Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 277 of 325
Found at i:88835808 original size:44 final size:44
Alignment explanation
Indices: 88835733--88835953 Score: 133
Period size: 44 Copynumber: 4.8 Consensus size: 44
88835723 AATTGGTAAT
* * *
88835733 TTCAACCTG-TCCACTGCAACTTCA-AAGAGATAAGGCTGGTGGC
1 TTCAATCTGCTCCACTGCAACTTTAGGA-AGATAAGGCTGGTGGC
* * **
88835776 TTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCTGCCATAATTTGTAAC
1 TTCAATCTGCTCCACTGCAACTTTAGGAAGATAAG----G-C-----TGGTGGC
* * ** ** *
88835830 TTCAATTTGTTCCACTGCAACTTTAGGGAA-ATAAGATTCACTGTC
1 TTCAATCTGCTCCACTGCAACTTTA-GGAAGATAAGGCT-GGTGGC
* * * *
88835875 TTCAGTATGCTCCGCTGCAACTTTAGGGAGATAAGGCTGGTGGC
1 TTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGGCTGGTGGC
*
88835919 TTAAATCTGCTCCACTGCAACTTTAGGAAGATAAG
1 TTCAATCTGCTCCACTGCAACTTTAGGAAGATAAG
88835954 ATTCGTCGTT
Statistics
Matches: 134, Mismatches: 29, Indels: 29
0.70 0.15 0.15
Matches are distributed among these distances:
43 8 0.06
44 59 0.44
45 30 0.22
48 1 0.01
49 1 0.01
54 31 0.23
55 4 0.03
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (44 bp):
TTCAATCTGCTCCACTGCAACTTTAGGAAGATAAGGCTGGTGGC
Found at i:88836038 original size:44 final size:45
Alignment explanation
Indices: 88835828--88836044 Score: 163
Period size: 44 Copynumber: 4.9 Consensus size: 45
88835818 ATAATTTGTA
* * *
88835828 ACTTCAATTTGTTCCACTGCAACTTTAGGGAAATAAGAT-TCACTG
1 ACTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATCTCAC-G
* * * * * ***
88835873 TCTTCAGTATGCTCCGCTGCAACTTTAGGGAGATAAG-GCTGGTG
1 ACTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATCTCACG
* * * *
88835917 GCTTAAATCTGCTCCACTGCAACTTTAGGAAGATAAGAT-TCGTCG
1 ACTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATCTC-ACG
** * * * * * *
88835962 TTTTCTATCTACTCCACTACAACTTCAAGGAGATAAGATCT-ACA
1 ACTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATCTCACG
* *
88836006 ACTTCAATCTGCTCCACTGCTACTTTAGGGAGATGAGAT
1 ACTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGAT
88836045 TTGTGGATTC
Statistics
Matches: 128, Mismatches: 40, Indels: 9
0.72 0.23 0.05
Matches are distributed among these distances:
44 64 0.50
45 63 0.49
46 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (45 bp):
ACTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATCTCACG
Found at i:88836467 original size:41 final size:41
Alignment explanation
Indices: 88836402--88836479 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
88836392 GGTTTCTTCC
**
88836402 ATCCATCCCACTACAACTTGGGGGTATAGGATTTGTACCAT
1 ATCCATCCCACTACAACTCAGGGGTATAGGATTTGTACCAT
*
88836443 ATCCATCCCACTACAGCTCAGGGGTATAGGATTTGTA
1 ATCCATCCCACTACAACTCAGGGGTATAGGATTTGTA
88836480 TCTTTCTACT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (41 bp):
ATCCATCCCACTACAACTCAGGGGTATAGGATTTGTACCAT
Found at i:88848658 original size:8 final size:8
Alignment explanation
Indices: 88848645--88848674 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
88848635 AGATCGGCAC
88848645 AAGCCGAA
1 AAGCCGAA
88848653 AAGCCGAA
1 AAGCCGAA
*
88848661 ATGCCGAA
1 AAGCCGAA
88848669 AAGCCG
1 AAGCCG
88848675 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:88858147 original size:20 final size:20
Alignment explanation
Indices: 88858122--88858163 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
88858112 AATAGAACAT
88858122 ATTAGTAAACCAATGAATAA
1 ATTAGTAAACCAATGAATAA
88858142 ATTAGTAAACCAATGAATAA
1 ATTAGTAAACCAATGAATAA
88858162 AT
1 AT
88858164 AAATAATATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.26
Consensus pattern (20 bp):
ATTAGTAAACCAATGAATAA
Found at i:88858401 original size:3 final size:3
Alignment explanation
Indices: 88858393--88858460 Score: 100
Period size: 3 Copynumber: 22.7 Consensus size: 3
88858383 GAGGGAAAAT
* *
88858393 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AGA GTA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
88858441 ATA ACA ATA GTA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
88858461 GTTAATTAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:88859456 original size:15 final size:15
Alignment explanation
Indices: 88859428--88859459 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
88859418 TTTTTTACAA
88859428 TTTTGTTTGTTTTTT
1 TTTTGTTTGTTTTTT
88859443 TTTTGCTTTGTTTTTT
1 TTTTG-TTTGTTTTTT
88859459 T
1 T
88859460 CTTCTCTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.00, C:0.03, G:0.12, T:0.84
Consensus pattern (15 bp):
TTTTGTTTGTTTTTT
Found at i:88862334 original size:28 final size:28
Alignment explanation
Indices: 88862255--88862349 Score: 93
Period size: 28 Copynumber: 3.4 Consensus size: 28
88862245 TAGATATCTT
* * * *
88862255 GCACACAAAGTGCCGTACTCAATATCTC
1 GCACACTAAGTGCCATACCCAATGTCTC
* ** *
88862283 -CACACTAAGTGCCATTCTTAATGTTTC
1 GCACACTAAGTGCCATACCCAATGTCTC
* *
88862310 TCACACTAAGTGCCATACCCGATGTCTC
1 GCACACTAAGTGCCATACCCAATGTCTC
88862338 GCACACTAAGTG
1 GCACACTAAGTG
88862350 TCGTACATAG
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
27 21 0.39
28 33 0.61
ACGTcount: A:0.28, C:0.31, G:0.15, T:0.26
Consensus pattern (28 bp):
GCACACTAAGTGCCATACCCAATGTCTC
Found at i:88864214 original size:13 final size:13
Alignment explanation
Indices: 88864196--88864221 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88864186 GGGATTTGCT
88864196 TTAACTAAACTAA
1 TTAACTAAACTAA
88864209 TTAACTAAACTAA
1 TTAACTAAACTAA
88864222 GAATGCACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACTAAACTAA
Found at i:88867728 original size:16 final size:17
Alignment explanation
Indices: 88867709--88867746 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
88867699 ATTAGATTAA
*
88867709 TTAATTAAAATT-TTAT
1 TTAATTAAAATTATGAT
88867725 TTAATTAAAATTATGAT
1 TTAATTAAAATTATGAT
88867742 TTAAT
1 TTAAT
88867747 AACTTAAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TTAATTAAAATTATGAT
Found at i:88879937 original size:40 final size:40
Alignment explanation
Indices: 88879875--88879972 Score: 137
Period size: 40 Copynumber: 2.5 Consensus size: 40
88879865 AAATCAAGTA
* * * *
88879875 CCTTCGGGATTTTG-CCGGATATAGTTACTCGCTCAACA-G
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAA-ATG
88879914 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
88879954 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
88879973 TTATCATTCG
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
39 13 0.25
40 40 0.75
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:88887819 original size:40 final size:40
Alignment explanation
Indices: 88887749--88887886 Score: 226
Period size: 40 Copynumber: 3.5 Consensus size: 40
88887739 AAACCAAGTA
* * *
88887749 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
88887788 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
88887828 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
88887868 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
88887887 TTATCATCCG
Statistics
Matches: 94, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
39 14 0.15
40 80 0.85
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:88895733 original size:40 final size:40
Alignment explanation
Indices: 88895662--88895876 Score: 362
Period size: 40 Copynumber: 5.4 Consensus size: 40
88895652 AAACCAAGTA
* * *
88895662 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAATTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
88895701 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
88895741 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
88895781 CCTTCGGGACTTAGCCCGGATAGAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
88895821 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
88895861 CCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCC
88895877 TGATTATCAT
Statistics
Matches: 167, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 14 0.08
40 153 0.92
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:88899642 original size:93 final size:93
Alignment explanation
Indices: 88899529--88899701 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
88899519 CGCCCATAAG
* * *
88899529 TGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
88899594 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
*
88899622 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
88899687 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
88899702 CAAACATCCT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:88899697 original size:46 final size:46
Alignment explanation
Indices: 88899522--88899697 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
88899512 TGTAACCCGC
* * *
88899522 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
88899568 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
*
88899618 CTC-T---TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
88899661 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
88899698 TGCCCAAACA
Statistics
Matches: 113, Mismatches: 6, Indels: 22
0.80 0.04 0.16
Matches are distributed among these distances:
42 3 0.03
43 6 0.05
44 1 0.01
46 65 0.58
47 29 0.26
49 1 0.01
50 5 0.04
51 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:88899716 original size:46 final size:46
Alignment explanation
Indices: 88899573--88899716 Score: 152
Period size: 46 Copynumber: 3.1 Consensus size: 46
88899563 CGCATCCATA
* *
88899573 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CT
* * * *
88899622 --TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCT
*
88899666 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
88899712 AGTGA
1 AGTGA
88899717 CATGTCACTT
Statistics
Matches: 78, Mismatches: 11, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
44 8 0.10
46 34 0.44
47 32 0.41
49 4 0.05
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:88904492 original size:48 final size:48
Alignment explanation
Indices: 88904417--88904644 Score: 198
Period size: 48 Copynumber: 4.9 Consensus size: 48
88904407 TACATGGTAG
* * ** * * *
88904417 GATGCTAATGCCATATCTTAGATATGGTCTTACATGAGATCACATATT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* ** **
88904465 GATGCCAATGCCATGTCTCAGACATGGTCTTACATGGGATCGTAGGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
* *
88904513 GATGCGAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
** * **** *
88904561 GATGCC---GGTA-G-ACCAG-CTATGGTCTTACACAATATTACATATC
1 GATGCCAATGCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATATC
*
88904604 GATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
88904645 GTACATAACC
Statistics
Matches: 139, Mismatches: 34, Indels: 14
0.74 0.18 0.07
Matches are distributed among these distances:
42 1 0.01
43 29 0.21
44 1 0.01
45 2 0.01
46 2 0.01
47 1 0.01
48 102 0.73
49 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATC
Found at i:88910267 original size:11 final size:12
Alignment explanation
Indices: 88910236--88910269 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
88910226 TTATTTTCAA
88910236 TTTAAATTCATT
1 TTTAAATTCATT
88910248 TTCTAAATT-ATT
1 TT-TAAATTCATT
88910260 TTTAAATTCA
1 TTTAAATTCA
88910270 ATCTTGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTAAATTCATT
Found at i:88914716 original size:3 final size:3
Alignment explanation
Indices: 88914708--88914733 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
88914698 GGTTCACCAT
88914708 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
88914734 GGCTTTGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:88923056 original size:46 final size:44
Alignment explanation
Indices: 88922967--88923081 Score: 142
Period size: 46 Copynumber: 2.5 Consensus size: 44
88922957 ATGCCGACTC
*
88922967 CATGTCCCAGAAATGGTCTTACACTGACACATCTCGTAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGACACATCTCGTAGCCGATG
* **
88923012 CATGTCCCAGACATGTCTTACACTGGCTTATGTCTCG-AGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGAC--ACATCTCGTA-GCCGATG
*
88923058 CATGTCCCAAACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
88923082 AGCACCCGTC
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
44 12 0.19
45 14 0.23
46 36 0.58
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGACACATCTCGTAGCCGATG
Found at i:88927338 original size:50 final size:50
Alignment explanation
Indices: 88927279--88927379 Score: 184
Period size: 50 Copynumber: 2.0 Consensus size: 50
88927269 TATTTTATGG
*
88927279 TCTGACTAAAAAAGATGTTCATTAGTCATGGTAATTATACTTACTACTGT
1 TCTGACTAAAAAAGATGTTCATTAGTCATGGTAATTAGACTTACTACTGT
*
88927329 TCTGACTAAAAAAGATGTTCTTTAGTCATGGTAATTAGACTTACTACTGT
1 TCTGACTAAAAAAGATGTTCATTAGTCATGGTAATTAGACTTACTACTGT
88927379 T
1 T
88927380 ATGAATCCTG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.39
Consensus pattern (50 bp):
TCTGACTAAAAAAGATGTTCATTAGTCATGGTAATTAGACTTACTACTGT
Found at i:88931862 original size:27 final size:27
Alignment explanation
Indices: 88931814--88932026 Score: 224
Period size: 27 Copynumber: 7.9 Consensus size: 27
88931804 GCGACGCTGC
* *
88931814 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
88931841 CAGATATTGTGGTAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
88931867 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
88931894 TAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
88931921 CAGATATATGTGGCAGAGCCATCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
88931948 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
88931975 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
88932002 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
88932027 GACGCTTCCT
Statistics
Matches: 157, Mismatches: 17, Indels: 24
0.79 0.09 0.12
Matches are distributed among these distances:
26 12 0.08
27 138 0.88
28 7 0.04
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:88931914 original size:54 final size:54
Alignment explanation
Indices: 88931832--88932026 Score: 320
Period size: 54 Copynumber: 3.6 Consensus size: 54
88931822 GTGACGAAGT
* * *
88931832 CACCAGATACAGAT-ATTGTGGTAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
88931886 CACCAGATTAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
88931940 CATCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
88931994 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATCGTGGCATAGCCACCAG
88932027 GACGCTTCCT
Statistics
Matches: 132, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
53 4 0.03
54 128 0.97
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:88932465 original size:16 final size:15
Alignment explanation
Indices: 88932444--88932473 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
88932434 AAAATACCGA
88932444 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
88932460 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
88932474 CCAATCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:88933675 original size:25 final size:26
Alignment explanation
Indices: 88933646--88933751 Score: 180
Period size: 25 Copynumber: 4.2 Consensus size: 26
88933636 TGAAATGCCC
88933646 ATCATGGAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
88933671 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
88933697 ATCATGGAATATTTACCTAA-TCATT
1 ATCATGGAACATTTACCTAACCCATT
88933722 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
88933748 ATCA
1 ATCA
88933752 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
25 43 0.57
26 32 0.43
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:88933716 original size:51 final size:51
Alignment explanation
Indices: 88933646--88933751 Score: 194
Period size: 51 Copynumber: 2.1 Consensus size: 51
88933636 TGAAATGCCC
88933646 ATCATGGAACATTTACCTAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCATTATCATGGAACATTTACCTAACCCATT
* *
88933697 ATCATGGAATATTTACCTAATCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCATTATCATGGAACATTTACCTAACCCATT
88933748 ATCA
1 ATCA
88933752 ATTTGTACCA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.33
Consensus pattern (51 bp):
ATCATGGAACATTTACCTAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:88939042 original size:27 final size:27
Alignment explanation
Indices: 88938994--88939206 Score: 197
Period size: 27 Copynumber: 7.9 Consensus size: 27
88938984 GCGAGGCTGC
* *
88938994 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
88939021 CAGATATTGCGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
88939047 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
88939074 CAGATAATCGTGGCATAGCCACTAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
* *
88939101 CAGATATATGTGGCAGAGCTACCAAAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
88939128 CATATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
*
88939155 CAAATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
88939182 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
88939207 GACGCTTCCT
Statistics
Matches: 152, Mismatches: 22, Indels: 24
0.77 0.11 0.12
Matches are distributed among these distances:
26 12 0.08
27 133 0.88
28 7 0.05
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:88939094 original size:54 final size:54
Alignment explanation
Indices: 88939012--88939206 Score: 293
Period size: 54 Copynumber: 3.6 Consensus size: 54
88939002 GTGACGAAGT
* * *
88939012 CACCAGATACAGAT-ATTGCGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
88939066 CACCAGATCAGATAATCGTGGCATAGCCACTAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
* * * *
88939120 TACCAAATCATATAATCGTGGCATAGCCACCAGAACAAATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
88939174 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATCGTGGCATAGCCACCAG
88939207 GACGCTTCCT
Statistics
Matches: 127, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
53 5 0.04
54 122 0.96
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:88940860 original size:26 final size:26
Alignment explanation
Indices: 88940829--88940936 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
88940819 TGAAATGCCC
* *
88940829 ATCATGAAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
88940855 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* **
88940881 ATCATGGAATATTTACCTAGTCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
88940907 ATCATTGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
88940933 ATCA
1 ATCA
88940937 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:88947227 original size:26 final size:26
Alignment explanation
Indices: 88947198--88947264 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 26
88947188 ATTATTTGGG
* *
88947198 AAGCCTTAGTGGCAAAGTTATCTAGA
1 AAGCCTTAGTGGCAAAGTCATCCAGA
* *
88947224 AAGCCTTTGTGGC-AAGTCATCCGGA
1 AAGCCTTAGTGGCAAAGTCATCCAGA
88947249 AAGCCTGTA-TGGCAAA
1 AAGCCT-TAGTGGCAAA
88947265 TTCTGTAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
25 19 0.56
26 15 0.44
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.24
Consensus pattern (26 bp):
AAGCCTTAGTGGCAAAGTCATCCAGA
Found at i:88955023 original size:19 final size:19
Alignment explanation
Indices: 88954978--88955024 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
88954968 TAAATATTAA
*
88954978 AATAAAAATAAAAATATAG
1 AATAAAAATAAAAATAAAG
* *
88954997 AATCAAAACT-AAAATAAAT
1 AAT-AAAAATAAAAATAAAG
88955016 AATAAAAAT
1 AATAAAAAT
88955025 TAGATTAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 5 0.22
19 13 0.57
20 5 0.22
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.21
Consensus pattern (19 bp):
AATAAAAATAAAAATAAAG
Found at i:88955495 original size:23 final size:23
Alignment explanation
Indices: 88955434--88955581 Score: 77
Period size: 23 Copynumber: 6.4 Consensus size: 23
88955424 AGAGATCTCT
88955434 TTTCCAGCAACTAAACACGTCAA
1 TTTCCAGCAACTAAACACGTCAA
** *
88955457 TTTGTAGCGA-TAAAACATC-TCAA
1 TTTCCAGCAACT-AAACA-CGTCAA
*
88955480 TTTCCAGCAACTAAACACTTCAA
1 TTTCCAGCAACTAAACACGTCAA
* * *
88955503 TTTGCAG-TACTTAAAACACTTCAA
1 TTTCCAGCAAC-T-AAACACGTCAA
* ** * *
88955527 TTTACAGCATTTAAGCACTTCAA
1 TTTCCAGCAACTAAACACGTCAA
* * ** *
88955550 TCTACAGCATTTAAACACTTCAA
1 TTTCCAGCAACTAAACACGTCAA
*
88955573 TTTGCAGCA
1 TTTCCAGCA
88955582 CTTTAATTTA
Statistics
Matches: 101, Mismatches: 17, Indels: 14
0.77 0.13 0.11
Matches are distributed among these distances:
22 4 0.04
23 77 0.76
24 20 0.20
ACGTcount: A:0.37, C:0.24, G:0.09, T:0.30
Consensus pattern (23 bp):
TTTCCAGCAACTAAACACGTCAA
Found at i:88955546 original size:47 final size:46
Alignment explanation
Indices: 88955467--88955587 Score: 127
Period size: 47 Copynumber: 2.6 Consensus size: 46
88955457 TTTGTAGCGA
* ** * * *
88955467 TAAAACA-TCTCAATTTCCAGCAACTAAACACTTCAATTTGCAGTACT
1 TAAAACACT-TCAATTTACAGCATTTAAACACTTCAATCTACAGCA-T
*
88955514 TAAAACACTTCAATTTACAGCATTTAAGCACTTCAATCTACAGCAT
1 TAAAACACTTCAATTTACAGCATTTAAACACTTCAATCTACAGCAT
* *
88955560 TTAAACACTTCAATTTGCAGCACTTTAA
1 TAAAACACTTCAATTTACAGCA-TTTAA
88955588 TTTAGTAAGG
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 21 0.33
47 41 0.65
48 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.31
Consensus pattern (46 bp):
TAAAACACTTCAATTTACAGCATTTAAACACTTCAATCTACAGCAT
Found at i:88970539 original size:15 final size:15
Alignment explanation
Indices: 88970471--88970538 Score: 66
Period size: 15 Copynumber: 4.6 Consensus size: 15
88970461 GACTAAAATA
*
88970471 TTAAATATTAAATTT
1 TTAAATTTTAAATTT
* *
88970486 TTAAGTTTTAAGTTT
1 TTAAATTTTAAATTT
* * * *
88970501 TTTATTTTTTATTTT
1 TTAAATTTTAAATTT
88970516 TTAAATTTTAAA-TT
1 TTAAATTTTAAATTT
88970530 TTAAATTTT
1 TTAAATTTT
88970539 TTTTGAAGAT
Statistics
Matches: 42, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
14 11 0.26
15 31 0.74
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (15 bp):
TTAAATTTTAAATTT
Found at i:88970560 original size:9 final size:8
Alignment explanation
Indices: 88970478--88970539 Score: 51
Period size: 7 Copynumber: 8.2 Consensus size: 8
88970468 ATATTAAATA
88970478 TTAAATTT
1 TTAAATTT
*
88970486 TT-AAGTT
1 TTAAATTT
*
88970493 TTAAGTTT
1 TTAAATTT
*
88970501 TT-TATTT
1 TTAAATTT
* *
88970508 TTTATTTT
1 TTAAATTT
88970516 TTAAA-TT
1 TTAAATTT
88970523 TTAAA-TT
1 TTAAATTT
88970530 TTAAATTT
1 TTAAATTT
88970538 TT
1 TT
88970540 TTTGAAGATT
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
7 25 0.60
8 17 0.40
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (8 bp):
TTAAATTT
Found at i:88971538 original size:55 final size:54
Alignment explanation
Indices: 88971453--88971572 Score: 177
Period size: 55 Copynumber: 2.2 Consensus size: 54
88971443 ATGTTTTTTT
* *
88971453 GGGTTTAGGGTTTTAAGGGTTATAGTTTAGTGTTTAGGATTTTTTTAGGGTTTA
1 GGGTTTAGGGTTTTAAGGGTTATAGATTAGTGTTTAGGATTTTTTGAGGGTTTA
* * *
88971507 GAGGTTTAGTGTTTTAAGGGTTATAGATTAGTGTTTATGATTTTTTGGGGGTTTA
1 G-GGTTTAGGGTTTTAAGGGTTATAGATTAGTGTTTAGGATTTTTTGAGGGTTTA
88971562 GGGTTTTAGGG
1 GGG-TTTAGGG
88971573 GTTATATGAC
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
54 3 0.05
55 55 0.95
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.48
Consensus pattern (54 bp):
GGGTTTAGGGTTTTAAGGGTTATAGATTAGTGTTTAGGATTTTTTGAGGGTTTA
Found at i:88971640 original size:41 final size:41
Alignment explanation
Indices: 88971583--88971801 Score: 303
Period size: 41 Copynumber: 5.3 Consensus size: 41
88971573 GTTATATGAC
*
88971583 TTTTAGCGGCGTTTTACCGAAAGCGCTGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* *
88971624 TTTTAGCGGCGTTTTACCGAAAGAGCCACTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* * * * * *
88971665 TTTTAGCTGCATTTTATCAAAAGCGCCGTTAATTCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* *
88971706 TTTTAGCGGCGTTTTACCGAAAGTGCCGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* * * *
88971747 TTTTAGCGGTGTTTTACTGAAAGCACCGCTAATGCTTTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
88971788 TTTTAGCGGCGTTT
1 TTTTAGCGGCGTTT
88971802 CTATTGCTCT
Statistics
Matches: 152, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 152 1.00
ACGTcount: A:0.19, C:0.20, G:0.24, T:0.37
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
Found at i:88971817 original size:27 final size:28
Alignment explanation
Indices: 88971787--88971845 Score: 102
Period size: 27 Copynumber: 2.1 Consensus size: 28
88971777 AATGCTTTGG
*
88971787 TTTTTAGCGGCGTTT-CTATTGCTCTGT
1 TTTTTAGCGGCGTTTGCTATTGCTCTAT
88971814 TTTTTAGCGGCGTTTGCTATTGCTCTAT
1 TTTTTAGCGGCGTTTGCTATTGCTCTAT
88971842 TTTT
1 TTTT
88971846 AACGGTGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 15 0.50
28 15 0.50
ACGTcount: A:0.08, C:0.17, G:0.20, T:0.54
Consensus pattern (28 bp):
TTTTTAGCGGCGTTTGCTATTGCTCTAT
Found at i:88971846 original size:27 final size:27
Alignment explanation
Indices: 88971787--88971855 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
88971777 AATGCTTTGG
*
88971787 TTTTTAGCGGCGTTTCTATTGCTCTGT
1 TTTTTAGCGGCGTTTCTATTGCTCTGA
88971814 TTTTTAGCGGCGTTTGCTATTGCTCT-A
1 TTTTTAGCGGCGTTT-CTATTGCTCTGA
* *
88971841 TTTTTAACGGTGTTT
1 TTTTTAGCGGCGTTT
88971856 TAACTAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 28 0.74
28 10 0.26
ACGTcount: A:0.10, C:0.16, G:0.22, T:0.52
Consensus pattern (27 bp):
TTTTTAGCGGCGTTTCTATTGCTCTGA
Found at i:88974548 original size:24 final size:23
Alignment explanation
Indices: 88974512--88974603 Score: 109
Period size: 24 Copynumber: 4.0 Consensus size: 23
88974502 GGGGGTGATA
88974512 AGAGTAATCTATGGGATTTGTAT
1 AGAGTAATCTATGGGATTTGTAT
* * *
88974535 AGGAGTAATTTATGGGATTTGGAC
1 A-GAGTAATCTATGGGATTTGTAT
*
88974559 ATA-T-A-CTATGGGATTTGTAT
1 AGAGTAATCTATGGGATTTGTAT
88974579 AAGAGTAATCTATGGGATTTGTAT
1 -AGAGTAATCTATGGGATTTGTAT
88974603 A
1 A
88974604 TATATTGTTT
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
20 12 0.21
21 3 0.05
22 2 0.04
23 4 0.07
24 35 0.62
ACGTcount: A:0.32, C:0.04, G:0.26, T:0.38
Consensus pattern (23 bp):
AGAGTAATCTATGGGATTTGTAT
Found at i:88977649 original size:20 final size:20
Alignment explanation
Indices: 88977626--88977663 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
88977616 TGCACAATCA
*
88977626 TGCCTTTGTTTGCACTTCGG
1 TGCCTTTGTTTACACTTCGG
*
88977646 TGCCTTTTTTTACACTTC
1 TGCCTTTGTTTACACTTC
88977664 AGTGTCGTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.08, C:0.26, G:0.16, T:0.50
Consensus pattern (20 bp):
TGCCTTTGTTTACACTTCGG
Found at i:88981703 original size:33 final size:33
Alignment explanation
Indices: 88981666--88981816 Score: 178
Period size: 33 Copynumber: 4.5 Consensus size: 33
88981656 TACTCTCTTT
* *
88981666 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTAATGAGCA
* *
88981699 TTGGTGTGATGGTTGGTTTAGCTCTAATGAACA
1 TTGGTGTGATGGTTGGATTAGCTCTAATGAGCA
*
88981732 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTAATGAGCA
* * *
88981765 TTGGTATGATGGATGGATTGGCTC-AAGTGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTAA-TGAGCA
* *
88981798 TCCGGTGTGTTTGGTTGGA
1 T-TGGTGTG-ATGGTTGGA
88981817 CTGATGATGT
Statistics
Matches: 100, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
32 1 0.01
33 87 0.87
34 5 0.05
35 7 0.07
ACGTcount: A:0.18, C:0.09, G:0.34, T:0.38
Consensus pattern (33 bp):
TTGGTGTGATGGTTGGATTAGCTCTAATGAGCA
Found at i:88985078 original size:19 final size:19
Alignment explanation
Indices: 88985019--88985082 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 19
88985009 AAAAGAATTT
* *
88985019 ATAAAATAACACATAATAT
1 ATAAAATAATACATAATAA
**
88985038 A-AAAAT-AT-CATTTTAA
1 ATAAAATAATACATAATAA
88985054 AGTAAAATAATACATAATAA
1 A-TAAAATAATACATAATAA
88985074 AT-AAATAAT
1 ATAAAATAAT
88985083 TAATAATTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
16 6 0.17
17 1 0.03
18 17 0.49
19 4 0.11
20 7 0.20
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (19 bp):
ATAAAATAATACATAATAA
Found at i:88985267 original size:52 final size:54
Alignment explanation
Indices: 88985211--88985349 Score: 128
Period size: 55 Copynumber: 2.6 Consensus size: 54
88985201 ATACATAACA
*
88985211 TATATAAAAAAATGATAAGTAATATAGA-AAAAAACAA-AAATATAATAAATGT
1 TATATAAAAAAATGATAAGTAATATAGATAAAAAACAAGAAATATAATAAATAT
* * * * * *
88985263 TATATAATAAAAT-ATAATTTAAATATATATAGAAAATAAGAAATATAATAGATAT
1 TATATAAAAAAATGATAA-GT-AATATAGATAAAAAACAAGAAATATAATAAATAT
* *
88985318 AATATAAAATAATGA-AAGT-ATATATG-TAAAAA
1 TATATAAAAAAATGATAAGTAATATA-GATAAAAA
88985350 CAATATATAT
Statistics
Matches: 68, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
51 4 0.06
52 23 0.34
53 7 0.10
54 8 0.12
55 25 0.37
56 1 0.01
ACGTcount: A:0.63, C:0.01, G:0.07, T:0.29
Consensus pattern (54 bp):
TATATAAAAAAATGATAAGTAATATAGATAAAAAACAAGAAATATAATAAATAT
Found at i:88985409 original size:19 final size:19
Alignment explanation
Indices: 88985351--88985413 Score: 60
Period size: 19 Copynumber: 3.2 Consensus size: 19
88985341 ATGTAAAAAC
88985351 AATATATATAAATAAT-TAATA
1 AATATA-AT-AATAATATAA-A
88985372 AATAT-ATAATACA-AGTAAA
1 AATATAATAATA-ATA-TAAA
88985391 AATATAATAATAATATAAA
1 AATATAATAATAATATAAA
88985410 AATA
1 AATA
88985414 ATGATGTAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
18 4 0.11
19 18 0.49
20 10 0.27
21 5 0.14
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (19 bp):
AATATAATAATAATATAAA
Found at i:88987263 original size:11 final size:11
Alignment explanation
Indices: 88987247--88987281 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
88987237 GACTGTGGCG
88987247 AAAAATTATAA
1 AAAAATTATAA
* *
88987258 AAAAATGATAG
1 AAAAATTATAA
88987269 AAAAATTATAA
1 AAAAATTATAA
88987280 AA
1 AA
88987282 TGTTTCTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:88987333 original size:18 final size:18
Alignment explanation
Indices: 88987310--88987359 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
88987300 GATTTTAATA
88987310 ATATTTTTTACGAATTTT
1 ATATTTTTTACGAATTTT
*
88987328 ATATTTCTTTAC-ATTTTT
1 ATATTT-TTTACGAATTTT
*
88987346 TTATTTTCTTACGA
1 ATATTTT-TTACGA
88987360 CTTTATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 1 0.04
18 20 0.74
19 6 0.22
ACGTcount: A:0.24, C:0.10, G:0.04, T:0.62
Consensus pattern (18 bp):
ATATTTTTTACGAATTTT
Found at i:88987382 original size:37 final size:38
Alignment explanation
Indices: 88987341--88987412 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
88987331 TTTCTTTACA
88987341 TTTTTT-TAT-TTTCTTACGA-CTTTATAAAATTTTATT
1 TTTTTTCTATATTT-TTACGATCTTTATAAAATTTTATT
* *
88987377 TTTTTTCTATATTTTTACTATTTTTATAAAATTTTA
1 TTTTTTCTATATTTTTACGATCTTTATAAAATTTTA
88987413 CAAATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 6 0.19
37 8 0.26
38 17 0.55
ACGTcount: A:0.26, C:0.07, G:0.01, T:0.65
Consensus pattern (38 bp):
TTTTTTCTATATTTTTACGATCTTTATAAAATTTTATT
Found at i:88987411 original size:19 final size:19
Alignment explanation
Indices: 88987361--88987445 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 19
88987351 TTCTTACGAC
***
88987361 TTTATAAAATTTTATTTTT
1 TTTATAAAATTTTACAATT
* * * *
88987380 TTTCTATATTTTTACTATT
1 TTTATAAAATTTTACAATT
88987399 TTTATAAAATTTTACAAATTT
1 TTTATAAAATTTTAC-AA-TT
** *
88987420 TTTATAATTTTTTACAACT
1 TTTATAAAATTTTACAATT
88987439 TTTATAA
1 TTTATAA
88987446 TTTTTTTCTA
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
19 34 0.65
20 3 0.06
21 15 0.29
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTATAAAATTTTACAATT
Found at i:88987421 original size:21 final size:21
Alignment explanation
Indices: 88987397--88987441 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
88987387 ATTTTTACTA
88987397 TTTTTATAAAATTTTACAAAT
1 TTTTTATAAAATTTTACAAAT
** *
88987418 TTTTTATAATTTTTTACAACT
1 TTTTTATAAAATTTTACAAAT
88987439 TTT
1 TTT
88987442 ATAATTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTTATAAAATTTTACAAAT
Found at i:88987430 original size:9 final size:9
Alignment explanation
Indices: 88987387--88987500 Score: 56
Period size: 9 Copynumber: 12.1 Consensus size: 9
88987377 TTTTTTCTAT
88987387 ATTTTTACT-
1 ATTTTTA-TA
88987396 ATTTTTATAA
1 ATTTTTAT-A
* *
88987406 AATTTTACAA
1 ATTTTTA-TA
88987416 ATTTTTTATA
1 A-TTTTTATA
*
88987426 ATTTTTTACA
1 A-TTTTTATA
*
88987436 ACTTTTATA
1 ATTTTTATA
*
88987445 ATTTTTTTCTA
1 A--TTTTTATA
88987456 ATTTTTA-A
1 ATTTTTATA
*
88987464 TATATTTAT-
1 -ATTTTTATA
88987473 A-TTTTACTA
1 ATTTTTA-TA
88987482 ATTTTTATA
1 ATTTTTATA
*
88987491 AATTTTATA
1 ATTTTTATA
88987500 A
1 A
88987501 CTTTAATTGA
Statistics
Matches: 81, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
7 4 0.05
8 4 0.05
9 37 0.46
10 24 0.30
11 12 0.15
ACGTcount: A:0.34, C:0.05, G:0.00, T:0.61
Consensus pattern (9 bp):
ATTTTTATA
Found at i:88987451 original size:10 final size:10
Alignment explanation
Indices: 88987415--88987461 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
88987405 AAATTTTACA
88987415 AATTTTTTAT
1 AATTTTTTAT
*
88987425 AATTTTTTAC
1 AATTTTTTAT
*
88987435 AA-CTTTTAT
1 AATTTTTTAT
*
88987444 AATTTTTTTCT
1 AA-TTTTTTAT
88987455 AATTTTT
1 AATTTTT
88987462 AATATATTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
9 7 0.23
10 16 0.53
11 7 0.23
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (10 bp):
AATTTTTTAT
Found at i:88987460 original size:19 final size:19
Alignment explanation
Indices: 88987419--88987500 Score: 64
Period size: 19 Copynumber: 4.4 Consensus size: 19
88987409 TTTACAAATT
*
88987419 TTTTATAATTTTTTAC-AA
1 TTTTATAATTTTTTTCTAA
88987437 CTTTTATAATTTTTTTCTAA
1 -TTTTATAATTTTTTTCTAA
* * *
88987457 TTTT-TAATATATTTAT-A
1 TTTTATAATTTTTTTCTAA
* *
88987474 TTTTACTAATTTTTAT-AAA
1 TTTTA-TAATTTTTTTCTAA
88987493 TTTTATAA
1 TTTTATAA
88987501 CTTTAATTGA
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
17 5 0.10
18 12 0.24
19 32 0.63
20 2 0.04
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTTTTCTAA
Found at i:88987497 original size:26 final size:26
Alignment explanation
Indices: 88987448--88987499 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
88987438 TTTTATAATT
* *
88987448 TTTTTCTAATTTTTAATATATTTATA
1 TTTTACTAATTTTTAAAATATTTATA
88987474 TTTTACTAATTTTTATAAAT-TTTATA
1 TTTTACTAATTTTTA-AAATATTTATA
88987500 ACTTTAATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 20 0.87
27 3 0.13
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTTACTAATTTTTAAAATATTTATA
Found at i:88990678 original size:31 final size:29
Alignment explanation
Indices: 88990638--88990700 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
88990628 TTAACGTTAG
88990638 TTTTGGAATTCAATAAATTTTTTAGTTTGAT
1 TTTTGGAATTCAAT--ATTTTTTAGTTTGAT
* * *
88990669 TTTTTGAATTTAATATTTTTTAGTTTTAT
1 TTTTGGAATTCAATATTTTTTAGTTTGAT
88990698 TTT
1 TTT
88990701 ATCATATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 17 0.59
31 12 0.41
ACGTcount: A:0.25, C:0.02, G:0.10, T:0.63
Consensus pattern (29 bp):
TTTTGGAATTCAATATTTTTTAGTTTGAT
Found at i:88996067 original size:21 final size:21
Alignment explanation
Indices: 88996041--88996081 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
88996031 AGACGAGCAA
* *
88996041 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
88996062 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
88996082 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:88999453 original size:43 final size:43
Alignment explanation
Indices: 88999392--88999477 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
88999382 ATAATCTAAG
* *
88999392 CCAATATGCTAGTGAAACCTTGAATTTTCCCTCTTTCAGGTTA
1 CCAATATGCTAGTGAAACCATGAATTTTCCCTCCTTCAGGTTA
88999435 CCAATATGCTAGTGAAACCATGAATTTTCCCTCCTTCAGGTTA
1 CCAATATGCTAGTGAAACCATGAATTTTCCCTCCTTCAGGTTA
88999478 AGTGATCAGC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (43 bp):
CCAATATGCTAGTGAAACCATGAATTTTCCCTCCTTCAGGTTA
Found at i:89010516 original size:25 final size:25
Alignment explanation
Indices: 89010497--89010544 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
89010487 TCTTATTTTT
89010497 AATTT-TTTAAATTTAACTTAAATA
1 AATTTATTTAAATTTAACTTAAATA
89010521 AATTTATTTAAATTTAACTTAAAT
1 AATTTATTTAAATTTAACTTAAAT
89010545 TTATTTCACC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (25 bp):
AATTTATTTAAATTTAACTTAAATA
Found at i:89013186 original size:15 final size:16
Alignment explanation
Indices: 89013156--89013188 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
89013146 ATCCTCTTCC
*
89013156 TCTTCCCCTTTCCCTT
1 TCTTCCCCTCTCCCTT
89013172 TCTTCCCC-CTCCCTT
1 TCTTCCCCTCTCCCTT
89013187 TC
1 TC
89013189 CCCCCTTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.00, C:0.55, G:0.00, T:0.45
Consensus pattern (16 bp):
TCTTCCCCTCTCCCTT
Found at i:89016454 original size:16 final size:18
Alignment explanation
Indices: 89016427--89016460 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
89016417 TTAGATTTGG
89016427 ATTGAGAAAATT-ATTTA
1 ATTGAGAAAATTAATTTA
89016444 ATTGA-AAAATTAATTTA
1 ATTGAGAAAATTAATTTA
89016461 TCTAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (18 bp):
ATTGAGAAAATTAATTTA
Found at i:89016473 original size:18 final size:17
Alignment explanation
Indices: 89016450--89016486 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
89016440 TTTAATTGAA
*
89016450 AAATTAATTTATCTAATT
1 AAATTAATTGAT-TAATT
89016468 AAATTAATTGATTAATT
1 AAATTAATTGATTAATT
89016485 AA
1 AA
89016487 TATTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (17 bp):
AAATTAATTGATTAATT
Found at i:89018073 original size:27 final size:26
Alignment explanation
Indices: 89017993--89018065 Score: 83
Period size: 28 Copynumber: 2.7 Consensus size: 26
89017983 GAGAATCTAT
* * *
89017993 TAGAATACACCACAAAGGCTTTCTTA
1 TAGAATACGCTACAAAGGCTTCCTTA
* *
89018019 TTGAATACGCTATAAAAGGCTTCCCTTA
1 TAGAATACGCTA-CAAAGGCTT-CCTTA
89018047 TAGAATACGCTACAAAGGC
1 TAGAATACGCTACAAAGGC
89018066 AGTCCTTAAG
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
26 9 0.24
27 14 0.37
28 15 0.39
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (26 bp):
TAGAATACGCTACAAAGGCTTCCTTA
Found at i:89018202 original size:27 final size:27
Alignment explanation
Indices: 89018119--89018208 Score: 101
Period size: 27 Copynumber: 3.3 Consensus size: 27
89018109 CCATAAAGGT
**
89018119 TTCCTTTTTCATAGATCGCCACAAAAAA
1 TTCC-TTTTCATAGATCGCCACAAAAGC
* *
89018147 TT-CTTTATCATAGGTCGCCACAAAGGC
1 TTCCTTT-TCATAGATCGCCACAAAAGC
*
89018174 TTCCTTTTCATAGATCGCCACAAATGC
1 TTCCTTTTCATAGATCGCCACAAAAGC
*
89018201 TTTCTTTT
1 TTCCTTTT
89018209 TCTAGCGTGT
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
26 3 0.06
27 44 0.83
28 6 0.11
ACGTcount: A:0.27, C:0.26, G:0.11, T:0.37
Consensus pattern (27 bp):
TTCCTTTTCATAGATCGCCACAAAAGC
Found at i:89020014 original size:27 final size:28
Alignment explanation
Indices: 89019984--89020059 Score: 86
Period size: 27 Copynumber: 2.8 Consensus size: 28
89019974 CAAGAGAATC
* *
89019984 TATTAGAATACACCACAAAGGCTT-TCT
1 TATTAGAATACGCCACAAAGGCTTCCCT
*
89020011 TATT-GAATACGCCATAAAAGGCTTCCCT
1 TATTAGAATACGCCA-CAAAGGCTTCCCT
*
89020039 TA-TAGAATACGCTACAAAGGC
1 TATTAGAATACGCCACAAAGGC
89020060 AGTCCTTAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
26 9 0.22
27 19 0.46
28 13 0.32
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.26
Consensus pattern (28 bp):
TATTAGAATACGCCACAAAGGCTTCCCT
Found at i:89020196 original size:27 final size:27
Alignment explanation
Indices: 89020113--89020202 Score: 92
Period size: 27 Copynumber: 3.3 Consensus size: 27
89020103 CCATAAAGGT
**
89020113 TTCCTTTTTCATAGATCGCCACAAAAAA
1 TTCC-TTTTCATAGATCGCCACAAAAGC
* * *
89020141 TT-CTTTATCATAGGTCGCTACAAAGGC
1 TTCCTTT-TCATAGATCGCCACAAAAGC
*
89020168 TTCCTTTTCATAGATCGCCACAAATGC
1 TTCCTTTTCATAGATCGCCACAAAAGC
*
89020195 TTTCTTTT
1 TTCCTTTT
89020203 TCTAGCGTGT
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
26 3 0.06
27 42 0.82
28 6 0.12
ACGTcount: A:0.27, C:0.24, G:0.11, T:0.38
Consensus pattern (27 bp):
TTCCTTTTCATAGATCGCCACAAAAGC
Found at i:89027358 original size:24 final size:24
Alignment explanation
Indices: 89027326--89027375 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
89027316 TCCCGAATAG
89027326 TTTGACAATGATGGTTTTCACAAT
1 TTTGACAATGATGGTTTTCACAAT
89027350 TTTGACAATGATGGTTTTCACAAT
1 TTTGACAATGATGGTTTTCACAAT
89027374 TT
1 TT
89027376 ACTTATCCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (24 bp):
TTTGACAATGATGGTTTTCACAAT
Found at i:89028200 original size:17 final size:18
Alignment explanation
Indices: 89028180--89028225 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
89028170 CTCAAATTAA
89028180 TAAATTAATTTTCCAAT-
1 TAAATTAATTTTCCAATC
*
89028197 TAAA-TAATCTTTTCAATC
1 TAAATTAAT-TTTCCAATC
89028215 TAAATCTAATT
1 TAAAT-TAATT
89028226 CAGTTGAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 4 0.17
17 11 0.46
18 4 0.17
19 1 0.04
20 4 0.17
ACGTcount: A:0.41, C:0.13, G:0.00, T:0.46
Consensus pattern (18 bp):
TAAATTAATTTTCCAATC
Found at i:89028858 original size:4 final size:4
Alignment explanation
Indices: 89028849--89028899 Score: 102
Period size: 4 Copynumber: 12.8 Consensus size: 4
89028839 AGCAAACGTG
89028849 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA
89028897 AGA
1 AGA
89028900 GAAAAGGGAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:89029843 original size:189 final size:189
Alignment explanation
Indices: 89029523--89029905 Score: 757
Period size: 189 Copynumber: 2.0 Consensus size: 189
89029513 TTTATATTGT
*
89029523 ATGAAAATGTGAATGAGGTAAGTATTTTTACCATATTGAAATGGATGTGATTTTGAATACCCTAT
1 ATGAAAATGTGAATGAGGTAAGTATTTTTACCATATTGAAATGAATGTGATTTTGAATACCCTAT
89029588 TAACAGTGTCGGGCTAGTCGGATATAGTTGGCATGTCATAGGAATTGGAAGTATTGGGATATTCT
66 TAACAGTGTCGGGCTAGTCGGATATAGTTGGCATGTCATAGGAATTGGAAGTATTGGGATATTCT
89029653 GACATTGAGTCGATGAGACACTATGTGTCGACTACTGTTAAAATTCCGGATTTGTTCCG
131 GACATTGAGTCGATGAGACACTATGTGTCGACTACTGTTAAAATTCCGGATTTGTTCCG
89029712 ATGAAAATGTGAATGAGGTAAGTATTTTTACCATATTGAAATGAATGTGATTTTGAATACCCTAT
1 ATGAAAATGTGAATGAGGTAAGTATTTTTACCATATTGAAATGAATGTGATTTTGAATACCCTAT
89029777 TAACAGTGTCGGGCTAGTCGGATATAGTTGGCATGTCATAGGAATTGGAAGTATTGGGATATTCT
66 TAACAGTGTCGGGCTAGTCGGATATAGTTGGCATGTCATAGGAATTGGAAGTATTGGGATATTCT
89029842 GACATTGAGTCGATGAGACACTATGTGTCGACTACTGTTAAAATTCCGGATTTGTTCCG
131 GACATTGAGTCGATGAGACACTATGTGTCGACTACTGTTAAAATTCCGGATTTGTTCCG
89029901 ATGAA
1 ATGAA
89029906 GTACTTTGTG
Statistics
Matches: 193, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
189 193 1.00
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.34
Consensus pattern (189 bp):
ATGAAAATGTGAATGAGGTAAGTATTTTTACCATATTGAAATGAATGTGATTTTGAATACCCTAT
TAACAGTGTCGGGCTAGTCGGATATAGTTGGCATGTCATAGGAATTGGAAGTATTGGGATATTCT
GACATTGAGTCGATGAGACACTATGTGTCGACTACTGTTAAAATTCCGGATTTGTTCCG
Found at i:89034407 original size:38 final size:38
Alignment explanation
Indices: 89034365--89034443 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
89034355 ATTAAATGAT
89034365 AAATTGATTTTATTAAAAAATTTTGATTTTAATTAAAA
1 AAATTGATTTTATTAAAAAATTTTGATTTTAATTAAAA
89034403 AAATTGATTTTATTAAAAAATTTTGATTTTAATTAAAA
1 AAATTGATTTTATTAAAAAATTTTGATTTTAATTAAAA
89034441 AAA
1 AAA
89034444 CATAATAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (38 bp):
AAATTGATTTTATTAAAAAATTTTGATTTTAATTAAAA
Found at i:89034483 original size:97 final size:97
Alignment explanation
Indices: 89034306--89034483 Score: 277
Period size: 97 Copynumber: 1.8 Consensus size: 97
89034296 TTAAAGTAAT
* **
89034306 AAATTGATTTTATTAAAAAATTTTGATTTTAATTAAAAAAAACATAATAATTAAATGATAAATTG
1 AAATTGATTTTATTAAAAAATTTTGATTTTAATTAAAAAAAACATAATAATTAAATAATAAATCA
* **
89034371 ATTTTATTAAAAAATTTTGATTTTAATTAAAA
66 ATTTAAGGAAAAAATTTTGATTTTAATTAAAA
89034403 AAATTGATTTTATTAAAAAATTTTGATTTTAATT-AAAAAAACATAATAATTAAATAATAAATCA
1 AAATTGATTTTATTAAAAAATTTTGATTTTAATTAAAAAAAACATAATAATTAAATAATAAATCA
*
89034467 ATTTAAAGGAATAAATT
66 ATTT-AAGGAAAAAATT
89034484 GATTTTTTTT
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
96 31 0.42
97 42 0.58
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.41
Consensus pattern (97 bp):
AAATTGATTTTATTAAAAAATTTTGATTTTAATTAAAAAAAACATAATAATTAAATAATAAATCA
ATTTAAGGAAAAAATTTTGATTTTAATTAAAA
Found at i:89034695 original size:42 final size:41
Alignment explanation
Indices: 89034623--89034709 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 41
89034613 GATTTTTAAG
*
89034623 AAAAGGGATTTAAAGTAATGAATAGGATTTAAA-AATAATAA
1 AAAAGGGATTTAAAGTAATGAATAGAATTTAAATAA-AATAA
*
89034664 AAAATGGGATTTAAAGTAATGGATAGAATTTAAATAAAATAA
1 AAAA-GGGATTTAAAGTAATGAATAGAATTTAAATAAAATAA
89034706 AAAA
1 AAAA
89034710 AGATGGCTGA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
41 4 0.10
42 36 0.86
43 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.16, T:0.26
Consensus pattern (41 bp):
AAAAGGGATTTAAAGTAATGAATAGAATTTAAATAAAATAA
Found at i:89038339 original size:42 final size:42
Alignment explanation
Indices: 89038204--89038355 Score: 139
Period size: 42 Copynumber: 3.6 Consensus size: 42
89038194 ACATAGGATC
* * * *
89038204 CGATATGTGTTTTCGTGTAAGACCAC-GTCTGGGATGTTGGCAT
1 CGATATTTGATTTCATGTAAGACC-CTGTCTGGGAAG-TGGCAT
* * * *
89038247 CGACT-TATGATTTACATATAAGACCATGTCTGGGACATTGGCAT
1 CGA-TATTTGATTT-CATGTAAGACCCTGTCTGGGA-AGTGGCAT
* *
89038291 CG-TATTTGATTTCGTGTAAGACCCTGTCTTGGAAGTGGCAT
1 CGATATTTGATTTCATGTAAGACCCTGTCTGGGAAGTGGCAT
*
89038332 CGATATTTGATTACATGTAAGACC
1 CGATATTTGATTTCATGTAAGACC
89038356 ACGTATGGGA
Statistics
Matches: 88, Mismatches: 15, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
41 9 0.10
42 37 0.42
43 16 0.18
44 26 0.30
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.34
Consensus pattern (42 bp):
CGATATTTGATTTCATGTAAGACCCTGTCTGGGAAGTGGCAT
Found at i:89038365 original size:84 final size:86
Alignment explanation
Indices: 89038214--89038374 Score: 213
Period size: 84 Copynumber: 1.9 Consensus size: 86
89038204 CGATATGTGT
* * *
89038214 TTTCGTGTAAGACCACGTCTGGGATGTTGGCATCGACTTATGATTTACATATAAGACCATGTCTG
1 TTTCGTGTAAGACCACGTCTGGGAAGTTGGCATCGACTTATGATTTACATATAAGACCACGTATG
89038279 GGACATTGGCATCGTATTTGA
66 GGACATTGGCATCGTATTTGA
* * *
89038300 TTTCGTGTAAGACC-CTGTCTTGGAAG-TGGCATCGA-TATTTGA-TTACATGTAAGACCACGTA
1 TTTCGTGTAAGACCAC-GTCTGGGAAGTTGGCATCGACT-TATGATTTACATATAAGACCACGTA
*
89038361 TGGGACGTTGGCAT
64 TGGGACATTGGCAT
89038375 TGTACAAGCT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
84 30 0.45
85 14 0.21
86 22 0.33
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (86 bp):
TTTCGTGTAAGACCACGTCTGGGAAGTTGGCATCGACTTATGATTTACATATAAGACCACGTATG
GGACATTGGCATCGTATTTGA
Found at i:89041506 original size:46 final size:46
Alignment explanation
Indices: 89041419--89041732 Score: 398
Period size: 46 Copynumber: 6.8 Consensus size: 46
89041409 TTGACATGAC
* * * * *
89041419 GCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGTT
*
89041465 ACCATGGTATCTTTCAACCATGGTCTTATTC-TATTCATGTCACGTT
1 GCCATGGTATCTTTCAACCATGGTCTTATTCAT-TTCATGTCACGTT
* * *
89041511 GTCATGGTATCTTTCAACCATAGTCTTATTCATTTCATGTCACGCT
1 GCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTT
* ** *
89041557 GCCATGGTATCTTTCAACCATGGTCTTCTTCATTTCCCGTCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTT
* * *
89041603 GCCATGGTATCTCTCAACTATGGTCTTATTCTTTTCATGTCACGTT
1 GCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTT
* * * *
89041649 GTCATGGTATCTTTCAACCATGGTCTTATACATTTCATATCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTT
**
89041695 GCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 GCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
89041733 TTCAGAGAGC
Statistics
Matches: 232, Mismatches: 33, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
44 1 0.00
45 3 0.01
46 227 0.98
47 1 0.00
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (46 bp):
GCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTT
Found at i:89041667 original size:138 final size:138
Alignment explanation
Indices: 89041419--89041730 Score: 473
Period size: 138 Copynumber: 2.3 Consensus size: 138
89041409 TTGACATGAC
* * * * * *
89041419 GCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTACCATGGTATCTTTCAACC
1 GCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTACCATGGTATCTCTCAACC
*
89041484 ATGGTCTTATTCTATTCATGTCACGTTGTCATGGTATCTTTCAACCATAGTCTTATTCATTTCAT
66 ATGGTCTTATTCTATTCATGTCACGTTGTCATGGTATCTTTCAACCATAGTCTTATACATTTCAT
*
89041549 GTCACGCT
131 ATCACGCT
*
89041557 GCCATGGTATCTTTCAACCATGGTCTT-CTTCATTTCCCGTCATGTTGCCATGGTATCTCTCAAC
1 GCCATGGTATCTTTCAACCATGGTCTTAC-TCATTTCCCGTCATGTTACCATGGTATCTCTCAAC
* * *
89041621 TATGGTCTTATTCTTTTCATGTCACGTTGTCATGGTATCTTTCAACCATGGTCTTATACATTTCA
65 CATGGTCTTATTCTATTCATGTCACGTTGTCATGGTATCTTTCAACCATAGTCTTATACATTTCA
* *
89041686 TATCATGTT
130 TATCACGCT
*
89041695 GCCATGGTATCTTTCAACCATGGTCTTACACATTTC
1 GCCATGGTATCTTTCAACCATGGTCTTACTCATTTC
89041731 ATTTCAGAGA
Statistics
Matches: 157, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
137 1 0.01
138 155 0.99
139 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.42
Consensus pattern (138 bp):
GCCATGGTATCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTACCATGGTATCTCTCAACC
ATGGTCTTATTCTATTCATGTCACGTTGTCATGGTATCTTTCAACCATAGTCTTATACATTTCAT
ATCACGCT
Found at i:89045302 original size:12 final size:12
Alignment explanation
Indices: 89045285--89045320 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
89045275 ATTCATTTGA
89045285 CATTCATGCATT
1 CATTCATGCATT
*
89045297 CATTCATGCATC
1 CATTCATGCATT
*
89045309 CATTCATTCATT
1 CATTCATGCATT
89045321 GCATATCCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.42
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:89045314 original size:16 final size:17
Alignment explanation
Indices: 89045293--89045324 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
89045283 GACATTCATG
89045293 CATTCATTCA-TGCATC
1 CATTCATTCATTGCATC
89045309 CATTCATTCATTGCAT
1 CATTCATTCATTGCAT
89045325 ATCCCATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.25, C:0.28, G:0.06, T:0.41
Consensus pattern (17 bp):
CATTCATTCATTGCATC
Found at i:89053543 original size:139 final size:139
Alignment explanation
Indices: 89053293--89053693 Score: 621
Period size: 139 Copynumber: 2.9 Consensus size: 139
89053283 TATTCTGATG
89053293 TTTTATTTCAAAATTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATT
1 TTTTATTTCAAAATTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATT
89053358 GTCAATTTTTCGTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGC
66 GTCAATTTTTCGTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGC
89053423 GCTGAGGTA
131 GCTGAGGTA
*
89053432 TTTTATTTCAAAATTCAATTTATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATT
1 TTTTATTTCAAAATTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATT
*
89053497 GTCAATTTTTCGTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACGC
66 GTCAATTTTTCGTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGC
89053562 GCTGAGGTA
131 GCTGAGGTA
*** * * * * *
89053571 TTTT-TAAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACATGCTGAGGTAAT
1 TTTTATTTCAAAATTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGT-AT
* *** * *
89053635 T-TCAATTTCT-GT-TGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGG
65 TGTCAATTTTTCGTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
89053694 TCACACGTCA
Statistics
Matches: 243, Mismatches: 18, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
136 41 0.17
137 2 0.01
138 56 0.23
139 144 0.59
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (139 bp):
TTTTATTTCAAAATTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATT
GTCAATTTTTCGTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACGC
GCTGAGGTA
Found at i:89053856 original size:76 final size:76
Alignment explanation
Indices: 89053724--89053894 Score: 245
Period size: 76 Copynumber: 2.2 Consensus size: 76
89053714 AATTTTCGTT
*
89053724 TTTCAAGTTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-G
1 TTTCAA-TTTCTG--TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAC
*
89053788 ACACGCTGAGGTAA
63 ACACGCCGAGGTAA
* *
89053802 TTTCAATTTCTGTTGTCAAAAAAAAATCAACTCATATTGCGAGAGGTGATTTGAGCCTTAGATCA
1 TTTCAATTTCTGTT-TCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGA-CA
*
89053867 CACGCCGAGGTAT
64 CACGCCGAGGTAA
89053880 TTTCAATTTCTGTTT
1 TTTCAATTTCTGTTT
89053895 TTCAATTTCT
Statistics
Matches: 85, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
75 2 0.02
76 44 0.52
77 7 0.08
78 32 0.38
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (76 bp):
TTTCAATTTCTGTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACA
CGCCGAGGTAA
Found at i:89053933 original size:170 final size:168
Alignment explanation
Indices: 89053576--89054052 Score: 658
Period size: 170 Copynumber: 2.8 Consensus size: 168
89053566 AGGTATTTTT
*
89053576 AAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACATGCTGAGGTAATTTCAAT
1 AAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
* * * * * * *
89053641 TTCTGTTGTCAAAAAAATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGTCAAT
66 TTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATCACACGCCGAG
*
89053706 GTATTTTCAATTTTCGTTTTTCAAGTTTCTGCCTTTCA
131 GTATTTTCAATTTTCGTTTTTCAAGTTTCTACCTTTCA
*
89053744 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
1 AAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
*
89053809 TTCTGTTGTCAAAAAAAAATCAACTCATATTGCGAGAGGTGATTTGAGCCTTAGATCACACGCCG
66 TTCTGTTGTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATCACACGCCG
89053874 AGGTATTTTCAA-TTTCTGTTTTTCAA-TTTCTACCTTTCAA
129 AGGTATTTTCAATTTTC-GTTTTTCAAGTTTCTACCTTTC-A
* * * * * *
89053914 AAAAAAAATCGACTCATATTACGAGAGATGAGTTGAGCCT-TGGCTCACGCGCTGAGCTATTTTC
1 AAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTC
* *
89053978 AATTTCTGTCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCACACA
63 AATTTCTGT-TGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-AGATCACACG
*
89054041 CTGAGGTATTTT
126 CCGAGGTATTTT
89054053 TTTTTCAATT
Statistics
Matches: 278, Mismatches: 22, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
168 73 0.26
169 20 0.07
170 158 0.57
172 24 0.09
173 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Consensus pattern (168 bp):
AAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAAT
TTCTGTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATCACACGCCGAG
GTATTTTCAATTTTCGTTTTTCAAGTTTCTACCTTTCA
Found at i:89053975 original size:94 final size:94
Alignment explanation
Indices: 89053819--89053993 Score: 260
Period size: 94 Copynumber: 1.9 Consensus size: 94
89053809 TTCTGTTGTC
* * * *
89053819 AAAAAAAAATCAACTCATATTGCGAGAGGTGATTTGAGCCTTAGATCACACGCCGAGGTATTTTC
1 AAAAAAAAATCAACTCATATTACGAGAGATGAGTTGAGCCTTAGATCACACGCCGAGCTATTTTC
*
89053884 AATTTCTGTTTTTCAATTTCTACCTTTCA
66 AATTTCTGTCTTTCAATTTCTACCTTTCA
* * * * *
89053913 AAAAAAAAATCGACTCATATTACGAGAGATGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTC
1 AAAAAAAAATCAACTCATATTACGAGAGATGAGTTGAGCCTTAGATCACACGCCGAGCTATTTTC
89053978 AATTTCTGTCTTTCAA
66 AATTTCTGTCTTTCAA
89053994 AAAATCAACT
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 71 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (94 bp):
AAAAAAAAATCAACTCATATTACGAGAGATGAGTTGAGCCTTAGATCACACGCCGAGCTATTTTC
AATTTCTGTCTTTCAATTTCTACCTTTCA
Found at i:89054093 original size:80 final size:81
Alignment explanation
Indices: 89053973--89054198 Score: 246
Period size: 80 Copynumber: 2.7 Consensus size: 81
89053963 CGCTGAGCTA
* *
89053973 TTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCAC
1 TTTTCAATTTATATCTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG-TCAC
*
89054038 ACA-CTGAGG-T-ATTTTT
64 ACATC-GAGGTTAATTTTC
* *
89054054 TTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTCACA
1 TTTTCAATTTATATCTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGTCACA
*
89054119 TATCGAGGCATTTTCAAAATTTTC
65 CATCGAGG----TT---AATTTTC
* *
89054143 TTTTCAAGTTA-A-GTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCA
1 TTTTCAATTTATATCTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCA
89054199 AGACATGTTG
Statistics
Matches: 125, Mismatches: 9, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
80 44 0.35
81 22 0.18
85 1 0.01
86 4 0.03
87 38 0.30
88 1 0.01
89 15 0.12
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (81 bp):
TTTTCAATTTATATCTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGTCACAC
ATCGAGGTTAATTTTC
Found at i:89054168 original size:87 final size:83
Alignment explanation
Indices: 89053973--89054717 Score: 405
Period size: 87 Copynumber: 8.7 Consensus size: 83
89053963 CGCTGAGCTA
* *
89053973 TTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGATCA
1 TTTTCAATTTATG--TTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT--GAGCA
*
89054037 CA-CACTGAGGTA---T---TTTT
61 CATCTC-GAGGTATTTTCAATTTT
*
89054054 TTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGTCACA
1 TTTTCAA-TT-TATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAG-CACA
* *
89054119 TATCGAGGCATTTTCAAAATTTT
63 TCTCGAGGTATTTTC--AATTTT
* * *
89054142 CTTTTCAAGTTAAGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAAG-ACAT
1 -TTTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GAGCACAT
* *
89054205 GTTGAGGTATTTTCAA-TTT
64 CTCGAGGTATTTTCAATTTT
* * * * * ** *
89054224 CTGTC--TTTCA-----AAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG-AC-GC
1 TTTTCAATTT-ATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGCACATC
* *
89054280 T-GAGGTGTTTTCCATTTCT
65 TCGAGGTATTTTCAATTT-T
* * * *
89054299 GTTCTTCAATTTCTGTGTTTCAAAAAAATC-GCTCATATTGCGAGTGGTGAGTTGAGCCTTGACT
1 -TT-TTCAA-TT-TATGTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGA-G
*
89054363 CACA-CGCTGAGGTATTTTCAAATTCTGT
59 CACATCTC-GAGGTATTTTC-AATT-T-T
* *
89054391 TTTTCAAATTT-TGTTTTTCCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCC-TCAG
1 TTTTC-AATTTATG--TTT-C---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAG
* * *
89054454 GACA-CGCTGAGGTATTTTCATTTTT
59 CACATCTC-GAGGTATTTTCAATTTT
**
89054479 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGCCA
1 TTTTCAATTTATG-TT-TC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAG-CA
*
89054544 CA-CGCCGAGGTATTTTCAATTGATGTTTT
61 CATC-TCGAGGTATTTTC-A---A--TTTT
* * * *
89054573 TTTTTAATTTATGCTTTGCAAAAATTAACTCATATTACGAGAGGTGAGTTGAG-CTTCGGGTCAC
1 TTTTCAATTTATG-TTT-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GAG-CAC
* * *
89054637 ATATCGAGATATTTTCATAATCTGT
62 ATCTCGAGGTATTTTC--AAT-TTT
* * *
89054662 TTTACAAATTT-TGTTTTAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTG
1 TTTTC-AATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTG
89054718 GCTCTCGTGC
Statistics
Matches: 532, Mismatches: 69, Indels: 120
0.74 0.10 0.17
Matches are distributed among these distances:
73 11 0.02
74 3 0.01
75 38 0.07
76 3 0.01
77 2 0.00
79 4 0.01
80 46 0.09
81 19 0.04
82 5 0.01
83 5 0.01
85 15 0.03
86 68 0.13
87 92 0.17
88 41 0.08
89 18 0.03
90 27 0.05
91 28 0.05
92 61 0.11
93 27 0.05
94 19 0.04
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.37
Consensus pattern (83 bp):
TTTTCAATTTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGAGCACATCT
CGAGGTATTTTCAATTTT
Found at i:89054307 original size:73 final size:74
Alignment explanation
Indices: 89054160--89054300 Score: 212
Period size: 75 Copynumber: 1.9 Consensus size: 74
89054150 GTTAAGTTTC
* * *
89054160 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAAGACATGTTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA-GCTGAGGTATTTTCAATTTC
89054225 TGTCTTTCAA
65 TGTCTTTCAA
* * *
89054235 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC-GCTGAGGTGTTTTCCATTTCT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACAGCTGAGGTATTTTCAATTTCT
89054299 GT
66 GT
89054301 TCTTCAATTT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
73 20 0.33
75 40 0.67
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACAGCTGAGGTATTTTCAATTTCT
GTCTTTCAA
Found at i:89054354 original size:248 final size:244
Alignment explanation
Indices: 89053723--89054473 Score: 613
Period size: 250 Copynumber: 3.0 Consensus size: 244
89053713 CAATTTTCGT
* *
89053723 TTTTCAAGTTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-
1 TTTTCAA-TTTCTGTCTTTC---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGA
* * * *
89053787 -GACACGCTGAGGTA----AT-TTCAA-TT-TCTGTTGTCAAAAAAAAATCAACTCATATTGCGA
62 TCACACACTGAGGTATTTTTTCTTCAATTTATATGTT-TC----AAAAATCAACTCATATTGCGA
* * * * * * * **
89053844 GAGGTGATTTGAGCCTTAGA-TCACACGCCGAGGTATTTTCAATTTCTGTTTTTCAATTTCTACC
122 GAGGTGAGTTGAGCCTT-GACTCACAAGCTGAGGCATTTTCAAATTCTGTTTTTCAAATT-AAGT
* * * * * ** * *
89053908 TTTCAAAAAAAAAATCGACTCATATTACGAGAGATGAGTTGAGCCTTGGC-TCACGCGCTGAGCT
185 TTTC---CAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCC-T--CAAGACACGCTGAGGT
89053972 A
244 A
* *
89053973 TTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCAC
1 TTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGATCAC
* *
89054038 ACACTGAGGTATTTTTTTTTCAATTTATATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
66 ACACTGAGGTATTTTTTCTTCAATTTATATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
* * *
89054103 TGAGCCTTGAGTCACATATC-GAGGCATTTTCAAAATT-T-TCTTTTCAAGTTAAG-TTT-C-AA
131 TGAGCCTTGACTCACA-AGCTGAGGCATTTTC-AAATTCTGT-TTTTCAAATTAAGTTTTCCAAA
* * * *
89054162 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAAGACATGTTGAGGTA
193 AAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAAGACACGCTGAGGTA
*
89054214 TTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGA-C
1 TTTTCAATTTCTGTCTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTC-AGATC
* ** * *** * * *
89054278 GCTGAGGTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAATC-GCTCATATTGCGA
64 ACACA-CTGAGGT--ATTT-T-TTCTTCAATTTATATGTTTC--AAAAATCAACTCATATTGCGA
* * * **
89054342 GTGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTCTGTTTTTCAAATTTTGTTT
122 GAGGTGAGTTGAGCCTTGACTCACAAGCTGAGGCATTTTCAAATTCTGTTTTTCAAATTAAG-TT
*
89054407 TTCCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACACGCTGAGGTA
186 TTCC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAAGACACGCTGAGGTA
89054468 TTTTCA
1 TTTTCA
89054474 TTTTTTTTTC
Statistics
Matches: 415, Mismatches: 54, Indels: 60
0.78 0.10 0.11
Matches are distributed among these distances:
240 1 0.00
241 28 0.07
242 40 0.10
243 38 0.09
245 4 0.01
246 41 0.10
247 22 0.05
248 71 0.17
249 23 0.06
250 72 0.17
251 6 0.01
252 1 0.00
253 5 0.01
254 59 0.14
255 4 0.01
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (244 bp):
TTTTCAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAGATCAC
ACACTGAGGTATTTTTTCTTCAATTTATATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
TGAGCCTTGACTCACAAGCTGAGGCATTTTCAAATTCTGTTTTTCAAATTAAGTTTTCCAAAAAA
TCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAAGACACGCTGAGGTA
Found at i:89054413 original size:15 final size:14
Alignment explanation
Indices: 89054377--89054409 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
89054367 CGCTGAGGTA
89054377 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
*
89054391 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
89054405 TTTTC
1 TTTTC
89054410 CAAAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.12, G:0.06, T:0.64
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:89054511 original size:86 final size:86
Alignment explanation
Indices: 89054214--89054715 Score: 416
Period size: 87 Copynumber: 5.7 Consensus size: 86
89054204 TGTTGAGGTA
* * * *
89054214 TTTTCAATTTCTGTCTTTCAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--AGA
1 TTTTCAATTTATGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACA
* *
89054277 CGCTGAGGTGTTTTCCATTTCTGT
65 CGCTGAGGTATTTTCAATTT-T-T
* * * * * *
89054301 TCTTCAATTTCTGTGTTTCAAAAAAATC-GCTCATATTGCGAGTGGTGAGTTGAGCCTTGACTCA
1 TTTTCAATTTATGT-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCA-GCA
*
89054365 CACGCTGAGGTATTTTCAAATTCTGT
63 CACGCTGAGGTATTTTC-AATT-TTT
* *
89054391 TTTTCAAATTT-TGTTTTTCCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGG
1 TTTTC-AATTTATG-TTTT-C-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGC
89054455 ACACGCTGAGGTATTTTC-ATTTTT
62 ACACGCTGAGGTATTTTCAATTTTT
89054479 TTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGCCA
1 TTTTCAATTTATGTTT-TCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AG-CA
*
89054544 CACGCCGAGGTATTTTCAATTGATGTTTT
63 CACGCTGAGGTATTTTC-A---AT-TTTT
* * * * * *
89054573 TTTTTAATTTATGCTTTGC--AAAAATTAACTCATATTACGAGAGGTGAGTTGAGCTTCGGGTCA
1 TTTTCAATTTATG-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AG-CA
** * * *
89054636 CA-TATCGAGATATTTTCATAATCTGT
63 CACGCT-GAGGTATTTTC--AATTTTT
* *
89054662 TTTACAAATTT-TGTTTT---AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 TTTTC-AATTTATGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
89054716 TGGCTCTCGT
Statistics
Matches: 348, Mismatches: 42, Indels: 50
0.79 0.10 0.11
Matches are distributed among these distances:
86 65 0.19
87 72 0.21
88 30 0.09
89 10 0.03
90 33 0.09
91 28 0.08
92 62 0.18
93 28 0.08
94 17 0.05
95 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (86 bp):
TTTTCAATTTATGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGCACAC
GCTGAGGTATTTTCAATTTTT
Found at i:89054531 original size:179 final size:176
Alignment explanation
Indices: 89054214--89054752 Score: 501
Period size: 179 Copynumber: 3.0 Consensus size: 176
89054204 TGTTGAGGTA
* * *
89054214 TTTTC-AATTTCTGTCTTT-CAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCA--A
1 TTTTCAAATTTATG-CTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
* * * *
89054275 GACGCTGAGGTGTTTTCCATTTCTGTTCTTCAATTTCTGTGTTTCAAAAAAATC-GCTCATATTG
65 CACGCTGAGGTATTTT-CATTT-T-TTTTTCAATTT-TGT-TTTCAAAAAAATCAACTCATATTG
*
89054339 CGAGTGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTCTGT
125 CGAGAGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTCTGT
* *
89054391 TTTTCAAATTT-TGTTTTTCCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGG
1 TTTTCAAATTTATG-CTTTCC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
89054455 ACACGCTGAGGTATTTTCATTTTTTTTTCAATTTATGTTTGTCAAAAAAATCAACTCATATTGCG
64 ACACGCTGAGGTATTTTCATTTTTTTTTCAATTT-TGTTT-TCAAAAAAATCAACTCATATTGCG
** * *
89054520 AGAGGTGAGTTGAGCCTCAAGC-CACACGCCGAGGTATTTTC-AATTGATGTTT
127 AGAGGTGAGTTGAGCCTTGA-CTCACACGCTGAGGTATTTTCAAATT-CTG--T
** * * * * * *
89054572 TTTTTTAATTTATGCTTTGC--AAAAATTAACTCATATTACGAGAGGTGAGTTGAGCTTCGGGTC
1 TTTTCAAATTTATGCTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
** * * *
89054635 ACATATCGAGATATTTTCATAATCTGTTTTACAAATTTTGTTTT---AAAAATCAACTCATATTG
66 AC-GCT-GAGGTATTTTCAT--T-TTTTTTTC-AATTTTGTTTTCAAAAAAATCAACTCATATTG
* * * ** * *
89054697 CGAGAAGTGAGTTGAGCCTTGGCTCTCGTGCTGAGCTATTTTCAATTTCTGT
125 CGAGAGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTCTGT
89054749 TTTT
1 TTTT
89054753 AATGTCTAGT
Statistics
Matches: 302, Mismatches: 40, Indels: 40
0.79 0.10 0.10
Matches are distributed among these distances:
177 18 0.06
178 74 0.25
179 140 0.46
180 21 0.07
181 29 0.10
182 4 0.01
183 11 0.04
184 5 0.02
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38
Consensus pattern (176 bp):
TTTTCAAATTTATGCTTTCCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
ACGCTGAGGTATTTTCATTTTTTTTTCAATTTTGTTTTCAAAAAAATCAACTCATATTGCGAGAG
GTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCAAATTCTGT
Found at i:89054650 original size:92 final size:94
Alignment explanation
Indices: 89054413--89054715 Score: 241
Period size: 92 Copynumber: 3.4 Consensus size: 94
89054403 GTTTTTCCAA
* * * * * *
89054413 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTC-AG-GACACGCTGAGGTATTTTC---
1 AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGCCACACACCGAGATATTTTCAAT
89054473 --A--TTTTTTTTTCAATTTATGTTTGTC
66 TGATGTTTTTTTTTCAATTTATGTTTGTC
* * *
89054498 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGCCACACGCCGAGGTATTTTCAA
1 -AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGCCACACACCGAGATATTTTCAA
89054563 TTGATGTTTTTTTTT-AATTTATGCTTTG-C
65 TTGATGTTTTTTTTTCAATTTATG-TTTGTC
* * ** * * *
89054592 -AAAAATTAACTCATATTACGAGAGGTGAGTTGAGCTTCGGGTCACATATCGAGATATTTTC-A-
1 AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGCCACACACCGAGATATTTTCAAT
* * * *
89054654 T-A-ATCTGTTTTACAAATTT-TGTTT-T-
66 TGATGTTTTTTTTTC-AATTTATGTTTGTC
* *
89054679 -AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
1 AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCT
89054716 TGGCTCTCGT
Statistics
Matches: 183, Mismatches: 21, Indels: 25
0.80 0.09 0.11
Matches are distributed among these distances:
86 38 0.21
87 35 0.19
88 26 0.14
89 3 0.02
90 6 0.03
91 1 0.01
92 51 0.28
93 1 0.01
94 9 0.05
95 13 0.07
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.36
Consensus pattern (94 bp):
AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAAGCCACACACCGAGATATTTTCAAT
TGATGTTTTTTTTTCAATTTATGTTTGTC
Found at i:89054737 original size:87 final size:87
Alignment explanation
Indices: 89054235--89054789 Score: 342
Period size: 87 Copynumber: 6.3 Consensus size: 87
89054225 TGTCTTTCAA
* * * * *
89054235 AAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACC-T--C-AAGACGCTGAGGTGTTTTCCAT-
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTT-CATA
* *
89054295 TTCTGTTCTTC-AATTTCTGTGTTT
65 ATCTGTTTTTCAAATTT-TGT-TTT
* * *
89054319 CAAAAAAATC-GCTCATATTGCGAGTGGTGAGTTGAGCCTTGACTCACACGCTGAGGTATTTTCA
1 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCA
89054383 -AATTCTGTTTTTCAAATTTTGTTTTT
63 TAA-TCTGTTTTTCAAATTTTG-TTTT
* *
89054409 CCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGG---ACACGCTGAGGTATTT
1 -----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGTATTT
*
89054471 TCAT--T-TTTTTTTC-AATTTATGTTTGT
60 TCATAATCTGTTTTTCAAATTT-TGTTT-T
** *
89054497 CAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGC-CACACGCCGAGGTATTTTC
1 ---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGGCTCACACGCTGAGGTATTTTC
* * * ** *
89054561 AATTGATGTTTTTTTTTAATTTATGCTTTGC
62 -A-TAATCTGTTTTTCAAATTT-TG-TTT-T
* * * ** *
89054592 AAAAATTAACTCATATTACGAGAGGTGAGTTGAG-CTTCGGGTCACA-TATCGAGATATTTTCAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCTCACACGCT-GAGGTATTTTCAT
*
89054655 AATCTGTTTTACAAATTTTGTTTT
64 AATCTGTTTTTCAAATTTTGTTTT
* * ** *
89054679 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCTCGTGCTGAGCTATTTTCA-AT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCATA-
* *
89054743 TTCTGTTTTT--AATGTCTAGTTTT
65 ATCTGTTTTTCAAAT-T-TTGTTTT
* *
89054766 AAAGAGTCAATTCATATTGCGAGA
1 AAA-AATCAACTCATATTGCGAGA
89054790 AATGAGTTAA
Statistics
Matches: 385, Mismatches: 50, Indels: 65
0.77 0.10 0.13
Matches are distributed among these distances:
85 3 0.01
86 69 0.18
87 80 0.21
88 52 0.14
89 7 0.02
90 43 0.11
91 29 0.08
92 56 0.15
93 33 0.09
94 9 0.02
95 4 0.01
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCATAA
TCTGTTTTTCAAATTTTGTTTT
Found at i:89054893 original size:21 final size:21
Alignment explanation
Indices: 89054867--89054908 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
89054857 TTTATATCCC
89054867 TGAAGTTACAGTGAAGCTAAT
1 TGAAGTTACAGTGAAGCTAAT
* *
89054888 TGAAGTTGCAGTGGAGCTAAT
1 TGAAGTTACAGTGAAGCTAAT
89054909 CGAGGATATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.29
Consensus pattern (21 bp):
TGAAGTTACAGTGAAGCTAAT
Found at i:89061584 original size:14 final size:13
Alignment explanation
Indices: 89061536--89061589 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 13
89061526 ATAAATATTT
89061536 TATTTTTTAAAAA
1 TATTTTTTAAAAA
89061549 TATTTTTTGAGAACAA
1 TATTTTTT-A-AA-AA
89061565 TA-TTTTTAAAAA
1 TATTTTTTAAAAA
89061577 TACTTTTTTAAAA
1 TA-TTTTTTAAAA
89061590 TCAGCAGCCC
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 4 0.11
13 10 0.28
14 11 0.31
15 7 0.19
16 4 0.11
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (13 bp):
TATTTTTTAAAAA
Found at i:89061590 original size:13 final size:12
Alignment explanation
Indices: 89061539--89061590 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 12
89061529 AATATTTTAT
89061539 TTTTTAAAAATA
1 TTTTTAAAAATA
89061551 TTTTTTGAGAACAATA
1 -TTTTT-A-AA-AATA
89061567 TTTTTAAAAATA
1 TTTTTAAAAATA
*
89061579 CTTTTTTAAAAT
1 -TTTTTAAAAAT
89061591 CAGCAGCCCT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
12 4 0.12
13 17 0.50
14 2 0.06
15 7 0.21
16 4 0.12
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.50
Consensus pattern (12 bp):
TTTTTAAAAATA
Found at i:89072475 original size:11 final size:11
Alignment explanation
Indices: 89072468--89072521 Score: 72
Period size: 11 Copynumber: 4.8 Consensus size: 11
89072458 CAAAAAATAG
89072468 CACCAAAACAA
1 CACCAAAACAA
*
89072479 CACCCAAACAA
1 CACCAAAACAA
89072490 CACCAAAACAAA
1 CACCAAAAC-AA
*
89072502 CACCAAAACAG
1 CACCAAAACAA
*
89072513 CACCCAAAC
1 CACCAAAAC
89072522 TGCAGCAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
11 27 0.71
12 11 0.29
ACGTcount: A:0.57, C:0.41, G:0.02, T:0.00
Consensus pattern (11 bp):
CACCAAAACAA
Found at i:89072485 original size:12 final size:12
Alignment explanation
Indices: 89072470--89072520 Score: 63
Period size: 12 Copynumber: 4.4 Consensus size: 12
89072460 AAAAATAGCA
89072470 CCAAAACAACAC
1 CCAAAACAACAC
89072482 CC-AAACAACA-
1 CCAAAACAACAC
89072492 CCAAAACAA-AC
1 CCAAAACAACAC
*
89072503 ACCAAAACAGCAC
1 -CCAAAACAACAC
89072516 CCAAA
1 CCAAA
89072521 CTGCAGCAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 3 0.09
11 14 0.41
12 15 0.44
13 2 0.06
ACGTcount: A:0.59, C:0.39, G:0.02, T:0.00
Consensus pattern (12 bp):
CCAAAACAACAC
Found at i:89078165 original size:16 final size:16
Alignment explanation
Indices: 89078141--89078194 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
89078131 TTTGGTTCGC
*
89078141 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
89078157 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
89078173 TGTATTGGAATAGAGG
1 TGTAATGGATTAGAGG
89078189 TGTAAT
1 TGTAAT
89078195 AGCAAATCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.30, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:89078550 original size:120 final size:120
Alignment explanation
Indices: 89078408--89078659 Score: 402
Period size: 120 Copynumber: 2.1 Consensus size: 120
89078398 TTAATCATAT
* *
89078408 TTAAACATAATTATTATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATG
1 TTAAATAT-ATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATG
* *
89078473 AATTTACTCAAATCATAATATATGATACTATAAAA-GATAATTT-AACATAATTATTA
65 AATTTACTAAAATCATAATATATGATACTATAAAATG-TAATTTGAA-ATAATTAATA
*
89078529 TTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGA
1 TTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGA
*
89078594 ATTTATTAAAATCATAATATATGATACTATAAAATGTAATTTGAAATAATTAATA
66 ATTTACTAAAATCATAATATATGATACTATAAAATGTAATTTGAAATAATTAATA
89078649 TTAAATA-ATTA
1 TTAAATATATTA
89078660 ATGTTGACAA
Statistics
Matches: 123, Mismatches: 6, Indels: 6
0.91 0.04 0.04
Matches are distributed among these distances:
119 4 0.03
120 109 0.89
121 10 0.08
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (120 bp):
TTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGA
ATTTACTAAAATCATAATATATGATACTATAAAATGTAATTTGAAATAATTAATA
Found at i:89078552 original size:16 final size:16
Alignment explanation
Indices: 89078509--89078554 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
89078499 ACTATAAAAG
*
89078509 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
89078525 ATTATT-AAATATATT
1 ATAATTAAAATATATT
89078540 ATAATTAAAATATAT
1 ATAATTAAAATATAT
89078555 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:89078561 original size:14 final size:15
Alignment explanation
Indices: 89078509--89078563 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
89078499 ACTATAAAAG
89078509 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
89078525 ATTATTAAATATATT
1 ATAATTAAATATATT
89078540 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
89078553 ATAATTTAATA
1 ATAATTAAATA
89078564 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:89078626 original size:61 final size:61
Alignment explanation
Indices: 89078441--89078628 Score: 181
Period size: 61 Copynumber: 3.1 Consensus size: 61
89078431 ATATAATTTA
* * *
89078441 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTCTTAATAATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACT
** * * * * * * * *
89078502 ATAAAA--GATAAT--TTAACATAATTATTAT-TAAATATATTATAATTAAAATATATAAT-TT
1 ATAAAATTCTTAATAATT-A-AT-ATTCTTATATGAATTTATTAAAATCATAATATATGATACT
89078560 AATAAAATTCTTAATAATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACT
1 -ATAAAATTCTTAATAATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACT
89078622 ATAAAAT
1 ATAAAAT
89078629 GTAATTTGAA
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
57 1 0.01
58 2 0.02
59 32 0.34
60 14 0.15
61 41 0.44
62 2 0.02
63 2 0.02
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (61 bp):
ATAAAATTCTTAATAATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACT
Found at i:89089450 original size:49 final size:50
Alignment explanation
Indices: 89089360--89089460 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 50
89089350 TAAATGCTAA
*
89089360 AATTATTTAAACAACTAAAAAAAATTCAAAACAACTTAATTAATTAAACT
1 AATTATTTAAACAACTAAAAAAAATTCAAAACAACTGAATTAATTAAACT
*
89089410 AATTATTTAAGCAACTAAAAAAAATT-AAAACAACTGAATTAATTAAACT
1 AATTATTTAAACAACTAAAAAAAATTCAAAACAACTGAATTAATTAAACT
89089459 AA
1 AA
89089461 ACATATCAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
49 24 0.49
50 25 0.51
ACGTcount: A:0.58, C:0.11, G:0.02, T:0.29
Consensus pattern (50 bp):
AATTATTTAAACAACTAAAAAAAATTCAAAACAACTGAATTAATTAAACT
Found at i:89091422 original size:46 final size:45
Alignment explanation
Indices: 89091370--89091636 Score: 195
Period size: 46 Copynumber: 5.7 Consensus size: 45
89091360 TGTGTGTGCT
* *
89091370 AGTGTAAGACATGTCTGGGACATGCATTGGTCATATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CATATGATGAGAGCC
* * * *
89091416 AATGTAAGATCATATCTGGGACATGACATCGGCAT-TGAGACGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGCATAT--GATGAGAGCC
*
89091464 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-TGA-GATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATATGATGA-G--AGCC
* * *
89091510 AGTGTAAGACATGTCTGGGACATGCATCGGC-TACGA-GATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATATGATGA-GAGCC
** * * *
89091554 AGTGTCTGACATGTCTAGGACATGCATTGGCACAGATATG-TGAGATCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG--C--ATATGATGAGAGCC
* * *
89091602 AGTGTAAAACCATATCTGGGAAATGGCATCGGCAT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCAT
89091637 TATACCCTAT
Statistics
Matches: 177, Mismatches: 28, Indels: 32
0.75 0.12 0.14
Matches are distributed among these distances:
43 2 0.01
44 31 0.18
45 1 0.01
46 61 0.34
47 31 0.18
48 29 0.16
49 16 0.09
50 6 0.03
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATATGATGAGAGCC
Found at i:89091510 original size:94 final size:92
Alignment explanation
Indices: 89091367--89091637 Score: 259
Period size: 94 Copynumber: 2.9 Consensus size: 92
89091357 ATGTGTGTGT
* * *
89091367 GCTAGTGTAAGACATGTCTGGGACATGCATTGGTCATATTATGAGAGCCAATGTAAGATCATATC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATATGATGAGAGCCAATGTAAGA-CATATC
89091432 TGGGACATGACATCGGCATTGAGACGAGA
65 TGGGACATG-CATCGGCATTGAGACGAGA
* * *
89091461 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGA-GATGTA-AGCCAGTGTAAGACATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAT-ATGATG-AGAGCCAATGTAAGACATAT
*
89091524 CTGGGACATGCATCGGC--T-ACGA-GATGT
64 CTGGGACATGCATCGGCATTGA-GACGA-GA
** * * * * *
89091551 GCTAGTGTCTGACATGTCTAGGACATGCATTGGCACAGATATG-TGAGATCCAGTGTAAAACCAT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGC-C--ATATGATGAGAGCCAATGTAAGA-CAT
*
89091615 ATCTGGGAAATGGCATCGGCATT
62 ATCTGGGACAT-GCATCGGCATT
89091638 ATACCCTATG
Statistics
Matches: 148, Mismatches: 16, Indels: 24
0.79 0.09 0.13
Matches are distributed among these distances:
89 3 0.02
90 34 0.23
91 2 0.01
92 21 0.14
93 28 0.19
94 57 0.39
95 2 0.01
96 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (92 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATATGATGAGAGCCAATGTAAGACATATCT
GGGACATGCATCGGCATTGAGACGAGA
Found at i:89098546 original size:25 final size:24
Alignment explanation
Indices: 89098501--89098547 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
89098491 AACTAACATC
* *
89098501 ACATAGCTCAAATACTCATCAATG
1 ACATAACTCAAATACTAATCAATG
*
89098525 ACATAACTCAAAATATTAATCAA
1 ACATAACTC-AAATACTAATCAA
89098548 AATCAAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 8 0.42
25 11 0.58
ACGTcount: A:0.49, C:0.21, G:0.04, T:0.26
Consensus pattern (24 bp):
ACATAACTCAAATACTAATCAATG
Found at i:89102047 original size:9 final size:9
Alignment explanation
Indices: 89102033--89102068 Score: 54
Period size: 9 Copynumber: 3.8 Consensus size: 9
89102023 ACAAGTCTTA
89102033 TTTTAATTT
1 TTTTAATTT
89102042 TTTTAATTT
1 TTTTAATTT
89102051 ATTTTAGATTT
1 -TTTTA-ATTT
89102062 TTTTAAT
1 TTTTAAT
89102069 CTAGTCATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 11 0.44
10 10 0.40
11 4 0.16
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (9 bp):
TTTTAATTT
Found at i:89102054 original size:19 final size:20
Alignment explanation
Indices: 89102030--89102068 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
89102020 TTAACAAGTC
89102030 TTATTTTA-ATTTTTTTAAT
1 TTATTTTAGATTTTTTTAAT
89102049 TTATTTTAGATTTTTTTAAT
1 TTATTTTAGATTTTTTTAAT
89102069 CTAGTCATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (20 bp):
TTATTTTAGATTTTTTTAAT
Found at i:89110238 original size:27 final size:27
Alignment explanation
Indices: 89110200--89110254 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
89110190 CTATTCTCTT
89110200 CTCCATCAACCCCAACCAAGTAAACCA
1 CTCCATCAACCCCAACCAAGTAAACCA
*
89110227 CTCCATCAACCCTAACCAAGTAAACCA
1 CTCCATCAACCCCAACCAAGTAAACCA
89110254 C
1 C
89110255 CCACCTCAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.40, C:0.44, G:0.04, T:0.13
Consensus pattern (27 bp):
CTCCATCAACCCCAACCAAGTAAACCA
Found at i:89118869 original size:22 final size:22
Alignment explanation
Indices: 89118834--89118884 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
89118824 AATTAAGCTT
*
89118834 AATA-TTA-TTTTATTTATAAT
1 AATATTTATTTTTATTTATAAA
* *
89118854 AATTTTTATTTTTATTTTTAAA
1 AATATTTATTTTTATTTATAAA
89118876 AATATTTAT
1 AATATTTAT
89118885 AATTATTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 3 0.12
21 3 0.12
22 19 0.76
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
AATATTTATTTTTATTTATAAA
Found at i:89119006 original size:22 final size:21
Alignment explanation
Indices: 89118966--89119027 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 21
89118956 TTAGTCATAT
* *
89118966 AATAAATTATTAATATAATTA
1 AATAAATTATTATTTTAATTA
89118987 ATATAAATTATTATTTTAA-TA
1 A-ATAAATTATTATTTTAATTA
* * *
89119008 AATTATTTAATATTTTAATT
1 AATAAATTATTATTTTAATT
89119028 TTATTTTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 14 0.41
21 5 0.15
22 15 0.44
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AATAAATTATTATTTTAATTA
Found at i:89120229 original size:30 final size:30
Alignment explanation
Indices: 89120172--89120234 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 30
89120162 TTAAATAGTC
* * *
89120172 CACACGGTCGTATGGTATGACCGTGTGTAG
1 CACACGGTCATATGGTACGACCATGTGTAG
* * *
89120202 CACACGGTCATGTGGTGCGACCATGTGTGG
1 CACACGGTCATATGGTACGACCATGTGTAG
89120232 CAC
1 CAC
89120235 TATTTTAAAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.19, C:0.24, G:0.33, T:0.24
Consensus pattern (30 bp):
CACACGGTCATATGGTACGACCATGTGTAG
Found at i:89121585 original size:27 final size:27
Alignment explanation
Indices: 89121555--89121606 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
89121545 ATCACACACT
*
89121555 ATTTTATACTATATTCAAT-TCATTCTA
1 ATTTTAT-CAATATTCAATATCATTCTA
*
89121582 ATTTTCTCAATATTCAATATCATTC
1 ATTTTATCAATATTCAATATCATTC
89121607 AATATGAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 10 0.45
27 12 0.55
ACGTcount: A:0.33, C:0.17, G:0.00, T:0.50
Consensus pattern (27 bp):
ATTTTATCAATATTCAATATCATTCTA
Found at i:89134375 original size:16 final size:15
Alignment explanation
Indices: 89134352--89134381 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
89134342 TTATTACTAT
89134352 TATTATTATTATTTA
1 TATTATTATTATTTA
89134367 TATTCATTATTATTT
1 TATT-ATTATTATTT
89134382 TTATGATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTATTATTATTTA
Found at i:89134525 original size:4 final size:4
Alignment explanation
Indices: 89134516--89134648 Score: 65
Period size: 4 Copynumber: 34.2 Consensus size: 4
89134506 CCTCTATTAT
*
89134516 TTTA TTTA TTTCA -TTA -TTA -TTA -TTA TCTTA -TTA TATA TTTA TTTA
1 TTTA TTTA TTT-A TTTA TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA
* *
89134561 TTTA TTTA TTTCA TTT- TTATT TTTA TTT- TGTT- TTTG TTCTCA -TTA
1 TTTA TTTA TTT-A TTTA TT-TA TTTA TTTA T-TTA TTTA TT-T-A TTTA
* *
89134606 -TTA -TTA TCTTA -TTA TATA TTTA TTTA TTTA TTTA TTCA TTTA T
1 TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
89134649 GTCTTTATAT
Statistics
Matches: 107, Mismatches: 8, Indels: 28
0.75 0.06 0.20
Matches are distributed among these distances:
3 28 0.26
4 64 0.60
5 15 0.14
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (4 bp):
TTTA
Found at i:89134547 original size:31 final size:32
Alignment explanation
Indices: 89134475--89134566 Score: 91
Period size: 31 Copynumber: 2.9 Consensus size: 32
89134465 TTAAATTTTC
* *
89134475 ACTAGATTTTTTTA-TTATTTCATTTATTATT
1 ACTATATTATTTTATTTATTTCATTTATTATT
* *
89134506 CCTCTATTATTTTATTTATTTCA-TTATTATT
1 ACTATATTATTTTATTTATTTCATTTATTATT
* *
89134537 ATTATCTTATTATATATTTATTT-ATTTATT
1 ACTATATTATT-T-TATTTATTTCATTTATT
89134567 TATTTCATTT
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
31 25 0.51
32 10 0.20
33 14 0.29
ACGTcount: A:0.26, C:0.08, G:0.01, T:0.65
Consensus pattern (32 bp):
ACTATATTATTTTATTTATTTCATTTATTATT
Found at i:89134678 original size:71 final size:71
Alignment explanation
Indices: 89134531--89134672 Score: 160
Period size: 71 Copynumber: 2.0 Consensus size: 71
89134521 TTATTTCATT
* * *** ****
89134531 ATTATTATTATCTTATTATATATTTATTTATTTATTTATTTCATTTTTATTTTTATTTTGTTTTT
1 ATTATTATTATCTTATTATATATTTATTTATTTATTTATTTCATTTATATCTTTATTACCTACAA
*
89134596 GTTCTC
66 GTTATC
*
89134602 ATTATTATTATCTTATTATATATTTATTTATTTATTTA-TTCATTTATGTCTTTATATACCTACA
1 ATTATTATTATCTTATTATATATTTATTTATTTATTTATTTCATTTATATCTTTAT-TACCTACA
89134666 AGCTTAT
65 AG-TTAT
89134673 GTTATTCATT
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
70 14 0.24
71 41 0.71
72 3 0.05
ACGTcount: A:0.25, C:0.08, G:0.03, T:0.64
Consensus pattern (71 bp):
ATTATTATTATCTTATTATATATTTATTTATTTATTTATTTCATTTATATCTTTATTACCTACAA
GTTATC
Found at i:89136651 original size:18 final size:20
Alignment explanation
Indices: 89136609--89136645 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
89136599 ATATTTTATG
*
89136609 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
89136628 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
89136646 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:89138843 original size:46 final size:46
Alignment explanation
Indices: 89138793--89139065 Score: 343
Period size: 46 Copynumber: 6.0 Consensus size: 46
89138783 TGCTCTCTAT
* * *
89138793 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
89138839 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
89138885 ATG-AACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * * *
89138930 GGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
89138976 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
89139022 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
89139066 TCAAAGATAA
Statistics
Matches: 202, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
45 40 0.20
46 162 0.80
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:89138955 original size:91 final size:90
Alignment explanation
Indices: 89138791--89139060 Score: 369
Period size: 91 Copynumber: 2.9 Consensus size: 90
89138781 TGTGCTCTCT
* * * *
89138791 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACC
1 ATATG-AA-GTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACC
89138856 ATGGTTGAAAGATACCATGGCAGCCTG
64 ATGGTTGAAAGATACCATGGCAGCCTG
* * *
89138883 ATATGAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATAAATAAGACCA
1 ATATGAA-GTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACCA
*
89138948 TGGTTGAAAGATACCATGGCAGCGTG
65 TGGTTGAAAGATACCATGGCAGCCTG
* * *
89138974 ACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAGTAAGACC
1 ATATGAAGTG--TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACC
* * *
89139039 ATAGTTGAAAGACACTATGGCA
64 ATGGTTGAAAGATACCATGGCA
89139061 TCATGTCAAA
Statistics
Matches: 158, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
90 2 0.01
91 83 0.53
92 73 0.46
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (90 bp):
ATATGAAGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACCAT
GGTTGAAAGATACCATGGCAGCCTG
Found at i:89139076 original size:137 final size:136
Alignment explanation
Indices: 89138803--89139083 Score: 368
Period size: 137 Copynumber: 2.1 Consensus size: 136
89138793 ATGAAATGTG
* **
89138803 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
* * * * * * *
89138868 TACCATGGCAGCCTGATATGAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGACGGG
66 TACCATGGCAACATGACATGAACGAGTAAGACCATAGTTGAAAGACACCATGGCAACATGAC-GA
89138933 AAATAAA
130 AAATAAA
* *
89138940 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
* * * *
89139005 TACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTC-
66 TACCATGGCAACATGACATG--AACGAGTAAGACCATAGTTGAAAGACACCATGGCAACATGACG
89139068 AAAGATAAA
129 AAA-ATAAA
89139077 TAAGACC
1 TAAGACC
89139084 GTGGATGGGA
Statistics
Matches: 125, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
136 3 0.02
137 87 0.70
138 35 0.28
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.20
Consensus pattern (136 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACCTGACATGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCAACATGACATGAACGAGTAAGACCATAGTTGAAAGACACCATGGCAACATGACGAA
AATAAA
Done.