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 146 of 189
Found at i:44386680 original size:39 final size:39
Alignment explanation
Indices: 44386591--44386685 Score: 117
Period size: 39 Copynumber: 2.4 Consensus size: 39
44386581 ATATATAAAA
44386591 ATTTTAAGTAATGTAATATATTTAAGTAATGTAAATTAT
1 ATTTTAAGTAATGTAATATATTTAAGTAATGTAAATTAT
44386630 AAATTTT-AGTAA-GTAATATATTTAAGTAATGTAACA-TAT
1 --ATTTTAAGTAATGTAATATATTTAAGTAATGTAA-ATTAT
44386669 -TTTAGTAAGTAATGTAA
1 ATTT--TAAGTAATGTAA
44386686 GTAATGTAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 11
0.82 0.00 0.18
Matches are distributed among these distances:
36 3 0.06
38 1 0.02
39 30 0.61
40 10 0.20
41 5 0.10
ACGTcount: A:0.44, C:0.01, G:0.12, T:0.43
Consensus pattern (39 bp):
ATTTTAAGTAATGTAATATATTTAAGTAATGTAAATTAT
Found at i:44386724 original size:47 final size:44
Alignment explanation
Indices: 44386673--44386778 Score: 153
Period size: 47 Copynumber: 2.4 Consensus size: 44
44386663 ACATATTTTA
44386673 GTAAGTAATGTAAGTAATGTAA-TATATACTTAAAAATATATATTT
1 GTAAGTAATGTAAGTAATGTAAGTA-ATACTTAAAAATATATA-TT
*
44386718 CGGTAAGTAATGTAAGTAATGTAAGTAATACTTAAGAATATATATT
1 --GTAAGTAATGTAAGTAATGTAAGTAATACTTAAAAATATATATT
44386764 -TAAGTAATGTAAGTA
1 GTAAGTAATGTAAGTA
44386779 TATGAAACAA
Statistics
Matches: 57, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
43 15 0.26
46 2 0.04
47 38 0.67
48 2 0.04
ACGTcount: A:0.45, C:0.03, G:0.15, T:0.37
Consensus pattern (44 bp):
GTAAGTAATGTAAGTAATGTAAGTAATACTTAAAAATATATATT
Found at i:44386734 original size:9 final size:9
Alignment explanation
Indices: 44386720--44386746 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
44386710 ATATATTTCG
44386720 GTAAGTAAT
1 GTAAGTAAT
44386729 GTAAGTAAT
1 GTAAGTAAT
44386738 GTAAGTAAT
1 GTAAGTAAT
44386747 ACTTAAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (9 bp):
GTAAGTAAT
Found at i:44386791 original size:47 final size:46
Alignment explanation
Indices: 44386665--44386785 Score: 128
Period size: 47 Copynumber: 2.7 Consensus size: 46
44386655 GTAATGTAAC
*
44386665 ATAT-TTTAGTAAGTAATGTAAGTAATG-TAA-TATATACTTAAAAAT
1 ATATATTT-GTAAGTAATGTAAGTAATGAAAAGTA-ATACTTAAAAAT
* *
44386710 ATATATTTCGGTAAGTAATGTAAGTAATG-TAAGTAATACTTAAGAAT
1 ATATATTT--GTAAGTAATGTAAGTAATGAAAAGTAATACTTAAAAAT
44386757 ATATA-TT-TAAGTAATGTAAGTATATGAAA
1 ATATATTTGTAAGTAATGTAAGTA-ATGAAA
44386786 CAAGTATATG
Statistics
Matches: 68, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
43 15 0.22
44 3 0.04
45 5 0.07
46 5 0.07
47 38 0.56
48 2 0.03
ACGTcount: A:0.45, C:0.02, G:0.14, T:0.38
Consensus pattern (46 bp):
ATATATTTGTAAGTAATGTAAGTAATGAAAAGTAATACTTAAAAAT
Found at i:44386794 original size:34 final size:34
Alignment explanation
Indices: 44386730--44386794 Score: 80
Period size: 34 Copynumber: 1.9 Consensus size: 34
44386720 GTAAGTAATG
* *
44386730 TAAGTAATGTAAGTAATACTTAAGAATATATATT
1 TAAGTAATGTAAGTAATACTAAACAATATATATT
44386764 TAAGTAATGTAAGT-ATA-TGAAACAAGTATAT
1 TAAGTAATGTAAGTAATACT-AAACAA-TATAT
44386795 GGACATGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 1 0.04
33 7 0.26
34 19 0.70
ACGTcount: A:0.48, C:0.03, G:0.14, T:0.35
Consensus pattern (34 bp):
TAAGTAATGTAAGTAATACTAAACAATATATATT
Found at i:44388378 original size:83 final size:84
Alignment explanation
Indices: 44388291--44388511 Score: 252
Period size: 84 Copynumber: 2.6 Consensus size: 84
44388281 TGCATATTTC
* ** * * *
44388291 CGGCGTTTT-TAGAAAAAATGCCGGTATAA-A-TTCATTTCATGAAGCGAAACGGTGCCGCATTG
1 CGGCGTTTTCT-GAAAAAACGCCAATATAAGATTTCATTCCA-GAAGAGAAACGGCGCCGCATTG
44388353 ACAAACATTAATTCACACTTG
64 ACAAACATTAATTCACACTTG
* * * *
44388374 CGGCGTTTTCTTAAAAAACGCCAATATAAGATTTCATTCCAGTAGAGAAACGGCGCCGTATTGGC
1 CGGCGTTTTCTGAAAAAACGCCAATATAAGATTTCATTCCAGAAGAGAAACGGCGCCGCATTGAC
*
44388439 AAACATTAATTCACTCTTG
66 AAACATTAATTCACACTTG
** * *
44388458 CGGCGTTTTCCT-AAAAAACGCCGCTATAAGATTTTATTCCAGTAGAGAAACGGC
1 CGGCGTTTT-CTGAAAAAACGCCAATATAAGATTTCATTCCAGAAGAGAAACGGC
44388512 ATCGCTTTGG
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
83 23 0.19
84 87 0.73
85 10 0.08
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (84 bp):
CGGCGTTTTCTGAAAAAACGCCAATATAAGATTTCATTCCAGAAGAGAAACGGCGCCGCATTGAC
AAACATTAATTCACACTTG
Found at i:44388447 original size:84 final size:84
Alignment explanation
Indices: 44388336--44388511 Score: 280
Period size: 84 Copynumber: 2.1 Consensus size: 84
44388326 TTCATGAAGC
* *
44388336 GAAACGGTGCCGCATTGACAAACATTAATTCACACTTGCGGCGTTTTCTTAAAAAACGCCAATAT
1 GAAACGGCGCCGCATTGACAAACATTAATTCACACTTGCGGCGTTTTCCTAAAAAACGCCAATAT
44388401 AAGATTTCATTCCAGTAGA
66 AAGATTTCATTCCAGTAGA
* * * **
44388420 GAAACGGCGCCGTATTGGCAAACATTAATTCACTCTTGCGGCGTTTTCCTAAAAAACGCCGCTAT
1 GAAACGGCGCCGCATTGACAAACATTAATTCACACTTGCGGCGTTTTCCTAAAAAACGCCAATAT
*
44388485 AAGATTTTATTCCAGTAGA
66 AAGATTTCATTCCAGTAGA
44388504 GAAACGGC
1 GAAACGGC
44388512 ATCGCTTTGG
Statistics
Matches: 84, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (84 bp):
GAAACGGCGCCGCATTGACAAACATTAATTCACACTTGCGGCGTTTTCCTAAAAAACGCCAATAT
AAGATTTCATTCCAGTAGA
Found at i:44388542 original size:84 final size:84
Alignment explanation
Indices: 44388349--44388581 Score: 256
Period size: 84 Copynumber: 2.8 Consensus size: 84
44388339 ACGGTGCCGC
* * * *
44388349 ATTGACAAACATTAATTCACACTTGCGGCGTTTTCTTAAAAAACGCCAATATAAGATTTCATTCC
1 ATTGGCAAACATTAATACACTCTTGCGGCGTTTTCCTAAAAAACGCCAATATAAGATTTCATTCC
*
44388414 AGTAGAGAAACGGCGCCGT
66 AGTAGAGAAACGGCACCGT
* ** *
44388433 ATTGGCAAACATTAATTCACTCTTGCGGCGTTTTCCTAAAAAACGCCGCTATAAGATTTTATTCC
1 ATTGGCAAACATTAATACACTCTTGCGGCGTTTTCCTAAAAAACGCCAATATAAGATTTCATTCC
*
44388498 AGTAGAGAAACGGCATCGCT
66 AGTAGAGAAACGGCACCG-T
** * ** * * *
44388518 -TTGGCAAATTTTAATACA-TCCTTGCAGCGTTTTTATCAAAAACGCCACA-AAAATATTTCATT
1 ATTGGCAAACATTAATACACT-CTTGCGGCGTTTTCCTAAAAAACGCCA-ATATAAGATTTCATT
44388580 CC
64 CC
44388582 TCAAGATAAA
Statistics
Matches: 126, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
83 1 0.01
84 124 0.98
85 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (84 bp):
ATTGGCAAACATTAATACACTCTTGCGGCGTTTTCCTAAAAAACGCCAATATAAGATTTCATTCC
AGTAGAGAAACGGCACCGT
Found at i:44388993 original size:84 final size:84
Alignment explanation
Indices: 44388894--44389059 Score: 242
Period size: 84 Copynumber: 2.0 Consensus size: 84
44388884 TGGTGTCACA
* * *
44388894 TTGGCAAACATTAATTCACTCTTGCGGCGTTTTCTTAAAAAACGCCACTATAAGATTTCATTCGA
1 TTGGCAAACATTAATTCACTCTTGCGGCGTTTTCCTAAAAAACGCCACTAAAAGATTTCATTCCA
* *
44388959 GTAGAGAAACGGCGCCGTG
66 GTAAAGAAACGACGCCGTG
* * * * *
44388978 TTGGCCAACATTAATTCACTTTTGCGGCGTTTTCCTACAAAACGCCTCTAAAAGATTTTATTCCA
1 TTGGCAAACATTAATTCACTCTTGCGGCGTTTTCCTAAAAAACGCCACTAAAAGATTTCATTCCA
44389043 GTAAAGAAACGACGCCG
66 GTAAAGAAACGACGCCG
44389060 CTTTGGAAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 72 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (84 bp):
TTGGCAAACATTAATTCACTCTTGCGGCGTTTTCCTAAAAAACGCCACTAAAAGATTTCATTCCA
GTAAAGAAACGACGCCGTG
Found at i:44389435 original size:88 final size:87
Alignment explanation
Indices: 44389247--44389507 Score: 330
Period size: 88 Copynumber: 3.0 Consensus size: 87
44389237 CATAAAGAAC
** * * *
44389247 TTATTTAATATATAAATTAAAAGTACTAATTAATCTAAATCTTAAACCCTAACTTGACTCCTAA-
1 TTATTTAATATATAAATTAAAAACACTAATTAATCTAAATCCTAAACCCTAACTTGACCCCAAAT
*
44389311 CCTTTAACCCCTAACCCCTAAAT
66 CC-CTAACCCCTAACCCCTAAAT
44389334 TTATTTAATATATAAATTAACAAACACTAATTAATCTAAATCCTAAACCCTAAACTTGACCCCAA
1 TTATTTAATATATAAATTAA-AAACACTAATTAATCTAAATCCTAAACCCT-AACTTGACCCCAA
*
44389399 ATCCCCAACCCCTAACCCCTAAACT
64 ATCCCTAACCCCTAACCCCTAAA-T
* * ** * *
44389424 TTATTT-A-ATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCATAACCCGATCCTAAA
1 TTATTTAATATATAAATT-AAAAACACTAATTAATCTAAATCCTAAACCCTAACTTGACCCCAAA
*
44389487 TCCCTAACCCTTAACCCCTAA
65 TCCCTAACCCCTAACCCCTAA
44389508 CTCATAACCC
Statistics
Matches: 154, Mismatches: 15, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
87 49 0.32
88 64 0.42
89 32 0.21
90 9 0.06
ACGTcount: A:0.42, C:0.27, G:0.02, T:0.30
Consensus pattern (87 bp):
TTATTTAATATATAAATTAAAAACACTAATTAATCTAAATCCTAAACCCTAACTTGACCCCAAAT
CCCTAACCCCTAACCCCTAAAT
Found at i:44389507 original size:14 final size:14
Alignment explanation
Indices: 44389488--44389527 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
44389478 GATCCTAAAT
44389488 CCCTAACCCTTAAC
1 CCCTAACCCTTAAC
* *
44389502 CCCTAACTCATAAC
1 CCCTAACCCTTAAC
*
44389516 CCCTAAACCTTA
1 CCCTAACCCTTA
44389528 TTTAATATAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.45, G:0.00, T:0.23
Consensus pattern (14 bp):
CCCTAACCCTTAAC
Found at i:44389591 original size:102 final size:102
Alignment explanation
Indices: 44389411--44389618 Score: 278
Period size: 102 Copynumber: 2.0 Consensus size: 102
44389401 CCCCAACCCC
*
44389411 TAACCCCTAAACTTTATTTAATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCATAAC
1 TAACCCCTAAACCTTATTTAATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCATAAC
* * *
44389476 CCGATCCTAAATCCCT-AACCCTTAACCCCTAACTCA
66 ACGATCATAAATCCCTAAACCCTAAACCCCTAACTCA
*
44389512 TAACCCCTAAACCTTATTTAATATATAATTAAAACACACTAATTAATCTAAACCCTAAACTC-TA
1 TAACCCCTAAACCTTATTTAATATA-AATTAAAAAACACTAATTAATCTAAACCCTAAAC-CATA
* * * * *
44389576 ACATGA-CATCGAATCCCTAAACCCTAAATCCCTAGCTCT
64 ACACGATCAT-AAATCCCTAAACCCTAAACCCCTAACTCA
44389615 TAAC
1 TAAC
44389619 ATCTAAGCCC
Statistics
Matches: 93, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
101 26 0.28
102 46 0.49
103 21 0.23
ACGTcount: A:0.42, C:0.29, G:0.02, T:0.27
Consensus pattern (102 bp):
TAACCCCTAAACCTTATTTAATATAAATTAAAAAACACTAATTAATCTAAACCCTAAACCATAAC
ACGATCATAAATCCCTAAACCCTAAACCCCTAACTCA
Found at i:44389710 original size:14 final size:14
Alignment explanation
Indices: 44389652--44389719 Score: 55
Period size: 14 Copynumber: 4.6 Consensus size: 14
44389642 AACCCTAAAC
*
44389652 CCATAAACCTTAAAT
1 CCATAATCCTT-AAT
* *
44389667 CACATTAACCCTTAAA
1 C-CA-TAATCCTTAAT
* *
44389683 CCAGAATCCCTAAT
1 CCATAATCCTTAAT
44389697 CCATAATCCTTAATT
1 CCATAATCCTTAA-T
44389712 CCATAATC
1 CCATAATC
44389720 TATAAAACTT
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
14 18 0.43
15 12 0.29
16 5 0.12
17 7 0.17
ACGTcount: A:0.40, C:0.31, G:0.01, T:0.28
Consensus pattern (14 bp):
CCATAATCCTTAAT
Found at i:44390498 original size:114 final size:114
Alignment explanation
Indices: 44390234--44390666 Score: 480
Period size: 113 Copynumber: 3.8 Consensus size: 114
44390224 TAAATTATTT
* * * * *
44390234 TAAATCCCTAAGCATTAGCGGCGCTTTAC-TAAAAACGCCACTAAATCCCCAAAAGCTAAGAAAA
1 TAAAGCCCTGAGCATTAGCGGCGC-TTACTTAAAAACGCCACTAAAGCCCCGAAAGCTCAGAAAA
* * * *
44390298 TGGCGTCGTTGGGCTTAGGTCCCTTTGCGGCGCTTTTCCCAAAAAT-GCCAC
65 CGGCGTCGTTGGGCTTAGGTTCTTTTGCGGCGC-TTTCCC-AGAATCGCCAC
* * *
44390349 TAAAGCCCTAAGCATTAGCGGCGCTTACTTAAAAATGCCACTAAAGCCCCGAAAGCTCAGTAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAAGCCCCGAAAGCTCAGAAAAC
* *
44390414 GGTGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAGAATCGCCAC
66 GGCGTCGTTGGGCTTAGGTTCTTTTGCGGCGCTTTCCCAGAATCGCCAC
* * * * *
44390463 TAAAGCCCGGAGCATTAACGGCGCTTACTTAAAAATGCCGCTAAAGCCCCG-AAGCTCAGTAAAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAAGCCCCGAAAGCTCAGAAAAC
* ** * * * *
44390527 GGCGTCGTTTGGCTTAGGTTCTTTTGTTGCACTTTACC-GAAAACGCCGC
66 GGCGTCGTTGGGCTTAGGTTCTTTTGCGGCGCTTTCCCAG-AATCGCCAC
* * * * *
44390576 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAA-TCCCGAAAAACTCAAAAAA
1 TAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAAGCCCCG-AAAGCTCAGAAAA
* * *
44390640 TGGCGTCGTTGGTCTTAGGTTTTTTTG
65 CGGCGTCGTTGGGCTTAGGTTCTTTTG
44390667 TGGCATTTTC
Statistics
Matches: 276, Mismatches: 37, Indels: 11
0.85 0.11 0.03
Matches are distributed among these distances:
112 5 0.02
113 96 0.35
114 94 0.34
115 81 0.29
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.25
Consensus pattern (114 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAAGCCCCGAAAGCTCAGAAAAC
GGCGTCGTTGGGCTTAGGTTCTTTTGCGGCGCTTTCCCAGAATCGCCAC
Found at i:44390589 original size:113 final size:113
Alignment explanation
Indices: 44390234--44390695 Score: 480
Period size: 114 Copynumber: 4.1 Consensus size: 113
44390224 TAAATTATTT
* * * *
44390234 TAAATCCCTAAGCATTAGCGGCGCTTTAC-TAAAAACGCCACTAAATCCCCAAAAGCTAAGAAAA
1 TAAAGCCCTAAGCATTAGCGGCGC-TTACTTAAAAACGCCACTAAAGCCCCGAAAGCTCAGAAAA
* * * * * *
44390298 TGGCGTCGTTGGGCTTAGGTCCCTTTGCGGCGCTTTTCCCAAAAATGCCAC
65 CGGCGTCGTTGGGCTTAGGTTCTTTTGCGGCAC-TTT-CCGAAAACGCCAC
* *
44390349 TAAAGCCCTAAGCATTAGCGGCGCTTACTTAAAAATGCCACTAAAGCCCCGAAAGCTCAGTAAAC
1 TAAAGCCCTAAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAAGCCCCGAAAGCTCAGAAAAC
* * * * *
44390414 GGTGTCGTTGGGCTTAGGTTTTTTTGCGGCGCTTTCCCAGAATCGCCAC
66 GGCGTCGTTGGGCTTAGGTTCTTTTGCGGCACTTTCCGA-AAACGCCAC
** * * * *
44390463 TAAAGCCCGGAGCATTAACGGCGCTTACTTAAAAATGCCGCTAAAGCCCCG-AAGCTCAGTAAAC
1 TAAAGCCCTAAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAAGCCCCGAAAGCTCAGAAAAC
* ** *
44390527 GGCGTCGTTTGGCTTAGGTTCTTTTGTTGCACTTTACCGAAAACGCCGC
66 GGCGTCGTTGGGCTTAGGTTCTTTTGCGGCACTTT-CCGAAAACGCCAC
* * * * * *
44390576 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAA-TCCCGAAAAACTCAAAAAA
1 TAAAGCCCTAAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAAGCCCCG-AAAGCTCAGAAAA
* * * * * * *
44390640 TGGCGTCGTTGGTCTTAGGTTTTTTTGTGGCATTTTCGTGAAAACGCCGC
65 CGGCGTCGTTGGGCTTAGGTTCTTTTGCGGCACTTTC-CGAAAACGCCAC
44390690 TAAAGC
1 TAAAGC
44390696 AAATCCCCCG
Statistics
Matches: 299, Mismatches: 42, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
112 4 0.01
113 94 0.31
114 120 0.40
115 81 0.27
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (113 bp):
TAAAGCCCTAAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAAGCCCCGAAAGCTCAGAAAAC
GGCGTCGTTGGGCTTAGGTTCTTTTGCGGCACTTTCCGAAAACGCCAC
Found at i:44390650 original size:227 final size:229
Alignment explanation
Indices: 44390244--44390666 Score: 539
Period size: 227 Copynumber: 1.9 Consensus size: 229
44390234 TAAATCCCTA
* * *
44390244 AGCATTAGCGGCGCTTTACTAAAAACGCCACTAAATCCCCAAAAGCTAAGAAAATGGCGTCGTTG
1 AGCATTAACGGCGCTTTACTAAAAACGCCACTAAAGCCCCAAAAGCTAAGAAAACGGCGTCGTTG
* * *
44390309 GGCTTAGGTCCCTTTGCGGCGCTTTTCCCAAAAATGCCACTAAAGCCCTAAGCATTAGCGGCGCT
66 GGCTTAGGTCCCTTTGCGGCACTTTTACCAAAAACGCCACTAAAGCCCTAAGCATTAGCGGCGCT
* * ** *
44390374 TACTTAAAAATGCCACTAAAGCCCCGAAAGCTCAGTAAACGGTGTCGTTGGGCTTAGGTTTTTTT
131 TACTTAAAAACGCCACTAAAGCCCCGAAAACTCAAAAAACGGCGTCGTTGGGCTTAGGTTTTTTT
44390439 GCGGCGCTTTCCCAGAATCGCCACTAAAGCCCGG
196 GCGGCGCTTTCCCAGAATCGCCACTAAAGCCCGG
* * * * *
44390473 AGCATTAACGGCGC-TTACTTAAAAATGCCGCTAAAGCCCC-GAAGCTCAGTAAACGGCGTCGTT
1 AGCATTAACGGCGCTTTAC-TAAAAACGCCACTAAAGCCCCAAAAGCTAAGAAAACGGCGTCGTT
* * * ** * * *
44390536 TGGCTTAGGTTCTTTTGTTGCAC-TTTACCGAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGC
65 GGGCTTAGGTCCCTTTGCGGCACTTTTACCAAAAACGCCACTAAAGCCCTAAGCATTAGCGGCGC
* * * * *
44390600 TTTCTTAAAAACGCCGCTAAA-TCCCGAAAAACTCAAAAAATGGCGTCGTTGGTCTTAGGTTTTT
130 TTACTTAAAAACGCCACTAAAGCCCCG-AAAACTCAAAAAACGGCGTCGTTGGGCTTAGGTTTTT
44390664 TTG
194 TTG
44390667 TGGCATTTTC
Statistics
Matches: 163, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
226 4 0.02
227 88 0.54
228 40 0.25
229 31 0.19
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (229 bp):
AGCATTAACGGCGCTTTACTAAAAACGCCACTAAAGCCCCAAAAGCTAAGAAAACGGCGTCGTTG
GGCTTAGGTCCCTTTGCGGCACTTTTACCAAAAACGCCACTAAAGCCCTAAGCATTAGCGGCGCT
TACTTAAAAACGCCACTAAAGCCCCGAAAACTCAAAAAACGGCGTCGTTGGGCTTAGGTTTTTTT
GCGGCGCTTTCCCAGAATCGCCACTAAAGCCCGG
Found at i:44391536 original size:105 final size:104
Alignment explanation
Indices: 44391349--44391552 Score: 273
Period size: 105 Copynumber: 2.0 Consensus size: 104
44391339 TCAATGTTTT
* * * * * *
44391349 TTATTGCACTTTTCCTATATGTTACGGCAAAGAATGGCTTGGTGTACTCAAAAAAGGAGAGAGTG
1 TTATTACACTTTTCCTAGATGTTACGGAAAAGAATCGCTTGGTGTACTCAAAAAAGGAGAAAGAG
* ** *
44391414 TTGGCAACTTGCCATCCCCTGACAAGCATGTATAACTTG
66 TTGGCAACTTGACATCCCCACACAAGCATCTATAACTTG
** *
44391453 TTATTACACTTTTCCTAGATGTTACGGTAAAAGAATCGCTTGGTGTTTTCAGAAAAGGAGAAAGA
1 TTATTACACTTTTCCTAGATGTTACGG-AAAAGAATCGCTTGGTGTACTCAAAAAAGGAGAAAGA
*
44391518 GTTGGCAACTTGAGATCCCCACACAAGCATCTATA
65 GTTGGCAACTTGACATCCCCACACAAGCATCTATA
44391553 TATATAGAAA
Statistics
Matches: 85, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
104 25 0.29
105 60 0.71
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (104 bp):
TTATTACACTTTTCCTAGATGTTACGGAAAAGAATCGCTTGGTGTACTCAAAAAAGGAGAAAGAG
TTGGCAACTTGACATCCCCACACAAGCATCTATAACTTG
Found at i:44393179 original size:17 final size:18
Alignment explanation
Indices: 44393153--44393186 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
44393143 ACGAACGACA
44393153 AATAACCAATA-AATACC
1 AATAACCAATACAATACC
*
44393170 AATAAGCAATACAATAC
1 AATAACCAATACAATAC
44393187 ACACAAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.59, C:0.21, G:0.03, T:0.18
Consensus pattern (18 bp):
AATAACCAATACAATACC
Found at i:44393620 original size:20 final size:20
Alignment explanation
Indices: 44393583--44393621 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
44393573 GAAAAAACCA
*
44393583 ATATAAATATATATAATAAT
1 ATATAAAAATATATAATAAT
44393603 ATATAAAAAGTATA-AATAA
1 ATATAAAAA-TATATAATAA
44393622 GCAAAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
ATATAAAAATATATAATAAT
Found at i:44393822 original size:31 final size:29
Alignment explanation
Indices: 44393758--44393862 Score: 102
Period size: 26 Copynumber: 3.9 Consensus size: 29
44393748 TAGGATAATT
* *
44393758 TTAAAAT-AATTAATATATACAAA--AAC
1 TTAAAATAAATAAATATATACAAAGCAAG
*
44393784 TTAAAATAAA-ATA-ATATACAAAGCAAG
1 TTAAAATAAATAAATATATACAAAGCAAG
44393811 TTAAAATAAAT-AAT-T-TACAAAGCAAG
1 TTAAAATAAATAAATATATACAAAGCAAG
44393837 TTAAAATAACATATAATATATA-AAAG
1 TTAAAATAA-ATA-AATATATACAAAG
44393863 AGGAATTTTA
Statistics
Matches: 65, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
25 9 0.14
26 28 0.43
27 18 0.28
29 3 0.05
30 5 0.08
31 2 0.03
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.28
Consensus pattern (29 bp):
TTAAAATAAATAAATATATACAAAGCAAG
Found at i:44394671 original size:114 final size:114
Alignment explanation
Indices: 44394299--44395008 Score: 855
Period size: 114 Copynumber: 6.3 Consensus size: 114
44394289 TAAATAAATT
* * * * * *
44394299 TAAATCCCTAAGCATTAGCGGCCCTTTATTAAAAACACCGCAAAAACCCCCGAAAGCTCAGAAAA
1 TAAAGCCCTCAGCATTAGCGGCGCTTTATTGAAAACGCCGC-TAAACCCCCGAAAGCTCAGAAAA
* *
44394364 CGGCGTCGTTGGGTTTAATTTTTTTTGCAGCGCTTTCA-ATAAAACGCCGC
65 CGGCGTCGTTGGGCTTAATTTTTTTTGCGGCGCTTTCATA-AAAACGCCGC
*
44394414 TAAAGCCC-CAGCATTAGCGGCGCATTATTGAAAACGCCGCTAAACCCCACCGAAAGCTCAGAAA
1 TAAAGCCCTCAGCATTAGCGGCGCTTTATTGAAAACGCCGCTAAA-CCC-CCGAAAGCTCAGAAA
* * * * *
44394478 ACGGCGTCGTTGGGCTTAGTTTTTTTTGTGGCGC-TTGATCAAAAATGCCGT
64 ACGGCGTCGTTGGGCTTAATTTTTTTTGCGGCGCTTTCAT-AAAAACGCCGC
* * *
44394529 TAAAG-CCTCAGCATTAGCGGCGCTTTATTAAAAACGCCGCTAAACCCCCGAAAGCTAAGAAAAT
1 TAAAGCCCTCAGCATTAGCGGCGCTTTATTGAAAACGCCGCTAAACCCCCGAAAGCTCAGAAAAC
* *
44394593 GGCATCGTTGGGTTTAATTTTTTTTTGCGGCGCTTTCATAAAAACGCCGC
66 GGCGTCGTTGGGCTTAA-TTTTTTTTGCGGCGCTTTCATAAAAACGCCGC
* *
44394643 TAAAGCCC-CAACATTAGCGGCGCATTATTGAAAACGCCGCT-AACCCCC-----C-C-G-AAA-
1 TAAAGCCCTCAGCATTAGCGGCGCTTTATTGAAAACGCCGCTAAACCCCCGAAAGCTCAGAAAAC
*
44394697 -GCGTCGTTGGGCTTAATTTTTTTTGCGGCGC-TTGATCAAAAACGCCGC
66 GGCGTCGTTGGGCTTAATTTTTTTTGCGGCGCTTTCAT-AAAAACGCCGC
* * * *
44394745 TAAATCCCTCAGCATTAGCGGCGCTTTATTAAAAATGCCGCTAAACCCCCGAAAGCTCAGTAAAC
1 TAAAGCCCTCAGCATTAGCGGCGCTTTATTGAAAACGCCGCTAAACCCCCGAAAGCTCAGAAAAC
* *
44394810 GGCGTCGTTGGGTTTAA-TTTTTTTGCGGCGCTTTCATAAAAATGCCGC
66 GGCGTCGTTGGGCTTAATTTTTTTTGCGGCGCTTTCATAAAAACGCCGC
* * * *
44394858 TAAAGCCCTCACCATTAGCGGCGCATTATTGGAAACGCCGCTAAACCTCCCGAAAGCTCAGTAAA
1 TAAAGCCCTCAGCATTAGCGGCGCTTTATTGAAAACGCCGCTAAACC-CCCGAAAGCTCAGAAAA
* * * ** * *
44394923 CGGCGTCGTTGTGCTT-AGTTCTTTTGCGATGCTTTCACAAAAATGCCGC
65 CGGCGTCGTTGGGCTTAATTTTTTTTGCGGCGCTTTCATAAAAACGCCGC
*
44394972 TAAATCCCTCAGCATTAGCGGCGCTTTATTGAAAACG
1 TAAAGCCCTCAGCATTAGCGGCGCTTTATTGAAAACG
44395009 GCGTTTTCTA
Statistics
Matches: 515, Mismatches: 56, Indels: 49
0.83 0.09 0.08
Matches are distributed among these distances:
101 4 0.01
102 33 0.06
103 43 0.08
104 7 0.01
105 3 0.01
106 1 0.00
108 1 0.00
109 1 0.00
110 1 0.00
111 1 0.00
112 3 0.01
113 105 0.20
114 206 0.40
115 105 0.20
116 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (114 bp):
TAAAGCCCTCAGCATTAGCGGCGCTTTATTGAAAACGCCGCTAAACCCCCGAAAGCTCAGAAAAC
GGCGTCGTTGGGCTTAATTTTTTTTGCGGCGCTTTCATAAAAACGCCGC
Found at i:44394785 original size:103 final size:103
Alignment explanation
Indices: 44394597--44394914 Score: 390
Period size: 113 Copynumber: 3.0 Consensus size: 103
44394587 GAAAATGGCA
44394597 TCGTTGGGTTTAATTTTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAAGCCC-CAACATTAGC
1 TCGTTGGGTTTAA-TTTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAAGCCCTCAACATTAGC
44394661 GGCGCATTATTGAAAACGCCGCTAACCCCCCCGAAAGCG
65 GGCGCATTATTGAAAACGCCGCTAACCCCCCCGAAAGCG
* * * *
44394700 TCGTTGGGCTTAATTTTTTTTGCGGCGC-TTGATCAAAAACGCCGCTAAATCCCTCAGCATTAGC
1 TCGTTGGGTTTAATTTTTTTTGCGGCGCTTTCAT-AAAAACGCCGCTAAAGCCCTCAACATTAGC
* * *
44394764 GGCGCTTTATTAAAAATGCCGCTAAACCCCCGAAAGCTCAGTAAACGGCG
65 GGCGCATTATTGAAAACGCCGCT-AACCCCC-----C-C-G-AAA--GCG
* *
44394814 TCGTTGGGTTTAA-TTTTTTTGCGGCGCTTTCATAAAAATGCCGCTAAAGCCCTCACCATTAGCG
1 TCGTTGGGTTTAATTTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAAGCCCTCAACATTAGCG
* * *
44394878 GCGCATTATTGGAAACGCCGCTAAACCTCCCGAAAGC
66 GCGCATTATTGAAAACGCCGCTAACCCCCCCGAAAGC
44394915 TCAGTAAACG
Statistics
Matches: 183, Mismatches: 18, Indels: 29
0.80 0.08 0.13
Matches are distributed among these distances:
101 4 0.02
102 35 0.19
103 41 0.22
104 10 0.05
105 1 0.01
106 1 0.01
107 1 0.01
109 1 0.01
110 1 0.01
111 1 0.01
112 8 0.04
113 60 0.33
114 19 0.10
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (103 bp):
TCGTTGGGTTTAATTTTTTTTGCGGCGCTTTCATAAAAACGCCGCTAAAGCCCTCAACATTAGCG
GCGCATTATTGAAAACGCCGCTAACCCCCCCGAAAGCG
Found at i:44394990 original size:330 final size:331
Alignment explanation
Indices: 44394366--44395008 Score: 888
Period size: 330 Copynumber: 1.9 Consensus size: 331
44394356 TCAGAAAACG
*
44394366 GCGTCGTTGGGTTTAATTTTTTTTGCAGCGCTTTCAATAAAACGCCGCTAAAGCCCCAGCATTAG
1 GCGTCGTTGGGCTTAATTTTTTTTGCAGCGCTTTCAATAAAACGCCGCTAAAGCCCCAGCATTAG
*
44394431 CGGCGCATTATTGAAAACGCCGCTAAACCCCACCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
66 CGGCGCATTATTAAAAACGCCGCTAAACCCCACCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
* * * * * *
44394496 GTTTTTTTTGTGGCGCTTGATCAAAAATGCCGTTAAAGCCTCAGCATTAGCGGCGCTTTATTAAA
131 GATTTTTTTGCGGCGCTTCATCAAAAATGCCGCTAAAGCCTCACCATTAGCGGCGCATTATTAAA
* * * * *
44394561 AACGCCGCTAAACCCCCGAAAGCTAAGAAAATGGCATCGTTGGGTTTAATTTTTTTTTGCGGCGC
196 AACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGCATCGTTGGGCTTAATGTTCTTTTGCGACGC
*
44394626 TTTCATAAAAACGCCGCTAAAGCCCCAACATTAGCGGCGCATTATTGAAAACGCCGCTAACCCCC
261 TTTCACAAAAACGCCGCTAAAGCCCCAACATTAGCGGCGCATTATTGAAAACGCCGCTAACCCCC
44394691 CCGAAA
326 CCGAAA
* *
44394697 GCGTCGTTGGGCTTAATTTTTTTTGCGGCGCTTGATC-A-AAAACGCCGCTAAATCCCTCAGCAT
1 GCGTCGTTGGGCTTAATTTTTTTTGCAGCGCTT--TCAATAAAACGCCGCTAAAGCCC-CAGCAT
* * * *
44394760 TAGCGGCGCTTTATTAAAAATGCCGCTAAA-CCC-CCGAAAGCTCAGTAAACGGCGTCGTTGGGT
63 TAGCGGCGCATTATTAAAAACGCCGCTAAACCCCACCGAAAGCTCAGAAAACGGCGTCGTTGGGC
44394823 TTA-ATTTTTTTGCGGCGCTTTCAT-AAAAATGCCGCTAAAGCCCTCACCATTAGCGGCGCATTA
128 TTAGATTTTTTTGCGGCGC-TTCATCAAAAATGCCGCTAAAG-CCTCACCATTAGCGGCGCATTA
** * * * *
44394886 TTGGAAACGCCGCTAAACCTCCCGAAAGCTCAGTAAACGGCGTCGTTGTGCTT-A-GTTCTTTTG
191 TTAAAAACGCCGCTAAACC-CCCGAAAGCTAAGAAAACGGCATCGTTGGGCTTAATGTTCTTTTG
* * * * *
44394949 CGATGCTTTCACAAAAATGCCGCTAAATCCCTCAGCATTAGCGGCGCTTTATTGAAAACG
255 CGACGCTTTCACAAAAACGCCGCTAAAGCCC-CAACATTAGCGGCGCATTATTGAAAACG
44395009 GCGTTTTCTA
Statistics
Matches: 274, Mismatches: 31, Indels: 15
0.86 0.10 0.05
Matches are distributed among these distances:
329 61 0.22
330 99 0.36
331 78 0.28
332 34 0.12
333 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (331 bp):
GCGTCGTTGGGCTTAATTTTTTTTGCAGCGCTTTCAATAAAACGCCGCTAAAGCCCCAGCATTAG
CGGCGCATTATTAAAAACGCCGCTAAACCCCACCGAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
GATTTTTTTGCGGCGCTTCATCAAAAATGCCGCTAAAGCCTCACCATTAGCGGCGCATTATTAAA
AACGCCGCTAAACCCCCGAAAGCTAAGAAAACGGCATCGTTGGGCTTAATGTTCTTTTGCGACGC
TTTCACAAAAACGCCGCTAAAGCCCCAACATTAGCGGCGCATTATTGAAAACGCCGCTAACCCCC
CCGAAA
Found at i:44395246 original size:24 final size:24
Alignment explanation
Indices: 44395197--44395247 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
44395187 ACAAAAGTTT
*
44395197 AAAATAAATAAATAAAGTAATGTA
1 AAAATAAATAAATAAAATAATGTA
* *
44395221 AAAATAAA-AATATAAAATGATTTA
1 AAAATAAATAA-ATAAAATAATGTA
44395245 AAA
1 AAA
44395248 TGTAAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (24 bp):
AAAATAAATAAATAAAATAATGTA
Found at i:44396389 original size:24 final size:25
Alignment explanation
Indices: 44396361--44396408 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
44396351 ACAACTGTAA
*
44396361 AAGTTTTGA-ACTA-ATATGAAAAAG
1 AAGTTTAGACACTAGAT-TGAAAAAG
44396385 AAGTTTAGACACTAGATTGAAAAA
1 AAGTTTAGACACTAGATTGAAAAA
44396409 CATTACCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 8 0.38
25 11 0.52
26 2 0.10
ACGTcount: A:0.50, C:0.06, G:0.17, T:0.27
Consensus pattern (25 bp):
AAGTTTAGACACTAGATTGAAAAAG
Found at i:44399806 original size:7 final size:7
Alignment explanation
Indices: 44399776--44399809 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
44399766 ATTGGGTTGG
44399776 TTTGGGT
1 TTTGGGT
44399783 TTT-GGT
1 TTTGGGT
44399789 GTTTGGGT
1 -TTTGGGT
44399797 TTTGGGT
1 TTTGGGT
44399804 TTTGGG
1 TTTGGG
44399810 CCCCAGACAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 3 0.12
7 19 0.76
8 3 0.12
ACGTcount: A:0.00, C:0.00, G:0.44, T:0.56
Consensus pattern (7 bp):
TTTGGGT
Found at i:44403835 original size:10 final size:10
Alignment explanation
Indices: 44403820--44403845 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
44403810 AAGAAAACCA
44403820 ATATTTAAAT
1 ATATTTAAAT
44403830 ATATTTAAAT
1 ATATTTAAAT
44403840 ATATTT
1 ATATTT
44403846 TTTGTTGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (10 bp):
ATATTTAAAT
Found at i:44408400 original size:58 final size:58
Alignment explanation
Indices: 44408262--44408404 Score: 198
Period size: 59 Copynumber: 2.4 Consensus size: 58
44408252 TGGCTTACGG
* *
44408262 TTGCGGTTGCTTTTAGTGCCCAAACAAATTCAATCCTTGACATGTTGGTTATTGTGAC
1 TTGCGGTTGCTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGGTTATTGTGAC
* * * * *
44408320 TTGTGGTTTACTTTTAGTGCCAAAACAAATTTAATTCTTGACATGCTGG-TAGTTGTGGC
1 TTGCGG-TTGCTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGGTTA-TTGTGAC
44408379 TTGCGGTTGCTTTTAGTGCCAAAACA
1 TTGCGGTTGCTTTTAGTGCCAAAACA
44408405 TAGCAACTTT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
58 26 0.35
59 48 0.65
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (58 bp):
TTGCGGTTGCTTTTAGTGCCAAAACAAATTCAATCCTTGACATGCTGGTTATTGTGAC
Found at i:44415995 original size:13 final size:14
Alignment explanation
Indices: 44415976--44416009 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
44415966 ATAAAAACGG
44415976 AAAAATGAA-AAGT
1 AAAAATGAAGAAGT
*
44415989 GAAAATGAAGAAGT
1 AAAAATGAAGAAGT
44416003 AAAAATG
1 AAAAATG
44416010 GAGAGGCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.15
Consensus pattern (14 bp):
AAAAATGAAGAAGT
Found at i:44417580 original size:131 final size:132
Alignment explanation
Indices: 44417284--44418103 Score: 1219
Period size: 131 Copynumber: 6.2 Consensus size: 132
44417274 GCAATAGAGC
* * * * *
44417284 AGATTGAAGATTTCAGATCTTGTCTACCTAAGC-AGTAGTGGAGCAGATCAAAGATGGCGGATTT
1 AGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGA-TAGTGGGGCAGATCAAAGATGGTGAATTT
* * *
44417348 TACCTCCCTATGATTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTAGG-CAGCAGTG
65 TACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCT-GGTCAGCAGTG
44417412 GAAT
129 GAAT
44417416 AGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGATAGTGGGGCAGATCAAAGATGGTGAATTTT
1 AGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGATAGTGGGGCAGATCAAAGATGGTGAATTTT
**
44417481 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC-GTAATTCTA-TCTCCCTGGTTGGCAGTGG
66 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGTCAGCAGTGG
44417544 AAT
130 AAT
*
44417547 AGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGGTAGTGGGGCAGATCAAAGATGGTGAATTTT
1 AGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGATAGTGGGGCAGATCAAAGATGGTGAATTTT
* *
44417612 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGTAGTGGA
66 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGTCAGCAGTGGA
44417677 AT
131 AT
*
44417679 AGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGGTAGTGGGGCAGATCAAAGATGGTGAATTTT
1 AGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGATAGTGGGGCAGATCAAAGATGGTGAATTTT
* * **
44417744 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGTC-GTAATGCTA-TCTCCCTGGTTGGCAGTGG
66 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGTCAGCAGTGG
44417807 AAT
130 AAT
* * * * *
44417810 AGATTAAAGATTTCAGATCTTGTCTCCCTAGGC-ATTAGTGGAGCAAATCGAAGATGG-CAGATT
1 AGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGA-TAGTGGGGCAGATCAAAGATGGTGA-ATT
**
44417873 TTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC-GTAATTCTA-TCTCCCTGGTGGGCAGT
64 TTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGGTCAGCAGT
44417936 GGAAT
128 GGAAT
* *
44417941 AGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGGTGGTGGGGCAGATCAAAGATGGTGAATTTT
1 AGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGATAGTGGGGCAGATCAAAGATGGTGAATTTT
*
44418006 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGA
66 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGTCAGCAGTGGA
44418071 AT
131 AT
* ** *
44418073 AGATTGAAGATTGAAGATCTTATCTCCCTAA
1 AGATTAAAGATTTCAGATCTTGTCTCCCTAA
44418104 ACAGTAGTGG
Statistics
Matches: 632, Mismatches: 44, Indels: 24
0.90 0.06 0.03
Matches are distributed among these distances:
130 5 0.01
131 356 0.56
132 268 0.42
133 3 0.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (132 bp):
AGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGATAGTGGGGCAGATCAAAGATGGTGAATTTT
ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGTCAGCAGTGGA
AT
Found at i:44417757 original size:263 final size:262
Alignment explanation
Indices: 44417284--44418119 Score: 1329
Period size: 263 Copynumber: 3.2 Consensus size: 262
44417274 GCAATAGAGC
* * *
44417284 AGATTGAAGATTTCAGATCTTGTCTACCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTTT
1 AGATTAAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG-GAATTTT
* * * *
44417349 ACCTCCCTATGATTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTAGGCAGCAGTGGA
65 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGA
*
44417414 ATAGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGATAGTGGGGCAGATCAAAGATGGTGAATT
130 ATAGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGGTAGTGGGGCAGATCAAAGATGGTGAATT
44417479 TTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGTAATTCTATCTCCCTGGTTGGCAGTGG
195 TTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGTAATTCTATCTCCCTGGTTGGCAGTGG
44417544 AAT
260 AAT
* *
44417547 AGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGGTAGTGGGGCAGATCAAAGATGGTGAATTTT
1 AGATTAAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG-GAATTTT
*
44417612 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGTAGTGGA
65 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGA
44417677 ATAGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGGTAGTGGGGCAGATCAAAGATGGTGAATT
130 ATAGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGGTAGTGGGGCAGATCAAAGATGGTGAATT
* *
44417742 TTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGTCGTAATGCTATCTCCCTGGTTGGCAGTGG
195 TTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGTAATTCTATCTCCCTGGTTGGCAGTGG
44417807 AAT
260 AAT
* * * * *
44417810 AGATTAAAGATTTCAGATCTTGTCTCCCTAGGCATTAGTGGAGCAAATCGAAGATGGCAGATTTT
1 AGATTAAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGGA-ATTTT
*
44417875 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC-GTAATTCTA-TCTCCCTGGTG-GGCAGTG
65 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACT-TCCCTGG-GCAGCAGTG
*
44417937 GAATAGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGGTGGTGGGGCAGATCAAAGATGGTGAA
128 GAATAGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGGTAGTGGGGCAGATCAAAGATGGTGAA
***
44418002 TTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTA-CTTCCCTGGGCAGCA
193 TTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC-GTAATTCTATC-TCCCTGGTTGGCA
44418066 GTGGAAT
256 GTGGAAT
* ** * *
44418073 AGATTGAAGATTGAAGATCTTATCTCCCTAAACAGTAGTGGAGCAGA
1 AGATTAAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGA
44418120 CAGAAGAAAG
Statistics
Matches: 531, Mismatches: 37, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
261 1 0.00
262 125 0.24
263 405 0.76
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (262 bp):
AGATTAAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGGAATTTTA
CCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGTGGAA
TAGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGGTAGTGGGGCAGATCAAAGATGGTGAATTT
TACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGTAATTCTATCTCCCTGGTTGGCAGTGGA
AT
Found at i:44418019 original size:394 final size:395
Alignment explanation
Indices: 44417284--44418119 Score: 1376
Period size: 394 Copynumber: 2.1 Consensus size: 395
44417274 GCAATAGAGC
* *
44417284 AGATTGAAGATTTCAGATCTTGTCTACCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGGATTTT
1 AGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGAATTTT
* *
44417349 ACCTCCCTATGATTATAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTAGGCAGCAGTGGA
66 ACCTCCCTATGATTACAGTGGAGTACATTGAAGCCAGTAATGCTACTTCCCTAGGCAGCAGTGGA
* * *
44417414 ATAGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGATAGTGGGGCAGATCAAAGATGGTGAATT
131 ATAGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGATAGTGGAGCAAATCAAAGATGGAGAATT
*
44417479 TTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGTAATTCTATCTCCCTGGTTGGCAGTGG
196 TTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGTAATTCTATCTCCCTGGTGGGCAGTGG
44417544 AATAGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGGTAGTGGGGCAGATCAAAGATGGTGAAT
261 AATAGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGGTAGTGGGGCAGATCAAAGATGGTGAAT
*
44417609 TTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGTAGT
326 TTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGT
44417674 GGAAT
391 GGAAT
* * * *
44417679 AGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGGTAGTGGGGCAGATCAAAGATGGTGAATTTT
1 AGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGAATTTT
* * * **
44417744 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGTC-GTAATGCTA-TCTCCCT-GGTTGGCAGTG
66 ACCTCCCTATGATTACAGTGGAGTACATTGAAGCCAGTAATGCTACT-TCCCTAGG-CAGCAGTG
* *
44417806 GAATAGATTAAAGATTTCAGATCTTGTCTCCCTAGGC-ATTAGTGGAGCAAATCGAAGATGGCAG
129 GAATAGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGA-TAGTGGAGCAAATCAAAGATGG-AG
44417870 -ATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGTAATTCTATCTCCCTGGTGGGCA
192 AATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGTAATTCTATCTCCCTGGTGGGCA
*
44417934 GTGGAATAGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGGTGGTGGGGCAGATCAAAGATGGT
257 GTGGAATAGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGGTAGTGGGGCAGATCAAAGATGGT
44417999 GAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAG
322 GAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAG
44418064 CAGTGGAAT
387 CAGTGGAAT
** * *
44418073 AGATTGAAGATTGAAGATCTTATCTCCCTAAACAGTAGTGGAGCAGA
1 AGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGA
44418120 CAGAAGAAAG
Statistics
Matches: 409, Mismatches: 28, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
393 4 0.01
394 314 0.77
395 91 0.22
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (395 bp):
AGATTGAAGATTTCAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCGAATTTT
ACCTCCCTATGATTACAGTGGAGTACATTGAAGCCAGTAATGCTACTTCCCTAGGCAGCAGTGGA
ATAGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGATAGTGGAGCAAATCAAAGATGGAGAATT
TTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCGTAATTCTATCTCCCTGGTGGGCAGTGG
AATAGATTAAAGATTTCAGATCTTGTCTCCCTAAGCGGTAGTGGGGCAGATCAAAGATGGTGAAT
TTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGGCAGCAGT
GGAAT
Found at i:44420691 original size:18 final size:18
Alignment explanation
Indices: 44420657--44420703 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
44420647 ATAAGAATAT
44420657 TTAATATTA-ATAATTTTA
1 TTAA-ATTATATAATTTTA
*
44420675 TTAAATTATATATTTTTA
1 TTAAATTATATAATTTTA
44420693 TTAAATTATAT
1 TTAAATTATAT
44420704 TTAATAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAAATTATATAATTTTA
Found at i:44420948 original size:46 final size:44
Alignment explanation
Indices: 44420850--44420957 Score: 118
Period size: 46 Copynumber: 2.5 Consensus size: 44
44420840 TTTCCTTATG
* *
44420850 CTATTACACCTCTATTCCATT----C-AACCAAACACAAGAATA
1 CTATTACGCCTCTATTCCATTACAGCGAACCAAACAAAAGAATA
*
44420889 CTATTACGCCTCTATTCCATTACAGCGAACCAAACAAAAGGATTA
1 CTATTACGCCTCTATTCCATTACAGCGAACCAAACAAAA-GAATA
* *
44420934 CCTATTATGTCTCTATTCCATTAC
1 -CTATTACGCCTCTATTCCATTAC
44420958 GCTTCTATTC
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
39 20 0.35
43 1 0.02
44 11 0.19
45 4 0.07
46 21 0.37
ACGTcount: A:0.35, C:0.29, G:0.06, T:0.30
Consensus pattern (44 bp):
CTATTACGCCTCTATTCCATTACAGCGAACCAAACAAAAGAATA
Found at i:44420964 original size:16 final size:16
Alignment explanation
Indices: 44420945--44420989 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
44420935 CTATTATGTC
*
44420945 TCTATTCCATTACGCT
1 TCTATTCCATTACGCA
44420961 TCTATTCCATTACGCA
1 TCTATTCCATTACGCA
44420977 TCTATTCCATTAC
1 TCTATTCCATTAC
44420990 AGCGAACCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.22, C:0.31, G:0.04, T:0.42
Consensus pattern (16 bp):
TCTATTCCATTACGCA
Found at i:44421863 original size:29 final size:31
Alignment explanation
Indices: 44421808--44421873 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 31
44421798 TGAAAAGTCA
*
44421808 TTATATAAACATTTTTATAAAAGTTAGACCT
1 TTATATAAACATTTTTATAAAAGTTAGACCC
* *
44421839 TTATATAAGCA-TTTTA-AAAGGTTAGACCC
1 TTATATAAACATTTTTATAAAAGTTAGACCC
44421868 TTATAT
1 TTATAT
44421874 GTTTTGTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 17 0.53
30 5 0.16
31 10 0.31
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (31 bp):
TTATATAAACATTTTTATAAAAGTTAGACCC
Found at i:44425644 original size:18 final size:17
Alignment explanation
Indices: 44425623--44425657 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44425613 TTATTATTAA
*
44425623 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
44425641 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
44425658 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:44425888 original size:18 final size:17
Alignment explanation
Indices: 44425867--44425901 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44425857 TTATTATTAA
*
44425867 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
44425885 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
44425902 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:44425982 original size:120 final size:121
Alignment explanation
Indices: 44425845--44426142 Score: 505
Period size: 120 Copynumber: 2.5 Consensus size: 121
44425835 TTTTAATCAT
*
44425845 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
*
44425910 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTAT-AAATGA-AA
*
44425967 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
44426030 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
* *
44426086 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
44426143 TAAAATAATT
Statistics
Matches: 168, Mismatches: 5, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
119 7 0.04
120 156 0.93
121 4 0.02
122 1 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGAAA
Found at i:44426015 original size:14 final size:15
Alignment explanation
Indices: 44425966--44426017 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
44425956 GTAAAATATA
44425966 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
44425981 TATTAAATATATTAT
1 AATTAAATATATTAT
44425996 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
44426009 AATTTAATA
1 AATTAAATA
44426018 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:44429811 original size:23 final size:24
Alignment explanation
Indices: 44429775--44429943 Score: 173
Period size: 23 Copynumber: 7.0 Consensus size: 24
44429765 TTTAATAAAA
44429775 TATTAAAGTCCTTATTTTAATTATT
1 TATT-AAGTCCTTATTTTAATTATT
* **
44429800 TATT-AGTCCTTATTTTAATAAAA
1 TATTAAGTCCTTATTTTAATTATT
44429823 TATTAAAGTCCTTATTTTAATTATT
1 TATT-AAGTCCTTATTTTAATTATT
* * **
44429848 GATT-AGTCCTTATTTTAATAAAA
1 TATTAAGTCCTTATTTTAATTATT
44429871 TATTAAAGTCCTTATTTTAATTATT
1 TATT-AAGTCCTTATTTTAATTATT
* * **
44429896 GATT-AGTCCTTATTTTAATAAAA
1 TATTAAGTCCTTATTTTAATTATT
*
44429919 TATTAAAGTCGTTATTTTAATTATT
1 TATT-AAGTCCTTATTTTAATTATT
44429944 GATGTAATTT
Statistics
Matches: 115, Mismatches: 23, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
23 58 0.50
25 57 0.50
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (24 bp):
TATTAAGTCCTTATTTTAATTATT
Found at i:44429816 original size:48 final size:48
Alignment explanation
Indices: 44429764--44429946 Score: 348
Period size: 48 Copynumber: 3.8 Consensus size: 48
44429754 ATTTCTTGAT
*
44429764 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTTATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
44429812 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
44429860 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
*
44429908 TTTTAATAAAATATTAAAGTCGTTATTTTAATTATTGAT
1 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGAT
44429947 GTAATTTTTA
Statistics
Matches: 133, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 133 1.00
ACGTcount: A:0.36, C:0.07, G:0.06, T:0.51
Consensus pattern (48 bp):
TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
Found at i:44434212 original size:45 final size:44
Alignment explanation
Indices: 44434161--44434324 Score: 150
Period size: 45 Copynumber: 3.6 Consensus size: 44
44434151 CTATACGCTA
*
44434161 TAAAATGAGTAAGACCATAGCTGAAAGATGATATGACATCATGAC
1 TAAAATGAGTAAGACCATAGCTGAAAGATG-TATGGCATCATGAC
* * * * * *
44434206 TAAAATGAGTAAAGACTATGGTTGAAATACGTCATGGCATCAT-AG
1 TAAAATGAGT-AAGACCATAGCTGAAAGATGT-ATGGCATCATGAC
* * * ** *
44434251 TAGATAGGACTAATTCCATAGCTAAAAGATGTTATGGCATCATGAC
1 TA-AAATGAGTAAGACCATAGCTGAAAGATG-TATGGCATCATGAC
*
44434297 TAAAATGAGTAAGACCATGGCTGAAAGA
1 TAAAATGAGTAAGACCATAGCTGAAAGA
44434325 AGCCATGGAG
Statistics
Matches: 88, Mismatches: 26, Indels: 10
0.71 0.21 0.08
Matches are distributed among these distances:
45 55 0.62
46 33 0.38
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.24
Consensus pattern (44 bp):
TAAAATGAGTAAGACCATAGCTGAAAGATGTATGGCATCATGAC
Found at i:44434369 original size:90 final size:91
Alignment explanation
Indices: 44434170--44434381 Score: 266
Period size: 90 Copynumber: 2.3 Consensus size: 91
44434160 ATAAAATGAG
* * * *
44434170 TAAGACCATAGCTGAAAGATGATATGACATCATGACTAAAATGAGTAAAGACTATGGTTGAAATA
1 TAAGACCATAGCTGAAAGATGATATGGCATCATGACTAAAATGAGTAAAGACCATGGCTGAAAGA
* * *
44434235 CGTCATGGCATCATAGTAGATAGGAC
66 AGCCATGGCATCATAGTAGACAGGAC
** * *
44434261 TAATTCCATAGCTAAAAGATGTTATGGCATCATGACTAAAATGAGT-AAGACCATGGCTGAAAGA
1 TAAGACCATAGCTGAAAGATGATATGGCATCATGACTAAAATGAGTAAAGACCATGGCTGAAAGA
*
44434325 AGCCATGG-AGTCATGGTAGACAGGAC
66 AGCCATGGCA-TCATAGTAGACAGGAC
* * *
44434351 TAAGACCATAGTTGAAAGACGCTATGGCATC
1 TAAGACCATAGCTGAAAGATGATATGGCATC
44434382 CTAGTAGTCC
Statistics
Matches: 102, Mismatches: 18, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
89 1 0.01
90 60 0.59
91 41 0.40
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.23
Consensus pattern (91 bp):
TAAGACCATAGCTGAAAGATGATATGGCATCATGACTAAAATGAGTAAAGACCATGGCTGAAAGA
AGCCATGGCATCATAGTAGACAGGAC
Found at i:44434618 original size:174 final size:174
Alignment explanation
Indices: 44434302--44434618 Score: 440
Period size: 174 Copynumber: 1.8 Consensus size: 174
44434292 ATGACTAAAA
* * *
44434302 TGAGTAAGACCATGGCTGAAAGAAGCCATGGAGTCATGGTAGACAGGACTAAGACCATAGTTGAA
1 TGAGTAAGACCATGGCTAAAAGAAGCCATGGAATCATGGTAGACAGGACTAAGACCATAGCTGAA
* * *
44434367 AGACGCTATGGCATCCTAGTAGTCCGTCGAGACAGTAAACATAAGAAATATAAGGTATAAGACCA
66 AGACGCTATGGCATCCTAGTAGTCCGTCCAGACAATAAACACAAGAAATATAAGGTATAAGACCA
*
44434432 TAGTTGGACTATGACAACTCAGGTGGACAGAACTAAGACTGAAT
131 TAGTTAGACTATGACAACTCAGGTGGACAGAACTAAGACTGAAT
* *
44434476 TGAGTAAGATCATGGCTAAAAGATGCCATGGAATCATGGTAGACAGGACTAAGACCATAGCTGAA
1 TGAGTAAGACCATGGCTAAAAGAAGCCATGGAATCATGGTAGACAGGACTAAGACCATAGCTGAA
* * * * * * *
44434541 AGATGTTATGGTATCCTAGTAGT-C-TACCAGGACAATAAACACGAGGAATATAAGGTGTAAGGC
66 AGACGCTATGGCATCCTAGTAGTCCGT-CCA-GACAATAAACACAAGAAATATAAGGTATAAGAC
**
44434604 TGTAGTTAGACTATG
129 CATAGTTAGACTATG
44434619 GTAACCCATG
Statistics
Matches: 123, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
172 1 0.01
173 3 0.02
174 119 0.97
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (174 bp):
TGAGTAAGACCATGGCTAAAAGAAGCCATGGAATCATGGTAGACAGGACTAAGACCATAGCTGAA
AGACGCTATGGCATCCTAGTAGTCCGTCCAGACAATAAACACAAGAAATATAAGGTATAAGACCA
TAGTTAGACTATGACAACTCAGGTGGACAGAACTAAGACTGAAT
Found at i:44441484 original size:115 final size:115
Alignment explanation
Indices: 44441282--44441512 Score: 426
Period size: 115 Copynumber: 2.0 Consensus size: 115
44441272 CTATTGATGG
* *
44441282 TAAAGTAATATAATTTAAGGTTCGTCAATTGATTTTTAAATCTTGTAACAAAGAAACACCATTAA
1 TAAAGTAATATAATTGAAGGTTCGTCAATTGATCTTTAAATCTTGTAACAAAGAAACACCATTAA
*
44441347 ACAAATTTGAGTTAGGGTTAGTTAAAACATAATCATTCCTCACTTTTGTA
66 ACAAATTTGAGTTAGGGTTAGTTAAAACATAATCATTCATCACTTTTGTA
*
44441397 TAAAGTAATATAATTGAGGGTTCGTCAATTGATCTTTAAATCTTGTAACAAAGAAACACCATTAA
1 TAAAGTAATATAATTGAAGGTTCGTCAATTGATCTTTAAATCTTGTAACAAAGAAACACCATTAA
44441462 ACAAATTTGAGTTAGGGTTAGTTAAAACATAATCATTCATCACTTTTGTA
66 ACAAATTTGAGTTAGGGTTAGTTAAAACATAATCATTCATCACTTTTGTA
44441512 T
1 T
44441513 GGGTATTTTC
Statistics
Matches: 112, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
115 112 1.00
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (115 bp):
TAAAGTAATATAATTGAAGGTTCGTCAATTGATCTTTAAATCTTGTAACAAAGAAACACCATTAA
ACAAATTTGAGTTAGGGTTAGTTAAAACATAATCATTCATCACTTTTGTA
Found at i:44447715 original size:27 final size:28
Alignment explanation
Indices: 44447685--44447743 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 28
44447675 AGGCTATCTC
44447685 TTCATTA-TTCACCACAAAGGATTTTCT
1 TTCATTATTTCACCACAAAGGATTTTCT
* *
44447712 TTCA-TATTTTACCACAAAGGCTTTTCT
1 TTCATTATTTCACCACAAAGGATTTTCT
44447739 TTCAT
1 TTCAT
44447744 GTTTTTCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 2 0.07
27 26 0.93
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.44
Consensus pattern (28 bp):
TTCATTATTTCACCACAAAGGATTTTCT
Found at i:44447748 original size:27 final size:27
Alignment explanation
Indices: 44447695--44447768 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
44447685 TTCATTATTC
*
44447695 ACCACAAAGGATTTTCTTTCATATTTT
1 ACCACAAAGGCTTTTCTTTCATATTTT
*
44447722 ACCACAAAGGCTTTTCTTTCATGTTTT
1 ACCACAAAGGCTTTTCTTTCATATTTT
* * *
44447749 TCTATAAAGGCTTTTCTTTC
1 ACCACAAAGGCTTTTCTTTC
44447769 CTGAAGTGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.24, C:0.20, G:0.09, T:0.46
Consensus pattern (27 bp):
ACCACAAAGGCTTTTCTTTCATATTTT
Found at i:44451023 original size:19 final size:19
Alignment explanation
Indices: 44450983--44451046 Score: 76
Period size: 19 Copynumber: 3.3 Consensus size: 19
44450973 CATAATAGGA
44450983 GCACTGTAGTGCAGAA-AGGG
1 GCACTGTAG-GC-GAACAGGG
44451003 GCACTGTAGGCGAACAGGG
1 GCACTGTAGGCGAACAGGG
* *
44451022 GCACCGTAGGCCAACAGGG
1 GCACTGTAGGCGAACAGGG
*
44451041 ACACTG
1 GCACTG
44451047 AAGTGTATAC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
18 3 0.08
19 27 0.69
20 9 0.23
ACGTcount: A:0.28, C:0.23, G:0.38, T:0.11
Consensus pattern (19 bp):
GCACTGTAGGCGAACAGGG
Found at i:44453045 original size:21 final size:21
Alignment explanation
Indices: 44453019--44453060 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
44453009 GCACTTATTC
44453019 CAACTTAATCTTTCATAACTT
1 CAACTTAATCTTTCATAACTT
44453040 CAACTTAATCTTTCATAACTT
1 CAACTTAATCTTTCATAACTT
44453061 TAACATAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.43
Consensus pattern (21 bp):
CAACTTAATCTTTCATAACTT
Found at i:44455893 original size:31 final size:32
Alignment explanation
Indices: 44455822--44455909 Score: 88
Period size: 31 Copynumber: 2.8 Consensus size: 32
44455812 AAAAACCCTC
* * * *
44455822 TTTTATTTTTATATCAAAATTACAGATAGTTGA
1 TTTTATTTTTATATTAAAATAATAAATAG-TGA
*
44455855 TTCTATTTTTATATTAAAATAATAAATA-TGA
1 TTTTATTTTTATATTAAAATAATAAATAGTGA
* * *
44455886 TTTTATTTTAAAATTATAATAATA
1 TTTTATTTTTATATTAAAATAATA
44455910 TACATTAAAT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
31 23 0.50
33 23 0.50
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (32 bp):
TTTTATTTTTATATTAAAATAATAAATAGTGA
Found at i:44460345 original size:18 final size:17
Alignment explanation
Indices: 44460309--44460352 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
44460299 ATTAATGAAC
*
44460309 ACAAATAATCAATCAAT
1 ACAAATAAGCAATCAAT
*
44460326 ACAAATAAGCATTACAAT
1 ACAAATAAGCAAT-CAAT
*
44460344 ACACATAAG
1 ACAAATAAG
44460353 AGCAATAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.57, C:0.18, G:0.05, T:0.20
Consensus pattern (17 bp):
ACAAATAAGCAATCAAT
Found at i:44460738 original size:27 final size:28
Alignment explanation
Indices: 44460699--44460757 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
44460689 AGAATAATTT
*
44460699 TAAAATTAATATATAAAGCAACTAAAAA
1 TAAAATTAATATATAAAACAACTAAAAA
* *
44460727 TAAAA-TAATATATAAAATAACTTAAAA
1 TAAAATTAATATATAAAACAACTAAAAA
44460754 TAAA
1 TAAA
44460758 TCCTTTACAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 23 0.82
28 5 0.18
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (28 bp):
TAAAATTAATATATAAAACAACTAAAAA
Found at i:44460797 original size:20 final size:21
Alignment explanation
Indices: 44460772--44460810 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
44460762 TTACAAAGCA
44460772 AGTTAAA-ATAACATATAATG
1 AGTTAAACATAACATATAATG
*
44460792 AGTTAAACATAATATATAA
1 AGTTAAACATAACATATAA
44460811 AAGAGGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.31
Consensus pattern (21 bp):
AGTTAAACATAACATATAATG
Found at i:44462580 original size:45 final size:45
Alignment explanation
Indices: 44462519--44462744 Score: 162
Period size: 45 Copynumber: 5.1 Consensus size: 45
44462509 TTTCGCTGCC
* * *
44462519 AATACAGGAAAACAAGATCTGTTATCTTCAGTCTGCTCCGCTGAA
1 AATACAGGAAGACAAGATCTGTTATCTTCAGTCTACTCCGCTGGA
* * * * *
44462564 AACT-CAAGG-AGGCAAGA-CT-TATGTCTTCAATCTACTTCGCTGGC
1 AA-TAC-AGGAAGACAAGATCTGT-TATCTTCAGTCTACTCCGCTGGA
* * * *
44462608 AATACAGGAAGATAAGATCTGCTATCTTTAGTCTACTCCGCTGCA
1 AATACAGGAAGACAAGATCTGTTATCTTCAGTCTACTCCGCTGGA
* * * * * *
44462653 AACT-CAGGGAGGCAAGA-CT-TGTGTCTTCAATC-AGCTTCGCTGGC
1 AA-TACAGGAAGACAAGATCTGT-TATCTTCAGTCTA-CTCCGCTGGA
* *
44462697 AATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTCCGCTGTA
1 AATACAGGAAGACAAGATCTGTTATCTTCAGTCTACTCCGCTGGA
44462742 AAT
1 AAT
44462745 TTAGGGTGGC
Statistics
Matches: 132, Mismatches: 35, Indels: 28
0.68 0.18 0.14
Matches are distributed among these distances:
43 7 0.05
44 58 0.44
45 61 0.46
46 6 0.05
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (45 bp):
AATACAGGAAGACAAGATCTGTTATCTTCAGTCTACTCCGCTGGA
Found at i:44462605 original size:44 final size:44
Alignment explanation
Indices: 44462543--44462684 Score: 108
Period size: 44 Copynumber: 3.2 Consensus size: 44
44462533 AGATCTGTTA
* *
44462543 TCTTCAGTCTGCTCCGCTGAAAACTCAAGGAGGCAAGACTTATG
1 TCTTCAATCTACTCCGCTGAAAACTCAAGGAGGCAAGACTTATG
* ** ** ** *
44462587 TCTTCAATCTACTTCGCTGGCAA-T-ACAGGAAGATAAGATCTGCTA
1 TCTTCAATCTACTCCGCTGAAAACTCA-AGG-AGGCAAGA-CTTATG
* * * * *
44462632 TCTTTAGTCTACTCCGCTGCAAACTCAGGGAGGCAAGACTTGTG
1 TCTTCAATCTACTCCGCTGAAAACTCAAGGAGGCAAGACTTATG
44462676 TCTTCAATC
1 TCTTCAATC
44462685 AGCTTCGCTG
Statistics
Matches: 70, Mismatches: 23, Indels: 10
0.68 0.22 0.10
Matches are distributed among these distances:
42 1 0.01
43 4 0.06
44 34 0.49
45 27 0.39
46 3 0.04
47 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (44 bp):
TCTTCAATCTACTCCGCTGAAAACTCAAGGAGGCAAGACTTATG
Found at i:44462611 original size:89 final size:89
Alignment explanation
Indices: 44462449--44463001 Score: 544
Period size: 89 Copynumber: 6.2 Consensus size: 89
44462439 AGGAAACATT
* * * * * **
44462449 TGCTCTCTTTAGTCTGCTCTGTTGCAAACTCAGGGAGGCAAAGCTGGTGTCTTCGATCTGTTTCG
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACTCAGGGAGGCAAAGCTGGTGTCTTCAATCTACTTCG
44462514 CTGCCAATACAGGAAAACAAGATC
66 CTGCCAATACAGGAAAACAAGATC
* * * **
44462538 TGTTATCTTCAGTCTGCTCCGCTGAAAACTCAAGGAGGC-AAGACTTATGTCTTCAATCTACTTC
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACTCAGGGAGGCAAAG-CTGGTGTCTTCAATCTACTTC
* * *
44462602 GCTGGCAATACAGGAAGATAAGATC
65 GCTGCCAATACAGGAAAACAAGATC
* * *
44462627 TGCTATCTTTAGTCTACTCCGCTGCAAACTCAGGGAGGC-AAGACTTGTGTCTTCAATC-AGCTT
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACTCAGGGAGGCAAAG-CTGGTGTCTTCAATCTA-CTT
* *
44462690 CGCTGGCAATACAGGAAGACAAGATC
64 CGCTGCCAATACAGGAAAACAAGATC
* * * * * * * *
44462716 TGCTATCTTCAGTCTACTCCGCTGTAAATTTAGGGTGGCAAAGCTGGTATCTTCGATCTAATTCG
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACTCAGGGAGGCAAAGCTGGTGTCTTCAATCTACTTCG
44462781 CTGCCAATACAGGAAAACAAGATC
66 CTGCCAATACAGGAAAACAAGATC
* * * * * *** *
44462805 T-ATTTTTTTAGTCTGTTCTATTACAAACTCAGGGAGGCAAAGCTGGTGTCTT-AGATCTACTTC
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACTCAGGGAGGCAAAGCTGGTGTCTTCA-ATCTACTTC
* *
44462868 ACTGCCAATACA-GAAAACCAAGATA
65 GCTGCCAATACAGGAAAA-CAAGATC
* * ** * * *
44462893 TGTTATCTTCAATCTATTCCGCTGCAAACTCAGGGAGGC-AAGACTGGTGTCTTCAATATGCTTT
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACTCAGGGAGGCAAAG-CTGGTGTCTTCAATCTACTTC
* ** *
44462957 GCTGCCATTGTAGGAAGACAAGATC
65 GCTGCCAATACAGGAAAACAAGATC
*
44462982 TACTATCTTCAGTCTGCTCC
1 TGCTATCTTCAGTCTGCTCC
44463002 ATTGCAGCTT
Statistics
Matches: 378, Mismatches: 76, Indels: 20
0.80 0.16 0.04
Matches are distributed among these distances:
87 5 0.01
88 69 0.18
89 295 0.78
90 9 0.02
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (89 bp):
TGCTATCTTCAGTCTGCTCCGCTGCAAACTCAGGGAGGCAAAGCTGGTGTCTTCAATCTACTTCG
CTGCCAATACAGGAAAACAAGATC
Found at i:44462974 original size:266 final size:267
Alignment explanation
Indices: 44462480--44463001 Score: 678
Period size: 266 Copynumber: 2.0 Consensus size: 267
44462470 TTGCAAACTC
* ** *
44462480 AGGGAGGCAAAGCTGGTGTCTTCGATCTGTTTCGCTGCCAATACAGGAAAACAAGATCTGTTATC
1 AGGGAGGCAAAGCTGGTATCTTCGATCTAATTCGCTGCCAATACAGGAAAACAAGATCTATTATC
* * * *
44462545 TTCAGTCTGCTCCGCTGAAAACTCAAGGAGGCAAGACTTATGTCTTCAATCTACTTCGCTGGCAA
66 TTCAGTCTGCTCCGATGAAAACTCAAGGAGGCAAGACTGATGTCTTCAATCTACTTCACTGCCAA
* * * * * *
44462610 TACAGGAAGATAAGATCTGCTATCTTTAGTCTACTCCGCTGCAAACTCAGGGAGGCAAGACTTGT
131 TACAGGAAAACAAGATATGCTATCTTCAATCTACTCCGCTGCAAACTCAGGGAGGCAAGACTGGT
* *
44462675 GTCTTCAATCAGCTTCGCTGGCAATACAGGAAGACAAGATCTGCTATCTTCAGTCTACTCCGCTG
196 GTCTTCAATCAGCTTCGCTGCCAATACAGGAAGACAAGATCTACTATCTTCAGTCTACTCCGCTG
44462740 TAAATTT
261 TAAATTT
* *
44462747 AGGGTGGCAAAGCTGGTATCTTCGATCTAATTCGCTGCCAATACAGGAAAACAAGATCTATT-TT
1 AGGGAGGCAAAGCTGGTATCTTCGATCTAATTCGCTGCCAATACAGGAAAACAAGATCTATTATC
* * * * * *
44462811 TTTAGTCTG-TTCTATTACAAACTCAGGGAGGCAA-AGCTGGTGTCTT-AGATCTACTTCACTGC
66 TTCAGTCTGCTCCGATGA-AAACTCAAGGAGGCAAGA-CTGATGTCTTCA-ATCTACTTCACTGC
* *
44462873 CAATACA-GAAAACCAAGATATGTTATCTTCAATCTATTCCGCTGCAAACTCAGGGAGGCAAGAC
128 CAATACAGGAAAA-CAAGATATGCTATCTTCAATCTACTCCGCTGCAAACTCAGGGAGGCAAGAC
* * ** *
44462937 TGGTGTCTTCAAT-ATGCTTTGCTGCCATTGTAGGAAGACAAGATCTACTATCTTCAGTCTGCTC
192 TGGTGTCTTCAATCA-GCTTCGCTGCCAATACAGGAAGACAAGATCTACTATCTTCAGTCTACTC
44463001 C
256 C
44463002 ATTGCAGCTT
Statistics
Matches: 219, Mismatches: 31, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
265 11 0.05
266 151 0.69
267 57 0.26
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (267 bp):
AGGGAGGCAAAGCTGGTATCTTCGATCTAATTCGCTGCCAATACAGGAAAACAAGATCTATTATC
TTCAGTCTGCTCCGATGAAAACTCAAGGAGGCAAGACTGATGTCTTCAATCTACTTCACTGCCAA
TACAGGAAAACAAGATATGCTATCTTCAATCTACTCCGCTGCAAACTCAGGGAGGCAAGACTGGT
GTCTTCAATCAGCTTCGCTGCCAATACAGGAAGACAAGATCTACTATCTTCAGTCTACTCCGCTG
TAAATTT
Found at i:44470189 original size:33 final size:33
Alignment explanation
Indices: 44470147--44470213 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
44470137 GCATCGTAAC
44470147 GGTGTTTGGTTGGTAAATTTTTGTTGGTTTCCA
1 GGTGTTTGGTTGGTAAATTTTTGTTGGTTTCCA
44470180 GGTGTTTGGTTGGTAAATTTTTGTTGGTTTCCA
1 GGTGTTTGGTTGGTAAATTTTTGTTGGTTTCCA
44470213 G
1 G
44470214 ATTAACTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.12, C:0.06, G:0.31, T:0.51
Consensus pattern (33 bp):
GGTGTTTGGTTGGTAAATTTTTGTTGGTTTCCA
Found at i:44470810 original size:16 final size:16
Alignment explanation
Indices: 44470785--44470815 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44470775 TTATGATGAA
44470785 AATGCAATGCAATCAT
1 AATGCAATGCAATCAT
*
44470801 AATGCCATGCAATCA
1 AATGCAATGCAATCA
44470816 AAACAAAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.23, G:0.13, T:0.23
Consensus pattern (16 bp):
AATGCAATGCAATCAT
Found at i:44477402 original size:65 final size:71
Alignment explanation
Indices: 44477331--44477503 Score: 223
Period size: 65 Copynumber: 2.5 Consensus size: 71
44477321 ATGATTTTAG
* *
44477331 TAAATTCATATAAGAATATTTATTATTAAGAATTTTATGAAA-T-TA-T-AT-ATCATTA-TTAA
1 TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAAGTATATTAATAATAATTATTTAA
44477390 ATTATA
66 ATTATA
*
44477396 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAAGTTATATTTAATAATAATTATTT
1 TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAAG-TATA-TTAATAATAATTA-TT
44477461 TAAATTATA
63 TAAATTATA
* * *
44477470 CAAATTCATATAAGAAAATTTATTAGTAATAATT
1 TAAATTCATATAAGAAAATTTATTATTAAGAATT
44477504 ATTAAGAATT
Statistics
Matches: 92, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
65 40 0.43
67 1 0.01
68 2 0.02
70 1 0.01
71 2 0.02
72 6 0.07
74 40 0.43
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.44
Consensus pattern (71 bp):
TAAATTCATATAAGAAAATTTATTATTAAGAATTTTATGAAAGTATATTAATAATAATTATTTAA
ATTATA
Found at i:44477639 original size:120 final size:120
Alignment explanation
Indices: 44477501--44477917 Score: 782
Period size: 120 Copynumber: 3.5 Consensus size: 120
44477491 ATTAGTAATA
44477501 ATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAA
1 ATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAA
44477566 TTATATTTTATAGTATCATATATTATGATTTTG-GTAAATTCATATAAGAATATTG
66 TTATATTTTATAGTATCATATATTATGA-TTTGAGTAAATTCATATAAGAATATTG
44477621 ATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAA
1 ATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAA
44477686 TTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTG
66 TTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTG
*
44477741 ATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATGTTTAATAATAATTATTTCAAA
1 ATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAA
*
44477806 TTATATTTTATAATATCATATATTATGATTTGAGTAAATTCATATAAGAATATTG
66 TTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTG
* *
44477861 ATTATTAAGAATTTTATTAAATTATATATTTTAATTTAAATATATTTAATAATAATT
1 ATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATT
44477918 GTGTTAAAAT
Statistics
Matches: 291, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
119 4 0.01
120 287 0.99
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.48
Consensus pattern (120 bp):
ATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAA
TTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTG
Found at i:44477645 original size:61 final size:61
Alignment explanation
Indices: 44477580--44477890 Score: 223
Period size: 61 Copynumber: 5.2 Consensus size: 61
44477570 ATTTTATAGT
44477580 ATCATATATTATGATTTTGGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 ATCATATATTATGATTTTGGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
* * **** * * * * * * *
44477641 ATCATATATTTTAATTAAAATATATTTA-ATAATAATTATTTCA-AATT-A-TATTTTA-TAGT
1 ATCATATATTATGATTTTGGTAAATTCATATAAGAA-TA-TTGATTATTAAGAATTTTATTA-A
44477700 ATCATATATTATGA-TTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 ATCATATATTATGATTTTG-GTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
* * **** ** * * * * *
44477761 ATCATATATTTTAATTAAAATATGTTTA-ATAATAATTATTTCA-AATT-A-TATTTTA-TAA
1 ATCATATATTATGATTTTGGTAAATTCATATAAGAA-TA-TTGATTATTAAGAATTTTATTAA
44477819 TATCATATATTATGA-TTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 -ATCATATATTATGATTTTG-GTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
*
44477881 ATTATATATT
1 ATCATATATT
44477891 TTAATTTAAA
Statistics
Matches: 178, Mismatches: 53, Indels: 38
0.66 0.20 0.14
Matches are distributed among these distances:
58 13 0.07
59 57 0.32
60 28 0.16
61 68 0.38
62 12 0.07
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (61 bp):
ATCATATATTATGATTTTGGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
Found at i:44481485 original size:44 final size:44
Alignment explanation
Indices: 44481434--44481785 Score: 183
Period size: 44 Copynumber: 7.5 Consensus size: 44
44481424 AATCCACTCC
* *
44481434 ACTGTAATCTCAGGGAGATAGGGTTACTAGTTTCAATCTGCTCT
1 ACTGTAATCTCAGGGAGATAAGATTACTAGTTTCAATCTGCTCT
* * * *
44481478 GCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATGCGATCTACTCT
1 ACTGTAATCTCAGGGAGATAAGATTACTAG-TT---TC--A----ATCTGCTCT
* * * * *
44481532 ACTGTAATTTCAGAGAGATAAGATCCT-TTA-TTTTAATCCGCTCT
1 ACTGTAATCTCAGGGAGATAAGAT--TACTAGTTTCAATCTGCTCT
* * *
44481576 ACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATTACTAGTTTCAATCTGCTCT
* * * *
44481620 GCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTGATTCGATCTACTCT
1 ACTGTAATCTCAGGGAGATAAGATTACTAG-TT---TC--A----ATCTGCTCT
* * * * *
44481674 ACTGTAA-CTTCAGAGAGATAAGATCCT-TTA-TTTTAATCTACTCC
1 ACTGTAATC-TCAGGGAGATAAGAT--TACTAGTTTCAATCTGCTCT
* * * * *
44481718 ATTGAAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATTACTAGTTTCAATCTGCTCT
*
44481762 GCTGTAATCTCAGGGAGATAAGAT
1 ACTGTAATCTCAGGGAGATAAGAT
44481786 CTGTAATTTC
Statistics
Matches: 231, Mismatches: 47, Indels: 60
0.68 0.14 0.18
Matches are distributed among these distances:
42 2 0.01
43 4 0.02
44 146 0.63
45 4 0.02
48 6 0.03
50 4 0.02
53 5 0.02
54 56 0.24
55 2 0.01
56 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (44 bp):
ACTGTAATCTCAGGGAGATAAGATTACTAGTTTCAATCTGCTCT
Found at i:44481629 original size:142 final size:142
Alignment explanation
Indices: 44481373--44481785 Score: 693
Period size: 142 Copynumber: 2.9 Consensus size: 142
44481363 GAGATAAGAC
* * *
44481373 CTGATGCGATCCT-TTCTACGGTAACTTCAGAGAGATGAGATCCTTTATTTTAATCCACTCCACT
1 CTGATGCGAT-CTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACT
* * *
44481437 GTAATCTCAGGGAGATAGGGTTACTAGTTTCAATCTGCTCTGCTGTAATCTCAGGGAGATAAGAT
65 GTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
44481502 TTCTGGCTTCAAT
130 TTCTGGCTTCAAT
* * *
44481515 CTGATGCGATCTACTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCTACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTG
44481580 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
44481645 TCTGGCTTCAAT
131 TCTGGCTTCAAT
* * *
44481657 CTGATTCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTACTCCATTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTG
*
44481722 AAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
66 TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGAT
44481786 CTGTAATTTC
Statistics
Matches: 254, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
141 2 0.01
142 252 0.99
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (142 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTG
TAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
TCTGGCTTCAAT
Found at i:44498804 original size:16 final size:16
Alignment explanation
Indices: 44498779--44498809 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44498769 TTATGATGAA
44498779 AATGCAATGCAATCAT
1 AATGCAATGCAATCAT
*
44498795 AATGCCATGCAATCA
1 AATGCAATGCAATCA
44498810 AAACAAAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.23, G:0.13, T:0.23
Consensus pattern (16 bp):
AATGCAATGCAATCAT
Found at i:44500306 original size:18 final size:17
Alignment explanation
Indices: 44500270--44500313 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
44500260 ACTAATGAAC
*
44500270 ACAAATAATCAATCAAT
1 ACAAATAAGCAATCAAT
*
44500287 ACAAATAAGCATTACAAT
1 ACAAATAAGCAAT-CAAT
*
44500305 ACACATAAG
1 ACAAATAAG
44500314 AGCAATAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 11 0.48
18 12 0.52
ACGTcount: A:0.57, C:0.18, G:0.05, T:0.20
Consensus pattern (17 bp):
ACAAATAAGCAATCAAT
Found at i:44500716 original size:27 final size:28
Alignment explanation
Indices: 44500662--44500720 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
44500652 AGAATAATTT
*
44500662 TAAAATTAATATATAAAGCAACTAAAAA
1 TAAAATTAATATATAAAACAACTAAAAA
* * *
44500690 TAAAA-TAATATATAAAATAAGTTAAAA
1 TAAAATTAATATATAAAACAACTAAAAA
44500717 TAAA
1 TAAA
44500721 TCCTTTACAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 22 0.81
28 5 0.19
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.27
Consensus pattern (28 bp):
TAAAATTAATATATAAAACAACTAAAAA
Found at i:44500771 original size:21 final size:20
Alignment explanation
Indices: 44500735--44500773 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
44500725 TTACAAAGCA
44500735 AGTTAAAATAACATATAATG
1 AGTTAAAATAACATATAATG
*
44500755 AGTTAAATATAATATATAA
1 AGTTAAA-ATAACATATAA
44500774 AAGAGGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (20 bp):
AGTTAAAATAACATATAATG
Found at i:44500803 original size:15 final size:15
Alignment explanation
Indices: 44500783--44500815 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
44500773 AAAGAGGAAT
44500783 TTTAAA-ATAAATCAA
1 TTTAAAGAT-AATCAA
44500798 TTTAAAGATAATCAA
1 TTTAAAGATAATCAA
44500813 TTT
1 TTT
44500816 TTGAAATAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 15 0.88
16 2 0.12
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (15 bp):
TTTAAAGATAATCAA
Found at i:44500865 original size:21 final size:21
Alignment explanation
Indices: 44500841--44500880 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
44500831 TAAAAACAAT
*
44500841 TTAAACTAAATAATATATATA
1 TTAAAATAAATAATATATATA
* *
44500862 TTAAAATAAGTACTATATA
1 TTAAAATAAATAATATATA
44500881 CAAAAGTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (21 bp):
TTAAAATAAATAATATATATA
Found at i:44507048 original size:12 final size:12
Alignment explanation
Indices: 44507031--44507069 Score: 78
Period size: 12 Copynumber: 3.2 Consensus size: 12
44507021 GCTGCTAATT
44507031 TTGGTTGAGCAA
1 TTGGTTGAGCAA
44507043 TTGGTTGAGCAA
1 TTGGTTGAGCAA
44507055 TTGGTTGAGCAA
1 TTGGTTGAGCAA
44507067 TTG
1 TTG
44507070 TTTTGTCGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.23, C:0.08, G:0.33, T:0.36
Consensus pattern (12 bp):
TTGGTTGAGCAA
Found at i:44509418 original size:16 final size:17
Alignment explanation
Indices: 44509384--44509424 Score: 52
Period size: 15 Copynumber: 2.5 Consensus size: 17
44509374 ATTATTTTAA
44509384 ATTTT-ATTAAATCATAT
1 ATTTTAATTAAA-CATAT
44509401 ATTTTAATTAAA-ATAT
1 ATTTTAATTAAACATAT
44509417 A-TTTAATT
1 ATTTTAATT
44509425 TAATTATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 7 0.30
16 5 0.22
17 5 0.22
18 6 0.26
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTAATTAAACATAT
Found at i:44509648 original size:19 final size:18
Alignment explanation
Indices: 44509626--44509663 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
44509616 ATTAAGAATT
44509626 TTATTA-AATTATATATTAA
1 TTATTATAA-TATAT-TTAA
44509645 TTATTATAATATATTTAA
1 TTATTATAATATATTTAA
44509663 T
1 T
44509664 AATAATTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 11 0.61
20 2 0.11
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTATTATAATATATTTAA
Found at i:44509666 original size:21 final size:20
Alignment explanation
Indices: 44509626--44509672 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
44509616 ATTAAGAATT
*
44509626 TTATTA-AATTATATATTAA
1 TTATTATAATTATATAATAA
*
44509645 TTATTATAATATATTTAATAA
1 TTATTATAAT-TATATAATAA
*
44509666 TAATTAT
1 TTATTAT
44509673 GTTAATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 6 0.26
20 3 0.13
21 14 0.61
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATTATAATTATATAATAA
Found at i:44509704 original size:241 final size:242
Alignment explanation
Indices: 44509383--44509921 Score: 899
Period size: 241 Copynumber: 2.2 Consensus size: 242
44509373 AATTATTTTA
* * * *
44509383 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAAT-TTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTCAAATTATATTT
44509446 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATT
66 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATT
* *
44509511 AAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTTAAATTATCTTTTATAGTATCA
131 AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCA
44509576 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAA-G
196 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGG
*
44509622 AATTTTATTAAATTATATATTAATT-ATTATAATATATTTAATAATAATTATGTT-AATTTATAT
1 AATTTTATTAAATTATATATT--TTAATTATAATATATTTAATAATAATTATGTTCAAATTATAT
*
44509685 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTA
64 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
* *
44509750 TTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTAT
129 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
*
44509815 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGG
194 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGG
* * *
44509864 AAATTTATTAAATTATATATTTTAATTATAATATATTTAGTAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTCAAAT
44509922 ATGATTAAAT
Statistics
Matches: 279, Mismatches: 14, Indels: 11
0.92 0.05 0.04
Matches are distributed among these distances:
239 20 0.07
240 18 0.06
241 215 0.77
242 26 0.09
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (242 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTCAAATTATATTT
TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATT
AAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCA
TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGG
Found at i:44509745 original size:121 final size:120
Alignment explanation
Indices: 44509383--44509921 Score: 895
Period size: 120 Copynumber: 4.5 Consensus size: 120
44509373 AATTATTTTA
* * * *
44509383 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAAT-TTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTATATTT
44509446 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
44509502 AATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
44509567 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
44509622 AATTTTATTAAATTATATATTAATT-ATTATAATATATTTAATAATAATTATGTTAATTTATATT
1 AATTTTATTAAATTATATATT--TTAATTATAATATATTTAATAATAATTATGTTAAATTATATT
*
44509686 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
64 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
44509743 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
*
44509808 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAA-G
* *
44509864 AAATTTATTAAATTATATATTTTAATTATAATATATTTAGTAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
44509922 ATGATTAAAT
Statistics
Matches: 402, Mismatches: 11, Indels: 11
0.95 0.03 0.03
Matches are distributed among these distances:
119 41 0.10
120 190 0.47
121 164 0.41
122 7 0.02
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:44509783 original size:15 final size:15
Alignment explanation
Indices: 44509748--44509799 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
44509738 TTAAGAATTT
*
44509748 TATTAAATTAT-ATA
1 TATTTAATTATAATA
44509762 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
44509776 TATTTAATAATAAT-
1 TATTTAATTATAATA
44509790 TATGTTAATT
1 TAT-TTAATT
44509800 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:44510154 original size:16 final size:16
Alignment explanation
Indices: 44510133--44510202 Score: 86
Period size: 16 Copynumber: 4.4 Consensus size: 16
44510123 TTGATTTGCT
*
44510133 ATTACAACTCTATTCC
1 ATTACACCTCTATTCC
*
44510149 ATTACACCTCTATTTC
1 ATTACACCTCTATTCC
*
44510165 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
* *
44510181 ATTACGCCTTTATTCC
1 ATTACACCTCTATTCC
*
44510197 AATACA
1 ATTACA
44510203 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.27, C:0.31, G:0.03, T:0.39
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:44510649 original size:30 final size:31
Alignment explanation
Indices: 44510587--44510654 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 31
44510577 TTATAGGTGA
*
44510587 TAAATTTAAATAAAGTATTTTTTCAAATTATT
1 TAAATATAAATAAAGTATTTTTTC-AATTATT
*
44510619 TAAATATAAATAAAAT-TATTTTTC-ATTATT
1 TAAATATAAATAAAGTAT-TTTTTCAATTATT
44510649 TAAATA
1 TAAATA
44510655 ATTTATAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 12 0.36
31 1 0.03
32 20 0.61
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (31 bp):
TAAATATAAATAAAGTATTTTTTCAATTATT
Found at i:44514844 original size:41 final size:41
Alignment explanation
Indices: 44514799--44514954 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
44514789 ACCGGCTCTT
*
44514799 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
44514840 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
44514881 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
44514922 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
44514955 TAACGATAAA
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 98 0.92
42 2 0.02
43 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:44515461 original size:21 final size:23
Alignment explanation
Indices: 44515437--44515484 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
44515427 AATATATATA
44515437 TATTTC-AC-TCATACTTTTAAT
1 TATTTCAACATCATACTTTTAAT
*
44515458 TATTTCAACTATCATATTTTTAAT
1 TATTTCAAC-ATCATACTTTTAAT
44515482 TAT
1 TAT
44515485 ATTTCATCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 6 0.26
22 2 0.09
24 15 0.65
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (23 bp):
TATTTCAACATCATACTTTTAAT
Found at i:44522449 original size:41 final size:41
Alignment explanation
Indices: 44522404--44522559 Score: 235
Period size: 41 Copynumber: 3.8 Consensus size: 41
44522394 ACCGGCTCTT
*
44522404 AGCCTGCTAGACTTATAGTCCGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
44522445 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
44522486 AGCCTGCTAGACTTATAGTCTGAATAAT-T-TCACCGGCATTA
1 AGCCTGCTAGACTTATAGTCTG-A-AATGTGTCACCGGCATTA
* * * *
44522527 AGCCTGCTAGACGTAAAGTCTGAATTATGTCAC
1 AGCCTGCTAGACTTATAGTCTGAAATGTGTCAC
44522560 TAACGATAAA
Statistics
Matches: 107, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 2 0.02
40 2 0.02
41 98 0.92
42 2 0.02
43 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (41 bp):
AGCCTGCTAGACTTATAGTCTGAAATGTGTCACCGGCATTA
Found at i:44525817 original size:32 final size:32
Alignment explanation
Indices: 44525776--44525836 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
44525766 CAATAATAGT
44525776 TCAGTTCAGT-TGGGCCTTAG-CCATTACAATA
1 TCAGTTCAGTGT-GGCCTTAGCCCATTACAATA
44525807 TCAGTATCAGTGTGGCCTTAGCCCATTACA
1 TCAGT-TCAGTGTGGCCTTAGCCCATTACA
44525837 GTGACAGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
31 5 0.19
32 13 0.48
33 9 0.33
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.31
Consensus pattern (32 bp):
TCAGTTCAGTGTGGCCTTAGCCCATTACAATA
Found at i:44525845 original size:33 final size:32
Alignment explanation
Indices: 44525788--44525850 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 32
44525778 AGTTCAGTTG
*
44525788 GGCCTTAGCCATTACAATATCAGTATCAGTGT
1 GGCCTTAGCCATTACAATATCAGTAACAGTGT
*
44525820 GGCCTTAGCCCATTACAGTGA-CAGTAACAGT
1 GGCCTTAG-CCATTACAAT-ATCAGTAACAGT
44525851 TCAGACATGC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 8 0.30
33 18 0.67
34 1 0.04
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.27
Consensus pattern (32 bp):
GGCCTTAGCCATTACAATATCAGTAACAGTGT
Found at i:44526872 original size:354 final size:354
Alignment explanation
Indices: 44526223--44526935 Score: 1068
Period size: 354 Copynumber: 2.0 Consensus size: 354
44526213 CTTATCGACC
* ** * *
44526223 CATCAGTAGGTCCACAGCCCTCTCGGGCTATTTGTGTAACCTTAGTAGTCAAATAGTAAAATTGG
1 CATCAGTAGGTCCACAGCCCTCTCGGGCAACCTGTGTAACCTTAATAGTCAAACAGTAAAATTGG
44526288 GCCAAATGCCTATAATGCGAGCTCATGCGGGTCCACACGCCCGTATGGCCCACATAGCCAAAAAT
66 GCCAAATGCCTATAATGCGAGCTCATGCGGGTCCACACGCCCGTATGGCCCACATAGCCAAAAAT
* * **
44526353 TGGTCTTGTTCATGAAAACCACATAGTTTGGCCTAATAATCTCATCACATTCGTGTGGTTTACCC
131 TGGTCTTGGTCATGAAAACCACATAGTTTGGCCTAATAATCTCATCACATTCATGTCATTTACCC
** *
44526418 ATGTGATTCCCACAAGCCCATTAGGCCCACACGGCCCATTTCGGCCCAACATGGCCCAAAACGGC
196 ATGTGAGGCCCACAAGCCCATTAGGCCCACACAGCCCATTTCGGCCCAACATGGCCCAAAACGGC
* * **
44526483 CGAAGACCACGATTCGCTCATGGTGCCCTCAATAGTCTGACGC-CTATGTTTTATGCGTATGAAT
261 CGAAGACCACAATTCGCTCATGGTGCCCTCAATAGTCTAACGCTC-ACATTTTATGCGTATGAAT
* *
44526547 TTCTACACGAGCAAGCACACGCTCGTGTAG
325 TTCCACACGAGCAAGCACACGCTCATGTAG
* *
44526577 CATCAGTAGGTCCACAGTCCTCTCGGGCAACCTGTGTAACCTTAATAGTCAAACAGTGAAATTGG
1 CATCAGTAGGTCCACAGCCCTCTCGGGCAACCTGTGTAACCTTAATAGTCAAACAGTAAAATTGG
* * *
44526642 GTCAAATGCCTATAATGCGAGCTCATGCGGGTCCACACGCCCGTGTGGCCCACATAGCCCAAAAT
66 GCCAAATGCCTATAATGCGAGCTCATGCGGGTCCACACGCCCGTATGGCCCACATAGCCAAAAAT
** * *
44526707 TGGTCTTGGTCATGAAAACCACATAGTTTGGCCTAATAATCTTGTCACGTTCATTTCATTTACCC
131 TGGTCTTGGTCATGAAAACCACATAGTTTGGCCTAATAATCTCATCACATTCATGTCATTTACCC
* * * **
44526772 ATGTGAGGCCCACAAGCCCATTGGGCCCACACAGTCCATTTTGGCCCAACATGGCGTAAAACGGC
196 ATGTGAGGCCCACAAGCCCATTAGGCCCACACAGCCCATTTCGGCCCAACATGGCCCAAAACGGC
* * *
44526837 CGAAGACCACAATTCGCTTATGGTGGCCTCAATAGTCTAACGCTCACATTTTATGCGTTTGAATT
261 CGAAGACCACAATTCGCTCATGGTGCCCTCAATAGTCTAACGCTCACATTTTATGCGTATGAATT
* * *
44526902 TCCACACGAGCGAGCGCATGCTCATGTAG
326 TCCACACGAGCAAGCACACGCTCATGTAG
44526931 CATCA
1 CATCA
44526936 ATTGTCATAT
Statistics
Matches: 320, Mismatches: 38, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
354 319 1.00
355 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (354 bp):
CATCAGTAGGTCCACAGCCCTCTCGGGCAACCTGTGTAACCTTAATAGTCAAACAGTAAAATTGG
GCCAAATGCCTATAATGCGAGCTCATGCGGGTCCACACGCCCGTATGGCCCACATAGCCAAAAAT
TGGTCTTGGTCATGAAAACCACATAGTTTGGCCTAATAATCTCATCACATTCATGTCATTTACCC
ATGTGAGGCCCACAAGCCCATTAGGCCCACACAGCCCATTTCGGCCCAACATGGCCCAAAACGGC
CGAAGACCACAATTCGCTCATGGTGCCCTCAATAGTCTAACGCTCACATTTTATGCGTATGAATT
TCCACACGAGCAAGCACACGCTCATGTAG
Found at i:44530373 original size:24 final size:23
Alignment explanation
Indices: 44530301--44530427 Score: 95
Period size: 24 Copynumber: 5.6 Consensus size: 23
44530291 TTTATTTTAA
*
44530301 TATCATATACTATTATCTTAAA-T
1 TATCATATACTATAAT-TTAAATT
* *
44530324 TATCATA-AGTACT-ATTTAAATC
1 TATCATATACTA-TAATTTAAATT
44530346 TATCATATA-TCATAATTTAAAATT
1 TATCATATACT-ATAATTT-AAATT
* *
44530370 TATCATGTACTATAATTTTAAACT
1 TATCATATACTATAA-TTTAAATT
* *
44530394 TATCATAT-C-ATTATTTAGATT
1 TATCATATACTATAATTTAAATT
*
44530415 TATCATGTACTAT
1 TATCATATACTAT
44530428 TTTTTTGTGT
Statistics
Matches: 84, Mismatches: 10, Indels: 20
0.74 0.09 0.18
Matches are distributed among these distances:
21 18 0.21
22 18 0.21
23 17 0.20
24 27 0.32
25 4 0.05
ACGTcount: A:0.39, C:0.12, G:0.03, T:0.46
Consensus pattern (23 bp):
TATCATATACTATAATTTAAATT
Found at i:44530595 original size:15 final size:17
Alignment explanation
Indices: 44530567--44530609 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 17
44530557 ATTTTCATAC
44530567 ATTATTATTATATAT--
1 ATTATTATTATATATAA
44530582 ATT-TT-TTATATATAA
1 ATTATTATTATATATAA
44530597 ATTATTATTATAT
1 ATTATTATTATAT
44530610 GATAGTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 8 0.33
14 2 0.08
15 6 0.25
16 2 0.08
17 6 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTATTATTATATATAA
Found at i:44530624 original size:30 final size:29
Alignment explanation
Indices: 44530546--44530624 Score: 72
Period size: 30 Copynumber: 2.7 Consensus size: 29
44530536 TCTAAAGAAC
* *
44530546 TATACGATAGTATTT-TCATACATTATTAT
1 TATATGATAGTATTTAT-ATAAATTATTAT
* *
44530575 TATAT-ATATTTTTTATATATAAATTATTAT
1 TATATGATA-GTATT-TATATAAATTATTAT
44530605 TATATGATAGTAATTTATAT
1 TATATGATAGT-ATTTATAT
44530625 TTTTATTCTA
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
28 3 0.08
29 7 0.18
30 23 0.59
31 6 0.15
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (29 bp):
TATATGATAGTATTTATATAAATTATTAT
Found at i:44530675 original size:21 final size:20
Alignment explanation
Indices: 44530649--44530694 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
44530639 TATATGGTTA
**
44530649 TTTTTATATTATTTTAACTAT
1 TTTTTATACCATTTTAA-TAT
*
44530670 TTTTTATACCCTTTTAATAT
1 TTTTTATACCATTTTAATAT
44530690 TTTTT
1 TTTTT
44530695 GAGCTACTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTTATACCATTTTAATAT
Found at i:44538877 original size:29 final size:28
Alignment explanation
Indices: 44538845--44538909 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 28
44538835 TAGTCCCTTT
* *
44538845 TATTTTATTTTTCTTTCAATTTCGCCCTA
1 TATTTTATTTTTATTTCAATTTAGCCC-A
* *
44538874 TATTTTTGTTTTTATTTCGATTTAGCCCA
1 TA-TTTTATTTTTATTTCAATTTAGCCCA
44538903 TATTTTA
1 TATTTTA
44538910 GCAATTTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 4 0.13
29 5 0.17
30 21 0.70
ACGTcount: A:0.18, C:0.15, G:0.06, T:0.60
Consensus pattern (28 bp):
TATTTTATTTTTATTTCAATTTAGCCCA
Found at i:44538929 original size:3 final size:3
Alignment explanation
Indices: 44538921--44539012 Score: 80
Period size: 3 Copynumber: 31.0 Consensus size: 3
44538911 CAATTTTATG
* * *
44538921 TTA TTA TTA TTA TT- TTAA ATA TTA TTA TTA TTA GT- TTA CTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA
** * * * *
44538965 TTA TTA TTA TGG TTA TTA TTA TTA CTA TTA TTG TTA GTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
44539013 CTGTTATTTC
Statistics
Matches: 68, Mismatches: 18, Indels: 6
0.74 0.20 0.07
Matches are distributed among these distances:
2 3 0.04
3 64 0.94
4 1 0.01
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:44539000 original size:21 final size:20
Alignment explanation
Indices: 44538921--44539012 Score: 94
Period size: 21 Copynumber: 4.5 Consensus size: 20
44538911 CAATTTTATG
44538921 TTATTATTATTATTTTAAATA
1 TTATTATTATTATTTT-AATA
* *
44538942 TTATTATTATTAGTTTACTA
1 TTATTATTATTATTTTAATA
* *
44538962 TTATTATTATTATGGTTATTA
1 TTATTATTATTAT-TTTAATA
* *
44538983 TTATTACTATTATTGTTAGTA
1 TTATTATTATTATT-TTAATA
*
44539004 TTAATATTA
1 TTATTATTA
44539013 CTGTTATTTC
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
20 15 0.25
21 44 0.75
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (20 bp):
TTATTATTATTATTTTAATA
Found at i:44539005 original size:18 final size:18
Alignment explanation
Indices: 44538984--44539018 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44538974 TGGTTATTAT
* *
44538984 TATTACTATTATTGTTAG
1 TATTAATATTACTGTTAG
44539002 TATTAATATTACTGTTA
1 TATTAATATTACTGTTA
44539019 TTTCTCTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.54
Consensus pattern (18 bp):
TATTAATATTACTGTTAG
Found at i:44539067 original size:2 final size:2
Alignment explanation
Indices: 44539062--44539091 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
44539052 ATACCTATTC
*
44539062 AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44539092 TAAAACATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:44539136 original size:27 final size:27
Alignment explanation
Indices: 44539078--44539148 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
44539068 ATATATATAT
*
44539078 ATATTTATATATA-T-TA-AAACATGT
1 ATATTTATATATATTATATAAACATGC
*
44539102 ATATTTTATATATATTATATAAACGTGC
1 ATA-TTTATATATATTATATAAACATGC
44539130 ATATTTATATATATTATAT
1 ATATTTATATATATTATAT
44539149 TTCTTTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
24 3 0.07
25 10 0.24
26 1 0.02
27 18 0.44
28 9 0.22
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (27 bp):
ATATTTATATATATTATATAAACATGC
Found at i:44539147 original size:25 final size:25
Alignment explanation
Indices: 44539078--44539147 Score: 88
Period size: 25 Copynumber: 2.7 Consensus size: 25
44539068 ATATATATAT
*
44539078 ATATTTATATATATTA-AAACATGT
1 ATATTTATATATATTATAAACATGC
*
44539102 ATATTTTATATATATTATATAAACGTGC
1 ATA-TTTATATATA-T-TATAAACATGC
44539130 ATATTTATATATATTATA
1 ATATTTATATATATTATA
44539148 TTTCTTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
24 3 0.08
25 14 0.35
26 2 0.05
27 12 0.30
28 9 0.22
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (25 bp):
ATATTTATATATATTATAAACATGC
Found at i:44548264 original size:15 final size:14
Alignment explanation
Indices: 44548243--44548282 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
44548233 GAAGTGAATG
44548243 ATTGAATATGTTGA
1 ATTGAATATGTTGA
*
44548257 ATTTGAATAAGTTGA
1 A-TTGAATATGTTGA
44548272 ATTG-ATATGTT
1 ATTGAATATGTT
44548283 TTGATACCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
13 6 0.26
14 4 0.17
15 13 0.57
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (14 bp):
ATTGAATATGTTGA
Found at i:44549253 original size:10 final size:10
Alignment explanation
Indices: 44549233--44549262 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
44549223 GTCTTAACTC
44549233 TAAAAAT-TT
1 TAAAAATATT
44549242 TAAAAATATT
1 TAAAAATATT
44549252 TAAAAATATT
1 TAAAAATATT
44549262 T
1 T
44549263 TTAACCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.35
10 13 0.65
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
TAAAAATATT
Found at i:44551804 original size:13 final size:13
Alignment explanation
Indices: 44551786--44551811 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44551776 TATTTCACTC
44551786 AAATTTGATATTT
1 AAATTTGATATTT
44551799 AAATTTGATATTT
1 AAATTTGATATTT
44551812 TAACTCTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
AAATTTGATATTT
Found at i:44573520 original size:20 final size:20
Alignment explanation
Indices: 44573481--44573519 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
44573471 CTTTATATTT
44573481 TTTTAGAATTTATTTTAAAA
1 TTTTAGAATTTATTTTAAAA
44573501 TTTTAGAATTT-TTTTAAAA
1 TTTTAGAATTTATTTTAAAA
44573520 AATATAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTTAGAATTTATTTTAAAA
Found at i:44573543 original size:18 final size:19
Alignment explanation
Indices: 44573522--44573558 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
44573512 TTTTAAAAAA
44573522 TATAAAT-TTTGGAATTTT
1 TATAAATATTTGGAATTTT
*
44573540 TATAAATATTTTGAATTTT
1 TATAAATATTTGGAATTTT
44573559 AAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (19 bp):
TATAAATATTTGGAATTTT
Found at i:44573559 original size:18 final size:19
Alignment explanation
Indices: 44573522--44573571 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
44573512 TTTTAAAAAA
*
44573522 TATAAAT-TTTGGAATTTT
1 TATAAATATTTTGAATTTT
44573540 TATAAATATTTTGAA-TTT
1 TATAAATATTTTGAATTTT
*
44573558 TAAAAATTATTTTG
1 TATAAA-TATTTTG
44573572 GATTATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 15 0.54
19 13 0.46
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:44574327 original size:23 final size:22
Alignment explanation
Indices: 44574279--44574327 Score: 80
Period size: 23 Copynumber: 2.2 Consensus size: 22
44574269 ATTTTTAAAT
44574279 TTTAAATTATTTAGTGATAATA
1 TTTAAATTATTTAGTGATAATA
*
44574301 TTTAAGATTATTTGGTGATAATA
1 TTTAA-ATTATTTAGTGATAATA
44574324 TTTA
1 TTTA
44574328 GGAAAAATCT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TTTAAATTATTTAGTGATAATA
Found at i:44576372 original size:51 final size:52
Alignment explanation
Indices: 44576317--44576417 Score: 134
Period size: 51 Copynumber: 2.0 Consensus size: 52
44576307 AATTATTTAA
44576317 AAATAGGGATTTAAGAG-AAATTTAAGAGAAAATTGAGAGCAAA-TTGAGATT
1 AAATAGGGATTTAAGAGCAAA-TTAAGAGAAAATTGAGAGCAAATTTGAGATT
* * * * *
44576368 AAATATGGATTTGAGAGCAAATTGAGAGGAAATTGAGAGGAAATTTGAGA
1 AAATAGGGATTTAAGAGCAAATTAAGAGAAAATTGAGAGCAAATTTGAGA
44576418 GAGGATTAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
51 34 0.79
52 9 0.21
ACGTcount: A:0.47, C:0.02, G:0.27, T:0.25
Consensus pattern (52 bp):
AAATAGGGATTTAAGAGCAAATTAAGAGAAAATTGAGAGCAAATTTGAGATT
Found at i:44576422 original size:14 final size:11
Alignment explanation
Indices: 44576378--44576418 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
44576368 AAATATGGAT
*
44576378 TTGAGAGCAAA
1 TTGAGAGGAAA
44576389 TTGAGAGGAAA
1 TTGAGAGGAAA
44576400 TTGAGAGGAAA
1 TTGAGAGGAAA
44576411 TTTGAGAG
1 -TTGAGAG
44576419 AGGATTAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
11 21 0.75
12 7 0.25
ACGTcount: A:0.41, C:0.02, G:0.34, T:0.22
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:44576650 original size:20 final size:21
Alignment explanation
Indices: 44576625--44576673 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
44576615 CGACCCATTT
* *
44576625 TTTAAATAAACACAAAAAA-A
1 TTTAAAAAAACAAAAAAAATA
*
44576645 TTTAAAAAAATAAAAAAAATA
1 TTTAAAAAAACAAAAAAAATA
44576666 TTTAAAAA
1 TTTAAAAA
44576674 TATTTTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.24
Consensus pattern (21 bp):
TTTAAAAAAACAAAAAAAATA
Found at i:44579939 original size:16 final size:16
Alignment explanation
Indices: 44579920--44580358 Score: 168
Period size: 16 Copynumber: 27.9 Consensus size: 16
44579910 TATTAAGTAA
*
44579920 ATTATGTAAGCTATGT
1 ATTATGTAAGTTATGT
*
44579936 ATTATATAAGTTATGT
1 ATTATGTAAGTTATGT
44579952 AAGTTATGT-A-TTATGT
1 -A-TTATGTAAGTTATGT
* *
44579968 AAGCTATGTAAGTTGTGT
1 -A-TTATGTAAGTTATGT
44579986 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
*
44580002 ATTATGTATGTTATGT
1 ATTATGTAAGTTATGT
* *
44580018 AAGTTGTGT-AG-AATGT
1 -A-TTATGTAAGTTATGT
*
44580034 AAGCTATGTAAGTTATGT
1 -A-TTATGTAAGTTATGT
* *
44580052 AAGTAGTGT-A-TAATGT
1 -ATTA-TGTAAGTTATGT
44580068 A--AT-TAAGTTATGT
1 ATTATGTAAGTTATGT
* * *
44580081 AAGTTGTGT-A-TAATGCA
1 -A-TTATGTAAGTTATG-T
44580098 AGTTATGTAAGTTATGT
1 A-TTATGTAAGTTATGT
**
44580115 ATTATGTAAGTTGCGT
1 ATTATGTAAGTTATGT
* * *
44580131 ATAATGCAA-TTAAG-
1 ATTATGTAAGTTATGT
*
44580145 -TTATGTAAGTTGTGT
1 ATTATGTAAGTTATGT
* *
44580160 ATAATGTAAGCTATGT
1 ATTATGTAAGTTATGT
44580176 A--A-GT-A---ATGT
1 ATTATGTAAGTTATGT
*
44580185 ATTATGTAAGTTGTGT
1 ATTATGTAAGTTATGT
*
44580201 ATAATAT-TAA-TTAAG-
1 AT--TATGTAAGTTATGT
*
44580216 -TTATGTAAGTTGTGT
1 ATTATGTAAGTTATGT
*
44580231 ATAATGTAAGTTATG-
1 ATTATGTAAGTTATGT
*
44580246 ---A---AATTTATGT
1 ATTATGTAAGTTATGT
*
44580256 ATTATGTAAGTTATTT
1 ATTATGTAAGTTATGT
*
44580272 AAGTTATGTAAGTTGTGT
1 -A-TTATGTAAGTTATGT
44580290 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
* *
44580306 AAGTTATGTAGGCTATGT
1 -A-TTATGTAAGTTATGT
44580324 ATTATGTAAGTTATTATGTT
1 ATTATGTAAG---TTATG-T
44580344 ATTATGTAAGTTATG
1 ATTATGTAAGTTATG
44580359 CAAGTTTATA
Statistics
Matches: 320, Mismatches: 53, Indels: 99
0.68 0.11 0.21
Matches are distributed among these distances:
9 12 0.04
11 2 0.01
12 9 0.03
13 19 0.06
14 9 0.03
15 4 0.01
16 165 0.52
17 27 0.08
18 58 0.18
19 4 0.01
20 11 0.03
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.45
Consensus pattern (16 bp):
ATTATGTAAGTTATGT
Found at i:44579949 original size:25 final size:25
Alignment explanation
Indices: 44579905--44580358 Score: 316
Period size: 25 Copynumber: 18.2 Consensus size: 25
44579895 TGATATATAT
* *
44579905 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
44579930 CTATGTATTATATAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
*
44579955 TTATGTATTATGTAAGCTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
*
44579980 TTGTGTATTATGTAAGTTATGT-A-
1 TTATGTATTATGTAAGTTATGTAAG
*
44580003 TTATGTATGTTATGTAAGTTGTGT-AG
1 TTATGTA--TTATGTAAGTTATGTAAG
* *
44580029 -AATGTAAGCTATGTAAGTTATGTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAG
*
44580055 -TAGTGTATAATGTAATTAAGTTATGTAAG
1 TTA-TGTATTATG----TAAGTTATGTAAG
* * *
44580084 TTGTGTATAATGCAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
**
44580109 TTATGTATTATGTAAGTTGCGT-A-
1 TTATGTATTATGTAAGTTATGTAAG
* *
44580132 TAATGCA--AT-TAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* * *
44580154 TTGTGTATAATGTAAGCTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
44580179 TAATGTATTATGTAAGTTGTGT-A-
1 TTATGTATTATGTAAGTTATGTAAG
*
44580202 -TA-ATATTAAT-TAAGTTATGTAAG
1 TTATGTATT-ATGTAAGTTATGTAAG
* * * *
44580225 TTGTGTATAATGTAAGTTATGAAAT
1 TTATGTATTATGTAAGTTATGTAAG
*
44580250 TTATGTATTATGTAAGTTATTTAAG
1 TTATGTATTATGTAAGTTATGTAAG
*
44580275 TTATGTAAGTTGTGT-A-TTATGTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAG
* *
44580300 TTATGTAAGTTATGTAGGCTATGTATTA-
1 TTATGT-A-TTATGTAAGTTATGTA--AG
* *
44580328 TGTAAGTTATTATGTTA-TTATGTAAG
1 T-TATG-TATTATGTAAGTTATGTAAG
44580354 TTATG
1 TTATG
44580359 CAAGTTTATA
Statistics
Matches: 338, Mismatches: 60, Indels: 62
0.73 0.13 0.13
Matches are distributed among these distances:
20 8 0.02
21 16 0.05
22 8 0.02
23 11 0.03
24 8 0.02
25 223 0.66
26 8 0.02
27 20 0.06
28 7 0.02
29 27 0.08
30 2 0.01
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAG
Found at i:44580055 original size:9 final size:9
Alignment explanation
Indices: 44579916--44580364 Score: 258
Period size: 9 Copynumber: 51.8 Consensus size: 9
44579906 TATGTATTAA
*
44579916 GTAAATTAT
1 GTAAGTTAT
*
44579925 GTAAGCTAT
1 GTAAGTTAT
44579934 GT-A-TTAT
1 GTAAGTTAT
*
44579941 ATAAGTTAT
1 GTAAGTTAT
44579950 GTAAGTTAT
1 GTAAGTTAT
44579959 GT-A-TTAT
1 GTAAGTTAT
*
44579966 GTAAGCTAT
1 GTAAGTTAT
*
44579975 GTAAGTTGT
1 GTAAGTTAT
44579984 GT-A-TTAT
1 GTAAGTTAT
44579991 GTAAGTTAT
1 GTAAGTTAT
44580000 GT-A-TTAT
1 GTAAGTTAT
*
44580007 GTATGTTAT
1 GTAAGTTAT
*
44580016 GTAAGTTGT
1 GTAAGTTAT
*
44580025 GT-AG-AAT
1 GTAAGTTAT
*
44580032 GTAAGCTAT
1 GTAAGTTAT
44580041 GTAAGTTAT
1 GTAAGTTAT
44580050 GTAAG-TAGT
1 GTAAGTTA-T
*
44580059 GTATAATGTAAT
1 G--TAA-GTTAT
44580071 -TAAGTTAT
1 GTAAGTTAT
*
44580079 GTAAGTTGT
1 GTAAGTTAT
*
44580088 GT-A-TAAT
1 GTAAGTTAT
*
44580095 GCAAGTTAT
1 GTAAGTTAT
44580104 GTAAGTTAT
1 GTAAGTTAT
44580113 GT-A-TTAT
1 GTAAGTTAT
*
44580120 GTAAGTTGCGT
1 GTAAGTT--AT
* **
44580131 ATAATGCAAT
1 GTAA-GTTAT
44580141 -TAAGTTAT
1 GTAAGTTAT
*
44580149 GTAAGTTGT
1 GTAAGTTAT
*
44580158 GT-A-TAAT
1 GTAAGTTAT
*
44580165 GTAAGCTAT
1 GTAAGTTAT
*
44580174 GTAAGTAAT
1 GTAAGTTAT
44580183 GT-A-TTAT
1 GTAAGTTAT
*
44580190 GTAAGTTGT
1 GTAAGTTAT
*
44580199 GTATAATATTAAT
1 G--TAA-GTT-AT
44580212 -TAAGTTAT
1 GTAAGTTAT
*
44580220 GTAAGTTGT
1 GTAAGTTAT
*
44580229 GT-A-TAAT
1 GTAAGTTAT
44580236 GTAAGTTAT
1 GTAAGTTAT
* *
44580245 GAAATTTAT
1 GTAAGTTAT
44580254 GT-A-TTAT
1 GTAAGTTAT
44580261 GTAAGTTAT
1 GTAAGTTAT
*
44580270 TTAAGTTAT
1 GTAAGTTAT
*
44580279 GTAAGTTGT
1 GTAAGTTAT
44580288 GT-A-TTAT
1 GTAAGTTAT
44580295 GTAAGTTAT
1 GTAAGTTAT
44580304 GTAAGTTAT
1 GTAAGTTAT
* *
44580313 GTAGGCTAT
1 GTAAGTTAT
44580322 GT-A-TTAT
1 GTAAGTTAT
44580329 GTAAGTTAT
1 GTAAGTTAT
*
44580338 -TATGTTATTAT
1 GTAAG---TTAT
44580349 GTAAGTTAT
1 GTAAGTTAT
*
44580358 GCAAGTT
1 GTAAGTT
44580365 TATATTTAAG
Statistics
Matches: 334, Mismatches: 61, Indels: 90
0.69 0.13 0.19
Matches are distributed among these distances:
7 62 0.19
8 40 0.12
9 204 0.61
10 4 0.01
11 14 0.04
12 8 0.02
13 2 0.01
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:44580334 original size:34 final size:33
Alignment explanation
Indices: 44580237--44580345 Score: 137
Period size: 34 Copynumber: 3.2 Consensus size: 33
44580227 GTGTATAATG
* **
44580237 TAAGTTATGAAATTTATGTATTATGTAAGTTATT
1 TAAGTTATGTAAGCTATGTATTATGTAAGTTA-T
* *
44580271 TAAGTTATGTAAGTTGTGTATTATGTAAGTTAT
1 TAAGTTATGTAAGCTATGTATTATGTAAGTTAT
*
44580304 GTAAGTTATGTAGGCTATGTATTATGTAAGTTAT
1 -TAAGTTATGTAAGCTATGTATTATGTAAGTTAT
*
44580338 TATGTTAT
1 TAAGTTAT
44580346 TATGTAAGTT
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
33 8 0.12
34 59 0.88
ACGTcount: A:0.31, C:0.01, G:0.19, T:0.49
Consensus pattern (33 bp):
TAAGTTATGTAAGCTATGTATTATGTAAGTTAT
Found at i:44580423 original size:19 final size:19
Alignment explanation
Indices: 44580401--44580441 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
44580391 GATATGATTG
44580401 ATAAATTTTGA-AAAAATAT
1 ATAAATTTT-ATAAAAATAT
*
44580420 ATAAATTTTATAAATATAT
1 ATAAATTTTATAAAAATAT
44580439 ATA
1 ATA
44580442 TTAAAAATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 1 0.05
19 19 0.95
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
ATAAATTTTATAAAAATAT
Found at i:44580987 original size:12 final size:12
Alignment explanation
Indices: 44580970--44580998 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
44580960 TTATGATTTG
44580970 CAAAATACATGT
1 CAAAATACATGT
44580982 CAAAATACATGT
1 CAAAATACATGT
44580994 CAAAA
1 CAAAA
44580999 GCGCCTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.55, C:0.17, G:0.07, T:0.21
Consensus pattern (12 bp):
CAAAATACATGT
Found at i:44581820 original size:22 final size:21
Alignment explanation
Indices: 44581795--44581862 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 21
44581785 TTATCAATGA
44581795 AGGTGTAAAACAATTTATGTGC
1 AGGTGTAAAACAATTTATGT-C
*** *
44581817 AGGTGTAAAACACACGGAAGT-
1 AGGTGTAAAACA-ATTTATGTC
44581838 AGGTGTAAAACAATTTATGTAC
1 AGGTGTAAAACAATTTATGT-C
44581860 AGG
1 AGG
44581863 AGAATATAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
20 4 0.11
21 12 0.34
22 15 0.43
23 4 0.11
ACGTcount: A:0.40, C:0.10, G:0.25, T:0.25
Consensus pattern (21 bp):
AGGTGTAAAACAATTTATGTC
Found at i:44582368 original size:124 final size:123
Alignment explanation
Indices: 44582147--44582623 Score: 557
Period size: 124 Copynumber: 3.8 Consensus size: 123
44582137 TACAGGAGAG
* * * * *
44582147 CAAAACGAAAGCGTCTTATTTAAACTACAATGAAGCTTTGCTGCGATTT-TAAAATAGCGCCTTT
1 CAAAACGACACCGTTTTGTTTAAACTACAATGAAGCTTTGC-G-GATTTCTAAAATAGCGCCTCT
* * *
44582211 AATTCTCACATTTCGCGGCGTTTTTAGCCTAGCGCCGCTAATGCCGCTAATTTTTCCAGA
64 AATTCTCACCTTTTGCGGCGTTTTTAGCATAGCGCCGCTAATGCCGCTAATTTTTCCAGA
44582271 CAAAACGACACCGTTTTGTTTAAACTACAATGAAGCTTTGCGGAGTTTCTAAAATAGCGCCTCTA
1 CAAAACGACACCGTTTTGTTTAAACTACAATGAAGCTTTGCGGA-TTTCTAAAATAGCGCCTCTA
* *
44582336 ATTCTCGCCTTTTGCGGCGTTTTTAGCATAGCGCCGCTAATGCCGCTAATTTTGCCAGA
65 ATTCTCACCTTTTGCGGCGTTTTTAGCATAGCGCCGCTAATGCCGCTAATTTTTCCAGA
* * * * *
44582395 CAAAATGACACCGTTATCTATAAACTACAATGAAGCTTTGCAGCG-TTTTTAAAATAGCGCCTCT
1 CAAAACGACACCGTTTTGTTTAAACTACAATGAAGCTTTGC-G-GATTTCTAAAATAGCGCCTCT
* * *
44582459 AATTCTCACCTTTTGCAGCGTTTTTAGCGTAGCGCCGCTAGTGCCGCT-A-TTTTCGACAGA
64 AATTCTCACCTTTTGCGGCGTTTTTAGCATAGCGCCGCTAATGCCGCTAATTTTTC--CAGA
** * * * ** *
44582519 CAAAACGACATAGTTTTGTTTAAATTAAAATGAAGTTTTGCGGCATTTCCCAAGTAGCGCCTCTA
1 CAAAACGACACCGTTTTGTTTAAACTACAATGAAGCTTTGCGG-ATTTCTAAAATAGCGCCTCTA
* * * * * * *
44582584 ATGCTCATCTTTAGAGGCGTTTTTATCTTAGCGCCACTAA
65 ATTCTCACCTTTTGCGGCGTTTTTAGCATAGCGCCGCTAA
44582624 ATCCATTAAA
Statistics
Matches: 303, Mismatches: 42, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
122 7 0.02
123 6 0.02
124 288 0.95
125 1 0.00
126 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (123 bp):
CAAAACGACACCGTTTTGTTTAAACTACAATGAAGCTTTGCGGATTTCTAAAATAGCGCCTCTAA
TTCTCACCTTTTGCGGCGTTTTTAGCATAGCGCCGCTAATGCCGCTAATTTTTCCAGA
Found at i:44582605 original size:248 final size:248
Alignment explanation
Indices: 44582167--44582623 Score: 650
Period size: 248 Copynumber: 1.8 Consensus size: 248
44582157 GCGTCTTATT
* * *
44582167 TAAACTACAATGAAGCTTTGCTGCGATTTTAAAATAGCGCCTTTAATTCTCACATTTCGCGGCGT
1 TAAACTACAATGAAGCTTTGCAGCGATTTTAAAATAGCGCCTCTAATTCTCACATTTCGCAGCGT
*
44582232 TTTTAGCCTAGCGCCGCTAATGCCGCTAATTTTTCCAGACAAAACGACACCGTTTTGTTTAAACT
66 TTTTAGCCTAGCGCCGCTAATGCCGCTAATTTTTCCAGACAAAACGACACAGTTTTGTTTAAACT
* * * * * *
44582297 ACAATGAAGCTTTGCGGAGTTTCTAAAATAGCGCCTCTAATTCTCGCCTTTTGCGGCGTTTTTAG
131 AAAATGAAGCTTTGCGGAGTTTCCAAAATAGCGCCTCTAATGCTCACCTTTAGAGGCGTTTTTAG
*
44582362 CATAGCGCCGCTAATGCCGCTAATTTTGCCAGACAAAATGACACCGTTATCTA
196 CATAGCGCCACTAATGCCGCTAATTTTGCCAGACAAAATGACACCGTTATCTA
* * *
44582415 TAAACTACAATGAAGCTTTGCAGCGTTTTTAAAATAGCGCCTCTAATTCTCACCTTTTGCAGCGT
1 TAAACTACAATGAAGCTTTGCAGCGATTTTAAAATAGCGCCTCTAATTCTCACATTTCGCAGCGT
* * *
44582480 TTTTAGCGTAGCGCCGCTAGTGCCGCT-A-TTTTCGACAGACAAAACGACATAGTTTTGTTTAAA
66 TTTTAGCCTAGCGCCGCTAATGCCGCTAATTTTTC--CAGACAAAACGACACAGTTTTGTTTAAA
* * * * *
44582543 TTAAAATGAAGTTTTGCGGCA-TTTCCCAAGTAGCGCCTCTAATGCTCATCTTTAGAGGCGTTTT
129 CTAAAATGAAGCTTTGCGG-AGTTTCCAAAATAGCGCCTCTAATGCTCACCTTTAGAGGCGTTTT
* *
44582607 TATCTTAGCGCCACTAA
193 TAGCATAGCGCCACTAA
44582624 ATCCATTAAA
Statistics
Matches: 182, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
246 5 0.03
247 1 0.01
248 175 0.96
249 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (248 bp):
TAAACTACAATGAAGCTTTGCAGCGATTTTAAAATAGCGCCTCTAATTCTCACATTTCGCAGCGT
TTTTAGCCTAGCGCCGCTAATGCCGCTAATTTTTCCAGACAAAACGACACAGTTTTGTTTAAACT
AAAATGAAGCTTTGCGGAGTTTCCAAAATAGCGCCTCTAATGCTCACCTTTAGAGGCGTTTTTAG
CATAGCGCCACTAATGCCGCTAATTTTGCCAGACAAAATGACACCGTTATCTA
Found at i:44582949 original size:25 final size:26
Alignment explanation
Indices: 44582921--44582973 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
44582911 AAAATTATAA
* *
44582921 ATTTTAGTTTTTTTATTTCATTT-TT
1 ATTTTAGTATTTTAATTTCATTTCTT
* *
44582946 ATTTTTGTATTTTAATTTTATTTCTT
1 ATTTTAGTATTTTAATTTCATTTCTT
44582972 AT
1 AT
44582974 AATTTGGTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.74
Consensus pattern (26 bp):
ATTTTAGTATTTTAATTTCATTTCTT
Found at i:44582950 original size:19 final size:19
Alignment explanation
Indices: 44582920--44582968 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
44582910 TAAAATTATA
*
44582920 AATTTTAGTTTTTTTATTTC
1 AATTTTA-TTTTTGTATTTC
* *
44582940 ATTTTTATTTTTGTATTTT
1 AATTTTATTTTTGTATTTC
44582959 AATTTTATTT
1 AATTTTATTT
44582969 CTTATAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (19 bp):
AATTTTATTTTTGTATTTC
Found at i:44583418 original size:15 final size:15
Alignment explanation
Indices: 44583398--44583426 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
44583388 CCCCTAATGT
44583398 CTAACCCCTAAACCC
1 CTAACCCCTAAACCC
44583413 CTAACCCCTAAACC
1 CTAACCCCTAAACC
44583427 TTAAATCCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.52, G:0.00, T:0.14
Consensus pattern (15 bp):
CTAACCCCTAAACCC
Found at i:44583445 original size:21 final size:22
Alignment explanation
Indices: 44583406--44583458 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
44583396 GTCTAACCCC
* *
44583406 TAAACCCCTAACCCCTAAACCT
1 TAAATCCCTAACCCCTAAACCA
*
44583428 TAAATCCC-AACCCTTAAACCA
1 TAAATCCCTAACCCCTAAACCA
44583449 T-AATCCCTAA
1 TAAATCCCTAA
44583459 TTCATAATCC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.22
21 14 0.52
22 7 0.26
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.21
Consensus pattern (22 bp):
TAAATCCCTAACCCCTAAACCA
Done.