Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 71 of 204
Found at i:22376912 original size:29 final size:28
Alignment explanation
Indices: 22376872--22376968 Score: 108
Period size: 29 Copynumber: 3.5 Consensus size: 28
22376862 ATAATATATG
*
22376872 TAAATTAAAATATTAAAATAAATTTAAA
1 TAAATTAAAATATTAAAATAAATTGAAA
*
22376900 TAAATTAACAATATTAAAATAAGTTGAAA
1 TAAATTAA-AATATTAAAATAAATTGAAA
* * *
22376929 TGAATTAAAGATTTTAAAAT-ATTTGAAA
1 TAAATTAAA-ATATTAAAATAAATTGAAA
*
22376957 GAAA-TAAAATAT
1 TAAATTAAAATAT
22376969 CTATATAATA
Statistics
Matches: 59, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
26 3 0.05
27 4 0.07
28 18 0.31
29 34 0.58
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.34
Consensus pattern (28 bp):
TAAATTAAAATATTAAAATAAATTGAAA
Found at i:22384535 original size:3 final size:3
Alignment explanation
Indices: 22384527--22384553 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
22384517 TATTTGAGAA
22384527 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
22384554 TCATTATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:22385023 original size:18 final size:17
Alignment explanation
Indices: 22384972--22385024 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
22384962 TTAAAAAGTT
22384972 ATAATAATT-ACAGTTAA
1 ATAATAATTGA-AGTTAA
*
22384989 A-AATAATTAGAATTTAA
1 ATAATAATT-GAAGTTAA
22385006 ATAATAATTGATAGTTAA
1 ATAATAATTGA-AGTTAA
22385024 A
1 A
22385025 AAAGTTTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
16 7 0.23
17 9 0.30
18 14 0.47
ACGTcount: A:0.55, C:0.02, G:0.08, T:0.36
Consensus pattern (17 bp):
ATAATAATTGAAGTTAA
Found at i:22390811 original size:16 final size:16
Alignment explanation
Indices: 22390790--22390820 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
22390780 TTAGTATTAA
22390790 CCCTTTCAGCTTCAAT
1 CCCTTTCAGCTTCAAT
22390806 CCCTTTCAGCTTCAA
1 CCCTTTCAGCTTCAA
22390821 GCAACTCTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.39, G:0.06, T:0.35
Consensus pattern (16 bp):
CCCTTTCAGCTTCAAT
Found at i:22393175 original size:23 final size:23
Alignment explanation
Indices: 22393123--22393176 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 23
22393113 ATGTTTTAAA
*
22393123 ATTAAAATATTTGGAATTATTAT
1 ATTAAAATATTTGGAATTATGAT
*
22393146 ATAAAAATATTTGAGAATT-TGA-
1 ATTAAAATATTTG-GAATTATGAT
22393168 AGTTAAAAT
1 A-TTAAAAT
22393177 TTTATATTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 1 0.04
23 20 0.77
24 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (23 bp):
ATTAAAATATTTGGAATTATGAT
Found at i:22406622 original size:11 final size:11
Alignment explanation
Indices: 22406606--22406665 Score: 84
Period size: 11 Copynumber: 5.5 Consensus size: 11
22406596 AGAATGATGA
22406606 ATGATTGAGGG
1 ATGATTGAGGG
22406617 ATGATTGAGGG
1 ATGATTGAGGG
*
22406628 ATGCTTGAGGG
1 ATGATTGAGGG
*
22406639 ATGCTTGAGGG
1 ATGATTGAGGG
* *
22406650 ATGTTTCAGGG
1 ATGATTGAGGG
22406661 ATGAT
1 ATGAT
22406666 GAATGAAGGA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 45 1.00
ACGTcount: A:0.23, C:0.05, G:0.42, T:0.30
Consensus pattern (11 bp):
ATGATTGAGGG
Found at i:22406812 original size:15 final size:15
Alignment explanation
Indices: 22406783--22406812 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
22406773 GCTTAGTGGC
22406783 TTTTGACTTGATTTT
1 TTTTGACTTGATTTT
22406798 TTTTG-CTTGATTTT
1 TTTTGACTTGATTTT
22406812 T
1 T
22406813 AAGCAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.10, C:0.07, G:0.13, T:0.70
Consensus pattern (15 bp):
TTTTGACTTGATTTT
Found at i:22411467 original size:22 final size:22
Alignment explanation
Indices: 22411437--22411485 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
22411427 TATATCTATT
*
22411437 TATTATAATCATGTTAACATAA
1 TATTTTAATCATGTTAACATAA
* *
22411459 TATTTTAATCATTTTAACATCA
1 TATTTTAATCATGTTAACATAA
22411481 TATTT
1 TATTT
22411486 CCAAACTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (22 bp):
TATTTTAATCATGTTAACATAA
Found at i:22418168 original size:21 final size:22
Alignment explanation
Indices: 22418144--22418191 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
22418134 AAAATAATCT
* *
22418144 AAAC-TAATCAGAGTTTAATTG
1 AAACATAAACAGAGTTTAACTG
22418165 AAACAAATAAACAGAGTTTAACTG
1 AAAC--ATAAACAGAGTTTAACTG
22418189 AAA
1 AAA
22418192 GATTATTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 4 0.18
24 18 0.82
ACGTcount: A:0.52, C:0.10, G:0.12, T:0.25
Consensus pattern (22 bp):
AAACATAAACAGAGTTTAACTG
Found at i:22423508 original size:17 final size:17
Alignment explanation
Indices: 22423482--22423514 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
22423472 CAATGTTTAC
22423482 AACTAAATAAA-AGATT
1 AACTAAATAAACAGATT
22423498 AACTGAAATAAACAGAT
1 AACT-AAATAAACAGAT
22423515 ATTCAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 7 0.47
18 4 0.27
ACGTcount: A:0.61, C:0.09, G:0.09, T:0.21
Consensus pattern (17 bp):
AACTAAATAAACAGATT
Found at i:22426279 original size:15 final size:16
Alignment explanation
Indices: 22426259--22426288 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
22426249 AGAAAAAGGC
22426259 AAGATTAAAT-GAAAA
1 AAGATTAAATCGAAAA
22426274 AAGATTAAATCGAAA
1 AAGATTAAATCGAAA
22426289 CCATAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.63, C:0.03, G:0.13, T:0.20
Consensus pattern (16 bp):
AAGATTAAATCGAAAA
Found at i:22428091 original size:94 final size:94
Alignment explanation
Indices: 22427972--22428251 Score: 294
Period size: 94 Copynumber: 3.0 Consensus size: 94
22427962 CAATTTCAAA
* * * ** * * *
22427972 GAGATAAGATTTGTTGTAGTAGATTCAATCTGATCCACTGCAACTTTAGGGGTATAGGATTTGTA
1 GAGATAAGATTCGCTATAGTAGATTCAATCAAACCCACTGCAACTTCAAGGGTATAGGATTTGTA
*
22428037 GCTTTAATCTGCTTCACTACAACTTCAGG
66 GCTTTAATCTGATTCACTACAACTTCAGG
* * *
22428066 GAGATAAGATTCGCTATGGTAGATTCAATCAAACCCACTGCAACTTCAAGGATAT-GAGATTTGC
1 GAGATAAGATTCGCTATAGTAGATTCAATCAAACCCACTGCAACTTCAAGGGTATAG-GATTTGT
* * * **
22428130 AGC-TTCATCTTGTTTTACTGTAACTTCAGG
65 AGCTTTAATC-TGATTCACTACAACTTCAGG
* * * * * * * * *
22428160 GAGATAAGATTCGCCATCGTAGTTTCATTCCAACCCACTACAACTTCACGGGTATAGAAATTGTA
1 GAGATAAGATTCGCTATAGTAGATTCAATCAAACCCACTGCAACTTCAAGGGTATAGGATTTGTA
22428225 GCTTTAATCTGATTCACTACAACTTCA
66 GCTTTAATCTGATTCACTACAACTTCA
22428252 AGGATATAGG
Statistics
Matches: 150, Mismatches: 32, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
93 6 0.04
94 138 0.92
95 6 0.04
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (94 bp):
GAGATAAGATTCGCTATAGTAGATTCAATCAAACCCACTGCAACTTCAAGGGTATAGGATTTGTA
GCTTTAATCTGATTCACTACAACTTCAGG
Found at i:22440147 original size:32 final size:30
Alignment explanation
Indices: 22440087--22440153 Score: 80
Period size: 32 Copynumber: 2.2 Consensus size: 30
22440077 TTATGGGGTA
* ** *
22440087 AAAATAAAAAAATAAAAAAGGAGTAGGACG
1 AAAATAAAAAAACAAAAAAGGAAAAGGACC
22440117 AAAATAAAAAGGAACAAAAAAGGAAAAGGACC
1 AAAATAAAAA--AACAAAAAAGGAAAAGGACC
22440149 AAAAT
1 AAAAT
22440154 GGAAATTACC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 10 0.32
32 21 0.68
ACGTcount: A:0.69, C:0.06, G:0.18, T:0.07
Consensus pattern (30 bp):
AAAATAAAAAAACAAAAAAGGAAAAGGACC
Found at i:22446717 original size:12 final size:12
Alignment explanation
Indices: 22446687--22446717 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
22446677 AAACTGATTT
*
22446687 GGGTAAAGTTGA
1 GGGTAAGGTTGA
22446699 GGGTAAGGTTGA
1 GGGTAAGGTTGA
22446711 GGGTAAG
1 GGGTAAG
22446718 TTTCGTATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (12 bp):
GGGTAAGGTTGA
Found at i:22449762 original size:25 final size:23
Alignment explanation
Indices: 22449718--22449783 Score: 71
Period size: 25 Copynumber: 2.7 Consensus size: 23
22449708 TTAAAAATAT
22449718 TTTTTATTTTTAAGAA-TTTAGTAAA
1 TTTTTATTTTTAA-AATTTTA--AAA
22449743 TTTTTATTTTTAAAATTTTAAAA
1 TTTTTATTTTTAAAATTTTAAAA
* *
22449766 TTTTAAAATTTTAAAATT
1 TTTT-TATTTTTAAAATT
22449784 AATCAATTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
23 7 0.19
24 13 0.35
25 17 0.46
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (23 bp):
TTTTTATTTTTAAAATTTTAAAA
Found at i:22449763 original size:8 final size:8
Alignment explanation
Indices: 22449750--22449783 Score: 68
Period size: 8 Copynumber: 4.2 Consensus size: 8
22449740 AAATTTTTAT
22449750 TTTTAAAA
1 TTTTAAAA
22449758 TTTTAAAA
1 TTTTAAAA
22449766 TTTTAAAA
1 TTTTAAAA
22449774 TTTTAAAA
1 TTTTAAAA
22449782 TT
1 TT
22449784 AATCAATTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
TTTTAAAA
Found at i:22454163 original size:18 final size:18
Alignment explanation
Indices: 22454140--22454188 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
22454130 TTTAGATTAA
22454140 TTAGAGTTTCATTACATT
1 TTAGAGTTTCATTACATT
* *
22454158 TTAGAGTTTTATTATATT
1 TTAGAGTTTCATTACATT
*
22454176 TTATAGTTTCATT
1 TTAGAGTTTCATT
22454189 TGGAGGTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.27, C:0.06, G:0.10, T:0.57
Consensus pattern (18 bp):
TTAGAGTTTCATTACATT
Found at i:22456005 original size:22 final size:24
Alignment explanation
Indices: 22455963--22456006 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
22455953 TGATAATATG
22455963 TTTTGATATAATAAATTAAAGTGA
1 TTTTGATATAATAAATTAAAGTGA
*
22455987 TTTTGA-ATAA-AAGTTAAAGT
1 TTTTGATATAATAAATTAAAGT
22456007 TGAACAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 4 0.21
24 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (24 bp):
TTTTGATATAATAAATTAAAGTGA
Found at i:22457446 original size:11 final size:11
Alignment explanation
Indices: 22457426--22457533 Score: 65
Period size: 11 Copynumber: 10.4 Consensus size: 11
22457416 TAAAAATTAA
22457426 AAAAAGTATTTT
1 AAAAA-TATTTT
22457438 AAAAATATTTT
1 AAAAATATTTT
22457449 --AAA-A--TT
1 AAAAATATTTT
* *
22457455 AAAAAAATTTA
1 AAAAATATTTT
22457466 AAAAAGTATTTT
1 AAAAA-TATTTT
*
22457478 AAAAAAATTTT
1 AAAAATATTTT
22457489 --AAA-A-TTT
1 AAAAATATTTT
22457496 AAAAA-ATTTAAT
1 AAAAATATTT--T
*
22457508 AAAAGTATTTT
1 AAAAATATTTT
*
22457519 AAAAGTATTTT
1 AAAAATATTTT
22457530 AAAA
1 AAAA
22457534 TTAAAAAAAT
Statistics
Matches: 79, Mismatches: 5, Indels: 25
0.72 0.05 0.23
Matches are distributed among these distances:
6 2 0.03
7 3 0.04
8 5 0.06
9 11 0.14
10 2 0.03
11 33 0.42
12 19 0.24
13 4 0.05
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:22457483 original size:41 final size:40
Alignment explanation
Indices: 22457393--22457543 Score: 212
Period size: 40 Copynumber: 3.6 Consensus size: 40
22457383 ATAAATACCA
*
22457393 AAAAATTATTTTAAAAATTAAAATAAAAATTAAAAAAAGTATTTT
1 AAAAA-TATTTT-AAAATT--AA-AAAAATTTAAAAAAGTATTTT
22457438 AAAAATATTTTAAAATTAAAAAAATTTAAAAAAGTATTTT
1 AAAAATATTTTAAAATTAAAAAAATTTAAAAAAGTATTTT
* *
22457478 AAAAAAATTTTAAAATTTAAAAAATTTAATAAAAGTATTTT
1 AAAAATATTTTAAAATTAAAAAAATTTAA-AAAAGTATTTT
*
22457519 AAAAGTATTTTAAAATTAAAAAAAT
1 AAAAATATTTTAAAATTAAAAAAAT
22457544 AAAAAATAAT
Statistics
Matches: 99, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
40 47 0.47
41 35 0.35
43 6 0.06
44 6 0.06
45 5 0.05
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (40 bp):
AAAAATATTTTAAAATTAAAAAAATTTAAAAAAGTATTTT
Found at i:22471707 original size:21 final size:21
Alignment explanation
Indices: 22471666--22471705 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
22471656 GATAAAATTG
* *
22471666 TTTTCTTTTAAGAATCTAAAT
1 TTTTCTTATAAAAATCTAAAT
22471687 TTTTCTTATAAAAAT-TAAA
1 TTTTCTTATAAAAATCTAAA
22471706 ATAATTTCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (21 bp):
TTTTCTTATAAAAATCTAAAT
Found at i:22472058 original size:30 final size:31
Alignment explanation
Indices: 22472009--22472071 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
22471999 TGTACCAAAT
*
22472009 CAAAATTTATATATTAAATT-ATATATTATAA
1 CAAAATGTATATATTAAATTCATAT-TTATAA
*
22472040 CAAAATGTATCTA-TAAATTCGATATTTATAA
1 CAAAATGTATATATTAAATTC-ATATTTATAA
22472071 C
1 C
22472072 TTGATTAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 6 0.21
31 18 0.64
32 4 0.14
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.41
Consensus pattern (31 bp):
CAAAATGTATATATTAAATTCATATTTATAA
Found at i:22475951 original size:20 final size:20
Alignment explanation
Indices: 22475926--22475963 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22475916 CGTAAAATGA
*
22475926 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
22475946 TTTCTGTAAAATGATTTA
1 TTTCTGGAAAATGATTTA
22475964 TTGGAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:22475955 original size:34 final size:35
Alignment explanation
Indices: 22475911--22475977 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
22475901 CAGTAAAATA
*
22475911 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
* *
22475945 TTTTCTGTAAAATGATTTATTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
22475978 CTAATGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:22488123 original size:61 final size:61
Alignment explanation
Indices: 22488028--22488149 Score: 172
Period size: 61 Copynumber: 2.0 Consensus size: 61
22488018 AAATGCATAC
* *
22488028 GAATGGTGATTCCAATACAGGTACCATGGTGATTCCAACATAATATTAAAATTTTGCAAAT
1 GAATGGTGATTCCAATACAGGTACCATGGTGATTCCAACACAATACTAAAATTTTGCAAAT
* * * * * *
22488089 GAATGGTGCTTCCAATATAGTTACCATGGTGATTCCAATACATTACTAAGATTTTGCAAAT
1 GAATGGTGATTCCAATACAGGTACCATGGTGATTCCAACACAATACTAAAATTTTGCAAAT
22488150 ACAAATGAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (61 bp):
GAATGGTGATTCCAATACAGGTACCATGGTGATTCCAACACAATACTAAAATTTTGCAAAT
Found at i:22488187 original size:23 final size:23
Alignment explanation
Indices: 22488158--22488217 Score: 84
Period size: 23 Copynumber: 2.6 Consensus size: 23
22488148 ATACAAATGA
*
22488158 ATAGTGATTCCAATACAATTATC
1 ATAGTGATTCCAATACAATTACC
* *
22488181 ATAGTGATTGCAATACAGTTACC
1 ATAGTGATTCCAATACAATTACC
*
22488204 ATGGTGATTCCAAT
1 ATAGTGATTCCAAT
22488218 GTAGTACTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (23 bp):
ATAGTGATTCCAATACAATTACC
Found at i:22488273 original size:42 final size:42
Alignment explanation
Indices: 22488226--22488332 Score: 205
Period size: 42 Copynumber: 2.5 Consensus size: 42
22488216 ATGTAGTACT
22488226 ATTTTGCAAATGAATGATGATTCTAATTCAATACAAACAAAG
1 ATTTTGCAAATGAATGATGATTCTAATTCAATACAAACAAAG
22488268 ATTTTGCAAATGAATGATGATTCTAATTCAATACAAACAAAG
1 ATTTTGCAAATGAATGATGATTCTAATTCAATACAAACAAAG
*
22488310 ATTTTGCAAATGAATGGTGATTC
1 ATTTTGCAAATGAATGATGATTC
22488333 ATATATAGTG
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (42 bp):
ATTTTGCAAATGAATGATGATTCTAATTCAATACAAACAAAG
Found at i:22488487 original size:17 final size:17
Alignment explanation
Indices: 22488465--22488560 Score: 105
Period size: 17 Copynumber: 5.9 Consensus size: 17
22488455 AATACTTAGT
22488465 GTTATGACCATTTTGAG
1 GTTATGACCATTTTGAG
22488482 GTTATGACCATTTTGAG
1 GTTATGACCATTTTGAG
*
22488499 GTTATGACCTTTTTGA-
1 GTTATGACCATTTTGAG
* *
22488515 --AATGA-CA-CTT-AG
1 GTTATGACCATTTTGAG
22488527 TGTTATGACCATTTTGAG
1 -GTTATGACCATTTTGAG
*
22488545 GTTATGACCTTTTTGA
1 GTTATGACCATTTTGA
22488561 AATAACACTT
Statistics
Matches: 65, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
11 1 0.02
12 2 0.03
13 1 0.02
14 4 0.06
15 4 0.06
16 2 0.03
17 49 0.75
18 2 0.03
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.43
Consensus pattern (17 bp):
GTTATGACCATTTTGAG
Found at i:22488537 original size:46 final size:46
Alignment explanation
Indices: 22488482--22488616 Score: 227
Period size: 46 Copynumber: 2.9 Consensus size: 46
22488472 CCATTTTGAG
22488482 GTTATGACCATTTTGAGGTTATGACCTTTTTGAAATGACACTTAGT
1 GTTATGACCATTTTGAGGTTATGACCTTTTTGAAATGACACTTAGT
*
22488528 GTTATGACCATTTTGAGGTTATGACCTTTTTGAAATAACACTTAGT
1 GTTATGACCATTTTGAGGTTATGACCTTTTTGAAATGACACTTAGT
* *
22488574 GTTATGACCTTTTTGAGGTTATGA-CTTTTCTGAAAGGACACTT
1 GTTATGACCATTTTGAGGTTATGACCTTTT-TGAAATGACACTT
22488617 TATGATCATT
Statistics
Matches: 84, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
45 5 0.06
46 79 0.94
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.41
Consensus pattern (46 bp):
GTTATGACCATTTTGAGGTTATGACCTTTTTGAAATGACACTTAGT
Found at i:22492503 original size:25 final size:25
Alignment explanation
Indices: 22492469--22492520 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
22492459 TAAGTATTAG
22492469 TAAGTTAAAATAGAATATCTAAACT
1 TAAGTTAAAATAGAATATCTAAACT
22492494 TAAGTTAAAATAGAATATCTAAACT
1 TAAGTTAAAATAGAATATCTAAACT
22492519 TA
1 TA
22492521 CCTTAATCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.33
Consensus pattern (25 bp):
TAAGTTAAAATAGAATATCTAAACT
Found at i:22492526 original size:25 final size:25
Alignment explanation
Indices: 22492473--22492526 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
22492463 TATTAGTAAG
*
22492473 TTAAAATAGAATATCTAAACTTAAG
1 TTAAAATAGAATATCTAAACTTAAC
*
22492498 TTAAAATAGAATATCTAAACTTACC
1 TTAAAATAGAATATCTAAACTTAAC
22492523 TTAA
1 TTAA
22492527 TCCATTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (25 bp):
TTAAAATAGAATATCTAAACTTAAC
Found at i:22495296 original size:41 final size:41
Alignment explanation
Indices: 22495226--22495319 Score: 125
Period size: 41 Copynumber: 2.3 Consensus size: 41
22495216 ACCAGAGTGT
* * *
22495226 AAACGGGGGCACGTATATGCTATTCAGGGGTACTGAAGTAC
1 AAACAGGGGCACGTATATGCAATTCAGGGGTACTAAAGTAC
* * *
22495267 AAACAGGGGCATGTATGTGCAATTTAGGGGTACTAAAGTAC
1 AAACAGGGGCACGTATATGCAATTCAGGGGTACTAAAGTAC
*
22495308 AAACAAGGGCAC
1 AAACAGGGGCAC
22495320 ACATGTTCAA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.34, C:0.16, G:0.30, T:0.20
Consensus pattern (41 bp):
AAACAGGGGCACGTATATGCAATTCAGGGGTACTAAAGTAC
Found at i:22495331 original size:41 final size:41
Alignment explanation
Indices: 22495247--22495336 Score: 117
Period size: 41 Copynumber: 2.2 Consensus size: 41
22495237 CGTATATGCT
* * ***
22495247 ATTCAGGGGTACTGAAGTACAAACAGGGGCATGTATGTGCA
1 ATTCAGGGGTACTAAAGTACAAACAAGGGCACACATGTGCA
* *
22495288 ATTTAGGGGTACTAAAGTACAAACAAGGGCACACATGTTCA
1 ATTCAGGGGTACTAAAGTACAAACAAGGGCACACATGTGCA
22495329 ATTCAGGG
1 ATTCAGGG
22495337 TATAATTAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (41 bp):
ATTCAGGGGTACTAAAGTACAAACAAGGGCACACATGTGCA
Found at i:22497326 original size:77 final size:77
Alignment explanation
Indices: 22497199--22497352 Score: 290
Period size: 77 Copynumber: 2.0 Consensus size: 77
22497189 CTCAAATACA
22497199 GAAAAACCACAAGACATAAAGAAACTCAATAAAACTTCGAAAGAAATTAAAAGGAGATCTTCAAT
1 GAAAAACCACAAGACATAAAGAAACTCAATAAAACTTCGAAAGAAATTAAAAGGAGATCTTCAAT
22497264 CTTGATGGAGAT
66 CTTGATGGAGAT
* *
22497276 GAAAAACCACATGACATAAAGAAACTTAATAAAACTTCGAAAGAAATTAAAAGGAGATCTTCAAT
1 GAAAAACCACAAGACATAAAGAAACTCAATAAAACTTCGAAAGAAATTAAAAGGAGATCTTCAAT
22497341 CTTGATGGAGAT
66 CTTGATGGAGAT
22497353 CCACTTCCGA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.21
Consensus pattern (77 bp):
GAAAAACCACAAGACATAAAGAAACTCAATAAAACTTCGAAAGAAATTAAAAGGAGATCTTCAAT
CTTGATGGAGAT
Found at i:22497614 original size:30 final size:30
Alignment explanation
Indices: 22497545--22497614 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
22497535 TGTGTGTCCG
*
22497545 GCCCATATGGCTCACATGGACGTGCGCCCA
1 GCCCATGTGGCTCACATGGACGTGCGCCCA
*
22497575 GCCCATGTGGCTCACATGGACGTGTGCCCA
1 GCCCATGTGGCTCACATGGACGTGCGCCCA
*
22497605 GCCCGTGTGG
1 GCCCATGTGG
22497615 AAATGCCCAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.16, C:0.34, G:0.31, T:0.19
Consensus pattern (30 bp):
GCCCATGTGGCTCACATGGACGTGCGCCCA
Found at i:22509350 original size:52 final size:52
Alignment explanation
Indices: 22509294--22509459 Score: 183
Period size: 52 Copynumber: 3.2 Consensus size: 52
22509284 GCCAACGTTT
* ** *
22509294 ATTTAGTAGGCCTTGATTCGGTCATTATTTAGTAGGCCTTACA-CCGGTGTTC
1 ATTTAGCAGGCCTTGAGCCGGTCATTATTTAGCAGGCCTTA-AGCCGGTGTTC
* * *
22509346 ATTTAGCAGGCCTTGAGCCGGTGATTATTTAGCAGGCCTTAAGCTGGTGTTT
1 ATTTAGCAGGCCTTGAGCCGGTCATTATTTAGCAGGCCTTAAGCCGGTGTTC
** * ** *
22509398 ATTTAGCAGGCCTTGAGCCGGTGGTTATTTAGCAGGTCTTGGGCCAGTGTAT-
1 ATTTAGCAGGCCTTGAGCCGGTCATTATTTAGCAGGCCTTAAGCCGGTGT-TC
22509450 ATTTAGCAGG
1 ATTTAGCAGG
22509460 TACTATGTAG
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
51 1 0.01
52 97 0.98
53 1 0.01
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.35
Consensus pattern (52 bp):
ATTTAGCAGGCCTTGAGCCGGTCATTATTTAGCAGGCCTTAAGCCGGTGTTC
Found at i:22509460 original size:26 final size:26
Alignment explanation
Indices: 22509293--22509459 Score: 146
Period size: 26 Copynumber: 6.4 Consensus size: 26
22509283 AGCCAACGTT
* ** *
22509293 TATTTAGTAGGCCTTGATTCGGT-CA
1 TATTTAGCAGGCCTTGAGCCGGTGTA
* *
22509318 TTATTTAGTAGGCCTT-ACACCGGTGT-
1 -TATTTAGCAGGCCTTGA-GCCGGTGTA
22509344 TCATTTAGCAGGCCTTGAGCCGGTG-A
1 T-ATTTAGCAGGCCTTGAGCCGGTGTA
* * *
22509370 TTATTTAGCAGGCCTTAAGCTGGTGTT
1 -TATTTAGCAGGCCTTGAGCCGGTGTA
22509397 TATTTAGCAGGCCTTGAGCCGGTGGT-
1 TATTTAGCAGGCCTTGAGCCGGT-GTA
* * *
22509423 TATTTAGCAGGTCTTGGGCCAGTGTA
1 TATTTAGCAGGCCTTGAGCCGGTGTA
22509449 TATTTAGCAGG
1 TATTTAGCAGG
22509460 TACTATGTAG
Statistics
Matches: 119, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
25 4 0.03
26 111 0.93
27 4 0.03
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.35
Consensus pattern (26 bp):
TATTTAGCAGGCCTTGAGCCGGTGTA
Found at i:22513098 original size:32 final size:32
Alignment explanation
Indices: 22513057--22513121 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
22513047 TAATTACAAG
22513057 AACTAATTGACATAGGTTTTATTCGACCGAGT
1 AACTAATTGACATAGGTTTTATTCGACCGAGT
22513089 AACTAATTGACATAGGTTTTATTCGACCGAGT
1 AACTAATTGACATAGGTTTTATTCGACCGAGT
22513121 A
1 A
22513122 CATCACTGTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.34
Consensus pattern (32 bp):
AACTAATTGACATAGGTTTTATTCGACCGAGT
Found at i:22517202 original size:52 final size:52
Alignment explanation
Indices: 22517143--22517257 Score: 167
Period size: 52 Copynumber: 2.2 Consensus size: 52
22517133 CTTGAGTCGA
22517143 TGGTTATTTAGCAGGACTTGAGTTGGTGTTGATTTAGCAGGCCATAAGCCAG
1 TGGTTATTTAGCAGGACTTGAGTTGGTGTTGATTTAGCAGGCCATAAGCCAG
* * * * * * *
22517195 TGTTTATTTAGCAGGCCTTGAGTTGGTGTTTATTTAGTAGGCCTTGAGCCAT
1 TGGTTATTTAGCAGGACTTGAGTTGGTGTTGATTTAGCAGGCCATAAGCCAG
22517247 TGGTTATTTAG
1 TGGTTATTTAG
22517258 TAAGCTTTGA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 55 1.00
ACGTcount: A:0.20, C:0.12, G:0.29, T:0.39
Consensus pattern (52 bp):
TGGTTATTTAGCAGGACTTGAGTTGGTGTTGATTTAGCAGGCCATAAGCCAG
Found at i:22517258 original size:26 final size:26
Alignment explanation
Indices: 22517126--22517275 Score: 122
Period size: 26 Copynumber: 5.8 Consensus size: 26
22517116 ATACCAGAAA
* *
22517126 AGCAGGCCTTGAGTC-GATGGTTATTT
1 AGCAGGCCTTGAGCCAG-TGTTTATTT
* *** *
22517152 AGCAGGACTTGAGTTGGTGTTGATTT
1 AGCAGGCCTTGAGCCAGTGTTTATTT
* *
22517178 AGCAGGCCATAAGCCAGTGTTTATTT
1 AGCAGGCCTTGAGCCAGTGTTTATTT
***
22517204 AGCAGGCCTTGAGTTGGTGTTTATTT
1 AGCAGGCCTTGAGCCAGTGTTTATTT
* * *
22517230 AGTAGGCCTTGAGCCATTGGTTATTT
1 AGCAGGCCTTGAGCCAGTGTTTATTT
* * *
22517256 AGTAAGCTTTGAGCCAGTGT
1 AGCAGGCCTTGAGCCAGTGT
22517276 ATGTTTAATA
Statistics
Matches: 97, Mismatches: 26, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
26 96 0.99
27 1 0.01
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (26 bp):
AGCAGGCCTTGAGCCAGTGTTTATTT
Found at i:22517268 original size:52 final size:50
Alignment explanation
Indices: 22517126--22517257 Score: 165
Period size: 52 Copynumber: 2.5 Consensus size: 50
22517116 ATACCAGAAA
*
22517126 AGCAGGCCTTGAGTCGATGGTTATTTAGCAGGACTTGAGTTGGTGTTGATTT
1 AGCAGGCCTTGAG-CCATGGTTATTTAGCAGG-CTTGAGTTGGTGTTGATTT
* * * *
22517178 AGCAGGCCATAAGCCAGTGTTTATTTAGCAGGCCTTGAGTTGGTGTTTATTT
1 AGCAGGCCTTGAGCCA-TGGTTATTTAGCAGG-CTTGAGTTGGTGTTGATTT
*
22517230 AGTAGGCCTTGAGCCATTGGTTATTTAG
1 AGCAGGCCTTGAGCCA-TGGTTATTTAG
22517258 TAAGCTTTGA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
51 2 0.03
52 66 0.97
ACGTcount: A:0.20, C:0.14, G:0.30, T:0.36
Consensus pattern (50 bp):
AGCAGGCCTTGAGCCATGGTTATTTAGCAGGCTTGAGTTGGTGTTGATTT
Found at i:22526507 original size:40 final size:40
Alignment explanation
Indices: 22526462--22526730 Score: 326
Period size: 40 Copynumber: 6.8 Consensus size: 40
22526452 GATTATTGTT
* * *
22526462 TGATTGCACATACGTGCCCCTATTTATACTTCAGTACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCAATACCCC
* *
22526502 TGATTGCACACACGTGCCTCTGTTTGTACTTCAATACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCAATACCCC
* * *
22526542 TGATTGAACACACATGCCCCTGTTTGTACTTCAATACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCAATACCCC
* **
22526582 TGATTGCACATACGTGTCCCAT-TTTGTACTTCGGTACCCC
1 TGATTGCACATACGTG-CCCCTGTTTGTACTTCAATACCCC
* * * * *
22526622 TGATTGCACATACATGCTCCTGTTTATACTTCGATACCCT
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCAATACCCC
*
22526662 TGATTGCACATACGTGTCCCTGTTTGTACTTCAATACCCC
1 TGATTGCACATACGTGCCCCTGTTTGTACTTCAATACCCC
* * * *
22526702 -GAATGCACATTCGTGCCCTTGTTTATACT
1 TGATTGCACATACGTGCCCCTGTTTGTACT
22526731 CTGGTAAGTC
Statistics
Matches: 196, Mismatches: 31, Indels: 5
0.84 0.13 0.02
Matches are distributed among these distances:
39 27 0.14
40 165 0.84
41 4 0.02
ACGTcount: A:0.21, C:0.30, G:0.14, T:0.34
Consensus pattern (40 bp):
TGATTGCACATACGTGCCCCTGTTTGTACTTCAATACCCC
Found at i:22526563 original size:20 final size:20
Alignment explanation
Indices: 22526498--22526563 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
22526488 TACTTCAGTA
* *
22526498 CCCCTGATTGCACACACGTG
1 CCCCTGATTGAACACACATG
* * * * *
22526518 CCTCTGTTTGTACTTCA-ATA
1 CCCCTGATTGAAC-ACACATG
22526538 CCCCTGATTGAACACACATG
1 CCCCTGATTGAACACACATG
22526558 CCCCTG
1 CCCCTG
22526564 TTTGTACTTC
Statistics
Matches: 33, Mismatches: 11, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.21, C:0.36, G:0.15, T:0.27
Consensus pattern (20 bp):
CCCCTGATTGAACACACATG
Found at i:22526581 original size:20 final size:20
Alignment explanation
Indices: 22526521--22526583 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
22526511 ACACGTGCCT
22526521 CTGTTTGTACTTCAATACCC
1 CTGTTTGTACTTCAATACCC
* * * *
22526541 CTGATTGAAC-ACACATGCCC
1 CTGTTTGTACTTCA-ATACCC
22526561 CTGTTTGTACTTCAATACCC
1 CTGTTTGTACTTCAATACCC
22526581 CTG
1 CTG
22526584 ATTGCACATA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.22, C:0.32, G:0.13, T:0.33
Consensus pattern (20 bp):
CTGTTTGTACTTCAATACCC
Found at i:22531334 original size:31 final size:33
Alignment explanation
Indices: 22531296--22531378 Score: 109
Period size: 31 Copynumber: 2.6 Consensus size: 33
22531286 TTACTCACTA
*
22531296 TTTAAAACTTTTTAAATTTTT-TTAT-ACATTT
1 TTTAAAACTTTTTAAATTTTTATTATGAAATTT
*
22531327 TTTAAAACTTTTTAAATTTTTATTTTGAAATTT
1 TTTAAAACTTTTTAAATTTTTATTATGAAATTT
*
22531360 TTT-AAACTATTTTATATTT
1 TTTAAAACT-TTTTAAATTT
22531379 AACGCTAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
31 21 0.46
32 8 0.17
33 17 0.37
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (33 bp):
TTTAAAACTTTTTAAATTTTTATTATGAAATTT
Found at i:22534117 original size:5 final size:5
Alignment explanation
Indices: 22534107--22534137 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
22534097 TGAGCATTCG
22534107 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
22534138 AATTTTCGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:22534652 original size:19 final size:19
Alignment explanation
Indices: 22534619--22534666 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
22534609 TAAACAATTC
22534619 AATAATATAAA--TAATAT
1 AATAATATAAATTTAATAT
*
22534636 AA-AATATGAAATTTAATTT
1 AATAATAT-AAATTTAATAT
22534655 AATAATATAAAT
1 AATAATATAAAT
22534667 AGTAGATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
19 11 0.42
20 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATATAAATTTAATAT
Found at i:22535178 original size:9 final size:9
Alignment explanation
Indices: 22535164--22535200 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
22535154 TATAGTTTGA
22535164 TATTCGAAT
1 TATTCGAAT
22535173 TATTCGAAT
1 TATTCGAAT
*
22535182 TATTTGAAT
1 TATTCGAAT
22535191 TATTCGAAT
1 TATTCGAAT
22535200 T
1 T
22535201 CGAAAACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:22535270 original size:9 final size:9
Alignment explanation
Indices: 22535253--22535283 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
22535243 TCGAGTTGAT
22535253 TCGAATAAC
1 TCGAATAAC
*
22535262 TCGATTAAC
1 TCGAATAAC
22535271 TCGAATAAC
1 TCGAATAAC
22535280 TCGA
1 TCGA
22535284 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:22539708 original size:10 final size:10
Alignment explanation
Indices: 22539676--22539709 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
22539666 GATTTGAAAC
22539676 TAATTAATAA
1 TAATTAATAA
*
22539686 TATATTAAAAA
1 TA-ATTAATAA
22539697 TAATTAATAA
1 TAATTAATAA
22539707 TAA
1 TAA
22539710 CATATGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TAATTAATAA
Found at i:22540530 original size:3 final size:3
Alignment explanation
Indices: 22540522--22540547 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
22540512 TAATTAAAAT
22540522 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
22540548 TTTAAACCGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:22544146 original size:20 final size:20
Alignment explanation
Indices: 22544123--22544163 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
22544113 TTAAATTCAT
*
22544123 TTGATTAAAATCAAATCAAA
1 TTGATTAAAATCAAATAAAA
**
22544143 TTGATTGGAATCAAATAAAA
1 TTGATTAAAATCAAATAAAA
22544163 T
1 T
22544164 CAGGATATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.07, G:0.10, T:0.32
Consensus pattern (20 bp):
TTGATTAAAATCAAATAAAA
Found at i:22549635 original size:5 final size:5
Alignment explanation
Indices: 22549625--22549657 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
22549615 TCATCTGTAT
22549625 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTT
22549658 ATTATGTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:22551091 original size:6 final size:6
Alignment explanation
Indices: 22551080--22551108 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
22551070 TTTATGCACT
22551080 TTATTG TTATTG TTATTG TTATTG TTATT
1 TTATTG TTATTG TTATTG TTATTG TTATT
22551109 TCAATTGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (6 bp):
TTATTG
Found at i:22551115 original size:18 final size:18
Alignment explanation
Indices: 22551080--22551117 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
22551070 TTTATGCACT
*
22551080 TTATTGTTATTGTTATTG
1 TTATTGTTATTGTAATTG
22551098 TTATTGTTATT-TCAATTG
1 TTATTGTTATTGT-AATTG
22551116 TT
1 TT
22551118 TTTCTGTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.18, C:0.03, G:0.13, T:0.66
Consensus pattern (18 bp):
TTATTGTTATTGTAATTG
Found at i:22558540 original size:5 final size:5
Alignment explanation
Indices: 22558530--22558561 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
22558520 GAGTTGAGCT
22558530 GACCA GACCA GACCA GACCA GACCA GACCA GA
1 GACCA GACCA GACCA GACCA GACCA GACCA GA
22558562 GCGGGGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.38, G:0.22, T:0.00
Consensus pattern (5 bp):
GACCA
Found at i:22563206 original size:26 final size:26
Alignment explanation
Indices: 22563172--22563223 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
22563162 ATATAGTGCC
22563172 ATTCAACTCAATTCAATTTCATTTAA
1 ATTCAACTCAATTCAATTTCATTTAA
22563198 ATTCAACTCAATTCAATTTCATTTAA
1 ATTCAACTCAATTCAATTTCATTTAA
22563224 TCATTTAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.19, G:0.00, T:0.42
Consensus pattern (26 bp):
ATTCAACTCAATTCAATTTCATTTAA
Found at i:22564700 original size:67 final size:67
Alignment explanation
Indices: 22564592--22564721 Score: 251
Period size: 67 Copynumber: 1.9 Consensus size: 67
22564582 AAATATGAAG
*
22564592 AAGATGACCACTTTGGTCATGTTTTAATATTTAGTAATTTAATTGAAATTTTAACATATAATTAA
1 AAGATGACCACTTTGGTCATGTTTTAATATTTAGTAATTTAATTAAAATTTTAACATATAATTAA
22564657 TT
66 TT
22564659 AAGATGACCACTTTGGTCATGTTTTAATATTTAGTAATTTAATTAAAATTTTAACATATAATT
1 AAGATGACCACTTTGGTCATGTTTTAATATTTAGTAATTTAATTAAAATTTTAACATATAATT
22564722 TCACCTTAAC
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.45
Consensus pattern (67 bp):
AAGATGACCACTTTGGTCATGTTTTAATATTTAGTAATTTAATTAAAATTTTAACATATAATTAA
TT
Found at i:22583521 original size:21 final size:20
Alignment explanation
Indices: 22583487--22583528 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
22583477 TGTCAGTAAC
22583487 CAAAAGTTCAGACAAACAGA
1 CAAAAGTTCAGACAAACAGA
* *
22583507 CAAAATGTTCTGACAAATAGA
1 CAAAA-GTTCAGACAAACAGA
22583528 C
1 C
22583529 GTATATGTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.50, C:0.19, G:0.14, T:0.17
Consensus pattern (20 bp):
CAAAAGTTCAGACAAACAGA
Found at i:22585802 original size:36 final size:36
Alignment explanation
Indices: 22585746--22585827 Score: 92
Period size: 36 Copynumber: 2.3 Consensus size: 36
22585736 CACACAATGG
* * * *
22585746 AAAATTAATACAGTTGGCCATATTAATACAAATCAC
1 AAAATTAACACAATTCGCCATAATAATACAAATCAC
* *
22585782 AAAATTAACACAATTCGCCATAATAATAGAATTCAC
1 AAAATTAACACAATTCGCCATAATAATACAAATCAC
* *
22585818 CAAGTTAACA
1 AAAATTAACA
22585828 TGGTTCACAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.49, C:0.18, G:0.07, T:0.26
Consensus pattern (36 bp):
AAAATTAACACAATTCGCCATAATAATACAAATCAC
Found at i:22592477 original size:16 final size:18
Alignment explanation
Indices: 22592449--22592482 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
22592439 TTAGAATTGC
22592449 ATTGAGAAAATT-ATTTA
1 ATTGAGAAAATTAATTTA
22592466 ATTGAG-AAATTAATTTA
1 ATTGAGAAAATTAATTTA
22592483 TTTAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
ATTGAGAAAATTAATTTA
Found at i:22598594 original size:21 final size:21
Alignment explanation
Indices: 22598570--22598634 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
22598560 AGCAAATAAA
**
22598570 AGGGAAAGAAAGGAAAGAAAG
1 AGGGAAAGAAAAAAAAGAAAG
* *
22598591 AGGGCAAGAAAAAAAAGAAAA
1 AGGGAAAGAAAAAAAAGAAAG
*
22598612 AGGAAAAACAGAAAAAAAAGAAA
1 AGG--GAA-AGAAAAAAAAGAAA
22598635 AGAAAATCTC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
21 20 0.57
23 1 0.03
24 14 0.40
ACGTcount: A:0.71, C:0.03, G:0.26, T:0.00
Consensus pattern (21 bp):
AGGGAAAGAAAAAAAAGAAAG
Found at i:22599588 original size:153 final size:153
Alignment explanation
Indices: 22599412--22599721 Score: 548
Period size: 153 Copynumber: 2.0 Consensus size: 153
22599402 GGGTTCCATA
* **
22599412 TTTTCTTCTATTGACATAATTTATCAAGATCTTTTTATTTTCACTATCTCCATATTCCGTTTCAA
1 TTTTCTCCTATTGACATAATTTATCAAGATCTTTTTATTTTCACTATCTCCATATTCAATTTCAA
*
22599477 GTACTTGAATCTCTTTTGGAGTTTTAATAATTAGTTATGTCTTGGGTCTCTTTTGAAGCACTCGC
66 GTACTTGAATCTCTTTTGGAGTTTTAATAATTAGTCATGTCTTGGGTCTCTTTTGAAGCACTCGC
22599542 CTCCACAATATGACCATCTATAT
131 CTCCACAATATGACCATCTATAT
* *
22599565 TTTTCTCCTATTGACGTAATTTATCAAGATCTTTTTATTTTCACTATCTCCATCTTCAATTTCAA
1 TTTTCTCCTATTGACATAATTTATCAAGATCTTTTTATTTTCACTATCTCCATATTCAATTTCAA
22599630 GTACTTGAATCTCTTTTGGAGTTTTAATAATTAGTCATGTCTTGGGTCTCTTTTGAAGCACTCGC
66 GTACTTGAATCTCTTTTGGAGTTTTAATAATTAGTCATGTCTTGGGTCTCTTTTGAAGCACTCGC
* *
22599695 CTCCACTATATGACCATCTCTAT
131 CTCCACAATATGACCATCTATAT
22599718 TTTT
1 TTTT
22599722 ATTTTCTTTT
Statistics
Matches: 149, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
153 149 1.00
ACGTcount: A:0.23, C:0.20, G:0.11, T:0.45
Consensus pattern (153 bp):
TTTTCTCCTATTGACATAATTTATCAAGATCTTTTTATTTTCACTATCTCCATATTCAATTTCAA
GTACTTGAATCTCTTTTGGAGTTTTAATAATTAGTCATGTCTTGGGTCTCTTTTGAAGCACTCGC
CTCCACAATATGACCATCTATAT
Found at i:22606345 original size:18 final size:17
Alignment explanation
Indices: 22606322--22606356 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
22606312 AATGGACCGA
22606322 AATGGGCCGAGTGGGCCC
1 AATGGGCC-AGTGGGCCC
*
22606340 AATGGGCCCGTGGGCCC
1 AATGGGCCAGTGGGCCC
22606357 TATGTGAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.14, C:0.31, G:0.43, T:0.11
Consensus pattern (17 bp):
AATGGGCCAGTGGGCCC
Found at i:22610618 original size:25 final size:25
Alignment explanation
Indices: 22610590--22610637 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
22610580 TGATGAGTTT
22610590 CAAGCAATCTTTAACAAGGGTGTTC
1 CAAGCAATCTTTAACAAGGGTGTTC
22610615 CAAGCAATCTTTAACAAGGGTGT
1 CAAGCAATCTTTAACAAGGGTGT
22610638 AAAAAGGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (25 bp):
CAAGCAATCTTTAACAAGGGTGTTC
Found at i:22614208 original size:15 final size:15
Alignment explanation
Indices: 22614188--22614222 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
22614178 CAACCCAACC
*
22614188 AGAACAGAACATAAT
1 AGAACAGAACAGAAT
*
22614203 AGAACAGAGCAGAAT
1 AGAACAGAACAGAAT
22614218 AGAAC
1 AGAAC
22614223 TACGCTGAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.57, C:0.14, G:0.20, T:0.09
Consensus pattern (15 bp):
AGAACAGAACAGAAT
Found at i:22620982 original size:31 final size:31
Alignment explanation
Indices: 22620947--22621016 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
22620937 CAGTAACTTC
* * * *
22620947 AATAAAAACTTTTGAATAGTTTAGTGATTTA
1 AATAAAAACTTTTAAATAGTTTAATGACTAA
22620978 AATAAAAACTTTTAAATAGTTTAATGACTAA
1 AATAAAAACTTTTAAATAGTTTAATGACTAA
22621009 AATAAAAA
1 AATAAAAA
22621017 TCTACTCATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.51, C:0.04, G:0.09, T:0.36
Consensus pattern (31 bp):
AATAAAAACTTTTAAATAGTTTAATGACTAA
Found at i:22623479 original size:31 final size:30
Alignment explanation
Indices: 22623426--22623483 Score: 80
Period size: 31 Copynumber: 1.9 Consensus size: 30
22623416 ATTGAAATAC
* *
22623426 TTTTAGAAAAGTTTAGCTCTTATTTGAGCG
1 TTTTAGAAAAGTCTAGCCCTTATTTGAGCG
*
22623456 TTTTTGAAAAGGTCTAGCCCTTATTTGA
1 TTTTAGAAAA-GTCTAGCCCTTATTTGA
22623484 TCATTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 9 0.38
31 15 0.62
ACGTcount: A:0.26, C:0.12, G:0.19, T:0.43
Consensus pattern (30 bp):
TTTTAGAAAAGTCTAGCCCTTATTTGAGCG
Found at i:22626760 original size:22 final size:22
Alignment explanation
Indices: 22626732--22626774 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
22626722 TTTATTGTTC
22626732 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTG
22626754 AAACATGAGAGCTTAGTACGT
1 AAACATGAGAGCTTAGTACGT
22626775 TAGGAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTG
Found at i:22634059 original size:17 final size:16
Alignment explanation
Indices: 22634016--22634062 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
22634006 TACTTAACAA
22634016 AAGAGTTCGCCAAACC
1 AAGAGTTCGCCAAACC
*
22634032 ACAGA-TCTCGCCAAAGCT
1 A-AGAGT-TCGCCAAA-CC
22634050 AAGAGTTCGCCAA
1 AAGAGTTCGCCAA
22634063 TTGGCGTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
16 2 0.08
17 21 0.81
18 3 0.12
ACGTcount: A:0.36, C:0.30, G:0.19, T:0.15
Consensus pattern (16 bp):
AAGAGTTCGCCAAACC
Found at i:22636557 original size:17 final size:17
Alignment explanation
Indices: 22636535--22636568 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
22636525 ATGAACATTT
22636535 AAAACCATTAAGAAACA
1 AAAACCATTAAGAAACA
22636552 AAAACCATTAAGAAACA
1 AAAACCATTAAGAAACA
22636569 GACATTCTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.18, G:0.06, T:0.12
Consensus pattern (17 bp):
AAAACCATTAAGAAACA
Found at i:22655023 original size:44 final size:42
Alignment explanation
Indices: 22654974--22655689 Score: 319
Period size: 44 Copynumber: 16.6 Consensus size: 42
22654964 CCAATAATCC
* *
22654974 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTTGGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-T-AGTCT
* * ***
22655018 TATCTCTCT-ATAGTTGCAG-AGAGCAGA-TCGTATCTAGTCT
1 TATCTCCCTGA-AGTTGCAGTGGAGCAGATTAAAATCTAGTCT
* * * *
22655058 TATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCTAGTCT
* * * * **
22655102 TATC-CTCCTAAAGTTGCAGTGGGGCAGACTAAAGATGGCAAACCT
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGATTAAA-AT--CTAGTCT
* ** * *
22655147 TATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCGATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC--TAGTCT
* * * *
22655191 TATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAATCTTGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-TAG-TCT
* * ***
22655235 TATCTCTCTGAAGTTGCTG-GGAGCAGA-TCGCATCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTAGTCT
* * *
22655275 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCTAGTCT
* * * * **
22655319 TATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCT
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGA-TTAAAAT--CTAGTCT
* * *
22655364 CATATCCCTGAAGTTGCAGTGGAGCAGATT-AAATCCTTGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAAT-C-TAG-TCT
* * * *** *
22655408 TATCTCTCTGAAGTTGTAG-AGAGCAAGA-TCGCACCTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGC-AGATTAAAATCTAGTCT
* * * * *
22655449 TATCTCCCTGAAATTGTAGTAGAGCAGACTAAGTAAGC-AGGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAA--AATCTA-GTCT
* * * * * *
22655493 TATC-CTCTTGAAGTTGCAGTGGGGCAGACTGAAGATGGCGAATCT
1 TATCTC-CCTGAAGTTGCAGTGGAGCAGA-TTAAAAT--CTAGTCT
** ** * *
22655538 TATCTCCCTGAAGTTGCAGTGGAATAGATTAAAGCCAATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC--TAGTCT
* * *
22655582 TATCTCCCTGAAGTTGCAGTGTAGCGGATTAAAATCACAGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATC-TAG-TCT
* * *** *
22655626 TATCTCTCTGAAGTTGCAG-AGAGCAGA-TCGCATTTAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTAGTCT
*
22655666 TATCTCTCTGACA-TTGCAGTGGAG
1 TATCTCCCTGA-AGTTGCAGTGGAG
22655690 TAGACTGCAG
Statistics
Matches: 504, Mismatches: 125, Indels: 89
0.70 0.17 0.12
Matches are distributed among these distances:
40 61 0.12
41 48 0.10
42 25 0.05
43 38 0.08
44 238 0.47
45 90 0.18
46 4 0.01
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (42 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAATCTAGTCT
Found at i:22655384 original size:89 final size:89
Alignment explanation
Indices: 22655272--22655560 Score: 301
Period size: 89 Copynumber: 3.3 Consensus size: 89
22655262 TCGCATCTAG
*
22655272 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCTCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAGGTCTTATCCTCCTGAAGTTGCA
22655337 GTGGGGCAGACTGAAGATGGCAAA
66 GTGGGGCAGACTGAAGATGGCAAA
* * * * ** *
22655361 CCTCATATCCCTGAAGTTGCAGTGGAGCAGATTAA--ATCCTTGGATCTTAT-CTCTCTGAAGTT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC-AGG-TCTTATCCTC-CTGAAGTT
* * * *
22655423 ---GTAGAG-AG-C--AAGATCGCACCTAG
63 GCAGTGGGGCAGACTGAAGATGGCA---AA
* * * *
22655446 TCTTATCTCCCTGAAATTGTAGTAGAGCAGACTAAGTAAGCAGGTCTTATCCTCTTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAGGTCTTATCCTCCTGAAGTTGCA
*
22655511 GTGGGGCAGACTGAAGATGGCGAA
66 GTGGGGCAGACTGAAGATGGCAAA
22655535 TCTTATCTCCCTGAAGTTGCAGTGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGA
22655561 ATAGATTAAA
Statistics
Matches: 153, Mismatches: 31, Indels: 32
0.71 0.14 0.15
Matches are distributed among these distances:
82 8 0.05
84 1 0.01
85 44 0.29
86 9 0.06
87 4 0.03
88 8 0.05
89 71 0.46
90 1 0.01
92 7 0.05
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (89 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAGGTCTTATCCTCCTGAAGTTGCA
GTGGGGCAGACTGAAGATGGCAAA
Found at i:22655426 original size:217 final size:217
Alignment explanation
Indices: 22654967--22655396 Score: 736
Period size: 217 Copynumber: 2.0 Consensus size: 217
22654957 TTGGTGGCCA
* *
22654967 ATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCTTGGGTCTTATCTCTCTATAGT
1 ATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAATCTTGGATCTTATCTCTCTATAGT
* *
22655032 TGCAGAGAGCAGATCGTATCTAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
66 TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* *
22655097 AGTCTTATCCTCCTAAAGTTGCAGTGGGGCAGACTAAAGATGGCAAACCTTATCTCCCTGAAGTT
131 AGTCTTATCCTCCTAAAGTTGCAGTGGGGCAGACTAAAGATGGCAAACCTCATATCCCTGAAGTT
*
22655162 GCAGTGGAGCAGGTTAAAGCCG
196 GCAGTGGAGCAGATTAAAGCCG
*
22655184 ATAATCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAATCTTGGATCTTATCTCTCTGA-AG
1 ATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAATCTTGGATCTTATCTCTCT-ATAG
* *
22655248 TTGCTGGGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC
65 TTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC
* *
22655313 AAGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCTCATATCCCTGAAGT
130 AAGTCTTATCCTCCTAAAGTTGCAGTGGGGCAGACTAAAGATGGCAAACCTCATATCCCTGAAGT
22655378 TGCAGTGGAGCAGATTAAA
195 TGCAGTGGAGCAGATTAAA
22655397 TCCTTGGATC
Statistics
Matches: 200, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
217 199 1.00
218 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (217 bp):
ATAATCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTAAAATCTTGGATCTTATCTCTCTATAGT
TGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
AGTCTTATCCTCCTAAAGTTGCAGTGGGGCAGACTAAAGATGGCAAACCTCATATCCCTGAAGTT
GCAGTGGAGCAGATTAAAGCCG
Found at i:22655482 original size:174 final size:172
Alignment explanation
Indices: 22655195--22655570 Score: 565
Period size: 174 Copynumber: 2.2 Consensus size: 172
22655185 TAATCCTATC
* * * *
22655195 TCCCTAAAGTTGTAGTGGAGCGGATTAAAATCTTGGATCTTATCTCTCTGAAGTTGCTGGGAGCA
1 TCCCTGAAGTTGCAGTGGAGCAGATT-AAATCTTGGATCTTATCTCTCTGAAGTTGCTGAGAGCA
* * *
22655260 GATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCAAGTCTTATCCT
65 GATCGCACCTAGTCTTATCTCCCTGAAATTGCAGTAGAGCAGACTAAGTAAGCAAGTCTTATCCT
22655325 CCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCTCATA
130 CCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCTCATA
22655368 TCCCTGAAGTTGCAGTGGAGCAGATTAAATCCTTGGATCTTATCTCTCTGAAGTTG-TAGAGAGC
1 TCCCTGAAGTTGCAGTGGAGCAGATTAAAT-CTTGGATCTTATCTCTCTGAAGTTGCT-GAGAGC
* *
22655432 AAGATCGCACCTAGTCTTATCTCCCTGAAATTGTAGTAGAGCAGACTAAGTAAGCAGGTCTTATC
64 -AGATCGCACCTAGTCTTATCTCCCTGAAATTGCAGTAGAGCAGACTAAGTAAGCAAGTCTTATC
* * * * *
22655497 CTCTTGAAGTTGCAGTGGGGCAGACTGAAGATGGCGAATCTTATC
128 CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCTCATA
**
22655542 TCCCTGAAGTTGCAGTGGAATAGATTAAA
1 TCCCTGAAGTTGCAGTGGAGCAGATTAAA
22655571 GCCAATAATC
Statistics
Matches: 184, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
172 5 0.03
173 53 0.29
174 126 0.68
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (172 bp):
TCCCTGAAGTTGCAGTGGAGCAGATTAAATCTTGGATCTTATCTCTCTGAAGTTGCTGAGAGCAG
ATCGCACCTAGTCTTATCTCCCTGAAATTGCAGTAGAGCAGACTAAGTAAGCAAGTCTTATCCTC
CTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAACCTCATA
Found at i:22657503 original size:19 final size:20
Alignment explanation
Indices: 22657462--22657503 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
22657452 ATTTCTATGC
* *
22657462 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
22657482 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
22657501 CAT
1 CAT
22657504 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:22658756 original size:30 final size:30
Alignment explanation
Indices: 22658717--22658773 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
22658707 TTTTATAAAT
22658717 AATTAATATTT-AT-TGCTTAAAAATATTTAA
1 AATTAATATTTCATAT-CTT-AAAATATTTAA
*
22658747 AATTTATATTTCATATCTTAAAATATT
1 AATTAATATTTCATATCTTAAAATATT
22658774 AACAAGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 5 0.21
32 1 0.04
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATCTTAAAATATTTAA
Found at i:22662607 original size:43 final size:43
Alignment explanation
Indices: 22662560--22662718 Score: 300
Period size: 43 Copynumber: 3.7 Consensus size: 43
22662550 AGGTATATTA
22662560 AAATATAATTAAAATCATTTTGATTATATAATATTTTTAATTG
1 AAATATAATTAAAATCATTTTGATTATATAATATTTTTAATTG
22662603 AAATATAATTAAAATCATTTTGATTATATAATATTTTTAATTG
1 AAATATAATTAAAATCATTTTGATTATATAATATTTTTAATTG
22662646 AAATATAATTAAAATCATTTTGATTATATAATATTTTTAATTG
1 AAATATAATTAAAATCATTTTGATTATATAATATTTTTAATTG
*
22662689 AAATATAATTAAAATCATTTGGATATATAT
1 AAATATAATTAAAATCATTTTGAT-TATAT
22662719 CTTATATAAA
Statistics
Matches: 114, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
43 109 0.96
44 5 0.04
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (43 bp):
AAATATAATTAAAATCATTTTGATTATATAATATTTTTAATTG
Found at i:22665143 original size:16 final size:16
Alignment explanation
Indices: 22665076--22665144 Score: 65
Period size: 16 Copynumber: 4.4 Consensus size: 16
22665066 TAAGTTAATA
22665076 TAAGAATATTAATTAT
1 TAAGAATATTAATTAT
* *
22665092 TACGAATATT-ATGATT
1 TAAGAATATTAATTA-T
*
22665108 TGAGTAA-ATTAA-TA-
1 TAAG-AATATTAATTAT
22665122 TAAGAATATTAATTAT
1 TAAGAATATTAATTAT
22665138 TAAGAAT
1 TAAGAAT
22665145 TTTATTAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
13 2 0.05
14 8 0.20
15 5 0.12
16 23 0.56
17 3 0.07
ACGTcount: A:0.48, C:0.01, G:0.10, T:0.41
Consensus pattern (16 bp):
TAAGAATATTAATTAT
Found at i:22665483 original size:122 final size:121
Alignment explanation
Indices: 22665097--22665680 Score: 1026
Period size: 121 Copynumber: 4.8 Consensus size: 121
22665087 ATTATTACGA
* *
22665097 ATATTATGATTTGAGTAAATTAATAT-AAGAATATTAATTATTAAGAATTTTATTAAATTATATT
1 ATATTATGATTTGAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTTAAATTATATA
* * *
22665161 GTTCAATTAAAATATATTTAATCATATATTATGTTAATTTATATTTTACAGTATCAT
66 GTTTAATTAAAATTTATTTAATAATA-ATTATGTTAATTTATATTTTACAGTATCAT
* *
22665218 ATATTATGATTTCAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTAAAATTATATA
1 ATATTATGATTTGAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTTAAATTATATA
22665283 GTTTAATTAAAATTTATTTAATAATAATTATGTTAATTTATATTTTACAGTATCAT
66 GTTTAATTAAAATTTATTTAATAATAATTATGTTAATTTATATTTTACAGTATCAT
*
22665339 ATATTATGATGTGAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTTAAATTATATA
1 ATATTATGATTTGAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTTAAATTATATA
22665404 GTTTAATTAAAATTTATTTAATAATAAATTATGTTAATTTATATTTTACAGTATCAT
66 GTTTAATTAAAATTTATTTAATAAT-AATTATGTTAATTTATATTTTACAGTATCAT
*
22665461 ATATTATGATTTGAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTATTAAATTATATA
1 ATATTATGATTTGAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTTAAATTATATA
22665526 GTTTAATTAAAATTTATTTAATAATAATTATGTTAATTTATATTTTACAGTATCAT
66 GTTTAATTAAAATTTATTTAATAATAATTATGTTAATTTATATTTTACAGTATCAT
* *
22665582 ATATTATGATTTCAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTTTAATTATATA
1 ATATTATGATTTGAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTTAAATTATATA
* *
22665647 TTTTAATTAAAATATATTTAATAATAATTATGTT
66 GTTTAATTAAAATTTATTTAATAATAATTATGTT
22665681 TAAATATGAT
Statistics
Matches: 444, Mismatches: 17, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
121 267 0.60
122 177 0.40
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.48
Consensus pattern (121 bp):
ATATTATGATTTGAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTTAAATTATATA
GTTTAATTAAAATTTATTTAATAATAATTATGTTAATTTATATTTTACAGTATCAT
Found at i:22665524 original size:243 final size:243
Alignment explanation
Indices: 22665097--22665680 Score: 1039
Period size: 243 Copynumber: 2.4 Consensus size: 243
22665087 ATTATTACGA
* *
22665097 ATATTATGATTTGAGTAAATTAATAT-AAGAATATTAATTATTAAGAATTTTATTAAATTATATT
1 ATATTATGATTTGAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTTAAATTATATA
* * *
22665161 GTTCAATTAAAATATATTTAATCATATATTATGTTAATTTATATTTTACAGTATCATATATTATG
66 GTTTAATTAAAATATATTTAATAATAAATTATGTTAATTTATATTTTACAGTATCATATATTATG
22665226 ATTTCAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTAAAATTATATAGTTTAATT
131 ATTTCAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTAAAATTATATAGTTTAATT
22665291 AAAATTTATTTAATAATAATTATGTTAATTTATATTTTACAGTATCAT
196 AAAATTTATTTAATAATAATTATGTTAATTTATATTTTACAGTATCAT
*
22665339 ATATTATGATGTGAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTTAAATTATATA
1 ATATTATGATTTGAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTTAAATTATATA
*
22665404 GTTTAATTAAAATTTATTTAATAATAAATTATGTTAATTTATATTTTACAGTATCATATATTATG
66 GTTTAATTAAAATATATTTAATAATAAATTATGTTAATTTATATTTTACAGTATCATATATTATG
*
22665469 ATTTGAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTATT-AAATTATATAGTTTAAT
131 ATTTCAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTT-TTAAAATTATATAGTTTAAT
22665533 TAAAATTTATTTAATAATAATTATGTTAATTTATATTTTACAGTATCAT
195 TAAAATTTATTTAATAATAATTATGTTAATTTATATTTTACAGTATCAT
* *
22665582 ATATTATGATTTCAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTTTAATTATATA
1 ATATTATGATTTGAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTTAAATTATATA
*
22665647 TTTTAATTAAAATATATTTAATAAT-AATTATGTT
66 GTTTAATTAAAATATATTTAATAATAAATTATGTT
22665681 TAAATATGAT
Statistics
Matches: 327, Mismatches: 13, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
242 34 0.10
243 291 0.89
244 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.48
Consensus pattern (243 bp):
ATATTATGATTTGAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTTAAATTATATA
GTTTAATTAAAATATATTTAATAATAAATTATGTTAATTTATATTTTACAGTATCATATATTATG
ATTTCAGTAAATTAATATAAAGAATATTAATTATTAAGAATTTTTTAAAATTATATAGTTTAATT
AAAATTTATTTAATAATAATTATGTTAATTTATATTTTACAGTATCAT
Found at i:22665893 original size:44 final size:45
Alignment explanation
Indices: 22665828--22665918 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
22665818 ACCTCTATTC
* * *
22665828 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
22665872 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
22665917 CA
1 CA
22665919 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:22665920 original size:16 final size:16
Alignment explanation
Indices: 22665899--22665934 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
22665889 GATTAGCTAT
22665899 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
22665915 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
22665931 TACA
1 TACA
22665935 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:22669295 original size:29 final size:27
Alignment explanation
Indices: 22669230--22669296 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 27
22669220 TAATTAAGTT
*
22669230 TATTTAAAATAAAAATATTAAATTTAAA
1 TATTT-AAATAAAAAAATTAAATTTAAA
**
22669258 T-TAAAAAATAAAAAAATTATAATATTAAA
1 TAT-TTAAATAAAAAAATTA-AAT-TTAAA
22669287 TATTTAAATA
1 TATTTAAATA
22669297 TTAAAAATGT
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
27 14 0.47
28 4 0.13
29 11 0.37
30 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (27 bp):
TATTTAAATAAAAAAATTAAATTTAAA
Found at i:22669616 original size:15 final size:15
Alignment explanation
Indices: 22669596--22669626 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
22669586 TTTTTTTAGA
22669596 ATTTTAGAATTATAT
1 ATTTTAGAATTATAT
*
22669611 ATTTTAGAATTTTAT
1 ATTTTAGAATTATAT
22669626 A
1 A
22669627 AAAAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (15 bp):
ATTTTAGAATTATAT
Found at i:22669677 original size:10 final size:10
Alignment explanation
Indices: 22669662--22669699 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
22669652 AAAATATTAT
22669662 TTTTTTACAA
1 TTTTTTACAA
22669672 TTTTTTA-ATA
1 TTTTTTACA-A
*
22669682 ATTTTTACAA
1 TTTTTTACAA
22669692 TTTTTTAC
1 TTTTTTAC
22669700 TTTTTTAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 1 0.04
10 22 0.92
11 1 0.04
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTTTTACAA
Found at i:22669835 original size:27 final size:26
Alignment explanation
Indices: 22669762--22669840 Score: 70
Period size: 27 Copynumber: 2.9 Consensus size: 26
22669752 TTTGTGAATT
* *
22669762 TTTTTTATAATTTTTTAATAAATTATAAT
1 TTTTTTATAA-TTTTT-ATATATT-TAAA
* *
22669791 TTTTTTCTAGA-TTATATATATTTAAA
1 TTTTTTATA-ATTTTTATATATTTAAA
22669817 TTTTTTATACATTTTTATATATTT
1 TTTTTTATA-ATTTTTATATATTT
22669841 TTAATATGTA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 12 0.29
27 17 0.41
28 3 0.07
29 8 0.20
30 1 0.02
ACGTcount: A:0.33, C:0.03, G:0.01, T:0.63
Consensus pattern (26 bp):
TTTTTTATAATTTTTATATATTTAAA
Found at i:22675939 original size:59 final size:59
Alignment explanation
Indices: 22675843--22675960 Score: 200
Period size: 59 Copynumber: 2.0 Consensus size: 59
22675833 TGATAAAAGA
* *
22675843 ATGTCTCTCACAAGGTACGTCTTTACTATTGGTGGTTGGGCCAGAGTTGGAAAGTCGCT
1 ATGTCTCTCACAAGGTACGTCTTTACTACTGGGGGTTGGGCCAGAGTTGGAAAGTCGCT
* *
22675902 ATGTCTCTCACAGGGTACGTCTTTACTACTGGGGGTTGGGCCATAGTTGGAAAGTCGCT
1 ATGTCTCTCACAAGGTACGTCTTTACTACTGGGGGTTGGGCCAGAGTTGGAAAGTCGCT
22675961 TTGCAGACTG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.31
Consensus pattern (59 bp):
ATGTCTCTCACAAGGTACGTCTTTACTACTGGGGGTTGGGCCAGAGTTGGAAAGTCGCT
Found at i:22685647 original size:108 final size:108
Alignment explanation
Indices: 22685458--22685673 Score: 423
Period size: 108 Copynumber: 2.0 Consensus size: 108
22685448 AGAACAAAAT
22685458 TATCATTATCACCCTTCTAAAGAAAGAAATTCATGCTTTTAAAGTTAGTCAGCTTAACTAATAAA
1 TATCATTATCACCCTTCTAAAGAAAGAAATTCATGCTTTTAAAGTTAGTCAGCTTAACTAATAAA
*
22685523 TTGGCATTCAAATTGTTAGAGTTGTGTGATCCAAATTCTAAGA
66 TTGGCATTCAAATTGTTAGAGTTGTGTGACCCAAATTCTAAGA
22685566 TATCATTATCACCCTTCTAAAGAAAGAAATTCATGCTTTTAAAGTTAGTCAGCTTAACTAATAAA
1 TATCATTATCACCCTTCTAAAGAAAGAAATTCATGCTTTTAAAGTTAGTCAGCTTAACTAATAAA
22685631 TTGGCATTCAAATTGTTAGAGTTGTGTGACCCAAATTCTAAGA
66 TTGGCATTCAAATTGTTAGAGTTGTGTGACCCAAATTCTAAGA
22685674 GATTGCTTGC
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 107 1.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (108 bp):
TATCATTATCACCCTTCTAAAGAAAGAAATTCATGCTTTTAAAGTTAGTCAGCTTAACTAATAAA
TTGGCATTCAAATTGTTAGAGTTGTGTGACCCAAATTCTAAGA
Found at i:22693535 original size:22 final size:22
Alignment explanation
Indices: 22693505--22693547 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
22693495 ACACCAAAAC
*
22693505 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
22693527 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
22693548 AGCACCGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:22693785 original size:43 final size:43
Alignment explanation
Indices: 22693729--22694017 Score: 167
Period size: 43 Copynumber: 6.7 Consensus size: 43
22693719 TCCACTAAAG
* ****
22693729 CGCCGCTAA-AGACCCTGATCTTTAGCGGCGTTTTTTTTTCAAA
1 CGCCGC-AATAGACCCTGATCTATAGCGGCGTTTTCACCTCAAA
* * *
22693772 CGCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACCACAAA
1 CGCCGCAATAGACCCTGATCTATAGCGGCGTTTTCACCTCAAA
* * * * * * *
22693815 CGCCACAAAAGAACCTAATCTTTAGCAGCGTTTTCCCCTCAAA
1 CGCCGCAATAGACCCTGATCTATAGCGGCGTTTTCACCTCAAA
* *
22693858 CGCCGCAATAGACCCTGATCTATAGCGGCG-CTTCGACCACAAAA
1 CGCCGCAATAGACCCTGATCTATAGCGGCGTTTTC-ACCTC-AAA
* * * * * * * *
22693902 CACCACTAA-AGAACCTAATCTTTAGCGGCGCTTTCCCCACAAA
1 CGCCGC-AATAGACCCTGATCTATAGCGGCGTTTTCACCTCAAA
* * * * * * *
22693945 TGCCGCTAA-AGACCATGATCTTTAGTGGCACTTTT-TCCACAAA
1 CGCCGC-AATAGACCCTGATCTATAGCGGC-GTTTTCACCTCAAA
* *
22693988 CGCCGCTAA-AGACCCTTATCTTTAGCGGCG
1 CGCCGC-AATAGACCCTGATCTATAGCGGCG
22694018 CTTTGACAAA
Statistics
Matches: 192, Mismatches: 48, Indels: 13
0.76 0.19 0.05
Matches are distributed among these distances:
42 5 0.03
43 150 0.78
44 32 0.17
45 5 0.03
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (43 bp):
CGCCGCAATAGACCCTGATCTATAGCGGCGTTTTCACCTCAAA
Found at i:22693846 original size:86 final size:87
Alignment explanation
Indices: 22693767--22693965 Score: 303
Period size: 87 Copynumber: 2.3 Consensus size: 87
22693757 CGTTTTTTTT
* *
22693767 TCAAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTTGACCAC-AAACGCCACAAAAGAACCT
1 TCAAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTCGACCACAAAACACCACAAAAGAACCT
22693831 AATCTTTAGCAGCGTTTTCCCC
66 AATCTTTAGCAGCGTTTTCCCC
*
22693853 TCAAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTCGACCACAAAACACCACTAAAGAACCT
1 TCAAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTCGACCACAAAACACCACAAAAGAACCT
* *
22693918 AATCTTTAGCGGCGCTTTCCCC
66 AATCTTTAGCAGCGTTTTCCCC
* * *
22693940 ACAAATGCCGCTAA-AGACCATGATCT
1 TCAAACGCCGC-AATAGACCCTGATCT
22693966 TTAGTGGCAC
Statistics
Matches: 103, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
86 44 0.43
87 57 0.55
88 2 0.02
ACGTcount: A:0.31, C:0.33, G:0.16, T:0.20
Consensus pattern (87 bp):
TCAAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTCGACCACAAAACACCACAAAAGAACCT
AATCTTTAGCAGCGTTTTCCCC
Found at i:22693966 original size:130 final size:130
Alignment explanation
Indices: 22693789--22694041 Score: 296
Period size: 130 Copynumber: 1.9 Consensus size: 130
22693779 ATAGACCCTG
* *
22693789 ATCTATAGCGGCGCTTTGACCACAAACGCCACAAAAGAACCTAATCTTTAGCAGC-GTTTTCCCC
1 ATCTATAGCGGCGCTTTCACCACAAACGCCACAAAAGAACCTAATCTTTAGCAGCACTTTT-CCC
* * *
22693853 TCAAACGCCGC-AATAGACCCTGATCTATAGCGGCGCTTCGACCACAAAACACCACTAAAGAACC
65 ACAAACGCCGCTAA-AGACCCTGATCTATAGCGGCGCTTCGACAAAAAAACACCACTAAAGAACC
22693917 TA
129 TA
* * * * * * ** *
22693919 ATCTTTAGCGGCGCTTTCCCCACAAATGCCGCTAAAG-ACCATGATCTTTAGTGGCACTTTTTCC
1 ATCTATAGCGGCGCTTTCACCACAAACGCCACAAAAGAACC-TAATCTTTAGCAGCACTTTTCCC
* * * *
22693983 ACAAACGCCGCTAAAGACCCTTATCTTTAGCGGCGCTTTGACAAAAAAACGCCACTAAA
65 ACAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTCGACAAAAAAACACCACTAAA
22694042 TTTGGCAGAT
Statistics
Matches: 102, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
129 3 0.03
130 93 0.91
131 6 0.06
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (130 bp):
ATCTATAGCGGCGCTTTCACCACAAACGCCACAAAAGAACCTAATCTTTAGCAGCACTTTTCCCA
CAAACGCCGCTAAAGACCCTGATCTATAGCGGCGCTTCGACAAAAAAACACCACTAAAGAACCTA
Found at i:22694388 original size:21 final size:21
Alignment explanation
Indices: 22694352--22694428 Score: 75
Period size: 21 Copynumber: 3.7 Consensus size: 21
22694342 GACGCTGCTT
*
22694352 TGCTTCCCT-ACTGCAGCCTC
1 TGCTTCCCTCGCTGCAGCCTC
* *
22694372 TGCTTCCCTCGCTGCAGCTTG
1 TGCTTCCCTCGCTGCAGCCTC
* * *
22694393 TACTTCTCTCGCTGCCGCCTC
1 TGCTTCCCTCGCTGCAGCCTC
* *
22694414 TGCTTCTCTTGCTGC
1 TGCTTCCCTCGCTGC
22694429 CGCATCTACT
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
20 9 0.20
21 37 0.80
ACGTcount: A:0.05, C:0.42, G:0.18, T:0.35
Consensus pattern (21 bp):
TGCTTCCCTCGCTGCAGCCTC
Found at i:22694431 original size:21 final size:21
Alignment explanation
Indices: 22694362--22694428 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 21
22694352 TGCTTCCCTA
*
22694362 CTGCAGCCTCTGCTTCCCTCG
1 CTGCAGCCTCTGCTTCTCTCG
* * *
22694383 CTGCAGCTTGTACTTCTCTCG
1 CTGCAGCCTCTGCTTCTCTCG
* *
22694404 CTGCCGCCTCTGCTTCTCTTG
1 CTGCAGCCTCTGCTTCTCTCG
22694425 CTGC
1 CTGC
22694429 CGCATCTACT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.04, C:0.42, G:0.19, T:0.34
Consensus pattern (21 bp):
CTGCAGCCTCTGCTTCTCTCG
Found at i:22694521 original size:66 final size:66
Alignment explanation
Indices: 22694449--22694579 Score: 201
Period size: 66 Copynumber: 2.0 Consensus size: 66
22694439 TTAAGCTACT
* * *
22694449 GCTGGAGTTCTTCATA-CTTTTGTTGAACCTCAGCTTCTCTCGCCGTTGCATCTGCTTTCAGTTG
1 GCTGGAGTTCTTCATATCTTTT-TTGAACCTCAGCTTCTCTCGACGTTGCATCCGCTTTAAGTTG
22694513 TA
65 TA
* *
22694515 GCTGGAGTTTTTCATATCTTTTTTGAACCTCAGCTTCTCTCGATGTTGCATCCGCTTTAAGTTGT
1 GCTGGAGTTCTTCATATCTTTTTTGAACCTCAGCTTCTCTCGACGTTGCATCCGCTTTAAGTTGT
22694580 GTAATTTGCT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 54 0.92
67 5 0.08
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.43
Consensus pattern (66 bp):
GCTGGAGTTCTTCATATCTTTTTTGAACCTCAGCTTCTCTCGACGTTGCATCCGCTTTAAGTTGT
A
Found at i:22699968 original size:9 final size:9
Alignment explanation
Indices: 22699932--22700326 Score: 136
Period size: 9 Copynumber: 47.0 Consensus size: 9
22699922 AATTGCACGG
22699932 GTAAGTTAT
1 GTAAGTTAT
*
22699941 GT-A-TTGT
1 GTAAGTTAT
*
22699948 GTAAGCTAT
1 GTAAGTTAT
*
22699957 GTAAGTTGT
1 GTAAGTTAT
22699966 GT-A-TTAT
1 GTAAGTTAT
22699973 GTAAGTTAT
1 GTAAGTTAT
22699982 -T-A-TTAT
1 GTAAGTTAT
22699988 GCTTTAAGTTAT
1 G---TAAGTTAT
*
22700000 GTAAGTAAT
1 GTAAGTTAT
22700009 GT-A-TTAT
1 GTAAGTTAT
*
22700016 GTAAGTTGT
1 GTAAGTTAT
*
22700025 GT-A-TAAT
1 GTAAGTTAT
*
22700032 GTTAGTTAT
1 GTAAGTTAT
**
22700041 CAAAGTTAT
1 GTAAGTTAT
22700050 GT-A-TTAT
1 GTAAGTTAT
22700057 GTAAGTTAT
1 GTAAGTTAT
*
22700066 TTAAGTTAT
1 GTAAGTTAT
*
22700075 GTAA--CAT
1 GTAAGTTAT
*
22700082 GTAAATTAT
1 GTAAGTTAT
*
22700091 GTAAGTTGT
1 GTAAGTTAT
*
22700100 GT-A-TAAT
1 GTAAGTTAT
**
22700107 GTTTGTTAT
1 GTAAGTTAT
**
22700116 CAAAGTTAT
1 GTAAGTTAT
22700125 GT-A-TTAT
1 GTAAGTTAT
22700132 GTAAGTTAT
1 GTAAGTTAT
*
22700141 TTAAGTTAT
1 GTAAGTTAT
*
22700150 GTAA--CAT
1 GTAAGTTAT
*
22700157 GTAAATTAT
1 GTAAGTTAT
*
22700166 GTAAGTTGT
1 GTAAGTTAT
*
22700175 GT-A-TAAT
1 GTAAGTTAT
*
22700182 GTTAGTTAT
1 GTAAGTTAT
**
22700191 CAAAGTTAT
1 GTAAGTTAT
22700200 GT-A-TTAT
1 GTAAGTTAT
***
22700207 GTGTTTCTAT
1 GTAAGT-TAT
*
22700217 TTAAGTTAT
1 GTAAGTTAT
*
22700226 GTAA--CAT
1 GTAAGTTAT
*
22700233 GTAAATTAT
1 GTAAGTTAT
*
22700242 GTAAGTTGT
1 GTAAGTTAT
*
22700251 GT-A-TAAT
1 GTAAGTTAT
*
22700258 GTTAGTTAT
1 GTAAGTTAT
**
22700267 CAAAGTTAT
1 GTAAGTTAT
22700276 GT-A-TTAT
1 GTAAGTTAT
***
22700283 GTGTTTCTAT
1 GTAAGT-TAT
*
22700293 TTAAGTTAT
1 GTAAGTTAT
*
22700302 GTAAGTTGT
1 GTAAGTTAT
22700311 GT-A-TTAT
1 GTAAGTTAT
22700318 GTAAGTTAT
1 GTAAGTTAT
22700327 TAAAAATTGA
Statistics
Matches: 275, Mismatches: 73, Indels: 76
0.65 0.17 0.18
Matches are distributed among these distances:
6 4 0.01
7 79 0.29
8 22 0.08
9 153 0.56
10 11 0.04
11 1 0.00
12 5 0.02
ACGTcount: A:0.31, C:0.03, G:0.18, T:0.47
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:22699973 original size:16 final size:16
Alignment explanation
Indices: 22699954--22700190 Score: 77
Period size: 16 Copynumber: 14.8 Consensus size: 16
22699944 TTGTGTAAGC
*
22699954 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
22699970 TATGTAAGTTAT-TAT
1 TATGTAAGTTATGTAT
*
22699985 TATGCT---TTAAG--T
1 TATG-TAAGTTATGTAT
*
22699997 TATGTAAGTAATGTAT
1 TATGTAAGTTATGTAT
*
22700013 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * **
22700029 AATGTTAGTTATCAAAGT
1 TATGTAAGTTAT-GTA-T
22700047 TATGT-A-TTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
22700063 TATTTAAGTTATGTAA
1 TATGTAAGTTATGTAT
* *
22700079 CATGTAAATTATGTAAGT
1 TATGTAAGTTATGT-A-T
*
22700097 TGTGTATAATGTT-TG--T
1 TATG--TAA-GTTATGTAT
**
22700113 TATCAAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
22700129 TATGTAAGTTATTTAAGT
1 TATGTAAGTTATGT-A-T
*
22700147 TATGTAA--CATGTAAAT
1 TATGTAAGTTATGT--AT
*
22700163 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* *
22700179 AATGTTAGTTAT
1 TATGTAAGTTAT
22700191 CAAAGTTATG
Statistics
Matches: 160, Mismatches: 36, Indels: 50
0.65 0.15 0.20
Matches are distributed among these distances:
11 1 0.01
12 5 0.03
13 6 0.04
14 7 0.04
15 7 0.04
16 95 0.59
17 8 0.05
18 24 0.15
20 5 0.03
21 2 0.01
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.47
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:22700040 original size:25 final size:25
Alignment explanation
Indices: 22699992--22700284 Score: 220
Period size: 25 Copynumber: 11.7 Consensus size: 25
22699982 TATTATGCTT
*
22699992 TAAGTTATGTAAGTAATG-TA-TTATG
1 TAAGTTATGT-A-TAATGTTAGTTATC
*
22700017 TAAGTTGTGTATAATGTTAGTTATC
1 TAAGTTATGTATAATGTTAGTTATC
* * * *
22700042 AAAGTTATGTATTATGTAAGTTATT
1 TAAGTTATGTATAATGTTAGTTATC
* * *
22700067 TAAGTTATGTA-ACATGTAAATTATG
1 TAAGTTATGTATA-ATGTTAGTTATC
* *
22700092 TAAGTTGTGTATAATGTTTGTTATC
1 TAAGTTATGTATAATGTTAGTTATC
* * * *
22700117 AAAGTTATGTATTATGTAAGTTATT
1 TAAGTTATGTATAATGTTAGTTATC
* * *
22700142 TAAGTTATGTA-ACATGTAAATTATG
1 TAAGTTATGTATA-ATGTTAGTTATC
*
22700167 TAAGTTGTGTATAATGTTAGTTATC
1 TAAGTTATGTATAATGTTAGTTATC
* * * *
22700192 AAAGTTATGTATTATGTGT-TTCTATT
1 TAAGTTATGTATAATGT-TAGT-TATC
* * *
22700218 TAAGTTATGTA-ACATGTAAATTATG
1 TAAGTTATGTATA-ATGTTAGTTATC
*
22700243 TAAGTTGTGTATAATGTTAGTTATC
1 TAAGTTATGTATAATGTTAGTTATC
* *
22700268 AAAGTTATGTATTATGT
1 TAAGTTATGTATAATGT
22700285 GTTTCTATTT
Statistics
Matches: 210, Mismatches: 47, Indels: 22
0.75 0.17 0.08
Matches are distributed among these distances:
23 5 0.02
24 3 0.01
25 180 0.86
26 22 0.10
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.46
Consensus pattern (25 bp):
TAAGTTATGTATAATGTTAGTTATC
Found at i:22700071 original size:75 final size:75
Alignment explanation
Indices: 22699990--22700324 Score: 496
Period size: 75 Copynumber: 4.4 Consensus size: 75
22699980 ATTATTATGC
*
22699990 TTTAAGTTATGTAAGTAATGT-ATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTAT
1 TTTAAGTTATGTAA--CATGTAATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTAT
22700054 TATGTAAGT-TA
64 TATGTAAGTCTA
*
22700065 TTTAAGTTATGTAACATGTAAATTATGTAAGTTGTGTATAATGTTTGTTATCAAAGTTATGTATT
1 TTTAAGTTATGTAACATGT-AATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTATT
22700130 ATGTAAGT-TA
65 ATGTAAGTCTA
22700140 TTTAAGTTATGTAACATGTAAATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTATT
1 TTTAAGTTATGTAACATGT-AATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTATT
***
22700205 ATGTGTTTCTA
65 ATGTAAGTCTA
22700216 TTTAAGTTATGTAACATGTAAATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTATT
1 TTTAAGTTATGTAACATGT-AATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTATT
***
22700281 ATGTGTTTCTA
65 ATGTAAGTCTA
** *
22700292 TTTAAGTTATGTAAGTTGTGTATTATGTAAGTT
1 TTTAAGTTATGTAACATGT-AATTATGTAAGTT
22700325 ATTAAAAATT
Statistics
Matches: 247, Mismatches: 10, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
73 4 0.02
75 136 0.55
76 107 0.43
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.47
Consensus pattern (75 bp):
TTTAAGTTATGTAACATGTAATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTATTA
TGTAAGTCTA
Found at i:22700311 original size:26 final size:25
Alignment explanation
Indices: 22699992--22700326 Score: 125
Period size: 25 Copynumber: 13.3 Consensus size: 25
22699982 TATTATGCTT
*
22699992 TAAGTTATGTAAGTA-ATGTATTATG
1 TAAGTTATGT-AGTATGTGTATTATG
* *
22700017 TAAGTTGTGTA-TAATGT-TAGTTATC
1 TAAGTTATGTAGT-ATGTGTA-TTATG
* * * *
22700042 AAAGTTATGTATTATGT-AAGTTATT
1 TAAGTTATGTAGTATGTGTA-TTATG
** **
22700067 TAAGTTATGTAACATGTAAATTATG
1 TAAGTTATGTAGTATGTGTATTATG
* * * *
22700092 TAAGTTGTGTA-TAATGTTTGTTATC
1 TAAGTTATGTAGT-ATGTGTATTATG
* * * *
22700117 AAAGTTATGTATTATGT-AAGTTATT
1 TAAGTTATGTAGTATGTGTA-TTATG
** **
22700142 TAAGTTATGTAACATGTAAATTATG
1 TAAGTTATGTAGTATGTGTATTATG
* *
22700167 TAAGTTGTGTA-TAATGT-TAGTTATC
1 TAAGTTATGTAGT-ATGTGTA-TTATG
* * * *
22700192 AAAGTTATGTATTATGTGTTTCTATT
1 TAAGTTATGTAGTATGTGTAT-TATG
** **
22700218 TAAGTTATGTAACATGTAAATTATG
1 TAAGTTATGTAGTATGTGTATTATG
* *
22700243 TAAGTTGTGTA-TAATGT-TAGTTATC
1 TAAGTTATGTAGT-ATGTGTA-TTATG
* * * *
22700268 AAAGTTATGTATTATGTGTTTCTATT
1 TAAGTTATGTAGTATGTGTAT-TATG
22700294 TAAGTTATGTAAGT-TGTGTATTATG
1 TAAGTTATGT-AGTATGTGTATTATG
22700319 TAAGTTAT
1 TAAGTTAT
22700327 TAAAAATTGA
Statistics
Matches: 237, Mismatches: 53, Indels: 40
0.72 0.16 0.12
Matches are distributed among these distances:
23 1 0.00
24 6 0.03
25 182 0.77
26 46 0.19
27 2 0.01
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.47
Consensus pattern (25 bp):
TAAGTTATGTAGTATGTGTATTATG
Found at i:22700421 original size:27 final size:27
Alignment explanation
Indices: 22700383--22700438 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
22700373 TATATTAAAA
22700383 ATATAGGTTTTAATATTTAAAAATAAC
1 ATATAGGTTTTAATATTTAAAAATAAC
22700410 ATATAGGTTTTAATATTTAAAAATAAC
1 ATATAGGTTTTAATATTTAAAAATAAC
22700437 AT
1 AT
22700439 TTACAATTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (27 bp):
ATATAGGTTTTAATATTTAAAAATAAC
Found at i:22700893 original size:2 final size:2
Alignment explanation
Indices: 22700888--22700920 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
22700878 TAAATTTTTA
22700888 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
22700921 AAGTTTAAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:22700898 original size:121 final size:121
Alignment explanation
Indices: 22700410--22700875 Score: 828
Period size: 121 Copynumber: 3.9 Consensus size: 121
22700400 TAAAAATAAC
*
22700410 ATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATTTCTA
1 ATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATTACTA
22700475 ATAAAATTGAAATATAGGTTATATATCCATACCATATATGGGGTGATATATTAAAA
66 ATAAAATTGAAATATAGGTTATATATCCATACCATATATGGGGTGATATATTAAAA
* * *
22700531 ATATAGGTTTTAATATTTAAAAATAATATTTACAATTATTTTTAAAGTTATAAAATTCATTTCTA
1 ATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATTACTA
22700596 ATAAAATTGAAATATAGGTTATATATCCATACCATATATGGGGTGATATATTAAAA
66 ATAAAATTGAAATATAGGTTATATATCCATACCATATATGGGGTGATATATTAAAA
*
22700652 ATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTTATTGAC-
1 ATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATT-ACT
22700716 AATAAAATTGAAATATAGGTTATATATCCATACCATATATGGGGTGATATATTAAAA
65 AATAAAATTGAAATATAGGTTATATATCCATACCATATATGGGGTGATATATTAAAA
* *
22700773 ATATAGGTTTTAGTATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTTATTGAC-
1 ATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATT-ACT
*
22700837 AATAAAATTGAAATATAGGTTATATATCCATACTATATA
65 AATAAAATTGAAATATAGGTTATATATCCATACCATATA
22700876 GCTAAATTTT
Statistics
Matches: 336, Mismatches: 8, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
121 335 1.00
122 1 0.00
ACGTcount: A:0.45, C:0.06, G:0.08, T:0.41
Consensus pattern (121 bp):
ATATAGGTTTTAATATTTAAAAATAACATTTACAATTATTTTTAAAATTATAAAATTCATTACTA
ATAAAATTGAAATATAGGTTATATATCCATACCATATATGGGGTGATATATTAAAA
Found at i:22700947 original size:18 final size:18
Alignment explanation
Indices: 22700924--22701012 Score: 92
Period size: 18 Copynumber: 4.8 Consensus size: 18
22700914 ATATATAAAG
22700924 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
22700942 TTTAAGTAATGTAAGTTATAAA
1 TTTAAGTAATGTAA--TAT--A
** *
22700964 TTTTTGTAA-GTTATATA
1 TTTAAGTAATGTAATATA
22700981 TTTAAGTAATGTAATATA
1 TTTAAGTAATGTAATATA
*
22700999 TTTTAGTAA-GTAAT
1 TTTAAGTAATGTAAT
22701013 GTAAGTAATG
Statistics
Matches: 59, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
17 13 0.22
18 29 0.49
19 3 0.05
20 3 0.05
21 3 0.05
22 8 0.14
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.47
Consensus pattern (18 bp):
TTTAAGTAATGTAATATA
Found at i:22700972 original size:35 final size:31
Alignment explanation
Indices: 22700933--22701030 Score: 90
Period size: 31 Copynumber: 2.9 Consensus size: 31
22700923 GTTTAAGTAA
22700933 TGTAATATATTTAAGTAATGTAAGTTATAAATTTT
1 TGTAATATATTTAAGTAATGTAA--TAT--ATTTT
22700968 TGTAAGTTATATATTTAAGTAATGTAATATATTTT
1 TGT-A---ATATATTTAAGTAATGTAATATATTTT
* *
22701003 AGTAAGTA-ATGTAAGTAATGTAATATAT
1 TGTAA-TATATTTAAGTAATGTAATATAT
22701031 ACTTTAATTT
Statistics
Matches: 56, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
31 20 0.36
32 2 0.04
34 1 0.02
35 10 0.18
36 1 0.02
37 3 0.05
39 19 0.34
ACGTcount: A:0.41, C:0.00, G:0.13, T:0.46
Consensus pattern (31 bp):
TGTAATATATTTAAGTAATGTAATATATTTT
Found at i:22700989 original size:17 final size:17
Alignment explanation
Indices: 22700952--22701009 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
22700942 TTTAAGTAAT
* *
22700952 GTAAGTTATAAATTTTT
1 GTAAGTTATATATTTTA
*
22700969 GTAAGTTATATATTTAA
1 GTAAGTTATATATTTTA
*
22700986 GTAATGTAATATATTTTA
1 GTAA-GTTATATATTTTA
22701004 GTAAGT
1 GTAAGT
22701010 AATGTAAGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
17 20 0.57
18 15 0.43
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.48
Consensus pattern (17 bp):
GTAAGTTATATATTTTA
Found at i:22700993 original size:22 final size:22
Alignment explanation
Indices: 22700937--22701018 Score: 79
Period size: 22 Copynumber: 4.0 Consensus size: 22
22700927 AAGTAATGTA
22700937 ATATATTTAAGTAATGTAAGTT
1 ATATATTTAAGTAATGTAAGTT
*
22700959 ATAAATTT---T--TGTAAGTT
1 ATATATTTAAGTAATGTAAGTT
22700976 ATATATTTAAGTAATGTAA--T
1 ATATATTTAAGTAATGTAAGTT
*
22700996 ATATTTTAGTAAGTAATGTAAGT
1 ATATATT--TAAGTAATGTAAGT
22701019 AATGTAATAT
Statistics
Matches: 48, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
17 15 0.31
19 1 0.02
20 8 0.17
22 24 0.50
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.46
Consensus pattern (22 bp):
ATATATTTAAGTAATGTAAGTT
Found at i:22701069 original size:13 final size:13
Alignment explanation
Indices: 22701053--22701140 Score: 65
Period size: 13 Copynumber: 6.6 Consensus size: 13
22701043 GTAAGTCATG
22701053 TATTTAAGTAATA
1 TATTTAAGTAATA
22701066 TATTTAA-TCCAAT-
1 TATTTAAGT--AATA
* * *
22701079 TCTAGTAAGTAATG
1 TAT-TTAAGTAATA
22701093 TATTTAAGTAATA
1 TATTTAAGTAATA
22701106 TATTTAAGTAA-A
1 TATTTAAGTAATA
* *
22701118 TTTTAGTAATTAATA
1 TATT--TAAGTAATA
22701133 TATTTAAG
1 TATTTAAG
22701141 CAATGTAAGT
Statistics
Matches: 58, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
12 5 0.09
13 34 0.59
14 14 0.24
15 5 0.09
ACGTcount: A:0.42, C:0.03, G:0.09, T:0.45
Consensus pattern (13 bp):
TATTTAAGTAATA
Found at i:22701094 original size:40 final size:39
Alignment explanation
Indices: 22701038--22701140 Score: 143
Period size: 40 Copynumber: 2.6 Consensus size: 39
22701028 TATACTTTAA
* *
22701038 TTTTAGTAAGTCATGTATTTAAGTAATATATTTAATCCAA
1 TTTTAGTAAGTAATGTATTTAAGTAATATATTTAAT-AAA
*
22701078 TTCTAGTAAGTAATGTATTTAAGTAATATATTTAAGTAAA
1 TTTTAGTAAGTAATGTATTTAAGTAATATATTTAA-TAAA
* *
22701118 TTTTAGTAATTAATATATTTAAG
1 TTTTAGTAAGTAATGTATTTAAG
22701141 CAATGTAAGT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
40 55 0.98
41 1 0.02
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.46
Consensus pattern (39 bp):
TTTTAGTAAGTAATGTATTTAAGTAATATATTTAATAAA
Found at i:22701210 original size:11 final size:11
Alignment explanation
Indices: 22701179--22701211 Score: 50
Period size: 10 Copynumber: 3.1 Consensus size: 11
22701169 ATATATTAAT
22701179 AATTCATTGAC
1 AATTCATTGAC
22701190 -ATTCATTGAC
1 AATTCATTGAC
*
22701200 AATTCACTGAC
1 AATTCATTGAC
22701211 A
1 A
22701212 GTCAATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.33
Consensus pattern (11 bp):
AATTCATTGAC
Found at i:22704787 original size:7 final size:7
Alignment explanation
Indices: 22704775--22704898 Score: 72
Period size: 7 Copynumber: 17.0 Consensus size: 7
22704765 ATTAATTGAC
22704775 ACCCTAA
1 ACCCTAA
22704782 ACCCTAA
1 ACCCTAA
22704789 ATCCCTAA
1 A-CCCTAA
*
22704797 CCCCTAA
1 ACCCTAA
*
22704804 CCCCTAA
1 ACCCTAA
*
22704811 ATCTCCTAG
1 A-C-CCTAA
*
22704820 CCCCTAA
1 ACCCTAA
*
22704827 ATTCCTAA
1 A-CCCTAA
*
22704835 CCCCT-A
1 ACCCTAA
22704841 ACTCCTAA
1 AC-CCTAA
*
22704849 CCCCTAA
1 ACCCTAA
22704856 ATCCCTAA
1 A-CCCTAA
*
22704864 CCCCTAA
1 ACCCTAA
*
22704871 CCCCTAA
1 ACCCTAA
*
22704878 ACCTTATA
1 ACCCTA-A
*
22704886 TCCC-AA
1 ACCCTAA
22704892 ACCCTAA
1 ACCCTAA
22704899 TAATCATATA
Statistics
Matches: 90, Mismatches: 18, Indels: 18
0.71 0.14 0.14
Matches are distributed among these distances:
6 6 0.07
7 56 0.62
8 24 0.27
9 4 0.04
ACGTcount: A:0.33, C:0.45, G:0.01, T:0.21
Consensus pattern (7 bp):
ACCCTAA
Found at i:22704802 original size:22 final size:22
Alignment explanation
Indices: 22704776--22704878 Score: 127
Period size: 22 Copynumber: 4.6 Consensus size: 22
22704766 TTAATTGACA
*
22704776 CCCTAAACCCTAAATCCCTAAC
1 CCCTAACCCCTAAATCCCTAAC
*
22704798 CCCTAACCCCTAAATCTCCTAGC
1 CCCTAACCCCTAAATC-CCTAAC
** *
22704821 CCCTAAATTCCT-AACCCCTAAC
1 CCCT-AACCCCTAAATCCCTAAC
*
22704843 TCCTAACCCCTAAATCCCTAAC
1 CCCTAACCCCTAAATCCCTAAC
22704865 CCCTAACCCCTAAA
1 CCCTAACCCCTAAA
22704879 CCTTATATCC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
21 5 0.07
22 45 0.67
23 12 0.18
24 5 0.07
ACGTcount: A:0.32, C:0.47, G:0.01, T:0.20
Consensus pattern (22 bp):
CCCTAACCCCTAAATCCCTAAC
Found at i:22704810 original size:29 final size:29
Alignment explanation
Indices: 22704777--22704895 Score: 105
Period size: 29 Copynumber: 4.0 Consensus size: 29
22704767 TAATTGACAC
* *
22704777 CCTAAACCCTAAATCCCT-AACCCCTAACC
1 CCTAACCCCTAAA-CCCTAAATCCCTAACC
* ** *
22704806 CCTAAATCTCCTAGCCCCTAAATTCCTAACC
1 CCT-AA-CCCCTAAACCCTAAATCCCTAACC
* *
22704837 CCTAACTCCTAACCCCTAAATCCCTAACC
1 CCTAACCCCTAAACCCTAAATCCCTAACC
* * *
22704866 CCTAACCCCTAAACCTTATATCCCAAACC
1 CCTAACCCCTAAACCCTAAATCCCTAACC
22704895 C
1 C
22704896 TAATAATCAT
Statistics
Matches: 74, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
29 50 0.68
30 8 0.11
31 16 0.22
ACGTcount: A:0.32, C:0.46, G:0.01, T:0.21
Consensus pattern (29 bp):
CCTAACCCCTAAACCCTAAATCCCTAACC
Found at i:22704894 original size:22 final size:22
Alignment explanation
Indices: 22704775--22704895 Score: 95
Period size: 22 Copynumber: 5.5 Consensus size: 22
22704765 ATTAATTGAC
*
22704775 ACCCTAAA-CCCTAAATCCCTA
1 ACCCCAAACCCCTAAATCCCTA
*
22704796 ACCCCTAACCCCTAAATCTCCTA
1 ACCCCAAACCCCTAAATC-CCTA
* ** *
22704819 GCCCCTAAATTCCT-AACCCCTA
1 ACCCC-AAACCCCTAAATCCCTA
* *
22704841 ACTCCTAACCCCTAAATCCCTA
1 ACCCCAAACCCCTAAATCCCTA
* *
22704863 ACCCCTAACCCCTAAA-CCTTA
1 ACCCCAAACCCCTAAATCCCTA
*
22704884 TATCCCAAACCC
1 -ACCCCAAACCC
22704896 TAATAATCAT
Statistics
Matches: 78, Mismatches: 17, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
21 15 0.19
22 47 0.60
23 11 0.14
24 5 0.06
ACGTcount: A:0.32, C:0.46, G:0.01, T:0.21
Consensus pattern (22 bp):
ACCCCAAACCCCTAAATCCCTA
Found at i:22706935 original size:20 final size:20
Alignment explanation
Indices: 22706910--22706955 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
22706900 AAAAATTACA
22706910 ATTTTTATTTCTTT-TATTTC
1 ATTTTTATTT-TTTGTATTTC
*
22706930 ATTTTTATTTTTTGTATTTT
1 ATTTTTATTTTTTGTATTTC
22706950 ATTTTT
1 ATTTTT
22706956 TCTTATAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 3 0.12
20 21 0.88
ACGTcount: A:0.15, C:0.04, G:0.02, T:0.78
Consensus pattern (20 bp):
ATTTTTATTTTTTGTATTTC
Found at i:22707370 original size:21 final size:20
Alignment explanation
Indices: 22707340--22707380 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
22707330 CCTAACTCCT
*
22707340 AACCCCTAAACCTTAAATCCC
1 AACCCCTAAACCAT-AATCCC
*
22707361 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
22707381 TAAATCCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:22708358 original size:41 final size:41
Alignment explanation
Indices: 22708289--22708486 Score: 200
Period size: 41 Copynumber: 4.8 Consensus size: 41
22708279 TTATTATTAC
* * * *
22708289 TAGCGGCGCTTTTTTAAAAACGCCGCTAAAGGCCACAGCAA
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCAT
* * * * ** *
22708330 TACCGGCACTTCTTTAAAAATGCCGCTAAAGATCTGAGCAT
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCAT
* * * *
22708371 TAGCGACGCTTCTTCAAAAACGCCACTAAAAGACAGAGCAT
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCAT
*
22708412 TAGCGGCGCTTAC-TCAAAAATGCCGCTAAAGGCCAGAGCAT
1 TAGCGGCGCTT-CTTCAAAAACGCCGCTAAAGGCCAGAGCAT
** * *
22708453 TAGCGGCATTTATTAAAAAACGCCGCTAAAGGCC
1 TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCC
22708487 CGAAAAACTC
Statistics
Matches: 126, Mismatches: 29, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
41 125 0.99
42 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (41 bp):
TAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGCAT
Found at i:22708647 original size:40 final size:40
Alignment explanation
Indices: 22708523--22708659 Score: 154
Period size: 40 Copynumber: 3.5 Consensus size: 40
22708513 TGGCTTAGGC
**
22708523 TTTTT-GCGGCGCTTTTCAGAAAA-CGCCGCTAATGCT-TA
1 TTTTTAGCGGCG-TTTTTTGAAAAGCGCCGCTAATGCTCTA
* *
22708561 TTTTTAGCGGCGTTTTTGGATAAGCGCCGCTAATGCTCTA
1 TTTTTAGCGGCGTTTTTTGAAAAGCGCCGCTAATGCTCTA
** * *
22708601 CCTTTAGCGGCGTTTTTTTAAAAGCGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTTTGAAAAGCGCCGCTAATGCTCTA
* *
22708641 TTTTTAGTGTCGTTTTTTG
1 TTTTTAGCGGCGTTTTTTG
22708660 TCCAAACGCC
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
38 13 0.16
39 19 0.23
40 50 0.61
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTTGAAAAGCGCCGCTAATGCTCTA
Found at i:22708680 original size:12 final size:12
Alignment explanation
Indices: 22708663--22708688 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
22708653 TTTTTTGTCC
22708663 AAACGCCGCTAA
1 AAACGCCGCTAA
22708675 AAACGCCGCTAA
1 AAACGCCGCTAA
22708687 AA
1 AA
22708689 GCCTATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Done.