4514608 GGTAGGATAAGATGGCGAGATCATTAAGGTCTTGCAACGGAGTGAGAACTTTCACTACTTCATCC
521 GGTAGGATAAGATGGCGAGATCATTAAGGTCTTGCAACGGAGTGAGAACTTTCACTACTTCATCC
4514673 ATTGTAGGACGGGATTTTGGGTCCCGGTGGAGGCAGTTGTGAGCTAATTGAGAAACTTTCTGCAC
586 ATTGTAGGACGGGATTTTGGGTCCCGGTGGAGGCAGTTGTGAGCTAATTGAGAAACTTTCTGCAC
4514738 TCCTTTTAGAGAATAATTCAGCTCCAAGCGGGGATCCACCAGTTGGTAAAGTTTTCTCTTGTCAG
651 TCCTTTTAGAGAATAATTCAGCTCCAAGCGGGGATCCACCAGTTGGTAAAGTTTTCTCTTGTCAG
4514803 CTAAAACAAAACTTTCCCATCTTTTAGCATTCTCATTTACATATACTGAAGAGTATGTGGATTTG
1 CTAAAACAAAACTTTCCCATCTTTTAGCATTCTCATTTACATATACTGAAGAGTATGTGGATTTG
4514868 AAGCAAAATCATACAAGTGTCAATGGAGAAACATACTGCAAGTTCCAAAACTCAATAAGAAATTA
66 AAGCAAAATCATACAAGTGTCAATGGAGAAACATACTGCAAGTTCCAAAACTCAATAAGAAATTA
4514933 GACATTCGGGTAGCTGCAAATACCAGTCATTGAAATGGGAGGTTTGATCTAATTACAAGAGATAC
131 GACATTCGGGTAGCTGCAAATACCAGTCATTGAAATGGGAGGTTTGATCTAATTACAAGAGATAC
4514998 TCCTCAGTTACAACAGTGGGGATGGTTAGCTCTCTAGTGTAATAAATTGGTTTTACCTCTACCAA
196 TCCTCAGTTACAACAGTGGGGATGGTTAGCTCTCTAGTGTAATAAATTGGTTTTACCTCTACCAA
4515063 ATTTTTCAAACTCCCTGAAATTGCACAACCAAGCCTGACATATATGTCTTCACACAATCGAAAAT
261 ATTTTTCAAACTCCCTGAAATTGCACAACCAAGCCTGACATATATGTCTTCACACAATCGAAAAT
4515128 GCAACCATGGCATCCCAACATCTGTTTTCATTTGATAGCTGAGCCAATGATGGCAGGAGTCGGTT
326 GCAACCATGGCATCCCAACATCTGTTTTCATTTGATAGCTGAGCCAATGATGGCAGGAGTCGGTT
4515193 ACAGATCATCTACACCTCTGTTTGCCAGCATTCAAAGGAGAACCTCTGATGCTTTTAGATTGAGT
391 ACAGATCATCTACACCTCTGTTTGCCAGCATTCAAAGGAGAACCTCTGATGCTTTTAGATTGAGT
4515258 GTTGGAGAGTTGCTGAGATCCCTCTGGTTTCTTCTTTCGCCTCCCTTGTTGAGATAGACGAGAGT
456 GTTGGAGAGTTGCTGAGATCCCTCTGGTTTCTTCTTTCGCCTCCCTTGTTGAGATAGACGAGAGT
4515323 GGTAGGATAAGATGGCGAGATCATTAAGGTCTTGCAACGGAGTGAGAACTTTCACTACTTCATCC
521 GGTAGGATAAGATGGCGAGATCATTAAGGTCTTGCAACGGAGTGAGAACTTTCACTACTTCATCC
4515388 ATTGTAGGACGGGATTTTGGGTCCCGGTGGAGGCAGTTGTGAGCTAATTGAGAAACTTTCTGCAC
586 ATTGTAGGACGGGATTTTGGGTCCCGGTGGAGGCAGTTGTGAGCTAATTGAGAAACTTTCTGCAC
4515453 TCCTTTTAGAGAATAATTCAGCTCCAAGCGGGGATCCACCAGTTGGTAAAGTTTTCTCTTGTCAG
651 TCCTTTTAGAGAATAATTCAGCTCCAAGCGGGGATCCACCAGTTGGTAAAGTTTTCTCTTGTCAG
4515518 CTAAA
1 CTAAA
4515523 TATGGTCGAG
Statistics
Matches: 720, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
715 720 1.00
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (715 bp):
CTAAAACAAAACTTTCCCATCTTTTAGCATTCTCATTTACATATACTGAAGAGTATGTGGATTTG
AAGCAAAATCATACAAGTGTCAATGGAGAAACATACTGCAAGTTCCAAAACTCAATAAGAAATTA
GACATTCGGGTAGCTGCAAATACCAGTCATTGAAATGGGAGGTTTGATCTAATTACAAGAGATAC
TCCTCAGTTACAACAGTGGGGATGGTTAGCTCTCTAGTGTAATAAATTGGTTTTACCTCTACCAA
ATTTTTCAAACTCCCTGAAATTGCACAACCAAGCCTGACATATATGTCTTCACACAATCGAAAAT
GCAACCATGGCATCCCAACATCTGTTTTCATTTGATAGCTGAGCCAATGATGGCAGGAGTCGGTT
ACAGATCATCTACACCTCTGTTTGCCAGCATTCAAAGGAGAACCTCTGATGCTTTTAGATTGAGT
GTTGGAGAGTTGCTGAGATCCCTCTGGTTTCTTCTTTCGCCTCCCTTGTTGAGATAGACGAGAGT
GGTAGGATAAGATGGCGAGATCATTAAGGTCTTGCAACGGAGTGAGAACTTTCACTACTTCATCC
ATTGTAGGACGGGATTTTGGGTCCCGGTGGAGGCAGTTGTGAGCTAATTGAGAAACTTTCTGCAC
TCCTTTTAGAGAATAATTCAGCTCCAAGCGGGGATCCACCAGTTGGTAAAGTTTTCTCTTGTCAG
Found at i:4518284 original size:3 final size:3
Alignment explanation
Indices: 4518278--4518309 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
4518268 ACAACACAGT
4518278 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
4518310 GTAGGCATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:4518790 original size:17 final size:16
Alignment explanation
Indices: 4518763--4518795 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
4518753 TTTTTATTTG
4518763 TAACTTTTAATTTATT
1 TAACTTTTAATTTATT
4518779 TAACTATTTAATTTATT
1 TAACT-TTTAATTTATT
4518796 ACTTATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (16 bp):
TAACTTTTAATTTATT
Found at i:4520130 original size:24 final size:24
Alignment explanation
Indices: 4520098--4520150 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
4520088 TTTCTAGAAG
*
4520098 ATTTAGCATTTATGAGTATAATAT
1 ATTTAGCATTTATGAGCATAATAT
*
4520122 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAGCATAATAT
4520146 ATTTA
1 ATTTA
4520151 ACTTTGATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (24 bp):
ATTTAGCATTTATGAGCATAATAT
Found at i:4520160 original size:24 final size:24
Alignment explanation
Indices: 4520098--4520161 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
4520088 TTTCTAGAAG
* * *
4520098 ATTTAGCATTTATGAGTATAATAT
1 ATTTAACATTTATTAGCATAATAT
*
4520122 ATTTAGCATTTATTAGCATAATAT
1 ATTTAACATTTATTAGCATAATAT
4520146 ATTTAAC-TTTGATTAG
1 ATTTAACATTT-ATTAG
4520162 AATTAGGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 3 0.08
24 33 0.92
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.47
Consensus pattern (24 bp):
ATTTAACATTTATTAGCATAATAT
Found at i:4524506 original size:24 final size:24
Alignment explanation
Indices: 4524478--4524529 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
4524468 TTTCTAGAAG
* *
4524478 ATTTAATATTTATGAGTATAATAT
1 ATTTAACATTTATGAGCATAATAT
* *
4524502 ATTTAGCATTTATTAGCATAATAT
1 ATTTAACATTTATGAGCATAATAT
4524526 ATTT
1 ATTT
4524530 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAACATTTATGAGCATAATAT
Found at i:4532448 original size:11 final size:10
Alignment explanation
Indices: 4532432--4532497 Score: 50
Period size: 11 Copynumber: 6.5 Consensus size: 10
4532422 GAGTTCAGAC
4532432 TCAAAAAAAA
1 TCAAAAAAAA
*
4532442 TTC--AAAAAT
1 -TCAAAAAAAA
4532451 TC-AAA-AAA
1 TCAAAAAAAA
4532459 TCAAAAAAAAA
1 TC-AAAAAAAA
4532470 TCATCAAAAAAA
1 TCA--AAAAAAA
4532482 TCAAAAAAAAA
1 TC-AAAAAAAA
4532493 TCAAA
1 TCAAA
4532498 GTCAAAAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 15
0.73 0.03 0.24
Matches are distributed among these distances:
8 6 0.13
9 7 0.15
10 7 0.15
11 16 0.35
12 9 0.20
13 1 0.02
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (10 bp):
TCAAAAAAAA
Found at i:4532504 original size:23 final size:22
Alignment explanation
Indices: 4532453--4532495 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
4532443 TCAAAAATTC
4532453 AAAAAATCAAAAAAAAATCATCA
1 AAAAAATCAAAAAAAAATCA-CA
4532476 AAAAAATCAAAAAAAAATCA
1 AAAAAATCAAAAAAAAATCA
4532496 AAGTCAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.77, C:0.12, G:0.00, T:0.12
Consensus pattern (22 bp):
AAAAAATCAAAAAAAAATCACA
Found at i:4533354 original size:7 final size:7
Alignment explanation
Indices: 4533342--4533398 Score: 51
Period size: 7 Copynumber: 7.7 Consensus size: 7
4533332 TTGAGTCAAA
4533342 AAAAAAG
1 AAAAAAG
4533349 AAAAAAG
1 AAAAAAG
*
4533356 AAGAAATG
1 AA-AAAAG
*
4533364 AGAAAAAT
1 A-AAAAAG
*
4533372 AAAAATG
1 AAAAAAG
*
4533379 AAAAATG
1 AAAAAAG
4533386 AAAAAATG
1 AAAAAA-G
4533394 AAAAA
1 AAAAA
4533399 GTAAAAATAG
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
7 25 0.61
8 15 0.37
9 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (7 bp):
AAAAAAG
Found at i:4533354 original size:8 final size:8
Alignment explanation
Indices: 4533341--4533398 Score: 61
Period size: 8 Copynumber: 7.6 Consensus size: 8
4533331 TTTGAGTCAA
*
4533341 AAAAAAAG
1 AAAAAATG
4533349 AAAAAA-G
1 AAAAAATG
*
4533356 AAGAAATG
1 AAAAAATG
4533364 AGAAAAAT-
1 A-AAAAATG
4533372 -AAAAATG
1 AAAAAATG
4533379 -AAAAATG
1 AAAAAATG
4533386 AAAAAATG
1 AAAAAATG
4533394 AAAAA
1 AAAAA
4533399 GTAAAAATAG
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
6 6 0.14
7 13 0.30
8 20 0.45
9 5 0.11
ACGTcount: A:0.78, C:0.00, G:0.14, T:0.09
Consensus pattern (8 bp):
AAAAAATG
Found at i:4533369 original size:22 final size:22
Alignment explanation
Indices: 4533342--4533406 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 22
4533332 TTGAGTCAAA
4533342 AAAAAAGAAAAAA-GAAGAAATG
1 AAAAAAGAAAAAATGAA-AAATG
*
4533364 AGAAAAA-TAAAAATGAAAAATG
1 A-AAAAAGAAAAAATGAAAAATG
*
4533386 AAAAAATGAAAAAGT-AAAAAT
1 AAAAAA-GAAAAAATGAAAAAT
4533407 AGAGAGGCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
21 5 0.14
22 18 0.50
23 13 0.36
ACGTcount: A:0.75, C:0.00, G:0.14, T:0.11
Consensus pattern (22 bp):
AAAAAAGAAAAAATGAAAAATG
Found at i:4533377 original size:15 final size:15
Alignment explanation
Indices: 4533339--4533411 Score: 50
Period size: 15 Copynumber: 5.0 Consensus size: 15
4533329 ACTTTGAGTC
4533339 AAAA-AAAAA-GA-A
1 AAAATAAAAATGAGA
*
4533351 AAAAGAAGAAATGAGA
1 AAAATAA-AAATGAGA
4533367 AAAATAAAAAT--GA
1 AAAATAAAAATGAGA
4533380 AAAATGAAAAAATGA-A
1 AAAAT--AAAAATGAGA
*
4533396 AAAGTAAAAATAGAGA
1 AAAATAAAAAT-GAGA
4533412 GGCTAAGGGG
Statistics
Matches: 49, Mismatches: 2, Indels: 16
0.73 0.03 0.24
Matches are distributed among these distances:
12 4 0.08
13 9 0.18
14 9 0.18
15 14 0.29
16 13 0.27
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (15 bp):
AAAATAAAAATGAGA
Found at i:4533382 original size:30 final size:29
Alignment explanation
Indices: 4533339--4533406 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
4533329 ACTTTGAGTC
*
4533339 AAAA-AAAAA-GAAAAAAGAAGAAATGAGA
1 AAAATAAAAATGAAAAAAGAAAAAATGA-A
*
4533367 AAAATAAAAATGAAAAATGAAAAAATGAA
1 AAAATAAAAATGAAAAAAGAAAAAATGAA
*
4533396 AAAGTAAAAAT
1 AAAATAAAAAT
4533407 AGAGAGGCTA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
28 4 0.11
29 16 0.46
30 15 0.43
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.10
Consensus pattern (29 bp):
AAAATAAAAATGAAAAAAGAAAAAATGAA
Found at i:4534781 original size:43 final size:43
Alignment explanation
Indices: 4534645--4534781 Score: 120
Period size: 43 Copynumber: 3.2 Consensus size: 43
4534635 AGAAACAGGT
4534645 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAAC
1 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAAC
* ** * * ** * *
4534688 CTTGCC-TCTCT-CGGTT-GTAGC-AGAGCTGGTTGAAGACAACAGAT
1 CTTGCCTTC-CTGC-ATTAACAGCGA-AGCAGATCAAAAACAA-A-AC
4534732 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAAC
1 CTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAAC
4534775 CTTGCCT
1 CTTGCCT
4534782 CTCTCGGTTG
Statistics
Matches: 67, Mismatches: 18, Indels: 18
0.65 0.17 0.17
Matches are distributed among these distances:
41 1 0.01
42 17 0.25
43 19 0.28
44 12 0.18
45 17 0.25
46 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (43 bp):
CTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAAC
Found at i:4534784 original size:87 final size:87
Alignment explanation
Indices: 4534634--4535266 Score: 1045
Period size: 87 Copynumber: 7.3 Consensus size: 87
4534624 GAACAGATCA
* *
4534634 AAGA-AACAGGTCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAACCTTGCCTCTC
1 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCTC
4534698 TCGGTTGTAGCAGAGCTGGTTG
66 TCGGTTGTAGCAGAGCTGGTTG
*
4534720 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAACCTTGCCTCTC
1 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCTC
4534785 TCGGTTGTAGCAGAGCTGGTTG
66 TCGGTTGTAGCAGAGCTGGTTG
* *
4534807 AAGACAACAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCT
1 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACA-AAACCTTGCCTCT
4534872 CTCGGTTGTAGCAGAGCTGGTTG
65 CTCGGTTGTAGCAGAGCTGGTTG
* * *
4534895 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCACATCAAAAATAAAACCTTGCCTCTC
1 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCTC
4534960 TCGGTTGTAGCAGAGCTGGTTG
66 TCGGTTGTAGCAGAGCTGGTTG
*
4534982 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCT
1 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACA-AAACCTTGCCTCT
4535047 CTCGGTTGTAGCAGAGCTGGTTG
65 CTCGGTTGTAGCAGAGCTGGTTG
*
4535070 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAACTTTGCCTCTC
1 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCTC
4535135 TCGGTTGTAGCAGAGCTGGTTG
66 TCGGTTGTAGCAGAGCTGGTTG
* * * *
4535157 AAGACAGCAAATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC-C
1 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCTC
* * *
4535221 ATCGGTTGCAGTAGAGCTGGTTA
66 -TCGGTTGTAGCAGAGCTGGTTG
* * *
4535244 AAGATAGCAAATCTTGCCTTCCT
1 AAGACAACAGATCTTGCCTTCCT
4535267 AAGTACTAGC
Statistics
Matches: 519, Mismatches: 24, Indels: 7
0.94 0.04 0.01
Matches are distributed among these distances:
86 5 0.01
87 346 0.67
88 168 0.32
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.23
Consensus pattern (87 bp):
AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACAAAACCTTGCCTCTC
TCGGTTGTAGCAGAGCTGGTTG
Found at i:4534934 original size:175 final size:175
Alignment explanation
Indices: 4534634--4535266 Score: 1060
Period size: 175 Copynumber: 3.6 Consensus size: 175
4534624 GAACAGATCA
* * *
4534634 AAGA-AACAGGTCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACA-AAACCTTGCCTCT
1 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCT
4534697 CTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGA
66 CTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGA
4534762 TCAAAAACAAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTG
131 TCAAAAACAAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTG
*
4534807 AAGACAACAGATCTTGCCTTCCTACATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCT
1 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCT
*
4534872 CTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCACA
66 CTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGA
*
4534937 TCAAAAATAAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTG
131 TCAAAAACAAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTG
4534982 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCT
1 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCT
4535047 CTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGA
66 CTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGA
* *
4535112 TCGAAAACAAAACTTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTG
131 TCAAAAACAAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTG
* * *
4535157 AAGACAGCAAATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCCTC
1 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTC
* * * * * *
4535220 -CATCGGTTGCAGTAGAGCTGGTTAAAGATAGCAAATCTTGCCTTCCT
65 TC-TCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCT
4535267 AAGTACTAGC
Statistics
Matches: 436, Mismatches: 20, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
173 10 0.02
174 91 0.21
175 335 0.77
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.23
Consensus pattern (175 bp):
AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCT
CTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGA
TCAAAAACAAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTG
Found at i:4535132 original size:262 final size:262
Alignment explanation
Indices: 4534634--4535292 Score: 1058
Period size: 262 Copynumber: 2.5 Consensus size: 262
4534624 GAACAGATCA
*
4534634 AAGA-AACAGGTCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAACCTTGCCTCTC
1 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAACCTTGCCTCTC
4534698 TCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGAT
66 TCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGAT
* *
4534763 CAAAAACAAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTC
131 CGAAGACAAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTC
*
4534828 CTACATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGT
196 CTACATTAACAGCGAAGCAGATCGAAAACACAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGT
4534893 TG
261 TG
* *
4534895 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCACATCAAAAATAAAACCTTGCCTCTC
1 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAACCTTGCCTCTC
4534960 TCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGAT
66 TCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGAT
4535025 CGAAGACACAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTT
131 CGAAGACA-AAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTT
* *
4535090 CCTGCATTAACAGCGAAGCAGATCGAAAACA-AAACTTTGCCTCTCTCGGTTGTAGCAGAGCTGG
195 CCTACATTAACAGCGAAGCAGATCGAAAACACAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGG
4535154 TTG
260 TTG
* * * * *
4535157 AAGACAGCAAATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGCCTTGCCTC-C
1 AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAACCTTGCCTCTC
* * * * * * * * *
4535221 ATCGGTTGCAGTAGAGCTGGTTAAAGATAGCAAATCTTGCCTTCCT-AAGT-ACTAGCGGAGCAG
66 -TCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATTAAC-AGCGAAGCAG
4535284 ATCGAAGAC
129 ATCGAAGAC
4535293 GGTGAATCTT
Statistics
Matches: 370, Mismatches: 24, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
260 2 0.01
261 25 0.07
262 258 0.70
263 85 0.23
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (262 bp):
AAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCAAAAACAAAACCTTGCCTCTC
TCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGAT
CGAAGACAAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGTTGAAGACAACAGATCTTGCCTTC
CTACATTAACAGCGAAGCAGATCGAAAACACAAACCTTGCCTCTCTCGGTTGTAGCAGAGCTGGT
TG
Found at i:4535327 original size:44 final size:44
Alignment explanation
Indices: 4535277--4535614 Score: 235
Period size: 44 Copynumber: 7.8 Consensus size: 44
4535267 AAGTACTAGC
*
4535277 GGAGCAGATCGAAGACGGTGAATCTTATCTTCCTAAGCAGTAGT
1 GGAGCAGATCGAAGACGGTGAATCTTATCTCCCTAAGCAGTAGT
* ** **** * *
4535321 GAAGCAGATTTAAG-C-CACCATCCTATCTCTCTAAGCAGTAGT
1 GGAGCAGATCGAAGACGGTGAATCTTATCTCCCTAAGCAGTAGT
* * * *
4535363 GGAGCAGGTCGAAGATGTTAGATTC-TATCTCCCTAAGCAGTAGT
1 GGAGCAGATCGAAGACGGT-GAATCTTATCTCCCTAAGCAGTAGT
* * *
4535407 GGAGTAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGT
1 GGAGCAGATCGAAGACGGTGAATCTTATCTCCCTAAGCAGTAGT
* ** **** * *
4535451 GAAGCAGATTTAAG-CCACCAGTCCTATCTCCCTAAGCAGTAGT
1 GGAGCAGATCGAAGACGGTGAATCTTATCTCCCTAAGCAGTAGT
* * * * *
4535494 GGAGCAGGTCAAAGA-TGTTAGATCCTATCTCCCTAAGCAGTAGT
1 GGAGCAGATCGAAGACGGTGA-ATCTTATCTCCCTAAGCAGTAGT
* * * * *
4535538 AGAGTAGATCGTA-TC--AG-ATCTTATCTCCCTAAGCAGTAGT
1 GGAGCAGATCGAAGACGGTGAATCTTATCTCCCTAAGCAGTAGT
* * * *
4535578 GGAGTAGATCGAAGATGGTGAATTTTACCTCCCTAAG
1 GGAGCAGATCGAAGACGGTGAATCTTATCTCCCTAAG
4535615 GTTACAGTGG
Statistics
Matches: 220, Mismatches: 63, Indels: 22
0.72 0.21 0.07
Matches are distributed among these distances:
40 33 0.15
42 30 0.14
43 40 0.18
44 115 0.52
45 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.26
Consensus pattern (44 bp):
GGAGCAGATCGAAGACGGTGAATCTTATCTCCCTAAGCAGTAGT
Found at i:4535416 original size:130 final size:131
Alignment explanation
Indices: 4535277--4535548 Score: 483
Period size: 131 Copynumber: 2.1 Consensus size: 131
4535267 AAGTACTAGC
* *
4535277 GGAGCAGATCGAAGACGGTGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCA-
1 GGAGTAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG
* * *
4535341 TCCTATCTCTCTAAGCAGTAGTGGAGCAGGTCGAAGATGTTAGATTCTATCTCCCTAAGCAGTAG
66 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGATCCTATCTCCCTAAGCAGTAG
4535406 T
131 T
4535407 GGAGTAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG
1 GGAGTAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG
4535472 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGATCCTATCTCCCTAAGCAGTAG
66 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGATCCTATCTCCCTAAGCAGTAG
4535537 T
131 T
*
4535538 AGAGTAGATCG
1 GGAGTAGATCG
4535549 TATCAGATCT
Statistics
Matches: 135, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
130 62 0.46
131 73 0.54
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (131 bp):
GGAGTAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG
TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGATCCTATCTCCCTAAGCAGTAG
T
Found at i:4535496 original size:87 final size:84
Alignment explanation
Indices: 4535382--4535592 Score: 221
Period size: 87 Copynumber: 2.5 Consensus size: 84
4535372 CGAAGATGTT
* * *
4535382 AGATTCTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGGCGA-ATCTTATCTTCCTAAGCA
1 AGATCCTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGA-GGCGAGATCCTATCTCCCTAAGCA
4535446 GTAGT-GAAGCAGATTTAAGCCACC
65 GTAGTAG-AGCAGA--T-AG-CACC
* * * * **
4535470 AG-TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGATCCTATCTCCCTAAGCAG
1 AGATCCTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAGGCGAGATCCTATCTCCCTAAGCAG
* * * *
4535534 TAGTAGAGTAGATCGTATC
66 TAGTAGAGCAGATAGCACC
*
4535553 AGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGA
1 AGATCCTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGA
4535593 TGGTGAATTT
Statistics
Matches: 103, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
83 4 0.04
84 34 0.33
85 1 0.01
86 2 0.02
87 59 0.57
88 3 0.03
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (84 bp):
AGATCCTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAGGCGAGATCCTATCTCCCTAAGCAG
TAGTAGAGCAGATAGCACC
Found at i:4535568 original size:40 final size:40
Alignment explanation
Indices: 4535472--4535588 Score: 135
Period size: 40 Copynumber: 2.8 Consensus size: 40
4535462 AAGCCACCAG
* * * * *
4535472 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGTTAGA
1 TCCTATCTCCCTAAGCAGTAGTAGAGTAGATC---G-TATCAGA
4535516 TCCTATCTCCCTAAGCAGTAGTAGAGTAGATCGTATCAGA
1 TCCTATCTCCCTAAGCAGTAGTAGAGTAGATCGTATCAGA
* *
4535556 TCTTATCTCCCTAAGCAGTAGTGGAGTAGATCG
1 TCCTATCTCCCTAAGCAGTAGTAGAGTAGATCG
4535589 AAGATGGTGA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
40 36 0.55
41 1 0.02
44 29 0.44
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.27
Consensus pattern (40 bp):
TCCTATCTCCCTAAGCAGTAGTAGAGTAGATCGTATCAGA
Found at i:4542108 original size:15 final size:15
Alignment explanation
Indices: 4542088--4542121 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4542078 AAGGGAGAAG
4542088 AAGAAA-AAAAAAAGA
1 AAGAAAGAAAAAAA-A
4542103 AAGAAAGAAAAAAAA
1 AAGAAAGAAAAAAAA
4542118 AAGA
1 AAGA
4542122 GGAAGTGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (15 bp):
AAGAAAGAAAAAAAA
Found at i:4545051 original size:18 final size:17
Alignment explanation
Indices: 4545024--4545058 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
4545014 ATTCATAATG
4545024 TTTAATATTATGTTATT
1 TTTAATATTATGTTATT
4545041 TTTACATATTATGTTATT
1 TTTA-ATATTATGTTATT
4545059 CATAACATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.63
Consensus pattern (17 bp):
TTTAATATTATGTTATT
Found at i:4546185 original size:16 final size:17
Alignment explanation
Indices: 4546166--4546223 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 17
4546156 TAAGGGGTTT
4546166 AAAATTTAATTTATACA
1 AAAATTTAATTTATACA
* * *
4546183 AAAATTCACATATATGACT
1 AAAATTTA-ATTTAT-ACA
*
4546202 TAAATATTAATTTATACA
1 AAAAT-TTAATTTATACA
4546220 AAAA
1 AAAA
4546224 AAATAACATT
Statistics
Matches: 30, Mismatches: 8, Indels: 5
0.70 0.19 0.12
Matches are distributed among these distances:
17 7 0.23
18 10 0.33
19 11 0.37
20 2 0.07
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.36
Consensus pattern (17 bp):
AAAATTTAATTTATACA
Done.