Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 120 of 135
Found at i:43560840 original size:18 final size:20
Alignment explanation
Indices: 43560800--43560840 Score: 50
Period size: 18 Copynumber: 2.1 Consensus size: 20
43560790 ACCATTCATC
* *
43560800 AAGGTTATTTTCTTGATTCA
1 AAGGTTATTTTCTTGAATAA
43560820 AAGGTT-TTTT-TTGAATAA
1 AAGGTTATTTTCTTGAATAA
43560838 AAG
1 AAG
43560841 CATTATTGGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 9 0.47
19 4 0.21
20 6 0.32
ACGTcount: A:0.32, C:0.05, G:0.17, T:0.46
Consensus pattern (20 bp):
AAGGTTATTTTCTTGAATAA
Found at i:43560987 original size:112 final size:113
Alignment explanation
Indices: 43560779--43560996 Score: 357
Period size: 112 Copynumber: 1.9 Consensus size: 113
43560769 TAAAAATATT
* *
43560779 TTTTGGTTTTAACCATTCATCAAGGTTATTTTCTTGATTCAAAGGTTTTTTTTGAATAAAAGCAT
1 TTTTAGTTTTAACCATTCATCAAAGTTATTTTCTTGATTCAAAGG-TTTTTTTGAATAAAAGCAT
*
43560844 TATTGGAAGTTTGAGATTTTCGAGGGAAATTGAGCCCTAACATATTGAA
65 TATTGGAAGTTTGAGATTTTCGAGGAAAATTGAGCCCTAACATATTGAA
*
43560893 TTTTAGTTTTAACCATTCATCAAAGTTATTTTCTTGATTTAAAGG-TTTTTTGAATAAAAGCATT
1 TTTTAGTTTTAACCATTCATCAAAGTTATTTTCTTGATTCAAAGGTTTTTTTGAATAAAAGCATT
* * *
43560957 TTTTGAAGTTTGGGATTTTCGAGGAAAATTGAGCCCTAAC
66 ATTGGAAGTTTGAGATTTTCGAGGAAAATTGAGCCCTAAC
43560997 GTATCGGGTT
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
112 55 0.57
114 42 0.43
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.42
Consensus pattern (113 bp):
TTTTAGTTTTAACCATTCATCAAAGTTATTTTCTTGATTCAAAGGTTTTTTTGAATAAAAGCATT
ATTGGAAGTTTGAGATTTTCGAGGAAAATTGAGCCCTAACATATTGAA
Found at i:43561447 original size:14 final size:13
Alignment explanation
Indices: 43561417--43561668 Score: 86
Period size: 13 Copynumber: 19.5 Consensus size: 13
43561407 TTTATAACAA
43561417 TATATTAAAATAG
1 TATATTAAAATAG
*
43561430 TATATTACAA-A-
1 TATATTAAAATAG
* *
43561441 T-T-TTATAATAA
1 TATATTAAAATAG
**
43561452 TATATTAAACCAG
1 TATATTAAAATAG
* * *
43561465 TATATTACATTAA
1 TATATTAAAATAG
**
43561478 TA-ATTAAGGT-G
1 TATATTAAAATAG
* *
43561489 TAGTATTTATAACAG
1 TA-TA-TTAAAATAG
*
43561504 TATATTAAAACAG
1 TATATTAAAATAG
* *
43561517 TATATTTATAACAG
1 TATA-TTAAAATAG
* *
43561531 TATACTAAAACAG
1 TATATTAAAATAG
* *
43561544 TATATTTATAACAG
1 TATA-TTAAAATAG
* *
43561558 TATATTTATAACAG
1 TATA-TTAAAATAG
* *
43561572 TATATTAAAACAT
1 TATATTAAAATAG
*
43561585 TATATTAAAATGG
1 TATATTAAAATAG
* *
43561598 TATATTTATAACAG
1 TATA-TTAAAATAG
* * *
43561612 TATACTAAAACAA
1 TATATTAAAATAG
* *
43561625 TATATTAAAACAA
1 TATATTAAAATAG
* *
43561638 TATGTTAAAACAG
1 TATATTAAAATAG
* *
43561651 TATAATAAACTAG
1 TATATTAAAATAG
43561664 T-TATT
1 TATATT
43561669 TAACTACAAT
Statistics
Matches: 185, Mismatches: 43, Indels: 23
0.74 0.17 0.09
Matches are distributed among these distances:
9 5 0.03
10 2 0.01
11 4 0.02
12 10 0.05
13 109 0.59
14 52 0.28
15 3 0.02
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (13 bp):
TATATTAAAATAG
Found at i:43561454 original size:35 final size:35
Alignment explanation
Indices: 43561407--43561473 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
43561397 ACTGTGATAA
*
43561407 TTTATAACAATATATTAAAATAGTATATTACAAAT
1 TTTATAACAATATATTAAAACAGTATATTACAAAT
* *
43561442 TTTATAATAATATATTAAACCAGTATATTACA
1 TTTATAACAATATATTAAAACAGTATATTACA
43561474 TTAATAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.40
Consensus pattern (35 bp):
TTTATAACAATATATTAAAACAGTATATTACAAAT
Found at i:43561510 original size:27 final size:26
Alignment explanation
Indices: 43561492--43561654 Score: 161
Period size: 27 Copynumber: 6.1 Consensus size: 26
43561482 TAAGGTGTAG
43561492 TATTTATAACAGTATATTAAAACAGTA
1 TATTTATAACAGTATATT-AAACAGTA
*
43561519 TATTTATAACAGTATACTAAAACAGTA
1 TATTTATAACAGTATA-TTAAACAGTA
43561546 TATTTATAACAGTATATTTATAACAGTA
1 TATTTATAACAGTATA-TTA-AACAGTA
* *
43561574 TA-TTAAAACATTATATTAAA-ATGGTA
1 TATTTATAACAGTATATTAAACA--GTA
* *
43561600 TATTTATAACAGTATACTAAAACAATA
1 TATTTATAACAGTATA-TTAAACAGTA
* * *
43561627 TA-TTAAAACAATATGTTAAAACAGTA
1 TATTTATAACAGTATATT-AAACAGTA
43561653 TA
1 TA
43561655 ATAAACTAGT
Statistics
Matches: 114, Mismatches: 14, Indels: 17
0.79 0.10 0.12
Matches are distributed among these distances:
24 1 0.01
25 3 0.03
26 27 0.24
27 68 0.60
28 14 0.12
29 1 0.01
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.36
Consensus pattern (26 bp):
TATTTATAACAGTATATTAAACAGTA
Found at i:43561517 original size:13 final size:13
Alignment explanation
Indices: 43561490--43561659 Score: 171
Period size: 13 Copynumber: 12.8 Consensus size: 13
43561480 ATTAAGGTGT
*
43561490 AGTAT-TTATAAC
1 AGTATATTAAAAC
43561502 AGTATATTAAAAC
1 AGTATATTAAAAC
*
43561515 AGTATATTTATAAC
1 AGTATA-TTAAAAC
*
43561529 AGTATACTAAAAC
1 AGTATATTAAAAC
*
43561542 AGTATATTTATAAC
1 AGTATA-TTAAAAC
*
43561556 AGTATATTTATAAC
1 AGTATA-TTAAAAC
43561570 AGTATATTAAAAC
1 AGTATATTAAAAC
* *
43561583 ATTATATTAAAAT
1 AGTATATTAAAAC
* *
43561596 GGTATATTTATAAC
1 AGTATA-TTAAAAC
*
43561610 AGTATACTAAAAC
1 AGTATATTAAAAC
*
43561623 AATATATTAAAAC
1 AGTATATTAAAAC
* *
43561636 AATATGTTAAAAC
1 AGTATATTAAAAC
*
43561649 AGTATAATAAA
1 AGTATATTAAA
43561660 CTAGTTATTT
Statistics
Matches: 132, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
12 5 0.04
13 80 0.61
14 47 0.36
ACGTcount: A:0.50, C:0.08, G:0.07, T:0.35
Consensus pattern (13 bp):
AGTATATTAAAAC
Found at i:43561549 original size:40 final size:40
Alignment explanation
Indices: 43561499--43561659 Score: 218
Period size: 40 Copynumber: 4.0 Consensus size: 40
43561489 TAGTATTTAT
43561499 AACAGTATATTAAAACAGTATATTTATAACAGTATACTAA
1 AACAGTATATTAAAACAGTATATTTATAACAGTATACTAA
* *
43561539 AACAGTATATTTATAACAGTATATTTATAACAGTATATTAA
1 AACAGTATA-TTAAAACAGTATATTTATAACAGTATACTAA
* **
43561580 AACATTATATTAAAATGGTATATTTATAACAGTATACTAA
1 AACAGTATATTAAAACAGTATATTTATAACAGTATACTAA
* * *
43561620 AACAATATATTAAAACA--ATATGTTAAAACAGTATAATAA
1 AACAGTATATTAAAACAGTATAT-TTATAACAGTATACTAA
43561659 A
1 A
43561660 CTAGTTATTT
Statistics
Matches: 107, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
38 4 0.04
39 16 0.15
40 50 0.47
41 37 0.35
ACGTcount: A:0.51, C:0.08, G:0.07, T:0.34
Consensus pattern (40 bp):
AACAGTATATTAAAACAGTATATTTATAACAGTATACTAA
Found at i:43561594 original size:54 final size:53
Alignment explanation
Indices: 43561492--43561654 Score: 218
Period size: 54 Copynumber: 3.0 Consensus size: 53
43561482 TAAGGTGTAG
* * *
43561492 TATTTATAACAGTATATTAAAACAGTATATTTATAACAGTATACTAAAACAGTA
1 TATTTATAACAGTATATTAAAACAGTATA-TTAAAACAATATATTAAAACAGTA
* * **
43561546 TATTTATAACAGTATATTTATAACAGTATATTAAAACATTATATTAAAATGGTA
1 TATTTATAACAGTATA-TTAAAACAGTATATTAAAACAATATATTAAAACAGTA
* * *
43561600 TATTTATAACAGTATACTAAAACAATATATTAAAACAATATGTTAAAACAGTA
1 TATTTATAACAGTATATTAAAACAGTATATTAAAACAATATATTAAAACAGTA
43561653 TA
1 TA
43561655 ATAAACTAGT
Statistics
Matches: 95, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
53 32 0.34
54 51 0.54
55 12 0.13
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.36
Consensus pattern (53 bp):
TATTTATAACAGTATATTAAAACAGTATATTAAAACAATATATTAAAACAGTA
Found at i:43568358 original size:20 final size:19
Alignment explanation
Indices: 43568333--43568373 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
43568323 TTCAAGATTC
43568333 GAGTTTGGGATTTAAAGTTT
1 GAGTTTGGG-TTTAAAGTTT
*
43568353 GAGTTTGGGTTTAGAGTTT
1 GAGTTTGGGTTTAAAGTTT
43568372 GA
1 GA
43568374 TATTTAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.22, C:0.00, G:0.34, T:0.44
Consensus pattern (19 bp):
GAGTTTGGGTTTAAAGTTT
Found at i:43568469 original size:35 final size:35
Alignment explanation
Indices: 43568396--43568480 Score: 100
Period size: 35 Copynumber: 2.4 Consensus size: 35
43568386 GGGTTTGAGG
* * * *
43568396 TCAACGTTCAGGGTTTGGGATTTAAGGTTTTAGAT
1 TCAAGGTTTAGGGTTTGGGATTTAAGATTATAGAT
* *
43568431 TCAAGGTTTATGGTTTGGGATTTAAGATTCAT-GGT
1 TCAAGGTTTAGGGTTTGGGATTTAAGATT-ATAGAT
43568466 TCAAGGTTTAGGGTT
1 TCAAGGTTTAGGGTT
43568481 AAAAAAAATA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
35 41 0.98
36 1 0.02
ACGTcount: A:0.22, C:0.07, G:0.29, T:0.41
Consensus pattern (35 bp):
TCAAGGTTTAGGGTTTGGGATTTAAGATTATAGAT
Found at i:43569404 original size:2 final size:2
Alignment explanation
Indices: 43569393--43569509 Score: 211
Period size: 2 Copynumber: 59.5 Consensus size: 2
43569383 TTAAGAGTAA
43569393 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
43569434 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43569476 A- 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 AT A
43569510 AACATTAAAC
Statistics
Matches: 111, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
1 2 0.02
2 109 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:43572907 original size:18 final size:19
Alignment explanation
Indices: 43572876--43572913 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
43572866 AGTATACATA
43572876 TTTAAAATTCATCTTCAATT
1 TTTAAAATTCATCTT-AATT
43572896 TTTAAAA-T-ATCTTAATT
1 TTTAAAATTCATCTTAATT
43572913 T
1 T
43572914 AGTCTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.28
18 5 0.28
19 1 0.06
20 7 0.39
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTAAAATTCATCTTAATT
Found at i:43576643 original size:15 final size:16
Alignment explanation
Indices: 43576611--43576648 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
43576601 CAAGTTTTTT
43576611 TTTATTTTTAAATAAA
1 TTTATTTTTAAATAAA
**
43576627 TTTATTTTTTTAT-AA
1 TTTATTTTTAAATAAA
43576642 TTTATTT
1 TTTATTT
43576649 AATCGAATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATTTTTAAATAAA
Found at i:43578471 original size:34 final size:34
Alignment explanation
Indices: 43578420--43578529 Score: 123
Period size: 34 Copynumber: 3.2 Consensus size: 34
43578410 CTAATTCATG
* * *
43578420 ATAAGCATGA-CTTTTGCTACAGCATTGATTTGTT
1 ATAAGCAT-ATCTATTGCTACAGTATTGATATGTT
* *
43578454 ATAAGCATATCTATTGCTACCGTATTGATCTGTT
1 ATAAGCATATCTATTGCTACAGTATTGATATGTT
* * **
43578488 ATAAGCATGTCCATTGCTATTGTATTGATATGTT
1 ATAAGCATATCTATTGCTACAGTATTGATATGTT
43578522 ATAAGCAT
1 ATAAGCAT
43578530 GTCATATTAC
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
33 1 0.02
34 65 0.98
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (34 bp):
ATAAGCATATCTATTGCTACAGTATTGATATGTT
Found at i:43578530 original size:34 final size:34
Alignment explanation
Indices: 43578433--43578532 Score: 128
Period size: 34 Copynumber: 2.9 Consensus size: 34
43578423 AGCATGACTT
* * * * *
43578433 TTGCTACAGCATTGATTTGTTATAAGCATATCTA
1 TTGCTACCGTATTGATATGTTATAAGCATGTCCA
*
43578467 TTGCTACCGTATTGATCTGTTATAAGCATGTCCA
1 TTGCTACCGTATTGATATGTTATAAGCATGTCCA
**
43578501 TTGCTATTGTATTGATATGTTATAAGCATGTC
1 TTGCTACCGTATTGATATGTTATAAGCATGTC
43578533 ATATTACATT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 58 1.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (34 bp):
TTGCTACCGTATTGATATGTTATAAGCATGTCCA
Found at i:43578733 original size:43 final size:43
Alignment explanation
Indices: 43578662--43578746 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
43578652 GCTTACTGGG
* * * *
43578662 AGTTTTTATCTGTGAATTCGCTATGCATCCATAGCCTAGTGGT
1 AGTTTTTATCTGCGAATTCGCTACGCATCCACAACCTAGTGGT
* * *
43578705 AGTTTTTATCTGCGAATTTGTTGCGCATCCACAACCTAGTGG
1 AGTTTTTATCTGCGAATTCGCTACGCATCCACAACCTAGTGG
43578747 CAGCTTGTCT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (43 bp):
AGTTTTTATCTGCGAATTCGCTACGCATCCACAACCTAGTGGT
Found at i:43583372 original size:4 final size:4
Alignment explanation
Indices: 43583363--43583387 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
43583353 GTTGAAAAGC
43583363 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
43583388 TCTAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:43587640 original size:6 final size:6
Alignment explanation
Indices: 43587629--43587654 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
43587619 TGATATTACT
43587629 AAAATA AAAATA AAAATA AAAATA AA
1 AAAATA AAAATA AAAATA AAAATA AA
43587655 TCGTTATTAT
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:43588070 original size:37 final size:36
Alignment explanation
Indices: 43588011--43588084 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 36
43588001 TTTAATTCTA
* *
43588011 ATGATTTTGGAATTTAGGTTTTACTTTAAGTATTTTT
1 ATGATTTGGGAATTTAGATTTTACTTTAAGT-TTTTT
* * *
43588048 ATGATTTGGGAATTTATATTTTAGTTTTAGTTTTTT
1 ATGATTTGGGAATTTAGATTTTACTTTAAGTTTTTT
43588084 A
1 A
43588085 ATTATTAATG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
36 6 0.19
37 26 0.81
ACGTcount: A:0.24, C:0.01, G:0.16, T:0.58
Consensus pattern (36 bp):
ATGATTTGGGAATTTAGATTTTACTTTAAGTTTTTT
Found at i:43588120 original size:22 final size:22
Alignment explanation
Indices: 43588072--43588120 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
43588062 TATATTTTAG
*
43588072 TTTTAGTTTTTTAATTATTAAT
1 TTTTAATTTTTTAATTATTAAT
*
43588094 GTTTAATTTTTTAA-TATTAAAT
1 TTTTAATTTTTTAATTATT-AAT
43588116 TTTTA
1 TTTTA
43588121 TTAATACTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (22 bp):
TTTTAATTTTTTAATTATTAAT
Found at i:43598187 original size:5 final size:5
Alignment explanation
Indices: 43598177--43598203 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
43598167 AACTAGGTAG
43598177 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
43598204 ATTCCAATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:43606960 original size:22 final size:22
Alignment explanation
Indices: 43606910--43606960 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
43606900 CGTAGGACAC
*
43606910 GGCCATGTGATGGTGTGAGTGT
1 GGCCGTGTGATGGTGTGAGTGT
** *
43606932 GATCGTGTGATGGTGTGGGTGT
1 GGCCGTGTGATGGTGTGAGTGT
43606954 GGCCGTG
1 GGCCGTG
43606961 AGGGCCCACA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.10, C:0.10, G:0.49, T:0.31
Consensus pattern (22 bp):
GGCCGTGTGATGGTGTGAGTGT
Found at i:43615543 original size:180 final size:181
Alignment explanation
Indices: 43615238--43615591 Score: 575
Period size: 180 Copynumber: 2.0 Consensus size: 181
43615228 GATTTTCATG
* *
43615238 AAATAAGATAAAATGGTAATGTAGAAAATAGAACGATGATATACAAATAAAATGTCGCGCTAATA
1 AAATAAGATAAAAAGGTAATGTAGAAAATAGAACGATGAAATACAAATAAAATGTCGCGCTAATA
*
43615303 AATGACAATAATATGAATATACTAATAAAACAATTCATAATACATATAATGGCAATAATCACATA
66 AATGACAATAATATGAATATACTAATAAAACAATTCATAATACATATAATGACAATAATCACATA
*
43615368 ATATATACTACTTTAATACTAATAT-AACAATCAAAGGAAAAAAATAAATA
131 ATATATACTACTTTAATACTAATATGAACAATCAAAAGAAAAAAATAAATA
* * * *
43615418 AAATAAGATAAAAAGGTAATGTAGAAAATGGAATGATGAAATACGAATAAAATGTCGCGTTAATA
1 AAATAAGATAAAAAGGTAATGTAGAAAATAGAACGATGAAATACAAATAAAATGTCGCGCTAATA
* * ** *
43615483 AATGATAATAATATGAATATGCTAATAAAGTAATTCATAATACATATAATGACGATAATCACATA
66 AATGACAATAATATGAATATACTAATAAAACAATTCATAATACATATAATGACAATAATCACATA
*
43615548 ATATATACTACTTTAATACTAGTATGAACAATCAAAAGAAAAAA
131 ATATATACTACTTTAATACTAATATGAACAATCAAAAGAAAAAA
43615592 TAAGTAATAA
Statistics
Matches: 159, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
180 142 0.89
181 17 0.11
ACGTcount: A:0.53, C:0.09, G:0.11, T:0.27
Consensus pattern (181 bp):
AAATAAGATAAAAAGGTAATGTAGAAAATAGAACGATGAAATACAAATAAAATGTCGCGCTAATA
AATGACAATAATATGAATATACTAATAAAACAATTCATAATACATATAATGACAATAATCACATA
ATATATACTACTTTAATACTAATATGAACAATCAAAAGAAAAAAATAAATA
Found at i:43630241 original size:57 final size:57
Alignment explanation
Indices: 43630151--43630263 Score: 190
Period size: 57 Copynumber: 2.0 Consensus size: 57
43630141 CCTTTATGAG
** *
43630151 TGACATACCATTATGACCCAATGTGATTGGATGGAAGGACTCTTGTAGTCCTAATTA
1 TGACATACCACCATGACCCAATGTGATTAGATGGAAGGACTCTTGTAGTCCTAATTA
*
43630208 TGACATACCACCATGACCCGATGTGATTAGATGGAAGGACTCTTGTAGTCCTAATT
1 TGACATACCACCATGACCCAATGTGATTAGATGGAAGGACTCTTGTAGTCCTAATT
43630264 GGTGTGGTTG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.30
Consensus pattern (57 bp):
TGACATACCACCATGACCCAATGTGATTAGATGGAAGGACTCTTGTAGTCCTAATTA
Found at i:43635502 original size:57 final size:57
Alignment explanation
Indices: 43635395--43635503 Score: 137
Period size: 57 Copynumber: 1.9 Consensus size: 57
43635385 CGGCAAAATT
* * * * *
43635395 AAAATTATGAAACAAAATCAAAATCAATTTTGTTAAATGACTGGACTAAATCCTAAC
1 AAAATTATGAAACAAAATCAAAATAAATTCTGTTAAACGACGGGAATAAATCCTAAC
* ** *
43635452 AAAATTATGTAATTAAATCAAAATAAATTCTGTTAAACGGCGGGAATAAATC
1 AAAATTATGAAACAAAATCAAAATAAATTCTGTTAAACGACGGGAATAAATC
43635504 TCGAAACAGT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
57 43 1.00
ACGTcount: A:0.49, C:0.12, G:0.11, T:0.28
Consensus pattern (57 bp):
AAAATTATGAAACAAAATCAAAATAAATTCTGTTAAACGACGGGAATAAATCCTAAC
Found at i:43635648 original size:90 final size:89
Alignment explanation
Indices: 43635534--43635881 Score: 233
Period size: 87 Copynumber: 3.9 Consensus size: 89
43635524 TAAGTCTTCG
* * *
43635534 TTTGGAAACAAATTAATATAGAATAAAATCTTGTTAAACGGCGAGAATAAATCTCAGAACAT-AT
1 TTTGGAAACAAATTAAAATAGAATAAAATATTGTTAAACAGCGAGAATAAATCTC-GAA-ATAAT
43635598 TTTATTTAA-TTTAATTTAATTCTAA
64 TTTATTTAATTTTAATTTAATTCTAA
* * * *
43635623 TTTGGAAACAAAATTAAAATTGAATAAAATATTTTTAATCAGCGGGAATAAATCTCGAAATAGAT
1 TTTGGAAAC-AAATTAAAATAGAATAAAATATTGTTAAACAGCGAGAATAAATCTCGAAATA-AT
* *
43635688 TTTATTTAATTTTAATTT--CTCGT-T
64 TTTATTTAATTTTAATTTAATTC-TAA
* * * ** *
43635712 TTTGGAAATAAAATAAAAAAAGAATAAAAT-TCATTGAAC-GAC-AGGAATAAATCTCGAAATAG
1 TTTGGAAA-CAAATTAAAATAGAATAAAATATTGTTAAACAG-CGA-GAATAAATCTCGAAATA-
* * *
43635774 ATTTTATTTTCA-TTTAA-AT-ACTCGT--
62 ATTTTA-TTTAATTTTAATTTAATTC-TAA
* * * * *
43635799 TTTGGAAATAAAATCAAAATGGAATAAAAT-TCGTTAAACAGC-AGGAATAAAT-TCCGAAACAG
1 TTTGGAAA-CAAATTAAAATAGAATAAAATATTGTTAAACAGCGA-GAATAAATCT-CGAAATA-
*
43635861 ATTTTATTTAACTTTAATTTA
62 ATTTTATTTAATTTTAATTTA
43635882 GAAACAAAAT
Statistics
Matches: 216, Mismatches: 28, Indels: 30
0.79 0.10 0.11
Matches are distributed among these distances:
86 5 0.02
87 65 0.30
88 44 0.20
89 43 0.20
90 51 0.24
91 8 0.04
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.36
Consensus pattern (89 bp):
TTTGGAAACAAATTAAAATAGAATAAAATATTGTTAAACAGCGAGAATAAATCTCGAAATAATTT
TATTTAATTTTAATTTAATTCTAA
Found at i:43635771 original size:88 final size:86
Alignment explanation
Indices: 43635578--43635880 Score: 292
Period size: 87 Copynumber: 3.4 Consensus size: 86
43635568 TAAACGGCGA
* * *
43635578 GAATAAATCTCAGAACAT--ATTTTATTTAATTTAATTTAATTC-TAATTTGGAAACAAAATTAA
1 GAATAAATCTC-GAA-ATAGATTTTATTTAATTTAATTT--CTCGT--TTTGGAAATAAAATAAA
** ** * *
43635640 AATTGAATAAAATATTTTTAATCAGCGG
60 AAAAGAATAAAAT-TCATTAAACAGCAG
43635668 GAATAAATCTCGAAATAGATTTTATTTAATTTTAATTTCTCGTTTTTGGAAATAAAATAAAAAAA
1 GAATAAATCTCGAAATAGATTTTATTTAA-TTTAATTTCTCG-TTTTGGAAATAAAATAAAAAAA
*
43635733 GAATAAAATTCATTGAAC-GACAG
64 GAATAAAATTCATTAAACAG-CAG
* * * * **
43635756 GAATAAATCTCGAAATAGATTTTATTTTCATTTAAATACTCGTTTTGGAAATAAAATCAAAATGG
1 GAATAAATCTCGAAATAGATTTTA-TTTAATTTAATTTCTCGTTTTGGAAATAAAATAAAAAAAG
*
43635821 AATAAAATTCGTTAAACAGCAG
65 AATAAAATTCATTAAACAGCAG
*
43635843 GAATAAAT-TCCGAAACAGATTTTATTTAACTTTAATTT
1 GAATAAATCT-CGAAATAGATTTTATTTAA-TTTAATTT
43635881 AGAAACAAAA
Statistics
Matches: 181, Mismatches: 22, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
86 5 0.03
87 66 0.36
88 44 0.24
89 35 0.19
90 22 0.12
91 9 0.05
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.37
Consensus pattern (86 bp):
GAATAAATCTCGAAATAGATTTTATTTAATTTAATTTCTCGTTTTGGAAATAAAATAAAAAAAGA
ATAAAATTCATTAAACAGCAG
Found at i:43640853 original size:18 final size:19
Alignment explanation
Indices: 43640822--43640858 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
43640812 TCTATACAGA
43640822 TTTAAAATTCATCTTCAATT
1 TTTAAAATTCATCTT-AATT
43640842 TTTAAAA-T-ATCTTAATT
1 TTTAAAATTCATCTTAATT
43640859 CAGTCCTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.24
18 5 0.29
19 1 0.06
20 7 0.41
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTAAAATTCATCTTAATT
Found at i:43642259 original size:17 final size:17
Alignment explanation
Indices: 43642239--43642277 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
43642229 GTTTTAAAAA
43642239 ATTTTAAGATTT-AGATT
1 ATTTTAAGATTTGAG-TT
*
43642256 ATTTTTAGATTTGAGTT
1 ATTTTAAGATTTGAGTT
43642273 ATTTT
1 ATTTT
43642278 GGCTCATTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 18 0.90
18 2 0.10
ACGTcount: A:0.28, C:0.00, G:0.13, T:0.59
Consensus pattern (17 bp):
ATTTTAAGATTTGAGTT
Found at i:43644925 original size:108 final size:108
Alignment explanation
Indices: 43644732--43645025 Score: 536
Period size: 108 Copynumber: 2.7 Consensus size: 108
43644722 TGGAATAGAG
43644732 TGTT-GAAAATATCAACGTAATGTTTCAAAATGACATGAAGAGAAAGAGAAAAGTCAAATACTCA
1 TGTTAGAAAATATCAACGTAATGTTTCAAAATGACATGAAGAGAAAGAGAAAAGTCAAATACTCA
43644796 GTCATTTCAAAAAAAAAAAAAGCCAAAACTGCCCTTCCATAAA
66 GTCATTTCAAAAAAAAAAAAAGCCAAAACTGCCCTTCCATAAA
* *
43644839 TGTTAGAAAATATCAACGTAATGTTTCAAAATGACATGAAAAGAAAGAGAAAAGTCAAATATTCA
1 TGTTAGAAAATATCAACGTAATGTTTCAAAATGACATGAAGAGAAAGAGAAAAGTCAAATACTCA
* *
43644904 GTCATTTCAAAAAAATAAAAAGCCAAAACTGCCCTTCCTTAAA
66 GTCATTTCAAAAAAAAAAAAAGCCAAAACTGCCCTTCCATAAA
*
43644947 TGCTAGAAAATATCAACGTAATGTTTCAAAATGACATGAAGAGAAAGAGAAAAGTCAAATACTCA
1 TGTTAGAAAATATCAACGTAATGTTTCAAAATGACATGAAGAGAAAGAGAAAAGTCAAATACTCA
43645012 GTCATTTCAAAAAA
66 GTCATTTCAAAAAA
43645026 TAATTTATTT
Statistics
Matches: 179, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
107 4 0.02
108 175 0.98
ACGTcount: A:0.49, C:0.15, G:0.13, T:0.23
Consensus pattern (108 bp):
TGTTAGAAAATATCAACGTAATGTTTCAAAATGACATGAAGAGAAAGAGAAAAGTCAAATACTCA
GTCATTTCAAAAAAAAAAAAAGCCAAAACTGCCCTTCCATAAA
Found at i:43645060 original size:16 final size:17
Alignment explanation
Indices: 43645028--43645060 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
43645018 TCAAAAAATA
*
43645028 ATTTATTTTTCTTTTGT
1 ATTTAATTTTCTTTTGT
43645045 ATTTAATTTT-TTTTGT
1 ATTTAATTTTCTTTTGT
43645061 TTCTTTTAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.15, C:0.03, G:0.06, T:0.76
Consensus pattern (17 bp):
ATTTAATTTTCTTTTGT
Found at i:43654630 original size:84 final size:82
Alignment explanation
Indices: 43654542--43655085 Score: 525
Period size: 84 Copynumber: 6.5 Consensus size: 82
43654532 GATAGGATTT
* *
43654542 GTTTCCTTCATCTGCTCCACTACTGCTTAGGGAGATAAGA-CTTGATGCGATCTGCTCCACTACT
1 GTTT-CTTCATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTGTTTCG-TCTGCTCCACTACT
43654606 GCTTAGGGAGATAAGATCTG
64 GCTTAGGGAGATAAGA-CTG
** *
43654626 GTTTCTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTTGTCTGCTCCACT
1 GTTTC-TTCATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTGTTTC----GTCTGCTCCACT
*
43654691 ACTGCTTAGGGAGATAAGACTT
61 ACTGCTTAGGGAGATAAGACTG
* * * * *
43654713 G-AT-GTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTA
1 GTTTCTTCATCTGCTCCACTACTGCTTAGGGAGATAAGATC----TTGTTTCGTCTGCTCCACTA
*
43654776 CTGCTTAGGGAGATCAGACT-
62 CTGCTTAGGGAGATAAGACTG
* * *
43654796 GTTTCTTTCGTCTGCTCCACTACTGCTTAGAGAGATAAGA-CTGGTTTCTTTTGTCTGCTCCACT
1 GTTTC-TTCATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTGTTTC----GTCTGCTCCACT
43654860 ACTGCTTAGGGAGATAAGACTG
61 ACTGCTTAGGGAGATAAGACTG
* * * * *
43654882 G-TT-GTGATCTGCTCCACTACTGCTTAGGGAGGTAAGATCGGGTTTCTTTCGTCTGTTCCACTA
1 GTTTCTTCATCTGCTCCACTACTGCTTAGGGAGATAAGATC----TTGTTTCGTCTGCTCCACTA
* *
43654945 CTGTTTAGGGAGATAAGACTT
62 CTGCTTAGGGAGATAAGACTG
* * * * *
43654966 G-AT-GTGATCTGCTCCACTACTGCTTAGGGAGATAAGATC-TGATGT-GATATGCTCCACTACT
1 GTTTCTTCATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTG-TTTCG-TCTGCTCCACTACT
43655027 GCTTAGGGAGATAAGATCTG
64 GCTTAGGGAGATAAGA-CTG
* *
43655047 GTTTCTTTCGTCTACTCCACTACTGCTTAGGGAGATAAG
1 GTTTC-TTCATCTGCTCCACTACTGCTTAGGGAGATAAG
43655086 CCACTACTAC
Statistics
Matches: 385, Mismatches: 46, Indels: 58
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.01
80 29 0.08
81 8 0.02
82 1 0.00
83 31 0.08
84 199 0.52
85 40 0.10
86 31 0.08
87 3 0.01
88 40 0.10
89 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.34
Consensus pattern (82 bp):
GTTTCTTCATCTGCTCCACTACTGCTTAGGGAGATAAGATCTTGTTTCGTCTGCTCCACTACTGC
TTAGGGAGATAAGACTG
Found at i:43654655 original size:44 final size:43
Alignment explanation
Indices: 43654552--43655085 Score: 590
Period size: 44 Copynumber: 12.7 Consensus size: 43
43654542 GTTTCCTTCA
* * *
43654552 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGC----G
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGTTTCTTTTG
43654591 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTTG
1 -TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGGTTTCTTTTG
43654636 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTTG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGGTTTCTTTTG
** *
43654680 TCTGCTCCACTACTGCTTAGGGAGATAAGAC----TTGATGTG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGTTTCTTTTG
* *
43654719 ATCTGCTCCACTACTACTTAGGGAGATAAGATCTGGTTTCTTTCG
1 -TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGGTTTCTTTTG
* *
43654764 TCTGCTCCACTACTGCTTAGGGAGATCAGACT-GTTTCTTTCG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGTTTCTTTTG
*
43654806 TCTGCTCCACTACTGCTTAGAGAGATAAGACTGGTTTCTTTTG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGTTTCTTTTG
*
43654849 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGG----TTGTG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGTTTCTTTTG
* * *
43654888 ATCTGCTCCACTACTGCTTAGGGAGGTAAGATCGGGTTTCTTTCG
1 -TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGGTTTCTTTTG
* * ** *
43654933 TCTGTTCCACTACTGTTTAGGGAGATAAGAC----TTGATGTG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGTTTCTTTTG
* *
43654972 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-G----ATGTG
1 -TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGGTTTCTTTTG
* *
43655012 ATATGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCG
1 -TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGGTTTCTTTTG
*
43655057 TCTACTCCACTACTGCTTAGGGAGATAAG
1 TCTGCTCCACTACTGCTTAGGGAGATAAG
43655086 CCACTACTAC
Statistics
Matches: 430, Mismatches: 37, Indels: 50
0.83 0.07 0.10
Matches are distributed among these distances:
39 13 0.03
40 154 0.36
41 11 0.03
42 40 0.09
43 46 0.11
44 156 0.36
45 10 0.02
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (43 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGTTTCTTTTG
Found at i:43654873 original size:169 final size:168
Alignment explanation
Indices: 43654551--43655085 Score: 673
Period size: 169 Copynumber: 3.2 Consensus size: 168
43654541 TGTTTCCTTC
** *
43654551 ATCTGCTCCACTACTGCTTAGGGAGATAAGA-C---TTGATGCGATCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCGGTTTCTTTCG-TCTGCTCCACTACTGCTTAG
43654612 GGAGATAAGATCTGGTTTCTTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTT
65 GGAGATAAGA-CT-GTTTC-TTTGTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTT
*
43654677 TTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTG
127 TTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTG
*
43654719 ATCTGCTCCACTACTACTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATC-GGTTTCTTTCGTCTGCTCCACTACTGCTTAG
* *
43654784 GGAGATCAGACTGTTTCTTTCGTCTGCTCCACTACTGCTTAGAGAGATAAGA-CTGGTTTCTTTT
65 GGAGATAAGACTGTTTCTTT-GTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTT
*
43654848 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGTTGTG
129 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTG
* * *
43654888 ATCTGCTCCACTACTGCTTAGGGAGGTAAGATCGGGTTTCTTTCGTCTGTTCCACTACTGTTTAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATC-GGTTTCTTTCGTCTGCTCCACTACTGCTTAG
** * * *
43654953 GGAGATAAGAC--TTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT-G----ATGT
65 GGAGATAAGACTGTTTCTTTG-TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTT
* * *
43655011 GATATGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCG
129 G-TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGG---ATGT-G
*
43655057 -TCTACTCCACTACTGCTTAGGGAGATAAG
1 ATCTGCTCCACTACTGCTTAGGGAGATAAG
43655086 CCACTACTAC
Statistics
Matches: 328, Mismatches: 25, Indels: 28
0.86 0.07 0.07
Matches are distributed among these distances:
163 3 0.01
164 29 0.09
165 4 0.01
166 1 0.00
167 34 0.10
168 61 0.19
169 125 0.38
170 35 0.11
171 2 0.01
172 29 0.09
173 5 0.02
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (168 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCGGTTTCTTTCGTCTGCTCCACTACTGCTTAGG
GAGATAAGACTGTTTCTTTGTCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTTGT
CTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGTG
Found at i:43655093 original size:23 final size:23
Alignment explanation
Indices: 43655063--43655160 Score: 97
Period size: 23 Copynumber: 4.0 Consensus size: 23
43655053 TTCGTCTACT
43655063 CCACTACTGCTTAGGGAGATAAG
1 CCACTACTGCTTAGGGAGATAAG
*
43655086 CCACTACTACTTAGGGAGATAAG
1 CCACTACTGCTTAGGGAGATAAG
* *
43655109 CTACTACTGGTTGAGATAGGGAGATAAG
1 CCACTACT-GCT----TAGGGAGATAAG
**
43655137 ACTTCTACTGCTTAGGGAGATAAG
1 -CCACTACTGCTTAGGGAGATAAG
43655161 ATCTGGTTAT
Statistics
Matches: 63, Mismatches: 6, Indels: 11
0.79 0.08 0.14
Matches are distributed among these distances:
23 29 0.46
24 13 0.21
28 14 0.22
29 7 0.11
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (23 bp):
CCACTACTGCTTAGGGAGATAAG
Found at i:43655522 original size:87 final size:87
Alignment explanation
Indices: 43655410--43655908 Score: 608
Period size: 87 Copynumber: 5.7 Consensus size: 87
43655400 CTACTTCACC
* *
43655410 GTTAGTACAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTGCAACCGATGGAGGCAAGGT
1 GTTAATACAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTACAACCGATGGAGGCAAGGT
43655475 TTTGTTTTCGATCTGCTTCGCT
66 TTTGTTTTCGATCTGCTTCGCT
* * * *
43655497 GTTAATACAAGAAGGCAAGATCTGCTATCTTTAACCAG-TACCACTGCAACCGATGGAGGTAAGG
1 GTTAATACAGGAAGGCAAGATCTGCTATCTTCAACCAGCT-CCACTACAACCGATGGAGGCAAGG
43655561 TTTTGTTTTCGATCTGCTTCGCT
65 TTTTGTTTTCGATCTGCTTCGCT
* * * *
43655584 GTTAATACAAGAAGACAAGATCTGCTATCTTCAACTAGCTCCACTACAATCGA-GTGAGGCAAGG
1 GTTAATACAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTACAACCGATG-GAGGCAAGG
* * *
43655648 TTTGTGTCTTCGACCTGCTTCACT
65 TTT-TGTTTTCGATCTGCTTCGCT
* * * * *
43655672 GTCAATACAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACCACAACCGA-GAGAGGAAAGG
1 GTTAATACAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTACAACCGATG-GAGGCAAGG
* *
43655736 TTTGTGTCTTCGATCTACTTCGCT
65 TTT-TGTTTTCGATCTGCTTCGCT
* * * * * * * * *
43655760 GTTAATGCAGGTAGGCAAGATCTGCTGTCTTCAATCGGCTCTACTACAAACGAGGGAGGCAAGTT
1 GTTAATACAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTACAACCGATGGAGGCAAGGT
* *
43655825 TTTGTTTTTGATCTGCTTCACT
66 TTTGTTTTCGATCTGCTTCGCT
* ** * *
43655847 GTTAATGCAGGAAGGCAAGATCTGCTATCTTTGACCAGCTCCACTGCAACTGATGGAGGCAA
1 GTTAATACAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTACAACCGATGGAGGCAA
43655909 TGATCTGTTT
Statistics
Matches: 355, Mismatches: 52, Indels: 10
0.85 0.12 0.02
Matches are distributed among these distances:
86 2 0.01
87 205 0.58
88 147 0.41
89 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (87 bp):
GTTAATACAGGAAGGCAAGATCTGCTATCTTCAACCAGCTCCACTACAACCGATGGAGGCAAGGT
TTTGTTTTCGATCTGCTTCGCT
Found at i:43656543 original size:108 final size:108
Alignment explanation
Indices: 43656353--43656548 Score: 254
Period size: 108 Copynumber: 1.8 Consensus size: 108
43656343 GAAAAATGCT
*
43656353 TGAAAAAGATTATCAAATTAGACAAAATGAAATTTTGTTGAGAGTAAAGCTCTAAACAAACAAAT
1 TGAAAAAGATTATCAAATTAGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
* *
43656418 CAATAAATACAGTAAATTTTGCTGAGATACGAGATGTATAAGA
66 CAATAAAGACAGCAAATTTTGCTGAGATACGAGATGTATAAGA
* * * *
43656461 TGAAAAAGATTATCACAA-TGGATAAGATGGAAA-TTTGTTGAGAGCAAAGCTCTAAATGAAA-A
1 TGAAAAAGATTATCA-AATTAGACAAAAT-GAAATTTTGTTGAGAGCAAAGCTCTAAA-CAAACA
* * *
43656523 AATTAATCAAGATAGCAAATTTTGCT
63 AATCAATAAAGACAGCAAATTTTGCT
43656549 AGAATACAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
108 66 0.88
109 9 0.12
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.27
Consensus pattern (108 bp):
TGAAAAAGATTATCAAATTAGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
CAATAAAGACAGCAAATTTTGCTGAGATACGAGATGTATAAGA
Found at i:43656590 original size:45 final size:44
Alignment explanation
Indices: 43656514--43656616 Score: 118
Period size: 45 Copynumber: 2.3 Consensus size: 44
43656504 GCAAAGCTCT
* *
43656514 AAATGAAAAAATTAATCAAGATAGCAAATTTTG-CTAGAATACA
1 AAATGAAAAAATTAATCAAGATAGCAAATTTTGTCAAAAATACA
* **
43656557 AAATGAGAATAAATTAATCAAGATGGCGTATTTTGTCAAAAATACAA
1 AAATGA-AA-AAATTAATCAAGATAGCAAATTTTGTCAAAAATAC-A
43656604 AAATGAATAAAAT
1 AAATGAA-AAAAT
43656617 GGAAATAGGT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
43 6 0.12
44 2 0.04
45 22 0.44
46 12 0.24
47 8 0.16
ACGTcount: A:0.53, C:0.08, G:0.13, T:0.26
Consensus pattern (44 bp):
AAATGAAAAAATTAATCAAGATAGCAAATTTTGTCAAAAATACA
Found at i:43657413 original size:10 final size:9
Alignment explanation
Indices: 43657367--43657440 Score: 60
Period size: 9 Copynumber: 7.7 Consensus size: 9
43657357 CCGGTAGAGG
*
43657367 TTTTTTTAT
1 TTTTTTTGT
*
43657376 TTTTTCGTTTT
1 TTTTT--TTGT
43657387 TTTTTTTGCT
1 TTTTTTTG-T
43657397 CTCTTTTTTGCT
1 -T-TTTTTTG-T
43657409 TTTTTTTGT
1 TTTTTTTGT
43657418 TTTTTTTGT
1 TTTTTTTGT
*
43657427 TTTGTTT-T
1 TTTTTTTGT
43657435 TTTTTT
1 TTTTTT
43657441 GCCTCCACTG
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
8 6 0.11
9 23 0.41
10 8 0.14
11 10 0.18
12 9 0.16
ACGTcount: A:0.01, C:0.07, G:0.08, T:0.84
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:43664141 original size:45 final size:44
Alignment explanation
Indices: 43664090--43664224 Score: 144
Period size: 44 Copynumber: 3.0 Consensus size: 44
43664080 AACTTGTATT
* **
43664090 TTTGATCTACTTCACCACTAGTATGGGAAGACAAGATCTGCTTTC
1 TTTGATCTACTTCA-CACTAATACAGGAAGACAAGATCTGCTTTC
** *
43664135 TTTGATCTACTTCATGCTAATACATGAAGACAAGATCTGCTTTC
1 TTTGATCTACTTCACACTAATACAGGAAGACAAGATCTGCTTTC
** * * * **
43664179 TTCAATCTACCTCACGCCAATACATAAAGACAAGATCTGCTTTC
1 TTTGATCTACTTCACACTAATACAGGAAGACAAGATCTGCTTTC
43664223 TT
1 TT
43664225 CGATTGATTC
Statistics
Matches: 78, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 64 0.82
45 14 0.18
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (44 bp):
TTTGATCTACTTCACACTAATACAGGAAGACAAGATCTGCTTTC
Found at i:43664173 original size:44 final size:44
Alignment explanation
Indices: 43664116--43664225 Score: 166
Period size: 44 Copynumber: 2.5 Consensus size: 44
43664106 ACTAGTATGG
** * * *
43664116 GAAGACAAGATCTGCTTTCTTTGATCTACTTCATGCTAATACAT
1 GAAGACAAGATCTGCTTTCTTCAATCTACCTCACGCCAATACAT
43664160 GAAGACAAGATCTGCTTTCTTCAATCTACCTCACGCCAATACAT
1 GAAGACAAGATCTGCTTTCTTCAATCTACCTCACGCCAATACAT
*
43664204 AAAGACAAGATCTGCTTTCTTC
1 GAAGACAAGATCTGCTTTCTTC
43664226 GATTGATTCC
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 60 1.00
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.32
Consensus pattern (44 bp):
GAAGACAAGATCTGCTTTCTTCAATCTACCTCACGCCAATACAT
Found at i:43664690 original size:131 final size:131
Alignment explanation
Indices: 43664231--43665092 Score: 1448
Period size: 131 Copynumber: 6.6 Consensus size: 131
43664221 TCTTCGATTG
* * * ** * *
43664231 ATTCCACTGCCGACCAAGGAGATAGAATTACTGGCTTCAATATACTCCACTGTAACTTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGATTTCAATGTACTCCACTGTAACCTCAGGGAG
* * * *
43664296 GTAAAATCTGCCATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCAAT
66 GTAAAATCCGCCATCTTCAATCTGCTCCACTACTG-CTAGGGAGATAAGATCTGTAATCTTTAAT
43664361 CT
130 CT
** ** * *
43664363 ATTCCACTGCTGCCCAGTAAGATAGAATTACTGGCTTCAATGTACTCCATTGTAACCTTAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGATTTCAATGTACTCCACTGTAACCTCAGGGAG
* ** *
43664428 GTAAAATCCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAAT
66 GTAAAATCCGCCATCTTCAATCTGCTCCACTACTGC-TAGGGAGATAAGATCTGTAATCTTTAAT
*
43664493 TT
130 CT
* *
43664495 ATTCCACTGTTG-CCAAGG-G--AG-A-TACTGATTTCAATGTACTCCACTGTAACCTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGATTTCAATGTACTCCACTGTAACCTCAGGGAG
43664554 GTAAAATCCGCCATCTTCAATCTGCTCCACTACTGCTAGGGAGATAAGATCTGTAATCTTTAATC
66 GTAAAATCCGCCATCTTCAATCTGCTCCACTACTGCTAGGGAGATAAGATCTGTAATCTTTAATC
43664619 T
131 T
43664620 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGATTTCAATGTACTCCACTGTAACCTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGATTTCAATGTACTCCACTGTAACCTCAGGGAG
43664685 GTAAAATCCGCCATCTTCAATCTGCTCCACTACTGCTAGGGAGATAAGATCTGTAATCTTTAATC
66 GTAAAATCCGCCATCTTCAATCTGCTCCACTACTGCTAGGGAGATAAGATCTGTAATCTTTAATC
43664750 T
131 T
43664751 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGATTTCAATGTACTCCACTGTAACCTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGATTTCAATGTACTCCACTGTAACCTCAGGGAG
43664816 GTAAAATCCGCCATCTTCAATCTGCTCCACTACTGCTAGGGAGATAAGATCTGTAATCTTTAATC
66 GTAAAATCCGCCATCTTCAATCTGCTCCACTACTGCTAGGGAGATAAGATCTGTAATCTTTAATC
43664881 T
131 T
43664882 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGATTTCAATGTACTCCACTGTAACCTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGATTTCAATGTACTCCACTGTAACCTCAGGGAG
43664947 GTAAAATCCGCCATCTTCAATCTGCTCCACTACTGCTAGGGAGATAAGATCTGTAATCTTTAATC
66 GTAAAATCCGCCATCTTCAATCTGCTCCACTACTGCTAGGGAGATAAGATCTGTAATCTTTAATC
43665012 T
131 T
43665013 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGATTTCAATGTACTCCACTGTAACCTCAGGGAG
1 ATTCCACTGCTGCCCAGGGAGATAGAATTACTGATTTCAATGTACTCCACTGTAACCTCAGGGAG
43665078 GTAAAATCCGCCATC
66 GTAAAATCCGCCATC
43665093 AACCTACTCC
Statistics
Matches: 694, Mismatches: 29, Indels: 15
0.94 0.04 0.02
Matches are distributed among these distances:
125 39 0.06
126 71 0.10
127 2 0.00
128 2 0.00
129 2 0.00
130 2 0.00
131 449 0.65
132 127 0.18
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (131 bp):
ATTCCACTGCTGCCCAGGGAGATAGAATTACTGATTTCAATGTACTCCACTGTAACCTCAGGGAG
GTAAAATCCGCCATCTTCAATCTGCTCCACTACTGCTAGGGAGATAAGATCTGTAATCTTTAATC
T
Found at i:43665062 original size:43 final size:43
Alignment explanation
Indices: 43664289--43665064 Score: 327
Period size: 43 Copynumber: 17.9 Consensus size: 43
43664279 ACTGTAACTT
* * * *
43664289 CAGGGAGGTAAAATCTGCCATCTTCGATCTACTCCACTACTGCC
1 CAGGGAGATAAATTCTG-CATCTTCAATCTACTCCACTGCTGCC
* * *
43664333 TAGGGAGATAAGA-TCTGTAATCTTCAATCTATTCCACTGCTGCC
1 CAGGGAGATAA-ATTCTG-CATCTTCAATCTACTCCACTGCTGCC
** * * * *
43664377 CAGTAAGATAGAATTACTG--GCTTCAATGTACTCCATTG-TAACC
1 CAGGGAGATA-AATT-CTGCATCTTCAATCTACTCCACTGCT-GCC
* * * ** ** * * *
43664420 TTAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACTACTGCT
1 -CAGGGAGAT-AAATTCTGCATCTTCAATCTACTCCACTGCTGCC
* * * * *
43664465 TAGGGAGATAAGA-TCTGTAATCTTCAATTTATTCCACTGTTGCC
1 CAGGGAGATAA-ATTCTG-CATCTTCAATCTACTCCACTGCTGCC
* * *
43664509 AAGGGAGAT--A--CTG-AT-TTCAATGTACTCCACTG-TAACC
1 CAGGGAGATAAATTCTGCATCTTCAATCTACTCCACTGCT-GCC
* * * * *
43664546 TCAGGGAGGTAAAATCCGCCATCTTCAATCTGCTCCACTACTG-C
1 -CAGGGAGATAAATTCTG-CATCTTCAATCTACTCCACTGCTGCC
* * * *
43664590 TAGGGAGATAAGA-TCTGTAATCTTTAATCTATTCCACTGCTGCC
1 CAGGGAGATAA-ATTCTG-CATCTTCAATCTACTCCACTGCTGCC
* *
43664634 CAGGGAGATAGAATTACTG-AT-TTCAATGTACTCCACTG-TAACC
1 CAGGGAGATA-AATT-CTGCATCTTCAATCTACTCCACTGCT-GCC
* * * * *
43664677 TCAGGGAGGTAAAATCCGCCATCTTCAATCTGCTCCACTACTG-C
1 -CAGGGAGATAAATTCTG-CATCTTCAATCTACTCCACTGCTGCC
* * * *
43664721 TAGGGAGATAAGA-TCTGTAATCTTTAATCTATTCCACTGCTGCC
1 CAGGGAGATAA-ATTCTG-CATCTTCAATCTACTCCACTGCTGCC
* *
43664765 CAGGGAGATAGAATTACTG-AT-TTCAATGTACTCCACTG-TAACC
1 CAGGGAGATA-AATT-CTGCATCTTCAATCTACTCCACTGCT-GCC
* * * * *
43664808 TCAGGGAGGTAAAATCCGCCATCTTCAATCTGCTCCACTACTG-C
1 -CAGGGAGATAAATTCTG-CATCTTCAATCTACTCCACTGCTGCC
* * * *
43664852 TAGGGAGATAAGA-TCTGTAATCTTTAATCTATTCCACTGCTGCC
1 CAGGGAGATAA-ATTCTG-CATCTTCAATCTACTCCACTGCTGCC
* *
43664896 CAGGGAGATAGAATTACTG-AT-TTCAATGTACTCCACTG-TAACC
1 CAGGGAGATA-AATT-CTGCATCTTCAATCTACTCCACTGCT-GCC
* * * * *
43664939 TCAGGGAGGTAAAATCCGCCATCTTCAATCTGCTCCACTACTG-C
1 -CAGGGAGATAAATTCTG-CATCTTCAATCTACTCCACTGCTGCC
* * * *
43664983 TAGGGAGATAAGA-TCTGTAATCTTTAATCTATTCCACTGCTGCC
1 CAGGGAGATAA-ATTCTG-CATCTTCAATCTACTCCACTGCTGCC
*
43665027 CAGGGAGATAGAATTACTG-AT-TTCAATGTACTCCACTG
1 CAGGGAGATA-AATT-CTGCATCTTCAATCTACTCCACTG
43665065 TAACCTCAGG
Statistics
Matches: 541, Mismatches: 131, Indels: 121
0.68 0.17 0.15
Matches are distributed among these distances:
36 1 0.00
37 17 0.03
38 9 0.02
40 4 0.01
41 1 0.00
42 12 0.02
43 216 0.40
44 180 0.33
45 81 0.15
46 20 0.04
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (43 bp):
CAGGGAGATAAATTCTGCATCTTCAATCTACTCCACTGCTGCC
Found at i:43665886 original size:13 final size:13
Alignment explanation
Indices: 43665868--43665892 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43665858 AAATTGTCGA
43665868 GGATAACAAAGAT
1 GGATAACAAAGAT
43665881 GGATAACAAAGA
1 GGATAACAAAGA
43665893 AATTGATTCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.08, G:0.24, T:0.12
Consensus pattern (13 bp):
GGATAACAAAGAT
Found at i:43669757 original size:45 final size:45
Alignment explanation
Indices: 43669706--43669845 Score: 144
Period size: 44 Copynumber: 3.2 Consensus size: 45
43669696 GCAAGGTTTG
*
43669706 TGTCTTCGAGCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGT
1 TGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGT
* * * * ** * *
43669751 TGTCTTCAACCAGCTCCAC-CACAACTG-A-GAGAGGCAAGGTTTG-
1 TGTCTTCGACCTGCTTCGCTGTCAA-TGCAGGA-AGGCAAGATCTGT
*
43669794 TGTCTTCGACCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGT
1 TGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGT
43669839 TGTCTTC
1 TGTCTTC
43669846 AATCGGCTCC
Statistics
Matches: 71, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
43 19 0.27
44 27 0.38
45 25 0.35
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (45 bp):
TGTCTTCGACCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGT
Found at i:43669775 original size:88 final size:88
Alignment explanation
Indices: 43669622--43669906 Score: 412
Period size: 88 Copynumber: 3.2 Consensus size: 88
43669612 CCAAAATCTT
* * * * *
43669622 TTCGATCTGCTTTGCTGTTAATACTA-GAAGACAAGATCTGCTATCTTCAACCAGCTCCACTACA
1 TTCGATCTGCTTCGCTGTTAATGC-AGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACA
43669686 ACCGAGAGAGGCAAGGTTTGTGTC
65 ACCGAGAGAGGCAAGGTTTGTGTC
* * *
43669710 TTCGAGCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACCACAA
1 TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAA
*
43669775 CTGAGAGAGGCAAGGTTTGTGTC
66 CCGAGAGAGGCAAGGTTTGTGTC
* * *
43669798 TTCGACCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGTTGTCTTCAATCGGCTCCACTACAA
1 TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAA
* * *
43669863 ACGAGGGAGGCAAGGTTT-TGTT
66 CCGAGAGAGGCAAGGTTTGTGTC
43669885 TTCGATCTGCTTCGCTGTTAAT
1 TTCGATCTGCTTCGCTGTTAAT
43669907 CGTATTTTTT
Statistics
Matches: 177, Mismatches: 19, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
87 25 0.14
88 152 0.86
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (88 bp):
TTCGATCTGCTTCGCTGTTAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCCACTACAA
CCGAGAGAGGCAAGGTTTGTGTC
Found at i:43669874 original size:44 final size:43
Alignment explanation
Indices: 43669653--43669876 Score: 128
Period size: 44 Copynumber: 5.1 Consensus size: 43
43669643 TACTAGAAGA
* * *
43669653 CAAGATCTGCTATCTTCAACCAGCTCCACTACAACCGAGAGAGG
1 CAAGATCTGTTGTCTTCAACCAGCTCCACTACAA-CGAGGGAGG
* * * * * * * * * *
43669697 CAAGGTTTG-TGTCTTCGAGCTGCTTCGCTGTCAATGCAGGAAGG
1 CAAGATCTGTTGTCTTCAACCAGCTCCACT-ACAACG-AGGGAGG
* *
43669741 CAAGATCTGTTGTCTTCAACCAGCTCCACCACAACTGAGAGAGG
1 CAAGATCTGTTGTCTTCAACCAGCTCCACTACAAC-GAGGGAGG
* * * * * * ** * *
43669785 CAAGGTTTG-TGTCTTCGACCTGCTTCGCTGTTAATGCAGGAAGG
1 CAAGATCTGTTGTCTTCAACCAGCTCCACT-ACAACG-AGGGAGG
* *
43669829 CAAGATCTGTTGTCTTCAATCGGCTCCACTACAAACGAGGGAGG
1 CAAGATCTGTTGTCTTCAACCAGCTCCACTAC-AACGAGGGAGG
43669873 CAAG
1 CAAG
43669877 GTTTTGTTTT
Statistics
Matches: 125, Mismatches: 47, Indels: 16
0.66 0.25 0.09
Matches are distributed among these distances:
43 31 0.25
44 61 0.49
45 33 0.26
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (43 bp):
CAAGATCTGTTGTCTTCAACCAGCTCCACTACAACGAGGGAGG
Found at i:43671692 original size:42 final size:43
Alignment explanation
Indices: 43671627--43671727 Score: 123
Period size: 42 Copynumber: 2.4 Consensus size: 43
43671617 ATGTTCCAAT
** * *
43671627 ATCGATTTGAGATCCCGTATAAGACCATATCTGGGATA-TGGC
1 ATCGATTTGAGATTTCGTATAAGACCACAGCTGGGATATTGGC
* *
43671669 ATCGATTTGAGATTTCGTGTAAGACCACAGCTGGGCTATTGGC
1 ATCGATTTGAGATTTCGTATAAGACCACAGCTGGGATATTGGC
**
43671712 ATCGATACGAGATTTC
1 ATCGATTTGAGATTTC
43671728 CAAAAATTAC
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
42 32 0.64
43 18 0.36
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.30
Consensus pattern (43 bp):
ATCGATTTGAGATTTCGTATAAGACCACAGCTGGGATATTGGC
Found at i:43671724 original size:43 final size:42
Alignment explanation
Indices: 43671646--43671727 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 42
43671636 AGATCCCGTA
* * **
43671646 TAAGACCATATCTGGGATATGGCATCGATTTGAGATTTCGTG
1 TAAGACCACAGCTGGGATATGGCATCGATACGAGATTTCGTG
*
43671688 TAAGACCACAGCTGGGCTATTGGCATCGATACGAGATTTC
1 TAAGACCACAGCTGGGATA-TGGCATCGATACGAGATTTC
43671728 CAAAAATTAC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
42 16 0.47
43 18 0.53
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (42 bp):
TAAGACCACAGCTGGGATATGGCATCGATACGAGATTTCGTG
Found at i:43673995 original size:23 final size:22
Alignment explanation
Indices: 43673922--43673997 Score: 66
Period size: 23 Copynumber: 3.4 Consensus size: 22
43673912 ATGTATGATA
* *
43673922 AATTTAAAA-CATGTTAATAAT
1 AATTTAAAATAATATTAATAAT
* *
43673943 AATTTAAAATAATAGT-ATACT
1 AATTTAAAATAATATTAATAAT
*
43673964 ACATCTTAAAATTATATTAATAAT
1 A-AT-TTAAAATAATATTAATAAT
43673988 AAGTTTAAAA
1 AA-TTTAAAA
43673998 ACAATATCAA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
21 14 0.33
22 5 0.12
23 18 0.42
24 6 0.14
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (22 bp):
AATTTAAAATAATATTAATAAT
Found at i:43682122 original size:153 final size:154
Alignment explanation
Indices: 43681844--43682150 Score: 607
Period size: 153 Copynumber: 2.0 Consensus size: 154
43681834 ATTTTGAGGC
43681844 GTACATGAAAGAGTACATGACTTGAAAATTGATATATGAGACCATACGGTGTTTACGGTTGATAA
1 GTACATGAAAGAGTACATGACTTGAAAATTGATATATGAGACCATACGGTGTTTACGGTTGATAA
43681909 GAAAATAGTGACCAAAAAGAGAAAATAGTTATCCACGTGCATGACTGCATTTCGGTTGGAATAGA
66 GAAAATAGTGACCAAAAAGAGAAAATAGTTATCCACGTGCATGACTGCATTTCGGTTGGAATAGA
43681974 GTGTTGAAAAG-AATGGGAAAGTT
131 GTGTTGAAAAGAAATGGGAAAGTT
43681997 GTACATGAAAGAGTACATGACTTGAAAATTGATATATGAGACCATACGGTGTTTACGGTTGATAA
1 GTACATGAAAGAGTACATGACTTGAAAATTGATATATGAGACCATACGGTGTTTACGGTTGATAA
43682062 GAAAATAGTGACCAAAAAGAGAAAATAGTTATCCACGTGCATGACTGCATTTCGGTTGGAATAGA
66 GAAAATAGTGACCAAAAAGAGAAAATAGTTATCCACGTGCATGACTGCATTTCGGTTGGAATAGA
43682127 GTGTTGAAAAGAAATGGGAAAGTT
131 GTGTTGAAAAGAAATGGGAAAGTT
43682151 ATAATGTGGA
Statistics
Matches: 153, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
153 141 0.92
154 12 0.08
ACGTcount: A:0.39, C:0.10, G:0.25, T:0.26
Consensus pattern (154 bp):
GTACATGAAAGAGTACATGACTTGAAAATTGATATATGAGACCATACGGTGTTTACGGTTGATAA
GAAAATAGTGACCAAAAAGAGAAAATAGTTATCCACGTGCATGACTGCATTTCGGTTGGAATAGA
GTGTTGAAAAGAAATGGGAAAGTT
Found at i:43684672 original size:27 final size:27
Alignment explanation
Indices: 43684610--43684673 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 27
43684600 CTATAAACTT
*
43684610 TACTCTCTCTTTTTCTCTTTATTTTCCA
1 TACTCT-TCTGTTTCTCTTTATTTTCCA
*
43684638 TTCTCTTCTGTTTCTCATTCTATTTTCC-
1 TACTCTTCTGTTTCTC-TT-TATTTTCCA
43684666 TAC-CTTCT
1 TACTCTTCT
43684674 CCATGTCTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 14 0.45
28 9 0.29
29 8 0.26
ACGTcount: A:0.09, C:0.30, G:0.02, T:0.59
Consensus pattern (27 bp):
TACTCTTCTGTTTCTCTTTATTTTCCA
Found at i:43684883 original size:24 final size:23
Alignment explanation
Indices: 43684854--43684903 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
43684844 AGGTGGAAGC
43684854 AAAAGAAAATGAAAA-AAAAAAGTT
1 AAAAGAAAAT-AAAATAAAAAA-TT
*
43684878 AAAAGAACATAAAATAAAAAATT
1 AAAAGAAAATAAAATAAAAAATT
43684901 AAA
1 AAA
43684904 TTACTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 9 0.38
24 15 0.62
ACGTcount: A:0.76, C:0.02, G:0.08, T:0.14
Consensus pattern (23 bp):
AAAAGAAAATAAAATAAAAAATT
Found at i:43684896 original size:23 final size:24
Alignment explanation
Indices: 43684854--43684903 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
43684844 AGGTGGAAGC
*
43684854 AAAAGAAAATGAAAAAAAAAAGTT
1 AAAAGAAAATGAAAAAAAAAAATT
* *
43684878 AAAAGAACAT-AAAATAAAAAATT
1 AAAAGAAAATGAAAAAAAAAAATT
43684901 AAA
1 AAA
43684904 TTACTCAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.76, C:0.02, G:0.08, T:0.14
Consensus pattern (24 bp):
AAAAGAAAATGAAAAAAAAAAATT
Found at i:43685375 original size:18 final size:18
Alignment explanation
Indices: 43685349--43685383 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
43685339 TTTATTTACG
*
43685349 AAAATAATACAAAAAAAC
1 AAAAAAATACAAAAAAAC
*
43685367 AAAAAAATAGAAAAAAA
1 AAAAAAATACAAAAAAA
43685384 AAGGTTGCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.83, C:0.06, G:0.03, T:0.09
Consensus pattern (18 bp):
AAAAAAATACAAAAAAAC
Found at i:43685458 original size:27 final size:27
Alignment explanation
Indices: 43685420--43685492 Score: 137
Period size: 27 Copynumber: 2.7 Consensus size: 27
43685410 TAGAGGAGGG
43685420 TTTCCCATAGGCGGCACCAAAGGTGCC
1 TTTCCCATAGGCGGCACCAAAGGTGCC
*
43685447 TTTCCCATAGGCGGCACCCAAGGTGCC
1 TTTCCCATAGGCGGCACCAAAGGTGCC
43685474 TTTCCCATAGGCGGCACCA
1 TTTCCCATAGGCGGCACCA
43685493 CTTGTGTTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.21, C:0.36, G:0.25, T:0.19
Consensus pattern (27 bp):
TTTCCCATAGGCGGCACCAAAGGTGCC
Found at i:43685582 original size:10 final size:10
Alignment explanation
Indices: 43685567--43685603 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
43685557 CGTGGCTCCG
43685567 GAAAAAGAGA
1 GAAAAAGAGA
43685577 GAAAAAGAGA
1 GAAAAAGAGA
*
43685587 GAAAGAGAAGA
1 GAAAAAG-AGA
43685598 GAAAAA
1 GAAAAA
43685604 AAAGGTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (10 bp):
GAAAAAGAGA
Found at i:43685821 original size:42 final size:40
Alignment explanation
Indices: 43685763--43685897 Score: 128
Period size: 42 Copynumber: 3.2 Consensus size: 40
43685753 TAGATGTTAC
*
43685763 TTAGTATTATTGTTAGTAAAAAACTAGTATTATTATTATGG
1 TTAGTATTATTTTTAGTAAAAAACTA-TATTATTATTATGG
** * *
43685804 TTAGTTATTATTTTTAGTAAAACCCTA-ATTATTATTGTTAG
1 TTAG-TATTATTTTTAGTAAAAAACTATATTATTATT-ATGG
* * *
43685845 TTAGTATTATTTTGAGTATAAAACTATTATTATTGTTATTGTG
1 TTAGTATTATTTTTAGTAAAAAACTA-TATTATTATTA-TG-G
43685888 TTAGTTATTA
1 TTAG-TATTA
43685898 GGGTTAGTGG
Statistics
Matches: 75, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
40 27 0.36
41 10 0.13
42 28 0.37
43 5 0.07
44 5 0.07
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.51
Consensus pattern (40 bp):
TTAGTATTATTTTTAGTAAAAAACTATATTATTATTATGG
Found at i:43691398 original size:158 final size:155
Alignment explanation
Indices: 43691163--43691743 Score: 563
Period size: 158 Copynumber: 3.7 Consensus size: 155
43691153 NNCCTTACCC
* * * *
43691163 CTGCCCTTTGCTCGTATTATTTTCT-CG-ATTTTTATTACTTTAAATAAAAAT-AT-ATTATTCT
1 CTGCCATTTGTTCGTATTTTTTTCTCCGCA-TTTTATTACTTTAAA-AAATATCATAATT-TT-T
* ** *
43691224 CGTATTTTATTGTTTTAAATTATTTCAGTACATTTTCTTTGAAATATTTTGTATTAATTATTTCT
62 --AATTTTATAATTTTACATTATTTCAGTACATTTT-TTTGAAATA-TTT-TATTAATTATTTCT
* *
43691289 GAATTTTAAAAAAGTTAGTAATATACTCTTACTT
122 GAATTTTAAAAAAGTTAGTAAAAAACTCTTACTT
*
43691323 TTGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATATCATAATTTTTAATT
1 CTGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATATCATAATTTTTAATT
* * * * * **
43691388 TTATAATTTTACATTATTTCAGTACATTATGTTGGAA-A-TTTATTAATT-TAGTGTGTTTTTTA
66 TTATAATTTTACATTATTTCAGTACATTTTTTTGAAATATTTTATTAATTAT-TTCTGAATTTTA
* * *
43691450 AATTAATTTAGTGTAAAAAAAACCCTTA-TT
130 AA-AAAGTTA--GT--AAAAAACTCTTACTT
** * * * *
43691480 CCTGCCATTTACTCGTATTATTTTC-CCGAATTTTATTACTTTCAATAAAA-ATCTATCATTTTC
1 -CTGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTT-AA-AAAATATC-ATAATTTTT
* *
43691543 ATATTTTATTATTTTATATTATTTCAGTACATTTTGTTTGAAATATTTTATTAATTATTTCTGAA
62 A-ATTTTATAATTTTACATTATTTCAGTACATTTT-TTTGAAATATTTTATTAATTATTTCTGAA
*
43691608 TTTTTAAAAAAGTTAGTAAAACACTCTTACTT
125 -TTTTAAAAAAGTTAGTAAAAAACTCTTACTT
* * * *
43691640 CGGTCATTTGTTCGTATTTTTTTCTCCGCATTTTATTATTTTAAAAAATATCATAATTTCTAATT
1 CTGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATATCATAATTTTTAATT
* *
43691705 TTATAATTTTACATTATTTCAGTGCATTTTATT-AAATAT
66 TTATAATTTTACATTATTTCAGTACATTTTTTTGAAATAT
43691744 ACCATTTTTC
Statistics
Matches: 343, Mismatches: 55, Indels: 51
0.76 0.12 0.11
Matches are distributed among these distances:
152 1 0.00
153 18 0.05
154 7 0.02
155 6 0.02
156 5 0.01
157 53 0.15
158 74 0.22
159 46 0.13
160 74 0.22
161 28 0.08
162 5 0.01
163 18 0.05
164 8 0.02
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.51
Consensus pattern (155 bp):
CTGCCATTTGTTCGTATTTTTTTCTCCGCATTTTATTACTTTAAAAAATATCATAATTTTTAATT
TTATAATTTTACATTATTTCAGTACATTTTTTTGAAATATTTTATTAATTATTTCTGAATTTTAA
AAAAGTTAGTAAAAAACTCTTACTT
Found at i:43692088 original size:20 final size:20
Alignment explanation
Indices: 43692063--43692176 Score: 102
Period size: 20 Copynumber: 5.3 Consensus size: 20
43692053 ATAAAAAAAT
43692063 TCCTTTTTTTTTTCTTCTTC
1 TCCTTTTTTTTTTCTTCTTC
*
43692083 TCCTTTCCTTTTCTTTCCTTCTTT
1 TCCTTT--TTTT-TTT-CTTCTTC
* *
43692107 TTCTTTCTTTTTTCTTCTTC
1 TCCTTTTTTTTTTCTTCTTC
*
43692127 TCCTTTCCTTTTCTTTCCTTCTTT
1 TCCTTT--TTTT-TTT-CTTCTTC
* *
43692151 TTCTTTCTTTTTTCTTCTTC
1 TCCTTTTTTTTTTCTTCTTC
43692171 TCCTTT
1 TCCTTT
43692177 CCTTTTCTTT
Statistics
Matches: 75, Mismatches: 11, Indels: 16
0.74 0.11 0.16
Matches are distributed among these distances:
20 28 0.37
21 6 0.08
22 13 0.17
23 6 0.08
24 22 0.29
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (20 bp):
TCCTTTTTTTTTTCTTCTTC
Found at i:43692100 original size:10 final size:10
Alignment explanation
Indices: 43692085--43692233 Score: 86
Period size: 10 Copynumber: 15.5 Consensus size: 10
43692075 TCTTCTTCTC
43692085 CTTTCCTTTT
1 CTTTCCTTTT
43692095 CTTTCCTTCTT
1 CTTTCCTT-TT
43692106 -TTT-C-TTT
1 CTTTCCTTTT
*
43692113 CTTT-TTTCTT
1 CTTTCCTT-TT
*
43692123 CTTCTCCTTTC
1 CTT-TCCTTTT
*
43692134 CTTTTC-TTT
1 CTTTCCTTTT
* *
43692143 CCTTCTTTTT
1 CTTTCCTTTT
43692153 CTTT-CTTTT
1 CTTTCCTTTT
* *
43692162 -TTCTTCTTCTC
1 CTT-TCCTT-TT
43692173 CTTTCCTTTT
1 CTTTCCTTTT
43692183 CTTTCC--TT
1 CTTTCCTTTT
* *
43692191 CTTTCCTCTC
1 CTTTCCTTTT
43692201 CTTTCCTTTT
1 CTTTCCTTTT
*
43692211 CTTTCTTTTT
1 CTTTCCTTTT
43692221 CTTT-C-TTT
1 CTTTCCTTTT
43692229 CTTTC
1 CTTTC
43692234 TTCTTTTTTC
Statistics
Matches: 107, Mismatches: 18, Indels: 29
0.69 0.12 0.19
Matches are distributed among these distances:
7 2 0.02
8 21 0.20
9 12 0.11
10 56 0.52
11 12 0.11
12 4 0.04
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (10 bp):
CTTTCCTTTT
Found at i:43692132 original size:44 final size:44
Alignment explanation
Indices: 43692065--43692194 Score: 251
Period size: 44 Copynumber: 3.0 Consensus size: 44
43692055 AAAAAAATTC
*
43692065 CTTTTTTTTTTCTTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTT
1 CTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTT
43692109 CTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTT
1 CTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTT
43692153 CTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCTTTCCTTCTTT
1 CTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCTTTCCTTCTTT
43692195 CCTCTCCTTT
Statistics
Matches: 85, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
44 85 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (44 bp):
CTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTT
Found at i:43692133 original size:34 final size:32
Alignment explanation
Indices: 43692062--43692241 Score: 131
Period size: 34 Copynumber: 5.4 Consensus size: 32
43692052 AATAAAAAAA
43692062 TTCCTT-TTTTT-TTTCTTCTTCTCCTTTCCTTTTCT
1 TTCCTTCTTTTTCTTTCTT-TT-T-CTTT-C-TTTCT
43692097 TTCCTTCTTTTTCTTTCTTTTT-TCTTCTTCTCCT
1 TTCCTTCTTTTTCTTTCTTTTTCT-TTCTT-T-CT
*
43692131 TTCCTT-TTCTTTCCTTCTTTTTCTTTCTTT-T
1 TTCCTTCTT-TTTCTTTCTTTTTCTTTCTTTCT
* * * *
43692162 TT-CTTCTTCTCCTTTCCTTTTCTTTCCTTCT
1 TTCCTTCTTTTTCTTTCTTTTTCTTTCTTTCT
43692193 TTCCTCTCCTTTCCTTTTCTTTCTTTTTCTTTCTTTCT
1 TTCCT-T-C--T--TTTTCTTTCTTTTTCTTTCTTTCT
43692231 TT-CTTCTTTTT
1 TTCCTTCTTTTT
43692242 TCCCTCTCCT
Statistics
Matches: 119, Mismatches: 10, Indels: 36
0.72 0.06 0.22
Matches are distributed among these distances:
30 19 0.16
31 12 0.10
32 4 0.03
33 8 0.07
34 28 0.24
35 9 0.08
36 9 0.08
37 8 0.07
38 22 0.18
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (32 bp):
TTCCTTCTTTTTCTTTCTTTTTCTTTCTTTCT
Found at i:43692177 original size:20 final size:21
Alignment explanation
Indices: 43692070--43692204 Score: 123
Period size: 24 Copynumber: 6.1 Consensus size: 21
43692060 AATTCCTTTT
43692070 TTTTTTCTTCTTCTCCTTTCC
1 TTTTTTCTTCTTCTCCTTTCC
* *
43692091 TTTTCTTTCCTTCTTTTTCTTT-C
1 -TTT-TTT-CTTCTTCTCCTTTCC
43692114 TTTTTTCTTCTTCTCCTTTCC
1 TTTTTTCTTCTTCTCCTTTCC
* *
43692135 TTTTCTTTCCTTCTTTTTCTTT-C
1 -TTT-TTT-CTTCTTCTCCTTTCC
43692158 TTTTTTCTTCTTCTCCTTTCC
1 TTTTTTCTTCTTCTCCTTTCC
*
43692179 TTTTCTTTCCTTCTT-TCCTCTCC
1 -TTT-TTT-CTTCTTCTCCTTTCC
43692202 TTT
1 TTT
43692205 CCTTTTCTTT
Statistics
Matches: 94, Mismatches: 9, Indels: 20
0.76 0.07 0.16
Matches are distributed among these distances:
20 22 0.23
21 8 0.09
22 18 0.19
23 18 0.19
24 28 0.30
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTTTCTTCTTCTCCTTTCC
Found at i:43692213 original size:88 final size:87
Alignment explanation
Indices: 43692065--43692243 Score: 231
Period size: 88 Copynumber: 2.1 Consensus size: 87
43692055 AAAAAAATTC
* * * *
43692065 CTTTTTTTTTTCTTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTTTTCTTCTTCTCC
1 CTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCTTTCCTTCTTTCTCTTCCTTTCTTCTTCTT-TCC
43692130 TTTCCTTTTCTTTCCTTCTT-TTT
65 TTTCC-TTTCTTTCCTTCTTCTTT
43692153 CTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCTTTCCTTCTTTC-CTCTCCTTTCCTT-TTCTTTC
1 CTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCTTTCCTTCTTTCTCT-TCCTTT-CTTCTTCTTTC
* * *
43692216 TTTTTCTTTCTTTCTTTCTTCTTT
64 CTTTCCTTTCTTTCCTTCTTCTTT
43692240 -TTTC
1 CTTTC
43692244 CCTCTCCTTC
Statistics
Matches: 81, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
86 17 0.21
87 11 0.14
88 51 0.63
89 2 0.02
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (87 bp):
CTTTCTTTTTTCTTCTTCTCCTTTCCTTTTCTTTCCTTCTTTCTCTTCCTTTCTTCTTCTTTCCT
TTCCTTTCTTTCCTTCTTCTTT
Found at i:43692324 original size:27 final size:27
Alignment explanation
Indices: 43692294--43692364 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
43692284 ATTATATAGG
**
43692294 CAGTGCCGCCTATGGGAGGGGCACCAT
1 CAGTGCCGCCTATGGGAAAGGCACCAT
*
43692321 CAGTGCCGCCTATGGGAAAGGCACCTT
1 CAGTGCCGCCTATGGGAAAGGCACCAT
**
43692348 TGGTGCCGCCTATGGGA
1 CAGTGCCGCCTATGGGA
43692365 TACCCTCCTC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.18, C:0.28, G:0.35, T:0.18
Consensus pattern (27 bp):
CAGTGCCGCCTATGGGAAAGGCACCAT
Found at i:43692422 original size:17 final size:18
Alignment explanation
Indices: 43692400--43692434 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
43692390 TTGTTGCAGC
43692400 ATTTTTTTCTATT-TTTT
1 ATTTTTTTCTATTATTTT
*
43692417 ATTTTTTTGTATTATTTT
1 ATTTTTTTCTATTATTTT
43692435 CGTAAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.80
Consensus pattern (18 bp):
ATTTTTTTCTATTATTTT
Found at i:43697458 original size:17 final size:18
Alignment explanation
Indices: 43697436--43697471 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
43697426 GACCTAATTT
43697436 TAAAATT-CCAAAAAAAA
1 TAAAATTCCCAAAAAAAA
43697453 TAAAATTCCCCAAAAAAAA
1 TAAAATT-CCCAAAAAAAA
43697472 AGCACAAGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
19 10 0.59
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (18 bp):
TAAAATTCCCAAAAAAAA
Found at i:43699992 original size:23 final size:24
Alignment explanation
Indices: 43699939--43699992 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
43699929 AACAAAAATG
*
43699939 TATAATTTAAGAAAAAAATTAAAA
1 TATAATTCAAGAAAAAAATTAAAA
43699963 TCA-AATTCAA-AATAAAAA-TAAAA
1 T-ATAATTCAAGAA-AAAAATTAAAA
43699986 TATAATT
1 TATAATT
43699993 AAATTATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
22 1 0.04
23 12 0.46
24 12 0.46
25 1 0.04
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (24 bp):
TATAATTCAAGAAAAAAATTAAAA
Found at i:43707862 original size:19 final size:19
Alignment explanation
Indices: 43707834--43707943 Score: 150
Period size: 19 Copynumber: 5.8 Consensus size: 19
43707824 AATCTTCAGG
*
43707834 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
43707853 GATATACAATCTTAGATAT
1 GATATACAATCTTAGATAT
* **
43707872 AATATATGATCTT-GATAT
1 GATATACAATCTTAGATAT
*
43707890 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
43707909 GATATATAATCTTAGATAT
1 GATATACAATCTTAGATAT
*
43707928 GATATGCAATCTTAGA
1 GATATACAATCTTAGA
43707944 AGATATGATT
Statistics
Matches: 78, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
18 14 0.18
19 64 0.82
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (19 bp):
GATATACAATCTTAGATAT
Found at i:43707890 original size:37 final size:38
Alignment explanation
Indices: 43707841--43707943 Score: 172
Period size: 37 Copynumber: 2.7 Consensus size: 38
43707831 AGGGATATGC
*
43707841 AATCTTAGATATGATATACAATCTTAGATATAATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
* *
43707879 GATCTT-GATATGATATGCAATCTTAGATATGATATAT
1 AATCTTAGATATGATATGCAATCTTAGATATAATATAT
43707916 AATCTTAGATATGATATGCAATCTTAGA
1 AATCTTAGATATGATATGCAATCTTAGA
43707944 AGATATGATT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
37 34 0.57
38 26 0.43
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.39
Consensus pattern (38 bp):
AATCTTAGATATGATATGCAATCTTAGATATAATATAT
Found at i:43707940 original size:56 final size:56
Alignment explanation
Indices: 43707834--43707940 Score: 169
Period size: 56 Copynumber: 1.9 Consensus size: 56
43707824 AATCTTCAGG
**
43707834 GATATGCAATCTTAGATATGATATACAATCTTAGATATAATATATGATCTTGATAT
1 GATATGCAATCTTAGATATGATATACAATCTTAGATATAATATACAATCTTGATAT
* * *
43707890 GATATGCAATCTTAGATATGATATATAATCTTAGATATGATATGCAATCTT
1 GATATGCAATCTTAGATATGATATACAATCTTAGATATAATATACAATCTT
43707941 AGAAGATATG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 46 1.00
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.39
Consensus pattern (56 bp):
GATATGCAATCTTAGATATGATATACAATCTTAGATATAATATACAATCTTGATAT
Found at i:43707969 original size:22 final size:21
Alignment explanation
Indices: 43707834--43707969 Score: 89
Period size: 19 Copynumber: 6.9 Consensus size: 21
43707824 AATCTTCAGG
*
43707834 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
** *
43707853 GATATACAATCTTAGATATAAT
1 GATATGTAATCTTAGAGAT-AT
43707875 -ATATG--ATCTT---GATAT
1 GATATGTAATCTTAGAGATAT
*
43707890 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
43707909 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
43707928 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
43707950 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
43707970 TTAATTTGTA
Statistics
Matches: 96, Mismatches: 10, Indels: 19
0.77 0.08 0.15
Matches are distributed among these distances:
15 2 0.02
16 7 0.07
18 5 0.05
19 50 0.52
21 7 0.07
22 14 0.15
23 11 0.11
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:43714433 original size:12 final size:12
Alignment explanation
Indices: 43714416--43714443 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
43714406 CTTATCAAGG
43714416 TAAATATTATAT
1 TAAATATTATAT
43714428 TAAATATTATAT
1 TAAATATTATAT
43714440 TAAA
1 TAAA
43714444 CAATATGGTA
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TAAATATTATAT
Found at i:43717826 original size:44 final size:43
Alignment explanation
Indices: 43717778--43717987 Score: 122
Period size: 44 Copynumber: 4.8 Consensus size: 43
43717768 CCTGGGTAAC
*
43717778 AGTGGAATAGATTGAAGATTCCAGATCTTATCTCCCTAAGCAAT
1 AGTGGAATAGATTGAAGATTGCAGATCTTA-CTCCCTAAGCAAT
** * * * ** **
43717822 AGTGGAGCAGATCGAAGATGGCAGATTTTAC-CCCTTGTGGTTAT
1 AGTGGAATAGATTGAAGATTGCAGATCTTACTCCC-T-AAGCAAT
* * * * * ** *
43717866 AGTGGAGTACATTGAAGCTAGTA-AT-TCTACTTCCCTGGGCAAC
1 AGTGGAATAGATTGAAGATTGCAGATCT-TAC-TCCCTAAGCAAT
*
43717909 AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAAT
1 AGTGGAATAGATTGAAGATTGCAGATCTTA-CTCCCTAAGCAAT
** * * *
43717953 AGTGGAGCAGATCGAAGATGGCAGATTTTAC-CCCT
1 AGTGGAATAGATTGAAGATTGCAGATCTTACTCCCT
43717988 TGTGGTTATA
Statistics
Matches: 123, Mismatches: 35, Indels: 18
0.70 0.20 0.10
Matches are distributed among these distances:
42 8 0.07
43 28 0.23
44 82 0.67
45 5 0.04
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (43 bp):
AGTGGAATAGATTGAAGATTGCAGATCTTACTCCCTAAGCAAT
Found at i:43717999 original size:44 final size:44
Alignment explanation
Indices: 43717817--43718135 Score: 132
Period size: 44 Copynumber: 7.3 Consensus size: 44
43717807 ATCTCCCTAA
43717817 GCAATAGTGGAGCAGATCGAAGATGGCAGATTTTAC-CCCTTGTG
1 GCAATAGTGGAGCAGATCGAAGATGGCAGATTTTACTCCC-TGTG
** * * * * * * *
43717861 GTTATAGTGGAGTACATTGAAGCTAGTA-ATTCTACTTCCCTG-G
1 GCAATAGTGGAGCAGATCGAAGATGGCAGATTTTAC-TCCCTGTG
* ** * ** * **
43717904 GCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCT-AA
1 GCAATAGTGGAGCAGATCGAAGATGGCAGATTTTA-CTCCCTGTG
43717948 GCAATAGTGGAGCAGATCGAAGATGGCAGATTTTAC-CCCTTGTG
1 GCAATAGTGGAGCAGATCGAAGATGGCAGATTTTACTCCC-TGTG
** * * * * * * * *
43717992 GTTATAGTGGAGTACATTGAAGCTAGTA-ATTCTACTTCCT-TG
1 GCAATAGTGGAGCAGATCGAAGATGGCAGATTTTACTCCCTGTG
* ** * ** * * * **
43718034 GACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCCCCCT-AA
1 G-CAATAGTGGAGCAGATCGAAGATGGCAGATTTTA-CTCCCTGTG
* *
43718079 GCAGTAGTGGAGCAGATCGAAGATGGCGGATTTTAACTCCCTGTG
1 GCAATAGTGGAGCAGATCGAAGATGGCAGATTTT-ACTCCCTGTG
**
43718124 GTTATAGTGGAG
1 GCAATAGTGGAG
43718136 TGCATTGAAG
Statistics
Matches: 190, Mismatches: 72, Indels: 25
0.66 0.25 0.09
Matches are distributed among these distances:
42 6 0.03
43 53 0.28
44 112 0.59
45 19 0.10
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (44 bp):
GCAATAGTGGAGCAGATCGAAGATGGCAGATTTTACTCCCTGTG
Found at i:43718318 original size:43 final size:44
Alignment explanation
Indices: 43718259--43718452 Score: 114
Period size: 44 Copynumber: 4.4 Consensus size: 44
43718249 CCCTGTGGTT
*
43718259 ACAGTGGAGTACATTGAAGCCA-GTAATTCTACTTCCCTGGATA
1 ACAGTGGAGTAGATTGAAGCCACGTAATTCTACTTCCCTGGATA
* ** * * * *
43718302 ACAGTGGAATAGATTGAAG--ATTTCAGATTTTA-TCCCCCT-AAGCA
1 ACAGTGGAGTAGATTGAAGCCACGT-A-ATTCTACT-TCCCTGGA-TA
** * ** * * * *
43718346 GTAGTGGAGTAGATCGAAGATAACG-AATTTTACCTCCCTGTGGTT
1 ACAGTGGAGTAGATTGAAG-CCACGTAATTCTACTTCCCTG-GATA
*
43718391 ACAGTGGAGTACATTGAAGCCA-GTAATTCTACTTCCCTGGATA
1 ACAGTGGAGTAGATTGAAGCCACGTAATTCTACTTCCCTGGATA
*
43718434 ACAGTGGAATAGATTGAAG
1 ACAGTGGAGTAGATTGAAG
43718453 ATTTCAGATT
Statistics
Matches: 108, Mismatches: 31, Indels: 24
0.66 0.19 0.15
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 40 0.37
44 49 0.45
45 16 0.15
47 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGTGGAGTAGATTGAAGCCACGTAATTCTACTTCCCTGGATA
Found at i:43718321 original size:88 final size:89
Alignment explanation
Indices: 43718216--43718586 Score: 205
Period size: 88 Copynumber: 4.2 Consensus size: 89
43718206 CCTAAGCAGT
*
43718216 AGTGGAGTAGATCGAAGATAACGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGTAGATTGAAGATAACGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
43718281 -GTAATTCTACTTCCCTGGATAAC
66 CGTAATTCTACTTCCCTGGATAAC
* ** ** * *
43718304 AGTGGAATAGATTGAAGATTTC-AGATTTTATCC-CCCTAAGCAG-T--AGTGGAGTAGATCGAA
1 AGTGGAGTAGATTGAAGATAACGA-ATTTTA-CCTCCCT--GTGGTTACAGTGGAGTACATTGAA
** * * * *
43718364 GATAACG-AATTTTACCTCCCTGTGGTTAC
62 G-CCACGTAATTCTACTTCCCTG-GATAAC
* ** * * * * * *
43718393 AGTGGAGTACATTGAAG-CCA-GTAATTCTACTTCCCTG-GATAACAGTGGAATAGATTGAAG--
1 AGTGGAGTAGATTGAAGATAACG-AATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCC
** * * * **
43718453 ATTTCAGATTTTA-TCTCCCT-AAGCAGT
65 ACGT-A-ATTCTACT-TCCCTGGA-TAAC
* * ** * *
43718480 AGTGGAGCAGATCGAAGATGGCGGATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGAAGCCA
1 AGTGGAGTAGATTGAAGATAACGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
43718545 -GTAATTCTACTTCCCTGGATAAC
66 CGTAATTCTACTTCCCTGGATAAC
*
43718568 AGTGGAATAGATTGAAGAT
1 AGTGGAGTAGATTGAAGAT
43718587 TTCAGATTTT
Statistics
Matches: 200, Mismatches: 58, Indels: 50
0.65 0.19 0.16
Matches are distributed among these distances:
85 1 0.00
86 1 0.00
87 32 0.16
88 115 0.57
89 47 0.23
90 3 0.01
91 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (89 bp):
AGTGGAGTAGATTGAAGATAACGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCA
CGTAATTCTACTTCCCTGGATAAC
Found at i:43718734 original size:132 final size:132
Alignment explanation
Indices: 43717564--43718719 Score: 1736
Period size: 132 Copynumber: 8.8 Consensus size: 132
43717554 TGACAGCGAC
* * *
43717564 GCAGATCGAAGATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGTCAATAATT
1 GCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATT
* * * *
43717629 CTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTCCAGATCTTATCTCCCTAAGCAGTAATG
66 CTACTTCCCTGGTCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTG
43717694 GA
131 GA
* * *
43717696 GCAGATCGAAGATGGAGGATTTTACCTCCCTATGGTTACAGTGGAGTACATTGAAGCCAATAATT
1 GCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATT
* *
43717761 CTACTTCCCTGGGT-AACAGTGGAATAGATTGAAGATTCCAGATCTTATCTCCCTAAGCAATAGT
66 CTACTTCCCT-GGTCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
43717825 GGA
130 GGA
* * * *
43717828 GCAGATCGAAGATGGCAGATTTTACC-CCTTGTGGTTATAGTGGAGTACATTGAAGCTAGTAATT
1 GCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATT
* *
43717892 CTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAATAGTG
66 CTACTTCCCTGGTCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTG
43717957 GA
131 GA
* * * *
43717959 GCAGATCGAAGATGGCAGATTTTACC-CCTTGTGGTTATAGTGGAGTACATTGAAGCTAGTAATT
1 GCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATT
* * * *
43718023 CTACTTCCTTGGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCCCCCTAAGCAGTAGTG
66 CTACTTCCCTGGTCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTG
43718088 GA
131 GA
* * * *
43718090 GCAGATCGAAGATGGCGGATTTTAACTCCCTGTGGTTATAGTGGAGTGCATTGAAGCCATTAATT
1 GCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATT
* * * *
43718155 CTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCCCCCTAAGCAGTAGTG
66 CTACTTCCCTGGTCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTG
43718220 GA
131 GA
* ** *
43718222 GTAGATCGAAGATAACGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATT
1 GCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATT
* *
43718287 CTACTTCCCTGGAT-AACAGTGGAATAGATTGAAGATTTCAGATTTTATCCCCCTAAGCAGTAGT
66 CTACTTCCCTGG-TCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
43718351 GGA
130 GGA
* ** *
43718354 GTAGATCGAAGATAACGAATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATT
1 GCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATT
*
43718419 CTACTTCCCTGGAT-AACAGTGGAATAGATTGAAGATTTCAGATTTTATCTCCCTAAGCAGTAGT
66 CTACTTCCCTGG-TCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
43718483 GGA
130 GGA
*
43718486 GCAGATCGAAGATGGCGGATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATT
1 GCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATT
*
43718551 CTACTTCCCTGGAT-AACAGTGGAATAGATTGAAGATTTCAGATTTTATCTCCCTAAGCAGTAGT
66 CTACTTCCCTGG-TCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGT
43718615 GGA
130 GGA
*
43718618 GCAGATCGAAGATGGCGGATTTTACCTCTCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAA-T
1 GCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATT
* *
43718682 CATA-TCTCCCAGGTCAGCAGTGGAATA-AGTTGAAGATT
66 C-TACT-TCCCTGGTCAACAGTGGAATAGA-TTGAAGATT
43718720 GTAAGTCCTA
Statistics
Matches: 966, Mismatches: 50, Indels: 16
0.94 0.05 0.02
Matches are distributed among these distances:
130 2 0.00
131 250 0.26
132 713 0.74
133 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (132 bp):
GCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATT
CTACTTCCCTGGTCAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTG
GA
Found at i:43720755 original size:20 final size:20
Alignment explanation
Indices: 43720699--43720757 Score: 55
Period size: 23 Copynumber: 2.8 Consensus size: 20
43720689 TTAGATTTTA
* *
43720699 AAATTTAAGGTTCAATTTGTT
1 AAATTTAA-GTTTATTTTGTT
*
43720720 AATATCGTTAAATTTATTTTGTT
1 AA-AT--TTAAGTTTATTTTGTT
43720743 AAATTTAAGTTTATT
1 AAATTTAAGTTTATT
43720758 ACAAAAGTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
20 10 0.32
21 2 0.06
22 4 0.13
23 11 0.35
24 4 0.13
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.53
Consensus pattern (20 bp):
AAATTTAAGTTTATTTTGTT
Found at i:43725484 original size:6 final size:6
Alignment explanation
Indices: 43725475--43725545 Score: 70
Period size: 6 Copynumber: 11.8 Consensus size: 6
43725465 GGACTTAGGC
* * * * *
43725475 CCATCA CCATCA CCATCC CCATCA TCATCC CCATCT CCATCT CCATCA
1 CCATCA CCATCA CCATCA CCATCA CCATCA CCATCA CCATCA CCATCA
* * *
43725523 TCATCA CCATCA TCATCC CCATC
1 CCATCA CCATCA CCATCA CCATC
43725546 GTCATCCCCA
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 53 1.00
ACGTcount: A:0.25, C:0.51, G:0.00, T:0.24
Consensus pattern (6 bp):
CCATCA
Found at i:43725496 original size:12 final size:12
Alignment explanation
Indices: 43725476--43725555 Score: 99
Period size: 12 Copynumber: 6.7 Consensus size: 12
43725466 GACTTAGGCC
* *
43725476 CATCACCATCAC
1 CATCCCCATCAT
43725488 CATCCCCATCAT
1 CATCCCCATCAT
43725500 CATCCCCATC-T
1 CATCCCCATCAT
*
43725511 CCATCTCCATCAT
1 -CATCCCCATCAT
*
43725524 CATCACCATCAT
1 CATCCCCATCAT
*
43725536 CATCCCCATCGT
1 CATCCCCATCAT
43725548 CATCCCCA
1 CATCCCCA
43725556 AATCTGGCCC
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
11 1 0.02
12 58 0.97
13 1 0.02
ACGTcount: A:0.25, C:0.50, G:0.01, T:0.24
Consensus pattern (12 bp):
CATCCCCATCAT
Found at i:43726111 original size:6 final size:6
Alignment explanation
Indices: 43726102--43726141 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
43726092 GCTGGTGCTT
* * *
43726102 CTGCCA CTGCCA CTGCCA CTGCCG CTGCCG CTGCCG CTGC
1 CTGCCA CTGCCA CTGCCA CTGCCA CTGCCA CTGCCA CTGC
43726142 TGGTGCTGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.07, C:0.50, G:0.25, T:0.17
Consensus pattern (6 bp):
CTGCCA
Found at i:43726119 original size:12 final size:12
Alignment explanation
Indices: 43726102--43726141 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
43726092 GCTGGTGCTT
*
43726102 CTGCCACTGCCA
1 CTGCCACTGCCG
43726114 CTGCCACTGCCG
1 CTGCCACTGCCG
*
43726126 CTGCCGCTGCCG
1 CTGCCACTGCCG
43726138 CTGC
1 CTGC
43726142 TGGTGCTGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.07, C:0.50, G:0.25, T:0.17
Consensus pattern (12 bp):
CTGCCACTGCCG
Found at i:43730448 original size:27 final size:27
Alignment explanation
Indices: 43730391--43730446 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
43730381 GGCGTAATTT
*
43730391 AAAA-TATTATAACTTAAAAAATTGTA
1 AAAATTATTAAAACTTAAAAAATTGTA
*
43730417 AAAATTATTAAAATTTAAAAAATT-TA
1 AAAATTATTAAAACTTAAAAAATTGTA
43730443 AAAA
1 AAAA
43730447 ATCGTAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 10 0.37
27 17 0.63
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (27 bp):
AAAATTATTAAAACTTAAAAAATTGTA
Found at i:43733973 original size:46 final size:46
Alignment explanation
Indices: 43733906--43734014 Score: 177
Period size: 46 Copynumber: 2.4 Consensus size: 46
43733896 CATGGCAAAG
*
43733906 TGTGAAACA-TAGGTATGGTATTTC-AGTGAAGAAAACCATACTGAGT
1 TGTGAAA-AGTAGGTATGGTATTTCGA-TAAAGAAAACCATACTGAGT
43733952 TGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGT
43733998 TGTGAAAAGTAGGTATG
1 TGTGAAAAGTAGGTATG
43734015 ATGCTTCACT
Statistics
Matches: 60, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
45 1 0.02
46 58 0.97
47 1 0.02
ACGTcount: A:0.38, C:0.08, G:0.26, T:0.28
Consensus pattern (46 bp):
TGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGT
Found at i:43734030 original size:46 final size:45
Alignment explanation
Indices: 43733906--43734030 Score: 153
Period size: 46 Copynumber: 2.7 Consensus size: 45
43733896 CATGGCAAAG
* *
43733906 TGTGAAACA-TAGGTATGGTATTTCAGTGAAGAAAACCATACTGAGT
1 TGTGAAA-AGTAGGTATGATACTTCA-TGAAGAAAACCATACTGAGT
* * *
43733952 TGTGAAAAGTAGGTATGGTATTTCGATAAAGAAAACCATACTGAGT
1 TGTGAAAAGTAGGTATGATACTTC-ATGAAGAAAACCATACTGAGT
*
43733998 TGTGAAAAGTAGGTATGATGCTTCACTGAAGAA
1 TGTGAAAAGTAGGTATGATACTTCA-TGAAGAA
43734031 CTACTGAGTT
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
45 2 0.03
46 68 0.96
47 1 0.01
ACGTcount: A:0.38, C:0.10, G:0.25, T:0.28
Consensus pattern (45 bp):
TGTGAAAAGTAGGTATGATACTTCATGAAGAAAACCATACTGAGT
Found at i:43739466 original size:37 final size:38
Alignment explanation
Indices: 43739415--43739520 Score: 115
Period size: 37 Copynumber: 2.7 Consensus size: 38
43739405 AATTCGAAGC
* *
43739415 AATAAGTTGACACCCAGTGTCTCATCG-GCTAAACCGA
1 AATAATTTGACACCCAGTGTCTCATCGAACTAAACCGA
* * * *
43739452 AATAATTTGGCACCCAGTGCCTCATCGAATTAATCCGA
1 AATAATTTGACACCCAGTGTCTCATCGAACTAAACCGA
*
43739490 AGTAAATAATTGACACCCAGTGTCTCATCGA
1 AAT-AAT--TTGACACCCAGTGTCTCATCGA
43739521 CTCGAAGTCG
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
37 24 0.43
38 9 0.16
39 3 0.05
41 20 0.36
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (38 bp):
AATAATTTGACACCCAGTGTCTCATCGAACTAAACCGA
Found at i:43740345 original size:2 final size:2
Alignment explanation
Indices: 43740338--43740366 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
43740328 ATGTTTAATA
43740338 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 A
43740367 CAATNNNNNN
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:43741234 original size:10 final size:9
Alignment explanation
Indices: 43741196--43741234 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
43741186 TTAAAAGGTT
43741196 ATTATAAAA
1 ATTATAAAA
43741205 ATTATAAAA
1 ATTATAAAA
43741214 A-TATAAAAA
1 ATTAT-AAAA
43741223 ATTATTAAAA
1 ATTA-TAAAA
43741233 AT
1 AT
43741235 ACCGTTTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
8 3 0.11
9 15 0.56
10 8 0.30
11 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
ATTATAAAA
Found at i:43745076 original size:16 final size:16
Alignment explanation
Indices: 43745055--43745106 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
43745045 GTTTGGTTGC
43745055 TGTATTGGATTAGATG
1 TGTATTGGATTAGATG
*
43745071 TGTATTGGATTAGAGG
1 TGTATTGGATTAGATG
* *
43745087 TGTAATGGAATAGATG
1 TGTATTGGATTAGATG
43745103 TGTA
1 TGTA
43745107 ATAGCAAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.29, C:0.00, G:0.33, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGATG
Found at i:43745363 original size:18 final size:17
Alignment explanation
Indices: 43745342--43745376 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
43745332 TTATTATTAA
*
43745342 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
43745360 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
43745377 TCTNNNNNNN
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:43749266 original size:36 final size:36
Alignment explanation
Indices: 43749210--43749307 Score: 124
Period size: 36 Copynumber: 2.7 Consensus size: 36
43749200 TCTGAAAACC
* *
43749210 GAAAAGAAACGGGGGAGCAAATTGGCAGAAAAGAAAA
1 GAAAAGAAAC-TGGGAGCAAATCGGCAGAAAAGAAAA
*
43749247 GAAAATAAACTGGGAGCAAATCGGCAGAAAAGAAAA
1 GAAAAGAAACTGGGAGCAAATCGGCAGAAAAGAAAA
* * *
43749283 GTAAAGAAACAAGGAAGCAAATCGG
1 GAAAAGAAAC-TGGGAGCAAATCGG
43749308 ATGAAGGTAG
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
36 32 0.60
37 21 0.40
ACGTcount: A:0.54, C:0.10, G:0.29, T:0.07
Consensus pattern (36 bp):
GAAAAGAAACTGGGAGCAAATCGGCAGAAAAGAAAA
Found at i:43756184 original size:9 final size:9
Alignment explanation
Indices: 43756170--43756200 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
43756160 GTTAAACGAA
43756170 TCGAGTTAT
1 TCGAGTTAT
*
43756179 TCGAGTTAA
1 TCGAGTTAT
43756188 TCGAGTTAT
1 TCGAGTTAT
43756197 TCGA
1 TCGA
43756201 ATCAACTCGA
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:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:43756271 original size:9 final size:9
Alignment explanation
Indices: 43756254--43756290 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
43756244 TAAGTTTTCG
43756254 AATTCGAAT
1 AATTCGAAT
*
43756263 AACTCGAAT
1 AATTCGAAT
43756272 AATTCGAAT
1 AATTCGAAT
43756281 AATTCGAAT
1 AATTCGAAT
43756290 A
1 A
43756291 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:43758034 original size:16 final size:16
Alignment explanation
Indices: 43758013--43758043 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
43758003 GGATGTGGTA
43758013 AAATATTGAAAAAAAT
1 AAATATTGAAAAAAAT
*
43758029 AAATATTTAAAAAAA
1 AAATATTGAAAAAAA
43758044 ATACATTACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (16 bp):
AAATATTGAAAAAAAT
Found at i:43758562 original size:10 final size:10
Alignment explanation
Indices: 43758547--43758590 Score: 56
Period size: 9 Copynumber: 4.6 Consensus size: 10
43758537 CCATTTTGTT
43758547 TTATAAAAAA
1 TTATAAAAAA
43758557 TTAT-AAAAA
1 TTATAAAAAA
*
43758566 TTATAGAAAA
1 TTATAAAAAA
*
43758576 -TATGAAAAA
1 TTATAAAAAA
43758585 TTATAA
1 TTATAA
43758591 TTTTTGTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
9 16 0.57
10 12 0.43
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:43758575 original size:19 final size:19
Alignment explanation
Indices: 43758547--43758590 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
43758537 CCATTTTGTT
43758547 TTATAAAAAATTAT-AAAAA
1 TTATAAAAAA-TATGAAAAA
*
43758566 TTATAGAAAATATGAAAAA
1 TTATAAAAAATATGAAAAA
43758585 TTATAA
1 TTATAA
43758591 TTTTTGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (19 bp):
TTATAAAAAATATGAAAAA
Found at i:43764741 original size:15 final size:15
Alignment explanation
Indices: 43764721--43764751 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
43764711 TTTATTTTTC
43764721 AACAATAAAATGCTA
1 AACAATAAAATGCTA
43764736 AACAATAAAATGCTA
1 AACAATAAAATGCTA
43764751 A
1 A
43764752 CAGGATAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.61, C:0.13, G:0.06, T:0.19
Consensus pattern (15 bp):
AACAATAAAATGCTA
Found at i:43771833 original size:25 final size:27
Alignment explanation
Indices: 43771812--43771864 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
43771802 TCTAATTTTA
43771812 AGGTCCTAAAATCACTATAATTGATAC
1 AGGTCCTAAAATCACTATAATTGATAC
* * *
43771839 ATGTCCTAAAATCACTCTAGTTGATA
1 AGGTCCTAAAATCACTATAATTGATA
43771865 TTTTCCACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (27 bp):
AGGTCCTAAAATCACTATAATTGATAC
Found at i:43776955 original size:345 final size:345
Alignment explanation
Indices: 43776324--43777016 Score: 1370
Period size: 345 Copynumber: 2.0 Consensus size: 345
43776314 CTTAATTATA
43776324 GATTAATATTCTATATTTAAATTTATATATAAATAAATATACAACTTTTTAATAAATTATTCCAA
1 GATTAATATTCTATATTTAAATTTATATATAAATAAATATACAACTTTTTAATAAATTATTCCAA
43776389 ACTTCACCGATGAGTTTTGTTAATAATGATATTATTTAATTTTAATTTAATATTTTAGATAAATA
66 ACTTCACCGATGAGTTTTGTTAATAATGATATTATTTAATTTTAATTTAATATTTTAGATAAATA
43776454 TAATATAATTATTTGCTTTAAAATTAACCATCTTGAAAAAGAATTAAAAATTTACTCACTCAAAT
131 TAATATAATTATTTGCTTTAAAATTAACCATCTTGAAAAAGAATTAAAAATTTACTCACTCAAAT
43776519 AAGAAAAATATCATTATTTTAAGCATTTAAATTAAAATAAAAGAGTGTTGGGTGTTACATAGATT
196 AAGAAAAATATCATTATTTTAAGCATTTAAATTAAAATAAAAGAGTGTTGGGTGTTACATAGATT
43776584 AACATGTTTTGATACATGTTATACAGAAAAAGATATAAGATAATAAAAATGAAAAAAGACGGAGA
261 AACATGTTTTGATACATGTTATACAGAAAAAGATATAAGATAATAAAAATGAAAAAAGACGGAGA
43776649 AGTAAAAGCTAAGGACCAGT
326 AGTAAAAGCTAAGGACCAGT
43776669 GATTAATATTCTATATTTAAATTTATATATAAATAAATATACAACTTTTTAATAAATTATTCCAA
1 GATTAATATTCTATATTTAAATTTATATATAAATAAATATACAACTTTTTAATAAATTATTCCAA
43776734 ACTTCACCGATGAGTTTTTGTTAAT-ATGATATTATTTAATTTTAATTTAATATTTTAGATAAAT
66 ACTTCACCGATGAG-TTTTGTTAATAATGATATTATTTAATTTTAATTTAATATTTTAGATAAAT
43776798 ATAATATAATTATTTGCTTTAAAATTAACCATCTTGAAAAAGAATTAAAAATTTACTCACTCAAA
130 ATAATATAATTATTTGCTTTAAAATTAACCATCTTGAAAAAGAATTAAAAATTTACTCACTCAAA
43776863 TAAGAAAAATATCATTATTTTAAGCATTTAAATTAAAATAAAAGAGTGTTGGGTGTTACATAGAT
195 TAAGAAAAATATCATTATTTTAAGCATTTAAATTAAAATAAAAGAGTGTTGGGTGTTACATAGAT
43776928 TAACATGTTTTGATACATGTTATACAGAAAAAGATATAAGATAATAAAAATGAAAAAAGACGGAG
260 TAACATGTTTTGATACATGTTATACAGAAAAAGATATAAGATAATAAAAATGAAAAAAGACGGAG
43776993 AAGTAAAAGCTAAGGACCAGT
325 AAGTAAAAGCTAAGGACCAGT
43777014 GAT
1 GAT
43777017 ACTAATCTAT
Statistics
Matches: 347, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
345 337 0.97
346 10 0.03
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.36
Consensus pattern (345 bp):
GATTAATATTCTATATTTAAATTTATATATAAATAAATATACAACTTTTTAATAAATTATTCCAA
ACTTCACCGATGAGTTTTGTTAATAATGATATTATTTAATTTTAATTTAATATTTTAGATAAATA
TAATATAATTATTTGCTTTAAAATTAACCATCTTGAAAAAGAATTAAAAATTTACTCACTCAAAT
AAGAAAAATATCATTATTTTAAGCATTTAAATTAAAATAAAAGAGTGTTGGGTGTTACATAGATT
AACATGTTTTGATACATGTTATACAGAAAAAGATATAAGATAATAAAAATGAAAAAAGACGGAGA
AGTAAAAGCTAAGGACCAGT
Found at i:43783449 original size:75 final size:76
Alignment explanation
Indices: 43783365--43783515 Score: 295
Period size: 75 Copynumber: 2.0 Consensus size: 76
43783355 AATTATTTTG
43783365 AAGAATATTCATTTATTGAATATGTTAAAAATGTTATAATTATGATTTGAAAATTCTCTATTAT-
1 AAGAATATTCATTTATTGAATATGTTAAAAATGTTATAATTATGATTTGAAAATTCTCTATTATA
43783429 ACATTTGAATA
66 ACATTTGAATA
43783440 AAGAATATTCATTTATTGAATATGTTAAAAATGTTATAATTATGATTTGAAAATTCTCTATTATA
1 AAGAATATTCATTTATTGAATATGTTAAAAATGTTATAATTATGATTTGAAAATTCTCTATTATA
43783505 ACATTTGAATA
66 ACATTTGAATA
43783516 GATAATTAAT
Statistics
Matches: 75, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
75 64 0.85
76 11 0.15
ACGTcount: A:0.42, C:0.05, G:0.09, T:0.44
Consensus pattern (76 bp):
AAGAATATTCATTTATTGAATATGTTAAAAATGTTATAATTATGATTTGAAAATTCTCTATTATA
ACATTTGAATA
Found at i:43785662 original size:228 final size:228
Alignment explanation
Indices: 43785254--43786539 Score: 929
Period size: 228 Copynumber: 5.6 Consensus size: 228
43785244 TTGGCAGCAG
* * * * * * * *
43785254 ATGCAAATCTTTGTGAAAACCCTTACTGGTAAGACCATCACCCTTGAGGTAGAAAGCTCCGATAC
1 ATGCAGATATTTGTGAAAACCCTTACTGGAAAAACCATCACCCTGGAGGTGGAAAGTTCTGATAC
* * * * * * *
43785319 TATCGATAATGTCAAGGCCAAAATCCAAGACAAAGAAGGG-ATTCCTCCAGACCAACAAAGGCTT
66 AATTGATAATGTCAAGGCCAAGATCCAAGAC-AAGGAGGGTATCCCACCAGACCAACAGAGGCTT
* * * * * * *
43785383 ATCTTTGCCGGAAAACAACTTGAGGATGGCCGAACTCTTGCCGACTACAACATCCAAAAGGAGTC
130 ATCTTTGCCGGAAAGCAACTCGAGGATGGCAGGACACTTGCGGATTACAACATCCAAAAGGAGTC
* *
43785448 CACCCTCCACCTAGTCCTTCGTCTAAGGGGTGGC
195 AACCCTCCACCTAGTCCTTCGTCTAAGGGGTGGA
* * *
43785482 ATGCAGATATTTGTGAAAACCCTTACTGGCAAGACCATCACCCTCGAGGTGGAAAGTTCTGATAC
1 ATGCAGATATTTGTGAAAACCCTTACTGGAAAAACCATCACCCTGGAGGTGGAAAGTTCTGATAC
* *
43785547 GATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGG-ATCCCTCCAGACCAACAGAGGCTT
66 AATTGATAATGTCAAGGCCAAGATCCAAGACAAGG-AGGGTATCCCACCAGACCAACAGAGGCTT
* * * * * * *
43785611 ATCTTTGCAGGTAAA-CAACTTGAAGATGGCCGGACCCTCGCTGATTACAACATCCAGAAA-GAG
130 ATCTTTGCCGG-AAAGCAACTCGAGGATGGCAGGACACTTGCGGATTACAACATCCA-AAAGGAG
* * * * *
43785674 TCTACGCTCCACCTTGTCCTTCGTCTTAGGGGTGGG
193 TCAACCCTCCACCTAGTCCTTCGTCTAAGGGGTGGA
* * * ** *
43785710 ATGCAGATATTTGTAAAAACCCTCACCGGAAAAACCATCACTTTGGAGGTGGAGAGTTCTGATAC
1 ATGCAGATATTTGTGAAAACCCTTACTGGAAAAACCATCACCCTGGAGGTGGAAAGTTCTGATAC
* * * * * * * *
43785775 CATTGATAATGTTAAGGCCAAGATTCAGGACAAGGAGGGTATTCCACCAGATCAGCAGAGGCTGA
66 AATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAGGGTATCCCACCAGACCAACAGAGGCTTA
* * * * *
43785840 TTTTTGCCGGAAAGCAGCTCGAGGATGGGAGGACACTAGCGGATTATAACATCCAAAAGGAGTCA
131 TCTTTGCCGGAAAGCAACTCGAGGATGGCAGGACACTTGCGGATTACAACATCCAAAAGGAGTCA
* ** * * * * ** *
43785905 ACCCTGCATTTGGTGCTGCGACTGCGTGGTGGA
196 ACCCTCCACCTAGTCCTTCGTCTAAGGGGTGGA
* * * * ** * * *
43785938 ATGCAGATTTTTGTGAAAA-CTTTGACTGGAAAAACTATTACATTGGAGGTGGAGAGTTCAGACA
1 ATGCAGATATTTGTGAAAACCCTT-ACTGGAAAAACCATCACCCTGGAGGTGGAAAGTTCTGATA
* * * *
43786002 CAATTGATAACGTGAAGGCCAAGATCCAAGACAAGGAGGGTATCCCACCTGACCAGCAGAGG-TT
65 CAATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAGGGTATCCCACCAGACCAACAGAGGCTT
* * * * *
43786066 GATTTTTGCTGGAAAGCAACTCGAGGATGGGAGGACGCTTGCGGATTATAACATCCAAAAGGAGT
130 -ATCTTTGCCGGAAAGCAACTCGAGGATGGCAGGACACTTGCGGATTACAACATCCAAAAGGAGT
* * * * * * ** * * *
43786131 CAACCCTGCACTTGGTTCTGCGCCTTCGAGGAGGG
194 CAACCCTCCACCTAGTCCTTCGTCTAAGGGGTGGA
* * * * * * * * * * *
43786166 ATGCAGATATTCGTTAAGA-CCTTGACTGGTAAAACCATAACACTGGAGGTCGAGAGCTCGGACA
1 ATGCAGATATTTGTGAAAACCCTT-ACTGGAAAAACCATCACCCTGGAGGTGGAAAGTTCTGATA
* * * * * * * * * * * *
43786230 CCATTGACAATGTTAAAGCGAAAATTCAGGACAAGGAGGGGATTCCTCCAGACCAGCAGAGG-TT
65 CAATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAGGGTATCCCACCAGACCAACAGAGGCTT
* * * * * * * *
43786294 GATTTTTGCCGGAAAGCAGCTTGAGGATGGGAGGACGCTTGCGGACTATAACATCCAAAAGGAAT
130 -ATCTTTGCCGGAAAGCAACTCGAGGATGGCAGGACACTTGCGGATTACAACATCCAAAAGGAGT
* * * ** * * * * * * *
43786359 CCACTCTGCATTTGGT-TTTGCGCCTTAGAGGAGGG
194 CAACCCTCCACCTAGTCCTT-CGTCTAAGGGGTGGA
* * * * * * * *
43786394 ATGCAGATATTCGTGAAGA-CTTTGACTGGGAAAACCATCACCCTGGAGGTGGAGAGCTCGGACA
1 ATGCAGATATTTGTGAAAACCCTT-ACTGGAAAAACCATCACCCTGGAGGTGGAAAGTTCTGATA
* * * * * * * * * * *
43786458 CGATTGACAATGTGAAAGCTAAGATTCAGGACAAGGAGGGGATTCCTCCAGACCAGCAGAGG-TT
65 CAATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAGGGTATCCCACCAGACCAACAGAGGCTT
* *
43786522 GATCTTTGCTGGGAAGCA
130 -ATCTTTGCCGGAAAGCA
43786540 GTTGGAGGAT
Statistics
Matches: 903, Mismatches: 146, Indels: 18
0.85 0.14 0.02
Matches are distributed among these distances:
227 17 0.02
228 880 0.97
229 6 0.01
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (228 bp):
ATGCAGATATTTGTGAAAACCCTTACTGGAAAAACCATCACCCTGGAGGTGGAAAGTTCTGATAC
AATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAGGGTATCCCACCAGACCAACAGAGGCTTA
TCTTTGCCGGAAAGCAACTCGAGGATGGCAGGACACTTGCGGATTACAACATCCAAAAGGAGTCA
ACCCTCCACCTAGTCCTTCGTCTAAGGGGTGGA
Found at i:43786550 original size:228 final size:228
Alignment explanation
Indices: 43785737--43786551 Score: 1045
Period size: 228 Copynumber: 3.6 Consensus size: 228
43785727 AACCCTCACC
** * * * * * *
43785737 GGAAAAACCATCACTTTGGAGGTGGAGAGTTCTGATACCATTGATAATGTTAAGGCCAAGATTCA
1 GGAAAAACCATCACACTGGAGGTGGAGAGCTCGGACACCATTGACAATGTGAAAGCCAAGATTCA
* * *
43785802 GGACAAGGAGGGTATTCCACCAGATCAGCAGAGGCTGATTTTTGCCGGAAAGCAGCTCGAGGATG
66 GGACAAGGAGGGGATTCCACCAGACCAGCAGAGGTTGATTTTTGCCGGAAAGCAGCTCGAGGATG
* * * * * *
43785867 GGAGGACACTAGCGGATTATAACATCCAAAAGGAGTCAACCCTGCATTTGGTGCTGCGACTGCGT
131 GGAGGACGCTTGCGGATTATAACATCCAAAAGGAGTCAACCCTGCATTTGGTTCTGCGCCTTCGA
* * * * *
43785932 GGTGGAATGCAGATTTTTGTGAAAACTTTGACT
196 GGAGGGATGCAGATATTCGTGAAGACTTTGACT
* * * * * * * * * *
43785965 GGAAAAACTATTACATTGGAGGTGGAGAGTTCAGACACAATTGATAACGTGAAGGCCAAGATCCA
1 GGAAAAACCATCACACTGGAGGTGGAGAGCTCGGACACCATTGACAATGTGAAAGCCAAGATTCA
* * * * * *
43786030 AGACAAGGAGGGTATCCCACCTGACCAGCAGAGGTTGATTTTTGCTGGAAAGCAACTCGAGGATG
66 GGACAAGGAGGGGATTCCACCAGACCAGCAGAGGTTGATTTTTGCCGGAAAGCAGCTCGAGGATG
*
43786095 GGAGGACGCTTGCGGATTATAACATCCAAAAGGAGTCAACCCTGCACTTGGTTCTGCGCCTTCGA
131 GGAGGACGCTTGCGGATTATAACATCCAAAAGGAGTCAACCCTGCATTTGGTTCTGCGCCTTCGA
* *
43786160 GGAGGGATGCAGATATTCGTTAAGACCTTGACT
196 GGAGGGATGCAGATATTCGTGAAGACTTTGACT
* * * * * *
43786193 GGTAAAACCATAACACTGGAGGTCGAGAGCTCGGACACCATTGACAATGTTAAAGCGAAAATTCA
1 GGAAAAACCATCACACTGGAGGTGGAGAGCTCGGACACCATTGACAATGTGAAAGCCAAGATTCA
* *
43786258 GGACAAGGAGGGGATTCCTCCAGACCAGCAGAGGTTGATTTTTGCCGGAAAGCAGCTTGAGGATG
66 GGACAAGGAGGGGATTCCACCAGACCAGCAGAGGTTGATTTTTGCCGGAAAGCAGCTCGAGGATG
* * * * * *
43786323 GGAGGACGCTTGCGGACTATAACATCCAAAAGGAATCCACTCTGCATTTGGTTTTGCGCCTTAGA
131 GGAGGACGCTTGCGGATTATAACATCCAAAAGGAGTCAACCCTGCATTTGGTTCTGCGCCTTCGA
43786388 GGAGGGATGCAGATATTCGTGAAGACTTTGACT
196 GGAGGGATGCAGATATTCGTGAAGACTTTGACT
* * * *
43786421 GGGAAAACCATCACCCTGGAGGTGGAGAGCTCGGACACGATTGACAATGTGAAAGCTAAGATTCA
1 GGAAAAACCATCACACTGGAGGTGGAGAGCTCGGACACCATTGACAATGTGAAAGCCAAGATTCA
* * * * * *
43786486 GGACAAGGAGGGGATTCCTCCAGACCAGCAGAGGTTGATCTTTGCTGGGAAGCAGTTGGAGGATG
66 GGACAAGGAGGGGATTCCACCAGACCAGCAGAGGTTGATTTTTGCCGGAAAGCAGCTCGAGGATG
43786551 G
131 G
43786552 TCGAACTTTA
Statistics
Matches: 512, Mismatches: 75, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
228 512 1.00
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (228 bp):
GGAAAAACCATCACACTGGAGGTGGAGAGCTCGGACACCATTGACAATGTGAAAGCCAAGATTCA
GGACAAGGAGGGGATTCCACCAGACCAGCAGAGGTTGATTTTTGCCGGAAAGCAGCTCGAGGATG
GGAGGACGCTTGCGGATTATAACATCCAAAAGGAGTCAACCCTGCATTTGGTTCTGCGCCTTCGA
GGAGGGATGCAGATATTCGTGAAGACTTTGACT
Found at i:43786586 original size:456 final size:454
Alignment explanation
Indices: 43785326--43786614 Score: 1305
Period size: 456 Copynumber: 2.8 Consensus size: 454
43785316 TACTATCGAT
* * * * * * * * *
43785326 AATGTCAAGGCCAAAATCCAAGACAAAGAAGGGATTCCTCCAGACCAACAAAGGCTT-ATCTTTG
1 AATGTTAAAGCCAAAATTCAGGACAAGGAGGGGATTCCTCCAGACCAGCAGAGG-TTGATTTTTG
* * ** * * * * *
43785390 CCGGAAAACAACTTGAGGATGGCCGAACTCTTGCCGACTACAACATCCAAAAGGAGTCCACCCTC
65 CCGGAAAGCAGCTTGAGGATGGGAGGACACTTGCGGACTATAACATCCAAAAGGAGTCCACCCTG
** * * * * * * *
43785455 CACCTAGTCCTT-CGTCTAAGGGGTGGCATGCAGATATTTGTGAAAACCCTT-ACTGGCAAGACC
130 CATTTGGT-CTTGCGACTAAGAGGTGGAATGCAGATATTTGTGAAAA-CTTTGACTGGAAAAACC
* * * * *
43785518 ATCACCCTCGAGGTGGAAAGTTCTGATACGATTGATAATGTCAAGGCCAAGATCCAAGACAAGGA
193 ATCACCCTGGAGGTGGAGAGTTCAGACACGATTGATAATGTGAAGGCCAAGATCCAAGACAAGGA
* * * *
43785583 AGGGATCCCTCCAGACCAACAGAGGCTT-ATCTTTGCAGGTAAA-CAACTTGAAGATGGCCGGAC
258 GGGGATCCCTCCAGACCAGCAGAGG-TTGATCTTTGCTGG-AAAGCAA-TTGAGGATGGCCGGA-
* * * * * * * * * *
43785646 CCTCGCTGATTACAACATCCAGAAAGAGTCTACGCTCCACCTTGTCCTTCGTCTTAGGGGTGGGA
319 CCTTGCAGATTACAACATCCAGAAGGAGTCAACCCTGCACCTTGTCCTTCGCCTTCGAGGAGGGA
* * ** * * * *
43785711 TGCAGATATTTGTAAAAACCCTCACCGGAAAAACCATCACTTTGGAGGTGGAGAGTTCTGATACC
384 TGCAGATATTCGTAAAAACCCTCACCGGAAAAACCATAACACTGGAGGTCGAGAGCTCGGACACC
*
43785776 ATTGAT
449 ATTGAC
* * * * * *
43785782 AATGTTAAGGCCAAGATTCAGGACAAGGAGGGTATTCCACCAGATCAGCAGAGGCTGATTTTTGC
1 AATGTTAAAGCCAAAATTCAGGACAAGGAGGGGATTCCTCCAGACCAGCAGAGGTTGATTTTTGC
* * * *
43785847 CGGAAAGCAGCTCGAGGATGGGAGGACACTAGCGGATTATAACATCCAAAAGGAGTCAACCCTGC
66 CGGAAAGCAGCTTGAGGATGGGAGGACACTTGCGGACTATAACATCCAAAAGGAGTCCACCCTGC
** * * *
43785912 ATTTGGTGC-TGCGACTGCGTGGTGGAATGCAGATTTTTGTGAAAACTTTGACTGGAAAAACTAT
131 ATTTGGT-CTTGCGACTAAGAGGTGGAATGCAGATATTTGTGAAAACTTTGACTGGAAAAACCAT
* ** * *
43785976 TACATTGGAGGTGGAGAGTTCAGACACAATTGATAACGTGAAGGCCAAGATCCAAGACAAGGAGG
195 CACCCTGGAGGTGGAGAGTTCAGACACGATTGATAATGTGAAGGCCAAGATCCAAGACAAGGAGG
* * * * * **
43786041 GTATCCCACCTGACCAGCAGAGGTTGATTTTTGCTGGAAAGCAACTCGAGGATGGGAGGACGCTT
260 GGATCCCTCCAGACCAGCAGAGGTTGATCTTTGCTGGAAAGCAA-TTGAGGATGGCCGGAC-CTT
* * * * *
43786106 GCGGATTATAACATCCAAAAGGAGTCAACCCTGCA-CTTGGTTCTGCGCCTTCGAGGAGGGATGC
323 GCAGATTACAACATCCAGAAGGAGTCAACCCTGCACCTT-GTCCTTCGCCTTCGAGGAGGGATGC
* * * * * *
43786170 AGATATTCGTTAAGACCTTGACTGGTAAAACCATAACACTGGAGGTCGAGAGCTCGGACACCATT
387 AGATATTCGTAAAAACCCTCACCGGAAAAACCATAACACTGGAGGTCGAGAGCTCGGACACCATT
43786235 GAC
452 GAC
*
43786238 AATGTTAAAGCGAAAATTCAGGACAAGGAGGGGATTCCTCCAGACCAGCAGAGGTTGATTTTTGC
1 AATGTTAAAGCCAAAATTCAGGACAAGGAGGGGATTCCTCCAGACCAGCAGAGGTTGATTTTTGC
* * *
43786303 CGGAAAGCAGCTTGAGGATGGGAGGACGCTTGCGGACTATAACATCCAAAAGGAATCCACTCTGC
66 CGGAAAGCAGCTTGAGGATGGGAGGACACTTGCGGACTATAACATCCAAAAGGAGTCCACCCTGC
* * * * * * * *
43786368 ATTTGGTTTTGCGCCTTAGAGGAGGGATGCAGATATTCGTGAAGACTTTGACTGGGAAAACCATC
131 ATTTGGTCTTGCGACTAAGAGGTGGAATGCAGATATTTGTGAAAACTTTGACTGGAAAAACCATC
* * * * * * *
43786433 ACCCTGGAGGTGGAGAGCTCGGACACGATTGACAATGTGAAAGCTAAGATTCAGGACAAGGAGGG
196 ACCCTGGAGGTGGAGAGTTCAGACACGATTGATAATGTGAAGGCCAAGATCCAAGACAAGGAGGG
* * * * * *
43786498 GATTCCTCCAGACCAGCAGAGGTTGATCTTTGCTGGGAAGCAGTTGGAGGATGGTCGAACTTTAG
261 GATCCCTCCAGACCAGCAGAGGTTGATCTTTGCTGGAAAGCAATT-GAGGATGGCCGGACCTT-G
* * * * *
43786563 CAGACTACAATATCCAGAAGGAGTCCACTCTGCATCTTGTCCTTCGCCTTCG
324 CAGATTACAACATCCAGAAGGAGTCAACCCTGCACCTTGTCCTTCGCCTTCG
43786615 TGGTGGTTTC
Statistics
Matches: 673, Mismatches: 149, Indels: 22
0.80 0.18 0.03
Matches are distributed among these distances:
455 17 0.03
456 653 0.97
457 3 0.00
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (454 bp):
AATGTTAAAGCCAAAATTCAGGACAAGGAGGGGATTCCTCCAGACCAGCAGAGGTTGATTTTTGC
CGGAAAGCAGCTTGAGGATGGGAGGACACTTGCGGACTATAACATCCAAAAGGAGTCCACCCTGC
ATTTGGTCTTGCGACTAAGAGGTGGAATGCAGATATTTGTGAAAACTTTGACTGGAAAAACCATC
ACCCTGGAGGTGGAGAGTTCAGACACGATTGATAATGTGAAGGCCAAGATCCAAGACAAGGAGGG
GATCCCTCCAGACCAGCAGAGGTTGATCTTTGCTGGAAAGCAATTGAGGATGGCCGGACCTTGCA
GATTACAACATCCAGAAGGAGTCAACCCTGCACCTTGTCCTTCGCCTTCGAGGAGGGATGCAGAT
ATTCGTAAAAACCCTCACCGGAAAAACCATAACACTGGAGGTCGAGAGCTCGGACACCATTGAC
Found at i:43790169 original size:98 final size:99
Alignment explanation
Indices: 43790000--43790189 Score: 364
Period size: 98 Copynumber: 1.9 Consensus size: 99
43789990 NNNNNNAAAG
43790000 AGGGCAGGATGAGTTATTTGGCCCTTTCGCTTAAAAAAAAGAAAAGTCATTTTAGTCCTCTATTT
1 AGGGCAGGATGAGTTATTTGGCCCTTTCGCTTAAAAAAAAGAAAAGTCATTTTAGTCCTCTATTT
43790065 AATTTTTTTTTA-TCTTTTAGCTTTTTTATAAAA
66 AATTTTTTTTTACTCTTTTAGCTTTTTTATAAAA
43790098 AGGGCAGGATGAGTTATTTGGCCCTTTCGCTTAAAAAAAAGAAAAGTCATTTTAGTCCTCTATTT
1 AGGGCAGGATGAGTTATTTGGCCCTTTCGCTTAAAAAAAAGAAAAGTCATTTTAGTCCTCTATTT
43790163 AATTTTTTTTTATCTCTTTTAGCTTTT
66 AATTTTTTTTTA-CTCTTTTAGCTTTT
43790190 AAACTTATGT
Statistics
Matches: 90, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
98 77 0.86
100 13 0.14
ACGTcount: A:0.28, C:0.13, G:0.15, T:0.44
Consensus pattern (99 bp):
AGGGCAGGATGAGTTATTTGGCCCTTTCGCTTAAAAAAAAGAAAAGTCATTTTAGTCCTCTATTT
AATTTTTTTTTACTCTTTTAGCTTTTTTATAAAA
Found at i:43790330 original size:9 final size:9
Alignment explanation
Indices: 43790318--43790352 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
43790308 TAAAAATTAA
43790318 AAAAATATT
1 AAAAATATT
*
43790327 AAAATTATT
1 AAAAATATT
43790336 AGAAAATATT
1 A-AAAATATT
43790346 AAAAATA
1 AAAAATA
43790353 CACATGGATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAAATATT
Found at i:43790343 original size:19 final size:17
Alignment explanation
Indices: 43790302--43790349 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
43790292 TTAATTTTTT
*
43790302 AAAATATAAAAATTAAA
1 AAAATATTAAAATTAAA
*
43790319 AAAATATTAAAATTATTAG
1 AAAATATTAAAATTA--AA
43790338 AAAATATTAAAA
1 AAAATATTAAAA
43790350 ATACACATGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 14 0.52
19 13 0.48
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
AAAATATTAAAATTAAA
Found at i:43793200 original size:228 final size:227
Alignment explanation
Indices: 43792802--43794100 Score: 1231
Period size: 228 Copynumber: 5.7 Consensus size: 227
43792792 GTTGACAGCA
* * * * *
43792802 GATGCAGATCTTTGTGAAAACCCTTACTGGTAAGACCATCACCCTTGAGGTAGAAAGTTCTGATA
1 GATGCAGATATTTGTGAAAACCCTTACCGGTAAGACCATCACCCTGGAGGTGGAGAGTTCTGATA
* * * * * * * *
43792867 CTATCGATAATGTCAAGGCTAAAATCCAAGACAAAGAAGGGATCCCTCCTGACCAGCAAAGGCTT
66 CCATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAGAGG-TT
* * * * * *
43792932 -ATCTTTGCCGGAAAACAACTCGAGGATGGCCGAACTCTTGCCGACTACAATATCCA-AAAGGAG
130 GATTTTTGCCGG-AAACAGCTCGAAGATGGCCGAACTCTTGCAGATTACAACATCCAGAAA-GAG
* * * *
43792995 TCCACCCTCCATCTAGTCCTTCGTCTAAGGGGTGG
193 TCTACCCTCCACCTGGTCCTTCGTCTTAGGGGTGG
* * * * * * * * *
43793030 CATGCAGATATTCGTGAAAACTCTTACTGGCAAGACTATCACCCTCGAGGTGGAAAGTTCCGATA
1 GATGCAGATATTTGTGAAAACCCTTACCGGTAAGACCATCACCCTGGAGGTGGAGAGTTCTGATA
* *
43793095 CAATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAACAGAGGCTT
66 CCATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAGAGG-TT
* * *
43793160 -ATCTTTGCCGGTAAACAGCTTGAAGATGGCCGAACTCTTGCGGATTACAACATCCAGAAAGAGT
130 GATTTTTGCCGG-AAACAGCTCGAAGATGGCCGAACTCTTGCAGATTACAACATCCAGAAAGAGT
*
43793224 CTACCCTCCACCTTGTCCTTCGTCTTAGGGGTGG
194 CTACCCTCCACCTGGTCCTTCGTCTTAGGGGTGG
* * * * * *
43793258 GATGCAGATCTTTGTAAAAACCCTTACTGGTAAGACCATCACCCTTGAGGTGGAGAGCTCCGATA
1 GATGCAGATATTTGTGAAAACCCTTACCGGTAAGACCATCACCCTGGAGGTGGAGAGTTCTGATA
* * * *
43793323 CTATCGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATTCCACCAGATCAGCAGAGGTTG
66 CCATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAGAGGTTG
* ** * *
43793388 ATTTTTGCCGGAAAACAACTCGAAGATGGTAGGACACTTGCAGATTACAACATCCAGAAAGAGTC
131 ATTTTTGCCGG-AAACAGCTCGAAGATGGCCGAACTCTTGCAGATTACAACATCCAGAAAGAGTC
*
43793453 TACCCTCCACCTTGTCCTTCGTCTTAGGGGTGG
195 TACCCTCCACCTGGTCCTTCGTCTTAGGGGTGG
* * * * * * * **
43793486 GATGCAGATTTTTGTAAAAACCCTCACCGGAAAAACTATTACGTTGGAGGTGGAGAGTTCTGATA
1 GATGCAGATATTTGTGAAAACCCTTACCGGTAAGACCATCACCCTGGAGGTGGAGAGTTCTGATA
* * * * * *
43793551 CGATTGATAATGTTAAGGCCAAGATTCAGGATAAGGAAGGGATCCCACCGGACCAGCAGAGGTTG
66 CCATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAGAGGTTG
* * * * * * * *
43793616 ATTTTTGCTGGAAAGCAGCTTGAAGATGGCCGAACTCTTGCGGACTATAACATTCAGAAGGAATC
131 ATTTTTGCCGGAAA-CAGCTCGAAGATGGCCGAACTCTTGCAGATTACAACATCCAGAAAGAGTC
* ** * ** *
43793681 GACCCTCCATTTGGT-GTTACGTCTCCGTGGTGG
195 TACCCTCCACCTGGTCCTT-CGTCTTAGGGGTGG
* * * * * * * * * ** * * *
43793714 CATGCAAATTTTTGTGAAGACTCTCACCGGAAAGACTATTACTTTGGAAGTTGAGAGTTCTGACA
1 GATGCAGATATTTGTGAAAACCCTTACCGGTAAGACCATCACCCTGGAGGTGGAGAGTTCTGATA
* * * * * * *
43793779 CCATTGACAATGTAAAAGCTAAGATCCAGGACAAGGAAGGGATTCCACCAGATCAGCAGAGGTTG
66 CCATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAGAGGTTG
* ** * * * *
43793844 ATTTTTGCTGGCAAACAGCTCGAAGATGGTAGGACACTTGCAGATTATAATATCCAGAAAGAGTC
131 ATTTTTGCCGG-AAACAGCTCGAAGATGGCCGAACTCTTGCAGATTACAACATCCAGAAAGAGTC
* * * * * * *
43793909 TACCCTCCACTTGGTGCTCCGACTTCGAGGAGG
195 TACCCTCCACCTGGTCCTTCGTCTTAGGGGTGG
* * * * * * *
43793942 GATGCAGATATTCGTGAAGA-CCTTGACCGGTAAAACCATCACCCTGGAGGTCGAGAGCTCGGAC
1 GATGCAGATATTTGTGAAAACCCTT-ACCGGTAAGACCATCACCCTGGAGGTGGAGAGTTCTGAT
* * * * * * * * *
43794006 ACCATTGACAATGTCAAAGCGAAAATTCAGGACAAGGAGGGGATTCCTCCAGACCAGCAGAGGTT
65 ACCATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAGAGGTT
* *
43794071 GATTTTTGCCGGAAAGCAGCTTGAGGATGG
130 GATTTTTGCCGGAAA-CAGCTCGAAGATGG
43794101 GAGGACNNNN
Statistics
Matches: 903, Mismatches: 160, Indels: 16
0.84 0.15 0.01
Matches are distributed among these distances:
227 12 0.01
228 884 0.98
229 7 0.01
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.23
Consensus pattern (227 bp):
GATGCAGATATTTGTGAAAACCCTTACCGGTAAGACCATCACCCTGGAGGTGGAGAGTTCTGATA
CCATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAGAGGTTG
ATTTTTGCCGGAAACAGCTCGAAGATGGCCGAACTCTTGCAGATTACAACATCCAGAAAGAGTCT
ACCCTCCACCTGGTCCTTCGTCTTAGGGGTGG
Found at i:43793655 original size:456 final size:455
Alignment explanation
Indices: 43792802--43794100 Score: 1487
Period size: 456 Copynumber: 2.8 Consensus size: 455
43792792 GTTGACAGCA
*
43792802 GATGCAGATCTTTGTGAAAACCCTTACTGGTAAGACCATCACCCTTGAGGTAGAAAGTTCTGATA
1 GATGCAGATCTTTGTGAAAACCCTTACTGGTAAGACCATCACCCTTGAGGTAGAGAGTTCTGATA
* * * * * * *
43792867 CTATCGATAATGTCAAGGCTAAAATCCAAGACAAAGAAGGGATCCCTCCTGACCAGCAAAGGCTT
66 CTATCGATAATGTCAAGGCTAAGATCCAAGACAAGGAAGGGATTCCACCAGATCAGCAGAGG-TT
* * ** * * * *
43792932 -ATCTTTGCCGGAAAACAACTCGAGGATGGCCGAACTCTTGCCGACTACAATATCCA-AAAGGAG
130 GATTTTTGCCGGAAAACAACTCGAAGATGGTAGGACACTTGCAGATTACAATATCCAGAAA-GAG
* * * * * * *
43792995 TCCACCCTCCATCTAGTCCTTCGTCTAAGGGGTGGCATGCAGATATTCGTGAAAACTCTTACTGG
194 TCTACCCTCCA-CTTGTCCTTCGTCTTAGGGGTGGGATGCAGATATTCGTGAAAACCCTCACCGG
* * * * * *
43793060 CAAGACTATCACCCTCGAGGTGGAAAGTTCCGATACAATTGATAATGTCAAGGCCAAGATCCAAG
258 AAAAACTATCACCCTGGAGGTGGAGAGTTCCGATACAATTGATAATGTCAAGGCCAAGATTCAGG
* *
43793125 ACAAGGAAGGGATCCCACCAGACCAACAGAGGCTT-ATCTTTGCCGGTAAA-CAGCTTGAAGATG
323 ACAAGGAAGGGATCCCACCAGACCAGCAGAGG-TTGATTTTTGCCGG-AAAGCAGCTTGAAGATG
* * * *
43793188 GCCGAACTCTTGCGGATTACAACATCCAGAAAGAGTCTACCCTCCACCTT-GTCCTT-CGTCTTA
386 GCCGAACTCTTGCGGACTACAACATCCAGAAAGAATCGACCCTCCA-CTTGGT-CTTACGTCTCA
43793251 GGGGTGG
449 GGGGTGG
* * * *
43793258 GATGCAGATCTTTGTAAAAACCCTTACTGGTAAGACCATCACCCTTGAGGTGGAGAGCTCCGATA
1 GATGCAGATCTTTGTGAAAACCCTTACTGGTAAGACCATCACCCTTGAGGTAGAGAGTTCTGATA
*
43793323 CTATCGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATTCCACCAGATCAGCAGAGGTTG
66 CTATCGATAATGTCAAGGCTAAGATCCAAGACAAGGAAGGGATTCCACCAGATCAGCAGAGGTTG
*
43793388 ATTTTTGCCGGAAAACAACTCGAAGATGGTAGGACACTTGCAGATTACAACATCCAGAAAGAGTC
131 ATTTTTGCCGGAAAACAACTCGAAGATGGTAGGACACTTGCAGATTACAATATCCAGAAAGAGTC
* * *
43793453 TACCCTCCACCTTGTCCTTCGTCTTAGGGGTGGGATGCAGATTTTTGTAAAAACCCTCACCGGAA
196 TACCCTCCA-CTTGTCCTTCGTCTTAGGGGTGGGATGCAGATATTCGTGAAAACCCTCACCGGAA
* ** * * * *
43793518 AAACTATTACGTTGGAGGTGGAGAGTTCTGATACGATTGATAATGTTAAGGCCAAGATTCAGGAT
260 AAACTATCACCCTGGAGGTGGAGAGTTCCGATACAATTGATAATGTCAAGGCCAAGATTCAGGAC
* *
43793583 AAGGAAGGGATCCCACCGGACCAGCAGAGGTTGATTTTTGCTGGAAAGCAGCTTGAAGATGGCCG
325 AAGGAAGGGATCCCACCAGACCAGCAGAGGTTGATTTTTGCCGGAAAGCAGCTTGAAGATGGCCG
* * * * * * *
43793648 AACTCTTGCGGACTATAACATTCAGAAGGAATCGACCCTCCATTTGGTGTTACGTCTCCGTGGTG
390 AACTCTTGCGGACTACAACATCCAGAAAGAATCGACCCTCCACTTGGTCTTACGTCTCAGGGGTG
43793713 G
455 G
* * * * * * * * * * * * * *
43793714 CATGCAAATTTTTGTGAAGACTCTCACCGGAAAGACTATTA-CTTTGGAAGTTGAGAGTTCTGAC
1 GATGCAGATCTTTGTGAAAACCCTTACTGGTAAGACCATCACCCTT-GAGGTAGAGAGTTCTGAT
* * * * * *
43793778 ACCATTGACAATGTAAAAGCTAAGATCCAGGACAAGGAAGGGATTCCACCAGATCAGCAGAGGTT
65 ACTATCGATAATGTCAAGGCTAAGATCCAAGACAAGGAAGGGATTCCACCAGATCAGCAGAGGTT
* * * *
43793843 GATTTTTGCTGGCAAACAGCTCGAAGATGGTAGGACACTTGCAGATTATAATATCCAGAAAGAGT
130 GATTTTTGCCGGAAAACAACTCGAAGATGGTAGGACACTTGCAGATTACAATATCCAGAAAGAGT
* * * * * * * * * *
43793908 CTACCCTCCACTTGGTGCTCCGACTTCGAGGAGGGATGCAGATATTCGTGAAGACCTTGACCGGT
195 CTACCCTCCACTT-GTCCTTCGTCTTAGGGGTGGGATGCAGATATTCGTGAAAACCCTCACCGGA
* * * * * * * * * *
43793973 AAAACCATCACCCTGGAGGTCGAGAGCTCGGACACCATTGACAATGTCAAAGCGAAAATTCAGGA
259 AAAACTATCACCCTGGAGGTGGAGAGTTCCGATACAATTGATAATGTCAAGGCCAAGATTCAGGA
* * * *
43794038 CAAGGAGGGGATTCCTCCAGACCAGCAGAGGTTGATTTTTGCCGGAAAGCAGCTTGAGGATGG
324 CAAGGAAGGGATCCCACCAGACCAGCAGAGGTTGATTTTTGCCGGAAAGCAGCTTGAAGATGG
43794101 GAGGACNNNN
Statistics
Matches: 711, Mismatches: 124, Indels: 16
0.84 0.15 0.02
Matches are distributed among these distances:
455 17 0.02
456 691 0.97
457 3 0.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.23
Consensus pattern (455 bp):
GATGCAGATCTTTGTGAAAACCCTTACTGGTAAGACCATCACCCTTGAGGTAGAGAGTTCTGATA
CTATCGATAATGTCAAGGCTAAGATCCAAGACAAGGAAGGGATTCCACCAGATCAGCAGAGGTTG
ATTTTTGCCGGAAAACAACTCGAAGATGGTAGGACACTTGCAGATTACAATATCCAGAAAGAGTC
TACCCTCCACTTGTCCTTCGTCTTAGGGGTGGGATGCAGATATTCGTGAAAACCCTCACCGGAAA
AACTATCACCCTGGAGGTGGAGAGTTCCGATACAATTGATAATGTCAAGGCCAAGATTCAGGACA
AGGAAGGGATCCCACCAGACCAGCAGAGGTTGATTTTTGCCGGAAAGCAGCTTGAAGATGGCCGA
ACTCTTGCGGACTACAACATCCAGAAAGAATCGACCCTCCACTTGGTCTTACGTCTCAGGGGTGG
Found at i:43800632 original size:9 final size:9
Alignment explanation
Indices: 43800620--43800654 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
43800610 TAAAAATTAA
43800620 AAAAATATT
1 AAAAATATT
*
43800629 AAAATTATT
1 AAAAATATT
43800638 AGAAAATATT
1 A-AAAATATT
43800648 AAAAATA
1 AAAAATA
43800655 CACATGGATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (9 bp):
AAAAATATT
Found at i:43800645 original size:19 final size:17
Alignment explanation
Indices: 43800604--43800651 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
43800594 TTAATTTTTT
*
43800604 AAAATATAAAAATTAAA
1 AAAATATTAAAATTAAA
*
43800621 AAAATATTAAAATTATTAG
1 AAAATATTAAAATTA--AA
43800640 AAAATATTAAAA
1 AAAATATTAAAA
43800652 ATACACATGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 14 0.52
19 13 0.48
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
AAAATATTAAAATTAAA
Found at i:43802823 original size:98 final size:99
Alignment explanation
Indices: 43802715--43802911 Score: 387
Period size: 98 Copynumber: 2.0 Consensus size: 99
43802705 AATATTCTTG
43802715 ATTTTTTTTAGCTTTTGATAATATCATCTATGTTTTTTAGTGCTTCATATTTGAACAATTCTTGT
1 ATTTTTTTTAGCTTTTGATAATATCATCTATGTTTTTTAGTGCTTCATATTTGAACAATTCTTGT
43802780 TGAATACTTTTTGGAAATTTT-CCATACATTAGT
66 TGAATACTTTTTGGAAATTTTCCCATACATTAGT
43802813 ATTTTTTTTAGCTTTTGATAATATCATCTATGTTTTTTAGTGCTTCATATTTGAACAATTCTTGT
1 ATTTTTTTTAGCTTTTGATAATATCATCTATGTTTTTTAGTGCTTCATATTTGAACAATTCTTGT
43802878 TGAATACTTTTTGGAAATTTTCCCATACATTAGT
66 TGAATACTTTTTGGAAATTTTCCCATACATTAGT
43802912 TGTAAATTAA
Statistics
Matches: 98, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
98 86 0.88
99 12 0.12
ACGTcount: A:0.25, C:0.12, G:0.11, T:0.52
Consensus pattern (99 bp):
ATTTTTTTTAGCTTTTGATAATATCATCTATGTTTTTTAGTGCTTCATATTTGAACAATTCTTGT
TGAATACTTTTTGGAAATTTTCCCATACATTAGT
Found at i:43803599 original size:228 final size:227
Alignment explanation
Indices: 43803201--43804782 Score: 1595
Period size: 228 Copynumber: 6.9 Consensus size: 227
43803191 GTTGACAGCA
* * * * * * * * * * *
43803201 GATGCAGATCTTTGTGAAAACCCTT-ACTGGTAAGACCATCACCCTTGAGGTAGAAAGTTCTGAT
1 GATGCAGATATTCGTGAAGA-CCTTGACCGGTAAAACCATCACCCTGGAGGTCGAGAGCTCGGAC
* * * * * * * * * * * *
43803265 ACTATCGATAATGTCAAGGCTAAAATCCAAGACAAAGAAGGGATCCCTCCTGACCAGCAAAGGCT
65 ACCATTGACAATGTCAAAGCGAAAATTCAGGACAAGGAGGGGATTCCTCCAGACCAGCAGAGG-T
* * * ** * * * *
43803330 T-ATCTTTGCCGGAAAACAACTCGAGGATGGCCGAACTCTTGCCGACTACAATATCCAAAAGGAG
129 TGATTTTTGCCGG-AAACAGCTTGAGGATGGGAGGACACTTGCAGACTACAACATCCAAAAGGAG
* * * * * * *
43803394 TCCACCCTCCATCTAGTCCTTCGTCTAAGGGGTGG
193 TCGACCCTGCATCTGGTCCTTCGACTTAGAGGAGG
* * * * * * * * * * * *
43803429 CATGCAGATATTCGTGAAAACTCTT-ACTGGCAAGACTATCACCCTCGAGGTGGAAAGTTCCGAT
1 GATGCAGATATTCGTGAAGAC-CTTGACCGGTAAAACCATCACCCTGGAGGTCGAGAGCTCGGAC
* * * * * * * * * * *
43803493 ACAATTGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAACAGAGGCT
65 ACCATTGACAATGTCAAAGCGAAAATTCAGGACAAGGAGGGGATTCCTCCAGACCAGCAGAGG-T
* * ** * * * *
43803558 T-ATCTTTGCCGGTAAACAGCTTGAAGATGGCCGAACTCTTGCGGATTACAACATCCAGAAA-GA
129 TGATTTTTGCCGG-AAACAGCTTGAGGATGGGAGGACACTTGCAGACTACAACATCCA-AAAGGA
* * * * * * *
43803621 GTCTACCCTCCACCTTGTCCTTCGTCTTAGGGGTGG
192 GTCGACCCTGCATCTGGTCCTTCGACTTAGAGGAGG
* * * * * * * * * *
43803657 GATGCAGATCTTTGTAAAAACCCTT-ACTGGTAAGACCATCACCCTTGAGGTGGAGAGCTCCGAT
1 GATGCAGATATTCGTGAAGA-CCTTGACCGGTAAAACCATCACCCTGGAGGTCGAGAGCTCGGAC
* * * * * * * * * * *
43803721 ACTATCGATAATGTCAAGGCCAAGATCCAAGACAAGGAAGGGATTCCACCAGATCAGCAGAGGTT
65 ACCATTGACAATGTCAAAGCGAAAATTCAGGACAAGGAGGGGATTCCTCCAGACCAGCAGAGGTT
* * * * *
43803786 GATTTTTGCCGGAAAACAACTCGAAGATGGTAGGACACTTGCAGATTACAACATCCAGAAA-GAG
130 GATTTTTGCCGG-AAACAGCTTGAGGATGGGAGGACACTTGCAGACTACAACATCCA-AAAGGAG
* * * * * *
43803850 TCTACCCTCCACCTTGTCCTT-GTCTTAG-GGGGG
193 TCGACCCTGCATCTGGTCCTTCGACTTAGAGGAGG
43803883 GATGCAGATATTCGTGAAGACCTTGACCGGTAAAACCATCACCCTGGAGGTCGAGAGCTCGGACA
1 GATGCAGATATTCGTGAAGACCTTGACCGGTAAAACCATCACCCTGGAGGTCGAGAGCTCGGACA
43803948 CCATTGACAATGTCAAAGCGAAAATTCAGGACAAGGAGGGGATTCCTCCAGACCAGCAGAGGTTG
66 CCATTGACAATGTCAAAGCGAAAATTCAGGACAAGGAGGGGATTCCTCCAGACCAGCAGAGGTTG
* *
43804013 ATTTTTGCCGGAAAGCAGCTTGAGGATGGGAGGACACTTGCAGACTATAACATCCAAAAGGAATC
131 ATTTTTGCCGGAAA-CAGCTTGAGGATGGGAGGACACTTGCAGACTACAACATCCAAAAGGAGTC
* * *
43804078 GACCCTGCATTTGGT-TTTACGACTTCGAGGAGG
195 GACCCTGCATCTGGTCCTT-CGACTTAGAGGAGG
43804111 GATGCAGATATTCGTGAAGACCTTGACCGGTAAAACCATCACCCTGGAGGTCGAGAGCTCGGACA
1 GATGCAGATATTCGTGAAGACCTTGACCGGTAAAACCATCACCCTGGAGGTCGAGAGCTCGGACA
43804176 CCATTGACAATGTCAAAGCGAAAATTCAGGACAAGGAGGGGATTCCTCCAGACCAGCAGAGGTTG
66 CCATTGACAATGTCAAAGCGAAAATTCAGGACAAGGAGGGGATTCCTCCAGACCAGCAGAGGTTG
* *
43804241 ATTTTTGCCGGAAAGCAGCTTGAGGATGGGAGGACACTTGCAGACTATAACATCCAAAAGGAATC
131 ATTTTTGCCGGAAA-CAGCTTGAGGATGGGAGGACACTTGCAGACTACAACATCCAAAAGGAGTC
* * * *
43804306 GACCCTGCATTTGGTGCTCCGACTTCGAGGAGG
195 GACCCTGCATCTGGTCCTTCGACTTAGAGGAGG
43804339 GATGCAGATATTCGTGAAGACCTTGACCGGTAAAACCATCACCCTGGAGGTCGAGAGCTCGGACA
1 GATGCAGATATTCGTGAAGACCTTGACCGGTAAAACCATCACCCTGGAGGTCGAGAGCTCGGACA
43804404 CCATTGACAATGTCAAAGCGAAAATTCAGGACAAGGAGGGGATTCCTCCAGACCAGCAGAGGTTG
66 CCATTGACAATGTCAAAGCGAAAATTCAGGACAAGGAGGGGATTCCTCCAGACCAGCAGAGGTTG
* *
43804469 ATTTTTGCCGGAAAGCAGCTTGAGGATGGGAGGACACTTGCAGACTATAACATCCAAAAGGAATC
131 ATTTTTGCCGGAAA-CAGCTTGAGGATGGGAGGACACTTGCAGACTACAACATCCAAAAGGAGTC
* * *
43804534 GACCCTGCATTTGGT-TTTACGACTTCGAGGAGG
195 GACCCTGCATCTGGTCCTT-CGACTTAGAGGAGG
* * * *
43804567 GATGCAGATATTCGTGAAGACCTTGACCGGGAAAACAATCACCCTGGAGGTGGAGAGCTCAGACA
1 GATGCAGATATTCGTGAAGACCTTGACCGGTAAAACCATCACCCTGGAGGTCGAGAGCTCGGACA
* * * * *
43804632 CGATCGACAATGTGAAAGCGAAGATTCAGGACAAGGAGGGGATTCCACCAGACCAGCAGAGGTTG
66 CCATTGACAATGTCAAAGCGAAAATTCAGGACAAGGAGGGGATTCCTCCAGACCAGCAGAGGTTG
* * * ** * * * * * *
43804697 ATATTTGCTGGGAAGCAG-TTGGAGGATGGTCGAACTCTAGCCGACTACAATATCCAGAAGGAGT
131 ATTTTTGC-CGGAAACAGCTT-GAGGATGGGAGGACACTTGCAGACTACAACATCCAAAAGGAGT
* * *
43804761 CCACACTGCATCTTGTCCTTCG
194 CGACCCTGCATCTGGTCCTTCG
43804783 CCTCCGTGGT
Statistics
Matches: 1219, Mismatches: 120, Indels: 30
0.89 0.09 0.02
Matches are distributed among these distances:
225 12 0.01
226 168 0.14
227 18 0.01
228 1010 0.83
229 11 0.01
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (227 bp):
GATGCAGATATTCGTGAAGACCTTGACCGGTAAAACCATCACCCTGGAGGTCGAGAGCTCGGACA
CCATTGACAATGTCAAAGCGAAAATTCAGGACAAGGAGGGGATTCCTCCAGACCAGCAGAGGTTG
ATTTTTGCCGGAAACAGCTTGAGGATGGGAGGACACTTGCAGACTACAACATCCAAAAGGAGTCG
ACCCTGCATCTGGTCCTTCGACTTAGAGGAGG
Found at i:43805632 original size:23 final size:22
Alignment explanation
Indices: 43805589--43805633 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
43805579 TATATATATA
*
43805589 AATATAAATTATATTTATATTT
1 AATATAAATTATATGTATATTT
43805611 AATATATAATTA-ATGTACTATTT
1 AATATA-AATTATATGTA-TATTT
43805634 TTTAATTCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (22 bp):
AATATAAATTATATGTATATTT
Found at i:43806923 original size:24 final size:24
Alignment explanation
Indices: 43806896--43806943 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
43806886 AAGATTTAGT
43806896 ATTTATTAGTATAATATATTTGAC
1 ATTTATTAGTATAATATATTTGAC
* * *
43806920 ATTTATTAGTGTAGTTTATTTGAC
1 ATTTATTAGTATAATATATTTGAC
43806944 TTACTAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.31, C:0.04, G:0.12, T:0.52
Consensus pattern (24 bp):
ATTTATTAGTATAATATATTTGAC
Found at i:43815662 original size:117 final size:116
Alignment explanation
Indices: 43815514--43815746 Score: 448
Period size: 117 Copynumber: 2.0 Consensus size: 116
43815504 TGAGGGTCCA
43815514 AAGGTGCCATTTGAGATGAAAAAAAAAAGGAAAATTGGGATTTTTGTTAGGGTTTGGATGGAAAA
1 AAGGTGCCATTTGAGATGAAAAAAAAAAGGAAAATTGGGATTTTTGTTAGGGTTTGGATGGAAAA
43815579 TTAATTTGCCATAGGGAAGGGAATTAGATAGATTGGAAGATGGAGGGAGAAT
66 TTAATTTGCCATAGGGAA-GGAATTAGATAGATTGGAAGATGGAGGGAGAAT
43815631 AAGGTGCCATTTGAGATGAAAAAAAAAAGGAAAATTGGGATTTTTGTTAGGGTTTGGATGGAAAA
1 AAGGTGCCATTTGAGATGAAAAAAAAAAGGAAAATTGGGATTTTTGTTAGGGTTTGGATGGAAAA
*
43815696 TTAATTTGTCATAGGGAAGGAATTAGATAGATTGGAAGATGGAGGGAGAAT
66 TTAATTTGCCATAGGGAAGGAATTAGATAGATTGGAAGATGGAGGGAGAAT
43815747 CAAATAATGT
Statistics
Matches: 115, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
116 33 0.29
117 82 0.71
ACGTcount: A:0.39, C:0.03, G:0.31, T:0.27
Consensus pattern (116 bp):
AAGGTGCCATTTGAGATGAAAAAAAAAAGGAAAATTGGGATTTTTGTTAGGGTTTGGATGGAAAA
TTAATTTGCCATAGGGAAGGAATTAGATAGATTGGAAGATGGAGGGAGAAT
Found at i:43817421 original size:10 final size:10
Alignment explanation
Indices: 43817408--43817441 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
43817398 TGGGTGGTTG
*
43817408 GGTGTGGTGT
1 GGTGTGGTGC
43817418 GGTGTGGTGC
1 GGTGTGGTGC
*
43817428 GGTGCGGTGC
1 GGTGTGGTGC
43817438 GGTG
1 GGTG
43817442 CAGTGTGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.00, C:0.09, G:0.62, T:0.29
Consensus pattern (10 bp):
GGTGTGGTGC
Found at i:43818260 original size:29 final size:29
Alignment explanation
Indices: 43818189--43818260 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
43818179 GTGATAAAGA
*
43818189 AATAATAATATATAAATTTAAATATATAT
1 AATAATAATAAATAAATTTAAATATATAT
* * *
43818218 AAAAATAGACAAAT-ATTTTAAATATATAT
1 AATAATA-ATAAATAAATTTAAATATATAT
43818247 ATATAATAATAAAT
1 A-ATAATAATAAAT
43818261 GTATCAGGTG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
29 26 0.74
30 9 0.26
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (29 bp):
AATAATAATAAATAAATTTAAATATATAT
Found at i:43818680 original size:32 final size:32
Alignment explanation
Indices: 43818644--43818708 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
43818634 ATTGTTACTC
43818644 TCAAATGGTGGGTGAGTTTAGATAGGTTTAGA
1 TCAAATGGTGGGTGAGTTTAGATAGGTTTAGA
*
43818676 TCAAATGGTGGGTGGGTTTAGATAGGTTTAGA
1 TCAAATGGTGGGTGAGTTTAGATAGGTTTAGA
43818708 T
1 T
43818709 ATACGATGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.26, C:0.03, G:0.35, T:0.35
Consensus pattern (32 bp):
TCAAATGGTGGGTGAGTTTAGATAGGTTTAGA
Done.