Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 119 of 144
Found at i:36914778 original size:5 final size:6
Alignment explanation
Indices: 36914750--36914775 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
36914740 ACTTACATAT
36914750 AAATTA AAATTA AAATTA AAATTA AA
1 AAATTA AAATTA AAATTA AAATTA AA
36914776 TTATAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATTA
Found at i:36928850 original size:27 final size:27
Alignment explanation
Indices: 36928812--36928954 Score: 180
Period size: 27 Copynumber: 5.3 Consensus size: 27
36928802 ATTCATGGGC
*
36928812 AAAATGATCGAAATACCCCCGAAGGGT
1 AAAATGACCGAAATACCCCCGAAGGGT
*
36928839 AAAATGACCGAAATACCCCCAAAGGGT
1 AAAATGACCGAAATACCCCCGAAGGGT
** *
36928866 AAAATGATTGAAATACCTCCGAAGGGT
1 AAAATGACCGAAATACCCCCGAAGGGT
* * *
36928893 AAAATGACCAAAATACACTCGAAGGGT
1 AAAATGACCGAAATACCCCCGAAGGGT
* *
36928920 AAAATGATCGAAAT-CCCCCCATAGGGT
1 AAAATGACCGAAATACCCCCGA-AGGGT
36928947 AAAATGAC
1 AAAATGAC
36928955 TGTTATACTT
Statistics
Matches: 97, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
26 4 0.04
27 93 0.96
ACGTcount: A:0.43, C:0.21, G:0.20, T:0.16
Consensus pattern (27 bp):
AAAATGACCGAAATACCCCCGAAGGGT
Found at i:36928879 original size:54 final size:54
Alignment explanation
Indices: 36928812--36928954 Score: 207
Period size: 54 Copynumber: 2.6 Consensus size: 54
36928802 ATTCATGGGC
* *
36928812 AAAATGATCGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCCCAAAGGGT
1 AAAATGATCGAAATACCCCCGAAGGGTAAAATGACCAAAATACACCCAAAGGGT
* * * *
36928866 AAAATGATTGAAATACCTCCGAAGGGTAAAATGACCAAAATACACTCGAAGGGT
1 AAAATGATCGAAATACCCCCGAAGGGTAAAATGACCAAAATACACCCAAAGGGT
*
36928920 AAAATGATCGAAAT-CCCCCCATAGGGTAAAATGAC
1 AAAATGATCGAAATACCCCCGA-AGGGTAAAATGAC
36928955 TGTTATACTT
Statistics
Matches: 79, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
53 5 0.06
54 74 0.94
ACGTcount: A:0.43, C:0.21, G:0.20, T:0.16
Consensus pattern (54 bp):
AAAATGATCGAAATACCCCCGAAGGGTAAAATGACCAAAATACACCCAAAGGGT
Found at i:36929158 original size:26 final size:25
Alignment explanation
Indices: 36929129--36929178 Score: 91
Period size: 26 Copynumber: 2.0 Consensus size: 25
36929119 TTGCCACATA
36929129 TACTGTTACTAGCAGTCTTGCTGCGT
1 TACTGTTACTAGCAG-CTTGCTGCGT
36929155 TACTGTTACTAGCAGCTTGCTGCG
1 TACTGTTACTAGCAGCTTGCTGCG
36929179 ATATTAGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (25 bp):
TACTGTTACTAGCAGCTTGCTGCGT
Found at i:36929339 original size:28 final size:28
Alignment explanation
Indices: 36929300--36929429 Score: 215
Period size: 28 Copynumber: 4.6 Consensus size: 28
36929290 TATTGTTTTG
*
36929300 GGCTAAGACCCACACTGTTACTGTAATT
1 GGCTAAGGCCCACACTGTTACTGTAATT
* * *
36929328 GGCTATGGCCCACAATGTTACTATAATT
1 GGCTAAGGCCCACACTGTTACTGTAATT
36929356 GGCTAAGGCCCACACTGTTACTGTAATT
1 GGCTAAGGCCCACACTGTTACTGTAATT
*
36929384 GGCTAAGGCCCACACTGTTACTGTAATG
1 GGCTAAGGCCCACACTGTTACTGTAATT
36929412 GGCTAAGGCCCACACTGT
1 GGCTAAGGCCCACACTGT
36929430 ACTAATACTG
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 94 1.00
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (28 bp):
GGCTAAGGCCCACACTGTTACTGTAATT
Found at i:36931913 original size:46 final size:46
Alignment explanation
Indices: 36931861--36931951 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
36931851 AGAAATTGAA
* *
36931861 GAATGTTCTGACTGAGGGCCCTATCTTAATACAGCCAGAGTCTGGT
1 GAATGTTCTGACCGAGGGCCATATCTTAATACAGCCAGAGTCTGGT
36931907 GAATGTTCTGACCGAGGGCCATATCTTAATACAGCCAGAGTCTGG
1 GAATGTTCTGACCGAGGGCCATATCTTAATACAGCCAGAGTCTGG
36931952 GAAGGAATTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (46 bp):
GAATGTTCTGACCGAGGGCCATATCTTAATACAGCCAGAGTCTGGT
Found at i:36935339 original size:27 final size:27
Alignment explanation
Indices: 36935300--36935552 Score: 253
Period size: 27 Copynumber: 9.4 Consensus size: 27
36935290 ATTCGTGGGC
** *
36935300 AAAATGA-TCGAAATACCCCCAAATGGT
1 AAAATGACT-GAAATACCCCTGAAGGGT
*
36935327 AAAATGACTGAAATACCCCCGAAGGGT
1 AAAATGACTGAAATACCCCTGAAGGGT
* * *
36935354 AAAATAACCGAAATACCCCTGAAGGTT
1 AAAATGACTGAAATACCCCTGAAGGGT
*
36935381 AAAATGACTGAAATACCTCTGAAGGGT
1 AAAATGACTGAAATACCCCTGAAGGGT
36935408 AAAATGACTGAAATACCCCTGAAGGGT
1 AAAATGACTGAAATACCCCTGAAGGGT
* * ** * *
36935435 AAAATGAC-CAACACACCTTTAAAGGAT
1 AAAATGACTGAA-ATACCCCTGAAGGGT
* * *
36935462 AAAATGACCGAAATTCCCTTGAAGGGT
1 AAAATGACTGAAATACCCCTGAAGGGT
* *
36935489 AAAATGA-TCGAAATACCCTTGAAGGAT
1 AAAATGACT-GAAATACCCCTGAAGGGT
**
36935516 AAAATGACTGAAAT-CCCCCCATAGGGT
1 AAAATGACTGAAATACCCCTGA-AGGGT
36935543 AAAATGACTG
1 AAAATGACTG
36935553 TTATACTCCT
Statistics
Matches: 190, Mismatches: 30, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
26 6 0.03
27 180 0.95
28 4 0.02
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (27 bp):
AAAATGACTGAAATACCCCTGAAGGGT
Found at i:36935774 original size:26 final size:26
Alignment explanation
Indices: 36935725--36935776 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
36935715 TTGCCACATA
*
36935725 TACTGTTACTGGTAGCCTTGCTGTGT
1 TACTGTTACTGGTAGCCTTACTGTGT
* * *
36935751 TACTGTTATTGGTTGCTTTACTGTGT
1 TACTGTTACTGGTAGCCTTACTGTGT
36935777 CATTATTACT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.12, C:0.15, G:0.25, T:0.48
Consensus pattern (26 bp):
TACTGTTACTGGTAGCCTTACTGTGT
Found at i:36942722 original size:62 final size:62
Alignment explanation
Indices: 36942603--36942737 Score: 152
Period size: 62 Copynumber: 2.2 Consensus size: 62
36942593 ATAGAAATCG
* * *
36942603 TGAAAATGGATAATGAGAACATTTGGAAATGATTATGGTTTTCCCCACAATTGAAATGAAAA
1 TGAAAATGGAAAATGAGAACATTTGGAAATGAATATGGTTTTCCCCACAAATGAAATGAAAA
* * *
36942665 TGAAAATGGAGAAATGA-ATCATTTGGAAATGAATGTGAG-TTTCTCCA-AAATGAAAATGAAAA
1 TGAAAATGGA-AAATGAGAACATTTGGAAATGAATATG-GTTTTCCCCACAAATG-AAATGAAAA
*
36942727 TG-ACATGGAAA
1 TGAAAATGGAAA
36942738 TGAATTTATG
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
60 2 0.03
61 10 0.16
62 45 0.71
63 6 0.10
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.27
Consensus pattern (62 bp):
TGAAAATGGAAAATGAGAACATTTGGAAATGAATATGGTTTTCCCCACAAATGAAATGAAAA
Found at i:36942868 original size:25 final size:25
Alignment explanation
Indices: 36942840--36942893 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
36942830 TTTTCTCATG
36942840 GATTCTTTTACAGTAAAGTCATTAT
1 GATTCTTTTACAGTAAAGTCATTAT
* **
36942865 GATTCTTTTACGGTAAAGTTGTTAT
1 GATTCTTTTACAGTAAAGTCATTAT
36942890 GATT
1 GATT
36942894 TTAACAGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.28, C:0.09, G:0.17, T:0.46
Consensus pattern (25 bp):
GATTCTTTTACAGTAAAGTCATTAT
Found at i:36943584 original size:10 final size:9
Alignment explanation
Indices: 36943545--36943583 Score: 51
Period size: 10 Copynumber: 4.1 Consensus size: 9
36943535 TCTTAGTGTT
36943545 AATTAATTA
1 AATTAATTA
36943554 AATTTAATTA
1 AA-TTAATTA
*
36943564 AACTAATTA
1 AATTAATTA
36943573 AGATTAATTA
1 A-ATTAATTA
36943583 A
1 A
36943584 GTATTAAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 9 0.35
10 17 0.65
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (9 bp):
AATTAATTA
Found at i:36949897 original size:99 final size:99
Alignment explanation
Indices: 36949726--36949923 Score: 387
Period size: 99 Copynumber: 2.0 Consensus size: 99
36949716 TTAGTAGAGG
*
36949726 CCGGAAGGTAATACTAGTTAATTAATAGCTAATTTCATTTCAACCTGAATTTTGAAGTTAATTAT
1 CCGGAAGGTAATACTAGTTAATTAATAGCTAATTTCATTTCAACCTAAATTTTGAAGTTAATTAT
36949791 AACGAGTTAATATTATGATTTAGTTGTTTGTCAA
66 AACGAGTTAATATTATGATTTAGTTGTTTGTCAA
36949825 CCGGAAGGTAATACTAGTTAATTAATAGCTAATTTCATTTCAACCTAAATTTTGAAGTTAATTAT
1 CCGGAAGGTAATACTAGTTAATTAATAGCTAATTTCATTTCAACCTAAATTTTGAAGTTAATTAT
36949890 AACGAGTTAATATTATGATTTAGTTGTTTGTCAA
66 AACGAGTTAATATTATGATTTAGTTGTTTGTCAA
36949924 TTTTCTATTT
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 98 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (99 bp):
CCGGAAGGTAATACTAGTTAATTAATAGCTAATTTCATTTCAACCTAAATTTTGAAGTTAATTAT
AACGAGTTAATATTATGATTTAGTTGTTTGTCAA
Found at i:36949926 original size:50 final size:50
Alignment explanation
Indices: 36949773--36949927 Score: 113
Period size: 50 Copynumber: 3.1 Consensus size: 50
36949763 TTTCAACCTG
36949773 AATTTTGAAGTTAATTATAACGAGTTAATATTATGATTTAGTTGTTTGTC
1 AATTTTGAAGTTAATTATAACGAGTTAATATTATGATTTAGTTGTTTGTC
*** * * * * * ***** *
36949823 AA-CCGGAAGGT-A--AT-ACTAGTTAATTAATAGCTAATTTCATTTCAACCTA
1 AATTTTGAAGTTAATTATAACGAGTTAA-TATTA--TGATTT-AGTTGTTTGTC
36949872 AATTTTGAAGTTAATTATAACGAGTTAATATTATGATTTAGTTGTTTGTC
1 AATTTTGAAGTTAATTATAACGAGTTAATATTATGATTTAGTTGTTTGTC
36949922 AATTTT
1 AATTTT
36949928 CTATTTATTC
Statistics
Matches: 68, Mismatches: 28, Indels: 18
0.60 0.25 0.16
Matches are distributed among these distances:
45 8 0.12
46 6 0.09
48 6 0.09
49 11 0.16
50 17 0.25
51 6 0.09
53 6 0.09
54 8 0.12
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.44
Consensus pattern (50 bp):
AATTTTGAAGTTAATTATAACGAGTTAATATTATGATTTAGTTGTTTGTC
Found at i:36956633 original size:17 final size:16
Alignment explanation
Indices: 36956582--36956629 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
36956572 AGTAGAGATG
* *
36956582 AAAAATAAAAAAAATAA
1 AAAAAT-AAAAAATTTA
*
36956599 AAAAATAAAACATTTA
1 AAAAATAAAAAATTTA
36956615 AAAAATAAAAAATTT
1 AAAAATAAAAAATTT
36956630 TAAACTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
16 21 0.78
17 6 0.22
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAAATAAAAAATTTA
Found at i:36968745 original size:3 final size:3
Alignment explanation
Indices: 36968737--36968774 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
36968727 ACTATTTAGT
* *
36968737 TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA GTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
36968775 TTTTTTATCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:36973045 original size:24 final size:23
Alignment explanation
Indices: 36973017--36973100 Score: 75
Period size: 24 Copynumber: 3.6 Consensus size: 23
36973007 GGTCAGATTC
36973017 AATCAAAAAAATAA-AAAAAATCAA
1 AATCAAAAAAA-AATAAAAAA-CAA
36973041 AATCAAAATAAAAATAAAAAACAA
1 AATCAAAA-AAAAATAAAAAACAA
* * *
36973065 AAAC-AAAAAAGA-AAAAATCAA
1 AATCAAAAAAAAATAAAAAACAA
*
36973086 AGTCAAAAGAAAAAT
1 AATCAAAA-AAAAAT
36973101 CAATTAAAGT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
21 10 0.20
22 7 0.14
23 7 0.14
24 16 0.33
25 9 0.18
ACGTcount: A:0.77, C:0.08, G:0.04, T:0.11
Consensus pattern (23 bp):
AATCAAAAAAAAATAAAAAACAA
Found at i:36973996 original size:13 final size:14
Alignment explanation
Indices: 36973975--36974028 Score: 76
Period size: 13 Copynumber: 4.0 Consensus size: 14
36973965 TCTGAGCCAA
36973975 AAAAATGAAAAA-G
1 AAAAATGAAAAATG
* *
36973988 GAGAATGAAAAATG
1 AAAAATGAAAAATG
36974002 AAAAATG-AAAATG
1 AAAAATGAAAAATG
36974015 AAAAATGAAAAATG
1 AAAAATGAAAAATG
36974029 GAGAGGCTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
13 23 0.66
14 12 0.34
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.13
Consensus pattern (14 bp):
AAAAATGAAAAATG
Found at i:36974000 original size:20 final size:20
Alignment explanation
Indices: 36973975--36974032 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
36973965 TCTGAGCCAA
36973975 AAAAATGAAAAAGGAGAATG
1 AAAAATGAAAAAGGAGAATG
* *
36973995 AAAAATGAAAAATGAAAATG
1 AAAAATGAAAAAGGAGAATG
36974015 AAAAATGAAAAATGGAGA
1 AAAAATGAAAAA-GGAGA
36974033 GGCTAAGGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
20 30 0.91
21 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.21, T:0.12
Consensus pattern (20 bp):
AAAAATGAAAAAGGAGAATG
Found at i:36974001 original size:7 final size:7
Alignment explanation
Indices: 36973975--36974028 Score: 76
Period size: 7 Copynumber: 8.0 Consensus size: 7
36973965 TCTGAGCCAA
36973975 AAAAATG
1 AAAAATG
36973982 AAAAA-G
1 AAAAATG
* *
36973988 GAGAATG
1 AAAAATG
36973995 AAAAATG
1 AAAAATG
36974002 AAAAATG
1 AAAAATG
36974009 -AAAATG
1 AAAAATG
36974015 AAAAATG
1 AAAAATG
36974022 AAAAATG
1 AAAAATG
36974029 GAGAGGCTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
6 10 0.24
7 31 0.76
ACGTcount: A:0.69, C:0.00, G:0.19, T:0.13
Consensus pattern (7 bp):
AAAAATG
Found at i:36975708 original size:44 final size:44
Alignment explanation
Indices: 36975642--36976370 Score: 349
Period size: 44 Copynumber: 15.7 Consensus size: 44
36975632 TCGCATCAGG
*
36975642 TTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGA
1 TTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGA
* * * *
36975686 TGGAAGCTAGTAATCCTATCTCCCTGAGATTATAGTGGAG-AGGA
1 TTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCA-GA
** *
36975730 TT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGA
1 TTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTACAGT---G--GA--G---CAGA
*** *
36975784 TTGAAGCTAGAAATCTTATCTCCCTGAGATTACAACAGAGCAAA
1 TTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGA
* *
36975828 TTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCAGA
1 TTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGA
** * *
36975872 TT-AAAATA-AAGGATCTTACCTCTCTGA-AGTTACAGTAGAGTAGATCACATCAGA
1 TTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTACAGT-G-G-AG-------CAGA
* * * *
36975926 TTGAAGCCAGAAATCTTATCTCCCTAAGATTACAGCGGAGTAGA
1 TTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGA
* * * *
36975970 TGGAAGCTAGTAATCCTATCTCCATGAGATTACAGTGGAGCAGA
1 TTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGA
** * * * *
36976014 TT-AAAATA-AAGGATCTTATCTCTCTGAAGTTATAGTAAAGTAGATCGCATCAGG
1 TTGAAGCTAGAA--ATCTTATCTCCCTG-AG--AT--TACAGT-G---G-AGCAGA
* *
36976068 TTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGA
1 TTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGA
* * *
36976112 TTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGA
1 TTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGA
** * * * *
36976156 TT-AAAATA-AAGGATCTTATCTCTCTGAAGTTATAGTAAAGTAGATCGCATCAGG
1 TTGAAGCTAGAA--ATCTTATCTCCCTG-AG--AT--TACAGT-G---G-AGCAGA
* *
36976210 TTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGA
1 TTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGA
* * *
36976254 TTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGA
1 TTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGA
** * * *
36976298 TT-AAAATA-AAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGA
1 TTGAAGCTAGAA--ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGA
* * *
36976342 TTGCATC-AG--GTCTTATCTCCCTGAGATTA
1 TTGAAGCTAGAAATCTTATCTCCCTGAGATTA
36976371 TGATGGAATA
Statistics
Matches: 512, Mismatches: 105, Indels: 139
0.68 0.14 0.18
Matches are distributed among these distances:
41 16 0.03
42 6 0.01
43 24 0.05
44 300 0.59
45 8 0.02
46 1 0.00
47 8 0.02
48 2 0.00
49 22 0.04
50 2 0.00
51 7 0.01
52 1 0.00
53 7 0.01
54 84 0.16
55 16 0.03
56 8 0.02
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (44 bp):
TTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGTGGAGCAGA
Found at i:36975766 original size:142 final size:142
Alignment explanation
Indices: 36975510--36976352 Score: 1368
Period size: 142 Copynumber: 5.9 Consensus size: 142
36975500 CTGAATAAGC
* * ** * * *
36975510 AAATCGTATCTCCCTGAGGTTGTAGTGGAGCAGATTGAAG-TCAATAATCCTATCTCCATGAGAT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCT-AGTAATCCTATCTCCCTGAGAT
*
36975574 TACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC
65 TACAGTGGAGAGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC
36975639 AGGTTGAAGCCAG
130 AGGTTGAAGCCAG
* *
36975652 AAATCTTATCTCCCTGAGATTACAGTGGAGCAGATGGAAGCTAGTAATCCTATCTCCCTGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
*
36975717 ATAGTGGAGAGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
66 ACAGTGGAGAGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
* *
36975782 GATTGAAGCTAG
131 GGTTGAAGCCAG
* * *
36975794 AAATCTTATCTCCCTGAGATTACAACAGAGCAAATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
* *
36975859 ACAGTGGAGCA-GATTAAAATAAAGGATCTTACCTCTCTGAAGTTACAGTAGAGTAGATCACATC
66 ACAGTGGAG-AGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC
*
36975923 AGATTGAAGCCAG
130 AGGTTGAAGCCAG
* * * *
36975936 AAATCTTATCTCCCTAAGATTACAGCGGAGTAGATGGAAGCTAGTAATCCTATCTCCATGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
* *
36976001 ACAGTGGAGCA-GATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGTAAAGTAGATCGCATC
66 ACAGTGGAG-AGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATC
36976065 AGGTTGAAGCCAG
130 AGGTTGAAGCCAG
36976078 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
* * *
36976143 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTATAGTAAAGTAGATCGCATCA
66 ACAGTGGAGAGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
36976208 GGTTGAAGCCAG
131 GGTTGAAGCCAG
36976220 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
1 AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
* *
36976285 ACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATTGCATCA
66 ACAGTGGAGAGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
36976350 GGT
131 GGT
36976353 CTTATCTCCC
Statistics
Matches: 658, Mismatches: 40, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
142 656 1.00
143 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (142 bp):
AAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATT
ACAGTGGAGAGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCA
GGTTGAAGCCAG
Found at i:36976487 original size:50 final size:50
Alignment explanation
Indices: 36976426--36976761 Score: 210
Period size: 50 Copynumber: 6.7 Consensus size: 50
36976416 GCCGTGGAAC
*
36976426 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * * * * * ** *** *
36976476 ATATTAAAGCCACAGCGGCGAATCCTACCTCTCGGTGA-TGCAGCGGAAC
1 AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * ** * *
36976525 AGATTAAAGCCACAACGGTGAACCTTGCCTCCATGACATTACGGTTAAAA
1 AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * * * * * * * **
36976575 AGACTAAAGCCACAGCGGCGAGTGTTACTTCCCTGGCAATGCAGTGAAGC
1 AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * *
36976625 AGATTAAAGCCACAATGGCGAATCTTGCTTTCCCGACATTACAGTTAAAA
1 AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
* * * ** ** * * *
36976675 GGATTAAAGTCACAACGACGAATCTCACTCTTTCAG-CTAGTGCAG-TAGAAC
1 AGATTAAAGCCACAACGGCGAATCTTGCT-TCCCCGAC-ATTGCAGTTA-AAA
*
36976726 AGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGA
1 AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGA
36976762 TATCACAGTT
Statistics
Matches: 200, Mismatches: 81, Indels: 9
0.69 0.28 0.03
Matches are distributed among these distances:
49 34 0.17
50 132 0.66
51 34 0.17
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.22
Consensus pattern (50 bp):
AGATTAAAGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAA
Found at i:36976584 original size:99 final size:96
Alignment explanation
Indices: 36976421--36976773 Score: 348
Period size: 99 Copynumber: 3.5 Consensus size: 96
36976411 GCGATGCCGT
* *
36976421 GGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAATATTAAAGC
1 GGAACAGATTAAAGCCACAACGGTGAATCTTGCTT-CCCGACATTACAGTTAAAAAGATTAAAGC
36976486 CACAGCGGCGAATCCTACCTCTC-GGTGATGCAG
65 CACAGCGGCGAAT-CTACCTCTCAGGT-ATGCAG
* * * * *
36976519 CGGAACAGATTAAAGCCACAACGGTGAACCTTGCCTCCATGACATTACGGTTAAAAAGACTAAAG
1 -GGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCC-CGACATTACAGTTAAAAAGATTAAAG
* * * * * *
36976584 CCACAGCGGCGAGTGTTACTTCCCTGGCAATGCAG
64 CCACAGCGGCGAAT-CTACCTCTCAGG-TATGCAG
* * * *
36976619 TGAAGCAGATTAAAGCCACAATGGCGAATCTTGCTTTCCCGACATTACAGTTAAAAGGATTAAAG
1 GGAA-CAGATTAAAGCCACAACGGTGAATCTTGC-TTCCCGACATTACAGTTAAAAAGATTAAAG
* * * * *
36976684 TCACAACGACGAATCTCACTCTTTCAGCTAGTGCAG
64 CCACAGCGGCGAATCT-AC-CTCTCAGGTA-TGCAG
* * *
36976720 TAGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGATATCACAGTTAA
1 -GGAACAGATTAAAGCCACAACGGTGAATCTTGCTT-CCCGACATTACAGTTAA
36976774 GTAGATTTAC
Statistics
Matches: 206, Mismatches: 38, Indels: 18
0.79 0.15 0.07
Matches are distributed among these distances:
98 2 0.01
99 77 0.37
100 71 0.34
101 53 0.26
102 3 0.01
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (96 bp):
GGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCGACATTACAGTTAAAAAGATTAAAGCC
ACAGCGGCGAATCTACCTCTCAGGTATGCAG
Found at i:36978215 original size:3 final size:3
Alignment explanation
Indices: 36978207--36978240 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
36978197 TTTAGTTTAA
* *
36978207 TAT TAT TAT TAC TAT TAT TAT TAT TAG TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
36978241 TTTTATCAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:36984329 original size:20 final size:21
Alignment explanation
Indices: 36984301--36984343 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
36984291 TACTGTTACT
36984301 ATCAAAAAGTATTT-TTTTAG
1 ATCAAAAAGTATTTATTTTAG
* *
36984321 ATCATAAAGTGTTTATTTTAG
1 ATCAAAAAGTATTTATTTTAG
36984342 AT
1 AT
36984344 ATTATATTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.37, C:0.05, G:0.12, T:0.47
Consensus pattern (21 bp):
ATCAAAAAGTATTTATTTTAG
Found at i:36986045 original size:30 final size:31
Alignment explanation
Indices: 36985993--36986050 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
36985983 TGTTGATACG
* *
36985993 GAGGGCTTAATTGACTTTTTAATTATTTTAT
1 GAGGGCTTAATTCACATTTTAATTATTTTAT
36986024 GAGGGCTTAATTCA-ATTTTAATTATTT
1 GAGGGCTTAATTCACATTTTAATTATTT
36986051 AAGCCTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.28, C:0.07, G:0.16, T:0.50
Consensus pattern (31 bp):
GAGGGCTTAATTCACATTTTAATTATTTTAT
Found at i:36986115 original size:20 final size:20
Alignment explanation
Indices: 36986087--36986126 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
36986077 ACAAATCTAG
*
36986087 AAAATTATAAAAATTATAAA
1 AAAACTATAAAAATTATAAA
*
36986107 AAAACTATAAATATTATAAA
1 AAAACTATAAAAATTATAAA
36986127 TTAAATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (20 bp):
AAAACTATAAAAATTATAAA
Found at i:36986122 original size:29 final size:29
Alignment explanation
Indices: 36986065--36986177 Score: 84
Period size: 28 Copynumber: 4.1 Consensus size: 29
36986055 CTAAAACTAT
* * *
36986065 TAAAATATTATAACAAATCTAGAAA-ATTA
1 TAAAA-ATTATAAAAAAACTATAAATATTA
36986094 TAAAAATTATAAAAAAACTATAAATATTA
1 TAAAAATTATAAAAAAACTATAAATATTA
*
36986123 TAAATTAAAT-TAAAAAAA-TAT---T-TTA
1 TAAA--AATTATAAAAAAACTATAAATATTA
36986148 TAAAAA-TAT-AAAAAAC-ATAAACTATTA
1 TAAAAATTATAAAAAAACTATAAA-TATTA
36986175 TAA
1 TAA
36986178 TTTATTGAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 22
0.73 0.04 0.23
Matches are distributed among these distances:
22 9 0.13
23 3 0.04
25 7 0.10
26 2 0.03
27 6 0.09
28 16 0.23
29 16 0.23
30 8 0.11
31 3 0.04
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32
Consensus pattern (29 bp):
TAAAAATTATAAAAAAACTATAAATATTA
Found at i:36986289 original size:97 final size:98
Alignment explanation
Indices: 36986095--36986303 Score: 377
Period size: 97 Copynumber: 2.1 Consensus size: 98
36986085 AGAAAATTAT
36986095 AAAAATTATAAAAAAACTATAAATATTATAAATTAAATTAAAAAAATATTTTATAAAAATATAAA
1 AAAAATTAT-AAAAAACTATAAATATTATAAATTAAATTAAAAAAATATTTTATAAAAATATAAA
36986160 AAACATAAACTATTATAATTTATTGAAAATATGG
65 AAACATAAACTATTATAATTTATTGAAAATATGG
36986194 AAAAAATTATAAAAAACTATAAATATTATAAATTAAATT-AAAAAATATTTTATAAAAATAT-AA
1 -AAAAATTATAAAAAACTATAAATATTATAAATTAAATTAAAAAAATATTTTATAAAAATATAAA
36986257 AAACATAAACTATTATAATTTATTGAAAATATGG
65 AAACATAAACTATTATAATTTATTGAAAATATGG
*
36986291 AAAAATGATAAAA
1 AAAAATTATAAAA
36986304 GCTTACAAAA
Statistics
Matches: 108, Mismatches: 1, Indels: 4
0.96 0.01 0.04
Matches are distributed among these distances:
96 12 0.11
97 36 0.33
98 22 0.20
99 29 0.27
100 9 0.08
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (98 bp):
AAAAATTATAAAAAACTATAAATATTATAAATTAAATTAAAAAAATATTTTATAAAAATATAAAA
AACATAAACTATTATAATTTATTGAAAATATGG
Found at i:36986384 original size:9 final size:9
Alignment explanation
Indices: 36986371--36986463 Score: 60
Period size: 9 Copynumber: 9.6 Consensus size: 9
36986361 GAAATTAAAG
36986371 AAAAATTATT
1 AAAAATTA-T
36986381 AAAAATTAT
1 AAAAATTAT
*
36986390 AAAAAACTAT
1 -AAAAATTAT
36986400 AAAAAAGTTAT
1 -AAAAA-TTAT
*
36986411 ACATAATCATAT
1 A-AAAAT--TAT
36986423 AAAAATTAT
1 AAAAATTAT
* *
36986432 TAAAATGAT
1 AAAAATTAT
**
36986441 AAAAAAAAT
1 AAAAATTAT
*
36986450 AAAAATTAC
1 AAAAATTAT
36986459 AAAAA
1 AAAAA
36986464 AAACTATTAT
Statistics
Matches: 66, Mismatches: 12, Indels: 11
0.74 0.13 0.12
Matches are distributed among these distances:
9 28 0.42
10 24 0.36
11 10 0.15
12 4 0.06
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (9 bp):
AAAAATTAT
Found at i:36986446 original size:10 final size:10
Alignment explanation
Indices: 36986371--36986464 Score: 68
Period size: 10 Copynumber: 9.5 Consensus size: 10
36986361 GAAATTAAAG
*
36986371 AAAAATTATT
1 AAAAATTATA
36986381 AAAAATTATA
1 AAAAATTATA
*
36986391 AAAAACTATA
1 AAAAATTATA
36986401 AAAAAGTTATA
1 AAAAA-TTATA
* * *
36986412 CATAATCATA
1 AAAAATTATA
36986422 TAAAAATTAT-
1 -AAAAATTATA
* *
36986432 TAAAATGATA
1 AAAAATTATA
*
36986442 AAAAA-AAT-
1 AAAAATTATA
*
36986450 AAAAATTACA
1 AAAAATTATA
36986460 AAAAA
1 AAAAA
36986465 AACTATTATA
Statistics
Matches: 64, Mismatches: 15, Indels: 10
0.72 0.17 0.11
Matches are distributed among these distances:
8 5 0.08
9 10 0.16
10 36 0.56
11 13 0.20
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (10 bp):
AAAAATTATA
Found at i:36986765 original size:19 final size:18
Alignment explanation
Indices: 36986741--36986794 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 18
36986731 TATTACTTTT
36986741 TATTAAAAAATTACTAAAA
1 TATTAAAAAATTA-TAAAA
*
36986760 TATTAAAATA-T-TAAAA
1 TATTAAAAAATTATAAAA
36986776 TATTATAAAAATTATAAAA
1 TATTA-AAAAATTATAAAA
36986795 AATATTTAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
16 10 0.33
17 4 0.13
18 2 0.07
19 14 0.47
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
TATTAAAAAATTATAAAA
Found at i:36986766 original size:8 final size:8
Alignment explanation
Indices: 36986755--36986780 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
36986745 AAAAAATTAC
36986755 TAAAATAT
1 TAAAATAT
36986763 TAAAATAT
1 TAAAATAT
36986771 TAAAATAT
1 TAAAATAT
36986779 TA
1 TA
36986781 TAAAAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TAAAATAT
Found at i:36986883 original size:12 final size:12
Alignment explanation
Indices: 36986866--36986893 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
36986856 ATTTTGTTAC
36986866 GAGTATCTTATT
1 GAGTATCTTATT
36986878 GAGTATCTTATT
1 GAGTATCTTATT
36986890 GAGT
1 GAGT
36986894 GGATGTCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.07, G:0.21, T:0.46
Consensus pattern (12 bp):
GAGTATCTTATT
Found at i:36992991 original size:27 final size:27
Alignment explanation
Indices: 36992932--36993003 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
36992922 CCCAAACTGG
36992932 TATAAAATGACTTATATGCCCCCATGT
1 TATAAAATGACTTATATGCCCCCATGT
** * *
36992959 GGTAAAATGACTGT-TATTCCCCTATGT
1 TATAAAATGACT-TATATGCCCCCATGT
*
36992986 TATAAAACGAC-TATATGC
1 TATAAAATGACTTATATGC
36993004 TCTATGTTAT
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
25 1 0.03
26 4 0.11
27 29 0.83
28 1 0.03
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (27 bp):
TATAAAATGACTTATATGCCCCCATGT
Found at i:36993245 original size:22 final size:22
Alignment explanation
Indices: 36993201--36993245 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
36993191 TCCCCACATG
*
36993201 GAGTGTTGGGCTGAATGGAGTA
1 GAGTGTAGGGCTGAATGGAGTA
*
36993223 GAGTGTAGAGGCTGATTGG-GTA
1 GAGTGTAG-GGCTGAATGGAGTA
36993245 G
1 G
36993246 GATTTCTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.22, C:0.04, G:0.47, T:0.27
Consensus pattern (22 bp):
GAGTGTAGGGCTGAATGGAGTA
Found at i:36994298 original size:14 final size:15
Alignment explanation
Indices: 36994268--36994301 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
36994258 TTAAATATTA
*
36994268 AAATATGTTATAAAT
1 AAATATATTATAAAT
36994283 AAATATATTA-AAAT
1 AAATATATTATAAAT
36994297 AAATA
1 AAATA
36994302 CTAAATTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (15 bp):
AAATATATTATAAAT
Found at i:36994433 original size:6 final size:6
Alignment explanation
Indices: 36994418--36994482 Score: 67
Period size: 6 Copynumber: 10.5 Consensus size: 6
36994408 ATTGAAATTC
* * *
36994418 AAAAAA AAAAAT AAAAAT AAAAAT AAAAAT AAAACACT ACAAAT AGAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA-A-T AAAAAT AAAAAT
**
36994468 AAAAGG AAAAAT AAA
1 AAAAAT AAAAAT AAA
36994483 GATGAACTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
6 43 0.88
7 2 0.04
8 4 0.08
ACGTcount: A:0.78, C:0.05, G:0.05, T:0.12
Consensus pattern (6 bp):
AAAAAT
Found at i:36994451 original size:26 final size:25
Alignment explanation
Indices: 36994418--36994471 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
36994408 ATTGAAATTC
36994418 AAAAAAAAAAATAAAAATAAAAATA
1 AAAAAAAAAAATAAAAATAAAAATA
* * * *
36994443 AAAATAAAACACTACAAATAGAAATA
1 AAAA-AAAAAAATAAAAATAAAAATA
36994469 AAA
1 AAA
36994472 GGAAAAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 4 0.17
26 20 0.83
ACGTcount: A:0.80, C:0.06, G:0.02, T:0.13
Consensus pattern (25 bp):
AAAAAAAAAAATAAAAATAAAAATA
Found at i:36996405 original size:213 final size:212
Alignment explanation
Indices: 36995964--36996527 Score: 765
Period size: 213 Copynumber: 2.6 Consensus size: 212
36995954 TCTAGTCGGC
** * * * *
36995964 AAGACCTGATGCGATCTGCTCTACTACAACTTCAGAGAGATAAGATTTGTTACTTTAACCCACTC
1 AAGACCTGATGCGATCCACTCTACTACAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
* * * * * *
36996029 CACTACAACTTCCGGGAGATAGGATTATTGACTTCAATCTG-TTCCATTGCAACCTTAGGGAGAT
66 CACTACAACTTCAGGGAGATAGGATTATCGGCTTAAATCTGCTTCC-TTAC-A-CTT--GAAGAT
** * * * *
36996093 AAGATTTTCTTCTTCGGTCTGCCCCACTATGACTTTAGGGGGATAAGACTTGTTTCCTCAATCTG
126 AAGATTCGCTTCTTCAGTCTGCCCCACTATGACTTCAGGGGGACAAGACTTGTTTACTCAATCTG
*
36996158 CTCTACTGCAACCTTAGGGAGAT
191 CTCTAC-GCAACCTTAAGGAGAT
* * *
36996181 AAGACCTGATGCGATCCACTCTACCACAACTTCGGAGAGATAAGGTCTATTACTTTAATCCGCTC
1 AAGACCTGATGCGATCCACTCTACTACAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
*
36996246 CACTACAACTTTAGGGAGATAGGATTATCGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGAT
66 CACTACAACTTCAGGGAGATAGGATTATCGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGAT
* **
36996311 TCGCTTCTTCAGTCTGCCCCACTGTGACTTCAGGGGGACAAGACTTGTTTACTCGGTCTGCTCCG
131 TCGCTTCTTCAGTCTGCCCCACTATGACTTCAGGGGGACAAGACTTGTTTACTCAATCTGCT-C-
36996376 TA-GCAA-CTTCAAGGAGAT
194 TACGCAACCTT-AAGGAGAT
* *
36996394 AAGACCTGATGCGATCCACTCTACTGCAACCTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
1 AAGACCTGATGCGATCCACTCTACTACAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
*
36996459 CACTACAACTTCAGGGAGATAGGATTATCGGCTTAAATCTACTTCCTTACACTTGAAGATAAGAT
66 CACTACAACTTCAGGGAGATAGGATTATCGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGAT
36996524 TCGC
131 TCGC
36996528 CATCTTCGAT
Statistics
Matches: 310, Mismatches: 33, Indels: 12
0.87 0.09 0.03
Matches are distributed among these distances:
212 3 0.01
213 201 0.65
214 1 0.00
215 5 0.02
216 1 0.00
217 95 0.31
218 4 0.01
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (212 bp):
AAGACCTGATGCGATCCACTCTACTACAACTTCAGAGAGATAAGATCTATTACTTTAATCCGCTC
CACTACAACTTCAGGGAGATAGGATTATCGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGAT
TCGCTTCTTCAGTCTGCCCCACTATGACTTCAGGGGGACAAGACTTGTTTACTCAATCTGCTCTA
CGCAACCTTAAGGAGAT
Found at i:36996620 original size:128 final size:128
Alignment explanation
Indices: 36996470--36996873 Score: 666
Period size: 128 Copynumber: 3.1 Consensus size: 128
36996460 ACTACAACTT
* * * *
36996470 CAGGGAGATAGGA-TTATCGGCTTAAATCTACTTCCTTACACTTGAAGATAAGATTCGCCATCTT
1 CAGGGACATAGGACTTGT-GGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTT
* * *
36996534 CGATCTGCTTCGCTACTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTACTGAC
65 CGATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
*
36996598 CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTT
1 CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* *
36996663 GATCTGCTCCGTTATTGCTTAGGGAGACAAGATCTGTAATTTCCAATCTACTCCACTGCTGAC
66 GATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
36996726 CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
1 CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
* * *
36996791 GATCTGCTCCGCTATTGCTTAGGAAGACAATATCTGTAATTTCCCAACCTATTCCACTGCTGAC
66 GATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTT-CCAACCTACTCCACTGCTGAC
36996855 CAGGGACATAGGACTTGTG
1 CAGGGACATAGGACTTGTG
36996874 ATTTCATTGA
Statistics
Matches: 258, Mismatches: 16, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
128 217 0.84
129 41 0.16
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (128 bp):
CAGGGACATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTC
GATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCAACCTACTCCACTGCTGAC
Found at i:36998114 original size:7 final size:7
Alignment explanation
Indices: 36998102--36998142 Score: 66
Period size: 7 Copynumber: 5.9 Consensus size: 7
36998092 AGCCTCTCCA
36998102 TTTTCAT
1 TTTTCAT
36998109 TTTTCAT
1 TTTTCAT
36998116 TTTTCA-
1 TTTTCAT
36998122 TTTTCATT
1 TTTTCA-T
36998130 TTTTCAT
1 TTTTCAT
36998137 TTTTCA
1 TTTTCA
36998143 AACATTTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
6 6 0.19
7 20 0.62
8 6 0.19
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTCAT
Found at i:36998134 original size:21 final size:20
Alignment explanation
Indices: 36998100--36998142 Score: 77
Period size: 21 Copynumber: 2.1 Consensus size: 20
36998090 TTAGCCTCTC
36998100 CATTTTCATTTTTCATTTTT
1 CATTTTCATTTTTCATTTTT
36998120 CATTTTCATTTTTTCATTTTT
1 CATTTTCA-TTTTTCATTTTT
36998141 CA
1 CA
36998143 AACATTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.67
Consensus pattern (20 bp):
CATTTTCATTTTTCATTTTT
Found at i:36999052 original size:6 final size:6
Alignment explanation
Indices: 36999030--36999069 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
36999020 TCTTCTCTCT
* * *
36999030 TTTTCA TTTTCA TTTTGA CTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
36999070 CTTTTTCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.15, C:0.07, G:0.10, T:0.68
Consensus pattern (6 bp):
TTTTGA
Found at i:36999075 original size:18 final size:18
Alignment explanation
Indices: 36999030--36999080 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
36999020 TCTTCTCTCT
36999030 TTTTCATTTTCATTTTGA
1 TTTTCATTTTCATTTTGA
* * *
36999048 CTTTGATTTTGATTTTGA
1 TTTTCATTTTCATTTTGA
*
36999066 TTTTCTTTTTC-TTTT
1 TTTTCATTTTCATTTT
36999081 TTTTGAGATT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
17 4 0.15
18 22 0.85
ACGTcount: A:0.12, C:0.10, G:0.08, T:0.71
Consensus pattern (18 bp):
TTTTCATTTTCATTTTGA
Found at i:36999859 original size:18 final size:20
Alignment explanation
Indices: 36999838--36999874 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
36999828 TTGGAAAAAA
36999838 ATTC-AAAAGAAT-AAAATT
1 ATTCGAAAAGAATGAAAATT
*
36999856 ATTCGTAAAGAATGAAAAT
1 ATTCGAAAAGAATGAAAAT
36999875 ATTGACTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 4 0.25
19 7 0.44
20 5 0.31
ACGTcount: A:0.57, C:0.05, G:0.11, T:0.27
Consensus pattern (20 bp):
ATTCGAAAAGAATGAAAATT
Found at i:37001260 original size:73 final size:73
Alignment explanation
Indices: 37001141--37001286 Score: 283
Period size: 73 Copynumber: 2.0 Consensus size: 73
37001131 AGGGAGTTGG
*
37001141 AACGTCGAAGGCTCTTAAACAATCGCCTTGAATCCTCAGGCCACGAAGCAGGGTCAGGAACTCTT
1 AACGTCGAAGGCTCTTAAACAATCGCCTTGAATCCTCAGGCCACGAAGCAGGGTCACGAACTCTT
37001206 CCATCGCT
66 CCATCGCT
37001214 AACGTCGAAGGCTCTTAAACAATCGCCTTGAATCCTCAGGCCACGAAGCAGGGTCACGAACTCTT
1 AACGTCGAAGGCTCTTAAACAATCGCCTTGAATCCTCAGGCCACGAAGCAGGGTCACGAACTCTT
37001279 CCATCGCT
66 CCATCGCT
37001287 CTTCTTGTGT
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.21
Consensus pattern (73 bp):
AACGTCGAAGGCTCTTAAACAATCGCCTTGAATCCTCAGGCCACGAAGCAGGGTCACGAACTCTT
CCATCGCT
Found at i:37003303 original size:3 final size:3
Alignment explanation
Indices: 37003295--37003331 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
37003285 ATAAAGGAGA
37003295 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
37003332 GGATTAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:37003369 original size:6 final size:6
Alignment explanation
Indices: 37003358--37003416 Score: 66
Period size: 6 Copynumber: 9.5 Consensus size: 6
37003348 TGGAATTCAA
* *
37003358 AAAAAT AAAAAT AAAAAT AAAAAT AAAACACT ACAAAT AGAAAT AAAAGA-
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA-A-T AAAAAT AAAAAT AAAA-AT
37003408 AAAAAT AAA
1 AAAAAT AAA
37003417 GATGACCTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
5 1 0.02
6 38 0.83
7 3 0.07
8 4 0.09
ACGTcount: A:0.78, C:0.05, G:0.03, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:37003385 original size:26 final size:26
Alignment explanation
Indices: 37003356--37003405 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
37003346 ATTGGAATTC
37003356 AAAAAAATAAAAATAAAAATAAAAAT
1 AAAAAAATAAAAATAAAAATAAAAAT
* * * *
37003382 AAAACACTACAAATAGAAATAAAA
1 AAAAAAATAAAAATAAAAATAAAA
37003406 GAAAAAATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.78, C:0.06, G:0.02, T:0.14
Consensus pattern (26 bp):
AAAAAAATAAAAATAAAAATAAAAAT
Found at i:37004843 original size:14 final size:16
Alignment explanation
Indices: 37004796--37004843 Score: 55
Period size: 17 Copynumber: 3.1 Consensus size: 16
37004786 AAATACGTTC
*
37004796 TCTCTTTGCTCTCATAT
1 TCTCTTTGCTCT-TTAT
*
37004813 TCTCTTTGTTCTTTAT
1 TCTCTTTGCTCTTTAT
37004829 TCTCTTT-CT-TTTAT
1 TCTCTTTGCTCTTTAT
37004843 T
1 T
37004844 TTATAACATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 6 0.21
15 1 0.04
16 10 0.36
17 11 0.39
ACGTcount: A:0.08, C:0.23, G:0.04, T:0.65
Consensus pattern (16 bp):
TCTCTTTGCTCTTTAT
Found at i:37005304 original size:4 final size:4
Alignment explanation
Indices: 37005295--37005344 Score: 57
Period size: 4 Copynumber: 12.0 Consensus size: 4
37005285 AGAGGAATAA
*
37005295 AAAT AAAT AAAAT AAAT AAAT AAAT AAAT AAAAT TAA- AAAT AAAAT AAAT
1 AAAT AAAT -AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT -AAAT AAAT
37005345 TTGTAAACCA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
3 2 0.05
4 26 0.65
5 12 0.30
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:37005317 original size:17 final size:17
Alignment explanation
Indices: 37005295--37005344 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 17
37005285 AGAGGAATAA
37005295 AAATAAATAAAATAAAT
1 AAATAAATAAAATAAAT
37005312 AAATAAAT-AAATAAAAT
1 AAATAAATAAAAT-AAAT
*
37005329 TAA-AAATAAAATAAAT
1 AAATAAATAAAATAAAT
37005345 TTGTAAACCA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 12 0.40
17 18 0.60
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAAATAAAATAAAT
Found at i:37005321 original size:21 final size:21
Alignment explanation
Indices: 37005294--37005344 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
37005284 TAGAGGAATA
37005294 AAAATAAATAAAATAAATAAAT
1 AAAATAAATAAAATAAA-AAAT
*
37005316 -AAATAAATAAAATTAAAAAT
1 AAAATAAATAAAATAAAAAAT
37005336 AAAATAAAT
1 AAAATAAAT
37005345 TTGTAAACCA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 4 0.15
21 23 0.85
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAATAAATAAAATAAAAAAT
Found at i:37006580 original size:50 final size:50
Alignment explanation
Indices: 37006505--37006689 Score: 219
Period size: 51 Copynumber: 3.7 Consensus size: 50
37006495 GAAGTTGCTT
*
37006505 GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATG-ATA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAG-ATGAATA
* * ** *
37006555 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGCTTC
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAT-GAATA
* ** * *
37006606 GATCATGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGAAAA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATGAATA
* *
37006656 TGGTCACATGTATAGTACTATGTGCATGCTACTA
1 -GGTCACATGTGTAGTACTATGTGCAGGCTACTA
37006690 TGTGAACCGG
Statistics
Matches: 112, Mismatches: 20, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
49 2 0.02
50 42 0.38
51 68 0.61
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATGAATA
Found at i:37006591 original size:26 final size:26
Alignment explanation
Indices: 37006512--37006593 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
37006502 CTTGGTCACG
37006512 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* ** **
37006538 CGTGTACCAGAATGAT--AGG-TCAC-A
1 TGTGTAGTACTATG-TGCAGGCT-ACTA
37006562 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
37006588 TGTGTA
1 TGTGTA
37006594 CCGGATAGCT
Statistics
Matches: 40, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
23 1 0.03
24 11 0.28
25 10 0.25
26 17 0.43
27 1 0.03
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:37006691 original size:102 final size:101
Alignment explanation
Indices: 37006511--37006699 Score: 308
Period size: 102 Copynumber: 1.9 Consensus size: 101
37006501 GCTTGGTCAC
* *
37006511 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTACTATG
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGAAAGGTCACATGTATAGTACTATG
*
37006576 TGCAGGCTACTATGTGTACCGGATAGCTTCGATCAT
66 TGCAGGCTACTATGTGAACCGGATAGCTTCGATCAT
*
37006612 GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAG-ATGAAAATGGTCACATGTATAGTACTA
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATG-AAA-GGTCACATGTATAGTACTA
*
37006676 TGTGCATGCTACTATGTGAACCGG
64 TGTGCAGGCTACTATGTGAACCGG
37006700 GTATCATTAA
Statistics
Matches: 81, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
100 3 0.04
101 38 0.47
102 40 0.49
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (101 bp):
GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGAAAGGTCACATGTATAGTACTATG
TGCAGGCTACTATGTGAACCGGATAGCTTCGATCAT
Found at i:37010929 original size:137 final size:137
Alignment explanation
Indices: 37010683--37010960 Score: 520
Period size: 137 Copynumber: 2.0 Consensus size: 137
37010673 CTGGTTCCTA
37010683 GATGATATATGATGTGTATATTGGGAAGAACCATTTCTTCTCTTCTTTATTTATTTAAAAAAAGA
1 GATGATATATGATGTGTATATTGGGAAGAACCATTTCTTCTCTTCTTTATTTATTTAAAAAAAGA
* * *
37010748 AAAGCATAAGAAATTTGTGGTGAAAATGGTATCTTATGTAAGATCTTTCCAAATGAGAATTTACA
66 AAAGAACAAGAAATTTGTGGTGAAAATGGTATCTTATGTAAGATCTTTCCAAATAAGAATTTACA
37010813 TGGCCCT
131 TGGCCCT
*
37010820 GATGATATATGATGTGTATATTGGGAAGAACCATTTCTTCTCTTCTTTATTTATTTTAAAAAAGA
1 GATGATATATGATGTGTATATTGGGAAGAACCATTTCTTCTCTTCTTTATTTATTTAAAAAAAGA
37010885 AAAGAACAAGAAATTTGTGGTGAAAATGGTATCTTATGTAAGATCTTTCCAAATAAGAATTTACA
66 AAAGAACAAGAAATTTGTGGTGAAAATGGTATCTTATGTAAGATCTTTCCAAATAAGAATTTACA
37010950 TGGCCCT
131 TGGCCCT
37010957 GATG
1 GATG
37010961 GTTGCATTTC
Statistics
Matches: 137, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 137 1.00
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (137 bp):
GATGATATATGATGTGTATATTGGGAAGAACCATTTCTTCTCTTCTTTATTTATTTAAAAAAAGA
AAAGAACAAGAAATTTGTGGTGAAAATGGTATCTTATGTAAGATCTTTCCAAATAAGAATTTACA
TGGCCCT
Found at i:37014541 original size:15 final size:15
Alignment explanation
Indices: 37014506--37014557 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
37014496 TTAAGAATTT
*
37014506 TATTAAATTAT-ATA
1 TATTTAATTATAATA
37014520 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
37014534 TATTTAATAATAAT-
1 TATTTAATTATAATA
37014548 TATGTTAATT
1 TAT-TTAATT
37014558 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:37014591 original size:120 final size:120
Alignment explanation
Indices: 37014444--37014673 Score: 460
Period size: 120 Copynumber: 1.9 Consensus size: 120
37014434 TTTGAGTAAA
37014444 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
37014509 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
66 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
37014564 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
1 TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
37014629 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
66 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
37014674 TAAATATGAT
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 110 1.00
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.50
Consensus pattern (120 bp):
TTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATT
Found at i:37014639 original size:61 final size:61
Alignment explanation
Indices: 37014454--37014641 Score: 208
Period size: 61 Copynumber: 3.1 Consensus size: 61
37014444 TTATAGTATC
37014454 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * * * * * * *
37014515 ATATATTTTAATTAT-AATATATTTA-ATAATAAT-TATG-TTAATTTA-TATTTTA-TAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAATAT-TGATT-ATTAAGAATTTTATTA-AATT
37014574 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
37014635 ATATATT
1 ATATATT
37014642 TTAATTATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 20
0.71 0.15 0.15
Matches are distributed among these distances:
58 3 0.03
59 29 0.30
60 26 0.27
61 36 0.37
62 3 0.03
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
Found at i:37014656 original size:16 final size:16
Alignment explanation
Indices: 37014635--37014676 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
37014625 TTATTAAATT
*
37014635 ATATATTTTAATTATA
1 ATATATTTTAATAATA
37014651 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
37014666 AT-TATGTTTAA
1 ATATAT-TTTAA
37014677 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:37014661 original size:15 final size:15
Alignment explanation
Indices: 37014626--37014667 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
37014616 TTAAGAATTT
*
37014626 TATTAAATTAT-ATA
1 TATTTAATTATAATA
37014640 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
37014654 TATTTAATAATAAT
1 TATTTAATTATAAT
37014668 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:37014916 original size:16 final size:16
Alignment explanation
Indices: 37014895--37014959 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
37014885 TTGCTATTAT
*
37014895 ACCTCTATTCCAATAC
1 ACCTCTAATCCAATAC
*
37014911 ACCTCTAATCCATTAC
1 ACCTCTAATCCAATAC
37014927 ACCTCTAATCCAATAC
1 ACCTCTAATCCAATAC
37014943 ACCTCTAATCCAATAC
1 ACCTCTAATCCAATAC
37014959 A
1 A
37014960 ACGAACCAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
ACCTCTAATCCAATAC
Found at i:37016254 original size:14 final size:14
Alignment explanation
Indices: 37016237--37016269 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
37016227 AATGTTATTT
37016237 ATTTTAATTAAATA
1 ATTTTAATTAAATA
*
37016251 ATTTTAATTAAATT
1 ATTTTAATTAAATA
37016265 ATTTT
1 ATTTT
37016270 CTCAACCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTTTAATTAAATA
Found at i:37020582 original size:59 final size:58
Alignment explanation
Indices: 37020402--37020685 Score: 150
Period size: 59 Copynumber: 4.7 Consensus size: 58
37020392 ATAATAAATT
* ** * *
37020402 ATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATT
1 ATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTATATTTTATAGTATC
* * * * * * * *
37020461 ATATATTATGATTTTAGAA-A-A-TTCATATAAGAATATTTAATATTAAGAATTTTATTA-AATC
1 ATATATT-TTA-ATTAAAATATATTTAATATTA-ATTATTTAA-ATT-A-TATTTTA-TAGTATC
37020522 ATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGTATC
1 ATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTATATTTTATAGTATC
* * ** * * * *
37020581 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATT-T-TATTATA-AAT
1 ATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATATTTTATAGTAT
*
37020643 T
58 C
*
37020644 ATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAA
37020686 ATATGATTAA
Statistics
Matches: 167, Mismatches: 37, Indels: 45
0.67 0.15 0.18
Matches are distributed among these distances:
56 12 0.07
57 6 0.04
58 13 0.08
59 39 0.23
60 11 0.07
61 30 0.18
62 15 0.09
63 12 0.07
64 7 0.04
65 6 0.04
66 16 0.10
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (58 bp):
ATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATATTTTATAGTATC
Found at i:37020609 original size:120 final size:122
Alignment explanation
Indices: 37020395--37020685 Score: 462
Period size: 120 Copynumber: 2.4 Consensus size: 122
37020385 TAGTATGATA
* **
37020395 ATAAATTATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
* * *
37020460 TATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTA-T
66 CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
* *
37020516 -TAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTATAGTA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTA
* *
37020579 TCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATT
65 TCATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
37020637 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
1 ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAA
37020686 ATATGATTAA
Statistics
Matches: 154, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
119 2 0.01
120 106 0.69
121 1 0.01
122 43 0.28
123 2 0.01
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (122 bp):
ATAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTAT
CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTATT
Found at i:37020664 original size:18 final size:19
Alignment explanation
Indices: 37020629--37020665 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
37020619 ATTATTAAGA
37020629 ATTTTATTATAAATTATAT
1 ATTTTATTATAAATTATAT
37020648 ATTTTAATTA-AAA-TATAT
1 ATTTT-ATTATAAATTATAT
37020666 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 5 0.29
19 8 0.47
20 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTATTATAAATTATAT
Found at i:37020854 original size:39 final size:40
Alignment explanation
Indices: 37020811--37020915 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
37020801 TTCCCTTATG
37020811 CTATTACACCTCTATTCCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
* *** *
37020850 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTATT-C----CATTCAACCAAACACAAGATTTA
37020895 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTCCATT
37020916 ACACCTCTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
39 15 0.28
40 5 0.09
44 17 0.31
45 17 0.31
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (40 bp):
CTATTACACCTCTATTCCATTCAACCAAACACAAGATTTA
Found at i:37020909 original size:45 final size:44
Alignment explanation
Indices: 37020809--37020918 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
37020799 TTTTCCCTTA
37020809 TGCTATTACACCTCTATT-C----CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
37020848 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
37020893 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
37020919 CCTCTATTCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:37020918 original size:16 final size:16
Alignment explanation
Indices: 37020897--37020945 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
37020887 TTGATTTGCT
37020897 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
37020913 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
* *
37020929 ATTACGCCTCTAATCC
1 ATTACACCTCTATTCC
37020945 A
1 A
37020946 ATATAGCGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.27, C:0.37, G:0.02, T:0.35
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:37021383 original size:21 final size:21
Alignment explanation
Indices: 37021353--37021398 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
37021343 TTAAACCTAA
* *
37021353 TTAATTAAGT-TAATAAAATAC
1 TTAATCAAGTATAA-AAAAAAC
37021374 TTAATCAAGTATAAAAAAAAC
1 TTAATCAAGTATAAAAAAAAC
37021395 TTAA
1 TTAA
37021399 GTGGAATGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (21 bp):
TTAATCAAGTATAAAAAAAAC
Found at i:37035829 original size:21 final size:20
Alignment explanation
Indices: 37035783--37035831 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
37035773 ATCATAATAT
37035783 AGGGTTCGCACATGATATAAC
1 AGGGTTCGCACA-GATATAAC
*
37035804 TGGGTTCGCACA-ATATGCAAC
1 AGGGTTCGCACAGATAT--AAC
37035825 AGGGTTC
1 AGGGTTC
37035832 ACAGATCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 4 0.17
21 20 0.83
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (20 bp):
AGGGTTCGCACAGATATAAC
Found at i:37036954 original size:21 final size:21
Alignment explanation
Indices: 37036912--37036954 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
37036902 ATAAATCCCA
*
37036912 TTTCAATTAAAACTCTTTATT
1 TTTCAATTAAAACTCTTAATT
*
37036933 TTTCACATTTAAACTC-TAATT
1 TTTCA-ATTAAAACTCTTAATT
37036954 T
1 T
37036955 AAAATTTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTCAATTAAAACTCTTAATT
Found at i:37048645 original size:17 final size:16
Alignment explanation
Indices: 37048619--37048650 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
37048609 CTAATCTGTT
37048619 TAAATGTAAATACTTG
1 TAAATGTAAATACTTG
37048635 TAAATTGTAAATACTT
1 TAAA-TGTAAATACTT
37048651 CGATCCAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.44, C:0.06, G:0.09, T:0.41
Consensus pattern (16 bp):
TAAATGTAAATACTTG
Found at i:37048737 original size:12 final size:12
Alignment explanation
Indices: 37048722--37048747 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37048712 CTTTTTTCCA
37048722 TTTTATTTTGTT
1 TTTTATTTTGTT
37048734 TTTTATTTTGTT
1 TTTTATTTTGTT
37048746 TT
1 TT
37048748 GCTTGCTTGA
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:0.08, C:0.00, G:0.08, T:0.85
Consensus pattern (12 bp):
TTTTATTTTGTT
Found at i:37051185 original size:40 final size:40
Alignment explanation
Indices: 37051141--37051404 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
37051131 GCTCCTCGTT
* *
37051141 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
37051181 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
37051221 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
37051261 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
37051301 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
37051340 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
37051381 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37051405 CATCATTCAA
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 146 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:37059414 original size:40 final size:40
Alignment explanation
Indices: 37059370--37059518 Score: 262
Period size: 40 Copynumber: 3.7 Consensus size: 40
37059360 GCAAACACAT
* * * *
37059370 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
37059410 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
37059450 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
37059490 TTGCCTTCGGGTCTTAGCCCGGATATATT
1 TTGCCTTCGGGTCTTAGCCCGGATATATT
37059519 CCAATGCTCA
Statistics
Matches: 105, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 105 1.00
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
Found at i:37067859 original size:18 final size:18
Alignment explanation
Indices: 37067834--37067873 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
37067824 ATTTTTTTGG
*
37067834 TTTTTTTTCTTTATTTAATC
1 TTTTTTTTC--TATTGAATC
37067854 TTTTTTTTCTATTGAATC
1 TTTTTTTTCTATTGAATC
37067872 TT
1 TT
37067874 GATTAAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 10 0.53
20 9 0.47
ACGTcount: A:0.15, C:0.10, G:0.03, T:0.72
Consensus pattern (18 bp):
TTTTTTTTCTATTGAATC
Found at i:37070667 original size:27 final size:27
Alignment explanation
Indices: 37070629--37070680 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
37070619 AGGTCAATCA
* *
37070629 ATGACTGAAATACTCCCATAGGGTACC
1 ATGACCGAAATACCCCCATAGGGTACC
37070656 ATGACCGAAATACCCCCATAGGGTA
1 ATGACCGAAATACCCCCATAGGGTA
37070681 AAATGACTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (27 bp):
ATGACCGAAATACCCCCATAGGGTACC
Found at i:37070686 original size:27 final size:27
Alignment explanation
Indices: 37070628--37070687 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
37070618 GAGGTCAATC
* * *
37070628 AATGACTGAAATACTCCCATAGGGTAC
1 AATGACCGAAATACCCCCATAGGGTAA
*
37070655 CATGACCGAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
37070682 AATGAC
1 AATGAC
37070688 TATTATACCC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.18
Consensus pattern (27 bp):
AATGACCGAAATACCCCCATAGGGTAA
Found at i:37070886 original size:26 final size:26
Alignment explanation
Indices: 37070850--37070904 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
37070840 TGGAGGAAGT
*
37070850 ATACTATTACTGGTAGCTTTGCTGCG
1 ATACTATTACTGGTAGCTTTGCTACG
*
37070876 ATACTATTACTTGTAGCTTTGCTACG
1 ATACTATTACTGGTAGCTTTGCTACG
37070902 ATA
1 ATA
37070905 TTGGTGTGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (26 bp):
ATACTATTACTGGTAGCTTTGCTACG
Found at i:37073233 original size:17 final size:17
Alignment explanation
Indices: 37073200--37073233 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
37073190 GGTAGTTTAG
*
37073200 GTTTAATAATTAAATTA
1 GTTTAATAAATAAATTA
*
37073217 GTTTAATAAATATATTA
1 GTTTAATAAATAAATTA
37073234 ATTTCTCCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (17 bp):
GTTTAATAAATAAATTA
Found at i:37074499 original size:22 final size:21
Alignment explanation
Indices: 37074455--37074496 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
37074445 TTCAATTTAA
37074455 ACAAAAAGCATTGATACCTTT
1 ACAAAAAGCATTGATACCTTT
*
37074476 ACAAAAAGTATTGATACCTTT
1 ACAAAAAGCATTGATACCTTT
37074497 TACCAAGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.17, G:0.10, T:0.31
Consensus pattern (21 bp):
ACAAAAAGCATTGATACCTTT
Found at i:37077565 original size:44 final size:44
Alignment explanation
Indices: 37077517--37077630 Score: 228
Period size: 44 Copynumber: 2.6 Consensus size: 44
37077507 CGGCTTTAAC
37077517 CTGCTCCACTGCAACTTCAGGGAGATGAGATTTGCTTACTTAGT
1 CTGCTCCACTGCAACTTCAGGGAGATGAGATTTGCTTACTTAGT
37077561 CTGCTCCACTGCAACTTCAGGGAGATGAGATTTGCTTACTTAGT
1 CTGCTCCACTGCAACTTCAGGGAGATGAGATTTGCTTACTTAGT
37077605 CTGCTCCACTGCAACTTCAGGGAGAT
1 CTGCTCCACTGCAACTTCAGGGAGAT
37077631 AAGACTAGAT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 70 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.30
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATGAGATTTGCTTACTTAGT
Found at i:37077675 original size:216 final size:217
Alignment explanation
Indices: 37077167--37077722 Score: 841
Period size: 217 Copynumber: 2.6 Consensus size: 217
37077157 ATCTACTCCG
* * * *
37077167 TTAGTCTGTTCCACTGCAACTTCAGGGAGATAAGATTAGATGCGATTTGCTCTCTGCAACTTCAG
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGAGATCTGCTCTCTGCAACTTCAG
* *
37077232 AGAGATAAGATCCAAGGTTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTATCGGCTTT
66 AGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTT
* * *
37077297 AGCCTGCTCCACTGCAACTTCAGGGAGATGAGGTTTTCCATCTTCAGTCTGCCTCACTGCAACTT
131 AACCTGCTCCACTGCAACTTCAGGGAGATGAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTT
37077362 AAGGAGTATAAGACTTGCTTAC
196 AAGGAGTATAAGACTTGCTTAC
* * *
37077384 TTAGTTTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGATCTGCTCTCTGCAACTTTAG
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGAGATCTGCTCTCTGCAACTTCAG
* * *
37077449 AGAAATAAGATCCAAGGTTTTAATTCGCTCCACTGCAAATTCAGGGAGATAGGATTATCGGCTTT
66 AGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTT
*
37077514 AACCTGCTCCACTGCAACTTCAGGGAGATGAGATTTG-CTTACTT-AGTCTG-CTCCACTGCAAC
131 AACCTGCTCCACTGCAACTTCAGGGAGATGAGATTTGCCAT-CTTCAGTCTGCCT-CACTGCAAC
* * *
37077576 TTCAGGGAG-ATGAGATTTGCTTAC
194 TT-AAGGAGTATAAGACTTGCTTAC
* * *
37077600 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGAGAGCTGCTCTCTGCGACTTCAA
1 TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGAGATCTGCTCTCTGCAACTTCAG
* *
37077665 AGAGATAAGATCCAACGTTTTAATCCGTTCCACTGCAACTTCAGGGAGATAGGATTAT
66 AGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAT
37077723 TGGCCACCAA
Statistics
Matches: 307, Mismatches: 29, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
215 2 0.01
216 144 0.47
217 161 0.52
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (217 bp):
TTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGAGATCTGCTCTCTGCAACTTCAG
AGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTT
AACCTGCTCCACTGCAACTTCAGGGAGATGAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTT
AAGGAGTATAAGACTTGCTTAC
Found at i:37080224 original size:40 final size:40
Alignment explanation
Indices: 37080180--37080441 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
37080170 GCTCCTCGTT
* *
37080180 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
37080220 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
37080260 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
37080299 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
37080338 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
37080377 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
37080418 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37080442 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:37081538 original size:14 final size:14
Alignment explanation
Indices: 37081519--37081545 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
37081509 AGGATGAGCA
37081519 TTTTTTTTTCTTTG
1 TTTTTTTTTCTTTG
37081533 TTTTTTTTTCTTT
1 TTTTTTTTTCTTT
37081546 CTAGTTTCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.07, G:0.04, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTCTTTG
Found at i:37088212 original size:24 final size:24
Alignment explanation
Indices: 37088184--37088229 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
37088174 ATCATTTTTT
* * *
37088184 GCTGCTCGTTCATTTGCTTTTGAA
1 GCTGCTCCTGCATTTCCTTTTGAA
37088208 GCTGCTCCTGCATTTCCTTTTG
1 GCTGCTCCTGCATTTCCTTTTG
37088230 GGACTATTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.09, C:0.26, G:0.20, T:0.46
Consensus pattern (24 bp):
GCTGCTCCTGCATTTCCTTTTGAA
Found at i:37091959 original size:202 final size:202
Alignment explanation
Indices: 37091613--37092032 Score: 840
Period size: 202 Copynumber: 2.1 Consensus size: 202
37091603 GAAATCACGG
37091613 CCCAATACGTTAGGGCACGATTTCCTAAAATCCCAAACATTCAATATTTCCTTTATCATTTTTTT
1 CCCAATACGTTAGGGCACGATTTCCTAAAATCCCAAACATTCAATATTTCCTTTATCATTTTTTT
37091678 TAAAAAAATTCCTTATATTGAGAAATCAACGTGTCACATCCAATACGTTAGGACACAACATATTG
66 TAAAAAAATTCCTTATATTGAGAAATCAACGTGTCACATCCAATACGTTAGGACACAACATATTG
37091743 AATTCCTGATGATAAGTTTTGTTTGATCAAAGAGTAATTCTCGATTGTTGGATTTAATGAAGAAA
131 AATTCCTGATGATAAGTTTTGTTTGATCAAAGAGTAATTCTCGATTGTTGGATTTAATGAAGAAA
37091808 ATCGGAA
196 ATCGGAA
37091815 CCCAATACGTTAGGGCACGATTTCCTAAAATCCCAAACATTCAATATTTCCTTTATCATTTTTTT
1 CCCAATACGTTAGGGCACGATTTCCTAAAATCCCAAACATTCAATATTTCCTTTATCATTTTTTT
37091880 TAAAAAAATTCCTTATATTGAGAAATCAACGTGTCACATCCAATACGTTAGGACACAACATATTG
66 TAAAAAAATTCCTTATATTGAGAAATCAACGTGTCACATCCAATACGTTAGGACACAACATATTG
37091945 AATTCCTGATGATAAGTTTTGTTTGATCAAAGAGTAATTCTCGATTGTTGGATTTAATGAAGAAA
131 AATTCCTGATGATAAGTTTTGTTTGATCAAAGAGTAATTCTCGATTGTTGGATTTAATGAAGAAA
37092010 ATCGGAA
196 ATCGGAA
37092017 CCCAATACGTTAGGGC
1 CCCAATACGTTAGGGC
37092033 TCAACTTTCT
Statistics
Matches: 218, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
202 218 1.00
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (202 bp):
CCCAATACGTTAGGGCACGATTTCCTAAAATCCCAAACATTCAATATTTCCTTTATCATTTTTTT
TAAAAAAATTCCTTATATTGAGAAATCAACGTGTCACATCCAATACGTTAGGACACAACATATTG
AATTCCTGATGATAAGTTTTGTTTGATCAAAGAGTAATTCTCGATTGTTGGATTTAATGAAGAAA
ATCGGAA
Found at i:37095715 original size:6 final size:6
Alignment explanation
Indices: 37095698--37095736 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
37095688 TGAAAATGAA
*
37095698 TTCATT TCTCATT TTCATT TTCATT TCCATT TTCATT TT
1 TTCATT T-TCATT TTCATT TTCATT TTCATT TTCATT TT
37095737 GAGAAAACCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (6 bp):
TTCATT
Found at i:37095730 original size:18 final size:19
Alignment explanation
Indices: 37095698--37095736 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
37095688 TGAAAATGAA
37095698 TTCATTTCTCATTTTCATT
1 TTCATTTCTCATTTTCATT
37095717 TTCATTTC-CATTTTCATT
1 TTCATTTCTCATTTTCATT
37095735 TT
1 TT
37095737 GAGAAAACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.64
Consensus pattern (19 bp):
TTCATTTCTCATTTTCATT
Found at i:37097573 original size:58 final size:61
Alignment explanation
Indices: 37097511--37097638 Score: 156
Period size: 61 Copynumber: 2.1 Consensus size: 61
37097501 CTTCAATATC
* * *
37097511 AAATTAATATA-ATA-CT-TAT-CAAGATAAATACTAGATTAAATTTCATACTAAATCTATT
1 AAATTAATA-ACATATCTATATACAAGATAAATACTACACTAAATTTAATACTAAATCTATT
* * *
37097569 AAATTAATAACATATCTATTTACAAGATAAATATTACACTAAATTTAATACTAAATTTATT
1 AAATTAATAACATATCTATATACAAGATAAATACTACACTAAATTTAATACTAAATCTATT
*
37097630 AAAATAATA
1 AAATTAATA
37097639 CTAGTTTTGG
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
57 1 0.02
58 12 0.20
59 2 0.03
60 2 0.03
61 42 0.71
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (61 bp):
AAATTAATAACATATCTATATACAAGATAAATACTACACTAAATTTAATACTAAATCTATT
Found at i:37103950 original size:27 final size:27
Alignment explanation
Indices: 37103912--37103963 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
37103902 TAGGGTTGCT
*
37103912 AATGAAAAACATGTTGCTAATGAAATA
1 AATGAAAAACATGTCGCTAATGAAATA
*
37103939 AATGTAAAACATGTCGCTAATGAAA
1 AATGAAAAACATGTCGCTAATGAAA
37103964 GAATGTGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.50, C:0.10, G:0.15, T:0.25
Consensus pattern (27 bp):
AATGAAAAACATGTCGCTAATGAAATA
Found at i:37104504 original size:41 final size:41
Alignment explanation
Indices: 37104443--37104609 Score: 237
Period size: 41 Copynumber: 4.1 Consensus size: 41
37104433 AAAAACACCC
* * *
37104443 CAAAAGGT-AGGCAATAGCGGTGTTTCTCCCATAAACGCCG
1 CAAAAGGTAAGGCAATAGCGGCGTTTTTACCATAAACGCCG
* *
37104483 CAAAAGGTAAGGCAATCGCGGTGTTTTTACCATAAACGCCG
1 CAAAAGGTAAGGCAATAGCGGCGTTTTTACCATAAACGCCG
* * *
37104524 CAAAAGGTTAGGCAATAGCGGCATTTTTACCATAAACGCCA
1 CAAAAGGTAAGGCAATAGCGGCGTTTTTACCATAAACGCCG
* *
37104565 CAAAAGGTAAGGCAATAGCAGCGTTTTTACGATAAACGCCG
1 CAAAAGGTAAGGCAATAGCGGCGTTTTTACCATAAACGCCG
37104606 CAAA
1 CAAA
37104610 TTTTTAAATT
Statistics
Matches: 113, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 8 0.07
41 105 0.93
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (41 bp):
CAAAAGGTAAGGCAATAGCGGCGTTTTTACCATAAACGCCG
Found at i:37104990 original size:18 final size:18
Alignment explanation
Indices: 37104969--37105005 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
37104959 TGTTTTTTTG
37104969 TTTGGGTTTGTTAAAATT
1 TTTGGGTTTGTTAAAATT
37104987 TTTGGGTTTGTTAAAATT
1 TTTGGGTTTGTTAAAATT
37105005 T
1 T
37105006 ACTTCCTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.57
Consensus pattern (18 bp):
TTTGGGTTTGTTAAAATT
Found at i:37107601 original size:16 final size:16
Alignment explanation
Indices: 37107575--37107612 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
37107565 GAATTGTGTT
37107575 AAAACTTTAATTAATTG
1 AAAA-TTTAATTAATTG
*
37107592 AAAATTTAATTAATTT
1 AAAATTTAATTAATTG
37107608 AAAAT
1 AAAAT
37107613 AATTTAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (16 bp):
AAAATTTAATTAATTG
Found at i:37115873 original size:18 final size:18
Alignment explanation
Indices: 37115847--37115881 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
37115837 TGATGCTGCT
37115847 AAAGAAGAAGTTGTTGTG
1 AAAGAAGAAGTTGTTGTG
*
37115865 AAAGCAGAAGTTGTTGT
1 AAAGAAGAAGTTGTTGT
37115882 TGAATAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.31, T:0.29
Consensus pattern (18 bp):
AAAGAAGAAGTTGTTGTG
Found at i:37123863 original size:25 final size:25
Alignment explanation
Indices: 37123817--37123865 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
37123807 TGAACAAATT
*
37123817 TCAAAATTTTATCGGGGGTAAAATCA
1 TCAAAATTTTATC-GGGATAAAATCA
37123843 TCAAAATTTTAGT-GGGATAAAAT
1 TCAAAATTTTA-TCGGGATAAAAT
37123866 TGGGGTGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 9 0.43
26 11 0.52
27 1 0.05
ACGTcount: A:0.41, C:0.08, G:0.18, T:0.33
Consensus pattern (25 bp):
TCAAAATTTTATCGGGATAAAATCA
Found at i:37148244 original size:18 final size:18
Alignment explanation
Indices: 37148223--37148268 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
37148213 TCGGATTTTA
37148223 TTTTATCTTTCTATTCTTT
1 TTTTATCTTT-TATTCTTT
* *
37148242 TTTTTTCTTTTTTTCTTT
1 TTTTATCTTTTATTCTTT
37148260 TTTTCATCT
1 TTTT-ATCT
37148269 AAGGGCAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 11 0.48
19 12 0.52
ACGTcount: A:0.07, C:0.15, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTATCTTTTATTCTTT
Found at i:37149611 original size:80 final size:80
Alignment explanation
Indices: 37149414--37149613 Score: 247
Period size: 80 Copynumber: 2.5 Consensus size: 80
37149404 GTTTATTTTA
* * * * ***
37149414 TTTATAAAACAATAAATATTATTTTGAGGATGTTTATATCTGTCCCAACTCAATTGTAAAATTAC
1 TTTACAAAATAATAAATATTATTTTGAGGGTGTTTATGTCCAACCCAACTCAATTGTAAAATTAC
*
37149479 CAAAAATTTATTCCT
66 CAAAAACTTATTCCT
* * * * ** * *
37149494 TTTACAGAGTAACAAATATTATTTTAATAGTATTTATGTCCAACTCAACTCAATTGTAAAATTAC
1 TTTACAAAATAATAAATATTATTTTGAGGGTGTTTATGTCCAACCCAACTCAATTGTAAAATTAC
37149559 CAAAAACTTATTCCT
66 CAAAAACTTATTCCT
*
37149574 TTTACAAAATAATAAAGATTATTTTGAGGGTGTTTATGTC
1 TTTACAAAATAATAAATATTATTTTGAGGGTGTTTATGTC
37149614 ATTTTATATT
Statistics
Matches: 96, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
80 96 1.00
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.40
Consensus pattern (80 bp):
TTTACAAAATAATAAATATTATTTTGAGGGTGTTTATGTCCAACCCAACTCAATTGTAAAATTAC
CAAAAACTTATTCCT
Found at i:37152906 original size:10 final size:10
Alignment explanation
Indices: 37152888--37152933 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
37152878 AACATAAAGT
*
37152888 AAATAAAATA
1 AAATGAAATA
37152898 AAATGAAATA
1 AAATGAAATA
*
37152908 AAA-GAAATC
1 AAATGAAATA
*
37152917 AAATGAAGTA
1 AAATGAAATA
37152927 AAA-GAAA
1 AAATGAAA
37152934 GAAAGAAACA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
9 11 0.37
10 19 0.63
ACGTcount: A:0.72, C:0.02, G:0.11, T:0.15
Consensus pattern (10 bp):
AAATGAAATA
Found at i:37152909 original size:19 final size:19
Alignment explanation
Indices: 37152893--37152933 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
37152883 AAAGTAAATA
37152893 AAATAAAATGAAATAAAAG
1 AAATAAAATGAAATAAAAG
* *
37152912 AAATCAAATGAAGTAAAAG
1 AAATAAAATGAAATAAAAG
37152931 AAA
1 AAA
37152934 GAAAGAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.71, C:0.02, G:0.12, T:0.15
Consensus pattern (19 bp):
AAATAAAATGAAATAAAAG
Found at i:37152989 original size:4 final size:4
Alignment explanation
Indices: 37152980--37153025 Score: 60
Period size: 4 Copynumber: 11.8 Consensus size: 4
37152970 GAAACAGGGG
*
37152980 AGAA AGAA AGAA AGAA A-AA A-AA AGAA AAAA AGAA AGAA AGGAA AGA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA A-GAA AGA
37153026 CTAGGGTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
3 6 0.16
4 28 0.74
5 4 0.11
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:37153999 original size:139 final size:139
Alignment explanation
Indices: 37153837--37154118 Score: 537
Period size: 139 Copynumber: 2.0 Consensus size: 139
37153827 TTTGATTAGT
*
37153837 GATTGGAAAAGTATAGTCGATATTGAAAACGAATTCTTGAAATAAAGGTGAAAATTGGATTGTGA
1 GATTGGAAAAGTATAATCGATATTGAAAACGAATTCTTGAAATAAAGGTGAAAATTGGATTGTGA
37153902 AATTGAAATACCCTATTAACTAGTCGGACTGAGTTGGATATAATTGGCATGCCATAGGATTTGGA
66 AATTGAAATACCCTATTAACTAGTCGGACTGAGTTGGATATAATTGGCATGCCATAGGATTTGGA
37153967 AGAGTACGG
131 AGAGTACGG
* *
37153976 GATTGGAAAAGTATAATTGATATTGAAAATGAATTCTTGAAATAAAGGTGAAAATTGGATTGTGA
1 GATTGGAAAAGTATAATCGATATTGAAAACGAATTCTTGAAATAAAGGTGAAAATTGGATTGTGA
37154041 AATTGAAATACCCTATTAACTAGTCGGACTGAGTTGGATATAATTGGCATGCCATAGGATTTGGA
66 AATTGAAATACCCTATTAACTAGTCGGACTGAGTTGGATATAATTGGCATGCCATAGGATTTGGA
37154106 AGAGTACGG
131 AGAGTACGG
37154115 GATT
1 GATT
37154119 TATCGGCTTT
Statistics
Matches: 140, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
139 140 1.00
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.30
Consensus pattern (139 bp):
GATTGGAAAAGTATAATCGATATTGAAAACGAATTCTTGAAATAAAGGTGAAAATTGGATTGTGA
AATTGAAATACCCTATTAACTAGTCGGACTGAGTTGGATATAATTGGCATGCCATAGGATTTGGA
AGAGTACGG
Found at i:37154208 original size:21 final size:21
Alignment explanation
Indices: 37154133--37154242 Score: 123
Period size: 23 Copynumber: 5.1 Consensus size: 21
37154123 GGCTTTCCCG
*
37154133 ATCAGACACTTTATGTGTCGT
1 ATCAGGCACTTTATGTGTCGT
37154154 ACATCAGGCACTTTATGTGTCGT
1 --ATCAGGCACTTTATGTGTCGT
37154177 ATCTTAGGCACTTTATGTGTCGT
1 ATC--AGGCACTTTATGTGTCGT
* **
37154200 ATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACTTTATGTGTCGT
* *
37154221 TTCAGGCAC-TTATGTGTTGT
1 ATCAGGCACTTTATGTGTCGT
37154241 AT
1 AT
37154243 ACTGATCAGG
Statistics
Matches: 76, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
20 9 0.12
21 26 0.34
23 41 0.54
ACGTcount: A:0.19, C:0.20, G:0.23, T:0.38
Consensus pattern (21 bp):
ATCAGGCACTTTATGTGTCGT
Found at i:37154219 original size:44 final size:42
Alignment explanation
Indices: 37154134--37154242 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 42
37154124 GCTTTCCCGA
* * *
37154134 TCAGACACTTTATGTGTCGTACATCAGGCACTTTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGT--ATCAGGCACCTCATGTGTCGT-T
* *
37154179 CTTAGGCACTTTATGTGTCGTATCAGGCACCTCGTGTGTCGTT
1 -TCAGGCACTTTATGTGTCGTATCAGGCACCTCATGTGTCGTT
*
37154222 TCAGGCAC-TTATGTGTTGTAT
1 TCAGGCACTTTATGTGTCGTAT
37154243 ACTGATCAGG
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
41 12 0.21
42 7 0.12
43 1 0.02
44 18 0.32
46 18 0.32
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (42 bp):
TCAGGCACTTTATGTGTCGTATCAGGCACCTCATGTGTCGTT
Found at i:37157581 original size:67 final size:67
Alignment explanation
Indices: 37157471--37157601 Score: 201
Period size: 67 Copynumber: 2.0 Consensus size: 67
37157461 TTTTCAATTC
* *
37157471 AGAGAGCACACTCCCGCGAACTTCATTTCTTACAGCGGAATTACCAGTCCAGGCTAAATCCCCTA
1 AGAGAGCACACTCCCGCAAACCTCATTTCTTACAGCGGAATTACCAGTCCAGGCTAAATCCCCTA
37157536 CA
66 CA
* * *
37157538 AGAGAGCACACTCCTGCAAACCTCATTTCTTACAGCAGG-ATTACTAGTCTAGGCTAAATCCCCT
1 AGAGAGCACACTCCCGCAAACCTCATTTCTTACAGC-GGAATTACCAGTCCAGGCTAAATCCCCT
37157602 GTAATATAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
67 56 0.97
68 2 0.03
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCAAACCTCATTTCTTACAGCGGAATTACCAGTCCAGGCTAAATCCCCTA
CA
Found at i:37157817 original size:57 final size:60
Alignment explanation
Indices: 37157724--37157871 Score: 196
Period size: 57 Copynumber: 2.5 Consensus size: 60
37157714 ACCTTAATTC
* * * * *
37157724 GGATTACCCGTCTGGGATAAATCCATTTTCCACATATTCTTCGGGAGGGCTATATC-A-A
1 GGATCACCCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCGGGAGGGCTATATCGATA
37157782 -GATCACCCGTCCGGGCTAGAT-CTTTTTCACACATATTCTTCGGGAGGGCTATATCAGGATA
1 GGATCACCCGTCCGGGCTAGATCCTTTTTC-CACATATTCTTCGGGAGGGCTATATC--GATA
37157843 GGATCACCCGTCCGGGCTAGATCCTTTTT
1 GGATCACCCGTCCGGGCTAGATCCTTTTT
37157872 ACCGTCAATT
Statistics
Matches: 78, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
56 6 0.08
57 43 0.55
60 1 0.01
61 1 0.01
62 21 0.27
63 6 0.08
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.30
Consensus pattern (60 bp):
GGATCACCCGTCCGGGCTAGATCCTTTTTCCACATATTCTTCGGGAGGGCTATATCGATA
Found at i:37160106 original size:18 final size:18
Alignment explanation
Indices: 37160083--37160117 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
37160073 AATGTTTCTC
37160083 ATTTC-TCATTTTCTATTT
1 ATTTCTTCA-TTTCTATTT
37160101 ATTTCTTCATTTCTATT
1 ATTTCTTCATTTCTATT
37160118 CACACACGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTCTTCATTTCTATTT
Found at i:37167650 original size:12 final size:12
Alignment explanation
Indices: 37167628--37167665 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
37167618 AAAAGATTGC
37167628 TTTTATTTTATT
1 TTTTATTTTATT
37167640 TTATT-TTTTATT
1 TT-TTATTTTATT
*
37167652 TTCTATTTTATT
1 TTTTATTTTATT
37167664 TT
1 TT
37167666 GTTTCTCCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 1 0.04
12 20 0.87
13 2 0.09
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:37167879 original size:76 final size:75
Alignment explanation
Indices: 37167794--37167941 Score: 269
Period size: 76 Copynumber: 2.0 Consensus size: 75
37167784 GCGTTTCATT
* *
37167794 TTCCAATTTTGCAAGTATTTTTCAATCTGTTTTGGTTTTTTTTGTTGGTTTTCAATCCACGAATG
1 TTCCAATTTTGCAAGTATTTTTCAATCTGTTTTGGGTTTTTTTGTTGGTTTTCAATCCACGAAGG
37167859 TAAGGTTGCG
66 TAAGGTTGCG
37167869 TTCCATATTTTGCAAGTATTTTTCAATCTGTTTTGGGTTTTTTTGTTGGTTTTCAATCCACGAAG
1 TTCCA-ATTTTGCAAGTATTTTTCAATCTGTTTTGGGTTTTTTTGTTGGTTTTCAATCCACGAAG
37167934 GTAAGGTT
65 GTAAGGTT
37167942 TATCGCTTTT
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
75 5 0.07
76 65 0.93
ACGTcount: A:0.19, C:0.13, G:0.19, T:0.49
Consensus pattern (75 bp):
TTCCAATTTTGCAAGTATTTTTCAATCTGTTTTGGGTTTTTTTGTTGGTTTTCAATCCACGAAGG
TAAGGTTGCG
Found at i:37168536 original size:16 final size:16
Alignment explanation
Indices: 37168515--37168545 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
37168505 GCATGTCTGA
37168515 TATATGCTATATTAAT
1 TATATGCTATATTAAT
37168531 TATATGCTATATTAA
1 TATATGCTATATTAA
37168546 GTATTTTGTA
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:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (16 bp):
TATATGCTATATTAAT
Found at i:37168750 original size:90 final size:90
Alignment explanation
Indices: 37168597--37168852 Score: 496
Period size: 90 Copynumber: 2.9 Consensus size: 90
37168587 GCTCAACTGC
37168597 AACTATTCTGTAAAGTGTCCTAACGACACTGAGTGGTGTGTAGGGTTGGATAGGTGCTTTATACC
1 AACTATTCTGTAAAGTGTCCTAACGACACTGAGTGGTGTGTAGGGTTGGATAGGTGCTTTATACC
37168662 CATATGGTGTGTTGGGATTATATGT
66 CATATGGTGTGTTGGGATTATATGT
37168687 AACTATTCTGTAAAGTGTCCTAACGACACTGAGTGGTGTGTAGGGTTGGATAGGTGCTTTATACC
1 AACTATTCTGTAAAGTGTCCTAACGACACTGAGTGGTGTGTAGGGTTGGATAGGTGCTTTATACC
37168752 CATATGGTGTGTTGGGATTATATGT
66 CATATGGTGTGTTGGGATTATATGT
*
37168777 AACTATTCTGTAAAGTGTCCTAACGACACTGAGTGGTGTGTAGGGTTGGATAGGTTCTTTATACC
1 AACTATTCTGTAAAGTGTCCTAACGACACTGAGTGGTGTGTAGGGTTGGATAGGTGCTTTATACC
37168842 CATAT-GTGTGT
66 CATATGGTGTGT
37168853 AGTGGTTAGG
Statistics
Matches: 165, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
89 6 0.04
90 159 0.96
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.36
Consensus pattern (90 bp):
AACTATTCTGTAAAGTGTCCTAACGACACTGAGTGGTGTGTAGGGTTGGATAGGTGCTTTATACC
CATATGGTGTGTTGGGATTATATGT
Found at i:37169137 original size:18 final size:17
Alignment explanation
Indices: 37169102--37169142 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
37169092 AGTTTTGTAA
*
37169102 ATTTTTGGACTCTCTAG
1 ATTTTTGGACTATCTAG
*
37169119 ACTTTTTGGACTATTTAG
1 A-TTTTTGGACTATCTAG
37169137 ATTTTT
1 ATTTTT
37169143 AAACTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.20, C:0.12, G:0.15, T:0.54
Consensus pattern (17 bp):
ATTTTTGGACTATCTAG
Found at i:37174665 original size:19 final size:19
Alignment explanation
Indices: 37174641--37174682 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
37174631 ATTTTAACTT
*
37174641 TTAATTAATC-TTAATTAA
1 TTAATTAACCTTTAATTAA
37174659 CTTAATTAACCTTTAATTAA
1 -TTAATTAACCTTTAATTAA
37174679 TTAA
1 TTAA
37174683 CACTAAACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.48
Consensus pattern (19 bp):
TTAATTAACCTTTAATTAA
Found at i:37174676 original size:11 final size:10
Alignment explanation
Indices: 37174641--37174678 Score: 51
Period size: 9 Copynumber: 3.8 Consensus size: 10
37174631 ATTTTAACTT
*
37174641 TTAATTAATC
1 TTAATTAACC
37174651 TTAATTAA-C
1 TTAATTAACC
37174660 TTAATTAACC
1 TTAATTAACC
37174670 TTTAATTAA
1 -TTAATTAA
37174679 TTAACACTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.35
10 9 0.35
11 8 0.31
ACGTcount: A:0.42, C:0.11, G:0.00, T:0.47
Consensus pattern (10 bp):
TTAATTAACC
Found at i:37177674 original size:19 final size:19
Alignment explanation
Indices: 37177637--37177674 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
37177627 AAAAATCACA
*
37177637 TTTTTTATATTTAATATAT
1 TTTTTTATATTTAAAATAT
37177656 TTTTTTA-ATTTCAAAATAT
1 TTTTTTATATTT-AAAATAT
37177675 ATAGTGACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTTTATATTTAAAATAT
Found at i:37180321 original size:14 final size:14
Alignment explanation
Indices: 37180302--37180330 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
37180292 TAATAAAAAA
37180302 TTTAATAAAATTTT
1 TTTAATAAAATTTT
37180316 TTTAATAAAATTTT
1 TTTAATAAAATTTT
37180330 T
1 T
37180331 CTTTCTTGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTAATAAAATTTT
Found at i:37180788 original size:20 final size:19
Alignment explanation
Indices: 37180760--37180798 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
37180750 CTTTTATAAT
* *
37180760 TTTTCAAAAATTCTTAAAAA
1 TTTTAAAAAAATC-TAAAAA
37180780 TTTTAAAAAAATCTAAAAA
1 TTTTAAAAAAATCTAAAAA
37180799 GTTCGAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (19 bp):
TTTTAAAAAAATCTAAAAA
Done.